Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008372.1 Hibiscus syriacus cultivar Beakdansim tig00111128_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: 1214897
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:602843 original size:6 final size:6
Alignment explanation
Indices: 602832--602874 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
602822 CATCGAATTA
602832 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG T
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG T
602875 GACGATGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.16, C:0.00, G:0.16, T:0.67
Consensus pattern (6 bp):
TTATTG
Found at i:603098 original size:3 final size:3
Alignment explanation
Indices: 603090--603131 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
603080 CATTTATCCA
603090 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
603132 CCATACCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:607377 original size:12 final size:13
Alignment explanation
Indices: 607352--607388 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
607342 TATAAAATAT
*
607352 ATTTT-TATTATA
1 ATTTTATATTTTA
607364 ATTTTAT-TTTTA
1 ATTTTATATTTTA
607376 ATTTTATATTTTA
1 ATTTTATATTTTA
607389 TTATAATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTATATTTTA
Found at i:607388 original size:19 final size:17
Alignment explanation
Indices: 607351--607390 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
607341 TTATAAAATA
607351 TATTTTTATTATAATTT
1 TATTTTTATTATAATTT
*
607368 TATTTTTAATTTTATATTT
1 TATTTTT-ATTATA-ATTT
607387 TATT
1 TATT
607391 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TATTTTTATTATAATTT
Found at i:607774 original size:26 final size:26
Alignment explanation
Indices: 607739--607796 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
607729 TTTTTAATAA
*
607739 AATATTTAATTTATAAAA-ATATTTTT
1 AATATATAATTT-TAAAATATATTTTT
607765 AATATATAATTTTAAAATATATTTTT
1 AATATATAATTTTAAAATATATTTTT
*
607791 ATTATA
1 AATATA
607797 GTTTAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 5 0.17
26 24 0.83
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
AATATATAATTTTAAAATATATTTTT
Found at i:609159 original size:24 final size:24
Alignment explanation
Indices: 609132--609179 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
609122 TCTGAAAAGT
*
609132 TGTTTAAATTATGCATTGAATGAC
1 TGTTTAAATTATGCATGGAATGAC
*
609156 TGTTTAAATTATGTATGGAATGAC
1 TGTTTAAATTATGCATGGAATGAC
609180 CTATGAAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (24 bp):
TGTTTAAATTATGCATGGAATGAC
Found at i:613977 original size:40 final size:40
Alignment explanation
Indices: 613869--613977 Score: 123
Period size: 40 Copynumber: 2.7 Consensus size: 40
613859 TTCAGCATAT
* * *
613869 CCCAACGTTTGCTTCTTGTTAATGTGAGTCTTCAAAATGC
1 CCCAACATTTACTTCTTGTTGATGTGAGTCTTCAAAATGC
* * *
613909 CCC-ACATTCTAATTCTGGTTGGA-ATGAGTCTTCAAAATGC
1 CCCAACATT-TACTTCTTGTT-GATGTGAGTCTTCAAAATGC
*
613949 CCCAACATTTTCTTCTTGTTGATGTGAGT
1 CCCAACATTTACTTCTTGTTGATGTGAGT
613978 TTTAACATCC
Statistics
Matches: 55, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
39 6 0.11
40 43 0.78
41 6 0.11
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (40 bp):
CCCAACATTTACTTCTTGTTGATGTGAGTCTTCAAAATGC
Found at i:614169 original size:12 final size:12
Alignment explanation
Indices: 614151--614184 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
614141 AATATGTTTT
614151 CGTGAACAGTAC
1 CGTGAACAGTAC
*
614163 TGTGAACAGTAC
1 CGTGAACAGTAC
614175 CGTGAACAGT
1 CGTGAACAGT
614185 GCTACAGTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (12 bp):
CGTGAACAGTAC
Found at i:615314 original size:21 final size:20
Alignment explanation
Indices: 615282--615327 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
615272 TTGTTCATAT
**
615282 ACATATGTCATATATTGTTC
1 ACATATGTCATATATTCATC
615302 ACATATAGTCATATATTCATC
1 ACATAT-GTCATATATTCATC
615323 ACATA
1 ACATA
615328 GCACATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.39
Consensus pattern (20 bp):
ACATATGTCATATATTCATC
Found at i:617056 original size:3 final size:3
Alignment explanation
Indices: 617050--617132 Score: 64
Period size: 3 Copynumber: 27.7 Consensus size: 3
617040 GTATTATTTG
* * *
617050 TAA TAA TAA -ATA TAT TAA TATA TTA TAA TAA TAG TAA TAA TAAA TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA
* * *
617097 TAG TAA TAC T-A TAA TAA T-A TAG TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
617133 TATGCAAACT
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 4 0.06
3 52 0.84
4 6 0.10
ACGTcount: A:0.58, C:0.01, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:617135 original size:19 final size:18
Alignment explanation
Indices: 617049--617135 Score: 87
Period size: 19 Copynumber: 4.9 Consensus size: 18
617039 TGTATTATTT
617049 GTAATAATA-AATATAT-
1 GTAATAATATAATATATA
617065 -TAATATATTATAATA-ATA
1 GTAATA-A-TATAATATATA
617083 GTAATAATA-AATA-ATA
1 GTAATAATATAATATATA
*
617099 GTAATACTATAATAATATA
1 GTAATAATATAAT-ATATA
617118 GTAATAATAATAATATAT
1 GTAATAAT-ATAATATAT
617136 GCAAACTCGA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
15 5 0.08
16 16 0.27
17 9 0.15
18 6 0.10
19 19 0.32
20 5 0.08
ACGTcount: A:0.56, C:0.01, G:0.05, T:0.38
Consensus pattern (18 bp):
GTAATAATATAATATATA
Found at i:617603 original size:3 final size:3
Alignment explanation
Indices: 617597--617663 Score: 50
Period size: 3 Copynumber: 22.7 Consensus size: 3
617587 GTATTATTTG
* * * *
617597 TAA TAA TAA -ATA TAT TAA TATA TAA TAG TAA TAG TAA TAC T-A TAA
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA
*
617642 TAA T-A TAG TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
617664 TATGCAAACT
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
2 4 0.08
3 41 0.84
4 4 0.08
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:617629 original size:25 final size:23
Alignment explanation
Indices: 617600--617666 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 23
617590 TTATTTGTAA
617600 TAATAAATATATTAATATATAATAG
1 TAATAAATATA-TAATATAT-ATAG
617625 TAATAGTAATACTATAATA-ATATAG
1 TAATA--AATA-TATAATATATATAG
617650 TAAT-AATA-ATAATATAT
1 TAATAAATATATAATATAT
617667 GCAAACTCGG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 6 0.16
21 2 0.05
22 4 0.11
25 13 0.34
26 2 0.05
27 9 0.24
28 2 0.05
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.39
Consensus pattern (23 bp):
TAATAAATATATAATATATATAG
Found at i:619346 original size:60 final size:60
Alignment explanation
Indices: 619219--619332 Score: 142
Period size: 60 Copynumber: 1.9 Consensus size: 60
619209 ATAGTCGAGT
** * *
619219 GACCATTTTATAGTTTTTAATAGTCGGAGGACTAAAAAAAGTAATATCTTATAGCTAAAG
1 GACCATTTTATAACTTTTAATAATCGGAGGACTAAAAAAAGTAATACCTTATAGCTAAAG
* *
619279 GACCATTTTATAACTTTTAATAAT-TGAGAGACTCAATAAAA-TAATACCTTATAG
1 GACCATTTTATAACTTTTAATAATCGGAG-GACT-AAAAAAAGTAATACCTTATAG
619333 TCAGGAGACC
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
59 3 0.07
60 37 0.80
61 6 0.13
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAATAATCGGAGGACTAAAAAAAGTAATACCTTATAGCTAAAG
Found at i:626678 original size:17 final size:17
Alignment explanation
Indices: 626656--626688 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
626646 TCTCCACTCT
626656 CCCTCCTCTCCTCTTTC
1 CCCTCCTCTCCTCTTTC
626673 CCCTCCTCTCCTCTTT
1 CCCTCCTCTCCTCTTT
626689 TCCTCCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (17 bp):
CCCTCCTCTCCTCTTTC
Found at i:627525 original size:23 final size:23
Alignment explanation
Indices: 627493--627624 Score: 183
Period size: 23 Copynumber: 5.7 Consensus size: 23
627483 CTGAATGATT
*
627493 CAGTGCTGACTGATTCAATAAAA
1 CAGTGTTGACTGATTCAATAAAA
*
627516 TAGTGTTGACTGATTCAATAAAA
1 CAGTGTTGACTGATTCAATAAAA
* *
627539 CAGTGTTGATTGATTCAACAAAA
1 CAGTGTTGACTGATTCAATAAAA
* * *
627562 CAGTGTTGATTAATTCAACAAAA
1 CAGTGTTGACTGATTCAATAAAA
627585 CAGTGTTGACTGATTCAATAAAA
1 CAGTGTTGACTGATTCAATAAAA
* *
627608 CAGTGTTAAATGATTCA
1 CAGTGTTGACTGATTCA
627625 GTACAGAAGT
Statistics
Matches: 98, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (23 bp):
CAGTGTTGACTGATTCAATAAAA
Found at i:636748 original size:4 final size:4
Alignment explanation
Indices: 636739--638670 Score: 2929
Period size: 4 Copynumber: 488.8 Consensus size: 4
636729 TACTACTACT
636739 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
636787 TATG TATG TATG TATG TATG TATG TATG TGTG TATG --TG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * *
636833 TGTG TATG TGTG TATG TGTG TATG TGTA TGTG TGTG TGTG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
636881 TGTG TATG TATG --TG TATG TGTG TATG TGTG TATG TGTG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
636927 TATG TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
636975 TATG TATG TATG TATG TATG TATG TATG TATG TGTG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
637023 TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * * * * *
637071 TGTG TGTG TGTG TGTA TGTG TGTG TATG TGTG TATG TGTG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
637119 TATG TGTG TATG TATG TATG TGTG TATG TATG TATG TGTG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
637167 TATG TGTG TATG TGTG TATG TGTG TGTG TGTG TATG TGTG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * * *
637215 TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
637263 TGTG TATG TATG TATG TGTG TATG --TG TATG TATG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637309 TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637356 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637404 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637452 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637500 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637548 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637596 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637644 TATG TATG TATG TATG TATG TATG TATG TATG TATG T-TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637691 TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637737 TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637783 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637831 TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637878 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637926 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
637973 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
638020 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
638068 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
638116 TA-G TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
638163 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
638211 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
638259 TATG TATG TATG TATG TATG TATG TGTG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
638307 TATG TATG TATG TATG TATG --TG TATG TGTG TATG --TG TATG TGTG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
638351 TA-G TGTG TATG TGTG TATG TGTG TATG TGTG TGTG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * *
638398 TGTG TATG TGTG TATG TGTG TATG --TG TATG TGTG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
638444 TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * * * *
638492 TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG TGTG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
638540 TGTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
638588 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * *
638636 CATG CATG CATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
638671 AATATACATC
Statistics
Matches: 1769, Mismatches: 136, Indels: 46
0.91 0.07 0.02
Matches are distributed among these distances:
2 16 0.01
3 20 0.01
4 1733 0.98
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:645357 original size:19 final size:19
Alignment explanation
Indices: 645333--645391 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
645323 AGTATGTGTA
645333 GGGGGAACAGATTCCCCCT
1 GGGGGAACAGATTCCCCCT
645352 GGGGGATATC-GATT-CCCCT
1 GGGGGA-A-CAGATTCCCCCT
645371 ---GGAACAGATTCCCCCT
1 GGGGGAACAGATTCCCCCT
645387 GGGGG
1 GGGGG
645392 GTATCGATTC
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
14 1 0.03
15 5 0.15
16 8 0.24
19 13 0.39
20 5 0.15
21 1 0.03
ACGTcount: A:0.19, C:0.29, G:0.34, T:0.19
Consensus pattern (19 bp):
GGGGGAACAGATTCCCCCT
Found at i:645365 original size:20 final size:20
Alignment explanation
Indices: 645342--645405 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 20
645332 AGGGGGAACA
645342 GATTCCCCCTGGGGGATATC
1 GATTCCCCCTGGGGGATATC
645362 GATT-CCCCT---GGA-A-C
1 GATTCCCCCTGGGGGATATC
*
645376 AGATTCCCCCTGGGGGGTATC
1 -GATTCCCCCTGGGGGATATC
645397 GATTCCCCC
1 GATTCCCCC
645406 CTAAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
14 1 0.03
15 5 0.14
16 8 0.22
19 7 0.19
20 14 0.39
21 1 0.03
ACGTcount: A:0.16, C:0.34, G:0.27, T:0.23
Consensus pattern (20 bp):
GATTCCCCCTGGGGGATATC
Found at i:645382 original size:35 final size:35
Alignment explanation
Indices: 645336--645404 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
645326 ATGTGTAGGG
645336 GGAACAGATTCCCCCTGGGGGATATCGATTCCCCT
1 GGAACAGATTCCCCCTGGGGGATATCGATTCCCCT
*
645371 GGAACAGATTCCCCCTGGGGGGTATCGATTCCCC
1 GGAACAGATTCCCCCTGGGGGATATCGATTCCCC
645405 CCTAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.19, C:0.32, G:0.28, T:0.22
Consensus pattern (35 bp):
GGAACAGATTCCCCCTGGGGGATATCGATTCCCCT
Found at i:651487 original size:35 final size:36
Alignment explanation
Indices: 651422--651489 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
651412 GTGCAGGGGA
651422 AACAGATTCCCCCCTGGGGGATATCAATTCCCCGAG
1 AACAGATTCCCCCCTGGGGGATATCAATTCCCCGAG
* *
651458 AACAGATT-CCCCCTGGGGGGTATCGATTCCCC
1 AACAGATTCCCCCCTGGGGGATATCAATTCCCC
651490 CTAAATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.22, C:0.34, G:0.24, T:0.21
Consensus pattern (36 bp):
AACAGATTCCCCCCTGGGGGATATCAATTCCCCGAG
Found at i:661371 original size:2 final size:2
Alignment explanation
Indices: 661364--661395 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
661354 ACTCAGATAT
661364 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
661396 CTTGGTTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:661814 original size:25 final size:26
Alignment explanation
Indices: 661764--661816 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 26
661754 TATCATTTGT
* *
661764 ATAAAATATCAAGTAGAAAATTAAAA
1 ATAAAATATAAAGTAGAAAATAAAAA
661790 ATAAAAT-TAAAGTA-AATAATAAAAA
1 ATAAAATATAAAGTAGAA-AATAAAAA
661815 AT
1 AT
661817 TGTACGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 15 0.62
26 7 0.29
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.25
Consensus pattern (26 bp):
ATAAAATATAAAGTAGAAAATAAAAA
Found at i:663047 original size:31 final size:32
Alignment explanation
Indices: 663012--663076 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 32
663002 TTCTTAGAAT
*
663012 ATAGGT-ATACTATCAATATGTCTAGAAAGAC
1 ATAGGTAATACTATCAATATGTCCAGAAAGAC
* * * *
663043 ATAGGTAATTCTGTCTATATGTCCCGAAAGAC
1 ATAGGTAATACTATCAATATGTCCAGAAAGAC
663075 AT
1 AT
663077 GTAATTATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 6 0.21
32 22 0.79
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (32 bp):
ATAGGTAATACTATCAATATGTCCAGAAAGAC
Found at i:663093 original size:30 final size:31
Alignment explanation
Indices: 663024--663094 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 31
663014 AGGTATACTA
* *
663024 TCAATATGTCTAGAAAGACATAGGTAATTCTG
1 TCAATATGTCCAGAAAGACATA-GTAATTATG
* *
663056 TCTATATGTCCCGAAAGACAT-GTAATTATG
1 TCAATATGTCCAGAAAGACATAGTAATTATG
663086 TCAATATGT
1 TCAATATGT
663095 TCCATAGAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 16 0.47
32 18 0.53
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (31 bp):
TCAATATGTCCAGAAAGACATAGTAATTATG
Found at i:667880 original size:2 final size:2
Alignment explanation
Indices: 667873--667906 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
667863 TATTCTGAAT
667873 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
667907 AATTAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:674478 original size:2 final size:2
Alignment explanation
Indices: 674471--674507 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
674461 TATTCCAAAT
674471 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
674508 TAAAAGAGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:680374 original size:15 final size:15
Alignment explanation
Indices: 680354--680384 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
680344 TGCTTCTGTG
680354 TAAGCTAATCTATGT
1 TAAGCTAATCTATGT
680369 TAAGCTAATCTATGT
1 TAAGCTAATCTATGT
680384 T
1 T
680385 GCCAGTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (15 bp):
TAAGCTAATCTATGT
Found at i:688148 original size:40 final size:40
Alignment explanation
Indices: 688093--688172 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
688083 TAATTGAGCG
688093 ACTTCCTGTTCACACATGTCCTTAATCAACCATGTTGCTT
1 ACTTCCTGTTCACACATGTCCTTAATCAACCATGTTGCTT
688133 ACTTCCTGTTCACACATGTCCTTAATCAACCATGTTGCTT
1 ACTTCCTGTTCACACATGTCCTTAATCAACCATGTTGCTT
688173 CAAAATGAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.38
Consensus pattern (40 bp):
ACTTCCTGTTCACACATGTCCTTAATCAACCATGTTGCTT
Found at i:691332 original size:66 final size:65
Alignment explanation
Indices: 691250--691378 Score: 240
Period size: 66 Copynumber: 2.0 Consensus size: 65
691240 TAAAATGGTT
*
691250 CCTAAACTTTTAAATATTCTAATTTCATTCCTAAACTATGACTATCATTCTAAACCTAGTCCTCG
1 CCTAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTATCATTCTAAA-CTAGTCCTCG
691315 A
65 A
691316 CCTAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTATCATTCTAAACTAGTCCTC
1 CCTAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTATCATTCTAAACTAGTCCTC
691379 AAACTTTTGA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 9 0.15
66 53 0.85
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (65 bp):
CCTAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTATCATTCTAAACTAGTCCTCGA
Found at i:691349 original size:29 final size:29
Alignment explanation
Indices: 691249--691352 Score: 75
Period size: 29 Copynumber: 3.3 Consensus size: 29
691239 CTAAAATGGT
*
691249 TCCTAAACTTTTAAATATTCTAATTTCAT
1 TCCTAAACTTTTAAATATTCTAATTTCAG
* * *
691278 TCCTAAACTATGACTATCATTCTAAACCTAGTCCTC-G
1 TCCTAAACTTTTA-AAT-ATTCT-AA--T--T--TCAG
*
691315 ACCTAAACTTTTAAATATTCTAATTTCAG
1 TCCTAAACTTTTAAATATTCTAATTTCAG
691344 TCCTAAACT
1 TCCTAAACT
691353 ATGACTATCA
Statistics
Matches: 56, Mismatches: 9, Indels: 20
0.66 0.11 0.24
Matches are distributed among these distances:
28 2 0.04
29 20 0.36
30 3 0.05
31 5 0.09
32 3 0.05
34 3 0.05
35 5 0.09
36 3 0.05
37 10 0.18
38 2 0.04
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (29 bp):
TCCTAAACTTTTAAATATTCTAATTTCAG
Found at i:691383 original size:60 final size:60
Alignment explanation
Indices: 691235--691402 Score: 207
Period size: 66 Copynumber: 2.7 Consensus size: 60
691225 TTATAACCCA
* * *
691235 CATTCTAAAATGGTTCCT-AAACTTTTAAATATTCTAATTTCATTCCTAAACTATGACTAT
1 CATTCTAAACTAG-TCCTCAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTAT
691295 CATTCTAAACCTAGTCCTCGACCTAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTA
1 CATTCTAAA-CTAGTCCT----C-AAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTA
691360 T
60 T
691361 CATTCTAAACTAGTCCTCAAACTTTTGAACAT-TTC-AATTTCA
1 CATTCTAAACTAGTCCTCAAACTTTT-AA-ATATTCTAATTTCA
691403 TCCCAAATTA
Statistics
Matches: 96, Mismatches: 3, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
60 28 0.29
61 8 0.08
62 2 0.02
65 8 0.08
66 50 0.52
ACGTcount: A:0.34, C:0.22, G:0.05, T:0.39
Consensus pattern (60 bp):
CATTCTAAACTAGTCCTCAAACTTTTAAATATTCTAATTTCAGTCCTAAACTATGACTAT
Found at i:691576 original size:29 final size:29
Alignment explanation
Indices: 691531--691622 Score: 82
Period size: 29 Copynumber: 3.1 Consensus size: 29
691521 TTTGGATGAA
691531 TTTGGGGATAAAATTAGAAGATTCAAAAG
1 TTTGGGGATAAAATTAGAAGATTCAAAAG
* *
691560 TTTGGGGACT-AATTTAGAACAAGATTC-ATAG
1 TTTGGGGA-TAAAATTAG---AAGATTCAAAAG
* *
691591 TTTGGGGATGAAATTGGAATG-TTCAAAAG
1 TTTGGGGATAAAATTAGAA-GATTCAAAAG
691620 TTT
1 TTT
691623 AAGGACTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
28 5 0.10
29 21 0.41
30 2 0.04
31 16 0.31
32 7 0.14
ACGTcount: A:0.37, C:0.05, G:0.25, T:0.33
Consensus pattern (29 bp):
TTTGGGGATAAAATTAGAAGATTCAAAAG
Found at i:691629 original size:60 final size:60
Alignment explanation
Indices: 691531--691684 Score: 220
Period size: 60 Copynumber: 2.6 Consensus size: 60
691521 TTTGGATGAA
* ** *
691531 TTTGGGGATAAAATTAGAA-GATTCAAAAGTTTGGGGACTAATTTAGAACAAGATTCATAG
1 TTTGGGGATAAAATTGGAATG-TTCAAAAGTTTAAGGACTAATTTAGAACAAGAATCATAG
* **
691591 TTTGGGGATGAAATTGGAATGTTCAAAAGTTTAAGGACTAATTTAGAATGAGAATCATAG
1 TTTGGGGATAAAATTGGAATGTTCAAAAGTTTAAGGACTAATTTAGAACAAGAATCATAG
*
691651 TTTGGGGATAAAATTGGAATGTTTAAAAGTTTAA
1 TTTGGGGATAAAATTGGAATGTTCAAAAGTTTAA
691685 AGAAGGGTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
60 83 0.99
61 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (60 bp):
TTTGGGGATAAAATTGGAATGTTCAAAAGTTTAAGGACTAATTTAGAACAAGAATCATAG
Found at i:696718 original size:195 final size:195
Alignment explanation
Indices: 696381--696764 Score: 552
Period size: 195 Copynumber: 2.0 Consensus size: 195
696371 CGACAGGCTC
* ** * * *
696381 GGACGACATCGATGATGGTTTGATTACAGAATACGAGGTCTTGTTCTTTCAAGACTTCTTTCGCG
1 GGACGACATCAATGACAGTATGATTACAGAAGACGAGGTCCTGTTCTTTCAAGACTTCTTTCGCG
** * * * *
696446 GTTGTTTTTGATGAAACGACGACGGTGAATAATCTACCGAGTTGGAGACCCATAACGACGCCGTG
66 GTTGTTTCCGATGAAACGACGACGGTGAATAAGCTACCAAGTTAGAGACCCATAACGACGCCGTA
* *
696511 AACCTGAGCGAGCTTAACCAATAACCTGTGGGGTTTATCACCAAGATCGAAGAGATTGCCGAAAA
131 AACCTAAGCGAGCTTAACCAATAACCTATGGGGTTTATCACCAAGATCGAAGAGATTGCCGAAAA
*
696576 GGACGACATCAATGACAGTATGGTTACAGAAGACGAGGTCCTGTTCTTTCAAGACTTCTTTCGCG
1 GGACGACATCAATGACAGTATGATTACAGAAGACGAGGTCCTGTTCTTTCAAGACTTCTTTCGCG
* * * ** *
696641 GTTGTTTCCGATGAAACGACGATGGTGAATAAGCTGCCAAGTTAGAGACCCATAATGGGGCCTTA
66 GTTGTTTCCGATGAAACGACGACGGTGAATAAGCTACCAAGTTAGAGACCCATAACGACGCCGTA
* * *
696706 AACCTAAGCGAGCTTAGCCAATGACCTATGGGGTTTATCACCAAGATCGAAGAGGTTGC
131 AACCTAAGCGAGCTTAACCAATAACCTATGGGGTTTATCACCAAGATCGAAGAGATTGC
696765 TGAAGATCGG
Statistics
Matches: 165, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
195 165 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (195 bp):
GGACGACATCAATGACAGTATGATTACAGAAGACGAGGTCCTGTTCTTTCAAGACTTCTTTCGCG
GTTGTTTCCGATGAAACGACGACGGTGAATAAGCTACCAAGTTAGAGACCCATAACGACGCCGTA
AACCTAAGCGAGCTTAACCAATAACCTATGGGGTTTATCACCAAGATCGAAGAGATTGCCGAAAA
Found at i:697672 original size:55 final size:55
Alignment explanation
Indices: 697606--697713 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 55
697596 AACAACTGAC
* * * * *
697606 GTGTAAATTCCACGTCAGCACATATTAATGACGTGGACATGCCACGTCATCATTT
1 GTGTAAATTCCACATCAGCACAAAATAATGACATGGAAATGCCACGTCATCATTT
* *
697661 GTGTAAATTCCACATCAGCATAAAATAGTGACATGGAAATGCCACGTCATCAT
1 GTGTAAATTCCACATCAGCACAAAATAATGACATGGAAATGCCACGTCATCAT
697714 CGGTGACCAC
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (55 bp):
GTGTAAATTCCACATCAGCACAAAATAATGACATGGAAATGCCACGTCATCATTT
Found at i:697998 original size:17 final size:17
Alignment explanation
Indices: 697963--698001 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
697953 ATTAACATAC
*
697963 ATATAAGCATATTATTG
1 ATATAAGCATATTAGTG
697980 ATATAAGCATAATT-GTG
1 ATATAAGCAT-ATTAGTG
697997 ATATA
1 ATATA
698002 TTATTGTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (17 bp):
ATATAAGCATATTAGTG
Found at i:698861 original size:21 final size:22
Alignment explanation
Indices: 698813--698853 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
698803 TTAATTAAGG
698813 AAAAGG-TATATAGATAAGTAT
1 AAAAGGATATATAGATAAGTAT
698834 AAAAGGATAT-TAGATAAGTA
1 AAAAGGATATATAGATAAGTA
698854 GTGAAGGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.27
Consensus pattern (22 bp):
AAAAGGATATATAGATAAGTAT
Found at i:704333 original size:21 final size:21
Alignment explanation
Indices: 704295--704344 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
704285 ATTAGTGATG
* * *
704295 TTTTTTAAATAATATTTTGAA
1 TTTTTCAAACAATATTTTCAA
*
704316 TTTTTCAAACAATTTTTTCAA
1 TTTTTCAAACAATATTTTCAA
704337 TTTGTTCA
1 TTT-TTCA
704345 TCAATTTAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTTTCAAACAATATTTTCAA
Found at i:706632 original size:29 final size:29
Alignment explanation
Indices: 706606--706797 Score: 235
Period size: 29 Copynumber: 6.6 Consensus size: 29
706596 TTATAAAATA
706606 TTTTGTACTTTATTGTAAATTCCAAAAAG
1 TTTTGTACTTTATTGTAAATTCCAAAAAG
*
706635 TTTTGTATTTTATTGTAAATTCCAAAAAG
1 TTTTGTACTTTATTGTAAATTCCAAAAAG
706664 TTTTGT-CATTTATTGTAAATTCCAAAAAG
1 TTTTGTAC-TTTATTGTAAATTCCAAAAAG
* * * **
706693 TTTTATCCTTTATTGTAAATTACAATTAG
1 TTTTGTACTTTATTGTAAATTCCAAAAAG
* * *
706722 TTTTGTTCTTTACTGTAAATTTCAAAAAG
1 TTTTGTACTTTATTGTAAATTCCAAAAAG
* * *
706751 TTTTATCCTTTATTGTAAATTTCAAAAAG
1 TTTTGTACTTTATTGTAAATTCCAAAAAG
*
706780 TTCTGT-CTGTTATTGTAA
1 TTTTGTACT-TTATTGTAA
706798 TTTTATATTT
Statistics
Matches: 143, Mismatches: 17, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
28 2 0.01
29 140 0.98
30 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.48
Consensus pattern (29 bp):
TTTTGTACTTTATTGTAAATTCCAAAAAG
Found at i:706676 original size:58 final size:58
Alignment explanation
Indices: 706551--706797 Score: 252
Period size: 58 Copynumber: 4.3 Consensus size: 58
706541 TTGTAAGAAA
* * ** * * *
706551 TGTCA-TTATTGTAATTTCTATGAAGTTTTATATTTTTATTGTAATTTATAAAATA-TTT
1 TGTCATTTATTGTAAATTCCAAAAAGTTTTATA-CTTTATTGTAAATTACAAAA-AGTTT
* * *
706609 TGT-ACTTTATTGTAAATTCCAAAAAGTTTTGTATTTTATTGTAAATTCCAAAAAGTTT
1 TGTCA-TTTATTGTAAATTCCAAAAAGTTTTATACTTTATTGTAAATTACAAAAAGTTT
* **
706667 TGTCATTTATTGTAAATTCCAAAAAGTTTTATCCTTTATTGTAAATTACAATTAGTTT
1 TGTCATTTATTGTAAATTCCAAAAAGTTTTATACTTTATTGTAAATTACAAAAAGTTT
* * * * *
706725 TGTTC-TTTACTGTAAATTTCAAAAAGTTTTATCCTTTATTGTAAATTTCAAAAAGTTC
1 TG-TCATTTATTGTAAATTCCAAAAAGTTTTATACTTTATTGTAAATTACAAAAAGTTT
706783 TGTC-TGTTATTGTAA
1 TGTCAT-TTATTGTAA
706798 TTTTATATTT
Statistics
Matches: 162, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
57 5 0.03
58 132 0.81
59 25 0.15
ACGTcount: A:0.32, C:0.09, G:0.10, T:0.50
Consensus pattern (58 bp):
TGTCATTTATTGTAAATTCCAAAAAGTTTTATACTTTATTGTAAATTACAAAAAGTTT
Found at i:712009 original size:2 final size:2
Alignment explanation
Indices: 712004--712497 Score: 963
Period size: 2 Copynumber: 247.5 Consensus size: 2
711994 TTTACATATT
* *
712004 TG TG TG TG TG TA TA TG T- TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712045 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712087 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712129 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712171 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712213 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712255 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712297 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712339 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712381 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712423 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
712465 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
712498 ATGTATGTAT
Statistics
Matches: 489, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
1 1 0.00
2 488 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.50
Consensus pattern (2 bp):
TG
Found at i:712502 original size:4 final size:4
Alignment explanation
Indices: 712495--713759 Score: 2530
Period size: 4 Copynumber: 316.2 Consensus size: 4
712485 TGTGTGTGTG
712495 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712543 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712591 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712639 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712687 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712735 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712783 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712831 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712879 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712927 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
712975 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713023 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713071 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713119 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713167 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713215 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713263 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713311 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713359 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713407 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713455 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713503 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713551 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713599 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713647 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713695 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
713743 TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA T
713760 ATGTAAATAA
Statistics
Matches: 1261, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 1261 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:722306 original size:7 final size:7
Alignment explanation
Indices: 722261--722308 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
722251 TTATTAGTAT
*
722261 TTATTTT
1 TTATTTA
722268 TTATTTA
1 TTATTTA
722275 TTATTTGA
1 TTATTT-A
722283 CTTATTTAA
1 -TTATTT-A
*
722292 TTAGTTA
1 TTATTTA
722299 TTATTTA
1 TTATTTA
722306 TTA
1 TTA
722309 ATTGCAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 22 0.63
8 6 0.17
9 7 0.20
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (7 bp):
TTATTTA
Found at i:722431 original size:14 final size:14
Alignment explanation
Indices: 722414--722444 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
722404 TCTTTTTAAA
722414 TTATTAGAATTTAT
1 TTATTAGAATTTAT
*
722428 TTATTTGAATTTAT
1 TTATTAGAATTTAT
722442 TTA
1 TTA
722445 AATAATTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.61
Consensus pattern (14 bp):
TTATTAGAATTTAT
Found at i:724455 original size:33 final size:34
Alignment explanation
Indices: 724398--724489 Score: 88
Period size: 33 Copynumber: 2.8 Consensus size: 34
724388 GATGATGAAG
* *
724398 ATGAGGACGAG--GATGAGGATGAGGAGA-AA-A
1 ATGAGGACGAGATGATGACGACGAGGAGATAAGA
724428 ATGAGGACGATGATGATGACGACGAGGATGATAAGA
1 ATGAGGACGA-GATGATGACGACGAGGA-GATAAGA
* *
724464 ATGACGAC-A-ATGAGGACGACGAGGAG
1 ATGAGGACGAGATGATGACGACGAGGAG
724490 CAGTATATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
30 10 0.19
31 1 0.02
32 1 0.02
33 27 0.52
34 2 0.04
35 3 0.06
36 8 0.15
ACGTcount: A:0.40, C:0.09, G:0.39, T:0.12
Consensus pattern (34 bp):
ATGAGGACGAGATGATGACGACGAGGAGATAAGA
Found at i:725339 original size:32 final size:32
Alignment explanation
Indices: 725298--725361 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
725288 TAAGAAAAGT
725298 CTATTTTAGGTGTATGTGTATGCTTTTATTTA
1 CTATTTTAGGTGTATGTGTATGCTTTTATTTA
725330 CTATTTTAGGTGTATGTGTATGCTTTTATTTA
1 CTATTTTAGGTGTATGTGTATGCTTTTATTTA
725362 TTGTTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.19, C:0.06, G:0.19, T:0.56
Consensus pattern (32 bp):
CTATTTTAGGTGTATGTGTATGCTTTTATTTA
Found at i:726508 original size:83 final size:82
Alignment explanation
Indices: 726322--726750 Score: 491
Period size: 83 Copynumber: 5.2 Consensus size: 82
726312 CCCCATTTTT
* * * *
726322 AGAGAATCTCTGTCATGTCATAGTGTTTCATCCCATCCGAAATGAAAGATGCATTCTAGGGAAGC
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGCATTCCAGGGAAGC
726387 ATTTTCCATTATTATTC
66 ATTTTCCATTATTATTC
* * * *
726404 AGAGAATCTCTGTCATATCATAGTGTTCCATCCCATTCGAAATGAAAGGCGCATTCCACGGGAAG
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGCATTCCA-GGGAAG
*
726469 CATTTTCTATTATTATTC
65 CATTTTCCATTATTATTC
* * * * * *
726487 AGAGAATCTCTACCATGTCATAGTGTTCAATCCCATCCAAAATAAAAGATGCTTTCCAGTGG-AG
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGCATTCCAG-GGAAG
726551 CATTTTCCATTATTATTC
65 CATTTTCCATTATTATTC
* * * * * **
726569 AGAGAATCTCTACCATGTCATAATGTTCAATCTCATCCAAAATGAAAGGTGTGTTCCATGGGAAG
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGCATTCCA-GGGAAG
** * *
726634 TGTTTTCCATGATTATTA
65 CATTTTCCATTATTATTC
** * ** *
726652 AGAGAATCTCTGTTATGTCATAGTGTTTCATCATATCCGAAATGAAAGGTGCGTTCCAGGGGAAG
1 AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGCATTCCA-GGGAAG
*
726717 CGTTTTCCATTATTATTC
65 CATTTTCCATTATTATTC
* * *
726735 AAAGAATTTCTTCCAT
1 AGAGAATCTCTGCCAT
726751 TTGACATAAT
Statistics
Matches: 296, Mismatches: 47, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
82 126 0.43
83 170 0.57
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (82 bp):
AGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATCCGAAATGAAAGGTGCATTCCAGGGAAGC
ATTTTCCATTATTATTC
Found at i:726614 original size:165 final size:165
Alignment explanation
Indices: 726322--726750 Score: 529
Period size: 165 Copynumber: 2.6 Consensus size: 165
726312 CCCCATTTTT
*
726322 AGAGAATCTCTGTCATGTCATAGTGTTTCATCCCATCCGAAATGAAAGATGCATTCTAGGGAAGC
1 AGAGAATCTCTGTCATGTCATAGTGTTTCATCCCATCCGAAATGAAAGATGCATTCCAGGGAAGC
** * * * *
726387 ATTTTCCATTATTATTCAGAGAATCTCTGTCATATCATAGTGTTCCATCCCATTCGAAATGAAAG
66 ATTTTCCATTATTATTCAGAGAATCTCTACCATATCATAATGTTCAATCCCATCCAAAATGAAAG
* * *
726452 GCGCATTCCACGGGAAGCATTTTCTATTATTATTC
131 GCGCATTCCACGGGAAGCATTTTCCATGATTATTA
** * * *
726487 AGAGAATCTCTACCATGTCATAGTG-TTCAATCCCATCCAAAATAAAAGATGCTTTCCAGTGG-A
1 AGAGAATCTCTGTCATGTCATAGTGTTTC-ATCCCATCCGAAATGAAAGATGCATTCCAG-GGAA
* *
726550 GCATTTTCCATTATTATTCAGAGAATCTCTACCATGTCATAATGTTCAATCTCATCCAAAATGAA
64 GCATTTTCCATTATTATTCAGAGAATCTCTACCATATCATAATGTTCAATCCCATCCAAAATGAA
* ** * **
726615 AGGTGTGTTCCATGGGAAGTGTTTTCCATGATTATTA
129 AGGCGCATTCCACGGGAAGCATTTTCCATGATTATTA
* ** * *
726652 AGAGAATCTCTGTTATGTCATAGTGTTTCATCATATCCGAAATGAAAGGTGCGTTCCAGGGGAAG
1 AGAGAATCTCTGTCATGTCATAGTGTTTCATCCCATCCGAAATGAAAGATGCATTCCA-GGGAAG
* * * *
726717 CGTTTTCCATTATTATTCAAAGAATTTCTTCCAT
65 CATTTTCCATTATTATTCAGAGAATCTCTACCAT
726751 TTGACATAAT
Statistics
Matches: 223, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
164 3 0.01
165 182 0.82
166 38 0.17
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (165 bp):
AGAGAATCTCTGTCATGTCATAGTGTTTCATCCCATCCGAAATGAAAGATGCATTCCAGGGAAGC
ATTTTCCATTATTATTCAGAGAATCTCTACCATATCATAATGTTCAATCCCATCCAAAATGAAAG
GCGCATTCCACGGGAAGCATTTTCCATGATTATTA
Found at i:727953 original size:189 final size:189
Alignment explanation
Indices: 727627--727988 Score: 591
Period size: 189 Copynumber: 1.9 Consensus size: 189
727617 ACTACAATTC
* * *
727627 AGCATGAACTTTGATGATGATGCGGATGAAGTTCCTACAAATATGGTACAATACGAACCTCTAGC
1 AGCATGAACTCTGATGATGATGCGGATGAAGTTCCTACAAATATAGTACAATACGAACCTCCAGC
* * * *
727692 ACACATGTATGAAGTTGACTATGATTCGATGTATAGGGCATAATTTCCTAATATGCCTCATCTTA
66 ACACATGTATGAAGCTGACTATGATGCGATGTACAGGGCATAATTTCCTAATATGCATCATCTTA
*
727757 GAGACTATGGGAGACATTCATCAGTTAATGATGGTGATTTATATCATAGAATGGAGTTT
131 GAGACTATGAGAGACATTCATCAGTTAATGATGGTGATTTATATCATAGAATGGAGTTT
* *
727816 AGCATGAACTCTGTTGATGATGCGGATGAAGTTCCTACAAATATAGTATAATACGAACCTCCAGC
1 AGCATGAACTCTGATGATGATGCGGATGAAGTTCCTACAAATATAGTACAATACGAACCTCCAGC
* *
727881 ACACATGTATGAAGCTGACTATGATGCGATGTACGGGGCATAATTTCCTAATATGCATCAT-TTT
66 ACACATGTATGAAGCTGACTATGATGCGATGTACAGGGCATAATTTCCTAATATGCATCATCTTA
*
727945 GAAGACTATGAGAGACATTCATCAGTTAATTATGGTGATTTATA
131 G-AGACTATGAGAGACATTCATCAGTTAATGATGGTGATTTATA
727989 ACGTGGAATG
Statistics
Matches: 159, Mismatches: 13, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
188 3 0.02
189 156 0.98
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (189 bp):
AGCATGAACTCTGATGATGATGCGGATGAAGTTCCTACAAATATAGTACAATACGAACCTCCAGC
ACACATGTATGAAGCTGACTATGATGCGATGTACAGGGCATAATTTCCTAATATGCATCATCTTA
GAGACTATGAGAGACATTCATCAGTTAATGATGGTGATTTATATCATAGAATGGAGTTT
Found at i:730139 original size:71 final size:71
Alignment explanation
Indices: 730023--730173 Score: 257
Period size: 71 Copynumber: 2.1 Consensus size: 71
730013 AATCAACTTT
* *
730023 AACCCTAAACCCTACTTTAAAAACACAAATATTCTAACATACAATCAATTTTAGCCTTAAACTTC
1 AACCCTAAACCCTACTTTAAAAACACAAACATTCTAACATACAATCAATTTTAACCTTAAACTTC
730088 TTTAAA
66 TTTAAA
* *
730094 AACCCTATACCCTACTTTAAAAACACAAACATTCTAACATACAATCTATTTTAACCTTAAACTTC
1 AACCCTAAACCCTACTTTAAAAACACAAACATTCTAACATACAATCAATTTTAACCTTAAACTTC
730159 TTTAAA
66 TTTAAA
*
730165 AACCTTAAA
1 AACCCTAAA
730174 TCATACAAAT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
71 74 1.00
ACGTcount: A:0.44, C:0.25, G:0.01, T:0.31
Consensus pattern (71 bp):
AACCCTAAACCCTACTTTAAAAACACAAACATTCTAACATACAATCAATTTTAACCTTAAACTTC
TTTAAA
Found at i:734125 original size:25 final size:24
Alignment explanation
Indices: 734081--734130 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
734071 TATGTATTGA
734081 ATATCTTAATAATTATTTATATTTT
1 ATATCTTAATAATTATTTAT-TTTT
*
734106 ATATTTTAATAATT-TCTTATTTTT
1 ATATCTTAATAATTAT-TTATTTTT
734130 A
1 A
734131 AAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATCTTAATAATTATTTATTTTT
Found at i:738501 original size:15 final size:15
Alignment explanation
Indices: 738481--738513 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
738471 AACCTTTTAA
738481 AAATTTGATCCAATC
1 AAATTTGATCCAATC
*
738496 AAATTTGATCGAATC
1 AAATTTGATCCAATC
738511 AAA
1 AAA
738514 ACCAGTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.30
Consensus pattern (15 bp):
AAATTTGATCCAATC
Found at i:743190 original size:4 final size:4
Alignment explanation
Indices: 743181--743447 Score: 208
Period size: 4 Copynumber: 68.2 Consensus size: 4
743171 GCAAAAAGAT
743181 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
743229 GGGA GGGA GGGA GGGA GGGG GAG- GAGA GAGA GAGA GAGA GAGA -AAA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
743275 AAAA AAGA GA-A G-GA GGGA GGGA GAGG GAGA GAGA GGGA CG-GA GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA -GAGA GAGA
* * *
743321 CG-GA GAGA GAGG GAGA GAGA GAGA GGGA GAGA GA-A G-GA GAGA GAGG
1 -GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
743367 GAGA GAGA GGGA GAGG GAAA GAGA GGGA GAGA GAGA GGGA AAGA GAGG
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * *
743415 GAGA GGGA GAGG GAGA GGGA GAGA GAGA GAGA G
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA G
743448 TGAAATTATA
Statistics
Matches: 217, Mismatches: 36, Indels: 20
0.79 0.13 0.07
Matches are distributed among these distances:
3 15 0.07
4 200 0.92
5 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.56, T:0.00
Consensus pattern (4 bp):
GAGA
Found at i:743192 original size:6 final size:6
Alignment explanation
Indices: 743181--743447 Score: 208
Period size: 6 Copynumber: 45.5 Consensus size: 6
743171 GCAAAAAGAT
743181 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * *
743229 GGGAGG GAGGGA GGGAGG GGGAG- GAGAGA GAGAGA GAGAGA GA-AAA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * * *
743275 AAAAAA GAGA-A G-GAGG GAGGGA GAGGGA GAGAGA GGGACG- GAGGGA
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGA-GA GAGAGA
* * *
743321 CG-GAGA GAGAGG GAGAGA GAGAGA GGGAGA GAGA-A G-GAGA GAGAGG
1 -GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * * * * * *
743367 GAGAGA GAGGGA GAGGGA AAGAGA GGGAGA GAGAGA GGGAAA GAGAGG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA
* * *
743415 GAGAGG GAGAGG GAGAGG GAGAGA GAGAGA GAG
1 GAGAGA GAGAGA GAGAGA GAGAGA GAGAGA GAG
743448 TGAAATTATA
Statistics
Matches: 212, Mismatches: 39, Indels: 20
0.78 0.14 0.07
Matches are distributed among these distances:
4 4 0.02
5 16 0.08
6 190 0.90
7 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.56, T:0.00
Consensus pattern (6 bp):
GAGAGA
Found at i:743196 original size:10 final size:10
Alignment explanation
Indices: 743181--743447 Score: 208
Period size: 10 Copynumber: 27.3 Consensus size: 10
743171 GCAAAAAGAT
743181 GAGAGAGAGA
1 GAGAGAGAGA
743191 GAGAGAGAGA
1 GAGAGAGAGA
743201 GAGAGAGAGA
1 GAGAGAGAGA
743211 GAGAGAGAGA
1 GAGAGAGAGA
*
743221 GAGAGAGAGG
1 GAGAGAGAGA
* *
743231 GAGGGAGGGA
1 GAGAGAGAGA
* * *
743241 GGGAGGGGGA
1 GAGAGAGAGA
743251 G-GAGAGAGA
1 GAGAGAGAGA
743260 GAGAGAGAGA
1 GAGAGAGAGA
* * *
743270 GA-AAAAAAA
1 GAGAGAGAGA
*
743279 AAGAGA-AG-
1 GAGAGAGAGA
* *
743287 GAGGGAGGGA
1 GAGAGAGAGA
*
743297 GAGGGAGAGA
1 GAGAGAGAGA
*
743307 GAGGGACG-GA
1 GAGAGA-GAGA
*
743317 GGGACG-GAGA
1 GAGA-GAGAGA
*
743327 GAGAGGGAGA
1 GAGAGAGAGA
*
743337 GAGAGAGAGG
1 GAGAGAGAGA
743347 GAGAGAGA-A
1 GAGAGAGAGA
743356 G-GAGAGAGA
1 GAGAGAGAGA
*
743365 GGGAGAGAGA
1 GAGAGAGAGA
* *
743375 GGGAGAGGGA
1 GAGAGAGAGA
* *
743385 AAGAGAGGGA
1 GAGAGAGAGA
*
743395 GAGAGAGAGG
1 GAGAGAGAGA
* *
743405 GAAAGAGAGG
1 GAGAGAGAGA
*
743415 GAGAGGGAGA
1 GAGAGAGAGA
* *
743425 GGGAGAGGGA
1 GAGAGAGAGA
743435 GAGAGAGAGA
1 GAGAGAGAGA
743445 GAG
1 GAG
743448 TGAAATTATA
Statistics
Matches: 207, Mismatches: 40, Indels: 20
0.78 0.15 0.07
Matches are distributed among these distances:
8 10 0.05
9 19 0.09
10 176 0.85
11 2 0.01
ACGTcount: A:0.43, C:0.01, G:0.56, T:0.00
Consensus pattern (10 bp):
GAGAGAGAGA
Found at i:746587 original size:18 final size:18
Alignment explanation
Indices: 746546--746598 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
746536 TTTTATGTTG
* *
746546 TTTAATTGAATGTTATATT
1 TTTAATTGAATATTAT-GT
746565 TTTAACTT-AATATTATGT
1 TTTAA-TTGAATATTATGT
746583 TTTAATTGAATATTAT
1 TTTAATTGAATATTAT
746599 ATATATTTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 2 0.07
18 14 0.47
19 12 0.40
20 2 0.07
ACGTcount: A:0.34, C:0.02, G:0.08, T:0.57
Consensus pattern (18 bp):
TTTAATTGAATATTATGT
Found at i:752320 original size:18 final size:18
Alignment explanation
Indices: 752297--752343 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
752287 ATTTATGAGA
752297 GAATTGAAAT-ATGTGAAG
1 GAATTGAAATCA-GTGAAG
*
752315 GAATTGGAATCAGTGAAG
1 GAATTGAAATCAGTGAAG
*
752333 GAATTGGAATC
1 GAATTGAAATC
752344 TGTCAGGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 26 0.96
19 1 0.04
ACGTcount: A:0.40, C:0.04, G:0.30, T:0.26
Consensus pattern (18 bp):
GAATTGAAATCAGTGAAG
Found at i:752353 original size:17 final size:17
Alignment explanation
Indices: 752313--752377 Score: 103
Period size: 17 Copynumber: 3.8 Consensus size: 17
752303 AAATATGTGA
* *
752313 AGGAATTGGAATCAGTGA
1 AGGAATTGGAATCTGT-C
752331 AGGAATTGGAATCTGTC
1 AGGAATTGGAATCTGTC
752348 AGGAATTGGAATCTGTC
1 AGGAATTGGAATCTGTC
752365 AGGAATTGGAATC
1 AGGAATTGGAATC
752378 CAATTCTATA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
17 30 0.67
18 15 0.33
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (17 bp):
AGGAATTGGAATCTGTC
Found at i:753204 original size:232 final size:231
Alignment explanation
Indices: 752784--753293 Score: 687
Period size: 232 Copynumber: 2.2 Consensus size: 231
752774 TAGAAACTCG
* * *
752784 ACCCGACACGACAC-AAATAATAAAAAAATATTTTTATTCAATAAAAACATTGACTTAATTGAAA
1 ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAA
* *
752848 AAAAATATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTT
66 AAAAATATATATAGAGGGGTATTATTGTAATCATTCCTAAATATATAAAGTAAAATTATATATTT
* *
752913 TGTTCGGGTCGGTCTGGTTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGAATATCACACTT
131 TGTT--GG-CGGTCTGGTATTTTTCACCCTAAACCCGAACCCGACCCGACCCAAATATCACACTT
* **
752978 AAAAAACTCAACTCGACCCGA-AC-AA-A-ATAAAGTT-TC
193 AAAAAAC-CAACCCGACCCGACACGAATATATAAA-TTAAA
753014 ACCCGACCCGACCCGAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTGAA
1 ACCCGACCCGACCCGAAATAATAAAAAAA-TATTTTTATTCAATAAAAACAGTGACTTAATTG-A
*
753079 AAATATATATATATATATATAGGGGTATTATTGTAATCATTCCTAAATATATAAAGTAAAATTAT
64 AAA-A-A-A-ATATATATAGAGGGGTATTATTGTAATCATTCCTAAATATATAAAGTAAAATTAT
* *
753144 ATATATTT-TT-G-GGTCTGGTATTTTTCACCCTAAACCCGAACTCGACCCTACCCAAATATCAC
125 ATAT-TTTGTTGGCGGTCTGGTATTTTTCACCCTAAACCCGAACCCGACCCGACCCAAATATCAC
* * *
753206 ACTTAAAAAACCGACCCGACCCGACCCGAATATATGAATTAGAA
189 ACTTAAAAAACCAACCCGACCCGACACGAATATATAAATTA-AA
*
753250 ACCCGACCCGACCCGAAATAAAAAAAAAATATTTTTATTCAATA
1 ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATA
753294 TATGAATAAG
Statistics
Matches: 249, Mismatches: 17, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
230 12 0.05
231 25 0.10
232 91 0.37
233 6 0.02
234 5 0.02
235 20 0.08
236 29 0.12
237 58 0.23
238 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (231 bp):
ACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAA
AAAAATATATATAGAGGGGTATTATTGTAATCATTCCTAAATATATAAAGTAAAATTATATATTT
TGTTGGCGGTCTGGTATTTTTCACCCTAAACCCGAACCCGACCCGACCCAAATATCACACTTAAA
AAACCAACCCGACCCGACACGAATATATAAATTAAA
Found at i:753226 original size:36 final size:36
Alignment explanation
Indices: 753186--753265 Score: 92
Period size: 36 Copynumber: 2.2 Consensus size: 36
753176 AACCCGAACT
*
753186 CGACCCTACCC-AA-ATATCACACTTAAAAAACCGACC
1 CGACCCGACCCGAATATATCA-A-TTAAAAAACCGACC
* * *
753222 CGACCCGACCCGAATATATGAATTAGAAACCCGACC
1 CGACCCGACCCGAATATATCAATTAAAAAACCGACC
753258 CGACCCGA
1 CGACCCGA
753266 AATAAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
36 30 0.79
37 3 0.08
38 5 0.13
ACGTcount: A:0.38, C:0.38, G:0.12, T:0.12
Consensus pattern (36 bp):
CGACCCGACCCGAATATATCAATTAAAAAACCGACC
Found at i:760194 original size:31 final size:32
Alignment explanation
Indices: 760149--760233 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 32
760139 ATTTACGCAG
*
760149 GATGGT-GAAGAGATTATAAGGAGAAAGAGAA
1 GATGGTGGAAGAGATTAGAAGGAGAAAGAGAA
* * *
760180 GATGGTGGAA-AGATTAGAATGAGGAAGATAA
1 GATGGTGGAAGAGATTAGAAGGAGAAAGAGAA
* * *
760211 GATGATGGAGAGAGTTTTGAAGG
1 GATGGTGGA-AGAGATTAGAAGG
760234 TGAGGGTGAG
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
31 31 0.72
32 4 0.09
33 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (32 bp):
GATGGTGGAAGAGATTAGAAGGAGAAAGAGAA
Found at i:765527 original size:18 final size:19
Alignment explanation
Indices: 765493--765533 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
765483 TATTTCAAAG
*
765493 ATATGAAATATGGTTTG-A
1 ATATGAAATATGATTTGTA
765511 ATATGAAATTAT-ATTTGTA
1 ATATGAAA-TATGATTTGTA
765530 ATAT
1 ATAT
765534 TTTAATAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (19 bp):
ATATGAAATATGATTTGTA
Found at i:766442 original size:2 final size:2
Alignment explanation
Indices: 766435--766478 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
766425 GATATGCATA
766435 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
766476 AT A
1 AT A
766479 ATTTTATGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:772699 original size:18 final size:18
Alignment explanation
Indices: 772676--772715 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
772666 AAAGGCGATG
*
772676 GCGGCATCATATATGACT
1 GCGGCATCATAAATGACT
*
772694 GCGGCATCATAAATGGCT
1 GCGGCATCATAAATGACT
772712 GCGG
1 GCGG
772716 TGGCTGCTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.23
Consensus pattern (18 bp):
GCGGCATCATAAATGACT
Found at i:774739 original size:18 final size:18
Alignment explanation
Indices: 774716--774750 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
774706 CCTACCTCCA
*
774716 CCACTCCCACGATTCATT
1 CCACTCACACGATTCATT
*
774734 CCACTCACTCGATTCAT
1 CCACTCACACGATTCAT
774751 ACATACATTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.43, G:0.06, T:0.29
Consensus pattern (18 bp):
CCACTCACACGATTCATT
Found at i:780033 original size:21 final size:21
Alignment explanation
Indices: 780008--780047 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
779998 AATGCTAGAG
*
780008 GGGTATCGATACCCTGTTACA
1 GGGTACCGATACCCTGTTACA
780029 GGGTACCGATACCCTGTTA
1 GGGTACCGATACCCTGTTA
780048 TAGTATTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.28
Consensus pattern (21 bp):
GGGTACCGATACCCTGTTACA
Found at i:788205 original size:12 final size:12
Alignment explanation
Indices: 788188--788215 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
788178 CTTTTTAAAC
788188 TTAAAATTATAA
1 TTAAAATTATAA
788200 TTAAAATTATAA
1 TTAAAATTATAA
788212 TTAA
1 TTAA
788216 TGAAAATTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TTAAAATTATAA
Found at i:788928 original size:20 final size:20
Alignment explanation
Indices: 788905--788956 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
788895 AACGCGATCC
788905 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
788925 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
788945 CCAAAATCGCAA
1 CCAGAATCGCAA
788957 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:788973 original size:21 final size:20
Alignment explanation
Indices: 788946--789044 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
788936 AATCAGTTTC
788946 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
788967 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
788988 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
789008 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
789029 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
789045 ACACATAAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
20 16 0.27
21 43 0.73
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:789073 original size:20 final size:20
Alignment explanation
Indices: 789011--789204 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
789001 CGATTTTCCA
* ** *
789011 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
789031 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
789051 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
789071 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
789091 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
789111 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
789131 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
* * *
789151 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGT-ATCCGT
789171 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTATCCGT
789192 AAATCGCAACGCG
1 AAATCGCAACGCG
789205 ATATTTAAAG
Statistics
Matches: 146, Mismatches: 23, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 126 0.86
21 17 0.12
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:789095 original size:60 final size:60
Alignment explanation
Indices: 789011--789204 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
789001 CGATTTTCCA
* ** * *
789011 AAATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* * *** *
789071 AAATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
* **
789131 ATATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGT
789192 AAATCGCAACGCG
1 AAATCGCAACGCG
789205 ATATTTAAAG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.72
61 31 0.28
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AAATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGT
Found at i:789625 original size:33 final size:33
Alignment explanation
Indices: 789586--789656 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
789576 TTCACTTAGA
*
789586 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
789619 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
789652 TTTCA
1 TTTCA
789657 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:789796 original size:14 final size:14
Alignment explanation
Indices: 789777--789831 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
789767 AGAATGACTG
789777 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
789791 TCGCAACGCGAAATGGAAA
1 TCGCAA--CGAGA--G-AA
789810 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
789824 TCGCAACG
1 TCGCAACG
789832 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 1 0.03
16 4 0.12
17 4 0.12
18 1 0.03
19 8 0.24
ACGTcount: A:0.40, C:0.24, G:0.27, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:789844 original size:33 final size:33
Alignment explanation
Indices: 789777--789847 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
789767 AGAATGACTG
***
789777 TCGCAACGAGAGAATCGCAACGCGAAATGGAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
789810 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
789843 TCGCA
1 TCGCA
789848 TTGCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.25, G:0.24, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:789865 original size:19 final size:19
Alignment explanation
Indices: 789843--789940 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
789833 GAAACCAAAA
*
789843 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
789862 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
789876 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
789895 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
789909 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
789928 TCGCGTTGCGATT
1 TCGCGTTGCGATT
789941 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:789884 original size:14 final size:14
Alignment explanation
Indices: 789865--789954 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
789855 TTTCATTTCG
789865 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
789879 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
789898 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
789912 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
789929 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
789945 CGTTGCGATT
1 CGTTGCGATT
789955 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:789890 original size:33 final size:33
Alignment explanation
Indices: 789848--789962 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
789838 CAAAATCGCA
789848 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
789881 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
789914 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
789947 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
789963 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:791883 original size:184 final size:186
Alignment explanation
Indices: 791657--792034 Score: 726
Period size: 184 Copynumber: 2.0 Consensus size: 186
791647 TAGATTGCTT
791657 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
791721 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGCTTGCTGCCAATTCTGCTAAACT
791786 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTC-TTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
791840 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
791905 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGCTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGCTTGCTGCCAATTCTGCTAAACT
791970 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
792026 AGTAAATTT
1 AGTAAATTT
792035 ATCCATTCAA
Statistics
Matches: 191, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
183 6 0.03
184 147 0.77
185 19 0.10
186 19 0.10
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGCTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:791989 original size:93 final size:93
Alignment explanation
Indices: 791657--792034 Score: 726
Period size: 93 Copynumber: 4.1 Consensus size: 93
791647 TAGATTGCTT
791657 AGTAAA-TTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
791721 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
791749 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
791813 TTTGTCTTTGTTTTGTC-TTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
791840 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
791905 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
791933 AGTAAATTTGTTCGCTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
791998 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
792026 AGTAAATTT
1 AGTAAATTT
792035 ATCCATTCAA
Statistics
Matches: 282, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
91 72 0.26
92 44 0.16
93 166 0.59
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:792118 original size:19 final size:19
Alignment explanation
Indices: 792078--792206 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
792068 TAGTTTACTT
* *
792078 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
792098 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
792117 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
792136 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
792150 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
792169 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
792183 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
792202 TCGCA
1 TCGCA
792207 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:792157 original size:33 final size:32
Alignment explanation
Indices: 792114--792206 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
792104 CGCGAAACCA
**
792114 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
792146 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
792179 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
792207 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:792204 original size:52 final size:52
Alignment explanation
Indices: 792078--792206 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
792068 TAGTTTACTT
**
792078 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
792130 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
792183 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
792207 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:792224 original size:19 final size:19
Alignment explanation
Indices: 792202--792336 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
792192 GAAACCAAAA
*
792202 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
792221 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
792237 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
792254 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
792270 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
792287 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
792306 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
792326 TCGTGTTGCGA
1 TCGCGTTGCGA
792337 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:792243 original size:14 final size:14
Alignment explanation
Indices: 792224--792280 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
792214 TTTCATTTCG
792224 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
792238 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
792255 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
792271 CGTTGCGATT
1 CGTTGCGATT
792281 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:792249 original size:33 final size:33
Alignment explanation
Indices: 792207--792299 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
792197 CAAAATCGCA
*
792207 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
792240 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
792273 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
792300 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:794192 original size:38 final size:38
Alignment explanation
Indices: 794149--794221 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
794139 AATTGATTGT
*
794149 TTTTTGATTGTTTAATTGATTTGTAAAAGTTGATTCAA
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
794187 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
1 TTTTTGATTGTTTAATTGATTTGTAAAAGATGATT
794222 TGTAAAAGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.29, C:0.01, G:0.16, T:0.53
Consensus pattern (38 bp):
TTTTTGATTGTTTAATTGATTTGTAAAAGATGATTCAA
Found at i:794208 original size:19 final size:19
Alignment explanation
Indices: 794144--794208 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
794134 AGTTTAATTG
*
794144 ATTGTTTTTTGATTGTTTA
1 ATTGATTTTTGATTGTTTA
* * ** *
794163 ATTGATTTGTAAAAG-TTG
1 ATTGATTTTTGATTGTTTA
*
794181 ATTCAATTTTTGATTGTTTA
1 ATT-GATTTTTGATTGTTTA
794201 ATTGATTT
1 ATTGATTT
794209 GTAAAAGATG
Statistics
Matches: 31, Mismatches: 13, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
18 5 0.16
19 21 0.68
20 5 0.16
ACGTcount: A:0.25, C:0.02, G:0.15, T:0.58
Consensus pattern (19 bp):
ATTGATTTTTGATTGTTTA
Found at i:794222 original size:14 final size:14
Alignment explanation
Indices: 794203--794238 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
794193 ATTGTTTAAT
794203 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
794217 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
794231 TGATTTGT
1 TGATTTGT
794239 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:794361 original size:19 final size:19
Alignment explanation
Indices: 794345--794446 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
794335 AAAAATGACT
794345 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
794364 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
794383 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
794397 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
794416 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
794436 ATCGCAATGCG
1 ATCGCAATGCG
794447 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:794499 original size:19 final size:19
Alignment explanation
Indices: 794475--794781 Score: 349
Period size: 19 Copynumber: 17.4 Consensus size: 19
794465 GATTATCTCG
794475 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
794494 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
794513 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
794527 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
794546 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
794565 TTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCA
* *
794584 TTGCAATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
794603 TTGCGA--TT-ATGTCG-G
1 TTGCGATTTTCATTTCGCA
794618 TT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
794636 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
794655 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
794669 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
794688 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
794707 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
794721 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
794741 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
794755 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
794774 TTGCGATT
1 TTGCGATT
794782 GTATTTTCCG
Statistics
Matches: 247, Mismatches: 15, Indels: 52
0.79 0.05 0.17
Matches are distributed among these distances:
14 32 0.13
15 2 0.01
16 31 0.13
17 28 0.11
18 5 0.02
19 137 0.55
20 12 0.05
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:794550 original size:71 final size:71
Alignment explanation
Indices: 794475--794714 Score: 346
Period size: 71 Copynumber: 3.4 Consensus size: 71
794465 GATTATCTCG
794475 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
794540 TTCGCA
66 TTCGCA
* * *
794546 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTATTGCAATTTTAATTTCGCATTGCGA--
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TT-CTTTCG--TTGCGATT
* *
794609 TT-ATGTCG-G
61 TTCATTTCGCA
*
794618 TT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCAT
1 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
794682 TTCGCA
66 TTCGCA
794688 TTGCGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCGCATTGCGATT
794715 CTCTCGTTGC
Statistics
Matches: 148, Mismatches: 11, Indels: 20
0.83 0.06 0.11
Matches are distributed among these distances:
66 6 0.04
68 6 0.04
69 7 0.05
70 2 0.01
71 105 0.71
72 2 0.01
73 7 0.05
74 7 0.05
76 6 0.04
ACGTcount: A:0.15, C:0.20, G:0.17, T:0.47
Consensus pattern (71 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTTTCGTTGCGATTTTCAT
TTCGCA
Found at i:794634 original size:142 final size:136
Alignment explanation
Indices: 794451--794781 Score: 495
Period size: 142 Copynumber: 2.4 Consensus size: 136
794441 AATGCGTTTA
794451 TAATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
1 TAATTTCGCATTGCGATTAT-TCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTG
* *
794516 CGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTC
65 CGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTC
794581 GTATTGCAATTT
127 G--TTGCAATTT
794593 TAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
1 TAATTTCGCATTGCGATTAT-TC-GTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATT
794657 GCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
64 GCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
*
794722 TGCGATTT
129 TGCAATTT
* * *
794730 TCATTTCCGCATTGCGATT-TTCATGTTGGGATTTTCATTTCGCGTTGCGATT
1 TAATTT-CGCATTGCGATTATTC--GTTGCGATTTTCATTTCGCATTGCGATT
794782 GTATTTTCCG
Statistics
Matches: 177, Mismatches: 8, Indels: 12
0.90 0.04 0.06
Matches are distributed among these distances:
136 2 0.01
137 17 0.10
138 34 0.19
139 4 0.02
140 3 0.02
142 114 0.64
143 3 0.02
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (136 bp):
TAATTTCGCATTGCGATTATTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTG
CAATTT
Found at i:794720 original size:52 final size:52
Alignment explanation
Indices: 794475--794753 Score: 345
Period size: 52 Copynumber: 5.2 Consensus size: 52
794465 GATTATCTCG
*
794475 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
794527 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGTA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* * * *
794584 TTGCAATTTTAATTTCGCATTGCGATTATGTCGGTT-CGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTC-GTTGCGATTTTCATTTCGCA
794636 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
794688 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
794741 TTGCGATTTTCAT
1 TTGCGATTTTCAT
794754 GTTGGGATTT
Statistics
Matches: 210, Mismatches: 9, Indels: 15
0.90 0.04 0.06
Matches are distributed among these distances:
51 3 0.01
52 151 0.72
53 19 0.09
54 6 0.03
55 8 0.04
57 23 0.11
ACGTcount: A:0.15, C:0.21, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:797309 original size:24 final size:24
Alignment explanation
Indices: 797275--797321 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
797265 CTGAAACATC
797275 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
797299 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
797322 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:798035 original size:20 final size:20
Alignment explanation
Indices: 798013--798362 Score: 456
Period size: 20 Copynumber: 17.5 Consensus size: 20
798003 TTCAGATTCT
*
798013 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
* * *
798033 CGTTGCGATTTACAGATTCT
1 CGTTGCGATTTACGGATACG
*
798053 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
798073 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
798093 CGTTGCGATTTACGGATTA-T
1 CGTTGCGATTTACGGA-TACG
798113 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
798133 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
798153 CATTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
798173 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
*
798193 CGTTGCGGTTTACGGATACG
1 CGTTGCGATTTACGGATACG
798213 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
*
798233 CGTTGCGATATACGGATACG
1 CGTTGCGATTTACGGATACG
* **
798253 CATTGCGATTTACCCATACG
1 CGTTGCGATTTACGGATACG
*
798273 CGTTGCGATTTACGGATACA
1 CGTTGCGATTTACGGATACG
798293 CGTTGCGATTTACGGATACG
1 CGTTGCGATTTACGGATACG
* *
798313 CGTTGCGATTTATGTG-TTCG
1 CGTTGCGATTTACG-GATACG
* ** *
798333 CGTTGCGATTTTCATATTCG
1 CGTTGCGATTTACGGATACG
798353 CGTTGCGATT
1 CGTTGCGATT
798363 ATGGAAAATC
Statistics
Matches: 294, Mismatches: 29, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.02
20 285 0.97
21 4 0.01
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
CGTTGCGATTTACGGATACG
Found at i:801945 original size:13 final size:13
Alignment explanation
Indices: 801927--801952 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
801917 AAAAAATATT
801927 TTAAGATAACTCA
1 TTAAGATAACTCA
801940 TTAAGATAACTCA
1 TTAAGATAACTCA
801953 ATACTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
TTAAGATAACTCA
Found at i:803132 original size:29 final size:29
Alignment explanation
Indices: 803087--803162 Score: 125
Period size: 29 Copynumber: 2.6 Consensus size: 29
803077 GCAAAGACCA
803087 GCGTGCATGGCGACCTATAAGGACACCGG
1 GCGTGCATGGCGACCTATAAGGACACCGG
* * *
803116 GCTTGCATGGCGACCTATAAGGACGCCTG
1 GCGTGCATGGCGACCTATAAGGACACCGG
803145 GCGTGCATGGCGACCTAT
1 GCGTGCATGGCGACCTAT
803163 GGTGGTTCGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.21, C:0.28, G:0.33, T:0.18
Consensus pattern (29 bp):
GCGTGCATGGCGACCTATAAGGACACCGG
Found at i:806203 original size:22 final size:19
Alignment explanation
Indices: 806173--806216 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
806163 CATATATATA
806173 ATTGCCTGTTGGGATAGCTTTT
1 ATTGCCTGTT--G-TAGCTTTT
*
806195 ATTGTCTGTTGTAGCTTTT
1 ATTGCCTGTTGTAGCTTTT
806214 ATT
1 ATT
806217 TTTAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 1 0.05
22 9 0.43
ACGTcount: A:0.14, C:0.11, G:0.23, T:0.52
Consensus pattern (19 bp):
ATTGCCTGTTGTAGCTTTT
Found at i:807690 original size:15 final size:14
Alignment explanation
Indices: 807666--807717 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
807656 GTAATTGATT
*
807666 TTCTGGAAATTTAA
1 TTCTGGAAATTAAA
*
807680 TTCTGGAAAATAAA
1 TTCTGGAAATTAAA
*
807694 TTACTGGAAATTGAA
1 TT-CTGGAAATTAAA
*
807709 TTATGGAAA
1 TTCTGGAAA
807718 ATGAATTACA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 20 0.62
15 12 0.38
ACGTcount: A:0.42, C:0.06, G:0.17, T:0.35
Consensus pattern (14 bp):
TTCTGGAAATTAAA
Found at i:807710 original size:29 final size:29
Alignment explanation
Indices: 807668--807726 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
807658 AATTGATTTT
* *
807668 CTGGAAATTTAATTCTGGAAAATAAATTA
1 CTGGAAATTGAATTATGGAAAATAAATTA
*
807697 CTGGAAATTGAATTATGGAAAATGAATTA
1 CTGGAAATTGAATTATGGAAAATAAATTA
807726 C
1 C
807727 ATTTTTAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (29 bp):
CTGGAAATTGAATTATGGAAAATAAATTA
Found at i:807722 original size:14 final size:14
Alignment explanation
Indices: 807678--807725 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
807668 CTGGAAATTT
* *
807678 AATTCTGGAAAATA
1 AATTATGGAAAATG
*
807692 AATTACTGGAAATTG
1 AATTA-TGGAAAATG
807707 AATTATGGAAAATG
1 AATTATGGAAAATG
807721 AATTA
1 AATTA
807726 CATTTTTAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.48, C:0.04, G:0.17, T:0.31
Consensus pattern (14 bp):
AATTATGGAAAATG
Found at i:807966 original size:13 final size:13
Alignment explanation
Indices: 807948--807974 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
807938 ATATATGATA
807948 ATTTAAAATTTTT
1 ATTTAAAATTTTT
807961 ATTTAAAATTTTT
1 ATTTAAAATTTTT
807974 A
1 A
807975 AAGAATAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTAAAATTTTT
Found at i:809717 original size:22 final size:23
Alignment explanation
Indices: 809686--809733 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
809676 TTTAGACTAT
*
809686 ATGCTTTTAAAAT-TCATATTTC
1 ATGCTATTAAAATATCATATTTC
809708 ATGCTATTAAAATAATCATATTTC
1 ATGCTATTAAAAT-ATCATATTTC
809732 AT
1 AT
809734 AACCGATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.52
24 11 0.48
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.46
Consensus pattern (23 bp):
ATGCTATTAAAATATCATATTTC
Found at i:811883 original size:16 final size:17
Alignment explanation
Indices: 811862--811895 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
811852 AAAAACTCAA
*
811862 AAATAATTAAATT-TAT
1 AAATAAATAAATTATAT
811878 AAATAAATAAATTATAT
1 AAATAAATAAATTATAT
811895 A
1 A
811896 TTATCAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATAAATAAATTATAT
Found at i:813445 original size:29 final size:29
Alignment explanation
Indices: 813403--813460 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
813393 CACACTAATC
813403 AACAATGACATTTAGAGTACAAATTAAGG
1 AACAATGACATTTAGAGTACAAATTAAGG
*
813432 AACAATGACCTTTAGAGTACAAATTAAGG
1 AACAATGACATTTAGAGTACAAATTAAGG
813461 GACCTCAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (29 bp):
AACAATGACATTTAGAGTACAAATTAAGG
Found at i:815460 original size:79 final size:78
Alignment explanation
Indices: 815327--815631 Score: 340
Period size: 79 Copynumber: 3.9 Consensus size: 78
815317 TAATTATAAC
* * * * * ** * *
815327 ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATG
1 ATTCTTTTATGTCGATAATGTA-CCATATACATTTCAGCTAAGGCATCCTTTCATGCCAATAATA
815392 CACCCATATGCATT
65 CACCCATATGCATT
** * ** * *
815406 ATTCTTTTATACCGATAATGTATCCATGTACATTTCAGCTAAGGCGCCCTTTCATGTCAATAACA
1 ATTCTTTTATGTCGATAATGTA-CCATATACATTTCAGCTAAGGCATCCTTTCATGCCAATAATA
815471 CACCCATATGCATT
65 CACCCATATGCATT
* * * * * **
815485 ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATA
1 ATTCTTTTATGTCGATAATGTA-CCATATACATTTCAGCTAAGGCATCCTTTCATGCCAATAATA
815550 CACCCATATGCATT
65 CACCCATATGCATT
* * *
815564 ATTCTTTTACGTCGATAATGTACCTATATACATTTCAGATAAGGCATCATTTCATGCCAATAATA
1 ATTCTTTTATGTCGATAATGTACC-ATATACATTTCAGCTAAGGCATCCTTTCATGCCAATAATA
815629 CAC
65 CAC
815632 ACACAGTGCC
Statistics
Matches: 183, Mismatches: 42, Indels: 2
0.81 0.19 0.01
Matches are distributed among these distances:
78 2 0.01
79 181 0.99
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (78 bp):
ATTCTTTTATGTCGATAATGTACCATATACATTTCAGCTAAGGCATCCTTTCATGCCAATAATAC
ACCCATATGCATT
Found at i:815617 original size:158 final size:158
Alignment explanation
Indices: 815327--815631 Score: 486
Period size: 158 Copynumber: 1.9 Consensus size: 158
815317 TAATTATAAC
*
815327 ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATG
1 ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATA
* * * * *
815392 CACCCATATGCATTATTCTTTTATACCGATAATGTATCCATGTACATTTCAGCTAAGGCGCCCTT
66 CACCCATATGCATTATTCTTTTACACCGATAATGTATCCATATACATTTCAGATAAGGCACCATT
*
815457 TCATGTCAATAACACACCCATATGCATT
131 TCATGCCAATAACACACCCATATGCATT
*
815485 ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCCTTTCATGCCAATAATA
1 ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATA
** *
815550 CACCCATATGCATTATTCTTTTACGTCGATAATGTA-CCTATATACATTTCAGATAAGGCATCAT
66 CACCCATATGCATTATTCTTTTACACCGATAATGTATCC-ATATACATTTCAGATAAGGCACCAT
*
815614 TTCATGCCAATAATACAC
130 TTCATGCCAATAACACAC
815632 ACACAGTGCC
Statistics
Matches: 134, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
157 2 0.01
158 132 0.99
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (158 bp):
ATTCTTTTATGTTGAAAATGCACCCATATGCATTTCAACTTTGGCATCATTTCATGCCAATAATA
CACCCATATGCATTATTCTTTTACACCGATAATGTATCCATATACATTTCAGATAAGGCACCATT
TCATGCCAATAACACACCCATATGCATT
Found at i:817342 original size:65 final size:65
Alignment explanation
Indices: 817206--817368 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
817196 CGGTGCACCA
* *
817206 AGTGTGTATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
* * **
817270 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATG
817334 G
65 G
* * *
817335 AGTGTGCATCGGTGCATGGAATGCATTTGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
817369 CAATTAATTC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 37 0.43
65 49 0.57
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATGG
Found at i:817408 original size:65 final size:64
Alignment explanation
Indices: 817208--817417 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
817198 GTGCACCAAG
* * * ** * *
817208 TGTGTATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGGAT
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC
* * * *
817272 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAG
1 TGTGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGAC
* * *
817337 TGTGCATCGGTGCATGGAATGCATTTGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGG
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGG
817399 AC
63 AC
817401 TGATGCATCGGTGCATG
1 TG-TGCATCGGTGCATG
817418 CCTTTGAATA
Statistics
Matches: 126, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 54 0.43
65 62 0.49
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (64 bp):
TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGAC
Found at i:817608 original size:20 final size:21
Alignment explanation
Indices: 817585--817624 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
817575 GAATCGAATA
817585 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
817605 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
817625 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:824788 original size:64 final size:63
Alignment explanation
Indices: 824720--824897 Score: 205
Period size: 64 Copynumber: 2.8 Consensus size: 63
824710 GAACACTTGA
* *
824720 TGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-G
1 TGCATCGATGCA-CAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAG
* * * **
824784 TGCATCGATGCATAGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAG
1 TGCATCGATGCACA-AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAG
** * *
824849 TGCATCGATGCATGGAGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGCATCGATGCA-CAAGTGTGCATCGATGCATGAAATGCATTCGATGTT
824898 CAATTAATTC
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
63 1 0.01
64 51 0.53
65 45 0.46
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (63 bp):
TGCATCGATGCACAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAG
Found at i:824871 original size:65 final size:65
Alignment explanation
Indices: 824735--824897 Score: 231
Period size: 65 Copynumber: 2.5 Consensus size: 65
824725 CGGTGCACCA
*
824735 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGGTGCATCGATGCATAG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATAG
* * ** *
824799 ATTGTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAG-GTGCATCGATGCATA
824863 G
65 G
* *
824864 AGTGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
824898 CAATTAATTC
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 38 0.44
65 49 0.56
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (65 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGGTGCATCGATGCATAG
Found at i:824937 original size:65 final size:64
Alignment explanation
Indices: 824737--824946 Score: 221
Period size: 65 Copynumber: 3.2 Consensus size: 64
824727 GTGCACCAAG
* * ** * * *
824737 TGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATAGAT
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC
* * * *
824801 TGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGAG
1 TGTGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGAC
* *
824866 TGTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGG
1 TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGG
824928 AC
63 AC
824930 TGATGCATCGGTGCATG
1 TG-TGCATCGGTGCATG
824947 CCTTTGAATA
Statistics
Matches: 127, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
62 3 0.02
63 7 0.06
64 55 0.43
65 62 0.49
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGTGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGAC
Found at i:825137 original size:20 final size:21
Alignment explanation
Indices: 825114--825153 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
825104 GAATCGAATA
825114 TAAAAT-TGTAAAA-TCATTTG
1 TAAAATCT-TAAAATTCATTTG
825134 TAAAATCTTAAAATTCATTT
1 TAAAATCTTAAAATTCATTT
825154 AACTTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (21 bp):
TAAAATCTTAAAATTCATTTG
Found at i:846940 original size:120 final size:120
Alignment explanation
Indices: 846631--847391 Score: 775
Period size: 120 Copynumber: 6.4 Consensus size: 120
846621 CCAGCTCTCC
* * * *
846631 GATCCTCTTGAGCAAGACTTGTGTCCTCATCAACTTCAATTTTGTCACTTTCCAAGGA-AACTAC
1 GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCACTTTCCCA-GATAACTAC
* * * * * * *
846695 CTCTTGAACTGTTTCAGCAGCCGTTATGTTGGTATCTTCTAAGTGAAATGAACACC
65 CTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
* * * * * * **
846751 GATCCTCTT----TATA--TGTGTCCTCTTTAACTTCCATTTTGTTACTTTCCCTGAAAACTGTC
1 GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCACTTTCCCAGATAACTACC
* * * * *
846810 TCCTGAACTGGTTCAGCGGCAGTTATGTCGGTATGTTCTAATTGCAGTGAACTCT
66 TCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
* * *
846865 GATCCTCTTGAACAAGACCTGTGTCCTCTTTATCTTCAATTTTATCACTTTCCCAGATAACTACC
1 GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCACTTTCCCAGATAACTACC
* * * * *
846930 TCCTGAACTGGTTCAGCAGCAGTTACGTTAGTATCTTCCAAATGCATTGAACTTT
66 TCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
* ** * *
846985 GATCCTCTTGAGCAAGA-CTCGTATCCTCACGT-ACTTCAATTTTTTCACTTTCCCAGAAAACTA
1 GATCCTCTTGAGCAAGACCT-GTGTCCTC-TTTAACTTCAATTTTGTCACTTTCCCAGATAACTA
* * * * * * * *
847048 CCTCCTGAACTAGTTCAGAAGAAATTATGTTGTTATTTTCTGAGTGCATTGAACCCT
64 CCTCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
* * ** * * *
847105 GATCCCCTTGAGCAAGACCTGTGTCTTCTTTAACTTCCGTTTTGCCACTTTCCCAGGTAACTACA
1 GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCACTTTCCCAGATAACTACC
* * * * ** * *
847170 TACTGAACTGGTACAACAGCAGTTACGTTGGTATCTTCTGTGTGAACTGAACTCT
66 TCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
* * ** * *
847225 GATCCTCTTGAACAAGACCCGTGTCCTCTTTAACTTCCGTTTCGTCACTTTCCCAGATAACTACA
1 GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCACTTTCCCAGATAACTACC
* *
847290 TCCTGAACTGGTTCAGCAGCAGTTATGTCGGTATCATCTAAGTGCATTGAACTCT
66 TCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
** * * *
847345 GAAACTGTTGAGCAAGACTTGTGTCCTCTTGAACTTCAATTTTGTCA
1 GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCA
847392 AGTCTGCAGT
Statistics
Matches: 517, Mismatches: 113, Indels: 22
0.79 0.17 0.03
Matches are distributed among these distances:
113 2 0.00
114 88 0.17
116 2 0.00
118 2 0.00
119 3 0.01
120 417 0.81
121 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (120 bp):
GATCCTCTTGAGCAAGACCTGTGTCCTCTTTAACTTCAATTTTGTCACTTTCCCAGATAACTACC
TCCTGAACTGGTTCAGCAGCAGTTATGTTGGTATCTTCTAAGTGCATTGAACTCT
Found at i:847981 original size:21 final size:21
Alignment explanation
Indices: 847899--847981 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
847889 CGCAAATCAG
847899 TTTCCAAAATCGCAATGCGAT
1 TTTCCAAAATCGCAATGCGAT
*
847920 TCTT-GAAAATCGCAATGCGAT
1 T-TTCCAAAATCGCAATGCGAT
** * * *
847941 AGTACAAATTCGCATTGCGAT
1 TTTCCAAAATCGCAATGCGAT
* *
847962 TTTCCAGAATCGCAACGCGA
1 TTTCCAAAATCGCAATGCGA
847982 ATATGAAAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.27
Consensus pattern (21 bp):
TTTCCAAAATCGCAATGCGAT
Found at i:848030 original size:20 final size:20
Alignment explanation
Indices: 847969--848197 Score: 281
Period size: 20 Copynumber: 11.6 Consensus size: 20
847959 GATTTTCCAG
* ** *
847969 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
847989 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
848009 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
848029 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
848049 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
848069 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
848089 AAT----ACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
848105 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
848125 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
848145 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGTATCCGT-A
848166 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
848186 AATCGCAACGCG
1 AATCGCAACGCG
848198 ATTTTTAAAG
Statistics
Matches: 181, Mismatches: 19, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
16 15 0.08
19 1 0.01
20 146 0.81
21 19 0.10
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:848165 original size:76 final size:78
Alignment explanation
Indices: 847969--848197 Score: 259
Period size: 76 Copynumber: 2.9 Consensus size: 78
847959 GATTTTCCAG
* ** * * * *
847969 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACAT-AAATCGCAACGCGTATCCGTAAACC
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAAAT--C-ACGCGTATCCGTAAATC
*
848033 GCAACGTGTATCCGTA
63 GCAACGCGTATCCGTA
* * *
848049 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGT-AAAT-ACGCGTATCCGTAAATCGCA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAAATCACGCGTATCCGTAAATCGCA
*
848112 ATGCGTATCCGTA
66 ACGCGTATCCGTA
848125 AATCGCAACGCGTATCCGTAAATCGCAACGAC-AATACGTAAAATCGCAACGCGTATCCGTAAAT
1 AATCGCAACGCGTATCCGTAAATCGCAACG-CGAATACGTAAAAT--C-ACGCGTATCCGTAAAT
848189 CGCAACGCG
62 CGCAACGCG
848198 ATTTTTAAAG
Statistics
Matches: 127, Mismatches: 16, Indels: 11
0.82 0.10 0.07
Matches are distributed among these distances:
76 64 0.50
77 5 0.04
80 34 0.27
81 24 0.19
ACGTcount: A:0.34, C:0.28, G:0.19, T:0.19
Consensus pattern (78 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACGTAAAATCACGCGTATCCGTAAATCGCA
ACGCGTATCCGTA
Found at i:848593 original size:14 final size:14
Alignment explanation
Indices: 848574--848630 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
848564 TTTCATTTCG
848574 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
848588 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
*
848607 CGTTGCTATTCTCT
1 CGTTGCGATTCTCT
848621 CGTTGCGATT
1 CGTTGCGATT
848631 TTCAAGTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.25, G:0.21, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Done.