Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 89
Found at i:3932282 original size:22 final size:23
Alignment explanation
Indices: 3932228--3932283 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
3932218 TAAAAGAGGA
*
3932228 AATCGGTTCCCATTCAAAGGGGG
1 AATCGATTCCCATTCAAAGGGGG
* *
3932251 AATCGGTTCCCCTTC-AAGGGGG
1 AATCGATTCCCATTCAAAGGGGG
* *
3932273 TATTGATTCCC
1 AATCGATTCCC
3932284 TCTGCACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.21, C:0.25, G:0.27, T:0.27
Consensus pattern (23 bp):
AATCGATTCCCATTCAAAGGGGG
Found at i:3936335 original size:117 final size:118
Alignment explanation
Indices: 3936115--3936336 Score: 283
Period size: 117 Copynumber: 1.9 Consensus size: 118
3936105 ATTTCAAATC
*
3936115 AAAATTTTCTTTTTCAATACTTTCAAGTTTCATTTTTGAAAGCTCTAAATCCTTCTTCAAGATTT
1 AAAATTTTCTTTTTCAATACTTTCAAGTTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
* *
3936180 CATTTTGATTTTCAAAATCCATTTTCGTTTCTAGAAGAAGTTTGTTTAATTTG
66 CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
* * *
3936233 AAAA-TTTCTTTTTCAA-AGTTTTC-AGATTTTATTTTTGAAAGCTCTAACTCCTT-TCTCAACA
1 AAAATTTTCTTTTTCAATA-CTTTCAAG-TTTCATTTTTGAAAGCTCTAAATCCTTCT-TCAACA
* * **
3936294 TTTCATTTTGATTTTCCAAGTCTGTTTTAGCTTTC-AAAAGAAG
63 TTTCATTTTGATTTTCAAAATCCATTTTAG-TTTCTAAAAGAAG
3936337 ATCATTTTTA
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
116 4 0.04
117 78 0.87
118 8 0.09
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.47
Consensus pattern (118 bp):
AAAATTTTCTTTTTCAATACTTTCAAGTTTCATTTTTGAAAGCTCTAAATCCTTCTTCAACATTT
CATTTTGATTTTCAAAATCCATTTTAGTTTCTAAAAGAAGTTTGTTTAATTTG
Found at i:3936660 original size:18 final size:18
Alignment explanation
Indices: 3936637--3936678 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
3936627 ACATGTGCAT
3936637 AGCTTTTGTATTTTGTTG
1 AGCTTTTGTATTTTGTTG
3936655 AGCTTTTGTATTTTGTTG
1 AGCTTTTGTATTTTGTTG
3936673 AG-TTTT
1 AGCTTTT
3936679 CTTCCGTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.12, C:0.05, G:0.21, T:0.62
Consensus pattern (18 bp):
AGCTTTTGTATTTTGTTG
Found at i:3937614 original size:21 final size:21
Alignment explanation
Indices: 3937589--3937641 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
3937579 TTGGAGCGTG
3937589 GGGGAATCGGTACCCCCTCAT
1 GGGGAATCGGTACCCCCTCAT
3937610 GGGGAATCGGTACCCCCTCAT
1 GGGGAATCGGTACCCCCTCAT
*
3937631 GAGGAATCGGT
1 GGGGAATCGGT
3937642 TCCCTAAGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.21, C:0.28, G:0.32, T:0.19
Consensus pattern (21 bp):
GGGGAATCGGTACCCCCTCAT
Found at i:3938647 original size:40 final size:40
Alignment explanation
Indices: 3938563--3938663 Score: 123
Period size: 40 Copynumber: 2.5 Consensus size: 40
3938553 TCATATTTGG
* ***
3938563 TCTTCCTGAAGAG-AAGTGAAGCAAATCAAGTTCGCTTTTG
1 TCTTCCTGAAGAGTAA-TGAAGCAAATCAAGTTCGATTCAA
*
3938603 TCTTCCTGAAGAGTAATGAAGCAAATCAAGTTCTATTCAA
1 TCTTCCTGAAGAGTAATGAAGCAAATCAAGTTCGATTCAA
*
3938643 TCTTCTCTGAAGAGTAGTGAA
1 TCTTC-CTGAAGAGTAATGAA
3938664 TTGAATCAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
40 37 0.70
41 16 0.30
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (40 bp):
TCTTCCTGAAGAGTAATGAAGCAAATCAAGTTCGATTCAA
Found at i:3938929 original size:130 final size:131
Alignment explanation
Indices: 3938795--3939029 Score: 285
Period size: 130 Copynumber: 1.8 Consensus size: 131
3938785 GAAGAGCAAC
* * * *
3938795 GAAGTGAAT-AACAATTTCCAGAACTGATCTACCCTGAAGCGCAACAGAGCATATCCCTTTT-TC
1 GAAGTGAATCAA-AATTTCCAGAACTAATCTACCCTGAAGAGCAACAGAGCAGATCCCTTTTAGC
*
3938858 AAATTTGATCTTCCCTAAAGAACAACGAAGAAAATCAACCTTTATTCAAGCATTCTTAGAGAACA
65 AAATTTGATCTTCCCTAAAGAACAACGAAGAAAATAAACCTTTATTCAAGCATTCTTAGAGAACA
3938923 GT
130 GT
* * * * *** *
3938925 GAAGTTAATCAATATTTCCAGATCTAATCTTCCCTGAAGAGCAGTGGAGTAGATCCCTTTTAGCA
1 GAAGTGAATCAAAATTTCCAGAACTAATCTACCCTGAAGAGCAACAGAGCAGATCCCTTTTAGCA
* * * **
3938990 GATTTGATCTTCCCTGAAGAGCAGTGAAGAAAATAAACCT
66 AATTTGATCTTCCCTAAAGAACAACGAAGAAAATAAACCT
3939030 GATTTAACTT
Statistics
Matches: 85, Mismatches: 18, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
130 47 0.55
131 38 0.45
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (131 bp):
GAAGTGAATCAAAATTTCCAGAACTAATCTACCCTGAAGAGCAACAGAGCAGATCCCTTTTAGCA
AATTTGATCTTCCCTAAAGAACAACGAAGAAAATAAACCTTTATTCAAGCATTCTTAGAGAACAG
T
Found at i:3939198 original size:3 final size:3
Alignment explanation
Indices: 3939190--3939260 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
3939180 GGATCTTTTG
3939190 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3939238 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
3939261 TCTTATAGGC
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3944435 original size:3 final size:3
Alignment explanation
Indices: 3944411--3944483 Score: 107
Period size: 3 Copynumber: 25.0 Consensus size: 3
3944401 CTACCAAAAA
*
3944411 TAT TAT T-T TAT TAAT T-T T-T TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3944454 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3944484 ATTCATACCT
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
2 6 0.09
3 56 0.86
4 3 0.05
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:3945793 original size:30 final size:29
Alignment explanation
Indices: 3945759--3945886 Score: 102
Period size: 30 Copynumber: 4.3 Consensus size: 29
3945749 TATTGTGTGT
3945759 GTCCTTTATA-TTTCTGTTTTAACTATTTTA
1 GTCCTTTA-ACTTTCTGTTTT-ACTATTTTA
* * **
3945789 GTCCTTTAAGTTTTTGTATTCGCTATTTTA
1 GTCCTTTAACTTTCTGT-TTTACTATTTTA
*
3945819 GTCCTTTAACTTTTTGTATTTACTA-TTTA
1 GTCCTTTAACTTTCTGT-TTTACTATTTTA
*
3945848 G-CTCTTTAAATTTCTGTTAATTA-TATTTTA
1 GTC-CTTTAACTTTCTGTT--TTACTATTTTA
*
3945878 GTCCCTTAA
1 GTCCTTTAA
3945887 ATGCTTATTT
Statistics
Matches: 82, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
28 2 0.02
29 20 0.24
30 57 0.70
31 3 0.04
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (29 bp):
GTCCTTTAACTTTCTGTTTTACTATTTTA
Found at i:3946249 original size:26 final size:26
Alignment explanation
Indices: 3946219--3946278 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
3946209 TGCGTCATAA
*
3946219 ATTTATGATGCACATTTATGACACGC
1 ATTTATGATACACATTTATGACACGC
** **
3946245 ATTTATGATATGCATTTATGACGTGC
1 ATTTATGATACACATTTATGACACGC
3946271 ATTTATGA
1 ATTTATGA
3946279 CGCTCATTGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (26 bp):
ATTTATGATACACATTTATGACACGC
Found at i:3946280 original size:13 final size:13
Alignment explanation
Indices: 3946231--3946279 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
3946221 TTATGATGCA
*
3946231 CATTTATGACACG
1 CATTTATGACATG
*
3946244 CATTTATGATATG
1 CATTTATGACATG
*
3946257 CATTTATGACGTG
1 CATTTATGACATG
3946270 CATTTATGAC
1 CATTTATGAC
3946280 GCTCATTGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTTATGACATG
Found at i:3946286 original size:13 final size:13
Alignment explanation
Indices: 3946219--3946286 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
3946209 TGCGTCATAA
* *
3946219 ATTTATGATGCAC
1 ATTTATGACGCTC
* *
3946232 ATTTATGACACGC
1 ATTTATGACGCTC
**
3946245 ATTTATGA-TATGC
1 ATTTATGACGCT-C
3946258 ATTTATGACG-TGC
1 ATTTATGACGCT-C
3946271 ATTTATGACGCTC
1 ATTTATGACGCTC
3946284 ATT
1 ATT
3946287 GCGCTTCATT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
13 44 0.98
14 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (13 bp):
ATTTATGACGCTC
Found at i:3946286 original size:26 final size:25
Alignment explanation
Indices: 3946219--3946286 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
3946209 TGCGTCATAA
*
3946219 ATTTATGATGCACATTTATGACACGC
1 ATTTATGA-GCTCATTTATGACACGC
** **
3946245 ATTTATGATATGCATTTATGACGTGC
1 ATTTATGAGCT-CATTTATGACACGC
3946271 ATTTATGACGCTCATT
1 ATTTATGA-GCTCATT
3946287 GCGCTTCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
26 32 0.97
27 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (25 bp):
ATTTATGAGCTCATTTATGACACGC
Found at i:3946449 original size:2 final size:2
Alignment explanation
Indices: 3946442--3946488 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
3946432 TGTCATAAAT
3946442 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3946484 TA TA T
1 TA TA T
3946489 TGTAGATTGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3948393 original size:15 final size:15
Alignment explanation
Indices: 3948373--3948401 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
3948363 AGAGAATAAA
3948373 GACAAACTTAATTGT
1 GACAAACTTAATTGT
3948388 GACAAACTTAATTG
1 GACAAACTTAATTG
3948402 GCATTCCTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (15 bp):
GACAAACTTAATTGT
Found at i:3949331 original size:17 final size:17
Alignment explanation
Indices: 3949309--3949345 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
3949299 TCCACCAACA
3949309 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
3949326 GAAGTATAGATTAATGT
1 GAAGTATAGATTAATGT
3949343 GAA
1 GAA
3949346 AGATAAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.32
Consensus pattern (17 bp):
GAAGTATAGATTAATGT
Found at i:3949355 original size:17 final size:17
Alignment explanation
Indices: 3949309--3949355 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
3949299 TCCACCAACA
*
3949309 GAAGTATAGATTAATGT
1 GAAGTATAAATTAATGT
*
3949326 GAAGTATAGATTAATGT
1 GAAGTATAAATTAATGT
3949343 GAAAG-ATAAATTA
1 G-AAGTATAAATTA
3949356 GGTTAGTGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 25 0.89
18 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (17 bp):
GAAGTATAAATTAATGT
Found at i:3950325 original size:8 final size:8
Alignment explanation
Indices: 3950312--3950341 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
3950302 CGTTTTGGAC
3950312 AAAGGGAA
1 AAAGGGAA
3950320 AAAGGGAA
1 AAAGGGAA
*
3950328 AAAGAGAA
1 AAAGGGAA
3950336 AAAGGG
1 AAAGGG
3950342 GAAGTATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (8 bp):
AAAGGGAA
Found at i:3952315 original size:30 final size:30
Alignment explanation
Indices: 3952281--3952337 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
3952271 TGCTTGTACA
*
3952281 AACTCGTTTTTATCTTTTGTTTGTGTTACT
1 AACTCATTTTTATCTTTTGTTTGTGTTACT
*
3952311 AACTCATTTTTCTCTTTTGTTTGTGTT
1 AACTCATTTTTATCTTTTGTTTGTGTT
3952338 TTTTTCATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.12, C:0.14, G:0.12, T:0.61
Consensus pattern (30 bp):
AACTCATTTTTATCTTTTGTTTGTGTTACT
Found at i:3954193 original size:13 final size:14
Alignment explanation
Indices: 3954164--3954203 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
3954154 AGATCAAATC
3954164 AAAGCAAAGAGAAA
1 AAAGCAAAGAGAAA
*
3954178 AAAGCAAGGA-AAA
1 AAAGCAAAGAGAAA
3954191 AAAG-AAA-AGAAA
1 AAAGCAAAGAGAAA
3954203 A
1 A
3954204 GAAAAAGCGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 1 0.04
12 6 0.26
13 7 0.30
14 9 0.39
ACGTcount: A:0.75, C:0.05, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAGCAAAGAGAAA
Found at i:3954207 original size:18 final size:18
Alignment explanation
Indices: 3954186--3954228 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
3954176 AAAAAGCAAG
3954186 GAAAAAAAGAAAAGAAA-A
1 GAAAAAAAGAAAA-AAACA
**
3954204 GAAAAAGCGAAAAAAACA
1 GAAAAAAAGAAAAAAACA
3954222 GAAAAAA
1 GAAAAAA
3954229 CAACAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.79, C:0.05, G:0.16, T:0.00
Consensus pattern (18 bp):
GAAAAAAAGAAAAAAACA
Found at i:3954233 original size:12 final size:12
Alignment explanation
Indices: 3954213--3954250 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
3954203 AGAAAAAGCG
3954213 AAAAA-AACAGA
1 AAAAACAACAGA
3954224 AAAAACAACAGA
1 AAAAACAACAGA
*
3954236 AAAAGCAA-AGA
1 AAAAACAACAGA
3954247 AAAA
1 AAAA
3954251 GAAGATAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.79, C:0.11, G:0.11, T:0.00
Consensus pattern (12 bp):
AAAAACAACAGA
Found at i:3955975 original size:130 final size:130
Alignment explanation
Indices: 3955724--3956054 Score: 430
Period size: 130 Copynumber: 2.5 Consensus size: 130
3955714 TCTTAAAACC
* ** * * * *
3955724 ATCATCCCTAAAGATGACATGCCACCCTCATCATGTAGGAATCGTGTCATCCCCCGACCAGACCT
1 ATCATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGACCT
* * *
3955789 CCTCATCACGTAGGAGTCGTGTCACCCCTGATAACAAGCCATCCTCATCACATAGGAATTGTGTT
66 CCTCATCACGTAGGAGCCATGTCACCCCTGATAACAAGCCATCCTCATCACATAGGAATAGTGTT
* * * * *
3955854 ATCATCCTTAAAGATGGCCTATCGTCCTCATCACGTAGGAACCCTGTCATCCCCTGACCAGACCT
1 ATCATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGACCT
* * * * * * *
3955919 CCTCATCATGTAGGAGCCATGTCACCCCTGATACCCAA-TCGTTCTCTTCACGTAGGAATAGTGT
66 CCTCATCACGTAGGAGCCATGTCACCCCTGATA-ACAAGCCATCCTCATCACATAGGAATAGTGT
3955983 T
130 T
*
3955984 ATCATCCCTAAAGATGGTATATCATCCTCATCACGTAGGAACCATGTCATCCCCCCGACCAGACC
1 ATCATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCATGTCAT-CCCCCGACCAGACC
3956049 TCCTCA
65 TCCTCA
3956055 CCCCTAGATA
Statistics
Matches: 172, Mismatches: 27, Indels: 3
0.85 0.13 0.01
Matches are distributed among these distances:
130 150 0.87
131 22 0.13
ACGTcount: A:0.26, C:0.33, G:0.16, T:0.25
Consensus pattern (130 bp):
ATCATCCCTAAAGATGGCATATCATCCTCATCACGTAGGAACCATGTCATCCCCCGACCAGACCT
CCTCATCACGTAGGAGCCATGTCACCCCTGATAACAAGCCATCCTCATCACATAGGAATAGTGTT
Found at i:3956398 original size:3 final size:3
Alignment explanation
Indices: 3956385--3956432 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
3956375 TCTACAAAAA
*
3956385 TAT TAT T-T TAT TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
3956431 TA
1 TA
3956433 ATACCTTTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
2 4 0.10
3 37 0.90
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:3957777 original size:30 final size:29
Alignment explanation
Indices: 3957743--3957814 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
3957733 TTATTGTGTG
3957743 GTCCTTTATATTTCTAT-TTTAGCTATTTTA
1 GTCCTTTA-ATTTCTATATTTA-CTATTTTA
* * *
3957773 GTCCTTTAAGTTTTTGTATTTACTATTTTG
1 GTCCTTTAA-TTTCTATATTTACTATTTTA
3957803 GTCCTTTAATTT
1 GTCCTTTAATTT
3957815 TTTGTATTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 4 0.11
30 29 0.78
31 4 0.11
ACGTcount: A:0.18, C:0.12, G:0.10, T:0.60
Consensus pattern (29 bp):
GTCCTTTAATTTCTATATTTACTATTTTA
Found at i:3957817 original size:30 final size:30
Alignment explanation
Indices: 3957760--3957870 Score: 109
Period size: 30 Copynumber: 3.7 Consensus size: 30
3957750 ATATTTCTAT
3957760 TTTAGCTATTTTAGTCCTTTAAGTTTTTGTA
1 TTTA-CTATTTTAGTCCTTTAAGTTTTTGTA
* *
3957791 TTTACTATTTTGGTCCTTTAATTTTTTGTA
1 TTTACTATTTTAGTCCTTTAAGTTTTTGTA
* * * * *
3957821 TTTACT-GTTCAGCCCTTTAAATTTCTGTTA
1 TTTACTATTTTAGTCCTTTAAGTTTTTG-TA
* *
3957851 ATTA-TATTTTAGTCCCTTAA
1 TTTACTATTTTAGTCCTTTAA
3957871 ATGCTTATTT
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
29 16 0.25
30 45 0.69
31 4 0.06
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.56
Consensus pattern (30 bp):
TTTACTATTTTAGTCCTTTAAGTTTTTGTA
Found at i:3960844 original size:18 final size:19
Alignment explanation
Indices: 3960821--3960857 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
3960811 TTATATCACA
*
3960821 TTTTTAACT-TTTCTTTAT
1 TTTTTAACTCTATCTTTAT
3960839 TTTTTAACTCTATCTTTAT
1 TTTTTAACTCTATCTTTAT
3960858 GACATTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTAACTCTATCTTTAT
Found at i:3961293 original size:19 final size:19
Alignment explanation
Indices: 3961271--3961312 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
3961261 ATTATCTTAA
3961271 TTATATGCTTAATTTATGT
1 TTATATGCTTAATTTATGT
3961290 TTATATGCTTAATTTATGT
1 TTATATGCTTAATTTATGT
3961309 TTAT
1 TTAT
3961313 GATTATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.05, G:0.10, T:0.60
Consensus pattern (19 bp):
TTATATGCTTAATTTATGT
Found at i:3973499 original size:25 final size:25
Alignment explanation
Indices: 3973465--3973523 Score: 100
Period size: 25 Copynumber: 2.4 Consensus size: 25
3973455 AAGGGAGAAC
*
3973465 GTGGAGAATATTATATGCGTGGAAG
1 GTGGAGAATATTATATGCCTGGAAG
3973490 GTGGAGAATATTATATGCCTGGAAG
1 GTGGAGAATATTATATGCCTGGAAG
*
3973515 GAGGAGAAT
1 GTGGAGAAT
3973524 GAAGGAAGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (25 bp):
GTGGAGAATATTATATGCCTGGAAG
Found at i:3974598 original size:20 final size:20
Alignment explanation
Indices: 3974554--3974592 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3974544 TACTATGCTG
*
3974554 GAATTTAATGTTAGAGTGTA
1 GAATTTAATGTTAGAATGTA
*
3974574 GAATTTGATGTTAGAATGT
1 GAATTTAATGTTAGAATGT
3974593 GAAATTGAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (20 bp):
GAATTTAATGTTAGAATGTA
Found at i:3977759 original size:17 final size:16
Alignment explanation
Indices: 3977717--3977777 Score: 59
Period size: 17 Copynumber: 3.7 Consensus size: 16
3977707 AAACTAAAGT
*
3977717 ATTTTAAACTAAAATGA
1 ATTTTAAATTAAAAT-A
* *
3977734 AGTTAAAATTAAAATA
1 ATTTTAAATTAAAATA
* *
3977750 ATTTTTAAATTTAAATT
1 A-TTTTAAATTAAAATA
3977767 ATTTTAAATTA
1 ATTTTAAATTA
3977778 TAAAAAAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 11 0.31
17 24 0.69
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (16 bp):
ATTTTAAATTAAAATA
Found at i:3977763 original size:18 final size:18
Alignment explanation
Indices: 3977736--3977787 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
3977726 TAAAATGAAG
*
3977736 TTAAAATTAAAATAATTT
1 TTAAATTTAAAATAATTT
*
3977754 TTAAATTT-AAATTA-TT
1 TTAAATTTAAAATAATTT
*
3977770 TTAAATTATAAAAAAATT
1 TTAAATT-TAAAATAATT
3977788 AATAAAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
16 9 0.33
17 6 0.22
18 11 0.41
19 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAAATTTAAAATAATTT
Found at i:3977989 original size:14 final size:14
Alignment explanation
Indices: 3977972--3978005 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3977962 AAATTTTTAT
3977972 TTAAAATTAAAAAA
1 TTAAAATTAAAAAA
* *
3977986 TTAAAATTATATAA
1 TTAAAATTAAAAAA
3978000 TTAAAA
1 TTAAAA
3978006 AACACAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAAAATTAAAAAA
Found at i:3987508 original size:2 final size:2
Alignment explanation
Indices: 3987501--3987537 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3987491 ATAAAATGAA
*
3987501 AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3987538 CAAGGAAGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:3991363 original size:65 final size:64
Alignment explanation
Indices: 3991161--3991356 Score: 211
Period size: 65 Copynumber: 3.0 Consensus size: 64
3991151 TAAGAGTGTG
* * * *
3991161 TCGATGTATGAAATGCATTCGATGTTTCAA-AATAG-CCAGAGTGCATTGATGCATGGCTTGTGC
1 TCGATGCATAAAATGCATTCGATGTTTCAATAA-AGTCCTGAGTGCATCGATGCATGG-TTGTGC
3991224 A
64 A
* **
3991225 TCGATGCATCAAATGCATTCGATGTTTTTATAAAGTCCTGAGTGCATCGATGCATGGTATGTGCA
1 TCGATGCATAAAATGCATTCGATGTTTCAATAAAGTCCTGAGTGCATCGATGCATGGT-TGTGCA
** * *
3991290 TCGATGCATAAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCTTCGATGCATGGATTGGTG
1 TCGATGCATAAAATGCATTCGATGTTTCAATAAAGTCC-TGAGTGCATCGATGCATGG-TT-GTG
3991353 CA
63 CA
3991355 TC
1 TC
3991357 AGTGCATCAC
Statistics
Matches: 113, Mismatches: 13, Indels: 11
0.82 0.09 0.08
Matches are distributed among these distances:
64 53 0.47
65 60 0.53
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (64 bp):
TCGATGCATAAAATGCATTCGATGTTTCAATAAAGTCCTGAGTGCATCGATGCATGGTTGTGCA
Found at i:3991680 original size:13 final size:13
Alignment explanation
Indices: 3991662--3991694 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
3991652 TAAGATTTTC
3991662 TTTGAAAATAAAT
1 TTTGAAAATAAAT
3991675 TTTGAAAATAAAT
1 TTTGAAAATAAAT
3991688 TTTGAAA
1 TTTGAAA
3991695 TTACTCCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (13 bp):
TTTGAAAATAAAT
Found at i:3995450 original size:32 final size:31
Alignment explanation
Indices: 3995365--3995489 Score: 83
Period size: 31 Copynumber: 4.0 Consensus size: 31
3995355 ACCCTAAGGG
* * *
3995365 AACATCTTAGGGCCTG-AGAGCCTACCCAAGA
1 AACATCTCAGGGCC-GCAGGGCCTACCTAAGA
* * * *
3995396 TAGATTTCGGGGCCGC-GCGGCCTACCTAAGA
1 AACATCTCAGGGCCGCAG-GGCCTACCTAAGA
* * **
3995427 ACACATCTTAGGGCCGTAGGGCCTACCCGAGA
1 A-ACATCTCAGGGCCGCAGGGCCTACCTAAGA
** *
3995459 ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 AACATCTCAGGGCCGCAGGGCCTACCTAAGA
3995490 GTCACATTAG
Statistics
Matches: 68, Mismatches: 22, Indels: 8
0.69 0.22 0.08
Matches are distributed among these distances:
30 2 0.03
31 43 0.63
32 22 0.32
33 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.27, T:0.17
Consensus pattern (31 bp):
AACATCTCAGGGCCGCAGGGCCTACCTAAGA
Found at i:3995472 original size:63 final size:63
Alignment explanation
Indices: 3995366--3995489 Score: 155
Period size: 63 Copynumber: 2.0 Consensus size: 63
3995356 CCCTAAGGGA
* * *
3995366 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATTTCGGGGCCGC-GCGGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAG-AGCCTACCTAAGAAC
* *
3995429 ACATCTTAGGGCC-GTAGGGCCTACCCGAGA-ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGATA-GATCTCAGGGCCGCAGAGCCTACCTAAGA
3995490 GTCACATTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
62 2 0.04
63 50 0.94
64 1 0.02
ACGTcount: A:0.26, C:0.30, G:0.27, T:0.17
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGATAGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:3996371 original size:7 final size:7
Alignment explanation
Indices: 3996359--3996410 Score: 95
Period size: 7 Copynumber: 7.4 Consensus size: 7
3996349 GTCAAAGAAA
3996359 GTCAACG
1 GTCAACG
*
3996366 GTCAACT
1 GTCAACG
3996373 GTCAACG
1 GTCAACG
3996380 GTCAACG
1 GTCAACG
3996387 GTCAACG
1 GTCAACG
3996394 GTCAACG
1 GTCAACG
3996401 GTCAACG
1 GTCAACG
3996408 GTC
1 GTC
3996411 GGGTCGGGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 43 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:3996417 original size:5 final size:5
Alignment explanation
Indices: 3996407--3996464 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
3996397 AACGGTCAAC
* *
3996407 GGTCG GGTCG GGTCG GGTCAAC GGTCG GGTCG GGTCG GGTCAAC GGTCG
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTC--G GGTCG
3996456 GGTCG GGTC
1 GGTCG GGTC
3996465 AGACCGGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.07, C:0.22, G:0.52, T:0.19
Consensus pattern (5 bp):
GGTCG
Found at i:3996428 original size:22 final size:22
Alignment explanation
Indices: 3996400--3996464 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
3996390 AACGGTCAAC
3996400 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
3996422 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
3996444 GGTCAACGGTCGGGTCGGGTC
1 GGTCAACGGTCGGGTCGGGTC
3996465 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:3996484 original size:19 final size:18
Alignment explanation
Indices: 3996461--3996558 Score: 117
Period size: 19 Copynumber: 5.2 Consensus size: 18
3996451 GGTCGGGTCG
3996461 GGTCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACC
3996479 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
3996498 GAGTCAGACCGGTCAAACC
1 G-GTCAGACCGGTCAAACC
*
3996517 GGTTC-GAACCGGTTGAAACC
1 GG-TCAG-ACCGG-TCAAACC
*
3996537 GGTCAAACCGGTCAGAACC
1 GGTCAGACCGGTCA-AACC
3996556 GGT
1 GGT
3996559 TGAAAACCGG
Statistics
Matches: 71, Mismatches: 3, Indels: 11
0.84 0.04 0.13
Matches are distributed among these distances:
18 5 0.07
19 58 0.82
20 8 0.11
ACGTcount: A:0.29, C:0.30, G:0.29, T:0.13
Consensus pattern (18 bp):
GGTCAGACCGGTCAAACC
Found at i:3996504 original size:38 final size:38
Alignment explanation
Indices: 3996461--3996578 Score: 129
Period size: 38 Copynumber: 3.1 Consensus size: 38
3996451 GGTCGGGTCG
3996461 GGTCAGACCGGTCAAACCGAG-TC-AGACCGG-TCAAACC
1 GGTCAGACCGGTCAAACCG-GTTCGA-ACCGGTTCAAACC
*
3996498 GAGTCAGACCGGTCAAACCGGTTCGAACCGGTTGAAACC
1 G-GTCAGACCGGTCAAACCGGTTCGAACCGGTTCAAACC
*
3996537 GGTCAAACCGGTCAGAACCGGTT-GAAAACCGGTT-AAACC
1 GGTCAGACCGGTCA-AACCGGTTCG--AACCGGTTCAAACC
3996576 GGT
1 GGT
3996579 TTCCAGCAGC
Statistics
Matches: 72, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
37 2 0.03
38 38 0.53
39 24 0.33
40 8 0.11
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (38 bp):
GGTCAGACCGGTCAAACCGGTTCGAACCGGTTCAAACC
Found at i:3996557 original size:29 final size:28
Alignment explanation
Indices: 3996461--3996578 Score: 116
Period size: 29 Copynumber: 4.1 Consensus size: 28
3996451 GGTCGGGTCG
*
3996461 GGTCAG-ACCGGTCAAACCGAGTCAGACC
1 GGTCAGAACCGGTCAAACCG-GTCAAACC
*
3996489 GGTCA-AACCGAGTCAGACCGGTCAAACC
1 GGTCAGAACCG-GTCAAACCGGTCAAACC
*
3996517 GGTTC-GAACCGGTTGAAACCGGTCAAACC
1 GG-TCAGAACCGG-TCAAACCGGTCAAACC
* *
3996546 GGTCAGAACCGGTTGAAAACCGGTTAAACC
1 GGTCAGAACCGG-T-CAAACCGGTCAAACC
3996576 GGT
1 GGT
3996579 TTCCAGCAGC
Statistics
Matches: 77, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
28 21 0.27
29 40 0.52
30 16 0.21
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (28 bp):
GGTCAGAACCGGTCAAACCGGTCAAACC
Found at i:3996579 original size:9 final size:9
Alignment explanation
Indices: 3996461--3996578 Score: 110
Period size: 9 Copynumber: 12.3 Consensus size: 9
3996451 GGTCGGGTCG
*
3996461 GGTCAGACC
1 GGTCAAACC
3996470 GGTCAAACC
1 GGTCAAACC
*
3996479 GAGTCAGACC
1 G-GTCAAACC
3996489 GGTCAAACC
1 GGTCAAACC
*
3996498 GAGTCAGACC
1 G-GTCAAACC
3996508 GGTCAAACC
1 GGTCAAACC
*
3996517 GGTTCGAACC
1 GG-TCAAACC
*
3996527 GGTTGAAACC
1 GG-TCAAACC
3996537 GGTCAAACC
1 GGTCAAACC
3996546 GGTCAGAACC
1 GGTCA-AACC
*
3996556 GGTTGAAAACC
1 GG-T-CAAACC
*
3996567 GGTTAAACC
1 GGTCAAACC
3996576 GGT
1 GGT
3996579 TTCCAGCAGC
Statistics
Matches: 92, Mismatches: 11, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
9 45 0.49
10 39 0.42
11 7 0.08
12 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4002815 original size:32 final size:31
Alignment explanation
Indices: 4002730--4002852 Score: 90
Period size: 31 Copynumber: 4.0 Consensus size: 31
4002720 ACCCTAAGGG
* *
4002730 AACATCTTAGGGCCTG-AGAGCCTACCCAAGA
1 AACATCTCAGGGCC-GCAGAGCCTACCTAAGA
* * * *
4002761 TAGAT-TCGGGGCCGC-GCGCCTACCTAAGA
1 AACATCTCAGGGCCGCAGAGCCTACCTAAGA
* * * **
4002790 ACACATCTTAGGGCCGTAGGGCCTACCCGAGA
1 A-ACATCTCAGGGCCGCAGAGCCTACCTAAGA
**
4002822 ATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 AACATCTCAGGGCCGCAGAGCCTACCTAAGA
4002853 GTCACATTAG
Statistics
Matches: 67, Mismatches: 21, Indels: 8
0.70 0.22 0.08
Matches are distributed among these distances:
29 13 0.19
30 9 0.13
31 33 0.49
32 12 0.18
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (31 bp):
AACATCTCAGGGCCGCAGAGCCTACCTAAGA
Found at i:4002817 original size:61 final size:63
Alignment explanation
Indices: 4002731--4002852 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 63
4002721 CCCTAAGGGA
* *
4002731 ACATCTTAGGGCCTGAGAGCCTACCCAAG-ATAGAT-TCGGGGCCGC-GCGCCTACCTAAGAAC
1 ACATCTTAGGGCCTGAGAGCCTACCCAAGAAT-GATCTCAGGGCCGCAGAGCCTACCTAAGAAC
* *
4002792 ACATCTTAGGGCC-GTAGGGCCTACCCGAGAATGATCTCAGGGCCGCAGAGCCTACCTAAGA
1 ACATCTTAGGGCCTG-AGAGCCTACCCAAGAATGATCTCAGGGCCGCAGAGCCTACCTAAGA
4002853 GTCACATTAG
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
60 1 0.02
61 28 0.53
62 11 0.21
63 13 0.25
ACGTcount: A:0.26, C:0.30, G:0.27, T:0.16
Consensus pattern (63 bp):
ACATCTTAGGGCCTGAGAGCCTACCCAAGAATGATCTCAGGGCCGCAGAGCCTACCTAAGAAC
Found at i:4003725 original size:7 final size:7
Alignment explanation
Indices: 4003713--4003756 Score: 72
Period size: 7 Copynumber: 6.4 Consensus size: 7
4003703 GTCAAAGAAA
4003713 GTCAACG
1 GTCAACG
*
4003720 GTCAACT
1 GTCAACG
4003727 GTCAACG
1 GTCAACG
4003734 GTCAACG
1 GTCAACG
4003741 GTC-ACG
1 GTCAACG
4003747 GTCAACG
1 GTCAACG
4003754 GTC
1 GTC
4003757 GGTCGTCGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.25, C:0.30, G:0.27, T:0.18
Consensus pattern (7 bp):
GTCAACG
Found at i:4003823 original size:19 final size:19
Alignment explanation
Indices: 4003801--4003856 Score: 112
Period size: 19 Copynumber: 2.9 Consensus size: 19
4003791 GTCGGGTCGG
4003801 GTCAGACCGGTCAAACCGA
1 GTCAGACCGGTCAAACCGA
4003820 GTCAGACCGGTCAAACCGA
1 GTCAGACCGGTCAAACCGA
4003839 GTCAGACCGGTCAAACCG
1 GTCAGACCGGTCAAACCG
4003857 GTTCGAACCG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 37 1.00
ACGTcount: A:0.30, C:0.32, G:0.27, T:0.11
Consensus pattern (19 bp):
GTCAGACCGGTCAAACCGA
Found at i:4003867 original size:38 final size:36
Alignment explanation
Indices: 4003800--4003915 Score: 119
Period size: 38 Copynumber: 3.1 Consensus size: 36
4003790 GGTCGGGTCG
4003800 GGTCAGACCGGTCAAACCGAG-TCAGACCGGTCAAACC
1 GGTCAGACCGGTCAAACCG-GTTCA-ACCGGTCAAACC
*
4003837 GAGTCAGACCGGTCAAACCGGTTCGAACCGGTTGAAACC
1 G-GTCAGACCGGTCAAACCGGTTC-AACCGG-TCAAACC
* * *
4003876 GGTCAAACCGGTCAGAA-CGGTTAAAACCGGTTAAACC
1 GGTCAGACCGGTCA-AACCGGTT-CAACCGGTCAAACC
4003913 GGT
1 GGT
4003916 TTCCAGCACC
Statistics
Matches: 69, Mismatches: 4, Indels: 12
0.81 0.05 0.14
Matches are distributed among these distances:
37 11 0.16
38 48 0.70
39 10 0.14
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (36 bp):
GGTCAGACCGGTCAAACCGGTTCAACCGGTCAAACC
Found at i:4003915 original size:19 final size:19
Alignment explanation
Indices: 4003806--4003916 Score: 104
Period size: 19 Copynumber: 5.8 Consensus size: 19
4003796 GTCGGGTCAG
*
4003806 ACCGGTCAAACCGAG-TCAG
1 ACCGGTCAAACCG-GTTCAA
*
4003825 ACCGGTCAAACCGAG-TCAG
1 ACCGGTCAAACCG-GTTCAA
*
4003844 ACCGGTCAAACCGGTTCGA
1 ACCGGTCAAACCGGTTCAA
*
4003863 ACCGGTTGAAACCGG-TCAA
1 ACCGG-TCAAACCGGTTCAA
*
4003882 ACCGGTCAGAA-CGGTTAAA
1 ACCGGTCA-AACCGGTTCAA
*
4003901 ACCGGTTAAACCGGTT
1 ACCGGTCAAACCGGTT
4003917 TCCAGCACCT
Statistics
Matches: 80, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
18 8 0.10
19 64 0.80
20 8 0.10
ACGTcount: A:0.31, C:0.28, G:0.26, T:0.15
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCAA
Found at i:4003916 original size:9 final size:9
Alignment explanation
Indices: 4003800--4003915 Score: 108
Period size: 9 Copynumber: 12.3 Consensus size: 9
4003790 GGTCGGGTCG
*
4003800 GGTCAGACC
1 GGTCAAACC
4003809 GGTCAAACC
1 GGTCAAACC
*
4003818 GAGTCAGACC
1 G-GTCAAACC
4003828 GGTCAAACC
1 GGTCAAACC
*
4003837 GAGTCAGACC
1 G-GTCAAACC
4003847 GGTCAAACC
1 GGTCAAACC
*
4003856 GGTTCGAACC
1 GG-TCAAACC
*
4003866 GGTTGAAACC
1 GG-TCAAACC
4003876 GGTCAAACC
1 GGTCAAACC
4003885 GGTCAGAA-C
1 GGTCA-AACC
*
4003894 GGTTAAAACC
1 GG-TCAAACC
*
4003904 GGTTAAACC
1 GGTCAAACC
4003913 GGT
1 GGT
4003916 TTCCAGCACC
Statistics
Matches: 90, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
9 51 0.57
10 39 0.43
ACGTcount: A:0.30, C:0.28, G:0.28, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:4009491 original size:65 final size:65
Alignment explanation
Indices: 4009359--4009518 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 65
4009349 CGCACTAAGA
*
4009359 GTGCATCGATGA-ATGAAATGCATTCGATG-TTTCAAAATATCAAGAGTGCATCGATGCATGGCT
1 GTGCATCGAT-ACATAAAATGCATTCGATGTTTTCAAAATATCAAGAGTGCATCGATGCATGGCT
4009422 T
65 T
* **
4009423 GTGCATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTGAGTGCATCGATGCATGG-T
1 GTGCATCGATACATAAAATGCATTCGATGTTTTCA-AAATATCAAGAGTGCATCGATGCATGGCT
4009486 AT
65 -T
*
4009488 GTGCATCGATGCATAAAATGCATTCGATGTT
1 GTGCATCGATACATAAAATGCATTCGATGTT
4009519 CAATTTATTC
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
63 1 0.01
64 27 0.31
65 56 0.64
66 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (65 bp):
GTGCATCGATACATAAAATGCATTCGATGTTTTCAAAATATCAAGAGTGCATCGATGCATGGCTT
Found at i:4009557 original size:65 final size:64
Alignment explanation
Indices: 4009359--4009566 Score: 219
Period size: 65 Copynumber: 3.2 Consensus size: 64
4009349 CGCACTAAGA
* * * *
4009359 GTGCATCGATGAATGAAATGCATTCGATGTTTCAAAATAT-CAAGAGTGCATCGATGCATGGCTT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATATATCCATGAGTGCATCGATGCATGG-TT
* * *
4009423 GTGCATCGATACATCAAATGCATTCGATGTTTTC-ATAAAATCC-TGAGTGCATCGATGCATGGT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-ATATCCATGAGTGCATCGATGCATGGT
4009486 AT
64 -T
* * *
4009488 GTGCATCGATGCATAAAATGCATTCGATG-TTCAATTTATTCCATG-GTGAATTGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAATATA-TCCATGAGTGCATCGATGCATGG-T
4009551 T
64 T
*
4009552 GGTGCATCGGTGCAT
1 -GTGCATCGATGCAT
4009567 CACTTTGAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
63 4 0.03
64 48 0.39
65 69 0.57
66 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATATATCCATGAGTGCATCGATGCATGGTT
Found at i:4011729 original size:19 final size:20
Alignment explanation
Indices: 4011692--4011729 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
4011682 TTTTGCATGA
*
4011692 TTTGATGATAAAATTAGGAC
1 TTTGATGATAAAATGAGGAC
*
4011712 TTTGA-GATGAAATGAGGA
1 TTTGATGATAAAATGAGGA
4011730 TGAATTCTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (20 bp):
TTTGATGATAAAATGAGGAC
Found at i:4011917 original size:23 final size:22
Alignment explanation
Indices: 4011887--4011965 Score: 70
Period size: 23 Copynumber: 3.5 Consensus size: 22
4011877 GCATGGCAGT
4011887 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * **
4011909 CGTGCATCGGTGCACTTTC-CTG
1 -GTGCATCGATGCACATTCAAGG
* *
4011931 GTGTATTGATGCACATTCAAAGG
1 GTGCATCGATGCACATTC-AAGG
4011954 GATGCATCGATG
1 G-TGCATCGATG
4011966 GACTGTTAAG
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
21 14 0.34
22 1 0.02
23 18 0.44
24 8 0.20
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.28
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:4015829 original size:22 final size:21
Alignment explanation
Indices: 4015787--4015826 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4015777 GAGCTTATTT
*
4015787 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
4015808 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
4015827 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:4017799 original size:64 final size:64
Alignment explanation
Indices: 4017711--4017833 Score: 178
Period size: 65 Copynumber: 1.9 Consensus size: 64
4017701 TGCACTAAGA
* *
4017711 GTGCACGATGCATGAAATGGATTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGCTT
1 GTGCACGATGCATCAAATGCATTCGATGTTTTCATAAA-AGCCAGAGTGCATCGATGCATGGCTT
* *
4017774 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTGAGTGCATCGATGCAT
1 GTGCA-CGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCAGAGTGCATCGATGCAT
4017834 AAAATGCATT
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
63 5 0.09
64 21 0.40
65 24 0.45
66 3 0.06
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (64 bp):
GTGCACGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCAGAGTGCATCGATGCATGGCTT
Found at i:4017847 original size:64 final size:62
Alignment explanation
Indices: 4017691--4017848 Score: 158
Period size: 64 Copynumber: 2.5 Consensus size: 62
4017681 ACCGTTGATT
* * *
4017691 AGTGCATCGGTGCACTAAGAGTGCA-CGATGCATGAAATGGATTCGATGTTTCAAAATAGCCAG
1 AGTGCATCGATGCA-TAA-AGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAG
*** * *
4017754 AGTGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ATCCT
1 AGTGCATCGATGCAT--AAAGTGCATCGATGCATCAAATGCATTCGATG-TTTCA-AAATAGCCA
4017818 G
62 G
*
4017819 AGTGCATCGATGCATAAAATGCATTCGATG
1 AGTGCATCGATGCATAAAGTGCA-TCGATG
4017849 TTCAATTTAT
Statistics
Matches: 77, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
62 1 0.01
63 22 0.29
64 27 0.35
65 24 0.31
66 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (62 bp):
AGTGCATCGATGCATAAAGTGCATCGATGCATCAAATGCATTCGATGTTTCAAAATAGCCAG
Found at i:4022150 original size:27 final size:27
Alignment explanation
Indices: 4022120--4022205 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
4022110 GTTTAAGCAC
4022120 TATGTGTGCAACCCACGTAATTCATCA
1 TATGTGTGCAACCCACGTAATTCATCA
* *
4022147 TATGTTGATG-AA-CAACCGT--TT-AGGCA
1 TATG-TG-TGCAACCCA-CGTAATTCA-TCA
*
4022173 TTATGTGTGCAACCCATGTAATTCATCA
1 -TATGTGTGCAACCCACGTAATTCATCA
4022201 TATGT
1 TATGT
4022206 TGATGAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 20
0.64 0.07 0.29
Matches are distributed among these distances:
25 3 0.07
26 10 0.23
27 17 0.39
28 11 0.25
29 3 0.07
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (27 bp):
TATGTGTGCAACCCACGTAATTCATCA
Found at i:4022428 original size:54 final size:54
Alignment explanation
Indices: 4021573--4022414 Score: 1131
Period size: 54 Copynumber: 15.6 Consensus size: 54
4021563 ATGTGTATTA
*
4021573 TAGGCACTATGTGTGCAACCAACGAAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
4021627 TAGGCACTATGTGTGCAACCCAC-AGAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCGTT
*
4021681 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATATTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
*
4021735 TAGGCACTATGTGTGCAATCCAC-AGAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCGTT
* *
4021789 TAGGCACTATGTGTGCAACCCATGGAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
**
4021843 TAGGCACTATGTGTGCAACCCATAAAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * *
4021897 TAGGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * *
4021951 TAGGCACTATGTGTGCAACCCAC-AGAATACA-CTATATGTTGATGAACAAACGCT
1 TAGGCACTATGTGTGCAACCCACGA-AATTCATC-ATATGTTGATGAACAACCGTT
*
4022005 TAGGCACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * * * * *
4022059 TAGACACTACGTGTGTAATCCAC-AGAATTTATCATATGTTGATGAGCAACCGTT
1 TAGGCACTATGTGTGCAACCCACGA-AATTCATCATATGTTGATGAACAACCGTT
* *
4022113 TAAGCACTATGTGTGCAACCCACGTAATTCATCATATGTTGATGAACAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * * *
4022167 TAGGCATTATGTGTGCAACCCATGTAATTCATCATATGTTGATGAAGAACCGTT
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * * * * *
4022221 TAGGCACTATGTGTGCAATCCACGGAATTCATCATATGTTAATGAACGATCGTA
1 TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * * * ** * *
4022275 TAGGCACTAAT-TGTGCAACCCACGTAATTCATAATGTGTTTATGAATGATCGTA
1 TAGGCACT-ATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
* * * * * *
4022329 TAGGCACTAAGTGTGCAACCCACTG-AATTCATAATGTGTTTATGAACGACCGTA
1 TAGGCACTATGTGTGCAACCCAC-GAAATTCATCATATGTTGATGAACAACCGTT
* * *
4022383 TCGGCACTAAGTGTACAACCCACGAAATTCAT
1 TAGGCACTATGTGTGCAACCCACGAAATTCAT
4022415 AATAAGATTA
Statistics
Matches: 713, Mismatches: 61, Indels: 28
0.89 0.08 0.03
Matches are distributed among these distances:
53 5 0.01
54 703 0.99
55 5 0.01
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TAGGCACTATGTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTT
Found at i:4030093 original size:32 final size:32
Alignment explanation
Indices: 4030057--4030123 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
4030047 TGCTATACAT
* *
4030057 TATCTGAATGTAATATTAAATCTACTATGCAC
1 TATCTGAATGCAATACTAAATCTACTATGCAC
* * *
4030089 TATCTGAATGCAATACTGAATCTTCTATTCAC
1 TATCTGAATGCAATACTAAATCTACTATGCAC
4030121 TAT
1 TAT
4030124 AATATCCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.39
Consensus pattern (32 bp):
TATCTGAATGCAATACTAAATCTACTATGCAC
Found at i:4034722 original size:14 final size:14
Alignment explanation
Indices: 4034685--4034731 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
4034675 AGGAATATGG
4034685 GAGAAGGAAAATG-A
1 GAGAA-GAAAATGAA
4034699 GAATGAAGAAAATGAA
1 G-A-GAAGAAAATGAA
4034715 GAGAAGAAAATGGAA
1 GAGAAGAAAAT-GAA
4034730 GA
1 GA
4034732 AGGCATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.34
15 14 0.48
16 5 0.17
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.09
Consensus pattern (14 bp):
GAGAAGAAAATGAA
Found at i:4036729 original size:21 final size:19
Alignment explanation
Indices: 4036701--4036746 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 19
4036691 TCATTGAATC
4036701 ATTA-TTCTTAGCTCCTTAAT
1 ATTAGTTCTTAGCT--TTAAT
4036721 ATTAGTTCTTAGCTTTAAT
1 ATTAGTTCTTAGCTTTAAT
4036740 ACTTAGT
1 A-TTAGT
4036747 AGGATTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 9 0.38
21 9 0.38
ACGTcount: A:0.26, C:0.15, G:0.09, T:0.50
Consensus pattern (19 bp):
ATTAGTTCTTAGCTTTAAT
Found at i:4047547 original size:19 final size:19
Alignment explanation
Indices: 4047514--4047566 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
4047504 GTTAGATTAG
4047514 GTCGGGTT-GGGCAGGCGA
1 GTCGGGTTCGGGCAGGCGA
* *
4047532 GTCGGGTTCAGGCAGGCGG
1 GTCGGGTTCGGGCAGGCGA
*
4047551 GTCAGGTTCGGGCAGG
1 GTCGGGTTCGGGCAGG
4047567 ATCTAGAAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 8 0.27
19 22 0.73
ACGTcount: A:0.11, C:0.19, G:0.53, T:0.17
Consensus pattern (19 bp):
GTCGGGTTCGGGCAGGCGA
Found at i:4054430 original size:20 final size:21
Alignment explanation
Indices: 4054364--4054433 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
4054354 TGCAAAAATG
* *
4054364 GTATCAATACCATAGCAT--A
1 GTATCGATACCATAGTATGGA
4054383 GTATC-AGTACCATAGTATGGTA
1 GTATCGA-TACCATAGTATGG-A
*
4054405 GTATCGATACCATGGTATGG-
1 GTATCGATACCATAGTATGGA
4054425 GTATCGATA
1 GTATCGATA
4054434 GCGAGGAGCC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.02
19 15 0.34
20 9 0.20
22 18 0.41
23 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (21 bp):
GTATCGATACCATAGTATGGA
Found at i:4054912 original size:108 final size:108
Alignment explanation
Indices: 4054756--4055125 Score: 384
Period size: 108 Copynumber: 3.4 Consensus size: 108
4054746 GATTACCAAA
* * * * * * *
4054756 TAGGCACTAAGTGTGCATTTCA-TGAAATTCATCTTATGTGGATAAATAATCATTTCGGTACTAA
1 TAGGCACTAAGTGTGCATTTCACAG-AATTCATCATATGTAGATGAATAACCGTTTCGGCACTAA
*
4054820 GTGTGCATTTCACTG-AATTCATCATATGTGGATGAATAATCGTT
65 GTGTGCATTTCAC-GAAATTCATCATATGTGGATGAATAACCGTT
* * *
4054864 TCGGCACTAAGTGTGCATTTCACAGAATTCATCCTCTGTAGATGAATAACCGTTTCGGCACTAAG
1 TAGGCACTAAGTGTGCATTTCACAGAATTCATCATATGTAGATGAATAACCGTTTCGGCACTAAG
*
4054929 TGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTT
66 TGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTT
* * *** * * * * *
4054972 TAGACACTAAGTGTACAACCCGCAAAATTCATCATATGTTGATGAACAACCGTTTCGACACTAAG
1 TAGGCACTAAGTGTGCATTTCACAGAATTCATCATATGTAGATGAATAACCGTTTCGGCACTAAG
** * * *
4055037 TGTGCAACTCACGAAATTCAACATATGTTGATGAATAACCGTA
66 TGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTT
* * * ** * * * *
4055080 CATGCACTATGTGTGCAACTCACGGAATTCATTATAGGTTGATGAA
1 TAGGCACTAAGTGTGCATTTCACAGAATTCATCATATGTAGATGAA
4055126 CGATCGTATA
Statistics
Matches: 219, Mismatches: 41, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
107 1 0.00
108 217 0.99
109 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (108 bp):
TAGGCACTAAGTGTGCATTTCACAGAATTCATCATATGTAGATGAATAACCGTTTCGGCACTAAG
TGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTT
Found at i:4055028 original size:162 final size:162
Alignment explanation
Indices: 4054758--4055078 Score: 401
Period size: 162 Copynumber: 2.0 Consensus size: 162
4054748 TTACCAAATA
* * * * **
4054758 GGCACTAAGTGTGCATTTCATGAAATTCATCTTATGTGGATAAATAATCATTTCGGTACTAAGTG
1 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATAAATAACCATTTAGACACTAAGTG
* *** ** * * * **
4054823 TGCATTTCACTGAATTCATCATATGTGGATGAATAATCGTTTCGGCACTAAGTGTGCATTTCAC-
66 TACAACCCACAAAATTCATCATATGTGGATGAACAACCGTTTCGACACTAAGTGTGCAACTCACG
* * *
4054887 AGAATTCATCCTCTGTAGATGAATAACCGTTTC
131 A-AATTCAACATATGTAGATGAATAACCGTTTC
* *
4054920 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTAGACACTAAGTG
1 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATAAATAACCATTTAGACACTAAGTG
* *
4054985 TACAACCCGCAAAATTCATCATATGTTGATGAACAACCGTTTCGACACTAAGTGTGCAACTCACG
66 TACAACCCACAAAATTCATCATATGTGGATGAACAACCGTTTCGACACTAAGTGTGCAACTCACG
*
4055050 AAATTCAACATATGTTGATGAATAACCGT
131 AAATTCAACATATGTAGATGAATAACCGT
4055079 ACATGCACTA
Statistics
Matches: 133, Mismatches: 25, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
162 132 0.99
163 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.31
Consensus pattern (162 bp):
GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATAAATAACCATTTAGACACTAAGTG
TACAACCCACAAAATTCATCATATGTGGATGAACAACCGTTTCGACACTAAGTGTGCAACTCACG
AAATTCAACATATGTAGATGAATAACCGTTTC
Found at i:4055077 original size:54 final size:54
Alignment explanation
Indices: 4054760--4055078 Score: 363
Period size: 54 Copynumber: 5.9 Consensus size: 54
4054750 ACCAAATAGG
* * * * * *
4054760 CACTAAGTGTGCATTTCATGAAATTCATCTTATGTGGATAAATAATCATTTCGG
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTCGA
* * *
4054814 TACTAAGTGTGCATTTCACTG-AATTCATCATATGTGGATGAATAATCGTTTCGG
1 CACTAAGTGTGCATTTCAC-GAAATTCATCATATGTGGATGAATAACCGTTTCGA
* * * *
4054868 CACTAAGTGTGCATTTCAC-AGAATTCATCCTCTGTAGATGAATAACCGTTTCGG
1 CACTAAGTGTGCATTTCACGA-AATTCATCATATGTGGATGAATAACCGTTTCGA
* *
4054922 CACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTAGA
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTCGA
* *** * * * *
4054976 CACTAAGTGTACAACCCGCAAAATTCATCATATGTTGATGAACAACCGTTTCGA
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTCGA
** * *
4055030 CACTAAGTGTGCAACTCACGAAATTCAACATATGTTGATGAATAACCGT
1 CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGT
4055079 ACATGCACTA
Statistics
Matches: 231, Mismatches: 30, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
54 229 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (54 bp):
CACTAAGTGTGCATTTCACGAAATTCATCATATGTGGATGAATAACCGTTTCGA
Found at i:4055088 original size:54 final size:53
Alignment explanation
Indices: 4054758--4055125 Score: 317
Period size: 54 Copynumber: 6.8 Consensus size: 53
4054748 TTACCAAATA
** * * * * **
4054758 GGCACTAAGTGTGCATTTCATGAAATTCATCTTATGTGGATAAATAATCATTTC
1 GGCACTAAGTGTGCAACTCACGAAATTCATCATATGTTGATGAATAA-CCGTTC
* ** * *
4054812 GGTACTAAGTGTGCATTTCACTG-AATTCATCATATGTGGATGAATAATCGTTTC
1 GGCACTAAGTGTGCAACTCAC-GAAATTCATCATATGTTGATGAATAACCG-TTC
** * * *
4054866 GGCACTAAGTGTGCATTTCAC-AGAATTCATCCTCTGTAGATGAATAACCGTTTC
1 GGCACTAAGTGTGCAACTCACGA-AATTCATCATATGTTGATGAATAACCG-TTC
** * * *
4054920 GGCACTAAGTGTGCATTTCACGAAATTCATCCTATGTGGATGAATAACCGTTTA
1 GGCACTAAGTGTGCAACTCACGAAATTCATCATATGTTGATGAATAACCG-TTC
* * * * * *
4054974 GACACTAAGTGTACAACCCGCAAAATTCATCATATGTTGATGAACAACCGTTTC
1 GGCACTAAGTGTGCAACTCACGAAATTCATCATATGTTGATGAATAACCG-TTC
* * *
4055028 GACACTAAGTGTGCAACTCACGAAATTCAACATATGTTGATGAATAACCGTAC
1 GGCACTAAGTGTGCAACTCACGAAATTCATCATATGTTGATGAATAACCGTTC
* * * * *
4055081 ATGCACTATGTGTGCAACTCACGGAATTCATTATAGGTTGATGAA
1 -GGCACTAAGTGTGCAACTCACGAAATTCATCATATGTTGATGAA
4055126 CGATCGTATA
Statistics
Matches: 268, Mismatches: 40, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
53 2 0.01
54 264 0.99
55 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (53 bp):
GGCACTAAGTGTGCAACTCACGAAATTCATCATATGTTGATGAATAACCGTTC
Found at i:4056352 original size:19 final size:19
Alignment explanation
Indices: 4056313--4056365 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
4056303 CATGATGGAC
4056313 CGGGTCGGGTT-GGGT---
1 CGGGTCGGGTTCGGGTAGG
4056328 CGGGTCGGGTTCGGGTAGG
1 CGGGTCGGGTTCGGGTAGG
*
4056347 CGGGTCGGGTTCAGGTAGG
1 CGGGTCGGGTTCGGGTAGG
4056366 ATCTAGAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
15 11 0.33
16 4 0.12
19 18 0.55
ACGTcount: A:0.06, C:0.15, G:0.57, T:0.23
Consensus pattern (19 bp):
CGGGTCGGGTTCGGGTAGG
Found at i:4057403 original size:61 final size:59
Alignment explanation
Indices: 4057293--4057422 Score: 138
Period size: 61 Copynumber: 2.2 Consensus size: 59
4057283 ATTGAGTGAT
* * *
4057293 CATTTTATAACTTTTAATAATTAGAGGACTCAACAAAATAATGCTATATAATCATAATGAC
1 CATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAATAATGCTATATAATC-T-AGGAC
* * * *
4057354 CATTTTGTAACTTTTAATAGTCAGATGACTTAGCAAAAT-AT-CATCATATAATCTAGGAC
1 CATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAATAATGC-T-ATATAATCTAGGAC
4057413 CATTTGTGTA
1 CATTT-TGTA
4057423 GCTTACCCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
59 10 0.17
60 8 0.14
61 41 0.69
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (59 bp):
CATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAATAATGCTATATAATCTAGGAC
Found at i:4070996 original size:103 final size:101
Alignment explanation
Indices: 4070783--4070978 Score: 232
Period size: 103 Copynumber: 1.9 Consensus size: 101
4070773 AAAGGGTCAG
**
4070783 TATCGATATTGAGGTATTTTTGGAAACATCAAAGCTAAATTTGGTATCGATACTCACAGGAGTAT
1 TATCGATATCAAGGTATTTTTGGAAACATCAAAGCTAAATTTGGTATCGATACTCACAGGAGTAT
** * * * * *
4070848 CGATACCTTGGGTAGAGTATCGATACTCACCATAGGGG
66 CGATACCAAGGGGAGAATATCAATACTCACCACA--GA
* **
4070886 TATCGATATCAAGGTATTTTTTGAAACATCAAAGCTAAATTTGGTATCGATACTC-GGGTGAGTA
1 TATCGATATCAAGGTATTTTTGGAAACATCAAAGCTAAATTTGGTATCGATACTCACAG-GAGTA
*
4070950 TCGATACCCAAGGGGATAATATCAATACT
65 TCGATA-CCAAGGGGAGAATATCAATACT
4070979 GATGGCACAA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
102 1 0.01
103 63 0.79
104 16 0.20
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (101 bp):
TATCGATATCAAGGTATTTTTGGAAACATCAAAGCTAAATTTGGTATCGATACTCACAGGAGTAT
CGATACCAAGGGGAGAATATCAATACTCACCACAGA
Found at i:4071139 original size:25 final size:25
Alignment explanation
Indices: 4071105--4071154 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
4071095 AATAAACAAG
4071105 TTAACTAAATTCTCACCTAGAAATC
1 TTAACTAAATTCTCACCTAGAAATC
*
4071130 TTAACTAAATTCTCACCTATAAATC
1 TTAACTAAATTCTCACCTAGAAATC
4071155 AAATAAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (25 bp):
TTAACTAAATTCTCACCTAGAAATC
Found at i:4072199 original size:22 final size:23
Alignment explanation
Indices: 4072172--4072216 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
4072162 ACCGGAAGGG
*
4072172 GTATCGGTACCATAGT-AGGGTA
1 GTATCGATACCATAGTAAGGGTA
*
4072194 GTATCGATACCATGGTAAGGGTA
1 GTATCGATACCATAGTAAGGGTA
4072217 TCAATACAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (23 bp):
GTATCGATACCATAGTAAGGGTA
Found at i:4072747 original size:59 final size:59
Alignment explanation
Indices: 4072639--4072811 Score: 212
Period size: 58 Copynumber: 3.0 Consensus size: 59
4072629 ATTACCAAAT
* * * *
4072639 GGCACTTCGTGTGCAAAATGTTAAGAAATTCATACTCAGTGTATAAATTTCCT-TATAG
1 GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCTGTATAG
* *
4072697 GGCACTTCGTGTGCTAACATGATAA-AAATTTCATACTAAGTGTATGAATTT-ATGTATGG
1 GGCACTTCGTGTGCTAA-ATGATAAGAAA-TTCATACTAAGTGTATGAATTTCCTGTATAG
* *
4072756 GGCACCTT-GTGTGCTAAAGGATAAGACATTCATACTAAGTGTATGAATTTCC-GTAT
1 GGCA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCTGTAT
4072812 GGGAAATATA
Statistics
Matches: 100, Mismatches: 9, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
58 52 0.52
59 45 0.45
60 3 0.03
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (59 bp):
GGCACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCTGTATAG
Found at i:4073516 original size:68 final size:68
Alignment explanation
Indices: 4073181--4073507 Score: 415
Period size: 68 Copynumber: 4.8 Consensus size: 68
4073171 AAAATATCAA
* * * *
4073181 GAGGCCTAATTGTGCATATATGACAAAAAGGTGTCATTTTTACCAGTTAGATGAAAGACTAAGTG
1 GAGGCCTAACTGTGC--ATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTG
4073246 TCTTT
64 TCTTT
* * * *
4073251 GAGGCCTAACTGTGCATATGACAGAAAGGTTTCATTTATGTCAGCTAGATGAAATACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
4073316 TTT
66 TTT
* * * *
4073319 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAGTTAGATAAAAGACTAAGCGTG
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
4073384 TTT
66 TTT
* * * *
4073387 AAGGCCTGACTGTGCATATGACAGAAAGGTGTCATTTATACCAGTTAGATGAAAGGA-TAAGTGC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAA-GACTAAGTGT
4073451 CTTT
65 CTTT
* * * * *
4073455 GAGGCCTAGCTGTACA-ATTAGTAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GAGGCCTAACTGTGCATATGA-CAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4073508 CGGTTAAGTA
Statistics
Matches: 223, Mismatches: 32, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
67 3 0.01
68 204 0.91
69 2 0.01
70 14 0.06
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:4073592 original size:81 final size:81
Alignment explanation
Indices: 4073457--4073836 Score: 505
Period size: 81 Copynumber: 4.7 Consensus size: 81
4073447 GTGCCTTTGA
* * *
4073457 GGCCTAGCTGTACAATTAGTAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAGCTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCAT
4073522 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* * * *
4073538 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCAATTATTCCAGTTAGTTGAACGGTTAAGTA-CAG
1 GGCCTAGCTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCA-
4073602 TTGAGTAAAAGAAAAAT
65 TTGAGTAAAAGAAAAAT
* *
4073619 GGCCTAGCTGTGCAATTTGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCAT
1 GGCCTAGCTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCAT
* *
4073684 CGAGTAAACGAAAAAT
66 TGAGTAAAAGAAAAAT
* * * *
4073700 GGCCTAGCTGTACAATTGGCAGAAACGTGTCAATTATGCCAGTTAAATGAACGATTAAGTATCGT
1 GGCCTAGCTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCAT
*
4073765 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAAAAAT
** * * * * * * *
4073781 GGATTAACTGTGC-GTTGACATAAATGTGTCAATTATGCTAGTTAGATGAAC-GTTAA
1 GGCCTAGCTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
4073837 ACACTGTTGA
Statistics
Matches: 265, Mismatches: 32, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
79 4 0.02
80 34 0.13
81 225 0.85
82 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (81 bp):
GGCCTAGCTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTATCAT
TGAGTAAAAGAAAAAT
Found at i:4073899 original size:2 final size:2
Alignment explanation
Indices: 4073892--4073921 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4073882 TGAAGGGATA
4073892 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4073922 CGTACAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4077834 original size:94 final size:95
Alignment explanation
Indices: 4077726--4077913 Score: 252
Period size: 94 Copynumber: 2.0 Consensus size: 95
4077716 ATACTGAAGA
** * *
4077726 GGTAGTATTGATACCATGGTAAGGGTATCGATACCAAAAAACATCAAATCTAATTTTGGTATCGA
1 GGTAGTATCAATACCATGGTAAGGGTATCGATACCAAAAAACATCAAACCCAATTTTGGTATCGA
* * *
4077791 TATCGGAATG-GGTATCGATACCATAGTAG
66 TACCCGAAGGAGGTATCGATACCATAGTAG
** * *
4077820 GGTAGTATCAATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCCATTTTTGGTATCGA
1 GGTAGTATCAATACCATGGTAAGGGTATCGATACCAAAAAACATCAAACCCAATTTTGGTATCGA
* *
4077885 TACCCGAAGGAGGTATCGGTACTATAGTA
66 TACCCGAAGGAGGTATCGATACCATAGTA
4077914 TAGAAGTATC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 64 0.80
95 16 0.20
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (95 bp):
GGTAGTATCAATACCATGGTAAGGGTATCGATACCAAAAAACATCAAACCCAATTTTGGTATCGA
TACCCGAAGGAGGTATCGATACCATAGTAG
Found at i:4077853 original size:20 final size:20
Alignment explanation
Indices: 4077800--4077855 Score: 67
Period size: 22 Copynumber: 2.7 Consensus size: 20
4077790 ATATCGGAAT
*
4077800 GGGTATCGATACCATAGTAG
1 GGGTATCGATACCATAGTAA
* *
4077820 GGTAGTATCAATACCATGGTAA
1 GG--GTATCGATACCATAGTAA
4077842 GGGTATCGATACCA
1 GGGTATCGATACCA
4077856 GGAAACATCG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.43
22 17 0.57
ACGTcount: A:0.32, C:0.16, G:0.27, T:0.25
Consensus pattern (20 bp):
GGGTATCGATACCATAGTAA
Found at i:4078365 original size:59 final size:58
Alignment explanation
Indices: 4078270--4078433 Score: 233
Period size: 58 Copynumber: 2.8 Consensus size: 58
4078260 TACCAAATGA
* * *
4078270 CACTTCGTGTGCAAAATGTTAAGAAATTCATACTAAGTGTATGGATTTCCGTATAGGG
1 CACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGG
* *
4078328 CACTTCGTGTGCTAACATGATAAGAAATTCATACTAAGT-TATGAATTTCTGTATGGGG
1 CACTTCGTGTGCTAA-ATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGG
* *
4078386 CACCTT-GTGTGCTAAAGGATAAGACATTCATACTAAGTGTATGAATTT
1 CA-CTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTT
4078434 TCATATGCAA
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
57 21 0.22
58 50 0.52
59 25 0.26
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.34
Consensus pattern (58 bp):
CACTTCGTGTGCTAAATGATAAGAAATTCATACTAAGTGTATGAATTTCCGTATAGGG
Found at i:4078937 original size:32 final size:32
Alignment explanation
Indices: 4078901--4079005 Score: 81
Period size: 32 Copynumber: 3.2 Consensus size: 32
4078891 TGATAGAAAG
4078901 GTGTCATTTATGCCAGTTAGATGAAAGACTAA
1 GTGTCATTTATGCCAGTTAGATGAAAGACTAA
* * * *
4078933 GTGTC-TTTGAGGCCTAACTGTGCATATGACAGA--AA
1 GTGTCATTT-ATGCC--A--GT-TAGATGAAAGACTAA
*
4078968 GGTGTCATTTATGCCAGTTAGATTAAAGACTAA
1 -GTGTCATTTATGCCAGTTAGATGAAAGACTAA
4079001 GTGTC
1 GTGTC
4079006 TTTGAGGCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 20
0.65 0.11 0.24
Matches are distributed among these distances:
31 10 0.19
32 16 0.30
33 2 0.04
34 2 0.04
35 2 0.04
36 11 0.20
37 11 0.20
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (32 bp):
GTGTCATTTATGCCAGTTAGATGAAAGACTAA
Found at i:4079138 original size:68 final size:68
Alignment explanation
Indices: 4078805--4079129 Score: 481
Period size: 68 Copynumber: 4.8 Consensus size: 68
4078795 AAAAGATCAA
* * *
4078805 GAGGCCTAACTGTGCATATGACAGAAATGTGTCATTTATGCCAATTAAATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
4078870 TTT
66 TTT
*
4078873 GAGGCCTAACTGTGCATATGATAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
4078938 TTT
66 TTT
*
4078941 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATTAAAGACTAAGTGTC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
4079006 TTT
66 TTT
* * * * * *
4079009 GAGGCCTAACTGTGCATATGACAAAAAGATGTCATTTATGCCAATTAGAAGAAAGGCTAAGTGCC
1 GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
*
4079074 TCT
66 TTT
* * * * *
4079077 GAGGCCTAGCTATGCA-ATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAA
1 GAGGCCTAACTGTGCATA-TGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
4079130 CATTTAAGTA
Statistics
Matches: 233, Mismatches: 23, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
67 1 0.00
68 232 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (68 bp):
GAGGCCTAACTGTGCATATGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGTC
TTT
Found at i:4079360 original size:162 final size:162
Alignment explanation
Indices: 4079079--4079931 Score: 1101
Period size: 162 Copynumber: 5.4 Consensus size: 162
4079069 GTGCCTCTGA
* * * * ** *
4079079 GGCCTAGCTATGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAACATTTAAGTACCCT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
* * *
4079144 TGAGTAAAACAAAAATGGCCTAGTTGTGCAATTGGCAGAAAGGTGTCGATTATGCCAGTTAGATG
66 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
*
4079209 AACGGTTAAGTACCGTTGAGTAAAAGAAAAAT
131 AACGGTTAAGTACCATTGAGTAAAAGAAAAAT
*
4079241 GGCCTAGCTGTGTAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
* * * ** * * *
4079306 TGAGTAAAAGAATAATGGACTAACTGTGC-ATATGAAAGAAAGATGTCAATTATGCTAGTTAGAA
66 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAAT-TGGCAGAAAGGTGTCAATTATGCCAGTTAGAT
* * *
4079370 GAAAGGCTAAGTGCC-TT---T----G----A-
130 GAACGGTTAAGTACCATTGAGTAAAAGAAAAAT
* * *
4079390 GGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
**
4079455 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGTTAGTTAGATG
66 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
4079520 AACGGTTAAGTACCATTGAGTAAAAGAAAAAT
131 AACGGTTAAGTACCATTGAGTAAAAGAAAAAT
** * ** * * *
4079552 ATCCTAGCTGTACAATTGGCAGAAATATGTCAATTAGGTCAGTTAGATGAACGATTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
*
4079617 TAAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
66 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
* *
4079682 AATGGTTAAGTACCGTTGAGTAAAAGAAAAAT
131 AACGGTTAAGTACCATTGAGTAAAAGAAAAAT
* * * * *
4079714 GGTCTAGTTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAGGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
*
4079779 TGAGTAAAAGAAAAATGGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATTATGCCTA-TTAGAT
66 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCC-AGTTAGAT
** * * *
4079843 GAACATTTAAGTACCATTAAGTAAAATAATAAT
130 GAACGGTTAAGTACCATTGAGTAAAAGAAAAAT
* *
4079876 GGCCTAACTGTGC-ATTGGCAGAAAGGTGTCTATTATGCCAGTTAGATGAAC-GTTAA
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
4079932 ACACTGTTGA
Statistics
Matches: 599, Mismatches: 76, Indels: 34
0.84 0.11 0.05
Matches are distributed among these distances:
149 126 0.21
150 5 0.01
153 1 0.00
154 1 0.00
157 1 0.00
158 1 0.00
160 4 0.01
161 41 0.07
162 418 0.70
163 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.27
Consensus pattern (162 bp):
GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATG
AACGGTTAAGTACCATTGAGTAAAAGAAAAAT
Found at i:4079381 original size:81 final size:81
Alignment explanation
Indices: 4079079--4079368 Score: 393
Period size: 81 Copynumber: 3.6 Consensus size: 81
4079069 GTGCCTCTGA
* * * * ** *
4079079 GGCCTAGCTATGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAACATTTAAGTACCCT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
*
4079144 TGAGTAAAACAAAAAT
66 TGAGTAAAAGAAAAAT
* * *
4079160 GGCCTAGTTGTGCAATTGGCAGAAAGGTGTCGATTATGCCAGTTAGATGAACGGTTAAGTACCGT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
4079225 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
*
4079241 GGCCTAGCTGTGTAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
*
4079306 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAAAAAT
* * ** * *
4079322 GGACTAACTGTGC-ATATGAAAGAAAGATGTCAATTATGCTAGTTAGA
1 GGCCTAGCTGTGCAAT-TGGCAGAAAGGTGTCAATTATGCCAGTTAGA
4079369 AGAAAGGCTA
Statistics
Matches: 186, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 2 0.01
81 184 0.99
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (81 bp):
GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
TGAGTAAAAGAAAAAT
Found at i:4079525 original size:81 final size:81
Alignment explanation
Indices: 4079390--4079931 Score: 793
Period size: 81 Copynumber: 6.7 Consensus size: 81
4079380 GTGCCTTTGA
* * *
4079390 GGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
4079455 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
**
4079471 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGTTAGTTAGATGAACGGTTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
4079536 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
** * ** * * *
4079552 ATCCTAGCTGTACAATTGGCAGAAATATGTCAATTAGGTCAGTTAGATGAACGATTAAGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
*
4079617 TAAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* *
4079633 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
4079698 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* * * * *
4079714 GGTCTAGTTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAGGTACCAT
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
4079779 TGAGTAAAAGAAAAAT
66 TGAGTAAAAGAAAAAT
* **
4079795 GGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATTATGCCTA-TTAGATGAACATTTAAGTACCA
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCC-AGTTAGATGAACGGTTAAGTACCA
* * *
4079859 TTAAGTAAAATAATAAT
65 TTGAGTAAAAGAAAAAT
* *
4079876 GGCCTAACTGTGC-ATTGGCAGAAAGGTGTCTATTATGCCAGTTAGATGAAC-GTTAA
1 GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
4079932 ACACTGTTGA
Statistics
Matches: 417, Mismatches: 42, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
79 5 0.01
80 35 0.08
81 376 0.90
82 1 0.00
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (81 bp):
GGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAGTACCAT
TGAGTAAAAGAAAAAT
Found at i:4079585 original size:311 final size:311
Alignment explanation
Indices: 4079014--4079931 Score: 1207
Period size: 311 Copynumber: 2.9 Consensus size: 311
4079004 TCTTTGAGGC
* * *
4079014 CTAACTGTGCATATGACAA-AAAGATGTCATTTATGCCAATTAGAAGAAAGGCTAAGTGCCTCTG
1 CTAACTGTGCATATGA-AAGAAAGATGTCAATTATGCCAGTTAGAAGAAAGGCTAAGTGCCTTTG
* ** *
4079078 AGGCCTAGCTATGCAATTGACAGAAATGTGTCAATTATGTCAGTTAGATGAACATTTAAGTACCC
65 AGGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCA
* * * *
4079143 TTGAGTAAAACAAAAATGGCCTAGTTGTGCAATTGGCAGAAAGGTGTCGATTATGCCAGTTAGAT
130 TTGAGTAAAAGAAAAATGGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATTATGCTAGTTAGAT
* *
4079208 GAACGGTTAAGTACCGTTGAGTAAAAGAAAAATGGCCTAGCTGTGTAATTGGCAGAAAGGTGTCA
195 GAACGGTTAAGTACCATTGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCA
* *
4079273 ATTATGCCAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAGAATAATGGA
260 ATTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGA
*
4079325 CTAACTGTGCATATGAAAGAAAGATGTCAATTATGCTAGTTAGAAGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATATGAAAGAAAGATGTCAATTATGCCAGTTAGAAGAAAGGCTAAGTGCCTTTGA
4079390 GGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCAT
66 GGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCAT
* *
4079455 TGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAATTATGTTAGTTAGATG
131 TGAGTAAAAGAAAAATGGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATTATGCTAGTTAGATG
** * **
4079520 AACGGTTAAGTACCATTGAGTAAAAGAAAAATATCCTAGCTGTACAATTGGCAGAAATATGTCAA
196 AACGGTTAAGTACCATTGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAA
* * * *
4079585 TTAGGTCAGTTAGATGAACGATTAAGTACCATTAAGTAAAAGAAAAATGGC
261 TTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGA
* ** * * * * *
4079636 CTAGCTGTGCA-ATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAATGGTTAAGTACCGTTG
1 CTAACTGTGCATA-TGAAAGAAAGATGTCAATTATGCCAGTTAGAAGAAAGGCTAAGTGCC-TT-
* * * * * *
4079700 AGTAAAAGAAAAATGGTCTAGTTGTACAATTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
63 --T----G----A-GGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAA
* *
4079765 TGGTTAGGTACCATTGAGTAAAAGAAAAATGGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATT
117 CGGTTAAGTACCATTGAGTAAAAGAAAAATGGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATT
** * * * *
4079830 ATGCCTA-TTAGATGAACATTTAAGTACCATTAAGTAAAATAATAATGGCCTAACTGTGC-ATTG
182 ATG-CTAGTTAGATGAACGGTTAAGTACCATTGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTG
*
4079893 GCAGAAAGGTGTCTATTATGCCAGTTAGATGAAC-GTTAA
246 GCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAA
4079932 ACACTGTTGA
Statistics
Matches: 531, Mismatches: 60, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
310 3 0.01
311 331 0.62
312 2 0.00
315 1 0.00
319 1 0.00
322 4 0.01
323 34 0.06
324 153 0.29
325 2 0.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (311 bp):
CTAACTGTGCATATGAAAGAAAGATGTCAATTATGCCAGTTAGAAGAAAGGCTAAGTGCCTTTGA
GGCCTAGCTATGCAATTGGCAGAAATGTGTCAATTATGTCAGTTAGATGAACGGTTAAGTACCAT
TGAGTAAAAGAAAAATGGCCTAGATGTGCAATTGGCAGAAAGGTGTCAATTATGCTAGTTAGATG
AACGGTTAAGTACCATTGAGTAAAAGAAAAATGGCCTAGCTGTGCAATTGGCAGAAAGGTGTCAA
TTATGCCAGTTAGATGAACGGTTAAGTACCATTAAGTAAAAGAAAAATGGA
Found at i:4083746 original size:14 final size:15
Alignment explanation
Indices: 4083719--4083759 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
4083709 TGTCTAGATT
4083719 TTAAAT-ATATATATA
1 TTAAATAATATAT-TA
*
4083734 TTAAATAATATATTT
1 TTAAATAATATATTA
4083749 TTAAA-AATATA
1 TTAAATAATATA
4083760 AACGTGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 12 0.50
16 6 0.25
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
TTAAATAATATATTA
Found at i:4084520 original size:20 final size:21
Alignment explanation
Indices: 4084495--4084534 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4084485 CCGAAAATGT
*
4084495 TAAAAA-ATTAATATTTTAAG
1 TAAAAATAATAATATTTTAAG
4084515 TAAAAATAATAATATTTTAA
1 TAAAAATAATAATATTTTAA
4084535 ATAATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAG
Found at i:4086030 original size:17 final size:17
Alignment explanation
Indices: 4086005--4086042 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
4085995 GGTAAGTATC
*
4086005 TATCCTTTTTATAAAAG
1 TATCATTTTTATAAAAG
4086022 TATCATTTTTATAAAAG
1 TATCATTTTTATAAAAG
4086039 TATC
1 TATC
4086043 CATACTTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (17 bp):
TATCATTTTTATAAAAG
Found at i:4086569 original size:23 final size:23
Alignment explanation
Indices: 4086538--4086610 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
4086528 ATAGGTAAAA
*
4086538 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
4086561 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
4086584 ATATAATGTAATAGCTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
4086607 ATAT
1 ATAT
4086611 TGCAAAATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:4086756 original size:489 final size:489
Alignment explanation
Indices: 4086116--4087012 Score: 1593
Period size: 489 Copynumber: 1.8 Consensus size: 489
4086106 TTTTTACCTG
* * * *
4086116 TTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTTCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGCAAAATATCTATCATTTTTATAAAAGTATCCATACTTTTTTCACTGTGGAAAACATT
4086181 AATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
4086246 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTACATAT
4086311 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATATTAAATAA-TATTTTATAAAATATCAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATATTAAA-AATTATTTTATAAAATATCAA
*
4086375 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
*
4086440 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAATATCGATCCTTTTTAT-A
325 ACACTATT-AAAAAATTGAAACATAAATTACATAAATTTAAAAAAAATATCGATCCTTTTTATAA
4086504 AAAAGTAT-AGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
389 AAAAGTATGA-ACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
4086568 GTAATAGGTAGCGTTTATATAATGTAATAGCTAGTGC
453 GTAATAGGTAGCGTTTATATAATGTAATAGCTAGTGC
* * *
4086605 TTATATTGCAAAATATTTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTGTGGAAAATATT
1 TTATATTGCAAAATATCTATCATTTTTATAAAAGTATCCATACTTTTTTCACTGTGGAAAACATT
* * *
4086670 AATTTAAGGTTATCTTTTGAGTGAGTTTTAATATATTAATTTAGTAATTATAGGTGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
4086735 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTACATAT
131 TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTACATAT
*
4086800 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTTTAAAAATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATATTAAAAATTATTTTATAAAATATCAAA
4086865 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* * *
4086930 CACTGTTAAAAAATTGAAACATAAATTACATAAATTTTAAAAAAGTATCGATCCTTTTTATAAAA
326 CACTATTAAAAAATTGAAACATAAATTACATAAATTTAAAAAAAATATCGATCCTTTTTATAAAA
4086995 AAGTATGAACACTTTCAA
391 AAGTATGAACACTTTCAA
4087013 CATATTATAA
Statistics
Matches: 388, Mismatches: 17, Indels: 6
0.94 0.04 0.01
Matches are distributed among these distances:
488 53 0.14
489 334 0.86
490 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (489 bp):
TTATATTGCAAAATATCTATCATTTTTATAAAAGTATCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTAAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAACAAAAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATATTAAAAATTATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAATTGAAACATAAATTACATAAATTTAAAAAAAATATCGATCCTTTTTATAAAA
AAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
ATAGGTAGCGTTTATATAATGTAATAGCTAGTGC
Found at i:4087748 original size:28 final size:27
Alignment explanation
Indices: 4087687--4087752 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
4087677 AAGTCAAAAA
*
4087687 GGTGCCTAATGTATTTTTTTTCAGTTT
1 GGTGCCTAACGTATTTTTTTTCAGTTT
** *
4087714 GACGCCTAACGT-TTTTTCGTTTTAGTTT
1 GGTGCCTAACGTATTTTT--TTTCAGTTT
4087742 GGTGCCTAACG
1 GGTGCCTAACG
4087753 CTTCATTCCG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
26 5 0.16
27 9 0.29
28 17 0.55
ACGTcount: A:0.15, C:0.17, G:0.21, T:0.47
Consensus pattern (27 bp):
GGTGCCTAACGTATTTTTTTTCAGTTT
Found at i:4087954 original size:15 final size:15
Alignment explanation
Indices: 4087931--4087960 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4087921 TGTTTCTCCT
*
4087931 CTTCCCTCTCTTCCC
1 CTTCACTCTCTTCCC
4087946 CTTCACTCTCTTCCC
1 CTTCACTCTCTTCCC
4087961 ATGCAATCAA
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:0.03, C:0.57, G:0.00, T:0.40
Consensus pattern (15 bp):
CTTCACTCTCTTCCC
Found at i:4089323 original size:12 final size:12
Alignment explanation
Indices: 4089308--4089332 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4089298 TAAGATAGAA
4089308 AATATAATATAT
1 AATATAATATAT
4089320 AATATAATATAT
1 AATATAATATAT
4089332 A
1 A
4089333 TTTATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AATATAATATAT
Found at i:4090798 original size:64 final size:65
Alignment explanation
Indices: 4090696--4090899 Score: 184
Period size: 64 Copynumber: 3.2 Consensus size: 65
4090686 AAAGTAGTGT
** * ** *
4090696 ACCGATGCACTATATAATGCATCTATGCAC-CCTGAAATAAATTGAATTTCGAATGCATTTTGTG
1 ACCGATGCAC-ATACCATGCATCGATGCACTCCTGAAATAAATTGAACATCGAATGCATTTTATG
*
4090760 T
65 C
** *
4090761 ACCGATGCACGA-GGCATGCATCGATGCACTCCT-AAATAATTTGAACATCGAATGCATTTTATG
1 ACCGATGCAC-ATACCATGCATCGATGCACTCCTGAAATAAATTGAACATCGAATGCATTTTATG
4090824 C
65 C
* * * * * *
4090825 ATCGATGCACATACCATGCATTGATGCACTCCATG--CTTATTTGAAACATCGAATGTATTTTAT
1 ACCGATGCACATACCATGCATCGATGCACTCC-TGAAATAAATTG-AACATCGAATGCATTTTAT
4090888 GC
64 GC
*
4090890 ATCGATGCAC
1 ACCGATGCAC
4090900 CCCTAGTGTA
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
63 1 0.01
64 71 0.61
65 45 0.38
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (65 bp):
ACCGATGCACATACCATGCATCGATGCACTCCTGAAATAAATTGAACATCGAATGCATTTTATGC
Found at i:4108651 original size:12 final size:13
Alignment explanation
Indices: 4108631--4108667 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
4108621 TGTGTTAGAT
4108631 AATACAAAAGAAC
1 AATACAAAAGAAC
4108644 AATA-AAAAGAA-
1 AATACAAAAGAAC
*
4108655 AAAACAAAAGAAC
1 AATACAAAAGAAC
4108668 TTAAAGCACT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 3 0.14
12 14 0.67
13 4 0.19
ACGTcount: A:0.76, C:0.11, G:0.08, T:0.05
Consensus pattern (13 bp):
AATACAAAAGAAC
Found at i:4109234 original size:11 final size:12
Alignment explanation
Indices: 4109207--4109237 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
4109197 GTCTTTTTTG
4109207 TTTTTTTTTGCC
1 TTTTTTTTTGCC
4109219 TTTTTTTTTGCC
1 TTTTTTTTTGCC
4109231 TTTTTTT
1 TTTTTTT
4109238 GGGAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTTTTTTTGCC
Found at i:4120001 original size:36 final size:36
Alignment explanation
Indices: 4119919--4120003 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
4119909 AACAATTTCA
* * *
4119919 AAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGAGGTG
1 AAATTTGT-TTTC-A-GGAAAACAATCTCAAGCGAGATC
*
4119958 AAATTTGTTTTCAGGAAAACAATCTCAAGTGAGATC
1 AAATTTGTTTTCAGGAAAACAATCTCAAGCGAGATC
*
4119994 AATTTTGTTT
1 AAATTTGTTT
4120004 CAAGTGAAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 28 0.68
37 1 0.02
38 4 0.10
39 8 0.20
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (36 bp):
AAATTTGTTTTCAGGAAAACAATCTCAAGCGAGATC
Found at i:4120028 original size:102 final size:102
Alignment explanation
Indices: 4119896--4120087 Score: 296
Period size: 102 Copynumber: 1.9 Consensus size: 102
4119886 AGGTGAGATA
**
4119896 TTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGAGGTGAAA
1 TTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGACATGAAA
4119961 TTTGTTTTCAGGA-AAACAATCTCAAGTGAGATCAATT
66 TTTGTTTTCA-GACAAACAATCTCAAGTGAGATCAATT
* * * * *
4119998 TTGTTTCAAGTGAAACCATTTCAAATTTTGTGTTTCAAGGGAAAATTGTCTCAAGTGACATGAAA
1 TTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGACATGAAA
*
4120063 TTTGTTTTGAGACAAACAATCTCAA
66 TTTGTTTTCAGACAAACAATCTCAA
4120088 AGGTTTATGT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 2 0.02
102 79 0.98
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (102 bp):
TTGTTTCAAGTGAAACAATTTCAAAATTTGTGTTTCAAGGGAAAACTATCTCAAGCGACATGAAA
TTTGTTTTCAGACAAACAATCTCAAGTGAGATCAATT
Found at i:4120114 original size:66 final size:67
Alignment explanation
Indices: 4120028--4120186 Score: 194
Period size: 67 Copynumber: 2.4 Consensus size: 67
4120018 TCAAATTTTG
* * * * *
4120028 TGTTTCAAGGGAAAATTGTCTCAAGTGACATGAAA-TTTGTTTTGAGACAAACAATCTCAAAGGT
1 TGTTTCAAGAG-AAACTGTCTCAAGTGACACGAAACTTTGTTTCGAGACAAAAAATCTCAAAGGT
4120092 TTA
65 TTA
* * * ** *
4120095 TGTTTCGAGAGAAACTGTCTCAAGCGAGACGAAACTTTGTTTCGAGTTAAAAAATCTTAAAGGTT
1 TGTTTCAAGAGAAACTGTCTCAAGTGACACGAAACTTTGTTTCGAGACAAAAAATCTCAAAGGTT
4120160 TA
66 TA
*
4120162 TGTTTCAAGAGAAACTATCTCAAGT
1 TGTTTCAAGAGAAACTGTCTCAAGT
4120187 TATGTTTCAA
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 19 0.25
67 58 0.75
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.32
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTGTCTCAAGTGACACGAAACTTTGTTTCGAGACAAAAAATCTCAAAGGTT
TA
Found at i:4120191 original size:27 final size:27
Alignment explanation
Indices: 4120159--4120212 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
4120149 TCTTAAAGGT
4120159 TTATGTTTCAAGAGAAACTATCTCAAG
1 TTATGTTTCAAGAGAAACTATCTCAAG
4120186 TTATGTTTCAAGAGAAACTATCTCAAG
1 TTATGTTTCAAGAGAAACTATCTCAAG
4120213 CGAGTCAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (27 bp):
TTATGTTTCAAGAGAAACTATCTCAAG
Found at i:4120245 original size:36 final size:36
Alignment explanation
Indices: 4120189--4120306 Score: 124
Period size: 36 Copynumber: 3.4 Consensus size: 36
4120179 TCTCAAGTTA
*
4120189 TGTTTCAAGAGAAACTATCTCAAGCGAGTCAAAATT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGTCAAAATT
* *
4120225 TGTTTCAAGAAAAACAATCTCAA-AG-GT-----TT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGTCAAAATT
* * *
4120254 ATGTTTCAAGACAAACTATCTCAAGTGAGACAAAATT
1 -TGTTTCAAGAGAAACTATCTCAAGAGAGTCAAAATT
4120291 TGTTTCAAGAGAAACT
1 TGTTTCAAGAGAAACT
4120307 GTCTTAAGGG
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
29 2 0.03
30 21 0.32
31 1 0.02
32 1 0.02
34 2 0.03
35 1 0.02
36 36 0.55
37 2 0.03
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGTCAAAATT
Found at i:4120261 original size:93 final size:94
Alignment explanation
Indices: 4120072--4120279 Score: 285
Period size: 93 Copynumber: 2.2 Consensus size: 94
4120062 ATTTGTTTTG
* * * *
4120072 AGACAAACAATCTCAAAGGTTTATGTTTCGAGAGAAACTGTCTCAAGCGAGACGAAACTTTGTTT
1 AGACAAACTATCTC-AA-G-TTATGTTTCAAGAGAAACTATCTCAAGCGAGACGAAAATTTGTTT
* * *
4120137 CGAGTTAAAAAATCTTAAAGGTTTATGTTTCA
63 CAAGTAAAAAAATCTCAAAGGTTTATGTTTCA
* *
4120169 AGAGAAACTATCTCAAGTTATGTTTCAAGAGAAACTATCTCAAGCGAGTC-AAAATTTGTTTCAA
1 AGACAAACTATCTCAAGTTATGTTTCAAGAGAAACTATCTCAAGCGAGACGAAAATTTGTTTCAA
4120233 G-AAAAACAATCTCAAAGGTTTATGTTTCA
66 GTAAAAA-AATCTCAAAGGTTTATGTTTCA
4120262 AGACAAACTATCTCAAGT
1 AGACAAACTATCTCAAGT
4120280 GAGACAAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
92 4 0.04
93 51 0.51
94 30 0.30
95 1 0.01
96 2 0.02
97 12 0.12
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.30
Consensus pattern (94 bp):
AGACAAACTATCTCAAGTTATGTTTCAAGAGAAACTATCTCAAGCGAGACGAAAATTTGTTTCAA
GTAAAAAAATCTCAAAGGTTTATGTTTCA
Found at i:4120270 original size:66 final size:63
Alignment explanation
Indices: 4120162--4120305 Score: 216
Period size: 66 Copynumber: 2.2 Consensus size: 63
4120152 TAAAGGTTTA
* * *
4120162 TGTTTCAAGAGAAACTATCTCAAGTTATGTTTCAAGAGAAACTATCTCAAGCGAGTCAAAATT
1 TGTTTCAAGAGAAACAATCTCAAGTTATGTTTCAAGACAAACTATCTCAAGCGAGACAAAATT
* *
4120225 TGTTTCAAGAAAAACAATCTCAAAGGTTTATGTTTCAAGACAAACTATCTCAAGTGAGACAAAAT
1 TGTTTCAAGAGAAACAATCTC-AA-G-TTATGTTTCAAGACAAACTATCTCAAGCGAGACAAAAT
4120290 T
63 T
4120291 TGTTTCAAGAGAAAC
1 TGTTTCAAGAGAAAC
4120306 TGTCTTAAGG
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
63 19 0.26
64 2 0.03
65 1 0.01
66 50 0.69
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (63 bp):
TGTTTCAAGAGAAACAATCTCAAGTTATGTTTCAAGACAAACTATCTCAAGCGAGACAAAATT
Found at i:4121915 original size:29 final size:28
Alignment explanation
Indices: 4121856--4121912 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
4121846 TATGACGAAA
**
4121856 TAAATTTAACATAATTTTTTATTTTGAT
1 TAAATTTAACATAATTTTTTATTTAAAT
*
4121884 TAAATTTAATATATATTTTTTA-TTAAAT
1 TAAATTTAACATA-ATTTTTTATTTAAAT
4121912 T
1 T
4121913 TAATATGTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
TAAATTTAACATAATTTTTTATTTAAAT
Found at i:4124795 original size:17 final size:18
Alignment explanation
Indices: 4124761--4124800 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4124751 TAAATTTATC
*
4124761 TAAAAACCAGTTTCCCTT
1 TAAAAACCAATTTCCCTT
*
4124779 TAAAAATCAATTT-CCTT
1 TAAAAACCAATTTCCCTT
4124796 TAAAA
1 TAAAA
4124801 TAAAATAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.42, C:0.20, G:0.03, T:0.35
Consensus pattern (18 bp):
TAAAAACCAATTTCCCTT
Found at i:4125319 original size:16 final size:16
Alignment explanation
Indices: 4125300--4125342 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
4125290 TAATTTTCAT
4125300 TTTTACTATTTT-TATA
1 TTTTA-TATTTTGTATA
* *
4125316 TTTTATTTTTTGTGTA
1 TTTTATATTTTGTATA
4125332 TTTTATATTTT
1 TTTTATATTTT
4125343 AAATTTAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.19, C:0.02, G:0.05, T:0.74
Consensus pattern (16 bp):
TTTTATATTTTGTATA
Found at i:4125326 original size:23 final size:23
Alignment explanation
Indices: 4125288--4125343 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
4125278 TTTTTAGCAA
*
4125288 TTTA-ATTTTCATTTTTACTAT-T
1 TTTATATTTT-ATTTTTTCTATAT
* *
4125310 TTTATATTTTATTTTTTGTGTAT
1 TTTATATTTTATTTTTTCTATAT
4125333 TTTATATTTTA
1 TTTATATTTTA
4125344 AATTTAGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.41
23 17 0.59
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTATATTTTATTTTTTCTATAT
Found at i:4125520 original size:19 final size:19
Alignment explanation
Indices: 4125498--4125538 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
4125488 TTTTGTTTTT
*
4125498 TTATTTTTTATAATAATAA
1 TTATATTTTATAATAATAA
* *
4125517 TTATATTTTATCATTATAA
1 TTATATTTTATAATAATAA
4125536 TTA
1 TTA
4125539 AATATATAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TTATATTTTATAATAATAA
Found at i:4126485 original size:182 final size:181
Alignment explanation
Indices: 4126112--4126503 Score: 389
Period size: 182 Copynumber: 2.2 Consensus size: 181
4126102 TTTTTGTAAC
** *** * *
4126112 ACTTATAGTTACAAAATTTGTCACTATATGA--TT-TTTTTTGCGCAAAAAATATGGAGGGA-AA
1 ACTTATAGTTACAAAACATGTCACTATATGATTTTATTTTTTTTACCAAAACT-TGGA--GATAA
* *** * * *
4126173 TCTTTGTGACAATATATTTTGTCACTATAATTAAAACATATAACAACAAACATTGTTTTTTACTA
63 TCTTTGTGACAATACATTTTGTCACTATAATTAAAACATATAACAACAAACAAAATTTGTCACAA
* * * * * *
4126238 AAATCTTGAATCTCATTATTTGTTGTGACAATTTTTTTTGTAACAAAAATTATA
128 AAATCATAAATCTCATTATTTGTTGTGACAAATTTTTCTGTAACAAAAACTAAA
* *
4126292 TCTTATAGTTACAAAACATGTCATTATATGATTTTATTTTTTTTACCAAAACTTGGAGATAATCA
1 ACTTATAGTTACAAAACATGTCACTATATGATTTTATTTTTTTTACCAAAACTTGGAGATAATC-
* * * **
4126357 TTTGTGGCTATACATTTTGTCACTATAATTAAAATATATAATTACAAACAAAATTTGTCACAACA
65 TTTGTGACAATACATTTTGTCACTATAATTAAAACATATAACAACAAACAAAATTTGTCACAA-A
* * ***
4126422 AAT-ATAAATCTCATTATTTGTTGTGACAAATTTTTCTGTCATAGTCACTAAA
129 AATCATAAATCTCATTATTTGTTGTGACAAATTTTTCTGTAACAAAAACTAAA
* **
4126474 ACTTTTAGTTACAAAAGTTGTCACTATATG
1 ACTTATAGTTACAAAACATGTCACTATATG
4126504 CCTTCAATTT
Statistics
Matches: 169, Mismatches: 37, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
180 29 0.17
181 4 0.02
182 120 0.71
183 16 0.09
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (181 bp):
ACTTATAGTTACAAAACATGTCACTATATGATTTTATTTTTTTTACCAAAACTTGGAGATAATCT
TTGTGACAATACATTTTGTCACTATAATTAAAACATATAACAACAAACAAAATTTGTCACAAAAA
TCATAAATCTCATTATTTGTTGTGACAAATTTTTCTGTAACAAAAACTAAA
Found at i:4140073 original size:20 final size:20
Alignment explanation
Indices: 4140048--4140092 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
4140038 CTTTAGTATT
4140048 GATACTAAAGGGTGAGCATC
1 GATACTAAAGGGTGAGCATC
* * * *
4140068 GATACTCAGGGGTTAGTATC
1 GATACTAAAGGGTGAGCATC
4140088 GATAC
1 GATAC
4140093 CGAACGGCTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (20 bp):
GATACTAAAGGGTGAGCATC
Found at i:4147974 original size:21 final size:21
Alignment explanation
Indices: 4147932--4147975 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4147922 ACTCCGGGAG
* *
4147932 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
4147953 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
4147974 CT
1 CT
4147976 CCTCCAGCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:4148522 original size:2 final size:2
Alignment explanation
Indices: 4148515--4148549 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4148505 CAGCTTAAGC
4148515 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4148550 TTAATCAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4148740 original size:41 final size:41
Alignment explanation
Indices: 4148653--4148732 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
4148643 TTTTTAAGGG
*
4148653 AGAAGTGAGTGTTATAGTAAGGGGGAGTAATTTTTCTAAGA
1 AGAAATGAGTGTTATAGTAAGGGGGAGTAATTTTTCTAAGA
4148694 AGAAATGAGTGTTATAGTAAGGGGGAGTAATTTTTCTAA
1 AGAAATGAGTGTTATAGTAAGGGGGAGTAATTTTTCTAA
4148733 ATTGAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.33
Consensus pattern (41 bp):
AGAAATGAGTGTTATAGTAAGGGGGAGTAATTTTTCTAAGA
Found at i:4149167 original size:65 final size:63
Alignment explanation
Indices: 4149098--4149257 Score: 214
Period size: 65 Copynumber: 2.5 Consensus size: 63
4149088 AATTAAATTG
* *
4149098 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCACCGATGCACTGAGGAT-TTTATGA
1 AACATCGAATGCATTTGATGCATCGATGCACA-ACCATGCACCGATGCACTCAGGATATTT-TG-
4149162 A
63 A
* * * *
4149163 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCA-CAACCATGCACCGATGCACTCAGGATATTTTGA
*
4149227 AACATCGAATGCACTTGATGCATCGATGCAC
1 AACATCGAATGCATTTGATGCATCGATGCAC
4149258 GCTTAGTGCA
Statistics
Matches: 86, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
63 1 0.01
64 30 0.35
65 50 0.58
66 5 0.06
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (63 bp):
AACATCGAATGCATTTGATGCATCGATGCACAACCATGCACCGATGCACTCAGGATATTTTGA
Found at i:4152663 original size:21 final size:21
Alignment explanation
Indices: 4152637--4152676 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4152627 CATTCTAACT
*
4152637 TAAAATACAACATTTAATAAA
1 TAAAATACAACATTGAATAAA
*
4152658 TAAAATTCAACATTGAATA
1 TAAAATACAACATTGAATA
4152677 CTCATAATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (21 bp):
TAAAATACAACATTGAATAAA
Found at i:4160139 original size:21 final size:21
Alignment explanation
Indices: 4160113--4160153 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4160103 ACATTCTAAC
*
4160113 TTAAAATACAACATTTAATAA
1 TTAAAATACAACATTGAATAA
*
4160134 TTAAAATTCAACATTGAATA
1 TTAAAATACAACATTGAATA
4160154 CTCATAATCG
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:0.54, C:0.10, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAAATACAACATTGAATAA
Found at i:4161352 original size:29 final size:30
Alignment explanation
Indices: 4161310--4161371 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
4161300 TTTTTGGTCT
*
4161310 CTAAATTTTGT-AAATTTAACAATTTAGCCA
1 CTAAACTTTGTAAAATTT-ACAATTTAGCCA
* *
4161340 CTAAACTTT-TAAAATTTACATTTTAGTCA
1 CTAAACTTTGTAAAATTTACAATTTAGCCA
4161369 CTA
1 CTA
4161372 CCTAAATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.39, C:0.15, G:0.05, T:0.42
Consensus pattern (30 bp):
CTAAACTTTGTAAAATTTACAATTTAGCCA
Done.