Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008430.1 Hibiscus syriacus cultivar Beakdansim tig00111220_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: 1186098
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:711678 original size:21 final size:21
Alignment explanation
Indices: 711649--711701 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
711639 ATTCTGACTA
711649 TCGCATTGCGATTTACCAAAT
1 TCGCATTGCGATTTACCAAAT
* * *
711670 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACCAAAT
*
711691 TCGCAATGCGA
1 TCGCATTGCGA
711702 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTACCAAAT
Found at i:711716 original size:20 final size:20
Alignment explanation
Indices: 711691--711763 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
711681 TTTTCCTAAT
711691 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
711711 TCGCAACGCGATTATGTAAA
1 TCGCAATGCGAATACGTAAA
711731 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
711751 TCGCAATACGAAT
1 TCGCAATGCGAAT
711764 CTGACTATCG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:712379 original size:20 final size:20
Alignment explanation
Indices: 712354--712400 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
712344 CAACGAGTGA
712354 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
712374 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
712394 ATCGCAA
1 ATCGCAA
712401 CGAGAGAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:712484 original size:20 final size:20
Alignment explanation
Indices: 712447--712504 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
712437 GATTCTTGCG
**
712447 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
**
712467 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGTCATTTTCGCA
**
712487 TTGCGATTTTCATTTTCG
1 TTGCGATAGTCATTTTCG
712505 TGTTGCGATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:712505 original size:20 final size:20
Alignment explanation
Indices: 712476--712515 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
712466 ATTGCGATAG
712476 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
712496 TCATTTTCGTGTTGCGATTT
1 TCATTTTCGTGTTGCGATTT
712516 AAAGTTTCAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.15, G:0.20, T:0.55
Consensus pattern (20 bp):
TCATTTTCGTGTTGCGATTT
Found at i:712523 original size:20 final size:20
Alignment explanation
Indices: 712480--712523 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
712470 CGATAGTCAT
** *
712480 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
712500 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
712520 TTTC
1 TTTC
712524 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:714419 original size:20 final size:20
Alignment explanation
Indices: 714394--714559 Score: 227
Period size: 20 Copynumber: 8.6 Consensus size: 20
714384 AGAATAGTTT
714394 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
714414 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
714434 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
*
714450 A--ATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
714468 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
714488 ACTATCGCAATGAGAAAATG
1 ACTATCGCAATGCGAAAATG
714508 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
714528 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
*
714548 ACTATCGTAATG
1 ACTATCGCAATG
714560 AAAGAATCGC
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
14 6 0.05
16 4 0.03
17 4 0.03
18 4 0.03
20 112 0.86
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:714483 original size:54 final size:54
Alignment explanation
Indices: 714397--714578 Score: 247
Period size: 54 Copynumber: 3.3 Consensus size: 54
714387 ATAGTTTACT
* *
714397 ATCGCAATGCGAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGAGAGA
*
714451 ATCACAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGAGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGAG---A-GA
** * *
714509 CTATCGCAATGCGAAAATGACTATCGCAATGCGAATTTGACTATCGTAATGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGAGAGA
714565 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
714579 TGAAAATTGC
Statistics
Matches: 114, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
54 62 0.54
56 2 0.02
57 2 0.02
58 2 0.02
60 46 0.40
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.19
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATCGCAATGCGAAAATGACTATCGCAATGAGAGA
Found at i:714695 original size:20 final size:20
Alignment explanation
Indices: 714604--714703 Score: 81
Period size: 20 Copynumber: 5.3 Consensus size: 20
714594 GATTCTCTCG
**
714604 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
*
714624 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
714644 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
714658 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
714677 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
714697 TTGCGAT
1 TTGCGAT
714704 TTTAAGTTTC
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
14 7 0.11
16 6 0.09
17 4 0.06
18 1 0.02
19 10 0.15
20 37 0.57
ACGTcount: A:0.17, C:0.18, G:0.23, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:715278 original size:21 final size:21
Alignment explanation
Indices: 715187--715291 Score: 95
Period size: 21 Copynumber: 5.0 Consensus size: 21
715177 GACTCACCTG
*
715187 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
*
715209 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
715229 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
715250 ACACCGTTCAAGAGGCCACTT
1 TCATCGTTCAAGAGGCCCCTC
* *
715271 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
715292 CCAACATTCT
Statistics
Matches: 63, Mismatches: 19, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.05
21 59 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.36, G:0.18, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:716662 original size:14 final size:14
Alignment explanation
Indices: 716643--716678 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
716633 ATTGTTTAAT
716643 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
716657 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
716671 TGATTTGT
1 TGATTTGT
716679 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:716872 original size:33 final size:34
Alignment explanation
Indices: 716815--716910 Score: 122
Period size: 33 Copynumber: 2.9 Consensus size: 34
716805 AATGATTTCG
716815 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* * *
716849 CGTTGTGATTTTTA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
** * *
716882 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
716911 AGTCAATTCC
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 28 0.54
34 24 0.46
ACGTcount: A:0.14, C:0.22, G:0.21, T:0.44
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:716907 original size:20 final size:20
Alignment explanation
Indices: 716882--716989 Score: 131
Period size: 20 Copynumber: 5.7 Consensus size: 20
716872 GCGATTCTCT
716882 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
716902 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
716922 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
716942 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
716962 CGTT--G-T-G--ATTTCCG
1 CGTTGCGATAGTCATTTCCG
716976 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
716990 AATGAATGTC
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
13 2 0.03
14 8 0.11
16 2 0.03
17 2 0.03
18 2 0.03
20 56 0.76
21 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:719433 original size:24 final size:24
Alignment explanation
Indices: 719399--719452 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
719389 CTGAAAAATC
719399 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
719423 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
719447 ATCAAA
1 ATCAAA
719453 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:720327 original size:20 final size:20
Alignment explanation
Indices: 720312--720459 Score: 244
Period size: 20 Copynumber: 7.4 Consensus size: 20
720302 GTCAGAATCT
720312 CGTTGCGATTTACAG-ATTCG
1 CGTTGCGATTTAC-GTATTCG
*
720332 CATTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
* *
720352 CGTTGCGATTTGCGTAATCG
1 CGTTGCGATTTACGTATTCG
720372 CGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
720392 CGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
720412 CGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
720432 CGTTGCGATTTACGTATTCG
1 CGTTGCGATTTACGTATTCG
*
720452 CATTGCGA
1 CGTTGCGA
720460 ATCAGGAAAA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
19 1 0.01
20 119 0.99
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.38
Consensus pattern (20 bp):
CGTTGCGATTTACGTATTCG
Found at i:720480 original size:21 final size:21
Alignment explanation
Indices: 720456--720501 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
720446 TATTCGCATT
720456 GCGAATCAGGAAAATCGCAAC
1 GCGAATCAGGAAAATCGCAAC
** * *
720477 GCGAATTTGGGAAATCGCAAT
1 GCGAATCAGGAAAATCGCAAC
720498 GCGA
1 GCGA
720502 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (21 bp):
GCGAATCAGGAAAATCGCAAC
Found at i:727003 original size:16 final size:15
Alignment explanation
Indices: 726971--727013 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
726961 TAAAATTTGT
*
726971 TAAAATAATTAAATA
1 TAAAATAAATAAATA
726986 TAAAATAAATATAATA
1 TAAAATAAATA-AATA
727002 TAATAA-AAATAA
1 TAA-AATAAATAA
727014 TTTTACCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 11 0.44
16 12 0.48
17 2 0.08
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAAATAAATAAATA
Found at i:729737 original size:22 final size:22
Alignment explanation
Indices: 729712--729759 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
729702 GGGAGAGACT
729712 TTGCTAGAAGCAGAAGCCTCTG
1 TTGCTAGAAGCAGAAGCCTCTG
729734 TTGCTAGAAGCAGAAGCCTCTG
1 TTGCTAGAAGCAGAAGCCTCTG
729756 TTGC
1 TTGC
729760 CTCGTGTAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (22 bp):
TTGCTAGAAGCAGAAGCCTCTG
Found at i:734434 original size:23 final size:23
Alignment explanation
Indices: 734408--734476 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
734398 CACCACAACT
*
734408 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * * *
734431 CGTAGAATTACACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
734454 CATAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
734477 TATAAAGTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.26, G:0.23, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:734622 original size:103 final size:103
Alignment explanation
Indices: 734485--734809 Score: 566
Period size: 103 Copynumber: 3.2 Consensus size: 103
734475 CATATAAAGT
*
734485 TGTCCCTAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
*
734550 CTCAACAGACCTCACACCTGTTCCAAAGAATACATATA
66 CTCAACAGACCTCACACCTATTCCAAAGAATACATATA
*
734588 TGTCCCGAAGGACCACATATCATTCCTTATGAATCATATACATATGCCAAAGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
*
734653 CTCAACAGACCTCACACATATTCCAAAGAATACATATA
66 CTCAACAGACCTCACACCTATTCCAAAGAATACATATA
*
734691 TATCCCGAAGGACCACATATCA-TCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTG-
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
734754 -TCAACAGACCTCACACCTATTCCAAAGAATACATATA
66 CTCAACAGACCTCACACCTATTCCAAAGAATACATATA
**
734791 TGTCCTAAAGGACCACATA
1 TGTCCCGAAGGACCACATA
734810 GACCCTCTAC
Statistics
Matches: 212, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
100 52 0.25
102 40 0.19
103 120 0.57
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (103 bp):
TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
CTCAACAGACCTCACACCTATTCCAAAGAATACATATA
Found at i:741858 original size:103 final size:103
Alignment explanation
Indices: 741562--741885 Score: 584
Period size: 103 Copynumber: 3.2 Consensus size: 103
741552 CATATAAAGT
*
741562 TGTCCCTAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
741627 CTCAACAGACCTCACACCTGTTCCAAAGAATAC--ATA
66 CTCAACAGACCTCACACCTGTTCCAAAGAATACATATA
741663 TGTCCCGAAGGACCAC--ATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
741726 CTCAACAGACCTCACACCTGTTCCAAAGAATACATATA
66 CTCAACAGACCTCACACCTGTTCCAAAGAATACATATA
*
741764 TGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
1 TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
*
741829 CTCAATAGACCTCACACCTGTTCCAAAGAATACATATA
66 CTCAACAGACCTCACACCTGTTCCAAAGAATACATATA
*
741867 TGTCTCGAAGGACCACATA
1 TGTCCCGAAGGACCACATA
741886 GACCCTCTAC
Statistics
Matches: 214, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
99 80 0.37
101 33 0.15
103 101 0.47
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.25
Consensus pattern (103 bp):
TGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAAGATCAAGTATGTGT
CTCAACAGACCTCACACCTGTTCCAAAGAATACATATA
Found at i:756150 original size:32 final size:31
Alignment explanation
Indices: 756097--756156 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
756087 GTTATAAATT
*
756097 TTAAAATAGTATATATTTTAATATATTTAGA
1 TTAAAATAATATATATTTTAATATATTTAGA
*
756128 TTAATAATAATATAT-TTGTTAATTTATTT
1 TTAA-AATAATATATATT-TTAATATATTT
756157 TAAAAGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
TTAAAATAATATATATTTTAATATATTTAGA
Found at i:762770 original size:4 final size:4
Alignment explanation
Indices: 762763--763741 Score: 1817
Period size: 4 Copynumber: 248.2 Consensus size: 4
762753 TATATATATA
762763 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
762811 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
762859 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
762907 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
762955 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763003 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763051 TATTG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TA-TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763100 TATG TATG -ATG TATG TATG TATG TATG TATG TATG TATG TATG TAT-
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763146 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
763194 TATG TCTG TATG TATG TATG TA-- TATG TA-G TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
763239 TAT- TATG TATG TAGG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763285 TATG TATG TATG TATG TATG TATG TATG TATG T-TG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763332 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763380 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763428 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
763475 TATG TATG TATG TAGG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763523 TATG TATG TATG TATG TATG TATG TATG TATG TATG --TG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763569 TATG TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763616 TATG TATG TATG TATG TATG TATG TATG TATG TA-G TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763663 TATG TA-- TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
763709 TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG T
763742 GTATATAGCT
Statistics
Matches: 953, Mismatches: 6, Indels: 32
0.96 0.01 0.03
Matches are distributed among these distances:
2 6 0.01
3 27 0.03
4 916 0.96
5 4 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:764657 original size:15 final size:15
Alignment explanation
Indices: 764621--764660 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
764611 ACCCTAATTT
764621 TTCATCTTTTTCTTG
1 TTCATCTTTTTCTTG
*
764636 TGCCATCTTTTTCTTG
1 T-TCATCTTTTTCTTG
764652 TTCATCTTT
1 TTCATCTTT
764661 GTAATTGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.07, C:0.23, G:0.07, T:0.62
Consensus pattern (15 bp):
TTCATCTTTTTCTTG
Found at i:767381 original size:16 final size:16
Alignment explanation
Indices: 767360--767393 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
767350 GAATTATGCC
767360 TTGTGACTTAAGACAT
1 TTGTGACTTAAGACAT
767376 TTGTGACTTAAGACAT
1 TTGTGACTTAAGACAT
767392 TT
1 TT
767394 ATTTTATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (16 bp):
TTGTGACTTAAGACAT
Found at i:773108 original size:2 final size:2
Alignment explanation
Indices: 773101--773136 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
773091 CCAATTTTTC
773101 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
773137 CTTAATGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:774260 original size:22 final size:22
Alignment explanation
Indices: 774230--774287 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
774220 GAACATAGCG
*
774230 GCGGAGCAGTTGGATGTAGGCA
1 GCGGAGCAGTTGGATATAGGCA
* *
774252 GCGGGGCAGTTGGATATAGGCG
1 GCGGAGCAGTTGGATATAGGCA
* *
774274 GCAGAGTAGTTGGA
1 GCGGAGCAGTTGGA
774288 GGCATCACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.12, G:0.47, T:0.19
Consensus pattern (22 bp):
GCGGAGCAGTTGGATATAGGCA
Found at i:774452 original size:17 final size:18
Alignment explanation
Indices: 774430--774473 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
774420 TCTGGTCTTG
*
774430 TTGGGCCTTC-AGGTTAT
1 TTGGGCCTGCTAGGTTAT
*
774447 TTGGGCCTGCTGGGTTAT
1 TTGGGCCTGCTAGGTTAT
774465 TTGGGCCTG
1 TTGGGCCTG
774474 GATCATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 9 0.38
18 15 0.62
ACGTcount: A:0.07, C:0.18, G:0.36, T:0.39
Consensus pattern (18 bp):
TTGGGCCTGCTAGGTTAT
Found at i:774596 original size:14 final size:14
Alignment explanation
Indices: 774577--774610 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
774567 AATAATATTT
774577 ATAATA-ATACAATA
1 ATAATATATA-AATA
774591 ATAATATATAAATA
1 ATAATATATAAATA
774605 ATAATA
1 ATAATA
774611 GAAAACAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 16 0.84
15 3 0.16
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATATATAAATA
Found at i:774604 original size:11 final size:12
Alignment explanation
Indices: 774566--774607 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
774556 TCTTATTTAT
*
774566 TAATAATATTTA
1 TAATAATATATA
*
774578 TAATAATACA-A
1 TAATAATATATA
774589 TAATAATATATA
1 TAATAATATATA
774601 -AATAATA
1 TAATAATA
774608 ATAGAAAACA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAATATATA
Found at i:774977 original size:137 final size:137
Alignment explanation
Indices: 774773--775213 Score: 659
Period size: 137 Copynumber: 3.2 Consensus size: 137
774763 AAACTAGTGT
* *
774773 ATGACATTGTTCCTT-GTTATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACTCGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * ** * *
774837 CCTTCGTGATGAGGACATCTGGCTATCTAAGGATGATGTTGCTCCTTTATGATGAGGAATTCTAA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGGAGTTCTGA
**
774902 TCAATGG
131 TCGGTGG
*
774909 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACAGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * *
774974 CCTTCGTGATGAGGACATCTGGTTATCTAATGATGATGATGCTTCTTCGTGATGAGGAGTTATGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGGAGTTCTGA
775039 TCGGTGG
131 TCGGTGG
* * * * * * *
775046 ATGACATTATTCCTTCATGATGAGGACGTTTGGCCATCTTTAAAGATATTTAAAATAACATGGTT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
* * *
775111 CCTTCATGATGAGGATATATGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGGAGTTCTGA
66 CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGGAGTTCTGA
775176 TCGGTGG
131 TCGGTGG
775183 ATGACATTGTTCCTTCGTGATGAGGACGTCT
1 ATGACATTGTTCCTTCGTGATGAGGACGTCT
775214 GGTTATTTAA
Statistics
Matches: 273, Mismatches: 31, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
136 15 0.05
137 258 0.95
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (137 bp):
ATGACATTGTTCCTTCGTGATGAGGACGTCTAGCCATCTTTAAAGATATTTGAGATAACACGGTT
CCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGGAGTTCTGA
TCGGTGG
Found at i:775243 original size:220 final size:220
Alignment explanation
Indices: 774971--775370 Score: 613
Period size: 220 Copynumber: 1.8 Consensus size: 220
774961 AGATAACACA
* * *
774971 GTTCCTTCGTGATGAGGACATCTGGTTATCTAATGATGATGATGCTTCTTCGTGATGAGGAGTTA
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGATACATCTTCGTGATGAGGAGTTA
775036 T-GATCGGTGGATGACATTATTCCTTCATGATGAGGACGTTTGGCCATCTTTAAAGATATTTAAA
66 TAG-TCGGTGGATGACATTATTCCTTCATGATGAGGACGTTTGGCCATCTTTAAAGATATTTAAA
* *
775100 ATAACATGGTTCCTTCATGATGAGGATATATGGTTATCTAAGGATGATGTTGCTTCTTCGTGATG
130 ATAACACGGTTCCTTCATGATGAGGACATATGGTTATCTAAGGATGATGTTGCTTCTTCGTGATG
775165 AGGAGTTCTGATCGGTGGATGACATT
195 AGGAGTTCTGATCGGTGGATGACATT
* * * *
775191 GTTCCTTCGTGATGAGGACGTCTGGTTATTTAAGGATGATGCTACATCTTCGTGATGAGGAGTTC
1 GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGATACATCTTCGTGATGAGGAGTTA
* * ** * * *
775256 TAGTCGGTGGATGTCATTGTTCCTTTGTGATGAGGACGTTTGGCCATCTTTAAATATATTTGAGA
66 TAGTCGGTGGATGACATTATTCCTTCATGATGAGGACGTTTGGCCATCTTTAAAGATATTTAAAA
* * *
775321 TAACACGGTTCCTTCGTGATGAGGACGTCTGGTTATCTAAGGATGATGTT
131 TAACACGGTTCCTTCATGATGAGGACATATGGTTATCTAAGGATGATGTT
775371 TCCTAAAATA
Statistics
Matches: 160, Mismatches: 19, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
220 159 0.99
221 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (220 bp):
GTTCCTTCGTGATGAGGACATCTGGTTATCTAAGGATGATGATACATCTTCGTGATGAGGAGTTA
TAGTCGGTGGATGACATTATTCCTTCATGATGAGGACGTTTGGCCATCTTTAAAGATATTTAAAA
TAACACGGTTCCTTCATGATGAGGACATATGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGA
GGAGTTCTGATCGGTGGATGACATT
Found at i:775247 original size:83 final size:83
Alignment explanation
Indices: 775103--775294 Score: 269
Period size: 83 Copynumber: 2.3 Consensus size: 83
775093 ATTTAAAATA
* * ** * * *
775103 ACATGGTTCCTTCATGATGAGGATATATGGTTATCTAAGGATGATGTTGCTTCTTCGTGATGAGG
1 ACATTGTTCCTTCGTGATGAGGACGTATGGTTATCTAAGGATGATGCTACATCTTCGTGATGAGG
775168 AGTTCT-GATCGGTGGATG
66 AGTTCTAG-TCGGTGGATG
* *
775186 ACATTGTTCCTTCGTGATGAGGACGTCTGGTTATTTAAGGATGATGCTACATCTTCGTGATGAGG
1 ACATTGTTCCTTCGTGATGAGGACGTATGGTTATCTAAGGATGATGCTACATCTTCGTGATGAGG
775251 AGTTCTAGTCGGTGGATG
66 AGTTCTAGTCGGTGGATG
* *
775269 TCATTGTTCCTTTGTGATGAGGACGT
1 ACATTGTTCCTTCGTGATGAGGACGT
775295 TTGGCCATCT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 96 0.99
84 1 0.01
ACGTcount: A:0.20, C:0.14, G:0.30, T:0.36
Consensus pattern (83 bp):
ACATTGTTCCTTCGTGATGAGGACGTATGGTTATCTAAGGATGATGCTACATCTTCGTGATGAGG
AGTTCTAGTCGGTGGATG
Found at i:780157 original size:45 final size:46
Alignment explanation
Indices: 780069--780159 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
780059 TTTGAAAAAC
* * *
780069 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCAAGGTCATGTGCATCGATGCATAAAATGCA
780115 CTGAGTGCATCGATGCAAGG-CATGTGCATCGATGCATAAAATGCA
1 CTGAGTGCATCGATGCAAGGTCATGTGCATCGATGCATAAAATGCA
780160 TTTGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 23 0.55
46 19 0.45
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (46 bp):
CTGAGTGCATCGATGCAAGGTCATGTGCATCGATGCATAAAATGCA
Found at i:782988 original size:24 final size:24
Alignment explanation
Indices: 782911--783015 Score: 112
Period size: 24 Copynumber: 4.5 Consensus size: 24
782901 CATGACCCCG
**
782911 TGCATCGATGCACATTC-AAGGCG
1 TGCATCGATGCACATTCAAAGGAA
* *
782934 TGCATCGGTG--CA-TCAACATG-A
1 TGCATCGATGCACATTCAA-AGGAA
*
782955 TGAATCGATGCACATTCAAAGGAA
1 TGCATCGATGCACATTCAAAGGAA
*
782979 TGCATTGATGCACATTCAAAGGAA
1 TGCATCGATGCACATTCAAAGGAA
783003 TGCATCGATGCAC
1 TGCATCGATGCAC
783016 TGTTAAGTGT
Statistics
Matches: 67, Mismatches: 9, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
20 2 0.03
21 11 0.16
22 2 0.03
23 13 0.19
24 39 0.58
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (24 bp):
TGCATCGATGCACATTCAAAGGAA
Found at i:788755 original size:45 final size:46
Alignment explanation
Indices: 788667--788757 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 46
788657 TTTGAAAAAC
* * *
788667 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGAATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
*
788713 CTGAGTGAATCGATGCATGGT-ATGTGCTTCGATGCATAAAATGCA
1 CTGAGTGAATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
788758 TTCGATGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 21 0.51
46 20 0.49
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGAATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:794620 original size:163 final size:165
Alignment explanation
Indices: 794410--794740 Score: 594
Period size: 163 Copynumber: 2.0 Consensus size: 165
794400 ATTTAGAGAG
*
794410 TTTCTTGAGAGTTGTTTTTCTCCTTTTTTTTATCAAGAGAAAATTATCATTGTTTTCTCCTTGGT
1 TTTCTTAAGAGTTGTTTTTCTCCTTTTTTTTATCAAGAGAAAATTATCATTGTTTTCTCCTTGGT
794475 AGATCGAGAGAGGTTGTAATTCCTATTTTCTCATAGTGAAATTCTTCTACCGTTGCCCGTGGTTT
66 AGATCGAGAGAGGTTGTAATTCCTATTTTCTCATAGTGAAATTCTTCTACCGTTGCCCGTGGTTT
794540 TTACCCTATATTATTTAGGGATTTTCCACGTAAAT
131 TTACCCTATATTATTTAGGGATTTTCCACGTAAAT
* * *
794575 TTTCTTAAGAGTTG-TTTTCT-CTTTTTTTTATTAAGATAGAATTATCATTGTTTTCTCCTTGGT
1 TTTCTTAAGAGTTGTTTTTCTCCTTTTTTTTATCAAGAGAAAATTATCATTGTTTTCTCCTTGGT
*
794638 AGATCGAGAGAGGTTGTAATTCCTATTTTCTCATAGTGAAATTCTTCTACCGTTGCTCGTGGTTT
66 AGATCGAGAGAGGTTGTAATTCCTATTTTCTCATAGTGAAATTCTTCTACCGTTGCCCGTGGTTT
*
794703 TTACCCTATATTATTTAGGGATTTTTCACGTAAAT
131 TTACCCTATATTATTTAGGGATTTTCCACGTAAAT
794738 TTT
1 TTT
794741 GTATCTCTTT
Statistics
Matches: 160, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
163 141 0.88
164 6 0.04
165 13 0.08
ACGTcount: A:0.22, C:0.15, G:0.16, T:0.47
Consensus pattern (165 bp):
TTTCTTAAGAGTTGTTTTTCTCCTTTTTTTTATCAAGAGAAAATTATCATTGTTTTCTCCTTGGT
AGATCGAGAGAGGTTGTAATTCCTATTTTCTCATAGTGAAATTCTTCTACCGTTGCCCGTGGTTT
TTACCCTATATTATTTAGGGATTTTCCACGTAAAT
Found at i:799673 original size:2 final size:2
Alignment explanation
Indices: 799666--799693 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
799656 CTAAAATGGA
799666 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
799694 CATTATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:803329 original size:57 final size:60
Alignment explanation
Indices: 803266--803387 Score: 151
Period size: 59 Copynumber: 2.1 Consensus size: 60
803256 TAAAGTACAC
* * *
803266 AAATGGTCCC-C-ACTATAATATATCACTTTGTTGAGTCATTCGATTATT-AAAGTTAAA
1 AAATGGTCCCTCAACTATAAGATATCACTTTGTAGAGTCATTCGACTATTAAAAGTTAAA
* * * * *
803323 AAATGGTCCCTCAACTATAAGATGTTATTTTGTAGAGTCATTTGACTATTAAAAGTTATA
1 AAATGGTCCCTCAACTATAAGATATCACTTTGTAGAGTCATTCGACTATTAAAAGTTAAA
803383 AAATG
1 AAATG
803388 ATCACCCGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
57 10 0.19
58 1 0.02
59 30 0.56
60 13 0.24
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.37
Consensus pattern (60 bp):
AAATGGTCCCTCAACTATAAGATATCACTTTGTAGAGTCATTCGACTATTAAAAGTTAAA
Found at i:805949 original size:2 final size:2
Alignment explanation
Indices: 805942--805966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
805932 AATACAAGTA
805942 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
805967 AATTCAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:831287 original size:87 final size:87
Alignment explanation
Indices: 831141--831303 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
831131 TATGTTATAT
831141 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATACAT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATACAT
831206 AGCGCTTATATAATAAAATAGG
66 AGCGCTTATATAATAAAATAGG
* **
831228 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAGCGCTTATATAATGTAATAGGT
1 TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATACAT
831293 AGCGCTTATAT
66 AGCGCTTATAT
831304 TGACCTATTT
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (87 bp):
TATTTAACCGGAAATATTATCAAGTACAATAACATATTAGGTAACGCTTATATAATGTAATACAT
AGCGCTTATATAATAAAATAGG
Found at i:832176 original size:23 final size:23
Alignment explanation
Indices: 832146--832218 Score: 137
Period size: 23 Copynumber: 3.2 Consensus size: 23
832136 ATAATTTACA
832146 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
832169 ATATAAGCGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
832192 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
832215 ATAT
1 ATAT
832219 TTTTGTCTAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.36, C:0.22, G:0.08, T:0.34
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:835518 original size:184 final size:184
Alignment explanation
Indices: 835209--835696 Score: 854
Period size: 184 Copynumber: 2.7 Consensus size: 184
835199 AAAAGTATGG
*
835209 ACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATTTAT
1 ACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTAT
835274 ACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCAAC
66 ACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCAAC
*
835339 ACTTTTTGAAAAGGTTATCGACAC-TTTTTCATCCATTCTGAACATAAAGTTGCA
131 ACTTTTTGAAAAGG-TATCGACACTTTTTTCATCCATTCTGAACATAAAGTAGCA
* *
835393 ACACAATATCAAAAAGTATCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTAT
1 ACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTAT
* *
835458 ACCGGTTATATTACAAAATTACTTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCGAC
66 ACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCAAC
* *
835523 ACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGGACATAAAGTAGCG
131 ACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGAACATAAAGTAGCA
*
835577 ACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTAT
1 ACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTAT
* *
835642 ACCGGTTATATTACAAAATTACCTATTACATTATAA-TATGGGTTCTGATGCTTTT
66 ACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTT
835697 GAGGTCGTTA
Statistics
Matches: 289, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
183 26 0.09
184 263 0.91
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.37
Consensus pattern (184 bp):
ACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCTCTCATAAAACCGGTATATCTAT
ACCGGTTATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTTTTTTCAATCAAC
ACTTTTTGAAAAGGTATCGACACTTTTTTCATCCATTCTGAACATAAAGTAGCA
Found at i:839361 original size:392 final size:391
Alignment explanation
Indices: 838522--839880 Score: 2136
Period size: 392 Copynumber: 3.5 Consensus size: 391
838512 ATATTTAAAT
*
838522 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAACCGGT
*
838587 ATACTTATACGGTTAGATTGAAAAAATTACCTATTACATATACTTATGGG-TTCGAAGTTTCTGG
66 ATACTTATACGGTTAGATTG-AAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGG
* * *
838651 GATCGATACCTTTTATATGGATCGACACTTTATGG-TGCACCCTGTTTGCCATTCATTTTGGACC
130 GATCGACACCTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACC
** * *
838715 AAT-GTATCGATTCAAAATTAAAATGTGTCGATACATATAT-TCACCTATTCTCTCATAAAACCG
195 AATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATAT-ACCTAATCTCTCATAAAA-CG
* *
838778 GTATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCAAT-ATTC
258 GT-TACTTATACCGGTTAGATTGAAAAATTACCTATTACA-TATACTTATGGGTTTCGATGTTTC
* *
838842 TGGGATCAAACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTT
321 TGGGATC-GACA-CTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTA
838907 TGGACCAA
384 TGGACCAA
** *
838915 TAGTATCGATTCAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAATCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAACCGGT
*
838980 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTA
66 ATACTTATA-CGGTTAGATTGAAAAATTACCTATTACA-TATACTTATGGGTTTCGATGTTTCTG
839045 GGATCGACACCTTATATATGGATCGACACTTTATGGTTGCACCCTG-TTGCCATTCATTCTGGAC
129 GGATCGACACCTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
*
839109 CAATAGTATCAACACAAAATTAAAAAGTGTCGATACATATATATACCTAATCTCTCATAAAACTG
194 CAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATATACCTAATCTCTCATAAAAC-G
839174 GTTACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGG-TTCGATGTTTCTG
258 GTTACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTG
* * *
839238 GGATCGACACATTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTGGCATTCATTATGGA
323 GGATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGA
839303 CCAA
388 CCAA
* * *
839307 TAGTATCGACACAAAATTAAAAAGTGTCGATATATAT-TATATACCTAATCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATAT-TACACCTATTCTCTCATAAAACCGG
839371 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
65 TATACTTATA-CGGTTAGATTGAAAAATTACCTATTACA-TATACTTATGGGTTTCGATGTTTCT
*
839436 -GGATCGACACCTTTTATATATGGATCGAAAC-TTATGGTTGCACCCTGTTTGCCA-TCATTCTG
128 GGGATCGACACC--TTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
839498 GACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCT-TC-TAAA
191 GACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATA-TATATACCTAATCTCTCAT-AA
* *
839561 AACGGTAACTTATACCGGTTAGATTAAAAAATTACCTATTACAT-TACTTATGGGTTTCGATGTT
254 AACGGTTACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTT
839625 TCTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATT
319 TCTGGGATCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATT
* *
839690 CTGGACTAA
383 ATGGACCAA
* *
839699 TAGTATCGACACAAAATTAAAAAGTATCGATACATATATTGCACCTATTCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAACCGGT
*
839764 ATACTTATACGGTTATATTGAAAAATTACCTATTACATATACTTATGGGTTT-GATGTTTCTGGG
66 ATACTTATACGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGGG
**
839828 ATCGACATTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 ATCGACA-CCTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
839881 ATTGTAAATT
Statistics
Matches: 900, Mismatches: 45, Indels: 44
0.91 0.05 0.04
Matches are distributed among these distances:
389 26 0.03
390 57 0.06
391 102 0.11
392 370 0.41
393 133 0.15
394 45 0.05
395 104 0.12
396 62 0.07
397 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (391 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAACCGGT
ATACTTATACGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGGG
ATCGACACCTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCA
ATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATATACCTAATCTCTCATAAAACGGTT
ACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTATGGACCA
A
Found at i:839502 original size:197 final size:198
Alignment explanation
Indices: 838522--839880 Score: 2120
Period size: 197 Copynumber: 6.9 Consensus size: 198
838512 ATATTTAAAT
* *
838522 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTACACCTATTATCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATA-TATACCTATTCTCTCATAAAACCGGT
*
838587 ATACTTATA-CGGTTAGATTGAAAAAATTACCTATTACATATACTTATGGG-TTCGAAGTTTCTG
65 ATACTTATACCGGTTAGATTG-AAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTG
* *
838650 GGATCGATACC-TTT-TATATGGATCGACACTTTATGG-TGCACCCTGTTTGCCATTCATTTTGG
129 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
838712 ACCAA
194 ACCAA
** *
838717 T-GTATCGATTCAAAATTAAAATGTGTCGATACATATAT-TCACCTATTCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATAT-ACCTATTCTCTCATAAAACCGGT
* *
838780 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCAAT-ATTCTG
65 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACA-TATACTTATGGGTTTCGATGTTTCTG
* *
838844 GGATCAAACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTTTG
129 GGATC-GACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTG
838909 GACCAA
193 GACCAA
** * *
838915 TAGTATCGATTCAAAATTAAAAAGTGTCGATACATATATTACACCTATTCTCTCATAAAATCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATA-TATACCTATTCTCTCATAAAACCGGT
*
838980 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTA
65 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACA-TATACTTATGGGTTTCGATGTTTCTG
839045 GGATCGACACC--TTATATATGGATCGACACTTTATGGTTGCACCCTG-TTGCCATTCATTCTGG
129 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
839107 ACCAA
194 ACCAA
* * *
839112 TAGTATCAACACAAAATTAAAAAGTGTCGATACATATATATACCTAATCTCTCATAAAACTGGT-
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATATACCTATTCTCTCATAAAACCGGTA
839176 TACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGG-TTCGATGTTTCTGGG
66 TACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGGG
* * * *
839240 ATCGACA-CATTTATATATGGATCAACACTTTATGGTTGCACCCTGTTTGGCATTCATTATGGAC
131 ATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
839304 CAA
196 CAA
* *
839307 TAGTATCGACACAAAATTAAAAAGTGTCGATATATATTATATACCTAATCTCTCATAAAACCGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATA-TATATACCTATTCTCTCATAAAACCGGT
839372 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT-
65 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACA-TATACTTATGGGTTTCGATGTTTCTG
*
839436 GGATCGACACCTTTTATATATGGATCGAAAC-TTATGGTTGCACCCTGTTTGCCA-TCATTCTGG
129 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
839499 ACCAA
194 ACCAA
* *
839504 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATTATATACCTAATCT-TC-TAAAAACGGT
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATA-TATATACCTATTCTCTCATAAAACCGGT
*
839567 A-ACTTATACCGGTTAGATTAAAAAATTACCTATTACAT-TACTTATGGGTTTCGATGTTTCTGG
65 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGG
*
839630 GATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
130 GATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
*
839695 CTAA
195 CCAA
*
839699 TAGTATCGACACAAAATTAAAAAGTATCGATACATATAT-TGCACCTATTCTCTCATAAAACCGG
1 TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATAT--ACCTATTCTCTCATAAAACCGG
*
839763 TATACTTATA-CGGTTATATTGAAAAATTACCTATTACATATACTTATGGGTTT-GATGTTTCTG
64 TATACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTG
*
839826 GGATCGACA-TTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
129 GGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
839881 ATTGTAAATT
Statistics
Matches: 1087, Mismatches: 48, Indels: 57
0.91 0.04 0.05
Matches are distributed among these distances:
192 24 0.02
193 101 0.09
194 173 0.16
195 165 0.15
196 102 0.09
197 233 0.21
198 130 0.12
199 65 0.06
200 85 0.08
201 9 0.01
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.36
Consensus pattern (198 bp):
TAGTATCGACACAAAATTAAAAAGTGTCGATACATATATATACCTATTCTCTCATAAAACCGGTA
TACTTATACCGGTTAGATTGAAAAATTACCTATTACATATACTTATGGGTTTCGATGTTTCTGGG
ATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
CAA
Found at i:840129 original size:19 final size:19
Alignment explanation
Indices: 840105--840154 Score: 82
Period size: 20 Copynumber: 2.6 Consensus size: 19
840095 TTACATTCAC
840105 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
840124 ATACAAAAATTATAAATCTT
1 ATAC-AAAATTATAAATCGT
840144 ATACAAAATTA
1 ATACAAAATTA
840155 ACCCTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:841893 original size:18 final size:18
Alignment explanation
Indices: 841870--841927 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
841860 CTTCCATCTC
841870 TTCTTCTTCCTCCCTCTT
1 TTCTTCTTCCTCCCTCTT
*
841888 TTCTTC--CGT--CTCTT
1 TTCTTCTTCCTCCCTCTT
*
841902 CTTCTTCATCCTCCCTCTT
1 -TTCTTCTTCCTCCCTCTT
*
841921 GTCTTCT
1 TTCTTCT
841928 ATATTTTTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 2 0.06
17 2 0.06
18 11 0.35
19 5 0.16
ACGTcount: A:0.02, C:0.41, G:0.03, T:0.53
Consensus pattern (18 bp):
TTCTTCTTCCTCCCTCTT
Found at i:841893 original size:30 final size:32
Alignment explanation
Indices: 841857--841926 Score: 99
Period size: 30 Copynumber: 2.2 Consensus size: 32
841847 TTCCTCTTCA
841857 TTTCTTCCATCTCTTCTTC-T-TCCTCCCTCT
1 TTTCTTCCATCTCTTCTTCTTATCCTCCCTCT
*
841887 TTTCTTCCGTCTCTTCTTCTTCATCCTCCCTCT
1 TTTCTTCCATCTCTTCTTCTT-ATCCTCCCTCT
*
841920 TGTCTTC
1 TTTCTTC
841927 TATATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
30 18 0.51
31 1 0.03
33 16 0.46
ACGTcount: A:0.03, C:0.41, G:0.03, T:0.53
Consensus pattern (32 bp):
TTTCTTCCATCTCTTCTTCTTATCCTCCCTCT
Found at i:842230 original size:21 final size:21
Alignment explanation
Indices: 842206--842248 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
842196 CCCTTATGCA
842206 TCTCAAGTGTATCTTCGACTC
1 TCTCAAGTGTATCTTCGACTC
* *
842227 TCTCAAGTTTCTCTTCGACTC
1 TCTCAAGTGTATCTTCGACTC
842248 T
1 T
842249 TGATTGTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCAAGTGTATCTTCGACTC
Found at i:844362 original size:20 final size:19
Alignment explanation
Indices: 844307--844353 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
844297 TCTGGTAGCG
844307 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
844326 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
844347 TTTTACC
1 TTTTACC
844354 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:844717 original size:179 final size:175
Alignment explanation
Indices: 844274--844739 Score: 632
Period size: 177 Copynumber: 2.6 Consensus size: 175
844264 CGTACTTACG
*
844274 AAAGTATCGACACTTTTAATATATCTGGTAGCGTTTTACCGGTTTTATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATATCT-GTAGCGTTTTACCGG-TTTATCATTTTGATACCGGTTT
*
844339 TATCATATTTTTACCTGTTATATCGTTGTGGATCGATACA--TTTTTTAAAGTATCGACACTTTA
64 TATCATATTTATA--TGTTATATCGTTGTGGATCGATACATTTTTTTTAAAGTATCGACACTTTA
*
844402 TAAGCGCTAAACTGCTCTCTTTTAATTCACAAAGTGTCGATCCTTATAT
127 TAAGCGCTAAACTGCTCTCTTTTAATTAACAAAGTGTCGATCCTTATAT
* * * *
844451 AAAGTATCGACACTTTCAATACATCCGGTAGCGTTTTATCGGTTTCATCATTTTGATACCGGTTT
1 AAAGTATCGACACTTTAAATATAT-CTGTAGCGTTTTACCGGTTT-ATCATTTTGATACCGGTTT
*
844516 TATCATATTTTTACATGTTATATCGTTGTGGATCGATACATTTTTTTTAAAGTATCGACACTTTA
64 TATCATA--TTTATATGTTATATCGTTGTGGATCGATACATTTTTTTTAAAGTATCGACACTTTA
* * *
844581 TAGGCGTTAAAACTGCTTCTCTTTTAATTAACGAAGTGTCGATCCTTATATT
127 TAAGCGCT-AAACTGC-TCTCTTTTAATTAACAAAGTGTCGATCCTTATA-T
* * * **
844633 AAAGTACCGACACTTTAAATATATCATGTACCGCTTTAACCGGTTTATCATTTCAATACCGGTTT
1 AAAGTATCGACACTTTAAATATATC-TGTAGCG-TTTTACCGGTTTATCATTTTGATACCGGTTT
* *
844698 TGTCA-GTTTATATGTTATATCGTTGTGGATCGATACATTTTT
64 TATCATATTTATATGTTATATCGTTGTGGATCGATACATTTTT
844740 AATTTGGATC
Statistics
Matches: 256, Mismatches: 22, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
176 3 0.01
177 87 0.34
178 1 0.00
179 68 0.27
180 7 0.03
181 32 0.12
182 48 0.19
183 10 0.04
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.42
Consensus pattern (175 bp):
AAAGTATCGACACTTTAAATATATCTGTAGCGTTTTACCGGTTTATCATTTTGATACCGGTTTTA
TCATATTTATATGTTATATCGTTGTGGATCGATACATTTTTTTTAAAGTATCGACACTTTATAAG
CGCTAAACTGCTCTCTTTTAATTAACAAAGTGTCGATCCTTATAT
Found at i:847199 original size:43 final size:43
Alignment explanation
Indices: 847151--847237 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
847141 TTGATCATTT
847151 ATCAACTTGTATAATATAACGATGACAGAACTAAACCAGATGG
1 ATCAACTTGTATAATATAACGATGACAGAACTAAACCAGATGG
847194 ATCAACTTGTATAATATAACGATGACAGAACTAAACCAGATGG
1 ATCAACTTGTATAATATAACGATGACAGAACTAAACCAGATGG
847237 A
1 A
847238 AGGTGAGCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (43 bp):
ATCAACTTGTATAATATAACGATGACAGAACTAAACCAGATGG
Found at i:851484 original size:193 final size:193
Alignment explanation
Indices: 851004--851583 Score: 573
Period size: 193 Copynumber: 3.0 Consensus size: 193
850994 AAAATATCTG
* * * ** * * *
851004 AACT-AAATACTTTCTTTTATGTTGAAATTTAAATGTTTTTTTTATTTTCAAATTGATATATGAA
1 AACTAAAATATTTTCTTTTAAGTTGGAATTTAAA--TAATTTTTATTTTTAAGTTGATACATGAA
* * * ** *
851068 TTA-GCTACTTT-T-TTAAATTTAATATCTAAAGAAATTTTGGCT-TTAAATTAGAATATAAAAT
64 TTATG-TACTTTATCTCAAA-CTGATATCTAAAG-AATTTTTCCTCTTAAATTAGAATATGAAAT
* * *
851129 TTAATTTCATCCACTTAATACATTTTATTAATCATATTACCTTTGT-ATAAAGTGATAACATAAT
126 TTAATTTTATCCACTTAATA-TTTTTATTAATGATATTACCTTT-TAATAAAGTGATAACATAAT
*
851193 ATTTG
189 ATTTT
*
851198 AACTAAAATATTTTCTTTTAAGTTGGTATTTAAATAATTTTTATTTTTAAGTTGATACATGAATT
1 AACTAAAATATTTTCTTTTAAGTTGGAATTTAAATAATTTTTATTTTTAAGTTGATACATGAATT
* * ** * * * * * *
851263 ATGTACTTTCTCTTAAGTTTACATCTAAAGAATTTTTTCTCCTAAATTAGAATTTGAAATTTGAT
66 ATGTACTTTATCTCAAACTGATATCTAAAGAATTTTTCCTCTTAAATTAGAATATGAAATTTAAT
** * * *
851328 TTTATCTGCTTAATATTTTTATTAATGATATTATCTTTTAATAACGTAATAACATAATATTTT
131 TTTATCCACTTAATATTTTTATTAATGATATTACCTTTTAATAAAGTGATAACATAATATTTT
* * * * *
851391 AA-TTAAATATTTTCTTTTGAGTTGGAATTTAAATATTTTTTACTTTTTATGTTGATAGATGAAT
1 AACTAAAATATTTTCTTTTAAGTTGGAATTTAAATAATTTTTA-TTTTTAAGTTGATACATGAAT
* * * * *
851455 TATGTACTTTATCTCAAACTGATATCTAAATAAATTTTCCTCTTGAATCAGAATACGAAATTTAA
65 TATGTACTTTATCTCAAACTGATATCTAAAGAATTTTTCCTCTTAAATTAGAATATGAAATTTAA
* * ** * *
851520 TTCTATCCACTTAGTATTTTT-TTAGCGATGTTACCTTTTAATAAAGTGATAACCTAAATATTTT
130 TTTTATCCACTTAATATTTTTATTAATGATATTACCTTTTAATAAAGTGATAACAT-AATATTTT
851584 CTTTTGAGTA
Statistics
Matches: 319, Mismatches: 59, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
192 64 0.20
193 177 0.55
194 49 0.15
195 29 0.09
ACGTcount: A:0.35, C:0.09, G:0.08, T:0.48
Consensus pattern (193 bp):
AACTAAAATATTTTCTTTTAAGTTGGAATTTAAATAATTTTTATTTTTAAGTTGATACATGAATT
ATGTACTTTATCTCAAACTGATATCTAAAGAATTTTTCCTCTTAAATTAGAATATGAAATTTAAT
TTTATCCACTTAATATTTTTATTAATGATATTACCTTTTAATAAAGTGATAACATAATATTTT
Found at i:855674 original size:8 final size:8
Alignment explanation
Indices: 855661--855686 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
855651 GTTAGAGGAA
855661 AAAAAATG
1 AAAAAATG
855669 AAAAAATG
1 AAAAAATG
855677 AAAAAATG
1 AAAAAATG
855685 AA
1 AA
855687 GAATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AAAAAATG
Found at i:855714 original size:4 final size:4
Alignment explanation
Indices: 855705--855734 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
855695 ATAAAAGGAA
855705 AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
855735 TTAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:855873 original size:29 final size:30
Alignment explanation
Indices: 855806--855873 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
855796 AGTAATATGA
*
855806 AAATAT-AATATAATATAAATAAAAAAACC
1 AAATATAAAAATAATATAAATAAAAAAACC
* * * *
855835 AAAAACAAAAATAA-ATAAATATATAAACC
1 AAATATAAAAATAATATAAATAAAAAAACC
855864 AAATATAAAA
1 AAATATAAAA
855874 GTATACATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
29 25 0.81
30 6 0.19
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.21
Consensus pattern (30 bp):
AAATATAAAAATAATATAAATAAAAAAACC
Found at i:855982 original size:2 final size:2
Alignment explanation
Indices: 855975--856021 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
855965 GATAATTACA
855975 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
856017 AT AT A
1 AT AT A
856022 GTAATAATAC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:856066 original size:2 final size:2
Alignment explanation
Indices: 856061--856086 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
856051 AAAAAAATAG
856061 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
856087 AAAATATAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:856093 original size:14 final size:14
Alignment explanation
Indices: 856062--856106 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
856052 AAAAAATAGT
* *
856062 ATATATATATATAT
1 ATATATATATAAAA
856076 ATATATATATAAAA
1 ATATATATATAAAA
856090 ATATAGTAT-TAAAA
1 ATATA-TATATAAAA
856104 ATA
1 ATA
856107 ATCAAATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
14 25 0.89
15 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATATATATATAAAA
Found at i:856138 original size:73 final size:73
Alignment explanation
Indices: 855987--856157 Score: 172
Period size: 73 Copynumber: 2.4 Consensus size: 73
855977 ATATATATAT
* * ** * * **
855987 ATATATATATATATATATATATATATATATATATAGTAATAATACGCTTATAAGTAAAATATTTA
1 ATATATATATATATATATATATATATAAAAATATAGTAATAATACAATAATAAATAAAATAAATA
856052 AAAAAATA
66 AAAAAATA
* * *
856060 GTATATATATATATATATATATATATAAAAATATAGTATTAA-A-AATAATCAAATGAATATAAA
1 ATATATATATATATATATATATATATAAAAATATAGTAATAATACAATAAT-AAAT-AAAATAAA
856123 TAAATAAAA-A
64 TAAA-AAAATA
*
856133 ATATATGTATATATA-ATATA-ATATA
1 ATATATATATATATATATATATATATA
856158 GTGTAAAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
71 8 0.10
72 9 0.11
73 61 0.74
74 4 0.05
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.38
Consensus pattern (73 bp):
ATATATATATATATATATATATATATAAAAATATAGTAATAATACAATAATAAATAAAATAAATA
AAAAAATA
Found at i:856668 original size:37 final size:37
Alignment explanation
Indices: 856627--856731 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
856617 GTGCTTGTGG
* * *
856627 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
856664 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
856701 ATCTTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
856732 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:857729 original size:106 final size:106
Alignment explanation
Indices: 857404--858658 Score: 1828
Period size: 106 Copynumber: 11.9 Consensus size: 106
857394 GCATTGTTCT
* *
857404 GAGTCCAATATCC-TCAG-TCGTGAAGTTGAAATTGGCTCTGGAATCGGGAAAG-TGTTTGTTGA
1 GAGTCCAATATCCTTC-GCT-GTGAAGTTGAAATTGGCTCTGAAATTGGG-AAGTTGTTTGTTGA
* * * *
857466 CAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
63 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
857510 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTAACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * *
857569 TCAGCCGCCCCTTCGTCGTGAAGTTGAGCTTGTGTTGCCTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * *
857611 G-GTTCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
857675 CCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
857716 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
857781 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
857822 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGGTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
857887 CCAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
857928 GAGTCCAATATTATTCGCTATGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
857993 CCATCAGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
858034 GAGTACAATATCATTCGATGTGAAGTTGAAATTGGCTCTGAAATTAGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
858099 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** * *
858140 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
858205 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* ** *
858246 GAGTCCAAAATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
858311 CCAGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
858352 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAGTTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
858417 CCAGCGGTCCTTTCGTCGTGAAATTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
858458 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
858523 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGGGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
858564 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
858629 CCAGCGGTCCCTTCGTCGTGAAGTTGAACT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACT
858659 CTACTCTCGA
Statistics
Matches: 1037, Mismatches: 101, Indels: 22
0.89 0.09 0.02
Matches are distributed among these distances:
100 77 0.07
101 7 0.01
102 2 0.00
104 3 0.00
105 5 0.00
106 940 0.91
107 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:859094 original size:75 final size:75
Alignment explanation
Indices: 858909--859114 Score: 254
Period size: 74 Copynumber: 2.7 Consensus size: 75
858899 CAAAGCCAAA
* * * * **
858909 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATT-CCCCCTAAACAG
858974 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* * *
858986 ATTTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
* *
859050 TTGTTCCGAG
66 TGGCTCCGAG
* * *
859060 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCC
859115 CTATTCAACG
Statistics
Matches: 112, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
74 61 0.54
75 27 0.24
76 1 0.01
77 23 0.21
ACGTcount: A:0.24, C:0.31, G:0.24, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:869040 original size:22 final size:22
Alignment explanation
Indices: 869012--869088 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
869002 TTAATTTTGG
869012 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
869034 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
869056 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
869078 TCAACGGTTTG
1 TCAAAGGTTTG
869089 ATGGGGTAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.21, C:0.14, G:0.27, T:0.38
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:869746 original size:9 final size:8
Alignment explanation
Indices: 869717--869780 Score: 65
Period size: 8 Copynumber: 7.4 Consensus size: 8
869707 ATTTTTGTTC
869717 TTTCTTTT
1 TTTCTTTT
869725 TTTCTTTT
1 TTTCTTTT
869733 GTTTCTCTTT
1 -TTTCT-TTT
869743 TTTCTTTTTT
1 TTTC--TTTT
869753 TTTCTTCTT
1 TTTCTT-TT
* *
869762 TTGCTTCT
1 TTTCTTTT
869770 TTTCTTTT
1 TTTCTTTT
869778 TTT
1 TTT
869781 TCTTGATTGG
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
8 20 0.43
9 16 0.34
10 10 0.21
11 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (8 bp):
TTTCTTTT
Found at i:869746 original size:26 final size:27
Alignment explanation
Indices: 869717--869781 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 27
869707 ATTTTTGTTC
*
869717 TTTCTTTTTTTCTT-TTGTTTCT-CTT-T
1 TTTCTTTTTTT-TTCTTCTTT-TGCTTCT
869743 TTTCTTTTTTTTTCTTCTTTTGCTTCT
1 TTTCTTTTTTTTTCTTCTTTTGCTTCT
869770 TTTCTTTTTTTT
1 TTTCTTTTTTTT
869782 CTTGATTGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 3 0.09
26 19 0.54
27 13 0.37
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (27 bp):
TTTCTTTTTTTTTCTTCTTTTGCTTCT
Found at i:869764 original size:31 final size:29
Alignment explanation
Indices: 869708--869781 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
869698 TTCTTTTTGA
* *
869708 TTTTTGTTCTTTCTTTTTTTCTTTTGTTTC
1 TTTTT-TTCTTTTTTTTTTTCTTTTGCTTC
869738 TCTTTTTTCTTTTTTTTTCTTCTTTTGCTTC
1 T-TTTTTTCTTTTTTTTT-TTCTTTTGCTTC
*
869769 TTTTCTT-TTTTTT
1 TTTTTTTCTTTTTT
869782 CTTGATTGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 6 0.15
30 17 0.44
31 16 0.41
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (29 bp):
TTTTTTTCTTTTTTTTTTTCTTTTGCTTC
Found at i:869781 original size:9 final size:9
Alignment explanation
Indices: 869695--869784 Score: 69
Period size: 9 Copynumber: 9.9 Consensus size: 9
869685 TTTTTGTCCC
869695 TTTTTCTTT
1 TTTTTCTTT
869704 TTGATTT-TTGT
1 TT--TTTCTT-T
*
869715 TCTTTC-TT
1 TTTTTCTTT
869723 TTTTTCTTT
1 TTTTTCTTT
* *
869732 TGTTTCTCT
1 TTTTTCTTT
869741 TTTTTCTTTT
1 TTTTTC-TTT
*
869751 TTTTTCTTC
1 TTTTTCTTT
*
869760 TTTTGC-TT
1 TTTTTCTTT
*
869768 CTTTTCTTT
1 TTTTTCTTT
869777 TTTTTCTT
1 TTTTTCTT
869785 GATTGGATCT
Statistics
Matches: 62, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
8 11 0.18
9 36 0.58
10 10 0.16
11 5 0.08
ACGTcount: A:0.01, C:0.14, G:0.04, T:0.80
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:869784 original size:26 final size:25
Alignment explanation
Indices: 869708--869784 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 25
869698 TTCTTTTTGA
869708 TTTTTG-TTC-TTTC-TTTTTTTCT
1 TTTTTGCTTCTTTTCTTTTTTTTCT
* *
869730 TTTGTTTCTCTTTTTTCTTTTTTTTTCT
1 TTT-TTGCT-TCTTTTC-TTTTTTTTCT
869758 TCTTTTGCTTCTTTTCTTTTTTTTCT
1 T-TTTTGCTTCTTTTCTTTTTTTTCT
869784 T
1 T
869785 GATTGGATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
22 3 0.07
23 2 0.05
24 1 0.02
25 1 0.02
26 15 0.34
27 6 0.14
28 14 0.32
29 2 0.05
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.81
Consensus pattern (25 bp):
TTTTTGCTTCTTTTCTTTTTTTTCT
Found at i:870115 original size:14 final size:14
Alignment explanation
Indices: 870096--870128 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
870086 ATGCATGATA
*
870096 GAATTATTTCGGAT
1 GAATTATTTCAGAT
870110 GAATTATTTCAGAT
1 GAATTATTTCAGAT
870124 GAATT
1 GAATT
870129 CTTCTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.42
Consensus pattern (14 bp):
GAATTATTTCAGAT
Found at i:872846 original size:25 final size:25
Alignment explanation
Indices: 872790--872836 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
872780 AATGAAGAAT
*
872790 AAAAATAAGTAAAATAAATAAAAGG
1 AAAAATAAATAAAATAAATAAAAGG
872815 AAAAATAAAT-AAATAAATAAAA
1 AAAAATAAATAAAATAAATAAAA
872837 TATTAAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (25 bp):
AAAAATAAATAAAATAAATAAAAGG
Found at i:872931 original size:18 final size:18
Alignment explanation
Indices: 872882--872935 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
872872 AAAATAGAAA
*
872882 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
872903 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
872922 AATA-TAATATAAAA
1 AATAGTAATATAAAA
872936 AAACTAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:872936 original size:18 final size:19
Alignment explanation
Indices: 872886--872936 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
872876 TAGAAAAATA
*
872886 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
872906 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
872925 ATAATATAAAAA
1 ATAATATAAAAA
872937 AACTAAAAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:873171 original size:19 final size:19
Alignment explanation
Indices: 873140--873177 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
873130 GAGTATATAT
*
873140 ATATATATATAAATAATAA
1 ATATATATATAAAAAATAA
873159 ATATAGTAT-TAAAAAATAA
1 ATATA-TATATAAAAAATAA
873178 TCAAATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATATATATATAAAAAATAA
Found at i:873744 original size:37 final size:37
Alignment explanation
Indices: 873703--873807 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
873693 GTGCTTGTGG
* * *
873703 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
873740 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
873777 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
873808 GACGAAAAAG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:874477 original size:30 final size:31
Alignment explanation
Indices: 874434--874521 Score: 88
Period size: 33 Copynumber: 2.8 Consensus size: 31
874424 ACACCAGAGT
**
874434 TGGCTCAATTACAGGCTGTTCAGGT-ACAAC
1 TGGCTCAGCTACAGGCTGTTCAGGTAACAAC
* * *
874464 TGGCTCAGCTACAGGTTGTTTAGATATAACAAC
1 TGGCTCAGCTACAGGCTGTTCAG--GTAACAAC
* *
874497 CGGCTCAGCTTCAGGCTGTTCAGGT
1 TGGCTCAGCTACAGGCTGTTCAGGT
874522 GCACGAGACT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
30 19 0.42
31 1 0.02
32 1 0.02
33 24 0.53
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (31 bp):
TGGCTCAGCTACAGGCTGTTCAGGTAACAAC
Found at i:888360 original size:22 final size:21
Alignment explanation
Indices: 888329--888379 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 21
888319 TATTTATTTT
*
888329 AAATTTTAAATAATTAAAATC
1 AAATTTTAAAAAATTAAAATC
888350 AAATATTTAAAAAATTTAAATAATC
1 AAAT-TTTAAAAAA-TT-AA-AATC
888375 AAATT
1 AAATT
888380 AAATATGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 4 0.16
22 8 0.32
23 2 0.08
24 3 0.12
25 8 0.32
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTTTAAAAAATTAAAATC
Found at i:889222 original size:38 final size:37
Alignment explanation
Indices: 889187--889257 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
889177 TACAAATTGT
889187 AAAATATTTATAT-ATTTTCTTTAAAAAAATTAAATTC
1 AAAATATTTATATAATTTT-TTTAAAAAAATTAAATTC
* * *
889224 ATAATATTTATATAATTTTTTTTACAAAATTAAA
1 AAAATATTTATATAATTTTTTTAAAAAAATTAAA
889258 AATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 25 0.83
38 5 0.17
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (37 bp):
AAAATATTTATATAATTTTTTTAAAAAAATTAAATTC
Found at i:899293 original size:26 final size:24
Alignment explanation
Indices: 899262--899319 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 24
899252 TGTCTTCAAA
*
899262 TATTTAT-GAATATATTATATAATTT
1 TATTTATAGAATA-ATTATA-AATCT
*
899287 TAATTTATAGATTAATTATAAATCT
1 T-ATTTATAGAATAATTATAAATCT
899312 TATTTATA
1 TATTTATA
899320 TACAAAAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
24 7 0.24
25 6 0.21
26 12 0.41
27 4 0.14
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.53
Consensus pattern (24 bp):
TATTTATAGAATAATTATAAATCT
Found at i:906365 original size:132 final size:131
Alignment explanation
Indices: 906136--906392 Score: 309
Period size: 132 Copynumber: 2.0 Consensus size: 131
906126 CCCATTCCAT
* * * * *
906136 ATTTTGAGCTAATTTCTACTTCACGACAAAGGACATCATGCTCAAGTCATCCAAGATTGACTCGA
1 ATTTCGAGCTAATTTCAACTTCACGACAAAGGACATCAAGCTCAAGTCATCCAAGATCGACTCAA
* * * **
906201 CTTCACGATGAAGAAGCCAACCATAATTTAGCTTAACTCAACAA-CAAGGAGTTATTTTCAGCTT
66 CTTCACGACGAAAAAGCCAACCACAACATAGCTTAACTCAA-AAGCAAGGAGTTATTTTCAGCTT
906265 AG
130 AG
** *
906267 ATTTCGAGCTAGATTTCAACTTCACGATGAAGGATATCAAGCTCAAGTCATCCAAGATCGACTCA
1 ATTTCGAGCTA-ATTTCAACTTCACGACAAAGGACATCAAGCTCAAGTCATCCAAGATCGACTCA
* * * * * **
906332 ACTTCATGGCGAAAAAGTCATCCACAACATAGCTTAACTTAAAAGTGAGGAGTTATTTTCA
65 ACTTCACGACGAAAAAGCCAACCACAACATAGCTTAACTCAAAAGCAAGGAGTTATTTTCA
906393 TCTAACTTAA
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
131 12 0.12
132 92 0.88
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (131 bp):
ATTTCGAGCTAATTTCAACTTCACGACAAAGGACATCAAGCTCAAGTCATCCAAGATCGACTCAA
CTTCACGACGAAAAAGCCAACCACAACATAGCTTAACTCAAAAGCAAGGAGTTATTTTCAGCTTA
G
Found at i:907657 original size:24 final size:25
Alignment explanation
Indices: 907611--907659 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
907601 TCCTTTTATC
* **
907611 TTAATTTATTTTAATCTTCTTTTTT
1 TTAATTTATTTAAATCTGATTTTTT
907636 TTAATTTATTTAAAT-TGATTTTTT
1 TTAATTTATTTAAATCTGATTTTTT
907660 AGAAAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (25 bp):
TTAATTTATTTAAATCTGATTTTTT
Found at i:915365 original size:57 final size:57
Alignment explanation
Indices: 915272--915382 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
915262 GTTTTGTAAC
*
915272 TTATAATTCTCAAGTGAAACAACGAAGTTGAGGCTTATAAATAAATAGACTTGTCAT
1 TTATAATTCTCAAGTGAAACAACGAAGTAGAGGCTTATAAATAAATAGACTTGTCAT
* * *
915329 TTATGATTCTCAAGTGAAACAATGAAGTAGAGGCTTATAAATAAATAGATTTGT
1 TTATAATTCTCAAGTGAAACAACGAAGTAGAGGCTTATAAATAAATAGACTTGT
915383 AAAAAGGATG
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (57 bp):
TTATAATTCTCAAGTGAAACAACGAAGTAGAGGCTTATAAATAAATAGACTTGTCAT
Found at i:920192 original size:16 final size:16
Alignment explanation
Indices: 920171--920203 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
920161 TAATAAATAA
920171 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
920187 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
920203 A
1 A
920204 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:920293 original size:16 final size:16
Alignment explanation
Indices: 920272--920316 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
920262 TAATAAATAA
920272 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
920288 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
920304 ACGAACATAAACG
1 ACGAACATAAACG
920317 TTGGAGACCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.56, C:0.22, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:921254 original size:10 final size:10
Alignment explanation
Indices: 921239--921286 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
921229 ATAAATGAAT
921239 GAACATAAAC
1 GAACATAAAC
921249 GAACATAACCAAAC
1 GAACAT----AAAC
921263 GAACATAAAC
1 GAACATAAAC
*
921273 GAACATAACC
1 GAACATAAAC
921283 GAAC
1 GAAC
921287 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 23 0.70
14 10 0.30
ACGTcount: A:0.56, C:0.25, G:0.10, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:921266 original size:24 final size:24
Alignment explanation
Indices: 921239--921287 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
921229 ATAAATGAAT
921239 GAACATAAACGAACATAACCAAAC
1 GAACATAAACGAACATAACCAAAC
*
921263 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCAAAC
921287 G
1 G
921288 TTCACGAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.24, G:0.12, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCAAAC
Found at i:927267 original size:17 final size:17
Alignment explanation
Indices: 927245--927281 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
927235 CGATTTTAAG
927245 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
927262 CTCGATTCAAGCTCGAA
1 CTCGATTCAAGCTCGAA
927279 CTC
1 CTC
927282 AAACTCGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.24
Consensus pattern (17 bp):
CTCGATTCAAGCTCGAA
Found at i:927283 original size:29 final size:29
Alignment explanation
Indices: 927233--927290 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
927223 AATTTAGGAG
* * *
927233 CTCGATTTTAAGCTCGATTCAAGCTCGAA
1 CTCGATTTCAAGCTCGACTCAAACTCGAA
927262 CTCGA-TTCAAGCTCGAACTCAAACTCGAA
1 CTCGATTTCAAGCTCG-ACTCAAACTCGAA
927291 TTTGAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 9 0.36
29 16 0.64
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.26
Consensus pattern (29 bp):
CTCGATTTCAAGCTCGACTCAAACTCGAA
Found at i:929595 original size:22 final size:22
Alignment explanation
Indices: 929567--929619 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
929557 AATATAATAT
929567 CTTGATATTAAATGCTCAAACC
1 CTTGATATTAAATGCTCAAACC
*
929589 CTTGATATTAAATGCTCAAACT
1 CTTGATATTAAATGCTCAAACC
929611 CTTGATATT
1 CTTGATATT
929620 TATGATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.38
Consensus pattern (22 bp):
CTTGATATTAAATGCTCAAACC
Found at i:929692 original size:15 final size:15
Alignment explanation
Indices: 929667--929703 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
929657 AATTTAAAAA
929667 ATTAGTTATTAGAAAT
1 ATTA-TTATTAGAAAT
929683 ATTATTATTAGAAAT
1 ATTATTATTAGAAAT
929698 A-TATTA
1 ATTATTA
929704 AATATTTGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 12 0.57
16 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (15 bp):
ATTATTATTAGAAAT
Found at i:929828 original size:14 final size:14
Alignment explanation
Indices: 929811--929851 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
929801 TTTATTCATC
929811 AATAATGTATTTTT
1 AATAATGTATTTTT
929825 AAT-A--TATTTTT
1 AATAATGTATTTTT
*
929836 AATAATGTAATTTT
1 AATAATGTATTTTT
929850 AA
1 AA
929852 AAAATCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
11 10 0.43
12 1 0.04
13 1 0.04
14 11 0.48
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (14 bp):
AATAATGTATTTTT
Found at i:933124 original size:29 final size:29
Alignment explanation
Indices: 933066--933133 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
933056 ATGACTCTCA
* *
933066 TTTTAAATTATTCTTAAAATTTTATATTT
1 TTTTAAATAATTCTTAAAATTATATATTT
*
933095 TTTTAATATAATT-TTAAAATTATAGTTTTT
1 TTTTAA-ATAATTCTTAAAATTATA-TATTT
933125 ATTTTAAAT
1 -TTTTAAAT
933134 TGATTTTGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
29 16 0.48
30 11 0.33
31 6 0.18
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
TTTTAAATAATTCTTAAAATTATATATTT
Found at i:946268 original size:36 final size:34
Alignment explanation
Indices: 946228--946304 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
946218 TGGTACCTAT
946228 AGGTTCCGAATCCCAATTTTTAGGAACCGGTTG-AAC
1 AGGTTCCG-ATCCCAA-TTTTAGGAACCGG-TGCAAC
* * * *
946264 AGGTTTCGATTCCTATTTTATGAACCGGTGCAAC
1 AGGTTCCGATCCCAATTTTAGGAACCGGTGCAAC
946298 AGGTTCC
1 AGGTTCC
946305 AGTTCCAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
33 2 0.06
34 21 0.60
35 5 0.14
36 7 0.20
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (34 bp):
AGGTTCCGATCCCAATTTTAGGAACCGGTGCAAC
Found at i:946736 original size:23 final size:23
Alignment explanation
Indices: 946703--946747 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
946693 CAAAATATTA
*
946703 TGTACTTTAACCATGCATTTTTT
1 TGTACTGTAACCATGCATTTTTT
* *
946726 TGTACTGTAACTATGCCTTTTT
1 TGTACTGTAACCATGCATTTTT
946748 AACTATATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.18, G:0.11, T:0.51
Consensus pattern (23 bp):
TGTACTGTAACCATGCATTTTTT
Found at i:950229 original size:3 final size:3
Alignment explanation
Indices: 950223--950250 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
950213 AATAAAGATT
950223 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
950251 AAATAATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:959965 original size:11 final size:11
Alignment explanation
Indices: 959948--960001 Score: 65
Period size: 12 Copynumber: 4.7 Consensus size: 11
959938 CTCGAGACTC
959948 GAGCTCGA-TT
1 GAGCTCGATTT
959958 GAAGCTCGATTTT
1 G-AGCTCGA-TTT
959971 GAGCTCGATTTT
1 GAGCTCGA-TTT
959983 GAGCTCGATTT
1 GAGCTCGATTT
*
959994 AAGCTCGA
1 GAGCTCGA
960002 ACTCGAACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
10 1 0.03
11 17 0.43
12 19 0.47
13 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (11 bp):
GAGCTCGATTT
Found at i:959977 original size:12 final size:12
Alignment explanation
Indices: 959948--959993 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
959938 CTCGAGACTC
959948 GAGCTCGA--TT
1 GAGCTCGATTTT
959958 GAAGCTCGATTTT
1 G-AGCTCGATTTT
959971 GAGCTCGATTTT
1 GAGCTCGATTTT
959983 GAGCTCGATTT
1 GAGCTCGATTT
959994 AAGCTCGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 1 0.03
11 7 0.21
12 22 0.67
13 3 0.09
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (12 bp):
GAGCTCGATTTT
Found at i:960013 original size:35 final size:35
Alignment explanation
Indices: 959948--960019 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 35
959938 CTCGAGACTC
** * * *
959948 GAGCTCGATTGAAGCTCGATTTTGAGCTCGATTTT
1 GAGCTCGATTGAAGCTCGAACTCGAACTCGAATTT
*
959983 GAGCTCGATTTAAGCTCGAACTCGAACTCGAATTT
1 GAGCTCGATTGAAGCTCGAACTCGAACTCGAATTT
960018 GA
1 GA
960020 TCCTTAGGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (35 bp):
GAGCTCGATTGAAGCTCGAACTCGAACTCGAATTT
Found at i:960310 original size:7 final size:7
Alignment explanation
Indices: 960284--960387 Score: 52
Period size: 7 Copynumber: 14.9 Consensus size: 7
960274 TGGCATAACT
960284 TAAACCC
1 TAAACCC
*
960291 T-AACACA
1 TAAAC-CC
960298 TAAACCC
1 TAAACCC
960305 TAAA-CC
1 TAAACCC
* *
960311 TTAACACA
1 TAAAC-CC
960319 TAAACCC
1 TAAACCC
960326 TAAACCC
1 TAAACCC
**
960333 TAAACTT
1 TAAACCC
*
960340 TAAACCT
1 TAAACCC
*
960347 TAAATCC
1 TAAACCC
* *
960354 T-ATCACA
1 TAAAC-CC
*
960361 TAAACTC
1 TAAACCC
**
960368 TAAATTC
1 TAAACCC
960375 TAAACCC
1 TAAACCC
960382 TAAACC
1 TAAACC
960388 TTATCACATA
Statistics
Matches: 71, Mismatches: 20, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
6 9 0.13
7 52 0.73
8 10 0.14
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAACCC
Found at i:960365 original size:35 final size:35
Alignment explanation
Indices: 960326--960398 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
960316 ACATAAACCC
*
960326 TAAACCCTAAACTT-TAAACCTTAAATCC-TATCACA
1 TAAACCCTAAA-TTCTAAACCCTAAA-CCTTATCACA
*
960361 TAAACTCTAAATTCTAAACCCTAAACCTTATCACA
1 TAAACCCTAAATTCTAAACCCTAAACCTTATCACA
960396 TAA
1 TAA
960399 TTAGTTATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 4 0.12
35 30 0.88
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (35 bp):
TAAACCCTAAATTCTAAACCCTAAACCTTATCACA
Found at i:960372 original size:21 final size:21
Alignment explanation
Indices: 960284--960371 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
960274 TGGCATAACT
960284 TAAACCCTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
*
960305 TAAACCTTAACACATAAACCC
1 TAAACCCTAACACATAAACCC
* *
960326 TAAACCCTAA-ACTTTAAACCT
1 TAAACCCTAACAC-ATAAACCC
* * *
960347 TAAATCCTATCACATAAACTC
1 TAAACCCTAACACATAAACCC
960368 TAAA
1 TAAA
960372 TTCTAAACCC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
20 2 0.04
21 52 0.93
22 2 0.04
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAACACATAAACCC
Found at i:960378 original size:42 final size:42
Alignment explanation
Indices: 960284--960390 Score: 110
Period size: 42 Copynumber: 2.5 Consensus size: 42
960274 TGGCATAACT
* *
960284 TAAACCCT-AACACATAAACCCTAAACCTTAACACATAAACCC
1 TAAACCCTAAAC-CCTAAACCTTAAACCTTAACACATAAACCC
** * *
960326 TAAACCCTAAACTTTAAACCTTAAATCC-TATCACATAAACTC
1 TAAACCCTAAACCCTAAACCTTAAA-CCTTAACACATAAACCC
**
960368 TAAATTCTAAACCCTAAACCTTA
1 TAAACCCTAAACCCTAAACCTTA
960391 TCACATAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
42 49 0.91
43 5 0.09
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (42 bp):
TAAACCCTAAACCCTAAACCTTAAACCTTAACACATAAACCC
Found at i:963098 original size:24 final size:24
Alignment explanation
Indices: 963066--963138 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
963056 TTGATACATT
963066 TCTGAATTCTGTTATGATTTCTGA
1 TCTGAATTCTGTTATGATTTCTGA
* * *
963090 TCTGGATTCTATTATGATATCTGA
1 TCTGAATTCTGTTATGATTTCTGA
* * *
963114 TTTGAATTATGTTTTGATTTCTGA
1 TCTGAATTCTGTTATGATTTCTGA
963138 T
1 T
963139 ATCTTCGTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.22, C:0.10, G:0.16, T:0.52
Consensus pattern (24 bp):
TCTGAATTCTGTTATGATTTCTGA
Found at i:965316 original size:4 final size:4
Alignment explanation
Indices: 965307--965469 Score: 326
Period size: 4 Copynumber: 40.8 Consensus size: 4
965297 AGATTGAGAA
965307 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
965355 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
965403 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
965451 TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TAT
965470 TTCTGAAAGT
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 159 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:979882 original size:2 final size:2
Alignment explanation
Indices: 979875--979925 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
979865 GCCGATTACA
979875 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
979917 AT AT AT AT A
1 AT AT AT AT A
979926 GACACTCTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:980285 original size:25 final size:26
Alignment explanation
Indices: 980249--980305 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
980239 ATATTAAGGG
980249 TTATTTCGATTTT-AGAAAAT-ATTT
1 TTATTTCGATTTTCAGAAAATAATTT
*
980273 TATATTTCTATTTTCAGAAAATAATTT
1 T-TATTTCGATTTTCAGAAAATAATTT
980300 TTATTT
1 TTATTT
980306 TCTGTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 1 0.03
25 11 0.38
26 12 0.41
27 5 0.17
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (26 bp):
TTATTTCGATTTTCAGAAAATAATTT
Found at i:984153 original size:33 final size:32
Alignment explanation
Indices: 984119--984190 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 32
984109 TAGTCACCAT
984119 TTTTGTAAAAGTTTGATAAAATTTAATGATCA
1 TTTTGTAAAAGTTTGATAAAATTTAATGATCA
* * * *
984151 TTTTATAATAA-TTCGATAAAATTTAACGATTA
1 TTTTGTAA-AAGTTTGATAAAATTTAATGATCA
984183 TTTTGTAA
1 TTTTGTAA
984191 CTTTTAAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 32 0.94
33 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (32 bp):
TTTTGTAAAAGTTTGATAAAATTTAATGATCA
Found at i:988940 original size:21 final size:21
Alignment explanation
Indices: 988916--988956 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
988906 CGATAAAAAT
*
988916 TACTGGAAACATTATTATTTC
1 TACTGAAAACATTATTATTTC
*
988937 TACTTAAAACATTATTATTT
1 TACTGAAAACATTATTATTT
988957 TTTAACATTT
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:0.37, C:0.12, G:0.05, T:0.46
Consensus pattern (21 bp):
TACTGAAAACATTATTATTTC
Found at i:992570 original size:21 final size:21
Alignment explanation
Indices: 992539--992594 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
992529 TATTTAAACC
992539 TGAGAGCCTCCATCGTTATCT
1 TGAGAGCCTCCATCGTTATCT
* * *
992560 TGGGTGCCTCCCATCTTTATCT
1 TGAGAGCCT-CCATCGTTATCT
992582 TGAGAGCCTCCAT
1 TGAGAGCCTCCAT
992595 GCCCGAGTCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.16, C:0.30, G:0.20, T:0.34
Consensus pattern (21 bp):
TGAGAGCCTCCATCGTTATCT
Found at i:995404 original size:20 final size:20
Alignment explanation
Indices: 995381--995444 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 20
995371 AACTTAAATC
995381 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-AAATAATATAT
*
995401 AAAAT--TTTAATAATATAT
1 AAAATAATTAAATAATATAT
*
995419 AAAATAATT-TAT-ATGATAT
1 AAAATAATTAAATAAT-ATAT
995438 AAAATAA
1 AAAATAA
995445 ATTTAAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
17 5 0.13
18 13 0.34
19 13 0.34
20 7 0.18
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (20 bp):
AAAATAATTAAATAATATAT
Found at i:995466 original size:14 final size:13
Alignment explanation
Indices: 995438--995526 Score: 69
Period size: 12 Copynumber: 6.6 Consensus size: 13
995428 TATATGATAT
*
995438 AAAATAAAT-TTA
1 AAAATTAATATTA
995450 AAAATTTAATATT-
1 AAAA-TTAATATTA
995463 AAAATTAATATCT-
1 AAAATTAATAT-TA
*
995476 ATAATATAATATTA
1 AAAAT-TAATATTA
995490 AAAATTAATTTATTTAA
1 AAAATTAA--TA-TT-A
995507 AAAATTAATATT-
1 AAAATTAATATTA
995519 AAAATTAA
1 AAAATTAA
995527 AATCAAATAT
Statistics
Matches: 65, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
12 19 0.29
13 17 0.26
14 14 0.22
15 4 0.06
16 2 0.03
17 9 0.14
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTAATATTA
Found at i:996193 original size:3 final size:3
Alignment explanation
Indices: 996185--996213 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
996175 GTTATTGTCT
996185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
996214 TCTGTTTGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1001797 original size:29 final size:31
Alignment explanation
Indices: 1001683--1001970 Score: 126
Period size: 30 Copynumber: 9.7 Consensus size: 31
1001673 TAATAATAAC
** * * *
1001683 AACTTAAAGGGTTAAAACAG-AAAAAATAAA
1 AACTTAAAGGACTAAAATAGTAAAAAACAGA
* * ***
1001713 AAATTAGAGGACTAAAATAGT-ATTTACA-A
1 AACTTAAAGGACTAAAATAGTAAAAAACAGA
* * * *
1001742 AACTT-AGGGGCTAAAATAGCACAAAACAGA
1 AACTTAAAGGACTAAAATAGTAAAAAACAGA
* *
1001772 AACTT-AAGGACTAAATTAGT-AAAAACATA
1 AACTTAAAGGACTAAAATAGTAAAAAACAGA
* *
1001801 ATCTTAAAAGG-CT-AAACAGTAAAAAACATGA
1 AACTT-AAAGGACTAAAATAGTAAAAAACA-GA
*
1001832 AA-TTAAAGGACTAAAATA-TCAAAAA-AGA
1 AACTTAAAGGACTAAAATAGTAAAAAACAGA
* * ** *
1001860 AACTTGAAGG-CTCAAAACAGT-AATTATAGA
1 AACTTAAAGGACT-AAAATAGTAAAAAACAGA
* *
1001890 CACTTAAAGGACT-AAATAG-AAAAAATAGGA
1 AACTTAAAGGACTAAAATAGTAAAAAACA-GA
** * *
1001920 AA-TTAGGGGACTACAATAGCAAAAAA-AGA
1 AACTTAAAGGACTAAAATAGTAAAAAACAGA
* *
1001949 AAGTTAAAGAACTAAAA-AGTAA
1 AACTTAAAGGACTAAAATAGTAA
1001971 TTACAAATAA
Statistics
Matches: 190, Mismatches: 49, Indels: 39
0.68 0.18 0.14
Matches are distributed among these distances:
28 17 0.09
29 70 0.37
30 85 0.45
31 18 0.09
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.19
Consensus pattern (31 bp):
AACTTAAAGGACTAAAATAGTAAAAAACAGA
Found at i:1001970 original size:88 final size:88
Alignment explanation
Indices: 1001807--1001973 Score: 196
Period size: 88 Copynumber: 1.9 Consensus size: 88
1001797 CATAATCTTA
* * * *
1001807 AAAGGCTAAACAGTAAAAAACATGAAATTAAAGGACTAAAATATCAAAAAAGAAACTTGAAGGCT
1 AAAGGCTAAACAGTAAAAAACAGGAAATTAAAGGACTAAAATAGCAAAAAAGAAACTTAAAGACT
1001872 CAAAACAGTAATTATAGACACTT
66 CAAAACAGTAATTATAGACACTT
* * ** * *
1001895 AAAGGACTAAATAG-AAAAAATAGGAAATTAGGGGACTACAATAGCAAAAAAAGAAAGTTAAAGA
1 AAAGG-CTAAACAGTAAAAAACAGGAAATTAAAGGACTAAAATAGC-AAAAAAGAAACTTAAAG-
1001959 ACT-AAAA-AGTAATTA
63 ACTCAAAACAGTAATTA
1001974 CAAATAAAAC
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
88 38 0.58
89 26 0.39
90 2 0.03
ACGTcount: A:0.57, C:0.10, G:0.16, T:0.18
Consensus pattern (88 bp):
AAAGGCTAAACAGTAAAAAACAGGAAATTAAAGGACTAAAATAGCAAAAAAGAAACTTAAAGACT
CAAAACAGTAATTATAGACACTT
Found at i:1013631 original size:30 final size:32
Alignment explanation
Indices: 1013596--1013671 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 32
1013586 ATAGTTATTA
1013596 TATTTTATATT-AAT-ATAATTATATAAATAT
1 TATTTTATATTAAATAATAATTATATAAATAT
* * *
1013626 TATTTTTTATTAAAATAATATTTATATAATTAT
1 TATTTTATATT-AAATAATAATTATATAAATAT
1013659 TA-TTTAT-TTAAAT
1 TATTTTATATTAAAT
1013672 TTATTAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 14 0.36
31 2 0.05
32 7 0.18
33 16 0.41
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TATTTTATATTAAATAATAATTATATAAATAT
Found at i:1013858 original size:27 final size:26
Alignment explanation
Indices: 1013827--1013887 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
1013817 ATTGTTATGT
**
1013827 TTAATTTAAATTTATTATGAATTTATA
1 TTAATTTAAATTTATTAT-AATGCATA
* *
1013854 TTAATTTTAATTTTTTATAATGCATA
1 TTAATTTAAATTTATTATAATGCATA
1013880 TT-ATTTAA
1 TTAATTTAA
1013888 GATACTGATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 16 0.55
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (26 bp):
TTAATTTAAATTTATTATAATGCATA
Found at i:1014782 original size:372 final size:372
Alignment explanation
Indices: 1014097--1014841 Score: 1445
Period size: 372 Copynumber: 2.0 Consensus size: 372
1014087 ATGCTACAAT
1014097 TACATTGGAGGATGTCTCTATGCATCTGAGGTTTCCCGTCGACGGAAATATGATGTGTGGTATGA
1 TACATTGGAGGATGTCTCTATGCATCTGAGGTTTCCCGTCGACGGAAATATGATGTGTGGTATGA
1014162 CGGATGGTGATTGACAGTCAATATGCATTGATTATCTTGGAGCTGCTCCGCCAGAGTTTAATGGA
66 CGGATGGTGATTGACAGTCAATATGCATTGATTATCTTGGAGCTGCTCCGCCAGAGTTTAATGGA
* *
1014227 TGTATAATAGCTTTATCTTGGTTGAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
131 GGTATAATAGCTTTATCTTGGTTAAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
*
1014292 TCAAACAAATGCATGTGCTCGGGCATATATTCTACGAATAATTGGAGGAATATTGATGTCCGACA
196 TCAAACAAATGCATGTGCTCGGGCATATATTCTACGAATAATTGGAGGAATATTGACGTCCGACA
1014357 AATCTCGCAACCAGGTGCATTGTATGTGGTTACGGCATCTGATCAATTTTGATGAAGCTGGAAGA
261 AATCTCGCAACCAGGTGCATTGTATGTGGTTACGGCATCTGATCAATTTTGATGAAGCTGGAAGA
1014422 TATAGTTGGGGCGTTGCAGTTTTGGCATTTCTCTTTAGAGAAATGTG
326 TATAGTTGGGGCGTTGCAGTTTTGGCATTTCTCTTTAGAGAAATGTG
*
1014469 TACATTGGAGGATGTCTCTATGCATCTGAGGTTTCCCGTCGACGGAAATATGATGTGTGGTATGG
1 TACATTGGAGGATGTCTCTATGCATCTGAGGTTTCCCGTCGACGGAAATATGATGTGTGGTATGA
*
1014534 CGGATGGTGATTGACAGTCAATGTGCATTGATTATCTTGGAGCTGCTCCGCCAGAGTTTAATGGA
66 CGGATGGTGATTGACAGTCAATATGCATTGATTATCTTGGAGCTGCTCCGCCAGAGTTTAATGGA
1014599 GGTATAATAGCTTTATCTTGGTTAAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
131 GGTATAATAGCTTTATCTTGGTTAAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
1014664 TCAAACAAATGCATGTGCTCGGGCATATATTCTACGAATAATTGGAGGAATATTGACGTCCGACA
196 TCAAACAAATGCATGTGCTCGGGCATATATTCTACGAATAATTGGAGGAATATTGACGTCCGACA
1014729 AATCTCGCAACCAGGTGCATTGTATGTGGTTACGGCATCTGATCAATTTTGATGAAGCTGGAAGA
261 AATCTCGCAACCAGGTGCATTGTATGTGGTTACGGCATCTGATCAATTTTGATGAAGCTGGAAGA
1014794 TATAGTTGGGGCGTTGCAGTTTTGGCATTTCTCTTTAGAGAAATGTG
326 TATAGTTGGGGCGTTGCAGTTTTGGCATTTCTCTTTAGAGAAATGTG
1014841 T
1 T
1014842 CGGGCGACGA
Statistics
Matches: 368, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
372 368 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (372 bp):
TACATTGGAGGATGTCTCTATGCATCTGAGGTTTCCCGTCGACGGAAATATGATGTGTGGTATGA
CGGATGGTGATTGACAGTCAATATGCATTGATTATCTTGGAGCTGCTCCGCCAGAGTTTAATGGA
GGTATAATAGCTTTATCTTGGTTAAAAGCTAATTTTGAGGTTTTAAATGAAAATGCTTCAGAGGA
TCAAACAAATGCATGTGCTCGGGCATATATTCTACGAATAATTGGAGGAATATTGACGTCCGACA
AATCTCGCAACCAGGTGCATTGTATGTGGTTACGGCATCTGATCAATTTTGATGAAGCTGGAAGA
TATAGTTGGGGCGTTGCAGTTTTGGCATTTCTCTTTAGAGAAATGTG
Found at i:1015913 original size:21 final size:19
Alignment explanation
Indices: 1015847--1015913 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 19
1015837 ATCTCCGCAC
*
1015847 GGTTACATTCCTAGTCCGCAG
1 GGTTACATT-CTAG-CCCCAG
1015868 GGTTACATTCTTAGCTCGCCA-
1 GGTTACATTC-TAGC-C-CCAG
1015889 GGTTACATGTCTAGCCCACAG
1 GGTTACAT-TCTAGCCC-CAG
1015910 GGTT
1 GGTT
1015914 TTATACCATA
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
19 1 0.03
20 5 0.13
21 29 0.74
22 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.30
Consensus pattern (19 bp):
GGTTACATTCTAGCCCCAG
Found at i:1016477 original size:34 final size:34
Alignment explanation
Indices: 1016434--1016540 Score: 144
Period size: 34 Copynumber: 3.1 Consensus size: 34
1016424 ATAAATGTTT
1016434 TTAAAATACAAATTATAGTATTCAGAATTTAAAA
1 TTAAAATACAAATTATAGTATTCAGAATTTAAAA
* * * *
1016468 TTAAAATACAAATAATATTATTCAAAATTTAAAT
1 TTAAAATACAAATTATAGTATTCAGAATTTAAAA
* *
1016502 TTAAAATATAAATTATAGTATTC-GAAATTTAATA
1 TTAAAATACAAATTATAGTATTCAG-AATTTAAAA
1016536 TTAAA
1 TTAAA
1016541 TTCAAGTTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (34 bp):
TTAAAATACAAATTATAGTATTCAGAATTTAAAA
Found at i:1024789 original size:14 final size:14
Alignment explanation
Indices: 1024768--1024802 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1024758 AAAATAAATT
1024768 ACATTTTCTGAAAA
1 ACATTTTCTGAAAA
* *
1024782 ATATTTTCTGGAAA
1 ACATTTTCTGAAAA
1024796 ACATTTT
1 ACATTTT
1024803 ACGATGTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.09, T:0.43
Consensus pattern (14 bp):
ACATTTTCTGAAAA
Done.