Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007847.1 Hibiscus syriacus cultivar Beakdansim tig00110204_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1444154
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:518597 original size:59 final size:59
Alignment explanation
Indices: 518505--518642 Score: 165
Period size: 59 Copynumber: 2.3 Consensus size: 59
518495 GTGTATATGT
* * * *
518505 ATAGTTTGGGATGAAAATGGAATGTTCAAAAAGTATGGGGGC-AATTTAGAATGA-AGTTC
1 ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGT-TGAGGACTAATTTAGAATGATAG-TC
*
518564 ATAGTTTGGGGATGAAATTGAAATTTTC-AAAAGTTGAGGACTAATTTAGAATGATAGTC
1 ATAGTTT-GGGATGAAATTGAAATGTTCAAAAAGTTGAGGACTAATTTAGAATGATAGTC
*
518623 ATAATTTAGGGATGAAATTG
1 ATAGTTT-GGGATGAAATTG
518643 GAATATTTAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
58 5 0.07
59 45 0.65
60 19 0.28
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (59 bp):
ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGTTGAGGACTAATTTAGAATGATAGTC
Found at i:519476 original size:20 final size:22
Alignment explanation
Indices: 519443--519487 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
519433 ATTGAGTTGT
*
519443 TAAAAAATATTAATGTTTTAAG
1 TAAAAAATATTAATATTTTAAG
519465 TAAAAAA-A-TAATATTTTAAG
1 TAAAAAATATTAATATTTTAAG
519485 TAA
1 TAA
519488 TTTTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 1 0.05
22 7 0.32
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.38
Consensus pattern (22 bp):
TAAAAAATATTAATATTTTAAG
Found at i:522374 original size:27 final size:27
Alignment explanation
Indices: 522344--522397 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
522334 TCGAACCATC
522344 GCAAACCTCACCT-TCGACAAGATGGAT
1 GCAAACCTCA-CTGTCGACAAGATGGAT
522371 GCAAACCTCACTGTCGACAAGATGGAT
1 GCAAACCTCACTGTCGACAAGATGGAT
522398 ATCACGTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 2 0.08
27 24 0.92
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (27 bp):
GCAAACCTCACTGTCGACAAGATGGAT
Found at i:533549 original size:25 final size:24
Alignment explanation
Indices: 533520--533596 Score: 66
Period size: 25 Copynumber: 3.1 Consensus size: 24
533510 ACAGTTTATT
533520 AATTAAATTTTATAATTATAATTAA
1 AATTAAA-TTTATAATTATAATTAA
* * *
533545 AATTAAATATTGTAATATAAAAGTAA
1 AATTAAAT-TTATAAT-TATAATTAA
* *
533571 AATTTTAA-TTATAATTATAATGAA
1 AA-TTAAATTTATAATTATAATTAA
533595 AA
1 AA
533597 AATTAGCTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
24 9 0.22
25 19 0.46
26 9 0.22
27 4 0.10
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
AATTAAATTTATAATTATAATTAA
Found at i:533565 original size:20 final size:19
Alignment explanation
Indices: 533533--533584 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
533523 TAAATTTTAT
* *
533533 AATTATAAT-TAAAATTAA
1 AATTGTAATATAAAAGTAA
533551 ATATTGTAATATAAAAGTAA
1 A-ATTGTAATATAAAAGTAA
*
533571 AATTTTAATTATAA
1 AATTGTAA-TATAA
533585 TTATAATGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 14 0.50
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (19 bp):
AATTGTAATATAAAAGTAA
Found at i:534854 original size:15 final size:16
Alignment explanation
Indices: 534834--534864 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
534824 CAATACATAA
534834 ATATTTAAAAA-TATT
1 ATATTTAAAAACTATT
534849 ATATTTAAAAACTATT
1 ATATTTAAAAACTATT
534865 GTGAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTTAAAAACTATT
Found at i:538310 original size:21 final size:21
Alignment explanation
Indices: 538284--538331 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
538274 AATCGAATTT
538284 ATAAAATT-ACAAGTCGAGTTAA
1 ATAAAATTGAC-A-TCGAGTTAA
538306 A-AAAATTGACATCGAGTTAA
1 ATAAAATTGACATCGAGTTAA
538326 ATAAAA
1 ATAAAA
538332 AAATTAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.42
21 11 0.46
22 3 0.12
ACGTcount: A:0.54, C:0.08, G:0.12, T:0.25
Consensus pattern (21 bp):
ATAAAATTGACATCGAGTTAA
Found at i:548610 original size:134 final size:135
Alignment explanation
Indices: 548444--548687 Score: 357
Period size: 134 Copynumber: 1.8 Consensus size: 135
548434 ACTCAAATAT
* * *
548444 TAAGAATCCTTTTTTTCATGTAATACTCAAATTTC-TTTAGGTTCAATAGATTTCTCTCATTCAA
1 TAAGAATCCTTTTTTTCATGTAATACTAAAATTTCTTTTAGGTTCAATA-AATTCTCTAATTCAA
* *
548508 CCAATAATGAGAATAAATATATTCACTGTAAATGAACTGAAAACTTGCACCTCTGCCATCCAAAT
65 CCAATAATGAGAATAAATAGATTCACAGTAAATGAACTGAAAACTTGCACCTCTGCCATCCAAAT
548573 AAAAAA
130 AAAAAA
* * * *
548579 TAAGAGTCC-TTTTTTCATGTGATTCTAAAATTTCTTTTAGGTTCAATAAATTCTCTAATTCAGC
1 TAAGAATCCTTTTTTTCATGTAATACTAAAATTTCTTTTAGGTTCAATAAATTCTCTAATTCAAC
* * *
548643 CGATCATGAGAATAACTAGATTCACAGTAAATGAACTGAAAACTT
66 CAATAATGAGAATAAATAGATTCACAGTAAATGAACTGAAAACTT
548688 ACATGTGCTG
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
134 75 0.78
135 21 0.22
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (135 bp):
TAAGAATCCTTTTTTTCATGTAATACTAAAATTTCTTTTAGGTTCAATAAATTCTCTAATTCAAC
CAATAATGAGAATAAATAGATTCACAGTAAATGAACTGAAAACTTGCACCTCTGCCATCCAAATA
AAAAA
Found at i:554266 original size:33 final size:34
Alignment explanation
Indices: 554191--554257 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
554181 CTAATAAACA
*
554191 AAATTAAACAAAATAAATTAACAAAAAGTCCAAC
1 AAATTTAACAAAATAAATTAACAAAAAGTCCAAC
554225 AAATTTAACAAAATAAATTAA-AATAAA-TCCAAC
1 AAATTTAACAAAATAAATTAACAA-AAAGTCCAAC
554258 CATATTAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 8 0.26
34 23 0.74
ACGTcount: A:0.64, C:0.13, G:0.01, T:0.21
Consensus pattern (34 bp):
AAATTTAACAAAATAAATTAACAAAAAGTCCAAC
Found at i:554314 original size:13 final size:13
Alignment explanation
Indices: 554296--554339 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
554286 ATGATAAATA
554296 AAAAAAATACAAT
1 AAAAAAATACAAT
* *
554309 AAAAAAGTTCAAT
1 AAAAAAATACAAT
* *
554322 AAACAACTACAAT
1 AAAAAAATACAAT
554335 AAAAA
1 AAAAA
554340 GTACTAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAAAATACAAT
Found at i:554364 original size:26 final size:26
Alignment explanation
Indices: 554300--554365 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
554290 TAAATAAAAA
*
554300 AAATACAATAAAAAAGTTCAATAAAC
1 AAATACAATAAAAAAGTACAATAAAC
* *
554326 AACTACAAT-AAAAAGTACTAA-ATAC
1 AAATACAATAAAAAAGTAC-AATAAAC
*
554351 AAATATAATAAAAAA
1 AAATACAATAAAAAA
554366 AACAAAATCT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
25 18 0.55
26 15 0.45
ACGTcount: A:0.67, C:0.11, G:0.03, T:0.20
Consensus pattern (26 bp):
AAATACAATAAAAAAGTACAATAAAC
Found at i:556591 original size:9 final size:9
Alignment explanation
Indices: 556577--556610 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
556567 TAAGTAAAAT
556577 ATTAAATAA
1 ATTAAATAA
556586 ATTAAAT-A
1 ATTAAATAA
*
556594 CTTAAATAA
1 ATTAAATAA
556603 ATTAAATA
1 ATTAAATA
556611 CAAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
ATTAAATAA
Found at i:556609 original size:17 final size:17
Alignment explanation
Indices: 556573--556611 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
556563 TAATTAAGTA
556573 AAATA-TTAAATAAATT
1 AAATACTTAAATAAATT
556589 AAATACTTAAATAAATT
1 AAATACTTAAATAAATT
556606 AAATAC
1 AAATAC
556612 AAAATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATACTTAAATAAATT
Found at i:559648 original size:75 final size:75
Alignment explanation
Indices: 559554--559698 Score: 193
Period size: 75 Copynumber: 1.9 Consensus size: 75
559544 ATATATACGA
* ** * * *
559554 GATATGATCATATTATACAA-GATAAAACTCTTTTAATTATACGTATATTTAGAATTGTTGGATA
1 GATAAGATCATATTATACAATG-TAAAACTCTTTTAATTATACACATATTTAGAACTATTAGATA
559618 AGTGAATATAT
65 AGTGAATATAT
* * *
559629 GATAAGATCCTATTATACAATGTAAAACTCTTTTAGTTTTACACATATTTAGAACTATTAGATAA
1 GATAAGATCATATTATACAATGTAAAACTCTTTTAATTATACACATATTTAGAACTATTAGATAA
559694 GTGAA
66 GTGAA
559699 AACAGACGGT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
75 59 0.98
76 1 0.02
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (75 bp):
GATAAGATCATATTATACAATGTAAAACTCTTTTAATTATACACATATTTAGAACTATTAGATAA
GTGAATATAT
Found at i:560998 original size:21 final size:21
Alignment explanation
Indices: 560972--561017 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
560962 AATAAATAAT
*
560972 AATATATTAATTT-TTTTTATA
1 AATATATT-ATTTATTTTTAAA
560993 AATATATTATTTATTTTTAAA
1 AATATATTATTTATTTTTAAA
561014 AATA
1 AATA
561018 GTTGCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.17
21 19 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATATTATTTATTTTTAAA
Found at i:561013 original size:19 final size:21
Alignment explanation
Indices: 560972--561013 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
560962 AATAAATAAT
*
560972 AATATATTAATTTTTTTTATA
1 AATATATTAATTTATTTTATA
560993 AATATATT-ATTTATTTT-TA
1 AATATATTAATTTATTTTATA
561012 AA
1 AA
561014 AATAGTTGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 8 0.40
21 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
AATATATTAATTTATTTTATA
Found at i:564167 original size:24 final size:24
Alignment explanation
Indices: 564135--564182 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
564125 CTTTAGGGCT
564135 GGTATAGTTGTTTGCATATGGATA
1 GGTATAGTTGTTTGCATATGGATA
564159 GGTATAGTTGTTTGCATATGGATA
1 GGTATAGTTGTTTGCATATGGATA
564183 TTTGTTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.04, G:0.29, T:0.42
Consensus pattern (24 bp):
GGTATAGTTGTTTGCATATGGATA
Found at i:569846 original size:69 final size:69
Alignment explanation
Indices: 569747--569885 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
569737 ACAGAACTAG
569747 TATTTTTCGTGTTTGCATTTCCAATATATATTTACTTGTGCCTTTTCATTGATAACCTGTATCCA
1 TATTTTTCGTGTTTGCATTTCCAATATATATTTACTTGTGCCTTTTCATTGATAACCTGTATCCA
569812 TAGT
66 TAGT
*
569816 TATTTTTCGTGTTTGCATTTCCAATATATATTTACTTGTTCCTTTTCATTGATAACCTGTATCCA
1 TATTTTTCGTGTTTGCATTTCCAATATATATTTACTTGTGCCTTTTCATTGATAACCTGTATCCA
569881 TAGT
66 TAGT
569885 T
1 T
569886 GGTTTGCAGT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.22, C:0.17, G:0.11, T:0.50
Consensus pattern (69 bp):
TATTTTTCGTGTTTGCATTTCCAATATATATTTACTTGTGCCTTTTCATTGATAACCTGTATCCA
TAGT
Found at i:571202 original size:81 final size:81
Alignment explanation
Indices: 571067--571232 Score: 296
Period size: 81 Copynumber: 2.0 Consensus size: 81
571057 CGATGATATT
* *
571067 AAATCTAATTCCAAGATAAATAAATGGTAGGAATAACAAAACGACCAAAGAAAATCCTAAAATAT
1 AAATCTAATTCCAAGATAAATAAATGGTAGGAACAACAAAACAACCAAAGAAAATCCTAAAATAT
571132 ATGCTAAAAAGTAGAA
66 ATGCTAAAAAGTAGAA
*
571148 AAATCTAATTCCAAGATAAATAAATGGTAGGAACAACAAAACAACCAAAGAAAATCCTAAAATGT
1 AAATCTAATTCCAAGATAAATAAATGGTAGGAACAACAAAACAACCAAAGAAAATCCTAAAATAT
*
571213 ATGCTAAAAGGTAGAA
66 ATGCTAAAAAGTAGAA
571229 AAAT
1 AAAT
571233 TGACATAAAA
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (81 bp):
AAATCTAATTCCAAGATAAATAAATGGTAGGAACAACAAAACAACCAAAGAAAATCCTAAAATAT
ATGCTAAAAAGTAGAA
Found at i:574887 original size:32 final size:30
Alignment explanation
Indices: 574850--574919 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
574840 GTTAATTTAA
574850 ATTTTTAATATCATATTTGTATTCGTTTATTT
1 ATTTTTAA-A-CATATTTGTATTCGTTTATTT
** *
574882 ATTTTTAAAGGTATTTGTGTTCGTTTATTT
1 ATTTTTAAACATATTTGTATTCGTTTATTT
*
574912 ATTGTTAA
1 ATTTTTAA
574920 CGAATATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 25 0.74
31 1 0.03
32 8 0.24
ACGTcount: A:0.24, C:0.04, G:0.11, T:0.60
Consensus pattern (30 bp):
ATTTTTAAACATATTTGTATTCGTTTATTT
Found at i:574899 original size:30 final size:30
Alignment explanation
Indices: 574863--574919 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
574853 TTTAATATCA
*
574863 TATTTGTATTCGTTTATTTATTTTTAAAGG
1 TATTTGTATTCGTTTATTTATTGTTAAAGG
*
574893 TATTTGTGTTCGTTTATTTATTGTTAA
1 TATTTGTATTCGTTTATTTATTGTTAA
574920 CGAATATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.04, G:0.14, T:0.61
Consensus pattern (30 bp):
TATTTGTATTCGTTTATTTATTGTTAAAGG
Found at i:575633 original size:38 final size:38
Alignment explanation
Indices: 575582--575658 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
575572 TAAGGTAAGC
*
575582 ACGGAAGAATACATAAGGTATCGTATATTAATAGATCA
1 ACGGAAGAATACATAAGGTATCGGATATTAATAGATCA
* * *
575620 ACGGAAGATTACATGATGTATCGGATATTAATAGATCA
1 ACGGAAGAATACATAAGGTATCGGATATTAATAGATCA
575658 A
1 A
575659 ATATCGATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.27
Consensus pattern (38 bp):
ACGGAAGAATACATAAGGTATCGGATATTAATAGATCA
Found at i:582498 original size:21 final size:19
Alignment explanation
Indices: 582445--582500 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 19
582435 TCATGTGTAT
582445 AATTTAAGATTTATATTTGA
1 AATTTAAGA-TTATATTTGA
582465 AGATTATAA-ATTAGTATTTAGA
1 A-ATT-TAAGATTA-TATTT-GA
582487 AATTTAAGATTATA
1 AATTTAAGATTATA
582501 AATGATCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
20 9 0.29
21 16 0.52
22 6 0.19
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (19 bp):
AATTTAAGATTATATTTGA
Found at i:582503 original size:14 final size:14
Alignment explanation
Indices: 582445--582503 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
582435 TCATGTGTAT
582445 AATTTAAGATT-TA
1 AATTTAAGATTATA
*
582458 TATTTGAAGATTATA
1 AATTT-AAGATTATA
*
582473 AA-TT-AGTATTTAGA
1 AATTTAAG-A-TTATA
582487 AATTTAAGATTATA
1 AATTTAAGATTATA
582501 AAT
1 AAT
582504 GATCTTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 11
0.71 0.08 0.22
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 21 0.58
15 6 0.17
16 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (14 bp):
AATTTAAGATTATA
Found at i:586830 original size:64 final size:61
Alignment explanation
Indices: 586760--586938 Score: 168
Period size: 64 Copynumber: 2.8 Consensus size: 61
586750 TTGGAACCTT
* *
586760 AGTGCATTGGTGCACTAAGAGTGCATTGATGCATCAAGTGCATTCGATGTT-TTA-AAATAGCC-
1 AGTGCATCGGTGCACT--G-GTGCATCGATGCATCAA-TGCATTCGATGTTCTTATAAA-AGCCT
586822 C
61 C
* *
586823 GAGTGCATCGATGCATGGCTGGTGCATCGATGCATCAAATGCATTCGATGTTCTTATAAAATCCT
1 -AGTGCATCGGTGCA---CTGGTGCATCGATGCATC-AATGCATTCGATGTTCTTATAAAAGCCT
586888 C
61 C
*
586889 AGTGCATCGGTGCA-TGGTGTGCATCGATGCATGGAATGCATTCGATGTTC
1 AGTGCATCGGTGCACT-G-GTGCATCGATGCAT-CAATGCATTCGATGTTC
586939 AATTTTATTC
Statistics
Matches: 99, Mismatches: 6, Indels: 21
0.79 0.05 0.17
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
63 30 0.30
64 39 0.39
65 22 0.22
66 4 0.04
67 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (61 bp):
AGTGCATCGGTGCACTGGTGCATCGATGCATCAATGCATTCGATGTTCTTATAAAAGCCTC
Found at i:586912 original size:17 final size:17
Alignment explanation
Indices: 586890--586922 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
586880 AAAATCCTCA
*
586890 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
586907 GTGCATCGATGCATGG
1 GTGCATCGATGCATGG
586923 AATGCATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:586927 original size:63 final size:64
Alignment explanation
Indices: 586780--586938 Score: 193
Period size: 63 Copynumber: 2.5 Consensus size: 64
586770 TGCACTAAGA
* *
586780 GTGCATTGATGCATCAAGTGCATTCGATGTT-TTAAAATAGCCCGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCAT-AAATGCATTCGATGTTCTTAAAATAGCCCGAGTGCATCGATGCATGGCTG
* *
586844 GTGCATCGATGCATCAAATGCATTCGATGTTCTTATAAA-ATCCTC-AGTGCATCGGTGCATGG-
1 GTGCATCGATGCAT-AAATGCATTCGATGTTCTTA-AAATAGCC-CGAGTGCATCGATGCATGGC
586906 T-
63 TG
*
586907 GTGCATCGATGCATGGAATGCATTCGATGTTC
1 GTGCATCGATGCAT-AAATGCATTCGATGTTC
586939 AATTTTATTC
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
63 30 0.35
64 30 0.35
65 22 0.26
66 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTCTTAAAATAGCCCGAGTGCATCGATGCATGGCTG
Found at i:586928 original size:17 final size:17
Alignment explanation
Indices: 586891--586935 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
586881 AAATCCTCAG
* **
586891 TGCATCGGTGCATGGTG
1 TGCATCGATGCATGGAA
586908 TGCATCGATGCATGGAA
1 TGCATCGATGCATGGAA
586925 TGCATTCGATG
1 TGCA-TCGATG
586936 TTCAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:587374 original size:19 final size:19
Alignment explanation
Indices: 587352--587389 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
587342 TTTAAAAAAC
587352 ATTTCAACACTTAACATTT
1 ATTTCAACACTTAACATTT
587371 ATTTCAACACTTAACATTT
1 ATTTCAACACTTAACATTT
587390 CTCCCCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (19 bp):
ATTTCAACACTTAACATTT
Found at i:588107 original size:21 final size:21
Alignment explanation
Indices: 588073--588116 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
588063 GAGCCGAAGG
* *
588073 AGGAGGAGCACGAGAGGAGCT
1 AGGAGCAGCACGAGAGGAACT
*
588094 AGGAGCAGCTCGAGAGGAACT
1 AGGAGCAGCACGAGAGGAACT
588115 AG
1 AG
588117 TTCCCGGAGT
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:0.34, C:0.16, G:0.43, T:0.07
Consensus pattern (21 bp):
AGGAGCAGCACGAGAGGAACT
Found at i:594856 original size:64 final size:62
Alignment explanation
Indices: 594788--594946 Score: 207
Period size: 63 Copynumber: 2.5 Consensus size: 62
594778 TGCACTAAGA
594788 GTGCATCGATGCATCAAGTGCATTCGATGTT-TTA-AAATAGCC-CGAGTGCATCGATGCATGGC
1 GTGCATCGATGCATCAA-TGCATTCGATGTTCTTATAAA-AGCCTC-AGTGCATCGATGCATGG-
594850 T
62 T
* *
594851 GGTGCATCGATGCATCAAATGCATTCGATGTTCTTATAAAATCCTCAGTGCATCGGTGCATGGT
1 -GTGCATCGATGCATC-AATGCATTCGATGTTCTTATAAAAGCCTCAGTGCATCGATGCATGGT
*
594915 GTGCATCGATGCATGGAATGCATTCGATGTTC
1 GTGCATCGATGCAT-CAATGCATTCGATGTTC
594947 AATTTAATTC
Statistics
Matches: 87, Mismatches: 3, Indels: 11
0.86 0.03 0.11
Matches are distributed among these distances:
63 30 0.34
64 29 0.33
65 24 0.28
66 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (62 bp):
GTGCATCGATGCATCAATGCATTCGATGTTCTTATAAAAGCCTCAGTGCATCGATGCATGGT
Found at i:594920 original size:17 final size:17
Alignment explanation
Indices: 594898--594930 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
594888 AAAATCCTCA
*
594898 GTGCATCGGTGCATGGT
1 GTGCATCGATGCATGGT
594915 GTGCATCGATGCATGG
1 GTGCATCGATGCATGG
594931 AATGCATTCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.18, G:0.39, T:0.27
Consensus pattern (17 bp):
GTGCATCGATGCATGGT
Found at i:594935 original size:63 final size:64
Alignment explanation
Indices: 594788--594946 Score: 202
Period size: 64 Copynumber: 2.5 Consensus size: 64
594778 TGCACTAAGA
*
594788 GTGCATCGATGCATCAAGTGCATTCGATGTT-TTAAAATAGCCCGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCAT-AAATGCATTCGATGTTCTTAAAATAGCCCGAGTGCATCGATGCATGGCTG
* *
594852 GTGCATCGATGCATCAAATGCATTCGATGTTCTTATAAA-ATCCTC-AGTGCATCGGTGCATGG-
1 GTGCATCGATGCAT-AAATGCATTCGATGTTCTTA-AAATAGCC-CGAGTGCATCGATGCATGGC
594914 T-
63 TG
*
594915 GTGCATCGATGCATGGAATGCATTCGATGTTC
1 GTGCATCGATGCAT-AAATGCATTCGATGTTC
594947 AATTTAATTC
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
63 30 0.34
64 31 0.36
65 22 0.25
66 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (64 bp):
GTGCATCGATGCATAAATGCATTCGATGTTCTTAAAATAGCCCGAGTGCATCGATGCATGGCTG
Found at i:594936 original size:17 final size:17
Alignment explanation
Indices: 594899--594943 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
594889 AAATCCTCAG
* **
594899 TGCATCGGTGCATGGTG
1 TGCATCGATGCATGGAA
594916 TGCATCGATGCATGGAA
1 TGCATCGATGCATGGAA
594933 TGCATTCGATG
1 TGCA-TCGATG
594944 TTCAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (17 bp):
TGCATCGATGCATGGAA
Found at i:595541 original size:16 final size:16
Alignment explanation
Indices: 595520--595569 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
595510 ATACTATCCG
595520 ATCCGAATTTTCGGAT
1 ATCCGAATTTTCGGAT
595536 ATCCGAATTTTCGGAT
1 ATCCGAATTTTCGGAT
* *
595552 ATCCAAAAATTTCGGAT
1 ATCC-GAATTTTCGGAT
595569 A
1 A
595570 CCTAAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (16 bp):
ATCCGAATTTTCGGAT
Found at i:602988 original size:31 final size:31
Alignment explanation
Indices: 602911--602993 Score: 80
Period size: 30 Copynumber: 2.7 Consensus size: 31
602901 TCTAAATTTT
*
602911 AGATAAAATATTAATTTGACTCCCAAACTTC
1 AGATAAAATATTAATTTGACTCCCAAACTTA
* * ***
602942 ATAT-AAATATCAATTTGAC-CTTTAACTTTA
1 AGATAAAATATTAATTTGACTCCCAAAC-TTA
*
602972 AGATAAAATATTAATTTAACTC
1 AGATAAAATATTAATTTGACTC
602994 ATGAGTCCGA
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
29 4 0.10
30 19 0.47
31 16 0.40
32 1 0.03
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.37
Consensus pattern (31 bp):
AGATAAAATATTAATTTGACTCCCAAACTTA
Found at i:605190 original size:43 final size:40
Alignment explanation
Indices: 605139--605269 Score: 217
Period size: 41 Copynumber: 3.2 Consensus size: 40
605129 CATTTCGCAA
605139 CGATAGTCTACAATGTCGTTGCGATTTTCCAAATTTCGCGTTG
1 CGATAGTCTACAATGTCGTTGCGATTTTCCAAA-TT--CGTTG
605182 CGATAGTCTACAATGTCGTTGCGATTTTCCAAATTCGTTG
1 CGATAGTCTACAATGTCGTTGCGATTTTCCAAATTCGTTG
*
605222 CGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATTCGTTG
1 CGATAGTCTACA-ATGTCGTTGCGATTTTCCAAATTCGTTG
605263 CGATAGT
1 CGATAGT
605270 TTAAAAAAAG
Statistics
Matches: 86, Mismatches: 1, Indels: 4
0.95 0.01 0.04
Matches are distributed among these distances:
40 17 0.20
41 34 0.40
42 2 0.02
43 33 0.38
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (40 bp):
CGATAGTCTACAATGTCGTTGCGATTTTCCAAATTCGTTG
Found at i:606015 original size:42 final size:41
Alignment explanation
Indices: 605963--606047 Score: 118
Period size: 41 Copynumber: 2.0 Consensus size: 41
605953 ACAACGAATT
605963 TGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAA
1 TGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAA
* * *
606005 TGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAA
1 TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
606046 TG
1 TG
606048 CAACGCGAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
41 23 0.59
42 16 0.41
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
TGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAA
Found at i:606051 original size:21 final size:21
Alignment explanation
Indices: 605988--606051 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
605978 ACAACTGTAG
*
605988 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
606009 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
606029 ACTATCGCAACGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
606050 AC
1 AC
606052 GCGAATTTGC
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.17
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:608309 original size:26 final size:26
Alignment explanation
Indices: 608262--608311 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
608252 ATGTATTTTT
*
608262 TATTTAATAATAAATATTTAATTTAA
1 TATTTAATAATAAATATATAATTTAA
608288 TATTTAATAATAAAT-TGATAATTT
1 TATTTAATAATAAATAT-ATAATTT
608312 TTAACAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
TATTTAATAATAAATATATAATTTAA
Found at i:617220 original size:17 final size:17
Alignment explanation
Indices: 617198--617231 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
617188 TTTGTTCGTC
*
617198 AACTATTTATATTATTA
1 AACTATTGATATTATTA
*
617215 AACTATTGATTTTATTA
1 AACTATTGATATTATTA
617232 GTTATAACAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (17 bp):
AACTATTGATATTATTA
Found at i:622279 original size:105 final size:105
Alignment explanation
Indices: 622070--622271 Score: 269
Period size: 105 Copynumber: 1.9 Consensus size: 105
622060 GACCACATAT
* * *
622070 AAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAAAAGACCTCATACAT
1 AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAAAGACCTCATACAT
622135 GCTCCAAAGAATACATATACGTCCCGAAGGACAACGTAGA
66 GCTCCAAAGAATACATATACGTCCCGAAGGACAACGTAGA
* *** * * *
622175 AAATTCCTTAAGAATCATATACATATGTTAAGGACCAAATATGTGTCGCAAATGACCTCATAGAT
1 AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAAAGACCTCATACAT
* * * * *
622240 GTTCCATAGGATACCTATATGTCCCGAAGGAC
66 GCTCCAAAGAATACATATACGTCCCGAAGGAC
622272 CGCGTAGACC
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
105 82 1.00
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.24
Consensus pattern (105 bp):
AAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCGCAAAAGACCTCATACAT
GCTCCAAAGAATACATATACGTCCCGAAGGACAACGTAGA
Found at i:634064 original size:70 final size:71
Alignment explanation
Indices: 633904--634081 Score: 220
Period size: 70 Copynumber: 2.5 Consensus size: 71
633894 TAAAGGCACG
* * * *
633904 CCACAAACTGAAAAAGAACCACGATGTTCGGTTCA-AACAGACAATATTCGGACAAGGAAGCCGA
1 CCACAAACTGAAAAAAAACC-CGATGTTCGGTTCAGAACAAACAACATTCGGACAAGGAAACCGA
633968 AGACACA
65 AGACACA
* *
633975 CCACAAACTGAAAACAAAACCCGATGTACGGTTCAGAACAAACAACAGTT-GGACAAGGAAATC-
1 CCACAAACTGAAAA-AAAACCCGATGTTCGGTTCAGAACAAACAACA-TTCGGACAAGGAAACCG
*
634038 AA-AGACA
64 AAGACACA
*
634045 CCACAAACTGAAAATAAAACCCGATATTCGGTTCAGA
1 CCACAAACTGAAAA-AAAACCCGATGTTCGGTTCAGA
634082 CAGTCGACAT
Statistics
Matches: 94, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
70 38 0.40
71 29 0.31
72 25 0.27
73 2 0.02
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.13
Consensus pattern (71 bp):
CCACAAACTGAAAAAAAACCCGATGTTCGGTTCAGAACAAACAACATTCGGACAAGGAAACCGAA
GACACA
Found at i:648263 original size:28 final size:31
Alignment explanation
Indices: 648191--648264 Score: 121
Period size: 32 Copynumber: 2.3 Consensus size: 31
648181 ATCTAACAAG
*
648191 GAGAAAACACACAATTCTCTCTTGATAAAAA
1 GAGAAAACAAACAATTCTCTCTTGATAAAAA
648222 GGAGAAAACAAACAATTCTCTCTTGATAAAAA
1 -GAGAAAACAAACAATTCTCTCTTGATAAAAA
648254 GAAGAAAACAA
1 G-AGAAAACAA
648265 CTCTCAAGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 1 0.03
32 39 0.98
ACGTcount: A:0.53, C:0.16, G:0.12, T:0.19
Consensus pattern (31 bp):
GAGAAAACAAACAATTCTCTCTTGATAAAAA
Found at i:656457 original size:2 final size:2
Alignment explanation
Indices: 656450--656521 Score: 110
Period size: 2 Copynumber: 36.0 Consensus size: 2
656440 ATATGTCATA
656450 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
656491 AT AT AT AT AT AT AT AT AA AT AC AT AT CAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
656522 CACTAACATA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.02
2 61 0.95
3 2 0.03
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:656615 original size:21 final size:19
Alignment explanation
Indices: 656591--656630 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
656581 AAACAAGTTC
*
656591 ATGAATTGATACAATATAAAT
1 ATGAAATGA-ACAA-ATAAAT
656612 ATGAAATGAACAAATAAAT
1 ATGAAATGAACAAATAAAT
656631 TAGTATATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 4 0.22
21 8 0.44
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (19 bp):
ATGAAATGAACAAATAAAT
Found at i:657926 original size:30 final size:30
Alignment explanation
Indices: 657892--657958 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
657882 CGAGAATACG
* *
657892 GCTTCTTATGTCTCCCATGCTTTTCATGCC
1 GCTTCTCATGTCTACCATGCTTTTCATGCC
* *
657922 GCTTCTCATGTCTATCATGCTTTTCATGTC
1 GCTTCTCATGTCTACCATGCTTTTCATGCC
657952 GCTTCTC
1 GCTTCTC
657959 CTCACACCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.10, C:0.31, G:0.13, T:0.45
Consensus pattern (30 bp):
GCTTCTCATGTCTACCATGCTTTTCATGCC
Found at i:665135 original size:16 final size:16
Alignment explanation
Indices: 665114--665146 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
665104 AAGTTCGAGC
*
665114 GTTTTCTGGTTACAAT
1 GTTTTCTAGTTACAAT
665130 GTTTTCTAGTTACAAT
1 GTTTTCTAGTTACAAT
665146 G
1 G
665147 CCATGGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.12, G:0.18, T:0.48
Consensus pattern (16 bp):
GTTTTCTAGTTACAAT
Found at i:667224 original size:31 final size:31
Alignment explanation
Indices: 667189--667259 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
667179 CTAAGACGAC
* *
667189 TCTTGGGTAAGCTATGTGGCCCCGAGATCTT
1 TCTTGGGTAAGCCATGCGGCCCCGAGATCTT
* * *
667220 TCTTGGTTAGGCCCTGCGGCCCCGAGATCTT
1 TCTTGGGTAAGCCATGCGGCCCCGAGATCTT
667251 TCTTGGGTA
1 TCTTGGGTA
667260 GGCTTTCAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.13, C:0.25, G:0.30, T:0.32
Consensus pattern (31 bp):
TCTTGGGTAAGCCATGCGGCCCCGAGATCTT
Found at i:669342 original size:30 final size:30
Alignment explanation
Indices: 669308--669405 Score: 106
Period size: 30 Copynumber: 3.3 Consensus size: 30
669298 TTGATCGTTA
* *
669308 ACTTTGACTGAGTCAAACCATTAACCTTTG
1 ACTTTGACTGAGTCAAACCGTTGACCTTTG
* * **
669338 ACTTTGATTGAGTCAACCCGTTGACAATTG
1 ACTTTGACTGAGTCAAACCGTTGACCTTTG
* * * *
669368 ACTTTGACCGAGTCTATCGGTTGACCTTTG
1 ACTTTGACTGAGTCAAACCGTTGACCTTTG
669398 ACTTTGAC
1 ACTTTGAC
669406 CGAAAAAGTC
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 55 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (30 bp):
ACTTTGACTGAGTCAAACCGTTGACCTTTG
Found at i:671572 original size:162 final size:162
Alignment explanation
Indices: 671305--671605 Score: 602
Period size: 162 Copynumber: 1.9 Consensus size: 162
671295 CCCACCAGCG
671305 TTACTTGCGTAGTACGGTGCATGTGATTAGGGGACATGTAACTTTTATTTTATTTTTATAACCGA
1 TTACTTGCGTAGTACGGTGCATGTGATTAGGGGACATGTAACTTTTATTTTATTTTTATAACCGA
671370 GTCTGGAATTTGTTTTATTTTTTAACATTGTTAAATTTTAATGTTGTGTTTATAAATTGTTTTAT
66 GTCTGGAATTTGTTTTATTTTTTAACATTGTTAAATTTTAATGTTGTGTTTATAAATTGTTTTAT
671435 GATTTTACATGTTTTAACAAAAATTATAAATT
131 GATTTTACATGTTTTAACAAAAATTATAAATT
671467 TTACTTGCGTAGTACGGTGCATGTGATTAGGGGACATGTAACTTTTATTTTATTTTTATAACCGA
1 TTACTTGCGTAGTACGGTGCATGTGATTAGGGGACATGTAACTTTTATTTTATTTTTATAACCGA
671532 GTCTGGAATTTGTTTTATTTTTTAACATTGTTAAATTTTAATGTTGTGTTTATAAATTGTTTTAT
66 GTCTGGAATTTGTTTTATTTTTTAACATTGTTAAATTTTAATGTTGTGTTTATAAATTGTTTTAT
671597 GATTTTACA
131 GATTTTACA
671606 ACGGGGGTTC
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
162 139 1.00
ACGTcount: A:0.27, C:0.08, G:0.16, T:0.49
Consensus pattern (162 bp):
TTACTTGCGTAGTACGGTGCATGTGATTAGGGGACATGTAACTTTTATTTTATTTTTATAACCGA
GTCTGGAATTTGTTTTATTTTTTAACATTGTTAAATTTTAATGTTGTGTTTATAAATTGTTTTAT
GATTTTACATGTTTTAACAAAAATTATAAATT
Found at i:671782 original size:12 final size:12
Alignment explanation
Indices: 671767--671809 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
671757 GTTATTTAAA
671767 CGGGTATTGGGC
1 CGGGTATTGGGC
*
671779 CGGGTATTGGGT
1 CGGGTATTGGGC
* *
671791 CGGGAATCGGGC
1 CGGGTATTGGGC
671803 CGGGTAT
1 CGGGTAT
671810 ATATATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.12, C:0.16, G:0.49, T:0.23
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:677287 original size:525 final size:527
Alignment explanation
Indices: 676558--677611 Score: 1772
Period size: 525 Copynumber: 2.0 Consensus size: 527
676548 AATCACAACT
*
676558 AATTTTTTTTATAGAAGTTGGAGGTCTCATTAAAAACTCCCTTCATATTCGTTCACATACTAAAT
1 AATTTTTTTTATAGAAGTTGGAGGTCTCATTAAAAACTCCCTTCATATTCGTTCACATACTAAAA
*
676623 GTATGTTAACGAACATTGGAAGGAAGAAAAGAGTACCTCAAATTTTATTGATAAAATACCCGATA
66 GTATGTTAACGAACATTGGAAGGAAGAAAAGAGTACCTCAAATTTTATTAATAAAATACCCGATA
* *
676688 CAAAAGACACCACAGAATATCCTCTCATGGTGATGTACACCATTACAACATACACCTTAACCTCA
131 CAAAAGACACCACAGAATATCCTCTCATGGTGATGTACACCATTACAACAAAAACCTTAACCTCA
* * *
676753 TATAACCTCATCCAAAGCCACAGTCTAATCACCTTAC-ATCTAATTACACCACCAACAGTAGGAA
196 TAAAACCTCATCCAAAGCCACAGTCAAATCACCTTACTA-CTAATTACACCACCAACAGTAAGAA
* * *
676817 TAAAACAACGCAACATAACATAATACAAATTAAAAGCAGCACCTACAACCATATAGACT-AAA-A
260 TAAAACAACGCAACAGAACATAATACAAAATAAAAGCAACACCTACAACCATATAGACTAAAATA
* * * *
676880 CAACCACAATTGAAGAGACAAGATCTAATGGGACTCGTCTTCTTCAGGAGCCCAAGAGTTTGGTT
325 AAACCACAAATGAAGAGACAAGATCTAATGAGACTCGTATTCTTCAGGAGCCCAAGAGTTTGGTT
* *
676945 TGAATGAAGGCTCTATCTCATGCACCATGACCTTGAAGAAGTTGTCACCAACCTTCAATTCCACC
390 TGAATGAAGGCTCTATCTCATGCACCATGACCTTGAAGAAATTGTCACCAACCTTCAATTCAACC
* * *
677010 ATTGCATCAATTCTCGCATCAACCTTTGTGAGGACTTGAATTTTTGCCCGATCAAAGGATGATGG
455 ATCGAATCAATTCTCGCATCAACCTTTGTGAGGACTTGAATTTTAGCCCGATCAAAGGATGATGG
677075 AGACTGAC
520 AGACTGAC
*
677083 AATTTTTTTTATAGAAGTTGGAGGTCTCATTAAAAACTCCCTTCGTATTCGTTCACATACTAAAA
1 AATTTTTTTTATAGAAGTTGGAGGTCTCATTAAAAACTCCCTTCATATTCGTTCACATACTAAAA
* *
677148 GTATGTTAACGAACATTGGAAGGAAGAAAAGAGTACCTCAGATTTTATTAATATAATACCCGATA
66 GTATGTTAACGAACATTGGAAGGAAGAAAAGAGTACCTCAAATTTTATTAATAAAATACCCGATA
*
677213 CAAAAGACACCACGGAATATCCTCTCATGGTGATGTACACCATTACAACAAAAACCTTAACCTCA
131 CAAAAGACACCACAGAATATCCTCTCATGGTGATGTACACCATTACAACAAAAACCTTAACCTCA
*
677278 TAAAACCTCATCCAAAGCCACAGTCAAATCACCTTACTACTAATTACACCACCAACAGTAATAAT
196 TAAAACCTCATCCAAAGCCACAGTCAAATCACCTTACTACTAATTACACCACCAACAGTAAGAAT
* * *
677343 AAAACATCGCGACAGAACATAATACAAAATGAAAGCAACACCTACAACCATATAGACTAAAATAA
261 AAAACAACGCAACAGAACATAATACAAAATAAAAGCAACACCTACAACCATATAGACTAAAATAA
* * *
677408 AACCATAAATGAAGAGACGAGATCTAATGAGACTTGTATTCTTCAGGAGCCCAAGAGTTTGGTTT
326 AACCACAAATGAAGAGACAAGATCTAATGAGACTCGTATTCTTCAGGAGCCCAAGAGTTTGGTTT
*
677473 GAATGAAGGTTCTATCTCATGCACCATGACCTTGAAGAAATTGTCACCAACCTTCAATTCAACCA
391 GAATGAAGGCTCTATCTCATGCACCATGACCTTGAAGAAATTGTCACCAACCTTCAATTCAACCA
* * *
677538 TCGAATCAATTCTCGCATCAGCCTTTGTTAGGATTTGAATTTTAGCCCGATCAAAGGATGATGGA
456 TCGAATCAATTCTCGCATCAACCTTTGTGAGGACTTGAATTTTAGCCCGATCAAAGGATGATGGA
677603 GACTGAC
521 GACTGAC
677610 AA
1 AA
677612 CTTTCGTCGA
Statistics
Matches: 492, Mismatches: 34, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
525 298 0.61
526 4 0.01
527 190 0.39
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.26
Consensus pattern (527 bp):
AATTTTTTTTATAGAAGTTGGAGGTCTCATTAAAAACTCCCTTCATATTCGTTCACATACTAAAA
GTATGTTAACGAACATTGGAAGGAAGAAAAGAGTACCTCAAATTTTATTAATAAAATACCCGATA
CAAAAGACACCACAGAATATCCTCTCATGGTGATGTACACCATTACAACAAAAACCTTAACCTCA
TAAAACCTCATCCAAAGCCACAGTCAAATCACCTTACTACTAATTACACCACCAACAGTAAGAAT
AAAACAACGCAACAGAACATAATACAAAATAAAAGCAACACCTACAACCATATAGACTAAAATAA
AACCACAAATGAAGAGACAAGATCTAATGAGACTCGTATTCTTCAGGAGCCCAAGAGTTTGGTTT
GAATGAAGGCTCTATCTCATGCACCATGACCTTGAAGAAATTGTCACCAACCTTCAATTCAACCA
TCGAATCAATTCTCGCATCAACCTTTGTGAGGACTTGAATTTTAGCCCGATCAAAGGATGATGGA
GACTGAC
Found at i:679068 original size:15 final size:15
Alignment explanation
Indices: 679045--679074 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
679035 TGGTAAAGAT
*
679045 GAAATGATGAATGAA
1 GAAAAGATGAATGAA
679060 GAAAAGATGAATGAA
1 GAAAAGATGAATGAA
679075 AACAAACACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.17
Consensus pattern (15 bp):
GAAAAGATGAATGAA
Found at i:684205 original size:20 final size:20
Alignment explanation
Indices: 684180--684246 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
684170 TTTTCCCAAT
684180 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
684200 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
684221 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
684241 TCGCAA
1 TCGCAA
684247 AAAATCGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 22 0.58
21 16 0.42
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:684275 original size:20 final size:20
Alignment explanation
Indices: 684250--684364 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
684240 ATCGCAAAAA
*
684250 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
684270 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
684291 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
684311 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
684331 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
684351 TTCGCAACGCGATA
1 ATCGCAACGCGATA
684365 ATACATAATC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 65 0.82
21 14 0.18
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:684305 original size:41 final size:41
Alignment explanation
Indices: 684245--684384 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
684235 AGTAAATCGC
* * *
684245 AAAAAATCGCAATGCGATACTGACTATCGCAATGCGATAAT
1 AAAAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT
* * *
684286 AAAAAATCGCAACGAGATACTTACTTTCGCAACGCGATACT
1 AAAAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT
* *** *
684327 -GACTTTCGCAACGCGATTCTGACTTTCGCAACGCGATAAT
1 AAAAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT
* * *
684367 ACATAATCGCAATGCGAT
1 AAAAAATCGCAACGCGAT
684385 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 32 0.41
41 47 0.59
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT
Found at i:684580 original size:22 final size:22
Alignment explanation
Indices: 684552--684595 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
684542 CACTCTCTCA
684552 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
684574 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
684596 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:684885 original size:20 final size:20
Alignment explanation
Indices: 684831--684904 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
684821 AAATCGCAAC
*
684831 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCATTTTCGCGTT
** *
684850 GCGATAGTCGA-ATTCGCGTT
1 GCGATTTTC-ATTTTCGCGTT
*
684870 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCATTTTCGCGTT
684890 GCGATTTTCATTTTC
1 GCGATTTTCATTTTC
684905 AGAAACTATT
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.16
20 37 0.82
21 1 0.02
ACGTcount: A:0.14, C:0.18, G:0.23, T:0.46
Consensus pattern (20 bp):
GCGATTTTCATTTTCGCGTT
Found at i:686246 original size:18 final size:18
Alignment explanation
Indices: 686225--686269 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
686215 TCCACTTCGG
*
686225 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
686243 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
686261 GAGCCATCA
1 GAGCCATCA
686270 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:686661 original size:6 final size:6
Alignment explanation
Indices: 686652--686692 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
686642 TTTGTTAGTA
* *
686652 TTTGTT TTTGGT TTTGTT TTTGGT TTTGTT TTTGTCT TTTG
1 TTTGTT TTTGTT TTTGTT TTTGTT TTTGTT TTTGT-T TTTG
686693 GTTGAAGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.00, C:0.02, G:0.22, T:0.76
Consensus pattern (6 bp):
TTTGTT
Found at i:686669 original size:12 final size:12
Alignment explanation
Indices: 686652--686685 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
686642 TTTGTTAGTA
686652 TTTGTTTTTGGT
1 TTTGTTTTTGGT
686664 TTTGTTTTTGGT
1 TTTGTTTTTGGT
686676 TTTGTTTTTG
1 TTTGTTTTTG
686686 TCTTTTGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.24, T:0.76
Consensus pattern (12 bp):
TTTGTTTTTGGT
Found at i:686678 original size:18 final size:19
Alignment explanation
Indices: 686652--686695 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
686642 TTTGTTAGTA
*
686652 TTTGTTTTTGGTTTTGT-T
1 TTTGGTTTTGGTTTTGTCT
*
686670 TTTGGTTTTGTTTTTGTCT
1 TTTGGTTTTGGTTTTGTCT
686689 TTTGGTT
1 TTTGGTT
686696 GAAGTAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.00, C:0.02, G:0.23, T:0.75
Consensus pattern (19 bp):
TTTGGTTTTGGTTTTGTCT
Found at i:686803 original size:19 final size:20
Alignment explanation
Indices: 686749--686815 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
686739 TAGTTTACTT
* *
686749 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
686769 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
686789 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
686808 TCGCAACG
1 TCGCAACG
686816 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:686823 original size:14 final size:14
Alignment explanation
Indices: 686804--686861 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
686794 ATGCGAAATG
686804 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
686818 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
686834 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
686850 ATAATCGCAACG
1 AAAATCGCAACG
686862 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 20 0.54
16 8 0.22
18 9 0.24
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:686846 original size:32 final size:33
Alignment explanation
Indices: 686788--686878 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
686778 GGAAATGGCT
686788 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
686821 ATCGCAATGCGAAATG-AAATCGCAACGACATA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
686853 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
686879 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 30 0.55
33 25 0.45
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:686914 original size:14 final size:14
Alignment explanation
Indices: 686895--686952 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
686885 TTGTGTTTCG
686895 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
686909 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
686925 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
686941 CGTTGCGATTTT
1 CGTTGCGATTTT
686953 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:686929 original size:32 final size:33
Alignment explanation
Indices: 686890--686968 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
686880 GCGATTTGTG
686890 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
686922 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
686955 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
686969 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:686967 original size:19 final size:17
Alignment explanation
Indices: 686890--686968 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
686880 GCGATTTGTG
686890 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
686906 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
686922 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
686938 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
686955 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
686969 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:687007 original size:19 final size:19
Alignment explanation
Indices: 686941--687007 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
686931 GCGATTTTGT
**
686941 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
* * *
686960 CATTGCGATAGCCATTTCCA
1 CGTTGCGATAGTCATTT-CG
686980 CGTTGCGATAGTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
686999 CGTTACGAT
1 CGTTGCGAT
687008 TTTAAGTTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
19 22 0.58
20 16 0.42
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:688627 original size:14 final size:14
Alignment explanation
Indices: 688608--688643 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
688598 ATTGTTTAAT
688608 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
688622 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
688636 TGATTTGT
1 TGATTTGT
688644 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:690284 original size:42 final size:41
Alignment explanation
Indices: 690198--690320 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
690188 GTGAATCGGG
* * * **
690198 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTTGC
1 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
690240 CTCTTGAATGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * * *
690282 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAATGGTGGGAGGGGACTCTCGA-GGATGATAGG
690321 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:692366 original size:20 final size:19
Alignment explanation
Indices: 692321--692524 Score: 167
Period size: 19 Copynumber: 11.1 Consensus size: 19
692311 TCTTTTGGTT
* *
692321 GAAATGAAAATCGAAACGA
1 GAAATGAAAATCGCAACGC
*
692340 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
692360 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
692378 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
692394 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
692412 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
692427 AAAATGAAGATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
692447 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
692466 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
692485 GAAATGAAAATCTCAACGC
1 GAAATGAAAATCGCAACGC
* *
692504 GAAATAAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
692523 GA
1 GA
692525 TTTTTGTTTC
Statistics
Matches: 150, Mismatches: 22, Indels: 26
0.76 0.11 0.13
Matches are distributed among these distances:
14 19 0.13
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 77 0.51
20 42 0.28
21 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.21, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:692403 original size:33 final size:33
Alignment explanation
Indices: 692346--692444 Score: 135
Period size: 33 Copynumber: 3.0 Consensus size: 33
692336 ACGAGATAAT
*
692346 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
692380 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* * **
692413 GACAATCGCAACGCAAAATGAAGATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
692445 GCGAAATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 44 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:692556 original size:19 final size:19
Alignment explanation
Indices: 692520--692586 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
692510 AAAATCGCAA
*
692520 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
692539 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
692558 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
692578 TGCGATTTT
1 TGCGATTTT
692587 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:693130 original size:20 final size:20
Alignment explanation
Indices: 693101--693153 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
693091 GCGCTATGTA
*
693101 AATCGCGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
693121 AATCGTGTTGCGAAAGTCAG
1 AATCGTGTTGCGAAAGTCAG
*
693141 TATC-TCGTTGCGA
1 AATCGT-GTTGCGA
693154 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (20 bp):
AATCGTGTTGCGAAAGTCAG
Found at i:693187 original size:20 final size:20
Alignment explanation
Indices: 693162--693215 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
693152 GATTTTGTAT
693162 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
693182 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
693202 TATCGCATTGCGAT
1 TATCGCATTGCGAT
693216 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:693234 original size:61 final size:61
Alignment explanation
Indices: 693102--693236 Score: 146
Period size: 61 Copynumber: 2.2 Consensus size: 61
693092 CGCTATGTAA
* * ** * * ** *
693102 ATCGCGTTGCGAAAGTCAGAATCGTGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
693163 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
693225 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
693237 TTACTTATTC
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 58 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:693326 original size:21 final size:21
Alignment explanation
Indices: 693286--693326 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
693276 ATTGTATACC
**
693286 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
693307 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
693327 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:724522 original size:30 final size:30
Alignment explanation
Indices: 724486--724551 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
724476 ATATTATCTT
724486 GAGAACTATGTACAAAAATAATAAAATTCC
1 GAGAACTATGTACAAAAATAATAAAATTCC
724516 GAGAACTATGTACAAAAATAATAAAATTCC
1 GAGAACTATGTACAAAAATAATAAAATTCC
724546 GA-AACT
1 GAGAACT
724552 GTGACACGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 4 0.11
30 32 0.89
ACGTcount: A:0.53, C:0.14, G:0.11, T:0.23
Consensus pattern (30 bp):
GAGAACTATGTACAAAAATAATAAAATTCC
Found at i:730142 original size:57 final size:57
Alignment explanation
Indices: 730054--730168 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
730044 ATTACCTAAA
730054 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAAAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAAAGGTGCT
* *
730111 GGATCTTCACAAGATCTTGGACTAGGATCAGATTCTTGGTTTTGCTGCAGAGGTGCT
1 GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAAAGGTGCT
730168 G
1 G
730169 AAGGTTCCAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (57 bp):
GGATCTTCACAAGATCTTGGACCAGGATCAGATTCTTGGTTTTGCTGCAAAGGTGCT
Found at i:733202 original size:2 final size:2
Alignment explanation
Indices: 733197--733234 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
733187 TTTTTCCATC
733197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
733235 GTTTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:741607 original size:60 final size:59
Alignment explanation
Indices: 741502--741679 Score: 186
Period size: 60 Copynumber: 3.0 Consensus size: 59
741492 ATATACATAG
** * *
741502 AGTTTGGGATGAAATT-ATAATATTCAAAAAGTTTGGGGACCAATTTAGAATAAAGGTCAC
1 AGTTTGGGATGAAATTGA-AATATTC-AAAAGTTTAAGGACTAATTTAAAATAAAGGTCAC
* * *
741562 AGTTTGGGGATGAAATTGAAATATTCAAAAGTTTAAGGATTAATTTAAAATGATA-GTCAT
1 AGTTT-GGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAAAAT-AAAGGTCAC
*
741622 AGTATAGGGATGAAATTAGAACAT-TT-AAAAGTTTAAGGACTAATTTAAAAT-AAGGTCA
1 AGT-TTGGGATGAAATT-GAA-ATATTCAAAAGTTTAAGGACTAATTTAAAATAAAGGTCA
741680 TACTTTGAGG
Statistics
Matches: 101, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
58 1 0.01
59 4 0.04
60 67 0.66
61 26 0.26
62 3 0.03
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (59 bp):
AGTTTGGGATGAAATTGAAATATTCAAAAGTTTAAGGACTAATTTAAAATAAAGGTCAC
Found at i:743977 original size:201 final size:201
Alignment explanation
Indices: 743632--744032 Score: 642
Period size: 201 Copynumber: 2.0 Consensus size: 201
743622 TCAGTTGGTA
* *
743632 GAGCACAAGGTTCTTAATATTGGGGTCATGGGATCGAATCTCATGGAGGACATTTCATAATTCAG
1 GAGCACAAGGTTCTTAATATTGGGGTCATGGAATCGAATCCCATGGAGGACATTTCATAATTCAG
* * * *
743697 AGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTACTATCTTACCTCCCTGTAC
66 AGGTCTCCTACGAAAGTTGCTCTCAACTTGATGTTGGGACAACCTACTATCCTACCTCCCTGTAC
*
743762 CATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCAGAAGGCAGCATTGCTTTATGAAAAC
131 CATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCAGAAGGCAGCATTGCTTTATGAAAAC
743827 TTCGTT
196 TTCGTT
* * * *
743833 GAGCACAAGGTTTTTAATCTTGGGGTCGTGGAATCGAGTCCCATGGAGGACATTTCATAATTCAG
1 GAGCACAAGGTTCTTAATATTGGGGTCATGGAATCGAATCCCATGGAGGACATTTCATAATTCAG
* * *
743898 AGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGACAACCTACTATCCTACCTTTCC-GTA
66 AGGTCTCCTACGAAAGTTGCTCTCAACTTGATGTTGGGACAACCTACTATCCTACC-TCCCTGTA
* *
743962 CCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCGGAAGGCTGCATTGCTTTATGAAAA
130 CCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCAGAAGGCAGCATTGCTTTATGAAAA
744027 CTTCGT
195 CTTCGT
744033 GAAGGACATT
Statistics
Matches: 183, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
201 180 0.98
202 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (201 bp):
GAGCACAAGGTTCTTAATATTGGGGTCATGGAATCGAATCCCATGGAGGACATTTCATAATTCAG
AGGTCTCCTACGAAAGTTGCTCTCAACTTGATGTTGGGACAACCTACTATCCTACCTCCCTGTAC
CATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCAGAAGGCAGCATTGCTTTATGAAAAC
TTCGTT
Found at i:744163 original size:156 final size:156
Alignment explanation
Indices: 743879--744188 Score: 523
Period size: 156 Copynumber: 2.0 Consensus size: 156
743869 AGTCCCATGG
* *
743879 AGGACATTTCATAATTCAGAGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGACAACCTA
1 AGGACATTTCATAATTCAGAGGTCTCCTACGAAAGTTGCTCTCAACTTGATGTTGGGACAACCTA
*
743944 CTATCCTACCTTTCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCGGAAGGC
66 CTATCCTACCTTCCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCGGAAGGC
*
744009 TGCATTGCTTTATGAAAACTTCGTGA
131 AGCATTGCTTTATGAAAACTTCGTGA
* * *
744035 AGGACATTTCATAATTCAGAGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTA
1 AGGACATTTCATAATTCAGAGGTCTCCTACGAAAGTTGCTCTCAACTTGATGTTGGGACAACCTA
* *
744100 CTATCTTACC-TCCCTGTACCATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCGGAAGG
66 CTATCCTACCTTCCC-GTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCGGAAGG
744164 CAGCATTGCTTTATGAAAACTTCGT
130 CAGCATTGCTTTATGAAAACTTCGT
744189 TGAGCACAAG
Statistics
Matches: 144, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
155 3 0.02
156 141 0.98
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (156 bp):
AGGACATTTCATAATTCAGAGGTCTCCTACGAAAGTTGCTCTCAACTTGATGTTGGGACAACCTA
CTATCCTACCTTCCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCGGAAGGC
AGCATTGCTTTATGAAAACTTCGTGA
Found at i:744336 original size:357 final size:357
Alignment explanation
Indices: 743678--744389 Score: 1388
Period size: 357 Copynumber: 2.0 Consensus size: 357
743668 AATCTCATGG
743678 AGGACATTTCATAATTCAGAGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTA
1 AGGACATTTCATAATTCAGAGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTA
743743 CTATCTTACCTCCCTGTACCATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCAGAAGGC
66 CTATCTTACCTCCCTGTACCATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCAGAAGGC
743808 AGCATTGCTTTATGAAAACTTCGTTGAGCACAAGGTTTTTAATCTTGGGGTCGTGGAATCGAGTC
131 AGCATTGCTTTATGAAAACTTCGTTGAGCACAAGGTTTTTAATCTTGGGGTCGTGGAATCGAGTC
743873 CCATGGAGGACATTTCATAATTCAGAGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGAC
196 CCATGGAGGACATTTCATAATTCAGAGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGAC
*
743938 AACCTACTATCCTACCTTTCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCG
261 AACCTACTATCCTACCTCTCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCG
744003 GAAGGCTGCATTGCTTTATGAAAACTTCGTGA
326 GAAGGCTGCATTGCTTTATGAAAACTTCGTGA
744035 AGGACATTTCATAATTCAGAGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTA
1 AGGACATTTCATAATTCAGAGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTA
*
744100 CTATCTTACCTCCCTGTACCATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCGGAAGGC
66 CTATCTTACCTCCCTGTACCATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCAGAAGGC
744165 AGCATTGCTTTATGAAAACTTCGTTGAGCACAAGGTTTTTAATCTTGGGGTCGTGGAATCGAGTC
131 AGCATTGCTTTATGAAAACTTCGTTGAGCACAAGGTTTTTAATCTTGGGGTCGTGGAATCGAGTC
744230 CCATGGAGGACATTTCATAATTCAGAGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGAC
196 CCATGGAGGACATTTCATAATTCAGAGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGAC
* *
744295 AGCCTACTATCCTACCTCTCCGTACCATCCCCTCTGGTAACTTCGGGGTATGACAGTGAGTTGCG
261 AACCTACTATCCTACCTCTCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCG
744360 GAAGGCTGCATTGCTTTATGAAAACTTCGT
326 GAAGGCTGCATTGCTTTATGAAAACTTCGT
744390 TGAGCATTGG
Statistics
Matches: 351, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
357 351 1.00
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.31
Consensus pattern (357 bp):
AGGACATTTCATAATTCAGAGGTTTTCTACGAAAGTTGTTCTCAACTTGATGTTGGGACAACCTA
CTATCTTACCTCCCTGTACCATCCCCTCCGGTAACTTTGGGGTATGACAGTGAGTTGCAGAAGGC
AGCATTGCTTTATGAAAACTTCGTTGAGCACAAGGTTTTTAATCTTGGGGTCGTGGAATCGAGTC
CCATGGAGGACATTTCATAATTCAGAGGTCTCCTACGGAAGTTGCTCTCAACTTGGTGTTGGGAC
AACCTACTATCCTACCTCTCCGTACCATCCCCTCCGGTAACTTCGGGGTATGACAGTGAGTTGCG
GAAGGCTGCATTGCTTTATGAAAACTTCGTGA
Found at i:745451 original size:23 final size:24
Alignment explanation
Indices: 745425--745469 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
745415 TGATGATCAC
*
745425 TTAATTAATATT-ATAATTTTATA
1 TTAATTAAGATTAATAATTTTATA
*
745448 TTAATTAAGATTAATATTTTTA
1 TTAATTAAGATTAATAATTTTA
745470 ACATTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TTAATTAAGATTAATAATTTTATA
Found at i:752186 original size:28 final size:28
Alignment explanation
Indices: 752155--752239 Score: 79
Period size: 28 Copynumber: 3.1 Consensus size: 28
752145 ATGGTGACCT
752155 TTGGCGAGCTGGGCGTGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
* * * ** *
752183 TT-G-G-GC-GTGCATTGCATGGTGACCT
1 TTGGCGAGCTGGGC-GTGCATGGAGGTCG
752208 TTGGCGAGCTGGGCGTGCATGGAGGTCG
1 TTGGCGAGCTGGGCGTGCATGGAGGTCG
752236 TTGG
1 TTGG
752240 GGCGTGCATG
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
24 3 0.08
25 13 0.32
26 2 0.05
27 2 0.05
28 17 0.43
29 3 0.08
ACGTcount: A:0.11, C:0.18, G:0.46, T:0.26
Consensus pattern (28 bp):
TTGGCGAGCTGGGCGTGCATGGAGGTCG
Found at i:752217 original size:53 final size:54
Alignment explanation
Indices: 752142--752248 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 54
752132 AAGCATGGAC
752142 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTT-GGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGGCGTGCAT
752195 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGGCGTGCAT
1 TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGGCGTGCAT
752249 GGAGGTCGTT
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
53 43 0.81
54 10 0.19
ACGTcount: A:0.11, C:0.19, G:0.44, T:0.26
Consensus pattern (54 bp):
TGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGGAGGTCGTTGGGGCGTGCAT
Found at i:752264 original size:20 final size:20
Alignment explanation
Indices: 752217--752268 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 20
752207 TTTGGCGAGC
752217 TGGGCGTGCATGGAGGTCGT
1 TGGGCGTGCATGGAGGTCGT
752237 TGGGGCGTGCATGGAGGTCGT
1 T-GGGCGTGCATGGAGGTCGT
752258 TGGGCGTGCAT
1 TGGGCGTGCAT
752269 TGCATGGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.10, C:0.15, G:0.50, T:0.25
Consensus pattern (20 bp):
TGGGCGTGCATGGAGGTCGT
Found at i:752286 original size:74 final size:74
Alignment explanation
Indices: 752165--752303 Score: 278
Period size: 74 Copynumber: 1.9 Consensus size: 74
752155 TTGGCGAGCT
752165 GGGCGTGCATGGAGGTCGTTGGGCGTGCATTGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGG
1 GGGCGTGCATGGAGGTCGTTGGGCGTGCATTGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGG
752230 AGGTCGTTG
66 AGGTCGTTG
752239 GGGCGTGCATGGAGGTCGTTGGGCGTGCATTGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGG
1 GGGCGTGCATGGAGGTCGTTGGGCGTGCATTGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGG
752304 CGACCTGGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 65 1.00
ACGTcount: A:0.11, C:0.18, G:0.46, T:0.25
Consensus pattern (74 bp):
GGGCGTGCATGGAGGTCGTTGGGCGTGCATTGCATGGTGACCTTTGGCGAGCTGGGCGTGCATGG
AGGTCGTTG
Found at i:752896 original size:20 final size:22
Alignment explanation
Indices: 752847--752896 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
752837 CATGCATGCG
*
752847 TTGCATCCATAGCTGGGAGATTC
1 TTGCATCCATAGCT-GGAGATTA
*
752870 CTGCATCCATAGCT-GA-ATTA
1 TTGCATCCATAGCTGGAGATTA
752890 TTGCATC
1 TTGCATC
752897 GTTAATTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 9 0.38
21 2 0.08
23 13 0.54
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (22 bp):
TTGCATCCATAGCTGGAGATTA
Found at i:753081 original size:3 final size:3
Alignment explanation
Indices: 753067--753102 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
753057 TGCAGAGAGA
*
753067 AAG AAA AAG AAG AAG AAG AAG AAG AAG AA- AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
753103 TAAATGCTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:753239 original size:21 final size:21
Alignment explanation
Indices: 753214--753257 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
753204 AATTTAGTTA
753214 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
753235 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
753256 AT
1 AT
753258 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:753267 original size:28 final size:28
Alignment explanation
Indices: 753234--753292 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
753224 TAGTATAAAT
*
753234 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTGTTAGTTTAAGTTATATAA
753262 TATTAGTTTGTTAGTTTAAGTTATATAA
1 TATTAGTTTGTTAGTTTAAGTTATATAA
753290 TAT
1 TAT
753293 ATTATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.56
Consensus pattern (28 bp):
TATTAGTTTGTTAGTTTAAGTTATATAA
Found at i:753679 original size:4 final size:4
Alignment explanation
Indices: 753670--753699 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
753660 TATGTGTAAA
*
753670 TTAG TTAG TTAG TTAG TTAG TTAG TAAG TT
1 TTAG TTAG TTAG TTAG TTAG TTAG TTAG TT
753700 TATATTAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TTAG
Found at i:753805 original size:22 final size:23
Alignment explanation
Indices: 753762--753805 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
753752 TATTGTGCTT
**
753762 AAAAATATTTAGTATTGTTTTAA
1 AAAAATATTTAGTATTAATTTAA
*
753785 AAAAATATTTTGT-TTAATTTA
1 AAAAATATTTAGTATTAATTTA
753806 TATTATATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
AAAAATATTTAGTATTAATTTAA
Found at i:757203 original size:49 final size:49
Alignment explanation
Indices: 757150--757397 Score: 405
Period size: 49 Copynumber: 5.1 Consensus size: 49
757140 AATAATTATT
* *
757150 TAGTAATGATTAGTAATAAAGAAATTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
*
757199 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATAATTTGG
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
*
757248 TAGTAATGATTAATAATAATGAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
*
757297 TAGTAATGATTAGTAATAATTAAATTATTATTAATATTTAATGATTTGG
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
* *
757346 TAATAA-GATTAGTAATAA-AAAATTATTATTAA-ATTTAATGA-TTGG
1 TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
757391 TAGTAAT
1 TAGTAAT
757398 TATTTAGAAT
Statistics
Matches: 188, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
45 9 0.05
46 9 0.05
47 13 0.07
48 12 0.06
49 145 0.77
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (49 bp):
TAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGG
Found at i:757241 original size:98 final size:98
Alignment explanation
Indices: 757114--757397 Score: 420
Period size: 98 Copynumber: 2.9 Consensus size: 98
757104 TAATCATGAT
* *
757114 TAATAATG-AATTA-TATTTAAAATTATAATAATTAT-TTAGTAATGATTAGTAATAAAGAAATT
1 TAATAATGAAATTATTA-TTAATATT-TAATAATT-TGGTAGTAATGATTAGTAATAAAGAAATT
*
757176 ATTATTAATATTTAATGATTTGATAGTAATGATTAG
63 ATTATTAATATTTAATGATTTGGTAGTAATGATTAG
* *
757212 TAATAATGAAATTATTATTAATATTTAATAATTTGGTAGTAATGATTAATAATAATGAAATTATT
1 TAATAATGAAATTATTATTAATATTTAATAATTTGGTAGTAATGATTAGTAATAAAGAAATTATT
757277 ATTAATATTTAATGATTTGGTAGTAATGATTAG
66 ATTAATATTTAATGATTTGGTAGTAATGATTAG
* * *
757310 TAATAATTAAATTATTATTAATATTTAATGATTTGGTAATAA-GATTAGTAATAAA-AAATTATT
1 TAATAATGAAATTATTATTAATATTTAATAATTTGGTAGTAATGATTAGTAATAAAGAAATTATT
757373 ATTAA-ATTTAATGA-TTGGTAGTAAT
66 ATTAATATTTAATGATTTGGTAGTAAT
757398 TATTTAGAAT
Statistics
Matches: 173, Mismatches: 10, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
94 11 0.06
95 9 0.05
96 13 0.08
97 12 0.07
98 114 0.66
99 12 0.07
100 2 0.01
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.44
Consensus pattern (98 bp):
TAATAATGAAATTATTATTAATATTTAATAATTTGGTAGTAATGATTAGTAATAAAGAAATTATT
ATTAATATTTAATGATTTGGTAGTAATGATTAG
Found at i:757636 original size:12 final size:11
Alignment explanation
Indices: 757614--757920 Score: 96
Period size: 11 Copynumber: 26.3 Consensus size: 11
757604 TAACCATAAA
757614 AATGATTTAAT
1 AATGATTTAAT
757625 AATGATTT--T
1 AATGATTTAAT
757634 AAT-ATTTAAT
1 AATGATTTAAT
*
757644 GATTTGATGATTTAGT
1 -A----ATGATTTAAT
757660 AATGATTT--T
1 AATGATTTAAT
757669 AAT-ATTTAAT
1 AATGATTTAAT
**
757679 GATTTGATGATTTGGT
1 -A----ATGATTTAAT
757695 AATGATTTTAAT
1 AATGA-TTTAAT
757707 ATTATGATTTAGTAAT
1 A--ATGATTTA---AT
*
757723 AATCATTATAAT
1 AATGATT-TAAT
*
757735 AATAATTTAAT
1 AATGATTTAAT
757746 AATGACTTTAAT
1 AATGA-TTTAAT
* * * * *
757758 ATTTAATGATTT
1 AATGATTTA-AT
* * *
757770 GATGATATAGT
1 AATGATTTAAT
757781 AATGATTTGATAAT
1 AATGATTT-A--AT
*
757795 AATCATTATAAT
1 AATGATT-TAAT
757807 AATGATTTAGTAAT
1 AATGA-TT--TAAT
*
757821 AATCATTATAAT
1 AATGATT-TAAT
757833 AATGATTTAAT
1 AATGATTTAAT
* *
757844 AATAATGATAAT
1 AATGAT-TTAAT
757856 AATGA--TAAT
1 AATGATTTAAT
757865 AATGATTTAAT
1 AATGATTTAAT
* *
757876 AATAATCATAAT
1 AATGAT-TTAAT
757888 AATGATTTAAT
1 AATGATTTAAT
*
757899 -ATGA-TTAGT
1 AATGATTTAAT
757908 AATGATTT-AT
1 AATGATTTAAT
757918 AAT
1 AAT
757921 AATAATAATT
Statistics
Matches: 221, Mismatches: 38, Indels: 75
0.66 0.11 0.22
Matches are distributed among these distances:
8 8 0.04
9 21 0.10
10 14 0.06
11 62 0.28
12 60 0.27
13 8 0.04
14 25 0.11
15 9 0.04
16 14 0.06
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (11 bp):
AATGATTTAAT
Found at i:757642 original size:19 final size:19
Alignment explanation
Indices: 757618--757678 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
757608 CATAAAAATG
757618 ATTTAATAATGATTTTAAT
1 ATTTAATAATGATTTTAAT
*
757637 A-TT--TAATGA-TTTGAT
1 ATTTAATAATGATTTTAAT
*
757652 GATTTAGTAATGATTTTAAT
1 -ATTTAATAATGATTTTAAT
757672 ATTTAAT
1 ATTTAAT
757679 GATTTGATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 5 0.15
16 7 0.21
17 2 0.06
18 2 0.06
19 13 0.38
20 5 0.15
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (19 bp):
ATTTAATAATGATTTTAAT
Found at i:757648 original size:8 final size:8
Alignment explanation
Indices: 757624--757691 Score: 59
Period size: 8 Copynumber: 8.1 Consensus size: 8
757614 AATGATTTAA
757624 TAATGATTT
1 TAATGA-TT
757633 TAAT-ATT
1 TAATGATT
757640 TAATGATT
1 TAATGATT
*
757648 TGATGATTT
1 TAATGA-TT
757657 AGTAATGATTT
1 --TAATGA-TT
757668 TAAT-ATT
1 TAATGATT
757675 TAATGATT
1 TAATGATT
*
757683 TGATGATT
1 TAATGATT
757691 T
1 T
757692 GGTAATGATT
Statistics
Matches: 51, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
7 12 0.24
8 21 0.41
9 10 0.20
11 8 0.16
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (8 bp):
TAATGATT
Found at i:757655 original size:35 final size:35
Alignment explanation
Indices: 757615--757716 Score: 172
Period size: 35 Copynumber: 3.0 Consensus size: 35
757605 AACCATAAAA
*
757615 ATGATTTAATAATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
757650 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
1 ATGATTTAGTAATGATTTTAATATTTAATGATTTG
*
757685 ATGATTTGGTAATGATTTTAATA-TT-ATGATTT
1 ATGATTTAGTAATGATTTTAATATTTAATGATTT
757717 AGTAATAATC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 7 0.11
34 2 0.03
35 56 0.86
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (35 bp):
ATGATTTAGTAATGATTTTAATATTTAATGATTTG
Found at i:757691 original size:16 final size:16
Alignment explanation
Indices: 757624--757683 Score: 68
Period size: 16 Copynumber: 3.6 Consensus size: 16
757614 AATGATTTAA
757624 TAATGATTTTAATATT
1 TAATGATTTTAATATT
*
757640 TAATGA-TTTGATGATTT
1 TAATGATTTTAAT-A-TT
757657 AGTAATGATTTTAATATT
1 --TAATGATTTTAATATT
757675 TAATGATTT
1 TAATGATTT
757684 GATGATTTGG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
15 5 0.14
16 16 0.43
17 2 0.05
18 2 0.05
19 7 0.19
20 5 0.14
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (16 bp):
TAATGATTTTAATATT
Found at i:757699 original size:19 final size:18
Alignment explanation
Indices: 757640--757702 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 18
757630 TTTTAATATT
757640 TAATGATTTGATGATTTAG
1 TAATGATTTGATGATTT-G
*
757659 TAATGATTT--TAATATT-
1 TAATGATTTGATGAT-TTG
757675 TAATGATTTGATGATTTGG
1 TAATGATTTGATGATTT-G
757694 TAATGATTT
1 TAATGATTT
757703 TAATATTATG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.24
17 5 0.14
18 5 0.14
19 18 0.49
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (18 bp):
TAATGATTTGATGATTTG
Found at i:757750 original size:86 final size:84
Alignment explanation
Indices: 757653--757890 Score: 254
Period size: 86 Copynumber: 2.8 Consensus size: 84
757643 TGATTTGATG
* * * *
757653 ATTTAGTAATGATTTTAATATTTAATGATTTGATGATTTGGTAATGATTT-TAATATTATGATTT
1 ATTTAATAATGA-TTTAATATTTAATGATTTGATGATATAGTAATGATTTATAATA--ATCA-TT
757717 AGTAATAATCA-TTA-TAATAATA
62 A-TAATAATCATTTAGTAATAATA
757739 ATTTAATAATGACTTTAATATTTAATGATTTGATGATATAGTAATGATTTGATAATAATCATTAT
1 ATTTAATAATGA-TTTAATATTTAATGATTTGATGATATAGTAATGATTT-ATAATAATCATTAT
* *
757804 AATAATGATTTAGTAATAATC
64 AATAATCATTTAGTAATAATA
* * * *
757825 ATTATAATAATGATTTAATA-ATAATGATAATAATGATA-A-TAATGATTTAATAATAATCATAA
1 ATT-TAATAATGATTTAATATTTAATGAT-TTGATGATATAGTAATGATTT-ATAATAATCATTA
757887 TAAT
63 TAAT
757891 GATTTAATAT
Statistics
Matches: 134, Mismatches: 12, Indels: 14
0.84 0.08 0.09
Matches are distributed among these distances:
84 33 0.25
85 14 0.10
86 73 0.54
87 9 0.07
88 5 0.04
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.45
Consensus pattern (84 bp):
ATTTAATAATGATTTAATATTTAATGATTTGATGATATAGTAATGATTTATAATAATCATTATAA
TAATCATTTAGTAATAATA
Found at i:757804 original size:26 final size:25
Alignment explanation
Indices: 757775--757861 Score: 115
Period size: 26 Copynumber: 3.5 Consensus size: 25
757765 GATTTGATGA
*
757775 TATAGTAATGATTTGATAATAATCAT
1 TATAATAATGATTT-ATAATAATCAT
757801 TATAATAATGATTTAGTAATAATCAT
1 TATAATAATGATTTA-TAATAATCAT
*
757827 TATAATAATGA-TT-TAATAATAAT
1 TATAATAATGATTTATAATAATCAT
*
757850 GATAATAATGAT
1 TATAATAATGAT
757862 AATAATGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
23 19 0.34
25 3 0.05
26 34 0.61
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.41
Consensus pattern (25 bp):
TATAATAATGATTTATAATAATCAT
Found at i:757808 original size:3 final size:3
Alignment explanation
Indices: 757790--757890 Score: 55
Period size: 3 Copynumber: 34.7 Consensus size: 3
757780 TAATGATTTG
* * * * * * * *
757790 ATA ATA ATC ATT ATA ATA ATG AT- TTA GTA ATA ATC ATT ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
757837 AT- TTA ATA ATA ATG ATA ATA ATG ATA ATA ATG AT- TTA ATA ATA ATC
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
757883 ATA ATA AT
1 ATA ATA AT
757891 GATTTAATAT
Statistics
Matches: 73, Mismatches: 22, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
2 3 0.04
3 70 0.96
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (3 bp):
ATA
Found at i:757820 original size:23 final size:23
Alignment explanation
Indices: 757719--757923 Score: 124
Period size: 23 Copynumber: 8.8 Consensus size: 23
757709 TATGATTTAG
* *
757719 TAATAATCATTATAATAATAATT
1 TAATAATGATTATAATAATGATT
*
757742 TAATAATGACT-T--TAAT-ATT
1 TAATAATGATTATAATAATGATT
* *
757761 TAATGATTTGATGATATAGTAATGATTT
1 TAAT-A-ATGAT--TATAATAATGA-TT
*
757789 GATAATAATCATTATAATAATGATTT
1 --TAATAATGATTATAATAATGA-TT
*
757815 AGTAATAATCATTATAATAATGATT
1 --TAATAATGATTATAATAATGATT
* *
757840 TAATAATAATGATAATAATGA--
1 TAATAATGATTATAATAATGATT
* *
757861 TAATAATGATT-TAATAATAATCA
1 TAATAATGATTATAATAATGAT-T
757884 TAATAATGATT-TAAT-ATGA-T
1 TAATAATGATTATAATAATGATT
*
757904 TAGTAATGATTTATAATAAT
1 TAATAATGA-TTATAATAAT
757924 AATAATTATT
Statistics
Matches: 148, Mismatches: 17, Indels: 34
0.74 0.09 0.17
Matches are distributed among these distances:
19 7 0.05
20 21 0.14
21 14 0.09
22 8 0.05
23 46 0.31
24 1 0.01
25 2 0.01
26 38 0.26
27 1 0.01
28 5 0.03
29 1 0.01
30 4 0.03
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (23 bp):
TAATAATGATTATAATAATGATT
Found at i:757844 original size:121 final size:118
Alignment explanation
Indices: 757609--757876 Score: 296
Period size: 121 Copynumber: 2.2 Consensus size: 118
757599 TCAATTAACC
* *
757609 ATAAAAATGATTTAATAATGATTTTAATATTTAATGATTTGATGATTTAGTAATGATTTTAATAT
1 ATAATAATGATTTAATAATGA-TTTAATATTTAATGATTTGATGATATAGTAATGATTTTAATAT
* * * * * * *
757674 TTAATGATTTGATGATTTGGTAATGATTTTAATATTATGATTTAGTAATAATCATT
65 ATAATGATATAATGATTTAGTAATAATTTTAATA-TATGATTTA-TAATAATAATG
*
757730 ATAATAATAATTTAATAATGACTTTAATATTTAATGATTTGATGATATAGTAATGATTTGATAAT
1 ATAATAATGATTTAATAATGA-TTTAATATTTAATGATTTGATGATATAGTAATGATTT--TAAT
* *
757795 A-ATCATTATAATAATGATTTAGTAATAATCATTATAATA-ATGA-TT-TAATAATAATG
63 ATATAATGAT-ATAATGATTTAGTAATAAT--TT-TAATATATGATTTATAATAATAATG
757851 ATAATAATGA--TAATAATGATTTAATA
1 ATAATAATGATTTAATAATGATTTAATA
757877 ATAATCATAA
Statistics
Matches: 127, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
118 7 0.06
119 9 0.07
121 73 0.57
122 5 0.04
123 22 0.17
124 4 0.03
125 2 0.02
126 5 0.04
ACGTcount: A:0.43, C:0.01, G:0.10, T:0.45
Consensus pattern (118 bp):
ATAATAATGATTTAATAATGATTTAATATTTAATGATTTGATGATATAGTAATGATTTTAATATA
TAATGATATAATGATTTAGTAATAATTTTAATATATGATTTATAATAATAATG
Found at i:757856 original size:9 final size:9
Alignment explanation
Indices: 757842--757929 Score: 60
Period size: 9 Copynumber: 9.9 Consensus size: 9
757832 TAATGATTTA
757842 ATAATAATG
1 ATAATAATG
757851 ATAATAATG
1 ATAATAATG
757860 ATAATAATG
1 ATAATAATG
*
757869 AT--T--TA
1 ATAATAATG
*
757874 ATAATAATC
1 ATAATAATG
757883 ATAATAATG
1 ATAATAATG
757892 ATTTAAT-ATG
1 A--TAATAATG
*
757902 ATTAGTAATG
1 A-TAATAATG
* *
757912 ATTTATAATA
1 A-TAATAATG
757922 ATAATAAT
1 ATAATAAT
757930 TATTACTAAT
Statistics
Matches: 64, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
5 3 0.05
7 2 0.03
9 40 0.62
10 15 0.23
11 4 0.06
ACGTcount: A:0.51, C:0.01, G:0.08, T:0.40
Consensus pattern (9 bp):
ATAATAATG
Found at i:757864 original size:32 final size:32
Alignment explanation
Indices: 757793--757893 Score: 124
Period size: 32 Copynumber: 3.3 Consensus size: 32
757783 TGATTTGATA
* * *
757793 ATAATCATTATAATAATGATTTAGTAATAATC
1 ATAATAATGATAATAATGATTTAATAATAATC
*
757825 ---AT--T-ATAATAATGATTTAATAATAATG
1 ATAATAATGATAATAATGATTTAATAATAATC
757851 ATAATAATGATAATAATGATTTAATAATAATC
1 ATAATAATGATAATAATGATTTAATAATAATC
757883 ATAATAATGAT
1 ATAATAATGAT
757894 TTAATATGAT
Statistics
Matches: 60, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
26 21 0.35
27 1 0.02
29 4 0.07
31 1 0.02
32 33 0.55
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (32 bp):
ATAATAATGATAATAATGATTTAATAATAATC
Found at i:760439 original size:29 final size:29
Alignment explanation
Indices: 760407--760483 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
760397 TTCCCTTAAA
760407 CAACTAATAAACT-TTCTTTAATATAACTT
1 CAACTAATAAACTATTCTTT-ATATAACTT
760436 CAACTAATAAACTATTCTTTATATAACTT
1 CAACTAATAAACTATTCTTTATATAACTT
* *
760465 AAACTAA-AAACGATT-TTTA
1 CAACTAATAAACTATTCTTTA
760484 ATTATAATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 4 0.09
28 7 0.16
29 28 0.62
30 6 0.13
ACGTcount: A:0.44, C:0.16, G:0.01, T:0.39
Consensus pattern (29 bp):
CAACTAATAAACTATTCTTTATATAACTT
Found at i:760699 original size:181 final size:183
Alignment explanation
Indices: 760439--760803 Score: 643
Period size: 185 Copynumber: 2.0 Consensus size: 183
760429 ATAACTTCAA
760439 CTAATAAACTATTCTTTATATAACTTAAACTAAAAACGATTTTTAATTATAATTCACTACTGAAA
1 CTAATAAACTATTCTTTATATAACTTAAACTAAAAACGATTTTTAATTATAATTCACTACTGAAA
760504 AAACTAATTAACTAAA-TTTTATAT-A-ATAAATTCAACAAATCATATGGCAACTTAACTATTTA
66 AAACTAATTAACTAAATTTTTATATAATATAAATTCAACAAATCATATGGCAACTTAACTATTTA
760566 ACTAACACAAACTAATTACATA-TTTTTT-TATATAACTAACTACTAACAAAC
131 ACTAACACAAACTAATTACATATTTTTTTATATATAACTAACTACTAACAAAC
760617 CTAATAAACTATTCTTTAATATAACTTAAAACTAATAAACGATTTTTTAATTATAATTCACTACT
1 CTAATAAACTATTCTTT-ATATAACTT-AAACTAA-AAACGA-TTTTTAATTATAATTCACTACT
760682 G-AAAAACTAATTAACTAAATTTTTTATATAATATAAATTCAACAAATCATATGGCAACTTAACT
62 GAAAAAACTAATTAACTAAA-TTTTTATATAATATAAATTCAACAAATCATATGGCAACTTAACT
760746 ATTTAACTAACACAAACTAATTACATATTTTTTTATATATAACTAACTACTAACAAAC
126 ATTTAACTAACACAAACTAATTACATATTTTTTTATATATAACTAACTACTAACAAAC
760804 TAACTAATTA
Statistics
Matches: 177, Mismatches: 0, Indels: 11
0.94 0.00 0.06
Matches are distributed among these distances:
178 17 0.10
179 9 0.05
180 7 0.04
181 24 0.14
182 23 0.13
183 8 0.05
184 1 0.01
185 59 0.33
186 6 0.03
187 23 0.13
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (183 bp):
CTAATAAACTATTCTTTATATAACTTAAACTAAAAACGATTTTTAATTATAATTCACTACTGAAA
AAACTAATTAACTAAATTTTTATATAATATAAATTCAACAAATCATATGGCAACTTAACTATTTA
ACTAACACAAACTAATTACATATTTTTTTATATATAACTAACTACTAACAAAC
Found at i:761496 original size:63 final size:63
Alignment explanation
Indices: 761397--761523 Score: 227
Period size: 63 Copynumber: 2.0 Consensus size: 63
761387 CCAACACTGT
* *
761397 ACAATTCGTCCTATTTAAGCAATTAATCTTGGGAGTACGTTATATCGTGAAATAAAAAACTCG
1 ACAATTCGCCCTATTTAAGCAATGAATCTTGGGAGTACGTTATATCGTGAAATAAAAAACTCG
*
761460 ACAATTCGCCCTATTTGAGCAATGAATCTTGGGAGTACGTTATATCGTGAAATAAAAAACTCG
1 ACAATTCGCCCTATTTAAGCAATGAATCTTGGGAGTACGTTATATCGTGAAATAAAAAACTCG
761523 A
1 A
761524 GAACATTATC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 61 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (63 bp):
ACAATTCGCCCTATTTAAGCAATGAATCTTGGGAGTACGTTATATCGTGAAATAAAAAACTCG
Found at i:761824 original size:130 final size:130
Alignment explanation
Indices: 761591--761851 Score: 513
Period size: 130 Copynumber: 2.0 Consensus size: 130
761581 TGTTCAATGA
761591 AGAGGTATTTTGTATGTCCATATCCTCGTGTAATTCTCGTAATTCTCCGATAATTTTCAAAGCTT
1 AGAGGTATTTTGTATGTCCATATCCTCGTGTAATTCTCGTAATTCTCCGATAATTTTCAAAGCTT
761656 CATTGGCTCTTAATTACGTTAACCTTTTTGTATTTCAGTTTACTCAGAGAGAGAGAGAGAGAGAG
66 CATTGGCTCTTAATTACGTTAACCTTTTTGTATTTCAGTTTACTCAGAGAGAGAGAGAGAGAGAG
761721 AGAGGTATTTTGTATGTCCATATCCTCGTGTAATTCTCGTAATTCTCCGATAATTTTCAAAGCTT
1 AGAGGTATTTTGTATGTCCATATCCTCGTGTAATTCTCGTAATTCTCCGATAATTTTCAAAGCTT
*
761786 CATTGGCTCTTAATTACGTTAACCTTTTTGTATTTCAGTTTACTCAGAGAGAGAGTGAGAGAGAG
66 CATTGGCTCTTAATTACGTTAACCTTTTTGTATTTCAGTTTACTCAGAGAGAGAGAGAGAGAGAG
761851 A
1 A
761852 TAGAGAGAGA
Statistics
Matches: 130, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
130 130 1.00
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (130 bp):
AGAGGTATTTTGTATGTCCATATCCTCGTGTAATTCTCGTAATTCTCCGATAATTTTCAAAGCTT
CATTGGCTCTTAATTACGTTAACCTTTTTGTATTTCAGTTTACTCAGAGAGAGAGAGAGAGAGAG
Found at i:771276 original size:31 final size:31
Alignment explanation
Indices: 771205--771282 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
771195 CTTTTAAAAC
** * *
771205 TTGCAATATAATCCCCCAACATTTAGTCCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCCGG
*
771236 TTGCAATATGGTCCCTCAACATTTAGTCTGG
1 TTGCAATATGGTCCCTCAACATTTAGTCCGG
771267 TTGCAATATGGTCCCT
1 TTGCAATATGGTCCCT
771283 GGCGTAACTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCCGG
Found at i:772511 original size:32 final size:31
Alignment explanation
Indices: 772459--772562 Score: 140
Period size: 31 Copynumber: 3.3 Consensus size: 31
772449 TTTTTAAAAC
** *
772459 TTGCAATATAATCCCCCAACATTTAGTCTGT
1 TTGCAATATGGTCCCTCAACATTTAGTCTGT
772490 TTGCAAATATGGTCCCTCAACATTTAG-CATGT
1 TTGC-AATATGGTCCCTCAACATTTAGTC-TGT
772522 TTGCAATATGGTCCCTCAACATTTAGT-TCGT
1 TTGCAATATGGTCCCTCAACATTTAGTCT-GT
772553 TTGCAATATG
1 TTGCAATATG
772563 ATCTCTGACG
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
30 1 0.02
31 39 0.59
32 26 0.39
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (31 bp):
TTGCAATATGGTCCCTCAACATTTAGTCTGT
Found at i:772828 original size:3 final size:3
Alignment explanation
Indices: 772820--772844 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
772810 GTTTACTTAT
772820 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
772845 ATTTAACTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:773073 original size:17 final size:17
Alignment explanation
Indices: 773028--773084 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
773018 TGATAGTTTA
*
773028 TATTATTTTATAATAAATT
1 TATT-TTTTA-AATAATTT
*
773047 AATTTATTTAAATAATTT
1 TATTT-TTTAAATAATTT
*
773065 TATTTTTTAAATCATTT
1 TATTTTTTAAATAATTT
773082 TAT
1 TAT
773085 AAATTATGCG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
17 14 0.42
18 12 0.36
19 7 0.21
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTTTAAATAATTT
Done.