Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007113.1 Hibiscus syriacus cultivar Beakdansim tig00018586_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: 836039
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:590965 original size:47 final size:48
Alignment explanation
Indices: 590893--590983 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
590883 CATAATTCAA
* * * *
590893 GTCAAGTATCATATCAGAATTCAGGTCATGTATCATATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCATAACAGAATCCAT
590941 GTCAA-TATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
1 GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCATAACAGAAT
590984 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (48 bp):
GTCAAGTATCAGATCAGAATCCAGGTCAGGTATCATAACAGAATCCAT
Found at i:593477 original size:15 final size:15
Alignment explanation
Indices: 593447--593490 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
593437 GGTCAACAAT
593447 GGTCAACGCCGGTCAAC
1 GGTCAACG--GGTCAAC
*
593464 GGTCAATGGGTCAAC
1 GGTCAACGGGTCAAC
593479 GGTCAACGGGTC
1 GGTCAACGGGTC
593491 GGGTCAACAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 18 0.72
17 7 0.28
ACGTcount: A:0.23, C:0.27, G:0.34, T:0.16
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:593497 original size:13 final size:13
Alignment explanation
Indices: 593479--593539 Score: 59
Period size: 13 Copynumber: 4.3 Consensus size: 13
593469 ATGGGTCAAC
593479 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
593492 GGTCAACAGGTTGGGTCA
1 GGTCAAC-----GGGTCG
593510 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
593523 GGTAAACGGGTCG
1 GGTCAACGGGTCG
593536 GGTC
1 GGTC
593540 GGGTCGGGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
13 27 0.69
18 12 0.31
ACGTcount: A:0.18, C:0.20, G:0.44, T:0.18
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:593517 original size:31 final size:31
Alignment explanation
Indices: 593470--593544 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
593460 CAACGGTCAA
*
593470 TGGGTCAACGGTCAACGGGTCGGGTCAACAGGT
1 TGGGTC-A-GGTCAACGGGTCGGGTAAACAGGT
*
593503 TGGGTCAGGTCAACGGGTCGGGTAAACGGGT
1 TGGGTCAGGTCAACGGGTCGGGTAAACAGGT
* *
593534 CGGGTCGGGTC
1 TGGGTCAGGTC
593545 GGGTTATGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 31 0.82
32 1 0.03
33 6 0.16
ACGTcount: A:0.17, C:0.20, G:0.44, T:0.19
Consensus pattern (31 bp):
TGGGTCAGGTCAACGGGTCGGGTAAACAGGT
Found at i:593525 original size:18 final size:18
Alignment explanation
Indices: 593485--593525 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
593475 CAACGGTCAA
*
593485 CGGGTCGGGTCAACAGGT
1 CGGGTCAGGTCAACAGGT
* *
593503 TGGGTCAGGTCAACGGGT
1 CGGGTCAGGTCAACAGGT
593521 CGGGT
1 CGGGT
593526 AAACGGGTCG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.46, T:0.20
Consensus pattern (18 bp):
CGGGTCAGGTCAACAGGT
Found at i:595638 original size:24 final size:24
Alignment explanation
Indices: 595611--595695 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
595601 TATATCAAAA
* * *
595611 ATCAAAACATAATTCAAGTCAAGT
1 ATCATAACAGAATCCAAGTCAAGT
* * *
595635 ATCATATCAGAATCCAGGTCATGT
1 ATCATAACAGAATCCAAGTCAAGT
* * * * *
595659 ATCAGATCATAATCCAGGTCAGGT
1 ATCATAACAGAATCCAAGTCAAGT
595683 ATCATAACAGAAT
1 ATCATAACAGAAT
595696 TCAAATTTGA
Statistics
Matches: 49, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (24 bp):
ATCATAACAGAATCCAAGTCAAGT
Found at i:599068 original size:14 final size:14
Alignment explanation
Indices: 599049--599082 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
599039 TAAGACCTTA
599049 AACCATGAACCATG
1 AACCATGAACCATG
599063 AACCATGAACCATG
1 AACCATGAACCATG
599077 AACCAT
1 AACCAT
599083 AAAACCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.29, G:0.12, T:0.15
Consensus pattern (14 bp):
AACCATGAACCATG
Found at i:599185 original size:15 final size:15
Alignment explanation
Indices: 599162--599223 Score: 72
Period size: 15 Copynumber: 4.1 Consensus size: 15
599152 CCTAAACTAT
* *
599162 AAATAATAAACCCTA
1 AAATCATAAACCTTA
599177 AAATCATAAACCTTA
1 AAATCATAAACCTTA
*
599192 ATAT-ATTAAACCTTA
1 AAATCA-TAAACCTTA
*
599207 AAATCTTAAACCTTA
1 AAATCATAAACCTTA
599222 AA
1 AA
599224 CCAAGAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
14 1 0.03
15 39 0.98
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATCATAAACCTTA
Found at i:599368 original size:21 final size:21
Alignment explanation
Indices: 599309--599368 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
599299 CTTTGAACAC
* *
599309 TAAATCTT-AACCCTAAAATT
1 TAAACCTTAAACCCTAAACTT
* *
599329 TAAACCCTAACCCCTAAACTT
1 TAAACCTTAAACCCTAAACTT
599350 TAAACCTTAAACCCTAAAC
1 TAAACCTTAAACCCTAAAC
599369 CATAAATTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.18
21 27 0.82
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAACCTTAAACCCTAAACTT
Found at i:599374 original size:21 final size:21
Alignment explanation
Indices: 599329--599374 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
599319 CCCTAAAATT
* **
599329 TAAACCCTAACCCCTAAACTT
1 TAAACCCTAAACCCTAAACCA
*
599350 TAAACCTTAAACCCTAAACCA
1 TAAACCCTAAACCCTAAACCA
599371 TAAA
1 TAAA
599375 TTTTAAACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAACCCTAAACCCTAAACCA
Found at i:599390 original size:28 final size:28
Alignment explanation
Indices: 599331--599418 Score: 83
Period size: 28 Copynumber: 3.1 Consensus size: 28
599321 CTAAAATTTA
* * * *
599331 AACCCTAACCCCTAAACTTTAAACCT-TA
1 AACCCTAAACCATAAATTTTAAA-CTATG
599359 AACCCTAAACCATAAATTTTAAACTATG
1 AACCCTAAACCATAAATTTTAAACTATG
*
599387 AACCCTAAATCAT-AATTTATAAA-TCATG
1 AACCCTAAACCATAAATTT-TAAACT-ATG
599415 AACC
1 AACC
599419 TAATCTTTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
27 8 0.15
28 44 0.85
ACGTcount: A:0.44, C:0.26, G:0.02, T:0.27
Consensus pattern (28 bp):
AACCCTAAACCATAAATTTTAAACTATG
Found at i:599592 original size:21 final size:22
Alignment explanation
Indices: 599563--599617 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
599553 CTAAAACTCT
599563 AAACTCTAAAACA-TTAACCATA
1 AAACTCTAAAACATTTAACC-TA
*
599585 AAAC-CTAAAA-ATTTAACCTT
1 AAACTCTAAAACATTTAACCTA
599605 AAACTCTAAAACA
1 AAACTCTAAAACA
599618 AACCACTAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 6 0.21
21 18 0.62
22 5 0.17
ACGTcount: A:0.55, C:0.22, G:0.00, T:0.24
Consensus pattern (22 bp):
AAACTCTAAAACATTTAACCTA
Found at i:599774 original size:29 final size:29
Alignment explanation
Indices: 599742--599811 Score: 131
Period size: 29 Copynumber: 2.4 Consensus size: 29
599732 ATTAACCATT
*
599742 AACCCTAAACTTTAAAGCATAAGGCTATA
1 AACCCTAAACTTTAAAGCAAAAGGCTATA
599771 AACCCTAAACTTTAAAGCAAAAGGCTATA
1 AACCCTAAACTTTAAAGCAAAAGGCTATA
599800 AACCCTAAACTT
1 AACCCTAAACTT
599812 CAAAACCCTA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.46, C:0.23, G:0.09, T:0.23
Consensus pattern (29 bp):
AACCCTAAACTTTAAAGCAAAAGGCTATA
Found at i:599817 original size:15 final size:15
Alignment explanation
Indices: 599799--599838 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
599789 AAAAGGCTAT
599799 AAACCCTAAACTTCA
1 AAACCCTAAACTTCA
599814 AAACCCTAAACTTCA
1 AAACCCTAAACTTCA
*
599829 AAACACTAAA
1 AAACCCTAAA
599839 AATCATAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACTTCA
Found at i:600203 original size:19 final size:21
Alignment explanation
Indices: 600167--600217 Score: 61
Period size: 19 Copynumber: 2.5 Consensus size: 21
600157 ATCCAAACTT
* *
600167 TAAACCATAAAACTTAAGCCC
1 TAAACCATAAAACATAAGCCA
600188 TAAACCA-AAAA-ATAAGCCA
1 TAAACCATAAAACATAAGCCA
*
600207 TAAACCCTAAA
1 TAAACCATAAA
600218 CCCTTAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 12 0.46
20 7 0.27
21 7 0.27
ACGTcount: A:0.55, C:0.25, G:0.04, T:0.16
Consensus pattern (21 bp):
TAAACCATAAAACATAAGCCA
Found at i:600269 original size:15 final size:16
Alignment explanation
Indices: 600234--600271 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
600224 AACACAAACT
*
600234 TTAAATTTCATTAAATC
1 TTAAA-TTCATTAAATA
600251 TTAAATTCA-TAAATA
1 TTAAATTCATTAAATA
600266 TTAAAT
1 TTAAAT
600272 CTCTTACTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 4 0.20
17 5 0.25
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATTCATTAAATA
Found at i:603652 original size:56 final size:57
Alignment explanation
Indices: 603545--603663 Score: 154
Period size: 57 Copynumber: 2.1 Consensus size: 57
603535 TTTATGCATC
* *
603545 GATGCACATACCATGCATCGATGCACTGAGGATTTTATGAAAACATAGAATGCATTT
1 GATGCACATACCATGCATCGATGCACTCAGGATTTTATGAAAACATAGAATGCACTT
* * *
603602 GATGCACCA-ACCATGCATCGATGCACTCTGGCTATTT-TG-AAACATCGAATGCACTT
1 GATGCA-CATACCATGCATCGATGCACTCAGGAT-TTTATGAAAACATAGAATGCACTT
603658 GATGCA
1 GATGCA
603664 TCGTTGCACT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
56 21 0.38
57 29 0.53
58 5 0.09
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (57 bp):
GATGCACATACCATGCATCGATGCACTCAGGATTTTATGAAAACATAGAATGCACTT
Found at i:609498 original size:42 final size:44
Alignment explanation
Indices: 609451--609545 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
609441 TTGTGCTTCA
*
609451 TGCATCGATACACC-T-AACAGTGCATCC-ATGCA-TCCTTGAATG
1 TGCATCGATACACCATGAA-AGTGCA-CCGATGCACACCTTGAATG
*
609493 TGCATCGATACACCATGAAGGTGCACCGATGCACACCTTGAATG
1 TGCATCGATACACCATGAAAGTGCACCGATGCACACCTTGAATG
*
609537 TGAATCGAT
1 TGCATCGAT
609546 GCACAAGGCC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
42 16 0.35
43 11 0.24
44 19 0.41
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (44 bp):
TGCATCGATACACCATGAAAGTGCACCGATGCACACCTTGAATG
Found at i:609516 original size:21 final size:21
Alignment explanation
Indices: 609451--609545 Score: 77
Period size: 23 Copynumber: 4.4 Consensus size: 21
609441 TTGTGCTTCA
*
609451 TGCATCGATACACC-T-AACAG
1 TGCATCGATACACCTTGAA-TG
* *
609471 TGCATCCATGCATCCTTGAATG
1 TGCATCGATACA-CCTTGAATG
* *
609493 TGCATCGATACACCATGAAGG
1 TGCATCGATACACCTTGAATG
*
609514 TGCACCGATGCACACCTTGAATG
1 TGCATCGAT--ACACCTTGAATG
*
609537 TGAATCGAT
1 TGCATCGAT
609546 GCACAAGGCC
Statistics
Matches: 58, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 10 0.17
21 17 0.29
22 12 0.21
23 19 0.33
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (21 bp):
TGCATCGATACACCTTGAATG
Found at i:609534 original size:23 final size:23
Alignment explanation
Indices: 609470--609550 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
609460 ACACCTAACA
* *
609470 GTGCATCCATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
609492 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
*
609513 GTGCACCGATGCACACCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
*
609536 GTGAATCGATGCACA
1 GTGCATCGATGCACA
609551 AGGCCTTGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 9 0.19
23 22 0.47
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:612315 original size:65 final size:64
Alignment explanation
Indices: 612202--612394 Score: 198
Period size: 65 Copynumber: 3.0 Consensus size: 64
612192 TGCACCAATG
* * *
612202 CACCAATCCATGCATCGATGCAC-CATGA-ATTAAATTG-AACATTGAATGCATTTTATGCATCG
1 CACCAA-CCATGCATCGATGCACTCAGGATATT---TTGAAACATCGAATGCATTTGATGCATCG
612264 ATA
62 ATA
* *
612267 CA-CATACCATGCATCGATGCACTGAGGAT-TTTATGAAAACATCGAATGCATTAGATGCATCGA
1 CACCA-ACCATGCATCGATGCACTCAGGATATTT-TG-AAACATCGAATGCATTTGATGCATCGA
*
612330 TG
63 TA
* * * *
612332 CACCAGCCATGCATCGATGCACTCTGGGTATTTTGAAACATCGAATGCACTTGATGCATCGAT
1 CACCAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTGATGCATCGAT
612395 GCACTCTTAG
Statistics
Matches: 108, Mismatches: 12, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
62 1 0.01
63 2 0.02
64 44 0.41
65 56 0.52
66 5 0.05
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.27
Consensus pattern (64 bp):
CACCAACCATGCATCGATGCACTCAGGATATTTTGAAACATCGAATGCATTTGATGCATCGATA
Found at i:612398 original size:17 final size:19
Alignment explanation
Indices: 612370--612418 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
612360 TATTTTGAAA
612370 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
612388 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
612407 CACCGATGCACT
1 CATCGATGCACT
612419 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:615711 original size:16 final size:17
Alignment explanation
Indices: 615676--615716 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
615666 ATGGGATGAG
615676 AAAAATAATATTATTGT
1 AAAAATAATATTATTGT
615693 AAAAAT-ATAATTATT-T
1 AAAAATAAT-ATTATTGT
615709 -AAAATAAT
1 AAAAATAAT
615717 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.23
16 5 0.23
17 12 0.55
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAAAATAATATTATTGT
Found at i:615974 original size:21 final size:22
Alignment explanation
Indices: 615921--615976 Score: 62
Period size: 21 Copynumber: 2.5 Consensus size: 22
615911 ATAGTATAAC
*
615921 AATTCAAATATTTTATGAATTTT
1 AATTTAAATA-TTTATGAATTTT
*
615944 TATTTAAATATTTAT-AATTTAT
1 AATTTAAATATTTATGAATTT-T
615966 AATTT-AATATT
1 AATTTAAATATT
615977 AAAGTTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 10 0.34
23 8 0.28
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
AATTTAAATATTTATGAATTTT
Found at i:623087 original size:16 final size:16
Alignment explanation
Indices: 623062--623093 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
623052 ATTCATACAG
623062 AGCATCTGAATCATTC
1 AGCATCTGAATCATTC
*
623078 AGCATTTGAATCATTC
1 AGCATCTGAATCATTC
623094 TAAAGTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (16 bp):
AGCATCTGAATCATTC
Found at i:624381 original size:23 final size:23
Alignment explanation
Indices: 624355--624399 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
624345 CACCACAGCT
*
624355 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
624378 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
624400 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:624617 original size:149 final size:149
Alignment explanation
Indices: 624367--624681 Score: 560
Period size: 149 Copynumber: 2.1 Consensus size: 149
624357 TATAATTGCA
624367 CCGAAGTG-CCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
1 CCGAAG-GACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTA
624431 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTTTCAAGACTTCACACATGTT
65 TTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTTTCAAGACTTCACACATGTT
* *
624496 CCACAGAATATATATATATC
130 CCAAAGAATATACATATATC
*
624516 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATCATGTCCATAAGGACCACATATTAT
1 CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
* *
624581 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTC
66 TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTTTCAAGACTTCACACATGTTC
*
624646 CAAAGAATATACATATGTC
131 CAAAGAATATACATATATC
624665 CCGAAGGACCGCGTAGA
1 CCGAAGGACCGCGTAGA
624682 CCCTCGACTC
Statistics
Matches: 159, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
148 1 0.01
149 158 0.99
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.28
Consensus pattern (149 bp):
CCGAAGGACCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTAT
TCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTTTCAAGACTTCACACATGTTC
CAAAGAATATACATATATC
Found at i:625234 original size:2 final size:2
Alignment explanation
Indices: 625227--625278 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
625217 TCTCTTAGAC
625227 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
625269 AT AT AT AT AT
1 AT AT AT AT AT
625279 TCACATGTTC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:626245 original size:21 final size:21
Alignment explanation
Indices: 626221--626265 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
626211 TTTTGTTCGT
* *
626221 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
626242 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
626263 TTG
1 TTG
626266 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:628282 original size:18 final size:19
Alignment explanation
Indices: 628245--628284 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
628235 GCAACTAAGT
628245 GATGATACTCGAAGAAATA
1 GATGATACTCGAAGAAATA
628264 GATGA-ACT-GAAGCAAATA
1 GATGATACTCGAAG-AAATA
628282 GAT
1 GAT
628285 CGCAGTTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.47, C:0.10, G:0.23, T:0.20
Consensus pattern (19 bp):
GATGATACTCGAAGAAATA
Found at i:631831 original size:6 final size:6
Alignment explanation
Indices: 631820--631887 Score: 109
Period size: 6 Copynumber: 11.3 Consensus size: 6
631810 CAAGTTGATT
*
631820 GGATGA GGATGA GGATGA GGATGA GGATGA GGATGA GGATGA GGAAGA
1 GGATGA GGATGA GGATGA GGATGA GGATGA GGATGA GGATGA GGATGA
* *
631868 GGAAGA GGATGA GGAAGA GG
1 GGATGA GGATGA GGATGA GG
631888 CAGCTTGGGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 59 1.00
ACGTcount: A:0.37, C:0.00, G:0.51, T:0.12
Consensus pattern (6 bp):
GGATGA
Found at i:634609 original size:31 final size:31
Alignment explanation
Indices: 634571--634755 Score: 336
Period size: 31 Copynumber: 6.0 Consensus size: 31
634561 GGGTCGAGGG
634571 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
634602 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
634633 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
634664 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
634695 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
634726 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
634756 GTCCTTCGGG
Statistics
Matches: 151, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
31 150 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:635689 original size:15 final size:15
Alignment explanation
Indices: 635669--635706 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
635659 TTGAGACATT
*
635669 ACCCGCCCCGCATCC
1 ACCCGCCCCACATCC
635684 ACCCGCCCCACATCC
1 ACCCGCCCCACATCC
*
635699 GCCCGCCC
1 ACCCGCCC
635707 AGTTAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.13, C:0.68, G:0.13, T:0.05
Consensus pattern (15 bp):
ACCCGCCCCACATCC
Found at i:639830 original size:20 final size:21
Alignment explanation
Indices: 639807--639899 Score: 84
Period size: 20 Copynumber: 4.6 Consensus size: 21
639797 GTTTTCAGAT
639807 TCGCAACGCGATTTTG-ACAA
1 TCGCAACGCGATTTTGTACAA
** *
639827 TCGCATTGCGATTTTGTAAAA
1 TCGCAACGCGATTTTGTACAA
* * *
639848 TCGCAATGCGAATATGTA-AA
1 TCGCAACGCGATTTTGTACAA
* *
639868 TCGCAACGCGATTCTG-ACTA
1 TCGCAACGCGATTTTGTACAA
*
639888 TCGCAAAGCGAT
1 TCGCAACGCGAT
639900 AATACAAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
19 1 0.02
20 41 0.68
21 18 0.30
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
TCGCAACGCGATTTTGTACAA
Found at i:639851 original size:21 final size:21
Alignment explanation
Indices: 639807--639965 Score: 81
Period size: 21 Copynumber: 7.7 Consensus size: 21
639797 GTTTTCAGAT
* *
639807 TCGCAACGCGATTTTG-ACAA
1 TCGCAATGCGATTTTGTAAAA
*
639827 TCGCATTGCGATTTTGTAAAA
1 TCGCAATGCGATTTTGTAAAA
* *
639848 TCGCAATGCGAATATGT-AAA
1 TCGCAATGCGATTTTGTAAAA
* * **
639868 TCGCAACGCGATTCTG-ACTA
1 TCGCAATGCGATTTTGTAAAA
* ** **
639888 TCGCAAAGCGATAATACAAAA
1 TCGCAATGCGATTTTGTAAAA
* ** **
639909 TCGCAACGCGATAATACAAAA
1 TCGCAATGCGATTTTGTAAAA
* ** **
639930 TCGCAACGCGATAATACAAAA
1 TCGCAATGCGATTTTGTAAAA
639951 TCGCAATGCGATTTT
1 TCGCAATGCGATTTT
639966 CAAAGCGCCA
Statistics
Matches: 115, Mismatches: 21, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
20 43 0.37
21 72 0.63
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGATTTTGTAAAA
Found at i:639909 original size:61 final size:62
Alignment explanation
Indices: 639807--639941 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 62
639797 GTTTTCAGAT
* ** ** ** * **
639807 TCGCAACGCGATTTTGACAATCGCATTGCGATTTTGTAAAATCGCAATGCG--AATATGTAAA
1 TCGCAACGCGATTCTGACAATCGCAAAGCGATAATACAAAATCGCAACGCGATAATA-CAAAA
*
639868 TCGCAACGCGATTCTGACTATCGCAAAGCGATAATACAAAATCGCAACGCGATAATACAAAA
1 TCGCAACGCGATTCTGACAATCGCAAAGCGATAATACAAAATCGCAACGCGATAATACAAAA
639930 TCGCAACGCGAT
1 TCGCAACGCGAT
639942 AATACAAAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
61 42 0.69
62 15 0.25
63 4 0.07
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (62 bp):
TCGCAACGCGATTCTGACAATCGCAAAGCGATAATACAAAATCGCAACGCGATAATACAAAA
Found at i:640141 original size:22 final size:22
Alignment explanation
Indices: 640107--640164 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
640097 CTACGGTGAC
* *
640107 ATCCGCCCCCATCTCCGACGAA
1 ATCCGTCCTCATCTCCGACGAA
640129 ATCCGTCCTCATCTCCGACGAA
1 ATCCGTCCTCATCTCCGACGAA
640151 ATCCGT-CT-ATCTCC
1 ATCCGTCCTCATCTCC
640165 ATCTCTCAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 26 0.76
ACGTcount: A:0.21, C:0.45, G:0.12, T:0.22
Consensus pattern (22 bp):
ATCCGTCCTCATCTCCGACGAA
Found at i:642546 original size:20 final size:20
Alignment explanation
Indices: 642521--642587 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
642511 CGAAACTTAA
642521 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
642541 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
**
642561 ATCGCAACGCGAAGTTGACT
1 ATCGCAACGCGAAAATGACT
642581 ATCGCAA
1 ATCGCAA
642588 TGGTATAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:642673 original size:19 final size:19
Alignment explanation
Indices: 642651--642704 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
642641 CGCGAATTTA
642651 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
642670 GTTTCGCGTTGCGATTTTT
1 GTTTCGCGTTGCGATTTTG
* *
642689 ATTTCGCATTGCGATT
1 GTTTCGCGTTGCGATT
642705 ATCCTGTTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:642777 original size:20 final size:20
Alignment explanation
Indices: 642710--642777 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
642700 CGATTATCCT
* **
642710 GTTGTGATAGTCAACTTCGC
1 GTTGCGATAGTCATTTTCGC
*
642730 GTTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTTTCGC
* * *
642750 ATTACGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGC
642770 GTTGCGAT
1 GTTGCGAT
642778 TTAAGTTTCG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGC
Found at i:642788 original size:19 final size:20
Alignment explanation
Indices: 642764--642806 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
642754 CGATAGTCAT
* *
642764 TTTCGTGTTGCGA-TTTAAG
1 TTTCGTATTACGATTTTAAG
642783 TTTCGTATTACGATTTTAAG
1 TTTCGTATTACGATTTTAAG
642803 TTTC
1 TTTC
642807 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.51
Consensus pattern (20 bp):
TTTCGTATTACGATTTTAAG
Found at i:643336 original size:21 final size:20
Alignment explanation
Indices: 643312--643381 Score: 59
Period size: 21 Copynumber: 3.4 Consensus size: 20
643302 CTATCATCCC
643312 TCAAGAGTCCTCTCCCACCGT
1 TCAAGAGTCC-CTCCCACCGT
* ** *
643333 TCAAGAGGCCCCTGTCATCGT
1 TCAAGA-GTCCCTCCCACCGT
* *
643354 TGAAGAGGTCCCTCCCACCAT
1 TCAAGA-GTCCCTCCCACCGT
643375 TCAAGAG
1 TCAAGAG
643382 CCCGATTCAT
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
20 1 0.03
21 33 0.89
22 3 0.08
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (20 bp):
TCAAGAGTCCCTCCCACCGT
Found at i:643360 original size:42 final size:42
Alignment explanation
Indices: 643288--643381 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 42
643278 CACCTGTCAT
*
643288 CGTTGAAGAGGCCCCTATCATCCCTCAAGA-GTCCTCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCC-CTCCCAC
* ** *
643330 CGTTCAAGAGGCCCCTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCAC
*
643372 CATTCAAGAG
1 CGTTCAAGAG
643382 CCCGATTCAT
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 41 0.91
43 4 0.09
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCCCTATCATCCCTCAAGAGGTCCCTCCCAC
Found at i:644788 original size:14 final size:14
Alignment explanation
Indices: 644769--644805 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
644759 GCTTGTTTAA
644769 TTGATTTGTAAAAC
1 TTGATTTGTAAAAC
*
644783 TTGATTTGTAAAAG
1 TTGATTTGTAAAAC
644797 TTGATTTGT
1 TTGATTTGT
644806 TTAATATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.03, G:0.19, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAC
Found at i:644965 original size:20 final size:20
Alignment explanation
Indices: 644942--644980 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
644932 ACGCTAAACT
*
644942 CAAAATCGCAATGTGAAAGC
1 CAAAATCGCAATGCGAAAGC
644962 CAAAATCGCAATGCGAAAG
1 CAAAATCGCAATGCGAAAG
644981 TCAATTCGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.13
Consensus pattern (20 bp):
CAAAATCGCAATGCGAAAGC
Found at i:644995 original size:19 final size:20
Alignment explanation
Indices: 644967--645016 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
644957 AAAGCCAAAA
*
644967 TCGCAATGCGAAAGTC-AAT
1 TCGCATTGCGAAAGTCTAAT
*
644986 TCGCATTGCGATAGTCTAAT
1 TCGCATTGCGAAAGTCTAAT
* *
645006 ACGCTTTGCGA
1 TCGCATTGCGA
645017 TTTTCTCGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (20 bp):
TCGCATTGCGAAAGTCTAAT
Found at i:645048 original size:20 final size:20
Alignment explanation
Indices: 645023--645157 Score: 193
Period size: 20 Copynumber: 6.8 Consensus size: 20
645013 GCGATTTTCT
* *
645023 CGTTGCGATAGTCAAATACC
1 CGTTGCGATAGTCAAATTCG
* *
645043 CGTTGCGATAATCAAATTCA
1 CGTTGCGATAGTCAAATTCG
645063 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
645083 CGTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
645103 CGTTGTGATAGTCAAA-T-G
1 CGTTGCGATAGTCAAATTCG
645121 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
645141 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
645158 GAATGTGTAA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
18 16 0.16
19 2 0.02
20 85 0.83
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:645147 original size:58 final size:60
Alignment explanation
Indices: 645023--645157 Score: 193
Period size: 58 Copynumber: 2.3 Consensus size: 60
645013 GCGATTTTCT
*
645023 CGTTGCGATAGTCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCG
* * * * *
645083 CGTTGCGATAATCAAATTCGCGTTGTGATAGTCAAA-T-GCGTTGCGATAGTCAAATTCG
1 CGTTGCGATAATCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCG
*
645141 CGTTGCGATATTCAAAT
1 CGTTGCGATAATCAAAT
645158 GAATGTGTAA
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
58 36 0.53
59 1 0.01
60 31 0.46
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.30
Consensus pattern (60 bp):
CGTTGCGATAATCAAATACCCGTTGCGATAATCAAATTCACGTTGCGATAGTCAAATTCG
Found at i:645380 original size:140 final size:140
Alignment explanation
Indices: 645128--645410 Score: 505
Period size: 140 Copynumber: 2.0 Consensus size: 140
645118 ATGCGTTGCG
* * *
645128 ATAGTCAAATTCGCGTTGCGATATTCAAATGAATGTGTAATAAGTGATAACAACTGAATAGATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATAAATATGTAATAAGTGATAACAACTGAATAAATCA
645193 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
66 TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
*
645258 AATGCACATA
131 AATACACATA
*
645268 ATAGTCAAATTCGCGTTGCGATATTCAAATAAATATGTAATAAGTGATAACAATTGAATAAATCA
1 ATAGTCAAATTCGCGTTGCGATATTCAAATAAATATGTAATAAGTGATAACAACTGAATAAATCA
645333 -AAGCAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
66 TAA-CAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATA
645397 AAATACACATA
130 AAATACACATA
645408 ATA
1 ATA
645411 CAACGTTTGC
Statistics
Matches: 137, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
139 2 0.01
140 135 0.99
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (140 bp):
ATAGTCAAATTCGCGTTGCGATATTCAAATAAATATGTAATAAGTGATAACAACTGAATAAATCA
TAACAATGTTCAAACTCAAGTTACTAATACATGCCTAACTGAAAATGTTAAAAGTTTACACATAA
AATACACATA
Found at i:648658 original size:20 final size:20
Alignment explanation
Indices: 648611--648658 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
648601 GAAATTCAGT
*
648611 GTTGCGACAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
648631 GTTGCGATAGTCAGAATTGC
1 GTTGCGATAGTCAGAATCGC
648651 GTTGCGAT
1 GTTGCGAT
648659 TTATATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:653229 original size:46 final size:46
Alignment explanation
Indices: 653126--653698 Score: 677
Period size: 46 Copynumber: 12.5 Consensus size: 46
653116 ACAGTTATGT
* * *
653126 ATTTTCATTTGA-GACATTCTTTCATGCCAATTATGCACTTGTTATAC
1 ATTTTCATTT-ATGACATCCTTTTATACCAATTATGCA-TTGTTATAC
*
653173 ATTTTCATTTACGACATCCTTTTATACCAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
*
653219 ATTTTCATTTATGACATCCTTTCATACCAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* * * *
653265 ATTTTCATTTATGACATCATTTTATTCCGATTATACATTGTTATAC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* * * * * * *
653311 ATTTTCCTTTATGGCATACTTTTATTCCAATTTTGCATTTTTATAT
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
** ** *
653357 ATACTCATTTATGGTATCCTTTCATACCAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* *
653403 ATTTTCATTTATGACATCCTTTTATTCCAATTATGCATTGTTATAG
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* * *
653449 A-TTTCCTTTATGACATACTTTTGTTA-CAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCCTTTT-ATACCAATTATGCATTGTTATAC
* ** * *
653494 ATTTTTATTTATGGTATCCTTTCATACCAATTATGCATTGTTATTC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* *
653540 ATTTTCATTTATGGCATCCTTTTATTCCAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* * *
653586 ATTTTCCTTTATGACATACTTTTATTCCAATTATGCATTGTTATAC
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
* ** * * ** **
653632 ATTTTTATTTATGGTATCCTTTCATACCAATAATGCACCGTTATGT
1 ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
*
653678 A-TTTCATTTATGCCATCCTTT
1 ATTTTCATTTATGACATCCTTT
653699 CATGTCGTTA
Statistics
Matches: 450, Mismatches: 72, Indels: 10
0.85 0.14 0.02
Matches are distributed among these distances:
45 57 0.13
46 361 0.80
47 32 0.07
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (46 bp):
ATTTTCATTTATGACATCCTTTTATACCAATTATGCATTGTTATAC
Found at i:653365 original size:138 final size:138
Alignment explanation
Indices: 653126--653698 Score: 828
Period size: 138 Copynumber: 4.2 Consensus size: 138
653116 ACAGTTATGT
* * * * *
653126 ATTTTCATTTGA-GACATTCTTTCATGCCAATTATGCACTTGTTATACATTTTCATTTACGACAT
1 ATTTTCATTT-ATGACATCCTTTTATTCCAATTATGCA-TTGTTATACATTTTCCTTTATGACAT
* * **
653190 CCTTTTATACCAATTATGCATTGTTATACATTTTCATTTATGACATCCTTTCATACCAATTATGC
64 ACTTTTATTCCAATTATGCATTGTTATACATTTTCATTTATGGTATCCTTTCATACCAATTATGC
653255 ATTGTTATAC
129 ATTGTTATAC
* * * *
653265 ATTTTCATTTATGACATCATTTTATTCCGATTATACATTGTTATACATTTTCCTTTATGGCATAC
1 ATTTTCATTTATGACATCCTTTTATTCCAATTATGCATTGTTATACATTTTCCTTTATGACATAC
* * * **
653330 TTTTATTCCAATTTTGCATTTTTATATATACTCATTTATGGTATCCTTTCATACCAATTATGCAT
66 TTTTATTCCAATTATGCATTGTTATACATTTTCATTTATGGTATCCTTTCATACCAATTATGCAT
653395 TGTTATAC
131 TGTTATAC
*
653403 ATTTTCATTTATGACATCCTTTTATTCCAATTATGCATTGTTATAGA-TTTCCTTTATGACATAC
1 ATTTTCATTTATGACATCCTTTTATTCCAATTATGCATTGTTATACATTTTCCTTTATGACATAC
* * *
653467 TTTTGTTACAATTATGCATTGTTATACATTTTTATTTATGGTATCCTTTCATACCAATTATGCAT
66 TTTTATTCCAATTATGCATTGTTATACATTTTCATTTATGGTATCCTTTCATACCAATTATGCAT
*
653532 TGTTATTC
131 TGTTATAC
*
653540 ATTTTCATTTATGGCATCCTTTTATTCCAATTATGCATTGTTATACATTTTCCTTTATGACATAC
1 ATTTTCATTTATGACATCCTTTTATTCCAATTATGCATTGTTATACATTTTCCTTTATGACATAC
* * *
653605 TTTTATTCCAATTATGCATTGTTATACATTTTTATTTATGGTATCCTTTCATACCAATAATGCAC
66 TTTTATTCCAATTATGCATTGTTATACATTTTCATTTATGGTATCCTTTCATACCAATTATGCAT
* **
653670 CGTTATGT
131 TGTTATAC
*
653678 A-TTTCATTTATGCCATCCTTT
1 ATTTTCATTTATGACATCCTTT
653699 CATGTCGTTA
Statistics
Matches: 390, Mismatches: 42, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
137 144 0.37
138 217 0.56
139 29 0.07
ACGTcount: A:0.26, C:0.17, G:0.08, T:0.49
Consensus pattern (138 bp):
ATTTTCATTTATGACATCCTTTTATTCCAATTATGCATTGTTATACATTTTCCTTTATGACATAC
TTTTATTCCAATTATGCATTGTTATACATTTTCATTTATGGTATCCTTTCATACCAATTATGCAT
TGTTATAC
Found at i:654083 original size:34 final size:32
Alignment explanation
Indices: 654021--654090 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
654011 ACCTTACAAC
* *
654021 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
654053 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
654087 TCCC
1 TCCC
654091 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:654476 original size:20 final size:20
Alignment explanation
Indices: 654447--654539 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
654437 GCAGCCTTCG
*
654447 TGCATGGATGCACAGCAAGA
1 TGCATCGATGCACAGCAAGA
654467 TGCATCGATGCACAGCAAGA
1 TGCATCGATGCACAGCAAGA
654487 TGCATCGATGCACAGCAAGA
1 TGCATCGATGCACAGCAAGA
654507 TGCATCGATGCACAG-AAGGA
1 TGCATCGATGCACAGCAA-GA
*
654527 TGCATCAATGCAC
1 TGCATCGATGCAC
654540 TAATTGCATT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
19 2 0.03
20 68 0.97
ACGTcount: A:0.34, C:0.24, G:0.26, T:0.16
Consensus pattern (20 bp):
TGCATCGATGCACAGCAAGA
Found at i:654604 original size:22 final size:23
Alignment explanation
Indices: 654574--654616 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
654564 ATGGATTCAC
654574 TGCATGGTGCATCGATGCACTAG
1 TGCATGGTGCATCGATGCACTAG
*
654597 TGCA-GGTGCATGGATGCACT
1 TGCATGGTGCATCGATGCACT
654617 GCAGGGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (23 bp):
TGCATGGTGCATCGATGCACTAG
Found at i:654760 original size:29 final size:29
Alignment explanation
Indices: 654739--654796 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
654729 AAACTTTGAA
654739 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
654768 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
654797 TTCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:654786 original size:30 final size:30
Alignment explanation
Indices: 654739--654797 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
654729 AAACTTTGAA
654739 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
654768 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATT-AAGTCCAAAAACCATTTT
654798 TCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.05, T:0.34
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:656123 original size:19 final size:19
Alignment explanation
Indices: 656076--656123 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
656066 TCTAAATCAT
*
656076 TTTTCAAAATTTTATTTTAG
1 TTTT-AAAAATTTATTTTAG
* * *
656096 CTTTCAAAATTTATTTTTG
1 TTTTAAAAATTTATTTTAG
656115 TTTTAAAAA
1 TTTTAAAAA
656124 GAAAATCATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTTAAAAATTTATTTTAG
Found at i:657456 original size:41 final size:41
Alignment explanation
Indices: 657411--657490 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
657401 CTAGTTGTTG
* *
657411 CAGCCTTCG-TGCATGGATGCATA-ACAGGATGCATCGATGCA
1 CAGCCTT-GATGCATCGATGCACAGA-AGGATGCATCGATGCA
*
657452 CAGCCTTGATGCATCTATGCACAGAAGGATGCATCGATG
1 CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATG
657491 AACTAATTGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 1 0.03
41 32 0.94
42 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.23
Consensus pattern (41 bp):
CAGCCTTGATGCATCGATGCACAGAAGGATGCATCGATGCA
Found at i:657533 original size:13 final size:13
Alignment explanation
Indices: 657515--657583 Score: 52
Period size: 13 Copynumber: 5.1 Consensus size: 13
657505 GGTGTTTGAG
657515 TGCATGGATGCAC
1 TGCATGGATGCAC
*
657528 TGCATGG-TGCATGGA
1 TGCATGGATGCA---C
*
657543 TGCACTGG-TGCATG
1 TGCA-TGGATGCA-C
657557 TGCATGGATGCAC
1 TGCATGGATGCAC
*
657570 TGCAGGGATGCAC
1 TGCATGGATGCAC
657583 T
1 T
657584 TTGACACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
12 4 0.09
13 23 0.50
14 8 0.17
15 4 0.09
16 7 0.15
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (13 bp):
TGCATGGATGCAC
Found at i:657539 original size:20 final size:19
Alignment explanation
Indices: 657514--657573 Score: 84
Period size: 20 Copynumber: 2.9 Consensus size: 19
657504 CGGTGTTTGA
657514 GTGCATGGATGCACTGCAT
1 GTGCATGGATGCACTGCAT
657533 GGTGCATGGATGCACTGGTGCAT
1 -GTGCATGGATGCAC---TGCAT
657556 GTGCATGGATGCACTGCA
1 GTGCATGGATGCACTGCA
657574 GGGATGCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 4 0.11
20 14 0.38
22 14 0.38
23 5 0.14
ACGTcount: A:0.20, C:0.20, G:0.35, T:0.25
Consensus pattern (19 bp):
GTGCATGGATGCACTGCAT
Found at i:657562 original size:22 final size:22
Alignment explanation
Indices: 657514--657571 Score: 86
Period size: 22 Copynumber: 2.7 Consensus size: 22
657504 CGGTGTTTGA
657514 GTGCATGGATGCAC--TGCATG
1 GTGCATGGATGCACTGTGCATG
657534 GTGCATGGATGCACTGGTGCAT-
1 GTGCATGGATGCACT-GTGCATG
657556 GTGCATGGATGCACTG
1 GTGCATGGATGCACTG
657572 CAGGGATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 14 0.40
21 1 0.03
22 15 0.43
23 5 0.14
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.26
Consensus pattern (22 bp):
GTGCATGGATGCACTGTGCATG
Found at i:657684 original size:29 final size:29
Alignment explanation
Indices: 657663--657720 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
657653 AAACTTTGAA
657663 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
657692 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
657721 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:657710 original size:30 final size:30
Alignment explanation
Indices: 657663--657722 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
657653 AAACTTTGAA
657663 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
657692 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
657723 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:657832 original size:45 final size:45
Alignment explanation
Indices: 657757--657964 Score: 299
Period size: 45 Copynumber: 4.6 Consensus size: 45
657747 AGTTCAACAT
* *
657757 CATCTTTTCATGCCGTTAATGTACCATTATGCATTTCATATATGG
1 CATCCTTTCATGCCGTTAATGCACCATTATGCATTTCATATATGG
* * *
657802 CATCCTTTAATGCCGTTAATGCACCGTTATGCATTTCATATATGA
1 CATCCTTTCATGCCGTTAATGCACCATTATGCATTTCATATATGG
* * *
657847 CATCCTTTCATGTCGTTATTGCACCATTATGCATTTCATATATGT
1 CATCCTTTCATGCCGTTAATGCACCATTATGCATTTCATATATGG
* * *
657892 CATCCTTTCATGACTTTAATGCATCATTATGCATTTCATATATGG
1 CATCCTTTCATGCCGTTAATGCACCATTATGCATTTCATATATGG
* *
657937 TATCCTTTCATGCCATTAATGCACCATT
1 CATCCTTTCATGCCGTTAATGCACCATT
657965 TGTGCTCAAT
Statistics
Matches: 144, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 144 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (45 bp):
CATCCTTTCATGCCGTTAATGCACCATTATGCATTTCATATATGG
Found at i:659928 original size:17 final size:17
Alignment explanation
Indices: 659902--659943 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
659892 CTAATAAAGA
659902 AAAT-GATATCCTACAC
1 AAATGGATATCCTACAC
*
659918 AAATGGATATCCTACAT
1 AAATGGATATCCTACAC
659935 AAATGGATA
1 AAATGGATA
659944 CCCAAGAGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.45, C:0.17, G:0.12, T:0.26
Consensus pattern (17 bp):
AAATGGATATCCTACAC
Found at i:660436 original size:2 final size:2
Alignment explanation
Indices: 660429--660469 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
660419 AAATACGATA
660429 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
660470 GATTTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:660938 original size:23 final size:23
Alignment explanation
Indices: 660920--660980 Score: 86
Period size: 23 Copynumber: 2.7 Consensus size: 23
660910 CTCGTATAAA
660920 TGCACCGAAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
* * *
660943 TGCACCAAAGTACCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
660966 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
660981 TATAAGATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.30, C:0.28, G:0.25, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:661759 original size:61 final size:63
Alignment explanation
Indices: 661672--661810 Score: 192
Period size: 61 Copynumber: 2.2 Consensus size: 63
661662 CTTAAGGAGG
* * * *
661672 TGCATCGATGCACTCCTTATGCATCGATGCAATGAGGGCATTTGATGTTCATTTAATTGAAAA
1 TGCATCGATGCACTCCTTATGCATCGATGCAATGACGACATTCGATGTTCAATTAATTGAAAA
* * **
661735 TGCATCGATGCA-T-CTTATGCATCGATGCACTGACGACATTCGATGTTCAATTACTTGAGGA
1 TGCATCGATGCACTCCTTATGCATCGATGCAATGACGACATTCGATGTTCAATTAATTGAAAA
661796 TGCATCGATGCACTC
1 TGCATCGATGCACTC
661811 AACCCATAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
61 52 0.79
62 2 0.03
63 12 0.18
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.32
Consensus pattern (63 bp):
TGCATCGATGCACTCCTTATGCATCGATGCAATGACGACATTCGATGTTCAATTAATTGAAAA
Found at i:667458 original size:23 final size:22
Alignment explanation
Indices: 667432--667500 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 22
667422 CACCACAGCT
667432 CGTATAAATGCACCGAAGTGCCA
1 CGTA-AAATGCACCGAAGTGCCA
*
667455 CGTAAAATTGCACCGAAGTGCCG
1 CGTAAAA-TGCACCGAAGTGCCA
*
667478 CGTAGAATTGCACC-ATAGTGCCA
1 CGTA-AAATGCACCGA-AGTGCCA
667501 TATAAGATTG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 4 0.10
23 34 0.85
24 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (22 bp):
CGTAAAATGCACCGAAGTGCCA
Found at i:676732 original size:21 final size:21
Alignment explanation
Indices: 676708--676747 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
676698 TTCTACGTGG
676708 TCCTTC-GAGACATATATGTAA
1 TCCTTCGGA-ACATATATGTAA
*
676729 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
676748 TGTACTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:676849 original size:18 final size:18
Alignment explanation
Indices: 676826--676861 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
676816 TATGTGATAC
* *
676826 GTGGTCCTTCGGGACATA
1 GTGGTCATTCGGAACATA
676844 GTGGTCATTCGGAACATA
1 GTGGTCATTCGGAACATA
676862 TCAGTCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (18 bp):
GTGGTCATTCGGAACATA
Found at i:677193 original size:2 final size:2
Alignment explanation
Indices: 677186--677217 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
677176 TATGTACATG
677186 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
677218 ACATTATGTA
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:683549 original size:21 final size:22
Alignment explanation
Indices: 683481--683555 Score: 82
Period size: 23 Copynumber: 3.4 Consensus size: 22
683471 AGTGCAGAGA
*
683481 GAATCGATACCCACCTTGAAGGG
1 GAATCGATTCCC-CCTTGAAGGG
* *
683504 GAACCGATTCCCCCTTTGAATGG
1 GAATCGATTCCCCC-TTGAAGGG
683527 GAATCGATTCCCTCCTTG-A-GG
1 GAATCGATTCCC-CCTTGAAGGG
683548 GAATCGAT
1 GAATCGAT
683556 ACCTCCCACG
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
21 10 0.22
22 3 0.07
23 31 0.67
24 2 0.04
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (22 bp):
GAATCGATTCCCCCTTGAAGGG
Found at i:689592 original size:14 final size:15
Alignment explanation
Indices: 689563--689592 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
689553 TATGAAAATA
689563 AGAACATGTGATATG
1 AGAACATGTGATATG
689578 AGAACATGT-ATATG
1 AGAACATGTGATATG
689592 A
1 A
689593 TTATGAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (15 bp):
AGAACATGTGATATG
Found at i:689951 original size:18 final size:18
Alignment explanation
Indices: 689928--689979 Score: 77
Period size: 18 Copynumber: 2.9 Consensus size: 18
689918 TATGTGATAT
689928 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
689946 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* * *
689964 GCGATCATTCGGGACA
1 GTGGTCCTTCGGGACA
689980 AATTCTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.19, C:0.23, G:0.33, T:0.25
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:690505 original size:15 final size:16
Alignment explanation
Indices: 690485--690514 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
690475 CAGATCAGAA
690485 ATGTA-TTTGAATAAT
1 ATGTATTTTGAATAAT
690500 ATGTATTTTGAATAA
1 ATGTATTTTGAATAA
690515 GAAATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (16 bp):
ATGTATTTTGAATAAT
Found at i:693691 original size:14 final size:15
Alignment explanation
Indices: 693662--693691 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
693652 TATGAAAATA
693662 AGAACATGTGATATG
1 AGAACATGTGATATG
693677 AGAACATGT-ATATG
1 AGAACATGTGATATG
693691 A
1 A
693692 TTATGAGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.43, C:0.07, G:0.23, T:0.27
Consensus pattern (15 bp):
AGAACATGTGATATG
Found at i:693958 original size:21 final size:21
Alignment explanation
Indices: 693909--693948 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
693899 TTCTACGTGG
*
693909 TCATTTGAAACATATATGTAA
1 TCATTTGGAACATATATGTAA
693930 TCATTTGGAACATATATGT
1 TCATTTGGAACATATATGT
693949 GATACTTTGG
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:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (21 bp):
TCATTTGGAACATATATGTAA
Found at i:695575 original size:20 final size:21
Alignment explanation
Indices: 695538--695576 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
695528 AAACTAAAAC
*
695538 AAATATATATAATTATTATCA
1 AAATATATATAATAATTATCA
*
695559 AAATA-ATATTATAATTAT
1 AAATATATATAATAATTAT
695577 ATGATGATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATATATAATAATTATCA
Found at i:696582 original size:17 final size:16
Alignment explanation
Indices: 696535--696587 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
696525 CTTATACTAA
*
696535 AAAATTA-AATAAATA
1 AAAATTACAATAAATT
696550 AAAATTCACAAT-AATT
1 AAAATT-ACAATAAATT
696566 AAAATTACAATAGAATTT
1 AAAATTACAATA-AA-TT
696584 AAAA
1 AAAA
696588 ATTGTTACTG
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 11 0.34
16 10 0.31
17 5 0.16
18 6 0.19
ACGTcount: A:0.64, C:0.06, G:0.02, T:0.28
Consensus pattern (16 bp):
AAAATTACAATAAATT
Found at i:696814 original size:11 final size:11
Alignment explanation
Indices: 696798--696823 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
696788 GAATTTGAGA
696798 TTTGAGTGTGG
1 TTTGAGTGTGG
696809 TTTGAGTGTGG
1 TTTGAGTGTGG
696820 TTTG
1 TTTG
696824 GAGGTTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.42, T:0.50
Consensus pattern (11 bp):
TTTGAGTGTGG
Found at i:697001 original size:61 final size:61
Alignment explanation
Indices: 696936--697083 Score: 149
Period size: 61 Copynumber: 2.4 Consensus size: 61
696926 ACGTGTCAGA
*
696936 AACCCCACGAAGGCGCGGATCGCC-ATCCGTA-CCTTTCCTTACGTGGCACCAGCT-TGAACAG
1 AACCCCACGAAGGCGCGGAT-GCCGATCCG-AGCCTTTCCTTACGTGGCACCAGCTCGGAA-AG
** * * * *
696997 AACCCCGTGAAGGCGCGAATGCCGATCTGAGCCTTTCCTTATGTGGCGCCAGCTCGGAAAG
1 AACCCCACGAAGGCGCGGATGCCGATCCGAGCCTTTCCTTACGTGGCACCAGCTCGGAAAG
* * * *
697058 AATCCCTCGAAGGCGTGGATGGCGAT
1 AACCCCACGAAGGCGCGGATGCCGAT
697084 TCGCGCTTTA
Statistics
Matches: 71, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
60 4 0.06
61 64 0.90
62 3 0.04
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (61 bp):
AACCCCACGAAGGCGCGGATGCCGATCCGAGCCTTTCCTTACGTGGCACCAGCTCGGAAAG
Found at i:700377 original size:24 final size:24
Alignment explanation
Indices: 700350--700406 Score: 114
Period size: 24 Copynumber: 2.4 Consensus size: 24
700340 ACAAATACGA
700350 TACAAACACTAGCTGCGGCTAGTT
1 TACAAACACTAGCTGCGGCTAGTT
700374 TACAAACACTAGCTGCGGCTAGTT
1 TACAAACACTAGCTGCGGCTAGTT
700398 TACAAACAC
1 TACAAACAC
700407 AACCTACTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (24 bp):
TACAAACACTAGCTGCGGCTAGTT
Found at i:705649 original size:23 final size:24
Alignment explanation
Indices: 705605--705650 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
705595 AAATAATTAA
* *
705605 CATATTCAATAAATAGTCGCATAG
1 CATATTAAATAAATAATCGCATAG
*
705629 CATATTAAAT-AATAATTGCATA
1 CATATTAAATAAATAATCGCATA
705651 TTAAAGATAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.33
Consensus pattern (24 bp):
CATATTAAATAAATAATCGCATAG
Found at i:713236 original size:22 final size:22
Alignment explanation
Indices: 713210--713252 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
713200 TCTCTTTTTT
713210 AAAAGAGAATCTATCATCTTTG
1 AAAAGAGAATCTATCATCTTTG
*
713232 AAAAGAGAATTTATCATCTTT
1 AAAAGAGAATCTATCATCTTT
713253 ATAAAATGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (22 bp):
AAAAGAGAATCTATCATCTTTG
Found at i:716793 original size:3 final size:3
Alignment explanation
Indices: 716787--716855 Score: 95
Period size: 3 Copynumber: 22.0 Consensus size: 3
716777 ATTTGGTTTT
716787 TTA TTA TTTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA
716835 TTA TTA TTA TTAA TT- TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA
716856 CATGCCCAAA
Statistics
Matches: 61, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
2 2 0.03
3 47 0.77
4 12 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:716803 original size:13 final size:13
Alignment explanation
Indices: 716787--716855 Score: 115
Period size: 13 Copynumber: 5.5 Consensus size: 13
716777 ATTTGGTTTT
716787 TTATTATTTATTA
1 TTATTATTTATTA
716800 TTATTATTTATTA
1 TTATTATTTATTA
716813 TTATTA-TTATTA
1 TTATTATTTATTA
716825 TTATTATTTATTA
1 TTATTATTTATTA
*
716838 TTATTATTAATT-
1 TTATTATTTATTA
716850 TTATTA
1 TTATTA
716856 CATGCCCAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
12 18 0.33
13 36 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:716828 original size:25 final size:25
Alignment explanation
Indices: 716787--716855 Score: 113
Period size: 25 Copynumber: 2.7 Consensus size: 25
716777 ATTTGGTTTT
716787 TTATTATTTATTATTATTATTTATTA
1 TTATTA-TTATTATTATTATTTATTA
716813 TTATTATTATTATTATTATTTATTA
1 TTATTATTATTATTATTATTTATTA
716838 TTATTATTAATT-TTATTA
1 TTATTATT-ATTATTATTA
716856 CATGCCCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
25 33 0.79
26 9 0.21
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTATTATTATTATTATTATTTATTA
Found at i:718193 original size:3 final size:3
Alignment explanation
Indices: 718185--718214 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
718175 TTTACTTTTA
*
718185 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
718215 TAGCCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:718300 original size:20 final size:20
Alignment explanation
Indices: 718271--718310 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
718261 TTATTAAAAT
*
718271 CTTATTTAATTAT-TTTTAA
1 CTTATTTAATCATGTTTTAA
718290 CTTATTTTAATCATGTTTTAA
1 CTTA-TTTAATCATGTTTTAA
718311 TATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
CTTATTTAATCATGTTTTAA
Found at i:718429 original size:20 final size:19
Alignment explanation
Indices: 718404--718445 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
718394 CTATTTTATA
718404 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
718424 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
718443 AAT
1 AAT
718446 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:729747 original size:11 final size:10
Alignment explanation
Indices: 729733--729782 Score: 55
Period size: 11 Copynumber: 4.7 Consensus size: 10
729723 ATACTTGAAG
*
729733 AAAAAATGAA
1 AAAAAAAGAA
729743 AAAAAAAGAA
1 AAAAAAAGAA
*
729753 GAAGAAAAGAA
1 -AAAAAAAGAA
729764 AAAAAAGAGAA
1 AAAAAA-AGAA
729775 AGAAAAAA
1 A-AAAAAA
729783 AAGAGGGGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 14 0.41
11 15 0.44
12 5 0.15
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:729754 original size:21 final size:21
Alignment explanation
Indices: 729729--729782 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
729719 TATTATACTT
729729 GAAGAAAAAATGAAAAAAAA-A
1 GAAGAAAAAA-GAAAAAAAAGA
729750 GAAGAAGAAAAGAAAAAAAAGA
1 GAAGAA-AAAAGAAAAAAAAGA
729772 GAAAGAAAAAA
1 G-AAGAAAAAA
729783 AAGAGGGGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
21 15 0.50
22 10 0.33
23 5 0.17
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (21 bp):
GAAGAAAAAAGAAAAAAAAGA
Found at i:729765 original size:16 final size:14
Alignment explanation
Indices: 729733--729786 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 14
729723 ATACTTGAAG
* *
729733 AAAAAATGAAAAAA
1 AAAAAAAGAAAAGA
729747 AAAGAAGAAGAAAAGA
1 AAA-AA-AAGAAAAGA
729763 AAAAAAAGAGAAAGA
1 AAAAAAAGA-AAAGA
729778 AAAAAAAGA
1 AAAAAAAGA
729787 GGGGGTCAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 7 0.20
15 18 0.51
16 10 0.29
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (14 bp):
AAAAAAAGAAAAGA
Found at i:730181 original size:19 final size:17
Alignment explanation
Indices: 730139--730187 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
730129 TATTTTCTCT
730139 AAATTCAATTTA-TTTG
1 AAATTCAATTTATTTTG
*
730155 AGATTCAATTTATTTTCG
1 AAATTCAATTTATTTT-G
*
730173 AAAATTCAACTTATT
1 -AAATTCAATTTATT
730188 CTTTTATTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 11 0.41
17 3 0.11
18 1 0.04
19 12 0.44
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (17 bp):
AAATTCAATTTATTTTG
Found at i:731524 original size:113 final size:114
Alignment explanation
Indices: 731323--732102 Score: 993
Period size: 113 Copynumber: 6.9 Consensus size: 114
731313 GATTCAAATC
* ** * *
731323 CATCACTCGATGGATCAGCTTTTTCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCACTCGATGGATCAGCATTGCCAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
**
731387 AAGAAGAAGTTCATAAT-AAGAAGAACTTGTTCAACCTTTTACTTT-AATT
65 AAGAAGAAGTTCATAATGAA-AAGAACTTGTTCAACCTTTTTGTTTGAATT
*
731436 CATCACCCGATGGATCAGCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 CATCACTCGATGGATCAGCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
731501 AGAAGAAGTTCATAATGAAAAGAACTTGTTCAA-CTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTTGTTTGAATT
* * * *
731549 CATCACTCGATGGATCAGCTTTTCCA-GACAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGG
1 CATCACTCGATGGATCAGCATTGCCAGGTC-AAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
* **
731613 AAGAAGAAGTTCATAAT-AAGAAGAGCTTGTTCAACCTTTTACTTT-AATT
65 AAGAAGAAGTTCATAATGAA-AAGAACTTGTTCAACCTTTTTGTTTGAATT
* *
731662 CATCACCCGATGGATCAGCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGA
1 CATCACTCGATGGATCAGCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
*
731727 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTTGTTTGAATT
* * * * * *
731775 CATCACTCGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATTTGAAGAAGG
1 CATCACTCGATGGATCAGCATTGCCAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
* * *
731839 AAAAAGAAGTTCATAATGAAAAGAGCTTGTTCAACC-TTTTGTTTAAATT
65 AAGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTTGTTTGAATT
* * *
731888 CATCATTTGATGGATCAACATTGCCAGGT-AGAGTTCATAATGAGAAGAACTTGTCATCTGAAG-
1 CATCACTCGATGGATCAGCATTGCCAGGTCA-AGTTCATAATGAGAAGAAC---TCATCTGAAGA
* *
731951 AAGAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAA-CTTTTTGTTTGAATT
62 AAGAAGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTTGTTTGAATT
* * * * *
732000 CATCACTCGATGGATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTTATCTGAAG-AAG
1 CATCACTCGATGGATCAGCATTGCCAG-GTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAG
* *
732063 AAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT
65 AAGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTT
732103 GCATAACTCT
Statistics
Matches: 586, Mismatches: 58, Indels: 46
0.85 0.08 0.07
Matches are distributed among these distances:
109 15 0.03
110 1 0.00
111 3 0.01
112 122 0.21
113 417 0.71
114 16 0.03
115 4 0.01
116 8 0.01
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (114 bp):
CATCACTCGATGGATCAGCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
AGAAGAAGTTCATAATGAAAAGAACTTGTTCAACCTTTTTGTTTGAATT
Found at i:731717 original size:226 final size:226
Alignment explanation
Indices: 731323--732102 Score: 1297
Period size: 226 Copynumber: 3.5 Consensus size: 226
731313 GATTCAAATC
*
731323 CATCACTCGATGGATCAGCTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
731388 AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTACTTTAATTCATCACCCGATGGATCA
66 AGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTACTTTAATTCATCACCCGATGGATCA
731453 GCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATG
131 GCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATG
*
731518 AAAAGAACTTGTTCAACTTTTTGTTTGAATT
196 AGAAGAACTTGTTCAACTTTTTGTTTGAATT
*
731549 CATCACTCGATGGATCAGCTTTTCCAGACAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
731614 AGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTACTTTAATTCATCACCCGATGGATCA
66 AGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTACTTTAATTCATCACCCGATGGATCA
*
731679 GCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCATAATG
131 GCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATG
731744 AGAAGAACTTGTTCAACTTTTTGTTTGAATT
196 AGAAGAACTTGTTCAACTTTTTGTTTGAATT
* *
731775 CATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATTTGAAGAAGGA
1 CATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * ***
731840 AAAAGAAGTTCATAATGAA-AAGAGCTTGTTCAACCTTTT-GTTTAAATTCATCATTTGATGGAT
66 AGAAGAAGTTCATAAT-AAGAAGAGCTTGTTCAACCTTTTACTTT-AATTCATCACCCGATGGAT
*
731903 CAACATTGCCAGGT-AGAGTTCATAATGAGAAGAACTTGTCATCTGAAG-AAGAAG-A-AA-TTC
129 CAGCATTGCCAGGTCA-AGTTCATAATGAGAAGAAC---TCATCTGAAGAAAGAAGAAGAAGTTC
*
731963 ATAATGAGAAGAATTTGTTCAACTTTTTGTTTGAATT
190 ATAATGAGAAGAACTTGTTCAACTTTTTGTTTGAATT
* *
732000 CATCACTCGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GA
1 CATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
732064 AGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT
66 AGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTT
732103 GCATAACTCT
Statistics
Matches: 527, Mismatches: 20, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
223 1 0.00
224 37 0.07
225 103 0.20
226 368 0.70
227 3 0.01
228 6 0.01
229 9 0.02
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (226 bp):
CATCACTCGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATAAGAAGAGCTTGTTCAACCTTTTACTTTAATTCATCACCCGATGGATCA
GCATTGCCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATG
AGAAGAACTTGTTCAACTTTTTGTTTGAATT
Found at i:731983 original size:20 final size:20
Alignment explanation
Indices: 731920--731983 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
731910 GCCAGGTAGA
731920 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
731940 G-TCAT-CTGAAGAAGAAGAA
1 GTTCATAATG-AGAAGAACTT
* *
731959 ATTCATAATGAGAAGAATTT
1 GTTCATAATGAGAAGAACTT
731979 GTTCA
1 GTTCA
731984 ACTTTTTGTT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.06
19 11 0.35
20 16 0.52
21 2 0.06
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.28
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:732258 original size:120 final size:121
Alignment explanation
Indices: 732031--732251 Score: 313
Period size: 120 Copynumber: 1.8 Consensus size: 121
732021 TTCCAGAGAA
* * *
732031 AGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCA
1 AGTTCATAATGAGAAGAACTCATCT--AGAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCA
*
732096 ACCTTTTGCATAACTCTATCACAGAAGGAGATATATCATCATCAGCATTTCCAGAAGG
64 ACCTTTTGCATAACTCTATCACAGAAGGAGATAAATCATCATCAGCATTTCCAGAAGG
* *
732154 AGTTCATAATGAGAAGAACTCATCT-GAAGAAGAAGAAGTTCATAAGGAGGAGAATTTGTTCAAC
1 AGTTCATAATGAGAAGAACTCATCTAGAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAAC
* *
732218 TTTTTGC-TAGATTAC-ATCACAGAAGGAGATAAAT
66 CTTTTGCATA-ACT-CTATCACAGAAGGAGATAAAT
732252 TGTCATCCCC
Statistics
Matches: 88, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
119 2 0.02
120 61 0.69
121 1 0.01
123 24 0.27
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (121 bp):
AGTTCATAATGAGAAGAACTCATCTAGAAGAAGAAGAAGTTCATAAGGAGAAGAACTTGTTCAAC
CTTTTGCATAACTCTATCACAGAAGGAGATAAATCATCATCAGCATTTCCAGAAGG
Found at i:732444 original size:3 final size:3
Alignment explanation
Indices: 732438--732502 Score: 66
Period size: 3 Copynumber: 22.0 Consensus size: 3
732428 ATTTGGTTTT
*
732438 TTA TTA TTTA TTA -TA TTA TTA TT- TT- TTA TTA TTA TTA ATA TTA
1 TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
732481 TTA TTTA TTA TTAA TT- TTA TTA
1 TTA -TTA TTA TT-A TTA TTA TTA
732503 CATGCCCAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
2 8 0.15
3 37 0.69
4 9 0.17
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:732468 original size:25 final size:25
Alignment explanation
Indices: 732434--732502 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
732424 TTACATTTGG
732434 TTTTTTATTATTTATTATATTATTA
1 TTTTTTATTATTTATTATATTATTA
732459 TTTTTTATTA-TTATTAATATTATTA
1 TTTTTTATTATTTATT-ATATTATTA
*
732484 TTTATTATTAATTTTATTA
1 TTTTTTATT-A-TTTATTA
732503 CATGCCCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
24 5 0.13
25 27 0.69
26 1 0.03
27 1 0.03
28 5 0.13
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (25 bp):
TTTTTTATTATTTATTATATTATTA
Found at i:732500 original size:19 final size:19
Alignment explanation
Indices: 732445--732502 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
732435 TTTTTATTAT
732445 TTATTATATTATT-ATTTT-
1 TTATT-TATTATTAATTTTA
*
732463 TTA-TTATTATTAATATTA
1 TTATTTATTATTAATTTTA
732481 TTATTTATTATTAATTTTA
1 TTATTTATTATTAATTTTA
732500 TTA
1 TTA
732503 CATGCCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 7 0.20
17 5 0.14
18 6 0.17
19 17 0.49
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTATTATTAATTTTA
Found at i:733494 original size:20 final size:20
Alignment explanation
Indices: 733465--733504 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
733455 TTATTAAAAT
*
733465 CTTATTTAATTAT-TTTTAA
1 CTTATTTAATCATGTTTTAA
733484 CTTATTTTAATCATGTTTTAA
1 CTTA-TTTAATCATGTTTTAA
733505 TATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 8 0.44
21 6 0.33
ACGTcount: A:0.30, C:0.07, G:0.03, T:0.60
Consensus pattern (20 bp):
CTTATTTAATCATGTTTTAA
Found at i:733622 original size:20 final size:19
Alignment explanation
Indices: 733597--733638 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
733587 CTATTTTATA
733597 AATTATATATTAATTGTTTT
1 AATTATATATTAATT-TTTT
* *
733617 AATTATTTATTTATTTTTT
1 AATTATATATTAATTTTTT
733636 AAT
1 AAT
733639 ATCGAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
AATTATATATTAATTTTTT
Found at i:737859 original size:18 final size:18
Alignment explanation
Indices: 737814--737859 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 18
737804 GCGTTTGGTT
*
737814 CAGGGAATGTAAGATTAC
1 CAGGGAATGTAAGATTAA
737832 CAGTGGGAATGTAAGATTAA
1 CA--GGGAATGTAAGATTAA
737852 CAGGGAAT
1 CAGGGAAT
737860 AGGATTACTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 8 0.32
20 17 0.68
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
CAGGGAATGTAAGATTAA
Found at i:738057 original size:2 final size:2
Alignment explanation
Indices: 738050--738088 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
738040 TCATAAAATT
738050 TA 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 TA T
738089 TTTACAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:751724 original size:90 final size:92
Alignment explanation
Indices: 751536--751802 Score: 441
Period size: 90 Copynumber: 2.9 Consensus size: 92
751526 AATTCAAGCC
*
751536 GAGACAAAATCATATCACAGCAAACTTTGCTATTATTTGCAGACAACTACTGCTAGATGCAGCAA
1 GAGACAAAGTCATATCACAGCAAACTTTGCTATTATTTGCAGACAACTA-TGCTAGATGCAGCAA
* *
751601 AAAAAGTTCCCTTATGACAACTACTGCT
65 AGAAAGTTCTCTTATGACAACTACTGCT
*
751629 TAGACAAAGTCATATCACAGCAAACTTTGCTATTATTTGCAGACTAA-T-T-CTAGATGCAGCAA
1 GAGACAAAGTCATATCACAGCAAACTTTGCTATTATTTGCAGAC-AACTATGCTAGATGCAGCAA
751691 AGAAAGTTCTCTTATGACAACTACTGCT
65 AGAAAGTTCTCTTATGACAACTACTGCT
*
751719 GAGACAAAGTCATATCACAGCAAACTTTGCTATTATTCGCAGACAACTACTGCTAGATGCAGCAA
1 GAGACAAAGTCATATCACAGCAAACTTTGCTATTATTTGCAGACAACTA-TGCTAGATGCAGCAA
751784 AGAAAGTTCTCTTATGACA
65 AGAAAGTTCTCTTATGACA
751803 TTAAACAGGT
Statistics
Matches: 163, Mismatches: 6, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
89 2 0.01
90 82 0.50
91 1 0.01
92 1 0.01
93 75 0.46
94 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (92 bp):
GAGACAAAGTCATATCACAGCAAACTTTGCTATTATTTGCAGACAACTATGCTAGATGCAGCAAA
GAAAGTTCTCTTATGACAACTACTGCT
Found at i:753041 original size:22 final size:22
Alignment explanation
Indices: 753011--753056 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
753001 AATTTTATAT
753011 TATAATTTTAT-TAATATTAAAA
1 TATAATTTTATATAA-ATTAAAA
* *
753033 TATATTTTTATATGAATTAAAA
1 TATAATTTTATATAAATTAAAA
753055 TA
1 TA
753057 GAAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (22 bp):
TATAATTTTATATAAATTAAAA
Found at i:753352 original size:16 final size:16
Alignment explanation
Indices: 753331--753365 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
753321 AACTATTGTC
753331 GATGACAATT-ATCAAT
1 GATGACAATTGA-CAAT
753347 GATGACAATTGACAAT
1 GATGACAATTGACAAT
753363 GAT
1 GAT
753366 CGACGAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (16 bp):
GATGACAATTGACAAT
Found at i:753876 original size:3 final size:3
Alignment explanation
Indices: 753868--753894 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
753858 TTAGAAAAAT
753868 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
753895 TATGATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:755501 original size:37 final size:34
Alignment explanation
Indices: 755458--755550 Score: 89
Period size: 37 Copynumber: 2.6 Consensus size: 34
755448 AGTAAAAAAG
*
755458 AATAAAAAAATATGAAAACATAAAACAAAAGCAAA
1 AATAAAAAAATATGAAAACACAAAACAAAAG-AAA
* * *
755493 TACATAAAAGAA-ACGAAAAAAACAAAACAAAAGAAA
1 -A-ATAAAAAAATATG-AAAACACAAAACAAAAGAAA
755529 AATAAAATAAAATATGAAAACA
1 AAT-AAA-AAAATATGAAAACA
755551 ATATATGTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
34 2 0.04
35 4 0.09
36 14 0.31
37 25 0.56
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (34 bp):
AATAAAAAAATATGAAAACACAAAACAAAAGAAA
Found at i:755528 original size:18 final size:18
Alignment explanation
Indices: 755479--755530 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
755469 ATGAAAACAT
* * *
755479 AAAACAAAAGCAAATACAT
1 AAAACAAAAG-AAAAAAAC
* *
755498 AAAAGAAACGAAAAAAAC
1 AAAACAAAAGAAAAAAAC
755516 AAAACAAAAGAAAAA
1 AAAACAAAAGAAAAA
755531 TAAAATAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 18 0.69
19 8 0.31
ACGTcount: A:0.77, C:0.12, G:0.08, T:0.04
Consensus pattern (18 bp):
AAAACAAAAGAAAAAAAC
Found at i:755768 original size:17 final size:17
Alignment explanation
Indices: 755746--755782 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
755736 TAATAACTTT
755746 AAAAAATATTAAAATAA
1 AAAAAATATTAAAATAA
*
755763 AAAAAATATTAGAATAA
1 AAAAAATATTAAAATAA
755780 AAA
1 AAA
755783 TAAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.22
Consensus pattern (17 bp):
AAAAAATATTAAAATAA
Found at i:757983 original size:94 final size:94
Alignment explanation
Indices: 757812--758101 Score: 420
Period size: 94 Copynumber: 3.0 Consensus size: 94
757802 GTTCTGGAAC
*
757812 TGGAAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTCGTGAAATTGAGCTTGTGTTGTCTTGGG
1 TGGAAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGG
757877 TCCAATATCCTTCGCAT-TGAAGTTGAAAT
66 TCCAATATCCTTCGC-TGTGAAGTTGAAAT
** * * * *
757906 TGGGGAATTATTTGTTGACAGTCAGCCGCCCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGAG
1 TGGAAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGG
*
757971 TCCAATATCCTTCGTTGTGAAGTTGAAAT
66 TCCAATATCCTTCGCTGTGAAGTTGAAAT
* * *
758000 TGACTCTGAAAACTGTTTGTTGACAATCAGCCGCCCCTTCATCGTGAAGTTGAGCTTGTGTTGTC
1 TG-----GAAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTC
758065 TTGGGTCCAATATCCTTCGCTGTGAAGTTGAAAT
61 TTGGGTCCAATATCCTTCGCTGTGAAGTTGAAAT
758099 TGG
1 TGG
758102 TTATGAAATT
Statistics
Matches: 172, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
93 1 0.01
94 87 0.51
99 84 0.49
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (94 bp):
TGGAAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGGG
TCCAATATCCTTCGCTGTGAAGTTGAAAT
Found at i:758109 original size:99 final size:99
Alignment explanation
Indices: 757770--758109 Score: 424
Period size: 99 Copynumber: 3.4 Consensus size: 99
757760 ATTGCTACGA
*
757770 GTCCAATATCCTTC-ATCGTGAAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTGTTGACAGT
1 GTCCAATATCCTTCGCT-GTGAAGTTGAAATTGG-T-T---A-T-GAAAATTGTTTGTTGACAGT
*
757834 CAGCCGCCCCTTCGTCGTGAAATTGAGCTTGTGTTGTCTTGG
58 CAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG
* *
757876 GTCCAATATCCTTCGCAT-TGAAGTTGAAATTGG----G-GAATTATTTGTTGACAGTCAGCCGC
1 GTCCAATATCCTTCGC-TGTGAAGTTGAAATTGGTTATGAAAATTGTTTGTTGACAGTCAGCCGC
* * *
757935 CCCTTCGCCGTGAAGTTGAGCTTGTGCTGTCTTGA
65 CCCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG
* ** * * *
757970 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGACTCTGAAAACTGTTTGTTGACAATCAGCCGCC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTATGAAAATTGTTTGTTGACAGTCAGCCGCC
*
758035 CCTTCATCGTGAAGTTGAGCTTGTGTTGTCTTGG
66 CCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG
758069 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTATGAAA
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTATGAAA
758110 TTGGGAAGCC
Statistics
Matches: 205, Mismatches: 21, Indels: 23
0.82 0.08 0.09
Matches are distributed among these distances:
93 1 0.00
94 83 0.40
95 1 0.00
98 1 0.00
99 89 0.43
106 29 0.14
108 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.34
Consensus pattern (99 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGTTATGAAAATTGTTTGTTGACAGTCAGCCGCC
CCTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTGG
Found at i:759242 original size:20 final size:20
Alignment explanation
Indices: 759217--759256 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
759207 CACCTTATTT
759217 TCTTTT-CTTTCTCATTTTTC
1 TCTTTTCCTTT-TCATTTTTC
*
759237 TCTTTTCCTTTTCTTTTTTC
1 TCTTTTCCTTTTCATTTTTC
759257 AATTTAGGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (20 bp):
TCTTTTCCTTTTCATTTTTC
Found at i:759328 original size:15 final size:15
Alignment explanation
Indices: 759294--759329 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
759284 CCCTAAATGA
*
759294 TTTTTTGTTTTTTTC
1 TTTTTTGTTTTTCTC
*
759309 CTTTTTGTTTTTCTC
1 TTTTTTGTTTTTCTC
759324 TTTTTT
1 TTTTTT
759330 TTAACTTAGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (15 bp):
TTTTTTGTTTTTCTC
Found at i:772714 original size:18 final size:18
Alignment explanation
Indices: 772687--772730 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
772677 TGTTTATGGT
772687 TAAT-TTCGCTCATATCA
1 TAATGTTCGCTCATATCA
772704 TAATGTTCGCTCATATCA
1 TAATGTTCGCTCATATCA
772722 TAATGTTCG
1 TAATGTTCG
772731 TTGAGTGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.27, C:0.20, G:0.11, T:0.41
Consensus pattern (18 bp):
TAATGTTCGCTCATATCA
Found at i:774819 original size:21 final size:21
Alignment explanation
Indices: 774792--774850 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
774782 TTCAGAGTTA
774792 CCCGCGACGGCCGCAATAGCG
1 CCCGCGACGGCCGCAATAGCG
* *
774813 TCCGCGACAGCCGCAATAGCG
1 CCCGCGACGGCCGCAATAGCG
774834 CCCGCGACGGCCGCAAT
1 CCCGCGACGGCCGCAAT
774851 CACGGTAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.20, C:0.42, G:0.31, T:0.07
Consensus pattern (21 bp):
CCCGCGACGGCCGCAATAGCG
Done.