Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 267 of 352
Found at i:87644791 original size:62 final size:61
Alignment explanation
Indices: 87644715--87644840 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 61
87644705 TGAGAAATCG
* * *
87644715 ACATGGCCTAGACTTCCGT-ACACGGGTAGATCACACGCCCGTGCCTATTCAACAGACTCTAA
1 ACATGACCTAGACTTCC-TCACACGGGTAGACCACACGCCCATGCCTATTCAACAGACTC-AA
* * * *
87644777 ACATGACCTGGACTTCCTCACATGGGTAGACCACACGCCCATGTCTATTTAACAGACTCAA
1 ACATGACCTAGACTTCCTCACACGGGTAGACCACACGCCCATGCCTATTCAACAGACTCAA
87644838 ACA
1 ACA
87644841 CGATTTGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
61 6 0.11
62 50 0.89
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.21
Consensus pattern (61 bp):
ACATGACCTAGACTTCCTCACACGGGTAGACCACACGCCCATGCCTATTCAACAGACTCAA
Found at i:87651273 original size:16 final size:17
Alignment explanation
Indices: 87651252--87651284 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
87651242 ACTACTTTTT
87651252 ATTTTATTTTT-CTTTA
1 ATTTTATTTTTACTTTA
87651268 ATTTTATTTTTACTTTA
1 ATTTTATTTTTACTTTA
87651285 TCCTTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTACTTTA
Found at i:87658478 original size:40 final size:40
Alignment explanation
Indices: 87658397--87658613 Score: 287
Period size: 40 Copynumber: 5.5 Consensus size: 40
87658387 AAACCAAGTA
* * * * *
87658397 CCTTCGGAATTTAG-CCGGATATAGCT-ACTTGCTCAATTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
87658436 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
87658476 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
87658516 CCTTCTGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
87658556 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAACG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
87658596 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
87658614 ATTATCATCC
Statistics
Matches: 159, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
39 14 0.09
40 145 0.91
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:87661301 original size:14 final size:14
Alignment explanation
Indices: 87661282--87661313 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
87661272 AAACATAGTC
87661282 CTTTGCAATTTCTT
1 CTTTGCAATTTCTT
87661296 CTTTGCAATTTCTT
1 CTTTGCAATTTCTT
87661310 CTTT
1 CTTT
87661314 TCAGTAGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.22, G:0.06, T:0.59
Consensus pattern (14 bp):
CTTTGCAATTTCTT
Found at i:87663787 original size:26 final size:25
Alignment explanation
Indices: 87663753--87663814 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
87663743 TTAATTATTT
*
87663753 CTGTTAAAAATTTC-ATTCATCTCTA
1 CTGTTAAAAACTTCAATT-ATCTCTA
87663778 CTGTTAAAAACTTCAATTATCTCTA
1 CTGTTAAAAACTTCAATTATCTCTA
* *
87663803 TTGTCAAAAACT
1 CTGTTAAAAACT
87663815 GGTGTGGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 30 0.91
26 3 0.09
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.40
Consensus pattern (25 bp):
CTGTTAAAAACTTCAATTATCTCTA
Found at i:87664231 original size:7 final size:7
Alignment explanation
Indices: 87664192--87664245 Score: 58
Period size: 7 Copynumber: 7.6 Consensus size: 7
87664182 TTAGCAAACA
87664192 AAAATTT
1 AAAATTT
87664199 AATAATATT
1 AA-AAT-TT
87664208 AATAA-TT
1 AA-AATTT
*
87664215 GAAA-TT
1 AAAATTT
87664221 AAAATTT
1 AAAATTT
87664228 AAAATTT
1 AAAATTT
87664235 AAAATTT
1 AAAATTT
87664242 AAAA
1 AAAA
87664246 AGCTATGGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 7 0.17
7 25 0.60
8 3 0.07
9 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:87669887 original size:13 final size:13
Alignment explanation
Indices: 87669869--87669893 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
87669859 ACTAAAAATA
87669869 AAAAATTTATATG
1 AAAAATTTATATG
87669882 AAAAATTTATAT
1 AAAAATTTATAT
87669894 TTAATTATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAAAATTTATATG
Found at i:87672171 original size:30 final size:29
Alignment explanation
Indices: 87672131--87672225 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 29
87672121 GTTAATAATT
87672131 TATAAGAATTGAATC-AAATCAAAATTTCATG
1 TATAA-AATTGAA-CAAAATCAAAA-TTCATG
*
87672162 TATAAAATTGCACAAAATCAAAATTCATG
1 TATAAAATTGAACAAAATCAAAATTCATG
* * * *
87672191 TATACAATTGCACTTTAAATCATAATTCATG
1 TATAAAATTGAAC--AAAATCAAAATTCATG
87672222 TATA
1 TATA
87672226 GTTTTGGGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
29 19 0.33
30 15 0.26
31 23 0.40
ACGTcount: A:0.46, C:0.13, G:0.07, T:0.34
Consensus pattern (29 bp):
TATAAAATTGAACAAAATCAAAATTCATG
Found at i:87672189 original size:29 final size:30
Alignment explanation
Indices: 87672146--87672225 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 30
87672136 GAATTGAATC
87672146 AAATCAAAATTTCATGTATAAAATTGCAC-A
1 AAATCAAAA-TTCATGTATAAAATTGCACTA
* *
87672176 AAATCAAAATTCATGTATACAATTGCACTTT
1 AAATCAAAATTCATGTATAAAATTGCAC-TA
*
87672207 AAATCATAATTCATGTATA
1 AAATCAAAATTCATGTATA
87672226 GTTTTGGGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
29 18 0.40
30 9 0.20
31 18 0.40
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (30 bp):
AAATCAAAATTCATGTATAAAATTGCACTA
Found at i:87672858 original size:24 final size:24
Alignment explanation
Indices: 87672826--87672879 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
87672816 CCTATTGCCT
*
87672826 ACTATAAAGGTGGCGACACCACCA
1 ACTATAAAGGTGGCAACACCACCA
87672850 ACTATAAAGGTGGCAACACCACCA
1 ACTATAAAGGTGGCAACACCACCA
87672874 ACTATA
1 ACTATA
87672880 TATACTCTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.41, C:0.28, G:0.17, T:0.15
Consensus pattern (24 bp):
ACTATAAAGGTGGCAACACCACCA
Found at i:87673271 original size:52 final size:52
Alignment explanation
Indices: 87673215--87673325 Score: 154
Period size: 52 Copynumber: 2.1 Consensus size: 52
87673205 ATGAAAGAAA
87673215 GCGGCACCAAAAAAACAATT-TTT-TGTTTATTTTGATGCCTCCAAATAATGTG
1 GCGGCACC-AAAAAACAATTGTTTAT-TTTATTTTGATGCCTCCAAATAATGTG
* * * *
87673267 GCGGCACCAAAAAATAATTGTTTATTTTATTTTGGTTCCTTCAAATAATGTG
1 GCGGCACCAAAAAACAATTGTTTATTTTATTTTGATGCCTCCAAATAATGTG
87673319 GCGGCAC
1 GCGGCAC
87673326 TATAAATATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
51 10 0.19
52 42 0.79
53 1 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (52 bp):
GCGGCACCAAAAAACAATTGTTTATTTTATTTTGATGCCTCCAAATAATGTG
Found at i:87675582 original size:56 final size:56
Alignment explanation
Indices: 87675496--87675604 Score: 175
Period size: 56 Copynumber: 1.9 Consensus size: 56
87675486 TTTCGAGGCA
*
87675496 ACAAATCTGATGAGTAAGTTCATAAATATTACTTATGAATATTTATGAGTCAAACC
1 ACAAATCTGATGAGCAAGTTCATAAATATTACTTATGAATATTTATGAGTCAAACC
* *
87675552 ACAAAT-TCGATGAGCAAGTTCGTAAATATTATTTATGAATATTTATGAGTCAA
1 ACAAATCT-GATGAGCAAGTTCATAAATATTACTTATGAATATTTATGAGTCAA
87675605 TTATGGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
55 1 0.02
56 48 0.98
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (56 bp):
ACAAATCTGATGAGCAAGTTCATAAATATTACTTATGAATATTTATGAGTCAAACC
Found at i:87677925 original size:20 final size:20
Alignment explanation
Indices: 87677873--87677925 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
87677863 TATTTAAGCT
* *
87677873 AAAGTAAGTAAACGCAATGG
1 AAAGTAAGTAAATGCAATGA
*
87677893 AAAGTAAGTAAATGCTATGA
1 AAAGTAAGTAAATGCAATGA
87677913 AAAGTAAGTAAAT
1 AAAGTAAGTAAAT
87677926 AGAAGGGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (20 bp):
AAAGTAAGTAAATGCAATGA
Found at i:87681262 original size:42 final size:41
Alignment explanation
Indices: 87681146--87681263 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 41
87681136 ATACCAATGC
* * *
87681146 CATATTCCAGATATGGTCTTACATGGGATCTCATATCGATG
1 CATATCCCAGATATGGTCTTACATGAGAACTCATATCGATG
* * * * * *
87681187 CAAATAGCTCAGCTATAGTCTTACACGAAAACTCATATCGATG
1 C--ATATCCCAGATATGGTCTTACATGAGAACTCATATCGATG
87681230 TCATATCCCAGATATGGTCTTACATGAGAACTCA
1 -CATATCCCAGATATGGTCTTACATGAGAACTCA
87681264 AATAACCCTA
Statistics
Matches: 59, Mismatches: 15, Indels: 5
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.02
42 26 0.44
43 31 0.53
44 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (41 bp):
CATATCCCAGATATGGTCTTACATGAGAACTCATATCGATG
Found at i:87684031 original size:18 final size:18
Alignment explanation
Indices: 87684004--87684060 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
87683994 ATACACAGAA
*
87684004 TAAGCTTTGAAAGCTTAG
1 TAAGCCTTGAAAGCTTAG
87684022 TAAGCCTTGAAAGCTTAG
1 TAAGCCTTGAAAGCTTAG
*
87684040 TAAGCCTTAAAAGCTTAG
1 TAAGCCTTGAAAGCTTAG
87684058 TAA
1 TAA
87684061 TCCATAAGCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (18 bp):
TAAGCCTTGAAAGCTTAG
Found at i:87684714 original size:43 final size:43
Alignment explanation
Indices: 87684646--87684819 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
87684636 AAAACTCATA
*
87684646 CGATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATAT
1 CGATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAATCAAATAT
* *
87684689 CGATGCCACTGTCCTAGACAGGGTCTTACACGAAATCAAATAT
1 CGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATAT
* * *
87684732 -GATGTCGA-TGTCCCAGACATGGTCTTACACGTAAATCATAA-GT
1 CGATG-CCACTGTCCCAGACAGGGTCTTACACGT-AATCA-AATAT
* * *
87684775 CGATGCTAAC-GTCCCAGAC-GTGGTCTTACACGAAATCACATAT
1 CGATGC-CACTGTCCCAGACAG-GGTCTTACACGTAATCAAATAT
87684818 CG
1 CG
87684820 GATCCTATGT
Statistics
Matches: 108, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 28 0.26
43 52 0.48
44 28 0.26
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (43 bp):
CGATGCCACTGTCCCAGACAGGGTCTTACACGTAATCAAATAT
Found at i:87684800 original size:86 final size:85
Alignment explanation
Indices: 87684656--87684817 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
87684646 CGATGCCAAC
* * * *
87684656 GTCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCTAGACAGGGTCTTACACG
1 GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCAACTGTCCCAGACAGGGTCTTACACG
87684721 AAATCAAATATGATGTCGAT
66 AAATCAAATATGATGTCGAT
*
87684741 GTCCCAGACATGGTCTTACACGTAAATCATAA-GTCGATGCTAAC-GTCCCAGAC-GTGGTCTTA
1 GTCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGC-AACTGTCCCAGACAG-GGTCTTA
*
87684803 CACGAAATCACATAT
62 CACGAAATCAAATAT
87684818 CGGATCCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 22 0.33
86 41 0.61
87 4 0.06
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (85 bp):
GTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCAACTGTCCCAGACAGGGTCTTACACG
AAATCAAATATGATGTCGAT
Found at i:87688254 original size:4 final size:4
Alignment explanation
Indices: 87688245--87688282 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
87688235 AATTTTCCCT
87688245 TTTC TTTC TTTC TTTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC T
87688283 CCCCTGTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:87688261 original size:13 final size:13
Alignment explanation
Indices: 87688243--87688332 Score: 74
Period size: 13 Copynumber: 6.4 Consensus size: 13
87688233 CCAATTTTCC
87688243 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
87688256 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
87688269 C-TTTCTTTCTTT
1 CTTTTCTTTCTTT
***
87688281 CTCCCCTGTTCTTCT
1 CTTTTCT-TTCTT-T
87688296 CTGTTTCGTTTCATTGTT
1 CT-TTTC-TTTC--T-TT
87688314 CTGTTTCTTTCTTT
1 CT-TTTCTTTCTTT
87688328 CTTTT
1 CTTTT
87688333 ATTTACTTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
12 12 0.19
13 19 0.30
14 9 0.14
15 4 0.06
16 4 0.06
17 5 0.08
18 9 0.14
19 1 0.02
ACGTcount: A:0.01, C:0.26, G:0.06, T:0.68
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:87688427 original size:19 final size:19
Alignment explanation
Indices: 87688403--87688441 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87688393 AATACTTATT
*
87688403 TATTATT-TATACATGTGTA
1 TATTATTAT-TACATATGTA
87688422 TATTATTATTACATATGTA
1 TATTATTATTACATATGTA
87688441 T
1 T
87688442 CCATAGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTATTATTACATATGTA
Found at i:87688503 original size:16 final size:17
Alignment explanation
Indices: 87688486--87688561 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 17
87688476 TATTTATCAT
87688486 ATAAATATCTTATAAT-
1 ATAAATATCTTATAATA
* *
87688502 ATAATTAT-TTA-ATTA
1 ATAAATATCTTATAATA
87688517 ATAAATATCTTTTATAAATA
1 ATAAATATC--TTAT-AATA
87688537 ATAAATATCTT-TGAATA
1 ATAAATATCTTAT-AATA
87688554 ATTAAATA
1 A-TAAATA
87688562 CATGTATTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
14 2 0.04
15 10 0.21
16 7 0.15
17 6 0.12
18 11 0.23
20 12 0.25
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (17 bp):
ATAAATATCTTATAATA
Found at i:87694205 original size:39 final size:39
Alignment explanation
Indices: 87694081--87694185 Score: 174
Period size: 39 Copynumber: 2.7 Consensus size: 39
87694071 GAGATTGGAA
87694081 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
*
87694120 ATATCTGGACATGAGATCCGCAGGCTATATGCTAGAAAT
1 ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
* * *
87694159 ATATCCGGACTTAAGGTCCGCAGGCTA
1 ATATCCGGACATGAGATCCGCAGGCTA
87694186 CGTGCTGGGA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 61 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (39 bp):
ATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAAT
Found at i:87698399 original size:4 final size:4
Alignment explanation
Indices: 87698390--87698427 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
87698380 AATTTTCCCT
87698390 TTTC TTTC TTTC TTTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC -TTTC TTTC TTTC TTTC TTTC TTTC T
87698428 CCCCTGTTCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:87698406 original size:13 final size:13
Alignment explanation
Indices: 87698388--87698477 Score: 74
Period size: 13 Copynumber: 6.4 Consensus size: 13
87698378 CCAATTTTCC
87698388 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
87698401 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
87698414 C-TTTCTTTCTTT
1 CTTTTCTTTCTTT
***
87698426 CTCCCCTGTTCTTCT
1 CTTTTCT-TTCTT-T
87698441 CTGTTTCGTTTCATTGTT
1 CT-TTTC-TTTC--T-TT
87698459 CTGTTTCTTTCTTT
1 CT-TTTCTTTCTTT
87698473 CTTTT
1 CTTTT
87698478 ATTTACTTGT
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
12 12 0.19
13 19 0.30
14 9 0.14
15 4 0.06
16 4 0.06
17 5 0.08
18 9 0.14
19 1 0.02
ACGTcount: A:0.01, C:0.26, G:0.06, T:0.68
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:87698574 original size:19 final size:19
Alignment explanation
Indices: 87698550--87698588 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
87698540 AATACTTATT
*
87698550 TATTATT-TATACATGTGTA
1 TATTATTAT-TACATATGTA
87698569 TATTATTATTACATATGTA
1 TATTATTATTACATATGTA
87698588 T
1 T
87698589 CCATAGATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.54
Consensus pattern (19 bp):
TATTATTATTACATATGTA
Found at i:87698650 original size:16 final size:17
Alignment explanation
Indices: 87698633--87698708 Score: 61
Period size: 20 Copynumber: 4.4 Consensus size: 17
87698623 TATTTATCAT
87698633 ATAAATATCTTATAAT-
1 ATAAATATCTTATAATA
* *
87698649 ATAATTAT-TTA-ATTA
1 ATAAATATCTTATAATA
87698664 ATAAATATCTTTTATAAATA
1 ATAAATATC--TTAT-AATA
87698684 ATAAATATCTT-TAAATA
1 ATAAATATCTTAT-AATA
87698701 ATTAAATA
1 A-TAAATA
87698709 CATGTATTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
14 2 0.04
15 10 0.20
16 7 0.14
17 7 0.14
18 11 0.22
20 12 0.24
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAAATATCTTATAATA
Found at i:87698698 original size:17 final size:18
Alignment explanation
Indices: 87698656--87698708 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
87698646 AATATAATTA
*
87698656 TTTAATTAATAAATATCTT
1 TTTAAATAATAAATATC-T
87698675 TTATAAATAATAAATATC-
1 TT-TAAATAATAAATATCT
87698693 TTTAAATAATTAAATA
1 TTTAAATAA-TAAATA
87698709 CATGTATTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 8 0.26
19 2 0.06
20 14 0.45
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (18 bp):
TTTAAATAATAAATATCT
Found at i:87701307 original size:84 final size:84
Alignment explanation
Indices: 87701154--87701664 Score: 349
Period size: 84 Copynumber: 6.0 Consensus size: 84
87701144 AATTACATCA
* * * * * * *
87701154 AAATAAAATC-TGCTAAACAACAGG-AATAATTCCCGAAACATA-ATTATTTGA-TTAAGTTTTT
1 AAATAAAATCTTGTTAAACAGC-GGAAATAAATCCCGAAACATATTTTATTTAATTTAA-TTCTA
* *
87701215 GTTTGGAAACAAATCAATATC
64 ATTTGGAAACAAATCAAAATC
* * * * *
87701236 GAATAAAATCTTGTTAAACAGTGGAAACAAATCCCGAAATAGATTTTATTTAATTTAATTCTAAT
1 AAATAAAATCTTGTTAAACAGCGGAAATAAATCCCGAAACATATTTTATTTAATTTAATTCTAAT
87701301 TTGGAAACAAAAT-AAAATC
66 TTGGAAAC-AAATCAAAATC
* * *
87701320 AAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACATATTTTATTTCATTTAATTCTAAT
1 AAATAAAATCTTGTTAAACAGCGGAAATAAATCCCGAAACATATTTTATTTAATTTAATTCTAAT
* *
87701385 TTGGAAACAAAACAAAATT
66 TTGGAAACAAATCAAAATC
** * *
87701404 AAATAAAATCTTGTTAAAGGGC-GAGAATAAATCCTGAAACATATTTTATTTAATTTTAATTTTT
1 AAATAAAATCTTGTTAAACAGCGGA-AATAAATCCCGAAACATATTTTATTTAA-TTTAA-TTCT
** * * *
87701468 CGTTTTGATAACAAAATCAAGATG
63 AATTTGGA-AAC-AAATCAAAATC
* ** * ** *
87701492 TAAT-AAATC-CATTGAATGGC-GAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCT
1 AAATAAAATCTTGTTAAACAGCGGA-AATAAATCCCGAAACATATTTTATTTAA-TTTAA-TTCT
* * * *
87701554 CATTTGGAAATAAAATCAGAATTT
63 AATTTGGAAA-CAAATCA-AAATC
* * * * * * * * *
87701578 GAATAGAAT-TCGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTATTTTAATTTTAATACTA
1 AAATAAAATCTTGTTAAACAGCGGAAATAAATCCCGAAACATATTTTA-TTTAA-TTTAATTCTA
* *
87701642 GTTTTGGAAATAAATTCAAAATC
64 -ATTTGGAAACAAA-TCAAAATC
87701665 CATTGAACGG
Statistics
Matches: 345, Mismatches: 65, Indels: 33
0.78 0.15 0.07
Matches are distributed among these distances:
82 11 0.03
83 26 0.08
84 141 0.41
85 21 0.06
86 64 0.19
87 49 0.14
88 33 0.10
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (84 bp):
AAATAAAATCTTGTTAAACAGCGGAAATAAATCCCGAAACATATTTTATTTAATTTAATTCTAAT
TTGGAAACAAATCAAAATC
Found at i:87701411 original size:168 final size:170
Alignment explanation
Indices: 87701154--87701664 Score: 455
Period size: 168 Copynumber: 3.0 Consensus size: 170
87701144 AATTACATCA
* ** * * * * * **
87701154 AAATAAAATCTGCTAAACAACAGGAATAATTCCCGAAACATA-ATTATTTGA-TTAAGTTTTTGT
1 AAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACATATTTTATTTAATTTAAGTTCTAAT
* * * * *
87701217 TTGGAAACAAATCAATATCGAATAAAATCTTGTTAAACAGTGGAAACAAATCCCGAAATAGATTT
66 TTGGAAACAAAACAAAATTGAATAAAATCTTGTTAAACAGTGGAAATAAATCCCGAAACAGATTT
87701282 TATTTAA-TTTAATTCTAATTTGGAAACAAAAT-AAAATC
131 TATTTAATTTTAATTCTAATTTGGAAACAAAATCAAAATC
*
87701320 AAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACATATTTTATTTCATTTAA-TTCTAA
1 AAATAAAATC-TGTTAAACGGCGGGAATAAATCCCGAAACATATTTTATTTAATTTAAGTTCTAA
* * * *
87701384 TTTGGAAACAAAACAAAATTAAATAAAATCTTGTT-AA-AGGGCGAGAATAAATCCTGAAACATA
65 TTTGGAAACAAAACAAAATTGAATAAAATCTTGTTAAACAGTG-GA-AATAAATCCCGAAACAGA
* ** * * *
87701447 TTTTATTTAATTTTAATTTTTCGTTTTGATAACAAAATCAAGATG
128 TTTTATTTAATTTTAA-TTCTAATTTGGA-AACAAAATCAAAATC
* ** * * * * * *
87701492 TAAT-AAATCCATTGAATGGCGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCA
1 AAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACATATTTTATTTAA-TTTAAGTTCTAA
* * * * * * *
87701556 TTTGGAAATAAAATCAGAATTTGAATAGAAT-TCGTTAAACGGTGGGAATAAATCTCGAAACAGA
65 TTTGGAAACAAAA-CA-AAATTGAATAAAATCTTGTTAAACAGTGGAAATAAATCCCGAAACAGA
* * * *
87701620 TTTTATTTTAATTTTAATACTAGTTTTGGAAATAAATTCAAAATC
128 TTTTA-TTTAATTTTAATTCTA-ATTTGGAAACAAAATCAAAATC
87701665 CATTGAACGG
Statistics
Matches: 274, Mismatches: 54, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
166 13 0.05
167 31 0.11
168 65 0.24
169 9 0.03
170 43 0.16
171 18 0.07
172 24 0.09
173 39 0.14
174 30 0.11
175 2 0.01
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (170 bp):
AAATAAAATCTGTTAAACGGCGGGAATAAATCCCGAAACATATTTTATTTAATTTAAGTTCTAAT
TTGGAAACAAAACAAAATTGAATAAAATCTTGTTAAACAGTGGAAATAAATCCCGAAACAGATTT
TATTTAATTTTAATTCTAATTTGGAAACAAAATCAAAATC
Found at i:87701620 original size:87 final size:86
Alignment explanation
Indices: 87701216--87702042 Score: 416
Period size: 84 Copynumber: 9.9 Consensus size: 86
87701206 TAAGTTTTTG
* ** * * * * * *
87701216 TTTGGAAAC-AAATCAATATCGAATAAAATCTTGTTAAACAGTGGAAACAAATCCCGAAATAGAT
1 TTTGGAAACAAAATCAAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGAT
87701280 TTTATTTAATTTAA-TTCTAA
66 TTTATTTAATTTAATTTCTAA
* * *
87701300 TTTGGAAACAAAAT-AAAATCAAATAAAATCTTGTTAAACGGCGGGAATAAATCCCGAAACATAT
1 TTTGGAAACAAAATCAAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGAT
*
87701364 TTTATTTCATTTAA-TTCTAA
66 TTTATTTAATTTAATTTCTAA
* * * * *
87701384 TTTGGAAACAAAA-CAAAATTAAATAAAATCTTGTTAAAGGGCGAGAATAAATCCTGAAACATAT
1 TTTGGAAACAAAATCAAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGAT
* **
87701448 TTTATTTAATTTTAATTTTTCG
66 TTTATTTAA-TTTAATTTCTAA
* * * * * *
87701470 TTTTGATAACAAAATCAAGATGT-AAT-AAATC-CATTGAATGGCGAGAATAAATCCCGAAACAG
1 TTTGGA-AACAAAATCAAAAT-TAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAG
*
87701532 ATTTTATTTAACTTTAATTTCTCA
64 ATTTTATTTAA-TTTAATTTCTAA
* * * * * *
87701556 TTTGGAAATAAAATCAGAATTTGAATAGAAT-TCGTTAAACGGTGGGAATAAATCTCGAAACAGA
1 TTTGGAAACAAAATCA-AAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGA
* *
87701620 TTTTATTTTAATTTTAA-TACTAGT
65 TTTTA-TTTAA-TTTAATTTCTA-A
* * * *
87701644 TTTGG-----AAAT--AAATT---CAAAATC-CATTGAACGGCGGGAATAAATCCCGAAATAGAT
1 TTTGGAAACAAAATCAAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGAT
* *
87701698 TTTATTTTAGTTTTAATACTTGT--
66 TTTA-TTTA-ATTTAAT--TTCTAA
* * ** * * * * *
87701721 TTTAGAAATAAAA-CAAAAAATGGAATAAAATC-CGTTGAACGGCGGGAATAAATCACAAAATAA
1 TTTGGAAACAAAATC--AAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAG
** **
87701784 ATTTTATTTTAATTTTAA-AACTCGC
64 ATTTTA-TTTAA-TTTAATTTCT-AA
* * * ** *
87701809 TTTGGAAATAAAATCAAAATTGGAATAAAATC-CGTTGAACGTTGAGAATAAATCCCG--A-A-A
1 TTTGGAAACAAAATCAAAATT-AAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGA
* * *
87701869 -TTGATTTAATTCACTTT-TAA
65 TTTTATTTAATTTAATTTCTAA
* ** * * *
87701889 TTTGGAAAC------AAAATTGAATAAAATCT-GTTAAACAACGAGAATAAATCCCGAAATATAT
1 TTTGGAAACAAAATCAAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGAT
* *
87701947 TTTATTTTAATTTTAGTATTC--G
66 TTTA-TTTAA-TTTAAT-TTCTAA
* * * * * *
87701969 TTTGGAAA-TAAA--AAAATAAAGAATAAAATAT-GTTAAACGGCGGGAATTAATCCTG-AATAG
1 TTTGGAAACAAAATCAAAAT-TA-AATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAG
87702029 ATTTTATTTAATTT
64 ATTTTATTTAATTT
87702043 TAAAAAAATT
Statistics
Matches: 593, Mismatches: 97, Indels: 108
0.74 0.12 0.14
Matches are distributed among these distances:
73 30 0.05
74 6 0.01
75 1 0.00
76 1 0.00
77 51 0.09
78 3 0.01
79 5 0.01
80 26 0.04
81 6 0.01
82 11 0.02
83 17 0.03
84 148 0.25
85 53 0.09
86 65 0.11
87 54 0.09
88 114 0.19
89 2 0.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (86 bp):
TTTGGAAACAAAATCAAAATTAAATAAAATCTCGTTAAACGGCGGGAATAAATCCCGAAACAGAT
TTTATTTAATTTAATTTCTAA
Found at i:87701753 original size:88 final size:88
Alignment explanation
Indices: 87701659--87701875 Score: 292
Period size: 88 Copynumber: 2.5 Consensus size: 88
87701649 AAATAAATTC
* * * * *
87701659 AAAATCCATTGAACGGCGGGAATAAATCCCGAAATAGATTTTATTTTAGTTTTAATACTTGTTTT
1 AAAATCCGTTGAACGGCGGGAATAAATCCCGAAATAGATTTTATTTTAATTTTAAAACTCGCTTT
87701724 AGAAATAAAA-CAAAAAATGGAAT
66 AGAAATAAAATC-AAAAATGGAAT
* * *
87701747 AAAATCCGTTGAACGGCGGGAATAAATCACAAAATAAATTTTATTTTAATTTTAAAACTCGCTTT
1 AAAATCCGTTGAACGGCGGGAATAAATCCCGAAATAGATTTTATTTTAATTTTAAAACTCGCTTT
* *
87701812 GGAAATAAAATCAAAATTGGAAT
66 AGAAATAAAATCAAAAATGGAAT
** * *
87701835 AAAATCCGTTGAACGTTGAGAATAAATCCCGAAATTGATTT
1 AAAATCCGTTGAACGGCGGGAATAAATCCCGAAATAGATTT
87701876 AATTCACTTT
Statistics
Matches: 111, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
88 110 0.99
89 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (88 bp):
AAAATCCGTTGAACGGCGGGAATAAATCCCGAAATAGATTTTATTTTAATTTTAAAACTCGCTTT
AGAAATAAAATCAAAAATGGAAT
Found at i:87701801 original size:165 final size:163
Alignment explanation
Indices: 87701496--87701828 Score: 409
Period size: 165 Copynumber: 2.0 Consensus size: 163
87701486 AAGATGTAAT
* *
87701496 AAATCCATTGAATGGCGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTCATTTGG
1 AAATCCATTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCT-ATTTAG
* * * * * * * * *
87701561 AAATAAAATCAGAATTTGAATAGAATTCGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTAT
65 AAATAAAATCAAAAATGGAATAAAATCCGTTAAACGGCGGGAATAAATCACAAAACAAATTTTAT
* * *
87701626 TTTAATTTTAATACTAGTTTTGGAAATAAATTCA
130 TTTAATTTTAAAACTAGCTTTGGAAATAAAATCA
* * ** *
87701660 AAATCCATTGAACGGCGGGAATAAATCCCGAAATAGATTTTATTTTAGTTTTAATACTTGT-TTT
1 AAATCCATTGAACGGCGAGAATAAATCCCGAAACAGATTTTA-TTTAACTTTAAT--TTCTATTT
* *
87701724 AGAAATAAAA-CAAAAAATGGAATAAAATCCGTTGAACGGCGGGAATAAATCACAAAATAAATTT
63 AGAAATAAAATC-AAAAATGGAATAAAATCCGTTAAACGGCGGGAATAAATCACAAAACAAATTT
*
87701788 TATTTTAATTTTAAAACTCGCTTTGGAAATAAAATCA
127 TATTTTAATTTTAAAACTAGCTTTGGAAATAAAATCA
87701825 AAAT
1 AAAT
87701829 TGGAATAAAA
Statistics
Matches: 143, Mismatches: 22, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
164 40 0.28
165 100 0.70
167 3 0.02
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (163 bp):
AAATCCATTGAACGGCGAGAATAAATCCCGAAACAGATTTTATTTAACTTTAATTTCTATTTAGA
AATAAAATCAAAAATGGAATAAAATCCGTTAAACGGCGGGAATAAATCACAAAACAAATTTTATT
TTAATTTTAAAACTAGCTTTGGAAATAAAATCA
Found at i:87702220 original size:16 final size:16
Alignment explanation
Indices: 87702182--87702220 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
87702172 ATAAACACTT
*
87702182 ATTTATATATAGAATA
1 ATTTATAAATAGAATA
**
87702198 AAATATAAATAGAATA
1 ATTTATAAATAGAATA
87702214 ATTTATA
1 ATTTATA
87702221 TTTAAATTTT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTTATAAATAGAATA
Found at i:87706066 original size:21 final size:22
Alignment explanation
Indices: 87706023--87706069 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
87706013 AAAAATTAAA
*
87706023 ATCAACAAACTATCGATTCCCT
1 ATCAACAAACTATCGATGCCCT
* *
87706045 ATCAA-AAAGTATTGATGCCCT
1 ATCAACAAACTATCGATGCCCT
87706066 ATCA
1 ATCA
87706070 GAGCTACTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.38, C:0.26, G:0.09, T:0.28
Consensus pattern (22 bp):
ATCAACAAACTATCGATGCCCT
Found at i:87709431 original size:14 final size:14
Alignment explanation
Indices: 87709412--87709442 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
87709402 AGTACAATAT
87709412 TTTTTGGAAAATGA
1 TTTTTGGAAAATGA
87709426 TTTTTGGAAAATGA
1 TTTTTGGAAAATGA
87709440 TTT
1 TTT
87709443 ACTTTTCTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.19, T:0.48
Consensus pattern (14 bp):
TTTTTGGAAAATGA
Found at i:87718190 original size:3 final size:3
Alignment explanation
Indices: 87718175--87718277 Score: 80
Period size: 3 Copynumber: 34.0 Consensus size: 3
87718165 TTTAAGATTT
* * ** * * * * * *
87718175 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** *
87718223 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA CCA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
87718269 TTA TTA TTA
1 TTA TTA TTA
87718278 AATTTTTTAC
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
3 84 0.97
4 3 0.03
ACGTcount: A:0.33, C:0.10, G:0.02, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:87718295 original size:28 final size:28
Alignment explanation
Indices: 87718236--87718295 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
87718226 TTATTATTAT
* *
87718236 TATTATTATTATTATTATTTATTACCAG
1 TATTATTATTATTATAATTTATTACCAA
*
87718264 TATTATTATTATTA-AATTTTTTACACAA
1 TATTATTATTATTATAATTTATTAC-CAA
87718292 TATT
1 TATT
87718296 TATTTATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (28 bp):
TATTATTATTATTATAATTTATTACCAA
Found at i:87722604 original size:17 final size:18
Alignment explanation
Indices: 87722570--87722615 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
87722560 CCGTTATGTC
87722570 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
87722585 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
87722602 CGCGACCGCGACCG
1 CGCGACCGCGACCG
87722616 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:87724755 original size:3 final size:3
Alignment explanation
Indices: 87724733--87724786 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
87724723 GACTATTATC
* *
87724733 ATA ATA TTA AT- ATAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
87724778 ATA A-A ATA A
1 ATA ATA ATA A
87724787 AAAAAATACA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
2 4 0.09
3 38 0.86
4 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87725001 original size:16 final size:17
Alignment explanation
Indices: 87724961--87725001 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
87724951 ATAAATAAAC
* *
87724961 AAATAAATAAATGACTA
1 AAATAAACAAATGACGA
87724978 AAAT-AACAAATG-CGA
1 AAATAAACAAATGACGA
87724993 AAATAAACA
1 AAATAAACA
87725002 GGGACCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.66, C:0.10, G:0.07, T:0.17
Consensus pattern (17 bp):
AAATAAACAAATGACGA
Found at i:87729263 original size:26 final size:24
Alignment explanation
Indices: 87729219--87729266 Score: 69
Period size: 26 Copynumber: 1.9 Consensus size: 24
87729209 ATTTGTTTTA
*
87729219 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
87729243 ATATTTGATTTATTATATTTTTAA
1 ATATTT-ATTT-TTATATTTTTAA
87729267 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 6 0.29
25 4 0.19
26 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:87733093 original size:21 final size:21
Alignment explanation
Indices: 87733067--87733107 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
87733057 ATCTGCTCAA
* *
87733067 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
87733088 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
87733108 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:87768072 original size:19 final size:20
Alignment explanation
Indices: 87768029--87768073 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 20
87768019 CACGTATATG
*
87768029 TATATA-AAACATATATAAA
1 TATATATAAACATATAAAAA
87768048 -AT-TATAAA-ATATAAAAA
1 TATATATAAACATATAAAAA
87768065 TATATATAA
1 TATATATAA
87768074 GTATGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 10 0.45
18 7 0.32
19 5 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TATATATAAACATATAAAAA
Found at i:87771085 original size:25 final size:24
Alignment explanation
Indices: 87771054--87771125 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
87771044 ATAAAAGTGG
*
87771054 TATTTTTCAAATTTTATAATATTT
1 TATTTTTAAAATTTTATAATATTT
*
87771078 TATATTTTAATAATTTATATAATTTTT
1 TAT-TTTTAA-AATTT-TATAATATTT
87771105 TATTTTTATAAATTTT-TAATA
1 TATTTTTA-AAATTTTATAATA
87771126 ATTTCTAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
24 7 0.17
25 6 0.15
26 15 0.37
27 13 0.32
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTAAAATTTTATAATATTT
Found at i:87771138 original size:20 final size:18
Alignment explanation
Indices: 87771063--87771141 Score: 69
Period size: 17 Copynumber: 4.4 Consensus size: 18
87771053 GTATTTTTCA
87771063 AATTTTATAAT-ATTTTAT
1 AATTTT-TAATAATTTTAT
87771081 -A-TTTTAATAATTTATAT
1 AATTTTTAATAATTT-TAT
*
87771098 AATTTTT--TATTTTTAT
1 AATTTTTAATAATTTTAT
87771114 AAATTTTTAATAATTTCTAAT
1 -AATTTTTAATAATTT-T-AT
87771135 AATTTTT
1 AATTTTT
87771142 TCAAAATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
15 4 0.08
16 10 0.20
17 16 0.32
18 1 0.02
19 9 0.18
20 8 0.16
21 2 0.04
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTTTAATAATTTTAT
Found at i:87771684 original size:28 final size:28
Alignment explanation
Indices: 87771648--87771716 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
87771638 AAATGTTTAA
*
87771648 AAAAACAATAGAA-CCTCATAAAATAATT
1 AAAAACAATA-AATCCTCACAAAATAATT
*
87771676 AAAAACAATTAAATCCTCACAACATAATT
1 AAAAACAA-TAAATCCTCACAAAATAATT
87771705 AAAAA-AATAAAT
1 AAAAACAATAAAT
87771717 TAATCCCTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.14
28 12 0.32
29 20 0.54
ACGTcount: A:0.62, C:0.14, G:0.01, T:0.22
Consensus pattern (28 bp):
AAAAACAATAAATCCTCACAAAATAATT
Found at i:87773629 original size:8 final size:8
Alignment explanation
Indices: 87773612--87773647 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
87773602 AAATGCACTC
*
87773612 TCTTTCTT
1 TCTTTTTT
87773620 TCTTTTTT
1 TCTTTTTT
87773628 TCTTTTTT
1 TCTTTTTT
87773636 T-TTTTTT
1 TCTTTTTT
87773643 TCTTT
1 TCTTT
87773648 CAAAAGCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TCTTTTTT
Found at i:87777628 original size:17 final size:16
Alignment explanation
Indices: 87777606--87777645 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
87777596 ATTAAGGTGC
*
87777606 TTTTTATTTCTATTTTA
1 TTTTTATTTAT-TTTTA
87777623 TTTTTATTTATTTTTA
1 TTTTTATTTATTTTTA
87777639 TCTTTTA
1 T-TTTTA
87777646 GTTCGAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTATTTATTTTTA
Found at i:87778720 original size:25 final size:25
Alignment explanation
Indices: 87778692--87778864 Score: 84
Period size: 25 Copynumber: 6.8 Consensus size: 25
87778682 TTTTAAACTC
87778692 TTTTTTATATATTATCTATTTAAAA
1 TTTTTTATATATTATCTATTTAAAA
* * * * *
87778717 -TTTTTATATGTTATTTAGTTATAC
1 TTTTTTATATATTATCTATTTAAAA
* * *
87778741 TATTTTATATGTTAATC-GTTTAAAA
1 TTTTTTATATATT-ATCTATTTAAAA
*
87778766 CTCATTTTTAT-TATTATTTACTTT-AAA
1 -T--TTTTTATATATTATCTA-TTTAAAA
** * *
87778793 CCTTTCATATATTATTTATTTTAAAA
1 TTTTTTATATATTATCTA-TTTAAAA
* * *
87778819 TATTTTTATATATTCTCTATTTTAGA
1 T-TTTTTATATATTATCTATTTAAAA
* *
87778845 TTATTTCATATGTTATCTAT
1 TT-TTTTATATATTATCTAT
87778865 ACGAAATTTT
Statistics
Matches: 108, Mismatches: 29, Indels: 21
0.68 0.18 0.13
Matches are distributed among these distances:
24 24 0.22
25 28 0.26
26 28 0.26
27 19 0.18
28 9 0.08
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.58
Consensus pattern (25 bp):
TTTTTTATATATTATCTATTTAAAA
Found at i:87778790 original size:28 final size:29
Alignment explanation
Indices: 87778759--87778832 Score: 81
Period size: 27 Copynumber: 2.8 Consensus size: 29
87778749 ATGTTAATCG
87778759 TTTAAAACTCATTTTTAT-TATTATTTAC
1 TTTAAAACTCATTTTTATATATTATTTAC
* *
87778787 TTT-AAAC-C--TTTCATATATTATTTAT
1 TTTAAAACTCATTTTTATATATTATTTAC
87778812 TTTAAAA-T-ATTTTTATATATT
1 TTTAAAACTCATTTTTATATATT
87778833 CTCTATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
24 5 0.13
25 12 0.32
26 4 0.11
27 14 0.37
28 3 0.08
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (29 bp):
TTTAAAACTCATTTTTATATATTATTTAC
Found at i:87785096 original size:14 final size:14
Alignment explanation
Indices: 87785077--87785103 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
87785067 TATTAAAGTA
87785077 ATAATTAAGAACAC
1 ATAATTAAGAACAC
87785091 ATAATTAAGAACA
1 ATAATTAAGAACA
87785104 AATCAAGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:87790689 original size:46 final size:49
Alignment explanation
Indices: 87790582--87790697 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 49
87790572 TGTCTTCGAC
** * *
87790582 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAACGCCA-ATATATATCTAAT
* * *
87790632 ATGGGCTTACATGGCTCATTCTTGTCTCCAACGCC-ATATAT-T-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAACGCCAATATATATCTAAT
*
87790678 TTGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
87790698 TATGTCCTGT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
46 21 0.37
47 1 0.02
48 6 0.11
50 29 0.51
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.38
Consensus pattern (49 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAACGCCAATATATATCTAAT
Found at i:87795695 original size:33 final size:33
Alignment explanation
Indices: 87795652--87795801 Score: 178
Period size: 33 Copynumber: 4.6 Consensus size: 33
87795642 TCTTTCTGAG
* *
87795652 TGGTACACACAAAGTATACATTTCCTTTTCGTA
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
*
87795685 TGGTATACACAAAGTATACCTTTCCTTTTCATA
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
* *
87795718 TGGCATACATAAAGTATACATTTCCTTTTCA-A
1 TGGTATACACAAAGTATACATTTCCTTTTCATA
* * ** *
87795750 -GTGTACACACAAAGTGTACATAACCTTTTCATG
1 TG-GTATACACAAAGTATACATTTCCTTTTCATA
*
87795783 TGGTATAAACAAAGTATAC
1 TGGTATACACAAAGTATAC
87795802 CTAACCTTTT
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
31 1 0.01
32 24 0.24
33 72 0.73
34 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.35
Consensus pattern (33 bp):
TGGTATACACAAAGTATACATTTCCTTTTCATA
Found at i:87795797 original size:65 final size:66
Alignment explanation
Indices: 87795651--87795801 Score: 180
Period size: 65 Copynumber: 2.3 Consensus size: 66
87795641 TTCTTTCTGA
* * * * **
87795651 GTGGTACACACAAAGTATACATTTCCTTTTCGTATGGTATACACAAAGTATACCTTTCCTTTTCA
1 GTGGTATACACAAAGTATACATTTCCTTTTCGAATGGTACACACAAAGTATACATAACCTTTTCA
87795716 T
66 T
* * * *
87795717 ATGGCATACATAAAGTATACATTTCCTTTTC-AA-GTGTACACACAAAGTGTACATAACCTTTTC
1 GTGGTATACACAAAGTATACATTTCCTTTTCGAATG-GTACACACAAAGTATACATAACCTTTTC
87795780 AT
65 AT
*
87795782 GTGGTATAAACAAAGTATAC
1 GTGGTATACACAAAGTATAC
87795802 CTAACCTTTT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
64 1 0.01
65 42 0.60
66 27 0.39
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (66 bp):
GTGGTATACACAAAGTATACATTTCCTTTTCGAATGGTACACACAAAGTATACATAACCTTTTCA
T
Found at i:87795848 original size:29 final size:29
Alignment explanation
Indices: 87795806--87795903 Score: 171
Period size: 29 Copynumber: 3.4 Consensus size: 29
87795796 GTATACCTAA
87795806 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTTGATAGCCAAAGCTATC
87795835 CCTTTTCACATTTGATAGCCAAAGCTATC
1 CCTTTTCACATTTGATAGCCAAAGCTATC
*
87795864 CCTTTTCACATTCGATAGCCGAAA-CTATC
1 CCTTTTCACATTTGATAGCC-AAAGCTATC
87795893 CCTTTTCACAT
1 CCTTTTCACAT
87795904 GGTACACACA
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 64 0.96
30 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.35
Consensus pattern (29 bp):
CCTTTTCACATTTGATAGCCAAAGCTATC
Found at i:87800420 original size:27 final size:26
Alignment explanation
Indices: 87800388--87800453 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
87800378 CCACCAAGAC
87800388 AATAAACACGGGATAGTCTATTGG-AAT
1 AATAAACACGGG-TAGT-TATTGGAAAT
* * *
87800415 AGTAAACACATGGTAGTTCTTGGAAAT
1 AATAAACAC-GGGTAGTTATTGGAAAT
87800442 AATAAACACGGG
1 AATAAACACGGG
87800454 GATTACGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
26 7 0.22
27 23 0.72
28 2 0.06
ACGTcount: A:0.41, C:0.12, G:0.23, T:0.24
Consensus pattern (26 bp):
AATAAACACGGGTAGTTATTGGAAAT
Found at i:87802110 original size:18 final size:18
Alignment explanation
Indices: 87802084--87802131 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
87802074 GCTTAATTCT
*
87802084 AAATTAATAAAAAAATAA
1 AAATAAATAAAAAAATAA
*
87802102 AAATAAATAATAAAACTAA
1 AAATAAATAA-AAAAATAA
*
87802121 ATA-AAATAAAA
1 AAATAAATAAAA
87802132 TAAAATCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 2 0.08
18 15 0.58
19 9 0.35
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (18 bp):
AAATAAATAAAAAAATAA
Found at i:87802126 original size:22 final size:22
Alignment explanation
Indices: 87802083--87802130 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
87802073 AGCTTAATTC
87802083 TAAATTAATAAAAAAATAAAAA
1 TAAATTAATAAAAAAATAAAAA
87802105 TAAA-TAATAAAACTAAAT-AAAA
1 TAAATTAATAAAA--AAATAAAAA
87802127 TAAA
1 TAAA
87802131 ATAAAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.33
22 12 0.50
23 4 0.17
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAATTAATAAAAAAATAAAAA
Found at i:87805659 original size:10 final size:10
Alignment explanation
Indices: 87805628--87805666 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
87805618 TTTAATTTCC
87805628 TTTTTCTTTT
1 TTTTTCTTTT
* *
87805638 TCTCTCTTTT
1 TTTTTCTTTT
87805648 TTTTTCTTTT
1 TTTTTCTTTT
*
87805658 TTTTCCTTT
1 TTTTTCTTT
87805667 GAGTCACCTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:87816942 original size:2 final size:2
Alignment explanation
Indices: 87816935--87816963 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
87816925 TTAGTTGAAA
87816935 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
87816964 AGCCCATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:87824276 original size:14 final size:15
Alignment explanation
Indices: 87824247--87824279 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
87824237 ATTTTTATAA
*
87824247 ATTTTTAATATTTTT
1 ATTTTTAATATATTT
87824262 ATTTTTAATA-ATTT
1 ATTTTTAATATATTT
87824276 ATTT
1 ATTT
87824280 GCTTTGAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATTTTTAATATATTT
Found at i:87827779 original size:24 final size:24
Alignment explanation
Indices: 87827726--87827774 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
87827716 ATTTGTTTTA
*
87827726 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
87827750 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
87827775 AATTTTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:87830568 original size:5 final size:5
Alignment explanation
Indices: 87830544--87830620 Score: 58
Period size: 5 Copynumber: 15.8 Consensus size: 5
87830534 TTTATATAAA
* *
87830544 TATAT TAT-T TA-AT T-TGAT TATAT TATTAT TTTAT TATAT TGTAATT
1 TATAT TATAT TATAT TAT-AT TATAT TA-TAT TATAT TATAT TAT-A-T
87830590 TATAT TA-AT TATAT TATA- -ATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
87830621 AAATAAATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
3 3 0.05
4 9 0.16
5 36 0.62
6 7 0.12
7 3 0.05
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:87830600 original size:21 final size:22
Alignment explanation
Indices: 87830545--87830618 Score: 84
Period size: 21 Copynumber: 3.5 Consensus size: 22
87830535 TTATATAAAT
87830545 ATATTAT-TTAATT-TGATTATA
1 ATATTATATTAATTAT-ATTATA
* * *
87830566 TTATTAT-TTTATTATATTGTA
1 ATATTATATTAATTATATTATA
87830587 AT-TTATATTAATTATATTATA
1 ATATTATATTAATTATATTATA
87830608 ATATTATATTA
1 ATATTATATTA
87830619 TAAAATAAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 4 0.09
21 31 0.70
22 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (22 bp):
ATATTATATTAATTATATTATA
Found at i:87831021 original size:3 final size:3
Alignment explanation
Indices: 87831007--87831037 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
87830997 TTGAGGTAAG
*
87831007 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
87831038 GAGATGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:87837056 original size:23 final size:23
Alignment explanation
Indices: 87837003--87837064 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
87836993 ATTATAGCAA
*
87837003 TGGAAAAATAAATTAAATTTTTC
1 TGGAAATATAAATTAAATTTTTC
** * *
87837026 TAAAAAATATAATTTAAATTTTTG
1 T-GGAAATATAAATTAAATTTTTC
87837050 TGGAAATATTAAATT
1 TGGAAATA-TAAATT
87837065 TTACTTATTC
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
23 6 0.21
24 23 0.79
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (23 bp):
TGGAAATATAAATTAAATTTTTC
Found at i:87841386 original size:35 final size:35
Alignment explanation
Indices: 87841347--87841512 Score: 190
Period size: 35 Copynumber: 4.6 Consensus size: 35
87841337 CATGGCAAAG
87841347 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
*
87841382 TGTGAAAAGTAGGTATGGTATCATCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
* *
87841417 TGTCAAATGTAGGTATGGAATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACCGAGT
** * * *
87841457 TAAGAAATGTAGGTATGGCAT-TTCCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCAT-CCATACCGAGT
*
87841492 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
87841513 TTCAATGAGG
Statistics
Matches: 112, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
34 1 0.01
35 78 0.70
37 2 0.02
38 4 0.04
40 27 0.24
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACCGAGT
Found at i:87841469 original size:75 final size:74
Alignment explanation
Indices: 87841351--87841517 Score: 193
Period size: 75 Copynumber: 2.3 Consensus size: 74
87841341 GCAAAGTGTG
** *
87841351 AAATGTAGGTATGG--TATC--ATCCATACCGAGTTGTGAAAAGTAGGTATGGTATCAT-CCATA
1 AAATGTAGGTATGGATTATCAAATCCATACCGAGTTAAGAAAAGTAGGTATGGCAT-ATCCCATA
*
87841411 CCGAGTTGTC
65 CCGAGTTGTA
* * *
87841421 AAATGTAGGTATGGAATTATCAAATCCATACTGAGTTAAGAAATGTAGGTATGGCATTTCCCATA
1 AAATGTAGGTATGG-ATTATCAAATCCATACCGAGTTAAGAAAAGTAGGTATGGCATATCCCATA
*
87841486 CTGAGTTGTA
65 CCGAGTTGTA
87841496 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGG-ATTATCAA
87841518 TGAGGAAAAC
Statistics
Matches: 82, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 14 0.17
73 4 0.05
74 5 0.06
75 59 0.72
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (74 bp):
AAATGTAGGTATGGATTATCAAATCCATACCGAGTTAAGAAAAGTAGGTATGGCATATCCCATAC
CGAGTTGTA
Found at i:87846078 original size:42 final size:43
Alignment explanation
Indices: 87846024--87846105 Score: 121
Period size: 42 Copynumber: 1.9 Consensus size: 43
87846014 ATAAAACATT
* *
87846024 GATGCCACTGTCCCAGACAGGGTCTTACACG-AAATCAGATAC
1 GATGCCAATGTCCCAGACAGGGTCTTACACGTAAAACAGATAC
* *
87846066 GATGCCAATGTCCTAGACATGGTCTTACACGTAAAACAGA
1 GATGCCAATGTCCCAGACAGGGTCTTACACGTAAAACAGA
87846106 AGTCGATGTC
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
42 28 0.80
43 7 0.20
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.21
Consensus pattern (43 bp):
GATGCCAATGTCCCAGACAGGGTCTTACACGTAAAACAGATAC
Found at i:87848223 original size:21 final size:21
Alignment explanation
Indices: 87848199--87848244 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
87848189 TGTCTTTAGG
*
87848199 TTTTGTT-TTGATTGTTTTTTA
1 TTTTGTTGTT-ATTATTTTTTA
*
87848220 TTTTGTTGTTTTTATTTTTTA
1 TTTTGTTGTTATTATTTTTTA
87848241 TTTT
1 TTTT
87848245 TTATGGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.09, C:0.00, G:0.11, T:0.80
Consensus pattern (21 bp):
TTTTGTTGTTATTATTTTTTA
Found at i:87848228 original size:15 final size:15
Alignment explanation
Indices: 87848199--87848248 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 15
87848189 TGTCTTTAGG
*
87848199 TTTTGTTTTGATTGTT
1 TTTTATTTTG-TTGTT
87848215 TTTTATTTTGTTG-T
1 TTTTATTTTGTTGTT
*
87848229 TTTTATTTT-TTATT
1 TTTTATTTTGTTGTT
87848243 TTTTAT
1 TTTTAT
87848249 GGGTACACCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 2 0.06
14 17 0.55
15 3 0.10
16 9 0.29
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (15 bp):
TTTTATTTTGTTGTT
Found at i:87851991 original size:81 final size:81
Alignment explanation
Indices: 87851888--87852057 Score: 313
Period size: 81 Copynumber: 2.1 Consensus size: 81
87851878 GAAATTAAAA
*
87851888 CCAAAGAAGGATGCAGAGCTGAAGCCCATGAATGATATATTTGGTGACAATTTAAATATAATAAA
1 CCAAAGAAGGATGCAGAGCTGAAGCCAATGAATGATATATTTGGTGACAATTTAAATATAATAAA
87851953 AGACACTGAACTGAAG
66 AGACACTGAACTGAAG
* *
87851969 CCAAAGACGGATGCAGAGCTGAAGCCAATGAATGATATTTTTGGTGACAATTTAAATATAATAAA
1 CCAAAGAAGGATGCAGAGCTGAAGCCAATGAATGATATATTTGGTGACAATTTAAATATAATAAA
87852034 AGACACTGAACTGAAG
66 AGACACTGAACTGAAG
87852050 CCAAAGAA
1 CCAAAGAA
87852058 TAATTCTTTC
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 85 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (81 bp):
CCAAAGAAGGATGCAGAGCTGAAGCCAATGAATGATATATTTGGTGACAATTTAAATATAATAAA
AGACACTGAACTGAAG
Found at i:87859646 original size:21 final size:22
Alignment explanation
Indices: 87859614--87859663 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
87859604 ACTAACCTAC
*
87859614 TAATTGATATTATTGTG-ATTA
1 TAATTGATATTATTATGAATTA
87859635 TAATT-ATAATTATTATGAATTA
1 TAATTGAT-ATTATTATGAATTA
*
87859657 TGATTGA
1 TAATTGA
87859664 ACTTTCTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 2 0.08
21 13 0.54
22 8 0.33
23 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (22 bp):
TAATTGATATTATTATGAATTA
Found at i:87861970 original size:16 final size:15
Alignment explanation
Indices: 87861940--87861974 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
87861930 TGCAAGCAAG
*
87861940 GGCTTTAGTTGAAAA
1 GGCTTCAGTTGAAAA
87861955 GGCTTCAGTTGAAAA
1 GGCTTCAGTTGAAAA
*
87861970 AGCTT
1 GGCTT
87861975 TAGGTATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.31
Consensus pattern (15 bp):
GGCTTCAGTTGAAAA
Found at i:87869180 original size:19 final size:21
Alignment explanation
Indices: 87869138--87869180 Score: 54
Period size: 19 Copynumber: 2.1 Consensus size: 21
87869128 ACTGTAATAA
* *
87869138 TTGTGAATTGATCTTTTGGGT
1 TTGTAAATTGATCTTTTGGAT
87869159 TTGTAAATTG-TC-TTTGGAT
1 TTGTAAATTGATCTTTTGGAT
87869178 TTG
1 TTG
87869181 CCTTGCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 9 0.45
20 2 0.10
21 9 0.45
ACGTcount: A:0.16, C:0.05, G:0.26, T:0.53
Consensus pattern (21 bp):
TTGTAAATTGATCTTTTGGAT
Found at i:87876178 original size:20 final size:20
Alignment explanation
Indices: 87876153--87876193 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
87876143 CAACTATGTC
*
87876153 TCTTCCATTATTAGCAAAGT
1 TCTTCCATCATTAGCAAAGT
*
87876173 TCTTCCATCATTAGTAAAGT
1 TCTTCCATCATTAGCAAAGT
87876193 T
1 T
87876194 ATGCCAAGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
TCTTCCATCATTAGCAAAGT
Found at i:87881314 original size:3 final size:3
Alignment explanation
Indices: 87881306--87881345 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
87881296 CTAAATATAT
87881306 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
87881346 ATGAACAAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:87883065 original size:27 final size:27
Alignment explanation
Indices: 87883017--87883175 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
87883007 GCGAGGCTGC
* *
87883017 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87883044 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
87883070 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87883097 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87883124 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
87883151 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87883176 GACGCTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87883110 original size:54 final size:54
Alignment explanation
Indices: 87883035--87883175 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
87883025 GTGACGAAGT
*
87883035 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
87883089 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
87883143 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
87883176 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87884817 original size:26 final size:26
Alignment explanation
Indices: 87884787--87884892 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
87884777 TGAAATTCCC
87884787 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87884813 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87884839 ATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
87884863 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
87884889 ATCA
1 ATCA
87884893 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 10 0.13
25 28 0.36
26 40 0.51
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:87884873 original size:50 final size:52
Alignment explanation
Indices: 87884787--87884892 Score: 198
Period size: 50 Copynumber: 2.1 Consensus size: 52
87884777 TGAAATTCCC
87884787 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
87884839 ATCAT-GAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
87884889 ATCA
1 ATCA
87884893 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 35 0.65
51 14 0.26
52 5 0.09
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:87889832 original size:27 final size:27
Alignment explanation
Indices: 87889784--87889942 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
87889774 CCGAGGCTGC
* *
87889784 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
87889811 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
87889837 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
87889864 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
87889891 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
87889918 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
87889943 GACACTTCCT
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:87889877 original size:54 final size:54
Alignment explanation
Indices: 87889802--87889942 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
87889792 GTGACGAAGT
*
87889802 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
87889856 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
87889910 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
87889943 GACACTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:87891591 original size:26 final size:26
Alignment explanation
Indices: 87891555--87891610 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
87891545 TGAAATTACC
87891555 ATCATGGAACATTTACCTAACCCAGT
1 ATCATGGAACATTTACCTAACCCAGT
*
87891581 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCAGT
87891607 ATCA
1 ATCA
87891611 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.27, G:0.09, T:0.29
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCAGT
Found at i:87895588 original size:13 final size:13
Alignment explanation
Indices: 87895570--87895597 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
87895560 TATCACAATT
87895570 ATATCATCAAATC
1 ATATCATCAAATC
87895583 ATATCATCAAATC
1 ATATCATCAAATC
87895596 AT
1 AT
87895598 TCAAGTCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.32
Consensus pattern (13 bp):
ATATCATCAAATC
Found at i:87896334 original size:40 final size:40
Alignment explanation
Indices: 87896280--87896417 Score: 113
Period size: 40 Copynumber: 3.5 Consensus size: 40
87896270 AATATACAAG
* *
87896280 TTTGGCACCTAGTGTCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
* * **
87896320 TTTGACACCCAGTGTCTCATCAGCTAAACCGAAGT-A-AA
1 TTTGACACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
* * * * *
87896358 -TTGACACTCAATGCCTCATCGAAT-ATATCTGAAATAATAA
1 TTTGACACCCAGTGTCTCATCGGATAAT-TC-GAAGTAATAA
**
87896398 TTTGACACTTAGTGTCTCAT
1 TTTGACACCCAGTGTCTCAT
87896418 TGACTCGAAG
Statistics
Matches: 75, Mismatches: 18, Indels: 9
0.74 0.18 0.09
Matches are distributed among these distances:
36 1 0.01
37 19 0.25
38 6 0.08
39 2 0.03
40 31 0.41
41 16 0.21
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (40 bp):
TTTGACACCCAGTGTCTCATCGGATAATTCGAAGTAATAA
Found at i:87897325 original size:17 final size:17
Alignment explanation
Indices: 87897303--87897351 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
87897293 TCCTTCTTTC
*
87897303 TTTCCTTTTTCTTTCTT
1 TTTCCTTTTTCTTTCAT
87897320 TTTCCTTTTTCTTTCAT
1 TTTCCTTTTTCTTTCAT
*
87897337 TTTCTTTCTTTCTTT
1 TTTCCTT-TTTCTTT
87897352 TCTATTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTCCTTTTTCTTTCAT
Found at i:87897935 original size:23 final size:20
Alignment explanation
Indices: 87897879--87897924 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
87897869 TGTAAGTTGA
87897879 TTATATAAACATAATATTAT
1 TTATATAAACATAATATTAT
87897899 TTATATAAACATAATATTAT
1 TTATATAAACATAATATTAT
*
87897919 TCATAT
1 TTATAT
87897925 TATTTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATATAAACATAATATTAT
Found at i:87899411 original size:13 final size:13
Alignment explanation
Indices: 87899393--87899418 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
87899383 ATTCTATGGC
87899393 TTTATTTTATTAT
1 TTTATTTTATTAT
87899406 TTTATTTTATTAT
1 TTTATTTTATTAT
87899419 GCCGCCTCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:87899612 original size:21 final size:21
Alignment explanation
Indices: 87899560--87899605 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
87899550 AATTATCTAT
87899560 TGAAACGTTAAAATTTTTCAA
1 TGAAACGTTAAAATTTTTCAA
87899581 TGAAACGTTAAAATTTTTCAA
1 TGAAACGTTAAAATTTTTCAA
87899602 TGAA
1 TGAA
87899606 GCTTTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.37
Consensus pattern (21 bp):
TGAAACGTTAAAATTTTTCAA
Found at i:87902621 original size:47 final size:47
Alignment explanation
Indices: 87902505--87902686 Score: 213
Period size: 47 Copynumber: 3.9 Consensus size: 47
87902495 TTCACACGAT
* * * * * *
87902505 AAGTACCTATACCATGGCCCAAAACTAACTCAAGGTAA-ATTATCACCG
1 AAGTACCTATACAATGGCCCGAAGCCAAATCAAGGTAACTTTA-C-CCG
*
87902553 AAGTACCTATACCATGGCCCGAAGCCAAATCAAGGTAACTTTACCCG
1 AAGTACCTATACAATGGCCCGAAGCCAAATCAAGGTAACTTTACCCG
* * *
87902600 AAGTACCTATACAATGTCCCGAAGCCAAATCAACGTAACTTTACTCG
1 AAGTACCTATACAATGGCCCGAAGCCAAATCAAGGTAACTTTACCCG
* * * *
87902647 GAGTACCTATACAATGTCCCGAAGCCAACTCAAGGCAACT
1 AAGTACCTATACAATGGCCCGAAGCCAAATCAAGGTAACT
87902687 CGCACCCGAA
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
47 82 0.68
48 35 0.29
49 3 0.03
ACGTcount: A:0.36, C:0.29, G:0.15, T:0.20
Consensus pattern (47 bp):
AAGTACCTATACAATGGCCCGAAGCCAAATCAAGGTAACTTTACCCG
Found at i:87915338 original size:40 final size:40
Alignment explanation
Indices: 87915293--87915377 Score: 93
Period size: 40 Copynumber: 2.1 Consensus size: 40
87915283 TATTATTTTA
*
87915293 ATTTTAATTTTCAGAATTT-CA-ATCAAAACTTTTAATTCT
1 ATTTTTATTTT-AGAATTTCCAGATCAAAACTTTTAATTCT
* *** *
87915332 GTTTTTATTTTATTTTTTCCAGATCAAATCTTTTAATTCT
1 ATTTTTATTTTAGAATTTCCAGATCAAAACTTTTAATTCT
87915372 ATTTTT
1 ATTTTT
87915378 TTTATTTTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
38 4 0.11
39 11 0.30
40 22 0.59
ACGTcount: A:0.28, C:0.12, G:0.04, T:0.56
Consensus pattern (40 bp):
ATTTTTATTTTAGAATTTCCAGATCAAAACTTTTAATTCT
Found at i:87928451 original size:15 final size:15
Alignment explanation
Indices: 87928431--87928465 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
87928421 AGTACTAAAA
*
87928431 ATATATGCATAATAT
1 ATATATACATAATAT
87928446 ATATATACATAATAT
1 ATATATACATAATAT
87928461 ATATA
1 ATATA
87928466 AAATAAACGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (15 bp):
ATATATACATAATAT
Found at i:87928646 original size:15 final size:15
Alignment explanation
Indices: 87928599--87928654 Score: 51
Period size: 15 Copynumber: 3.7 Consensus size: 15
87928589 AATAATGGAT
87928599 ATAATAATAATAATAA
1 ATAATAATAA-AATAA
* ***
87928615 A-AATGATAGTTTAA
1 ATAATAATAAAATAA
87928629 ATAATAATAAAATAA
1 ATAATAATAAAATAA
*
87928644 ATAAAAATAAA
1 ATAATAATAAA
87928655 GGTGAAAAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 3
0.71 0.21 0.07
Matches are distributed among these distances:
14 4 0.13
15 25 0.83
16 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (15 bp):
ATAATAATAAAATAA
Found at i:87934031 original size:19 final size:20
Alignment explanation
Indices: 87933987--87934032 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
87933977 ATGAGATTAT
87933987 TAAAA-ATATATATGAAAAA
1 TAAAACATATATATGAAAAA
* **
87934006 TATAACATATA-ATGAAATG
1 TAAAACATATATATGAAAAA
87934025 TAAAACAT
1 TAAAACAT
87934033 CAAGGGTCGA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (20 bp):
TAAAACATATATATGAAAAA
Found at i:87934599 original size:62 final size:62
Alignment explanation
Indices: 87934501--87934680 Score: 277
Period size: 55 Copynumber: 3.0 Consensus size: 62
87934491 TACAAGTGTG
87934501 ATTTAAGTTTAACTCACTTATACAA-CTGCAACCTCTCTCATATACTTCGAACTAAATTACTTT
1 ATTTAAG-TTAACTCACTTAT-CAAGCTGCAACCTCTCTCATATACTTCGAACTAAATTACTTT
*
87934564 ATTTAAGTTAACTCACTTATCAAGCTGCAACCTCTCTC----A---CGAACTAAATTAATTT
1 ATTTAAGTTAACTCACTTATCAAGCTGCAACCTCTCTCATATACTTCGAACTAAATTACTTT
87934619 ATTTAAGTTAACTCACTTATCAAGCTGCAACCTCTCTCATATACTTCGAACTAAATTACTTT
1 ATTTAAGTTAACTCACTTATCAAGCTGCAACCTCTCTCATATACTTCGAACTAAATTACTTT
87934681 CCCTATAAGT
Statistics
Matches: 107, Mismatches: 2, Indels: 17
0.85 0.02 0.13
Matches are distributed among these distances:
55 53 0.50
58 1 0.01
59 1 0.01
61 3 0.03
62 42 0.39
63 7 0.07
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.37
Consensus pattern (62 bp):
ATTTAAGTTAACTCACTTATCAAGCTGCAACCTCTCTCATATACTTCGAACTAAATTACTTT
Found at i:87936243 original size:26 final size:26
Alignment explanation
Indices: 87936214--87936269 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
87936204 TGATACAAAT
87936214 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87936240 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87936266 TGAT
1 TGAT
87936270 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87944180 original size:26 final size:26
Alignment explanation
Indices: 87944151--87944255 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87944141 TGATACAAAT
87944151 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87944177 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87944203 TGATAATGGGTTAGGTAAAT-TT-CA
1 TGATAATGGGTTAGGTAAATGTTCCA
87944227 TGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87944252 TGAT
1 TGAT
87944256 GGGAATTTCA
Statistics
Matches: 76, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
23 12 0.16
24 11 0.14
25 8 0.11
26 45 0.59
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87944254 original size:49 final size:52
Alignment explanation
Indices: 87944151--87944255 Score: 180
Period size: 49 Copynumber: 2.1 Consensus size: 52
87944141 TGATACAAAT
*
87944151 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
87944203 TGATAATGGGTTAGGTAAAT-TT-CATGATAAT-GGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
87944252 TGAT
1 TGAT
87944256 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 21 0.40
50 9 0.17
51 2 0.04
52 20 0.38
ACGTcount: A:0.31, C:0.06, G:0.26, T:0.37
Consensus pattern (52 bp):
TGATAATGGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTCCA
Found at i:87951763 original size:42 final size:42
Alignment explanation
Indices: 87951700--87951826 Score: 161
Period size: 42 Copynumber: 3.0 Consensus size: 42
87951690 CTTCGTTTTC
** * *
87951700 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-A
*
87951743 T-GATGCCATAGCCCAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
*
87951784 TCAATGCCATAGCCCAGCTATGGTCTTACACGA-A-TCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC-ATATTCACATA
87951825 TC
1 TC
87951827 TCACTGATGC
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
41 10 0.13
42 63 0.84
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATATTCACATA
Found at i:87951888 original size:47 final size:46
Alignment explanation
Indices: 87951787--87951908 Score: 163
Period size: 47 Copynumber: 2.6 Consensus size: 46
87951777 TCATATATCA
* * * * * *
87951787 ATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTG
1 ATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACCG
* *
87951833 ATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACCG
1 ATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACCG
87951880 ATGCCATATCCCAGATATGGTCTTATACG
1 ATGCCATATCCCAGATATGGTCTTATACG
87951909 GAAATCACTT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 26 0.39
47 41 0.61
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (46 bp):
ATGCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACCG
Found at i:87951976 original size:31 final size:31
Alignment explanation
Indices: 87951933--87952019 Score: 104
Period size: 31 Copynumber: 2.8 Consensus size: 31
87951923 CTTGTCACTT
* * *
87951933 GTAGCGGAAGCTACCACTATTCACTGATGAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
87951964 GTAGTCAG-AGCTACCATTTTTCATTGATCAG
1 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
*
87951995 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
87952020 TGTCATTTGT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 2 0.04
31 42 0.91
32 2 0.04
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:87961162 original size:17 final size:18
Alignment explanation
Indices: 87961136--87961169 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
87961126 AAATTTCCTT
87961136 GAATACATAT-TTTTTTA
1 GAATACATATCTTTTTTA
*
87961153 GAATATATATCTTTTTT
1 GAATACATATCTTTTTT
87961170 TGAGATTCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
GAATACATATCTTTTTTA
Found at i:87963106 original size:5 final size:5
Alignment explanation
Indices: 87963096--87963120 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
87963086 TTTAAAAATC
87963096 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
87963121 GAAGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:87963417 original size:40 final size:41
Alignment explanation
Indices: 87963362--87963444 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
87963352 AAGATACTTG
87963362 TCATATGAACAATCTCCTTTTAAGT-CTCATGAAAGTCAAC
1 TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTCAAC
*
87963402 TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTTAAC
1 TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTCAAC
87963443 TC
1 TC
87963445 TATAACGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 25 0.61
41 16 0.39
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (41 bp):
TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTCAAC
Found at i:87965789 original size:34 final size:34
Alignment explanation
Indices: 87965719--87965790 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
87965709 TTACTCTAAG
* * * * *
87965719 TATTATTTATTATTCTATTTACTATTATTGTTAT
1 TATTATTTATTAGTATATTTACTATCATTATAAT
87965753 TATTA-TTATTAGTATATTTTACTATCATTATAAT
1 TATTATTTATTAGTATA-TTTACTATCATTATAAT
87965787 TATT
1 TATT
87965791 TTGTAGTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (34 bp):
TATTATTTATTAGTATATTTACTATCATTATAAT
Found at i:87966086 original size:3 final size:3
Alignment explanation
Indices: 87966080--87966136 Score: 78
Period size: 3 Copynumber: 18.3 Consensus size: 3
87966070 AATGTTTTTT
* *
87966080 TTA TTA TTA TCA TTA TCTT TGTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
87966127 TTA TTA TTA T
1 TTA TTA TTA T
87966137 ACCTTTAATT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 44 0.92
4 4 0.08
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:87971729 original size:40 final size:40
Alignment explanation
Indices: 87971648--87971734 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
87971638 TCAACCTCGG
* **
87971648 ACACTAAGTGCCATATATAGCCGAAGCTATTCCGATTCAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTCAGAAACAC
**
87971688 ACACTAAGTGCTTTATATAGCCGAAGCTA-TCTAGAAACAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATTC-AGAAACAC
87971728 ACACTAA
1 ACACTAA
87971735 TTCGTCGTAC
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
39 2 0.05
40 39 0.95
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTCAGAAACAC
Found at i:87974069 original size:15 final size:15
Alignment explanation
Indices: 87974049--87974083 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
87974039 AGTACTAAAA
*
87974049 ATATATGCATAATAT
1 ATATATACATAATAT
87974064 ATATATACATAATAT
1 ATATATACATAATAT
87974079 ATATA
1 ATATA
87974084 AATAAACGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (15 bp):
ATATATACATAATAT
Found at i:87974233 original size:15 final size:16
Alignment explanation
Indices: 87974215--87974269 Score: 53
Period size: 15 Copynumber: 3.6 Consensus size: 16
87974205 AATAATGGAT
87974215 ATAATAATAATAAT-A
1 ATAATAATAATAATAA
* * *
87974230 ATAATGATAGT-TTAA
1 ATAATAATAATAATAA
87974245 ATAATAATAA-AATAA
1 ATAATAATAATAATAA
*
87974260 ATAAAAATAA
1 ATAATAATAA
87974270 AGGTGAAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
14 1 0.03
15 30 0.97
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:87980626 original size:5 final size:5
Alignment explanation
Indices: 87980616--87980640 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
87980606 TTTAAAAATC
87980616 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
87980641 GAAGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:87980937 original size:40 final size:41
Alignment explanation
Indices: 87980882--87980964 Score: 150
Period size: 40 Copynumber: 2.0 Consensus size: 41
87980872 AAGATACTTG
87980882 TCATATGAACAATCTCCTTTTAAGT-CTCATGAAAGTCAAC
1 TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTCAAC
*
87980922 TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTTAAC
1 TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTCAAC
87980963 TC
1 TC
87980965 TATAACGTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 25 0.61
41 16 0.39
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (41 bp):
TCATATGAACAATCTCCTTTTAAGTCCTCATGAAAGTCAAC
Found at i:87982247 original size:22 final size:21
Alignment explanation
Indices: 87982200--87982247 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
87982190 TTTTATTTGG
* *
87982200 AATTTAATTTTAGGATTTTAG
1 AATTTAAGTTTAGGATTTTAA
* *
87982221 TATTTAAGGTTTAGGGTTTTAA
1 AATTTAA-GTTTAGGATTTTAA
87982243 AATTT
1 AATTT
87982248 TATAAGAATA
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (21 bp):
AATTTAAGTTTAGGATTTTAA
Found at i:87985360 original size:25 final size:26
Alignment explanation
Indices: 87985332--87985428 Score: 153
Period size: 25 Copynumber: 3.8 Consensus size: 26
87985322 CTCTTTTAAT
*
87985332 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGATA
87985357 AACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
87985382 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGATA
*
87985408 AACTGAGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
87985429 GCACTTCCTC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 34 0.50
26 34 0.50
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGATA
Found at i:87985402 original size:51 final size:51
Alignment explanation
Indices: 87985332--87985428 Score: 151
Period size: 51 Copynumber: 1.9 Consensus size: 51
87985322 CTCTTTTAAT
** *
87985332 AACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCA-AAGCCCTTTTCGATA
1 AACTGGGGCAAAGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTTCGATA
87985382 AACTGGGGCATAAGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTT
1 AACTGGGGCA-AAGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTT
87985429 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
50 10 0.24
51 22 0.52
52 10 0.24
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.26
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTTTCAATAAACTGAGGCATAAGCCCTTTTCGATA
Found at i:87985503 original size:20 final size:20
Alignment explanation
Indices: 87985478--87985552 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
87985468 TTATGAATAC
87985478 ATCATGTGCACT-TCATACAT
1 ATCATGTGCA-TATCATACAT
87985498 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
87985518 GTCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
87985538 ATCATGT--ATATCATA
1 ATCATGTGCATATCATA
87985553 TCCCACGTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
18 8 0.16
19 1 0.02
20 40 0.78
21 2 0.04
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:87988251 original size:18 final size:18
Alignment explanation
Indices: 87988212--87988251 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
87988202 TGAATTGCCA
* *
87988212 GTGTAATCGCACACGTCC
1 GTGTAATCGAACACATCC
*
87988230 GTGTAATCGAACACATCT
1 GTGTAATCGAACACATCC
87988248 GTGT
1 GTGT
87988252 GGTACACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.28
Consensus pattern (18 bp):
GTGTAATCGAACACATCC
Found at i:87991336 original size:26 final size:26
Alignment explanation
Indices: 87991297--87991404 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87991287 TGGTACAAAT
87991297 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
87991323 CGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87991349 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87991375 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87991401 TGAT
1 TGAT
87991405 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:87992908 original size:25 final size:26
Alignment explanation
Indices: 87992880--87992931 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
87992870 TTTACAGTTT
87992880 TACCCCTAGAGATAAATT-ACCGAAA
1 TACCCCTAGAGATAAATTGACCGAAA
* * *
87992905 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGAGATAAATTGACCGAAA
87992931 T
1 T
87992932 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGAGATAAATTGACCGAAA
Found at i:87998342 original size:26 final size:26
Alignment explanation
Indices: 87998313--87998420 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
87998303 TGGTACAAAT
87998313 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
87998339 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87998365 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
87998391 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
87998417 TGAT
1 TGAT
87998421 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Done.