Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 282 of 378
Found at i:85019311 original size:16 final size:16
Alignment explanation
Indices: 85019273--85019314 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
85019263 TAATTTATTC
85019273 ATCAT-ATAAT-ATAA
1 ATCATAATAATAATAA
*
85019287 AT-TTAATAATAATAA
1 ATCATAATAATAATAA
85019302 ATCATAATAATAA
1 ATCATAATAATAA
85019315 ATTAATCAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 1 0.04
14 7 0.30
15 6 0.26
16 9 0.39
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
ATCATAATAATAATAA
Found at i:85022674 original size:48 final size:48
Alignment explanation
Indices: 85022551--85022683 Score: 176
Period size: 48 Copynumber: 2.8 Consensus size: 48
85022541 GCCCATATCG
* ** * * *
85022551 ATGCCATGTCCCAGACATGGTCTTACACGAAATCATATATTGATGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
** * *
85022599 ATGCCATACCCCATATATGGTCTTACATGGGATCACATATCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
85022647 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACA
85022684 CATAAACCTA
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGATGCCA
Found at i:85039532 original size:28 final size:27
Alignment explanation
Indices: 85039489--85039595 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 27
85039479 GAAATTAGTG
85039489 TTAA-CTGGGCCTTAGCCCATATCAGTA
1 TTAATCTGGGCC-TAGCCCATATCAGTA
*
85039516 TTAATCTGGGCCATAGCCC-TATTACAATA
1 TTAATCTGGGCC-TAGCCCATA-T-CAGTA
*
85039545 TCAGAGCATACTGGGCCTAGCCCATATCAGTA
1 T--TA--AT-CTGGGCCTAGCCCATATCAGTA
* *
85039577 TCAGTCTGGGCCGTAGCCC
1 TTAATCTGGGCC-TAGCCC
85039596 TATTACAAGT
Statistics
Matches: 64, Mismatches: 6, Indels: 19
0.72 0.07 0.21
Matches are distributed among these distances:
27 13 0.20
28 21 0.33
29 5 0.08
30 1 0.02
31 1 0.02
32 5 0.08
33 9 0.14
34 9 0.14
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (27 bp):
TTAATCTGGGCCTAGCCCATATCAGTA
Found at i:85039667 original size:19 final size:20
Alignment explanation
Indices: 85039624--85039679 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
85039614 ATTGGGTCTT
85039624 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
85039644 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
85039663 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
85039680 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:85044698 original size:40 final size:40
Alignment explanation
Indices: 85044613--85044763 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
85044603 AATTGAATGA
* * *
85044613 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
85044653 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
85044694 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
85044733 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
85044764 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:85044777 original size:40 final size:40
Alignment explanation
Indices: 85044650--85044779 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
85044640 ATGCTGGAAA
* * * *
85044650 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
85044690 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
85044730 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
85044770 TTATATCCGG
1 TTATATCCGG
85044780 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:85055628 original size:20 final size:20
Alignment explanation
Indices: 85055603--85055654 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
85055593 TGGGTAGGGG
* *
85055603 ACACGGGTGTGTCCCAAAGT
1 ACACGGGCGTGTCCCAAAGC
85055623 ACACGGGCGTGTCCCAAAGC
1 ACACGGGCGTGTCCCAAAGC
85055643 ACACGGGCGTGT
1 ACACGGGCGTGT
85055655 GAGACTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.33, T:0.15
Consensus pattern (20 bp):
ACACGGGCGTGTCCCAAAGC
Found at i:85057996 original size:48 final size:48
Alignment explanation
Indices: 85057877--85058063 Score: 230
Period size: 48 Copynumber: 3.9 Consensus size: 48
85057867 ACTTCGATTA
* * * * * * *
85057877 ATGAGATCCCATGTAAAACCATGTCTGGGACATGGCATCGACATTCGAG
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTT-GAC
*
85057926 ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGTTGAC
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTTGAC
*
85057974 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTTGAT
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTTGAC
* * * * * *
85058022 ATGTGTGCCAGTGTAAGACCATATCTGGGATATGGCATCGGC
1 ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGC
85058064 ATCGGTATGT
Statistics
Matches: 122, Mismatches: 16, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
48 84 0.69
49 38 0.31
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
ATGAGAGCCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTTGAC
Found at i:85058073 original size:48 final size:48
Alignment explanation
Indices: 85057888--85058105 Score: 222
Period size: 48 Copynumber: 4.5 Consensus size: 48
85057878 TGAGATCCCA
* * *
85057888 TGTAAAACCATGTCTGGGACATGGCATCGACATTCGAGATGAGAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCA-TCGATATGAGAGCCAG
* * * * *
85057937 TGTAAGACCATGTCTAGGACATGGCATCGGCGTTGACATGAGAGCCAA
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCCAG
* * * * *
85057985 TGTAAGACCATGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCCAG
* * * * **
85058033 TGTAAGACCATATCTGGGATATGGCATCGGCATCGGTATGTGATTTCA-
1 TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGA-GCCAG
* *
85058081 TGTAAGACCATATCTGGGATATGGC
1 TGTAAGACCATGTCTGGGACATGGC
85058106 GTTGATATGA
Statistics
Matches: 148, Mismatches: 20, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
48 118 0.80
49 30 0.20
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCCAG
Found at i:85058084 original size:96 final size:96
Alignment explanation
Indices: 85057885--85058105 Score: 246
Period size: 96 Copynumber: 2.3 Consensus size: 96
85057875 TAATGAGATC
* *
85057885 CCATGTAAAACCATGTCTGGGACATGGCATCGACATTCGAGATGAGAGCCAGTGTAAGACCATGT
1 CCATGTAAGACCATGTCTGGGACATGGCATCGACATTCGAGATGAGAGCCAGTGTAAGACCATAT
* *
85057950 CTAGGACATGGCATCGGCGTTGACATGAGAG
66 CTAGGACATGGCATCGGCATCGACATGAGAG
* * * * * *
85057981 CCAATGTAAGACCATGTCTAGGACATGGCATCGGCGTT-GATATGTGTGCCAGTGTAAGACCATA
1 CC-ATGTAAGACCATGTCTGGGACATGGCATCGACATTCGAGATGAGAGCCAGTGTAAGACCATA
* * ** * *
85058045 TCTGGGATATGGCATCGGCATCGGTATGTGATT
65 TCTAGGACATGGCATCGGCATCGACATGAGA-G
* * *
85058078 TCATGTAAGACCATATCTGGGATATGGC
1 CCATGTAAGACCATGTCTGGGACATGGC
85058106 GTTGATATGA
Statistics
Matches: 103, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
96 71 0.69
97 32 0.31
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
CCATGTAAGACCATGTCTGGGACATGGCATCGACATTCGAGATGAGAGCCAGTGTAAGACCATAT
CTAGGACATGGCATCGGCATCGACATGAGAG
Found at i:85058139 original size:42 final size:42
Alignment explanation
Indices: 85058061--85058194 Score: 162
Period size: 42 Copynumber: 3.2 Consensus size: 42
85058051 ATATGGCATC
* * * * * *
85058061 GGCATCGGTATGTGATTTCATGTAAGACCATATCTGGGATAT
1 GGCATCGATATGAGATTTCGTGTAAGACTATGTCTGGGACAT
* *
85058103 GGCGTTGATATGAGATTTCGTGTAAGACTATGTCTGGGACAT
1 GGCATCGATATGAGATTTCGTGTAAGACTATGTCTGGGACAT
* *
85058145 GGCATCGATGTGAGGTCTT-GTGTAAGACTATGTCTGGGACAT
1 GGCATCGATATGAGAT-TTCGTGTAAGACTATGTCTGGGACAT
85058187 GGCATCGA
1 GGCATCGA
85058195 CACCAACATA
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 77 0.97
43 2 0.03
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (42 bp):
GGCATCGATATGAGATTTCGTGTAAGACTATGTCTGGGACAT
Found at i:85060150 original size:46 final size:47
Alignment explanation
Indices: 85060006--85060266 Score: 225
Period size: 46 Copynumber: 5.6 Consensus size: 47
85059996 GTTATTGTGG
* * * *
85060006 GCTAGTGTAAGA-CATGTCTGGGAGATGCATCAGCCA-C-ATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATC-GGCATCGA-GACGAGA
* * * *
85060052 GTTGGTGTAAGACCATGTCTGGGACATGGCATCGGCATCTAGACGAGT
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGAGA
* *
85060100 GCTAGTGTAAGA-CATGTCTGAGACATGCATCGGCCTCGAGACGTA-A
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACG-AGA
* * * *
85060146 GCTAGTGTAAGA-CATGTTTGGGACATGCATCGG-TTACGAGATGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCAT-CGAGACGAGA
* * * *
85060192 GTTAGTGTAAGACCATGTCTGGGGCATGGCATCGACAT-GAGA-TATGA
1 GCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCATCGAGACGA-GA
*
85060239 GCTAGTGTAAGACCGTGTCTGGGACATG
1 GCTAGTGTAAGACCATGTCTGGGACATG
85060267 GCACTGGCAC
Statistics
Matches: 177, Mismatches: 27, Indels: 22
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 76 0.43
47 71 0.40
48 26 0.15
49 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACCATGTCTGGGACATGCATCGGCATCGAGACGAGA
Found at i:85060258 original size:140 final size:140
Alignment explanation
Indices: 85060006--85060266 Score: 339
Period size: 140 Copynumber: 1.9 Consensus size: 140
85059996 GTTATTGTGG
* * *
85060006 GCTAGTGTAAGACATGTCTGGGAGATGCATCAGCCACATTATGAGAGTTGGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGTTAGTGTAAGACCATGTC
* * *
85060071 TGGGACATGGCATCGGCATCTAGACGAGTGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCT
66 TGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCT
85060136 CGAGACGTAA
131 CGAGACGTAA
* * ** *
85060146 GCTAGTGTAAGACATGTTTGGGACATGCATCGGTTACGA-GATGATAGTTAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGTTAGTGTAAGACCATGT
* * * *
85060210 CTGGGGCATGGCATCGACAT-GAGA-TATGAGCTAGTGTAAGACCGTGTCTGGGACATG
65 CTGGGACATGGCATCGACATCGAGACGA-GAGCTAGTGTAAGA-CATGTCTGAGACATG
85060267 GCACTGGCAC
Statistics
Matches: 103, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
138 1 0.01
139 16 0.16
140 85 0.83
141 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (140 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGTTAGTGTAAGACCATGTC
TGGGACATGGCATCGACATCGAGACGAGAGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCT
CGAGACGTAA
Found at i:85061319 original size:20 final size:21
Alignment explanation
Indices: 85061281--85061320 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
85061271 TTGAAATGGT
85061281 CACACGGGCGTGTTGCCCTTC
1 CACACGGGCGTGTTGCCCTTC
85061302 CACACGGGCGTG-TGCCCTT
1 CACACGGGCGTGTTGCCCTT
85061321 GTGTCAAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTTGCCCTTC
Found at i:85068201 original size:44 final size:44
Alignment explanation
Indices: 85068146--85068230 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
85068136 TTTTACGAGC
*
85068146 CTAGAGGCAATTTCGTAATTTTGTGAAACTTTAAGGGCAAAATT
1 CTAGAGGCAATTTCGTAATTTTGTGAAACTTTAAGGACAAAATT
*
85068190 CTAGGGGCAATTTCGTAATTTTGTGAAACTTTAAGGACAAA
1 CTAGAGGCAATTTCGTAATTTTGTGAAACTTTAAGGACAAA
85068231 TTTTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (44 bp):
CTAGAGGCAATTTCGTAATTTTGTGAAACTTTAAGGACAAAATT
Found at i:85068768 original size:48 final size:48
Alignment explanation
Indices: 85068600--85068990 Score: 220
Period size: 48 Copynumber: 8.5 Consensus size: 48
85068590 GAGATCCTGG
85068600 GTAAGACCATGTCTGGGACATGGCATCGGCATCCGATATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCAT-CGATATGAGAGCCAGT
*** * * *
85068649 GTAAGACCATGTCTAATACATGGCATCGGCTTTGACATGAGAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCCAGT
* * * * * *
85068697 GTAAGACCCTGTCTAGGACATGGCATCGGCGTTGATATGTGTGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCCAGT
* * * * * **
85068745 GTAAGACCATATCTGGGATATGGCATCAGCATCGGTATGTGATTTCA-T
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGA-GCCAGT
* * * * **
85068793 GTAAGACCATATTTGGG--AT---AT-GGCGTTGATATGAGATTTC-GT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGA-GCCAGT
*
85068835 GTAAGACTATGTCTGGGACATGGCATC-G-AT-G---TGAG-GTCTC-GT
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAG-C-CAGT
* * * *
85068877 GTAAGACCATGTCTGGGACATGGCATCGACACCAACATGAGA-CTTCA-T
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGC--CAGT
* * * *
85068925 ATAAGACCATATCTGGG--AT---AT-GACATCGATATGTAGACCCA-T
1 GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATG-AGAGCCAGT
*
85068967 GTAAGACCATGTCGGGGACATGGC
1 GTAAGACCATGTCTGGGACATGGC
85068991 TTTGGCATTC
Statistics
Matches: 268, Mismatches: 48, Indels: 54
0.72 0.13 0.15
Matches are distributed among these distances:
42 88 0.33
43 7 0.03
44 6 0.02
45 1 0.00
46 5 0.02
47 4 0.01
48 127 0.47
49 30 0.11
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGAGAGCCAGT
Found at i:85068852 original size:42 final size:42
Alignment explanation
Indices: 85068773--85068990 Score: 159
Period size: 42 Copynumber: 5.0 Consensus size: 42
85068763 TATGGCATCA
* * * * * *
85068773 GCATCGGTATGTGATTTCATGTAAGACCATATTTGGGATATG
1 GCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATG
* * *
85068815 GCGTTGATATGAGATTTCGTGTAAGACTATGTCTGGGACATG
1 GCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATG
* * *
85068857 GCATCGATGTGAGGTCTCGTGTAAGACCATGTCTGGGACATG
1 GCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATG
* * * * * *
85068899 GCATCGACACCAACATGAGACTTCATATAAGACCATATCTGGGATATG
1 GCATCG------ATATGAGATTTCGTGTAAGACCATGTCTGGGACATG
* ** * *
85068947 ACATCGATATGTAGA-CCCATGTAAGACCATGTCGGGGACATG
1 GCATCGATATG-AGATTTCGTGTAAGACCATGTCTGGGACATG
85068989 GC
1 GC
85068991 TTTGGCATTC
Statistics
Matches: 136, Mismatches: 33, Indels: 14
0.74 0.18 0.08
Matches are distributed among these distances:
42 101 0.74
43 3 0.02
48 32 0.24
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.28
Consensus pattern (42 bp):
GCATCGATATGAGATTTCGTGTAAGACCATGTCTGGGACATG
Found at i:85068930 original size:132 final size:132
Alignment explanation
Indices: 85068743--85068990 Score: 302
Period size: 132 Copynumber: 1.9 Consensus size: 132
85068733 ATGTGTGCCA
* * *** * * * *
85068743 GTGTAAGACCATATCTGGGATATGGCATCAGCATCGGTATGTGATTTCATGTAAGACCATATTTG
1 GTGTAAGACCATATCTGGGACATGGCATCAGCACCAACATGAGACTTCATATAAGACCATATCTG
* * * ** * * *
85068808 GGATATGGCGTTGATATG-AGATTTCGTGTAAGACTATGTCTGGGACATGGCATCGATGTGAGGT
66 GGATATGACATCGATATGTAGA-CCCATGTAAGACCATGTCGGGGACATGGCATCGATGTGAGGT
85068872 CTC
130 CTC
*
85068875 GTGTAAGACCATGTCTGGGACATGGCATC-GACACCAACATGAGACTTCATATAAGACCATATCT
1 GTGTAAGACCATATCTGGGACATGGCATCAG-CACCAACATGAGACTTCATATAAGACCATATCT
85068939 GGGATATGACATCGATATGTAGACCCATGTAAGACCATGTCGGGGACATGGC
65 GGGATATGACATCGATATGTAGACCCATGTAAGACCATGTCGGGGACATGGC
85068991 TTTGGCATTC
Statistics
Matches: 96, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
131 1 0.01
132 92 0.96
133 3 0.03
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (132 bp):
GTGTAAGACCATATCTGGGACATGGCATCAGCACCAACATGAGACTTCATATAAGACCATATCTG
GGATATGACATCGATATGTAGACCCATGTAAGACCATGTCGGGGACATGGCATCGATGTGAGGTC
TC
Found at i:85070288 original size:17 final size:19
Alignment explanation
Indices: 85070263--85070300 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
85070253 GTTACACAGC
85070263 CTGGAG-ACACGGGCGTGT
1 CTGGAGAACACGGGCGTGT
85070281 CTGG-GACACACGGGCGTGT
1 CTGGAGA-ACACGGGCGTGT
85070300 C
1 C
85070301 CCTGTGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 1 0.06
18 4 0.22
19 13 0.72
ACGTcount: A:0.16, C:0.26, G:0.42, T:0.16
Consensus pattern (19 bp):
CTGGAGAACACGGGCGTGT
Found at i:85071490 original size:2 final size:2
Alignment explanation
Indices: 85071485--85071509 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85071475 TAATTTTTAA
85071485 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 A
85071510 AGAGATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85075864 original size:10 final size:10
Alignment explanation
Indices: 85075849--85076064 Score: 123
Period size: 10 Copynumber: 21.7 Consensus size: 10
85075839 ACCAGACCAA
85075849 AAAAATTATT
1 AAAAATTATT
* *
85075859 AAAAATCATA
1 AAAAATTATT
85075869 AAAAATATATTT
1 AAAAAT-TA-TT
85075881 AAAAATTA-T
1 AAAAATTATT
85075890 AGAAAA--ATT
1 A-AAAATTATT
**
85075899 GCAAATTATT
1 AAAAATTATT
85075909 -AAAA-TATT
1 AAAAATTATT
* *
85075917 AAAATTTTTT
1 AAAAATTATT
85075927 AAAAA-TATT
1 AAAAATTATT
* *
85075936 AAATA-TAGT
1 AAAAATTATT
85075945 AAATAATTATT
1 AAA-AATTATT
*
85075956 AAATA-TAGTTT
1 AAAAATTA--TT
85075967 AAAATATT-TT
1 AAAA-ATTATT
85075977 -AAAATTA-T
1 AAAAATTATT
85075985 AAAAATTTATT
1 AAAAA-TTATT
85075996 AAAAATTA-T
1 AAAAATTATT
*
85076005 AAACCATTATTT
1 AAA-AATTA-TT
***
85076017 AAAAATTGCA
1 AAAAATTATT
85076027 AAAAATTATT
1 AAAAATTATT
*
85076037 AAAAATTATA
1 AAAAATTATT
85076047 AAAAATTATTT
1 AAAAATTA-TT
85076058 AAAAATT
1 AAAAATT
85076065 GTGAATTTAG
Statistics
Matches: 157, Mismatches: 27, Indels: 43
0.69 0.12 0.19
Matches are distributed among these distances:
8 12 0.08
9 35 0.22
10 66 0.42
11 31 0.20
12 12 0.08
13 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
AAAAATTATT
Found at i:85075873 original size:20 final size:20
Alignment explanation
Indices: 85075848--85076064 Score: 155
Period size: 20 Copynumber: 10.9 Consensus size: 20
85075838 GACCAGACCA
*
85075848 AAAAAATTATTAAAAATCAT
1 AAAAAATTATTAAAAATTAT
85075868 AAAAAATATATTTAAAAATTAT
1 AAAAAAT-TA-TTAAAAATTAT
* **
85075890 AGAAAA--ATTGCAAATTAT
1 AAAAAATTATTAAAAATTAT
* * *
85075908 -TAAAA-TATTAAAATTTTT
1 AAAAAATTATTAAAAATTAT
* *
85075926 TAAAAA-TATTAAATA-TAGT
1 AAAAAATTATTAAAAATTA-T
*
85075945 AAATAATTATTAAATATAGTT-T
1 AAAAAATTATTAAA-A-A-TTAT
*
85075967 AAAATATT-TT-AAAATTAT
1 AAAAAATTATTAAAAATTAT
*
85075985 AAAAATTTATTAAAAATTAT
1 AAAAAATTATTAAAAATTAT
** **
85076005 AAACCATTATTTAAAAATTGC
1 AAAAAATTA-TTAAAAATTAT
85076026 AAAAAATTATTAAAAATTAT
1 AAAAAATTATTAAAAATTAT
85076046 AAAAAATTATTTAAAAATT
1 AAAAAATTA-TTAAAAATT
85076065 GTGAATTTAG
Statistics
Matches: 153, Mismatches: 29, Indels: 29
0.73 0.14 0.14
Matches are distributed among these distances:
17 6 0.04
18 26 0.17
19 20 0.13
20 48 0.31
21 29 0.19
22 23 0.15
24 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
AAAAAATTATTAAAAATTAT
Found at i:85075935 original size:27 final size:28
Alignment explanation
Indices: 85075905--85076003 Score: 71
Period size: 29 Copynumber: 3.5 Consensus size: 28
85075895 AATTGCAAAT
* *
85075905 TATTAAAATATTAAA-ATTTTTTAAAAA
1 TATTAAAATATTAAATAATTATTAAAAA
* *
85075932 TATTAAATATAGTAAATAATTATTAAATA
1 TATTAAA-ATATTAAATAATTATTAAAAA
*
85075961 TAGTTTAAAATATTTTAA-AATTA-TAAAAA
1 TA--TTAAAATA-TTAAATAATTATTAAAAA
85075990 TTTATTAAAA-ATTA
1 --TATTAAAATATTA
85076004 TAAACCATTA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
27 9 0.16
28 8 0.14
29 22 0.39
30 8 0.14
31 10 0.18
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
TATTAAAATATTAAATAATTATTAAAAA
Found at i:85076065 original size:41 final size:41
Alignment explanation
Indices: 85075967--85076065 Score: 137
Period size: 41 Copynumber: 2.4 Consensus size: 41
85075957 AATATAGTTT
* ** *
85075967 AAAA-TATTTTAAAATTATAAAAATTTATTAAAAATTATAA
1 AAAATTATTTAAAAATTGCAAAAAATTATTAAAAATTATAA
**
85076007 ACCATTATTTAAAAATTGCAAAAAATTATTAAAAATTATAA
1 AAAATTATTTAAAAATTGCAAAAAATTATTAAAAATTATAA
85076048 AAAATTATTTAAAAATTG
1 AAAATTATTTAAAAATTG
85076066 TGAATTTAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 2 0.04
41 48 0.96
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (41 bp):
AAAATTATTTAAAAATTGCAAAAAATTATTAAAAATTATAA
Found at i:85076305 original size:10 final size:10
Alignment explanation
Indices: 85076292--85076330 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
85076282 ATTATTTACA
85076292 AATTTTTAAT
1 AATTTTTAAT
*
85076302 AATTTTTTAT
1 AATTTTTAAT
*
85076312 AGTTTTTAAT
1 AATTTTTAAT
*
85076322 AATATTTAA
1 AATTTTTAA
85076331 AAAATTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:85082669 original size:10 final size:10
Alignment explanation
Indices: 85082654--85082770 Score: 63
Period size: 10 Copynumber: 12.2 Consensus size: 10
85082644 TATTTTTCAT
85082654 AAAATTATAA
1 AAAATTATAA
85082664 AAAATTTATCAA
1 AAAA-TTAT-AA
*
85082676 GAAA-TAT-A
1 AAAATTATAA
*
85082684 AAAATTATTA
1 AAAATTATAA
*
85082694 AATA-T-TAA
1 AAAATTATAA
85082702 AAAA-TAT-A
1 AAAATTATAA
*
85082710 AAAATTGATAT
1 AAAATT-ATAA
* *
85082721 TAATTTAT-A
1 AAAATTATAA
85082730 AAAATTATAA
1 AAAATTATAA
*
85082740 AATA-TATAA
1 AAAATTATAA
*
85082749 ACAAATTA-CA
1 A-AAATTATAA
85082759 AAAATTATAA
1 AAAATTATAA
85082769 AA
1 AA
85082771 TTGATAAAAC
Statistics
Matches: 80, Mismatches: 15, Indels: 24
0.67 0.13 0.20
Matches are distributed among these distances:
8 15 0.19
9 24 0.30
10 26 0.32
11 10 0.12
12 5 0.06
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAATTATAA
Found at i:85082684 original size:29 final size:26
Alignment explanation
Indices: 85082652--85082779 Score: 89
Period size: 29 Copynumber: 4.5 Consensus size: 26
85082642 AATATTTTTC
85082652 ATAAAATTATAAAAAATTTATCAAGAAA-T
1 ATAAAATTATAAAAAA-TTA--AA-AAATT
* *
85082681 ATAAAAATTATTAAATATTAAAAAA-T
1 AT-AAAATTATAAAAAATTAAAAAATT
** *
85082707 ATAAAAATTGATATTAATTTATAAAAATT
1 AT-AAAATT-ATAAAAAATTA-AAAAATT
85082736 ATAAAATATATAAACAAATTACAAAAATT
1 ATAAAAT-TATAAA-AAATTA-AAAAATT
85082765 ATAAAATTGATAAAA
1 ATAAAATT-ATAAAA
85082780 CATAATTATG
Statistics
Matches: 81, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
26 13 0.16
27 8 0.10
28 15 0.19
29 33 0.41
30 12 0.15
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (26 bp):
ATAAAATTATAAAAAATTAAAAAATT
Found at i:85082708 original size:26 final size:28
Alignment explanation
Indices: 85082665--85082741 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 28
85082655 AAATTATAAA
85082665 AAATTTATCAAGAAATATAAAAATT-AT-T
1 AAATTTAT-AA-AAATATAAAAATTGATAT
85082693 AAATATTA-AAAAATATAAAAATTGATAT
1 AAAT-TTATAAAAATATAAAAATTGATAT
*
85082721 TAATTTATAAAAATTATAAAA
1 AAATTTATAAAAA-TATAAAA
85082742 TATATAAACA
Statistics
Matches: 43, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 13 0.30
29 10 0.23
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (28 bp):
AAATTTATAAAAATATAAAAATTGATAT
Found at i:85082879 original size:19 final size:18
Alignment explanation
Indices: 85082849--85082909 Score: 68
Period size: 19 Copynumber: 3.3 Consensus size: 18
85082839 AATTATTTTG
85082849 AAAAAGTATAAAAATGAT
1 AAAAAGTATAAAAATGAT
*
85082867 AAAAAGTATTAAAATTGAT
1 AAAAAGTA-TAAAAATGAT
* * *
85082886 ATAAAGTTATAAAATTTAT
1 AAAAAG-TATAAAAATGAT
85082905 AAAAA
1 AAAAA
85082910 AATCATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.22
19 27 0.73
20 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (18 bp):
AAAAAGTATAAAAATGAT
Found at i:85083486 original size:38 final size:36
Alignment explanation
Indices: 85083400--85083508 Score: 107
Period size: 38 Copynumber: 2.9 Consensus size: 36
85083390 TAATACATTT
* *
85083400 TTTAT-TTTATTTTAAAGATTTTAAATAAGTTT-TATTAA
1 TTTATATTT-TTTTATA-ATTTT-AATAAGTTTATAAT-A
*
85083438 TTTATATTTTTTTATAATTTATTATAA-TTTATAATA
1 TTTATATTTTTTTATAATTT-TAATAAGTTTATAATA
85083474 TTTATAAGTTTTTTTATAATTTTAATAAGTTTATA
1 TTTAT-A-TTTTTTTATAATTTTAATAAGTTTATA
85083509 TCAATTTTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
36 9 0.15
37 17 0.28
38 32 0.52
39 3 0.05
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.61
Consensus pattern (36 bp):
TTTATATTTTTTTATAATTTTAATAAGTTTATAATA
Found at i:85083491 original size:21 final size:21
Alignment explanation
Indices: 85083465--85083505 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
85083455 TTTATTATAA
85083465 TTTATAATATTT-ATAAGTTTT
1 TTTATAAT-TTTAATAAGTTTT
85083486 TTTATAATTTTAATAAGTTT
1 TTTATAATTTTAATAAGTTT
85083506 ATATCAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTTATAATTTTAATAAGTTTT
Found at i:85083495 original size:28 final size:26
Alignment explanation
Indices: 85083429--85083500 Score: 74
Period size: 28 Copynumber: 2.7 Consensus size: 26
85083419 TTTAAATAAG
* *
85083429 TTTTATTAATTTATATTTTTTTATAATT
1 TTTTA-TAATTTATA-ATATTTATAATT
*
85083457 TATTATAATTTATAATATTTATAAGTTT
1 TTTTATAATTTATAATATTTATAA--TT
85083485 TTTTATAATTT-TAATA
1 TTTTATAATTTATAATA
85083501 AGTTTATATC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
26 8 0.21
27 14 0.37
28 16 0.42
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTTATAATTTATAATATTTATAATT
Found at i:85083496 original size:9 final size:9
Alignment explanation
Indices: 85083424--85083535 Score: 61
Period size: 9 Copynumber: 12.1 Consensus size: 9
85083414 AAGATTTTAA
*
85083424 ATAAGTTTT
1 ATAATTTTT
*
85083433 ATTAATTTAT
1 A-TAATTTTT
*
85083443 AT-TTTTTT
1 ATAATTTTT
85083451 ATAATTTATT
1 ATAATTT-TT
85083461 ATAA--TTT
1 ATAATTTTT
*
85083468 ATAATATTT
1 ATAATTTTT
85083477 ATAAGTTTTTTT
1 ATAA---TTTTT
*
85083489 ATAATTTTA
1 ATAATTTTT
*
85083498 ATAAGTTTAT
1 ATAA-TTTTT
*
85083508 ATCAATTTTA
1 AT-AATTTTT
85083518 AT-ATTTTT
1 ATAATTTTT
*
85083526 ATGATTTTT
1 ATAATTTTT
85083535 A
1 A
85083536 ATTATTTTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
7 6 0.08
8 14 0.17
9 27 0.34
10 23 0.29
11 2 0.03
12 8 0.10
ACGTcount: A:0.35, C:0.01, G:0.04, T:0.61
Consensus pattern (9 bp):
ATAATTTTT
Found at i:85083526 original size:20 final size:19
Alignment explanation
Indices: 85083304--85083544 Score: 65
Period size: 20 Copynumber: 12.3 Consensus size: 19
85083294 AGTTTTTATG
*
85083304 ATTTCTTATATAATTTTTAT
1 ATTT-TTATATAATTTTAAT
**
85083324 AAGTTTATATCAATTTTAAT
1 ATTTTTATAT-AATTTTAAT
** *
85083344 ATTTTTA-ATTCTTTTTTAT
1 ATTTTTATA-TAATTTTAAT
* *
85083363 AATTTTTTTATAATATTTCAAG
1 -ATTTTTATATAAT-TTT-AAT
* *
85083385 ATTTCTA-ATACATTTT-TT
1 ATTTTTATATA-ATTTTAAT
* *
85083403 ATTTTATTTTAAAGATTTTAAAT
1 A-TTT-TTATATA-ATTTT-AAT
*
85083426 AAGTTTTAT-TAA-TTT-AT
1 -ATTTTTATATAATTTTAAT
* *
85083443 ATTTTTTTATAA-TTTATT
1 ATTTTTATATAATTTTAAT
*
85083461 ATAATTTATA-ATATTTATAAGT
1 AT-TTTTATATA-ATTT-TAA-T
85083483 -TTTTT-TATAATTTTAAT
1 ATTTTTATATAATTTTAAT
**
85083500 AAGTTTATATCAATTTTAAT
1 ATTTTTATAT-AATTTTAAT
85083520 ATTTTTATGAT--TTTTAATT
1 ATTTTTAT-ATAATTTTAA-T
85083539 ATTTTT
1 ATTTTT
85083545 TATGGGAAAA
Statistics
Matches: 159, Mismatches: 36, Indels: 53
0.64 0.15 0.21
Matches are distributed among these distances:
16 6 0.04
17 9 0.06
18 17 0.11
19 41 0.26
20 53 0.33
21 24 0.15
22 5 0.03
23 3 0.02
24 1 0.01
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (19 bp):
ATTTTTATATAATTTTAAT
Found at i:85084423 original size:22 final size:22
Alignment explanation
Indices: 85084398--85084455 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
85084388 CAATAACAAT
* * *
85084398 AAAATAATAGCAATATAATAGC
1 AAAATAATAGCAAAACAATAAC
**
85084420 AAAATGGTAGCAAAACAATAAC
1 AAAATAATAGCAAAACAATAAC
*
85084442 AAAACAATAGCAAA
1 AAAATAATAGCAAA
85084456 CAACAAAACA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (22 bp):
AAAATAATAGCAAAACAATAAC
Found at i:85084458 original size:10 final size:11
Alignment explanation
Indices: 85084398--85084455 Score: 53
Period size: 11 Copynumber: 5.3 Consensus size: 11
85084388 CAATAACAAT
*
85084398 AAAATAATAGC
1 AAAACAATAGC
* *
85084409 AATATAATAGC
1 AAAACAATAGC
***
85084420 AAAATGGTAGC
1 AAAACAATAGC
*
85084431 AAAACAATAAC
1 AAAACAATAGC
85084442 AAAACAATAGC
1 AAAACAATAGC
85084453 AAA
1 AAA
85084456 CAACAAAACA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 38 1.00
ACGTcount: A:0.62, C:0.12, G:0.10, T:0.16
Consensus pattern (11 bp):
AAAACAATAGC
Found at i:85084462 original size:18 final size:18
Alignment explanation
Indices: 85084439--85084479 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
85084429 GCAAAACAAT
85084439 AACAAAACAATAGCAAAC
1 AACAAAACAATAGCAAAC
* *
85084457 AACAAAACAGTAGTAAAC
1 AACAAAACAATAGCAAAC
85084475 AACAA
1 AACAA
85084480 TGAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.66, C:0.20, G:0.07, T:0.07
Consensus pattern (18 bp):
AACAAAACAATAGCAAAC
Found at i:85084869 original size:2 final size:2
Alignment explanation
Indices: 85084862--85084896 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
85084852 AACAATTAGT
85084862 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85084897 GTTAAGTGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85089685 original size:8 final size:8
Alignment explanation
Indices: 85089643--85089667 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
85089633 ATATAGACTA
85089643 AATAAAAT
1 AATAAAAT
85089651 AATAAAAT
1 AATAAAAT
85089659 AATAAAAT
1 AATAAAAT
85089667 A
1 A
85089668 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:85089691 original size:29 final size:31
Alignment explanation
Indices: 85089640--85089708 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
85089630 TATATATAGA
*
85089640 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAACAATTAT
* *
85089669 CTTATTAAAAT-ATTAAATAAATAACAATTAT
1 CTAATTAAAATAATAAAAT-AATAACAATTAT
85089700 CTAATTAAA
1 CTAATTAAA
85089709 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAACAATTAT
Found at i:85095194 original size:46 final size:46
Alignment explanation
Indices: 85095127--85095255 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
85095117 TGTAACCTGC
* * * *
85095127 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
85095173 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
85095219 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
85095256 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:85095274 original size:46 final size:45
Alignment explanation
Indices: 85095135--85095274 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
85095125 GCCCATAAGC
* ** *
85095135 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T-AGT
** **
85095181 GAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T-AGT
*
85095227 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCTAGT
85095273 GA
1 GA
85095275 CATGTCACTT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
46 77 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCTAGT
Found at i:85098673 original size:18 final size:19
Alignment explanation
Indices: 85098634--85098674 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
85098624 TTTCTATTAA
*
85098634 TAAAAATATATTTAATTTAT
1 TAAAAATATATTTAA-TAAT
85098654 TAAAAATATATTTAA-AAT
1 TAAAAATATATTTAATAAT
85098672 TAA
1 TAA
85098675 TTTATTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 5 0.25
20 15 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAAAATATATTTAATAAT
Found at i:85102571 original size:21 final size:20
Alignment explanation
Indices: 85102507--85102583 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
85102497 AAGCTCATTG
85102507 AACAGAAACCCATAAGGGTTA
1 AACAGAAACCCATAA-GGTTA
* * * *
85102528 AACTGGAACTCGA-AAGAGCTA
1 AACAGAAAC-CCATAAG-GTTA
85102549 AACAGAAACCCAATAAGGTTA
1 AACAGAAACCC-ATAAGGTTA
* *
85102570 AACTGAAACTCATA
1 AACAGAAACCCATA
85102584 CAAGTTAACT
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
20 5 0.12
21 32 0.76
22 5 0.12
ACGTcount: A:0.48, C:0.19, G:0.17, T:0.16
Consensus pattern (20 bp):
AACAGAAACCCATAAGGTTA
Found at i:85110185 original size:21 final size:21
Alignment explanation
Indices: 85110161--85110216 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
85110151 CCATAAGGGT
85110161 TAAACTGAAACTCAAAAGAGC
1 TAAACTGAAACTCAAAAGAGC
* * * *
85110182 TAAA-TGAAAACCCAATAGGGT
1 TAAACTG-AAACTCAAAAGAGC
85110203 TAAACTGAAACTCA
1 TAAACTGAAACTCA
85110217 TACGAGTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 24 0.86
22 2 0.07
ACGTcount: A:0.50, C:0.18, G:0.14, T:0.18
Consensus pattern (21 bp):
TAAACTGAAACTCAAAAGAGC
Found at i:85110225 original size:21 final size:20
Alignment explanation
Indices: 85110159--85110226 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 20
85110149 ACCCATAAGG
*
85110159 GTTAAACTGAAACTCAAAAGA
1 GTTAAACTGAAACTC-ATAGA
* * *
85110180 GCTAAA-TGAAAACCCAATAGG
1 GTTAAACTG-AAACTC-ATAGA
85110201 GTTAAACTGAAACTCATACGA
1 GTTAAACTGAAACTCATA-GA
85110222 GTTAA
1 GTTAA
85110227 CTAAAGCTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 5 0.14
21 30 0.81
22 2 0.05
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (20 bp):
GTTAAACTGAAACTCATAGA
Found at i:85113322 original size:2 final size:2
Alignment explanation
Indices: 85113315--85113353 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
85113305 TTATGAATAA
*
85113315 AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
85113354 GAACTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:85116180 original size:30 final size:29
Alignment explanation
Indices: 85116124--85116182 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
85116114 TAAAAATTTT
* *
85116124 AAAAATTATAACAACTATTTAAAAAAATA
1 AAAAATTATAAAAACTATTAAAAAAAATA
85116153 AAAAATTAATAAAAACTA-TAAACAAAAATA
1 AAAAATT-ATAAAAACTATTAAA-AAAAATA
85116183 TTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 10 0.38
30 16 0.62
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (29 bp):
AAAAATTATAAAAACTATTAAAAAAAATA
Found at i:85117263 original size:2 final size:2
Alignment explanation
Indices: 85117256--85117289 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
85117246 ATTTCAGTTA
85117256 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
85117290 TTTATGCTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85117585 original size:22 final size:21
Alignment explanation
Indices: 85117548--85117595 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
85117538 TAATGGAGTT
*
85117548 AATAAAA--TATACATATTAA
1 AATAAAATGTATAAATATTAA
85117567 AATTAAAATGTATAAATATTAA
1 AA-TAAAATGTATAAATATTAA
85117589 AATAAAA
1 AATAAAA
85117596 CTTTAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 5 0.20
21 5 0.20
22 13 0.52
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (21 bp):
AATAAAATGTATAAATATTAA
Found at i:85120365 original size:25 final size:25
Alignment explanation
Indices: 85120336--85120386 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
85120326 CAAAGGAAAA
**
85120336 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
85120361 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
85120386 T
1 T
85120387 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:85125035 original size:25 final size:25
Alignment explanation
Indices: 85125006--85125056 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
85124996 CAAAGGAAAA
**
85125006 TCCTAATCTAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
85125031 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
85125056 T
1 T
85125057 TTATAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.18, G:0.06, T:0.39
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:85126715 original size:13 final size:13
Alignment explanation
Indices: 85126697--85126725 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85126687 ATTAGATCTT
85126697 TCACCACGTAAAA
1 TCACCACGTAAAA
85126710 TCACCACGTAAAA
1 TCACCACGTAAAA
85126723 TCA
1 TCA
85126726 ATCATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.31, G:0.07, T:0.17
Consensus pattern (13 bp):
TCACCACGTAAAA
Found at i:85129287 original size:23 final size:23
Alignment explanation
Indices: 85129261--85129304 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
85129251 TAGAAGCACC
* *
85129261 AAAGTGCTAGTAACAAAAGTATA
1 AAAGTACTAATAACAAAAGTATA
*
85129284 AAAGTACTAATAACAGAAGTA
1 AAAGTACTAATAACAAAAGTA
85129305 ACGAAGTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (23 bp):
AAAGTACTAATAACAAAAGTATA
Found at i:85133462 original size:51 final size:51
Alignment explanation
Indices: 85133381--85133497 Score: 216
Period size: 51 Copynumber: 2.3 Consensus size: 51
85133371 ACTTCTGATC
85133381 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
* *
85133432 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
85133483 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
85133498 ATGTGATCTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGACA
Found at i:85135072 original size:70 final size:70
Alignment explanation
Indices: 85134984--85135117 Score: 223
Period size: 70 Copynumber: 1.9 Consensus size: 70
85134974 AGTTTATTAC
* * * *
85134984 TAATTAATTTGCTACTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTGC
1 TAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTGC
85135049 TTAGT
66 TTAGT
*
85135054 TAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 TAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
85135118 TTATGTGCTA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (70 bp):
TAATTAATATGCTACTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTGC
TTAGT
Found at i:85135948 original size:43 final size:43
Alignment explanation
Indices: 85135890--85136060 Score: 202
Period size: 43 Copynumber: 4.0 Consensus size: 43
85135880 TATCGAAATG
85135890 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATAT-CGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** * *
85135934 TGATATCAAGCTTCGGGCCTAGCAGGCTATAATGTCGGTGAGA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
* * * *
85135977 TAATATTGGGCCTT-GGGCCTAGCAGTCTATAATGCTGGTGAAA
1 TGATATCGGG-CTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
** **
85136020 TGATATCGGGCTTCAAGCCTAGCAGGAGA-AATGCCGGTGAA
1 TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
85136061 TGAATTCAGA
Statistics
Matches: 105, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 14 0.13
43 82 0.78
44 9 0.09
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (43 bp):
TGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCGGTGAAA
Found at i:85138097 original size:33 final size:33
Alignment explanation
Indices: 85138055--85138118 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
85138045 AAAAGAAAAA
85138055 TTTTAAATTGGTTGAAATTTTACGGCACGGTAG
1 TTTTAAATTGGTTGAAATTTTACGGCACGGTAG
85138088 TTTTAAATTGGTTGAAATTTTACGGCACGGT
1 TTTTAAATTGGTTGAAATTTTACGGCACGGT
85138119 TTTTGTGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (33 bp):
TTTTAAATTGGTTGAAATTTTACGGCACGGTAG
Found at i:85145509 original size:51 final size:51
Alignment explanation
Indices: 85145448--85145564 Score: 189
Period size: 51 Copynumber: 2.3 Consensus size: 51
85145438 ACTTCTGATC
* *
85145448 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATTTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAATGACA
* *
85145499 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAATGACA
*
85145550 AGTGATAAGTGATAA
1 AGTGACAAGTGATAA
85145565 ATATGATCTG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAATGACA
Found at i:85151619 original size:32 final size:30
Alignment explanation
Indices: 85151563--85151632 Score: 97
Period size: 32 Copynumber: 2.3 Consensus size: 30
85151553 ATAATCACTT
*
85151563 TAATATTAAATTAATAAAATACTATTAAGA
1 TAATATTAAATTAATAAAATACTATTAAAA
85151593 TAAGTATTAAATTTAATATAAA-ACTATTAAAA
1 TAA-TATTAAA-TTAATA-AAATACTATTAAAA
85151625 TAATATTA
1 TAATATTA
85151633 TTTTTGGAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 3 0.08
31 12 0.33
32 18 0.50
33 3 0.08
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (30 bp):
TAATATTAAATTAATAAAATACTATTAAAA
Found at i:85159193 original size:29 final size:29
Alignment explanation
Indices: 85159158--85159219 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
85159148 CTAAATTATA
85159158 AAAGATGCAAAAGTTAAATTCTATTAATT
1 AAAGATGCAAAAGTTAAATTCTATTAATT
85159187 AAAGATGCAAAAGTTAAATTCTATTAATT
1 AAAGATGCAAAAGTTAAATTCTATTAATT
85159216 AAAG
1 AAAG
85159220 GTGTCGAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.50, C:0.06, G:0.11, T:0.32
Consensus pattern (29 bp):
AAAGATGCAAAAGTTAAATTCTATTAATT
Found at i:85159910 original size:18 final size:18
Alignment explanation
Indices: 85159872--85159910 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
85159862 TTTTGTAAAT
*
85159872 TTTCAAAAAATGATTTAA
1 TTTCAAAAAATGAATTAA
* *
85159890 TTTCATAAAATGAATTGA
1 TTTCAAAAAATGAATTAA
85159908 TTT
1 TTT
85159911 TTTTTGTTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (18 bp):
TTTCAAAAAATGAATTAA
Found at i:85164010 original size:21 final size:21
Alignment explanation
Indices: 85163986--85164036 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
85163976 AAGACAACCC
* *
85163986 TCCTTTAGCTTAACCTGAGTA
1 TCCTTTAGATTAACCTAAGTA
* *
85164007 TCCTTTAAATTAACCTAAGTC
1 TCCTTTAGATTAACCTAAGTA
85164028 TCCTTTAGA
1 TCCTTTAGA
85164037 ACTGGGCAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (21 bp):
TCCTTTAGATTAACCTAAGTA
Found at i:85176792 original size:18 final size:19
Alignment explanation
Indices: 85176745--85176796 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
85176735 AAGATTCGTC
*
85176745 AAAACTATAAAAGATATAA
1 AAAACTATAAAATATATAA
* *
85176764 AAAATTCATAAAATTTA-AA
1 AAAACT-ATAAAATATATAA
85176783 AAAACTATAAAATA
1 AAAACTATAAAATA
85176797 CACGTAAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
18 7 0.26
19 12 0.44
20 8 0.30
ACGTcount: A:0.67, C:0.06, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAACTATAAAATATATAA
Found at i:85180687 original size:25 final size:24
Alignment explanation
Indices: 85180659--85180737 Score: 59
Period size: 25 Copynumber: 3.2 Consensus size: 24
85180649 AAGCTCTTCC
85180659 GAGCCAAAAATTGAGAAGCTCAAGA
1 GAGCCAAAAATTG-GAAGCTCAAGA
*** * *
85180684 GAGCTGTTAATTTGGAAGCTCATGA
1 GAGC-CAAAAATTGGAAGCTCAAGA
** *
85180709 GAGCCAAGTATCGGGAAGCTCAAGA
1 GAGCCAAAAAT-TGGAAGCTCAAGA
85180734 GAGC
1 GAGC
85180738 TGTGGTGTGT
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
24 1 0.03
25 33 0.85
26 5 0.13
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.18
Consensus pattern (24 bp):
GAGCCAAAAATTGGAAGCTCAAGA
Found at i:85184201 original size:13 final size:13
Alignment explanation
Indices: 85184183--85184211 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
85184173 GAAAATGGAA
85184183 AAGGAGAGGGAGT
1 AAGGAGAGGGAGT
85184196 AAGGAGAGGGAGT
1 AAGGAGAGGGAGT
85184209 AAG
1 AAG
85184212 CATAACGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.52, T:0.07
Consensus pattern (13 bp):
AAGGAGAGGGAGT
Found at i:85184677 original size:46 final size:46
Alignment explanation
Indices: 85184546--85184714 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
85184536 TATCTATGTT
*
85184546 GATGCCATGTCCCAGACATGGTCTTACACTGACA--CATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTG-CATTCGTCTCG-AGCC
* *
85184592 GATG-CATGTCCCAGACAT-GTCTTACGA-TGGC-TTATGTCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTAC-ACT-GCATT-CGTCTCGA-GCC
* *
85184638 GATG-CATGTCCCAGACA-CGTCTTACACTAGCATTCGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GCATTCGTCTCGA-GCC
*
85184684 GATGCCATGTACCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
85184715 GCTCTCACAA
Statistics
Matches: 102, Mismatches: 10, Indels: 21
0.77 0.08 0.16
Matches are distributed among these distances:
44 9 0.09
45 18 0.18
46 50 0.49
47 15 0.15
48 10 0.10
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGCATTCGTCTCGAGCC
Found at i:85187899 original size:22 final size:22
Alignment explanation
Indices: 85187874--85187920 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
85187864 CTTGAACTTA
85187874 AATTATGAAATATGAAATGTAG
1 AATTATGAAATATGAAATGTAG
* *
85187896 AATTTTGAAGTATGAAATGTAG
1 AATTATGAAATATGAAATGTAG
85187918 AAT
1 AAT
85187921 GAATAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (22 bp):
AATTATGAAATATGAAATGTAG
Found at i:85191568 original size:34 final size:34
Alignment explanation
Indices: 85191525--85191592 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
85191515 GCATATTTGA
*
85191525 TACTGTACTGAGATGGG-CTAAGGCCC-AAACTGT
1 TACTGTACTGA-AAGGGACTAAGGCCCAAAACTGT
*
85191558 TACTGATACTGAAAGGGACTTAGGCCCAAAACTGT
1 TACTG-TACTGAAAGGGACTAAGGCCCAAAACTGT
85191593 ATTTGATTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 9 0.30
34 14 0.47
35 7 0.23
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (34 bp):
TACTGTACTGAAAGGGACTAAGGCCCAAAACTGT
Found at i:85194020 original size:46 final size:46
Alignment explanation
Indices: 85193967--85194142 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
85193957 TATTTGGGCA
*
85193967 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
85194013 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
85194060 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
85194106 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
85194143 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:85194116 original size:93 final size:93
Alignment explanation
Indices: 85193963--85194134 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
85193953 GGGATATTTG
* * *
85193963 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
85194028 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
85194056 GGCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
85194121 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
85194135 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:85198987 original size:10 final size:9
Alignment explanation
Indices: 85198964--85199008 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
85198954 CTTTTCACAG
85198964 TAAAAATTA
1 TAAAAATTA
85198973 TAAAAATTA
1 TAAAAATTA
85198982 TAAAAAATTCA
1 T-AAAAATT-A
85198993 TAAAAATTA
1 TAAAAATTA
*
85199002 AAAAAAT
1 TAAAAAT
85199009 ACCTAAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 17 0.52
10 14 0.42
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
TAAAAATTA
Found at i:85198995 original size:20 final size:18
Alignment explanation
Indices: 85198965--85199008 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 18
85198955 TTTTCACAGT
85198965 AAAAATTATAAAAATTATA
1 AAAAATTATAAAAATTA-A
85198984 AAAAATTCATAAAAATTAA
1 AAAAATT-ATAAAAATTAA
85199003 AAAAAT
1 AAAAAT
85199009 ACCTAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.27
Consensus pattern (18 bp):
AAAAATTATAAAAATTAA
Found at i:85201243 original size:3 final size:3
Alignment explanation
Indices: 85201235--85201265 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
85201225 ATGTTTAAGC
85201235 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
85201266 GATACCATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:85202974 original size:27 final size:27
Alignment explanation
Indices: 85202901--85203040 Score: 158
Period size: 27 Copynumber: 5.2 Consensus size: 27
85202891 CATGGCTGCT
* *
85202901 AGAACAGATA-ATGTGACAGAGTCACC
1 AGAACAGATATATGTGGCAGAGCCACC
* *
85202927 AGATACAAATA-ATCGTGGCAGGGCCACC
1 AGA-ACAGATATAT-GTGGCAGAGCCACC
85202955 AGAACAGATATATGTGGCAGAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACC
* * *
85202982 AGATCAGATATTTGTGGCAGATCCACC
1 AGAACAGATATATGTGGCAGAGCCACC
* * *
85203009 AGATCAGATATTTGTGGCATAGCCACC
1 AGAACAGATATATGTGGCAGAGCCACC
85203036 AGAAC
1 AGAAC
85203041 GCTTCCTCCA
Statistics
Matches: 99, Mismatches: 12, Indels: 5
0.85 0.10 0.04
Matches are distributed among these distances:
26 3 0.03
27 80 0.81
28 16 0.16
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
AGAACAGATATATGTGGCAGAGCCACC
Found at i:85203475 original size:16 final size:15
Alignment explanation
Indices: 85203454--85203483 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
85203444 AAAATACCGA
85203454 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
85203470 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
85203484 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:85204697 original size:26 final size:26
Alignment explanation
Indices: 85204659--85204768 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
85204649 CATGAAATTC
*
85204659 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
85204685 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
85204711 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
*
85204737 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
85204763 TTATCA
1 TTATCA
85204769 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:85207138 original size:14 final size:15
Alignment explanation
Indices: 85207112--85207140 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
85207102 ATAATTGTAA
85207112 TAAATAGTTAATATT
1 TAAATAGTTAATATT
85207127 TAAATA-TTAATATT
1 TAAATAGTTAATATT
85207141 GAATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (15 bp):
TAAATAGTTAATATT
Found at i:85209627 original size:43 final size:43
Alignment explanation
Indices: 85209534--85209627 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
85209524 AGGTCTAAAG
* * * *
85209534 CCCGTGTGAAGAGGGGCACATGACAGTGTGGCTGAGGCATACG
1 CCCGTGTGAAGAGAGGCACATGACAGTGTGACTGAGGCACACA
** * *
85209577 CTAGTGTGAAGAGAGGCACATGGCCGTGTGACTGAGGCACACA
1 CCCGTGTGAAGAGAGGCACATGACAGTGTGACTGAGGCACACA
85209620 CCCGTGTG
1 CCCGTGTG
85209628 GACCAGAGAC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.22, G:0.37, T:0.17
Consensus pattern (43 bp):
CCCGTGTGAAGAGAGGCACATGACAGTGTGACTGAGGCACACA
Found at i:85210788 original size:18 final size:19
Alignment explanation
Indices: 85210765--85210806 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
85210755 TAGAAATTCT
*
85210765 AAAATT-TATATTTTAAAA
1 AAAATTATAAATTTTAAAA
*
85210783 AAAATTATAAATTTTTAAA
1 AAAATTATAAATTTTAAAA
85210802 AAAAT
1 AAAAT
85210807 CTAAAAGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTATAAATTTTAAAA
Found at i:85210802 original size:19 final size:18
Alignment explanation
Indices: 85210765--85210811 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
85210755 TAGAAATTCT
*
85210765 AAAATTTATATTTTAAAA
1 AAAATTTAAATTTTAAAA
*
85210783 AAAATTATAAATTTTTAAA
1 AAAATT-TAAATTTTAAAA
*
85210802 AAAATCTAAA
1 AAAATTTAAA
85210812 AGAATATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATTTAAATTTTAAAA
Found at i:85210838 original size:21 final size:20
Alignment explanation
Indices: 85210800--85210842 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
85210790 TAAATTTTTA
85210800 AAAAAATCTAAAAGAATATAT
1 AAAAAATCTAAAAGAATA-AT
*
85210821 AAAAAATTTAATAA-AATAAT
1 AAAAAATCTAA-AAGAATAAT
85210841 AA
1 AA
85210843 TTTTGGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 14 0.70
22 2 0.10
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATCTAAAAGAATAAT
Found at i:85215659 original size:60 final size:59
Alignment explanation
Indices: 85215548--85215724 Score: 232
Period size: 60 Copynumber: 3.0 Consensus size: 59
85215538 ACATCGAAAT
* * * * * *
85215548 AACTCCTAATTTATTAAATGAAATA-ATATAAAATAATTTGTACAAACATATTCAAAAG
1 AACTTCTATTTTATTAAATGAAACATATAAAAAATAATTTGTACAAAAATATTCAAAAA
* * * *
85215606 AACTTCTATTTTGTTAAATGAAACAGTATAAAAAATATTTTTTACAAAAATATTTAAAAA
1 AACTTCTATTTTATTAAATGAAACA-TATAAAAAATAATTTGTACAAAAATATTCAAAAA
85215666 AACTTCTATTTTATTAAATGAAACA-ATATAAAAATAATTTGTACAAAAATATTCAAAAA
1 AACTTCTATTTTATTAAATGAAACATATA-AAAAATAATTTGTACAAAAATATTCAAAAA
85215725 TAAATCAATG
Statistics
Matches: 102, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
58 24 0.24
59 27 0.26
60 51 0.50
ACGTcount: A:0.52, C:0.08, G:0.05, T:0.35
Consensus pattern (59 bp):
AACTTCTATTTTATTAAATGAAACATATAAAAAATAATTTGTACAAAAATATTCAAAAA
Found at i:85216101 original size:18 final size:18
Alignment explanation
Indices: 85216078--85216115 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
85216068 AAAGAAACAT
85216078 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
85216096 ATAAGGGTTAGGATACAC
1 ATAAGGGTTAGGATACAC
85216114 AT
1 AT
85216116 CTGACATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (18 bp):
ATAAGGGTTAGGATACAC
Found at i:85216391 original size:31 final size:31
Alignment explanation
Indices: 85216310--85216375 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
85216300 GTTATGGATC
*
85216310 CTAAACCATGACATGTAATCCGTATCACACA
1 CTAAACCATGACATGTAATCCGTATCGCACA
85216341 CTAAACCATGACATGTAATCCGTATCGCACA
1 CTAAACCATGACATGTAATCCGTATCGCACA
85216372 CTAA
1 CTAA
85216376 CTCTGGAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.23
Consensus pattern (31 bp):
CTAAACCATGACATGTAATCCGTATCGCACA
Found at i:85216740 original size:7 final size:7
Alignment explanation
Indices: 85216730--85216761 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
85216720 TCATATACAT
85216730 AATACTA
1 AATACTA
85216737 AATACTA
1 AATACTA
85216744 AATACTA
1 AATACTA
85216751 AATACTA
1 AATACTA
85216758 AATA
1 AATA
85216762 GACTATGTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:85219004 original size:18 final size:19
Alignment explanation
Indices: 85218981--85219023 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
85218971 ATATATTCTC
85218981 ATTATTATTATT-ACTTTT
1 ATTATTATTATTAACTTTT
*
85218999 ATTATTATTATTAATTTTT
1 ATTATTATTATTAACTTTT
85219018 ATTATT
1 ATTATT
85219024 TGACGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTATTATTAACTTTT
Found at i:85219035 original size:3 final size:3
Alignment explanation
Indices: 85218981--85219023 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
85218971 ATATATTCTC
*
85218981 ATT ATT ATT ATT ACTT -TT ATT ATT ATT ATT AATT TTT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
85219024 TGACGTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.80
4 5 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:85231022 original size:43 final size:44
Alignment explanation
Indices: 85230974--85231065 Score: 114
Period size: 43 Copynumber: 2.1 Consensus size: 44
85230964 GCCTCAGCGA
* * * *
85230974 AGCAGATTGAAGTCACTAGCCTTATCTCCCTGAAGT-GCAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCACAGTGG
* * *
85231017 AGCAGACTGAAGTTACAAGTCTCATCTCCTTGAAGTCACAGTGG
1 AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCACAGTGG
85231061 AGCAG
1 AGCAG
85231066 GCTAAATTTA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 30 0.73
44 11 0.27
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.24
Consensus pattern (44 bp):
AGCAGACTGAAGTCACAAGCCTCATCTCCCTGAAGTCACAGTGG
Found at i:85231174 original size:86 final size:86
Alignment explanation
Indices: 85231063--85231497 Score: 645
Period size: 86 Copynumber: 5.0 Consensus size: 86
85231053 CACAGTGGAG
* * * * * *
85231063 CAGGCTAAATTTATAGATTTTAACCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTTA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
85231128 AACCCCTAAGCAGTAGGGTAA
66 AACCCCTAAGCAGTAGGGTAA
* * ** ** *
85231149 CAGGCTAAATTTACAGATCTCAACCCCTAAGCAGTAGGGAAACAGATCGAAGGCAATGAACCTCA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
* *
85231214 AACCCCTAAGTAGTAGGATAA
66 AACCCCTAAGCAGTAGGGTAA
* * * * * * *
85231235 CAAGTTAGATTTACAGATCTTAACCCCTAAACAGTAGGGAAACAGATTGAAGATGATGGGCCTTA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
*
85231300 AACCCCTAAGAAGTAGGGTAA
66 AACCCCTAAGCAGTAGGGTAA
*
85231321 CAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAATAGATAGAAGGTGATGGGCCTT
1 CAGGCTAAATTTACAGATCTTAA-CCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTT
85231386 AAACCCCTAAGCAGTAGGGTAA
65 AAACCCCTAAGCAGTAGGGTAA
85231408 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
85231473 AACCCCTAAGCAGTAGGGTAA
66 AACCCCTAAGCAGTAGGGTAA
85231494 CAGG
1 CAGG
85231498 TTGAAAATCG
Statistics
Matches: 312, Mismatches: 36, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
86 231 0.74
87 81 0.26
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (86 bp):
CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
AACCCCTAAGCAGTAGGGTAA
Found at i:85231448 original size:173 final size:172
Alignment explanation
Indices: 85231063--85231497 Score: 663
Period size: 173 Copynumber: 2.5 Consensus size: 172
85231053 CACAGTGGAG
* * * *
85231063 CAGGCTAAATTTATAGATTTTAACCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGAGTCTTA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGGGCCTTA
85231128 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCTAAGCAGTAGGGAAACA
66 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCTAAGCAGTAGGGAAACA
* *
85231193 GATCGAAGGCAATGAACCTCAAACCCCTAAGTAGTAGGATAA
131 GATAGAAGGCAATGAACCTCAAACCCCTAAGCAGTAGGATAA
* * * * *
85231235 CAAGTTAGATTTACAGATCTTAACCCCTAAACAGTAGGGAAACAGATTGAAGATGATGGGCCTTA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGGGCCTTA
* * *
85231300 AACCCCTAAGAAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAAT
66 AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAA-CCCCTAAGCAGTAGGGAAAC
** ** * *
85231365 AGATAGAAGGTGATGGGCCTTAAACCCCTAAGCAGTAGGGTAA
130 AGATAGAAGGCAATGAACCTCAAACCCCTAAGCAGTAGGATAA
* *
85231408 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATCGAAGGTGATGGGCCTTA
1 CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGGGCCTTA
85231473 AACCCCTAAGCAGTAGGGTAACAGG
66 AACCCCTAAGCAGTAGGGTAACAGG
85231498 TTGAAAATCG
Statistics
Matches: 234, Mismatches: 28, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
172 98 0.42
173 136 0.58
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (172 bp):
CAGGCTAAATTTACAGATCTTAACCCCTAAGCAGTAGGGAAATAGATTGAAGATGATGGGCCTTA
AACCCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTCAACCCCTAAGCAGTAGGGAAACA
GATAGAAGGCAATGAACCTCAAACCCCTAAGCAGTAGGATAA
Found at i:85231593 original size:68 final size:69
Alignment explanation
Indices: 85231512--85231639 Score: 179
Period size: 69 Copynumber: 1.9 Consensus size: 69
85231502 AAATCGAATA
* *
85231512 TCTTCTCCCTGAAATGGCGTTGGAGC-AGCT-AAAAGCCACAGCAGATCTCCTTGAAGTTTTAGC
1 TCTTCTCCCTGAAATGGCATTGGAACGA-CTAAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGC
85231575 GGATC
65 GGATC
* * * *
85231580 TCTTCTTCCTGAAATGGCATTGGAACGACTAAAAAGTCACAGCAGGTTTCCTTGAAGTTT
1 TCTTCTCCCTGAAATGGCATTGGAACGACTAAAAAGCCACAGCAGATCTCCTTGAAGTTT
85231640 CAGCTGAAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
68 25 0.48
69 27 0.52
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (69 bp):
TCTTCTCCCTGAAATGGCATTGGAACGACTAAAAAGCCACAGCAGATCTCCTTGAAGTTTTAGCG
GATC
Found at i:85233426 original size:2 final size:2
Alignment explanation
Indices: 85233379--85233415 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
85233369 CTTTTAATAC
85233379 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
85233416 TCTTTATATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:85234157 original size:18 final size:19
Alignment explanation
Indices: 85234134--85234176 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
85234124 ATATATTCTC
85234134 ATTATTATTATT-ACTTTT
1 ATTATTATTATTAACTTTT
*
85234152 ATTATTATTATTAATTTTT
1 ATTATTATTATTAACTTTT
85234171 ATTATT
1 ATTATT
85234177 TGACGTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTATTATTATTAACTTTT
Found at i:85234188 original size:3 final size:3
Alignment explanation
Indices: 85234134--85234176 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
85234124 ATATATTCTC
*
85234134 ATT ATT ATT ATT ACTT -TT ATT ATT ATT ATT AATT TTT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
85234177 TGACGTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.80
4 5 0.14
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:85234288 original size:24 final size:23
Alignment explanation
Indices: 85234244--85234300 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 23
85234234 TTTTACTTAT
* *
85234244 TTTCTTATTACTTAGTTATTTACG
1 TTTCTTATTACTCAGTAATTT-CG
85234268 TTTCTTATTCACTCA-TAATTTCG
1 TTTCTTATT-ACTCAGTAATTTCG
*
85234291 -TTATTATTAC
1 TTTCTTATTAC
85234301 GTATAAGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 2 0.07
22 7 0.24
23 2 0.07
24 14 0.48
25 4 0.14
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTCTTATTACTCAGTAATTTCG
Found at i:85236053 original size:31 final size:32
Alignment explanation
Indices: 85236015--85236077 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
85236005 ATAAAAAATT
*
85236015 ATAAAAATATTTAATTAA-A-TTAAAAAATGAA
1 ATAAAAATA-TTAAATAATATTTAAAAAATGAA
85236046 ATAAAAATATTAAATAATATTTAAAAAATGAA
1 ATAAAAATATTAAATAATATTTAAAAAATGAA
85236078 TTTAACCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 7 0.24
31 10 0.34
32 12 0.41
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (32 bp):
ATAAAAATATTAAATAATATTTAAAAAATGAA
Found at i:85236858 original size:24 final size:24
Alignment explanation
Indices: 85236831--85236877 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
85236821 TTTTGAAATA
85236831 TTTAAAAT-ATATATTTATATTATT
1 TTTAAAATAATAT-TTTATATTATT
**
85236855 TTTAATTTAATATTTTATATTAT
1 TTTAAAATAATATTTTATATTAT
85236878 ATATTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTAAAATAATATTTTATATTATT
Found at i:85236884 original size:27 final size:29
Alignment explanation
Indices: 85236832--85236901 Score: 76
Period size: 27 Copynumber: 2.5 Consensus size: 29
85236822 TTTGAAATAT
*
85236832 TTAAAA-TATATATTTATATTATTTTTA-A
1 TTAAAATTTTATA-TTATATTATTTTTATA
*
85236860 TTTAATATTTTATATTATA-TATTTTT-TA
1 -TTAAAATTTTATATTATATTATTTTTATA
85236888 TTAAAATTTTATAT
1 TTAAAATTTTATAT
85236902 ATAGGCACCT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
27 13 0.36
28 8 0.22
29 10 0.28
30 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (29 bp):
TTAAAATTTTATATTATATTATTTTTATA
Found at i:85236902 original size:29 final size:30
Alignment explanation
Indices: 85236838--85236903 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 30
85236828 ATATTTAAAA
*
85236838 TATATATTTATATTATTTTTAATTTAATATT
1 TATATA-TTATATTATTTTTAATTAAATATT
*
85236869 T-TATATTATA-TATTTTTTATTAAA-ATTT
1 TATATATTATATTATTTTTAATTAAATA-TT
85236897 TATATAT
1 TATATAT
85236904 AGGCACCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
27 1 0.03
28 15 0.48
29 10 0.32
30 4 0.13
31 1 0.03
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (30 bp):
TATATATTATATTATTTTTAATTAAATATT
Found at i:85242018 original size:19 final size:20
Alignment explanation
Indices: 85241984--85242021 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
85241974 TATCTATAAA
*
85241984 TATAATTAAGAAATAATATC
1 TATAAATAAGAAATAATATC
85242004 TATAAATAA-AAATAATAT
1 TATAAATAAGAAATAATAT
85242022 TTTAAATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
TATAAATAAGAAATAATATC
Found at i:85245012 original size:18 final size:20
Alignment explanation
Indices: 85244989--85245032 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
85244979 TGTGGGTAGG
85244989 CCGTGT-GATTA-CACATGC
1 CCGTGTGGATTAGCACATGC
* *
85245007 CCGTGTGGCTTAGGACATGC
1 CCGTGTGGATTAGCACATGC
85245027 CCGTGT
1 CCGTGT
85245033 CCTCAGCCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 4 0.18
20 12 0.55
ACGTcount: A:0.16, C:0.27, G:0.30, T:0.27
Consensus pattern (20 bp):
CCGTGTGGATTAGCACATGC
Found at i:85246049 original size:2 final size:2
Alignment explanation
Indices: 85246042--85246080 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
85246032 ATAATCATAG
85246042 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
85246081 TATATAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:85249883 original size:23 final size:23
Alignment explanation
Indices: 85249853--85249898 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
85249843 AAGCCTAGAA
85249853 AGCTTCTAAACTCTGACACATTT
1 AGCTTCTAAACTCTGACACATTT
85249876 AGCTTCTAAACTCTGACACATTT
1 AGCTTCTAAACTCTGACACATTT
85249899 CTCGACTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.35
Consensus pattern (23 bp):
AGCTTCTAAACTCTGACACATTT
Found at i:85255686 original size:59 final size:57
Alignment explanation
Indices: 85255594--85255762 Score: 216
Period size: 59 Copynumber: 2.9 Consensus size: 57
85255584 TATTTTTGAA
** *
85255594 ATTTTTGTTTAAATTATTTTTATATTGTTTCATTTAATAAAATAGAAGTTCTTTTAAAT
1 ATTTTTGTACAAATTA-TTTTATATTGTTTCATTTAATAAAATAG-AGTTATTTTAAAT
* * *
85255653 ATTTTTGTACAAATTATATTTATATTGTTTCATTCAATAAAAT--AGTTGTTTTGAAT
1 ATTTTTGTACAAATTAT-TTTATATTGTTTCATTTAATAAAATAGAGTTATTTTAAAT
* *
85255709 ATATTTGTACAAATTATTTTATATTGTTTCATTTAATAAATTAGGAGTTATTTT
1 ATTTTTGTACAAATTATTTTATATTGTTTCATTTAATAAAATA-GAGTTATTTT
85255763 GATGTAGATA
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
55 23 0.24
56 27 0.28
58 9 0.09
59 38 0.39
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.54
Consensus pattern (57 bp):
ATTTTTGTACAAATTATTTTATATTGTTTCATTTAATAAAATAGAGTTATTTTAAAT
Found at i:85265295 original size:40 final size:39
Alignment explanation
Indices: 85265200--85265327 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
85265190 TGCTGGAAAT
* * * *
85265200 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
85265239 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
85265279 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
85265319 TATATCCGG
1 TATATCCGG
85265328 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:85267227 original size:20 final size:22
Alignment explanation
Indices: 85267202--85267241 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
85267192 CTAAAACTTT
85267202 CATTT-ATTT-CACATTTCAAC
1 CATTTAATTTGCACATTTCAAC
*
85267222 CATTTAATTTGCATATTTCA
1 CATTTAATTTGCACATTTCA
85267242 CAAATTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 4 0.24
22 8 0.47
ACGTcount: A:0.30, C:0.20, G:0.03, T:0.47
Consensus pattern (22 bp):
CATTTAATTTGCACATTTCAAC
Found at i:85269784 original size:21 final size:18
Alignment explanation
Indices: 85269743--85269785 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 18
85269733 TTTTAGCTTG
85269743 AATTCTTATGAAATCGGA
1 AATTCTTATGAAATCGGA
*
85269761 AATTCATTCATGAATTCGGGA
1 AATTC-TT-ATGAAATC-GGA
85269782 AATT
1 AATT
85269786 TTTTTTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 2 0.10
20 7 0.33
21 7 0.33
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (18 bp):
AATTCTTATGAAATCGGA
Found at i:85272113 original size:17 final size:18
Alignment explanation
Indices: 85272071--85272119 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
85272061 AGTTGAAAAG
85272071 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
85272090 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
85272107 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
85272120 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:85273008 original size:40 final size:40
Alignment explanation
Indices: 85272942--85273092 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
85272932 AAATTGAATG
* * *
85272942 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
85272981 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
85273021 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
85273061 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
85273093 ACTTGATTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
39 16 0.17
40 77 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:85273106 original size:40 final size:40
Alignment explanation
Indices: 85272978--85273108 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
85272968 TATGCTGGAA
* * * *
85272978 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
* *
85273018 GTTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTT-
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
*
85273058 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACTTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-TTG
85273098 ATTATATCCGG
1 ATTATATCCGG
85273109 TTATATTCCG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.95
41 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGATTG
Found at i:85274540 original size:47 final size:47
Alignment explanation
Indices: 85274470--85275008 Score: 889
Period size: 47 Copynumber: 11.5 Consensus size: 47
85274460 GGGTGTTACA
* * *
85274470 GAAAGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
85274517 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * * * *
85274564 GAAAGTGCATAAATGAGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
85274611 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
85274658 GAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * *
85274705 GAAAGTGTATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
85274752 GAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * * *
85274799 GAAAGTGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
85274846 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
85274893 GAAAGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* *
85274940 GAAAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
*
85274987 GAAAGTGTATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
85275009 TCCCGAAGGG
Statistics
Matches: 458, Mismatches: 34, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 458 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.27
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT
Found at i:85274651 original size:22 final size:22
Alignment explanation
Indices: 85274623--85274698 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
85274613 AAGTGTATAT
85274623 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
85274645 ATGTGATGAATG-TGAAAGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
85274669 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
85274692 ATGTGAT
1 ATGTGAT
85274699 GAATGTGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:85274886 original size:22 final size:22
Alignment explanation
Indices: 85274858--85274933 Score: 73
Period size: 22 Copynumber: 3.3 Consensus size: 22
85274848 AAGTGTATAT
85274858 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * * *
85274880 ATGTGATGAATG-TGAAAGTGCATA
1 ATGTGAT-AAGGCCGAATG-GC-CA
85274904 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
85274927 ATGTGAT
1 ATGTGAT
85274934 GAATGTGAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:85287265 original size:16 final size:16
Alignment explanation
Indices: 85287246--85287277 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
85287236 TACATTCCAA
85287246 GTTAAGATAATTCCCT
1 GTTAAGATAATTCCCT
*
85287262 GTTAGGATAATTCCCT
1 GTTAAGATAATTCCCT
85287278 ATCACATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.38
Consensus pattern (16 bp):
GTTAAGATAATTCCCT
Found at i:85288060 original size:27 final size:27
Alignment explanation
Indices: 85288030--85288083 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
85288020 TCATACAACC
* *
85288030 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
85288057 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
85288084 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:85293789 original size:13 final size:14
Alignment explanation
Indices: 85293756--85293799 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
85293746 CAAAATCAAT
85293756 AAAATTTTCTTATC
1 AAAATTTTCTTATC
85293770 AAAATTTTCTTAT-
1 AAAATTTTCTTATC
*
85293783 GAAA-TTTC-TATC
1 AAAATTTTCTTATC
85293795 AAAAT
1 AAAAT
85293800 ACTAACCATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 3 0.12
14 13 0.50
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.45
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:85294600 original size:36 final size:36
Alignment explanation
Indices: 85294554--85294622 Score: 104
Period size: 35 Copynumber: 1.9 Consensus size: 36
85294544 ACCTTAATTT
85294554 ATTTTCTCTTAAACCCTAAAACAAACCATAAACCCTA
1 ATTTTCTCTTAAACCCT-AAACAAACCATAAACCCTA
* *
85294591 ATTTT-TCTTAAACCCTAAACTAACCCTAAACC
1 ATTTTCTCTTAAACCCTAAACAAACCATAAACC
85294623 TAAGCCCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 14 0.47
36 11 0.37
37 5 0.17
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.29
Consensus pattern (36 bp):
ATTTTCTCTTAAACCCTAAACAAACCATAAACCCTA
Found at i:85313835 original size:20 final size:21
Alignment explanation
Indices: 85313799--85313841 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
85313789 GCAACCAAAA
*
85313799 CATGCTATTTCATACACATTT
1 CATGCCATTTCATACACATTT
85313820 CATGCCATTT-ATACACATTT
1 CATGCCATTTCATACACATTT
85313840 CA
1 CA
85313842 CACGGGCGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.40
Consensus pattern (21 bp):
CATGCCATTTCATACACATTT
Found at i:85313838 original size:10 final size:11
Alignment explanation
Indices: 85313805--85313841 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
85313795 AAAACATGCT
85313805 ATTTCATACAC
1 ATTTCATACAC
*
85313816 ATTTCATGC-C
1 ATTTCATACAC
85313826 ATTT-ATACAC
1 ATTTCATACAC
85313836 ATTTCA
1 ATTTCA
85313842 CACGGGCGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 3 0.14
10 10 0.45
11 9 0.41
ACGTcount: A:0.32, C:0.24, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTTCATACAC
Done.