Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 3 of 297
Found at i:820203 original size:36 final size:36
Alignment explanation
Indices: 820155--820229 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
820145 GGACGGTGGG
*
820155 GTGTGTGATGGTGCTGGTGGCAGACAGGATGGGAGA
1 GTGTGTGATGGTGCTGGTGGCAGACAGCATGGGAGA
820191 GTGTG-GAGTGGTGCTGGTGGCAGACAGCATGGGAGA
1 GTGTGTGA-TGGTGCTGGTGGCAGACAGCATGGGAGA
820227 GTG
1 GTG
820230 GGAAGAGGCA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
35 2 0.05
36 35 0.95
ACGTcount: A:0.19, C:0.09, G:0.51, T:0.21
Consensus pattern (36 bp):
GTGTGTGATGGTGCTGGTGGCAGACAGCATGGGAGA
Found at i:821872 original size:5 final size:5
Alignment explanation
Indices: 821859--821934 Score: 55
Period size: 5 Copynumber: 15.2 Consensus size: 5
821849 TCGTATAATG
* * * * *
821859 TATCT TATCA TATCA TACCA TATCGA -ATCA AATTA TATCA TGTCA TATCA
1 TATCA TATCA TATCA TATCA TATC-A TATCA TATCA TATCA TATCA TATCA
* * * *
821909 AATCA CAGCA TAACA TATCA TATCA T
1 TATCA TATCA TATCA TATCA TATCA T
821935 GTTCTACCCC
Statistics
Matches: 55, Mismatches: 14, Indels: 4
0.75 0.19 0.05
Matches are distributed among these distances:
4 1 0.02
5 53 0.96
6 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.04, T:0.34
Consensus pattern (5 bp):
TATCA
Found at i:822501 original size:11 final size:12
Alignment explanation
Indices: 822478--822502 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
822468 AATGGCCCTT
822478 AATTGGCCAAAA
1 AATTGGCCAAAA
822490 AATTGGCCAAAA
1 AATTGGCCAAAA
822502 A
1 A
822503 GACCCACATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
AATTGGCCAAAA
Found at i:824699 original size:14 final size:14
Alignment explanation
Indices: 824680--824731 Score: 77
Period size: 14 Copynumber: 3.6 Consensus size: 14
824670 TTATATACTT
824680 TTAATTAAACTTAA
1 TTAATTAAACTTAA
*
824694 TTAATTAAAATTAA
1 TTAATTAAACTTAA
824708 TTAATTAAACTTTAA
1 TTAATTAAAC-TTAA
*
824723 TTAACTAAA
1 TTAATTAAA
824732 ATTTAAGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
TTAATTAAACTTAA
Found at i:834006 original size:21 final size:21
Alignment explanation
Indices: 833980--834020 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
833970 ATCTGCTCAA
* *
833980 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
834001 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
834021 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:840628 original size:16 final size:16
Alignment explanation
Indices: 840589--840640 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 16
840579 TAGTTTACCC
*
840589 TTTA-ATTTTATAAATA
1 TTTATATTTTTTAAA-A
*
840605 TTTTTATTTTTTAAAA
1 TTTATATTTTTTAAAA
840621 TTTATA--TTTTAAAA
1 TTTATATTTTTTAAAA
840635 TTTATA
1 TTTATA
840641 AATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 14 0.44
16 9 0.28
17 9 0.28
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTATATTTTTTAAAA
Found at i:840630 original size:14 final size:14
Alignment explanation
Indices: 840607--840640 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
840597 TATAAATATT
*
840607 TTTATTTTTTAAAA
1 TTTATATTTTAAAA
840621 TTTATATTTTAAAA
1 TTTATATTTTAAAA
840635 TTTATA
1 TTTATA
840641 AATATTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATATTTTAAAA
Found at i:841708 original size:14 final size:15
Alignment explanation
Indices: 841689--841717 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
841679 TGTAATTTTT
841689 TTTATATTAT-TGAA
1 TTTATATTATATGAA
841703 TTTATATTATATGAA
1 TTTATATTATATGAA
841718 AATTAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
TTTATATTATATGAA
Found at i:846456 original size:21 final size:20
Alignment explanation
Indices: 846432--846471 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
846422 ACTTGTTTAA
846432 CTATCAATAAACATTCAAAAT
1 CTATC-ATAAACATTCAAAAT
* *
846453 CTATCATCAATATTCAAAA
1 CTATCATAAACATTCAAAA
846472 CTCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (20 bp):
CTATCATAAACATTCAAAAT
Found at i:850106 original size:18 final size:19
Alignment explanation
Indices: 850076--850112 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
850066 TAAACATGTA
850076 AAATTATATACATA-AAAT
1 AAATTATATACATATAAAT
850094 AAATTAT-TAACATATAAAT
1 AAATTATAT-ACATATAAAT
850113 TCACAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 12 0.71
19 4 0.24
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATTATATACATATAAAT
Found at i:860144 original size:25 final size:24
Alignment explanation
Indices: 860108--860154 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
860098 TTATTTTGGA
*
860108 AATTTTTATTTTAAGAAATGAAATG
1 AATTTTTATTTTAA-AAAAGAAATG
860133 AATTCTTT-TTTTAAAAAAGAAA
1 AATT-TTTATTTTAAAAAAGAAA
860155 ATAAATGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 7 0.35
25 10 0.50
26 3 0.15
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.43
Consensus pattern (24 bp):
AATTTTTATTTTAAAAAAGAAATG
Found at i:860510 original size:27 final size:27
Alignment explanation
Indices: 860472--860531 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
860462 AATATAGGTT
860472 GAGGGTACCCCATAGGCCGCACCGATG
1 GAGGGTACCCCATAGGCCGCACCGATG
* *
860499 GAGGGTACCCCATAGGCCGCACCGGTT
1 GAGGGTACCCCATAGGCCGCACCGATG
860526 GAGGGT
1 GAGGGT
860532 GCTGCTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.20, C:0.30, G:0.37, T:0.13
Consensus pattern (27 bp):
GAGGGTACCCCATAGGCCGCACCGATG
Found at i:869199 original size:22 final size:22
Alignment explanation
Indices: 869173--869218 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
869163 TAATCAAAAG
869173 ATAATGTTATTAAAAAAAGCAA
1 ATAATGTTATTAAAAAAAGCAA
* * *
869195 ATAATTTTTTTTAAAAAAGCAA
1 ATAATGTTATTAAAAAAAGCAA
869217 AT
1 AT
869219 CATTTTCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (22 bp):
ATAATGTTATTAAAAAAAGCAA
Found at i:871530 original size:17 final size:17
Alignment explanation
Indices: 871510--871624 Score: 149
Period size: 17 Copynumber: 6.5 Consensus size: 17
871500 AATGATATGT
871510 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
* *
871527 AATCTTAAATATGATTGC
1 AATCTTAGATATGA-TAC
871545 AATCTTAGATATGATAC
1 AATCTTAGATATGATAC
*
871562 AATCTTAGATATGATTGC
1 AATCTTAGATATGA-TAC
*
871580 AATTTTAGATATGATAC
1 AATCTTAGATATGATAC
*
871597 AATCTTAAATATGATATAC
1 AATCTTAGATATG--ATAC
871616 AATCTTAGA
1 AATCTTAGA
871625 AGATATGGTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
17 42 0.50
18 30 0.36
19 12 0.14
ACGTcount: A:0.41, C:0.10, G:0.11, T:0.37
Consensus pattern (17 bp):
AATCTTAGATATGATAC
Found at i:871550 original size:35 final size:36
Alignment explanation
Indices: 871501--871624 Score: 198
Period size: 35 Copynumber: 3.5 Consensus size: 36
871491 ATAATCTTCA
*
871501 ATGATATGTAATCTTAGATATGATACAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
*
871537 ATGAT-TGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
*
871572 ATGAT-TGCAATTTTAGATATGATACAATCTTAAAT
1 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
*
871607 ATGATATACAATCTTAGA
1 ATGATATGCAATCTTAGA
871625 AGATATGGTT
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
35 66 0.81
36 15 0.19
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (36 bp):
ATGATATGCAATCTTAGATATGATACAATCTTAAAT
Found at i:871550 original size:52 final size:51
Alignment explanation
Indices: 871503--871612 Score: 136
Period size: 52 Copynumber: 2.2 Consensus size: 51
871493 AATCTTCAAT
*
871503 GATATG-T-AATCTTAGATATGA-TACAATCTTAAATATGATTGCAATCTTA
1 GATATGATAAATCTTAGATATGATTACAATCTTAAATATGA-TACAATCTTA
* * *
871552 GATATGATACAATCTTAGATATGATTGCAATTTTAGATATGATACAATCTTA
1 GATATGATA-AATCTTAGATATGATTACAATCTTAAATATGATACAATCTTA
*
871604 AATATGATA
1 GATATGATA
871613 TACAATCTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
49 6 0.12
50 1 0.02
52 31 0.60
53 14 0.27
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (51 bp):
GATATGATAAATCTTAGATATGATTACAATCTTAAATATGATACAATCTTA
Found at i:872140 original size:18 final size:17
Alignment explanation
Indices: 872116--872175 Score: 63
Period size: 17 Copynumber: 3.5 Consensus size: 17
872106 CCAATATATT
872116 TTATATTTTTTATATAA
1 TTATATTTTTTATATAA
*
872133 TTAT-TATTCTTATA-AA
1 TTATAT-TTTTTATATAA
872149 -TATATTTTTTATTATATA
1 TTATATTTTTTA-TATA-A
872167 TTATATTTT
1 TTATATTTT
872176 AAATTTATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
15 8 0.23
16 6 0.17
17 12 0.34
18 1 0.03
19 8 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATATTTTTTATATAA
Found at i:872160 original size:15 final size:16
Alignment explanation
Indices: 872117--872175 Score: 59
Period size: 16 Copynumber: 3.5 Consensus size: 16
872107 CAATATATTT
872117 TATATTTTTTATATAA
1 TATATTTTTTATATAA
872133 T-TATTATTCTTATA-AA
1 TATATT-TT-TTATATAA
872149 TATATTTTTTATTATATA
1 TATATTTTTTA-TATA-A
872167 TTATATTTT
1 -TATATTTT
872176 AAATTTATTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.19
16 10 0.28
17 10 0.28
18 1 0.03
19 8 0.22
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
TATATTTTTTATATAA
Found at i:872200 original size:26 final size:26
Alignment explanation
Indices: 872152--872201 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
872142 TTATAAATAT
* * * *
872152 ATTTTTTATTATATATTATATTTTAA
1 ATTTATTATTAAATATCACATTTTAA
872178 ATTTATTATTAAATATCACATTTT
1 ATTTATTATTAAATATCACATTTT
872202 TTTATATGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
ATTTATTATTAAATATCACATTTTAA
Found at i:876615 original size:39 final size:39
Alignment explanation
Indices: 876566--876899 Score: 533
Period size: 39 Copynumber: 8.5 Consensus size: 39
876556 ATATGATATT
*
876566 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
876605 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATAC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
876644 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
876683 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATAC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
876722 TGGAATTATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
876761 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
*
876800 TGGAAATATATTCGGACTTAAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
* * * * * **
876839 TGGAATTATAATCCAGACTTAAGGTTCGCAAGTTACGTGC
1 TGGAAATAT-ATCCGGACTTAAGGTCCGCAGGCTATATGC
*
876879 TGGAAATATATCCGGGCTTAA
1 TGGAAATATATCCGGACTTAA
876900 AGTTCCGAAG
Statistics
Matches: 273, Mismatches: 21, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 242 0.89
40 31 0.11
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
TGGAAATATATCCGGACTTAAGGTCCGCAGGCTATATGC
Found at i:878426 original size:25 final size:25
Alignment explanation
Indices: 878316--878578 Score: 133
Period size: 25 Copynumber: 10.7 Consensus size: 25
878306 CATATAACAG
* * *
878316 GAAGCTCAAGTGAGCCATGTAA-CTA
1 GAAGCTCATGAGAGCCAT-TAATCGA
* * * * *
878341 GAAGCTCATAAAAGTCA-TAAACGG
1 GAAGCTCATGAGAGCCATTAATCGA
* *
878365 GAAGCTCATGCGAGCCAAT-ATCGA
1 GAAGCTCATGAGAGCCATTAATCGA
* ** *
878389 GGAGCTCCGGAGAGCCATTAATCAA
1 GAAGCTCATGAGAGCCATTAATCGA
878414 GAAGCTCATGAGAGCCAATT-ATCG-
1 GAAGCTCATGAGAGCC-ATTAATCGA
* *
878438 GAAAGCTC-TGGAGAGCCAATTATTGGA
1 G-AAGCTCAT-GAGAGCC-ATTAATCGA
878465 -AAGCTC-TGGAGAGCCAATT-ATCGA
1 GAAGCTCAT-GAGAGCC-ATTAATCGA
*
878489 GAAGCTCAT-ACGAGCCA-TAAACG-
1 GAAGCTCATGA-GAGCCATTAATCGA
* *
878512 GAAATCTCAAGA-AGCCATTAATC-A
1 G-AAGCTCATGAGAGCCATTAATCGA
* *
878536 GGAAGCTCGTGAGAGCCATATAA-CGG
1 -GAAGCTCATGAGAGCCAT-TAATCGA
878562 GAAGCTCATGAGAGCCA
1 GAAGCTCATGAGAGCCA
878579 ATTATCGGGA
Statistics
Matches: 182, Mismatches: 36, Indels: 40
0.71 0.14 0.16
Matches are distributed among these distances:
23 10 0.05
24 58 0.32
25 105 0.58
26 9 0.05
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.18
Consensus pattern (25 bp):
GAAGCTCATGAGAGCCATTAATCGA
Found at i:878587 original size:25 final size:25
Alignment explanation
Indices: 878362--878588 Score: 168
Period size: 25 Copynumber: 9.2 Consensus size: 25
878352 AAGTCATAAA
*
878362 CGGGAAGCTCATGCGAGCCAA-TAT
1 CGGGAAGCTCATGAGAGCCAATTAT
**
878386 CGAGG-AGCTCCGGAGAGCC-ATTAAT
1 CG-GGAAGCTCATGAGAGCCAATT-AT
**
878411 CAAGAAGCTCATGAGAGCCAATTAT
1 CGGGAAGCTCATGAGAGCCAATTAT
*
878436 CGGAAAGCTC-TGGAGAGCCAATTAT
1 CGGGAAGCTCAT-GAGAGCCAATTAT
* *
878461 TGGAAAGCTC-TGGAGAGCCAATTAT
1 CGGGAAGCTCAT-GAGAGCCAATTAT
* * *
878486 CGAGAAGCTCAT-ACGAGCC-ATAAA
1 CGGGAAGCTCATGA-GAGCCAATTAT
* * *
878510 CGGAAATCTCAAGA-AGCC-ATTAAT
1 CGGGAAGCTCATGAGAGCCAATT-AT
* * *
878534 CAGGAAGCTCGTGAGAGCC-ATATAA
1 CGGGAAGCTCATGAGAGCCAAT-TAT
878559 CGGGAAGCTCATGAGAGCCAATTAT
1 CGGGAAGCTCATGAGAGCCAATTAT
878584 CGGGA
1 CGGGA
878589 CACTCGGAAG
Statistics
Matches: 159, Mismatches: 31, Indels: 25
0.74 0.14 0.12
Matches are distributed among these distances:
23 7 0.04
24 38 0.24
25 107 0.67
26 7 0.04
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCAATTAT
Found at i:878949 original size:21 final size:21
Alignment explanation
Indices: 878925--878968 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
878915 AATGAATTTA
* *
878925 ACTCAATTTAATACAATTCAT
1 ACTCAATTCAATACAATACAT
*
878946 ACTCAATTCAATCCAATACAT
1 ACTCAATTCAATACAATACAT
878967 AC
1 AC
878969 CTTTAGAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.25, G:0.00, T:0.32
Consensus pattern (21 bp):
ACTCAATTCAATACAATACAT
Found at i:880958 original size:131 final size:132
Alignment explanation
Indices: 880719--880964 Score: 316
Period size: 131 Copynumber: 1.9 Consensus size: 132
880709 ATGCGAACCC
* *** *
880719 TATCCGTTTATTTATGTAAACCCTAGGAGGAATACACATGTGAACCTTACATGCTGTAACATGCG
1 TATCCGTTTATTTATGCAAACCCTAGGAGGAATACACATACAAACATTACATGCTGTAACATGCG
** ** *
880784 AACCCTATTTGTATGAACTTTATATGTTAATTTATGCAAACCCT-ACATGTTGTAACATGTTAGC
66 AACCCTATTTGTAAAAACTCAATATGTTAACTTATGCAAACCCTAACATGTTGTAACATGTTAGC
880848 CT
131 CT
* * * *
880850 TATCTGTTTATTTATGCAAACCCTAGGAGGAATATACATACAAACATTATATGCTGTAATATGCG
1 TATCCGTTTATTTATGCAAACCCTAGGAGGAATACACATACAAACATTACATGCTGTAACATGCG
* **
880915 AACCCTATTTAG-AAAAACTCAATATGTTTACTTATGTGAACCCTAACATG
66 AACCCTATTT-GTAAAAACTCAATATGTTAACTTATGCAAACCCTAACATG
880965 AATTAGCATG
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
131 90 0.94
132 6 0.06
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (132 bp):
TATCCGTTTATTTATGCAAACCCTAGGAGGAATACACATACAAACATTACATGCTGTAACATGCG
AACCCTATTTGTAAAAACTCAATATGTTAACTTATGCAAACCCTAACATGTTGTAACATGTTAGC
CT
Found at i:880994 original size:15 final size:15
Alignment explanation
Indices: 880971--881013 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
880961 CATGAATTAG
*
880971 CATGCGAACCCTATA
1 CATGTGAACCCTATA
*
880986 CATGTGAACCCTGTA
1 CATGTGAACCCTATA
**
881001 TGTGTGAACCCTA
1 CATGTGAACCCTA
881014 CTTGTGAACC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (15 bp):
CATGTGAACCCTATA
Found at i:883540 original size:26 final size:26
Alignment explanation
Indices: 883485--883540 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
883475 GTGTTCTTGG
* *
883485 TTCTTTTGATTTTTTATTTATTTTTT
1 TTCTTTTGATTTTTTATTTATTTCTC
883511 TTCTTTTGTATTTTCTT-TTT-TTTCTC
1 TTCTTTTG-ATTTT-TTATTTATTTCTC
883537 TTCT
1 TTCT
883541 CGAAGTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 16 0.62
27 8 0.31
28 2 0.08
ACGTcount: A:0.07, C:0.11, G:0.04, T:0.79
Consensus pattern (26 bp):
TTCTTTTGATTTTTTATTTATTTCTC
Found at i:884630 original size:20 final size:20
Alignment explanation
Indices: 884595--884643 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
884585 ACTAGGTAAC
*
884595 TTTATATTGGTTTTGT-TATA
1 TTTATATT-TTTTTGTATATA
*
884615 TTGTATATTTTTTTGTATTTA
1 TT-TATATTTTTTTGTATATA
884636 TTTATATT
1 TTTATATT
884644 ATTATTACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTATATTTTTTTGTATATA
Found at i:884770 original size:27 final size:26
Alignment explanation
Indices: 884703--884770 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 26
884693 ATGTTATTTC
* *
884703 TTTTAAACTATTATACATATTGTTTA
1 TTTTAAATTATTATACACATTGTTTA
* *
884729 TTTTGAAACTT-TTATATACATTTTTGTA
1 TTTT-AAA-TTATTATACACATTGTT-TA
884757 TTTTAAATTATTAT
1 TTTTAAATTATTAT
884771 GTATATTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
26 6 0.18
27 21 0.62
28 7 0.21
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTAAATTATTATACACATTGTTTA
Found at i:884813 original size:26 final size:26
Alignment explanation
Indices: 884659--884813 Score: 113
Period size: 26 Copynumber: 6.0 Consensus size: 26
884649 TACCATTATT
* *
884659 ATTATCATATATTTTATATTATTTT--
1 ATTATTATATATATTAT-TTATTTTAA
* * *
884684 ATT-TTACATATGTTATTTCTTTTAA
1 ATTATTATATATATTATTTATTTTAA
* * *
884709 ACTATTATACATATTGTTTATTTTGAA
1 ATTATTATATATATTATTTATTTT-AA
* *
884736 ACTT-TTATATACATTTTTGTATTTTAA
1 A-TTATTATATATATTATT-TATTTTAA
* * *
884763 ATTATTATGTATATTATTCACTTTAA
1 ATTATTATATATATTATTTATTTTAA
884789 TATTA-TATATATATTATTTATTTTA
1 -ATTATTATATATATTATTTATTTTA
884814 GACTTTTTTC
Statistics
Matches: 100, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
23 6 0.06
24 10 0.10
25 5 0.05
26 40 0.40
27 32 0.32
28 7 0.07
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.59
Consensus pattern (26 bp):
ATTATTATATATATTATTTATTTTAA
Found at i:890088 original size:11 final size:12
Alignment explanation
Indices: 890071--890114 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
890061 AATAAGAGAC
890071 AAAATAAAATT-
1 AAAATAAAATTA
* *
890082 TAAATAATATTA
1 AAAATAAAATTA
*
890094 AAAATAAAAATA
1 AAAATAAAATTA
890106 AAAATAAAA
1 AAAATAAAA
890115 AAATAGTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAATAAAATTA
Found at i:906294 original size:80 final size:79
Alignment explanation
Indices: 906210--906381 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
906200 GGACTAAGAT
*
906210 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
906274 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * * *
906290 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
906355 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
906369 CCGAAGGCATTTG
1 CCGAAGGCATTTG
906382 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:906367 original size:39 final size:39
Alignment explanation
Indices: 906210--906379 Score: 198
Period size: 40 Copynumber: 4.3 Consensus size: 39
906200 GGACTAAGAT
* * *
906210 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
906250 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
* *
906290 CCGAAGGCATTCGTGCGAGTTATTAAATCTGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* * *
906330 CCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
906369 CCGAAGGCATT
1 CCGAAGGCATT
906380 TGAACGAGGA
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
39 37 0.32
40 74 0.64
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:914183 original size:40 final size:40
Alignment explanation
Indices: 914153--914322 Score: 216
Period size: 40 Copynumber: 4.3 Consensus size: 40
914143 GGACTAAGAT
* *
914153 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
914193 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** *
914233 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTACGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
914273 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
914312 CCGAAGGCATT
1 CCGAAGGCATT
914323 TGAACGAGGA
Statistics
Matches: 118, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 33 0.28
40 85 0.72
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:914237 original size:80 final size:79
Alignment explanation
Indices: 914100--914324 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 79
914090 TTGAATGCTG
* * * ** * * * * *
914100 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGCGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAAACCGGGCTAAG-TCCCGAAGGCATT
914164 TGTGCGAGATACTAAA
64 TGTGCGAGATACTAAA
* * * *
914180 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTT
* **
914245 GTGCGAGTTGTTAAA
65 GTGCGAGATACTAAA
* * *
914260 TCCGGGTTACGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
914325 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 21, Indels: 5
0.82 0.14 0.03
Matches are distributed among these distances:
79 36 0.30
80 82 0.67
81 4 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:914342 original size:79 final size:80
Alignment explanation
Indices: 914175--914357 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
914165 GTGCGAGATA
* * *
914175 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
914240 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
914255 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
914319 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
914334 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
914358 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:914639 original size:89 final size:89
Alignment explanation
Indices: 914488--914662 Score: 323
Period size: 89 Copynumber: 2.0 Consensus size: 89
914478 CGCTCAGTTG
914488 ATAAACGAGCTACCGGCCTTCGGCTAAGTTAGTCTATTGTGTATGTACATAAGGGTTGTTAATGT
1 ATAAACGAGCTACCGGCCTTCGGCTAAGTTAGTCTATTGTGTATGTACATAAGGGTTGTTAATGT
*
914553 TGTGAAGCAAGTTTGATATCGGTA
66 TGTGAAGCAAGTTTAATATCGGTA
* *
914577 ATAAACGAGCTATCGGCCTTCGGCTAAGTTAGTCTATTGTGTATGTGCATAAGGGTTGTTAATGT
1 ATAAACGAGCTACCGGCCTTCGGCTAAGTTAGTCTATTGTGTATGTACATAAGGGTTGTTAATGT
914642 TGTGAAGCAAGTTTAATATCG
66 TGTGAAGCAAGTTTAATATCG
914663 ATAAATTGCG
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (89 bp):
ATAAACGAGCTACCGGCCTTCGGCTAAGTTAGTCTATTGTGTATGTACATAAGGGTTGTTAATGT
TGTGAAGCAAGTTTAATATCGGTA
Found at i:915028 original size:55 final size:55
Alignment explanation
Indices: 914962--915075 Score: 219
Period size: 55 Copynumber: 2.1 Consensus size: 55
914952 CCATGCGAAA
*
914962 ATGGCTTGTAGAAGTGGAGTATGGCATTAGACCATTCGTGTTTATGAATGTATAG
1 ATGGCTTGTAGAAGTGGAGTATGGCATTAGACCATTCGTATTTATGAATGTATAG
915017 ATGGCTTGTAGAAGTGGAGTATGGCATTAGACCATTCGTATTTATGAATGTATAG
1 ATGGCTTGTAGAAGTGGAGTATGGCATTAGACCATTCGTATTTATGAATGTATAG
915072 ATGG
1 ATGG
915076 TTTCAGGATG
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (55 bp):
ATGGCTTGTAGAAGTGGAGTATGGCATTAGACCATTCGTATTTATGAATGTATAG
Found at i:918171 original size:47 final size:47
Alignment explanation
Indices: 918117--919177 Score: 2018
Period size: 47 Copynumber: 22.6 Consensus size: 47
918107 TAGTTGAATA
918117 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918164 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918211 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
918258 AATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918305 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGA--TGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
918352 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918399 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918446 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918493 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918540 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918587 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918634 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918681 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918728 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918775 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918822 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918869 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918916 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
918963 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
919010 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
919057 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * *
919104 AATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
919151 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
919178 TCCCGAAGGG
Statistics
Matches: 1000, Mismatches: 10, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
45 28 0.03
47 945 0.94
49 27 0.03
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:919484 original size:37 final size:37
Alignment explanation
Indices: 919428--919507 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
919418 CCGGGCTCTA
* * *
919428 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
919465 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
919502 AAGACT
1 AAGACT
919508 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:919514 original size:132 final size:132
Alignment explanation
Indices: 919277--919541 Score: 433
Period size: 132 Copynumber: 2.0 Consensus size: 132
919267 CTTCGTGCTC
* * *
919277 GTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGGATTTTTTTCGAGTAAGACCTGA
1 GTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGAATTTTGTCCGAGTAAGACCTGA
*
919342 TAACTTTGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATAGTCA
66 TAACTTCGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATAGTCA
919407 AT
131 AT
* * *
919409 GTACTATATCCGGGCTCTAAAGACCCGATGACTGCGTGTGGGAATTTTGTCCGGGTAAGA-CTCG
1 GTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGAATTTTGTCCGAGTAAGACCT-G
* *
919473 ATAACTTCGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAGTTGCTTATAAATATATTC
65 ATAACTTCGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATAGTC
919538 AAT
130 AAT
919541 G
1 G
919542 CGAAAGGTTA
Statistics
Matches: 123, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 2 0.02
132 121 0.98
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (132 bp):
GTACTATATCCGAGCTCTAAAGACCCGATGACTACGTGTGGGAATTTTGTCCGAGTAAGACCTGA
TAACTTCGTGTGGAGATTATGTCCGGGTAAGACTTCGTAATAAGAATTGCTTATAAATATAGTCA
AT
Found at i:920034 original size:90 final size:90
Alignment explanation
Indices: 919881--920059 Score: 315
Period size: 90 Copynumber: 2.0 Consensus size: 90
919871 CTAAGCATTA
*
919881 TAATGCTTACTCCGTGTACTTTGTTTCCTCTGTTTTATAGATCTCATTTGGAAGCTACAGGCTCG
1 TAATGCTTACTCCGTGTACTCTGTTTCCTCTGTTTTATAGATCTCATTTGGAAGCTACAGGCTCG
919946 GGGATCATCAGCAACTAGTCACACG
66 GGGATCATCAGCAACTAGTCACACG
*
919971 TAATGCTTACTCCGTTTACTCTGTTTCCTCTGTTTTATAGATCTCA-TTGCGAAGCTACAGGCTC
1 TAATGCTTACTCCGTGTACTCTGTTTCCTCTGTTTTATAGATCTCATTTG-GAAGCTACAGGCTC
*
920035 GGGGATCGTCAGCAACTAGTCACAC
65 GGGGATCATCAGCAACTAGTCACAC
920060 TATCACTATC
Statistics
Matches: 85, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
89 3 0.04
90 82 0.96
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.34
Consensus pattern (90 bp):
TAATGCTTACTCCGTGTACTCTGTTTCCTCTGTTTTATAGATCTCATTTGGAAGCTACAGGCTCG
GGGATCATCAGCAACTAGTCACACG
Found at i:925542 original size:21 final size:21
Alignment explanation
Indices: 925518--925639 Score: 72
Period size: 21 Copynumber: 5.8 Consensus size: 21
925508 GTCCTTAATC
*
925518 CACACGGGCGTATGCCTCAGT
1 CACACGGGCGTGTGCCTCAGT
* **
925539 CACAC-GGTGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTC-AGT
** *
925560 CACACGGGTATGTGCCTCAGC
1 CACACGGGCGTGTGCCTCAGT
* * *
925581 CACAC-GACGATATGCTTCTC-TT
1 CACACGGGCG-TGTGC--CTCAGT
*
925603 CACACGGGCGTGTGCCTCAGC
1 CACACGGGCGTGTGCCTCAGT
925624 CACAC-GGCTGTGTGCC
1 CACACGGGC-GTGTGCC
925640 CCTCTTCAGA
Statistics
Matches: 75, Mismatches: 18, Indels: 16
0.69 0.17 0.15
Matches are distributed among these distances:
20 17 0.23
21 32 0.43
22 20 0.27
23 6 0.08
ACGTcount: A:0.16, C:0.34, G:0.26, T:0.23
Consensus pattern (21 bp):
CACACGGGCGTGTGCCTCAGT
Found at i:925645 original size:43 final size:43
Alignment explanation
Indices: 925518--925647 Score: 165
Period size: 43 Copynumber: 3.0 Consensus size: 43
925508 GTCCTTAATC
* *
925518 CACACGGGCGTATGCCTCAGTCACACGG-TGTGTGCCTCTCTT
1 CACACGGGCGTGTGCCTCAGCCACACGGCTGTGTGCCTCTCTT
** * * *
925560 CACACGGGTATGTGCCTCAGCCACACGAC-GATATGCTTCTCTT
1 CACACGGGCGTGTGCCTCAGCCACACGGCTG-TGTGCCTCTCTT
*
925603 CACACGGGCGTGTGCCTCAGCCACACGGCTGTGTGCCCCTCTT
1 CACACGGGCGTGTGCCTCAGCCACACGGCTGTGTGCCTCTCTT
925646 CA
1 CA
925648 GACAAGCTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
42 24 0.33
43 47 0.65
44 1 0.01
ACGTcount: A:0.16, C:0.35, G:0.25, T:0.24
Consensus pattern (43 bp):
CACACGGGCGTGTGCCTCAGCCACACGGCTGTGTGCCTCTCTT
Found at i:927551 original size:37 final size:37
Alignment explanation
Indices: 927496--927582 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
927486 CACAAGTAGG
* ** *
927496 CCAACCGA-AACACGCCAAACGCTCATAAGTGGTAAT
1 CCAACCGATAACACGCCAAACACTCATAAAAGCTAAT
* *
927532 CCAACCAATAACATGCCAAACACTCATAAAAGCTAAT
1 CCAACCGATAACACGCCAAACACTCATAAAAGCTAAT
927569 CCAACCGATAACAC
1 CCAACCGATAACAC
927583 ACCTATTTAC
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 7 0.17
37 35 0.83
ACGTcount: A:0.44, C:0.32, G:0.10, T:0.14
Consensus pattern (37 bp):
CCAACCGATAACACGCCAAACACTCATAAAAGCTAAT
Found at i:932533 original size:8 final size:8
Alignment explanation
Indices: 932520--932553 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
932510 AGTCCCTAAT
932520 TCACAAAA
1 TCACAAAA
932528 TCACAAAA
1 TCACAAAA
*
932536 TCAAAAAA
1 TCACAAAA
932544 TACACAAAA
1 T-CACAAAA
932553 T
1 T
932554 TTCCTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.65, C:0.21, G:0.00, T:0.15
Consensus pattern (8 bp):
TCACAAAA
Found at i:952809 original size:28 final size:25
Alignment explanation
Indices: 952778--952837 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
952768 TTCCATATTA
*
952778 TCACATCATTTCATATACTATTATCAAT
1 TCACATCATTT--TATACCATT-TCAAT
952806 TCACA--ATTTTATACCATTTCAAT
1 TCACATCATTTTATACCATTTCAAT
*
952829 TCAAATCAT
1 TCACATCAT
952838 ACATTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
23 9 0.32
24 8 0.29
25 2 0.07
26 4 0.14
28 5 0.18
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.42
Consensus pattern (25 bp):
TCACATCATTTTATACCATTTCAAT
Found at i:965194 original size:7 final size:7
Alignment explanation
Indices: 965184--965208 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
965174 AGAAAAAGAG
965184 AAAAAAT
1 AAAAAAT
965191 AAAAAAT
1 AAAAAAT
965198 AAAAAAT
1 AAAAAAT
965205 AAAA
1 AAAA
965209 TAAAAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAAAT
Found at i:968440 original size:25 final size:25
Alignment explanation
Indices: 968412--968481 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
968402 CTCTTTTAAT
*
968412 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
968437 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
968462 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
968482 AGCACTTCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:968716 original size:27 final size:27
Alignment explanation
Indices: 968686--968752 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
968676 GGGGCAAAAT
**
968686 GGTAATTTTACCCCGCAAGGGTATCTC
1 GGTAATTTTACCCCAAAAGGGTATCTC
* * *
968713 GGTAATTCTACCCTAAAAGGGTATTTC
1 GGTAATTTTACCCCAAAAGGGTATCTC
*
968740 GATAATTTTACCC
1 GGTAATTTTACCC
968753 TACAGGGGTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
GGTAATTTTACCCCAAAAGGGTATCTC
Found at i:968753 original size:27 final size:27
Alignment explanation
Indices: 968701--968826 Score: 173
Period size: 27 Copynumber: 4.7 Consensus size: 27
968691 TTTTACCCCG
* **
968701 CAAGGGTATCTCGGTAATTCTACCCTA
1 CAAGGGTATTTCAATAATTCTACCCTA
* * *
968728 AAAGGGTATTTCGATAATTTTACCCTA
1 CAAGGGTATTTCAATAATTCTACCCTA
*
968755 CAGGGGTATTTCAATAATTCTACCCTA
1 CAAGGGTATTTCAATAATTCTACCCTA
*
968782 C-AGGGTATTTCCATAATTCTACCCTA
1 CAAGGGTATTTCAATAATTCTACCCTA
968808 CAAGGGTATTTCAATAATT
1 CAAGGGTATTTCAATAATT
968827 TTGTAAATCA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
26 24 0.28
27 63 0.72
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTCAATAATTCTACCCTA
Found at i:968806 original size:53 final size:54
Alignment explanation
Indices: 968701--968826 Score: 182
Period size: 53 Copynumber: 2.4 Consensus size: 54
968691 TTTTACCCCG
* ** * *
968701 CAAGGGTATCTCGGTAATTCTACCCTAAAAGGGTATTTCGATAATTTTACCCTA
1 CAAGGGTATTTCAATAATTCTACCCTAAAAGGGTATTTCCATAATTCTACCCTA
* *
968755 CAGGGGTATTTCAATAATTCTACCCT-ACAGGGTATTTCCATAATTCTACCCTA
1 CAAGGGTATTTCAATAATTCTACCCTAAAAGGGTATTTCCATAATTCTACCCTA
968808 CAAGGGTATTTCAATAATT
1 CAAGGGTATTTCAATAATT
968827 TTGTAAATCA
Statistics
Matches: 64, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 42 0.66
54 22 0.34
ACGTcount: A:0.30, C:0.21, G:0.15, T:0.34
Consensus pattern (54 bp):
CAAGGGTATTTCAATAATTCTACCCTAAAAGGGTATTTCCATAATTCTACCCTA
Found at i:968838 original size:27 final size:27
Alignment explanation
Indices: 968808--969159 Score: 262
Period size: 27 Copynumber: 13.0 Consensus size: 27
968798 TTCTACCCTA
** **
968808 CAAGGGTATTTCAATAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
*** **
968835 CAAGGGTAAAACGGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** *
968862 TTAGGGTACTTT-GGTAATTTTTACAAGT
1 CAAGGGTA-TTTCGGTAA-TTTTACAAAT
* * * *
968890 CGAGAGTATTTCAGTAATTTTAAAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
** **
968917 TGAGGGTATTTTAGTAATTTTACAAA-
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
968943 CTGAGGGTATTTCGATAATTTTACAAAT
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* *
968971 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* * ** *
968998 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
969025 CAAGGGTATTTTGGTAATTTTACAAGT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
969052 CAAGGGTATTTCAGTAATTTCACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
* *
969079 CAGGGGTATTTTGGT-ATTTTCACAAA-
1 CAAGGGTATTTCGGTAATTTT-ACAAAT
* * *
969105 CTAGGGGTATTTTGGTAATTTTACAAAC
1 C-AAGGGTATTTCGGTAATTTTACAAAT
* **
969133 CAACGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTCGGTAATTTTACAAAT
969160 TGAGGGCATT
Statistics
Matches: 265, Mismatches: 51, Indels: 18
0.79 0.15 0.05
Matches are distributed among these distances:
26 5 0.02
27 237 0.89
28 23 0.09
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTACAAAT
Found at i:969003 original size:81 final size:80
Alignment explanation
Indices: 968863--969179 Score: 359
Period size: 81 Copynumber: 3.9 Consensus size: 80
968853 TTTGTAAATT
* * * * * *
968863 TAGGGTACTTTGGTAATTTTTACAAGTCGAGAGTATTTCAGTAATTTTAAAAATTGAGGGTATTT
1 TAGGGTATTTTGGTAA-TTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTT
968928 TAGTAATTTTACAAAC
65 TAGTAATTTTACAAAC
* * ** *
968944 TGAGGGTATTTCGATAATTTTACAAATCAAGGGTATTTTGGTAATTTTACAAACCGAGGGTATTT
1 T-AGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTT
* **
969009 TGGTAATTTTGTAAACC
65 TAGTAATTTTACAAA-C
* * *
969026 AAGGGTATTTTGGTAATTTTACAAGTCAAGGGTATTTCAGTAATTTCACAAATC-AGGGGTATTT
1 TAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGA-GGGTATTT
*
969090 TGGT-ATTTTCACAAAC
65 TAGTAATTTT-ACAAAC
* * * * *
969106 TAGGGGTATTTTGGTAATTTTACAAACCAACGGTATTTTAGTAATTTTACAAATTGAGGGCATTT
1 TA-GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTT
969171 TAGTAATTT
65 TAGTAATTT
969180 GGTAAACTAA
Statistics
Matches: 196, Mismatches: 33, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
80 8 0.04
81 170 0.87
82 18 0.09
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (80 bp):
TAGGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTACAAATCGAGGGTATTTT
AGTAATTTTACAAAC
Found at i:969170 original size:27 final size:27
Alignment explanation
Indices: 968895--969179 Score: 268
Period size: 27 Copynumber: 10.6 Consensus size: 27
968885 CAAGTCGAGA
* * ***
968895 GTATTTCAGTAATTTTAAAAATTGAGG
1 GTATTTTAGTAATTTTACAAACCAAGG
**
968922 GTATTTTAGTAATTTTACAAACTGAGG
1 GTATTTTAGTAATTTTACAAACCAAGG
* *
968949 GTA-TTTCGATAATTTTACAAATCAAGG
1 GTATTTTAG-TAATTTTACAAACCAAGG
* *
968976 GTATTTTGGTAATTTTACAAACCGAGG
1 GTATTTTAGTAATTTTACAAACCAAGG
* **
969003 GTATTTTGGTAATTTTGTAAACCAAGG
1 GTATTTTAGTAATTTTACAAACCAAGG
* **
969030 GTATTTTGGTAATTTTACAAGTCAAGG
1 GTATTTTAGTAATTTTACAAACCAAGG
* * * *
969057 GTATTTCAGTAATTTCACAAATCAGGG
1 GTATTTTAGTAATTTTACAAACCAAGG
* * *
969084 GTATTTTGGT-ATTTTCACAAACTAGGG
1 GTATTTTAGTAATTTT-ACAAACCAAGG
* *
969111 GTATTTTGGTAATTTTACAAACCAACG
1 GTATTTTAGTAATTTTACAAACCAAGG
***
969138 GTATTTTAGTAATTTTACAAATTGAGG
1 GTATTTTAGTAATTTTACAAACCAAGG
*
969165 GCATTTTAGTAATTT
1 GTATTTTAGTAATTT
969180 GGTAAACTAA
Statistics
Matches: 218, Mismatches: 36, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
26 8 0.04
27 201 0.92
28 9 0.04
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
GTATTTTAGTAATTTTACAAACCAAGG
Found at i:969171 original size:54 final size:54
Alignment explanation
Indices: 968864--969179 Score: 307
Period size: 54 Copynumber: 5.8 Consensus size: 54
968854 TTGTAAATTT
* * * ** * ***
968864 AGGGTACTTTGGTAATTTTTAC-AAGTCGAGAGTATTTCAGTAATTTTAAAAATTG
1 AGGGTATTTTGGTAA-TTTTACAAACT-GAGGGTATTTTGGTAATTTTACAAACCA
* * * *
968919 AGGGTATTTTAGTAATTTTACAAACTGAGGGTATTTCGATAATTTTACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAACCA
* **
968973 AGGGTATTTTGGTAATTTTACAAACCGAGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAACCA
* * ** * *
969027 AGGGTATTTTGGTAATTTTAC-AAGTCAAGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTACAAACT-GAGGGTATTTTGGTAATTTTACAAACCA
*
969081 GGGGTATTTTGGT-ATTTTCACAAACT-AGGGGTATTTTGGTAATTTTACAAACCA
1 AGGGTATTTTGGTAATTTT-ACAAACTGA-GGGTATTTTGGTAATTTTACAAACCA
* * * * *
969135 ACGGTATTTTAGTAATTTTACAAATTGAGGGCATTTTAGTAATTT
1 AGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTGGTAATTT
969180 GGTAAACTAA
Statistics
Matches: 217, Mismatches: 37, Indels: 15
0.81 0.14 0.06
Matches are distributed among these distances:
53 8 0.04
54 184 0.85
55 25 0.12
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACTGAGGGTATTTTGGTAATTTTACAAACCA
Found at i:971824 original size:16 final size:16
Alignment explanation
Indices: 971780--971832 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 16
971770 GTGTTCTTGG
971780 TTCTTTTG-ATTTTTT
1 TTCTTTTGTATTTTTT
* *
971795 TTATTTTAATTATTTTTT
1 TTCTTTT--GTATTTTTT
971813 TTCTTTTGTATTTTTT
1 TTCTTTTGTATTTTTT
971829 TTCT
1 TTCT
971833 CTTCTCGAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 6 0.19
16 12 0.39
18 13 0.42
ACGTcount: A:0.11, C:0.06, G:0.04, T:0.79
Consensus pattern (16 bp):
TTCTTTTGTATTTTTT
Found at i:972761 original size:3 final size:3
Alignment explanation
Indices: 972739--972802 Score: 65
Period size: 3 Copynumber: 20.3 Consensus size: 3
972729 TTTTTATTTA
* * * *
972739 TAT TAT TGT TAG TAT CAT TAT TAT TAT TAT CTCCAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -T--AT TAT TAT TAT TAT
972787 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
972803 CTCTTGTTAT
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 46 0.92
4 1 0.02
5 1 0.02
6 2 0.04
ACGTcount: A:0.30, C:0.08, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:972788 original size:12 final size:12
Alignment explanation
Indices: 972739--972863 Score: 56
Period size: 12 Copynumber: 10.2 Consensus size: 12
972729 TTTTTATTTA
* *
972739 TATTATTGTTAG
1 TATTATTATTAC
* *
972751 TATCATTATTAT
1 TATTATTATTAC
972763 TATTATCTCCATTAC
1 TATTAT-T--ATTAC
*
972778 TATTATTATTAT
1 TATTATTATTAC
972790 TATTATTATTATTC
1 TATTATTATTA--C
* * *
972804 TCTTGTTA-TAT
1 TATTATTATTAC
* * **
972815 TACTATTCTTGT
1 TATTATTATTAC
*
972827 TA-TATTATCAC
1 TATTATTATTAC
* *
972838 TATTTTTCTTAC
1 TATTATTATTAC
972850 TATTATTATTAC
1 TATTATTATTAC
972862 TA
1 TA
972864 CAACTATTAT
Statistics
Matches: 82, Mismatches: 24, Indels: 14
0.68 0.20 0.12
Matches are distributed among these distances:
11 11 0.13
12 51 0.62
13 3 0.04
14 7 0.09
15 10 0.12
ACGTcount: A:0.27, C:0.11, G:0.03, T:0.58
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:972841 original size:20 final size:19
Alignment explanation
Indices: 972804--972855 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
972794 ATTATTATTC
972804 TCTTGTTATA-T-TACTAT
1 TCTTGTTATATTATACTAT
972821 TCTTGTTATATTATCACTAT
1 TCTTGTTATATTAT-ACTAT
* *
972841 TTTTCTTACTATTAT
1 TCTTGTTA-TATTAT
972856 TATTACTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 10 0.34
18 1 0.03
19 1 0.03
20 11 0.38
21 6 0.21
ACGTcount: A:0.23, C:0.13, G:0.04, T:0.60
Consensus pattern (19 bp):
TCTTGTTATATTATACTAT
Found at i:979581 original size:28 final size:28
Alignment explanation
Indices: 979549--979605 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
979539 CCTTCGTTCC
979549 ATACGAGGTCTTACATGAATCTTGTTTT
1 ATACGAGGTCTTACATGAATCTTGTTTT
979577 ATACGAGGTCTTACATGAATCTTGTTTT
1 ATACGAGGTCTTACATGAATCTTGTTTT
979605 A
1 A
979606 CTCACTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (28 bp):
ATACGAGGTCTTACATGAATCTTGTTTT
Found at i:979919 original size:40 final size:40
Alignment explanation
Indices: 979887--980878 Score: 1833
Period size: 40 Copynumber: 24.8 Consensus size: 40
979877 CCAGCATGAT
* * * * *
979887 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
** * * *
979927 TGCTCTTCGGGGTTTAGCACGGATATATCACTAG-TATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCT-CGAA
* * *
979967 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980007 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980047 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980087 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980127 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980167 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980207 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980247 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980287 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980327 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980367 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980407 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980447 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980487 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980527 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980567 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980607 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980647 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980687 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980727 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
980767 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
*
980807 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
*
980847 TGCTCTTCGGGACTTAGCCCAGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
980879 CTCAATTCTC
Statistics
Matches: 929, Mismatches: 21, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
40 929 1.00
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCTCGAA
Found at i:982128 original size:37 final size:37
Alignment explanation
Indices: 982078--982157 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
982068 CTTATTACGA
* * *
982078 AGTCTTACCCGGACATAATCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
982115 AGTCTTACCCGGACAAAATCCCCACACGTAGTCATCG
1 AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
*
982152 GGTCTT
1 AGTCTT
982158 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATCCCCACACGAAGTCATCG
Found at i:982349 original size:47 final size:47
Alignment explanation
Indices: 982275--982766 Score: 948
Period size: 47 Copynumber: 10.4 Consensus size: 47
982265 GCCCTTCGGG
982275 ACTTATCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982323 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982370 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982417 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982464 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
982511 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
982560 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982607 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982654 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982701 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982748 ACTTTCACATTCATCACAT
1 ACTTTCACATTCATCACAT
982767 AGAATCCTAA
Statistics
Matches: 440, Mismatches: 2, Indels: 5
0.98 0.00 0.01
Matches are distributed among these distances:
47 390 0.89
48 4 0.01
49 46 0.10
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:982693 original size:237 final size:235
Alignment explanation
Indices: 982275--982766 Score: 948
Period size: 237 Copynumber: 2.1 Consensus size: 235
982265 GCCCTTCGGG
*
982275 ACTTATCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
1 ACTT-TCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCAC
982340 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65 ATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
982405 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
130 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
982470 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
195 ACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982511 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCA
1 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
982576 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
64 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
982641 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
129 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
982706 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
194 CACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
982748 ACTTTCACATTCATCACAT
1 ACTTTCACATTCATCACAT
982767 AGAATCCTAA
Statistics
Matches: 253, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
235 34 0.13
236 4 0.02
237 215 0.85
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (235 bp):
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCA
CATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:983928 original size:18 final size:18
Alignment explanation
Indices: 983905--983946 Score: 84
Period size: 18 Copynumber: 2.3 Consensus size: 18
983895 CATATGCATT
983905 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
983923 TTTAATCACATCAAGCAA
1 TTTAATCACATCAAGCAA
983941 TTTAAT
1 TTTAAT
983947 ACAATTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.43, C:0.19, G:0.05, T:0.33
Consensus pattern (18 bp):
TTTAATCACATCAAGCAA
Found at i:985453 original size:15 final size:15
Alignment explanation
Indices: 985433--985465 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
985423 TTCGTGGACC
985433 AAAACT-AATGATTTT
1 AAAACTAAATG-TTTT
985448 AAAACTAAATGTTTT
1 AAAACTAAATGTTTT
985463 AAA
1 AAA
985466 GGTGATCCGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.36
Consensus pattern (15 bp):
AAAACTAAATGTTTT
Found at i:995404 original size:205 final size:205
Alignment explanation
Indices: 995031--995743 Score: 1072
Period size: 205 Copynumber: 3.5 Consensus size: 205
995021 AGCATAACAA
* *
995031 ATCTGGCCTTCAGATG-TTATACTGAAGCTGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
1 ATCTCGCCTTCAGATGTTTATACTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
* *
995095 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGAGATTACGATGAAGCAAATCTAAGATGAT
66 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
995160 TTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
131 TTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
995225 CACATAGCAG
196 CACATAGCAG
* * *
995235 ATCTCGCCTTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTGTTTATAAG
1 ATCTCGCCTTCAGATGTTTATACTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
* *
995300 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTATGATGAAGCAAATCTAAGATGAT
66 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
* * * * *
995365 TTATCATCTCTGTATTGTCAAAGAATGAATCGCAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
131 TTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
*
995430 CACACAGCAG
196 CACATAGCAG
* * * *
995440 ATCTCGCCTTCGGCTGTTTATGCTGAAGCGGATCCAAGATGGTTTGGAATCCTTGTGTTTACAAG
1 ATCTCGCCTTCAGATGTTTATACTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
* * * *
995505 GAACAAATCGAAGACATAGCTGATTTGGTTTTCACGTGTTTACGTTGAAACAAATCTAAGATGAT
66 GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
* * * *
995570 TTGTCGTCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCA-TTTCAATGGAGAGCAG
131 TTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTT-GATGGAGAGCAG
*
995634 ATACATAGCAG
195 ACACATAGCAG
* * * *
995645 ATCT-GATCTTCAGATGTTTATACTGAAGCAAGATCCAAGATGATTTGGCATCCTTGTGCTTACA
1 ATCTCG-CCTTCAGATGTTTATACTGAAGC-GGATCCAAGATGGTTTGGCATCCTTGTGTTTACA
* *
995709 AGGAACAAATCGAAGACATAGCAGATTTGACTTTC
64 AGGAACAAATCGAAGACATAGCTGATTTGGCTTTC
995744 GGATGTTTCC
Statistics
Matches: 461, Mismatches: 44, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
204 18 0.04
205 381 0.83
206 62 0.13
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (205 bp):
ATCTCGCCTTCAGATGTTTATACTGAAGCGGATCCAAGATGGTTTGGCATCCTTGTGTTTACAAG
GAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAAGATGAT
TTGTCGTCTCTGTATTGTCAGAGAACGAATCGAAGTTTGGCATCTTCACTTTGATGGAGAGCAGA
CACATAGCAG
Found at i:995969 original size:44 final size:43
Alignment explanation
Indices: 995807--995970 Score: 145
Period size: 44 Copynumber: 3.7 Consensus size: 43
995797 CGACGGAGAG
* *
995807 CAGATCGAAGAGATCAGCATGGCATCCCTGTGCTTATAGGGAA
1 CAGATCGAAGATAGCAGCATGGCATCCCTGTGCTTATAGGGAA
* * *
995850 CAAGTTGGAA-ATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAA
1 C-AGATCGAAGATAGCAGCA--TGGCATCCCTGTGCTTATAGGGAA
* * * * *
995894 CAAATCGAAGATAGCAGGTC-TGACATTCCTGTGCTTACAGTGAA
1 CAGATCGAAGATAGCA-G-CATGGCATCCCTGTGCTTATAGGGAA
**
995938 GCAGATCGAAGATTTCAGCATGGCATCCCTGTG
1 -CAGATCGAAGATAGCAGCATGGCATCCCTGTG
995971 AACAGATCGA
Statistics
Matches: 94, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
42 1 0.01
43 12 0.13
44 67 0.71
45 14 0.15
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (43 bp):
CAGATCGAAGATAGCAGCATGGCATCCCTGTGCTTATAGGGAA
Found at i:1007004 original size:6 final size:6
Alignment explanation
Indices: 1006966--1007164 Score: 124
Period size: 6 Copynumber: 32.3 Consensus size: 6
1006956 AAGAAACATT
* * * *
1006966 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* *
1007014 ATCAGA TGAT-AGA ATCAAA ATCCA-A ATCAGA ATCAGA ATTAGGTA A-CAGA
1 ATCAGA --ATCAGA ATCAGA AT-CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
* * * *
1007064 ATCAGA ATCAGT ATCAGGTA A-CAAA ATCAGA ATCAGA ACCAGA ATCAAA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA
* * *
1007113 ATTAGGTA A-CAGA ATCAGA ATCAGT ATCAGGTA A-CAAA ATCAGA ATCAGA
1 ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
1007163 AT
1 AT
1007165 GTGAATGCAA
Statistics
Matches: 149, Mismatches: 25, Indels: 38
0.70 0.12 0.18
Matches are distributed among these distances:
5 13 0.09
6 113 0.76
7 15 0.10
8 8 0.05
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:1007035 original size:37 final size:37
Alignment explanation
Indices: 1006987--1007164 Score: 123
Period size: 37 Copynumber: 4.6 Consensus size: 37
1006977 AATCAAAATG
* *
1006987 AGAATCAAAATCAGAATCAGAATCAAAATCAGATGAT
1 AGAATCAAAATCAGAATCAGAATCAAAATCAGATAAC
* * *
1007024 AGAATCAAAATCCA-AATCAGAATCAGAATTAGGTAAC
1 AGAATCAAAAT-CAGAATCAGAATCAAAATCAGATAAC
* *
1007061 AGAATCAGAATCAGTATCAGGTAA-CAAAATCAGAATCAGAACC
1 AGAATCAAAATCAGAATCA-G-AATCAAAATCAG-AT---AA-C
* * *
1007104 AGAATCAAAATTAGGTAA-CAGAATCAGAATCAG-TATC
1 AGAATCAAAATCA-G-AATCAGAATCAAAATCAGATAAC
1007141 AGGTAA-CAAAATCAGAATCAGAAT
1 A-G-AATCAAAATCAGAATCAGAAT
1007165 GTGAATGCAA
Statistics
Matches: 110, Mismatches: 16, Indels: 30
0.71 0.10 0.19
Matches are distributed among these distances:
36 4 0.04
37 52 0.47
38 19 0.17
39 5 0.05
41 1 0.01
42 4 0.04
43 21 0.19
44 3 0.03
45 1 0.01
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAAAATCAGATAAC
Found at i:1007066 original size:25 final size:25
Alignment explanation
Indices: 1007037--1007101 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
1007027 ATCAAAATCC
*
1007037 AAATCAGAATCAGAATTAGGTAACA
1 AAATCAGAATCAGAATCAGGTAACA
* *
1007062 GAATCAGAATCAGTATCAGGTAACA
1 AAATCAGAATCAGAATCAGGTAACA
1007087 AAATCAGAATCAGAA
1 AAATCAGAATCAGAA
1007102 CCAGAATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.51, C:0.14, G:0.17, T:0.18
Consensus pattern (25 bp):
AAATCAGAATCAGAATCAGGTAACA
Found at i:1007073 original size:62 final size:62
Alignment explanation
Indices: 1006998--1007163 Score: 199
Period size: 62 Copynumber: 2.7 Consensus size: 62
1006988 GAATCAAAAT
* * * * *
1006998 CAGAATCAGAATCAAAATCAGATGATAGAATCAAAATCCA-AATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGATAACAAAATCAAAAT-CAGAACCAGAATCAAAATTAGGTAA
** * *
1007060 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAACCAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGATAACAAAATCAAAATCAGAACCAGAATCAAAATTAGGTAA
** * *
1007122 CAGAATCAGAATCAGTATCAGGTAACAAAATCAGAATCAGAA
1 CAGAATCAGAATCAAAATCAGATAACAAAATCAAAATCAGAA
1007164 TGTGAATGCA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
61 2 0.02
62 92 0.98
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (62 bp):
CAGAATCAGAATCAAAATCAGATAACAAAATCAAAATCAGAACCAGAATCAAAATTAGGTAA
Found at i:1007131 original size:25 final size:25
Alignment explanation
Indices: 1006998--1007160 Score: 90
Period size: 25 Copynumber: 6.6 Consensus size: 25
1006988 GAATCAAAAT
* *
1006998 CAGAATCAGAATCAAAATCAGATGA
1 CAGAATCAGAATCAAAATCAGGTAA
* * *
1007023 TAGAATCAAAATCCAAATCA-G-AA
1 CAGAATCAGAATCAAAATCAGGTAA
* *
1007046 TCAGAATTAGGTAA-CAGAATCA-G-AA
1 -CAGAATCA-G-AATCAAAATCAGGTAA
*
1007071 TCAGTATCAGGTAA-CAAAATCA-G-AA
1 -CAGAATCA-G-AATCAAAATCAGGTAA
* *
1007096 TCAGAACCAGAATCAAAATTAGGTAA
1 -CAGAATCAGAATCAAAATCAGGTAA
**
1007122 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
*
1007147 CAAAATCAGAATCA
1 CAGAATCAGAATCA
1007161 GAATGTGAAT
Statistics
Matches: 111, Mismatches: 21, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
23 3 0.03
24 14 0.13
25 90 0.81
26 4 0.04
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.18
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:1007361 original size:31 final size:31
Alignment explanation
Indices: 1007313--1008109 Score: 1517
Period size: 31 Copynumber: 25.7 Consensus size: 31
1007303 CCAGATACAG
* *
1007313 ATAT-TGTGGCTAGGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007343 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007374 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007405 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007436 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007467 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007498 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007529 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007560 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007591 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007622 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007653 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007684 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007715 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007746 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007777 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007808 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007839 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007870 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007901 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007932 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1007963 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
*
1007994 ATATATGTGGCGAAGCCACCAGAACA-ATAC
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
* * *
1008024 AGATATTGTGGCTAGGCCACCAGAACAGATAT
1 ATATA-TGTGGCGAAGCCACCAGAACAGATAT
1008056 ATATATGTGGCGAAGCCACCAGAACAGATAT
1 ATATATGTGGCGAAGCCACCAGAACAGATAT
1008087 ATATATGTGGCGAAGCCACCAGA
1 ATATATGTGGCGAAGCCACCAGA
1008110 TTGCAGCGAG
Statistics
Matches: 754, Mismatches: 10, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
30 11 0.01
31 736 0.98
32 7 0.01
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (31 bp):
ATATATGTGGCGAAGCCACCAGAACAGATAT
Found at i:1008451 original size:27 final size:27
Alignment explanation
Indices: 1008421--1008667 Score: 254
Period size: 27 Copynumber: 9.3 Consensus size: 27
1008411 GGGGTAAAAT
* *
1008421 GGTAATTTTAACCC-ACAAGGGTATCTC
1 GGTAATTCT-ACCCTACAAGGGTATTTC
1008448 GGTAATTCTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
* *
1008475 AGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
1008502 GGTATTTCTA-CC--CAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
1008526 GGTATTTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
1008553 AGTAATTCTACCCTAC-AGGAGTATTTC
1 GGTAATTCTACCCTACAAGG-GTATTTC
* * * *
1008580 GATATTTCTACCCTACAGGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
1008607 GGTATTTCTACACTACAAGGATATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
1008634 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
1008661 GATAATT
1 GGTAATT
1008668 TTATAAATCG
Statistics
Matches: 184, Mismatches: 28, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
24 21 0.11
25 2 0.01
26 10 0.05
27 148 0.80
28 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:1008565 original size:78 final size:77
Alignment explanation
Indices: 1008436--1008664 Score: 305
Period size: 78 Copynumber: 2.9 Consensus size: 77
1008426 TTTTAACCCA
* * * *
1008436 CAAGGGTATCTCGGTAATTCTACCCTACAGTGGTATTTCAGTAATTCTACCCTACATGGGTATTT
1 CAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACA-GGGTATTT
*
1008501 CGGTATTTCTACC
65 CGATATTTCTACC
1008514 CAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGAGTATTT
1 CAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGG-GTATTT
1008579 CGATATTTCTACC
65 CGATATTTCTACC
* * * * * *
1008592 CTACAGGGGTATTTAGGTATTTCTACACTACAAGGATATTTTGGTATTTCTACCCTACAAGGGTA
1 C-A-A-GGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTAC-AGGGTA
1008657 TTTCGATA
62 TTTCGATA
1008665 ATTTTATAAA
Statistics
Matches: 135, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.01
78 71 0.53
79 1 0.01
80 1 0.01
81 57 0.42
82 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (77 bp):
CAAGGGTATTTCGGTATTTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGTATTTC
GATATTTCTACC
Found at i:1008747 original size:27 final size:27
Alignment explanation
Indices: 1008717--1008781 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
1008707 GGTACTTTGG
*
1008717 TAATTTTGCAAGTCGAGGGTATCTCAA
1 TAATTTTACAAGTCGAGGGTATCTCAA
* * *
1008744 TAATTTTACAGGTCGAGGGTATTTCAG
1 TAATTTTACAAGTCGAGGGTATCTCAA
*
1008771 TAATTTCACAA
1 TAATTTTACAA
1008782 ATCAGGGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.31, C:0.14, G:0.20, T:0.35
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATCTCAA
Found at i:1008790 original size:27 final size:27
Alignment explanation
Indices: 1008759--1009026 Score: 329
Period size: 27 Copynumber: 9.9 Consensus size: 27
1008749 TTACAGGTCG
** * * *
1008759 AGGGTATTTCAGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
1008786 GGGGTATTTTGGTAATTTTATAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
1008813 GGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
1008840 AGGGTATTTTAGTAATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
1008867 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
1008894 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
1008921 AGAGTATTTTCGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
1008948 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
1008975 GGGGTATTTTGGTGATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
1009002 GGGGTATTTTAGTAATTTGATAAAC
1 AGGGTATTTTGGTAATTTTATAAAC
1009027 TAAAGTATTC
Statistics
Matches: 213, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 213 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:1008818 original size:81 final size:80
Alignment explanation
Indices: 1008699--1009019 Score: 212
Period size: 81 Copynumber: 4.0 Consensus size: 80
1008689 GTAATTCTGT
* ** * * *** *
1008699 AAATCAGGGGTACTTTGGTAATTTTGCAAGTCGAGGGTATCTCAATAATTTTACAGGTCGAGGGT
1 AAATCAGGGGTATTTTGGTAATTTTTAAACTAG-GGGTATCTCAATAATTTTACAAACCAAGGGT
1008764 ATTTCAGTAATTTCAC
65 ATTTCAGTAATTTCAC
* *** **
1008780 AAATCAGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTGGTAATTTTGTAAACCAAGGGT
1 AAATCAGGGGTATTTTGGTAATTTT-TAAACTAGGGGTATCTCAATAATTTTACAAACCAAGGGT
* * *
1008845 ATTTTAGTAATTTTAT
65 ATTTCAGTAATTTCAC
* * * * * *** ** *
1008861 AAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGAGT
1 AAATCAGGGGTATTTTGGTAATTTT-TAAACTAGGGGTATCTCAATAATTTTACAAACCAAGGGT
***
1008926 ATTTTC-GTAATTTTGT
65 A-TTTCAGTAATTTCAC
* * * * *** * *
1008942 AAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTGATTTTACAAACCAGGGGT
1 AAATCAGGGGTATTTTGGTAATTTT-TAAACTAGGGGTATCTCAATAATTTTACAAACCAAGGGT
*
1009007 ATTTTAGTAATTT
65 ATTTCAGTAATTT
1009020 GATAAACTAA
Statistics
Matches: 201, Mismatches: 36, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
80 3 0.01
81 191 0.95
82 7 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (80 bp):
AAATCAGGGGTATTTTGGTAATTTTTAAACTAGGGGTATCTCAATAATTTTACAAACCAAGGGTA
TTTCAGTAATTTCAC
Found at i:1009026 original size:81 final size:81
Alignment explanation
Indices: 1008759--1009026 Score: 376
Period size: 81 Copynumber: 3.3 Consensus size: 81
1008749 TTACAGGTCG
* * * * *
1008759 AGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTG
1 AGGGTATTTTAGTAATTTGATAAACCAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTG
1008824 GTAATTTTGTAAACCA
66 GTAATTTTGTAAACCA
* * * *
1008840 AGGGTATTTTAGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTG
1 AGGGTATTTTAGTAATTTGATAAACCAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTG
1008905 GTAATTTTGTAAACCA
66 GTAATTTTGTAAACCA
* * *
1008921 AGAGTATTTTCGTAATTTTG-TAAACCAAGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTT
1 AGGGTATTTTAGTAA-TTTGATAAACCAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTT
* **
1008985 GGTGATTTTACAAACCA
65 GGTAATTTTGTAAACCA
*
1009002 GGGGTATTTTAGTAATTTGATAAAC
1 AGGGTATTTTAGTAATTTGATAAAC
1009027 TAAAGTATTC
Statistics
Matches: 164, Mismatches: 21, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.02
81 157 0.96
82 3 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGTATTTTAGTAATTTGATAAACCAAGGGTATTTTGGTAATTTTATAAACTAGGGGTATTTTG
GTAATTTTGTAAACCA
Found at i:1011390 original size:6 final size:6
Alignment explanation
Indices: 1011364--1011505 Score: 96
Period size: 6 Copynumber: 23.0 Consensus size: 6
1011354 AATCAGGTGA
* *
1011364 CAGAAT CAAAAT CCA-AAT CAGAAT CAGAAT TAGGTAA- CAGAAT CAGAAT
1 CAGAAT CAGAAT -CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT
* * * *
1011413 CAGTAT CAGGTAA- CAGAAT CAGAAT CAGAAC CAGAAT CAAAAT TAGGTAA-
1 CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CA-G-AAT
* *
1011463 CAGAAT CAGAAT CAGTAT CAGGTAA- CAAAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
1011506 GTGAATGCAA
Statistics
Matches: 107, Mismatches: 15, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
5 10 0.09
6 80 0.75
7 11 0.10
8 6 0.06
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
CAGAAT
Found at i:1011406 original size:19 final size:19
Alignment explanation
Indices: 1011382--1011474 Score: 91
Period size: 19 Copynumber: 4.6 Consensus size: 19
1011372 AAATCCAAAT
1011382 CAGAATCAGAATTAGGTAA
1 CAGAATCAGAATTAGGTAA
1011401 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG-A--A-T-T-AGGTAA
*
1011426 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATTAGGTAA
*
1011443 CCAGAATCAAAATTAGGTAA
1 -CAGAATCAGAATTAGGTAA
1011463 CAGAATCAGAAT
1 CAGAATCAGAAT
1011475 CAGTATCAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.03
18 13 0.21
19 22 0.36
20 3 0.05
21 1 0.02
22 2 0.03
23 1 0.02
24 2 0.03
25 15 0.25
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATTAGGTAA
Found at i:1011407 original size:25 final size:25
Alignment explanation
Indices: 1011379--1011442 Score: 110
Period size: 25 Copynumber: 2.6 Consensus size: 25
1011369 TCAAAATCCA
*
1011379 AATCAGAATCAGAATTAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
*
1011404 AATCAGAATCAGTATCAGGTAACAG
1 AATCAGAATCAGAATCAGGTAACAG
1011429 AATCAGAATCAGAA
1 AATCAGAATCAGAA
1011443 CCAGAATCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTAACAG
Found at i:1011429 original size:62 final size:63
Alignment explanation
Indices: 1011355--1011504 Score: 234
Period size: 62 Copynumber: 2.4 Consensus size: 63
1011345 TAAAATGAGA
* * * *
1011355 ATCAGGTGACAGAATCAAAATCCA-AATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGT
1 ATCAGGTAACAGAATCAGAATCCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
1011417 ATCAGGTAACAGAATCAGAAT-CAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
1 ATCAGGTAACAGAATCAGAATCCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
*
1011479 ATCAGGTAACAAAATCAGAAT-CAGAA
1 ATCAGGTAACAGAATCAGAATCCAGAA
1011505 TGTGAATGCA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
61 2 0.02
62 80 0.98
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (63 bp):
ATCAGGTAACAGAATCAGAATCCAGAACCAGAATCAAAATTAGGTAACAGAATCAGAATCAGT
Found at i:1011442 original size:37 final size:37
Alignment explanation
Indices: 1011401--1011496 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
1011391 AATTAGGTAA
**
1011401 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
* *
1011438 CAGAACCAGAATCAAAATTAGGTAACAGAATCAGAAT
1 CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
*
1011475 CAGTATCAGGTAA-CAAAATCAG
1 CAGAATCA-G-AATCAAAATCAG
1011497 AATCAGAATG
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
37 39 0.78
38 9 0.18
39 2 0.04
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.18
Consensus pattern (37 bp):
CAGAATCAGAATCAAAATCAGGTAACAGAATCAGAAT
Found at i:1011472 original size:25 final size:25
Alignment explanation
Indices: 1011438--1011501 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
1011428 GAATCAGAAT
* *
1011438 CAGAACCAGAATCAAAATTAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
**
1011463 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAAAATCAGGTAA
*
1011488 CAAAATCAGAATCA
1 CAGAATCAGAATCA
1011502 GAATGTGAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.50, C:0.17, G:0.16, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAAAATCAGGTAA
Found at i:1011672 original size:27 final size:26
Alignment explanation
Indices: 1011624--1011683 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1011614 ACGAGGCTGC
*
1011624 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1011651 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1011677 CAGATAT
1 CAGATAT
1011684 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1011770 original size:27 final size:26
Alignment explanation
Indices: 1011722--1011781 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1011712 GCGAGGCTGC
*
1011722 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1011749 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1011775 CAGATAT
1 CAGATAT
1011782 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1011778 original size:98 final size:98
Alignment explanation
Indices: 1011609--1012455 Score: 1660
Period size: 98 Copynumber: 8.6 Consensus size: 98
1011599 ACCACAGAAT
*
1011609 TTGCAACGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1011674 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1011707 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1011772 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1011805 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1011870 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1011903 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1011968 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1012001 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1012066 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1012099 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1012164 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1012197 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1012262 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
1012295 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
1012360 GAACAGATATATATATGTGGCGAAGCCACCAGA
66 GAACAGATATATATATGTGGCGAAGCCACCAGA
*
1012393 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGA-ACAGATATATGTGGCGAGGCCAC
1 TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATAT-TGTGGCTAGGCCAC
1012456 TAAATTACAG
Statistics
Matches: 746, Mismatches: 2, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
97 8 0.01
98 738 0.99
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.20
Consensus pattern (98 bp):
TTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGATACAGATATTGTGGCTAGGCCACCA
GAACAGATATATATATGTGGCGAAGCCACCAGA
Found at i:1011868 original size:27 final size:26
Alignment explanation
Indices: 1011820--1011879 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1011810 GCGAGGCTGC
*
1011820 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1011847 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1011873 CAGATAT
1 CAGATAT
1011880 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1011966 original size:27 final size:26
Alignment explanation
Indices: 1011918--1011977 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1011908 GCGAGGCTGC
*
1011918 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1011945 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1011971 CAGATAT
1 CAGATAT
1011978 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1012064 original size:27 final size:26
Alignment explanation
Indices: 1012016--1012075 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1012006 GCGAGGCTGC
*
1012016 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1012043 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1012069 CAGATAT
1 CAGATAT
1012076 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1012162 original size:27 final size:26
Alignment explanation
Indices: 1012114--1012173 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1012104 GCGAGGCTGC
*
1012114 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1012141 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1012167 CAGATAT
1 CAGATAT
1012174 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1012260 original size:27 final size:26
Alignment explanation
Indices: 1012212--1012271 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1012202 GCGAGGCTGC
*
1012212 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1012239 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1012265 CAGATAT
1 CAGATAT
1012272 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1012358 original size:27 final size:26
Alignment explanation
Indices: 1012310--1012369 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
1012300 GCGAGGCTGC
*
1012310 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
1012337 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
1012363 CAGATAT
1 CAGATAT
1012370 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:1012417 original size:71 final size:67
Alignment explanation
Indices: 1012337--1012478 Score: 176
Period size: 67 Copynumber: 2.1 Consensus size: 67
1012327 TCACCAGATA
* * * * *
1012337 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAAATTACAGCGA
1012402 GGCTGC
62 GGCTGC
* * *
1012408 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACTAAATTACAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAAATTACAGCGAGGCT
1012473 GC
66 GC
1012475 CAGA
1 CAGA
1012479 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
67 38 0.60
71 25 0.40
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAAATTACAGCGAGGCT
GC
Found at i:1012735 original size:27 final size:27
Alignment explanation
Indices: 1012704--1012955 Score: 298
Period size: 27 Copynumber: 9.3 Consensus size: 27
1012694 GGGGTAAAAT
* *
1012704 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* * *
1012731 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
1012758 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
1012785 AGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* *
1012812 GGTAATTCTACCCTACAAGGGTATTTT
1 GGTAATTTTACCCTACAAGGGTATTTC
** *
1012839 AATAATTCTACCCTAC-AGGCGTATTTC
1 GGTAATTTTACCCTACAAGG-GTATTTC
*
1012866 GGT-ATTTCTACCCTACAGGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
1012893 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
1012920 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
1012947 GGTAATTTT
1 GGTAATTTT
1012956 GTAAATCAAG
Statistics
Matches: 201, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
26 10 0.05
27 182 0.91
28 9 0.04
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:1012751 original size:54 final size:54
Alignment explanation
Indices: 1012704--1012953 Score: 333
Period size: 54 Copynumber: 4.6 Consensus size: 54
1012694 GGGGTAAAAT
* *
1012704 GGTAATTTTACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
1012758 AGTAATTTTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
1012812 GGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCTACAGGCGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* * * *
1012866 GGT-ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
*
1012920 GGT-ATTTCTACCCTACAAGGGTATTTCGGTAATT
1 GGTAATTT-TACCCTACAAGGGTATTTCAGTAATT
1012954 TTGTAAATCA
Statistics
Matches: 171, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
53 3 0.02
54 168 0.98
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.36
Consensus pattern (54 bp):
GGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:1012965 original size:27 final size:27
Alignment explanation
Indices: 1012935--1013527 Score: 616
Period size: 27 Copynumber: 22.0 Consensus size: 27
1012925 TTCTACCCTA
* * *
1012935 CAAGGGTATTTCGGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
**** * * *
1012962 CAAGGGTAAAACGGTAATTCTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * **
1012989 CAGGGGTACTTTGGTAATTTTGTAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *** * **
1013016 CGAGGGTGTTTCAATAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013043 CGAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
1013070 TAAGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013097 CATGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013124 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013151 AAAGGGTATTTTAGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013178 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013205 TAAGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013232 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013259 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013286 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013313 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013340 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013367 CAAGGGTATTTTTGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013394 CAAGGATATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013421 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
1013448 CAAGGGTATTTTGG-AATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
1013474 C-AGGTGTATTTTGGTGATTTTACAAA-
1 CAAGG-GTATTTTGGTAATTTTATAAAC
* *
1013500 CTAGGGATATTTTGGTAATTTGATAAAC
1 CAAGGG-TATTTTGGTAATTTTATAAAC
1013528 TAAAGTATTC
Statistics
Matches: 478, Mismatches: 83, Indels: 9
0.84 0.15 0.02
Matches are distributed among these distances:
25 3 0.01
26 22 0.05
27 453 0.95
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:1012977 original size:54 final size:54
Alignment explanation
Indices: 1012695--1012982 Score: 163
Period size: 54 Copynumber: 5.3 Consensus size: 54
1012685 AAAACCCTAG
* * * * * ** *
1012695 GGGTAAAATGGTAATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAG
1 GGGTAAAACGGT-ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAATACAA
*** * * * **
1012749 GGGTATTTCAGTAATTT-TACCCTACAGGGGTATTTCAGTATTTCTACCCTACAA
1 GGGTAAAACGGT-ATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAATACAA
*** * *** * **
1012803 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCTAC-A
1 GGGTAAAACGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAATACAA
*** * **
1012856 GGCGTATTTCGGTATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAA
1 GG-GTAAAACGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAATACAA
*** *
1012911 GGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTTTGTA-AAT-CAA
1 GGGTAAAACGGTATTTCTACCCTACAAGGGTATTTCGGT-A-TTTCTACAATACAA
*
1012965 GGGTAAAACGGTAATTCT
1 GGGTAAAACGGTATTTCT
1012983 GTAAATCAGG
Statistics
Matches: 199, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
53 6 0.03
54 183 0.92
55 5 0.03
56 5 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (54 bp):
GGGTAAAACGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACAATACAA
Found at i:1012977 original size:81 final size:81
Alignment explanation
Indices: 1012708--1012950 Score: 339
Period size: 81 Copynumber: 3.0 Consensus size: 81
1012698 TAAAATGGTA
* * * *
1012708 ATTT-TACCCCACAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTT-TACCC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGT-ATTTCTACCC
* *
1012771 TACAGGGGTATTTCAGT
65 TACAAGGGTATTTCGGT
* * *
1012788 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTTAATAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCT
1012853 AC-AGGCGTATTTCGGT
66 ACAAGG-GTATTTCGGT
* * *
1012869 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCT
1012934 ACAAGGGTATTTCGGT
66 ACAAGGGTATTTCGGT
1012950 A
1 A
1012951 ATTTTGTAAA
Statistics
Matches: 144, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
80 9 0.06
81 132 0.92
82 3 0.02
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (81 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTATTTCTACCCT
ACAAGGGTATTTCGGT
Found at i:1017401 original size:33 final size:33
Alignment explanation
Indices: 1017284--1017394 Score: 159
Period size: 33 Copynumber: 3.4 Consensus size: 33
1017274 TACTCTTTGT
* *
1017284 TTGGTGTGTTGGTTGGACTAGCTCTTATAAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
1017317 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * *
1017350 TTGGTGTGCTGCTTGGATTAGCTCTTCTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
1017383 TTAGTGTGTTGG
1 TTGGTGTGTTGG
1017395 AGGGATTGGC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 69 1.00
ACGTcount: A:0.15, C:0.12, G:0.32, T:0.41
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:1020972 original size:33 final size:33
Alignment explanation
Indices: 1020933--1020999 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1020923 AAAGTCTGGG
1020933 AAAGAGTAAGTGGTTTAAAGTGATGCATCGTAT
1 AAAGAGTAAGTGGTTTAAAGTGATGCATCGTAT
* *
1020966 AAAGAGTATGTGGTTTATAGTGATGCATCGTAT
1 AAAGAGTAAGTGGTTTAAAGTGATGCATCGTAT
1020999 A
1 A
1021000 TGGGACTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (33 bp):
AAAGAGTAAGTGGTTTAAAGTGATGCATCGTAT
Found at i:1023614 original size:26 final size:26
Alignment explanation
Indices: 1023585--1023639 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
1023575 TAATAAATTT
1023585 TTTAAGTAATTGCATGAATTGAATGG
1 TTTAAGTAATTGCATGAATTGAATGG
1023611 TTTAAGTAATTGCATGAATTGAATGG
1 TTTAAGTAATTGCATGAATTGAATGG
1023637 TTT
1 TTT
1023640 TCTTTTGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.33, C:0.04, G:0.22, T:0.42
Consensus pattern (26 bp):
TTTAAGTAATTGCATGAATTGAATGG
Found at i:1036191 original size:117 final size:118
Alignment explanation
Indices: 1035983--1036213 Score: 374
Period size: 117 Copynumber: 2.0 Consensus size: 118
1035973 ACCTTGATGC
* * *
1035983 TTTGATTCGTTCATGATAGATTGATTTCGAGGCAATATGAAGAGCAACTTAATTATGGCACCAAA
1 TTTGATTCGTTCATGATAGATTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGCACCAAA
*
1036048 ATTTTGCTAGTGGTGTATGCTCCAATCCAA-TTCAATTAACAGATGTTAAAAG
66 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAAG
* * *
1036100 TTTGATTCTTTCATGATAGTTTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGTACCAAA
1 TTTGATTCGTTCATGATAGATTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGCACCAAA
* *
1036165 GTTTTGCTAGTGATGTATGCTTCAATCCAATTTCAATTAACAGATGTTA
66 ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTA
1036214 TATCCACATG
Statistics
Matches: 104, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
117 86 0.83
118 18 0.17
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.36
Consensus pattern (118 bp):
TTTGATTCGTTCATGATAGATTCATTTCGAGGCAATATGAACAGAAACTTAATTATGGCACCAAA
ATTTTGCTAGTGATGTATGCTCCAATCCAATTTCAATTAACAGATGTTAAAAG
Found at i:1045456 original size:13 final size:13
Alignment explanation
Indices: 1045438--1045462 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1045428 CCTCCATCAG
1045438 TTCCTTTTTCTTC
1 TTCCTTTTTCTTC
1045451 TTCCTTTTTCTT
1 TTCCTTTTTCTT
1045463 TTATGTAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCCTTTTTCTTC
Found at i:1047504 original size:21 final size:21
Alignment explanation
Indices: 1047480--1047546 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
1047470 CACATGGTCA
* *
1047480 TGTGCATGGGTCACACAGCCT
1 TGTGGATGGGTCACACGGCCT
1047501 TGTGGATGGGTCACACGGCCT
1 TGTGGATGGGTCACACGGCCT
* *
1047522 TGTGGATAGGTCACACGGCCG
1 TGTGGATGGGTCACACGGCCT
1047543 TGTG
1 TGTG
1047547 TCCAAACCGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (21 bp):
TGTGGATGGGTCACACGGCCT
Found at i:1058837 original size:757 final size:757
Alignment explanation
Indices: 1057377--1058892 Score: 2764
Period size: 757 Copynumber: 2.0 Consensus size: 757
1057367 CACATGAGAA
* *
1057377 AAATTATCCGACCCATGATCTCGAACTAGCTGCCATCGTATTCGCTTTAAAAATATGGCGACATT
1 AAATTATCCAACCCATGATCTCGAACTAGCCGCCATCGTATTCGCTTTAAAAATATGGCGACATT
* *
1057442 ACTTATTTGGTGAAAAGTGCTATGTATTTTCGGATCATAAAAGTCTCAAATATTTGATGACTCAA
66 ACTTATTTGGTGAAAAGTGCCATGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAA
1057507 AGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGA
131 AGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGA
1057572 TTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCAGAAATCACTGTTTGCTTTAC
196 TTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCAGAAATCACTGTTTGCTTTAC
1057637 GAGCGATGAATGTGCACTTGTCTGTTCTACCCAACAATGTGTTAGTAGCTGAATTAAAGGCCAAA
261 GAGCGATGAATGTGCACTTGTCTGTTCTACCCAACAATGTGTTAGTAGCTGAATTAAAGGCCAAA
* *
1057702 CCATTATTGATTCGTCAAATTCGTGAAGCTCAGAAAGTCGACGATGAATTGGTTGCAAAATGGGC
326 CCATCATTGATTCGTCAAATTCGTGAAGCTCAGAAAGTCGACGATGAATTGGTTGCAAAACGGGC
*
1057767 TGAATGTGTTCCGAATATGGAATCCGAATTTCAAATTGATGATGACGATTGTTTGAGGTTCAGAA
391 TGAATGTATTCCGAATATGGAATCCGAATTTCAAATTGATGATGACGATTGTTTGAGGTTCAGAA
1057832 GTCGGTTGTGTGTTCCAAGAAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATTGTAGC
456 GTCGGTTGTGTGTTCCAAGAAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATTGTAGC
*
1057897 CGAATGTCAATTCACCCGGGGAGTACGAAAATGTACAACGATTTGAAACGTCGATTTTGGTGGCA
521 CGAATGTCAATTCACCCGGGGAGTAAGAAAATGTACAACGATTTGAAACGTCGATTTTGGTGGCA
* *
1057962 TGGTATGAAATGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACAAGTGAAAGCGG
586 TGGTATGAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACAAGTGAAAGCAG
*
1058027 AACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACCTGACTGGAAATGGGATCGAGTC
651 AACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACCCGACTGGAAATGGGATCGAGTC
1058092 ACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAG
716 ACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAG
* * * *
1058134 AAATTATCCAACTCATGATCTCGAGCTAGCCGCCATCGTATTTGCTTTGAAAATATGGCGACATT
1 AAATTATCCAACCCATGATCTCGAACTAGCCGCCATCGTATTCGCTTTAAAAATATGGCGACATT
* *
1058199 ATTTGTTTGGTGAAAAGTGCCATGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAA
66 ACTTATTTGGTGAAAAGTGCCATGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAA
1058264 AGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGA
131 AGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGA
* * * *
1058329 TTACCACCCGGGAAAGGCTAATGTGGTTGCGGATGCCTTAAGCCGGAAATCGCTGTTTGTTTTAC
196 TTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCAGAAATCACTGTTTGCTTTAC
* *
1058394 GAGCGATGAATGTGCGCTTGTCTGTTCTACCCGACAATGTGTTAGTAGCTGAATTAAAGGCCAAA
261 GAGCGATGAATGTGCACTTGTCTGTTCTACCCAACAATGTGTTAGTAGCTGAATTAAAGGCCAAA
*
1058459 CCATCATTGATTCGTCAAATTCGTGAAGCTCATAAAGTCGACGATGAATTGGTTGCAAAACGGGC
326 CCATCATTGATTCGTCAAATTCGTGAAGCTCAGAAAGTCGACGATGAATTGGTTGCAAAACGGGC
1058524 TGAATGTATTCCGAATATGGAATCCGAATTTCAAATTGATGATGACGATTGTTTGAGGTTCAGAA
391 TGAATGTATTCCGAATATGGAATCCGAATTTCAAATTGATGATGACGATTGTTTGAGGTTCAGAA
*
1058589 GTCGGTTGTGTGTTCCAAGAAATTCAGAACTCATTTCGATGATTCTGAACGAAGCTCATTGTAGC
456 GTCGGTTGTGTGTTCCAAGAAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATTGTAGC
*
1058654 CGAATGTCAATTCACCCGGGGAGTAAGAAAATGTACAACGATTTGAAACGTCGGTTTTGGTGGCA
521 CGAATGTCAATTCACCCGGGGAGTAAGAAAATGTACAACGATTTGAAACGTCGATTTTGGTGGCA
*
1058719 TGGTATGAAACGGGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACAAGTGAAAGCAG
586 TGGTATGAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACAAGTGAAAGCAG
*
1058784 AACATCAAGTGCCTTCAGGATTACTTCAGCCGA-CAATGATACCCGAGTGGAAATGGGATCGAGT
651 AACATCAAGTGCCTTCAGGATTACTTCAGCCGATC-ATGATACCCGACTGGAAATGGGATCGAGT
1058848 CACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAG
715 CACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAG
1058891 AA
1 AA
1058893 GGATGCGATT
Statistics
Matches: 730, Mismatches: 28, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
756 1 0.00
757 729 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (757 bp):
AAATTATCCAACCCATGATCTCGAACTAGCCGCCATCGTATTCGCTTTAAAAATATGGCGACATT
ACTTATTTGGTGAAAAGTGCCATGTATTTTCGGATCACAAAAGTCTCAAATATTTGATGACTCAA
AGAGACTTAAATCTGCGACAAAGACGTTGGCTTGAGTTGTTGAAAGATTACGAGCTTGTCATTGA
TTACCACCCGGGAAAGGCTAATGTGGTTGCGGACGCCTTAAGCCAGAAATCACTGTTTGCTTTAC
GAGCGATGAATGTGCACTTGTCTGTTCTACCCAACAATGTGTTAGTAGCTGAATTAAAGGCCAAA
CCATCATTGATTCGTCAAATTCGTGAAGCTCAGAAAGTCGACGATGAATTGGTTGCAAAACGGGC
TGAATGTATTCCGAATATGGAATCCGAATTTCAAATTGATGATGACGATTGTTTGAGGTTCAGAA
GTCGGTTGTGTGTTCCAAGAAATTCAGAACTCATTTCGATGATTCTGAACGAAGCCCATTGTAGC
CGAATGTCAATTCACCCGGGGAGTAAGAAAATGTACAACGATTTGAAACGTCGATTTTGGTGGCA
TGGTATGAAACGAGACATCTCCGACTTTGTTTCGAGATGTTTAATATGTCAACAAGTGAAAGCAG
AACATCAAGTGCCTTCAGGATTACTTCAGCCGATCATGATACCCGACTGGAAATGGGATCGAGTC
ACAATGGACTTTGTGTCCGGACTGCCATTGTCAGCAAGTAAG
Found at i:1061668 original size:79 final size:81
Alignment explanation
Indices: 1061532--1061716 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
1061522 TTGAATGATG
*
1061532 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
1061596 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
1061611 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
1061673 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
1061691 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
1061717 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:1061730 original size:40 final size:40
Alignment explanation
Indices: 1061533--1061716 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
1061523 TGAATGATGT
* * * *
1061533 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
1061573 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
1061613 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1061651 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
1061692 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
1061717 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:1061738 original size:79 final size:79
Alignment explanation
Indices: 1061585--1061749 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
1061575 GGACTAAGAT
* **
1061585 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
1061650 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
1061664 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
1061727 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
1061743 CCGAAGG
1 CCGAAGG
1061750 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:1064213 original size:46 final size:46
Alignment explanation
Indices: 1064112--1064199 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
1064102 TGTAACCCGC
* * * *
1064112 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
1064158 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
1064200 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:1067233 original size:26 final size:25
Alignment explanation
Indices: 1067204--1067357 Score: 166
Period size: 26 Copynumber: 5.9 Consensus size: 25
1067194 ATGTTACTGA
* *
1067204 TTAGCAGGTTTTGAGCTAGTGATTAG
1 TTAGCAGGCTTTGAGC-CGTGATTAG
* *
1067230 TTAGCAGGCTTTGAGCTTGTGACT-G
1 TTAGCAGGCTTTGAGC-CGTGATTAG
1067255 ATTAGCAGGCTTTGAGCCGGTGATTAG
1 -TTAGCAGGCTTTGAGCC-GTGATTAG
*
1067282 TTAGTAGGCTTTGAGCCGATGATTAG
1 TTAGCAGGCTTTGAGCCG-TGATTAG
*
1067308 TTAGTAGGCTTTGAGCCGATGATTAG
1 TTAGCAGGCTTTGAGCCG-TGATTAG
* *
1067334 TTAGTAGGCTTTGAGTCGGTGATT
1 TTAGCAGGCTTTGAG-CCGTGATT
1067358 TATATAACAT
Statistics
Matches: 116, Mismatches: 7, Indels: 10
0.87 0.05 0.08
Matches are distributed among these distances:
25 2 0.02
26 111 0.96
27 3 0.03
ACGTcount: A:0.21, C:0.12, G:0.32, T:0.36
Consensus pattern (25 bp):
TTAGCAGGCTTTGAGCCGTGATTAG
Found at i:1067278 original size:52 final size:52
Alignment explanation
Indices: 1067199--1067348 Score: 196
Period size: 52 Copynumber: 2.9 Consensus size: 52
1067189 TGAGTATGTT
* ** * *
1067199 ACTGATTAGCAGGTTTTGAGCTAGTGATTAGTTAGCAGGCTTTGAGCTTG-TG
1 ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTGAGC-CGATG
1067251 ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTGAGCCGATG
1 ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTGAGCCGATG
* * *
1067303 A-TTAGTTAGTAGGCTTTGAGCCGATGATTAGTTAGTAGGCTTTGAG
1 ACTGA-TTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTGAG
1067349 TCGGTGATTT
Statistics
Matches: 88, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.03
52 85 0.97
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (52 bp):
ACTGATTAGCAGGCTTTGAGCCGGTGATTAGTTAGTAGGCTTTGAGCCGATG
Found at i:1079599 original size:45 final size:45
Alignment explanation
Indices: 1079533--1079699 Score: 209
Period size: 45 Copynumber: 3.8 Consensus size: 45
1079523 GACACTATTT
1079533 GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACCATTC
1 GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACCATTC
* * *
1079578 GGGCCTTTGAGCCTAGTAGGCTACAATGCCGGTGAGATACTATTC
1 GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACCATTC
**
1079623 GGG-CTTTCGAGCCTAGCAGGCTATAATGCCGGTGA-A-AGGATATC
1 GGGCCTTT-GAGCCTAGCAGGCTATAATGCCGGTGAGATACCAT-TC
* * *
1079667 GGGCC-TCGAGTCTAGCAGGCGA-AATGCCGGTGA
1 GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGA
1079700 ATGAATTCGG
Statistics
Matches: 109, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
42 11 0.10
43 16 0.15
44 11 0.10
45 71 0.65
ACGTcount: A:0.23, C:0.23, G:0.32, T:0.23
Consensus pattern (45 bp):
GGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGAGATACCATTC
Found at i:1093011 original size:30 final size:30
Alignment explanation
Indices: 1092976--1093035 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
1092966 GGTGCAGGGG
*
1092976 ACACACGGCCTA-ACCACATGTCCGTGTGTC
1 ACACACGGCCTAGA-CACATGCCCGTGTGTC
*
1093006 ACACACGGTCTAGACACATGCCCGTGTGTC
1 ACACACGGCCTAGACACATGCCCGTGTGTC
1093036 TGCCCATGCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.35, G:0.22, T:0.20
Consensus pattern (30 bp):
ACACACGGCCTAGACACATGCCCGTGTGTC
Found at i:1095623 original size:29 final size:29
Alignment explanation
Indices: 1095560--1095627 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
1095550 TAATCAACCG
1095560 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
1095589 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
1095618 CGCACACTTA
1 CGCACACTTA
1095628 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:1095739 original size:174 final size:174
Alignment explanation
Indices: 1095449--1095776 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
1095439 AACTCAAGGT
*
1095449 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1095514 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
1095579 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
1095623 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
1095688 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
*
1095753 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
1095777 TGTACAATTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:1095768 original size:29 final size:30
Alignment explanation
Indices: 1095729--1095807 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
1095719 CTTAATAATC
1095729 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
1095759 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
1095788 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
1095808 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:1102087 original size:22 final size:23
Alignment explanation
Indices: 1102071--1102115 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
1102061 AATTCATGCC
1102071 ACAAAATATACCAATTCATCATCA
1 ACAAAATATACCAATTCATCA-CA
*
1102095 ACAAAATGTACCAATTCATCA
1 ACAAAATATACCAATTCATCA
1102116 ACCTTATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.02, T:0.24
Consensus pattern (23 bp):
ACAAAATATACCAATTCATCACA
Done.