Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold19
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: 2266706
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 17655 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:579213 original size:14 final size:14
Alignment explanation
Indices: 579196--579253 Score: 73
Period size: 14 Copynumber: 4.2 Consensus size: 14
579186 ATATGTGCCA
*
579196 AAAGTACTTATATC
1 AAAGTACTTGTATC
*
579210 AAAGTATTTGTATC
1 AAAGTACTTGTATC
579224 AAAGTACTTGTATC
1 AAAGTACTTGTATC
* *
579238 ACAGTACCT-TATC
1 AAAGTACTTGTATC
579251 AAA
1 AAA
579254 ATATTTATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
13 6 0.16
14 32 0.84
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (14 bp):
AAAGTACTTGTATC
Found at i:579968 original size:2 final size:2
Alignment explanation
Indices: 579961--579994 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
579951 TCATTCAATA
579961 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
579995 GTGTGTGTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:580496 original size:14 final size:14
Alignment explanation
Indices: 580479--580508 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
580469 TAATTATTTA
580479 AATATAATTAATAT
1 AATATAATTAATAT
*
580493 AATATATTTAATAT
1 AATATAATTAATAT
580507 AA
1 AA
580509 ATATTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATAATTAATAT
Found at i:580504 original size:18 final size:18
Alignment explanation
Indices: 580483--580528 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
580473 TATTTAAATA
580483 TAATTAATATAATATATT
1 TAATTAATATAATATATT
*
580501 TAATATAA-ATATTATATT
1 TAAT-TAATATAATATATT
*
580519 TAATTTATAT
1 TAATTAATAT
580529 TTATATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 19 0.79
19 3 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TAATTAATATAATATATT
Found at i:580516 original size:23 final size:23
Alignment explanation
Indices: 580468--580525 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
580458 ATACATTACA
*
580468 ATAATTATTTAAATATAATTAAT
1 ATAATTATTTAAATATAAATAAT
*
580491 ATAATATATTT-AATATAAATATT
1 ATAAT-TATTTAAATATAAATAAT
*
580514 ATATTTAATTTA
1 ATAATT-ATTTA
580526 TATTTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 1 0.03
23 23 0.79
24 5 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
ATAATTATTTAAATATAAATAAT
Found at i:581846 original size:95 final size:95
Alignment explanation
Indices: 581677--581853 Score: 266
Period size: 95 Copynumber: 1.9 Consensus size: 95
581667 TACTGAAAAA
* ** * *
581677 GGCTCAAAAAATATGTAAAAGATATAAAAAAAGTTTGATGTTTAACTTATTAATCAATGGCTTAT
1 GGCTCAAAAAATATATAAAAGATAT-AAAAAAGTTTGATGTTTAACTTATTAATCAAAAGATTAA
581742 AATCTAATTATATACTTTGGGGACTAGATAT
65 AATCTAATTATATACTTTGGGGACTAGATAT
* *
581773 GGCTCAAAAAAATATATAAAAGATAT-AAAAGGTTTGATGTTTAACTTATTAATCAAAATATTAA
1 GGCTC-AAAAAATATATAAAAGATATAAAAAAGTTTGATGTTTAACTTATTAATCAAAAGATTAA
581837 AATCTAATTATATACTT
65 AATCTAATTATATACTT
581854 CGGAGACAAT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
95 49 0.67
96 5 0.07
97 19 0.26
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.36
Consensus pattern (95 bp):
GGCTCAAAAAATATATAAAAGATATAAAAAAGTTTGATGTTTAACTTATTAATCAAAAGATTAAA
ATCTAATTATATACTTTGGGGACTAGATAT
Found at i:595388 original size:11 final size:11
Alignment explanation
Indices: 595372--595442 Score: 70
Period size: 12 Copynumber: 6.1 Consensus size: 11
595362 AATACCGCCG
595372 ATATTATTTTT
1 ATATTATTTTT
595383 ATATTATATTTTT
1 ATA-T-TATTTTT
* *
595396 ATATAATAATTT
1 ATATTAT-TTTT
*
595408 ATATTATATTT
1 ATATTATTTTT
595419 ATATTATTTTT
1 ATATTATTTTT
*
595430 AATATTATGTTT
1 -ATATTATTTTT
595442 A
1 A
595443 ACTTTTTTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
11 20 0.39
12 21 0.41
13 10 0.20
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:595434 original size:23 final size:22
Alignment explanation
Indices: 595372--595442 Score: 79
Period size: 23 Copynumber: 3.0 Consensus size: 22
595362 AATACCGCCG
595372 ATATTATTTTTATATTATATTTTT
1 ATATTATTTTTATATTATA--TTT
* *
595396 ATATAATAATTTATATTATATTT
1 ATATTAT-TTTTATATTATATTT
*
595419 ATATTATTTTTAATATTATGTTT
1 ATATTATTTTT-ATATTATATTT
595442 A
1 A
595443 ACTTTTTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 3 0.08
23 20 0.50
24 6 0.15
25 11 0.28
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (22 bp):
ATATTATTTTTATATTATATTT
Found at i:597109 original size:23 final size:24
Alignment explanation
Indices: 597045--597117 Score: 71
Period size: 23 Copynumber: 3.1 Consensus size: 24
597035 AATTTTTAAT
* *
597045 TTTATTAATTTATTTTAATAAATT-
1 TTTA-TAATTAATTTTATTAAATTA
**
597069 TTTATAATTAA-TAAATTAAATTA
1 TTTATAATTAATTTTATTAAATTA
*
597092 TTTAT-ATTAATTTTATTAAATAA
1 TTTATAATTAATTTTATTAAATTA
597115 TTT
1 TTT
597118 TTTAAAAATT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
22 13 0.32
23 23 0.57
24 4 0.10
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTATAATTAATTTTATTAAATTA
Found at i:597331 original size:26 final size:28
Alignment explanation
Indices: 597273--597331 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
597263 AAAATTTAAT
* *
597273 AATTAAATATTTATAACTTTAAAATAGA
1 AATTAAATATTTATAACTTCAAAATAAA
*
597301 TATTAAAT-TTTAT-ACTTCAAAATAAA
1 AATTAAATATTTATAACTTCAAAATAAA
597327 AATTA
1 AATTA
597332 CTATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 15 0.56
27 5 0.19
28 7 0.26
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.41
Consensus pattern (28 bp):
AATTAAATATTTATAACTTCAAAATAAA
Found at i:601104 original size:2 final size:2
Alignment explanation
Indices: 601097--601126 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
601087 CAAGTCAAAA
601097 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
601127 TTGCTTATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:604722 original size:2 final size:2
Alignment explanation
Indices: 604717--604746 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
604707 GTAGAGAGGC
604717 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
604747 GGCTGCAGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:606408 original size:32 final size:32
Alignment explanation
Indices: 606367--606439 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 32
606357 TTTGAGTTAT
* * * * *
606367 TTTCAAATTCGGGTCGTTTTGAGTTCGGATCA
1 TTTCAAATTCGGATCATTTTAACTTCGAATCA
*
606399 TTTCGAATTCGGATCATTTTAACTTCGAATCA
1 TTTCAAATTCGGATCATTTTAACTTCGAATCA
*
606431 TTTTAAATT
1 TTTCAAATT
606440 TGGGTTAATT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.44
Consensus pattern (32 bp):
TTTCAAATTCGGATCATTTTAACTTCGAATCA
Found at i:606409 original size:16 final size:16
Alignment explanation
Indices: 606367--606417 Score: 57
Period size: 16 Copynumber: 3.2 Consensus size: 16
606357 TTTGAGTTAT
* * *
606367 TTTCAAATTCGGGTCG
1 TTTCGAATTCGGATCA
* *
606383 TTTTGAGTTCGGATCA
1 TTTCGAATTCGGATCA
606399 TTTCGAATTCGGATCA
1 TTTCGAATTCGGATCA
606415 TTT
1 TTT
606418 TAACTTCGAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (16 bp):
TTTCGAATTCGGATCA
Found at i:606425 original size:16 final size:15
Alignment explanation
Indices: 606390--606436 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
606380 TCGTTTTGAG
*
606390 TTCGGATCATTTCGAA
1 TTCGGATCATTT-TAA
606406 TTCGGATCATTTTAA
1 TTCGGATCATTTTAA
*
606421 CTTCGAATCATTTTAA
1 -TTCGGATCATTTTAA
606437 ATTTGGGTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 2 0.07
16 26 0.93
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.43
Consensus pattern (15 bp):
TTCGGATCATTTTAA
Found at i:607287 original size:16 final size:16
Alignment explanation
Indices: 607266--607319 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
607256 ATTATTCAGG
607266 TCATTTCGGGTTCGGA
1 TCATTTCGGGTTCGGA
* *
607282 TCATTTTGAGTTCGGA
1 TCATTTCGGGTTCGGA
607298 TCATTTCGGGTTCGGA
1 TCATTTCGGGTTCGGA
607314 TCATTT
1 TCATTT
607320 TTGGCTCAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.15, C:0.17, G:0.26, T:0.43
Consensus pattern (16 bp):
TCATTTCGGGTTCGGA
Found at i:607334 original size:32 final size:31
Alignment explanation
Indices: 607265--607335 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 31
607255 AATTATTCAG
* *
607265 GTCATTTCGGGTTCGGATCATTTTGAGTTCG
1 GTCATTTCGGGTTCGGATCATTTTGAGCTCA
607296 GATCATTTCGGGTTCGGATCATTTTTG-GCTCAA
1 G-TCATTTCGGGTTCGGATCA-TTTTGAGCTC-A
607329 GTCATTT
1 GTCATTT
607336 TTGGGTTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 1 0.03
32 28 0.80
33 6 0.17
ACGTcount: A:0.15, C:0.17, G:0.25, T:0.42
Consensus pattern (31 bp):
GTCATTTCGGGTTCGGATCATTTTGAGCTCA
Found at i:607665 original size:30 final size:31
Alignment explanation
Indices: 607629--607686 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
607619 AGTCTTATGC
607629 ATTTTT-ATTTAGATTTTA-TTATTTTTTAAT
1 ATTTTTAATTTAG-TTTTATTTATTTTTTAAT
607659 ATTTTTAATTTAGTTTTATTTATTTTTT
1 ATTTTTAATTTAGTTTTATTTATTTTTT
607687 TGATTAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.72
Consensus pattern (31 bp):
ATTTTTAATTTAGTTTTATTTATTTTTTAAT
Found at i:609846 original size:28 final size:27
Alignment explanation
Indices: 609796--609859 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
609786 CAAAAAATTA
609796 AATATAATATAACATAAAAAATAATTTT
1 AATATAATATAACATAAAAAAT-ATTTT
* **
609824 TATATAATATAA-ATATACGAATATTTT
1 AATATAATATAACATA-AAAAATATTTT
*
609851 AAAATAATA
1 AATATAATA
609860 CATAATATGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 15 0.50
28 15 0.50
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.38
Consensus pattern (27 bp):
AATATAATATAACATAAAAAATATTTT
Found at i:610513 original size:13 final size:14
Alignment explanation
Indices: 610495--610523 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
610485 GAAATACAAC
610495 ATTAAA-AAAAATA
1 ATTAAAGAAAAATA
610508 ATTAAAGAAAAATA
1 ATTAAAGAAAAATA
610522 AT
1 AT
610524 ATAATACATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.24
Consensus pattern (14 bp):
ATTAAAGAAAAATA
Found at i:610645 original size:13 final size:13
Alignment explanation
Indices: 610627--610666 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
610617 TACAACAAAT
610627 AAAATAATATAAA
1 AAAATAATATAAA
610640 AAAATAAT-T-AA
1 AAAATAATATAAA
*
610651 AATATAATATAAA
1 AAAATAATATAAA
610664 AAA
1 AAA
610667 TAGCATAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 9 0.39
12 2 0.09
13 12 0.52
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATAATATAAA
Found at i:611440 original size:3 final size:3
Alignment explanation
Indices: 611432--611474 Score: 59
Period size: 3 Copynumber: 14.0 Consensus size: 3
611422 TCATTCCTAA
* *
611432 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATT GAT AAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
611475 GAAGAAAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:615913 original size:5 final size:5
Alignment explanation
Indices: 615907--615947 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
615897 GGTACAGATT
* * *
615907 GGATT GGATT GGATG GGATT GGATG GGATG GGATG GGATG G
1 GGATG GGATG GGATG GGATG GGATG GGATG GGATG GGATG G
615948 TCAACATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.20, C:0.00, G:0.54, T:0.27
Consensus pattern (5 bp):
GGATG
Found at i:615918 original size:10 final size:10
Alignment explanation
Indices: 615903--615945 Score: 68
Period size: 10 Copynumber: 4.3 Consensus size: 10
615893 CAGAGGTACA
*
615903 GATTGGATTG
1 GATTGGATGG
615913 GATTGGATGG
1 GATTGGATGG
615923 GATTGGATGG
1 GATTGGATGG
*
615933 GATGGGATGG
1 GATTGGATGG
615943 GAT
1 GAT
615946 GGTCAACATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.21, C:0.00, G:0.49, T:0.30
Consensus pattern (10 bp):
GATTGGATGG
Found at i:615927 original size:15 final size:15
Alignment explanation
Indices: 615907--615947 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
615897 GGTACAGATT
*
615907 GGATTGGATTGGATG
1 GGATTGGATGGGATG
615922 GGATTGGATGGGATG
1 GGATTGGATGGGATG
*
615937 GGATGGGATGG
1 GGATTGGATGG
615948 TCAACATTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.20, C:0.00, G:0.54, T:0.27
Consensus pattern (15 bp):
GGATTGGATGGGATG
Found at i:620394 original size:17 final size:17
Alignment explanation
Indices: 620372--620411 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
620362 ATACAAATAT
*
620372 TTTTCTCTTTTTATTTC
1 TTTTCTCTCTTTATTTC
*
620389 TTTTCTCTCTTTCTTTC
1 TTTTCTCTCTTTATTTC
*
620406 CTTTCT
1 TTTTCT
620412 TTCTCCGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTCTCTCTTTATTTC
Found at i:620576 original size:16 final size:16
Alignment explanation
Indices: 620555--620588 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
620545 CATCTAGAGT
620555 AAAGGAAATA-AAAGAA
1 AAAGGAAA-AGAAAGAA
620571 AAAGGAAAAGAAAGAA
1 AAAGGAAAAGAAAGAA
620587 AA
1 AA
620589 CCTAATATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 16 0.94
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (16 bp):
AAAGGAAAAGAAAGAA
Found at i:622814 original size:15 final size:14
Alignment explanation
Indices: 622782--622813 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
622772 AGTCATATAA
622782 TTTTAAAAATAATT
1 TTTTAAAAATAATT
*
622796 TTTTGAAAATAATT
1 TTTTAAAAATAATT
622810 TTTT
1 TTTT
622814 TAAAGATCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTTTAAAAATAATT
Found at i:623638 original size:24 final size:24
Alignment explanation
Indices: 623605--623683 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 24
623595 CACATGTATC
*
623605 GATACATGAACAGTGATGAACAGT
1 GATATATGAACAGTGATGAACAGT
* *
623629 GATATGTGAACAATGATGAACAGT
1 GATATATGAACAGTGATGAACAGT
* * *
623653 GATATATGAATAGTAATGAAAAGT
1 GATATATGAACAGTGATGAACAGT
*
623677 AATATAT
1 GATATAT
623684 TAATTAAAAG
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.46, C:0.06, G:0.22, T:0.27
Consensus pattern (24 bp):
GATATATGAACAGTGATGAACAGT
Found at i:623760 original size:32 final size:33
Alignment explanation
Indices: 623719--623783 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
623709 GTTAGTTTTT
*
623719 ATGTATCGATACTAAG-AACGTATATCGATATA
1 ATGTATCGATACTAAGTAACATATATCGATATA
*
623751 ATGTATCGATACTAAGTAACATGTATCGATATA
1 ATGTATCGATACTAAGTAACATATATCGATATA
623784 TCAGGGTGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.53
33 14 0.47
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACTAAGTAACATATATCGATATA
Found at i:625959 original size:18 final size:18
Alignment explanation
Indices: 625936--625992 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 18
625926 TCTTTACATG
625936 TAATTATATAAAAATTAC
1 TAATTATATAAAAATTAC
* *
625954 TAATTACATTTAAACATTAC
1 TAATT--ATATAAAAATTAC
625974 -AAGTTATATAAAACATTAC
1 TAA-TTATATAAAA-ATTAC
625993 CTTTACATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 11 0.35
19 7 0.23
20 13 0.42
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (18 bp):
TAATTATATAAAAATTAC
Found at i:625989 original size:19 final size:19
Alignment explanation
Indices: 625936--625992 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
625926 TCTTTACATG
625936 TAATTATATAAAA-ATTAC
1 TAATTATATAAAACATTAC
* *
625954 TAATTACATTTAAACATTAC
1 TAATTATA-TAAAACATTAC
625974 -AAGTTATATAAAACATTAC
1 TAA-TTATATAAAACATTAC
625993 CTTTACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.22
19 16 0.50
20 9 0.28
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (19 bp):
TAATTATATAAAACATTAC
Found at i:626084 original size:47 final size:46
Alignment explanation
Indices: 626030--626151 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 46
626020 CAAACTATAT
* *
626030 ATAAATATTACCGGTTACATAAAATATTATCTTTAT-ATATAATTAC
1 ATAAATATTACCAGTTACATAAAATATTATCTTT-TCATATAATCAC
* * * *
626076 ATAAAATATTACAAGTTATATAAAACATTATCTTTTCATGTAATCAC
1 AT-AAATATTACCAGTTACATAAAATATTATCTTTTCATATAATCAC
* *
626123 ATAAACATTACCAATTACATAAAATATTA
1 ATAAATATTACCAGTTACATAAAATATTA
626152 CCTAATTAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 25 0.40
47 38 0.60
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (46 bp):
ATAAATATTACCAGTTACATAAAATATTATCTTTTCATATAATCAC
Found at i:626096 original size:67 final size:65
Alignment explanation
Indices: 625922--626105 Score: 190
Period size: 67 Copynumber: 2.8 Consensus size: 65
625912 TACATATACG
* * * * *
625922 ATTATCTTTACATGTAATTATATAAAAATTACTAATTACATTTAAACATTACAAGTTATATAAAA
1 ATTATCTTTACATATAATTACATAAAAATTAC-AATTATATATAAACATTACAAGTTACATAAAA
625987 C
65 C
* * * * * **
625988 ATTACCTTTACATTTAAGTACATAAAACATTACAAACTATATATAAATATTACCGGTTACATAAA
1 ATTATCTTTACATATAATTACATAAAA-ATTAC-AATTATATATAAACATTACAAGTTACATAAA
*
626053 AT
64 AC
*
626055 ATTATCTTTATATATAATTACATAAAATATTACAAGTTATATA-AAACATTA
1 ATTATCTTTACATATAATTACATAAAA-ATTACAA-TTATATATAAACATTA
626106 TCTTTTCATG
Statistics
Matches: 96, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
66 32 0.33
67 64 0.67
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (65 bp):
ATTATCTTTACATATAATTACATAAAAATTACAATTATATATAAACATTACAAGTTACATAAAAC
Found at i:626153 original size:19 final size:19
Alignment explanation
Indices: 626129--626262 Score: 62
Period size: 19 Copynumber: 6.9 Consensus size: 19
626119 TCACATAAAC
626129 ATTACCAATTACATAAAAT
1 ATTACCAATTACATAAAAT
* * *
626148 ATTACCTAATTAAATTAAAC
1 ATTACC-AATTACATAAAAT
* * * *
626168 ATTACCAGTTATATACAAC
1 ATTACCAATTACATAAAAT
*
626187 ATT---AATTA-AGAATAATTTT
1 ATTACCAATTACATAA-AA---T
626206 TATTA-CAATTACATATAAAT
1 -ATTACCAATTACATA-AAAT
* *
626226 ATTACTAGTTACATAAAAT
1 ATTACCAATTACATAAAAT
* *
626245 ATTACAAATTATATAAAA
1 ATTACCAATTACATAAAA
626263 CTTTTTTTAC
Statistics
Matches: 87, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
15 2 0.02
16 6 0.07
19 41 0.47
20 28 0.32
22 5 0.06
23 4 0.05
24 1 0.01
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (19 bp):
ATTACCAATTACATAAAAT
Found at i:626171 original size:20 final size:19
Alignment explanation
Indices: 626124--626174 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
626114 TGTAATCACA
*
626124 TAAACATTACCAATTACAT
1 TAAACATTACCAATTAAAT
* *
626143 AAAATATTACCTAATTAAAT
1 TAAACATTACC-AATTAAAT
626163 TAAACATTACCA
1 TAAACATTACCA
626175 GTTATATACA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.51, C:0.18, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAACATTACCAATTAAAT
Found at i:626180 original size:114 final size:115
Alignment explanation
Indices: 625954--626182 Score: 268
Period size: 114 Copynumber: 2.0 Consensus size: 115
625944 TAAAAATTAC
* *
625954 TAATTACATTTAAACATTACAAGTTATATAAAACATTACCTTTACATTTAAGTACATAAAACATT
1 TAATTACATTAAAACATTACAAGTTATATAAAACATTACCTTTACATGTAAGTACATAAAACATT
* ** * * * *
626019 ACAAACTATATATAAATATTACCGGTTACATAAAATATTATCTTTATATA
66 ACAAACTACATATAAATATTACCAATTAAATAAAACATTACCGTTATATA
* * *
626069 TAATTACA-TAAAATATTACAAGTTATATAAAACATTATCTTTTCATGTAA-TCACAT-AAACAT
1 TAATTACATTAAAACATTACAAGTTATATAAAACATTACCTTTACATGTAAGT-ACATAAAACAT
* * *
626131 TACCAATTACATA-AAATATTACCTAATTAAATTAAACATTACCAGTTATATA
65 TACAAACTACATATAAATATTACC-AATTAAATAAAACATTACC-GTTATATA
626183 CAACATTAAT
Statistics
Matches: 96, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
112 10 0.10
113 30 0.31
114 48 0.50
115 8 0.08
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.37
Consensus pattern (115 bp):
TAATTACATTAAAACATTACAAGTTATATAAAACATTACCTTTACATGTAAGTACATAAAACATT
ACAAACTACATATAAATATTACCAATTAAATAAAACATTACCGTTATATA
Found at i:626380 original size:20 final size:20
Alignment explanation
Indices: 626352--626390 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
626342 TAATTACAAA
* *
626352 AAACTTTACGAGTTACATAT
1 AAACATTACAAGTTACATAT
626372 AAACATTACAAGTTACATA
1 AAACATTACAAGTTACATA
626391 AAAAATTAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (20 bp):
AAACATTACAAGTTACATAT
Found at i:629209 original size:22 final size:22
Alignment explanation
Indices: 629195--629242 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
629185 TACTATATAT
629195 AATATAAACTCTTACTAATTAA
1 AATATAAACTCTTACTAATTAA
*
629217 AATATAGACTCTT--TAA-TAA
1 AATATAAACTCTTACTAATTAA
629236 AATATAA
1 AATATAA
629243 TTTTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.38
20 3 0.12
22 12 0.50
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.35
Consensus pattern (22 bp):
AATATAAACTCTTACTAATTAA
Found at i:629275 original size:21 final size:21
Alignment explanation
Indices: 629249--629289 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
629239 ATAATTTTAA
629249 TTAATC-ATTTAATATAAATCT
1 TTAATCAATTT-ATATAAATCT
629270 TTAATCTAATTTATATAAAT
1 TTAATC-AATTTATATAAAT
629290 TTATGTGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.33
22 8 0.44
23 4 0.22
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATCAATTTATATAAATCT
Found at i:630119 original size:13 final size:14
Alignment explanation
Indices: 630094--630127 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
630084 GGACATGCTC
630094 GATTTTTTATTTTA
1 GATTTTTTATTTTA
630108 GATTTTTT-TTTTA
1 GATTTTTTATTTTA
*
630121 AATTTTT
1 GATTTTT
630128 GGAATGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.21, C:0.00, G:0.06, T:0.74
Consensus pattern (14 bp):
GATTTTTTATTTTA
Found at i:633983 original size:17 final size:17
Alignment explanation
Indices: 633961--634009 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
633951 ATGTAAAATT
633961 AATATAAATAAGTATTA
1 AATATAAATAAGTATTA
* *
633978 AATAT-AATAAATATTT
1 AATATAAATAAGTATTA
* *
633994 AATAAAAATATGTATT
1 AATATAAATAAGTATT
634010 TGATCAAGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (17 bp):
AATATAAATAAGTATTA
Found at i:634533 original size:43 final size:42
Alignment explanation
Indices: 634485--634570 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 42
634475 ATAAATTTTA
*
634485 TCTCATTTATTATATTTAAAATAATACATTAATTTTATCTCAT
1 TCTCATTTATTAAATTTAAAATAATACATTAATTTTAT-TCAT
* *
634528 TCTCATTTATTAAATTTAATATAATATATTAATTTTATTCAT
1 TCTCATTTATTAAATTTAAAATAATACATTAATTTTATTCAT
634570 T
1 T
634571 ACCTTTTACA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (42 bp):
TCTCATTTATTAAATTTAAAATAATACATTAATTTTATTCAT
Found at i:634712 original size:18 final size:18
Alignment explanation
Indices: 634691--634725 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
634681 TAATAATATT
634691 ATTTTTATCTAATTCATA
1 ATTTTTATCTAATTCATA
*
634709 ATTTTTATCTCATTCAT
1 ATTTTTATCTAATTCAT
634726 TAAATTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTTTTATCTAATTCATA
Found at i:634757 original size:54 final size:52
Alignment explanation
Indices: 634655--634758 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 52
634645 TATTATCAAT
* * *
634655 TAATTTTTTTCATTTATTAAATTTAATAATAATATTATTTTTATCTAATTCA
1 TAATTTTTTTCATTCATTAAATTTAATAATAATATTAATCTTATCTAATTCA
634707 TAATTTTTATCTCATTCATTAAATTTAGTATAAT-ATATTAATCTTA-CTAATT
1 TAATTTTT-T-TCATTCATTAAATTTA--ATAATAATATTAATCTTATCTAATT
634759 AATTTTATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
52 8 0.18
53 1 0.02
54 21 0.47
55 10 0.22
56 5 0.11
ACGTcount: A:0.37, C:0.08, G:0.01, T:0.55
Consensus pattern (52 bp):
TAATTTTTTTCATTCATTAAATTTAATAATAATATTAATCTTATCTAATTCA
Found at i:634776 original size:54 final size:55
Alignment explanation
Indices: 634652--634776 Score: 123
Period size: 54 Copynumber: 2.3 Consensus size: 55
634642 AATTATTATC
* * * * *
634652 AATTAATTTTTTTCATTTATTAAATTTAATAATAATATTATTTTTATCTAATTCAT
1 AATT-ATTTATTTCATTCATTAAATTTAATAATAATATTAATCTTATCTAATTAAT
*
634708 AATT-TTTATCTCATTCATTAAATTTAGTATAAT-ATATTAATCTTA-CTAATTAAT
1 AATTATTTATTTCATTCATTAAATTTA--ATAATAATATTAATCTTATCTAATTAAT
* *
634762 -TTTATTTCTTTCATT
1 AATTATTTATTTCATT
634777 GTGTCTAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
53 2 0.04
54 36 0.63
55 10 0.18
56 9 0.16
ACGTcount: A:0.35, C:0.08, G:0.01, T:0.56
Consensus pattern (55 bp):
AATTATTTATTTCATTCATTAAATTTAATAATAATATTAATCTTATCTAATTAAT
Found at i:634840 original size:36 final size:36
Alignment explanation
Indices: 634795--634869 Score: 107
Period size: 36 Copynumber: 2.1 Consensus size: 36
634785 AACTATTTTT
* *
634795 ATAATAATATTTTTATATATATTAAATTA-AATTTAA
1 ATAAAAATATTTTTATAT-TATTAAATAATAATTTAA
*
634831 ATAAAAATATTTTTTTATTATTAAATAATAATTTAA
1 ATAAAAATATTTTTATATTATTAAATAATAATTTAA
634867 ATA
1 ATA
634870 TATCAATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
35 9 0.26
36 26 0.74
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (36 bp):
ATAAAAATATTTTTATATTATTAAATAATAATTTAA
Found at i:634883 original size:56 final size:56
Alignment explanation
Indices: 634788--634895 Score: 139
Period size: 56 Copynumber: 1.9 Consensus size: 56
634778 TGTCTAAAAC
* * * *
634788 TATTTTTATAATAATATTTTTATATATATTAAATTAAATTTAAATAAAAATATTTTTT
1 TATTATTATAATAATATATTTAAATATATCAAATTAAA-TTAAA-AAAAATATTTTTT
*
634846 TATTATTA-AATAATA-ATTTAAATATATCAATTTAAATTAAAAAAAATATT
1 TATTATTATAATAATATATTTAAATATATCAAATTAAATTAAAAAAAATATT
634896 GCGTTTAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
54 9 0.20
55 5 0.11
56 17 0.38
57 7 0.16
58 7 0.16
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (56 bp):
TATTATTATAATAATATATTTAAATATATCAAATTAAATTAAAAAAAATATTTTTT
Found at i:635480 original size:42 final size:42
Alignment explanation
Indices: 635434--635513 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
635424 TAGAAGTAAA
*
635434 AATAAAAAATCAATG-GATCAAATTAATAAATTATATTAAATC
1 AATAAAAAA-CAATGAGATAAAATTAATAAATTATATTAAATC
* * *
635476 AATAAATAAGAATGAGATAAAATTAATATATTATATTA
1 AATAAAAAACAATGAGATAAAATTAATAAATTATATTA
635514 CATACAAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 4 0.12
42 29 0.88
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.33
Consensus pattern (42 bp):
AATAAAAAACAATGAGATAAAATTAATAAATTATATTAAATC
Found at i:635507 original size:37 final size:37
Alignment explanation
Indices: 635465--635535 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
635455 ATTAATAAAT
635465 TATATTAAATCA-ATAAATAAGAATGAGATAAAATTAA
1 TATATTAAATCACATAAA-AAGAATGAGATAAAATTAA
* * * *
635502 TATATTATATTACATACAAAGAATGAGGTAAAAT
1 TATATTAAATCACATAAAAAGAATGAGATAAAAT
635536 ATATAGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 25 0.86
38 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.10, T:0.31
Consensus pattern (37 bp):
TATATTAAATCACATAAAAAGAATGAGATAAAATTAA
Found at i:635600 original size:234 final size:236
Alignment explanation
Indices: 635334--635763 Score: 575
Period size: 234 Copynumber: 1.8 Consensus size: 236
635324 AATAGTATAC
*
635334 TAAATTTAATAAATGAGAAAATATTAATTGATAATAATTTTTATATTATATTTTTAGTAACTTAA
1 TAAATTGAATAAATGAGAAAATATTAATTGATAATAATTTTTATATTATATTTTTAGTAACTTAA
* * * **
635399 TCATTAAAATTCTATTAAAAAGAGTTAGAAGTAAAAATAAAAAATCAATGGATCAAATTAA-T-A
66 TCATTAAAATTCTATCAAAAA-A-TTA-AAATAAAAATAAAAAAGCAATAAATCAAATTAATTAA
* *
635462 -A-ATTATATTAAA-TCAATAAATAAGAATGAGATAAAATTAATATATTATATTACAT-ACAAAG
128 TATATTATATTAAATTCAACAAATAACAATGAGATAAAATTAATATATTATATTA-ATCACAAAG
635523 AATGAGGTAAAATATATAGGTAAACTTAATATATAATATTAAATT
192 AATGAGGTAAAATATATAGGTAAACTTAATATATAATATTAAATT
* * * *
635568 TAAATTGAATAAATGAGAAAATATTAATTGATAATAGTTTTTGTTTTATATTTTTAGTAATTTAA
1 TAAATTGAATAAATGAGAAAATATTAATTGATAATAATTTTTATATTATATTTTTAGTAACTTAA
* * * * * *
635633 TCGTTTAAATTCTATCAAAAAATTAAAATGAAATTCAAAAAGCAATAAATGAAATTAATTAATAT
66 TCATTAAAATTCTATCAAAAAATTAAAATAAAAATAAAAAAGCAATAAATCAAATTAATTAATAT
* * ** *
635698 ATTATATTAAATTTAACGAATGTCAATGAGATAAAATTAATATATTATATTAATCACAATGAATG
131 ATTATATTAAATTCAACAAATAACAATGAGATAAAATTAATATATTATATTAATCACAAAGAATG
635763 A
196 A
635764 AAATGATTGA
Statistics
Matches: 167, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
231 25 0.15
232 4 0.02
233 2 0.01
234 79 0.47
235 13 0.08
236 44 0.26
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.37
Consensus pattern (236 bp):
TAAATTGAATAAATGAGAAAATATTAATTGATAATAATTTTTATATTATATTTTTAGTAACTTAA
TCATTAAAATTCTATCAAAAAATTAAAATAAAAATAAAAAAGCAATAAATCAAATTAATTAATAT
ATTATATTAAATTCAACAAATAACAATGAGATAAAATTAATATATTATATTAATCACAAAGAATG
AGGTAAAATATATAGGTAAACTTAATATATAATATTAAATT
Found at i:636389 original size:21 final size:21
Alignment explanation
Indices: 636363--636402 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
636353 TTATTTATAT
636363 ATTTTTATTT-CATTATAATAA
1 ATTTTT-TTTACATTATAATAA
*
636384 ATTTTTTTTACATTTTAAT
1 ATTTTTTTTACATTATAAT
636403 TTTTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTTTTTACATTATAATAA
Found at i:637517 original size:2 final size:2
Alignment explanation
Indices: 637510--637555 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
637500 AGCTGGCATT
637510 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
637552 TA TA
1 TA TA
637556 ATCTTTAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:638199 original size:27 final size:27
Alignment explanation
Indices: 638168--638244 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
638158 AAAATCACCT
*
638168 TTTGTGTTTGTAAAAAATGATGGTTCC
1 TTTGTGTTTGTAAAAAATAATGGTTCC
* *
638195 TTTGTGTTTGTCAAAAATAATAGTTCC
1 TTTGTGTTTGTAAAAAATAATGGTTCC
* *
638222 TTTTTGTCTGTAAAAAATAATGG
1 TTTGTGTTTGTAAAAAATAATGG
638245 CTTGTTGTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (27 bp):
TTTGTGTTTGTAAAAAATAATGGTTCC
Found at i:642709 original size:27 final size:27
Alignment explanation
Indices: 642679--642757 Score: 131
Period size: 27 Copynumber: 2.9 Consensus size: 27
642669 CAAAAGCCAC
*
642679 CCTTTGTATTTGTCAAAAATGGTGATT
1 CCTTTGTGTTTGTCAAAAATGGTGATT
642706 CCTTTGTGTTTGTCAAAAATGGTGATT
1 CCTTTGTGTTTGTCAAAAATGGTGATT
* *
642733 CTTTTTTGTTTGTCAAAAATGGTGA
1 CCTTTGTGTTTGTCAAAAATGGTGA
642758 CTTGTTGTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (27 bp):
CCTTTGTGTTTGTCAAAAATGGTGATT
Found at i:642769 original size:28 final size:26
Alignment explanation
Indices: 642687--642774 Score: 117
Period size: 27 Copynumber: 3.4 Consensus size: 26
642677 ACCCTTTGTA
*
642687 TTTGTCAAAAATGGTGATTCCTTTGTG
1 TTTGTCAAAAATGGTGATT-CTTTTTG
642714 TTTGTCAAAAATGGTGATTCTTTTTTG
1 TTTGTCAAAAATGGTGATTC-TTTTTG
*
642741 TTTGTCAAAAATGGTGA--CTTGTTG
1 TTTGTCAAAAATGGTGATTCTTTTTG
*
642765 TTTGTTAAAA
1 TTTGTCAAAA
642775 TTAATAGCTA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
24 14 0.25
25 1 0.02
26 1 0.02
27 41 0.72
ACGTcount: A:0.25, C:0.08, G:0.20, T:0.47
Consensus pattern (26 bp):
TTTGTCAAAAATGGTGATTCTTTTTG
Found at i:648117 original size:20 final size:20
Alignment explanation
Indices: 648092--648133 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
648082 CAAAATGCTT
648092 TGAACATATGGAAGGATAAC
1 TGAACATATGGAAGGATAAC
648112 TGAACATATGGAAGGATAAC
1 TGAACATATGGAAGGATAAC
648132 TG
1 TG
648134 CTCATTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.10, G:0.26, T:0.21
Consensus pattern (20 bp):
TGAACATATGGAAGGATAAC
Found at i:655195 original size:78 final size:78
Alignment explanation
Indices: 655085--655290 Score: 234
Period size: 78 Copynumber: 2.6 Consensus size: 78
655075 GAGATAATAA
* * * * * * *
655085 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-A
655150 -TTAGAAAAAAAAC
65 TTTAGAAAAAAAAC
* **
655163 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-
* * * *
655228 TTTGGGAATAAAGC
65 TTTAGAAAAAAAAC
* * *
655242 CGGGGTTGGAGTATCCCCTCGGAAGTAACGGGATTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGAT
655291 GAAATAACGA
Statistics
Matches: 106, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
77 1 0.01
78 53 0.50
79 52 0.49
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATAT
TTAGAAAAAAAAC
Found at i:655282 original size:28 final size:27
Alignment explanation
Indices: 655244--655313 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 27
655234 AATAAAGCCG
** *
655244 GGGTTGGAGTATCCCCTCGGAAGTAAC
1 GGGTTGGAGTATCCCCGAGGAAATAAC
*
655271 GGGATTGGAGTATCCCCGATGAAATAAC
1 GGG-TTGGAGTATCCCCGAGGAAATAAC
655299 GAGGTTGGAGTATCC
1 G-GGTTGGAGTATCC
655314 TCGATAGTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 3 0.08
28 32 0.86
29 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAAATAAC
Found at i:655391 original size:52 final size:52
Alignment explanation
Indices: 655301--655690 Score: 240
Period size: 51 Copynumber: 7.4 Consensus size: 52
655291 GAAATAACGA
* ** *
655301 GGTTGGAGTATCCTCGA-TAGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG-TTTTGGAAATAAAATCGG
* * *
655353 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGG
** * * * *
655405 GGTTGGAGTATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGA-T-T--AAAGGAAAATTGGTGTTTTGGAAATAAAATCGG
* * *** * *
655461 GGTTGGAGTATCCCCGATT-ATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGG
* * * * **** *
655512 GGTTGGAGTATCCCCTCGGAAATAATAGG---GTTGGAGTATCCCCAATGATTAA-CGG
1 GGTTGGAGTAT-CCC-C-G-ATTAA-AGGAAAATTGGTGTTTTGGAAAT-A-AAATCGG
*
655567 GGTTGGAGTATCCCCGATTGTGAA-G-AAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGA-T-TAAAGGAAAATTGGTG--TTTTGGAAATAAAATCGG
* * * * *
655621 AGTTGGAGTATCTCCGATTATA-GAAAATTAGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGG
* *
655672 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
655691 GTGGAGAATT
Statistics
Matches: 260, Mismatches: 57, Indels: 43
0.72 0.16 0.12
Matches are distributed among these distances:
51 70 0.27
52 55 0.21
53 34 0.13
54 31 0.12
55 23 0.09
56 46 0.18
57 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:655435 original size:108 final size:107
Alignment explanation
Indices: 655323--655526 Score: 264
Period size: 107 Copynumber: 1.9 Consensus size: 107
655313 CTCGATAGTG
* * * * *** *
655323 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
1 AAAAATTAGTG-TTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATT-AAGAAAAATCAATAT
655388 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAA
64 TTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAA
* * *
655432 AAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTT
1 AAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATCAATATTT
* **
655497 TGGAAATAAAGTCGGGGTTGGAGTATCCCC
66 TGAAAATAAAACCGGGGTTGGAGTATCCCC
655527 TCGGAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 38 0.47
108 33 0.41
109 10 0.12
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (107 bp):
AAAAATTAGTGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGATTAAGAAAAATCAATATTT
TGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAA
Found at i:655454 original size:56 final size:54
Alignment explanation
Indices: 655323--655487 Score: 201
Period size: 56 Copynumber: 3.0 Consensus size: 54
655313 CTCGATAGTG
* * *
655323 AAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGA-TT--AAAG
1 AAAAATTGGTG-TTTT-GAAATAAAACCGGGGTTGGAGTATCCCCGATTTGAAAAA
*
655376 GAAAATTGGTGTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAA
1 AAAAATTGGTGTTTTG-AAATAAAACCGGGGTTGGAGTATCCCCGATT-TGAAAAA
* *
655432 AAAAATTAGTGTTTTAGCAATAAAACCGGGGTTGGAGTATCCCCGATTATGAAAAA
1 AAAAATTGGTGTTTT-GAAATAAAACCGGGGTTGGAGTATCCCCGATT-TGAAAAA
655488 TCAATATTTT
Statistics
Matches: 98, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
51 1 0.01
52 31 0.32
53 11 0.11
54 1 0.01
56 53 0.54
57 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.24, T:0.28
Consensus pattern (54 bp):
AAAAATTGGTGTTTTGAAATAAAACCGGGGTTGGAGTATCCCCGATTTGAAAAA
Found at i:655666 original size:267 final size:267
Alignment explanation
Indices: 655191--655693 Score: 796
Period size: 267 Copynumber: 1.9 Consensus size: 267
655181 TCGAAAATAA
* * *
655191 CGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * * *
655256 CCCCTCGGAAGTAACGGGATTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATAG
66 CCCCTCGGAAATAAAGGGATTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCCCGATAG
*
655321 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* *
655386 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCA
196 GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCA
655451 ATAAAAC
261 ATAAAAC
* *
655458 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
655523 CCCCTCGGAAATAATAGGG-TTGGAGTATCCCCAATG-ATTAACGGGGTTGGAGTATCCCCGATT
66 CCCCTCGGAAATAA-AGGGATTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCCCGATA
* *
655586 GTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCTCCGATTATA-GAAAATT
130 GTGAA-AAATTGGTG-TTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
*
655650 AGTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTG
193 AGTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTG
655694 GAGAATTGAG
Statistics
Matches: 215, Mismatches: 18, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
266 28 0.13
267 145 0.67
268 42 0.20
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (267 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAAAGGGATTGGAGTATCCCCAATGAAATAACGAGGTTGGAGTATCCCCGATAG
TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCA
ATAAAAC
Found at i:658074 original size:33 final size:33
Alignment explanation
Indices: 658032--658098 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
658022 AAAATTTCCA
***
658032 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
* *
658065 AATGTATCGATGCACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
658098 A
1 A
658099 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:658247 original size:21 final size:21
Alignment explanation
Indices: 658221--658276 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
658211 GTTGGGACCC
658221 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCCACAAA
*
658242 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCCACAAA
658263 TGTATCGATACATT
1 TGTATCGATACATT
658277 TGAATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATTCCACAAA
Found at i:659208 original size:27 final size:27
Alignment explanation
Indices: 659068--659208 Score: 65
Period size: 28 Copynumber: 5.1 Consensus size: 27
659058 TGTGAGCTTT
*
659068 GAAAGGCGTCCTGCTCTTTGAGGACT-
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
** * * * *
659094 GAAAGGTG-CCACCAACTTGTGTGGGCTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGACTG
*
659122 TAAGAGGTGTCCTGCTCTTTGAGGACTG
1 GAA-AGGTGTCCTGCTCTTTGAGGACTG
* ** * * * *
659150 GAAA-ATG-CCACCAACTTGTGTGGGCTTT
1 GAAAGGTGTCCTGC-TCTT-TGAGGAC-TG
659178 GAAAGGTGTCCTGCTCTTTGAGGACTG
1 GAAAGGTGTCCTGCTCTTTGAGGACTG
659205 GAAA
1 GAAA
659209 ATGCCACCAA
Statistics
Matches: 77, Mismatches: 28, Indels: 19
0.62 0.23 0.15
Matches are distributed among these distances:
25 6 0.08
26 15 0.19
27 17 0.22
28 20 0.26
29 13 0.17
30 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (27 bp):
GAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:659447 original size:59 final size:59
Alignment explanation
Indices: 659021--659900 Score: 1089
Period size: 59 Copynumber: 15.2 Consensus size: 59
659011 ATAAAGTGTA
* * * *
659021 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGAGCTTT----G-AAAGGCG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
*
659076 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT--AAG---AGGTG
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
659131 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** *
659186 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----G-AAAGGGG
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
659241 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCA
1 TCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGCG
* *
659302 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCAAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAGGCG
* * *
659362 TCCTGCTCTTTGAGGATTGAAGGTGCCACAAACTTGGGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
659421 TCCTGCTCTTTGAGGATTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGACAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
659480 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGCGTGGGCTTTAAAAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
659539 TCCCGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
659598 TCCTGCTCTTTGAAGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
659657 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGAAAACGCG
1 TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* * *
659716 T-CTCGTTCTTTGAGGACTGAAGGTGCCA-CAACTTGTGTGGGCTTTAAGAGAAAAAGCG
1 TCCT-GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
** * *
659774 TCCTGCTCTTTGAGGACTAGAAAATGCCACCAACTTGTGTAGGCTTT---A-AAAA-GCA
1 TCCTGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
* *
659829 TCCTGCTCTTTGAGGATTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGCG
659890 TCCTGCTCTTT
1 TCCTGCTCTTT
659901 AAGGGCTAAA
Statistics
Matches: 750, Mismatches: 49, Indels: 46
0.89 0.06 0.05
Matches are distributed among these distances:
53 1 0.00
54 1 0.00
55 231 0.31
56 8 0.01
57 2 0.00
58 50 0.07
59 320 0.43
60 98 0.13
61 39 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGCG
Found at i:660913 original size:12 final size:11
Alignment explanation
Indices: 660900--660949 Score: 66
Period size: 12 Copynumber: 4.4 Consensus size: 11
660890 TTTTTCTTTG
660900 TTTTGTTTTTT
1 TTTTGTTTTTT
660911 GTTTTGTTTTTT
1 -TTTTGTTTTTT
660923 TCTTT-TTTTTT
1 T-TTTGTTTTTT
660934 TTTTGCTTTTTT
1 TTTTG-TTTTTT
660946 TTTT
1 TTTT
660950 AAGAGAAGGT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.09
11 8 0.23
12 24 0.69
ACGTcount: A:0.00, C:0.04, G:0.08, T:0.88
Consensus pattern (11 bp):
TTTTGTTTTTT
Found at i:673422 original size:78 final size:78
Alignment explanation
Indices: 673332--673517 Score: 221
Period size: 79 Copynumber: 2.4 Consensus size: 78
673322 GTGTTCTCTT
* * * * *
673332 GAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA-TTAGAAAAAAAATCGGGAT
1 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAAT-ATTTAGAAAAAAAACCGGGAT
673396 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
** * * * * *
673410 GAAAATAACGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGT
1 GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATA-TTTAGAAAAAAAACCGGGAT
673475 TGGAGTATCCCCTC
65 TGGAGTATCCCCTC
* *
673489 GGAAGTAACGGGGTTGGAGTATCCCCGAT
1 GAAAATAACGGGGTTGGAGTATCCCCGAT
673518 GAAATAACGA
Statistics
Matches: 90, Mismatches: 16, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
77 1 0.01
78 37 0.41
79 52 0.58
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (78 bp):
GAAAATAACGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTAGAAAAAAAACCGGGATT
GGAGTATCCCCTC
Found at i:673509 original size:28 final size:28
Alignment explanation
Indices: 673469--673540 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
673459 GGAATAAAGC
** *
673469 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
673497 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
673525 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
673541 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:673598 original size:52 final size:52
Alignment explanation
Indices: 673528--673920 Score: 275
Period size: 51 Copynumber: 7.4 Consensus size: 52
673518 GAAATAACGA
*
673528 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
* ** * * *
673580 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGA-AAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-GTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
* *
673632 GGTTGGAGTATCCCCGATTGTGAAAAAAAAAATTAGTG-TTTTAGCAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTG-----AAAAATTGGTGTTTTTAGAAATAAAATCGG
* *** * * *
673688 GGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
* * **** * *
673739 GGTTGGAGTATCCCC--TCG-GAAATAACAGGGTTGGAGTATCCCCGATGAT-TAA-CGG
1 GGTTGGAGTATCCCCGATTGTG-AA-AA-A---TTGGTGT-TTTTAGA-AATAAAATCGG
*
673794 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGAA-AAATTGGTG-TTTTTAGAAATAAAATCGG
* * * * *
673848 AGTTGGAGTATCTCCGATTAT-AGAAAATTAGTGTTTTGA-AAATAAAATCGG
1 GGTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTTAGAAATAAAATCGG
* *
673899 AGTTGGAATATCCCCGATTGTG
1 GGTTGGAGTATCCCCGATTGTG
673921 GAGAATTGAG
Statistics
Matches: 263, Mismatches: 53, Indels: 50
0.72 0.14 0.14
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 2 0.01
51 70 0.27
52 52 0.20
53 35 0.13
54 24 0.09
55 22 0.08
56 45 0.17
57 8 0.03
58 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (52 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGG
Found at i:673674 original size:108 final size:103
Alignment explanation
Indices: 673528--673753 Score: 274
Period size: 107 Copynumber: 2.1 Consensus size: 103
673518 GAAATAACGA
* *
673528 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCC
* *** *
673593 CCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
66 CCGATT-AAGAAAAATCAATATTTTGAAAATAAAACCGG
* *
673632 GGTTGGAGTATCCCCGATTGTGAAAAAAAAAATTAGTG-TTTTAGCAATAAAATCGGGGTTGGAG
1 GGTTGGAGTATCCCCGATTGTG-----AAAAATTAGTGTTTTTAGAAATAAAATCGGAGTTGGAG
* * **
673696 TATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
61 TATCCCCGATTAAGAAAAATCAATATTTTGAAAATAAAACCGG
673739 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
673754 TCGGAAATAA
Statistics
Matches: 104, Mismatches: 13, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
104 21 0.20
107 38 0.37
108 35 0.34
109 10 0.10
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.30
Consensus pattern (103 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCC
CCGATTAAGAAAAATCAATATTTTGAAAATAAAACCGG
Found at i:673799 original size:27 final size:28
Alignment explanation
Indices: 673736--673811 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
673726 GAAATAAAGT
***
673736 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* *
673764 CAGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
673791 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
673812 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 24 0.57
28 18 0.43
ACGTcount: A:0.22, C:0.21, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:673893 original size:267 final size:267
Alignment explanation
Indices: 673418--673920 Score: 821
Period size: 267 Copynumber: 1.9 Consensus size: 267
673408 TCGAAAATAA
* * *
673418 CGGGGTTGGAGTATCCCTAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
673483 CCCCTCGGAAGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
*
673548 TGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
* *
673613 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCA
196 GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCA
673678 ATAAAAT
261 ATAAAAT
* *
673685 CGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* *
673750 CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTG
66 CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
* * *
673814 TGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTATCTCCGATTATA-GAAAATTA
131 TGAA-AAATTGGTG-TTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTA
*
673878 GTGTTTTGAAAATAAAATCGGAGTTGGAATATCCCCGATTGTG
194 GTGTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTG
673921 GAGAATTGAG
Statistics
Matches: 217, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
266 29 0.13
267 150 0.69
268 38 0.18
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (267 bp):
CGGGGTTGGAGTATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACAGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCCCGATTG
TGAAAAATTGGTGTTTTTAGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATTAGT
GTTTTGAAAATAAAACCGGAGTTGGAATATCCCCGATTGTGAAAAAAAAAATTAGTGTTTTAGCA
ATAAAAT
Found at i:676307 original size:13 final size:13
Alignment explanation
Indices: 676289--676314 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
676279 ACAAAGATCC
676289 ATGTATCGATACA
1 ATGTATCGATACA
676302 ATGTATCGATACA
1 ATGTATCGATACA
676315 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:676310 original size:33 final size:33
Alignment explanation
Indices: 676268--676334 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
676258 AAAATTTCCA
***
676268 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
676301 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
676334 A
1 A
676335 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:676378 original size:19 final size:17
Alignment explanation
Indices: 676352--676423 Score: 80
Period size: 19 Copynumber: 4.2 Consensus size: 17
676342 GGCAGTAGCT
676352 AATTATGTATCGATACA
1 AATTATGTATCGATACA
676369 ATACTTATGTATCGATAC-
1 A-A-TTATGTATCGATACA
676387 -A-T-TGTATCGATACAA
1 AATTATGTATCGATAC-A
676402 AATTTATGTATCGATACA
1 AA-TTATGTATCGATACA
676420 AATT
1 AATT
676424 GTTGAATTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.23
14 1 0.02
16 2 0.04
17 3 0.06
18 5 0.11
19 25 0.53
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.38
Consensus pattern (17 bp):
AATTATGTATCGATACA
Found at i:676394 original size:13 final size:13
Alignment explanation
Indices: 676376--676400 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
676366 ACAATACTTA
676376 TGTATCGATACAT
1 TGTATCGATACAT
676389 TGTATCGATACA
1 TGTATCGATACA
676401 AAATTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:676398 original size:32 final size:32
Alignment explanation
Indices: 676357--676419 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
676347 TAGCTAATTA
*
676357 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
*
676389 TGTATCGATACAAAATTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
676420 AATTGTTGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.37
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:682812 original size:27 final size:24
Alignment explanation
Indices: 682781--682845 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 24
682771 AAAATAATTT
682781 TAAAAAATAATTAAAAATTACATAATA
1 TAAAAAATAATTAAAAA-TA-A-AATA
*
682808 TAAAACATAAAATATAAAAATAAAATA
1 TAAAA-A-ATAAT-TAAAAATAAAATA
682835 T-AAAAATAATT
1 TAAAAAATAATT
682846 TTTATTTATA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
23 1 0.03
24 4 0.12
25 1 0.03
26 3 0.09
27 10 0.30
28 2 0.06
29 6 0.18
30 6 0.18
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAAAATAATTAAAAATAAAATA
Found at i:682832 original size:13 final size:13
Alignment explanation
Indices: 682765--682843 Score: 74
Period size: 13 Copynumber: 6.0 Consensus size: 13
682755 ATCAAGACAC
682765 AATATAAAAAT-A
1 AATATAAAAATAA
* * *
682777 ATTTTAAAAA-AT
1 AATATAAAAATAA
682789 AAT-TAAAAATTACA
1 AATATAAAAA-TA-A
682803 TAATATAAAACATAA
1 -AATATAAAA-ATAA
682818 AATATAAAAATAA
1 AATATAAAAATAA
682831 AATATAAAAATAA
1 AATATAAAAATAA
682844 TTTTTATTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
11 6 0.11
12 10 0.18
13 18 0.33
14 9 0.16
15 4 0.07
16 7 0.13
17 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AATATAAAAATAA
Found at i:683729 original size:22 final size:20
Alignment explanation
Indices: 683677--683727 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
683667 AATAATAAAA
683677 AATATTTATTT-TATAATTTT
1 AATA-TTATTTATATAATTTT
*
683697 AATTTTATTTATATAATATTT
1 AATATTATTTATATAAT-TTT
*
683718 TATATTATTT
1 AATATTATTT
683728 TAATAGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 6 0.23
20 9 0.35
21 11 0.42
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
AATATTATTTATATAATTTT
Found at i:683731 original size:18 final size:18
Alignment explanation
Indices: 683683--683737 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 18
683673 AAAAAATATT
683683 TATTTTATA--ATTTT-A
1 TATTTTATATTATTTTAA
*
683698 -ATTTTAT-TTA-TATAA
1 TATTTTATATTATTTTAA
683713 TATTTTATATTATTTTAA
1 TATTTTATATTATTTTAA
683731 TAGTTTT
1 TA-TTTT
683738 TGACAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 9 0.29
15 2 0.06
16 7 0.23
17 3 0.10
18 6 0.19
19 4 0.13
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTTTATATTATTTTAA
Found at i:684439 original size:13 final size:13
Alignment explanation
Indices: 684423--684492 Score: 53
Period size: 13 Copynumber: 5.6 Consensus size: 13
684413 AATTTGATAA
684423 TTTATATATTTAT
1 TTTATATATTTAT
684436 TTTATAT-TTATAT
1 TTTATATATT-TAT
*
684449 ATT-T-TA-TTAT
1 TTTATATATTTAT
*
684459 ATTATA-ATTATAT
1 TTTATATATT-TAT
684472 TTTATAT-TTTAT
1 TTTATATATTTAT
684484 ATTTATATA
1 -TTTATATA
684493 AATTTTGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
10 6 0.13
11 4 0.09
12 7 0.15
13 29 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTATATATTTAT
Found at i:684454 original size:28 final size:29
Alignment explanation
Indices: 684404--684493 Score: 89
Period size: 28 Copynumber: 3.2 Consensus size: 29
684394 ATTTGAGTGT
* * * *
684404 TTATAAATAAATTTGATAATTTATATAT-
1 TTATAATTATATTTTATATTTTATATATA
*
684432 TTAT-TTTATATTTATATATTTTAT-TATA
1 TTATAATTATATTT-TATATTTTATATATA
*
684460 TTATAATTATATTTTATATTTTATATTTA
1 TTATAATTATATTTTATATTTTATATATA
684489 -TATAA
1 TTATAA
684494 ATTTTGATAA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
27 9 0.18
28 31 0.61
29 11 0.22
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (29 bp):
TTATAATTATATTTTATATTTTATATATA
Found at i:684463 original size:23 final size:21
Alignment explanation
Indices: 684422--684492 Score: 78
Period size: 21 Copynumber: 3.4 Consensus size: 21
684412 AAATTTGATA
684422 ATTTATATA-TTTAT-TTTAT
1 ATTTATATATTTTATATTTAT
684441 ATTTATATATTTTATTATATTAT
1 ATTTATATATTTTA-TAT-TTAT
*
684464 A-AT-TATATTTTATATTTTAT
1 ATTTATATATTTTATA-TTTAT
684484 ATTTATATA
1 ATTTATATA
684493 AATTTTGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
19 9 0.21
20 11 0.26
21 12 0.28
22 6 0.14
23 5 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTATATATTTTATATTTAT
Found at i:687587 original size:2 final size:2
Alignment explanation
Indices: 687580--687625 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
687570 GTATAGTGGT
687580 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
687622 TA TA
1 TA TA
687626 CTTTATTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:693345 original size:85 final size:86
Alignment explanation
Indices: 693193--693360 Score: 275
Period size: 85 Copynumber: 2.0 Consensus size: 86
693183 TGATAGTTGA
* * * *
693193 ATTTTTAATTTTCTTAATTCAACTTTGGAATCCTTATCTCGAGGAATTTATATCATAGTGAAGCT
1 ATTTCTAATTTTCCTAATTCAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACT
693258 TTGATTA-ATACAATTTTTAG
66 TTGATTACATACAATTTTTAG
*
693278 ATTTCTAATTTTCCTAATTGAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACT
1 ATTTCTAATTTTCCTAATTCAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACT
693343 TTGATTACTATACAATTT
66 TTGATTAC-ATACAATTT
693361 CCATGTTTCT
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
85 67 0.88
87 9 0.12
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (86 bp):
ATTTCTAATTTTCCTAATTCAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACT
TTGATTACATACAATTTTTAG
Found at i:693379 original size:85 final size:84
Alignment explanation
Indices: 693207--693379 Score: 224
Period size: 85 Copynumber: 2.0 Consensus size: 84
693197 TTAATTTTCT
* *
693207 TAATTCAACTTTGGAATCCTTATCTCGAGGAATTTATATCATAGTGAAGCTTTGATTAATACAAT
1 TAATTCAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACTTTGATTAATACAAT
** **
693272 TTTTAGATTTCTAATTTTCC
66 TTCCAGATTTCTAA-TCCCC
*
693292 TAATTGAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACTTTGATTACTATACA
1 TAATTCAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACTTTGATTA--ATACA
*
693357 ATTTCCATG-TTTCTCA-CCCC
64 ATTTCCA-GATTTCTAATCCCC
693377 TAA
1 TAA
693380 GCCTTTTAAT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
85 60 0.78
87 16 0.21
88 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (84 bp):
TAATTCAACTTTGGAATCCTTATCTCAAGGAATTTATATCATAGTGAAACTTTGATTAATACAAT
TTCCAGATTTCTAATCCCC
Found at i:694282 original size:22 final size:21
Alignment explanation
Indices: 694257--694298 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
694247 AAAGGTACAT
*
694257 CTTTCAATCTAACAAGTGCATC
1 CTTT-AATCTAACAAATGCATC
*
694279 CTTTATTCTAACAAATGCAT
1 CTTTAATCTAACAAATGCAT
694299 TTATTTATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.33, C:0.24, G:0.07, T:0.36
Consensus pattern (21 bp):
CTTTAATCTAACAAATGCATC
Found at i:694549 original size:55 final size:55
Alignment explanation
Indices: 694464--694584 Score: 233
Period size: 55 Copynumber: 2.2 Consensus size: 55
694454 TAAAATAGAT
694464 CTTGAAAAAAAGTATTTCAAGTCAACATTAAGACTTTTTAATAGTTAATGTTACA
1 CTTGAAAAAAAGTATTTCAAGTCAACATTAAGACTTTTTAATAGTTAATGTTACA
*
694519 CTTGAAAAAAAGTATTTCAAGTCAATATTAAGACTTTTTAATAGTTAATGTTACA
1 CTTGAAAAAAAGTATTTCAAGTCAACATTAAGACTTTTTAATAGTTAATGTTACA
694574 CTTGAAAAAAA
1 CTTGAAAAAAA
694585 ATTAACTCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.36
Consensus pattern (55 bp):
CTTGAAAAAAAGTATTTCAAGTCAACATTAAGACTTTTTAATAGTTAATGTTACA
Found at i:698656 original size:27 final size:27
Alignment explanation
Indices: 698607--698658 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
698597 TTCAAAAATG
**
698607 GGGTTGGAGTATCCCCTCGGAATAATA
1 GGGTTGGAGTATCCCCGAGGAATAATA
*
698634 GGGTTGGAGTATCCCCGATGAATAA
1 GGGTTGGAGTATCCCCGAGGAATAA
698659 AATTTAGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGAGGAATAATA
Found at i:700975 original size:51 final size:50
Alignment explanation
Indices: 700803--700986 Score: 260
Period size: 50 Copynumber: 3.7 Consensus size: 50
700793 ATTTGCCTGC
* *
700803 ATGTATCGATACATTGAATAATATATCGATACATCTGGGTAAAATCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAAATCCAGA
* * *
700853 ATGTATGGATACAATGAATAATGCATTGATACATCTGGGTAAAATCCAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAAATCCAGA
* * * * *
700903 ATGTATCGATATAATGAATAATGTATTGATACATTTGGGTAAAAACCCAAA
1 ATGTATCGATACAATGAATAATGTATCGATACATCTGGGT-AAAATCCAGA
*
700954 ATGTATCGATATAATGAATAATGTATCGATACA
1 ATGTATCGATACAATGAATAATGTATCGATACA
700987 AACAGTAAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 81 0.67
51 40 0.33
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACAATGAATAATGTATCGATACATCTGGGTAAAATCCAGA
Found at i:701425 original size:49 final size:48
Alignment explanation
Indices: 701372--701505 Score: 119
Period size: 49 Copynumber: 2.8 Consensus size: 48
701362 AGTTTTTTGG
* *
701372 GGTTATTTTTATACTTATCATCAAAATCAATTAAAACAGAG-TCTTTTAA
1 GGTTAATTTTGTACTTATCATCAAAATCAATTAAAACAGAGAT-TTTT-A
** * ** *
701421 GGTTAGCTTTGTACTTA-CTATCAAAATCGACCAAAACTGAGATTTTTA
1 GGTTAATTTTGTACTTATC-ATCAAAATCAATTAAAACAGAGATTTTTA
* **
701469 GGATTAATTTTGTACTTTTTGTCAAAATCAATTAAAA
1 GG-TTAATTTTGTACTTATCATCAAAATCAATTAAAA
701506 TCGAGCCTTT
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
48 4 0.06
49 61 0.92
50 1 0.02
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (48 bp):
GGTTAATTTTGTACTTATCATCAAAATCAATTAAAACAGAGATTTTTA
Found at i:705015 original size:156 final size:153
Alignment explanation
Indices: 704661--705044 Score: 364
Period size: 156 Copynumber: 2.5 Consensus size: 153
704651 ATTTCTTTCA
* * * *
704661 TTTTTCAAGCCCTTTAAGGGTATC-GAGTACTTTTATGTCGAAGGTATCCTT-TAGGAGTATTTT
1 TTTTT-AAGTCCTTTAGGGGTATCAG-GTACTTTCATGTCGAAGGTAT-CTTCTAGGGGTATTTT
* * * * * *
704724 TGTAATTTTCCTAAAGCTTAATCCTAAGTTATCACTGGGTCCTCTTTTATGCCAAAGGTGGATAT
63 CGTAATTTT-TTAAAGCTGAATCCTAAGTTATCACTGAGTCCGCTTTCATGCCAAAGGTGGATAT
704789 TTAAGATAGGTTCATCCATCTAAATCC
127 TTAAGATAGGTTCATCCATCTAAATCC
* ** * * *
704816 TTTTTAAGTCCTTTTGGGGTATCAAATAC-TGCTATGTCAAAGGTATCTTCTAGGGGTATTTTGG
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTC-ATGTCGAAGGTATCTTCTAGGGGTATTTTCG
* * ** * ** *
704880 TAATTTTTTAGAATC-GACTCCTTGGTTATCACTGAGTTCGCTTTCATGCTGAAGGTGGGTATTT
65 TAATTTTTTA-AAGCTGAATCCTAAGTTATCACTGAGTCCGCTTTCATGCCAAAGGTGGATATTT
* *** *
704944 AGGATAGGTTCATTTTTTTTTAAAATCC
129 AAGATAGGTTCA--TCCATCT-AAATCC
**
704972 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTCATGTCGAAGGTAT-TTCCTAAAGGTATTTTCG
1 TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTCATGTCGAAGGTATCTT-CTAGGGGTATTTTCG
705036 TAATTTTTT
65 TAATTTTTT
705045 TTGAATTTAG
Statistics
Matches: 184, Mismatches: 36, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
153 55 0.30
154 52 0.28
155 10 0.05
156 65 0.35
157 2 0.01
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.42
Consensus pattern (153 bp):
TTTTTAAGTCCTTTAGGGGTATCAGGTACTTTCATGTCGAAGGTATCTTCTAGGGGTATTTTCGT
AATTTTTTAAAGCTGAATCCTAAGTTATCACTGAGTCCGCTTTCATGCCAAAGGTGGATATTTAA
GATAGGTTCATCCATCTAAATCC
Found at i:711501 original size:30 final size:30
Alignment explanation
Indices: 711467--711570 Score: 106
Period size: 30 Copynumber: 3.5 Consensus size: 30
711457 ACCATCCCTC
*
711467 TTGACTATATTCGATCAAGACCTTCCTCAT
1 TTGACTATATTCGGTCAAGACCTTCCTCAT
* * *
711497 TTGACTATACTCGGTCAA-ATCTTACC-CCT
1 TTGACTATATTCGGTCAAGACCTT-CCTCAT
* *
711526 CTTGACCATATTCGGTCAAG-CATTCCTCAT
1 -TTGACTATATTCGGTCAAGACCTTCCTCAT
*
711556 TTGACTGTATTCGGT
1 TTGACTATATTCGGT
711571 TAAACCTCAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
29 21 0.36
30 38 0.64
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (30 bp):
TTGACTATATTCGGTCAAGACCTTCCTCAT
Found at i:711725 original size:61 final size:59
Alignment explanation
Indices: 711630--711928 Score: 197
Period size: 61 Copynumber: 5.0 Consensus size: 59
711620 ACAGTACTCG
*
711630 ATCAAATCTTACC-TCTCTTGACTGTATTCGGTCAAAATCTTCTACATTTGACTATATTCA
1 ATCAAATCTTACCTTCGCTTGACTGTATTC-GTCAAAATCTTCT-CATTTGACTATATTCA
* * * *
711690 ATCAAAT-TTCACCTTCGCTTGACTGTACTCAGTC-AAGTCTTTCCTCATTTGACTATACTCT
1 ATCAAATCTT-ACCTTCGCTTGACTGTATTC-GTCAAAATC-TT-CTCATTTGACTATATTCA
* * * * *
711751 ATCAAATCTTACCTT-TCTTGACTGTATTCGATCAAAACCTTC-CTATTTGATTGTATTCG
1 ATCAAATCTTACCTTCGCTTGACTGTATTCG-TCAAAATCTTCTC-ATTTGACTATATTCA
* * * * *
711810 GTCAAAT-TT-CACTCTCGCTTGACTATATTTAGTC-AAGTCTTTCCTCATTTGACTGTA--CA
1 ATCAAATCTTAC-CT-TCGCTTGACTGTA-TTCGTCAAAATC-TT-CTCATTTGACTATATTCA
* * * *
711869 AGGTCAAATCTTACC-GCTCTTGACTGTATTCGGTCAAAACCTTCATTATTTGACTATATT
1 A--TCAAATCTTACCTTCGCTTGACTGTATTC-GTCAAAATCTTC-TCATTTGACTATATT
711929 AGGTCAAATT
Statistics
Matches: 184, Mismatches: 31, Indels: 46
0.70 0.12 0.18
Matches are distributed among these distances:
57 1 0.01
58 5 0.03
59 29 0.16
60 69 0.38
61 71 0.39
62 8 0.04
63 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.11, T:0.40
Consensus pattern (59 bp):
ATCAAATCTTACCTTCGCTTGACTGTATTCGTCAAAATCTTCTCATTTGACTATATTCA
Found at i:711741 original size:121 final size:119
Alignment explanation
Indices: 711466--712267 Score: 740
Period size: 121 Copynumber: 6.7 Consensus size: 119
711456 AACCATCCCT
* * * * * *
711466 CTTGACTATATTCGATCAAGACCTTCCTCATTTGACTATACTCGGTCAAATCTTACCCCTCTTGA
1 CTTGACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTA-CCCTCTTGA
** * * * * **
711531 CCATATTCGGTC-AAGCATTCCTCATTTGACTGTATTCGGTTAAACCTCAACC-TCG
65 CTGTATTCGGTCAAAACCTT-CTCATTTGACTATATTCGGTCAAATTTC-ACCTTCG
* * * * *
711586 CTTGACTTTATTTAGTCAAGTTTTTCCAT-ATTTGACAGTACTCGATCAAATCTTACCTCTCTTG
1 CTTGACTGTATTCAATCAAGTCTTTCC-TCATTTGACTGTACTCGATCAAATCTTACC-CTCTTG
* **
711650 ACTGTATTCGGTCAAAATCTTCTACATTTGACTATATTCAATCAAATTTCACCTTCG
64 ACTGTATTCGGTCAAAACCTTCT-CATTTGACTATATTCGGTCAAATTTCACCTTCG
* * * * *
711707 CTTGACTGTACTCAGTCAAGTCTTTCCTCATTTGACTATACTCTATCAAATCTTACCTTTCTTGA
1 CTTGACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACC-CTCTTGA
* * *
711772 CTGTATTCGATCAAAACCTTC-CTATTTGATTGTATTCGGTCAAATTTCA-CTCTCG
65 CTGTATTCGGTCAAAACCTTCTC-ATTTGACTATATTCGGTCAAATTTCACCT-TCG
* * * ** *
711827 CTTGACTATATTTAGTCAAGTCTTTCCTCATTTGACTGTACAAGGTCAAATCTTACCGCTCTTGA
1 CTTGACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACC-CTCTTGA
* * **
711892 CTGTATTCGGTCAAAACCTTCATTATTTGACTATATTAGGTCAAATTTCATCC-TAA
65 CTGTATTCGGTCAAAACCTTC-TCATTTGACTATATTCGGTCAAATTTCA-CCTTCG
* * * * *
711948 CTTGACTATACTCAATCAAATTTTTCCTCATTTGACTGTACTCGATTAAATCTTACCCCTCTTGA
1 CTTGACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTA-CCCTCTTGA
* ** * * * *
712013 CTATATTCAATCAAAACCTTCTTTATTTGATTGTATTCGGTCAAATTTCACCCTCG
65 CTGTATTCGGTCAAAACCTTC-TCATTTGACTATATTCGGTCAAATTTCACCTTCG
* *
712069 CTTGATTGTATTCAATCAAGTATTTCCTCATTTGACTGTACTC-AGTCAAATCTTACCCATCTTG
1 CTTGACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGA-TCAAATCTTACCC-TCTTG
* * * * * * *
712133 ATTGTATTTGGACAACACCTTCCTCTTTTGACTATATTCGATCAAATTTCAACTT--
64 ACTGTATTCGGTCAAAACCTT-CTCATTTGACTATATTCGGTCAAATTTCACCTTCG
* * * * * * * * *
712188 ATTCGACTGTATCCAATCAAGTCTTTCTTTATTTAATTGCAATTGATCAAATCTTACCCTACTTG
1 CTT-GACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCT-CTTG
712253 ACTGTATTCGGTCAA
64 ACTGTATTCGGTCAA
712268 GTCTTTCCTT
Statistics
Matches: 558, Mismatches: 104, Indels: 40
0.79 0.15 0.06
Matches are distributed among these distances:
119 8 0.01
120 231 0.41
121 315 0.56
122 3 0.01
123 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.40
Consensus pattern (119 bp):
CTTGACTGTATTCAATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCCTCTTGAC
TGTATTCGGTCAAAACCTTCTCATTTGACTATATTCGGTCAAATTTCACCTTCG
Found at i:711891 original size:241 final size:239
Alignment explanation
Indices: 711466--712183 Score: 822
Period size: 241 Copynumber: 3.0 Consensus size: 239
711456 AACCATCCCT
* * * *
711466 CTTGACTATATTCGATCAAGA-CCTTCCTCATTTGACTATACTCGGTCAAATCTTACCCCTCTTG
1 CTTGACTATACTCAATCAA-ATCTTTCCTCATTTGACTATACTCGATCAAATCTTACCCCTCTTG
* * * * * * ** *
711530 ACCATATTCGGTC-AAGCATTCCTCATTTGACTGTATTCGGTTAAACCTCAACCTCGCTTGACTT
65 ACTATATTCGATCAAAACCTTCCT-ATTTGATTGTATTCGGTCAAATTTC-ACCTCGCTTGACTA
* * ** *
711594 TATTTAGTCAAGTTTTTCCAT-ATTTGACAGTACTCGATCAAATCTTACCTCTCTTGACTGTATT
128 TATTTAGTCAAGTATTTCC-TCATTTGACTGTACAAGGTCAAATCTTACC-CTCTTGACTGTATT
* **
711658 CGGTCAAAATCTTCTACATTTGACTATATTCAATCAAATTTCA-CCTTCG
191 CGGTCAAAACCTTCTACATTTGACTATATTCAATCAAATTTCATCC-TAA
* * * * **
711707 CTTGACTGTACTCAGTCAAGTCTTTCCTCATTTGACTATACTCTATCAAATCTTACCTTTCTTGA
1 CTTGACTATACTCAATCAAATCTTTCCTCATTTGACTATACTCGATCAAATCTTACCCCTCTTGA
*
711772 CTGTATTCGATCAAAACCTTCCTATTTGATTGTATTCGGTCAAATTTCACTCTCGCTTGACTATA
66 CTATATTCGATCAAAACCTTCCTATTTGATTGTATTCGGTCAAATTTCAC-CTCGCTTGACTATA
*
711837 TTTAGTCAAGTCTTTCCTCATTTGACTGTACAAGGTCAAATCTTACCGCTCTTGACTGTATTCGG
130 TTTAGTCAAGTATTTCCTCATTTGACTGTACAAGGTCAAATCTTACC-CTCTTGACTGTATTCGG
* *
711902 TCAAAACCTTC-ATTATTTGACTATATT-AGGTCAAATTTCATCCTAA
194 TCAAAACCTTCTA-CATTTGACTATATTCA-ATCAAATTTCATCCTAA
* * *
711948 CTTGACTATACTCAATCAAATTTTTCCTCATTTGACTGTACTCGATTAAATCTTACCCCTCTTGA
1 CTTGACTATACTCAATCAAATCTTTCCTCATTTGACTATACTCGATCAAATCTTACCCCTCTTGA
* * * *
712013 CTATATTCAATCAAAACCTTCTTTATTTGATTGTATTCGGTCAAATTTCACCCTCGCTTGATTGT
66 CTATATTCGATCAAAACCTTC-CTATTTGATTGTATTCGGTCAAATTTCA-CCTCGCTTGACTAT
* * * * *
712078 ATTCAATCAAGTATTTCCTCATTTGACTGTACTCA-GTCAAATCTTACCCATCTTGATTGTATTT
129 ATTTAGTCAAGTATTTCCTCATTTGACTGTAC-AAGGTCAAATCTTACCC-TCTTGACTGTATTC
* * * *
712142 GGACAACACCTTCCT-CTTTTGACTATATTCGATCAAATTTCA
192 GGTCAAAACCTT-CTACATTTGACTATATTCAATCAAATTTCA
712184 ACTTATTCGA
Statistics
Matches: 406, Mismatches: 57, Indels: 27
0.83 0.12 0.06
Matches are distributed among these distances:
240 5 0.01
241 264 0.65
242 134 0.33
243 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (239 bp):
CTTGACTATACTCAATCAAATCTTTCCTCATTTGACTATACTCGATCAAATCTTACCCCTCTTGA
CTATATTCGATCAAAACCTTCCTATTTGATTGTATTCGGTCAAATTTCACCTCGCTTGACTATAT
TTAGTCAAGTATTTCCTCATTTGACTGTACAAGGTCAAATCTTACCCTCTTGACTGTATTCGGTC
AAAACCTTCTACATTTGACTATATTCAATCAAATTTCATCCTAA
Found at i:712210 original size:362 final size:359
Alignment explanation
Indices: 711467--712288 Score: 875
Period size: 362 Copynumber: 2.3 Consensus size: 359
711457 ACCATCCCTC
* * * * **
711467 TTGACTATATTCGATCAAGACCTTCCTCATTTGACTATACTCGGTCAAATCTTACCCCTCTTGAC
1 TTGACTATATCCAATCAAGTCTTTCCTCATTTGACT-TACAAGGTCAAATCTTA-CCCTCTTGAC
** * * * * * ** *
711532 CATATTCGGTC-AAGCATTCCTCATTTGACTGTATTCGGTTAAACCTCAACCTCGCTTGACTTTA
64 TGTATTCGGTCAAAACATTCCTTATTTGACTATATTAGGTCAAACCTCAACCTAACTTGACTATA
* * * * * * **
711596 TTTAGTCAAGTTTTTCCATATTTGACAGTACTCGATCAAATCTTACCTCTCTTGACTGTATTCGG
129 CTCAATCAAATTTTTCCATATTTGACAGTACTCGATCAAATCTTACCCCTCTTGACTATATTCAA
* * *
711661 TCAAAATCTTCTACATTTGACTATATTCAATCAAATTTCACCTTCGCTTGACTGTACTCAGTCAA
194 TCAAAACCTTCTACATTTGACTATATTCAATCAAATTTCACCCTCGCTTGACTGTACTCAATCAA
* **
711726 GTCTTTCCTCATTTGACTATACTCTATCAAATCTTACCTTTCTTGACTGTATTCGATCAAAACCT
259 GTATTTCCTCATTTGACTATACTCTATCAAATCTTACCCATCTTGACTGTATTCGATCAAAACCT
* * * *
711791 TCCTATTTGATTGTATTCGGTCAAATTTCACTCTCGC
324 TCCTATTTGACTATATTCGATCAAATTTCACTCTC-A
** *
711828 TTGACTATATTTAGTCAAGTCTTTCCTCATTTGACTGTACAAGGTCAAATCTTACCGCTCTTGAC
1 TTGACTATATCCAATCAAGTCTTTCCTCATTTGACT-TACAAGGTCAAATCTTACC-CTCTTGAC
* * ** *
711893 TGTATTCGGTCAAAACCTTCATTATTTGACTATATTAGGTCAAATTTCATCCTAACTTGACTATA
64 TGTATTCGGTCAAAACATTCCTTATTTGACTATATTAGGTCAAACCTCAACCTAACTTGACTATA
* *
711958 CTCAATCAAATTTTTCC-TCATTTGACTGTACTCGATTAAATCTTACCCCTCTTGACTATATTCA
129 CTCAATCAAATTTTTCCAT-ATTTGACAGTACTCGATCAAATCTTACCCCTCTTGACTATATTCA
** * * ** * *
712022 ATCAAAACCTTCTTTATTTGATTGTATTCGGTCAAATTTCACCCTCGCTTGATTGTATTCAATCA
193 ATCAAAACCTTCTACATTTGACTATATTCAATCAAATTTCACCCTCGCTTGACTGTACTCAATCA
* * * *
712087 AGTATTTCCTCATTTGACTGTACTC-AGTCAAATCTTACCCATCTTGATTGTATTTGGA-CAACA
258 AGTATTTCCTCATTTGACTATACTCTA-TCAAATCTTACCCATCTTGACTGTA-TTCGATCAAAA
*
712150 CCTTCCTCTTTTGACTATATTCGATCAAATTTCAACT-T-A
321 CCTTCCT-ATTTGACTATATTCGATCAAATTTC-ACTCTCA
* * * * * *
712189 TTCGACTGTATCCAATCAAGTCTTTCTTTATTT-AATTGCAATTGATCAAATCTTACCCTACTTG
1 TT-GACTATATCCAATCAAGTCTTTCCTCATTTGACTTACAA--GGTCAAATCTTACCCT-CTTG
** *
712253 ACTGTATTCGGTCAAGTCTTTCCTTATTTGACTATA
62 ACTGTATTCGGTCAAAACATTCCTTATTTGACTATA
712289 CTTGATCAAA
Statistics
Matches: 381, Mismatches: 69, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
360 6 0.02
361 71 0.19
362 275 0.72
363 26 0.07
364 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.40
Consensus pattern (359 bp):
TTGACTATATCCAATCAAGTCTTTCCTCATTTGACTTACAAGGTCAAATCTTACCCTCTTGACTG
TATTCGGTCAAAACATTCCTTATTTGACTATATTAGGTCAAACCTCAACCTAACTTGACTATACT
CAATCAAATTTTTCCATATTTGACAGTACTCGATCAAATCTTACCCCTCTTGACTATATTCAATC
AAAACCTTCTACATTTGACTATATTCAATCAAATTTCACCCTCGCTTGACTGTACTCAATCAAGT
ATTTCCTCATTTGACTATACTCTATCAAATCTTACCCATCTTGACTGTATTCGATCAAAACCTTC
CTATTTGACTATATTCGATCAAATTTCACTCTCA
Found at i:712294 original size:60 final size:59
Alignment explanation
Indices: 711462--712302 Score: 383
Period size: 60 Copynumber: 14.0 Consensus size: 59
711452 CGGAAACCAT
* * * * *
711462 CCCTCTTGACTATATTC-GATCAAGACCTTCCTCATTTGACTATACTCGGTCAAATCTTA
1 CCCTCTTGACTGTATTCAG-TCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTA
** * * * * * * *
711521 CCCCTCTTGACCATATTCGGTCAAG-CATTCCTCATTTGACTGTA-TTCGGTTAAACCTCAA
1 -CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTT-GATCAAATCT-TA
* * * * *
711581 CCTCGCTTGACTTTATTTAGTCAAGTTTTTCCAT-ATTTGAC-AGTACTCGATCAAATCTTA
1 CC-CTCTTGACTGTATTCAGTCAAGTCTTTCC-TCATTTGACTA-TACTTGATCAAATCTTA
* * *
711641 CCTCTCTTGACTGTATTCGGTCAAAATC-TT-CTACATTTGACTATA-TTCAATCAAAT-TTCA
1 CC-CTCTTGACTGTATTCAGTC-AAGTCTTTCCT-CATTTGACTATACTT-GATCAAATCTT-A
* *
711701 CCTTCGCTTGACTGTACTCAGTCAAGTCTTTCCTCATTTGACTATACTCT-ATCAAATCTTA
1 CC--CTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACT-TGATCAAATCTTA
* ** * * * *
711762 CCTTTCTTGACTGTATTC-GATCAAAACCTTCCT-ATTTGATTGTA-TTCGGTCAAAT-TTCA
1 CC-CTCTTGACTGTATTCAG-TCAAGTCTTTCCTCATTTGACTATACTT-GATCAAATCTT-A
* * * * ** *
711821 CTCTCGCTTGACTATATTTAGTCAAGTCTTTCCTCATTTGACTGTACAAGGTCAAATCTTA
1 C-C-CTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTA
* ** * * * *
711882 CCGCTCTTGACTGTATTCGGTCAAAACCTTCATTATTTGACTATA-TTAGGTCAAAT-TTCA
1 CC-CTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTT-GATCAAATCTT-A
* * * * * * * * *
711942 TCCTAACTTGACTATACTCAATCAAATTTTTCCTCATTTGACTGTACTCGATTAAATCTTA
1 CCCT--CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTA
* * ** * * * * * *
712003 CCCCTCTTGACTATATTCAATCAAAACCTTCTTTATTTGATTGTA-TTCGGTCAAAT-TTCA
1 -CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTT-GATCAAATCTT-A
* * * * *
712063 CCCTCGCTTGATTGTATTCAATCAAGTATTTCCTCATTTGACTGTAC-TCAGTCAAATCTTA
1 CCCT--CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTTGA-TCAAATCTTA
* ** * ** * *
712124 CCCATCTTGATTGTATTTGGACAACACCTTCCTCTTTTGACTATA-TTCGATCAAAT-TTCA
1 CCC-TCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTT-GATCAAATCTT-A
* * * * * * * * * ** *
712184 ACTTATTCGACTGTATCCAATCAAGTCTTTCTTTATTTAATTGCAATTGATCAAATCTTA
1 CCCTCTT-GACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTA
* *
712244 CCCTACTTGACTGTATTCGGTCAAGTCTTTCCTTATTTGACTATACTTGATCAAATCTT
1 CCCT-CTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTT
712303 GTGTCGCTTG
Statistics
Matches: 588, Mismatches: 142, Indels: 102
0.71 0.17 0.12
Matches are distributed among these distances:
57 1 0.00
58 5 0.01
59 65 0.11
60 325 0.55
61 173 0.29
62 18 0.03
63 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.40
Consensus pattern (59 bp):
CCCTCTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGACTATACTTGATCAAATCTTA
Found at i:714232 original size:155 final size:153
Alignment explanation
Indices: 713805--714474 Score: 562
Period size: 155 Copynumber: 4.3 Consensus size: 153
713795 AGTTTAAAAA
* * * ** *
713805 TAAAAAGGATAATGGATGAGACGAACCTATCCTAAATATCTACCTTTGGCATAAAAGCAAACCCG
1 TAAAAA-GACAATAGATGAGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAGCAGACCCG
* * * * *
713870 GTGACAACCT-AGACTTAATTCTAAAAAATTATGAAAATACCCTTAAAAGATACCTTTGACGCAA
65 GTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATACCCCTAAAGGATACCTTTGACGTAA
*
713934 AAGTACCCGAGAACCTTAAAGGACT
130 AAGTACCCGA-TACCTTAAAGGACT
* * * * ** * * * * *
713959 TAAAAAGACTAGAGATTG-GATGAACTTATCATAAATGCCCACTTTCAACATAAAAGTAGA-CCA
1 TAAAAAGACAATAGA-TGAGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAGCAGACCCG
* * * * * *
714022 GTGACAACCTAGGACTTAGCTCT-AAAAATTACCAAAATACTCCTAAGGGATACTTTTGACGTAA
65 GTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATACCCCTAAAGGATACCTTTGACGTAA
**
714086 AAGTACTTGATACTCTTAAAGGACT
130 AAGTACCCGATAC-CTTAAAGGACT
* * * * *
714111 TAAAGAGGACAATAGATGAGATGAACCTATCCTAAACATCTACCTTCAGTATAAAAGCGGACCTG
1 TAAA-AAGACAATAGATGAGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAGCAGACCCG
* * * * * *
714176 GTGACAACTTAAGATTTGGTTCTAAAAAATTACAAAAATACCCCTAAAGGATACTTTTGACATAA
65 GTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATACCCCTAAAGGATACCTTTGACGTAA
* *
714241 AAATAACCGATACCTCTAAAGGACT
130 AAGTACCCGATACCT-TAAAGGACT
* * * * * *
714266 TAAAAAGATTC-ATAAAAGAGATGAACTTATTCTAAATATCTACCTTCGGCATAAAAGCGGACCC
1 TAAAAAGA--CAATAGATGAGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAGCAGACCC
** * * * * * * * ** *
714330 GACGATAACCTAGGAGTTGGTTCTAGAAAATTATGAAAATACCCATAGGGGATACCTTTGATGTA
64 GGTGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATACCCCTAAAGGATACCTTTGACGTA
* *
714395 AAAGTACCCAATACCCCTAAAGGACT
129 AAAGTACCCGATA-CCTTAAAGGACT
** * * *
714421 TAAAAAGATTC-ATA-AAAATGATGAACCTATCTTAAATATCTACTTTCAACATAA
1 TAAAAAGA--CAATAGATGA-GATGAACCTATCCTAAATATCTACCTTCAGCATAA
714475 CAGTGAACTC
Statistics
Matches: 409, Mismatches: 95, Indels: 23
0.78 0.18 0.04
Matches are distributed among these distances:
151 2 0.00
152 70 0.17
153 83 0.20
154 35 0.09
155 216 0.53
156 3 0.01
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (153 bp):
TAAAAAGACAATAGATGAGATGAACCTATCCTAAATATCTACCTTCAGCATAAAAGCAGACCCGG
TGACAACCTAAGACTTAGTTCTAAAAAATTACGAAAATACCCCTAAAGGATACCTTTGACGTAAA
AGTACCCGATACCTTAAAGGACT
Found at i:714493 original size:155 final size:155
Alignment explanation
Indices: 714128--714522 Score: 416
Period size: 155 Copynumber: 2.5 Consensus size: 155
714118 GACAATAGAT
* * ** * * *** * * *
714128 GAGATGAACCTATCCTAAACATCTACCTTCAGTATAAAAGCGGACCTGGTGACAACTTAAGATTT
1 GAGATGAACCTATTCTAAATATCTACCTTCAACATAAAAGCGAACCCGACAATAACCTAAGAATT
* * * *
714193 GGTTCTAAAAAATTACAAAAATACCCCTAAAGGATACTTTTGACATAAAAATAACCGATACCTCT
66 GGTTCTAAAAAATTACAAAAATACCCATAAAGGATACCTTTGACATAAAAATAACCAATACCCCT
714258 AAAGGACTTAAAAAGATTCATAAAA
131 AAAGGACTTAAAAAGATTCATAAAA
* ** * * * *
714283 GAGATGAACTTATTCTAAATATCTACCTTCGGCATAAAAGCGGACCCGACGATAACCTAGGAGTT
1 GAGATGAACCTATTCTAAATATCTACCTTCAACATAAAAGCGAACCCGACAATAACCTAAGAATT
* ** ** ** * *
714348 GGTTCTAGAAAATTATGAAAATACCCATAGGGGATACCTTTGATGTAAAAGTACCCAATACCCCT
66 GGTTCTAAAAAATTACAAAAATACCCATAAAGGATACCTTTGACATAAAAATAACCAATACCCCT
714413 AAAGGACTTAAAAAGATTCATAAAA
131 AAAGGACTTAAAAAGATTCATAAAA
* * * * *
714438 -ATGATGAACCTA-TCTTAAATATCTACTTTCAACATAACAGTGAACTCGGCAATAACCTAAGAA
1 GA-GATGAACCTATTC-TAAATATCTACCTTCAACATAAAAGCGAACCCGACAATAACCTAAGAA
*
714501 TTGTTTCTAAAAAATTACAAAA
64 TTGGTTCTAAAAAATTACAAAA
714523 GTGTCCATAC
Statistics
Matches: 197, Mismatches: 41, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
154 3 0.02
155 194 0.98
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (155 bp):
GAGATGAACCTATTCTAAATATCTACCTTCAACATAAAAGCGAACCCGACAATAACCTAAGAATT
GGTTCTAAAAAATTACAAAAATACCCATAAAGGATACCTTTGACATAAAAATAACCAATACCCCT
AAAGGACTTAAAAAGATTCATAAAA
Found at i:714970 original size:13 final size:13
Alignment explanation
Indices: 714952--714977 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
714942 TAAGATGATA
714952 ATTTTTTTATTTG
1 ATTTTTTTATTTG
714965 ATTTTTTTATTTG
1 ATTTTTTTATTTG
714978 CAAAGAATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
ATTTTTTTATTTG
Found at i:715297 original size:165 final size:167
Alignment explanation
Indices: 715104--715402 Score: 374
Period size: 165 Copynumber: 1.8 Consensus size: 167
715094 AAAATTTATT
* * ** ** * *
715104 TGTTATTTTATTTTATTATTTTTTATTTTTGAAAATTTAATTTCATACCTTAAT-GAAAATTCGA
1 TGTTATTTTATTTAATTATTATTTATTTTCAAAAATACAATTTCATACCTTAATAG-AAACTCAA
* *
715168 AAAGATATGAAAAATTTTT-GAAATCTTTTATA-CCCTACGGATGTCC-ATAAAAATATAAAAAA
65 AAAGATACGAAAAATTTTTAAAAATCTTTTATACCCCTACGGATG-CCTATAAAAATATAAAAAA
715230 TTAAAAAAAAATAATTAAAATTGATCTCAATTACGAAAG
129 TTAAAAAAAAATAATTAAAATTGATCTCAATTACGAAAG
* * *
715269 TGTTAATTTTATTTAATT-TTATTTATTTTCAAAAATACCATTTTATACCTTAATAGAAGCTCAA
1 TGTT-ATTTTATTTAATTATTATTTATTTTCAAAAATACAATTTCATACCTTAATAGAAACTCAA
* * ** *
715333 AAAGATACGAAAAGTTTTTAAAAATCTTTTATACCCCTATGGATGCCTATAGGAATATAAAAGAT
65 AAAGATACGAAAAATTTTTAAAAATCTTTTATACCCCTACGGATGCCTATAAAAATATAAAAAAT
715398 TAAAA
130 TAAAA
715403 TGAATTATTA
Statistics
Matches: 111, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
165 55 0.50
166 27 0.24
167 29 0.26
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.39
Consensus pattern (167 bp):
TGTTATTTTATTTAATTATTATTTATTTTCAAAAATACAATTTCATACCTTAATAGAAACTCAAA
AAGATACGAAAAATTTTTAAAAATCTTTTATACCCCTACGGATGCCTATAAAAATATAAAAAATT
AAAAAAAAATAATTAAAATTGATCTCAATTACGAAAG
Found at i:716331 original size:7 final size:7
Alignment explanation
Indices: 716319--716365 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
716309 TTTGCTTGGA
716319 TTTTTCT
1 TTTTTCT
716326 TTTTTCT
1 TTTTTCT
716333 CTCTTTTCT
1 -T-TTTTCT
716342 TTTTCTCT
1 TTTT-TCT
716350 TTTTTCT
1 TTTTTCT
716357 TTTTT-T
1 TTTTTCT
716363 TTT
1 TTT
716366 CTCACTTGCT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
6 4 0.11
7 18 0.49
8 9 0.24
9 6 0.16
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:716346 original size:15 final size:15
Alignment explanation
Indices: 716320--716360 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
716310 TTGCTTGGAT
716320 TTTTCTTTTTTCTCTC
1 TTTTC-TTTTTCTCTC
*
716336 TTTTCTTTTTCTCTT
1 TTTTCTTTTTCTCTC
716351 TTTTCTTTTT
1 TTTTCTTTTT
716361 TTTTTCTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 19 0.79
16 5 0.21
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTCTCTC
Found at i:717425 original size:166 final size:163
Alignment explanation
Indices: 716841--717468 Score: 636
Period size: 167 Copynumber: 3.8 Consensus size: 163
716831 AATATATACA
* * * * * * ** * *
716841 AAAAAAATCAAAATTAATG-AAATAAATTAATTTTTTCAAAACTGAATTAATAGGAGTTTAATGA
1 AAAAAAATCAAAACTCATGAAAATGAATGAA-TTTTTGAAAACTGAATTAATATGAAATAAATAA
* * * * *
716905 TAATATTAGATGCATTTTAAAAAATTTAGACCGAAG-AAAA-CCCCTCGAAAATATTTACGGAGA
65 TAATATTTGATGAATTTT-AAAAA-TTAAAAC-AAGAAAAATCCCCTCGAAAAAATTTACGGAGA
* *
716968 AGAAAACTCG-ATTTATCGGAAAAAAAAGGGAA-TTTCAAC
127 AGAAAACACGTA-TT-TCGG-AAAAAAA-GGAAGTTTCAAG
* * * * ** *
717007 AAAAAATTTCAAAACTCATGAAAATGAATTAATTTTTTAAAACTGAATTACTATGAAGCAAATGA
1 AAAAAA-ATCAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAA
* * * * * * ** *
717072 TAATGTTTTATGAATTCTAAAAATTGAAAATAGATAAAAATCCCCTCAAAAAAATTTACAAAGTA
65 TAATATTTGATGAATTTTAAAAATT-AAAACA-AGAAAAATCCCCTCGAAAAAATTTACGGAGAA
717137 GAAAACACTGTATTTC--AAAAAAATGGAAGTTTCAAG
128 GAAAACAC-GTATTTCGGAAAAAAA-GGAAGTTTCAAG
*
717173 AAAAAGAATCAAAAGCTCATGAAAATGAATGAATTTTTGAAAAATGAATTAATATGAAATAAATA
1 AAAAA-AATCAAAA-CTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATA
* * *
717238 ATGATATTTTATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATTTACGGAGT
64 ATAATATTTGATGAATTTTAAAAATT-AAAA-CAAGAAAAATCCCCTCGAAAAAATTTACGGAGA
717303 AGAAAACAACGTATTTCGGAAAAAAA-GAAGTTTCAAG
127 AGAAAAC-ACGTATTTCGGAAAAAAAGGAAGTTTCAAG
717340 AAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAA
1 AAAAAAATC-AAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAA
*
717405 AAATATTTGATGAATTTTAAAAATT---A-AA-AAAAATCCTCCT-GAAAAAATTTACGGAGAAG
65 TAATATTTGATGAATTTTAAAAATTAAAACAAGAAAAATCC-CCTCGAAAAAATTTACGGAGAAG
717464 AAAAC
129 AAAAC
717469 CTCGTAATTT
Statistics
Matches: 396, Mismatches: 49, Indels: 41
0.81 0.10 0.08
Matches are distributed among these distances:
159 31 0.08
160 5 0.01
162 1 0.00
165 14 0.04
166 107 0.27
167 186 0.47
168 41 0.10
169 10 0.03
170 1 0.00
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.27
Consensus pattern (163 bp):
AAAAAAATCAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
AATATTTGATGAATTTTAAAAATTAAAACAAGAAAAATCCCCTCGAAAAAATTTACGGAGAAGAA
AACACGTATTTCGGAAAAAAAGGAAGTTTCAAG
Found at i:719185 original size:165 final size:166
Alignment explanation
Indices: 718911--719214 Score: 416
Period size: 165 Copynumber: 1.8 Consensus size: 166
718901 TTTTTAGATA
* * * *
718911 CAGAAGTTTCTTCTCTGTAAATTTTTTTGGAAGGATTTTCATCAGTTTTTAATTTTTAAAATTCA
1 CAGAAGTTTCTACTCCGTAAATTGTTTCGGAAGGATTTTCATCAGTTTTTAATTTTTAAAATTCA
* ** * *
718976 TAAAATATTATTATTTATTTCACTTTAAATCATTTTTCAAAAATTCTTTCATTTTCATTAGTTTT
66 TAAAATATTATTATTTATTCCACTTTAAATCATTTTTCAAAAATTAATTAATTTTCATGAGTTTT
**
719041 TTATTTTTTCCTTGACATTTTTCTACTTTCGAAATG
131 AAATTTTTTCCTTGACATTTTTCTACTTTCGAAATG
* * **
719077 CAGAATTTTCTACTCCGTAAATTGTTTCGGGAGGATTTTTC-TTGGTTTTTAATTTTT-AAATTC
1 CAGAAGTTTCTACTCCGTAAATTGTTTCGGAAGGA-TTTTCATCAGTTTTTAATTTTTAAAATTC
* *
719140 ATCAAATATTATTATTTATTCCA-TATTAAATCATTTTTTAAAAATTAATTAATTTTCATGAGTT
65 ATAAAATATTATTATTTATTCCACT-TTAAATCATTTTTCAAAAATTAATTAATTTTCATGAGTT
719204 TTAAATTTTTT
129 TTAAATTTTTT
719215 TCTTTGAAAT
Statistics
Matches: 119, Mismatches: 17, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
164 1 0.01
165 70 0.59
166 43 0.36
167 5 0.04
ACGTcount: A:0.29, C:0.11, G:0.08, T:0.52
Consensus pattern (166 bp):
CAGAAGTTTCTACTCCGTAAATTGTTTCGGAAGGATTTTCATCAGTTTTTAATTTTTAAAATTCA
TAAAATATTATTATTTATTCCACTTTAAATCATTTTTCAAAAATTAATTAATTTTCATGAGTTTT
AAATTTTTTCCTTGACATTTTTCTACTTTCGAAATG
Found at i:719284 original size:165 final size:166
Alignment explanation
Indices: 718955--719284 Score: 361
Period size: 165 Copynumber: 2.0 Consensus size: 166
718945 ATTTTCATCA
*
718955 GTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTTCACTTTAAATCATTTTTCAAAAAT
1 GTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTCCACTTTAAATCATTTTTCAAAAAT
** * * ** * * *
719020 TCTTTCATTTTCATTAGTTTTTTATTTTTTCCTTGACATTTTTCTACTTTCGAAATGCAGAATTT
66 TAATTAATTTTCATGAGTTTTAAATTTTTTCCTTGACATATCTCTACTTTCAAAATGCAGAATTT
* * * *
719085 TCTACTCCGTAAATTGTTTCGGGAGGATTTTTCTTG
131 TCTACTCCATAAATTGTTCCGGGAGAAATTTTCTTG
* *
719121 GTTTTTAATTTTT-AAATTCATCAAATATTATTATTTATTCCA-TATTAAATCATTTTTTAAAAA
1 GTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTCCACT-TTAAATCATTTTTCAAAAA
* *
719184 TTAATTAATTTTCATGAGTTTTAAATTTTTTTCTTTGA-A-ATCTCTATTTTCCCAAAAAAT-C-
65 TTAATTAATTTTCATGAGTTTTAAA-TTTTTTCCTTGACATATCTCTACTTT--C--AAAATGCA
* *
719245 GAGTTTTCTATTCCATAAATAT-TTCCGGGA-AAATTTTCTT
125 GAATTTTCTACTCCATAAAT-TGTTCCGGGAGAAATTTTCTT
719285 TGGTCCAAAA
Statistics
Matches: 137, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
164 9 0.07
165 73 0.53
166 49 0.36
167 2 0.01
168 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.07, T:0.51
Consensus pattern (166 bp):
GTTTTTAATTTTTAAAATTCATAAAATATTATTATTTATTCCACTTTAAATCATTTTTCAAAAAT
TAATTAATTTTCATGAGTTTTAAATTTTTTCCTTGACATATCTCTACTTTCAAAATGCAGAATTT
TCTACTCCATAAATTGTTCCGGGAGAAATTTTCTTG
Found at i:719871 original size:13 final size:13
Alignment explanation
Indices: 719855--719890 Score: 58
Period size: 12 Copynumber: 2.9 Consensus size: 13
719845 GGTCAGCTGA
719855 AAAAAGAGAGAAG
1 AAAAAGAGAGAAG
719868 AAAAAGAGA-AAG
1 AAAAAGAGAGAAG
719880 AAAAA-AGAGAA
1 AAAAAGAGAGAA
719891 AAATAGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 3 0.14
12 10 0.45
13 9 0.41
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (13 bp):
AAAAAGAGAGAAG
Found at i:719877 original size:11 final size:11
Alignment explanation
Indices: 719856--719903 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
719846 GTCAGCTGAA
719856 AAAAGAGAGAAG
1 AAAA-AGAGAAG
719868 AAAAAGAGAAAG
1 AAAAAGAG-AAG
719880 AAAAA-AG-AG
1 AAAAAGAGAAG
*
719889 AAAAATAGAAG
1 AAAAAGAGAAG
719900 AAAA
1 AAAA
719904 TAGGTAGAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
9 7 0.21
10 2 0.06
11 12 0.36
12 12 0.36
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
AAAAAGAGAAG
Found at i:719892 original size:9 final size:11
Alignment explanation
Indices: 719863--719921 Score: 52
Period size: 12 Copynumber: 5.4 Consensus size: 11
719853 GAAAAAAGAG
*
719863 AGAAGAAAAAG
1 AGAAGAAAAAT
719874 AGAAAGAAAAA-
1 AG-AAGAAAAAT
719885 AG-AGAAAAAT
1 AGAAGAAAAAT
719895 AGAAG-AAAAT
1 AGAAGAAAAAT
*
719905 AGGTAGAAAAATT
1 A-GAAGAAAAA-T
719918 AGAA
1 AGAA
719922 AAACTAAGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
9 7 0.17
10 8 0.20
11 9 0.22
12 14 0.35
13 2 0.05
ACGTcount: A:0.69, C:0.00, G:0.22, T:0.08
Consensus pattern (11 bp):
AGAAGAAAAAT
Found at i:719900 original size:13 final size:13
Alignment explanation
Indices: 719853--719891 Score: 62
Period size: 13 Copynumber: 3.0 Consensus size: 13
719843 ATGGTCAGCT
719853 GAAAAAAGAGAGAA
1 GAAAAAAGAGA-AA
719867 G-AAAAAGAGAAA
1 GAAAAAAGAGAAA
719879 GAAAAAAGAGAAA
1 GAAAAAAGAGAAA
719892 AATAGAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 3 0.12
13 20 0.83
14 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (13 bp):
GAAAAAAGAGAAA
Found at i:724703 original size:26 final size:26
Alignment explanation
Indices: 724674--724728 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
724664 TGATAAATTT
724674 TATAAAAAAATAAAA-TAAATATATAA
1 TATAAAAAAATAAAATTAAATAT-TAA
* *
724700 TATAAAATAATAAAATTAGATATTAA
1 TATAAAAAAATAAAATTAAATATTAA
724726 TAT
1 TAT
724729 CTTTTACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (26 bp):
TATAAAAAAATAAAATTAAATATTAA
Found at i:725969 original size:13 final size:13
Alignment explanation
Indices: 725953--726013 Score: 63
Period size: 13 Copynumber: 4.6 Consensus size: 13
725943 TAACGTTAAA
725953 TAATAATTTAATT
1 TAATAATTTAATT
*
725966 TAAT-TTTTACATT
1 TAATAATTTA-ATT
725979 TAA-AATTATAATT
1 TAATAATT-TAATT
725992 TAATAATTTAAATT
1 TAATAATTT-AATT
*
726006 TAAAAATT
1 TAATAATT
726014 AAAAAAATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
12 4 0.10
13 19 0.47
14 17 0.43
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAATTTAATT
Found at i:727672 original size:23 final size:24
Alignment explanation
Indices: 727639--727683 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
727629 TAATTTTTTG
* *
727639 TATATTTTAT-ATATTTTTTATTT
1 TATATTATATAATAATTTTTATTT
727662 TATATTATATAATAATTTTTAT
1 TATATTATATAATAATTTTTAT
727684 ATAACTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
TATATTATATAATAATTTTTATTT
Found at i:728284 original size:249 final size:246
Alignment explanation
Indices: 727851--728299 Score: 611
Period size: 249 Copynumber: 1.8 Consensus size: 246
727841 TTTAAATAAT
727851 TTATCAAAAAAATGATATATTATAAATTAATAATATTGATGTTTAAAATAATTGTGTTGATTAAT
1 TTATCAAAAAAATGATATATTATAAATTAATAATATTGATGTTTAAAATAATTGTGTTGATTAAT
* * * * *
727916 TCGAATTTCAACATGTAATACATTATAATTTATATTATGCATATATATATAACTGTACACATAAA
66 TCGAATTTCAACATGAAATACATTATAATTTATATTATACATACATAAATAAATGTACACATAAA
*
727981 TAAATTAAATCAAAATGAACAAATAGTTATATTTCAAAAATAAATAAAAGTATAAGACCAAGATT
131 TAAATTAAATCAAAATGAACAAATAGTTATATCTCAAAAATAAATAAAAGTATAAGACCAAGATT
728046 TAAGATCAAGATAATATAAAAAAGTGTCACTAGTTAGATATTGCTCAATTA
196 TAAGATCAAGATAATATAAAAAAGTGTCACTAGTTAGATATTGCTCAATTA
* * * *
728097 TTAT-AAAAATATGATATATTATAACTTAATTATATTGATGTTTAAAATAGTTGAT-TTGA-TAA
1 TTATCAAAAAAATGATATATTATAAATTAATAATATTGATGTTTAAAATAATTG-TGTTGATTAA
* * * * *
728159 CTTTGATTTTCAACATGCAAATATATTATAATTTATATTATATATACACATAAATACAAT-TATA
65 -TTCGAATTTCAACATG-AAATACATTATAATTTATATTATACAT--ACATAAATA-AATGTACA
* * * * *
728223 TATACTAAT-AATTAAATCAAAATGGATAAATAGTTATATCTCAAGAATAAATAAGAGTATAAGA
125 CATA--AATAAATTAAATCAAAATGAACAAATAGTTATATCTCAAAAATAAATAAAAGTATAAGA
728287 CCAAGATTTAAGA
188 CCAAGATTTAAGA
728300 CTTAGTAAGA
Statistics
Matches: 175, Mismatches: 20, Indels: 13
0.84 0.10 0.06
Matches are distributed among these distances:
244 3 0.02
245 63 0.36
246 28 0.16
248 13 0.07
249 65 0.37
250 3 0.02
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (246 bp):
TTATCAAAAAAATGATATATTATAAATTAATAATATTGATGTTTAAAATAATTGTGTTGATTAAT
TCGAATTTCAACATGAAATACATTATAATTTATATTATACATACATAAATAAATGTACACATAAA
TAAATTAAATCAAAATGAACAAATAGTTATATCTCAAAAATAAATAAAAGTATAAGACCAAGATT
TAAGATCAAGATAATATAAAAAAGTGTCACTAGTTAGATATTGCTCAATTA
Found at i:728500 original size:15 final size:16
Alignment explanation
Indices: 728468--728501 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
728458 TGAGATTACA
728468 ATAATTTATAAATATG
1 ATAATTTATAAATATG
*
728484 ATAATTT-TAATTATG
1 ATAATTTATAAATATG
728499 ATA
1 ATA
728502 TAATTATATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
ATAATTTATAAATATG
Found at i:729267 original size:2 final size:2
Alignment explanation
Indices: 729260--729308 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
729250 ATGTTGTGCT
729260 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
729302 TA AA TA T
1 TA TA TA T
729309 GAGTGTACAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 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):
TA
Done.