Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 14 of 328
Found at i:4192068 original size:8 final size:8
Alignment explanation
Indices: 4192051--4192086 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
4192041 TTGTTATCTC
4192051 AAAAAG-A
1 AAAAAGAA
4192058 AAAAAGAA
1 AAAAAGAA
4192066 AAAAAGAA
1 AAAAAGAA
4192074 AAAAAGAA
1 AAAAAGAA
4192082 AAAAA
1 AAAAA
4192087 AAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (8 bp):
AAAAAGAA
Found at i:4192534 original size:30 final size:31
Alignment explanation
Indices: 4192490--4192547 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
4192480 TTGACTAAAT
* * *
4192490 TAAAGTACAGGGACTAA-ATTAAAATTTTTA
1 TAAAATACAAGGACTAATAATAAAATTTTTA
4192520 TAAAATACAAGGACTAATAATAAAATTT
1 TAAAATACAAGGACTAATAATAAAATTT
4192548 AACTTAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.52, C:0.07, G:0.10, T:0.31
Consensus pattern (31 bp):
TAAAATACAAGGACTAATAATAAAATTTTTA
Found at i:4211369 original size:2 final size:2
Alignment explanation
Indices: 4211362--4211392 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4211352 TCTTCTTCTT
*
4211362 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4211393 TATGATAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:4212530 original size:21 final size:19
Alignment explanation
Indices: 4212487--4212532 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
4212477 AAATAAAAAT
*
4212487 AAAAATATAAAAAATTTAG
1 AAAAATATAAAAAATCTAG
* *
4212506 AAATATATATAAAATCTAG
1 AAAAATATAAAAAATCTAG
4212525 AAAAATAT
1 AAAAATAT
4212533 GAATTATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAAAATCTAG
Found at i:4220202 original size:21 final size:20
Alignment explanation
Indices: 4220162--4220204 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4220152 AATTTTATTG
*
4220162 TTTTATATTTAACTATTTAA
1 TTTTATATTTAACTAATTAA
*
4220182 TTTTATATTTTAATTAATTAA
1 TTTTATA-TTTAACTAATTAA
4220203 TT
1 TT
4220205 AACTGAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTATATTTAACTAATTAA
Found at i:4220701 original size:26 final size:24
Alignment explanation
Indices: 4220654--4220702 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
4220644 ATTAGAAGTG
*
4220654 TTTTCTTTTTTTTTTAAGGTTAGA
1 TTTTCTTTTTTTTTTAAAGTTAGA
*
4220678 TTTTGTTTTTTTTTAATAAAGTTAG
1 TTTTCTTTTTTTTT--TAAAGTTAG
4220703 GGTTTTATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
26 8 0.38
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.65
Consensus pattern (24 bp):
TTTTCTTTTTTTTTTAAAGTTAGA
Found at i:4220795 original size:19 final size:19
Alignment explanation
Indices: 4220757--4220797 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4220747 TTTGAGTTTT
*
4220757 TTTATATATATTTTTCTAG
1 TTTATATATATTCTTCTAG
4220776 TTTATTATATATTCTT-TAG
1 TTTA-TATATATTCTTCTAG
4220795 TTT
1 TTT
4220798 TTTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTATATATATTCTTCTAG
Found at i:4221310 original size:19 final size:18
Alignment explanation
Indices: 4221274--4221316 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
4221264 ATTTAGGAGG
*
4221274 GAATTGAGAGAAATTTGA
1 GAATTGAGAGAAAGTTGA
*
4221292 GAATATGAGAGAGAGTTGA
1 GAAT-TGAGAGAAAGTTGA
4221311 G-ATTGA
1 GAATTGA
4221317 ATTGAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 6 0.27
19 13 0.59
ACGTcount: A:0.42, C:0.00, G:0.33, T:0.26
Consensus pattern (18 bp):
GAATTGAGAGAAAGTTGA
Found at i:4223137 original size:25 final size:25
Alignment explanation
Indices: 4223109--4223159 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4223099 CCAGGAGGAG
4223109 TAGGAACCAGTTCCCAAGTAGAATT
1 TAGGAACCAGTTCCCAAGTAGAATT
4223134 TAGGAACCAGTTCCCAAGTAGAATT
1 TAGGAACCAGTTCCCAAGTAGAATT
4223159 T
1 T
4223160 TGAATAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (25 bp):
TAGGAACCAGTTCCCAAGTAGAATT
Found at i:4224994 original size:99 final size:104
Alignment explanation
Indices: 4224852--4225071 Score: 249
Period size: 105 Copynumber: 2.1 Consensus size: 104
4224842 TGCACATAGT
* *
4224852 CACATATCACACATCACACATCGAAGCCATAGCCCTGCCATGGTCTTACAC-GGATCACGTAT-A
1 CACATAT--CACATCACACA-CGAAGCCATAGCCCAGCCATGGTCTTACACGGGAACACGTATCA
* *
4224915 -A-T-ACTGATGCCATATCCCAGA-TATGGTCTTATAC-GGAA
63 CATTCACCGATGCCATAGCCCA-ACTATGGTCTTATACGGGAA
* * *
4224953 TCACATTATCACATCACAC-CGACGCCATAGCCCAGCTATGGTCTTATACGGGAACACGTATCAC
1 -CACA-TATCACATCACACACGAAGCCATAGCCCAGCCATGGTCTTACACGGGAACACGTATCAC
*
4225017 ATTGCACCGATGCCATAGCCCAACTATGGTCTTATACGGGCA
64 ATT-CACCGATGCCATAGCCCAACTATGGTCTTATACGGGAA
4225059 CACATATCACATC
1 CACATATCACATC
4225072 TTTTCCGTCA
Statistics
Matches: 101, Mismatches: 8, Indels: 16
0.81 0.06 0.13
Matches are distributed among these distances:
99 26 0.26
100 10 0.10
101 11 0.11
102 5 0.05
103 4 0.04
104 10 0.10
105 32 0.32
106 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (104 bp):
CACATATCACATCACACACGAAGCCATAGCCCAGCCATGGTCTTACACGGGAACACGTATCACAT
TCACCGATGCCATAGCCCAACTATGGTCTTATACGGGAA
Found at i:4225034 original size:52 final size:52
Alignment explanation
Indices: 4224920--4225071 Score: 207
Period size: 52 Copynumber: 2.9 Consensus size: 52
4224910 GTATAATACT
* *
4224920 GATGCCATATCCCAGATATGGTCTTATAC-GGAATCACATTATCACATCACACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACA-TATCACATCACACC
* * **
4224973 GACGCCATAGCCCAGCTATGGTCTTATACGGGAACACGTATCACATTGCACC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATCACACC
* *
4225025 GATGCCATAGCCCAACTATGGTCTTATACGGGCACACATATCACATC
1 GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATC
4225072 TTTTCCGTCA
Statistics
Matches: 87, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
52 54 0.62
53 29 0.33
54 4 0.05
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (52 bp):
GATGCCATAGCCCAGCTATGGTCTTATACGGGAACACATATCACATCACACC
Found at i:4229283 original size:15 final size:15
Alignment explanation
Indices: 4229263--4229295 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
4229253 GTAACAACTT
4229263 ACAGCTAAAATGATA
1 ACAGCTAAAATGATA
*
4229278 ACAGCTAAGATGATA
1 ACAGCTAAAATGATA
4229293 ACA
1 ACA
4229296 ACTTAATAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.18
Consensus pattern (15 bp):
ACAGCTAAAATGATA
Found at i:4230631 original size:15 final size:15
Alignment explanation
Indices: 4230613--4230651 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
4230603 AATTCAGTTT
4230613 TTAAATTTTCAATAC
1 TTAAATTTTCAATAC
* *
4230628 TTAAATATTCAGTAC
1 TTAAATTTTCAATAC
4230643 TT-AATTTTC
1 TTAAATTTTC
4230652 TGCATGGCTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.36, C:0.13, G:0.03, T:0.49
Consensus pattern (15 bp):
TTAAATTTTCAATAC
Found at i:4234550 original size:62 final size:59
Alignment explanation
Indices: 4234430--4234551 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 59
4234420 TTAATAAATT
* * * * *
4234430 AATATAAAGTATTATCTAAATATTAATTTAGTAAAAAAATTTAATAATTGCAATATTTA
1 AATATAAAGTAGTATCTAAATATTAATTAAGTAAAAAAAATAAATAATTACAATATTTA
* *
4234489 AATATAAA-TAGTATTTAAATATTAATTAAGTAAAAAATAAACATAAATAATTATAATATTTA
1 AATATAAAGTAGTATCTAAATATTAATTAAGT--AAAA-AAA-ATAAATAATTACAATATTTA
4234551 A
1 A
4234552 TACAAATTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
58 20 0.38
59 8 0.15
60 4 0.08
61 3 0.06
62 17 0.33
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (59 bp):
AATATAAAGTAGTATCTAAATATTAATTAAGTAAAAAAAATAAATAATTACAATATTTA
Found at i:4243871 original size:9 final size:8
Alignment explanation
Indices: 4243846--4243870 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4243836 TAAGGTGGGG
4243846 TATTTTTT
1 TATTTTTT
4243854 TATTTTTT
1 TATTTTTT
4243862 TATTTTTT
1 TATTTTTT
4243870 T
1 T
4243871 TGGGGGGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TATTTTTT
Found at i:4247868 original size:14 final size:14
Alignment explanation
Indices: 4247849--4247880 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
4247839 TCTTTCCTTG
4247849 CCTTATGTGAAAAT
1 CCTTATGTGAAAAT
4247863 CCTTATGTGAAAAT
1 CCTTATGTGAAAAT
4247877 CCTT
1 CCTT
4247881 CCATGATAAT
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:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (14 bp):
CCTTATGTGAAAAT
Found at i:4255230 original size:46 final size:46
Alignment explanation
Indices: 4255163--4255253 Score: 146
Period size: 46 Copynumber: 2.0 Consensus size: 46
4255153 ATTGAGGGTT
* *
4255163 AATTTTTTTAGAATCAAGATTAAATTAATACAATGTAGAAATATTA
1 AATTTTTTTAGAATCAAGATTAAACTAATACAATGCAGAAATATTA
* *
4255209 AATTTTTTTAGAATCAAGATTAAACTGATACAATGCATAAATATT
1 AATTTTTTTAGAATCAAGATTAAACTAATACAATGCAGAAATATT
4255254 GAAGGTTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (46 bp):
AATTTTTTTAGAATCAAGATTAAACTAATACAATGCAGAAATATTA
Found at i:4264642 original size:21 final size:21
Alignment explanation
Indices: 4264618--4264660 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
4264608 TGTTACATAT
*
4264618 GATATTAGTAGTGCAGACTTA
1 GATATTAATAGTGCAGACTTA
4264639 GATATTAATAGTGCAGACTTA
1 GATATTAATAGTGCAGACTTA
4264660 G
1 G
4264661 TTGTCCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (21 bp):
GATATTAATAGTGCAGACTTA
Found at i:4266145 original size:17 final size:17
Alignment explanation
Indices: 4266117--4266155 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
4266107 AATTTTATTT
4266117 ATTTTATTAATTAAATTA
1 ATTTTATTAATT-AATTA
4266135 ATTTT-TTAATTAATTA
1 ATTTTATTAATTAATTA
4266151 ATTTT
1 ATTTT
4266156 CTCAACTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 10 0.48
17 6 0.29
18 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTATTAATTAATTA
Found at i:4266290 original size:23 final size:23
Alignment explanation
Indices: 4266264--4266311 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
4266254 TGATAAAAGC
4266264 TAATTCCATTTCAGAACTTTAAT
1 TAATTCCATTTCAGAACTTTAAT
* *
4266287 TAATTCCGTTTTAGAACTTTAAT
1 TAATTCCATTTCAGAACTTTAAT
4266310 TA
1 TA
4266312 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.06, T:0.46
Consensus pattern (23 bp):
TAATTCCATTTCAGAACTTTAAT
Found at i:4270478 original size:23 final size:23
Alignment explanation
Indices: 4270444--4270487 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4270434 TGATTGAATA
* *
4270444 TGAATATGAAATTAACTTAAATG
1 TGAATATGAAATAAAATTAAATG
4270467 TGAAT-TGTAAATAAAATTAAA
1 TGAATATG-AAATAAAATTAAA
4270488 ATTTTGAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 2 0.11
23 16 0.89
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (23 bp):
TGAATATGAAATAAAATTAAATG
Found at i:4273695 original size:24 final size:23
Alignment explanation
Indices: 4273663--4273709 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
4273653 TAGATCTTCC
4273663 AATATTATTGGTT-TTTATTTTAA
1 AATATTATT-GTTATTTATTTTAA
*
4273686 AATATATATTTTTATTTATTTTAA
1 AATAT-TATTGTTATTTATTTTAA
4273710 TATTTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (23 bp):
AATATTATTGTTATTTATTTTAA
Found at i:4284761 original size:14 final size:15
Alignment explanation
Indices: 4284729--4284761 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4284719 TTAAAAATAT
4284729 TTATAATTTTAAGAA
1 TTATAATTTTAAGAA
*
4284744 TTATTATTTTAA-AA
1 TTATAATTTTAAGAA
4284758 TTAT
1 TTAT
4284762 GATTAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTATAATTTTAAGAA
Found at i:4294595 original size:25 final size:25
Alignment explanation
Indices: 4294562--4294612 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4294552 CACAAAAGAC
4294562 ATAATAATGAAGTATTGTGAAATGA
1 ATAATAATGAAGTATTGTGAAATGA
4294587 ATAATAATGAAGTATTGTGAAATGA
1 ATAATAATGAAGTATTGTGAAATGA
4294612 A
1 A
4294613 CTTTATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.00, G:0.20, T:0.31
Consensus pattern (25 bp):
ATAATAATGAAGTATTGTGAAATGA
Found at i:4296067 original size:40 final size:40
Alignment explanation
Indices: 4296020--4296151 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
4296010 TTTTCAGGTC
* * *
4296020 AAATCCTATCCACCTTAAGTTACTGTAATGACTCAGGAAT
1 AAATCCTATCCACTTTAAGTTACTATAATGAATCAGGAAT
* * * *
4296060 AAATCCTATTCACTTTAAATTACCATAATGAATCAGGAAC
1 AAATCCTATCCACTTTAAGTTACTATAATGAATCAGGAAT
* * * *
4296100 AAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAAT
1 AAATCCTATCCACTTTAAGTTACTATAATGAATCAGGAAT
*
4296140 GAATCCTATCCA
1 AAATCCTATCCA
4296152 AATTATATTC
Statistics
Matches: 76, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.30
Consensus pattern (40 bp):
AAATCCTATCCACTTTAAGTTACTATAATGAATCAGGAAT
Found at i:4297454 original size:40 final size:40
Alignment explanation
Indices: 4297408--4297483 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
4297398 ACACACCATG
* *
4297408 TAGGGATAAAATCGACCCA-CCTATCCTTGCACACCAAATA
1 TAGGGATAAAATCGACCCATCC-AACCTTACACACCAAATA
*
4297448 TAGGGATAATATCGACCCATCCAACCTTACACACCA
1 TAGGGATAAAATCGACCCATCCAACCTTACACACCA
4297484 TAAGGTATCG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
40 30 0.94
41 2 0.06
ACGTcount: A:0.37, C:0.32, G:0.12, T:0.20
Consensus pattern (40 bp):
TAGGGATAAAATCGACCCATCCAACCTTACACACCAAATA
Found at i:4306293 original size:30 final size:31
Alignment explanation
Indices: 4306242--4306300 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
4306232 CACCCTTAAA
* *
4306242 ATATTTACACTATTGACCCTTCAATTTTTTT
1 ATATTTACACTATTAACCCTTCAAGTTTTTT
*
4306273 ATATTTATACT-TTAACCCTTCAAGTTTT
1 ATATTTACACTATTAACCCTTCAAGTTTT
4306301 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 15 0.60
31 10 0.40
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAAGTTTTTT
Found at i:4306308 original size:30 final size:31
Alignment explanation
Indices: 4306242--4306310 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
4306232 CACCCTTAAA
* * *
4306242 ATATTTACACTATTGACCCTTCAATTTTTTT
1 ATATTTACACTATTAACCCTTCAATGTTTTG
*
4306273 ATATTTATACT-TTAACCCTTCAA-GTTTTG
1 ATATTTACACTATTAACCCTTCAATGTTTTG
4306302 AGTATTTAC
1 A-TATTTAC
4306311 TCTTAGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 5 0.16
30 17 0.53
31 10 0.31
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAACCCTTCAATGTTTTG
Found at i:4307937 original size:46 final size:46
Alignment explanation
Indices: 4307862--4308364 Score: 753
Period size: 46 Copynumber: 11.0 Consensus size: 46
4307852 TTATCTTTGA
* * * * * * *
4307862 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
***
4307908 CATGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
4307954 CACGTTGCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4308000 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* *
4308046 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
** *
4308092 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4308137 CACGTTGCCATGGTATCTTTCAACCATGGT-TGTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCT-TACACATTTCATAT
4308183 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
4308229 CATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
4308275 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TAAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT-AT
* *
4308321 CATGTTGCCATGGTATCTTTCAATCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
4308365 TTCAGAGAGC
Statistics
Matches: 421, Mismatches: 30, Indels: 11
0.91 0.06 0.02
Matches are distributed among these distances:
44 1 0.00
45 44 0.10
46 374 0.89
47 2 0.00
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:4308224 original size:21 final size:21
Alignment explanation
Indices: 4308200--4308271 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
4308190 CCATGGTATC
4308200 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * * *
4308221 TTTCATATCATGTTGCCATGATATC-
1 TTTCA-ACCATG--GTC-TTACA-CA
4308246 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
4308267 TTTCA
1 TTTCA
4308272 TATCATGTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 12
0.65 0.14 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 7 0.19
24 7 0.19
25 8 0.22
26 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.10, T:0.39
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:4308315 original size:229 final size:229
Alignment explanation
Indices: 4307862--4308364 Score: 789
Period size: 229 Copynumber: 2.2 Consensus size: 229
4307852 TTATCTTTGA
* * * * * * *
4307862 CATGATGCCATAGTGTCTTTCAACTATGGTTTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGTCACGTTGCCATGGTATCT
* *
4307926 TTCAACCATGGTCTTGTTCATTTCATATCACGTTGCCATGGTATCTTTCAACTATGGTCTTACAC
65 TTCAACCATGG-CTTGTACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
*
4307991 ATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
129 ATTTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
*
4308056 TGGTATCTTTCAACCATGGTCTTGCACATTTC-ATAT
194 TGGTATCTTTCAACCATGGTCTTACACATTTCTA-AT
4308092 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTC-TTTCATGTCACGTTGCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
*
4308156 TCAACCATGG-TTGTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
66 TCAACCATGGCTTGT--ACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
* *
4308220 ATTTCATATCATGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCA
129 ATTTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
4308285 TGGTATCTTTCAACCATGGTCTTACACATTTCTAAT
194 TGGTATCTTTCAACCATGGTCTTACACATTTCTAAT
* *
4308321 CATGTTGCCATGGTATCTTTCAATCATGGTCTTATACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCAT
4308365 TTCAGAGAGC
Statistics
Matches: 252, Mismatches: 16, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
227 4 0.02
228 4 0.02
229 206 0.82
230 38 0.15
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (229 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTT
TCAACCATGGCTTGTACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACAT
TTCATATCAGGTTGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
GTATCTTTCAACCATGGTCTTACACATTTCTAAT
Found at i:4310515 original size:3 final size:3
Alignment explanation
Indices: 4310501--4310549 Score: 52
Period size: 3 Copynumber: 17.3 Consensus size: 3
4310491 TTTTATACTA
*
4310501 AAT AATT AAT AAT AA- AAT AAT AAT GA- AAT AAT AAT AA- AAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4310544 AA- AAT A
1 AAT AAT A
4310550 TCTCATTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 7 0.18
3 29 0.74
4 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:4310523 original size:11 final size:11
Alignment explanation
Indices: 4310507--4310545 Score: 69
Period size: 11 Copynumber: 3.5 Consensus size: 11
4310497 ACTAAATAAT
4310507 TAATAATAAAA
1 TAATAATAAAA
*
4310518 TAATAATGAAA
1 TAATAATAAAA
4310529 TAATAATAAAA
1 TAATAATAAAA
4310540 TAATAA
1 TAATAA
4310546 AATATCTCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:4310532 original size:19 final size:19
Alignment explanation
Indices: 4310508--4310549 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4310498 CTAAATAATT
*
4310508 AATAATAAAATAATAATGA
1 AATAATAAAATAATAATAA
4310527 AATAATAATAA-AATAATAA
1 AATAATAA-AATAATAATAA
4310546 AATA
1 AATA
4310550 TCTCATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAATAAAATAATAATAA
Found at i:4310572 original size:20 final size:21
Alignment explanation
Indices: 4310519--4310594 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 21
4310509 ATAATAAAAT
* *
4310519 AATAATGAAATA-ATAA-TAA
1 AATAATAAAATATCTAATTAA
*
4310538 AATAATAAAATATCTCATTAA
1 AATAATAAAATATCTAATTAA
*
4310559 AATAAT-ATATATCTAATTAAA
1 AATAATAAAATATCTAATT-AA
*
4310580 TAATCATAAAATATC
1 -AATAATAAAATATC
4310595 ATCAACATCA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.24
20 12 0.27
21 11 0.24
22 5 0.11
23 6 0.13
ACGTcount: A:0.59, C:0.07, G:0.01, T:0.33
Consensus pattern (21 bp):
AATAATAAAATATCTAATTAA
Found at i:4316088 original size:17 final size:17
Alignment explanation
Indices: 4316045--4316090 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
4316035 TTTTATTTCT
4316045 ATTTTTATAA--TTTTA
1 ATTTTTATAATTTTTTA
* *
4316060 A-GTTTATGATTTTTTA
1 ATTTTTATAATTTTTTA
4316076 ATTTTTATAATTTTT
1 ATTTTTATAATTTTT
4316091 AGCTTATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 6 0.25
15 1 0.04
16 6 0.25
17 11 0.46
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
ATTTTTATAATTTTTTA
Found at i:4316091 original size:16 final size:16
Alignment explanation
Indices: 4316045--4316091 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
4316035 TTTTATTTCT
4316045 ATTTTTATAA-TTTTA
1 ATTTTTATAATTTTTA
* *
4316060 A-GTTTATGATTTTTTA
1 ATTTTTAT-AATTTTTA
4316076 ATTTTTATAATTTTTA
1 ATTTTTATAATTTTTA
4316092 GCTTATTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
14 5 0.20
15 2 0.08
16 13 0.52
17 5 0.20
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (16 bp):
ATTTTTATAATTTTTA
Found at i:4321352 original size:53 final size:53
Alignment explanation
Indices: 4321286--4321419 Score: 207
Period size: 53 Copynumber: 2.5 Consensus size: 53
4321276 ATAAGTGCGC
* *
4321286 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* *
4321339 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
*
4321392 CCGTATAAGACCAT-GTCTGGGATATGGC
1 CCGTATAAGACCATAG-CTGGGCTATGGC
4321420 TTCTGTATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
52 1 0.01
53 74 0.99
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:4345196 original size:29 final size:28
Alignment explanation
Indices: 4345159--4345244 Score: 91
Period size: 31 Copynumber: 2.9 Consensus size: 28
4345149 TCTCCTCAAT
* *
4345159 TTAATTAAATCAAAATTTCGTGTATAAAA
1 TTAAATAAATCAAAATTT-ATGTATAAAA
*
4345188 TTAAATAAAATTAAAATTTATGTATAAAA
1 TTAAAT-AAATCAAAATTTATGTATAAAA
*
4345217 TTATACATTAAATCATAATTTATGTATA
1 TTA-A-A-TAAATCAAAATTTATGTATA
4345245 GTTTTGAGAT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
29 17 0.35
30 12 0.25
31 18 0.38
32 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (28 bp):
TTAAATAAATCAAAATTTATGTATAAAA
Found at i:4345240 original size:31 final size:29
Alignment explanation
Indices: 4345156--4345244 Score: 106
Period size: 30 Copynumber: 3.0 Consensus size: 29
4345146 ATTTCTCCTC
* *
4345156 AATTTAATTAAATCAAAATTTCGTGTATAA
1 AATTAAATTAAATCAAAATTT-ATGTATAA
* *
4345186 AATTAAATAAAATTAAAATTTATGTATAA
1 AATTAAATTAAATCAAAATTTATGTATAA
*
4345215 AATTATACATTAAATCATAATTTATGTATA
1 AATTA-A-ATTAAATCAAAATTTATGTATA
4345245 GTTTTGAGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 12 0.24
30 19 0.38
31 19 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (29 bp):
AATTAAATTAAATCAAAATTTATGTATAA
Found at i:4347181 original size:17 final size:17
Alignment explanation
Indices: 4347152--4347185 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
4347142 TTGTGGGTTT
4347152 TTTAAAAACTTATTTTA
1 TTTAAAAACTTATTTTA
4347169 TTTATAAAA-TTATTTTA
1 TTTA-AAAACTTATTTTA
4347186 ATAAATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTAAAAACTTATTTTA
Found at i:4361955 original size:16 final size:16
Alignment explanation
Indices: 4361931--4361985 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
4361921 TGAATTACTG
*
4361931 ATTATAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
4361947 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCC
4361963 ATTACAG-TCCTATTCC
1 ATTACAGCT-CTATTCC
4361979 ATTACAG
1 ATTACAG
4361986 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 34 0.97
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:4363506 original size:13 final size:13
Alignment explanation
Indices: 4363474--4363518 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
4363464 TTTTAATTTG
4363474 TTAATT-AATTAA
1 TTAATTAAATTAA
*
4363486 TTAATTAAATTAT
1 TTAATTAAATTAA
* *
4363499 TTATTTAAATTTA
1 TTAATTAAATTAA
4363512 TTAATTA
1 TTAATTA
4363519 TGAAATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAATTAAATTAA
Found at i:4364318 original size:15 final size:15
Alignment explanation
Indices: 4364300--4364329 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4364290 TTTTAGTGTT
4364300 TTTTTTTGTTTTTGC
1 TTTTTTTGTTTTTGC
*
4364315 TTTTTTTTTTTTTGC
1 TTTTTTTGTTTTTGC
4364330 GATGATTACT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.83
Consensus pattern (15 bp):
TTTTTTTGTTTTTGC
Found at i:4365166 original size:9 final size:9
Alignment explanation
Indices: 4365133--4365168 Score: 54
Period size: 9 Copynumber: 3.9 Consensus size: 9
4365123 TTAAAACGCA
4365133 TTCTTTCTTC
1 TTCTTT-TTC
*
4365143 TTCTTCTTC
1 TTCTTTTTC
4365152 TTCTTTTTC
1 TTCTTTTTC
4365161 TTCTTTTT
1 TTCTTTTT
4365169 TTTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 19 0.79
10 5 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:4365171 original size:12 final size:12
Alignment explanation
Indices: 4365137--4365170 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
4365127 AACGCATTCT
*
4365137 TTCTTCTTCTTC
1 TTCTTCTTTTTC
4365149 TTCTTCTTTTTC
1 TTCTTCTTTTTC
4365161 TTCTT-TTTTT
1 TTCTTCTTTTT
4365171 TTTTTTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTCTTCTTTTTC
Found at i:4373963 original size:5 final size:5
Alignment explanation
Indices: 4373948--4373983 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
4373938 AATAATTAAG
*
4373948 TATAT TGTAT TATAT TATAT TATAT TATTAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT
4373984 ATAAAAGAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:4377671 original size:3 final size:3
Alignment explanation
Indices: 4377665--4377712 Score: 62
Period size: 3 Copynumber: 15.3 Consensus size: 3
4377655 TTTTTACTTG
4377665 TAT TAT T-T TAT TAT TATT TAT TATT TAT TATT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TA-T TAT TAT TAT TAT TAT
4377712 T
1 T
4377713 GGATATTCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 2 0.05
3 30 0.73
4 9 0.22
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:4377682 original size:14 final size:13
Alignment explanation
Indices: 4377672--4377709 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
4377662 TTGTATTATT
4377672 TTATTATTATTTA
1 TTATTATTATTTA
4377685 TTATTTATTATTTA
1 TTA-TTATTATTTA
4377699 TTATTATTATT
1 TTATTATTATT
4377710 ATTGGATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:4384099 original size:43 final size:43
Alignment explanation
Indices: 4384050--4384143 Score: 109
Period size: 44 Copynumber: 2.2 Consensus size: 43
4384040 TTTACAGGCT
* *
4384050 AAATTTATTGATCAAA-TAATATTAAAATAACTTACACTAATCA
1 AAATTTAGTGA-CAAACTAATATTAAAATAACGTACACTAATCA
* * *
4384093 AAATTTAAGTGAGAAACTAATATTAAAATAACGTACATTAATTA
1 AAATTT-AGTGACAAACTAATATTAAAATAACGTACACTAATCA
*
4384137 AAGTTTA
1 AAATTTA
4384144 AGTAAAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
43 10 0.23
44 33 0.77
ACGTcount: A:0.51, C:0.09, G:0.06, T:0.34
Consensus pattern (43 bp):
AAATTTAGTGACAAACTAATATTAAAATAACGTACACTAATCA
Found at i:4384933 original size:11 final size:12
Alignment explanation
Indices: 4384907--4384939 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
4384897 ATCAAGTTAA
4384907 TATTTAATTAGT
1 TATTTAATTAGT
*
4384919 TATTTACTT-GT
1 TATTTAATTAGT
4384930 TATTTAATTA
1 TATTTAATTA
4384940 ATTTTCATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.06, T:0.61
Consensus pattern (12 bp):
TATTTAATTAGT
Found at i:4386421 original size:4 final size:4
Alignment explanation
Indices: 4386412--4386440 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
4386402 AGCAAACGTG
4386412 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
4386441 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:4387267 original size:47 final size:47
Alignment explanation
Indices: 4387203--4387313 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
4387193 GACATTGAGT
*
4387203 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
4387250 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
4387297 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
4387314 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:4393673 original size:4 final size:4
Alignment explanation
Indices: 4393664--4393692 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
4393654 AGCAAACGTG
4393664 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
4393693 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:4394519 original size:47 final size:47
Alignment explanation
Indices: 4394455--4394565 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
4394445 GACATTGAGT
*
4394455 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
4394502 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
4394549 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
4394566 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:4411313 original size:25 final size:25
Alignment explanation
Indices: 4411265--4411314 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
4411255 GTATAATTAC
*
4411265 TCTTTTTTTTTTTAAATAGCTTTTT
1 TCTTTTTTTTTTTAAATAACTTTTT
4411290 TCTTTTCTTTTTTT-AATAA-TTTTT
1 TCTTTT-TTTTTTTAAATAACTTTTT
4411314 T
1 T
4411315 AAAGATAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 10 0.43
26 7 0.30
ACGTcount: A:0.16, C:0.08, G:0.02, T:0.74
Consensus pattern (25 bp):
TCTTTTTTTTTTTAAATAACTTTTT
Found at i:4414613 original size:91 final size:91
Alignment explanation
Indices: 4414497--4414662 Score: 221
Period size: 91 Copynumber: 1.8 Consensus size: 91
4414487 ATATTATAAA
* * *
4414497 TTTTATCACATGTGTATGTACGTAGAAATTATGTATTTA-AGACACGT-T-TTAATTTTAAAATA
1 TTTTATCACATGCGTATGTACGTAGAAATTATGTACTTAGA-ACACATATGTTAATTTTAAAA-A
*
4414559 ACATATGATAAATGATGAAACAGATTAT
64 ACATATAATAAATGATGAAACAGATTAT
* * *
4414587 TTTTCATCATATGCGTATGTATGTAGAAGTTATGTACTTAGAACACATATGTTAATTTTAAAAAA
1 TTTT-ATCACATGCGTATGTACGTAGAAATTATGTACTTAGAACACATATGTTAATTTTAAAAAA
4414652 CATATAATAAA
65 CATATAATAAA
4414663 CAATGAAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
90 4 0.06
91 35 0.54
92 14 0.22
93 12 0.18
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (91 bp):
TTTTATCACATGCGTATGTACGTAGAAATTATGTACTTAGAACACATATGTTAATTTTAAAAAAC
ATATAATAAATGATGAAACAGATTAT
Found at i:4422350 original size:19 final size:19
Alignment explanation
Indices: 4422326--4422365 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4422316 ATTAATTTTG
4422326 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
4422345 ATCAAATCAATTAAAATTA
1 ATCAAATAAATTAAAATTA
4422364 AT
1 AT
4422366 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:4422799 original size:19 final size:19
Alignment explanation
Indices: 4422775--4422814 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
4422765 CTTCCAAAAA
*
4422775 TAATATT-ATTTTAATAGTT
1 TAATATTAAATTTAATA-TT
4422794 TAATATTAAATTTAATATT
1 TAATATTAAATTTAATATT
4422813 TA
1 TA
4422815 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
TAATATTAAATTTAATATT
Found at i:4422810 original size:31 final size:30
Alignment explanation
Indices: 4422775--4422843 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 30
4422765 CTTCCAAAAA
* *
4422775 TAATATTATTTTAATAGT-TTAATATTAAATT
1 TAATATTATCTTAATAATATT-ATATT-AATT
*
4422806 TAATATTTATCTTAATAATATTTTATTAATT
1 TAATA-TTATCTTAATAATATTATATTAATT
4422837 TAATATT
1 TAATATT
4422844 GAAGTGATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
30 2 0.06
31 14 0.42
32 15 0.45
33 2 0.06
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (30 bp):
TAATATTATCTTAATAATATTATATTAATT
Found at i:4424969 original size:29 final size:29
Alignment explanation
Indices: 4424920--4425000 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 29
4424910 TTAGTTGACG
* * *
4424920 AAAAAAAGTTTAGGTATCAATCTG-G-GA
1 AAAAAAAATTTAAGTACCAATCTGAGAGA
*
4424947 CAAAAAAAATTATAAGTACCAATTTGAGAGA
1 -AAAAAAAATT-TAAGTACCAATCTGAGAGA
4424978 AATAAACAAATTTAAGTACCAAT
1 AA-AAA-AAATTTAAGTACCAAT
4425001 TTTATATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
28 9 0.20
29 11 0.25
30 3 0.07
31 16 0.36
32 5 0.11
ACGTcount: A:0.52, C:0.10, G:0.14, T:0.25
Consensus pattern (29 bp):
AAAAAAAATTTAAGTACCAATCTGAGAGA
Found at i:4438371 original size:23 final size:23
Alignment explanation
Indices: 4438343--4438392 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
4438333 GGTAGTAAAG
4438343 AATAGTACAAATATGAAAAGAAA
1 AATAGTACAAATATGAAAAGAAA
*
4438366 AATAGTACAAATATGAAAAGAAC
1 AATAGTACAAATATGAAAAGAAA
4438389 AATA
1 AATA
4438393 ATCCAGAGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (23 bp):
AATAGTACAAATATGAAAAGAAA
Found at i:4443202 original size:5 final size:5
Alignment explanation
Indices: 4443192--4443216 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4443182 TTTCTTATAC
4443192 AATTT AATTT AATTT AATTT AATTT
1 AATTT AATTT AATTT AATTT AATTT
4443217 TTTTGGGGGG
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
AATTT
Found at i:4449216 original size:10 final size:10
Alignment explanation
Indices: 4449193--4449247 Score: 51
Period size: 10 Copynumber: 5.7 Consensus size: 10
4449183 TCTAGACTTT
*
4449193 TTTTTATTAA
1 TTTTTAATAA
4449203 -TTTTAATAA
1 TTTTTAATAA
*
4449212 TTTTTAA-CA
1 TTTTTAATAA
*
4449221 TTTTTTATAA
1 TTTTTAATAA
* *
4449231 TTCTTAGTAA
1 TTTTTAATAA
4449241 TTTTTAA
1 TTTTTAA
4449248 ATAAATTTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
9 15 0.44
10 19 0.56
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (10 bp):
TTTTTAATAA
Found at i:4449241 original size:29 final size:29
Alignment explanation
Indices: 4449192--4449247 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
4449182 TTCTAGACTT
4449192 TTTTTTATTAATTTTAATAATTTTTAACA
1 TTTTTTATTAATTTTAATAATTTTTAACA
*
4449221 TTTTTTA-TAATTCTTAGTAATTTTTAA
1 TTTTTTATTAATT-TTAATAATTTTTAA
4449248 ATAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 5 0.20
29 20 0.80
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (29 bp):
TTTTTTATTAATTTTAATAATTTTTAACA
Found at i:4455500 original size:16 final size:18
Alignment explanation
Indices: 4455475--4455518 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 18
4455465 ACATAATTAG
*
4455475 AATTTGATT-GAAAAA-T
1 AATTTAATTGGAAAAATT
4455491 AATTTAATTGGAAAAATT
1 AATTTAATTGGAAAAATT
4455509 AATTTGAATT
1 AATTT-AATT
4455519 AATTAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 8 0.33
17 6 0.25
18 6 0.25
19 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (18 bp):
AATTTAATTGGAAAAATT
Found at i:4459023 original size:17 final size:18
Alignment explanation
Indices: 4458989--4459025 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4458979 TATTTTGTTG
4458989 TAGTTTTTGCTTCAAATT
1 TAGTTTTTGCTTCAAATT
*
4459007 TAGTTTTTG-TTCCAATT
1 TAGTTTTTGCTTCAAATT
4459024 TA
1 TA
4459026 ATCCCTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TAGTTTTTGCTTCAAATT
Found at i:4459439 original size:26 final size:26
Alignment explanation
Indices: 4459372--4459451 Score: 97
Period size: 26 Copynumber: 3.0 Consensus size: 26
4459362 TTTAAACGGT
* *
4459372 TTTTATACATTATTTATTTCAAATTTCTC
1 TTTTATATATTATTTATTTTAAA---CTC
* *
4459401 TTTTACATGTTATTTATTTTAAACTC
1 TTTTATATATTATTTATTTTAAACTC
4459427 TTTTATATATTATTTATTTTAAACT
1 TTTTATATATTATTTATTTTAAACT
4459452 ATTTCATTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
26 26 0.58
29 19 0.42
ACGTcount: A:0.29, C:0.10, G:0.01, T:0.60
Consensus pattern (26 bp):
TTTTATATATTATTTATTTTAAACTC
Found at i:4459462 original size:30 final size:29
Alignment explanation
Indices: 4459372--4459473 Score: 95
Period size: 26 Copynumber: 3.6 Consensus size: 29
4459362 TTTAAACGGT
* *
4459372 TTTTATACATTATTTATTTCAAA-TTTCTC
1 TTTTATATATTATTTATTTTAAACTTT-TC
* *
4459401 TTTTACATGTTATTTATTTTAAAC---TC
1 TTTTATATATTATTTATTTTAAACTTTTC
4459427 TTTTATATATTATTTATTTTAAACTATTTC
1 TTTTATATATTATTTATTTTAAACT-TTTC
* * *
4459457 ATTTATTTATTTTTTAT
1 TTTTATATATTATTTAT
4459474 ATACTACCAT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
26 24 0.41
29 19 0.32
30 16 0.27
ACGTcount: A:0.27, C:0.09, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTTATATATTATTTATTTTAAACTTTTC
Found at i:4462190 original size:42 final size:43
Alignment explanation
Indices: 4462117--4462199 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 43
4462107 GAATTGAGTA
* **
4462117 CTTCGTTTACTCGATGTCATAGTTCAACTATGGTCTTACACAT
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
*
4462160 CTTCATTTA-TCGATGTCATAGCCCAGCTATGGTCTTACAC
1 CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACAC
4462200 GAATCACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 28 0.78
43 8 0.22
ACGTcount: A:0.23, C:0.25, G:0.14, T:0.37
Consensus pattern (43 bp):
CTTCATTTACTCGATGTCATAGCCCAACTATGGTCTTACACAT
Found at i:4462241 original size:46 final size:47
Alignment explanation
Indices: 4462170--4462289 Score: 129
Period size: 46 Copynumber: 2.6 Consensus size: 47
4462160 CTTCATTTAT
* * * *
4462170 CGATGTCATAGCCCAGCTATGGTCTTACACGAATCA-CATATCTCA-A-
1 CGATGCCATATCCCAGATATGGTCTTACAC-AAT-AGCATATATCATAC
* * *
4462216 TGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCATAC
1 CGATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCATAC
*
4462263 CGATGCCATATCCCAGATATAGTCTTA
1 CGATGCCATATCCCAGATATGGTCTTA
4462290 TACGGAAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
44 1 0.02
45 10 0.16
46 26 0.42
47 25 0.40
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (47 bp):
CGATGCCATATCCCAGATATGGTCTTACACAATAGCATATATCATAC
Found at i:4462346 original size:31 final size:31
Alignment explanation
Indices: 4462311--4462521 Score: 280
Period size: 31 Copynumber: 6.8 Consensus size: 31
4462301 CTTGTCACTT
* *
4462311 GTAGCCGAAGCTACCACTATTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * * *
4462342 GTAGCTGGAGCTACCATTTTTCACTAATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* * *
4462373 GTAGTC-GGAGCTACCATTTTTCACTAATCAG
1 GTAG-CAGAAGCTACCACTTTTCACTGATCAG
4462404 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
4462435 GTAGGAGAAGCTACCACTTTCCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
*
4462466 GTAGCAAAAGCTACCACTTTTCACTGATCAG
1 GTAGCAGAAGCTACCACTTTTCACTGATCAG
* *
4462497 GTAGCCGAAACTACCACTTTTCACT
1 GTAGCAGAAGCTACCACTTTTCACT
4462522 TGTCATTTGT
Statistics
Matches: 162, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
30 1 0.01
31 160 0.99
32 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (31 bp):
GTAGCAGAAGCTACCACTTTTCACTGATCAG
Found at i:4462595 original size:50 final size:51
Alignment explanation
Indices: 4462497--4462625 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 51
4462487 CACTGATCAG
* * * * *
4462497 GTAGCCGAAACTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
*
4462548 GTAGCCGAAGCTATTACTTATCACTT-TCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
4462598 GTAGCCGAAGCTATCACTTATCACTTGT
1 GTAGCCGAAGCTATCACTTATCACTTGT
4462626 TGCTATGGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 47 0.67
51 23 0.33
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACTTGTCACTTATCCTTGATCAGATAAGT
Found at i:4472898 original size:53 final size:53
Alignment explanation
Indices: 4472833--4472935 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 53
4472823 TCTATGCCTA
* *
4472833 ATCCAGCCGAGCTTCCTATTGGAACTAAGTATTCTCATATCTACCACCCCAAT
1 ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAT
*
4472886 ATCCAACCGAGCTTCCTATTGAAATTAAGTATTCTCATATCTACCACCCC
1 ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCC
4472936 GAAGTATTCT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (53 bp):
ATCCAACCGAGCTTCCTATTGAAACTAAGTATTCTCATATCTACCACCCCAAT
Found at i:4476598 original size:34 final size:34
Alignment explanation
Indices: 4476560--4476628 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
4476550 TAAAATACTC
*
4476560 AAGGAAGTGAGATTCTTTCGTAAATCAGGTACAT
1 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
4476594 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
1 AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
4476628 A
1 A
4476629 CCTGACATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.29
Consensus pattern (34 bp):
AAGGAAGTGAGATTCTTTCATAAATCAGGTACAT
Found at i:4478250 original size:42 final size:42
Alignment explanation
Indices: 4478187--4478350 Score: 186
Period size: 42 Copynumber: 3.7 Consensus size: 42
4478177 CTTCGTTTTC
** *
4478187 TCGATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACAT-A
* * *
4478230 T-GATGCCATAGCCTAGCTATGGTCTTACACATATTCATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
*
4478271 TCGATGCCATAGCCCAGCTATGGTTTTACACGTAATCACATATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC---AT--C-T-TCACATA
4478320 TCGATGCCATAGCCCAGCTATGGTCTTACAC
1 TCGATGCCATAGCCCAGCTATGGTCTTACAC
4478351 GAATCACATA
Statistics
Matches: 102, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 2 0.02
42 60 0.59
43 1 0.01
45 2 0.02
48 1 0.01
49 36 0.35
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACATCTTCACATA
Found at i:4478330 original size:49 final size:48
Alignment explanation
Indices: 4478270--4478436 Score: 182
Period size: 47 Copynumber: 3.5 Consensus size: 48
4478260 ATATTCATAT
*
4478270 ATCGATGCCATAGCCCAGCTATGGTTTTACACGTAATCACATATCACA
1 ATCGATGCCATAGCCCAGATATGGTTTTACACGTAATCACATATCACA
* * *
4478318 TATCGATGCCATAGCCCAGCTATGGTCTTACACG-AATCACATATCTCA
1 -ATCGATGCCATAGCCCAGATATGGTTTTACACGTAATCACATATCACA
* * * *
4478366 CT-GATGCCATATCCCAGATATGGTCTTATACA-GT-AGCATATATCAC-
1 ATCGATGCCATAGCCCAGATATGGT-TT-TACACGTAATCACATATCACA
* *
4478412 ACCGATGCCATATCCCAGATATGGT
1 ATCGATGCCATAGCCCAGATATGGT
4478437 CTTGTACGGA
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
46 20 0.19
47 34 0.33
48 17 0.17
49 32 0.31
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (48 bp):
ATCGATGCCATAGCCCAGATATGGTTTTACACGTAATCACATATCACA
Found at i:4478460 original size:93 final size:94
Alignment explanation
Indices: 4478231--4478439 Score: 227
Period size: 91 Copynumber: 2.3 Consensus size: 94
4478221 TTCACATAAT
* * * * *
4478231 GATGCCATAGCCTAGCTATGGTCTTACAC-ATAT-TCATATAT--C-GATGCCATAGCCCAGCTA
1 GATGCCATAGCCCAGATATGGTCTTACACGA-ATCACATATCTCACTGATGCCATAGCCCAGATA
* *
4478291 TGGTTTTACACGTAATCACATATCACATATC
65 TGGTTTTACACGTAAGCACATATCACA-ACC
* *
4478322 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTGATGCCATATCCCAGATAT
1 GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
*
4478387 GGTCTTATACA-GT-AGCATATATCAC-ACC
66 GGT-TT-TACACGTAAGCACATATCACAACC
*
4478415 GATGCCATATCCCAGATATGGTCTT
1 GATGCCATAGCCCAGATATGGTCTT
4478440 GTACGGAAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
91 30 0.30
92 7 0.07
93 25 0.25
94 1 0.01
95 30 0.30
96 4 0.04
97 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (94 bp):
GATGCCATAGCCCAGATATGGTCTTACACGAATCACATATCTCACTGATGCCATAGCCCAGATAT
GGTTTTACACGTAAGCACATATCACAACC
Found at i:4478497 original size:31 final size:31
Alignment explanation
Indices: 4478462--4478610 Score: 221
Period size: 31 Copynumber: 4.8 Consensus size: 31
4478452 CTTGTCACTT
* *
4478462 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
4478493 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
4478524 GTAGCCGGTA-CTACCACTTTTCACTGATCAG
1 GTAGCC-GAAGCTACCACTTTTCACTGATCAG
*
4478555 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
4478586 GTAGCCGAAGCTACCACTTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
4478611 TGTCATTTGT
Statistics
Matches: 111, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
30 2 0.02
31 107 0.96
32 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:4478685 original size:50 final size:51
Alignment explanation
Indices: 4478586--4478710 Score: 182
Period size: 50 Copynumber: 2.5 Consensus size: 51
4478576 CACTGATCAG
* * *
4478586 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACATGTCATTTGTCATTGATCAGATAAGT
* *
4478637 GTAGTCGAAGCTATCACTTATCACAT-TCACTTT-TCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACATGTCA-TTTGTCATTGATCAGATAAGT
4478687 GTAGCCGAAGCTATCACTTATCAC
1 GTAGCCGAAGCTATCACTTATCAC
4478711 TTGTTGCCAT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
50 42 0.63
51 25 0.37
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (51 bp):
GTAGCCGAAGCTATCACTTATCACATGTCATTTGTCATTGATCAGATAAGT
Found at i:4486358 original size:57 final size:59
Alignment explanation
Indices: 4486282--4486415 Score: 184
Period size: 57 Copynumber: 2.3 Consensus size: 59
4486272 GATAAAATTG
* * * *
4486282 AATAGTTGGGTGACTATTTTATAACTTTTTAGAGTTGGGTGAC-CAAAAAAAAT-TACT
1 AATAGTTGAGTGACTATTTTATAACTTTTCAGAGTTGGATGACAAAAAAAAAATCTACT
*
4486339 AATAGTTGAGTGA-TCATTTTATAACTTTTCATAGTTGGATGACAAAAAAAAAATCTACT
1 AATAGTTGAGTGACT-ATTTTATAACTTTTCAGAGTTGGATGACAAAAAAAAAATCTACT
*
4486398 AATAGTTGAGTGGCTATT
1 AATAGTTGAGTGACTATT
4486416 AATATAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
56 1 0.01
57 37 0.55
58 9 0.13
59 19 0.28
60 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.37
Consensus pattern (59 bp):
AATAGTTGAGTGACTATTTTATAACTTTTCAGAGTTGGATGACAAAAAAAAAATCTACT
Found at i:4488917 original size:12 final size:12
Alignment explanation
Indices: 4488900--4488932 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4488890 CGGCCTGCCC
4488900 ATATTAATTTTT
1 ATATTAATTTTT
4488912 ATATT-ATTTTT
1 ATATTAATTTTT
4488923 ATA-TAATTTT
1 ATATTAATTTT
4488933 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:4489090 original size:30 final size:30
Alignment explanation
Indices: 4489054--4489111 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
4489044 CAACTTAACA
*
4489054 AGCAAATGCCTCTAAAATAATAACAAAATT
1 AGCAAATGCCTCTAAAATAATAAAAAAATT
* *
4489084 AGCAAATGTCTTTAAAATAATAAAAAAA
1 AGCAAATGCCTCTAAAATAATAAAAAAA
4489112 ATTAATAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.12, G:0.07, T:0.24
Consensus pattern (30 bp):
AGCAAATGCCTCTAAAATAATAAAAAAATT
Found at i:4489204 original size:22 final size:22
Alignment explanation
Indices: 4489157--4489218 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
4489147 CAATAACAAC
* * *
4489157 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAACAAAATAAGAGT
4489179 AAAATAGTAACAAAATAGAGAG-
1 AAAATAGTAACAAAATA-AGAGT
* *
4489201 AAAATAATAAGAAAATAA
1 AAAATAGTAACAAAATAA
4489219 AATTTAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 1 0.03
22 30 0.88
23 3 0.09
ACGTcount: A:0.65, C:0.05, G:0.13, T:0.18
Consensus pattern (22 bp):
AAAATAGTAACAAAATAAGAGT
Found at i:4489208 original size:33 final size:33
Alignment explanation
Indices: 4489154--4489217 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
4489144 AAACAATAAC
*
4489154 AACAAAATAGTAGCAACATAAT-AGTAAAATAGT
1 AACAAAATAGTAGCAAAATAATAAG-AAAATAGT
*
4489187 AACAAAATAG-AGAGAAAATAATAAGAAAATA
1 AACAAAATAGTAG-CAAAATAATAAGAAAATA
4489218 AAATTTAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 23 0.85
34 2 0.07
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.17
Consensus pattern (33 bp):
AACAAAATAGTAGCAAAATAATAAGAAAATAGT
Found at i:4501813 original size:19 final size:19
Alignment explanation
Indices: 4501770--4501813 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
4501760 TTAACCCTCT
*
4501770 TAATATATTATATGGTATA
1 TAATATATTATATAGTATA
*
4501789 TAATATATTA-ATAGTTTA
1 TAATATATTATATAGTATA
4501807 T-ATATAT
1 TAATATAT
4501814 GCATCAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 7 0.30
19 10 0.43
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (19 bp):
TAATATATTATATAGTATA
Found at i:4501942 original size:23 final size:23
Alignment explanation
Indices: 4501876--4501950 Score: 66
Period size: 24 Copynumber: 3.3 Consensus size: 23
4501866 ATCTATATCA
* *
4501876 TAATAGTTATATATATATATATAT
1 TAATATTTTTATATATAT-TATAT
*
4501900 TAATATTTTTAAAATATATTATAT
1 TAATATTTTT-ATATATATTATAT
*
4501924 T-ATATTTATTATATGTATTA-A-
1 TAATATTT-TTATATATATTATAT
4501945 TAATAT
1 TAATAT
4501951 ACTAATTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 1 0.02
22 5 0.12
23 14 0.33
24 16 0.37
25 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (23 bp):
TAATATTTTTATATATATTATAT
Found at i:4502070 original size:16 final size:17
Alignment explanation
Indices: 4502051--4502096 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
4502041 ATTTTATAGC
4502051 TTTTA-ATAATTATTAG
1 TTTTATATAATTATTAG
*
4502067 TTTTATATATTTATTA-
1 TTTTATATAATTATTAG
**
4502083 TAATATATAATTAT
1 TTTTATATAATTAT
4502097 ATAATTAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTATATAATTATTAG
Found at i:4504761 original size:26 final size:26
Alignment explanation
Indices: 4504731--4504781 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
4504721 ACTTTTTTTT
*
4504731 TTTTTGTTTTATAGATTTTTGCGTAA
1 TTTTTGTTTTATAAATTTTTGCGTAA
*
4504757 TTTTTTTTTTATAAATTTTTGCGTA
1 TTTTTGTTTTATAAATTTTTGCGTA
4504782 CAGCAATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.20, C:0.04, G:0.12, T:0.65
Consensus pattern (26 bp):
TTTTTGTTTTATAAATTTTTGCGTAA
Found at i:4516261 original size:27 final size:27
Alignment explanation
Indices: 4516223--4516294 Score: 135
Period size: 27 Copynumber: 2.7 Consensus size: 27
4516213 AAAAAATATA
4516223 GGTTGAGGGTACCCCATAAGCGGCACT
1 GGTTGAGGGTACCCCATAAGCGGCACT
4516250 GGTTGAGGGTACCCCATAAGCGGCACT
1 GGTTGAGGGTACCCCATAAGCGGCACT
*
4516277 GGTTAAGGGTACCCCATA
1 GGTTGAGGGTACCCCATA
4516295 GGCGTGCCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.32, T:0.19
Consensus pattern (27 bp):
GGTTGAGGGTACCCCATAAGCGGCACT
Found at i:4516806 original size:11 final size:11
Alignment explanation
Indices: 4516792--4516818 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4516782 ATTTAAAAAA
4516792 TAAATTCCAAT
1 TAAATTCCAAT
4516803 TAAATTCCAAT
1 TAAATTCCAAT
4516814 TAAAT
1 TAAAT
4516819 CAACAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAATTCCAAT
Found at i:4517067 original size:3 final size:3
Alignment explanation
Indices: 4517061--4517092 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
4517051 CCCGCCGCCC
4517061 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
4517093 CATGGCAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:4517653 original size:46 final size:46
Alignment explanation
Indices: 4517586--4517675 Score: 162
Period size: 46 Copynumber: 2.0 Consensus size: 46
4517576 AGACATAAGG
4517586 ACAAAACTACTAACATTTAACTATATGACCAAATAAACTAATAACC
1 ACAAAACTACTAACATTTAACTATATGACCAAATAAACTAATAACC
* *
4517632 ACAAAACTACTAACATTTAACTATCTGACCAAATAAATTAATAA
1 ACAAAACTACTAACATTTAACTATATGACCAAATAAACTAATAA
4517676 ACAGTTGGAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.26
Consensus pattern (46 bp):
ACAAAACTACTAACATTTAACTATATGACCAAATAAACTAATAACC
Found at i:4523585 original size:3 final size:3
Alignment explanation
Indices: 4523577--4523622 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4523567 ACCAAATATG
4523577 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4523623 GGTGGAATGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4530816 original size:35 final size:34
Alignment explanation
Indices: 4530775--4530856 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 34
4530765 TGTAAAAATT
*
4530775 ATAATTATTATTTAA-TTTACAATTATTAGTTAAAA
1 ATAATTATTATTTAATTTTAAAATTATTA--TAAAA
*
4530810 ATAATTATAATTTAATTTTAAAATTATTATAAAA
1 ATAATTATTATTTAATTTTAAAATTATTATAAAA
4530844 ATAATT-TT-TTTAA
1 ATAATTATTATTTAA
4530857 AAATTGTGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.12
33 1 0.02
34 11 0.26
35 14 0.33
36 12 0.28
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (34 bp):
ATAATTATTATTTAATTTTAAAATTATTATAAAA
Found at i:4531266 original size:19 final size:19
Alignment explanation
Indices: 4531223--4531268 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
4531213 TATGTGCTTA
4531223 AAATTTTATAAATTTATAT
1 AAATTTTATAAATTTATAT
*
4531242 ATAATTTTA-AAATTATATCT
1 A-AATTTTATAAATT-TATAT
4531262 AAATTTT
1 AAATTTT
4531269 TACGCGTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AAATTTTATAAATTTATAT
Found at i:4531269 original size:20 final size:20
Alignment explanation
Indices: 4531223--4531270 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
4531213 TATGTGCTTA
*
4531223 AAATTTTATAAATTTATATAT
1 AAATTTT-TAAAATTATATAT
*
4531244 -AA-TTTTAAAATTATATCT
1 AAATTTTTAAAATTATATAT
4531262 AAATTTTTA
1 AAATTTTTA
4531271 CGCGTGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 7 0.30
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTTTTAAAATTATATAT
Found at i:4543521 original size:111 final size:111
Alignment explanation
Indices: 4543365--4543583 Score: 332
Period size: 111 Copynumber: 2.0 Consensus size: 111
4543355 ACATGTATAA
* * * *
4543365 TTTTGGTTAAGAGTTTATTGTCATAAATATTATAAGGCTCGATTTTAAGAAATTTTTTAAACTTT
1 TTTTGGTTAAGAGTTTATTGTCATAAATATAACAAGGCTCAATTTTAAGAAACTTTTTAAACTTT
* * *
4543430 CACCGTGCTTAAAAACACTATTTTGTAAATCA-ATTTTTTCAACCGT
66 CACCATGCTTAAAAACACTATTTTATAAA-CAGATTTTTCCAACCGT
* *
4543476 TTTTGGTTAAGAGTTTATTGTTATAAATATAACAATGCTCAATTTTAAGAAACTTTTTAAACTTT
1 TTTTGGTTAAGAGTTTATTGTCATAAATATAACAAGGCTCAATTTTAAGAAACTTTTTAAACTTT
*
4543541 TACCATGCTTAAAAACACTATTTTATAAACAGATTTTTCCAAC
66 CACCATGCTTAAAAACACTATTTTATAAACAGATTTTTCCAAC
4543584 AGTTAGGTCC
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
110 2 0.02
111 95 0.98
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (111 bp):
TTTTGGTTAAGAGTTTATTGTCATAAATATAACAAGGCTCAATTTTAAGAAACTTTTTAAACTTT
CACCATGCTTAAAAACACTATTTTATAAACAGATTTTTCCAACCGT
Found at i:4548237 original size:14 final size:13
Alignment explanation
Indices: 4548210--4548236 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4548200 TCTTTAAATC
4548210 TAAATCATTTTTT
1 TAAATCATTTTTT
4548223 TAAATCATTTTTT
1 TAAATCATTTTTT
4548236 T
1 T
4548237 TTTCTTTTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TAAATCATTTTTT
Found at i:4560605 original size:119 final size:120
Alignment explanation
Indices: 4560394--4560632 Score: 453
Period size: 119 Copynumber: 2.0 Consensus size: 120
4560384 GTTTTATGAG
4560394 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
1 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
*
4560459 CTTTGACAAGAATTTTGGGAACTTTTG-AAGTTCAGTCTATGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
*
4560513 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTTACAAGAAA
1 TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
4560578 CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
66 CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
4560633 GCATACATGC
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
119 90 0.77
120 27 0.23
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.44
Consensus pattern (120 bp):
TCAAAGTGGTGGTTCCTTTGCTTTTTTAATTATTAATTTTTGGCTGTATCAACAGTCACAAGAAA
CTTTGACAAGAATTTTGGGAACCTTTGAAAGTTCAGTCTATGTTTTATGCTTGTT
Found at i:4569143 original size:168 final size:168
Alignment explanation
Indices: 4568865--4569202 Score: 676
Period size: 168 Copynumber: 2.0 Consensus size: 168
4568855 CAGTACTTAG
4568865 TTTGTGTTGTACATGGTTCTGATCATTCTGTAATTTTCAAAAATTGGTGAACCCATATCGGGTAG
1 TTTGTGTTGTACATGGTTCTGATCATTCTGTAATTTTCAAAAATTGGTGAACCCATATCGGGTAG
4568930 TCCTCTAGTTTTTTTAATAATCTTATTTTGTTGAATGGTTTTGGTGCTTAGTAGTGATAAGCCAC
66 TCCTCTAGTTTTTTTAATAATCTTATTTTGTTGAATGGTTTTGGTGCTTAGTAGTGATAAGCCAC
4568995 AAGGAATGAGATGTTTAAGACTGTTGTATGTAAGAGTA
131 AAGGAATGAGATGTTTAAGACTGTTGTATGTAAGAGTA
4569033 TTTGTGTTGTACATGGTTCTGATCATTCTGTAATTTTCAAAAATTGGTGAACCCATATCGGGTAG
1 TTTGTGTTGTACATGGTTCTGATCATTCTGTAATTTTCAAAAATTGGTGAACCCATATCGGGTAG
4569098 TCCTCTAGTTTTTTTAATAATCTTATTTTGTTGAATGGTTTTGGTGCTTAGTAGTGATAAGCCAC
66 TCCTCTAGTTTTTTTAATAATCTTATTTTGTTGAATGGTTTTGGTGCTTAGTAGTGATAAGCCAC
4569163 AAGGAATGAGATGTTTAAGACTGTTGTATGTAAGAGTA
131 AAGGAATGAGATGTTTAAGACTGTTGTATGTAAGAGTA
4569201 TT
1 TT
4569203 GAAGCAAGTT
Statistics
Matches: 170, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 170 1.00
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.41
Consensus pattern (168 bp):
TTTGTGTTGTACATGGTTCTGATCATTCTGTAATTTTCAAAAATTGGTGAACCCATATCGGGTAG
TCCTCTAGTTTTTTTAATAATCTTATTTTGTTGAATGGTTTTGGTGCTTAGTAGTGATAAGCCAC
AAGGAATGAGATGTTTAAGACTGTTGTATGTAAGAGTA
Found at i:4574244 original size:11 final size:11
Alignment explanation
Indices: 4574230--4574279 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
4574220 TTTCAATATT
4574230 CTCTCAAATTC
1 CTCTCAAATTC
4574241 CTCTCAAA-T-
1 CTCTCAAATTC
*
4574250 CTCTCAAATTT
1 CTCTCAAATTC
*
4574261 CTCTTAAATTC
1 CTCTCAAATTC
4574272 CTCTCAAA
1 CTCTCAAA
4574280 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:4574254 original size:20 final size:21
Alignment explanation
Indices: 4574222--4574279 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
4574212 CTTCAATCTT
4574222 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
4574244 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
4574264 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
4574280 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:4575452 original size:21 final size:21
Alignment explanation
Indices: 4575426--4575534 Score: 83
Period size: 21 Copynumber: 5.1 Consensus size: 21
4575416 CCTGATCAGT
* *
4575426 ATACGACATATAAAGTGTCTG
1 ATACGACATACAAAGTGCCTG
*
4575447 ATACGACATACAAGGTGCCTG
1 ATACGACATACAAAGTGCCTG
* * *
4575468 ATACGACACACGAGGTGCCTG
1 ATACGACATACAAAGTGCCTG
* * * * *
4575489 ATATGACACACGAGGTGCCTAAA
1 ATACGACATACAAAGTGCCT--G
* *
4575512 ATACGACACATAAAGTGCCTG
1 ATACGACATACAAAGTGCCTG
4575533 AT
1 AT
4575535 CAGTAAAGCC
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
21 58 0.78
23 16 0.22
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACATACAAAGTGCCTG
Found at i:4575530 original size:44 final size:42
Alignment explanation
Indices: 4575426--4575534 Score: 119
Period size: 42 Copynumber: 2.5 Consensus size: 42
4575416 CCTGATCAGT
* * * *
4575426 ATACGACATATAAAGTGTCTGATACGACATACAAGGTGCCTG
1 ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCTA
** * * *
4575468 ATACGACACACGAGGTGCCTGATATGACACACGAGGTGCCTAAA
1 ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCT--A
4575512 ATACGACACATAAAGTGCCTGAT
1 ATACGACACATAAAGTGCCTGAT
4575535 CAGTAAAGCC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 33 0.62
44 20 0.38
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTGATACGACACACAAGGTGCCTA
Found at i:4575930 original size:15 final size:15
Alignment explanation
Indices: 4575905--4575962 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
4575895 TCATATATAT
4575905 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
4575921 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
4575936 AATAATTTCAATCAA
1 TATAAATTCAATCAA
4575951 TATAAATTCAAT
1 TATAAATTCAAT
4575963 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:4577245 original size:5 final size:5
Alignment explanation
Indices: 4577232--4577263 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
4577222 TTCTTTAGTT
4577232 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
4577264 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:4578713 original size:7 final size:7
Alignment explanation
Indices: 4578701--4578734 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4578691 TAGTGGATTC
4578701 GTATTTA
1 GTATTTA
4578708 GTATTTA
1 GTATTTA
4578715 GTATTTA
1 GTATTTA
4578722 GTATTTA
1 GTATTTA
4578729 GTATTT
1 GTATTT
4578735 TTTTATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:4579407 original size:116 final size:116
Alignment explanation
Indices: 4579203--4579612 Score: 721
Period size: 116 Copynumber: 3.5 Consensus size: 116
4579193 CGTGGCCCTT
*
4579203 TAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
*
4579268 ATAAAAGGTTGTTTTAAACAAAGTAATTGTAATTTACTTTTATATTTTTAA
66 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
* *
4579319 TAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTAATGTAATTAG
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
4579384 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
66 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
* * *
4579435 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTGATAAT
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
* *
4579500 ATAAAAGGCTGTTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAA
66 ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
* *
4579551 TAAAATGAAAATTATTTTAAATAAAGCAATATTTTGAATATTTTTATATTATTTCATGTAAT
1 TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAAT
4579613 AAAATATAAA
Statistics
Matches: 282, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
116 282 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (116 bp):
TAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATATTTTTATATTATTTCATGTAATTAG
ATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAA
Found at i:4582866 original size:126 final size:126
Alignment explanation
Indices: 4582634--4583172 Score: 801
Period size: 126 Copynumber: 4.3 Consensus size: 126
4582624 GCCCAAGTTA
* * *
4582634 TTTCAGAAACCACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
** **
4582699 TGCATCCTGCTTGAAGAATTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
4582760 TTTCAGAGACCACTGTAGCAAAAGAGCATCCATGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
4582825 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCGTAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* ** * * *
4582886 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCATATGGAATCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
4582951 TGCATCCTGCTTGAAGCGTTTTTTACACTATTTGCACAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
4583012 TTTCAGATACTACTGTAGCAAAAGAGCGTCCACGTGGGATCTCCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
4583077 TGCATCCTGCTTGAAGCGTTTTTGACACCATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* *
4583138 TTTCAAAGACTACTGTAGCAAAAGAGCGTCTACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
4583173 AGAAGCTTTT
Statistics
Matches: 376, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
125 1 0.00
126 374 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:4583466 original size:15 final size:16
Alignment explanation
Indices: 4583448--4583489 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
4583438 TTTTTTCCTT
4583448 AAAACCCTAAAATTTA
1 AAAACCCTAAAATTTA
* *
4583464 AAAATCC-AAAATTCTC
1 AAAACCCTAAAATT-TA
4583480 AAAACCCTAA
1 AAAACCCTAA
4583490 CCCTAATTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.29
16 13 0.62
17 2 0.10
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAACCCTAAAATTTA
Found at i:4586282 original size:28 final size:28
Alignment explanation
Indices: 4586243--4586305 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
4586233 AATTCTTGGA
4586243 ATATAAAAGGAAAATTAAAATCAAATTT
1 ATATAAAAGGAAAATTAAAATCAAATTT
4586271 ATATAAAAGGAAAATTAAAATCAAATTT
1 ATATAAAAGGAAAATTAAAATCAAATTT
4586299 A-ATAAAA
1 ATATAAAA
4586306 ATACATTGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 6 0.17
28 29 0.83
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.27
Consensus pattern (28 bp):
ATATAAAAGGAAAATTAAAATCAAATTT
Found at i:4591948 original size:24 final size:24
Alignment explanation
Indices: 4591921--4591975 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4591911 AAAAGTTTTC
* *
4591921 TTAACAATAATTCTAAAAAAGAAA
1 TTAAAAATAAATCTAAAAAAGAAA
* *
4591945 TTAAAAATAAATCTTAAAAATAAA
1 TTAAAAATAAATCTAAAAAAGAAA
4591969 -TAAAAAT
1 TTAAAAAT
4591976 TATTAAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (24 bp):
TTAAAAATAAATCTAAAAAAGAAA
Found at i:4591961 original size:13 final size:13
Alignment explanation
Indices: 4591919--4591969 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
4591909 ATAAAAGTTT
* *
4591919 TCTTAACAATAAT
1 TCTTAAAAATAAA
* *
4591932 TCTAAAAAAGAAA
1 TCTTAAAAATAAA
4591945 --TTAAAAATAAA
1 TCTTAAAAATAAA
4591956 TCTTAAAAATAAA
1 TCTTAAAAATAAA
4591969 T
1 T
4591970 AAAAATTATT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
11 9 0.30
13 21 0.70
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (13 bp):
TCTTAAAAATAAA
Found at i:4592278 original size:13 final size:14
Alignment explanation
Indices: 4592254--4592283 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
4592244 ATTTTAAATT
4592254 TTTAGAAATTTTTA
1 TTTAGAAATTTTTA
4592268 TTTAG-AATTTTTA
1 TTTAGAAATTTTTA
4592281 TTT
1 TTT
4592284 TTAAAATATT
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:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (14 bp):
TTTAGAAATTTTTA
Found at i:4595120 original size:20 final size:20
Alignment explanation
Indices: 4595095--4595137 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4595085 ATCGGTATTC
4595095 TTATCCTAAATTTCAGGATT
1 TTATCCTAAATTTCAGGATT
* * *
4595115 TTATCCTGAATTTTAGTATT
1 TTATCCTAAATTTCAGGATT
4595135 TTA
1 TTA
4595138 ATTTAGATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.12, G:0.09, T:0.51
Consensus pattern (20 bp):
TTATCCTAAATTTCAGGATT
Found at i:4599522 original size:19 final size:19
Alignment explanation
Indices: 4599498--4599562 Score: 87
Period size: 19 Copynumber: 3.4 Consensus size: 19
4599488 CTTTCTTTCC
*
4599498 TTTGCATT-CATCCCATGCA
1 TTTGCATTGCATCGCAT-CA
4599517 TTTGCATTGCATCGCATCA
1 TTTGCATTGCATCGCATCA
* *
4599536 TGTGCATTGCATTGCATCA
1 TTTGCATTGCATCGCATCA
4599555 TTTGCATT
1 TTTGCATT
4599563 AGATTTTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 34 0.83
20 7 0.17
ACGTcount: A:0.20, C:0.25, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGCATTGCATCGCATCA
Found at i:4602874 original size:4 final size:4
Alignment explanation
Indices: 4602867--4602898 Score: 55
Period size: 4 Copynumber: 7.8 Consensus size: 4
4602857 TCAAAAAAAA
4602867 AAAG AAAG AAAG AAAG AAAG AAAG AGAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG A-AAG AAA
4602899 AAGGAGAGGC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 23 0.85
5 4 0.15
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4604255 original size:42 final size:43
Alignment explanation
Indices: 4604105--4604348 Score: 215
Period size: 44 Copynumber: 5.6 Consensus size: 43
4604095 TTCACAAGCC
* * * * * *
4604105 TTAAACCCCTAAACAGTAGGGTAACAG-GCTGAAGATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGATA
* * * *
4604150 TTAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAA-GATA
* * * * * *
4604194 TTAAACCCCTAATCAGTAGGGTAACAGACCGAA-TTGCAGATA
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATA
* * *
4604236 TTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATC
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATA
* *
4604279 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-
1 TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGA--AGATA
*
4604323 TTAACCCCCTAAGCAGTAGGGTAACA
1 TTAACCCCCTAAGCAGTAGGGAAACA
4604349 AGTCGAATTT
Statistics
Matches: 162, Mismatches: 32, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
42 29 0.18
43 45 0.28
44 57 0.35
45 30 0.19
46 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (43 bp):
TTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATA
Found at i:4604269 original size:86 final size:86
Alignment explanation
Indices: 4604104--4604437 Score: 273
Period size: 87 Copynumber: 3.8 Consensus size: 86
4604094 ATTCACAAGC
* * * *
4604104 CTTAAACCCCTAAACAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGTAGTAG
1 CTTAAACCCCTAAACAGTAGGGTAACAGACCG-A-ATTTACAGATATTAACCCCCTAAGCAGTAG
*
4604169 GGAAACAGATCGAAGACGAAGGGT
64 GGAAACAGATCGAAGACGAA-GAT
* * * *
4604193 CTTAAACCCCTAATCAGTAGGGTAACAGACCGAA-TTGCAGATATTATCTCCCTAAGCAGTAGGG
1 CTTAAACCCCTAAACAGTAGGGTAACAGACCGAATTTACAGATATTAACCCCCTAAGCAGTAGGG
*
4604257 AAACAGATCGAAGATGAAGAT
66 AAACAGATCGAAGACGAAGAT
* * * * * * ** *
4604278 CTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAG
1 CTTAAACCCCTAAACAGTAGGGTAACAGACCGAA-TTTA-CAGATATTAACCCCCTAAGCAGTAG
* * *
4604342 GGTAACA-AGTCGAATTTAC-AA-AC
64 GGAAACAGA-TCGAA--GACGAAGAT
* * * * * * *
4604365 CTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAAATCTTAACCCCCTAACCATTAG
1 CTTAAACCCCTAAACAGTAGGGTAACAGACCG-A-ATTTACAGATATTAACCCCCTAAGCAGTAG
*
4604430 GGTAACAG
64 GGAAACAG
4604438 GTTGAATTTA
Statistics
Matches: 197, Mismatches: 38, Indels: 20
0.77 0.15 0.08
Matches are distributed among these distances:
85 32 0.16
86 43 0.22
87 59 0.30
88 32 0.16
89 31 0.16
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (86 bp):
CTTAAACCCCTAAACAGTAGGGTAACAGACCGAATTTACAGATATTAACCCCCTAAGCAGTAGGG
AAACAGATCGAAGACGAAGAT
Done.