Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 41 of 49
Found at i:8488095 original size:43 final size:42
Alignment explanation
Indices: 8488041--8488213 Score: 233
Period size: 43 Copynumber: 4.1 Consensus size: 42
8488031 TATGAATCTT
* * * *
8488041 AAAAATGCCCCAACATTAATATTTATGGATGATATGGACCTTC
1 AAAAGTGCCCCAACATTAATACTTCT-GATGATACGGACCTTC
* * *
8488084 AAAATTTCCCCAACATTAATACTTCTGATGATACGAACCTTC
1 AAAAGTGCCCCAACATTAATACTTCTGATGATACGGACCTTC
*
8488126 CAAAGTGCCCCAACATTAATACTTCTG--GATACGGACCTTC
1 AAAAGTGCCCCAACATTAATACTTCTGATGATACGGACCTTC
*
8488166 AAAAGTGCCCCAAAATTAATACTTCTGGATGATACGGACCTTC
1 AAAAGTGCCCCAACATTAATACTTCT-GATGATACGGACCTTC
8488209 AAAAG
1 AAAAG
8488214 ATGTCCCAGT
Statistics
Matches: 115, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
40 36 0.31
41 1 0.01
42 38 0.33
43 40 0.35
ACGTcount: A:0.36, C:0.24, G:0.13, T:0.27
Consensus pattern (42 bp):
AAAAGTGCCCCAACATTAATACTTCTGATGATACGGACCTTC
Found at i:8489601 original size:15 final size:16
Alignment explanation
Indices: 8489576--8489605 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8489566 CTTGATTTAT
8489576 TTTCTCTTTTTTTTCA
1 TTTCTCTTTTTTTTCA
8489592 TTTC-CTTTTTTTTC
1 TTTCTCTTTTTTTTC
8489606 TTTATATGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTCTCTTTTTTTTCA
Found at i:8495289 original size:21 final size:21
Alignment explanation
Indices: 8495263--8495307 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8495253 GATTTCTGGG
* *
8495263 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
8495284 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
8495305 CAA
1 CAA
8495308 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:8496003 original size:21 final size:22
Alignment explanation
Indices: 8495974--8496017 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
8495964 GTTGTATGAT
8495974 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
8495995 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
8496017 A
1 A
8496018 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:8497170 original size:144 final size:143
Alignment explanation
Indices: 8496901--8497194 Score: 502
Period size: 144 Copynumber: 2.0 Consensus size: 143
8496891 GAGTCGAGGG
8496901 TCTACGCGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACATA
1 TCTACGCGTTCTTCGAGACATATG-ATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACATA
* *
8496966 CTTGATCCCTAGCATATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTATATGG
65 CTTGATCCCTAGCATATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATATGG
8497031 CACTACGGTGCAAT
130 CACTACGGTGCAAT
* *
8497045 TCTACGCGATTCTTCGGGACATATG-TATTC-TTGGAACATGTGTGAAGTCTGGAAAGACACATA
1 TCTACGCG-TTCTTCGAGACATATGATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACATA
8497108 CTTGATCCCTAGCATATGTATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATAT
65 CTTGATCCCTAGCATA--TATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATAT
8497173 GGCACTACGGTGCAAT
128 GGCACTACGGTGCAAT
8497189 TCTACG
1 TCTACG
8497195 GGGCACTTCG
Statistics
Matches: 143, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
142 48 0.34
143 5 0.03
144 75 0.52
145 15 0.10
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (143 bp):
TCTACGCGTTCTTCGAGACATATGATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACATAC
TTGATCCCTAGCATATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATATGGC
ACTACGGTGCAAT
Found at i:8499428 original size:16 final size:16
Alignment explanation
Indices: 8499407--8499447 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
8499397 GGTAATTAAA
8499407 GATTGATAAAGAATTT
1 GATTGATAAAGAATTT
* *
8499423 GATTGATTAAGGATTT
1 GATTGATAAAGAATTT
*
8499439 GAGTGATAA
1 GATTGATAA
8499448 GAACTGATGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (16 bp):
GATTGATAAAGAATTT
Found at i:8500957 original size:18 final size:18
Alignment explanation
Indices: 8500934--8500968 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
8500924 CTAGGAGATT
8500934 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
8500952 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
8500969 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:8502113 original size:148 final size:146
Alignment explanation
Indices: 8501934--8502233 Score: 512
Period size: 148 Copynumber: 2.0 Consensus size: 146
8501924 GAGTCGAGGG
8501934 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* * *
8501999 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCC-TATGGACATTATTA
66 ACTTGAT-CCTAACATATG--TATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
8502063 TATGGCACTACGGTGCAAT
128 TATGGCACTACGGTGCAAT
* *
8502082 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
*
8502147 ACTTGATCCTAACATATGTATGATTCTTAAAGAATTCTACGTTGTCCTTATGGACATCATTATAT
66 ACTTGATCCTAACATATGTATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATAT
8502212 GGCACTACGGTGCAAT
131 GGCACTACGGTGCAAT
8502228 TCTACG
1 TCTACG
8502234 GGCACTTCGG
Statistics
Matches: 145, Mismatches: 6, Indels: 4
0.94 0.04 0.03
Matches are distributed among these distances:
145 27 0.19
146 38 0.26
147 10 0.07
148 70 0.48
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (146 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCTAACATATGTATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTATAT
GGCACTACGGTGCAAT
Found at i:8502255 original size:22 final size:22
Alignment explanation
Indices: 8502212--8502255 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8502202 ATCATTATAT
*
8502212 GGCACTACGGTGCAATTCTACG
1 GGCACTACGGTGCAATTATACG
* *
8502234 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
8502256 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.20, C:0.25, G:0.27, T:0.27
Consensus pattern (22 bp):
GGCACTACGGTGCAATTATACG
Found at i:8503661 original size:23 final size:23
Alignment explanation
Indices: 8503632--8503693 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
8503622 CCTGATATGC
8503632 GGGGTTACTTACTGGGCCTTGAA
1 GGGGTTACTTACTGGGCCTTGAA
8503655 GGGGTTACTTACTGGGCCTTGAA
1 GGGGTTACTTACTGGGCCTTGAA
*
8503678 -GGGTTCACTTGCTGGG
1 GGGGTT-ACTTACTGGG
8503694 TCAGGCTCGT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
22 5 0.14
23 32 0.86
ACGTcount: A:0.15, C:0.18, G:0.37, T:0.31
Consensus pattern (23 bp):
GGGGTTACTTACTGGGCCTTGAA
Found at i:8503855 original size:78 final size:77
Alignment explanation
Indices: 8503771--8504097 Score: 235
Period size: 78 Copynumber: 4.1 Consensus size: 77
8503761 AATACTATAT
* * * * *
8503771 TTATTTTCAAACTACATTATATATATGTGTTCTAAAATATATTATTTTGAAAA-ATATTATATAT
1 TTATTTTCAAACTATATTATATATATATATT-T-AAA-A-ATTATTTTCAAAACATACTATATAT
8503835 ATATA-TTGTCC-AAA
62 ATATATTTGTCCAAAA
*
8503849 TTATTTTCAAACTATATTATATATATATATTTTAAAATTATTTTCAAAACTATACTATATATATA
1 TTATTTTCAAACTATATTATATATATATATTTAAAAATTATTTTCAAAAC-ATACTATATATATA
*
8503914 TATTTTTCCAAAA
65 TATTTGTCCAAAA
8503927 TTATTTTCAAAACTATACTATATATATATATATATATATATTTCCAAATTATTTTCAAAACTATA
1 TTATTTTC-AAACTATA-T-TATATATATATAT-T-TA-A-----AAATTATTTTCAAAAC-ATA
8503992 CTATATATAT-T-TTT-T--AAAA
54 CTATATATATATATTTGTCCAAAA
* ** * *
8504011 TTATTTTTAAAACTATGCTATATATATATATATATATTTCCAAATTATTTTTAAAATTATACTAT
1 TTA-TTTT-CAA--A--CTATAT-TATATATATATATTTAAAAATTATTTTCAAAA-CATACTAT
*
8504076 ATATAT-T-TTTTTCC-AAA
58 ATATATATATTTGTCCAAAA
8504093 TTATT
1 TTATT
8504098 AAATATATAA
Statistics
Matches: 211, Mismatches: 13, Indels: 47
0.78 0.05 0.17
Matches are distributed among these distances:
74 12 0.06
75 1 0.00
76 17 0.08
77 6 0.03
78 39 0.18
79 8 0.04
80 32 0.15
81 16 0.08
82 7 0.03
83 1 0.00
84 8 0.04
85 6 0.03
86 2 0.01
87 5 0.02
88 16 0.08
89 35 0.17
ACGTcount: A:0.41, C:0.09, G:0.02, T:0.49
Consensus pattern (77 bp):
TTATTTTCAAACTATATTATATATATATATTTAAAAATTATTTTCAAAACATACTATATATATAT
ATTTGTCCAAAA
Found at i:8503866 original size:38 final size:38
Alignment explanation
Indices: 8503811--8504097 Score: 235
Period size: 38 Copynumber: 7.2 Consensus size: 38
8503801 TCTAAAATAT
* * *
8503811 ATTATTTTGAAA-AATATTATATATATATATTGTCCAA
1 ATTATTTTCAAACTATATTATATATATATATTTTCCAA
*
8503848 ATTATTTTCAAACTATATTATATATATATATTTT-AAA
1 ATTATTTTCAAACTATATTATATATATATATTTTCCAA
*
8503885 ATTATTTTCAAAACTATACTATATATATATATTTTTCCAAA
1 ATTATTTTC-AAACTATATTATATATATATA-TTTTCC-AA
8503926 ATTATTTTCAAAACTATACTATATATATATATATATATATATTTCCAA
1 ATTATTTTC---A--A-AC--TATAT-TATATATATATAT-TTTCCAA
* *
8503974 ATTATTTTCAAAACTATACTATATATAT-T-TTTT-AAA
1 ATTATTTTC-AAACTATATTATATATATATATTTTCCAA
*
8504010 ATTATTTTTAAAACTATGCTATATATATATATATATATTTCCAA
1 ATTA-TTTTCAAACTA---TAT-TATATATATATAT-TTTCCAA
* * * *
8504054 ATTATTTTTAAAATTATACTATATATAT-TTTTTTCCAA
1 ATTA-TTTTCAAACTATATTATATATATATATTTTCCAA
8504092 ATTATT
1 ATTATT
8504098 AAATATATAA
Statistics
Matches: 212, Mismatches: 15, Indels: 46
0.78 0.05 0.17
Matches are distributed among these distances:
36 12 0.06
37 31 0.15
38 51 0.24
39 9 0.04
40 27 0.13
41 18 0.08
42 1 0.00
43 7 0.03
44 18 0.08
45 1 0.00
46 4 0.02
48 16 0.08
49 17 0.08
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.49
Consensus pattern (38 bp):
ATTATTTTCAAACTATATTATATATATATATTTTCCAA
Found at i:8503908 original size:36 final size:36
Alignment explanation
Indices: 8503811--8504039 Score: 183
Period size: 36 Copynumber: 5.8 Consensus size: 36
8503801 TCTAAAATAT
* * **
8503811 ATTATTTTGAAAAATATTA-TATATATATATTGTCCAA
1 ATTATTTTCAAAACTA-TACTATATATATATT-TTAAA
*
8503848 ATTATTTTC-AAACTATATTATATATATATATTTTAAA
1 ATTATTTTCAAAACTATA--CTATATATATATTTTAAA
8503885 ATTATTTTCAAAACTATACTATATATATATATTTTTCCAAA
1 ATTATTTTCAAAACTATAC--TATATATATA-TTTT--AAA
8503926 ATTATTTTCAAAACTATACTATATATATATATATATATATATTTCCAA
1 ATTATTTTCAAAACTATAC----TATATATATAT-T-T-TA-----AA
*
8503974 ATTATTTTCAAAACTATACTATATATATTTTTTAAA
1 ATTATTTTCAAAACTATACTATATATATATTTTAAA
* *
8504010 ATTATTTTTAAAACTATGCTATATATATAT
1 ATTATTTTCAAAACTATACTATATATATAT
8504040 ATATATATTT
Statistics
Matches: 164, Mismatches: 9, Indels: 39
0.77 0.04 0.18
Matches are distributed among these distances:
35 2 0.01
36 34 0.21
37 20 0.12
38 30 0.18
39 4 0.02
41 24 0.15
42 2 0.01
43 15 0.09
44 11 0.07
45 1 0.01
48 21 0.13
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.48
Consensus pattern (36 bp):
ATTATTTTCAAAACTATACTATATATATATTTTAAA
Found at i:8504011 original size:125 final size:128
Alignment explanation
Indices: 8503824--8504082 Score: 395
Period size: 127 Copynumber: 2.0 Consensus size: 128
8503814 ATTTTGAAAA
*
8503824 ATATTATATATATATATTGTCCAAATTATTTTCAAACTATATTATATATATATATTTTAAAATTA
1 ATATTATATATATATATTGTCCAAATTATTTTCAAACTATACTATATATATATATTTTAAAATTA
8503889 TTTTCAAAACTATAC-TATATATATATAT-T-TTTCCAAAATTATTTTCAAAACTATACTATAT
66 TTTTCAAAACTATACATATATATATATATATATTTCC-AAATTATTTTCAAAACTATACTATAT
8503950 ATATATATATATATATATT-TCCAAATTATTTTCAAAACTATACTATATATAT-T-TTTTAAAAT
1 ATAT-TATATATATATATTGTCCAAATTATTTTC-AAACTATACTATATATATATATTTTAAAAT
* * * *
8504012 TATTTTTAAAACTATGCTATATATATATATATATATTTCCAAATTATTTTTAAAATTATACTATA
64 TATTTTCAAAACTATAC-ATATATATATATATATATTTCCAAATTATTTTCAAAACTATACTATA
8504077 T
128 T
8504078 ATATT
1 ATATT
8504083 TTTTTCCAAA
Statistics
Matches: 122, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
125 24 0.20
126 19 0.16
127 45 0.37
128 29 0.24
129 5 0.04
ACGTcount: A:0.42, C:0.08, G:0.01, T:0.49
Consensus pattern (128 bp):
ATATTATATATATATATTGTCCAAATTATTTTCAAACTATACTATATATATATATTTTAAAATTA
TTTTCAAAACTATACATATATATATATATATATTTCCAAATTATTTTCAAAACTATACTATAT
Found at i:8504082 original size:80 final size:81
Alignment explanation
Indices: 8503811--8504097 Score: 322
Period size: 80 Copynumber: 3.5 Consensus size: 81
8503801 TCTAAAATAT
* * * * *
8503811 ATTATTTTGAAAAATATTA-TATATATATATTGTCCAAATTATTTTC-AAAC--TA-TAT-TATA
1 ATTATTTTCAAAACTA-TACTATATATATTTTTTCAAAATTATTTTCAAAACTATACTATATATA
*
8503870 TATATATAT-TTT-AAA
65 TATATATATATTTCCAA
8503885 ATTATTTTCAAAACTATACTATATATATATATTTTTCCAAAATTATTTTCAAAACTATACTATAT
1 ATTATTTTCAAAACTATAC--TATATATAT-TTTTT-CAAAATTATTTTCAAAACTATAC----T
8503950 ATATATATATATATATATTTCCAA
58 ATATATATATATATATATTTCCAA
* *
8503974 ATTATTTTCAAAACTATACTATATATATTTTTT-AAAATTATTTTTAAAACTATGCTATATATAT
1 ATTATTTTCAAAACTATACTATATATATTTTTTCAAAATTATTTTCAAAACTATACTATATATAT
8504038 ATATATATATTTCCAA
66 ATATATATATTTCCAA
* * *
8504054 ATTATTTTTAAAATTATACTATATATATTTTTTTCCAAATTATT
1 ATTATTTTCAAAACTATACTATATATA-TTTTTTCAAAATTATT
8504098 AAATATATAA
Statistics
Matches: 184, Mismatches: 11, Indels: 28
0.83 0.05 0.13
Matches are distributed among these distances:
73 2 0.01
74 14 0.08
76 9 0.05
77 3 0.02
78 12 0.07
79 4 0.02
80 50 0.27
81 8 0.04
82 8 0.04
84 20 0.11
86 8 0.04
87 22 0.12
88 3 0.02
89 21 0.11
ACGTcount: A:0.41, C:0.08, G:0.01, T:0.49
Consensus pattern (81 bp):
ATTATTTTCAAAACTATACTATATATATTTTTTCAAAATTATTTTCAAAACTATACTATATATAT
ATATATATATTTCCAA
Found at i:8507023 original size:30 final size:30
Alignment explanation
Indices: 8506987--8507053 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
8506977 CTACAGGTCG
*
8506987 AATGAAGGTTGCCGGGTGGTCTGGGCGACC
1 AATGAAGGTCGCCGGGTGGTCTGGGCGACC
*
8507017 AATGAAGGTCGTCGGGTGGTCTGGGCGACC
1 AATGAAGGTCGCCGGGTGGTCTGGGCGACC
8507047 AATGAAG
1 AATGAAG
8507054 TGGTCTGGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.21, C:0.18, G:0.42, T:0.19
Consensus pattern (30 bp):
AATGAAGGTCGCCGGGTGGTCTGGGCGACC
Found at i:8508552 original size:24 final size:24
Alignment explanation
Indices: 8508520--8508568 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8508510 ATGGGATGAA
8508520 CTTGAGAGATTGAAGAAAAACCTC
1 CTTGAGAGATTGAAGAAAAACCTC
8508544 CTTGAGAGATTGAAGAAAAACCTC
1 CTTGAGAGATTGAAGAAAAACCTC
8508568 C
1 C
8508569 AAAAGCCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.20
Consensus pattern (24 bp):
CTTGAGAGATTGAAGAAAAACCTC
Found at i:8509610 original size:145 final size:143
Alignment explanation
Indices: 8509352--8509636 Score: 525
Period size: 145 Copynumber: 2.0 Consensus size: 143
8509342 AAATCAAGCA
8509352 CACAAATTAATTAGCTTCACTCTGGGGATTTGAACTGTGTTACTGATCTTTTGATGTTTAAAGCA
1 CACAAATTAATTAGCTTCACTCTGGGGATTTGAACTGTGTTACTGATCTTTTGATGTTTAAAGCA
8509417 ACTTAGAAGTCCAAAATTAGTTCCAGAACCAGTTCGTCTTCATTTCTATCAGGATTTAAATTGTG
66 ACTTAGAAGTCCAAAATTAGTTCCAGAACCAGTTCGTCTTCATTTCTATCAGGATTTAAATTGTG
8509482 GTTGTTGCGTAAG
131 GTTGTTGCGTAAG
*
8509495 CACAAATTAATTAGCTTCACTCTGGGGGATTTGAACTGTGTTACTGATCTTTTTGATGTTTAAGG
1 CACAAATTAATTAGCTTCACTCT-GGGGATTTGAACTGTGTTACTGATC-TTTTGATGTTTAAAG
* *
8509560 CAACTTAGAAGTCTACAATTAGTTCCAGAACCAGTTCGTCTTCATTTCTATCAGGATTTAAATTG
64 CAACTTAGAAGTCCAAAATTAGTTCCAGAACCAGTTCGTCTTCATTTCTATCAGGATTTAAATTG
8509625 TGGTTGTTGCGT
129 TGGTTGTTGCGT
8509637 GAGTTTATCG
Statistics
Matches: 137, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
143 23 0.17
144 25 0.18
145 89 0.65
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (143 bp):
CACAAATTAATTAGCTTCACTCTGGGGATTTGAACTGTGTTACTGATCTTTTGATGTTTAAAGCA
ACTTAGAAGTCCAAAATTAGTTCCAGAACCAGTTCGTCTTCATTTCTATCAGGATTTAAATTGTG
GTTGTTGCGTAAG
Found at i:8512954 original size:17 final size:18
Alignment explanation
Indices: 8512922--8512955 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8512912 ATTAGGTTTT
*
8512922 TTAGATTATGAGTTTAAA
1 TTAGATTATAAGTTTAAA
8512940 TTAGATT-TAAGTTTAA
1 TTAGATTATAAGTTTAA
8512956 GGTGAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (18 bp):
TTAGATTATAAGTTTAAA
Found at i:8513731 original size:38 final size:39
Alignment explanation
Indices: 8513651--8513744 Score: 115
Period size: 38 Copynumber: 2.4 Consensus size: 39
8513641 TTTCATAAAT
8513651 ATATTTA-TTTATTGATTCATTTATTGAAAATAATATTAA
1 ATATTTATTTTATT-ATTCATTTATTGAAAATAATATTAA
*
8513690 ATATTTATTTTATT-TT-ATTTATTTATAAATAACTATT-A
1 ATATTTATTTTATTATTCATTTATTGA-AAATAA-TATTAA
8513728 ATATTTATTTTGATTAT
1 ATATTTATTTT-ATTAT
8513745 GTTACATTTA
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
37 8 0.16
38 20 0.41
39 14 0.29
40 7 0.14
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.57
Consensus pattern (39 bp):
ATATTTATTTTATTATTCATTTATTGAAAATAATATTAA
Found at i:8514034 original size:59 final size:59
Alignment explanation
Indices: 8513898--8514036 Score: 172
Period size: 59 Copynumber: 2.3 Consensus size: 59
8513888 ATCATGTCCT
* * * * * *
8513898 CAAAGTATAACCTTCATTTTAAGTTGGTGTTTAAACTTTTAAATATTTCATTTTCATCTC
1 CAAACTATAA-CTTCATTCTAAGTTAGTCTTTAAACTTTTAAATATTTCAATTTCATCCC
* *
8513958 CAAACTATGACTATCATTCTAA-TTAGTCTTTAAACTTTTGAATATTTCAATTTCATCCC
1 CAAACTATAACT-TCATTCTAAGTTAGTCTTTAAACTTTTAAATATTTCAATTTCATCCC
8514017 CAAACTATAACATTCATTCT
1 CAAACTATAAC-TTCATTCT
8514037 GAAATGGTCC
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
59 51 0.75
60 17 0.25
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.43
Consensus pattern (59 bp):
CAAACTATAACTTCATTCTAAGTTAGTCTTTAAACTTTTAAATATTTCAATTTCATCCC
Found at i:8515631 original size:15 final size:15
Alignment explanation
Indices: 8515592--8515633 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
8515582 TACAGAGTCT
8515592 CTTAATCATTCAGCA
1 CTTAATCATTCAGCA
* *
8515607 TTTGAATCATTCAGCG
1 CTT-AATCATTCAGCA
8515623 CTTAATCATTC
1 CTTAATCATTC
8515634 TGAAGTAAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (15 bp):
CTTAATCATTCAGCA
Found at i:8516685 original size:38 final size:38
Alignment explanation
Indices: 8516634--8516731 Score: 171
Period size: 38 Copynumber: 2.6 Consensus size: 38
8516624 TCAATGAAAA
8516634 AAAGCCTAAGGGCATTGTTGGTTCGTTAATATGCTCTC
1 AAAGCCTAAGGGCATTGTTGGTTCGTTAATATGCTCTC
8516672 AAAGCCTAAGGGCATTGTTGGTTCGTTAATATGCTCTC
1 AAAGCCTAAGGGCATTGTTGGTTCGTTAATATGCTCTC
*
8516710 AAAGCTTAAGGGC-TTGGTTGGT
1 AAAGCCTAAGGGCATT-GTTGGT
8516732 CCATAACTCG
Statistics
Matches: 58, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
37 2 0.03
38 56 0.97
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (38 bp):
AAAGCCTAAGGGCATTGTTGGTTCGTTAATATGCTCTC
Found at i:8525812 original size:39 final size:39
Alignment explanation
Indices: 8525769--8525886 Score: 127
Period size: 40 Copynumber: 3.1 Consensus size: 39
8525759 AAGTTAAAAA
8525769 AATAATTTAGATTGTTAGGATGAAATAATTTAAGAAATT
1 AATAATTTAGATTGTTAGGATGAAATAATTTAAGAAATT
* *
8525808 AATAATTTAG-TATGTTA-TAGTGAAATAATTTTAAAAAATT
1 AATAATTTAGAT-TGTTAGGA-TGAAATAA-TTTAAGAAATT
* * * *
8525848 AAGAATTTAAAATGTTAGGGTGAAATAATTT--GAAATT
1 AATAATTTAGATTGTTAGGATGAAATAATTTAAGAAATT
8525885 AA
1 AA
8525887 AAATCTAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
37 7 0.11
38 2 0.03
39 26 0.39
40 31 0.47
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.38
Consensus pattern (39 bp):
AATAATTTAGATTGTTAGGATGAAATAATTTAAGAAATT
Found at i:8529531 original size:32 final size:33
Alignment explanation
Indices: 8529469--8529549 Score: 103
Period size: 32 Copynumber: 2.5 Consensus size: 33
8529459 ATTCCCATTT
* *
8529469 ACTTCACTTCATAAAATTTTCCAGTGATATATA
1 ACTTCATTTCAGAAAATTTTCCAGTGATATATA
* *
8529502 ACTTCATTTCAGAAACTTTT-CAGTGATATATT
1 ACTTCATTTCAGAAAATTTTCCAGTGATATATA
8529534 ACTTCAGTTT-AGAAAA
1 ACTTCA-TTTCAGAAAA
8529550 AAACTTCCTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
32 22 0.52
33 20 0.48
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.40
Consensus pattern (33 bp):
ACTTCATTTCAGAAAATTTTCCAGTGATATATA
Found at i:8529636 original size:142 final size:141
Alignment explanation
Indices: 8529344--8529794 Score: 520
Period size: 142 Copynumber: 3.2 Consensus size: 141
8529334 TTGATGATAG
* * * * *** * * * *
8529344 AAACGTTTAAGTGATATATCACTTCATTT-AAAAAAAATTCAATGATATATAACTTTATTTCAG-
1 AAACTTTTCAGTGATATATAACTTCATTTCAGAAACTTTTCAGTAATATATCACTTCATTTCAGA
* *
8529407 -AAAAACGTCCTTTTCTCAGACACCATTTAATGCACAATGA-AAAAACTTTTCAATTCCCATTTA
66 AAAAAACGTCCTTTTCTCATACACCATTTAATGCACAATGACAAAAACTTTTCAATTCCCAATTA
8529470 CTTCACTTCATA
131 CTTCACTTCA-A
* *
8529482 AAA-TTTTCCAGTGATATATAACTTCATTTCAGAAACTTTTCAGTGATATATTACTTCAGTTT-A
1 AAACTTTT-CAGTGATATATAACTTCATTTCAGAAACTTTTCAGTAATATATCACTTCA-TTTCA
* * * *
8529545 GAAAAAAACTTCCTTTTTCTCATACACCATTTAATGCACAATGACAAAAAATTTTCAGTGCCCAA
64 GAAAAAAACGTCC-TTTTCTCATACACCATTTAATGCACAATGACAAAAACTTTTCAATTCCCAA
*
8529610 TTACTTAACTTCAA
128 TTACTTCACTTCAA
* * *
8529624 AAACTTTTCAGTGATATATAACTTCATTTCAGAAATTTTTTAGTAATATATCACTTTATTTCAGA
1 AAACTTTTCAGTGATATATAACTTCATTTCAGAAACTTTTCAGTAATATATCACTTCATTTCAGA
* * * * * **
8529689 AAAAAACGTCCTTTTATCATACGCCATTTAATACATAATGAC-AAAACTTTTCAATTCCTAACCA
66 AAAAAACGTCCTTTTCTCATACACCATTTAATGCACAATGACAAAAACTTTTCAATTCCCAATTA
*
8529753 CTTCATTTCAA
131 CTTCACTTCAA
* *
8529764 AAACTTTTTAGTGATATATCACTTCATTTCA
1 AAACTTTTCAGTGATATATAACTTCATTTCA
8529795 ATGTTATATC
Statistics
Matches: 267, Mismatches: 37, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
137 3 0.01
138 22 0.08
139 23 0.09
140 57 0.21
141 39 0.15
142 91 0.34
143 32 0.12
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (141 bp):
AAACTTTTCAGTGATATATAACTTCATTTCAGAAACTTTTCAGTAATATATCACTTCATTTCAGA
AAAAAACGTCCTTTTCTCATACACCATTTAATGCACAATGACAAAAACTTTTCAATTCCCAATTA
CTTCACTTCAA
Found at i:8529685 original size:32 final size:32
Alignment explanation
Indices: 8529619--8529690 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
8529609 ATTACTTAAC
* *
8529619 TTCAAAAACTTTTCAGTGATATATAACTTCAT
1 TTCAGAAACTTTTCAGTAATATATAACTTCAT
* * * *
8529651 TTCAGAAATTTTTTAGTAATATATCACTTTAT
1 TTCAGAAACTTTTCAGTAATATATAACTTCAT
8529683 TTCAGAAA
1 TTCAGAAA
8529691 AAAACGTCCT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (32 bp):
TTCAGAAACTTTTCAGTAATATATAACTTCAT
Found at i:8530578 original size:36 final size:36
Alignment explanation
Indices: 8530532--8530642 Score: 152
Period size: 36 Copynumber: 3.1 Consensus size: 36
8530522 GTTTAAGGTG
* * * *
8530532 TGTGTAAGGTTTGTTGTATTTATGTCCTTAACGTAA
1 TGTGTTAGGTTTGTTGTTTTTATCTCCTTAATGTAA
*
8530568 TGTGTTAGGTTTGTTGTTTTTATCTTCTTAATGTAA
1 TGTGTTAGGTTTGTTGTTTTTATCTCCTTAATGTAA
*
8530604 TGT-TTATGGTTTGTTGTTTTTATCTCCTTATTGTAA
1 TGTGTTA-GGTTTGTTGTTTTTATCTCCTTAATGTAA
8530640 TGT
1 TGT
8530643 TCTATGTTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 3 0.04
36 64 0.96
ACGTcount: A:0.17, C:0.07, G:0.20, T:0.56
Consensus pattern (36 bp):
TGTGTTAGGTTTGTTGTTTTTATCTCCTTAATGTAA
Found at i:8536331 original size:18 final size:18
Alignment explanation
Indices: 8536308--8536346 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
8536298 AAATGCCATG
8536308 GCATTTCAGTCTGCTTCA
1 GCATTTCAGTCTGCTTCA
8536326 GCATTTCAGTCTGCTTCA
1 GCATTTCAGTCTGCTTCA
8536344 GCA
1 GCA
8536347 ACATGTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.18, C:0.28, G:0.18, T:0.36
Consensus pattern (18 bp):
GCATTTCAGTCTGCTTCA
Found at i:8544274 original size:12 final size:12
Alignment explanation
Indices: 8544241--8544266 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8544231 TAGTCGTCAA
8544241 CCAAATCCTCCT
1 CCAAATCCTCCT
8544253 CCAAATCCTCCT
1 CCAAATCCTCCT
8544265 CC
1 CC
8544267 TATTCCTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.54, G:0.00, T:0.23
Consensus pattern (12 bp):
CCAAATCCTCCT
Found at i:8545199 original size:12 final size:12
Alignment explanation
Indices: 8545183--8545212 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
8545173 AAGATGAACC
8545183 AGAGCAGCCCGA
1 AGAGCAGCCCGA
*
8545195 GGAGCAGCCCGA
1 AGAGCAGCCCGA
8545207 AGAGCA
1 AGAGCA
8545213 AGCACAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.37, T:0.00
Consensus pattern (12 bp):
AGAGCAGCCCGA
Found at i:8545863 original size:13 final size:14
Alignment explanation
Indices: 8545845--8545874 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
8545835 TAAGGGGGAG
8545845 TAATTTCAAAA-CT
1 TAATTTCAAAATCT
8545858 TAATTTCAAAATCT
1 TAATTTCAAAATCT
8545872 TAA
1 TAA
8545875 AATTACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATTTCAAAATCT
Found at i:8554048 original size:38 final size:38
Alignment explanation
Indices: 8553929--8554054 Score: 107
Period size: 38 Copynumber: 3.3 Consensus size: 38
8553919 ATAACATTAT
* *
8553929 AAACTTAAAGTTTAATAGAATCAAATTAGATTGAGTTC
1 AAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTA
* * * **
8553967 AAACATTAAATATTGAATATTGAA--ATATTATA-ACA-TTA
1 AAAC-TTAAA-ATTTAATA--GAATCAAATTAGATTGAGTTA
8554005 TAAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTA
1 -AAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTA
*
8554044 AAACTTTAAAT
1 AAACTTAAAAT
8554055 ATTGAATATT
Statistics
Matches: 66, Mismatches: 13, Indels: 18
0.68 0.13 0.19
Matches are distributed among these distances:
35 3 0.05
37 13 0.20
38 22 0.33
39 13 0.20
40 12 0.18
42 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.36
Consensus pattern (38 bp):
AAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTA
Found at i:8554063 original size:77 final size:77
Alignment explanation
Indices: 8553841--8554066 Score: 371
Period size: 77 Copynumber: 2.9 Consensus size: 77
8553831 GAAAATACAA
* ** *
8553841 TATAACATTATAAAATTAAAAACTAATAGAACCAAATTAGATTGAGTTCAAACTTTAAATATTGA
1 TATAACATTATAAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTCAAACTTTAAATATTGA
* *
8553906 ATAGTGGAATAT
66 ATATTGAAATAT
* *
8553918 TATAACATTATAAACTTAAAGTTTAATAGAATCAAATTAGATTGAGTTCAAACATTAAATATTGA
1 TATAACATTATAAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTCAAACTTTAAATATTGA
8553983 ATATTGAAATAT
66 ATATTGAAATAT
*
8553995 TATAACATTATAAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTAAAACTTTAAATATTGA
1 TATAACATTATAAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTCAAACTTTAAATATTGA
8554060 ATATTGA
66 ATATTGA
8554067 GATCCGAACT
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
77 138 1.00
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (77 bp):
TATAACATTATAAACTTAAAATTTAATAGAATCAAATTAGATTGAGTTCAAACTTTAAATATTGA
ATATTGAAATAT
Found at i:8557529 original size:6 final size:6
Alignment explanation
Indices: 8557484--8557547 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
8557474 TAAGTGCGCA
* * * * *
8557484 TATCAA TATCAT TATCAT CATCAA TATCAT T-TCAA CATCAT TATCAT
1 TATCAT TATCAT TATCAT TATCAT TATCAT TATCAT TATCAT TATCAT
* *
8557531 TGTCAC TATCAT TATCA
1 TATCAT TATCAT TATCA
8557548 CTGTTCAATA
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
5 3 0.07
6 41 0.93
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.41
Consensus pattern (6 bp):
TATCAT
Found at i:8557725 original size:46 final size:46
Alignment explanation
Indices: 8557675--8557771 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
8557665 AAGTACCACA
*
8557675 TAGAAATGTCCCGAAGGACCACATAAAATTGTCCCGAAGGACCGTG
1 TAGAAATGTCCCGAAGGACCACATAAAATTGTCCCGAAGGACCGCG
* * *
8557721 TAGAAATGTCCTGAAGGACTACATAGAATTGTCCCGAAGGACCGCG
1 TAGAAATGTCCCGAAGGACCACATAAAATTGTCCCGAAGGACCGCG
8557767 TAGAA
1 TAGAA
8557772 CCCTCGACTC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (46 bp):
TAGAAATGTCCCGAAGGACCACATAAAATTGTCCCGAAGGACCGCG
Found at i:8557771 original size:23 final size:23
Alignment explanation
Indices: 8557662--8557763 Score: 125
Period size: 23 Copynumber: 4.4 Consensus size: 23
8557652 ATAAATTACA
*
8557662 CCGAAGTACCACATAGAAATGTC
1 CCGAAGGACCACATAGAAATGTC
8557685 CCGAAGGACCACATA-AAATTGTC
1 CCGAAGGACCACATAGAAA-TGTC
***
8557708 CCGAAGGACCGTGTAGAAATGTC
1 CCGAAGGACCACATAGAAATGTC
* * *
8557731 CTGAAGGACTACATAGAATTGTC
1 CCGAAGGACCACATAGAAATGTC
8557754 CCGAAGGACC
1 CCGAAGGACC
8557764 GCGTAGAACC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.05
23 59 0.91
24 3 0.05
ACGTcount: A:0.35, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
CCGAAGGACCACATAGAAATGTC
Found at i:8557927 original size:45 final size:45
Alignment explanation
Indices: 8557878--8557981 Score: 102
Period size: 45 Copynumber: 2.3 Consensus size: 45
8557868 ATCACCTAGA
** ** *
8557878 CATATAATCACATAAGTCCTTGTCACGTAGCTTATATCACATGT-T
1 CATATAATCACATAAGTCAATCCCACATAGCTTATATCACAT-TCT
* * * * *
8557923 CATATACTTACTTATGTCAATCCCACATAGCTTATATCATATTCT
1 CATATAATCACATAAGTCAATCCCACATAGCTTATATCACATTCT
8557968 CATATAATCACATA
1 CATATAATCACATA
8557982 GGTAAATGTA
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
44 1 0.02
45 44 0.98
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.37
Consensus pattern (45 bp):
CATATAATCACATAAGTCAATCCCACATAGCTTATATCACATTCT
Found at i:8559014 original size:129 final size:129
Alignment explanation
Indices: 8558784--8559035 Score: 486
Period size: 129 Copynumber: 2.0 Consensus size: 129
8558774 GATACCCCTT
8558784 ACCTAGAACTTGCTCGTTTCAACATGAAATTTGACCAAACTCCCTTAAATCTTCCACTATGACCT
1 ACCTAGAACTTGCTCGTTTCAACATGAAATTTGACCAAACTCCCTTAAATCTTCCACTATGACCT
8558849 CTTCTCAAACCTTTAAACTTAACTATACTTATAAAATTTAACTTATTTTACTCTAACATAGTTA
66 CTTCTCAAACCTTTAAACTTAACTATACTTATAAAATTTAACTTATTTTACTCTAACATAGTTA
*
8558913 ACCTAGAACTTTCTCGTTTCAACATGAAATTTGACCAAACTCCCTTAAATCTTCCACTATGACCT
1 ACCTAGAACTTGCTCGTTTCAACATGAAATTTGACCAAACTCCCTTAAATCTTCCACTATGACCT
*
8558978 CTTCTTAAACCTTTAAACTTAACTATACTTATAAAATTTAACTTATTTTACTCTAACA
66 CTTCTCAAACCTTTAAACTTAACTATACTTATAAAATTTAACTTATTTTACTCTAACA
8559036 CACTTAATCA
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 121 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (129 bp):
ACCTAGAACTTGCTCGTTTCAACATGAAATTTGACCAAACTCCCTTAAATCTTCCACTATGACCT
CTTCTCAAACCTTTAAACTTAACTATACTTATAAAATTTAACTTATTTTACTCTAACATAGTTA
Found at i:8561444 original size:30 final size:30
Alignment explanation
Indices: 8561409--8561629 Score: 211
Period size: 30 Copynumber: 7.4 Consensus size: 30
8561399 TAAAAATGAC
* * *
8561409 AGAAACTTAAAGGATTATAATAGCAAAAAT
1 AGAAACTTAAAGGACTAAAATAGTAAAAAT
* *
8561439 AGAAACTTAAAGGACTCAAATAGAAAAAAT
1 AGAAACTTAAAGGACTAAAATAGTAAAAAT
*
8561469 AGAAACTT-AAGTGACTAAAATAATAAAAACT
1 AGAAACTTAAAG-GACTAAAATAGTAAAAA-T
*
8561500 A-AAATTTAAAGGACTAAAATAGTAAAAAT
1 AGAAACTTAAAGGACTAAAATAGTAAAAAT
* *
8561529 AGAAACTTAAGGGACTGAAATAG-AAAAA-
1 AGAAACTTAAAGGACTAAAATAGTAAAAAT
* **
8561557 A-AAACTT-AAGCGACTAAAATAATAAAAGC
1 AGAAACTTAAAG-GACTAAAATAGTAAAAAT
* * *
8561586 AAAAATTTAAAGGACTAAAATAGAAAAACAAT
1 AGAAACTTAAAGGACTAAAATAG-TAAA-AAT
*
8561618 AGAAATTTAAAG
1 AGAAACTTAAAG
8561630 TAGTAATCGA
Statistics
Matches: 158, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
26 2 0.01
27 15 0.09
28 5 0.03
29 11 0.07
30 102 0.65
31 11 0.07
32 12 0.08
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.20
Consensus pattern (30 bp):
AGAAACTTAAAGGACTAAAATAGTAAAAAT
Found at i:8561604 original size:87 final size:89
Alignment explanation
Indices: 8561415--8561613 Score: 296
Period size: 87 Copynumber: 2.2 Consensus size: 89
8561405 TGACAGAAAC
* *
8561415 TTAAAGGATTATAATAGCAAAAATAGAAACTTAAAGGACTCAAATAGAAAAAATAGAAACTTAAG
1 TTAAAGGACTAAAATAG-AAAAATAGAAACTTAAAGGACTCAAATAGAAAAAATAGAAACTTAAG
* *
8561480 TGACTAAAATAATAAAAACTAAAAT
65 CGACTAAAATAATAAAAACAAAAAT
* *
8561505 TTAAAGGACTAAAATAGTAAAAATAGAAACTTAAGGGACTGAAATAG-AAAAA-A-AAACTTAAG
1 TTAAAGGACTAAAATAG-AAAAATAGAAACTTAAAGGACTCAAATAGAAAAAATAGAAACTTAAG
*
8561567 CGACTAAAATAATAAAAGCAAAAAT
65 CGACTAAAATAATAAAAACAAAAAT
8561592 TTAAAGGACTAAAATAGAAAAA
1 TTAAAGGACTAAAATAGAAAAA
8561614 CAATAGAAAT
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
86 5 0.05
87 48 0.48
88 1 0.01
89 5 0.05
90 42 0.42
ACGTcount: A:0.60, C:0.08, G:0.13, T:0.20
Consensus pattern (89 bp):
TTAAAGGACTAAAATAGAAAAATAGAAACTTAAAGGACTCAAATAGAAAAAATAGAAACTTAAGC
GACTAAAATAATAAAAACAAAAAT
Found at i:8563010 original size:2 final size:2
Alignment explanation
Indices: 8563003--8563058 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
8562993 ATAATATAAT
8563003 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
8563045 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
8563059 AGACCCAGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8571736 original size:19 final size:19
Alignment explanation
Indices: 8571714--8571750 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
8571704 GTGTGTTCCA
*
8571714 TAATCACATGAATGTTTTC
1 TAATAACATGAATGTTTTC
8571733 TAATAACATGAATGTTTT
1 TAATAACATGAATGTTTT
8571751 ATTTGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (19 bp):
TAATAACATGAATGTTTTC
Found at i:8571819 original size:24 final size:24
Alignment explanation
Indices: 8571792--8571857 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 24
8571782 ACTTGACCAA
8571792 GATTCTGTTCTGATTTCTGATCTG
1 GATTCTGTTCTGATTTCTGATCTG
* * *
8571816 GATTTTGTTCTGATATCTTATCTG
1 GATTCTGTTCTGATTTCTGATCTG
* * *
8571840 AATTCTATTTTGATTTCT
1 GATTCTGTTCTGATTTCT
8571858 AATATATCCG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.15, T:0.55
Consensus pattern (24 bp):
GATTCTGTTCTGATTTCTGATCTG
Found at i:8575194 original size:36 final size:35
Alignment explanation
Indices: 8575147--8575223 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 35
8575137 CAAGAGGCTT
*
8575147 CTTGGCTATTTTC-TTTGCGTGTTTAACAATTATTTA
1 CTTGGCTATTTTCTTTTCCGTG--TAACAATTATTTA
*
8575183 CTTGGCTATTTTCTTTTTCCGTGTAATAATTATTTA
1 CTTGGCTATTTTC-TTTTCCGTGTAACAATTATTTA
8575219 CTTGG
1 CTTGG
8575224 TGTCGGAACC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
36 30 0.81
38 7 0.19
ACGTcount: A:0.18, C:0.14, G:0.14, T:0.53
Consensus pattern (35 bp):
CTTGGCTATTTTCTTTTCCGTGTAACAATTATTTA
Found at i:8575931 original size:38 final size:38
Alignment explanation
Indices: 8575886--8575971 Score: 163
Period size: 38 Copynumber: 2.3 Consensus size: 38
8575876 GTTTGAAATT
8575886 AGCATGTGGGATAGAGATCATGTCCGGGTATGAATTAA
1 AGCATGTGGGATAGAGATCATGTCCGGGTATGAATTAA
8575924 AGCATGTGGGATAGAGATCATGTCCGGGTATGAATTAA
1 AGCATGTGGGATAGAGATCATGTCCGGGTATGAATTAA
*
8575962 AGAATGTGGG
1 AGCATGTGGG
8575972 GTAAACATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 47 1.00
ACGTcount: A:0.31, C:0.09, G:0.34, T:0.26
Consensus pattern (38 bp):
AGCATGTGGGATAGAGATCATGTCCGGGTATGAATTAA
Found at i:8575982 original size:38 final size:38
Alignment explanation
Indices: 8575889--8575984 Score: 138
Period size: 38 Copynumber: 2.5 Consensus size: 38
8575879 TGAAATTAGC
* * *
8575889 ATGTGGGATAGAGATCATGTCCGGGTATGAATTAAAGC
1 ATGTGGGATAAACATCATGTCCGGGTATGAATTAAAGA
* *
8575927 ATGTGGGATAGAGATCATGTCCGGGTATGAATTAAAGA
1 ATGTGGGATAAACATCATGTCCGGGTATGAATTAAAGA
*
8575965 ATGTGGGGTAAACATCATGT
1 ATGTGGGATAAACATCATGT
8575985 GGGGTAGGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.27
Consensus pattern (38 bp):
ATGTGGGATAAACATCATGTCCGGGTATGAATTAAAGA
Found at i:8578986 original size:110 final size:110
Alignment explanation
Indices: 8578655--8579165 Score: 730
Period size: 110 Copynumber: 4.7 Consensus size: 110
8578645 ATGGTGGTTG
*
8578655 ACTTCACAGCGAAGGGGCGACTGACGGTCAACAAACAACTTCTT-AGTTTCATTCAGAGTCAATT
1 ACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTT-TTCAGTTTCATTCAGAGTCAATT
* *
8578719 TTAACTTAACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCA
65 TCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCA
* * * * * *
8578765 ACTTCACTGCGAAGCGGCGATTGA-TATTCAACAAATAACTTTTTCAGTTTCATTCAAAGTCAAT
1 ACTTCACAGCGAAGGGGCGACTGACT-GTCAACAAACAAC-TTTTCAGTTTCATTCAGAGTCAAT
* *
8578829 TTCAACTTCACAGTGAATGATATTGGACTCGAGACAACACAAGCTCA
64 TTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCA
*
8578876 ACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTT
1 ACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTT
* * * *
8578941 TAACTTCACAGCGAAGGGTATTGGACTCGATACAACACAAACTCA
66 CAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCA
* *
8578986 ATTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATTT
1 ACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTT
* *
8579051 CAACTTCACAGCGAATGATATTGGACTTGAGACAACACAAGCTCA
66 CAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCA
* * *
8579096 ACTTCACAGCGAAGGGGTGACTTG-TTGTCAACAAACAACTTTCCAG--T--TTCAGAGTCAATT
1 ACTTCACAGCGAAGGGGCGAC-TGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
8579156 TCAACTTCAC
65 TCAACTTCAC
8579166 TTCTAAGGAT
Statistics
Matches: 358, Mismatches: 38, Indels: 14
0.87 0.09 0.03
Matches are distributed among these distances:
106 23 0.06
108 1 0.00
110 237 0.66
111 96 0.27
112 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (110 bp):
ACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATTT
CAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGCTCA
Found at i:8579545 original size:84 final size:83
Alignment explanation
Indices: 8579303--8579821 Score: 458
Period size: 84 Copynumber: 6.3 Consensus size: 83
8579293 AATCATGCCC
* * * * *
8579303 ACCAAAGGCCTTTGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGTAGTATAACTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
*
8579368 CAAGAAGGGTTATCTGCCA
66 CGAGAAGGGTTATCTG-CA
* * * * ** * * * * *
8579387 ACCGAAGACCCTCGATTTCGATTATACTCAGCTTCGAGGGCACATCATTTACATCATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
* * **
8579452 GCTAGAAGGGTTATCTGTG
65 TCGAGAAGGGTTATCTGCA
* * * * * *
8579471 ACCAAAATACCTTTGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTGTAACATAACTTAAG
1 ACC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAG
8579536 TCGAGAAGGGTTATCTGCCA
65 TCGAGAAGGGTTATCTG-CA
* * *
8579556 ACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
* *
8579621 CGAGAAGAGCTATCTG--
66 CGAGAAGGGTTATCTGCA
* * * * * * * * * *
8579637 -CCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACGGTATAACTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAG
* *
8579701 GCTAGAAGGGTTATCTGTCA
65 TCGAGAAGGGTTATCTG-CA
* * * * *
8579721 A-CAAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAG
1 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAG
* *
8579785 GCAAGAAGGGTTATCTG--
65 TCGAGAAGGGTTATCTGCA
*
8579802 -CCAAAGACCTTCAAGTTCGA
1 ACCAAAGACCTTCGAGTTCGA
8579822 TTTCATTCAG
Statistics
Matches: 345, Mismatches: 80, Indels: 23
0.77 0.18 0.05
Matches are distributed among these distances:
80 26 0.08
81 55 0.16
83 7 0.02
84 195 0.57
85 62 0.18
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (83 bp):
ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGCA
Found at i:8579769 original size:249 final size:251
Alignment explanation
Indices: 8579306--8579805 Score: 677
Period size: 249 Copynumber: 2.0 Consensus size: 251
8579296 CATGCCCACC
* * * *
8579306 AAAGGCCTTTGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGTAGTATAACTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
* * *
8579371 GAAGGGTTATCTGCCAACCGAAGACCCTCGATTTCGATTATACTCAGCTTCGAGGGCACATCATT
66 GAAGAGCTATCTGCCAA-C-AAGACCCTCGATTTCGATTACACTCAGCTTCGAGGGCACATCATT
* * * * * *
8579436 TACATCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAATACCTTTGAGTTTGACTACGCTC
129 TACATCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACACTC
* * * * * *
8579501 AGCTCCAAGGCATATCATTTGTAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACT
194 AGCTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACT
* * * *
8579559 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
8579624 GAAGAGCTATCTGCC-A-AAGACCCTCGAGTTT-GATTACACTCAGCTTCGAGGGCACATCATTT
66 GAAGAGCTATCTGCCAACAAGACCCTCGA-TTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* *
8579686 ACGGT-ATAACTCAAGGCTAGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTCCACTC
130 AC-ATCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACACTC
* *
8579749 AGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAA
194 AGCTCAAAGGCA-CATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCTGCCAA
8579806 AGACCTTCAA
Statistics
Matches: 217, Mismatches: 27, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
248 32 0.15
249 110 0.51
250 4 0.02
252 1 0.00
253 70 0.32
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (251 bp):
AAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
GAAGAGCTATCTGCCAACAAGACCCTCGATTTCGATTACACTCAGCTTCGAGGGCACATCATTTA
CATCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACACTCAG
CTCAAAGGCACATCATTTGCAACATAACTCAAGGCAAGAAGGGTTATCTGCCAACT
Found at i:8579802 original size:165 final size:164
Alignment explanation
Indices: 8579304--8579833 Score: 542
Period size: 165 Copynumber: 3.2 Consensus size: 164
8579294 ATCATGCCCA
* * * * * *
8579304 CCAAAGGCCTTTGAGTTCGACTACGCTCAAC-TCCAAGGCACATCATTTGTAGTATAACTTAAGT
1 CCAAAGACCTTCGAGTTTGATTACACTCAGCTTCCAAGGCACATCATTTGTAGTATAACTTAAGT
* * * * * * *
8579368 CAAGAAGGGTTATCTGCCAACCGAAGACCCTCGATTTCGATTATACTCAGCTTCGAGGGCACATC
66 CAAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGACTACACTCAGC-TCAAAGGCACATC
* * * *
8579433 ATTTACATCATAACTCAAGGCTAGAAGGGTTATCTGTG
129 ATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATC--TG
* * * * * **
8579471 ACCAAAATACCTTTGAGTTTGACTACGCTCAGC-TCCAAGGCATATCATTTGTAACATAACTTAA
1 -CC-AAAGACCTTCGAGTTTGATTACACTCAGCTTCCAAGGCACATCATTTGTAGTATAACTTAA
* * * *
8579535 GTCGAGAAGGGTTATCTGCCAACTAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGTACAT
64 GTCAAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACAT
* * * * *
8579600 CATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATCTG
128 CATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG
* * * *** * *
8579637 CCAAAGACCCTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTACGGTATAACTCAAGG
1 CCAAAGACCTTCGAGTTTGATTACACTCAGCTTCCAAGGCACATCATTTGTAGTATAACTTAAGT
* * *
8579702 CTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCA
66 CAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCA-CATCA
8579767 TTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG
130 TTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG
* * * *
8579802 CCAAAGACCTTCAAGTTCGATTTCATTCAGCT
1 CCAAAGACCTTCGAGTTTGATTACACTCAGCT
8579834 GGAGGGTATA
Statistics
Matches: 302, Mismatches: 56, Indels: 11
0.82 0.15 0.03
Matches are distributed among these distances:
164 58 0.19
165 106 0.35
166 2 0.01
168 39 0.13
169 97 0.32
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (164 bp):
CCAAAGACCTTCGAGTTTGATTACACTCAGCTTCCAAGGCACATCATTTGTAGTATAACTTAAGT
CAAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCAT
TTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG
Found at i:8580195 original size:28 final size:25
Alignment explanation
Indices: 8580164--8580231 Score: 91
Period size: 26 Copynumber: 2.6 Consensus size: 25
8580154 ACAAATTTTT
8580164 TTTATTTTATTATATATATATATATATA
1 TTTATTTTATTAT-TAT-TA-ATATATA
*
8580192 TTTATTATTATTATTATTAATATATT
1 TTTATT-TTATTATTATTAATATATA
8580218 TTTATTTTATTATT
1 TTTATTTTATTATT
8580232 TTTGTAGGCC
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
25 8 0.21
26 12 0.32
27 2 0.05
28 9 0.24
29 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (25 bp):
TTTATTTTATTATTATTAATATATA
Found at i:8580202 original size:6 final size:6
Alignment explanation
Indices: 8580165--8580231 Score: 50
Period size: 6 Copynumber: 10.8 Consensus size: 6
8580155 CAAATTTTTT
*
8580165 TTATT- TTATTA TATATATA TATATATA TTTATTA TTATTA TTATTA ATA-TA
1 TTATTA TTATTA T-TAT-TA T-TAT-TA -TTATTA TTATTA TTATTA TTATTA
*
8580216 TTTTTA TT-TTA TTATT
1 TTATTA TTATTA TTATT
8580232 TTTGTAGGCC
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
5 13 0.25
6 21 0.40
7 5 0.09
8 13 0.25
9 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATTA
Found at i:8580318 original size:33 final size:33
Alignment explanation
Indices: 8580281--8580400 Score: 179
Period size: 33 Copynumber: 3.6 Consensus size: 33
8580271 TTCAGAAAAT
*
8580281 AAACCAACGTATTTGAGTCCCATTGAAAAACTA
1 AAACCAACGTATTTGAGTCCTATTGAAAAACTA
*
8580314 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAAAACTA
8580347 AAACCAACGTATTTGAGTCCTATT-AAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAAA-ACTA
* *
8580380 AAACCAAAGCATTTTGAGTCC
1 AAACCAACGTA-TTTGAGTCC
8580401 AAATAGGACT
Statistics
Matches: 80, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
32 3 0.04
33 68 0.85
34 9 0.11
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.26
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAAAACTA
Found at i:8580783 original size:25 final size:26
Alignment explanation
Indices: 8580759--8580811 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
8580749 ACATTGTTAT
*
8580759 ATATATATATATATTCAT-TTTTTATTA
1 ATAT-TAT-TATATTAATATTTTTATTA
8580786 ATATTATTATATTAATATTTTTATTA
1 ATATTATTATATTAATATTTTTATTA
8580812 TTCTTTTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 8 0.33
26 12 0.50
27 4 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
ATATTATTATATTAATATTTTTATTA
Found at i:8582804 original size:33 final size:33
Alignment explanation
Indices: 8582763--8582832 Score: 115
Period size: 33 Copynumber: 2.1 Consensus size: 33
8582753 AAATGCTTCA
8582763 GTTTTAGTGT-TTCAATAGGACTCAAATACGTTG
1 GTTTTAGTGTGTT-AATAGGACTCAAATACGTTG
*
8582796 GTTTTAGTGTGTTAATAGGACTCTAATACGTTG
1 GTTTTAGTGTGTTAATAGGACTCAAATACGTTG
8582829 GTTT
1 GTTT
8582833 ATTTTCTAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.24, C:0.10, G:0.23, T:0.43
Consensus pattern (33 bp):
GTTTTAGTGTGTTAATAGGACTCAAATACGTTG
Found at i:8582904 original size:20 final size:20
Alignment explanation
Indices: 8582879--8582955 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 20
8582869 CGAGGCCTAC
8582879 AAAAATAATAAAATAAAAAT
1 AAAAATAATAAAATAAAAAT
* * *
8582899 AAAAAT-ATATTAATAATAAC
1 AAAAATAATA-AAATAAAAAT
* *
8582919 AATAATAAT-AAATAAATAT
1 AAAAATAATAAAATAAAAAT
* * *
8582938 ATATATAATATAATAAAA
1 AAAAATAATAAAATAAAA
8582956 TGTTTTTGTA
Statistics
Matches: 41, Mismatches: 13, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
19 15 0.37
20 24 0.59
21 2 0.05
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATAATAAAATAAAAAT
Found at i:8582917 original size:3 final size:3
Alignment explanation
Indices: 8582882--8582953 Score: 51
Period size: 3 Copynumber: 23.7 Consensus size: 3
8582872 GGCCTACAAA
* * * *
8582882 AAT AAT AA- AAT AAA AAT AAA AAT -AT ATT AAT AAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8582928 AAAT AAAT ATAT ATAT AAT -AT AAT AA
1 -AAT -AAT A-AT A-AT AAT AAT AAT AA
8582954 AATGTTTTTG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
2 6 0.11
3 36 0.64
4 14 0.25
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:8582936 original size:31 final size:27
Alignment explanation
Indices: 8582882--8582955 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 27
8582872 GGCCTACAAA
8582882 AATAATAAAATAAAAATAAAAATATATT
1 AATAATAAAATAAAAATAAAAATATA-T
*
8582910 AATAATAACAATAATAATAAATAAATATAT
1 AATAATAA-AATAAAAAT-AA-AAATATAT
*
8582940 ATATAATATAATAAAA
1 A-ATAATAAAATAAAA
8582956 TGTTTTTGTA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
28 8 0.21
29 8 0.21
30 10 0.26
31 13 0.33
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (27 bp):
AATAATAAAATAAAAATAAAAATATAT
Found at i:8584386 original size:21 final size:21
Alignment explanation
Indices: 8584362--8584405 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
8584352 GTTGATGTGT
8584362 AATGTTTAAATGAAATGTTAG
1 AATGTTTAAATGAAATGTTAG
* * *
8584383 AATGTTTCAATGTATTGTTAG
1 AATGTTTAAATGAAATGTTAG
8584404 AA
1 AA
8584406 GCTTGAACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.41
Consensus pattern (21 bp):
AATGTTTAAATGAAATGTTAG
Found at i:8588491 original size:2 final size:2
Alignment explanation
Indices: 8588484--8588530 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
8588474 TCGTCTAATT
*
8588484 TA TA TA TA TA GA 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
8588526 T- TA TA
1 TA TA TA
8588531 GTTTTAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8588642 original size:36 final size:36
Alignment explanation
Indices: 8588513--8588904 Score: 361
Period size: 36 Copynumber: 10.7 Consensus size: 36
8588503 ATATATATAT
*
8588513 ATATATATATATATTATAG-TTTTAAAATATTTTTAAA
1 ATATATATA-ATA-TATAGTTTTTAAAATATTTTGAAA
* *
8588550 ACCTATATATAATATATAGTTTTGAAAACATGTTTGAAA
1 A--TATATATAATATATAGTTTTTAAAATAT-TTTGAAA
*
8588589 ATATTTATATATTATATAGTTTTTAAAATATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAATATTTTGAAA
* *
8588627 ATAAATATAATATATATATTTTTTTAAAATATTTTTGAAA
1 ATATATAT-A-ATATATA-GTTTTTAAAATA-TTTTGAAA
* *
8588667 ATATATATATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAATATTTTGAAA
* *
8588703 ATAAATATAATATATAGTTTTT-ACATATTTTTGAAA
1 ATATATATAATATATAGTTTTTAAAATA-TTTTGAAA
* * *
8588739 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAATATTTTGAAA
* * * * *
8588775 ATAAATATACTATATAATTTTTAAAACATTTTTTAAA
1 ATATATATAATATATAGTTTTTAAAATA-TTTTGAAA
* *
8588812 A-ATATATATTATATAGTTTTT-AAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAATATTTTGAAA
* **
8588846 ATATATAT-A-GT-T--TTTAAAAAATATTTTGAAGAA
1 ATATATATAATATATAGTTTTTAAAATATTTTG-A-AA
*
8588879 CATATATATATTATATAGTTTTTAAA
1 -ATATATATAATATATAGTTTTTAAA
8588905 TCATTTCAAA
Statistics
Matches: 290, Mismatches: 42, Indels: 44
0.77 0.11 0.12
Matches are distributed among these distances:
30 3 0.01
31 9 0.03
32 2 0.01
33 3 0.01
34 16 0.06
35 14 0.05
36 107 0.37
37 31 0.11
38 34 0.12
39 56 0.19
40 15 0.05
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAATATTTTGAAA
Found at i:8588734 original size:72 final size:73
Alignment explanation
Indices: 8588513--8588959 Score: 454
Period size: 72 Copynumber: 6.1 Consensus size: 73
8588503 ATATATATAT
* * *
8588513 ATATATATATATATTATAG-TTTTAAAATATTTTTAAAACCTATATATAATATATAGTTTTGAAA
1 ATATATATAT-TA-TATAGTTTTTAAAATATTTTGAAAA--TAAATATAATATATAGTTTTTAAA
*
8588577 ACATGTTTGAAA
62 ACATTTTTGAAA
*
8588589 ATATTTATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATATATTTTTTTAA
1 ATA--TATATATTATATAGTTTTTAAAATATTTTGAAAATAAATAT-A-ATATATA-GTTTTTAA
*
8588654 AATATTTTTGAAA
61 AACATTTTTGAAA
* * *
8588667 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTT-ACATAT
1 ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
8588731 TTTTGAAA
66 TTTTGAAA
* * * *
8588739 ATATATGTATTATATAGTTTTTAAAGTATTTTGAAAATAAATATACTATATAATTTTTAAAACAT
1 ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
*
8588804 TTTTTAAA
66 TTTTGAAA
* *
8588812 A-ATATATATTATATAGTTTTT-AAACATTTTG-----AAA-AT-ATATATAGTTTTTAAAAAAT
1 ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
8588868 ATTTTGAAGAA
66 -TTTTG-A-AA
* ** * *
8588879 CATATATATATTATATAGTTTTT-AAATCA-TTTCAAAA-ACTTATAATATATAATTTTAAAAAA
1 -ATATATATATTATATAGTTTTTAAAAT-ATTTTGAAAATAAATATAATATATAGTTTT-TAAAA
*
8588941 CATTTTTAAAA
63 CATTTTTGAAA
8588952 ACTATATA
1 A-TATATA
8588960 ATTTTGAAAA
Statistics
Matches: 320, Mismatches: 30, Indels: 45
0.81 0.08 0.11
Matches are distributed among these distances:
64 17 0.05
65 6 0.02
66 4 0.01
67 2 0.01
68 1 0.00
69 26 0.08
70 1 0.00
71 8 0.03
72 88 0.28
73 26 0.08
74 10 0.03
75 22 0.07
76 55 0.17
77 27 0.08
78 27 0.08
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (73 bp):
ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTTAAAACAT
TTTTGAAA
Found at i:8588942 original size:105 final size:101
Alignment explanation
Indices: 8588749--8589023 Score: 251
Period size: 105 Copynumber: 2.7 Consensus size: 101
8588739 ATATATGTAT
* *
8588749 TATATAGTTTTT--AAAGTATTTTGAAAATAAATATACTATATAATTTTTAAAACATTTTTTAAA
1 TATATAGTTTTTAAAAAATATTTTGAAAATAAATATACTATATAATTTTTAAAACA-TTTTCAAA
* * *
8588812 AATATATATTATATAGTTTTTAAACATTTTGAAAATA-
65 AATATATAATATATAATTTTAAAACATTTTGAAAA-AC
* * * *
8588849 TATATAGTTTTTAAAAAATATTTTGAAGAACATATATATATTATATAGTTTTTAAATCA-TTTCA
1 TATATAGTTTTTAAAAAATATTTTG-A-AA-ATAAATATACTATATAATTTTTAAAACATTTTCA
*
8588913 AAAACT-TATAATATATAATTTTAAAAAACATTTTTAAAAAC
63 AAAA-TATATAATATATAATTTT--AAAACATTTTGAAAAAC
* * ** * * * *
8588954 TATATAATTTTGAAAACGT-TTTT-AAAAAAACATATAATATATAA-TTTTAAAATATTTTTAAA
1 TATATAGTTTTTAAAAAATATTTTGAAAATAA-ATATACTATATAATTTTTAAAACATTTTCAAA
8589016 AATATATA
65 AATATATA
8589024 TTAAATAGAT
Statistics
Matches: 142, Mismatches: 21, Indels: 23
0.76 0.11 0.12
Matches are distributed among these distances:
100 23 0.16
101 25 0.18
102 11 0.08
103 23 0.16
104 8 0.06
105 52 0.37
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (101 bp):
TATATAGTTTTTAAAAAATATTTTGAAAATAAATATACTATATAATTTTTAAAACATTTTCAAAA
ATATATAATATATAATTTTAAAACATTTTGAAAAAC
Found at i:8588960 original size:30 final size:29
Alignment explanation
Indices: 8588924--8588981 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
8588914 AAACTTATAA
8588924 TATATAATTTTAAAAAACATTTTTAAAAAC
1 TATATAATTTT-AAAAACATTTTTAAAAAC
* *
8588954 TATATAATTTTGAAAACGTTTTTAAAAA
1 TATATAATTTTAAAAACATTTTTAAAAA
8588982 AACATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.41
Consensus pattern (29 bp):
TATATAATTTTAAAAACATTTTTAAAAAC
Found at i:8588982 original size:30 final size:31
Alignment explanation
Indices: 8588924--8588991 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
8588914 AAACTTATAA
8588924 TATATAATTTTAAAAAACATTTTT-AAAAAC
1 TATATAATTTTAAAAAACATTTTTAAAAAAC
* *
8588954 TATATAATTTT-GAAAACGTTTTTAAAAAAAC
1 TATATAATTTTAAAAAACATTTTT-AAAAAAC
8588985 -ATATAAT
1 TATATAAT
8588992 ATATAATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 10 0.29
30 18 0.53
31 6 0.18
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (31 bp):
TATATAATTTTAAAAAACATTTTTAAAAAAC
Found at i:8589061 original size:12 final size:12
Alignment explanation
Indices: 8589046--8589132 Score: 56
Period size: 12 Copynumber: 7.2 Consensus size: 12
8589036 TTGGAAAATG
8589046 TTTTTTAGTTTAT
1 TTTTTTA-TTTAT
8589059 TTTTTTATTTAT
1 TTTTTTATTTAT
* **
8589071 TTATTTA--CCT
1 TTTTTTATTTAT
*
8589081 TTTGTTATTTA-
1 TTTTTTATTTAT
*
8589092 TTTATTATTTAT
1 TTTTTTATTTAT
*
8589104 TTTACTTATTTTAT
1 TTT-TTTA-TTTAT
8589118 TTTTATT-TTTAT
1 TTTT-TTATTTAT
8589130 TTT
1 TTT
8589133 GTTGCAGGGT
Statistics
Matches: 58, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
10 6 0.10
11 10 0.17
12 22 0.38
13 10 0.17
14 10 0.17
ACGTcount: A:0.18, C:0.03, G:0.02, T:0.76
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:8589071 original size:4 final size:4
Alignment explanation
Indices: 8589049--8589119 Score: 56
Period size: 4 Copynumber: 16.8 Consensus size: 4
8589039 GAAAATGTTT
*
8589049 TTTA GTTTA TTTT TTTA TTTA TTTA TTTA CCTTT- TGTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA --TTTA T-TTA TTTA TTTA
*
8589096 -TTA TTTA TTTTA CTTA TTTTA TTT
1 TTTA TTTA -TTTA TTTA -TTTA TTT
8589120 TTATTTTTAT
Statistics
Matches: 55, Mismatches: 4, Indels: 15
0.74 0.05 0.20
Matches are distributed among these distances:
3 4 0.07
4 36 0.65
5 12 0.22
6 3 0.05
ACGTcount: A:0.20, C:0.04, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:8589089 original size:30 final size:30
Alignment explanation
Indices: 8589054--8589131 Score: 92
Period size: 30 Copynumber: 2.6 Consensus size: 30
8589044 TGTTTTTTAG
8589054 TTTATTTTTTTATTTATTTA-TTTACCTT-T
1 TTTATTTTTTTATTTATTTATTTTA-CTTAT
*
8589083 TGTTATTTATTTA-TTATTTATTTTACTTAT
1 T-TTATTTTTTTATTTATTTATTTTACTTAT
8589113 TTTATTTTTATT-TTTATTT
1 TTTATTTTT-TTATTTATTT
8589132 TGTTGCAGGG
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
29 18 0.43
30 24 0.57
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (30 bp):
TTTATTTTTTTATTTATTTATTTTACTTAT
Found at i:8594218 original size:95 final size:95
Alignment explanation
Indices: 8594101--8594299 Score: 310
Period size: 95 Copynumber: 2.1 Consensus size: 95
8594091 AGATTACACT
8594101 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATA
1 ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATA
* * * *
8594166 GATAATA-TTCAGCTAGCCTGATAAAGGTG
66 GAAAAGATTTCAGCTAACATGATAAAGGTG
*
8594195 ATTATATTATACAATAAAGCTTGAGTTGTCCCTCTAAGGCAATTGGTTAAACGCCCCGGCTTTAT
1 ATTATA-TATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTAT
*
8594260 GGAAAAGATTTCAGCTAACATGATAAAGGTG
65 AGAAAAGATTTCAGCTAACATGATAAAGGTG
* *
8594291 TTTACATAT
1 ATTATATAT
8594300 TGGGCTGTCC
Statistics
Matches: 95, Mismatches: 8, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
94 6 0.06
95 65 0.68
96 24 0.25
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (95 bp):
ATTATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCGGCTTTATA
GAAAAGATTTCAGCTAACATGATAAAGGTG
Found at i:8595770 original size:165 final size:165
Alignment explanation
Indices: 8595473--8596416 Score: 1443
Period size: 165 Copynumber: 5.7 Consensus size: 165
8595463 TAAACAAACT
*
8595473 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATT--ATTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * *
8595536 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGAC
8595600 CTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
8595636 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
8595701 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
*
8595766 TTTGAGTTCAACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
8595801 ATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATATGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
8595866 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
8595931 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
*
8595966 ATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * **
8596031 GCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTG-TGACCAAAAGAC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGAC
* *
8596095 CTTTGAGTTTGACTACGCTCAGCT-CAACGGTACATC
130 CTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATC
8596131 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
8596196 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
66 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
* * *
8596261 TTCGAGTTCAACTACGCTCAGCTCCAAGGCATATC
131 TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * * * *** *
8596296 ATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC---C-AAAGACCCCCGAGTTCGATTACA
* * * *
8596361 CTCAGC-TCAACGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC
62 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGC
8596417 TAATGACATT
Statistics
Matches: 720, Mismatches: 49, Indels: 19
0.91 0.06 0.02
Matches are distributed among these distances:
163 58 0.08
164 6 0.01
165 571 0.79
166 13 0.02
168 47 0.07
169 25 0.03
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (165 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACC
TTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:8596416 original size:84 final size:83
Alignment explanation
Indices: 8595473--8596419 Score: 957
Period size: 84 Copynumber: 11.5 Consensus size: 83
8595463 TAAACAAACT
* * ** * *
8595473 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC---CAAAGACCCCCGAGTTCGA-T-TAT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAGACCTTCGAGTTCGACTACAC
*
8595533 TCAGCTTCGAGGGCACATC
66 TCAGC-TCAAGGGCACATC
* * * * *
8595552 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TAACCAAAAGACCTTTGAGTTCGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAA-C-AAAGACCTTCGAGTTCGACTAC
* *
8595616 GCTCAGCTCAACGGCACATC
64 ACTCAGCTCAAGGGCACATC
* * ** *
8595636 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC---CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAGACCTTCGAGTTCGACTACAC
*
8595698 TCAGCTTCGAGGGCACATC
66 TCAGC-TCAAGGGCACATC
* * * *
8595717 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCAACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAA-CAAAGACCTTCGAGTTCGACTACA
8595782 CTCAGCTCCAA-GGCACATC
65 CTCAGCT-CAAGGGCACATC
* * * * ** *
8595801 ATTTGCAGCATAGCTTAAGTTGAGAAGGGCTATATGC---CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAGACCTTCGAGTTCGACTACAC
*
8595863 TCAGCTTCGAGGGCACATC
66 TCAGC-TCAAGGGCACATC
* * *
8595882 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAA-CAAAGACCTTCGAGTTCGACTACA
8595947 CTCAGCTCCAA-GGCACATC
65 CTCAGCT-CAAGGGCACATC
* * * ** *
8595966 ATTCGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC---CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAGACCTTCGAGTTCGACTACAC
*
8596028 TCAGCTTCGAGGGCACATC
66 TCAGC-TCAAGGGCACATC
* * * * * * * *
8596047 ATTTACAGCATAACTCAAGGCTAGGAGGGTTATCTG-TGACCAAAAGACCTTTGAGTTTGACTAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCT-AAC-AAAGACCTTCGAGTTCGACTAC
* * *
8596111 GCTCAGCTCAACGGTACATC
64 ACTCAGCTCAAGGGCACATC
* * ** *
8596131 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGC---CAAAGACCCCCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAGACCTTCGAGTTCGACTACAC
*
8596193 TCAGCTTCGAGGGCACATC
66 TCAGC-TCAAGGGCACATC
* * *
8596212 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCAACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAA-CAAAGACCTTCGAGTTCGACTACA
*
8596277 CTCAGCTCCAA-GGCATATC
65 CTCAGCT-CAAGGGCACATC
* * * * *
8596296 ATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGCTAACAAAAGACCTTTGAGTTCGACTACA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAAC-AAAGACCTTCGAGTTCGACTACA
*
8596361 CTCAGCTCAACGGCACATC
65 CTCAGCTCAAGGGCACATC
* *
8596380 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCTAA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAA
8596420 TGACATTCGA
Statistics
Matches: 708, Mismatches: 123, Indels: 69
0.79 0.14 0.08
Matches are distributed among these distances:
79 30 0.04
80 100 0.14
81 172 0.24
82 1 0.00
83 19 0.03
84 278 0.39
85 108 0.15
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (83 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCTAACAAAGACCTTCGAGTTCGACTACAC
TCAGCTCAAGGGCACATC
Found at i:8597180 original size:36 final size:36
Alignment explanation
Indices: 8597055--8597368 Score: 272
Period size: 36 Copynumber: 8.7 Consensus size: 36
8597045 ATATATAGAG
*
8597055 ATATATAT-AT-TATAG-TTTTAAAATATTTTTAAA
1 ATATATATAATATATAGTTTTTAAAATATTTTGAAA
* *
8597088 ACCTATATATAATATATAGTTTTGAAAACATGTTTGAAA
1 A--TATATATAATATATAGTTTTTAAAATAT-TTTGAAA
*
8597127 ATATTTATATATTATATAGTTTTTAAAATATTTTGAAA
1 ATA--TATATAATATATAGTTTTTAAAATATTTTGAAA
* *
8597165 ATAAATATAATATATA-TATATTTTAAATATTTTTGAAA
1 ATATATATAATATATAGT-T-TTTAAAATA-TTTTGAAA
* *
8597203 ATATATATATTATATAGTTTTTAAAGTATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAATATTTTGAAA
* * * * *
8597239 ATAAATATACTATATAATTTTTAAAACATTTTTTAAA
1 ATATATATAATATATAGTTTTTAAAATA-TTTTGAAA
* *
8597276 A-ATATATATTATATAGTTTTT-AAACATTTTGAAA
1 ATATATATAATATATAGTTTTTAAAATATTTTGAAA
* **
8597310 ATATATAT-A-GT-T--TTTAAAAAATATTTTGAAGAA
1 ATATATATAATATATAGTTTTTAAAATATTTTG-A-AA
*
8597343 CATATATATATTATATAGTTTTTAAA
1 -ATATATATAATATATAGTTTTTAAA
8597369 TCATTTCAAA
Statistics
Matches: 226, Mismatches: 32, Indels: 40
0.76 0.11 0.13
Matches are distributed among these distances:
30 3 0.01
31 9 0.04
32 2 0.01
33 4 0.02
34 16 0.07
35 19 0.08
36 63 0.28
37 31 0.14
38 42 0.19
39 37 0.16
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (36 bp):
ATATATATAATATATAGTTTTTAAAATATTTTGAAA
Found at i:8597181 original size:38 final size:37
Alignment explanation
Indices: 8597055--8597368 Score: 284
Period size: 38 Copynumber: 8.6 Consensus size: 37
8597045 ATATATAGAG
*
8597055 ATATATATAT-TATAG-TTTTAAAATATTTTTAAAACCT
1 ATATATATATATATAGTTTTTAAAATATTTTGAAAA--T
* *
8597092 ATATATA-ATATATAGTTTTGAAAACATGTTTGAAAAT
1 ATATATATATATATAGTTTTTAAAATAT-TTTGAAAAT
*
8597129 ATTTATATATTATATAGTTTTTAAAATATTTTGAAAAT
1 ATATATATA-TATATAGTTTTTAAAATATTTTGAAAAT
*
8597167 AAATATAATATATATA-TATTTT-AAATATTTTTGAAAAT
1 ATATAT-ATATATATAGT-TTTTAAAATA-TTTTGAAAAT
*
8597205 ATATATAT-TATATAGTTTTTAAAGTATTTTGAAAAT
1 ATATATATATATATAGTTTTTAAAATATTTTGAAAAT
* * *
8597241 A-A-ATATACTATATAATTTTTAAAACATTTTTTAAAA-
1 ATATATATA-TATATAGTTTTTAAAATA-TTTTGAAAAT
*
8597277 ATATATAT-TATATAGTTTTT-AAACATTTTG-AAA-
1 ATATATATATATATAGTTTTTAAAATATTTTGAAAAT
* ** *
8597310 ATATATATA-GT-T--TTTAAAAAATATTTTGAAGAAC
1 ATATATATATATATAGTTTTTAAAATATTTTGAA-AAT
8597344 ATATATATATTATATAGTTTTTAAA
1 ATATATATA-TATATAGTTTTTAAA
8597369 TCATTTCAAA
Statistics
Matches: 229, Mismatches: 23, Indels: 48
0.76 0.08 0.16
Matches are distributed among these distances:
30 3 0.01
31 9 0.04
32 2 0.01
33 14 0.06
34 17 0.07
35 6 0.03
36 51 0.22
37 42 0.18
38 52 0.23
39 33 0.14
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (37 bp):
ATATATATATATATAGTTTTTAAAATATTTTGAAAAT
Found at i:8597406 original size:105 final size:101
Alignment explanation
Indices: 8597213--8597500 Score: 250
Period size: 105 Copynumber: 2.8 Consensus size: 101
8597203 ATATATATAT
* *
8597213 TATATAGTTTTT--AAAGTATTTTGAAAATAAATATACTATATAATTTTTAAAACATTTTTTAAA
1 TATATAGTTTTTAAAAAATATTTTGAAAATAAATATACTATATAATTTTTAAAACA-TTTTCAAA
* * *
8597276 AATATATATTATATAGTTTTTAAACATTTTGAAAATA-
65 AATATATAATATATAATTTTAAAACATTTTGAAAA-AC
* * * *
8597313 TATATAGTTTTTAAAAAATATTTTGAAGAACATATATATATTATATAGTTTTTAAATCA-TTTCA
1 TATATAGTTTTTAAAAAATATTTTG-A-AA-ATAAATATACTATATAATTTTTAAAACATTTTCA
*
8597377 AAAACT-TATAATATATAATTTTAAAAAACATTTTTAAAAAC
63 AAAA-TATATAATATATAATTTT--AAAACATTTTGAAAAAC
* * ** * * * * *
8597418 TATATAATTTTGAAAACGT-TGTT-AAAAAAACATATAATATATAA-TTTTAAAATATTTTAAAA
1 TATATAGTTTTTAAAAAATATTTTGAAAATAA-ATATACTATATAATTTTTAAAACATTTTCAAA
*
8597480 AATATATATTATATAGATTTT
65 AATATATAATATATA-ATTTT
8597501 TGGAAAATGT
Statistics
Matches: 152, Mismatches: 23, Indels: 24
0.76 0.12 0.12
Matches are distributed among these distances:
100 23 0.15
101 31 0.20
102 16 0.11
103 23 0.15
104 7 0.05
105 52 0.34
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.44
Consensus pattern (101 bp):
TATATAGTTTTTAAAAAATATTTTGAAAATAAATATACTATATAATTTTTAAAACATTTTCAAAA
ATATATAATATATAATTTTAAAACATTTTGAAAAAC
Found at i:8597446 original size:30 final size:31
Alignment explanation
Indices: 8597388--8597455 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
8597378 AAACTTATAA
*
8597388 TATATAATTTTAAAAAACATTTT-TAAAAAC
1 TATATAATTTTAAAAAACATTTTAAAAAAAC
* *
8597418 TATATAATTTT-GAAAACGTTGTTAAAAAAAC
1 TATATAATTTTAAAAAACATT-TTAAAAAAAC
8597449 -ATATAAT
1 TATATAAT
8597456 ATATAATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 7 0.21
30 20 0.61
31 6 0.18
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.38
Consensus pattern (31 bp):
TATATAATTTTAAAAAACATTTTAAAAAAAC
Found at i:8597532 original size:4 final size:4
Alignment explanation
Indices: 8597514--8597583 Score: 56
Period size: 4 Copynumber: 16.8 Consensus size: 4
8597504 AAAATGTTTT
8597514 TTTA GTTTA -TTA TTTA TTTA TTTA TTTA CCTTT- TGTTA TTTA TTTA
1 TTTA -TTTA TTTA TTTA TTTA TTTA TTTA --TTTA T-TTA TTTA TTTA
*
8597560 -TTA TTTA TTTTA CTTA TTTTA TTT
1 TTTA TTTA -TTTA TTTA -TTTA TTT
8597584 TTATTTTTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 17
0.74 0.03 0.23
Matches are distributed among these distances:
3 7 0.13
4 33 0.60
5 12 0.22
6 3 0.05
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:8597572 original size:30 final size:28
Alignment explanation
Indices: 8597519--8597596 Score: 92
Period size: 29 Copynumber: 2.8 Consensus size: 28
8597509 GTTTTTTTAG
8597519 TTTATTATTTATTTATTTA-TTTACCTT-T
1 TTTATTATTTA-TTATTTATTTTA-CTTAT
8597547 TGTTATTTATTTATTATTTATTTTACTTAT
1 T-TTA-TTATTTATTATTTATTTTACTTAT
8597577 TTTATT-TTTATT-TTTATTTT
1 TTTATTATTTATTATTTATTTT
8597597 GTTGCAGGGT
Statistics
Matches: 46, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
26 8 0.17
27 6 0.13
28 3 0.07
29 16 0.35
30 13 0.28
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (28 bp):
TTTATTATTTATTATTTATTTTACTTAT
Found at i:8597587 original size:11 final size:12
Alignment explanation
Indices: 8597514--8597596 Score: 73
Period size: 12 Copynumber: 6.7 Consensus size: 12
8597504 AAAATGTTTT
*
8597514 TTTAGTTTATTA
1 TTTATTTTATTA
8597526 TTTA-TTTATTTA
1 TTTATTTTA-TTA
*
8597538 TTTACCTTTTGTTA
1 TTTA--TTTTATTA
8597552 TTTA-TTTATTA
1 TTTATTTTATTA
8597563 TTTATTTTACTTA
1 TTTATTTTA-TTA
8597576 TTTTATTTTTATT-
1 -TTTA-TTTTATTA
8597589 TTTATTTT
1 TTTATTTT
8597597 GTTGCAGGGT
Statistics
Matches: 61, Mismatches: 2, Indels: 17
0.76 0.03 0.21
Matches are distributed among these distances:
11 18 0.30
12 19 0.31
13 3 0.05
14 13 0.21
15 8 0.13
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:8597593 original size:37 final size:36
Alignment explanation
Indices: 8597512--8597595 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 36
8597502 GGAAAATGTT
* *
8597512 TTTTTAGTTTATTATTTATTTATTTATTTACCTTTTG
1 TTTTTA-TTTATTATTTATTTACTTATTTACCTTTTA
*
8597549 TTATTTATTTATTATTTATTTTACTTATTTTA-TTTTTA
1 TT-TTTATTTATTATTTA-TTTACTTA-TTTACCTTTTA
8597587 TTTTTATTT
1 TTTTTATTT
8597596 TGTTGCAGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
37 20 0.49
38 17 0.41
39 4 0.10
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (36 bp):
TTTTTATTTATTATTTATTTACTTATTTACCTTTTA
Found at i:8598862 original size:27 final size:29
Alignment explanation
Indices: 8598799--8598866 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
8598789 TTCTTTCCCC
**
8598799 TTTGACTTATTTCTGTTTATTTATTTCTT
1 TTTGACTTATTAATGTTTATTTATTTCTT
* * *
8598828 TTTCACTTATTAAT-TTTCTTTCTTTC-T
1 TTTGACTTATTAATGTTTATTTATTTCTT
8598855 TTTGACTTATTA
1 TTTGACTTATTA
8598867 TTATTATTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
27 12 0.36
28 10 0.30
29 11 0.33
ACGTcount: A:0.16, C:0.13, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTGACTTATTAATGTTTATTTATTTCTT
Found at i:8601386 original size:18 final size:18
Alignment explanation
Indices: 8601363--8601397 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8601353 TAAAAGATAA
8601363 TAAAAGAAAAGATGAAAG
1 TAAAAGAAAAGATGAAAG
8601381 TAAAAGAAAAGATGAAA
1 TAAAAGAAAAGATGAAA
8601398 AAAAAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (18 bp):
TAAAAGAAAAGATGAAAG
Found at i:8601403 original size:18 final size:18
Alignment explanation
Indices: 8601364--8601403 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
8601354 AAAAGATAAT
**
8601364 AAAAGAAAAGATGAAAGT
1 AAAAGAAAAGATGAAAAA
8601382 AAAAGAAAAGATGAAAAA
1 AAAAGAAAAGATGAAAAA
8601400 AAAA
1 AAAA
8601404 ACTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.07
Consensus pattern (18 bp):
AAAAGAAAAGATGAAAAA
Found at i:8602532 original size:20 final size:19
Alignment explanation
Indices: 8602494--8602532 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
8602484 CTTAGCATTT
* *
8602494 TAAAAAATAAAACTTAAAA
1 TAAAAAATAAAAATGAAAA
8602513 TAAAATAATAAAAATGAAAA
1 TAAAA-AATAAAAATGAAAA
8602533 CTTGAATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (19 bp):
TAAAAAATAAAAATGAAAA
Found at i:8605574 original size:3 final size:3
Alignment explanation
Indices: 8605566--8605595 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
8605556 GTTCCACCAA
*
8605566 ATT ATT ATT ATT ATT ATT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8605596 TACAGGCTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:8610921 original size:21 final size:22
Alignment explanation
Indices: 8610897--8610937 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
8610887 AAAGTCAAGC
* *
8610897 AAACAATTTGAAGAA-AAATGG
1 AAACAACTAGAAGAAGAAATGG
8610918 AAACAACTAGAAGAAGAAAT
1 AAACAACTAGAAGAAGAAAT
8610938 TAAGGCTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.61, C:0.07, G:0.17, T:0.15
Consensus pattern (22 bp):
AAACAACTAGAAGAAGAAATGG
Found at i:8617144 original size:4 final size:4
Alignment explanation
Indices: 8617127--8617193 Score: 79
Period size: 4 Copynumber: 17.8 Consensus size: 4
8617117 CTAAAGTGAA
** *
8617127 AAAG AAAG GTAG AAAG -AAG AAAG AAAG -AAG AAAG GAAG -AAG AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
8617172 AAAG -AAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAA
8617194 ATGAAAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
3 12 0.22
4 42 0.78
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.01
Consensus pattern (4 bp):
AAAG
Found at i:8617148 original size:15 final size:15
Alignment explanation
Indices: 8617124--8617192 Score: 61
Period size: 15 Copynumber: 4.5 Consensus size: 15
8617114 TGCCTAAAGT
*
8617124 GAAA-AAGAAAGGTA
1 GAAAGAAGAAAGGAA
8617138 GAAAGAAGAAAGAAAGAA
1 GAAAGAAGAAAG---GAA
*
8617156 GAAAGGAAG-AAGAAA
1 GAAA-GAAGAAAGGAA
*
8617171 GAAAGAAGAAAGAAA
1 GAAAGAAGAAAGGAA
8617186 GAAAGAA
1 GAAAGAA
8617193 AATGAAAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
14 8 0.17
15 26 0.55
18 9 0.19
19 4 0.09
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (15 bp):
GAAAGAAGAAAGGAA
Found at i:8617153 original size:11 final size:11
Alignment explanation
Indices: 8617137--8617193 Score: 96
Period size: 11 Copynumber: 5.1 Consensus size: 11
8617127 AAAGAAAGGT
8617137 AGAAAGAAGAA
1 AGAAAGAAGAA
8617148 AGAAAGAAGAA
1 AGAAAGAAGAA
*
8617159 AGGAAGAAGAA
1 AGAAAGAAGAA
8617170 AGAAAGAAGAA
1 AGAAAGAAGAA
8617181 AGAAAGAAAGAA
1 AGAAAG-AAGAA
8617193 A
1 A
8617194 ATGAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
11 37 0.86
12 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (11 bp):
AGAAAGAAGAA
Found at i:8617202 original size:8 final size:8
Alignment explanation
Indices: 8617191--8617240 Score: 52
Period size: 8 Copynumber: 6.4 Consensus size: 8
8617181 AGAAAGAAAG
8617191 AAAATGAA
1 AAAATGAA
8617199 AAAATGAAA
1 AAAATG-AA
8617208 AAAATGAA
1 AAAATGAA
8617216 AAAA--AA
1 AAAATGAA
*
8617222 AATAA-AAA
1 AA-AATGAA
8617230 AAAATGAA
1 AAAATGAA
8617238 AAA
1 AAA
8617241 TAAAAGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
6 4 0.11
7 4 0.11
8 21 0.57
9 8 0.22
ACGTcount: A:0.82, C:0.00, G:0.08, T:0.10
Consensus pattern (8 bp):
AAAATGAA
Found at i:8617211 original size:9 final size:9
Alignment explanation
Indices: 8617186--8617220 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
8617176 AAGAAAGAAA
8617186 GAAAGAAAAT
1 GAAA-AAAAT
8617196 G-AAAAAAT
1 GAAAAAAAT
8617204 GAAAAAAAT
1 GAAAAAAAT
8617213 GAAAAAAA
1 GAAAAAAA
8617221 AAATAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 6 0.25
9 17 0.71
10 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:8617219 original size:11 final size:11
Alignment explanation
Indices: 8617197--8617260 Score: 66
Period size: 10 Copynumber: 6.1 Consensus size: 11
8617187 AAAGAAAATG
8617197 AAAAAATG--A
1 AAAAAATGAAA
8617206 AAAAAATGAAAA
1 AAAAAATG-AAA
8617218 AAAAAAT-AAA
1 AAAAAATGAAA
8617228 AAAAAATGAAA
1 AAAAAATGAAA
8617239 AATAAAA-GAAA
1 AA-AAAATGAAA
*
8617250 AATAAAT-AAA
1 AAAAAATGAAA
8617260 A
1 A
8617261 GAGGGTTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 11
0.80 0.02 0.18
Matches are distributed among these distances:
9 8 0.17
10 17 0.35
11 11 0.23
12 12 0.25
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (11 bp):
AAAAAATGAAA
Found at i:8617222 original size:12 final size:12
Alignment explanation
Indices: 8617205--8617251 Score: 64
Period size: 12 Copynumber: 4.2 Consensus size: 12
8617195 TGAAAAAATG
8617205 AAAAAAATGAAA
1 AAAAAAATGAAA
8617217 AAAAAAAT--AA
1 AAAAAAATGAAA
8617227 AAAAAAATGAAA
1 AAAAAAATGAAA
*
8617239 AATAAAA-GAAA
1 AAAAAAATGAAA
8617250 AA
1 AA
8617252 TAAATAAAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
10 10 0.31
11 6 0.19
12 16 0.50
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (12 bp):
AAAAAAATGAAA
Found at i:8617223 original size:21 final size:21
Alignment explanation
Indices: 8617197--8617251 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
8617187 AAAGAAAATG
8617197 AAAAAATGAAAAAAATGAAAA
1 AAAAAATGAAAAAAATGAAAA
*
8617218 AAAAAATAAAAAAAAATGAAAA
1 AAAAAAT-GAAAAAAATGAAAA
*
8617240 ATAAAA-GAAAAA
1 AAAAAATGAAAAA
8617252 TAAATAAAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.17
21 7 0.23
22 18 0.60
ACGTcount: A:0.84, C:0.00, G:0.07, T:0.09
Consensus pattern (21 bp):
AAAAAATGAAAAAAATGAAAA
Found at i:8617250 original size:22 final size:22
Alignment explanation
Indices: 8617205--8617260 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
8617195 TGAAAAAATG
*
8617205 AAAAAAATGAAAAAAAAAATAA
1 AAAAAAATGAAAAAAAAAAGAA
*
8617227 AAAAAAATGAAAAATAAAAGAA
1 AAAAAAATGAAAAAAAAAAGAA
*
8617249 AAATAAAT-AAAA
1 AAAAAAATGAAAA
8617261 GAGGGTTCAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (22 bp):
AAAAAAATGAAAAAAAAAAGAA
Found at i:8620340 original size:34 final size:34
Alignment explanation
Indices: 8620264--8620360 Score: 117
Period size: 34 Copynumber: 2.8 Consensus size: 34
8620254 CCCACGGACT
8620264 TACTAACATTCTAACATTTATTATATTTTATCATTCG
1 TACTAACATTCTAACA-TT-TTAT-TTTTATCATTCG
*
8620301 AACTAACATTCTAACATTTTA-TTTTATTCATTCG
1 TACTAACATTCTAACATTTTATTTTTA-TCATTCG
* *
8620335 TACTAACATGCTAA-TTTTTATTTTTA
1 TACTAACATTCTAACATTTTATTTTTA
8620361 CTGTTATTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
33 10 0.19
34 24 0.44
35 3 0.06
36 2 0.04
37 15 0.28
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.49
Consensus pattern (34 bp):
TACTAACATTCTAACATTTTATTTTTATCATTCG
Found at i:8624797 original size:2 final size:2
Alignment explanation
Indices: 8624790--8624817 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
8624780 GATAAAGGCA
8624790 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
8624818 GTATGTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8626409 original size:132 final size:132
Alignment explanation
Indices: 8626256--8626570 Score: 379
Period size: 132 Copynumber: 2.4 Consensus size: 132
8626246 CTTTAATATT
* * * *
8626256 GTTTCCCTCGAAGCAAATTTTGTTTTTCTTGAGAAAGTTTCTCTTGAAACA-AAAATATTTGAGA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAACACAAAATATTTGAGA
* *
8626320 TCGTTTCCCTTGAAACAAAATTTTGTCTCTCC-TGAGACAGTTTCTATTGAAACATCATCTTTGA
66 TCGTTTCCCCTGAAA-AAAATTTTGTCTC-CCTTGAGACAATTTCTATTGAAACATCATCTTTGA
*
8626384 GATT
129 GATC
* * ** *
8626388 GTTTCCCCTT-AAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTT-AAACATCATCATCTTTGA
1 GTTT-CCCTTGAAACAAATTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAACA-CAAAATATTTGA
* ** * *
8626451 GATTGTTTCCCCTGAAATGAATTTTGTCTCCCTTGAGATAATTTCTCTTGAAACATCATCTTTGA
64 GATCGTTTCCCCTGAAAAAAATTTTGTCTCCCTTGAGACAATTTCTATTGAAACATCATCTTTGA
*
8626516 TATC
129 GATC
*
8626520 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAA-TTTCACTTGAAACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-AAGTTTCTCTTGAAACA
8626571 TTATCCCTAA
Statistics
Matches: 155, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
131 12 0.08
132 110 0.71
133 33 0.21
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (132 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGAAAGTTTCTCTTGAAACACAAAATATTTGAGA
TCGTTTCCCCTGAAAAAAATTTTGTCTCCCTTGAGACAATTTCTATTGAAACATCATCTTTGAGA
TC
Found at i:8626428 original size:65 final size:65
Alignment explanation
Indices: 8626256--8626571 Score: 373
Period size: 65 Copynumber: 4.8 Consensus size: 65
8626246 CTTTAATATT
* * * * * ** *
8626256 GTTTCCCTCGAAGCAAATTTTGTTTTTCTTGAGAAAGTTTCTCTTGAAACAAAAATATTTGAGAT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-ATCATCTTTGAGAT
8626321 C
65 C
* *
8626322 GTTTCCCTTGAAACAAAATTTTGTCTCTCCTGAGACAGTTTCTATTGAAACATCATCTTTGAGAT
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGAT
*
8626387 T
65 C
* *
8626388 GTTTCCCCTT-AAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTAAACATCATCATCTTTGAG
1 GTTT-CCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAA-A-CATCATCTTTGAG
*
8626452 ATT
63 ATC
* ** * * * *
8626455 GTTTCCCCTGAAATGAATTTTGTCTCCCTTGAGATAATTTCTCTTGAAACATCATCTTTGATATC
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATC
* *
8626520 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCACTTGAAACAT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAT
8626572 TATCCCTAAA
Statistics
Matches: 216, Mismatches: 29, Indels: 11
0.84 0.11 0.04
Matches are distributed among these distances:
65 90 0.42
66 37 0.17
67 89 0.41
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (65 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACATCATCTTTGAGATC
Found at i:8626774 original size:134 final size:134
Alignment explanation
Indices: 8626573--8626918 Score: 437
Period size: 134 Copynumber: 2.6 Consensus size: 134
8626563 TTGAAACATT
* * * * *
8626573 ATCCCTAAAGATGGCCACCCGTCCTCATCACGTAGGAACCGTGTCATCCACTGACCATATCTTCT
1 ATCCCTAAAGATGGCCATCCATCCTTATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
** * ** *
8626638 CATCACGTAGGATTTGCGTCAACCTTAGATAACCA-TCCTTCCTCATCTTGTAGGAATCGTGTTA
66 CATCACGTAGGAGCTGCGTCAACCTTAGATAACCAGT-CGTCCTCATCACGTAAGAATCGTGTTA
8626702 TCATC
130 TCATC
* * *
8626707 ATCCCTAAAGATGGTCATCCATCCTTATCATGTAGGAACCGTGTCATCCACTGACTAGATCTCCT
1 ATCCCTAAAGATGGCCATCCATCCTTATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
* * *
8626772 CATCACATAGAAGCTGTGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAAGAATCGTGTTAT
66 CATCACGTAGGAGCTGCGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAAGAATCGTGTTAT
8626837 CATC
131 CATC
* * ** *
8626841 ATCCCTAAAGATGGCCAGT-TAT-CTTCATCACGTATGAATAGTGTCATCCACCGACCAGATCTC
1 ATCCCTAAAGATGGCCA-TCCATCCTT-ATCACGTAGGAACCGTGTCATCCACTGACCAGATCTC
*
8626904 CTCATCATGTAGGAG
64 CTCATCACGTAGGAG
8626919 TCGCTTAACC
Statistics
Matches: 181, Mismatches: 28, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
133 3 0.02
134 176 0.97
135 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (134 bp):
ATCCCTAAAGATGGCCATCCATCCTTATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
CATCACGTAGGAGCTGCGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAAGAATCGTGTTAT
CATC
Found at i:8626963 original size:134 final size:132
Alignment explanation
Indices: 8626573--8626971 Score: 410
Period size: 134 Copynumber: 3.0 Consensus size: 132
8626563 TTGAAACATT
* * * * *
8626573 ATCCCTAAAGATGGCCACCCGTCCTCATCACGTAGGAACCGTGTCATCCACTGACCATATCTTCT
1 ATCCCTAAAGATGGCCA-TCATCTTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
* * * ** *
8626638 CATCACGTAGGATTTGCGTCAACCTTAGATAACCATCCTTCCTCATCTTGTAGGAATCGTGTTAT
65 CATCACGTAGGAGTCGC-TTAACCTTAGATAACCAGACTTCCTCATCATGTAGGAATCGTGTTAT
8626703 CATC
129 CATC
* * *
8626707 ATCCCTAAAGATGGTCATCCATCCTT-ATCATGTAGGAACCGTGTCATCCACTGACTAGATCTCC
1 ATCCCTAAAGATGGCCAT-CAT-CTTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCC
* * * * * *
8626771 TCATCACATAGAAG-CTG-TGTCAACCTTAGATAACCAGTCGTCCTCATCACGTAAGAATCGTGT
64 TCATCACGTAGGAGTC-GCT-T-AACCTTAGATAACCAGACTTCCTCATCATGTAGGAATCGTGT
8626834 TATCATC
126 TATCATC
* * ** *
8626841 ATCCCTAAAGATGGCCAGTTATCTTCATCACGTATGAATAGTGTCATCCACCGACCAGATCTCCT
1 ATCCCTAAAGATGGCCA-TCATCTTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCT
* * * * *
8626906 CATCATGTAGGAGTCGCTTAACCCTCAAATAGA-CAGACTTCTTCATCATGTAGGAATCATGTTA
65 CATCACGTAGGAGTCGCTTAA-CCTTAGATA-ACCAGACTTCCTCATCATGTAGGAATCGTGTTA
8626970 TC
128 TC
8626972 TCCAAATTTA
Statistics
Matches: 216, Mismatches: 38, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
132 1 0.00
133 5 0.02
134 204 0.94
135 6 0.03
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (132 bp):
ATCCCTAAAGATGGCCATCATCTTCATCACGTAGGAACCGTGTCATCCACTGACCAGATCTCCTC
ATCACGTAGGAGTCGCTTAACCTTAGATAACCAGACTTCCTCATCATGTAGGAATCGTGTTATCA
TC
Found at i:8628828 original size:34 final size:33
Alignment explanation
Indices: 8628751--8628826 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
8628741 TCTAACATTT
*
8628751 ATTTTATTTTATCATTCGAACTAACATTCTAAC
1 ATTTTATTTTATCATTCGAACTAACATGCTAAC
*
8628784 ATTTTATTTTATTCATTCGTACTAACATGCTAA-
1 ATTTTATTTTA-TCATTCGAACTAACATGCTAAC
*
8628817 TTTTTATTTT
1 ATTTTATTTT
8628827 TACTGTTATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 20 0.51
34 19 0.49
ACGTcount: A:0.29, C:0.14, G:0.04, T:0.53
Consensus pattern (33 bp):
ATTTTATTTTATCATTCGAACTAACATGCTAAC
Found at i:8634798 original size:39 final size:39
Alignment explanation
Indices: 8634744--8634860 Score: 207
Period size: 39 Copynumber: 3.0 Consensus size: 39
8634734 GAATAATATA
8634744 AGAAAATTTGAACAATGATAACCTGCAAACCGATGTGAT
1 AGAAAATTTGAACAATGATAACCTGCAAACCGATGTGAT
8634783 AGAAAATTTGAACAATGATAACCTGCAAACCGATGTGAT
1 AGAAAATTTGAACAATGATAACCTGCAAACCGATGTGAT
* * *
8634822 AGAAAATTTGCACATTGATAACCAGCAAACCGATGTGAT
1 AGAAAATTTGAACAATGATAACCTGCAAACCGATGTGAT
8634861 CGACTTCCTA
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (39 bp):
AGAAAATTTGAACAATGATAACCTGCAAACCGATGTGAT
Found at i:8636328 original size:181 final size:181
Alignment explanation
Indices: 8636024--8636385 Score: 580
Period size: 181 Copynumber: 2.0 Consensus size: 181
8636014 TTCCTTTAAT
*
8636024 TGATTTATTTGACACAATATTTAATATAGACTCAAACATAATAATTAAACTTGATTTAAGATTCA
1 TGATTTATTTGACACAATATTTAATATAGACTCAAACATAATAATTAAACATGATTTAAGATTCA
** * *
8636089 AATAATGTTCGATTCAAACTAAAATTGATCCAAACTTTAGTTGGACTAATATAGATTCATATTAG
66 AATAATACTCGATTCAAACTAAAATCGATCCAAACTTTAGTTGGACCAATATAGATTCATATTAG
* * *
8636154 TTTGAACTCGATTACTTAAATTAATTTATTTGACCCGATACTTTATATATA
131 TCTGAACTCGATTACTTAAATTAATTTATTTGACCCAATACTTGATATATA
* * *
8636205 TGATTTATTTGACTCAATATTTAATATAGACTCAAACATAGTAATTAAACATGATTTAAGATTCG
1 TGATTTATTTGACACAATATTTAATATAGACTCAAACATAATAATTAAACATGATTTAAGATTCA
* * *
8636270 AATCATACTCGATTCAAACTAAAATCGATCCAAATTTTAGTTGGACCAATATAGATTCATATTGG
66 AATAATACTCGATTCAAACTAAAATCGATCCAAACTTTAGTTGGACCAATATAGATTCATATTAG
* *
8636335 TCTGAACTCGATTACTTGAATTAATTTATTTGACTCAATACTTGATATATA
131 TCTGAACTCGATTACTTAAATTAATTTATTTGACCCAATACTTGATATATA
8636386 ATCAACTATA
Statistics
Matches: 165, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
181 165 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (181 bp):
TGATTTATTTGACACAATATTTAATATAGACTCAAACATAATAATTAAACATGATTTAAGATTCA
AATAATACTCGATTCAAACTAAAATCGATCCAAACTTTAGTTGGACCAATATAGATTCATATTAG
TCTGAACTCGATTACTTAAATTAATTTATTTGACCCAATACTTGATATATA
Found at i:8636481 original size:151 final size:151
Alignment explanation
Indices: 8636207--8636483 Score: 373
Period size: 151 Copynumber: 1.8 Consensus size: 151
8636197 TATATATATG
* * * * *
8636207 ATTTATTTGACTCAATATTTAATATAGACTCAAACATAGTAATTAAACATGATTTAAGATTCGAA
1 ATTTATTTGACTCAATACTTAATATAGAATCAAACATAATAACTAAACATGATTTAAGACTCGAA
* *
8636272 TCATACTCGATTCAAACTAAAATCGATCCAAATTTTAGTTGGACCAATATAGATTCATATTGGTC
66 TCATACTAGATTCAAACTAAAATCGATCCAAATTTTAGTTGGACCAATATAGACTCATATTGGTC
8636337 TGAACTCGATTACTTGAATTA
131 TGAACTCGATTACTTGAATTA
* * *
8636358 ATTTATTTGACTCAATACTTGATATATAATC-AACTATAATAACTAAACTTG-TTCTGAA-ACTC
1 ATTTATTTGACTCAATACTTAATATAGAATCAAAC-ATAATAACTAAACATGATT-T-AAGACTC
* * *
8636420 GAA-CATACTATATTCAAACTAAAATCGATCCCAATTTTAGTTTGGACCAATATGGACTCATATT
63 GAATCATACTAGATTCAAACTAAAATCGATCCAAATTTTAG-TTGGACCAATATAGACTCATATT
8636484 CAATATGACC
Statistics
Matches: 109, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
150 39 0.36
151 68 0.62
152 2 0.02
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (151 bp):
ATTTATTTGACTCAATACTTAATATAGAATCAAACATAATAACTAAACATGATTTAAGACTCGAA
TCATACTAGATTCAAACTAAAATCGATCCAAATTTTAGTTGGACCAATATAGACTCATATTGGTC
TGAACTCGATTACTTGAATTA
Found at i:8637367 original size:39 final size:38
Alignment explanation
Indices: 8637306--8637438 Score: 122
Period size: 39 Copynumber: 3.4 Consensus size: 38
8637296 CATAAGGGCT
*
8637306 TACGGTAAGAACTTACCATGTGCACAAAGCAGAGGAGCC
1 TACGGTAAGGACTTACC-TGTGCACAAAGCAGAGGAGCC
* * * *
8637345 TACGGTAAGGGCTTATCCTGTGCATAAAACAAAGGAGCC
1 TACGGTAAGGACTTA-CCTGTGCACAAAGCAGAGGAGCC
* * * * * *
8637384 TTCAGTAAGGACTTACCCTATGAACGAAGCAGAGGAGCT
1 TACGGTAAGGACTTA-CCTGTGCACAAAGCAGAGGAGCC
* *
8637423 TAAGGTAAGGTCTTAC
1 TACGGTAAGGACTTAC
8637439 AAGTCATAGA
Statistics
Matches: 73, Mismatches: 20, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
38 1 0.01
39 70 0.96
40 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (38 bp):
TACGGTAAGGACTTACCTGTGCACAAAGCAGAGGAGCC
Found at i:8637562 original size:28 final size:29
Alignment explanation
Indices: 8637506--8637563 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
8637496 AACGGTAATG
* * * *
8637506 TCAGAAAATCATAAACCATATATTTTGTT
1 TCAGAAAATCATAAACAAGAGATTATGTT
8637535 TCAGAAAA-CATAAACAAGAGATTATGTT
1 TCAGAAAATCATAAACAAGAGATTATGTT
8637563 T
1 T
8637564 TTATTTCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (29 bp):
TCAGAAAATCATAAACAAGAGATTATGTT
Found at i:8641443 original size:41 final size:41
Alignment explanation
Indices: 8641410--8641736 Score: 388
Period size: 41 Copynumber: 8.0 Consensus size: 41
8641400 GAATAAATGC
*
8641410 ATGCTACCATGATCGAATAAAGTTGAATGGTGAATTATTGT
1 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
8641451 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
1 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
*
8641492 ATGCTACCATGATCGAATCAAGTTGAATAGTGAATTATTGT
1 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
* * *
8641533 ATGCCACCATGATTGAATCAAGTTGAATGGTGAATTAATGT
1 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
* * *
8641574 ATGCTACCATGATCGAATCAAGTTTAATGGTGAAGTATTGC
1 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
* * * * * *
8641615 ATGTTACCATGATTGAATTGAA-TCGAATGGCGAACTATTGT
1 ATGCTACCATGATCGAA-TCAAGTTGAATGGTGAATTATTGT
* * * * * *
8641656 ATGCTACTATGACCGAATTAAGTTTAATGGTGAAGTATTGC
1 ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
* * * * * *
8641697 ATGTTGCCATGATTGAATTGAA-TCGAATGGTGAACTATTG
1 ATGCTACCATGATCGAA-TCAAGTTGAATGGTGAATTATTG
8641737 CATGTTGTCA
Statistics
Matches: 244, Mismatches: 39, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
40 3 0.01
41 235 0.96
42 6 0.02
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (41 bp):
ATGCTACCATGATCGAATCAAGTTGAATGGTGAATTATTGT
Found at i:8641766 original size:36 final size:38
Alignment explanation
Indices: 8641600--8641760 Score: 126
Period size: 41 Copynumber: 4.0 Consensus size: 38
8641590 ATCAAGTTTA
* *
8641600 ATGGTGAAGTATTGCATGTTACCATGATTGAATTGAAT
1 ATGGTGAACTATTGCATGTTGCCATGATTGAATTGAAT
* * * * * **
8641638 CGAATGGCGAACTATTGTATGCTACTATGACCGAATT-AAGTTT
1 ---ATGGTGAACTATTGCATGTTGCCATGATTGAATTGAA---T
*
8641681 AATGGTGAAGTATTGCATGTTGCCATGATTGAATTGAAT
1 -ATGGTGAACTATTGCATGTTGCCATGATTGAATTGAAT
*
8641720 CGAATGGTGAACTATTGCATGTTGTCATGATTGAATTGAAT
1 ---ATGGTGAACTATTGCATGTTGCCATGATTGAATTGAAT
8641761 TGTGAATTAA
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
39 1 0.01
40 2 0.02
41 91 0.94
42 2 0.02
43 1 0.01
ACGTcount: A:0.30, C:0.11, G:0.24, T:0.35
Consensus pattern (38 bp):
ATGGTGAACTATTGCATGTTGCCATGATTGAATTGAAT
Found at i:8647954 original size:29 final size:29
Alignment explanation
Indices: 8647912--8647970 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
8647902 TGAAAATCAT
*
8647912 TTTTGAAAATTAATTACTCCCCTTTACTC
1 TTTTGAAAATTAATTACTCCCCCTTACTC
8647941 TTTTGAAAATTAATTACTCCCCCTTACTC
1 TTTTGAAAATTAATTACTCCCCCTTACTC
8647970 T
1 T
8647971 AACACTTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.44
Consensus pattern (29 bp):
TTTTGAAAATTAATTACTCCCCCTTACTC
Found at i:8649603 original size:17 final size:17
Alignment explanation
Indices: 8649578--8649612 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
8649568 GGTTTAAGAA
* *
8649578 ATCGGAAAAGGATATGT
1 ATCGAAAAAAGATATGT
8649595 ATCGAAAAAAGATATGT
1 ATCGAAAAAAGATATGT
8649612 A
1 A
8649613 ACCTGCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.23, T:0.23
Consensus pattern (17 bp):
ATCGAAAAAAGATATGT
Found at i:8666790 original size:33 final size:32
Alignment explanation
Indices: 8666753--8667051 Score: 257
Period size: 33 Copynumber: 9.1 Consensus size: 32
8666743 TTAACGTGAA
*
8666753 ATCATAACATGAACTATCATTGAAAGAACTTAT
1 ATCATAACATGAACT-TCATGGAAAGAACTTAT
* *
8666786 ATCATAAAATGGACTTCTATGGCAAA-AACTTAT
1 ATCATAACATGAACTTC-ATGG-AAAGAACTTAT
* * *
8666819 ATCATATCATGAACTTCCATGGCAAGGACTTAT
1 ATCATAACATGAACTT-CATGGAAAGAACTTAT
* * * *
8666852 ATCATATCATTAACTTCCATGGGAAGGACTTAT
1 ATCATAACATGAACTT-CATGGAAAGAACTTAT
* * * *
8666885 ATCATAA-AGTGAAATTTCATGGCACGAAATTAT
1 ATCATAACA-TG-AACTTCATGGAAAGAACTTAT
* *
8666918 ATCATAAAATAAACTTTCATGGCAAAG-ACTTAT
1 ATCATAACATGAAC-TTCATGG-AAAGAACTTAT
* *
8666951 ATCATAAAATAAACTTTCATGGCAAAG-ACTTAT
1 ATCATAACATGAAC-TTCATGG-AAAGAACTTAT
*
8666984 ATTC-TAACATGAACTTTCATGGAAAGATCTTAT
1 A-TCATAACATGAAC-TTCATGGAAAGAACTTAT
*
8667017 ATCATAACATGGACTTCCATGGAAAGAACTTAT
1 ATCATAACATGAACTT-CATGGAAAGAACTTAT
8667050 AT
1 AT
8667052 AATATAAATC
Statistics
Matches: 226, Mismatches: 27, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
32 15 0.07
33 198 0.88
34 13 0.06
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.31
Consensus pattern (32 bp):
ATCATAACATGAACTTCATGGAAAGAACTTAT
Found at i:8667515 original size:51 final size:52
Alignment explanation
Indices: 8667451--8667560 Score: 134
Period size: 51 Copynumber: 2.2 Consensus size: 52
8667441 AACTTGTCTT
* ** * *
8667451 TTCACAT-GATTTCTTATCTTTATGTACCAAGTGAGCCGTAACTCTTTATCA
1 TTCACATAGATTTCTTATCTTGACATACCAAATGAGCCATAACTCTTTATCA
* *
8667502 TTCACATAG-TTTCTTATCTTGACATACCAAATGAGTCATAGCTCTTTATCA
1 TTCACATAGATTTCTTATCTTGACATACCAAATGAGCCATAACTCTTTATCA
*
8667553 TTTACATA
1 TTCACATA
8667561 ACCTTCATTC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (52 bp):
TTCACATAGATTTCTTATCTTGACATACCAAATGAGCCATAACTCTTTATCA
Found at i:8667713 original size:25 final size:25
Alignment explanation
Indices: 8667685--8667791 Score: 72
Period size: 25 Copynumber: 4.3 Consensus size: 25
8667675 ATTCTAGAAC
*
8667685 TGAACTTACCACATAATTCCACTAG
1 TGAACTTACCACATAATTCCACCAG
** * *
8667710 TGAAAGTAGCACATAATTGCACCAG
1 TGAACTTACCACATAATTCCACCAG
** * * *
8667735 TGAACTTAATATATAATTCCAACAA
1 TGAACTTACCACATAATTCCACCAG
* * * *
8667760 TGAAAATTA-AACATACTTACACCAG
1 TG-AACTTACCACATAATTCCACCAG
8667785 TGAACTT
1 TGAACTT
8667792 TCACATGTAA
Statistics
Matches: 60, Mismatches: 21, Indels: 3
0.71 0.25 0.04
Matches are distributed among these distances:
24 4 0.07
25 51 0.85
26 5 0.08
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.27
Consensus pattern (25 bp):
TGAACTTACCACATAATTCCACCAG
Found at i:8667764 original size:50 final size:50
Alignment explanation
Indices: 8667697--8667791 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
8667687 AACTTACCAC
* * *
8667697 ATAATTCCACTAGTG-AAAGTAGCACATAATTGCACCAGTGAACTTAATAT
1 ATAATTCCACTAATGAAAAGTA-AACATAATTACACCAGTGAACTTAATAT
* *
8667747 ATAATTCCAAC-AATGAAAATTAAACATACTTACACCAGTGAACTT
1 ATAATTCC-ACTAATGAAAAGTAAACATAATTACACCAGTGAACTT
8667792 TCACATGTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
50 31 0.82
51 7 0.18
ACGTcount: A:0.43, C:0.19, G:0.11, T:0.27
Consensus pattern (50 bp):
ATAATTCCACTAATGAAAAGTAAACATAATTACACCAGTGAACTTAATAT
Found at i:8668519 original size:14 final size:14
Alignment explanation
Indices: 8668485--8668521 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
8668475 TCATCTTCAC
*
8668485 TTTTC-TTTCTTTA
1 TTTTCTTTTCATTA
8668498 TTTT-TTTTCATTA
1 TTTTCTTTTCATTA
8668511 TTTTCTTTTCA
1 TTTTCTTTTCA
8668522 CAATGCTAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTCTTTTCATTA
Found at i:8675798 original size:13 final size:13
Alignment explanation
Indices: 8675744--8675790 Score: 58
Period size: 13 Copynumber: 3.3 Consensus size: 13
8675734 TTCATTTAAT
8675744 AAATAAACGAACA
1 AAATAAACGAACA
8675757 CGAACATAAACGAACA
1 --AA-ATAAACGAACA
8675773 AAATAAACGAACA
1 AAATAAACGAACA
8675786 TAAAT
1 -AAAT
8675791 GAACAACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 11 0.37
14 6 0.20
15 2 0.07
16 11 0.37
ACGTcount: A:0.64, C:0.17, G:0.09, T:0.11
Consensus pattern (13 bp):
AAATAAACGAACA
Found at i:8677804 original size:14 final size:14
Alignment explanation
Indices: 8677787--8677828 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
8677777 GATTGGGTTA
8677787 AACATAAATGAACG
1 AACATAAATGAACG
8677801 AACAT-AATCGAACG
1 AACATAAAT-GAACG
*
8677815 AACATAACTGAACG
1 AACATAAATGAACG
8677829 TTCAAGAACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 20 0.80
15 2 0.08
ACGTcount: A:0.52, C:0.19, G:0.14, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:8678050 original size:139 final size:140
Alignment explanation
Indices: 8677799--8678082 Score: 561
Period size: 139 Copynumber: 2.0 Consensus size: 140
8677789 CATAAATGAA
8677799 CGAACATAATCGAACGAACATAACTGAACGTTCAAGAACGTAAATGAACAAATGAGACCTATGTT
1 CGAACATAATCGAACGAACATAACTGAACGTTCAAGAACGTAAATGAACAAATGAGACCTATGTT
8677864 CGTATTCGTTCATTTAATTATACGAACACAAAATCTTGTTCATGTTCGTTCATTTAATAAATAAA
66 CGTATTCGTTCATTTAATTATACGAACACAAAATCTTGTTCATGTTCGTTCATTTAATAAATAAA
8677929 CAAACATAAG
131 CAAACATAAG
8677939 -GAACATAATCGAACGAACATAACTGAACGTTCAAGAACGTAAATGAACAAATGAGACCTATGTT
1 CGAACATAATCGAACGAACATAACTGAACGTTCAAGAACGTAAATGAACAAATGAGACCTATGTT
8678003 CGTATTCGTTCATTTAATTATACGAACACAAAATCTTGTTCATGTTCGTTCATTTAATAAATAAA
66 CGTATTCGTTCATTTAATTATACGAACACAAAATCTTGTTCATGTTCGTTCATTTAATAAATAAA
8678068 CAAACATAAG
131 CAAACATAAG
8678078 CGAAC
1 CGAAC
8678083 TTCCCGTCGC
Statistics
Matches: 143, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
139 139 0.97
140 4 0.03
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (140 bp):
CGAACATAATCGAACGAACATAACTGAACGTTCAAGAACGTAAATGAACAAATGAGACCTATGTT
CGTATTCGTTCATTTAATTATACGAACACAAAATCTTGTTCATGTTCGTTCATTTAATAAATAAA
CAAACATAAG
Found at i:8678354 original size:17 final size:17
Alignment explanation
Indices: 8678328--8678435 Score: 76
Period size: 17 Copynumber: 6.3 Consensus size: 17
8678318 AAAATAAAAT
8678328 AACTAGTTTAATTAATG
1 AACTAGTTTAATTAATG
* ** *
8678345 AACTAATTTAACGAGTG
1 AACTAGTTTAATTAATG
8678362 AACTAGTTTAATTAATG
1 AACTAGTTTAATTAATG
* *
8678379 AACCA-TCTTCATTGAATG
1 AACTAGT-TTAATT-AATG
* * *
8678397 AACCAGATTACTTAATG
1 AACTAGTTTAATTAATG
* *
8678414 AAATAGCTT-ATTGAATG
1 AACTAGTTTAATT-AATG
8678431 AACTA
1 AACTA
8678436 TATGCATCAA
Statistics
Matches: 69, Mismatches: 18, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
16 3 0.04
17 53 0.77
18 13 0.19
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (17 bp):
AACTAGTTTAATTAATG
Done.