Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold124
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: 1034113
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 25 characters in sequence are not A, C, G, or T
File 7 of 7
Found at i:895928 original size:13 final size:13
Alignment explanation
Indices: 895910--895935 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
895900 ACACACAATA
895910 TGTATCGATACAT
1 TGTATCGATACAT
895923 TGTATCGATACAT
1 TGTATCGATACAT
895936 CCCAAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:895951 original size:33 final size:32
Alignment explanation
Indices: 895890--895957 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
895880 CCTTAACTGT
*
895890 TTGTATCGATACACACAATATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
895922 TTGTATCGATACATCCCAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
895955 TTG
1 TTG
895958 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:901871 original size:8 final size:8
Alignment explanation
Indices: 901858--901888 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
901848 ATTTGATTAA
901858 ATTTTGTG
1 ATTTTGTG
901866 ATTTTGTG
1 ATTTTGTG
901874 ATTTTGTG
1 ATTTTGTG
901882 ATGTTTG
1 AT-TTTG
901889 ATGTTGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:902575 original size:21 final size:21
Alignment explanation
Indices: 902540--902580 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
902530 AGCACTCACC
*
902540 AGGTCGCGACCGGCA-CCCCG
1 AGGTCGCAACCGGCAGCCCCG
902560 AGGTCGCAACCGGGCAGCCCC
1 AGGTCGCAACC-GGCAGCCCC
902581 CACACTAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.17, C:0.44, G:0.34, T:0.05
Consensus pattern (21 bp):
AGGTCGCAACCGGCAGCCCCG
Found at i:903674 original size:37 final size:37
Alignment explanation
Indices: 903633--903706 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
903623 GCATTGATTC
*
903633 GATCGATGCTCGACTCATCAAAATCGAGCATCAGCTT
1 GATCGATGCTCGACTCATCAAAATCAAGCATCAGCTT
*
903670 GATCGATGCTCGGCTCATCAAAATCAAGCATCAGCTT
1 GATCGATGCTCGACTCATCAAAATCAAGCATCAGCTT
903707 TGTCCTAGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (37 bp):
GATCGATGCTCGACTCATCAAAATCAAGCATCAGCTT
Found at i:903972 original size:21 final size:22
Alignment explanation
Indices: 903946--903989 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
903936 CTTTGCAAAT
903946 AAATTTATGATT-AAGGGGGAG
1 AAATTTATGATTAAAGGGGGAG
* *
903967 AAATTTTTTATTAAAGGGGGAG
1 AAATTTATGATTAAAGGGGGAG
903989 A
1 A
903990 GATAAGGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.32
Consensus pattern (22 bp):
AAATTTATGATTAAAGGGGGAG
Found at i:904681 original size:20 final size:20
Alignment explanation
Indices: 904638--904689 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
904628 CTTAACTGTT
*
904638 TGTATCGATACA-CACAATA
1 TGTATCGATACATCACAAAA
* *
904657 TGTATCAATACATCCCAAAA
1 TGTATCGATACATCACAAAA
904677 TGTATCGATACAT
1 TGTATCGATACAT
904690 TGGCTTGTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATCACAAAA
Found at i:908710 original size:13 final size:13
Alignment explanation
Indices: 908692--908717 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
908682 ATTTTTTTTG
908692 TGTATCGATACAT
1 TGTATCGATACAT
908705 TGTATCGATACAT
1 TGTATCGATACAT
908718 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:911291 original size:13 final size:13
Alignment explanation
Indices: 911273--911310 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
911263 GTAATCCCCT
911273 TGTATCGATACAG
1 TGTATCGATACAG
*
911286 TGTATCGATACAT
1 TGTATCGATACAG
911299 TGTATCGATACA
1 TGTATCGATACA
911311 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:915255 original size:21 final size:21
Alignment explanation
Indices: 915226--915270 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
915216 AAGTTTTTAT
*
915226 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
915246 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
915268 TTT
1 TTT
915271 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:917510 original size:13 final size:13
Alignment explanation
Indices: 917492--917517 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
917482 AATTTTTTTG
917492 TGTATCGATACAT
1 TGTATCGATACAT
917505 TGTATCGATACAT
1 TGTATCGATACAT
917518 ACTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:918005 original size:23 final size:23
Alignment explanation
Indices: 917957--918009 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
917947 GATTTATGTA
*
917957 TTTATATTGTGTTCATATTATTT
1 TTTATATTGTGTTCATATTATCT
**
917980 TTTATATTGTGTTTTTGATT-TCT
1 TTTATATTGTGTTCAT-ATTATCT
918003 TTTATAT
1 TTTATAT
918010 ATGTTATATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.19, C:0.04, G:0.09, T:0.68
Consensus pattern (23 bp):
TTTATATTGTGTTCATATTATCT
Found at i:918897 original size:16 final size:16
Alignment explanation
Indices: 918846--918897 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
918836 AACTAATATA
*
918846 ATTTTATAATTAATTATT
1 ATTTTA-AATAAATT-TT
918864 ATTTTAAATAAATATTT
1 ATTTTAAATAAAT-TTT
**
918881 ATTTTATTTAAATTTT
1 ATTTTAAATAAATTTT
918897 A
1 A
918898 ATAATCTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 4 0.13
17 19 0.63
18 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTAAATAAATTTT
Found at i:924274 original size:2 final size:2
Alignment explanation
Indices: 924267--924313 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
924257 ATTTTGGGCT
**
924267 AG AG AG AG ATG -G AG AG A- AG TT AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
924308 AG AG AG
1 AG AG AG
924314 GGGAGGCGAC
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 35 0.92
3 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.47, T:0.06
Consensus pattern (2 bp):
AG
Found at i:924412 original size:7 final size:7
Alignment explanation
Indices: 924379--924433 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
924369 TGTGCATGAT
*
924379 AGAAAGA
1 AGAAAAA
*
924386 AGAAAGA
1 AGAAAAA
*
924393 AGAAAGA
1 AGAAAAA
924400 AGAAAAA
1 AGAAAAA
924407 AGAAAAA
1 AGAAAAA
*
924414 A-AGAAA
1 AGAAAAA
*
924420 AGCAAAA
1 AGAAAAA
924427 AGAAAAA
1 AGAAAAA
924434 TAAGAAAAGT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
6 5 0.12
7 37 0.88
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (7 bp):
AGAAAAA
Found at i:924428 original size:20 final size:21
Alignment explanation
Indices: 924403--924442 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
924393 AGAAAGAAGA
924403 AAAAAGAAAAA-AAGAAAAGC
1 AAAAAGAAAAATAAGAAAAGC
924423 AAAAAGAAAAATAAGAAAAG
1 AAAAAGAAAAATAAGAAAAG
924443 TTAGGATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.80, C:0.03, G:0.15, T:0.03
Consensus pattern (21 bp):
AAAAAGAAAAATAAGAAAAGC
Found at i:927473 original size:31 final size:31
Alignment explanation
Indices: 927435--927497 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
927425 CTGGAGCCAT
* *
927435 TTCTGTTGGCCTTGTATTGTAGCACGTCTGA
1 TTCTGTTGGCCTTGTAGTGTAGCACGCCTGA
927466 TTCTGTTGGCCTTGTAGTGTAGCACGCCTGA
1 TTCTGTTGGCCTTGTAGTGTAGCACGCCTGA
927497 T
1 T
927498 GTTGGACATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.13, C:0.21, G:0.27, T:0.40
Consensus pattern (31 bp):
TTCTGTTGGCCTTGTAGTGTAGCACGCCTGA
Found at i:928285 original size:16 final size:16
Alignment explanation
Indices: 928261--928316 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
928251 AAAAAAAATT
*
928261 AAAAGTTTAAATTTAA
1 AAAAATTTAAATTTAA
*
928277 AAAAATTTAAATTTAT
1 AAAAATTTAAATTTAA
* *
928293 AAAGATTTAAATTCAA
1 AAAAATTTAAATTTAA
928309 AAAAATTT
1 AAAAATTT
928317 GAAACTCACA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.38
Consensus pattern (16 bp):
AAAAATTTAAATTTAA
Found at i:928295 original size:24 final size:23
Alignment explanation
Indices: 928247--928291 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
928237 ATTTAAAATT
928247 AATTAAAAAAAATTAAAAGTTTA
1 AATTAAAAAAAATTAAAAGTTTA
* *
928270 AATTTAAAAAAATTTAAA-TTTA
1 AATTAAAAAAAATTAAAAGTTTA
928292 TAAAGATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
AATTAAAAAAAATTAAAAGTTTA
Found at i:929590 original size:10 final size:10
Alignment explanation
Indices: 929575--929603 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
929565 TGAATTTTAA
929575 ATTTATAAAT
1 ATTTATAAAT
929585 ATTTATAAAT
1 ATTTATAAAT
929595 ATTT-TAAAT
1 ATTTATAAAT
929604 TCACTATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTATAAAT
Found at i:929787 original size:23 final size:22
Alignment explanation
Indices: 929743--929785 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
929733 AACGCAATCT
929743 TAAAAAATTATAATAAATAAAC
1 TAAAAAATTATAATAAATAAAC
*
929765 TAAAAAA-TCTAATGAAATAAA
1 TAAAAAATTATAAT-AAATAAA
929786 ACAAATATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (22 bp):
TAAAAAATTATAATAAATAAAC
Found at i:929873 original size:2 final size:2
Alignment explanation
Indices: 929860--929890 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
929850 TTAAGAGAAA
*
929860 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
929891 AATGTTTATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:931319 original size:17 final size:17
Alignment explanation
Indices: 931297--931329 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
931287 AGTATATTCA
*
931297 AAAAATTAAAATAAATT
1 AAAAATAAAAATAAATT
931314 AAAAATAAAAATAAAT
1 AAAAATAAAAATAAAT
931330 AAATAAGAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAAATAAAAATAAATT
Found at i:931489 original size:16 final size:16
Alignment explanation
Indices: 931444--931490 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
931434 TTTGGCTCAA
*
931444 ATTAATATTTATTT-T
1 ATTAAAATTTATTTAT
931459 ATTAAAA-TTATTTTAT
1 ATTAAAATTTA-TTTAT
931475 ATTAAAATTTATTTAT
1 ATTAAAATTTATTTAT
931491 TATTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 3 0.11
15 9 0.32
16 13 0.46
17 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTAAAATTTATTTAT
Found at i:931493 original size:19 final size:18
Alignment explanation
Indices: 931449--931499 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
931439 CTCAAATTAA
*
931449 TATTTATTTTATTAAAAT
1 TATTTATTATATTAAAAT
931467 TA-TT-TTATATTAAAATT
1 TATTTATTATATTAAAA-T
*
931484 TATTTATTATTTTAAA
1 TATTTATTATATTAAA
931500 TCAAGCCAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 10 0.36
17 5 0.18
18 4 0.14
19 9 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TATTTATTATATTAAAAT
Found at i:936942 original size:2 final size:2
Alignment explanation
Indices: 936935--936991 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
936925 TATAAATTAA
* * *
936935 AT AT AT AT -T TT AT AA AT -T AT AT AT AC A- AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
936973 AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT A
936992 AATAAAAGGG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
1 4 0.09
2 41 0.91
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:936946 original size:20 final size:20
Alignment explanation
Indices: 936921--936959 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
936911 CTTTTTTTCA
936921 ATTTTATAAATTAAATATAT
1 ATTTTATAAATTAAATATAT
*
936941 ATTTTATAAATTATATATA
1 ATTTTATAAATTAAATATA
936960 CAATTATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTTATAAATTAAATATAT
Found at i:936966 original size:12 final size:11
Alignment explanation
Indices: 936925--936997 Score: 62
Period size: 12 Copynumber: 6.5 Consensus size: 11
936915 TTTTCAATTT
*
936925 TATAAATTAAA
1 TATAAATTATA
*
936936 TATATATT-T-
1 TATAAATTATA
936945 TATAAATTATA
1 TATAAATTATA
936956 TATACAATTATA
1 TATA-AATTATA
936968 TATATATATATATA
1 TATA-A-AT-TATA
936982 TATAAA-TATA
1 TATAAATTATA
*
936992 AATAAA
1 TATAAA
936998 AGGGAAGCTA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
9 7 0.13
10 10 0.19
11 11 0.21
12 13 0.25
13 3 0.06
14 8 0.15
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (11 bp):
TATAAATTATA
Found at i:936991 original size:20 final size:19
Alignment explanation
Indices: 936925--936988 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 19
936915 TTTTCAATTT
* *
936925 TATAAATTAAATATATATTT
1 TATAAATTATATATATA-TA
*
936945 TATAAATTATATATACA-A
1 TATAAATTATATATATATA
*
936963 T-TATATATATATATATATA
1 TATAAAT-TATATATATATA
936982 TATAAAT
1 TATAAAT
936989 ATAAATAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
17 4 0.11
18 10 0.29
19 2 0.06
20 19 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAAATTATATATATATA
Found at i:942714 original size:60 final size:60
Alignment explanation
Indices: 942577--943302 Score: 962
Period size: 60 Copynumber: 12.1 Consensus size: 60
942567 TAAGGCGAGT
** *
942577 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTCCAGTCCTCAAAAAGC
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* *
942636 AGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
1 AGGACGCCTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
**
942697 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGC
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * * *
942756 AAGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGC
1 AGGACGCCTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
**
942817 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGC
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * *
942876 AGGATGCTTTTTCTTTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
1 AGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
**
942937 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGC
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * *
942996 AAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
1 AGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* *
943057 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGT
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGC
* * *
943116 AGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGC
1 AGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * * * ** * * *
943177 AGGATGCATTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAAAGT
1 AGGACGCCTTTTCTTT-TAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * ** *
943238 AGGACGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGC
1 AGGACGCCTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGC
943299 AGGA
1 AGGA
943303 TACACCTTAT
Statistics
Matches: 588, Mismatches: 64, Indels: 28
0.86 0.09 0.04
Matches are distributed among these distances:
59 125 0.21
60 233 0.40
61 225 0.38
62 5 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (60 bp):
AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
Found at i:942790 original size:120 final size:120
Alignment explanation
Indices: 942577--943302 Score: 1193
Period size: 120 Copynumber: 6.0 Consensus size: 120
942567 TAAGGCGAGT
* *
942577 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTCCAGTCCTCAAAAAGCAGGATG
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
*
942642 CTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
*
942697 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAAGATG
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
* *
942762 CTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGC
66 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
942817 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
*
942882 CTTTTTCTTTTCAAAGCCCATACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
*
942937 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAAGATG
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
943002 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
66 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* *
943057 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGTAGGATG
1 AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
*
943122 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGC
66 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * * * * * *
943177 AGGATGCATTTCCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCCCAAAAAGTAGGA
1 AGGACGCCTTTTCTTT-TAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGA
* * * * ** *
943242 CGCCTTTCCGTTTCAAAGCCCACATGAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGC
64 TGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGC
943299 AGGA
1 AGGA
943303 TACACCTTAT
Statistics
Matches: 576, Mismatches: 27, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
120 479 0.83
121 27 0.05
122 66 0.11
123 4 0.01
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (120 bp):
AGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG
CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
Found at i:944030 original size:19 final size:19
Alignment explanation
Indices: 944006--944069 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
943996 TTTCAGCGAT
944006 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
944025 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
944039 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
944057 TTGTATCGATACA
1 TTGTATCGATACA
944070 ATGTATCGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 24 0.62
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:944043 original size:32 final size:32
Alignment explanation
Indices: 944007--944077 Score: 142
Period size: 32 Copynumber: 2.2 Consensus size: 32
943997 TTCAGCGATT
944007 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
944039 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
944071 TGTATCG
1 TGTATCG
944078 CTGCAAAGCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:944044 original size:13 final size:13
Alignment explanation
Indices: 944026--944050 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
944016 ACATAAGTGT
944026 TGTATCGATACAA
1 TGTATCGATACAA
944039 TGTATCGATACA
1 TGTATCGATACA
944051 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:944138 original size:33 final size:33
Alignment explanation
Indices: 944101--944167 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
944091 GCCAAGGAAA
944101 TGTATCGATACAAAGATCCATGTATCGATACAT
1 TGTATCGATACAAAGATCCATGTATCGATACAT
** **
944134 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACAAAGATCCATGTATCGATACAT
944167 T
1 T
944168 TGGGAATTTT
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:0.31, C:0.16, G:0.16, T:0.36
Consensus pattern (33 bp):
TGTATCGATACAAAGATCCATGTATCGATACAT
Found at i:944139 original size:13 final size:13
Alignment explanation
Indices: 944121--944146 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
944111 CAAAGATCCA
944121 TGTATCGATACAT
1 TGTATCGATACAT
944134 TGTATCGATACAT
1 TGTATCGATACAT
944147 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:944719 original size:51 final size:51
Alignment explanation
Indices: 944653--944835 Score: 217
Period size: 51 Copynumber: 3.6 Consensus size: 51
944643 AAGTTCCTCA
* * * *
944653 AATTTT-CATAATCGGGGGTACTCTAACCCCGGTTTTATTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
944703 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACC
** * * * *
944754 AATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACGCC
1 AATTTTCC-ACAATCGGGGATACTCCAACCCCGGTTTTATTT-CTAAAACACC
* *
944807 AATTTTTCACAATCGAGGATACTCCAACC
1 AATTTTCCACAATCGGGGATACTCCAACC
944836 TCGTTATTTC
Statistics
Matches: 113, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
50 7 0.06
51 46 0.41
52 46 0.41
53 14 0.12
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACC
Found at i:944792 original size:52 final size:52
Alignment explanation
Indices: 944653--944835 Score: 219
Period size: 52 Copynumber: 3.6 Consensus size: 52
944643 AAGTTCCTCA
* * * * *
944653 AATTTT-CATAATCGGGGGTACTCTAACCCCGGTTTTA-TTTCTAAAACACT
1 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACC
944703 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACC
1 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACC
** * * * *
944754 AATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACGCC
1 AATTTTCC-ACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACC
* *
944807 AATTTTTCACAATCGAGGATACTCCAACC
1 AATTTTCCACAATCGGGGATACTCCAACC
944836 TCGTTATTTC
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
50 6 0.05
51 43 0.38
52 51 0.45
53 14 0.12
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAAACACC
Found at i:944854 original size:28 final size:28
Alignment explanation
Indices: 944818--944893 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
944808 ATTTTTCACA
* * **
944818 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
944846 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGGGGATACTCCAACCCCGTTACCTC
944874 --CGAGGGATACTCCAACCCCG
1 ATCG-GGGATACTCCAACCCCG
944894 ACTCTATTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 2 0.05
27 17 0.40
28 24 0.56
ACGTcount: A:0.24, C:0.36, G:0.18, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACCTC
Found at i:945010 original size:79 final size:78
Alignment explanation
Indices: 944848--945051 Score: 248
Period size: 79 Copynumber: 2.6 Consensus size: 78
944838 GTTATTTCAT
** * *
944848 CGGGGATACTCCAACCCCGTTACCTCCGAGGGATACTCCAACCCCGACTCTATTTCCAAAATATT
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGGATACTCCAACCCCGACTCTATTTCCAAAATATC
*
944913 GATTTCTCACAAT
66 GATTTCTCACAAC
* * * * * * *
944926 TGGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAATCTCGATTTTATTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTCCAAGGG-ATACTCCAACCCCGACTCTATTTCCAAAAT-A
*
944990 TCGATTTTTCACAAC
64 TCGATTTCTCACAAC
*
945005 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTCCAA-GGGATACTCCAACCCCG
945052 TTATTATCTC
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
78 31 0.29
79 72 0.68
80 3 0.03
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.28
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCCAAGGGATACTCCAACCCCGACTCTATTTCCAAAATATC
GATTTCTCACAAC
Found at i:949047 original size:13 final size:13
Alignment explanation
Indices: 949029--949054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
949019 CAATTTTTTG
949029 TGTATCGATACAT
1 TGTATCGATACAT
949042 TGTATCGATACAT
1 TGTATCGATACAT
949055 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:949065 original size:32 final size:33
Alignment explanation
Indices: 949009--949072 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
948999 TGCAAGCCAA
*
949009 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
949042 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
949073 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:949066 original size:19 final size:19
Alignment explanation
Indices: 949009--949072 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
948999 TGCAAGCCAA
*
949009 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
949029 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
949042 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
949061 TGTATCGATACA
1 TGTATCGATACA
949073 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:949756 original size:39 final size:38
Alignment explanation
Indices: 949711--949787 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
949701 CTTAACTAAA
949711 GTAATTTTAACAAATTCGTA-CATTCTCCCCCTTTATAAG
1 GTAATTTTAACAAATT--TACCATTCTCCCCCTTTATAAG
* *
949750 GTAATTTTAGCAAATTTACGCATTCTCCCCTTTTATAA
1 GTAATTTTAACAAATTTAC-CATTCTCCCCCTTTATAA
949788 AAAAAATATC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 2 0.06
39 32 0.94
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (38 bp):
GTAATTTTAACAAATTTACCATTCTCCCCCTTTATAAG
Found at i:951188 original size:21 final size:20
Alignment explanation
Indices: 951159--951201 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
951149 GGCTAGTATG
*
951159 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
951180 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
951200 GG
1 GG
951202 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:951651 original size:13 final size:13
Alignment explanation
Indices: 951633--951671 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
951623 ATAATCCCCC
*
951633 TGTATCGATACAG
1 TGTATCGATACAA
951646 TGTATCGATACAA
1 TGTATCGATACAA
951659 TGTATCGATACAA
1 TGTATCGATACAA
951672 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:957848 original size:13 final size:13
Alignment explanation
Indices: 957830--957855 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
957820 CAATTTTTTG
957830 TGTATCGATACAT
1 TGTATCGATACAT
957843 TGTATCGATACAT
1 TGTATCGATACAT
957856 ATTTTGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:957866 original size:32 final size:33
Alignment explanation
Indices: 957810--957873 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
957800 TGCAAGCCAA
*
957810 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
957843 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
957874 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:957867 original size:19 final size:19
Alignment explanation
Indices: 957810--957873 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
957800 TGCAAGCCAA
*
957810 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
957830 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
957843 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
957862 TGTATCGATACA
1 TGTATCGATACA
957874 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:958062 original size:71 final size:71
Alignment explanation
Indices: 957967--958122 Score: 312
Period size: 71 Copynumber: 2.2 Consensus size: 71
957957 CTTTGAATTG
957967 TGTATCGATACTTTTAAGGGTTTTGACAATTTTATCCTAAGTCAACCTTAATGTATCGATACAAA
1 TGTATCGATACTTTTAAGGGTTTTGACAATTTTATCCTAAGTCAACCTTAATGTATCGATACAAA
958032 TACCTA
66 TACCTA
958038 TGTATCGATACTTTTAAGGGTTTTGACAATTTTATCCTAAGTCAACCTTAATGTATCGATACAAA
1 TGTATCGATACTTTTAAGGGTTTTGACAATTTTATCCTAAGTCAACCTTAATGTATCGATACAAA
958103 TACCTA
66 TACCTA
958109 TGTATCGATACTTT
1 TGTATCGATACTTT
958123 GATATATTTT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 85 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (71 bp):
TGTATCGATACTTTTAAGGGTTTTGACAATTTTATCCTAAGTCAACCTTAATGTATCGATACAAA
TACCTA
Found at i:959885 original size:20 final size:20
Alignment explanation
Indices: 959840--959931 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
959830 GCCAATGACT
*
959840 TGTATCGATACATTTTATTCA
1 TGTATCGATACA-TTTAATCA
* *
959861 AGTATCGATACATTTAGTCA
1 TGTATCGATACATTTAATCA
**
959881 TGTATCGATACAATGCAATC-
1 TGTATCGATAC-ATTTAATCA
*
959901 TGTATCGATACATTTAAAT-G
1 TGTATCGATACATTT-AATCA
959921 TGTATCGATAC
1 TGTATCGATAC
959932 TTTTCAGGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.03
20 42 0.70
21 16 0.27
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATTTAATCA
Found at i:961456 original size:19 final size:17
Alignment explanation
Indices: 961432--961494 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
961422 AAACCGTAAA
961432 TGTATCGATACATTAGTGT
1 TGTATCGATACA-TAGT-T
961451 TGTATCGATACA-A---
1 TGTATCGATACATAGTT
961464 TGTATCGATACATAAGTTT
1 TGTATCGATACAT-AG-TT
961483 TGTATCGATACA
1 TGTATCGATACA
961495 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 12 0.32
15 1 0.03
17 1 0.03
19 24 0.63
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (17 bp):
TGTATCGATACATAGTT
Found at i:961469 original size:13 final size:13
Alignment explanation
Indices: 961451--961475 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
961441 ACATTAGTGT
961451 TGTATCGATACAA
1 TGTATCGATACAA
961464 TGTATCGATACA
1 TGTATCGATACA
961476 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:961471 original size:32 final size:32
Alignment explanation
Indices: 961430--961502 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
961420 ACAAACCGTA
*
961430 AATGTATCGATACATTAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
961462 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
961494 AATGTATCG
1 AATGTATCG
961503 CTACGAAGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:961563 original size:20 final size:20
Alignment explanation
Indices: 961538--961605 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
961528 TATCGATACA
961538 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
961558 TTGTATCGAT--A-C-A---
1 TTGTATCGATACATCGATCT
961571 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
961591 TTGTATCGATACATC
1 TTGTATCGATACATC
961606 TAGGAAGTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
13 10 0.24
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
20 25 0.61
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATCGATCT
Found at i:961568 original size:33 final size:33
Alignment explanation
Indices: 961526--961604 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
961516 ACCAAGGAAA
961526 TGTATCGATACATTGTATCGATACATCGATCTT
1 TGTATCGATACATTGTATCGATACATCGATCTT
961559 TGTATCGATACATTGTATCGATACATCGATCTT
1 TGTATCGATACATTGTATCGATACATCGATCTT
961592 TGTATCGATACAT
1 TGTATCGATACAT
961605 CTAGGAAGTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATTGTATCGATACATCGATCTT
Found at i:961600 original size:12 final size:13
Alignment explanation
Indices: 961526--961584 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
961516 ACCAAGGAAA
961526 TGTATCGATACAT
1 TGTATCGATACAT
961539 TGTATCGATAC--
1 TGTATCGATACAT
*
961550 ---ATCGAT-CTT
1 TGTATCGATACAT
961559 TGTATCGATACAT
1 TGTATCGATACAT
961572 TGTATCGATACAT
1 TGTATCGATACAT
961585 CGATCTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
7 1 0.03
8 6 0.15
12 6 0.15
13 26 0.67
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:964003 original size:52 final size:51
Alignment explanation
Indices: 963936--964855 Score: 443
Period size: 52 Copynumber: 17.6 Consensus size: 51
963926 TTAAGTTTCT
963936 CAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
963987 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * * * ***** * *
964040 CAATTTTTCATAATTGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACAC
** * * * ** * * *
964093 CAA--CCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTTATTTCCAAAATAT
1 CAATTTTCC-ATA-AT-C--GGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * * *
964147 TAA-TTTCTCATAATAGGGGATACTCTAACCTCGGTTTTA-TTTCTAAAACAC
1 CAATTTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * *
964198 TAATTTTCCACAATCGAGGATACTCCAACCCC-AGTTTTATTTTCAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGA-TTTTATTTTCAAAACAC
* * * *
964249 CAATTTTCCTTTAATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * ** * *** **
964302 CAATTTTTCACAATCGAGGATACTCCAACCTTGTTATTTCATTGGGGATACTCTAAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCG--ATTTTATT-TTCA-AAAC--AC
*** * * ** * * *
964359 CCCGTTACC-T--TCGAGGGGATACTCAAACCCCGGCTTTATTTCCAAAATAT
1 CAATTTTCCATAATC--GGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
** * *
964409 TGA-TTTCTCATAATCAGGGATACTCCAACCCCAATTTTA-TTTCTAAAACAC
1 CAATTTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * *
964460 TAATTTTCCACAATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * * *
964511 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * * * * ***** * *
964564 CAATTTTTCACAATCGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCG--ATTTTATTTTCAAAACAC
** * * ** * *
964617 CAA--CCCCGTTATCTCCGAGGGGATACTCCAACCCCGGCTTTA-TTTCTAAAATAT
1 CAATTTTCC-ATA-AT-C--GGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
**
964671 TGA-TTTCTCATAATCGGGGATACTCCAACCCC-AGTTTTA-TTTCTAAAACAC
1 CAATTTTC-CATAATCGGGGATACTCCAACCCCGA-TTTTATTTTC-AAAACAC
* * **
964722 TAATTTTCCACAATCGGGGATACTCCAACCCAAATTTTATTTTCAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
* * *
964773 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACAC
* * *
964826 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
964856 TCGTTATTTC
Statistics
Matches: 635, Mismatches: 182, Indels: 103
0.69 0.20 0.11
Matches are distributed among these distances:
49 3 0.00
50 10 0.02
51 218 0.34
52 220 0.35
53 79 0.12
54 44 0.07
55 8 0.01
56 47 0.07
57 6 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
Found at i:964186 original size:51 final size:52
Alignment explanation
Indices: 964110--964857 Score: 271
Period size: 51 Copynumber: 14.3 Consensus size: 52
964100 GTTACCTCCG
* * *
964110 AGGGGATACTCCAACC-CTGGCTTTATTTCCAAAATATTAA-TTTCTCATAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTC-CATAAT
* * *
964161 AGGGGATACTCTAACCTC-GGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTCCATAAT
* * ** * * *
964212 CGAGGATACTCCAACC-CCAGTTTTATTTTCAAAACACCAATTTTCCTTTAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTCC-ATAAT
* * * * *
964264 CGGGGATACTCCAA-CTCTGATTTTATTTCCAAAAACACCAATTTTTCACAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCC-AAAACACTAATTTTCCATAAT
* * * **** * * * * ***
964316 CGAGGATACTCCAACCT-TGTTATTTCATTGGGGATACTCTAACCCCGTTACC-TTCG
1 AGGGGATACTCCAACCTCTGGT-TTT-ATTTCCAAAACACTAA----TTTTCCATAAT
* * * * * *
964372 AGGGGATACTCAAACC-CCGGCTTTATTTCCAAAATATTGA-TTTCTCATAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTC-CATAAT
*** * *
964423 CA-GGGATACTCCAACC-CCAATTTTATTTCTAAAACACTAATTTTCCACAAT
1 -AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTCCATAAT
* * * *
964474 CGGGGATACTCCAATCC-C-GGTTTTATTTTCAAAACACCAATTTTCCTTTAAT
1 AGGGGATACTCCAA-CCTCTGGTTTTATTTCCAAAACACTAATTTTCC-ATAAT
* * * * * * *
964526 CGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAATACCAATTTTTCACAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCC-AAAACACTAATTTTCCATAAT
* * * ***** * * * * ***
964578 CGAGGATACTCCAACCTC-GTTATTTCATCGGGGATACTCCAACCCCGTTAT-C-TCCG
1 AGGGGATACTCCAACCTCTGGT-TTT-ATTTCCAAAACACTAA-----TTTTCCATAAT
* * * * * *
964634 AGGGGATACTCCAACC-CCGGCTTTATTTCTAAAATATTGA-TTTCTCATAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTC-CATAAT
* ** * *
964685 CGGGGATACTCCAACC-CCAGTTTTATTTCTAAAACACTAATTTTCCACAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTCCATAAT
* *** * * *
964736 CGGGGATACTCCAACC-CAAATTTTATTTTCAAAACACCAATTTTCCTTTAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTCC-ATAAT
* * * * * *
964788 CGGGGATACTCCAA-CTCCGATTTTATTTCCAAAAACACCAATTTTTCACAAT
1 AGGGGATACTCCAACCTCTGGTTTTATTTCC-AAAACACTAATTTTCCATAAT
* *
964840 CGAGGATACTCCAACCTC
1 AGGGGATACTCCAACCTC
964858 GTTATTTCAT
Statistics
Matches: 520, Mismatches: 136, Indels: 80
0.71 0.18 0.11
Matches are distributed among these distances:
48 2 0.00
49 3 0.01
50 4 0.01
51 230 0.44
52 151 0.29
53 70 0.13
54 17 0.03
55 7 0.01
56 29 0.06
57 4 0.01
58 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (52 bp):
AGGGGATACTCCAACCTCTGGTTTTATTTCCAAAACACTAATTTTCCATAAT
Found at i:964418 original size:262 final size:262
Alignment explanation
Indices: 963947--964964 Score: 1761
Period size: 262 Copynumber: 3.9 Consensus size: 262
963937 AATTGTTCAT
963947 AATCGGGGATACTCCAACCCC-GATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
1 AATCGGGGATACTCCAACCCCAG-TTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATAC
* *
964011 TCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCATAATTGAGGATACTCCAACCTCGTTA
65 TCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTA
*
964076 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCTGGCTTTATTTCCA
130 TTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCA
* * * *
964141 AAATATTAATTTCTCATAATAGGGGATACTCTAACCTCGGTTTTATTTCTAAAACACTAATTTTC
195 AAATATTGATTTCTCATAATAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTC
964206 CAC
260 CAC
*
964209 AATCGAGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
* *
964274 CCAACTCTGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTTGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* * * *
964339 TTCATTGGGGATACTCTAACCCCGTTACCTTCGAGGGGATACTCAAACCCCGGCTTTATTTCCAA
131 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
*
964404 AATATTGATTTCTCATAATCA-GGGATACTCCAACCCCAATTTTATTTCTAAAACACTAATTTTC
196 AATATTGATTTCTCATAAT-AGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTC
964468 CAC
260 CAC
* *
964471 AATCGGGGATACTCCAATCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
*
964536 CCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* *
964601 TTCATCGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAA
131 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
*
964666 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTCC
196 AATATTGATTTCTCATAATAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTCC
964731 AC
261 AC
* *
964733 AATCGGGGATACTCCAACCCAAATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
964798 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
66 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
* *
964863 TTCATCGGGGATACTCCAACCCCATTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAA
131 TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
* *
964928 AATATTGATTTTTCATAATTGGGGATACTCCAACCCC
196 AATATTGATTTCTCATAATAGGGGATACTCCAACCCC
964965 GTTATTTCCG
Statistics
Matches: 713, Mismatches: 40, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
262 711 1.00
263 2 0.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (262 bp):
AATCGGGGATACTCCAACCCCAGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATACT
CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
TTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAA
AATATTGATTTCTCATAATAGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTCC
AC
Found at i:964612 original size:28 final size:28
Alignment explanation
Indices: 964576--964652 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
964566 ATTTTTCACA
* * *
964576 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATCTC
964604 ATCGGGGATACTCCAACCCCGTTATCTC
1 ATCGGGGATACTCCAACCCCGTTATCTC
***
964632 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
964653 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATCTC
Found at i:964962 original size:79 final size:79
Alignment explanation
Indices: 964868--965072 Score: 270
Period size: 79 Copynumber: 2.6 Consensus size: 79
964858 GTTATTTCAT
** *
964868 CGGGGATACTCCAACCCCATTACCTCCAAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT-A
1 CGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCC-AAATCA
* *
964932 TTGATTTTTCATAAT
65 TTGATTTTTCACAAC
* * * * * *
964947 TGGGGATACTCCAACCCCGTTATTTCCGAA-GGGACACTCCAATCCCGATTTTATTTCCTAATCA
1 CGGGGATACTCCAACCCCATTATTTCC-AAGGGGATACTCCAACCCCGACTTTATTTCCAAATCA
965011 TTGATTTTTCACAAC
65 TTGATTTTTCACAAC
*
965026 CGGGGATACTCCAACCCCATTATTTTCAAGGGGATACTCCAACCCCG
1 CGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCG
965073 TTATTATCTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
78 5 0.05
79 100 0.93
80 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCATTATTTCCAAGGGGATACTCCAACCCCGACTTTATTTCCAAATCAT
TGATTTTTCACAAC
Found at i:964986 original size:107 final size:107
Alignment explanation
Indices: 964789--964988 Score: 251
Period size: 107 Copynumber: 1.9 Consensus size: 107
964779 TCCTTTAATC
* *
964789 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
* *
964854 CCTCGTTATTTCATCGGGGATACTCCAACCCCATTACCTCCAA
66 CCCCGTTATTTCA-CGGGGACACTCCAACCCCATTACCTCCAA
* * *** * * *
964897 GGGGATACTCCAACCCCGGCTTTATTTCC-AAAATATTGATTTTTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
964961 CCCCGTTATTTC-CGAAGGGACACTCCAA
66 CCCCGTTATTTCACG--GGGACACTCCAA
964989 TCCCGATTTT
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
105 2 0.03
107 50 0.64
108 26 0.33
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.28
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
CCCCGTTATTTCACGGGGACACTCCAACCCCATTACCTCCAA
Found at i:966144 original size:21 final size:20
Alignment explanation
Indices: 966095--966147 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
966085 ATTTCAGGCG
966095 TGTATCGATACATTCACTTA
1 TGTATCGATACATTCACTTA
* * *
966115 TGAATCGATACATTTACTGTT
1 TGTATCGATACATTCACT-TA
966136 TGTATCGATACA
1 TGTATCGATACA
966148 AATTGTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (20 bp):
TGTATCGATACATTCACTTA
Found at i:968832 original size:20 final size:20
Alignment explanation
Indices: 968787--968832 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
968777 GTTAACAGCC
*
968787 CATGATTCATGCATTTTGAG
1 CATGTTTCATGCATTTTGAG
968807 CTATGTTTCATGCA-TTTGCAG
1 C-ATGTTTCATGCATTTTG-AG
968828 CATGT
1 CATGT
968833 CCAGCACCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (20 bp):
CATGTTTCATGCATTTTGAG
Found at i:974185 original size:16 final size:16
Alignment explanation
Indices: 974164--974242 Score: 88
Period size: 16 Copynumber: 4.9 Consensus size: 16
974154 TCAACAACCT
*
974164 GAATCCGAACTGACCC
1 GAATCCGAAATGACCC
*
974180 GAATCCGAAATGACTC
1 GAATCCGAAATGACCC
* *
974196 GAACCCGAAATAACCC
1 GAATCCGAAATGACCC
974212 GAATCC-AGAATGACCC
1 GAATCCGA-AATGACCC
* *
974228 GAACCCAAAATGACC
1 GAATCCGAAATGACC
974243 TAAATAATTA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
15 1 0.02
16 51 0.96
17 1 0.02
ACGTcount: A:0.39, C:0.33, G:0.16, T:0.11
Consensus pattern (16 bp):
GAATCCGAAATGACCC
Found at i:975307 original size:16 final size:16
Alignment explanation
Indices: 975283--975341 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
975273 TAAACTCGAT
975283 TGACCCGAACCCAAAA
1 TGACCCGAACCCAAAA
* * *
975299 TGACTCGAATCCAAAG
1 TGACCCGAACCCAAAA
* * **
975315 TGATCCGAATCTGAAA
1 TGACCCGAACCCAAAA
975331 TGACCCGAACC
1 TGACCCGAACC
975342 TGAAAACAAC
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.31, G:0.17, T:0.15
Consensus pattern (16 bp):
TGACCCGAACCCAAAA
Found at i:977429 original size:7 final size:7
Alignment explanation
Indices: 977419--977449 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
977409 AATTAAAAAA
977419 AAAAAGG
1 AAAAAGG
977426 AAAAAGG
1 AAAAAGG
977433 AAAAAGG
1 AAAAAGG
977440 AAAAAGG
1 AAAAAGG
977447 AAA
1 AAA
977450 CAGTAGCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAAAGG
Found at i:980994 original size:14 final size:14
Alignment explanation
Indices: 980975--981002 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
980965 TATTAAAATC
980975 AAAAATGAAAAGAA
1 AAAAATGAAAAGAA
980989 AAAAATGAAAAGAA
1 AAAAATGAAAAGAA
981003 GGAAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAATGAAAAGAA
Found at i:981392 original size:21 final size:21
Alignment explanation
Indices: 981353--981392 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
981343 ATTAAAACAA
**
981353 AAAAATAAATACTAGAATAAG
1 AAAAATAAATAAAAGAATAAG
*
981374 AAAAATAAATAAAATAATA
1 AAAAATAAATAAAAGAATA
981393 TCATTTTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (21 bp):
AAAAATAAATAAAAGAATAAG
Found at i:983603 original size:23 final size:20
Alignment explanation
Indices: 983550--983586 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
983540 ACCTAGCAAT
983550 TCATATATTTATGTCATACA
1 TCATATATTTATGTCATACA
983570 T-ATATATTTATGTCATA
1 TCATATATTTATGTCATA
983587 TCGTATCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (20 bp):
TCATATATTTATGTCATACA
Found at i:986966 original size:20 final size:20
Alignment explanation
Indices: 986923--986978 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
986913 AAAATTTTCA
**
986923 AATGTATCGATACAAAGATC
1 AATGTATCGATACATTGATC
986943 AATGTATCGATACATTGAAT-
1 AATGTATCGATACATTG-ATC
*
986963 AATGTACCGATACATT
1 AATGTATCGATACATT
986979 TCCTTTGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:987066 original size:19 final size:20
Alignment explanation
Indices: 987007--987066 Score: 70
Period size: 19 Copynumber: 3.0 Consensus size: 20
986997 TAGCGATATA
* *
987007 TTGTATCGATACAACACT-T
1 TTGTATCGATACAATATTGT
*
987026 ATGTATCGATACAATTATTGT
1 TTGTATCGATACAA-TATTGT
987047 TTGTATCGATACAA-ATTGT
1 TTGTATCGATACAATATTGT
987066 T
1 T
987067 GAAATTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 19 0.54
20 2 0.06
21 14 0.40
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACAATATTGT
Found at i:987973 original size:19 final size:18
Alignment explanation
Indices: 987949--988073 Score: 91
Period size: 19 Copynumber: 7.6 Consensus size: 18
987939 CAACGATTTG
987949 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
987967 CTATCGATAC--AA-TG--
1 -TATCGATACATAAGTGTT
987981 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
*
987999 GTATCAATAC--AA-TG--
1 -TATCGATACATAAGTGTT
988013 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
988031 ATATCGATACAT---TG--
1 -TATCGATACATAAGTGTT
*
988045 TATCGATACATAAGTTTT
1 TATCGATACATAAGTGTT
988063 GTATCGATACA
1 -TATCGATACA
988074 ATGTATCGCT
Statistics
Matches: 85, Mismatches: 3, Indels: 36
0.69 0.02 0.29
Matches are distributed among these distances:
13 28 0.33
15 4 0.05
16 11 0.13
17 4 0.05
19 38 0.45
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTGTT
Found at i:987983 original size:32 final size:32
Alignment explanation
Indices: 987947--988081 Score: 225
Period size: 32 Copynumber: 4.2 Consensus size: 32
987937 TTCAACGATT
*
987947 TGTATCGATACATAAGTGTTCTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
987979 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
988011 TGTATCGATACATAAGTGTTATATCGATACAT
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
988043 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
988075 TGTATCG
1 TGTATCG
988082 CTACGAAGCT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 95 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:988216 original size:52 final size:52
Alignment explanation
Indices: 988138--988266 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
988128 CACTGATCTT
* *
988138 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATGCACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
*
988190 TGTATCGATACATACAGGCAAATTTGCCCAGATCTATCGATACACTATGAAA
1 TGTATCGATACATACAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
*
988242 TGTATCGATACA-AGCAGGTAAATTT
1 TGTATCGATACATA-CAGGCAAATTT
988267 TCATATTTCG
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 1 0.01
52 71 0.99
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATACAGGCAAATTTGCCCAGATATATCGATACACTATGAAA
Found at i:996483 original size:32 final size:30
Alignment explanation
Indices: 996378--996558 Score: 222
Period size: 30 Copynumber: 5.9 Consensus size: 30
996368 TTCAAATACC
* *
996378 TTCTTAAAGTCCACGACTCAGTGGCAATCTC
1 TTCTCAAAGTCCACGACTCAGTGGC-ATCTT
*
996409 TTCTCAAAGCCCACGACTCAGTGGCAT-TT
1 TTCTCAAAGTCCACGACTCAGTGGCATCTT
996438 TGTCTCAAAGTCCACGACTCAGTGGCATCCTT
1 T-TCTCAAAGTCCACGACTCAGTGGCAT-CTT
996470 TTCTTCAAAGTCCACGACTCAGTGGCAT-TT
1 TTC-TCAAAGTCCACGACTCAGTGGCATCTT
* *
996500 TGTCTCAAAGTCCACGACTTAGTGCCATCATT
1 T-TCTCAAAGTCCACGACTCAGTGGCATC-TT
* *
996532 TTCTTCAAAGTCCACAACTCCGTGGCA
1 TTC-TCAAAGTCCACGACTCAGTGGCA
996559 CCCTTTTAAG
Statistics
Matches: 132, Mismatches: 10, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.02
30 52 0.39
31 29 0.22
32 49 0.37
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (30 bp):
TTCTCAAAGTCCACGACTCAGTGGCATCTT
Found at i:996495 original size:62 final size:62
Alignment explanation
Indices: 996383--996558 Score: 266
Period size: 62 Copynumber: 2.9 Consensus size: 62
996373 ATACCTTCTT
* *
996383 AAAGTCCACGACTCAGTGGCAAT-CTCTTC-TCAAAGCCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGC-ATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
996444 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
* * * * *
996506 AAAGTCCACGACTTAGTGCCATCATTTTCTTCAAAGTCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCA
996559 CCCTTTTAAG
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
60 2 0.02
61 25 0.24
62 79 0.75
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATCCTTTTCTTCAAAGTCCACGACTCAGTGGCATTTTGTCTC
Found at i:996612 original size:61 final size:61
Alignment explanation
Indices: 996530--997563 Score: 786
Period size: 61 Copynumber: 16.8 Consensus size: 61
996520 AGTGCCATCA
* **
996530 TTTT-CTTCAAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTTGTGGCACTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* * * *
996590 TTTTCCTTCTAAGTCCATAACTCCGTGGCACCCTTCTAAGTCCACAACTCCATGGCACTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* * *
996651 TTTTCCTTCTCAAAGTCCACAACTCTGTGGCACCTTTTTAAGCCCACAACTCCGTGACACTCT
1 TTTTCCTTCT--AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* * *
996714 TTTTCCTTCTAAGTCCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCAC
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCAC
996779 -C-
59 TCT
* * * *
996780 --TT--TT-TAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCAC
996839 -C-
59 TCT
* * * *
996840 ----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCA-
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCAC
996900 -C-
59 TCT
* * * * * *
996901 ----CCTTTTAAGCCCACAACTCTGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCA-
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCAC
996961 -C-
59 TCT
* * * *
996962 ----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCTACAACTCCGTGGCA-
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCAC
997022 -C-
59 TCT
* * *
997023 ----CCTTCTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTCAAAGTCCACAACTCCGTAGC
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTT-T-TAAGCCCACAACTCCGTGGC
997084 A--C-
57 ACTCT
* * *
997086 ----CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCA--C-----CCTTTTAAGCCCACAACTCCGTGGCAC
997147 TCT
59 TCT
* * *
997150 TTTTTCTTCTCAAAATCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
1 TTTTCCTTCT--AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* *
997213 TTTTCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* *
997274 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCGCTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* *
997335 TTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGTACTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* *
997396 TTTTCCTTCTAAGTCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCTGTGGCACTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* * *
997457 TTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGACACTCT
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
* **
997518 TTTTCCTTCTAAGTCCACAAGTCCGTGGCACCCTTCAAAGCCCACA
1 TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACA
997564 CAAGTCGGTG
Statistics
Matches: 876, Mismatches: 74, Indels: 47
0.88 0.07 0.05
Matches are distributed among these distances:
60 7 0.01
61 669 0.76
62 4 0.00
63 148 0.17
64 2 0.00
67 1 0.00
68 28 0.03
70 17 0.02
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (61 bp):
TTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
Found at i:997176 original size:36 final size:34
Alignment explanation
Indices: 997096--997548 Score: 170
Period size: 34 Copynumber: 14.5 Consensus size: 34
997086 CCTTTTAAGC
* *
997096 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
*
997130 CCACAACTCCGTGGCACTCTTTTTTCTTCTCAAAAT
1 CCACAACTCCGTGGCACTCTTTTTCCTT-T-AAAAT
* * **
997166 CCACAACTCCGTAGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* *
997193 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* * **
997227 CCATAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
*
997254 CCACAACTCCGTGGCACTCTTTTTCCTTCT-AAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTT-TAAAAT
* **
997288 CCACAACTCCGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* * *
997315 CCACAACTCCATGGCGCTCTTTTTCCTTCT-AAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTT-TAAAAT
* * **
997349 CCACAACTCTGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* *
997376 CCACAACTCCGTGGTACTCTTTTTCCTTCT-AAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTT-TAAAAT
* * **
997410 CCACAACTCCGTAGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* * *
997437 CCACAACTCTGTGGCACTCTTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* * **
997471 CCACAACTCTGTGGCA--C-----CCTTTTAAGC
1 CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
* *
997498 CCACAACTCCGTGACACTCTTTTTCCTTCT-AAGT
1 CCACAACTCCGTGGCACTCTTTTTCCTT-TAAAAT
*
997532 CCACAAGTCCGTGGCAC
1 CCACAACTCCGTGGCAC
997549 CCTTCAAAGC
Statistics
Matches: 331, Mismatches: 37, Indels: 102
0.70 0.08 0.22
Matches are distributed among these distances:
26 3 0.01
27 127 0.38
28 1 0.00
29 9 0.03
32 5 0.02
34 163 0.49
35 5 0.02
36 18 0.05
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.32
Consensus pattern (34 bp):
CCACAACTCCGTGGCACTCTTTTTCCTTTAAAAT
Found at i:997458 original size:27 final size:27
Alignment explanation
Indices: 997400--997520 Score: 107
Period size: 27 Copynumber: 4.2 Consensus size: 27
997390 TACTCTTTTT
* * *
997400 CCTTCTAAGTCCACAACTCCGTAGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
997427 CCTTTTAAGCCCACAACTCTGTGGCACTC
1 CCTTTTAAGCCCACAACTCCGTGGCA--C
* *
997456 TTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 -----CCTTTTAAGCCCACAACTCCGTGGCAC
*
997488 CCTTTTAAGCCCACAACTCCGTGACAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
997515 TCTTTT
1 CCTTTT
997521 TCCTTCTAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
27 51 0.65
29 1 0.01
32 1 0.01
34 25 0.32
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:997586 original size:465 final size:461
Alignment explanation
Indices: 996539--997563 Score: 1581
Period size: 465 Copynumber: 2.2 Consensus size: 461
996529 ATTTTCTTCA
**
996539 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTTTGTGGCACTCTTTTTCCTTCTAAGT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* * *
996604 CCATAACTCCGTGGCACCCTTCTAAGTCCACAACTCCATGGCACTCTTTTTCCTTCTCAAAGTCC
66 CCACAACTCCGTGGCACCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTCAAAGTCC
* * **** *
996669 ACAACTCTGTGGCACCTTTTTAAGCCCACAACTCCGTGACACTCTTTTTCCTTCTAAGTCCACAA
131 ACAACTCCGTGGCACCTTTTTAAGCCCACAAATCC--GACACTCTGCACCCTTCTAAGCCCACAA
* *
996734 CTCCATGGCACTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCACCTTTTTAAGCCCACAACTCT
194 CTCCATGGCACTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCACCCTTTTAAGCCCACAACTCC
*
996799 GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGG
259 GTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGG
*
996864 CACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACT
324 CACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACT
* *
996929 CTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTT
389 CTTTTTCCTTCTAAGTCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTT
996994 TTCCTTTT
454 TTCCTTTT
* * *
997002 AAGTCTACAACTCCGTGGCACCCTTCTAAGTCCACAACTCCGTGGCACTCTTTTTCCTTCTCAAA
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT--AA
* * *
997067 GTCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT-T-TAAGT
64 GTCCACAACTCCGTGGCACCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTCAAAGT
*** * *
997130 CCACAACTCCGTGGCACTCTTTTTTCTTCTCA-AAATCC-ACAACTCCGTAGCACCCTTTTAAGC
129 CCACAACTCCGTGGCAC-C-TTTTTAAGCCCACAAATCCGAC-ACT-C-T-GCACCCTTCTAAGC
* *
997193 CCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCATAACTCCGTGGCACCCTTTTAAGCCCAC
188 CCACAACTCCATGGCACTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCACCCTTTTAAGCCCAC
997258 AACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACT
253 AACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACT
* *
997323 CCATGGCGCTCTTTTTCCTTCTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGT
318 CCATGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGT
* *
997388 GGTACTCTTTTTCCTTCTAAGTCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCTGTGGCA
383 GGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCCGTGGCA
997453 CTCTTTTTCCTTTT
448 CTCTTTTTCCTTTT
* *
997467 AAGTCCACAACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGACACTCTTTTTCCTTCTAAGT
1 AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
* *
997532 CCACAAGTCCGTGGCACCCTTCAAAGCCCACA
66 CCACAACTCCGTGGCACCCTTCTAAGCCCACA
997564 CAAGTCGGTG
Statistics
Matches: 510, Mismatches: 44, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
461 2 0.00
462 3 0.01
463 109 0.21
464 8 0.02
465 388 0.76
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (461 bp):
AAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGT
CCACAACTCCGTGGCACCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTCAAAGTCC
ACAACTCCGTGGCACCTTTTTAAGCCCACAAATCCGACACTCTGCACCCTTCTAAGCCCACAACT
CCATGGCACTCTTTTTCCTTTTAAGTCCAAAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGT
GGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCATGGCA
CTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTCT
TTTTCCTTCTAAGTCCACAACTCCGTAGCACCCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
CCTTTT
Found at i:997732 original size:65 final size:65
Alignment explanation
Indices: 997548--997739 Score: 280
Period size: 65 Copynumber: 3.0 Consensus size: 65
997538 GTCCGTGGCA
* *
997548 CCCT-TCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCCAAAGCCCACACAAGTCGGTGGCAAC
1 CCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTGGCAAC
* * * *
997612 CCTTCTCAAAGCCCACACAAGTCCGTGGTAACCTTTTTCTAAAGCCCACACAAGTTGGTGGCAAT
1 CCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTGGCAA-
997677 C
65 C
* * *
997678 CCCTCT-AAAGCCCACATAAGTCGGTGGCAACCTTCTTCAAAAGCCCACACAAGTTAGTGGCA
1 CCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTGGCA
997740 TCTTCTTTTA
Statistics
Matches: 114, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
64 3 0.03
65 105 0.92
66 6 0.05
ACGTcount: A:0.29, C:0.33, G:0.18, T:0.20
Consensus pattern (65 bp):
CCCTCTCAAAGCCCACACAAGTCGGTGGCAACCTTTTTCAAAAGCCCACACAAGTTGGTGGCAAC
Found at i:997739 original size:33 final size:32
Alignment explanation
Indices: 997533--997731 Score: 230
Period size: 33 Copynumber: 6.2 Consensus size: 32
997523 CTTCTAAGTC
*
997533 CACAAGTCCGTGGC-ACC--CTTCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTCAAAGCCCA
*
997562 CACAAGTCGGTGGCAACCTTTTTCCAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTT-CAAAGCCCA
997595 CACAAGTCGGTGGCAACCCTTC-TCAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTCTTCAAAGCCCA
* * *
997627 CACAAGTCCGTGGTAACCTTTTTCTAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTC-AAAGCCCA
* *
997660 CACAAGTTGGTGGCAATCC--CCTCTAAAGCCCA
1 CACAAGTCGGTGGCAA-CCTTCTTC-AAAGCCCA
*
997692 CATAAGTCGGTGGCAACCTTCTTCAAAAGCCCA
1 CACAAGTCGGTGGCAACCTTCTTC-AAAGCCCA
997725 CACAAGT
1 CACAAGT
997732 TAGTGGCATC
Statistics
Matches: 144, Mismatches: 16, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
29 13 0.09
30 3 0.02
31 6 0.04
32 52 0.36
33 64 0.44
34 6 0.04
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.20
Consensus pattern (32 bp):
CACAAGTCGGTGGCAACCTTCTTCAAAGCCCA
Found at i:997804 original size:49 final size:49
Alignment explanation
Indices: 997735--998233 Score: 443
Period size: 49 Copynumber: 10.1 Consensus size: 49
997725 CACAAGTTAG
* *
997735 TGGCATCTTC-T-TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * *
997782 TGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACAG
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
997831 TGGCA----C--CTTTAAGTCCAATATCGTTGGCCTTGAATCAGCACAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
997874 TGGCA----C--CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
*
997917 TGGCGCCAT-TGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACAT
1 T-G-G-CATCT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* *
997969 TGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATC-AGCACAT
* * * *
998019 TGGAGCCTTTGTCATCTTTTAAGTCCAATGTCGCTGGTCTTGAATCAGCACAT
1 T-G-GCATCT-TCATC-TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * *
998072 TGACACCTTCATCTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATAT
1 TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * ** * * *
998121 TAGCGCCTTCGTCATTTTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACAT
1 T-G-G-CATCTTCA-TCTTT-AAGTCCAATATCGCTGGCCTTGAATCAGCACAT
* * * * * *
998175 TGGCATTTTTCTCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACAT
1 TGGCA--TCT-TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
998227 TGGCATC
1 TGGCATC
998234 CTTTTTCTCA
Statistics
Matches: 370, Mismatches: 57, Indels: 47
0.78 0.12 0.10
Matches are distributed among these distances:
43 74 0.20
44 1 0.00
45 2 0.01
46 2 0.01
47 10 0.03
48 1 0.00
49 104 0.28
50 17 0.05
51 5 0.01
52 76 0.21
53 21 0.06
54 57 0.15
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TGGCATCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACAT
Found at i:997952 original size:52 final size:51
Alignment explanation
Indices: 997880--998236 Score: 364
Period size: 52 Copynumber: 6.9 Consensus size: 51
997870 ACATTGGCAC
* * * *
997880 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCGCCATTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-TTGTCAT
997932 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCAT
* *
997981 CTTTAAGTCCAATATCGCTGGCCTTGAATCAAGCATATTGG-AGCCTTTGTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATC-AGCACATTGGCA-CC-TTGTCAT
* *
998034 CTTTTAAGTCCAATGTCGCTGGTCTTGAATCAGCACATTGACACC-T-TCAT
1 C-TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCAT
* * * * *
998084 CTTTAAGTCCAGTATCGCTGGCCTTGAATCAGCATATTAGCGCCTTCGTCATT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-GTCA-T
* ** * * ** *
998137 TTTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTCTCAT
1 CTTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTGTCAT
* * * *
998190 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGGCATCCTT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTT
998237 TTTCTCATAT
Statistics
Matches: 251, Mismatches: 41, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
49 70 0.28
50 18 0.07
51 1 0.00
52 78 0.31
53 22 0.09
54 60 0.24
55 2 0.01
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTGTCAT
Found at i:998066 original size:103 final size:102
Alignment explanation
Indices: 997838--998230 Score: 485
Period size: 103 Copynumber: 3.9 Consensus size: 102
997828 CAGTGGCACC
* * *
997838 TTTAAGTCCAATATCGTTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATTG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
*
997897 CTGGCCTTGAATCAGCATATTGGCGCCATTGTCATC-
66 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
997933 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
*
997998 CTGGCCTTGAATCAAGCATATTGGAGCCTTTGTCATCT
66 CTGGCCTTGAATC-AGCATATTGGCGCCTTTGTCATCT
* * *
998036 TTTAAGTCCAATGTCGCTGGTCTTGAATCAGCACATTGACACCTTCATCTTTAAGTCCAGTATCG
1 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
* * *
998101 CTGGCCTTGAATCAGCATATTAGCGCCTTCGTCATTT
66 CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
** * * ** * *
998138 TTTAAAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTCAAGTCTAAT
1 TTT-AAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA--CCT-TCATCTTTAAGTCCAAT
* * * *
998203 GTCGCTGACCGTGAATCAGCACATTGGC
62 ATCGCTGGCCTTGAATCAGCATATTGGC
998231 ATCCTTTTTC
Statistics
Matches: 258, Mismatches: 28, Indels: 13
0.86 0.09 0.04
Matches are distributed among these distances:
95 39 0.15
99 1 0.00
101 29 0.11
102 44 0.17
103 107 0.41
105 1 0.00
106 37 0.14
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (102 bp):
TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCG
CTGGCCTTGAATCAGCATATTGGCGCCTTTGTCATCT
Found at i:998276 original size:56 final size:52
Alignment explanation
Indices: 998142--998276 Score: 144
Period size: 52 Copynumber: 2.5 Consensus size: 52
998132 TCATTTTTTA
* *
998142 AAACCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATTTTTCTCATCTTC
1 AAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCATTTTTCTCATCTTC
** * * * * *
998194 AAGTCTAATGTCGCTGACCGTGAATCAGCACATTGGCATCCTTTTTCTCATATTTG
1 AAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCA---TTTTTCTCAT-CTTC
*
998250 AAACCCAATATCGTTGGCCGTGAATCA
1 AAACCCAATGTCGTTGGCCGTGAATCA
998277 ACGTATTGGT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
52 31 0.48
55 10 0.16
56 23 0.36
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (52 bp):
AAACCCAATGTCGTTGGCCGTGAATCAGCACATTGGCATTTTTCTCATCTTC
Found at i:998950 original size:32 final size:32
Alignment explanation
Indices: 998914--998989 Score: 116
Period size: 32 Copynumber: 2.4 Consensus size: 32
998904 TTCAACGATT
*
998914 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
998946 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
* *
998978 TATATCGCTACA
1 TGTATCGATACA
998990 AAGCTACTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:998951 original size:13 final size:13
Alignment explanation
Indices: 998933--998957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
998923 ACATAAGTGT
998933 TGTATCGATACAA
1 TGTATCGATACAA
998946 TGTATCGATACA
1 TGTATCGATACA
998958 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:998970 original size:19 final size:19
Alignment explanation
Indices: 998912--998976 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
998902 ATTTCAACGA
*
998912 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
*
998931 GTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
998946 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
998963 TTTGTATCGATACA
1 TTTGTATCGATACA
998977 ATATATCGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:999047 original size:13 final size:13
Alignment explanation
Indices: 999029--999054 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
999019 ATTACTCAAA
999029 TGTATCGATACAT
1 TGTATCGATACAT
999042 TGTATCGATACAT
1 TGTATCGATACAT
999055 GCAGGCAAAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:999120 original size:52 final size:52
Alignment explanation
Indices: 999042--999170 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
999032 ATCGATACAT
*
999042 TGTATCGATACATGCAGGCAAATTTGCCCAGATTTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
999094 TGTATCGATACATACAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
999146 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
999171 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1003013 original size:22 final size:23
Alignment explanation
Indices: 1002985--1003034 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
1002975 AATTAAAACA
*
1002985 CAAAATTAAACATC-AAAT-ACAT
1 CAAAATT-AACACCAAAATCACAT
1003007 CAAAATTAACACCAAAATCACAT
1 CAAAATTAACACCAAAATCACAT
1003030 CAAAA
1 CAAAA
1003035 GATTACAAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 5 0.20
22 11 0.44
23 9 0.36
ACGTcount: A:0.60, C:0.22, G:0.00, T:0.18
Consensus pattern (23 bp):
CAAAATTAACACCAAAATCACAT
Found at i:1004316 original size:184 final size:184
Alignment explanation
Indices: 1004001--1004371 Score: 733
Period size: 184 Copynumber: 2.0 Consensus size: 184
1003991 CATTATAAGG
*
1004001 GTGAGGTTCGGCCAAAGGATGAAAAATCTCTTGGCCAAACATGTTCTAGCATTTTTGTATATATA
1 GTGAGCTTCGGCCAAAGGATGAAAAATCTCTTGGCCAAACATGTTCTAGCATTTTTGTATATATA
1004066 TTTTTTCTTTTTTTTATTTTTTTAATTAGTACTTTTGATTTTGATTTAATTTAAATTAATTAAGT
66 TTTTTTCTTTTTTTTATTTTTTTAATTAGTACTTTTGATTTTGATTTAATTTAAATTAATTAAGT
1004131 TTGTCATTTTATGCATTACATCATCCATGACATCATCAAATTTTAGAAGATTTT
131 TTGTCATTTTATGCATTACATCATCCATGACATCATCAAATTTTAGAAGATTTT
1004185 GTGAGCTTCGGCCAAAGGATGAAAAATCTCTTGGCCAAACATGTTCTAGCATTTTTGTATATATA
1 GTGAGCTTCGGCCAAAGGATGAAAAATCTCTTGGCCAAACATGTTCTAGCATTTTTGTATATATA
1004250 TTTTTTCTTTTTTTTATTTTTTTAATTAGTACTTTTGATTTTGATTTAATTTAAATTAATTAAGT
66 TTTTTTCTTTTTTTTATTTTTTTAATTAGTACTTTTGATTTTGATTTAATTTAAATTAATTAAGT
1004315 TTGTCATTTTATGCATTACATCATCCATGACATCATCAAATTTTAGAAGATTTT
131 TTGTCATTTTATGCATTACATCATCCATGACATCATCAAATTTTAGAAGATTTT
1004369 GTG
1 GTG
1004372 TGATATACTT
Statistics
Matches: 186, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
184 186 1.00
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.47
Consensus pattern (184 bp):
GTGAGCTTCGGCCAAAGGATGAAAAATCTCTTGGCCAAACATGTTCTAGCATTTTTGTATATATA
TTTTTTCTTTTTTTTATTTTTTTAATTAGTACTTTTGATTTTGATTTAATTTAAATTAATTAAGT
TTGTCATTTTATGCATTACATCATCCATGACATCATCAAATTTTAGAAGATTTT
Found at i:1004432 original size:14 final size:14
Alignment explanation
Indices: 1004406--1004444 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1004396 AAATTATACC
1004406 ATAAAAATT-AATT
1 ATAAAAATTAAATT
1004419 A-AAAAGATTAAATT
1 ATAAAA-ATTAAATT
1004433 ATAAAAATTAAA
1 ATAAAAATTAAA
1004445 AATTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.17
13 4 0.17
14 11 0.48
15 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
ATAAAAATTAAATT
Found at i:1010216 original size:16 final size:14
Alignment explanation
Indices: 1010195--1010246 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 14
1010185 AGTTTAGGTA
1010195 AAATTATTTCGAGTTT
1 AAATTATTT-GA-TTT
1010211 AAATTATATTGAATTT
1 AAATTAT-TTG-ATTT
*
1010227 AAAATTTTTTGATTT
1 -AAATTATTTGATTT
1010242 AAATT
1 AAATT
1010247 TTTTTAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 5 0.16
15 4 0.12
16 14 0.44
17 9 0.28
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (14 bp):
AAATTATTTGATTT
Found at i:1010243 original size:15 final size:14
Alignment explanation
Indices: 1010208--1010250 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1010198 TTATTTCGAG
*
1010208 TTTAAATTATATTGAA
1 TTTAAATT-TTTTG-A
1010224 TTTAAAATTTTTTGA
1 TTT-AAATTTTTTGA
1010239 TTTAAATTTTTT
1 TTTAAATTTTTT
1010251 TAAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 9 0.36
15 4 0.16
16 7 0.28
17 5 0.20
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (14 bp):
TTTAAATTTTTTGA
Found at i:1010245 original size:31 final size:33
Alignment explanation
Indices: 1010193--1010260 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 33
1010183 AGAGTTTAGG
*
1010193 TAAAATTATTTCGAGTTTAAATTATATTGAATT
1 TAAAATTATTTCGAGTTTAAATTATATTAAATT
* * *
1010226 TAAAATT-TTTTGA-TTTAAATTTTTTTAAATT
1 TAAAATTATTTCGAGTTTAAATTATATTAAATT
1010257 TAAA
1 TAAA
1010261 TTTCTTTTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 19 0.61
32 5 0.16
33 7 0.23
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (33 bp):
TAAAATTATTTCGAGTTTAAATTATATTAAATT
Found at i:1010251 original size:15 final size:16
Alignment explanation
Indices: 1010223--1010273 Score: 68
Period size: 15 Copynumber: 3.2 Consensus size: 16
1010213 ATTATATTGA
*
1010223 ATTTAAAATTTTTT-G
1 ATTTAAATTTTTTTAG
*
1010238 ATTTAAATTTTTTTAA
1 ATTTAAATTTTTTTAG
1010254 ATTTAAATTTCTTTTAG
1 ATTTAAATTT-TTTTAG
1010271 ATT
1 ATT
1010274 CAAAAACTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
15 13 0.42
16 10 0.32
17 8 0.26
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (16 bp):
ATTTAAATTTTTTTAG
Found at i:1010774 original size:15 final size:14
Alignment explanation
Indices: 1010756--1010789 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1010746 AATATAAAAA
*
1010756 ATATTAATAATTTTT
1 ATATTAAT-ATTTAT
1010771 ATATTAATATTTAT
1 ATATTAATATTTAT
1010785 ATATT
1 ATATT
1010790 TTATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATTAATATTTAT
Found at i:1010840 original size:26 final size:28
Alignment explanation
Indices: 1010811--1010862 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
1010801 TAAAAAAATT
1010811 ATTAAAT-AAATTAAAAT-TAAAATTAA
1 ATTAAATCAAATTAAAATATAAAATTAA
*
1010837 ATTAAATCAATTTAAAATATAAAATT
1 ATTAAATCAAATTAAAATATAAAATT
1010863 TTATATTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
27 9 0.39
28 7 0.30
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (28 bp):
ATTAAATCAAATTAAAATATAAAATTAA
Found at i:1011248 original size:32 final size:32
Alignment explanation
Indices: 1011212--1011273 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1011202 ATTATTTCGA
*
1011212 GTTTATATTATATTAAGTTAAAAATTTTTTGT
1 GTTTAAATTATATTAAGTTAAAAATTTTTTGT
* * * *
1011244 GTTTAAATTTTTTTAAGTTTAAATTTTTTT
1 GTTTAAATTATATTAAGTTAAAAATTTTTT
1011274 AAATTTGAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.61
Consensus pattern (32 bp):
GTTTAAATTATATTAAGTTAAAAATTTTTTGT
Found at i:1011257 original size:16 final size:16
Alignment explanation
Indices: 1011224--1011275 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
1011214 TTATATTATA
* *
1011224 TTAAGTTAAAAATTTT
1 TTAAGTTTAAATTTTT
**
1011240 TTGTGTTTAAATTTTT
1 TTAAGTTTAAATTTTT
1011256 TTAAGTTTAAATTTTT
1 TTAAGTTTAAATTTTT
1011272 TTAA
1 TTAA
1011276 ATTTGAATAC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (16 bp):
TTAAGTTTAAATTTTT
Found at i:1011350 original size:15 final size:16
Alignment explanation
Indices: 1011309--1011344 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1011299 TTTATTTGGG
* *
1011309 TTTTAAAATTTAAGTT
1 TTTTCAAATTTAAATT
1011325 TTTTCAAATTTAAATT
1 TTTTCAAATTTAAATT
1011341 TTTT
1 TTTT
1011345 TAATTTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTTTCAAATTTAAATT
Found at i:1012262 original size:17 final size:17
Alignment explanation
Indices: 1012231--1012279 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
1012221 AATTATCTCG
*
1012231 TGTTT-AATATTTTTAA
1 TGTTTAAATTTTTTTAA
1012247 TGTTTAAATTTTTTTAA
1 TGTTTAAATTTTTTTAA
*
1012264 -ATTTAAATTTTTTTAA
1 TGTTTAAATTTTTTTAA
1012280 ATTTGAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 20 0.67
17 10 0.33
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (17 bp):
TGTTTAAATTTTTTTAA
Found at i:1012277 original size:16 final size:16
Alignment explanation
Indices: 1012249--1012283 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
1012239 ATTTTTAATG
1012249 TTTAAATTTTTTTAAA
1 TTTAAATTTTTTTAAA
1012265 TTTAAATTTTTTTAAA
1 TTTAAATTTTTTTAAA
1012281 TTT
1 TTT
1012284 GAATATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTAAATTTTTTTAAA
Found at i:1012308 original size:16 final size:16
Alignment explanation
Indices: 1012249--1012309 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
1012239 ATTTTTAATG
*
1012249 TTTAAATTTTTTTAAA
1 TTTAAATTTATTTAAA
*
1012265 TTTAAATTTTTTTAAA
1 TTTAAATTTATTTAAA
* * **
1012281 TTTGAATATATTCGAA
1 TTTAAATTTATTTAAA
1012297 TTTAAATTTATTT
1 TTTAAATTTATTT
1012310 GGATCTTTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (16 bp):
TTTAAATTTATTTAAA
Found at i:1012822 original size:15 final size:16
Alignment explanation
Indices: 1012802--1012839 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
1012792 ATATTTATAT
1012802 ATTAAATTAAAATT-A
1 ATTAAATTAAAATTGA
*
1012817 ATTAAA-TAAATTTGA
1 ATTAAATTAAAATTGA
1012832 ATTAAATT
1 ATTAAATT
1012840 GAATCAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 6 0.30
15 13 0.65
16 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTAAATTAAAATTGA
Found at i:1013379 original size:34 final size:34
Alignment explanation
Indices: 1013332--1013484 Score: 168
Period size: 34 Copynumber: 4.5 Consensus size: 34
1013322 GGTAAAAACC
** *
1013332 ACCATTTAATCAACAATGACAACCTATCAAATCT
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
*
1013366 ACCATTTAGTCAACAATGGTAAGCC-ACCAAATC-
1 ACCATTTAATCAACAATGGTAA-CCTACCAAATCT
* *
1013399 ACCCATTTAATCAATAATGGTAAGCTACCAAAT-T
1 A-CCATTTAATCAACAATGGTAACCTACCAAATCT
* *
1013433 TCTCATTTAATCAACAATGGTAAGCTACCAAATCT
1 AC-CATTTAATCAACAATGGTAACCTACCAAATCT
* *
1013468 CCCATTTAGTCAACAAT
1 ACCATTTAATCAACAAT
1013485 TCTCCCACTT
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
33 3 0.03
34 95 0.93
35 4 0.04
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAACCTACCAAATCT
Found at i:1013447 original size:68 final size:68
Alignment explanation
Indices: 1013333--1013484 Score: 198
Period size: 68 Copynumber: 2.2 Consensus size: 68
1013323 GTAAAAACCA
* *
1013333 CCATTTAATCAACAATGACAACCTATCAAATCTACCATTTAGTCAACAATGGTAAGCCACCAAAT
1 CCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAATCAACAATGGTAAGCCACCAAAT
1013398 CAC
66 CAC
* ** * * *
1013401 CCATTTAATCAATAATGGTAAGCTACCAAAT-TTCTCATTTAATCAACAATGGTAAGCTACCAAA
1 CCATTTAATCAACAATGACAACCTACCAAATCTAC-CATTTAATCAACAATGGTAAGCCACCAAA
*
1013465 TCTC
65 TCAC
*
1013469 CCATTTAGTCAACAAT
1 CCATTTAATCAACAAT
1013485 TCTCCCACTT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
67 2 0.03
68 70 0.97
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (68 bp):
CCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAATCAACAATGGTAAGCCACCAAAT
CAC
Found at i:1017939 original size:34 final size:34
Alignment explanation
Indices: 1017892--1018042 Score: 173
Period size: 34 Copynumber: 4.4 Consensus size: 34
1017882 GGTAAAAACC
* *
1017892 ACCATTTAATCAACAATGGCAACCTATCAAATCT
1 ACCATTTAATCAACAATGGTAACCTACCAAATCT
*
1017926 ACCATTTAGTCAACAATGGTAAGCC-ACCAAATC-
1 ACCATTTAATCAACAATGGTAA-CCTACCAAATCT
* *
1017959 ACCAATTTAATCAATAATGGTAAGCTACCAAAT-T
1 ACC-ATTTAATCAACAATGGTAACCTACCAAATCT
* *
1017993 TCTCATTTAATCAACAATGGTAAGCTACCAAATCT
1 AC-CATTTAATCAACAATGGTAACCTACCAAATCT
* *
1018028 CCCATTTAGTCAACA
1 ACCATTTAATCAACA
1018043 CCCATTGTGA
Statistics
Matches: 101, Mismatches: 10, Indels: 12
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.04
34 92 0.91
35 5 0.05
ACGTcount: A:0.40, C:0.25, G:0.09, T:0.27
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAACCTACCAAATCT
Found at i:1023519 original size:4 final size:4
Alignment explanation
Indices: 1023510--1023537 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
1023500 CGCATAAGTA
1023510 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1023538 TGTTTTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:1024352 original size:2 final size:2
Alignment explanation
Indices: 1024345--1024383 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1024335 AGTATGACAA
1024345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1024384 ATTGCTCTTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1027303 original size:19 final size:18
Alignment explanation
Indices: 1027252--1027341 Score: 75
Period size: 19 Copynumber: 5.1 Consensus size: 18
1027242 TTGAATTCCA
1027252 ATAA-TTTGTATCGATAC
1 ATAAGTTTGTATCGATAC
* *
1027269 ATTCAGTAAATGTATCGATAC
1 A-TAAGT--TTGTATCGATAC
1027290 ATAAGTGTTGTATCGATAC
1 ATAAGT-TTGTATCGATAC
1027309 --AA---TGTATCGATAC
1 ATAAGTTTGTATCGATAC
1027322 ATAAGTTTTGTATCGATAC
1 ATAAG-TTTGTATCGATAC
1027341 A
1 A
1027342 ATGTATCGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
13 11 0.19
15 2 0.03
17 3 0.05
18 2 0.03
19 24 0.41
20 4 0.07
21 12 0.21
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
ATAAGTTTGTATCGATAC
Found at i:1027316 original size:13 final size:13
Alignment explanation
Indices: 1027298--1027322 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027288 ACATAAGTGT
1027298 TGTATCGATACAA
1 TGTATCGATACAA
1027311 TGTATCGATACA
1 TGTATCGATACA
1027323 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1027318 original size:32 final size:32
Alignment explanation
Indices: 1027277--1027349 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1027267 ACATTCAGTA
1027277 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1027309 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
1027341 AATGTATCG
1 AATGTATCG
1027350 CTAGGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1027419 original size:21 final size:21
Alignment explanation
Indices: 1027372--1027429 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
1027362 TGTCAAGGAA
*
1027372 ATGTATCGATACAT-TTTTCG
1 ATGTATCGATACATCTATTCG
*
1027392 ATGTATCGATACATCTATTCT
1 ATGTATCGATACATCTATTCG
*
1027413 TTGTATCGATACATCTA
1 ATGTATCGATACATCTA
1027430 GGAAGTTTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 14 0.41
21 20 0.59
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATCTATTCG
Found at i:1029831 original size:51 final size:52
Alignment explanation
Indices: 1029771--1030046 Score: 305
Period size: 51 Copynumber: 5.4 Consensus size: 52
1029761 AATTCTCCGC
* * *
1029771 AATCGGGGATATTCTC-ACTCCGATTTTATTTTCAAAACACTAATTTTCT-AT
1 AATCGGGGATACTC-CAACCCCGGTTTTATTTTCAAAACACTAATTTTCTCAT
* * * * * *
1029822 AATTGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCAT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCTCAT
*
1029873 AATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACACTAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACTAATTTTCTCAT
* *
1029924 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTC-CTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCTC-AT
* * * * *
1029976 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTT-TCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACTAATTTTCTCAT
*
1030028 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1030047 TCGTTATTAT
Statistics
Matches: 190, Mismatches: 26, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
50 9 0.05
51 112 0.59
52 53 0.28
53 16 0.08
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACTAATTTTCTCAT
Found at i:1029952 original size:102 final size:103
Alignment explanation
Indices: 1029771--1030079 Score: 369
Period size: 102 Copynumber: 3.0 Consensus size: 103
1029761 AATTCTCCGC
* * * *
1029771 AATCGGGGATATTCTC-ACTCCGATTTTATTT-TCAAAACACTAA-TTTTCTATAATTGGGGATA
1 AATCGGGGATACTC-CAACTCCGATTTTATTTCTAAAAACACTAATTTTTC-ACAATCGGGGATA
* *
1029833 CTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCAT
64 CTCCAACCCCGGTTTTATTTCCAAAATATTAATTTCTCAT
* *
1029873 AATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACTAATTTTTCACAATCGGGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGGGGATACT
* * ** *
1029937 CCAACCCCGGTTTTATTTTCAAAACACCAATTT-TCCTTT
66 CCAACCCCGGTTTTATTTCCAAAATATTAATTTCT-C-AT
* *
1029976 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATCGAGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGGGGATACT
* *
1030041 CCAACCTC-GTTATTATCTCCAAAATATTAAATTTCTCAT
66 CCAACCCCGGTT-TTATTTCCAAAATATT-AATTTCTCAT
1030080 CGAGAAATAT
Statistics
Matches: 175, Mismatches: 23, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
101 2 0.01
102 77 0.44
103 41 0.23
104 48 0.27
105 6 0.03
106 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.11, T:0.35
Consensus pattern (103 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACTAATTTTTCACAATCGGGGATACT
CCAACCCCGGTTTTATTTCCAAAATATTAATTTCTCAT
Done.