Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008214.1 Hibiscus syriacus cultivar Beakdansim tig00110840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2117680
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:850511 original size:131 final size:131
Alignment explanation
Indices: 850268--850634 Score: 466
Period size: 131 Copynumber: 2.8 Consensus size: 131
850258 ATAATTTTAA
* *
850268 GAGTG-AAACGATAATATCTAATTATTTTCAATCAAGAATAAATGACCTTTCGTGCATTGAAACA
1 GAGTGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTTTCGTGCATTAAAACA
* * * * *
850332 GTAATTTAGTACCCCAATTGAAATAAAGAGATATTACTATTTTGTCTTAAAATTCAATAGCGATT
66 GTCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTTGTCTTAAAAATCAATAGCAATT
850397 C
131 C
* * *
850398 GAGTGAAAATGATAATATCTAATGATTTCCAATCGAGAATAAATGACCTTTCGTGCATTAAAACA
1 GAGTGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTTTCGTGCATTAAAACA
** **
850463 GTCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTTGTCTTAAAAATCGGTATTAATT
66 GTCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTTGTCTTAAAAATCAATAGCAATT
850528 C
131 C
* * * * * * * **
850529 GAGAGAAAACGACAATATCAAATTATTTTCAATCGAGAATAAATGACATCTCATGCCTTAAAGTA
1 GAGTGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTTTCGTGCATTAAAACA
* * * ** *
850594 ATCATTTATTACTCCGACCGAAATAAAAATATATTACTATT
66 GTCATTTATTACCCCAATTGAAATAAAAAGATATTACTATT
850635 CTCAATATCG
Statistics
Matches: 204, Mismatches: 32, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
130 5 0.02
131 199 0.98
ACGTcount: A:0.41, C:0.14, G:0.12, T:0.33
Consensus pattern (131 bp):
GAGTGAAAACGATAATATCTAATTATTTTCAATCGAGAATAAATGACCTTTCGTGCATTAAAACA
GTCATTTATTACCCCAATTGAAATAAAAAGATATTACTATTTTGTCTTAAAAATCAATAGCAATT
C
Found at i:851853 original size:36 final size:36
Alignment explanation
Indices: 851811--851913 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
851801 ACGGTGCTGG
* *
851811 ACATTGATACACGAATGCACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
851847 ACATTGATACACGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
851883 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
851914 ATACTCAACT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:854010 original size:29 final size:30
Alignment explanation
Indices: 853959--854018 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
853949 TTTTGGGTCA
** *
853959 TAAACTTTTCAAAGTTTATATTTTAGCCAC
1 TAAACTTTTCAAAACTTACATTTTAGCCAC
*
853989 TAAAC-TTTCAAAACTTACATTTTAGTCAC
1 TAAACTTTTCAAAACTTACATTTTAGCCAC
854018 T
1 T
854019 GGTCAAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (30 bp):
TAAACTTTTCAAAACTTACATTTTAGCCAC
Found at i:859372 original size:36 final size:36
Alignment explanation
Indices: 859332--859470 Score: 233
Period size: 36 Copynumber: 3.9 Consensus size: 36
859322 ACGGTGTTGG
*
859332 ACATTGATACGCGAATGTACCAAAGCTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
* *
859368 ACATTGATACACGACTGTACCAAAGATGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
859404 ACATTGATACACGAATGTACCAAAGTTGATATGATA
1 ACATTGATACACGAATGTACCAAAGCTGATATGATA
*
859440 ACATTGATACACGAATGTATCAAAGCTGATA
1 ACATTGATACACGAATGTACCAAAGCTGATA
859471 ATACTCAACT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 96 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (36 bp):
ACATTGATACACGAATGTACCAAAGCTGATATGATA
Found at i:863845 original size:2 final size:2
Alignment explanation
Indices: 863823--863868 Score: 60
Period size: 2 Copynumber: 23.5 Consensus size: 2
863813 TTTATGTATG
*
863823 TA TA TA T- TA TA TCA TG T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
863864 TA TA T
1 TA TA T
863869 TTATCTAATA
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
1 2 0.05
2 36 0.90
3 2 0.05
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:864564 original size:15 final size:17
Alignment explanation
Indices: 864528--864564 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
864518 CGTAAACCCG
864528 TATTTTGTCTTAAAAAT
1 TATTTTGTCTTAAAAAT
*
864545 GATTTTG-CTT-AAAAT
1 TATTTTGTCTTAAAAAT
864560 TATTT
1 TATTT
864565 AAAAGACGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.50
16 3 0.17
17 6 0.33
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.54
Consensus pattern (17 bp):
TATTTTGTCTTAAAAAT
Found at i:865749 original size:18 final size:19
Alignment explanation
Indices: 865714--865749 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
865704 AAATGAAGGT
865714 TTTCAAAGTTTTGGGTTTA
1 TTTCAAAGTTTTGGGTTTA
*
865733 TTTCAAA-TTTTGTGTTT
1 TTTCAAAGTTTTGGGTTT
865750 TCTTTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.19, C:0.06, G:0.17, T:0.58
Consensus pattern (19 bp):
TTTCAAAGTTTTGGGTTTA
Found at i:866762 original size:23 final size:22
Alignment explanation
Indices: 866736--866781 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
866726 TTTAGAATAA
* *
866736 TTTTATTTTTATAATACGATTTT
1 TTTTATTTTCATAACACG-TTTT
*
866759 TTTTGTTTTCATAACACGTTTT
1 TTTTATTTTCATAACACGTTTT
866781 T
1 T
866782 CTATGCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.22, C:0.09, G:0.07, T:0.63
Consensus pattern (22 bp):
TTTTATTTTCATAACACGTTTT
Found at i:868576 original size:2 final size:2
Alignment explanation
Indices: 868569--868602 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
868559 AGAATAAATT
868569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
868603 AAGGAACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:876682 original size:33 final size:33
Alignment explanation
Indices: 876640--876728 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
876630 AGTTGAAATG
* * * *
876640 GAGGAAGGTGAGTTCTTCCCAAATGGGGATTTT
1 GAGGAAGGTGAGTTCTTACCAAATGGAGATCTC
876673 GAGGAAGGTGAGTTCTTACCAAATGGAGATCTC
1 GAGGAAGGTGAGTTCTTACCAAATGGAGATCTC
*
876706 GAGGAAGGGGAGTTCTTACCAAA
1 GAGGAAGGTGAGTTCTTACCAAA
876729 CAAGGATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.29, C:0.13, G:0.33, T:0.25
Consensus pattern (33 bp):
GAGGAAGGTGAGTTCTTACCAAATGGAGATCTC
Found at i:879067 original size:19 final size:19
Alignment explanation
Indices: 879029--879068 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
879019 TAATAATGAG
*
879029 TAATATTAATTTATATATT
1 TAATATTAATTAATATATT
879048 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATATATT
879067 TA
1 TA
879069 GCATTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAATATTAATTAATATATT
Found at i:879409 original size:30 final size:29
Alignment explanation
Indices: 879328--879415 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
879318 TTCCCGAAAA
*
879328 ATGTAATTTATCTTACGTAAAACAATTTT
1 ATGTAATTTATTTTACGTAAAACAATTTT
* * *
879357 A-GATAGTTCACTTTACGTAAAACAATTTT
1 ATG-TAATTTATTTTACGTAAAACAATTTT
*
879386 CATGTAATTTATTTTATGTAAAACAATTTT
1 -ATGTAATTTATTTTACGTAAAACAATTTT
879416 TAAATAGTCC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
28 1 0.02
29 23 0.48
30 23 0.48
31 1 0.02
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (29 bp):
ATGTAATTTATTTTACGTAAAACAATTTT
Found at i:879430 original size:30 final size:30
Alignment explanation
Indices: 879344--879437 Score: 100
Period size: 30 Copynumber: 3.2 Consensus size: 30
879334 TTTATCTTAC
* * *
879344 GTAAAACAA-TTTTAGATAGTTCACTTTAC
1 GTAAAACAATTTTTAAATAGTTCATTTTAT
* ** * *
879373 GTAAAACAATTTTCATGTAATTTATTTTAT
1 GTAAAACAATTTTTAAATAGTTCATTTTAT
*
879403 GTAAAACAATTTTTAAATAGTCCATTTTAT
1 GTAAAACAATTTTTAAATAGTTCATTTTAT
879433 GTAAA
1 GTAAA
879438 TTATTTTCTA
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 9 0.18
30 42 0.82
ACGTcount: A:0.39, C:0.10, G:0.09, T:0.43
Consensus pattern (30 bp):
GTAAAACAATTTTTAAATAGTTCATTTTAT
Found at i:881784 original size:14 final size:15
Alignment explanation
Indices: 881765--881797 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
881755 GCTCTCTCAA
*
881765 TTCTCTC-TATTTTT
1 TTCTCTCGTATGTTT
881779 TTCTCTCGTATGTTT
1 TTCTCTCGTATGTTT
881794 TTCT
1 TTCT
881798 TTTTCTCTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (15 bp):
TTCTCTCGTATGTTT
Found at i:881837 original size:19 final size:19
Alignment explanation
Indices: 881815--881866 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
881805 TCTACTCACA
881815 CTTTTCCTCACTTATATTT
1 CTTTTCCTCACTTATATTT
881834 C-TTTCACTCACTCT-TATTT
1 CTTTTC-CTCACT-TATATTT
*
881853 -TTTTCTTCACTTAT
1 CTTTTCCTCACTTAT
881867 TTAAAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
17 1 0.04
18 10 0.36
19 16 0.57
20 1 0.04
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (19 bp):
CTTTTCCTCACTTATATTT
Found at i:886454 original size:14 final size:15
Alignment explanation
Indices: 886435--886467 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
886425 GCTCTCTCAA
*
886435 TTCTCTC-TATTTTT
1 TTCTCTCGTATGTTT
886449 TTCTCTCGTATGTTT
1 TTCTCTCGTATGTTT
886464 TTCT
1 TTCT
886468 TTTTTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.67
Consensus pattern (15 bp):
TTCTCTCGTATGTTT
Found at i:886508 original size:19 final size:19
Alignment explanation
Indices: 886486--886537 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
886476 TCTACTCACA
886486 CTTTTCCTCACTTATATTT
1 CTTTTCCTCACTTATATTT
886505 C-TTTCACTCACTCT-TATTT
1 CTTTTC-CTCACT-TATATTT
*
886524 -TTTTCTTCACTTAT
1 CTTTTCCTCACTTAT
886538 CTAAAAGCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
17 1 0.04
18 10 0.36
19 16 0.57
20 1 0.04
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (19 bp):
CTTTTCCTCACTTATATTT
Found at i:890858 original size:20 final size:19
Alignment explanation
Indices: 890830--890870 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
890820 TAACTTTATC
*
890830 TTCTCTTTCATCCTTAACTT
1 TTCTATTTCAT-CTTAACTT
*
890850 TTCTATTTCATTTTAACTT
1 TTCTATTTCATCTTAACTT
890869 TT
1 TT
890871 ACTTTTCTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (19 bp):
TTCTATTTCATCTTAACTT
Found at i:893449 original size:45 final size:45
Alignment explanation
Indices: 893400--893502 Score: 138
Period size: 45 Copynumber: 2.3 Consensus size: 45
893390 GCATTGGTAG
*
893400 TGCATCGATGCA-CTCATTTAA-AATAAAAACATCGAATGCAATTCA
1 TGCATCGATGCATCCCA-TTAATAAT-AAAACATCGAATGCAATTCA
* **
893445 TGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
893490 TGCATCGATGCAT
1 TGCATCGATGCAT
893503 AAGGAGTGCA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
45 46 0.88
46 6 0.12
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (45 bp):
TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:893513 original size:64 final size:64
Alignment explanation
Indices: 893445--893582 Score: 170
Period size: 64 Copynumber: 2.2 Consensus size: 64
893435 ATGCAATTCA
** * * *
893445 TGCATCGATGCATCCCATTAATAATGAA-ACATCGAATGCAATTGGTGCATCGATGCATAAGGAG
1 TGCATCGATGCATCCCAGCAATAAT-AATACATCGAATACAATTGATGCACCGATGCATAAGGAG
** * * *
893509 TGCATCGATGCATCCCAGCAATAATAATACATCGAATACCTTTTATGCACCGATGCATCAGTAG
1 TGCATCGATGCATCCCAGCAATAATAATACATCGAATACAATTGATGCACCGATGCATAAGGAG
893573 TGCATCGATG
1 TGCATCGATG
893583 TATACCTTCA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 2 0.03
64 61 0.97
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCATCCCAGCAATAATAATACATCGAATACAATTGATGCACCGATGCATAAGGAG
Found at i:893911 original size:12 final size:12
Alignment explanation
Indices: 893893--893928 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
893883 TATATATATT
893893 CATGTGATATGA
1 CATGTGATATGA
*
893905 TATGTGATATGA
1 CATGTGATATGA
893917 CATGTGATATGA
1 CATGTGATATGA
893929 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:893950 original size:23 final size:26
Alignment explanation
Indices: 893893--893961 Score: 85
Period size: 24 Copynumber: 2.8 Consensus size: 26
893883 TATATATATT
**
893893 CATGTGATAT--GATATGTGATATGA
1 CATGTGATATGAGATACATGATATGA
893917 CATGTGATATGAGA-ACATGATATGA
1 CATGTGATATGAGATACATGATATGA
893942 -A-GTGATATGAGATACATGAT
1 CATGTGATATGAGATACATGAT
893962 CACAAGAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
23 11 0.28
24 18 0.45
25 9 0.22
26 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.32
Consensus pattern (26 bp):
CATGTGATATGAGATACATGATATGA
Found at i:896376 original size:23 final size:23
Alignment explanation
Indices: 896346--896394 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
896336 TGGTAGTTGG
*
896346 TTTAATGG-ATGTTTAAACTTTAT
1 TTTAATGGTATATTT-AACTTTAT
*
896369 TTTAATGGTATATTTAAGTTTAT
1 TTTAATGGTATATTTAACTTTAT
896392 TTT
1 TTT
896395 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.57
Consensus pattern (23 bp):
TTTAATGGTATATTTAACTTTAT
Found at i:897863 original size:7 final size:7
Alignment explanation
Indices: 897851--897882 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
897841 TATTTCACAG
897851 AAAAATC
1 AAAAATC
897858 AAAAATC
1 AAAAATC
897865 AAAAATC
1 AAAAATC
897872 AAAAATC
1 AAAAATC
897879 AAAA
1 AAAA
897883 GGCTTAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATC
Found at i:899593 original size:13 final size:13
Alignment explanation
Indices: 899575--899621 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
899565 ACAAATTAAC
899575 AAAAAAAGAAAAT
1 AAAAAAAGAAAAT
*
899588 AAAAAAAGAAAGT
1 AAAAAAAGAAAAT
*
899601 AAATAAAATAAAAAT
1 AAA-AAAA-GAAAAT
899616 AAAAAA
1 AAAAAA
899622 CAAAAATCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 15 0.52
14 7 0.24
15 7 0.24
ACGTcount: A:0.83, C:0.00, G:0.06, T:0.11
Consensus pattern (13 bp):
AAAAAAAGAAAAT
Found at i:899599 original size:17 final size:16
Alignment explanation
Indices: 899575--899619 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 16
899565 ACAAATTAAC
899575 AAAAAAAGAAAATAAA
1 AAAAAAAGAAAATAAA
*
899591 AAAAGAAAGTAAATAAA
1 AAAA-AAAGAAAATAAA
* *
899608 ATAAAAATAAAA
1 AAAAAAAGAAAA
899620 AACAAAAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 10 0.42
17 14 0.58
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.11
Consensus pattern (16 bp):
AAAAAAAGAAAATAAA
Found at i:906200 original size:14 final size:14
Alignment explanation
Indices: 906181--906223 Score: 77
Period size: 14 Copynumber: 3.1 Consensus size: 14
906171 TTGCTTAGGA
906181 ACTAATGCAACAAC
1 ACTAATGCAACAAC
*
906195 ACTAATGCAACAGC
1 ACTAATGCAACAAC
906209 ACTAATGCAACAAC
1 ACTAATGCAACAAC
906223 A
1 A
906224 ATAGAGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.14
Consensus pattern (14 bp):
ACTAATGCAACAAC
Found at i:907554 original size:12 final size:12
Alignment explanation
Indices: 907537--907561 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
907527 ATTTTCCAGA
907537 CAACTATAATTC
1 CAACTATAATTC
907549 CAACTATAATTC
1 CAACTATAATTC
907561 C
1 C
907562 TTTCATTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.32
Consensus pattern (12 bp):
CAACTATAATTC
Found at i:908722 original size:28 final size:28
Alignment explanation
Indices: 908680--908801 Score: 192
Period size: 28 Copynumber: 4.4 Consensus size: 28
908670 TTTGTTCGAG
*
908680 TCGGGTCGGGGTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
* *
908708 TTGGGTCGGATTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
908736 TCGGGTCGGGTTTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
*
908764 TCGGGTCAGG-TTTTTTAAGTGTGATAT
1 TCGGGTCGGGTTTTTTTAAGTGTGATAT
*
908791 TCAGGTCGGGT
1 TCGGGTCGGGT
908802 CGGGTTCAGG
Statistics
Matches: 85, Mismatches: 8, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
27 25 0.29
28 60 0.71
ACGTcount: A:0.16, C:0.07, G:0.33, T:0.44
Consensus pattern (28 bp):
TCGGGTCGGGTTTTTTTAAGTGTGATAT
Found at i:909402 original size:17 final size:18
Alignment explanation
Indices: 909380--909426 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
909370 TATGGAATTG
*
909380 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
909397 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
909415 GATTCCAATTCC
1 GATTCCAATTCC
909427 CTCATAAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 12 0.43
18 16 0.57
ACGTcount: A:0.28, C:0.32, G:0.09, T:0.32
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:920477 original size:14 final size:14
Alignment explanation
Indices: 920426--920469 Score: 79
Period size: 14 Copynumber: 3.1 Consensus size: 14
920416 TAATCCGTTC
920426 ATTTATGTTCATTT
1 ATTTATGTTCATTT
920440 ATTTATGTTCATTT
1 ATTTATGTTCATTT
*
920454 GTTTATGTTCATTT
1 ATTTATGTTCATTT
920468 AT
1 AT
920470 GTTTGTTCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.20, C:0.07, G:0.09, T:0.64
Consensus pattern (14 bp):
ATTTATGTTCATTT
Found at i:920646 original size:14 final size:14
Alignment explanation
Indices: 920627--920664 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
920617 TTTTATGTTC
920627 ATTTTCGTTCGTTT
1 ATTTTCGTTCGTTT
920641 ATTTTCGTTCGTTT
1 ATTTTCGTTCGTTT
* *
920655 GTGTTCGTTC
1 ATTTTCGTTC
920665 ATTTTATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.05, C:0.16, G:0.18, T:0.61
Consensus pattern (14 bp):
ATTTTCGTTCGTTT
Found at i:924378 original size:30 final size:29
Alignment explanation
Indices: 924312--924380 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 29
924302 TATCAATCGT
* *
924312 TAAATATTGAACATTAAAATTAATTATATC
1 TAAA-ATTAAACATTAAAATTAATAATATC
924342 TCAAAATTAAACATTAAAACTTAA-AATACTC
1 T-AAAATTAAACATTAAAA-TTAATAATA-TC
924373 TAAAATTA
1 TAAAATTA
924381 TTTAATCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 24 0.71
31 10 0.29
ACGTcount: A:0.54, C:0.10, G:0.01, T:0.35
Consensus pattern (29 bp):
TAAAATTAAACATTAAAATTAATAATATC
Found at i:926106 original size:20 final size:19
Alignment explanation
Indices: 926076--926113 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
926066 CGAAAAACGT
*
926076 AATTATAATGTAATAGGTA
1 AATTATAATGTAACAGGTA
926095 AATTATTAATGTAACAGGT
1 AATTA-TAATGTAACAGGT
926114 TAAAATATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.45, C:0.03, G:0.16, T:0.37
Consensus pattern (19 bp):
AATTATAATGTAACAGGTA
Found at i:926283 original size:200 final size:198
Alignment explanation
Indices: 925917--929420 Score: 4670
Period size: 200 Copynumber: 17.8 Consensus size: 198
925907 TACCTTTTTC
* * *
925917 AAATATGCCGGTTTTTTAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAAAAGTGTCGAT
1 AAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAGTGTCGAT
* *
925982 ACATATTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAA
65 ACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAA
* * *
926047 GTGTTGATCCCGAAAACATCGAAAAACGTAATTATAATGTAATAGGTAAATTATTAATGTAACAG
130 GTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCG
926112 GT-T
195 GTCT
* *
926115 AAAATATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAGAAAAAGTGTCA
1 -AAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATA-AAAAAGTGTCG
* *
926180 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGACGATACATTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
* *
926245 AAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATGTAAC
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
926310 TGGTCT
193 CGGTCT
* * *
926316 AAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAAAAAGTATCGA
1 AAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAGTGTCGA
*
926381 TACATCTTGTCCAGATTGTATTTTAAAAAACAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
* *
926446 AGTGTCGATCCCGAAAACATCG-AAAATATAATTATAATGTAATAGGTAAATTATTAATGTAATC
129 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
926510 GGTCT
194 GGTCT
* *
926515 AAATATACCTGTTTTCGAGAAAACATGTGTA-AAACAAGTATCGACACAAATAAAACAAGTGTCG
1 AAATATACC-GTTTTTGAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAAAA-AAGTGTCG
* * * *
926579 ATACATTTTGTCCTGATTGTATTTTAAAAACCAAGTGGATAACAAAGTGTCGATACGTTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
*
926644 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAA-
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
** *
926708 CATTTT
193 CGGTCT
* *
926714 ACAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGATACAAATAAAAAAGTGTCG
1 --AAATATAC-CGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAGTGTCG
*
926779 ATATATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
*
926844 AAGTGTCGATCCCG-AAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAAC
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
926908 TGGTCT
193 CGGTCT
* * * *
926914 AAATATACCGAATTTTGATAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAATGTGTCGA
1 AAATATACCG-TTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA-GTGTCGA
* *
926979 TACATCTTGTCCAGATTGTTTTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
* * *
927044 AGTGTCGATCCCGAAAACATCAAAAAATATAATTATAATGAAATAGGTAAATTATTAATGTAACC
129 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
927109 GGTCT
194 GGTCT
*
927114 AAATATACCAGTTTTTGAGAAAACAGATGTA-AAACAAGTATCGACACAAATAAAACAAGTGTCG
1 AAATATACC-GTTTTTGAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAAAA-AAGTGTCG
* *
927178 ATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTTGATACGTTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
927243 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA--T---
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
927303 --G---
193 CGGTCT
* * * * *
927304 ---TA-ACC-TTTTT---CAAACATGTGTAAAAAAAGTATCGACACAAATAAAAAAATATCGATA
1 AAATATACCGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAGTGTCGATA
* * *
927361 CATCTTGTCTAGATTGCATTTTAAAAACTAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAG
66 CATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAG
* * *
927426 TGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATATAACCGG
131 TGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
927491 TCT
196 TCT
* * * *
927494 AAATATATCGGTTTTTGAGAAAACATGTGTACAAAAAGTATAGACACAAATAAAAAAAGAGTCGA
1 AAATATA-CCGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAGTGTCGA
927559 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
* *
927624 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAACT
129 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
927689 GGTCT
194 GGTCT
* * *
927694 AAATATACTAGTTTTTGAGAAAACATGTGTAC-AAAAGTATCGAGACAAATAAAAAAAGTGTCGA
1 AAATATAC-CGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAGTGTCGA
* * * *
927758 TACATCTTGTACAGATTGTATTTTAAAAACTAAGTACACTACAAAGTGTCGATACGTTTAAAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
*
927823 AGTGTCGATCCCGAAAACATCGAAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAT
129 AGTGTCGATCCCGAAAACATCG-AAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
927888 TGGTCT
193 CGGTCT
*
927894 AAATATACCGATTTTTGAGAAAACAAGTGTA-AAACAAGTATCGACACAAATAAAACAAGTGTCG
1 AAATATACCG-TTTTTGAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAAAA-AAGTGTCG
* * * * * *
927958 ATATATTTTGTCCAGATTGTATCTTAAAAATCAAGTGCAAAACAAAGTGTCGATACATTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
**
928023 AAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
928088 CGGTCT
193 CGGTCT
* * *
928094 AAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTATCGACACAGATAAAAAAAGTGTCGA
1 AAATATACCG-TTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAGTGTCGA
*
928159 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATCCCG-----AA-
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGAT-ACGTTTAAAAC
* ** * * ** * * * * *
928218 AA---T--AT--CGAAAA-A-C-ATAATTATAA-TGTAAT-TAGTAAAT-TATTAAT-GT-AACC
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* *
928268 GGTAT--
193 CG-GTCT
* *
928273 AAATATACTAGTTTTTGAGAAAACAGGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATAC-CGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAGTGTCGA
* *
928338 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTGATACGTTTAAAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
* *
928403 AGTGTCGATTCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
129 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
*
928468 GGTAT
194 GGTCT
* * *
928473 AAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACGCAAATAAAAAAGGTATCGA
1 AAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA-GTGTCGA
* * *
928538 TACATCTTGTCTAGATTGTATTTTAAAAACTAAGTGCACAACAAAGTTTCGATACGTTTAAAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
* * * **
928603 AGTGTCGATTCTGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTAATT
129 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
928668 GGTCT
194 GGTCT
* *
928673 AAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACC-GTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT--AAAAAAGTGTCG
*
928738 ATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
* * * *
928803 AAGTGTCGATCCCGAAAACATTGAAAAACATAATTATAATTTAATATGTAAATTATTAATGTAAT
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
928868 TGGTCT
193 CGGTCT
* * * * *
928874 AAATATACCGATTTTTAAAAAAACATGTGTA-AAACAAATATTGACACAAATAAAATAAGTGTCG
1 AAATATACCG-TTTTTGAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAAAA-AAGTGTCG
* * * *
928938 ATACATTTTGTCCATATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTTGATACGTTTAAAAC
63 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
**
929003 AAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
128 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
929068 CGGTCT
193 CGGTCT
* * *
929074 AAATATACCGATTTTTGAGAAAATAAGTGTATAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATACCG-TTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAAAGTGTCGA
*
929139 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTATCGAT-C--------C-
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
*
929194 -----CGA-----AAACA-T-CGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
129 AGTGTCGATCCCGAAA-ACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
929247 CGGTAT
193 CGGTCT
* * * *
929253 AAATATATCAGTTTTTTAGAAAATAGGTGTACAAAAAGTATCGACATAAATAAAAATAGTGTCGA
1 AAATATA-CCGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAA-AGTGTCGA
* * * * * *
929318 TACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAATTTCAATACATTTATAACA
64 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
* * * *
929383 ATTGTCGAT-CCAAACAATATCGAAAAATATAATTATAA
129 AGTGTCGATCCCGAA-AACATCGAAAAACATAATTATAA
929421 CCAAATGTCT
Statistics
Matches: 2949, Mismatches: 250, Indels: 211
0.86 0.07 0.06
Matches are distributed among these distances:
178 7 0.00
179 258 0.09
180 133 0.05
181 32 0.01
182 9 0.00
183 7 0.00
184 12 0.00
185 10 0.00
186 4 0.00
187 5 0.00
188 7 0.00
189 2 0.00
190 2 0.00
191 7 0.00
192 2 0.00
193 4 0.00
194 11 0.00
195 8 0.00
196 12 0.00
197 6 0.00
198 62 0.02
199 517 0.18
200 1489 0.50
201 334 0.11
202 9 0.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (198 bp):
AAATATACCGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAGTGTCGATA
CATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAG
TGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
TCT
Found at i:928049 original size:780 final size:790
Alignment explanation
Indices: 925925--929420 Score: 4814
Period size: 780 Copynumber: 4.5 Consensus size: 790
925915 TCAAATATGC
* * *
925925 CGGTTTTTTAGAAAACAGGTGTACAAAAAATATCGACACAAAT-AAAAAAGTGTCGATACATATT
1 CGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTT
* *
925989 GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAAGTGTTGA
66 GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGA
* *
926054 TCCCGAAAACATCGAAAAACGTAATTATAATGTAATAGGTAAATTATTAATGTAACAGGT-TAAA
131 TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTAT-AA
* *
926118 ATATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAGAAAAAGTGTCAATA
195 ATATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATA
*
926183 CATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGACGATACATTTAAAACAAG
260 CATCTTGT-CAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAAG
* *
926248 TGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATGTAACTGG
324 TGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACTGG
* * * *
926313 TCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAAAAAGTAT
389 TCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGT
*
926378 CGATACATCTTGTCCAGATTGTATTTTAAAAAACAAGTGCACAACAAAGTGTCGATACGTTTAAA
454 CGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAAA
*
926443 ACAAGTGTCGATCCCGAAAACATCG-AAAATATAATTATAATGTAATAGGTAAATTATTAATGTA
519 ACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA-TATTAATGTA
* *
926507 ATCGGTCTAAATATACC-TGTTTTCGAGAAAACATGTGTAAAACAAGTATCGACACAAATAAAAC
583 AT---TC--GATATACCAT-TTTT--A-AAAACATGTGTAAAAAAAGTATCGACACAAATAAAAC
* * * * *
926571 AAGTGTCGATACATTTTGTCCTGATTGTATTTTAAAAACCAAGTGGATAACAAAGTGTCGATACG
639 AAATGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACG
* *
926636 TTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATT
704 TTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATT
** *
926701 AATGTAA-CATTTTACAA-ATAT
769 AATGTAACCGGTCTA-AATATAT
* *
926722 ACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGATACAAAT-AAAAAAGTGTCGATATATC
1 -C-GGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATC
926786 TTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTC
64 TTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTC
* * *
926851 GATCCCG-AAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAACTGGTCTA
129 GATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATA
* * * * * *
926915 AATATACC-GAATTTTGATAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAATGTGTCGA
194 AATATACCAG-TTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
*
926979 TACATCTTGTCCAGATTGTTTTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
258 TACATCTTGT-CAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * * *
927044 AGTGTCGATCCCGAAAACATCAAAAAATATAATTATAATGAAATAGGTAAATTATTAATGTAACC
322 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACT
*
927109 GGTCTAAATATACC-AGTTTTTGAGAAAAC-AGATGTA-AAACAAGTATCGACACAAATAAAACA
387 GGTCTAAATATACCGA-TTTTTGAGAAAACAAG-TGTACAAA-AAGTATCGACACAAATAAAAAA
* * *
927171 AGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTTGATACGT
449 AGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGT
927236 TTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGT-AA-ATT-A
514 TTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATATTAA
* *
927298 T-TAA-T-G-TA-ACC-TTTTT-CAAACATGTGTAAAAAAAGTATCGACACAAATAAAA-AAATA
579 TGTAATTCGATATACCATTTTTAAAAACATGTGTAAAAAAAGTATCGACACAAATAAAACAAATG
* * *
927355 TCGATACATCTTGTCTAGATTGCATTTTAAAAACTAAGTGCACAACAAAGTGTCGATACGTTTAA
644 TCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAA
* *
927420 AACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATAT
709 AACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
927485 AACCGGTCTAAATATAT
774 AACCGGTCTAAATATAT
* * *
927502 CGGTTTTTGAGAAAACATGTGTACAAAAAGTATAGACACAAATAAAAAAAGAGTCGATACATCTT
1 CGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTT
927567 GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGA
66 GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGA
* * *
927632 TCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAACTGGTCTAAA
131 TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAA
* * * *
927697 TATACTAGTTTTTGAGAAAACATGTGTAC-AAAAGTATCGAGACAAATAAAAAAAGTGTCGATAC
196 TATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATAC
* * * *
927761 ATCTTGTACAGATTGTATTTTAAAAACTAAGTACACTACAAAGTGTCGATACGTTTAAAACAAGT
261 ATCTTGT-CAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAAGT
*
927826 GTCGATCCCGAAAACATCGAAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAATTGG
325 GTCGATCCCGAAAACATCG-AAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACTGG
*
927891 TCTAAATATACCGATTTTTGAGAAAACAAGTGTA-AAACAAGTATCGACACAAATAAAACAAGTG
389 TCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAA-AAGTATCGACACAAATAAAAAAAGTG
* * * * *
927955 TCGATATATTTTGTCCAGATTGTATCTTAAAAATCAAGTGCAAAACAAAGTGTCGATACATTTAA
453 TCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAA
**
928020 AACAAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
518 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA-TATTAATGT
** * * *
928085 AACCGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTATCGACACAGATAAAA-
582 AA----T-TCGATATACC-A-TTTTTA-AAAACATGTGTAAAAAAAGTATCGACACAAATAAAAC
928149 AAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA--GT-G-T-C
639 AAA-TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
*
928209 G---------A---TC---C-CGAAAATATCGAAAAACATAATTATAATGTAATTA-GTAAATTA
703 GTTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAA-TAGGTAAATTA
*
928257 TTAATGTAACCGGTATAAATATA-
767 TTAATGTAACCGGTCTAAATATAT
* *
928280 CTAGTTTTTGAGAAAACAGGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCT
1 C-GGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCT
* *
928345 TGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTGATACGTTTAAAACAAGTGTCG
65 TGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCG
* *
928410 ATTCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAA
130 ATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAA
* * * *
928475 ATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACGCAAATAAAAAAGGTATCGATA
195 ATATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATA
* * *
928540 CATCTTGTCTAGATTGTATTTTAAAAACTAAGTGCACAACAAAGTTTCGATACGTTTAAAACAAG
260 CATCTTGTC-AGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAAG
* * * *
928605 TGTCGATTCTGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTAATTGG
324 TGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACTGG
* * * *
928670 TCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAAGTG
389 TCTAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTG
928735 TCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAA
453 TCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAA
* * *
928800 AACAAGTGTCGATCCCGAAAACATTGAAAAACATAATTATAATTTAATATGTAAATTATTAATGT
518 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAA-TATTAATGT
* *
928865 AATTGGTCTAAATATACCGATTTTTAAAAAAACATGTGTAAAACAAA-TATTGACACAAATAAAA
582 AA-T--TC--GATATACC-ATTTTT--AAAAACATGTGTAAAA-AAAGTATCGACACAAATAAAA
* * * * * *
928929 TAAGTGTCGATACATTTTGTCCATATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTTGATAC
638 CAAATGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
*
928994 GTTTAAAACAAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
703 GTTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
*
929059 TAATGTAACCGGTCTAAATATAC
768 TAATGTAACCGGTCTAAATATAT
* * * *
929082 CGATTTTTGAGAAAATAAGTGTATAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTT
1 CGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTT
929147 GTCCAGATTGTATTTTAAAAACCAAGTGCACAAC--A------A-A-G--T------A---TCGA
66 GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGA
929191 TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAA
131 TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAA
* * * *
929256 TATATCAGTTTTTTAGAAAATAGGTGTACAAAAAGTATCGACATAAATAAAAATAGTGTCGATAC
196 TATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATAC
* * * * *
929321 ATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAATTTCAATACATTTATAACAATT
261 ATCTTGTC-AGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAAGT
* * *
929386 GTCGAT-CCAAACAATATCGAAAAATATAATTATAA
325 GTCGATCCCGAA-AACATCGAAAAACATAATTATAA
929421 CCAAATGTCT
Statistics
Matches: 2449, Mismatches: 177, Indels: 162
0.88 0.06 0.06
Matches are distributed among these distances:
777 1 0.00
778 41 0.02
779 690 0.28
780 875 0.36
781 12 0.00
782 2 0.00
783 7 0.00
784 7 0.00
785 9 0.00
786 3 0.00
789 1 0.00
790 1 0.00
791 2 0.00
792 1 0.00
793 3 0.00
794 7 0.00
795 4 0.00
796 4 0.00
797 14 0.01
798 375 0.15
799 187 0.08
800 49 0.02
801 153 0.06
802 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (790 bp):
CGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTT
GTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGA
TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAA
TATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATAC
ATCTTGTCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAAGTG
TCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACTGGTC
TAAATATACCGATTTTTGAGAAAACAAGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
ATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATATTAATGTAATT
CGATATACCATTTTTAAAAACATGTGTAAAAAAAGTATCGACACAAATAAAACAAATGTCGATAC
ATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGT
GTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGT
CTAAATATAT
Found at i:928322 original size:379 final size:385
Alignment explanation
Indices: 925917--929362 Score: 3874
Period size: 399 Copynumber: 8.8 Consensus size: 385
925907 TACCTTTTTC
* * * * * *
925917 AAATATGCCGGTTTTTTAGAAAACAGGTGTACAAAAAATATCGACACAAAT-AAAAAAGTGTCGA
1 AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
*
925981 TACATATTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * * *
926046 AGTGTTGATCCCGAAAACATCGAAAAACGTAATTATAATGTAATAGGTAAATTATTAATGTAACA
131 AGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
* * *
926111 GGT-TAAAATATACC-AGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAGAAAAA
196 GGTAT-AAATATACCGA-TTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAA
* *
926174 GTGTCAATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGACGATACATT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT--TGATAC---
* *
926239 TAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAA
319 -----GAA--GTC--TC-CGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
*
926304 TGTAACTGGTCT
374 TGTAACCGGTCT
* * * * *
926316 AAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAAAAAGTATCGA
1 AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
* *
926381 TACATCTTGTCCAGATTGTATTTTAAAAAACAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
926446 AGTGTCGATCCCGAAAACATCG-AAAATATAATTATAATGTAATAGGTAAATTATTAATGTAATC
131 AGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
* ** * *
926510 GGTCTAAATATACCTG-TTTTCGAGAAAACATGTGTA-AAACAAGTATCGACACAAATAAAACAA
196 GGTATAAATATACC-GATTTTTTAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAAAAAAA
* * * *
926573 GTGTCGATACATTTTGTCCTGATTGTATTTTAAAAACCAAGTGGATAACAAAGTGTCGATACGTT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT-T-GATACG--
*
926638 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAA
320 ------AA--GTC--T-CCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
** *
926703 TGTAA-CATTTT
374 TGTAACCGGTCT
* * * * *
926714 ACAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGATACAAAT-AAAAAAGTGTC
1 --AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTC
* *
926778 GATATATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAA
64 GATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAA
* *
926843 CAAGTGTCGATCCCG-AAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAA
129 CAAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAA
* * * * * * * *
926907 CTGGTCTAAATATACCGAATTTTGATAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAAT
194 CCGGTATAAATATACCGATTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAA
*
926972 GTGTCGATACATCTTGTCCAGATTGTTTTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT-T-GATAC---
* * * *
927037 TAAAACAAGTGTCGATCCCGAAAACATCAAAAAATATAATTATAATGAAATAGGTAAATTATTAA
319 -----GAA--GTC--T-CCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
927102 TGTAACCGGTCT
374 TGTAACCGGTCT
* *
927114 AAATATACC-AGTTTTTGAGAAAACAGATGTA-A-AACAAGTATCGACACAAATAAAACAAGTGT
1 AAATATACCGA-TTTTTGAGAAAACA-A-GTATACAAAAAGTATCGACACAAATAAAAAAAGTGT
* * *
927176 CGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTTGATACGTTTAAA
63 CGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAA
*
927241 ACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA--T-
128 ACAAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTA
* * *
927303 ----G------TA-ACC---TTTTT--CAAACATGTGTAAAAAAAGTATCGACACAAATAAAAAA
193 ACCGGTATAAATATACCGATTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAA
* * * *
927352 A-TATCGATACATCTTGTCTAGATTGCATTTTAAAAACTAAGTGCACAACAAAGTGTCGATACGT
258 AGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT-T-GATACG-
*
927416 TTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTA
320 -------AA--GTC--TC-CGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTA
*
927481 ATATAACCGGTCT
373 ATGTAACCGGTCT
* * * * * *
927494 AAATATATCGGTTTTTGAGAAAACATGTGTACAAAAAGTATAGACACAAATAAAAAAAGAGTCGA
1 AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
*
927559 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACA
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
927624 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAACT
131 AGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
* * * * *
927689 GGTCTAAATATA-CTAGTTTTTGAGAAAACATGTGTAC-AAAAGTATCGAGACAAATAAAAAAAG
196 GGTATAAATATACCGA-TTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
* * * *
927752 TGTCGATACATCTTGTACAGATTGTATTTTAAAAACTAAGTACACTACAAAGTGTCGATACGTTT
260 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT-T-GATACG---
927817 AAAACAAGTGTCGATCCCGAAAACATCGAAAAAACATAATTATAATGTAATAGGTAAATTATTAA
320 -----AA--GTC--T-CCGAAAACATCG-AAAAACATAATTATAATGTAATAGGTAAATTATTAA
**
927882 TGTAATTGGTCT
374 TGTAACCGGTCT
* *
927894 AAATATACCGATTTTTGAGAAAACAAGTGTA-AAACAAGTATCGACACAAATAAAACAAGTGTCG
1 AAATATACCGATTTTTGAGAAAACAAGTATACAAA-AAGTATCGACACAAATAAAAAAAGTGTCG
* * * * *
927958 ATATATTTTGTCCAGATTGTATCTTAAAAATCAAGTGCAAAACAAAGTGTCGATACATTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
928023 AAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * *
928088 CGGTCTAAATATACCGATTTTTTAGAAAACAAGTGTACAAAAAGTATCGACACAGATAAAAAAAG
195 CGGTATAAATATACCGATTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
928153 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAG-TG-T-CG-A-TC
260 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTGATACGAAGTC
* *
928213 -CCGAAAATATCGAAAAACATAATTATAATGTAATTA-GTAAATTATTAATGTAACCGGTAT
325 TCCGAAAACATCGAAAAACATAATTATAATGTAA-TAGGTAAATTATTAATGTAACCGGTCT
* *
928273 AAATATA-CTAGTTTTTGAGAAAACAGGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
1 AAATATACCGA-TTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCG
* * *
928337 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTGATACGTTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
*
928402 AAGTGTCGATTCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
130 AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * * * *
928467 CGGTATAAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACGCAAATAAAAAAGG
195 CGGTATAAATATACCGATTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
* * *
928532 TATCGATACATCTTGTCTAGATTGTATTTTAAAAACTAAGTGCACAACAAAGTTTCGATACGTTT
260 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAG-TT-GATACG---
* *
928597 AAAACAAGTGTCGATTCTGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAAT
320 -----AA--GTC---TCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAAT
**
928662 GTAATTGGTCT
375 GTAACCGGTCT
* * *
928673 AAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAAGTGTCG
1 AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCG
* *
928738 ATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
65 ATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
* * * * *
928803 AAGTGTCGATCCCGAAAACATTGAAAAACATAATTATAATTTAATATGTAAATTATTAATGTAAT
130 AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * * * * * * *
928868 TGGTCTAAATATACCGATTTTTAAAAAAACATGTGTA-AAACAAATATTGACACAAATAAAATAA
195 CGGTATAAATATACCGATTTTTTAGAAAACAGGTGTACAAA-AAGTATCGACACAAATAAAAAAA
* * *
928932 GTGTCGATACATTTTGTCCATATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTTGATACGTT
259 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA--GTTGATACG--
*
928997 TAAAACAAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
320 ------AA--GTC---TCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
929062 TGTAACCGGTCT
374 TGTAACCGGTCT
* * *
929074 AAATATACCGATTTTTGAGAAAATAAGTGTATAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
1 AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
929139 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA-----G-------T------
66 TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
*
929186 A---TCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
131 AGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
* * * *
929248 GGTATAAATATATC-AGTTTTTTAGAAAATAGGTGTACAAAAAGTATCGACATAAATAAAAATAG
196 GGTATAAATATACCGA-TTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAG
*
929312 TGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAA
260 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA
929363 ATTTCAATAC
Statistics
Matches: 2709, Mismatches: 234, Indels: 228
0.85 0.07 0.07
Matches are distributed among these distances:
378 5 0.00
379 473 0.17
380 310 0.11
381 36 0.01
382 3 0.00
383 5 0.00
384 4 0.00
386 3 0.00
387 4 0.00
388 1 0.00
393 5 0.00
394 1 0.00
395 1 0.00
396 4 0.00
397 5 0.00
398 79 0.03
399 734 0.27
400 603 0.22
401 430 0.16
402 2 0.00
403 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (385 bp):
AAATATACCGATTTTTGAGAAAACAAGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGA
TACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
AGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
GGTATAAATATACCGATTTTTTAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
GTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTGATACGAAGTCT
CCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTCT
Found at i:928471 original size:20 final size:19
Alignment explanation
Indices: 928433--928471 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
928423 CGAAAAACAT
*
928433 AATTATAATGTAATAGGTA
1 AATTATAATGTAACAGGTA
*
928452 AATTATTAATGTAACCGGTA
1 AATTA-TAATGTAACAGGTA
928472 TAAATATACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
AATTATAATGTAACAGGTA
Found at i:928879 original size:401 final size:397
Alignment explanation
Indices: 928202--929420 Score: 1719
Period size: 401 Copynumber: 3.1 Consensus size: 397
928192 GTGCACAACA
* *
928202 AAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAATTA-GTAAATTATTAATGTAA
1 AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAA-TAGGTAAATTATTAATGTAA
* ** *
928266 CCGGTATAAATATACTAGTTTTTGAGAAAACAGGTATACAAAAAGTATCGACACAAATAAAAAAA
65 CCGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAA
928331 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTGATACGTT
130 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAG--TTGATACGTT
* *
928396 TAAAACAAGTGTCGATTCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
193 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
* *
928461 TGTAACCGGTATAAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACGCAAATAA
258 TGTAACCGGTATAAATATACCGGTTTTTAAGAAAATAGGTGTACAAAAAGTATCGACACAAATAA
* *
928526 AAAAGGTATCGATACATCTTGTCTAGATTGTATTTTAAAAACTAAGTGCACAACAAAGTTTCGAT
323 AAAA-GTGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCGAT
928591 ACGTTTAAAAC
387 ACGTTTAAAAC
* * *
928602 AAGTGTCGATTCTGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTAAT
1 AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
928667 TGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAA
66 CGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAAT-AAAAAAA
*
928732 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACGTT
130 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT-T-GATACGTT
* * *
928797 TAAAACAAGTGTCGATCCCGAAAACATTGAAAAACATAATTATAATTTAATATGTAAATTATTAA
193 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
** * * * * * * *
928862 TGTAATTGGTCTAAATATACCGATTTTTAAAAAAACATGTGTA-AAACAAATATTGACACAAATA
258 TGTAACCGGTATAAATATACCGGTTTTTAAGAAAATAGGTGTACAAA-AAGTATCGACACAAATA
* * * *
928926 AAATAAGTGTCGATACATTTTGTCCATATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTT-G
322 AAA-AAGTGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT-TTCG
928990 ATACGTTTAAAAC
385 ATACGTTTAAAAC
*
929003 AAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
1 AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * * *
929068 CGGTCTAAATATACCGATTTTTGAGAAAATAAGTGTATAAAAAGTATCGACACAAATAAAAAAAG
66 CGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAG
929133 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAC--A----A-A-G--T--
131 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTGATACGTTTAA
929186 ----A---TCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
196 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
* * * *
929244 AACCGGTATAAATATATCAGTTTTTTAGAAAATAGGTGTACAAAAAGTATCGACATAAATAAAAA
261 AACCGGTATAAATATACCGGTTTTTAAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAA
* * *
929309 TAGTGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAATTTCAATACA
326 -AGTGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCGATACG
*
929374 TTTATAAC
390 TTTAAAAC
* * * *
929382 AATTGTCGA-TCCAAACAATATCGAAAAATATAATTATAA
1 AAGTGTCGATTCCGAA-AACATCGAAAAACATAATTATAA
929421 CCAAATGTCT
Statistics
Matches: 736, Mismatches: 72, Indels: 43
0.86 0.08 0.05
Matches are distributed among these distances:
378 7 0.01
379 191 0.26
380 3 0.00
382 1 0.00
388 1 0.00
390 1 0.00
391 1 0.00
392 1 0.00
398 1 0.00
399 3 0.00
400 168 0.23
401 354 0.48
402 4 0.01
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (397 bp):
AAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
CGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAG
TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTGATACGTTTAA
AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGT
AACCGGTATAAATATACCGGTTTTTAAGAAAATAGGTGTACAAAAAGTATCGACACAAATAAAAA
AGTGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTCGATACGT
TTAAAAC
Found at i:929158 original size:601 final size:579
Alignment explanation
Indices: 926245--929420 Score: 3449
Period size: 579 Copynumber: 5.4 Consensus size: 579
926235 CATTTAAAAC
* * * *
926245 AAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATGTAAC
1 AAGTATCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTAAC
* * * * * *
926310 TGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAAAAAG
66 CGGTATAAATATACCAGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAG
* * * * *
926375 TATCGATACATCTTGTCCAGATTGTATTTTAAAAAACAAGTGCACAACAAAGTGTCGATACGTTT
131 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAATGTCAATACATTT
* *
926440 AAAACAAGTGTCGATCCCGAAAACATCG-AAAATATAATTATAATGTAA-TAGGTAAATTATTAA
196 AAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAATTA-GTAAATTATTAA
* * ** ** * * * *
926503 TGTAATCGGTCTAAATATACCTGTTTTCGAGAAAACATGTGTA-AAACAAGTATCGACACAAATA
260 TGTAACCGGTATAAATATACGAGTTTTTAAAAAAACAGGTATACAAA-AAATATCGACACAAATA
* * * * * * *
926567 AAACAAGTGTCGATACATTTTGTCCTGATTGTATTTTAAAAACCAAGTGGATAACAAAGTGTCGA
324 AAAAAAGTGTCGATACATCTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTTGA
* *
926632 TACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAAT
389 TACGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAAT
*** * * * * * *
926697 TATTAATGTAACATTTTACAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGATA
454 TATTAATGTAAC-CGGTATAAATATACCGATTTTTGAGAAAATAAGTGTACAAAAAGTATCGACA
* *
926762 CAAAT-AAAAAAGTGTCGATATATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACA
518 CAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACA
*
926823 AAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAACATCGAAAAACATAATTATAATGTAAT
1 AAGTATCGAT-C--------C------CGA-----AAACATCGAAAAACATAATTATAATGTAAT
* * * * * * * * *
926888 ATGTAAATTATTAATGTAACTGGTCTAAATATACC-GAATTTTGATAAAACATGTGTACAAAAAG
46 AGGCAAATTATTAATGTAACCGGTATAAATATACCAG-TTTTTGAGAAAATAGGTATACAAAAAG
* * *
926952 TATCGACAGAAATAAAAAATGTGTCGATACATCTTGTCCAGATTGTTTTTTAAAAACCAAGTGCA
110 TATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCA
* * * * *
927017 CAACAAAGTGTCGATACATTTAAAACAAGTGTCGATCCCGAAAACATCAAAAAATATAATTATAA
175 CAACAAAATGTCAATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAA
* * * * * * *
927082 TG-AAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAGATGTA-
240 TGTAATTA-GTAAATTATTAATGTAACCGGTATAAATATACGAGTTTTTAAAAAAACAGGTATAC
* * * *
927145 AAACAAGTATCGACACAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACC
304 AAA-AAATATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATCTTAAAAACC
*
927210 AAGTGCACAACAAAGTGTTGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
368 AAGTGCACAACAAAGTGTTGATACGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAACATA
* *
927275 ATTATAATGTAATAGGTAAATTATTAA--T-----G------TA-ACC--TTTTTCA-AACAT--
433 ATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAATATACCGATTTTTGAGAAAATAA
* * *
927321 GTGTAAAAAAAGTATCGACACAAATAAAAAAA-TATCGATACATCTTGTCTAGATTGCATTTTAA
498 GTGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTATTTTAA
*
927385 AAACTAAGTGCACAACA
563 AAACCAAGTGCACAACA
927402 AAGTGTCGATACGTTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAA
1 AA--GT--AT-CG---------A---TC---C-CGAAAACATCGAAAAACATAATTATAATGTAA
* * * * * * *
927467 TAGGCAAATTATTAATATAACCGGTCTAAATATATCGGTTTTTGAGAAAACATGTGTACAAAAAG
45 TAGGCAAATTATTAATGTAACCGGTATAAATATACCAGTTTTTGAGAAAATAGGTATACAAAAAG
* *
927532 TATAGACACAAATAAAAAAAGAGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCA
110 TATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCA
* * * *
927597 CAACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAA
175 CAACAAAATGTCAATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAA
* * * * * * *
927662 TGTAA-TATGTAAATTATTAATGTAACTGGTCTAAATATACTAGTTTTTGAGAAAACATGTGTAC
240 TGTAATTA-GTAAATTATTAATGTAACCGGTATAAATATACGAGTTTTTAAAAAAACAGGTATAC
* * * * *
927726 -AAAAGTATCGAGACAAATAAAAAAAGTGTCGATACATCTTGTACAGATTGTATTTTAAAAACTA
304 AAAAAATATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATCTTAAAAACCA
* * * *
927790 AGTACACTACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAAACATA
369 AGTGCACAACAAAGTGTTGATACGTTTAAAACAAGTGTCGATTCCGAAAACATCG-AAAAACATA
** * *
927855 ATTATAATGTAATAGGTAAATTATTAATGTAATTGGTCTAAATATACCGATTTTTGAGAAAACAA
433 ATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAATATACCGATTTTTGAGAAAATAA
* * * * *
927920 GTGTA-AAACAAGTATCGACACAAATAAAACAAGTGTCGATATATTTTGTCCAGATTGTATCTTA
498 GTGTACAAA-AAGTATCGACACAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTATTTTA
* *
927984 AAAATCAAGTGCAAAACA
562 AAAACCAAGTGCACAACA
*
928002 AAGTGTCGATACATTTAAAACAAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAA
1 AAGTATCG----A--T----C------C-----CGAAAACATCGAAAAACATAATTATAATGTAA
* * * * * *
928067 TAGGTAAATTATTAATGTAACCGGTCTAAATATACC-GATTTTTTAGAAAACAAGTGTACAAAAA
45 TAGGCAAATTATTAATGTAACCGGTATAAATATACCAG-TTTTTGAGAAAATAGGTATACAAAAA
*
928131 GTATCGACACAGATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTG-
109 GTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGC
928195 ----C---A---C-A-AC-------A-AAGTGTCGATCCCGAAAATATCGAAAAACATAATTATA
174 ACAACAAAATGTCAATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATA
* * *
928240 ATGTAATTAGTAAATTATTAATGTAACCGGTATAAATATACTAGTTTTTGAGAAAACAGGTATAC
239 ATGTAATTAGTAAATTATTAATGTAACCGGTATAAATATACGAGTTTTTAAAAAAACAGGTATAC
* *
928305 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
304 AAAAAATATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATCTTAAAAACCA
* *
928370 AGTGCACAACAAAGTTTTGATACGTTTAAAACAAGTGTCGATTCCGAAAATATCGAAAAACATAA
369 AGTGCACAACAAAGTGTTGATACGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAACATAA
* *
928435 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAATATACCGGTTTTTGAGAAAATAGG
434 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAATATACCGATTTTTGAGAAAATAAG
* * *
928500 TGTACAAAAAGTATCGACGCAAATAAAAAAGGTATCGATACATCTTGTCTAGATTGTATTTTAAA
499 TGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTATTTTAAA
*
928565 AACTAAGTGCACAACA
564 AACCAAGTGCACAACA
*
928581 AAGTTTCGATACGTTTAAAACAAGTGTCGATTCTGAAAACATCGAAAAACATAATTATAATGTAA
1 AAG--T--AT-CG---------A---TC----CCGAAAACATCGAAAAACATAATTATAATGTAA
** * *
928646 TAGGCAAATTATTAATGTAATTGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAG
45 TAGGCAAATTATTAATGTAACCGGTATAAATATACCAGTTTTTGAGAAAATAGGTATACAAAAAG
*
928711 TATCGACACAAATAAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGC
110 TATCGACACAAAT-AAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGC
* * * * *
928776 ACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATTGAAAAACATAATTATA
174 ACAACAAAATGTCAATACATTTAAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATA
* ** * * *
928841 ATTTAA-TATGTAAATTATTAATGTAATTGGTCTAAATATACCGA-TTTTTAAAAAAACATGTGT
239 ATGTAATTA-GTAAATTATTAATGTAACCGGTATAAATATA-CGAGTTTTTAAAAAAACAGGTAT
* * * *
928904 A-AAACAAATATTGACACAAATAAAATAAGTGTCGATACATTTTGTCCATATTGTATCTTAAAAA
302 ACAAA-AAATATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATCTTAAAAA
*
928968 CCAAGTGCACAACAAAGTGTTGATACGTTTAAAACAAGTGTCGATTTCGAAAACATCGAAAAACA
366 CCAAGTGCACAACAAAGTGTTGATACGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAACA
*
929033 TAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGATTTTTGAGAAAAT
431 TAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAATATACCGATTTTTGAGAAAAT
* *
929098 AAGTGTATAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTT
496 AAGTGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTATTTT
929163 AAAAACCAAGTGCACAACA
561 AAAAACCAAGTGCACAACA
*
929182 AAGTATCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
1 AAGTATCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTAAC
* * * * *
929247 CGGTATAAATATATCAGTTTTTTAGAAAATAGGTGTACAAAAAGTATCGACATAAATAAAAATAG
66 CGGTATAAATATACCAGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAG
* *
929312 TGTCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAATTTCAATACATTT
131 TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAATGTCAATACATTT
* * * *
929377 ATAACAATTGTCGAT-CCAAACAATATCGAAAAATATAATTATAA
196 AAAACAAGTGTCGATCCCGAA-AATATCGAAAAACATAATTATAA
929421 CCAAATGTCT
Statistics
Matches: 2282, Mismatches: 197, Indels: 237
0.84 0.07 0.09
Matches are distributed among these distances:
578 14 0.01
579 610 0.27
580 573 0.25
581 9 0.00
582 7 0.00
583 2 0.00
584 11 0.00
585 7 0.00
586 1 0.00
587 4 0.00
588 1 0.00
589 5 0.00
590 6 0.00
591 1 0.00
592 1 0.00
593 9 0.00
594 3 0.00
595 4 0.00
596 12 0.01
597 6 0.00
598 201 0.09
599 251 0.11
600 199 0.09
601 343 0.15
602 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (579 bp):
AAGTATCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTAAC
CGGTATAAATATACCAGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAAAG
TGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAATGTCAATACATTT
AAAACAAGTGTCGATCCCGAAAATATCGAAAAACATAATTATAATGTAATTAGTAAATTATTAAT
GTAACCGGTATAAATATACGAGTTTTTAAAAAAACAGGTATACAAAAAATATCGACACAAATAAA
AAAAGTGTCGATACATCTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTTGATA
CGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTA
TTAATGTAACCGGTATAAATATACCGATTTTTGAGAAAATAAGTGTACAAAAAGTATCGACACAA
ATAAAAAAAGTATCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACA
Found at i:929193 original size:980 final size:981
Alignment explanation
Indices: 925917--929420 Score: 5047
Period size: 980 Copynumber: 3.6 Consensus size: 981
925907 TACCTTTTTC
* * * *
925917 AAATATGCCGGTTTTTTAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAAAAGTGTCGAT
1 AAATATACCGATTTTTGAGAAAACATGTGTACAAAAAATATCGACACAAATAAAAAAGTGTCGAT
* *
925982 ACATATTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAA
66 ACATTTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAA
* * *
926047 GTGTTGATCCCGAAAACATCGAAAAACGTAATTATAATGTAATAGGTAAATTATTAATGTAACAG
131 GTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCG
* *
926112 GT-TAAAATATACCAGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACACAAATAGAAAAAGT
196 GTCT-AAATATACCAGTTTTTGAGAAAATAAGTGTACAAAAAGTATCGACACAAATAAAAAAAGT
*
926176 GTCAATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGACGATACATTTA
260 GTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA--GACG------TT-
* *
926241 AAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAAGTAAATTATTAATG
316 ----AA--GTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATG
* * * * *
926306 TAACTGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAATATCGACACAAATAAAA
375 TAACCGGTATAAATATACTAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAA
*
926371 AAAGTATCGATACATCTTGTCCAGATTGTATTTTAAAAAACAAGTGCACAACAAAGTGTCGATAC
440 AAAGTATCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATAC
*
926436 GTTTAAAACAAGTGTCGATCCCGAAAACATCG-AAAATATAATTATAATGTAATAGGTAAATTAT
505 GTTTAAAACAAGTGTCGAT-CCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTAT
* * *
926500 TAATGTAATCGGTCTAAATATACCTGTTTTCGAGAAAACATGTGTA-AAACAAGTATCGACACAA
569 TAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAA-AAGTATCGACACAA
* * * *
926564 ATAAAACAAGTGTCGATACATTTTGTCCT-GATTGTATTTTAAAAACCAAGTGGATAACAAAGTG
633 ATAAAA-AAGTATCGATACATCTTGT-CTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTG
926628 TCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGT
696 TCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGT
*
926693 AAATTATTAATGTAACATT-TTAC-AAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
761 AAATTATTAATGT-A-ATTGGT-CTAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
* *
926756 TCGATACAAAT-AAAAAAGTGTCGATATATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACA
823 TCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAA-CAAGTGCACA
926820 ACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCG-AAACATCGAAAAACATAATTATAATG
887 ACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATG
*
926884 TAATATGTAAATTATTAATGTAACTGGTCT
952 TAATATGTAAATTATTAATGTAATTGGTCT
* * * *
926914 AAATATACCGAATTTTGATAAAACATGTGTACAAAAAGTATCGACAGAAATAAAAAATGTGTCGA
1 AAATATACCGATTTTTGAGAAAACATGTGTACAAAAAATATCGACACAAATAAAAAA-GTGTCGA
* * *
926979 TACATCTTGTCCAGATTGTTTTTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
65 TACATTTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACA
* * *
927044 AGTGTCGATCCCGAAAACATCAAAAAATATAATTATAATGAAATAGGTAAATTATTAATGTAACC
130 AGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACC
* *
927109 GGTCTAAATATACCAGTTTTTGAGAAAA-CAGATGTA-AAACAAGTATCGACACAAATAAAACAA
195 GGTCTAAATATACCAGTTTTTGAGAAAATAAG-TGTACAAA-AAGTATCGACACAAATAAAAAAA
*
927172 GTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTTGATACGTT
258 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAA-----G--ACG-T
927237 TAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
315 T-----AA--GTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAA
* * *
927302 TGTAA-C------------C---TTTTT---CAAACATGTGTAAAAAAAGTATCGACACAAATAA
373 TGTAACCGGTATAAATATACTAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAA
* * *
927348 AAAAA-TATCGATACATCTTGTCTAGATTGCATTTTAAAAACTAAGTGCACAACAAAGTGTCGAT
438 AAAAAGTATCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGAT
*
927412 ACGTTTAAAACAAGTGTCGATCTCGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATT
503 ACGTTTAAAACAAGTGTCGATC-CGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATT
* * *
927477 ATTAATATAACCGGTCTAAATATATCGGTTTTTGAGAAAACATGTGTACAAAAAGTATAGACACA
567 ATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACA
*
927542 AATAAAAAAAG-AGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT
632 AAT-AAAAAAGTA-TCGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGT
927606 GTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATG
695 GTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATG
* * *
927671 TAAATTATTAATGTAACTGGTCTAAATATACTAGTTTTTGAGAAAACATGTGTAC-AAAAGTATC
760 TAAATTATTAATGTAATTGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATC
* * * *
927735 GAGACAAATAAAAAAAGTGTCGATACATCTTGTACAGATTGTATTTTAAAAACTAAGTACACTAC
825 GACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAAC-AAGTGCACAAC
927800 AAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAAACATAATTATAATGT
889 AAAGTGTCGATACGTTTAAAACAAGTGTCGATCCCGAAAACATCG-AAAAACATAATTATAATGT
*
927865 AATAGGTAAATTATTAATGTAATTGGTCT
953 AATATGTAAATTATTAATGTAATTGGTCT
* *
927894 AAATATACCGATTTTTGAGAAAACAAGTGTA-AAACAAGTATCGACACAAATAAAACAAGTGTCG
1 AAATATACCGATTTTTGAGAAAACATGTGTACAAA-AAATATCGACACAAATAAAA-AAGTGTCG
* * *
927958 ATATATTTTGTCCAGATTGTATCTTAAAAATCAAGTGCAAAACAAAGTGTCGATACATTTAAAAC
64 ATACATTTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
**
928023 AAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
129 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
* * *
928088 CGGTCTAAATATACC-GATTTTTTAGAAAACAAGTGTACAAAAAGTATCGACACAGATAAAAAAA
194 CGGTCTAAATATACCAG-TTTTTGAGAAAATAAGTGTACAAAAAGTATCGACACAAATAAAAAAA
928152 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAC-AA-A-G-T--GTCGA
258 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGACGTTAAGTCGA
*
928211 TCCCGAAAATATCGAAAAACATAATTATAATGTAATTA-GTAAATTATTAATGTAACCGGTATAA
323 TCCCGAAAACATCGAAAAACATAATTATAATGTAA-TAGGTAAATTATTAATGTAACCGGTATAA
* *
928275 ATATACTAGTTTTTGAGAAAACAGGTATACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATA
387 ATATACTAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGATA
* *
928340 CATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTTTTGATACGTTTAAAACAAG
452 CATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAG
*
928405 TGTCGATTCCGAAAATATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
517 TGTCGA-TCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGG
* * * *
928470 TATAAATATACCGGTTTTTGAGAAAATAGGTGTACAAAAAGTATCGACGCAAATAAAAAAGGTAT
581 TCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAA-GTAT
* *
928535 CGATACATCTTGTCTAGATTGTATTTTAAAAACTAAGTGCACAACAAAGTTTCGATACGTTTAAA
645 CGATACATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAA
* * * *
928600 ACAAGTGTCGATTCTGAAAACATCGAAAAACATAATTATAATGTAATAGGCAAATTATTAATGTA
710 ACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTA
* * *
928665 ATTGGTCTAAATATACCGGTTTTTGAGAAAATAGGTATACAAAAAGTATCGACACAAATAAAAAA
775 ATTGGTCTAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAAT-AAAAA
928730 AAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAATCAAGTGCACAACAAAGTGTCGATACG
839 AAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAA-CAAGTGCACAACAAAGTGTCGATACG
* *
928795 TTTAAAACAAGTGTCGATCCCGAAAACATTGAAAAACATAATTATAATTTAATATGTAAATTATT
903 TTTAAAACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATT
928860 AATGTAATTGGTCT
968 AATGTAATTGGTCT
* * *
928874 AAATATACCGATTTTTAAAAAAACATGTGTA-AAACAAATATTGACACAAATAAAATAAGTGTCG
1 AAATATACCGATTTTTGAGAAAACATGTGTACAAA-AAATATCGACACAAATAAAA-AAGTGTCG
* * *
928938 ATACATTTTGTCCATATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTTGATACGTTTAAAAC
64 ATACATTTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAAC
**
929003 AAGTGTCGATTTCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
129 AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAAC
*
929068 CGGTCTAAATATACC-GATTTTTGAGAAAATAAGTGTATAAAAAGTATCGACACAAATAAAAAAA
194 CGGTCTAAATATACCAG-TTTTTGAGAAAATAAGTGTACAAAAAGTATCGACACAAATAAAAAAA
929132 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAAC-AA-A-G-T-A-TCGA
258 GTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGACGTTAAGTCGA
929191 TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAA
323 TCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAA
* * * * *
929256 TATA-TCAGTTTTTTAGAAAATAGGTGTACAAAAAGTATCGACATAAATAAAAATAGTGTCGATA
388 TATACT-AGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGATA
* * * * * * *
929320 CATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAATTTCAATACATTTATAACAAT
452 CATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAG
* * *
929385 TGTCGATCCAAACAATATCGAAAAATATAATTATAA
517 TGTCGATCCGAA-AACATCGAAAAACATAATTATAA
929421 CCAAATGTCT
Statistics
Matches: 2301, Mismatches: 149, Indels: 131
0.89 0.06 0.05
Matches are distributed among these distances:
959 56 0.02
960 3 0.00
968 1 0.00
970 1 0.00
971 1 0.00
972 1 0.00
975 5 0.00
977 22 0.01
978 246 0.11
979 603 0.26
980 894 0.39
981 102 0.04
982 6 0.00
985 1 0.00
997 53 0.02
998 300 0.13
999 1 0.00
1001 2 0.00
1003 3 0.00
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.29
Consensus pattern (981 bp):
AAATATACCGATTTTTGAGAAAACATGTGTACAAAAAATATCGACACAAATAAAAAAGTGTCGAT
ACATTTTGTCCAGATTGTATCTTAAAAACCAAGTGCACAACAAAGTGTCGATACATTTAAAACAA
GTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCG
GTCTAAATATACCAGTTTTTGAGAAAATAAGTGTACAAAAAGTATCGACACAAATAAAAAAAGTG
TCGATACATCTTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGACGTTAAGTCGATCC
CGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTATAAATAT
ACTAGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTATCGATACATC
TTGTCCAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTC
GATCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAA
ATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAAAAAAGTATCGATAC
ATCTTGTCTAGATTGTATTTTAAAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGT
GTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAATTGGT
CTAAATATACTGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAAAAAAAGTGTC
GATACATCTTGTCCAGATTGTATTTTAAAAACAAGTGCACAACAAAGTGTCGATACGTTTAAAAC
AAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATATGTAAATTATTAATGTAAT
TGGTCT
Found at i:929251 original size:20 final size:19
Alignment explanation
Indices: 929213--929251 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
929203 CGAAAAACAT
*
929213 AATTATAATGTAATAGGTA
1 AATTATAATGTAACAGGTA
*
929232 AATTATTAATGTAACCGGTA
1 AATTA-TAATGTAACAGGTA
929252 TAAATATATC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (19 bp):
AATTATAATGTAACAGGTA
Found at i:929922 original size:23 final size:23
Alignment explanation
Indices: 929872--929916 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
929862 TGCCTATTTT
*
929872 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
929895 ATTATATAAGCGCTACTTAATA
1 ATTATATAAGCGCTACCTAATA
929917 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:929986 original size:87 final size:86
Alignment explanation
Indices: 929789--930000 Score: 336
Period size: 86 Copynumber: 2.5 Consensus size: 86
929779 AAATATGTCA
* * *
929789 ATATAAGCGCTACCTATTACATTATACAAGTGTTACCTAATATGTTATTATACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
*
929854 TCGTTAAATGCCTATTTTATT
66 TCGTTAAATACCTATTTTATT
* *
929875 ATATAAGCGCTACCTATTACATTATATAAGCGCTACTTAATATGTTATTGTACTTGATAATA-TT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
929939 TCAGGTTAAATACCTATTTTATT
66 TC--GTTAAATACCTATTTTATT
*
929962 ATATAAGCGCTACCTATTACATTATATAAGCGCTGCCTA
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTA
930001 TTACATTATA
Statistics
Matches: 116, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
85 4 0.03
86 57 0.49
87 55 0.47
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (86 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTATACTTGATAATATTT
TCGTTAAATACCTATTTTATT
Found at i:930032 original size:23 final size:23
Alignment explanation
Indices: 929949--930023 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
929939 TCAGGTTAAA
**
929949 TACCTATTTTATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
929972 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAGCGC
* *
929995 TGCCTATTACATTATATAAGCTC
1 TACCTATTACATTATATAAGCGC
930018 TACCTA
1 TACCTA
930024 ATATGTTATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (23 bp):
TACCTATTACATTATATAAGCGC
Found at i:932655 original size:94 final size:87
Alignment explanation
Indices: 932520--932770 Score: 351
Period size: 87 Copynumber: 2.8 Consensus size: 87
932510 GTTCCTTTTG
** *
932520 TATTTCTCAACAGTATTTTATTTTTACTGCATTTTCATTCTTATACAGTGCTTTCTCATTCGCAT
1 TATTTCTCAACAGTATTTTATGATTACTGCATTTTCATTCTTATACAGTGCTTTCTCATTCACAT
932585 TCCTAGATTCTCTGTGCTTGTTTCTTTCA
66 TCCTAGA-T-TC--T-C--GTTTCTTTCA
*
932614 TATTTCTCAACAGTATTTTATGATTACTGCATTTTCATTCTTATACAGTGCTTTCTCTTTCACAT
1 TATTTCTCAACAGTATTTTATGATTACTGCATTTTCATTCTTATACAGTGCTTTCTCATTCACAT
932679 TCCTAGATTCTCGTTTCTTTCA
66 TCCTAGATTCTCGTTTCTTTCA
* * **
932701 TATTTCTCAACAGTATTTTATGATTACTGCATTTTCATTCTTGTA-AGGAGCTTTCTTGTTCACA
1 TATTTCTCAACAGTATTTTATGATTACTGCATTTTCATTCTTATACA-GTGCTTTCTCATTCACA
932765 TTCCTA
65 TTCCTA
932771 TAACATTATA
Statistics
Matches: 148, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
86 1 0.01
87 74 0.50
89 1 0.01
90 1 0.01
92 2 0.01
93 1 0.01
94 68 0.46
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.49
Consensus pattern (87 bp):
TATTTCTCAACAGTATTTTATGATTACTGCATTTTCATTCTTATACAGTGCTTTCTCATTCACAT
TCCTAGATTCTCGTTTCTTTCA
Found at i:944747 original size:19 final size:19
Alignment explanation
Indices: 944719--944763 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
944709 TATATACTGA
*
944719 GTAAATTTTTGCTAGATTC
1 GTAAAATTTTGCTAGATTC
944738 GTAAAATTTTGCTAGATTC
1 GTAAAATTTTGCTAGATTC
944757 GTAAAAT
1 GTAAAAT
944764 ATTCTTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (19 bp):
GTAAAATTTTGCTAGATTC
Found at i:944924 original size:22 final size:22
Alignment explanation
Indices: 944896--944939 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
944886 TCAAAACGTT
*
944896 GGGAGATTCCAAACAAGACGCC
1 GGGAGATCCCAAACAAGACGCC
* *
944918 GGGAGATCCCAAGCAATACGCC
1 GGGAGATCCCAAACAAGACGCC
944940 AAAAAAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.34, C:0.30, G:0.27, T:0.09
Consensus pattern (22 bp):
GGGAGATCCCAAACAAGACGCC
Found at i:945185 original size:21 final size:21
Alignment explanation
Indices: 945153--945192 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
945143 CATATATCAT
945153 TTTTCAAATTTTCTTAATCTG
1 TTTTCAAATTTTCTTAATCTG
*
945174 TTTT-AAACTTTTTTTAATC
1 TTTTCAAA-TTTTCTTAATC
945193 GATTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTCAAATTTTCTTAATCTG
Found at i:948272 original size:60 final size:60
Alignment explanation
Indices: 948208--948359 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 60
948198 TTTTAAATTG
* * *
948208 GTCCTTAAACTTTTGAATATTCTAATTTTATCATAAAACTATGATACTCATTCTAAACTA
1 GTCCTTAAACTTTTGAATATTCTAATTTCATCATAAAACTATGACACACATTCTAAACTA
** * * * * * *
948268 GTCCTTGGACATTTGAACATT-TCAATTTCATCCTCAAACTATGACCCACATTCTAAATTA
1 GTCCTTAAACTTTTGAATATTCT-AATTTCATCATAAAACTATGACACACATTCTAAACTA
** * * *
948328 GTCCCCAAACTTTTAAATCTTCCAATTTCATC
1 GTCCTTAAACTTTTGAATATTCTAATTTCATC
948360 CCCAAATTCA
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
59 1 0.01
60 69 0.99
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (60 bp):
GTCCTTAAACTTTTGAATATTCTAATTTCATCATAAAACTATGACACACATTCTAAACTA
Found at i:951185 original size:11 final size:10
Alignment explanation
Indices: 951155--951189 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
951145 CCAAGTAACC
951155 AACAACT-AT
1 AACAACTAAT
951164 AACAACTAAT
1 AACAACTAAT
951174 AACAAGCTAAT
1 AACAA-CTAAT
951185 AACAA
1 AACAA
951190 ACCATAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.29
10 7 0.29
11 10 0.42
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (10 bp):
AACAACTAAT
Found at i:956451 original size:22 final size:22
Alignment explanation
Indices: 956401--956452 Score: 79
Period size: 21 Copynumber: 2.4 Consensus size: 22
956391 AGATTTTTTT
*
956401 GACGTCTTGCTTGGGATCTCCC
1 GACGTCTTGCTTGGAATCTCCC
*
956423 -ACGTCTTGTTTGGAATCTCCC
1 GACGTCTTGCTTGGAATCTCCC
956444 GACGTCTTG
1 GACGTCTTG
956453 AGGGTGTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 19 0.70
22 8 0.30
ACGTcount: A:0.12, C:0.29, G:0.25, T:0.35
Consensus pattern (22 bp):
GACGTCTTGCTTGGAATCTCCC
Found at i:957177 original size:19 final size:19
Alignment explanation
Indices: 957149--957193 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
957139 TATATACTGA
*
957149 GTAAATTTTTGCTAGATTC
1 GTAAAATTTTGCTAGATTC
957168 GTAAAATTTTGCTAGATTC
1 GTAAAATTTTGCTAGATTC
957187 GTAAAAT
1 GTAAAAT
957194 ATTCTTAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (19 bp):
GTAAAATTTTGCTAGATTC
Found at i:957616 original size:21 final size:21
Alignment explanation
Indices: 957584--957623 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
957574 CATATATCAT
957584 TTTTCAAATTTTCTTAATCTG
1 TTTTCAAATTTTCTTAATCTG
*
957605 TTTT-AAACTTTTTTTAATC
1 TTTTCAAA-TTTTCTTAATC
957624 GATTAATAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.25, C:0.12, G:0.03, T:0.60
Consensus pattern (21 bp):
TTTTCAAATTTTCTTAATCTG
Found at i:960706 original size:60 final size:60
Alignment explanation
Indices: 960642--960793 Score: 144
Period size: 60 Copynumber: 2.5 Consensus size: 60
960632 TTTTAAATTG
* * *
960642 GTCCTTAAACTTTTGAATATTCTAATTTTATCATAAAACTATGATACTCATTCTAAACTA
1 GTCCTTAAACTTTTGAATATTCTAATTTCATCATAAAACTATGACACACATTCTAAACTA
** * * * * * *
960702 GTCCTTGGACATTTGAACATT-TCAATTTCATCCTCAAACTATGACCCACATTCTAAATTA
1 GTCCTTAAACTTTTGAATATTCT-AATTTCATCATAAAACTATGACACACATTCTAAACTA
** * * *
960762 GTCCCCAAACTTTTAAATCTTCCAATTTCATC
1 GTCCTTAAACTTTTGAATATTCTAATTTCATC
960794 CCCAAATTCA
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
59 1 0.01
60 69 0.99
ACGTcount: A:0.33, C:0.23, G:0.06, T:0.38
Consensus pattern (60 bp):
GTCCTTAAACTTTTGAATATTCTAATTTCATCATAAAACTATGACACACATTCTAAACTA
Found at i:963629 original size:11 final size:10
Alignment explanation
Indices: 963599--963633 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
963589 CCAAGTAACC
963599 AACAACT-AT
1 AACAACTAAT
963608 AACAACTAAT
1 AACAACTAAT
963618 AACAAGCTAAT
1 AACAA-CTAAT
963629 AACAA
1 AACAA
963634 ACCATAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 7 0.29
10 7 0.29
11 10 0.42
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (10 bp):
AACAACTAAT
Found at i:964778 original size:10 final size:10
Alignment explanation
Indices: 964731--964771 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
964721 TGTAAAAAAA
964731 CATAACAAAC
1 CATAACAAAC
*
964741 CATAACAAGC
1 CATAACAAAC
*
964751 TAATAACAAAC
1 -CATAACAAAC
964762 CATAACAAAC
1 CATAACAAAC
964772 TCTAACATTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
10 18 0.69
11 8 0.31
ACGTcount: A:0.59, C:0.27, G:0.02, T:0.12
Consensus pattern (10 bp):
CATAACAAAC
Found at i:966736 original size:11 final size:11
Alignment explanation
Indices: 966716--966771 Score: 73
Period size: 10 Copynumber: 5.4 Consensus size: 11
966706 AGTAACCAAC
966716 AACT-ATAACA
1 AACTAATAACA
966726 AACTAATAAC-
1 AACTAATAACA
966736 AACTAATAACA
1 AACTAATAACA
*
966747 AGCTAATAACA
1 AACTAATAACA
*
966758 AAC-CATAACA
1 AACTAATAACA
966768 AACT
1 AACT
966772 CTAACAAGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
10 23 0.57
11 17 0.43
ACGTcount: A:0.59, C:0.21, G:0.02, T:0.18
Consensus pattern (11 bp):
AACTAATAACA
Found at i:966746 original size:21 final size:20
Alignment explanation
Indices: 966713--966771 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
966703 CCAAGTAACC
966713 AACAACTATAACAAACTAAT
1 AACAACTATAACAAACTAAT
*
966733 AACAACTAATAACAAGCTAAT
1 AACAACT-ATAACAAACTAAT
*
966754 AACAAACCATAACAAACT
1 AAC-AACTATAACAAACT
966772 CTAACAAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 24 0.71
22 3 0.09
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (20 bp):
AACAACTATAACAAACTAAT
Found at i:966777 original size:31 final size:31
Alignment explanation
Indices: 966713--966781 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 31
966703 CCAAGTAACC
966713 AACAA-CTATAACAAACTAATAACAACTAAT
1 AACAAGCTATAACAAACTAATAACAACTAAT
* *
966743 AACAAGCTAATAACAAAC-CATAACAAACT-CT
1 AACAAGCT-ATAACAAACTAATAAC-AACTAAT
966774 AACAAGCT
1 AACAAGCT
966782 TTGACCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.15
31 16 0.47
32 13 0.38
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (31 bp):
AACAAGCTATAACAAACTAATAACAACTAAT
Found at i:969393 original size:2 final size:2
Alignment explanation
Indices: 969386--969432 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
969376 AATGGTGTTG
969386 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
969428 AT AT A
1 AT AT A
969433 GTGATGGATC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:972937 original size:5 final size:5
Alignment explanation
Indices: 972927--972951 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
972917 TTAAAATTGG
972927 AAGGA AAGGA AAGGA AAGGA AAGGA
1 AAGGA AAGGA AAGGA AAGGA AAGGA
972952 TGTCGTTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (5 bp):
AAGGA
Found at i:977444 original size:16 final size:15
Alignment explanation
Indices: 977407--977446 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
977397 ATATTTTTTG
977407 AATTAAT-TATTGAT
1 AATTAATCTATTGAT
*
977421 ATTTAATCTATTGAT
1 AATTAATCTATTGAT
977436 CAATTAATCTA
1 -AATTAATCTA
977447 AATCGGGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 6 0.27
15 7 0.32
16 9 0.41
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.47
Consensus pattern (15 bp):
AATTAATCTATTGAT
Found at i:980039 original size:20 final size:20
Alignment explanation
Indices: 980014--980060 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
980004 GGTAATTAGA
980014 GTTGCGAATTTGAAAATCGC
1 GTTGCGAATTTGAAAATCGC
*
980034 GTTGCGAATTTGAAAATTGC
1 GTTGCGAATTTGAAAATCGC
*
980054 ATTGCGA
1 GTTGCGA
980061 TAGTACTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.32
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGC
Found at i:980076 original size:20 final size:20
Alignment explanation
Indices: 980053--980173 Score: 224
Period size: 20 Copynumber: 6.0 Consensus size: 20
980043 TTGAAAATTG
*
980053 CATTGCGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
980073 CATTACGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
980093 CATTACGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
980113 CATTACGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
980133 CATTACGATAGTACTATTTA
1 CATTACGATAGTACTATTTA
*
980153 CATTACGATAGTACTGTTTA
1 CATTACGATAGTACTATTTA
980173 C
1 C
980174 CAATATCGGT
Statistics
Matches: 99, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (20 bp):
CATTACGATAGTACTATTTA
Found at i:980238 original size:20 final size:20
Alignment explanation
Indices: 980210--980387 Score: 138
Period size: 20 Copynumber: 9.1 Consensus size: 20
980200 TTGAAAATCG
*
980210 CATTACGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
980230 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
*
980250 CATTGCGATAGTATTGTTTA
1 CATTGCGATAGTACTGTTTA
* * * * *
980270 CATATATCGGTAATTAATG-TTG
1 CAT-T-GCGAT-AGTACTGTTTA
* * *
980292 CGAATT-TGAAAAT-C-G----
1 C--ATTGCGATAGTACTGTTTA
980307 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
*
980327 CATTGCGATAGTATTGTTTA
1 CATTGCGATAGTACTGTTTA
980347 CATTGCGATAGTACTGTTTA
1 CATTGCGATAGTACTGTTTA
* *
980367 CATTACGATAGTATTGTTTA
1 CATTGCGATAGTACTGTTTA
980387 C
1 C
980388 CTATATCGGT
Statistics
Matches: 127, Mismatches: 19, Indels: 24
0.75 0.11 0.14
Matches are distributed among these distances:
13 3 0.02
14 4 0.03
15 2 0.02
16 1 0.01
18 1 0.01
20 100 0.79
21 2 0.02
22 6 0.05
23 6 0.05
24 2 0.02
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (20 bp):
CATTGCGATAGTACTGTTTA
Found at i:980259 original size:40 final size:40
Alignment explanation
Indices: 980210--980387 Score: 156
Period size: 40 Copynumber: 4.5 Consensus size: 40
980200 TTGAAAATCG
*
980210 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTA
1 CATTACGATAGTATTGTTTACATTGCGATAGTACTGTTTA
* * * * * *
980250 CATTGCGATAGTATTGTTTACATATATCGGTAATTAATG-TTG
1 CATTACGATAGTATTGTTTACAT-T-GCGAT-AGTACTGTTTA
* * *
980292 CGAATT-TGA-A-AATCG----CATTGCGATAGTACTGTTTA
1 C--ATTACGATAGTATTGTTTACATTGCGATAGTACTGTTTA
*
980327 CATTGCGATAGTATTGTTTACATTGCGATAGTACTGTTTA
1 CATTACGATAGTATTGTTTACATTGCGATAGTACTGTTTA
980367 CATTACGATAGTATTGTTTAC
1 CATTACGATAGTATTGTTTAC
980388 CTATATCGGT
Statistics
Matches: 106, Mismatches: 19, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
33 3 0.03
34 7 0.07
35 7 0.07
36 4 0.04
37 3 0.03
40 61 0.58
41 4 0.04
42 7 0.07
43 7 0.07
44 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (40 bp):
CATTACGATAGTATTGTTTACATTGCGATAGTACTGTTTA
Found at i:980313 original size:117 final size:117
Alignment explanation
Indices: 980210--980426 Score: 353
Period size: 117 Copynumber: 1.8 Consensus size: 117
980200 TTGAAAATCG
*
980210 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTGCGATAGTATTGTTTACATAT
1 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTACGATAGTATTGTTTACATAT
* *
980275 ATCGGTAATTAATGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTTA
66 ATCGGTAATTAATGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGATCA
* * *
980327 CATTGCGATAGTATTGTTTACATTGCGATAGTACTGTTTACATTACGATAGTATTGTTTACCTAT
1 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTACGATAGTATTGTTTACATAT
**
980392 ATCGGTAATTAGCGTTGCGAATTTGAAAATTCGCA
66 ATCGGTAATTAATGTTGCGAATTTGAAAA-TCGCA
980427 AGGTAAACAA
Statistics
Matches: 93, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
117 88 0.95
118 5 0.05
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (117 bp):
CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTACGATAGTATTGTTTACATAT
ATCGGTAATTAATGTTGCGAATTTGAAAATCGCATTGCGATAGTACTGATCA
Found at i:980368 original size:97 final size:97
Alignment explanation
Indices: 980113--980369 Score: 417
Period size: 97 Copynumber: 2.6 Consensus size: 97
980103 GTACTATTTA
* * * *
980113 CATTACGATAGTACTATTTACATTACGATAGTACTATTTACATTACGATAGTACTGTTTACCA-A
1 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTA-CATA
*
980177 TATCGGTAATTAGCGTTGCGAATTTGAAAATCG
65 TATCGGTAATTAACGTTGCGAATTTGAAAATCG
*
980210 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTGCGATAGTATTGTTTACATAT
1 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACATAT
*
980275 ATCGGTAATTAATGTTGCGAATTTGAAAATCG
66 ATCGGTAATTAACGTTGCGAATTTGAAAATCG
* *
980307 CATTGCGATAGTACTGTTTACATTGCGATAGTATTGTTTACATTGCGATAGTACTGTTTACAT
1 CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACAT
980370 TACGATAGTA
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
96 2 0.01
97 147 0.99
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.39
Consensus pattern (97 bp):
CATTACGATAGTACTGTTTACATTGCGATAGTACTGTTTACATTGCGATAGTACTGTTTACATAT
ATCGGTAATTAACGTTGCGAATTTGAAAATCG
Found at i:980473 original size:20 final size:20
Alignment explanation
Indices: 980444--980496 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
980434 CAATACTAAA
* *
980444 ATTCGTGTTGTGATTTAGCT
1 ATTCGCGTTGCGATTTAGCT
*
980464 ATTCGCGTTGCGATTTATCT
1 ATTCGCGTTGCGATTTAGCT
*
980484 GTTCGCGTTGCGA
1 ATTCGCGTTGCGA
980497 ATTTGTTGGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.43
Consensus pattern (20 bp):
ATTCGCGTTGCGATTTAGCT
Found at i:980713 original size:29 final size:31
Alignment explanation
Indices: 980657--980714 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
980647 TTGGTAACTG
*
980657 AAATTTTCCTATTTTACTCACCATACTTTCA
1 AAATTTTCCAATTTTACTCACCATACTTTCA
980688 AAATTTT-CAATTTT-CTCACTCA-ACTTT
1 AAATTTTCCAATTTTACTCAC-CATACTTT
980715 ATGGATTGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 10 0.40
30 8 0.32
31 7 0.28
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (31 bp):
AAATTTTCCAATTTTACTCACCATACTTTCA
Found at i:983602 original size:10 final size:10
Alignment explanation
Indices: 983589--983641 Score: 53
Period size: 10 Copynumber: 5.8 Consensus size: 10
983579 TAATTATTTC
983589 TAATTAAATT
1 TAATTAAATT
983599 TAATT-AA--
1 TAATTAAATT
*
983606 -AATTTAA-T
1 TAATTAAATT
983614 TAATTAAATT
1 TAATTAAATT
983624 TAATTAAATT
1 TAATTAAATT
*
983634 TATTTAAA
1 TAATTAAA
983642 ATTTTGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
9 8 0.22
10 23 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (10 bp):
TAATTAAATT
Found at i:983616 original size:15 final size:14
Alignment explanation
Indices: 983589--983630 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
983579 TAATTATTTC
983589 TAATTAAATTTAAT
1 TAATTAAATTTAAT
983603 T-A--AAATTTAAT
1 TAATTAAATTTAAT
983614 TAATTAAATTTAAT
1 TAATTAAATTTAAT
983628 TAA
1 TAA
983631 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 10 0.40
12 1 0.04
13 1 0.04
14 13 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAATTAAATTTAAT
Found at i:983618 original size:25 final size:24
Alignment explanation
Indices: 983589--983640 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 24
983579 TAATTATTTC
983589 TAATTAAATTTAATTAAAATTTAAT
1 TAATTAAATTTAATT-AAATTTAAT
*
983614 TAATTAAATTTAATTAAATTTATT
1 TAATTAAATTTAATTAAATTTAAT
983638 TAA
1 TAA
983641 AATTTTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TAATTAAATTTAATTAAATTTAAT
Found at i:985654 original size:21 final size:21
Alignment explanation
Indices: 985630--985675 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
985620 ATCGGTAAAA
*
985630 TTTTATTTAAAATATTATTAT
1 TTTTATTTAAAATATTAATAT
985651 TTTTATTTAAAATATTAATAT
1 TTTTATTTAAAATATTAATAT
985672 TTTT
1 TTTT
985676 TAATATTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATTTAAAATATTAATAT
Found at i:988251 original size:20 final size:20
Alignment explanation
Indices: 988226--988276 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
988216 ATGAATAGTA
988226 AACAGTGAACATTAACCGTG
1 AACAGTGAACATTAACCGTG
988246 AACAGTGAACATTAACCGTG
1 AACAGTGAACATTAACCGTG
*
988266 ACCAGTGAACA
1 AACAGTGAACA
988277 GTGTATCGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (20 bp):
AACAGTGAACATTAACCGTG
Found at i:989872 original size:30 final size:30
Alignment explanation
Indices: 989838--989910 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
989828 AAAATTACAT
* * *
989838 TTTGGTCCCTAAACTTT-TCAAAGTTTATAC
1 TTTGGTCACTAAACTTTACCAAA-TTTATAA
989868 TTTGGTCACTAAACTTTACCAAATTTATAA
1 TTTGGTCACTAAACTTTACCAAATTTATAA
*
989898 TTTGGTCATTAAA
1 TTTGGTCACTAAA
989911 TAAATCCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
30 34 0.89
31 4 0.11
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (30 bp):
TTTGGTCACTAAACTTTACCAAATTTATAA
Found at i:990601 original size:2 final size:2
Alignment explanation
Indices: 990594--990655 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
990584 GTTTGATAAT
990594 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
990636 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
990656 AGTTTCAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:991273 original size:21 final size:21
Alignment explanation
Indices: 991217--991274 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
991207 CAACCGTTTT
*
991217 AGATGACACCCCAGTCATATC
1 AGATGACACCACAGTCATATC
* * *
991238 AGATGGCACTACAGTCATTTC
1 AGATGACACCACAGTCATATC
* *
991259 AGATGCCACCGCAGTC
1 AGATGACACCACAGTC
991275 GGGTCGGATG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (21 bp):
AGATGACACCACAGTCATATC
Found at i:993001 original size:34 final size:30
Alignment explanation
Indices: 992963--993031 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 30
992953 TTGATATAAC
992963 AATTTAAGGCAAAATGGTTTTTGGACTTGAATTG
1 AATTTAA--CAAAAT-GTTTTTGGACTT-AATTG
992997 AATTT-ACAAAATGTTTTTGGACTTAATTG
1 AATTTAACAAAATGTTTTTGGACTTAATTG
993026 AATTTA
1 AATTTA
993032 TTTAAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
29 10 0.29
30 12 0.35
31 6 0.18
33 1 0.03
34 5 0.15
ACGTcount: A:0.35, C:0.06, G:0.17, T:0.42
Consensus pattern (30 bp):
AATTTAACAAAATGTTTTTGGACTTAATTG
Found at i:993043 original size:29 final size:30
Alignment explanation
Indices: 992972--993031 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
992962 CAATTTAAGG
992972 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-GTTTTTGGACTTGAATTGAATTTA
993003 CAAAATGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGTTTTTGGACTTGAATTGAATTTA
993032 TTTAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 12 0.41
31 6 0.21
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (30 bp):
CAAAATGTTTTTGGACTTGAATTGAATTTA
Found at i:993147 original size:22 final size:22
Alignment explanation
Indices: 993121--993165 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
993111 TTCAAGATTG
* *
993121 CCCAGGGGGTATAGATTCCCCC
1 CCCAGGGGGTACAGATACCCCC
993143 CCCAGGGGGTACAGATACCCCC
1 CCCAGGGGGTACAGATACCCCC
993165 C
1 C
993166 GGCAGGTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.40, G:0.27, T:0.13
Consensus pattern (22 bp):
CCCAGGGGGTACAGATACCCCC
Found at i:993238 original size:19 final size:20
Alignment explanation
Indices: 993199--993240 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
993189 AACAGAATGT
993199 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
993219 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
993239 CC
1 CC
993241 CTGTTCATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.43, G:0.29, T:0.14
Consensus pattern (20 bp):
CCAGGGGGTACCGATTCCCC
Found at i:993303 original size:21 final size:21
Alignment explanation
Indices: 993277--993318 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
993267 ATTTGAATAT
*
993277 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
993298 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
993319 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:993385 original size:20 final size:22
Alignment explanation
Indices: 993347--993386 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
993337 TTTGAGTATA
993347 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCCAAACGGCTCC
993369 AAAA-CATCCCC-AACGGCT
1 AAAATCATCCCCAAACGGCT
993387 ATATACGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.40, G:0.10, T:0.12
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGCTCC
Found at i:993641 original size:34 final size:32
Alignment explanation
Indices: 993602--993671 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
993592 TTTTGTAAAG
* *
993602 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
993636 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
993668 GGGA
1 GGGA
993672 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:994710 original size:29 final size:31
Alignment explanation
Indices: 994678--994737 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
994668 AAACTTTAAA
994678 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
994707 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
994738 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:994927 original size:22 final size:22
Alignment explanation
Indices: 994896--994942 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
994886 AAGCTCCCCC
994896 TTTTTCATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTGAATT
*
994918 TTTTTTATTAAGAAATTGAATT
1 TTTTTCATTAAGAAATTGAATT
994940 TTT
1 TTT
994943 CAAACTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTTTCATTAAGAAATTGAATT
Found at i:997145 original size:23 final size:23
Alignment explanation
Indices: 997119--997165 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
997109 AGTTAGTTTG
997119 AAAAATTCAA-TTCTTAATAAAA
1 AAAAATTCAATTTCTTAATAAAA
*
997141 AAAAATTCAATTTCTTAATGAAA
1 AAAAATTCAATTTCTTAATAAAA
997164 AA
1 AA
997166 GGGGGAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.32
Consensus pattern (23 bp):
AAAAATTCAATTTCTTAATAAAA
Found at i:997389 original size:28 final size:29
Alignment explanation
Indices: 997320--997378 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
997310 CAATTTAAGG
*
997320 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAAT-G-TTTTGGACTTGAATTGAACTTA
997351 CAAAATGTTTTGGACTT-AATTGAACTTA
1 CAAAATGTTTTGGACTTGAATTGAACTTA
997379 TTTAAAGTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.37
29 10 0.37
30 1 0.04
31 6 0.22
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.41
Consensus pattern (29 bp):
CAAAATGTTTTGGACTTGAATTGAACTTA
Found at i:997813 original size:34 final size:32
Alignment explanation
Indices: 997774--997843 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
997764 TTTTGTAAAG
* *
997774 GGGAAAGGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
997808 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
997840 GGGA
1 GGGA
997844 GTTGTAAGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:1001509 original size:21 final size:21
Alignment explanation
Indices: 1001485--1001530 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1001475 CTTTTAATAA
* * *
1001485 TTCTGTTTTTATTACATGTTT
1 TTCTCTTTTTATGACATATTT
1001506 TTCTCTTTTTATGACATATTT
1 TTCTCTTTTTATGACATATTT
1001527 TTCT
1 TTCT
1001531 TTATCTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.15, C:0.13, G:0.07, T:0.65
Consensus pattern (21 bp):
TTCTCTTTTTATGACATATTT
Found at i:1003128 original size:2 final size:2
Alignment explanation
Indices: 1003121--1003154 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1003111 TTTATACTCG
1003121 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1003155 TATCTCAACG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1005099 original size:28 final size:28
Alignment explanation
Indices: 1005059--1005115 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
1005049 TCGATGTTAA
*
1005059 AAGTAATCAATAAAACAAATATAGTAGT
1 AAGTAAACAATAAAACAAATATAGTAGT
* *
1005087 AAGTAAACAATAAAACATATATATTAGT
1 AAGTAAACAATAAAACAAATATAGTAGT
1005115 A
1 A
1005116 GGGAAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.58, C:0.07, G:0.09, T:0.26
Consensus pattern (28 bp):
AAGTAAACAATAAAACAAATATAGTAGT
Found at i:1007508 original size:21 final size:21
Alignment explanation
Indices: 1007483--1007531 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
1007473 ACCTAATATT
*
1007483 ACAATGTCCAAATTAGGTACA
1 ACAATGTCAAAATTAGGTACA
*
1007504 ACAATGTCAAAATTAGGTGCA
1 ACAATGTCAAAATTAGGTACA
*
1007525 ATAATGT
1 ACAATGT
1007532 TTGAAAATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (21 bp):
ACAATGTCAAAATTAGGTACA
Found at i:1012139 original size:21 final size:21
Alignment explanation
Indices: 1012114--1012155 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1012104 CCTAATATTG
1012114 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
1012135 CAATGTCAAAATTAGGTGCAA
1 CAATGTCAAAATTAGGTGCAA
1012156 TAATATTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (21 bp):
CAATGTCAAAATTAGGTGCAA
Found at i:1014970 original size:12 final size:12
Alignment explanation
Indices: 1014953--1014977 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1014943 ATTATTTCCA
1014953 TTTATGTTATAT
1 TTTATGTTATAT
1014965 TTTATGTTATAT
1 TTTATGTTATAT
1014977 T
1 T
1014978 ATTGTAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.68
Consensus pattern (12 bp):
TTTATGTTATAT
Found at i:1016220 original size:183 final size:178
Alignment explanation
Indices: 1015910--1016265 Score: 541
Period size: 183 Copynumber: 2.0 Consensus size: 178
1015900 ACAAAAATTA
* *
1015910 AATATTTTATAATTAAAAAAAACAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTAAAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
* * * *
1015975 ATTTTATATTTTTAATTAATTAATATTGATTTAGGTTTAAAAGTTATTGGATCTTAAATTATTTA
66 ATTTTATATTTTTAATTAATTAATATTGATTTACGTTTAAAAATTATTGAATCTTAAATTATTAA
* * *
1016040 TTGAGTTTTAAATGGTTTGGGCTGAGCTAATATGTTATATATATATTT
131 TTGAATTTTAAATGGTTTGGCCTGAGCCAATATGTTATATATATATTT
* * * *
1016088 AATATTTTTTAATTCAGAAAAATAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1 AATATTTTATAATTAAAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
1016153 ATTGTATATAATTTTTTTAATTAATTAATATTGATTTACGTTTAAAAATTATTGAATCTTAAATT
66 ATT-T-TAT-A--TTTTTAATTAATTAATATTGATTTACGTTTAAAAATTATTGAATCTTAAATT
*
1016218 ATTAATTGAATTTTAAATGGTTTGGCCTGAGCCCATATGTTATATATA
126 ATTAATTGAATTTTAAATGGTTTGGCCTGAGCCAATATGTTATATATA
1016266 ATATATTTAA
Statistics
Matches: 159, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
178 62 0.39
179 1 0.01
180 3 0.02
181 1 0.01
183 92 0.58
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (178 bp):
AATATTTTATAATTAAAAAAAACAATTTACAATTAATTTAAATAATATATAATTATAAAATAAAA
ATTTTATATTTTTAATTAATTAATATTGATTTACGTTTAAAAATTATTGAATCTTAAATTATTAA
TTGAATTTTAAATGGTTTGGCCTGAGCCAATATGTTATATATATATTT
Found at i:1020332 original size:21 final size:21
Alignment explanation
Indices: 1020308--1020351 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1020298 AATCACCGTA
** *
1020308 AACTGCCATGTTAGCATCATG
1 AACTGCCACATTAGCACCATG
*
1020329 AACTGTCACATTAGCACCATG
1 AACTGCCACATTAGCACCATG
1020350 AA
1 AA
1020352 GTATCATATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (21 bp):
AACTGCCACATTAGCACCATG
Found at i:1020561 original size:19 final size:19
Alignment explanation
Indices: 1020524--1020571 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
1020514 TATTAACTTA
*
1020524 ATTTAAAATAATTTATTTTT
1 ATTTAAAATAATATA-TTTT
1020544 ATTTAAAAT-ATATATTTT
1 ATTTAAAATAATATATTTT
1020562 ATATTAAAAT
1 AT-TTAAAAT
1020572 TTTTAAAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 6 0.23
19 11 0.42
20 9 0.35
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTAAAATAATATATTTT
Found at i:1020730 original size:28 final size:27
Alignment explanation
Indices: 1020613--1020731 Score: 66
Period size: 27 Copynumber: 4.2 Consensus size: 27
1020603 ATTGATAATG
*
1020613 TAATATA-TTTAGTAAATTAAGAATAAAA
1 TAATATATTTTA-TAAATTTA-AATAAAA
* *
1020641 T-ATATACTTTGA-AAAGTTAAAAATAATAA
1 TAATATA-TTTTATAAA-TT-TAAATAA-AA
*
1020670 TAAAATATATTTTATAAATTTAGATAAAA
1 T--AATATATTTTATAAATTTAAATAAAA
* *
1020699 TAATATATATTTA-AATTTTAAATTAAGA
1 TAATATAT-TTTATAAATTTAAA-TAAAA
1020727 TAATA
1 TAATA
1020732 AAAAATTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
27 22 0.30
28 21 0.29
29 11 0.15
30 5 0.07
31 6 0.08
32 8 0.11
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (27 bp):
TAATATATTTTATAAATTTAAATAAAA
Found at i:1021423 original size:31 final size:31
Alignment explanation
Indices: 1021385--1021445 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
1021375 TTGTGGTCAC
*
1021385 ATCTTAATTAAATAAAAACAAAAGTGACCAA
1 ATCTTAATGAAATAAAAACAAAAGTGACCAA
*
1021416 ATCTTAATGAAATAAAAATAAAAGTGACCA
1 ATCTTAATGAAATAAAAACAAAAGTGACCA
1021446 TATATTATGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.57, C:0.11, G:0.08, T:0.23
Consensus pattern (31 bp):
ATCTTAATGAAATAAAAACAAAAGTGACCAA
Found at i:1022415 original size:15 final size:15
Alignment explanation
Indices: 1022395--1022432 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1022385 GGGGTAGTAT
1022395 CGATACCAAGGGTAC
1 CGATACCAAGGGTAC
1022410 CGATACCAAGGGTAC
1 CGATACCAAGGGTAC
*
1022425 TGATACCA
1 CGATACCA
1022433 TAAGTCAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (15 bp):
CGATACCAAGGGTAC
Found at i:1023183 original size:21 final size:21
Alignment explanation
Indices: 1023157--1023201 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1023147 GATTTATGGG
*
1023157 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCATT
*
1023178 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1023199 CAA
1 CAA
1023202 ATGAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1024798 original size:23 final size:23
Alignment explanation
Indices: 1024768--1024827 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
1024758 ATTATTATAT
1024768 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
1024791 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
* *
1024814 GGAACTTCGGTGCA
1 GGCACTACGGTGCA
1024828 TTTATATGAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1027164 original size:16 final size:16
Alignment explanation
Indices: 1027143--1027184 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
1027133 GGTAATTAAA
1027143 GATTGATAATGAATTT
1 GATTGATAATGAATTT
*
1027159 GATTGATTAATGATTTT
1 GATTGA-TAATGAATTT
*
1027176 GAGTGATAA
1 GATTGATAA
1027185 GAACTGATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.43
Consensus pattern (16 bp):
GATTGATAATGAATTT
Found at i:1028102 original size:21 final size:21
Alignment explanation
Indices: 1028076--1028120 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
1028066 GATTTATGGG
*
1028076 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCATT
*
1028097 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
1028118 CAA
1 CAA
1028121 ATGAACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:1029723 original size:23 final size:23
Alignment explanation
Indices: 1029693--1029752 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
1029683 ATTATTATAT
1029693 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
*
1029716 GGCACTACGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
1029739 GGCACTTCGGTGCA
1 GGCACTACGGTGCA
1029753 TTTATATGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.23
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1033210 original size:3 final size:3
Alignment explanation
Indices: 1033148--1033181 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
1033138 ATACCACCAT
*
1033148 AGA A-A AGA AGA AGA AGA AGA AGA GGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG
1033182 GAAGGAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 26 0.93
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1034074 original size:21 final size:21
Alignment explanation
Indices: 1034049--1034091 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1034039 GTACTCTTAA
1034049 AAACATTATAAAATAGTATCT
1 AAACATTATAAAATAGTATCT
*
1034070 AAACATTATAAAATATTATCT
1 AAACATTATAAAATAGTATCT
1034091 A
1 A
1034092 TTCATAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.35
Consensus pattern (21 bp):
AAACATTATAAAATAGTATCT
Found at i:1035162 original size:42 final size:42
Alignment explanation
Indices: 1035112--1035194 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 42
1035102 GTTTGATATC
*
1035112 TGAAAAATATTTTACAGTGTTTGATAGTTGTAATTGATTTTA
1 TGAAAAATATTTTACAGTATTTGATAGTTGTAATTGATTTTA
*
1035154 TGAAAAATATTTTTCAGTATTTGATAGTTGTAATTGATTTT
1 TGAAAAATATTTTACAGTATTTGATAGTTGTAATTGATTTT
1035195 TTCAATGCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (42 bp):
TGAAAAATATTTTACAGTATTTGATAGTTGTAATTGATTTTA
Found at i:1037170 original size:42 final size:42
Alignment explanation
Indices: 1037111--1037193 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
1037101 CTATCTATGC
1037111 ATCTCTTCATTTAAGTTAAGACTCATAAAATAAAACTGATGT
1 ATCTCTTCATTTAAGTTAAGACTCATAAAATAAAACTGATGT
1037153 ATCTCTTCATTTAAGTTAAGACTCATAAAATAAAACTGATG
1 ATCTCTTCATTTAAGTTAAGACTCATAAAATAAAACTGATG
1037194 GAATTATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (42 bp):
ATCTCTTCATTTAAGTTAAGACTCATAAAATAAAACTGATGT
Found at i:1038925 original size:18 final size:16
Alignment explanation
Indices: 1038889--1038920 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1038879 ATTTTTAATA
1038889 AAAAAATATATAAATT
1 AAAAAATATATAAATT
*
1038905 AAAATATATATAAATT
1 AAAAAATATATAAATT
1038921 TTAAATTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAAAATATATAAATT
Found at i:1042309 original size:3 final size:3
Alignment explanation
Indices: 1042295--1042343 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
1042285 TGTGTAACAA
*
1042295 AAT AATT AAT AAT AAT AAT AA- AAT AAAT AAT AAT AAT ATT AAAT AAT
1 AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT
1042342 AA
1 AA
1042344 AAAGAAGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 2 0.05
3 30 0.75
4 8 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1042319 original size:21 final size:20
Alignment explanation
Indices: 1042293--1042341 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
1042283 AATGTGTAAC
1042293 AAAATAATTAATAATAATAAT
1 AAAATAATTAATAATAAT-AT
*
1042314 AAAATAAATAATAATAATAT
1 AAAATAATTAATAATAATAT
*
1042334 TAAATAAT
1 AAAATAAT
1042342 AAAAAGAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATAATTAATAATAATAT
Found at i:1042325 original size:15 final size:16
Alignment explanation
Indices: 1042295--1042343 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1042285 TGTGTAACAA
1042295 AATAATTAAT-AATAAT
1 AATAA-TAATAAATAAT
1042311 AATAA-AATAAATAAT
1 AATAATAATAAATAAT
*
1042326 AATAATATTAAATAAT
1 AATAATAATAAATAAT
1042342 AA
1 AA
1042344 AAAGAAGACC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
14 3 0.10
15 11 0.37
16 16 0.53
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAATAATAAATAAT
Found at i:1042463 original size:22 final size:23
Alignment explanation
Indices: 1042416--1042464 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
1042406 TTCAAAAACT
*
1042416 ATTTTTTAATTGTTATATTAGTTA
1 ATTTTTTAA-TGTTATATTAGATA
1042440 ATTTTTTAA-GTTATAGTT-GATA
1 ATTTTTTAATGTTATA-TTAGATA
1042462 ATT
1 ATT
1042465 GATATAAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 12 0.52
23 2 0.09
24 9 0.39
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (23 bp):
ATTTTTTAATGTTATATTAGATA
Found at i:1049698 original size:31 final size:31
Alignment explanation
Indices: 1049628--1049778 Score: 211
Period size: 31 Copynumber: 4.9 Consensus size: 31
1049618 GAGTTGAGGG
* *
1049628 TTACCTATGT-TCTTCGGAACATATGGACAGAA
1 TTACCTATGTCT-TTCGGGACATATGGACAG-T
1049660 TTACCTATGTCTTTCGGGACATATGGACAGT
1 TTACCTATGTCTTTCGGGACATATGGACAGT
1049691 TTACCTATGTCTTTCGGGACATATGGACAG-
1 TTACCTATGTCTTTCGGGACATATGGACAGT
*
1049721 TTACCTATGTTCTTT-GTGACATATGGACAGT
1 TTACCTATG-TCTTTCGGGACATATGGACAGT
1049752 TTACCTATGT-TCTTCGGGACATATGGA
1 TTACCTATGTCT-TTCGGGACATATGGA
1049779 TAGATTATTA
Statistics
Matches: 110, Mismatches: 4, Indels: 11
0.88 0.03 0.09
Matches are distributed among these distances:
29 1 0.01
30 26 0.24
31 55 0.50
32 27 0.25
33 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (31 bp):
TTACCTATGTCTTTCGGGACATATGGACAGT
Found at i:1049754 original size:61 final size:62
Alignment explanation
Indices: 1049628--1049785 Score: 241
Period size: 61 Copynumber: 2.5 Consensus size: 62
1049618 GAGTTGAGGG
*
1049628 TTACCTATGTTCTTCGGAACATATGGACAGAATTACCTATGTCTTTCGGGACATATGGACAGT
1 TTACCTATGTTCTTCGGGACATATGGACAG-ATTACCTATGTCTTTCGGGACATATGGACAGT
*
1049691 TTACCTATG-TCTTTCGGGACATATGGACAG-TTACCTATGTTCTTT-GTGACATATGGACAGT
1 TTACCTATGTTC-TTCGGGACATATGGACAGATTACCTATG-TCTTTCGGGACATATGGACAGT
*
1049752 TTACCTATGTTCTTCGGGACATATGGATAGATTA
1 TTACCTATGTTCTTCGGGACATATGGACAGATTA
1049786 TTATACGAGC
Statistics
Matches: 88, Mismatches: 3, Indels: 9
0.88 0.03 0.09
Matches are distributed among these distances:
61 50 0.57
62 12 0.14
63 26 0.30
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (62 bp):
TTACCTATGTTCTTCGGGACATATGGACAGATTACCTATGTCTTTCGGGACATATGGACAGT
Found at i:1050421 original size:21 final size:21
Alignment explanation
Indices: 1050397--1050443 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
1050387 GGTCGGAATT
*
1050397 ACTGTAGTAGGGTATCGGTAC
1 ACTGTAGCAGGGTATCGGTAC
1050418 ACTGTAGCAGGGTATCGGTAC
1 ACTGTAGCAGGGTATCGGTAC
1050439 ACTGT
1 ACTGT
1050444 TCACAGTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.28
Consensus pattern (21 bp):
ACTGTAGCAGGGTATCGGTAC
Done.