Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_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: 1228932
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:757381 original size:66 final size:69
Alignment explanation
Indices: 757129--757370 Score: 436
Period size: 69 Copynumber: 3.6 Consensus size: 69
757119 TGTGGCGGGT
*
757129 GCAACAGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGC
1 GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGC
757194 GGCG
66 GGCG
757198 GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGC
1 GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGC
757263 GGCG
66 GGCG
*
757267 GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAG-TG-GG-
1 GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGC
757329 GGCG
66 GGCG
*
757333 GCAACTGGTCTTGGTCATCCTGCAAAGGGTGCGGCAGC
1 GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGC
757371 ATGTCGTGTG
Statistics
Matches: 170, Mismatches: 3, Indels: 3
0.97 0.02 0.02
Matches are distributed among these distances:
66 41 0.24
67 2 0.01
68 1 0.01
69 126 0.74
ACGTcount: A:0.16, C:0.23, G:0.40, T:0.22
Consensus pattern (69 bp):
GCAACTGGTCTTGGTCATCGTGCAAAGGGTGCGGCAGCTCTTCTTGTGGAGGATGCAGCGGCGGC
GGCG
Found at i:758267 original size:17 final size:17
Alignment explanation
Indices: 758245--758278 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
758235 GAATGATATT
758245 TTTGAAAATAAAAATAA
1 TTTGAAAATAAAAATAA
758262 TTTGAAAATAAAAATAA
1 TTTGAAAATAAAAATAA
758279 AAATTTAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (17 bp):
TTTGAAAATAAAAATAA
Found at i:760099 original size:31 final size:31
Alignment explanation
Indices: 760052--760117 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
760042 AGTTACGTCG
* * *
760052 GGGATCATATTGCAAACAGACTAAATGTTGA
1 GGGACCATATTACAAACAGACTAAATATTGA
* *
760083 GGGACCATATTACAAACTGACTAAATATTGG
1 GGGACCATATTACAAACAGACTAAATATTGA
760114 GGGA
1 GGGA
760118 TTGTATTACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.24
Consensus pattern (31 bp):
GGGACCATATTACAAACAGACTAAATATTGA
Found at i:761887 original size:2 final size:2
Alignment explanation
Indices: 761880--761917 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
761870 TCCCATATCA
761880 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
761918 CCCTCTTGCA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:768797 original size:16 final size:16
Alignment explanation
Indices: 768776--768809 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
768766 TAAATAAAAT
768776 TAAAAA-AATAATCAGA
1 TAAAAAGAATAAT-AGA
768792 TAAAAAGAATAATAGA
1 TAAAAAGAATAATAGA
768808 TA
1 TA
768810 CAAACAAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.09, T:0.21
Consensus pattern (16 bp):
TAAAAAGAATAATAGA
Found at i:769273 original size:26 final size:26
Alignment explanation
Indices: 769244--769295 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
769234 AACAAGCAAC
769244 CCATATGATTCTTACAAACCCTAATG
1 CCATATGATTCTTACAAACCCTAATG
769270 CCATATGATTCTTACAAACCCTAATG
1 CCATATGATTCTTACAAACCCTAATG
769296 ATGGAAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
CCATATGATTCTTACAAACCCTAATG
Found at i:770678 original size:11 final size:12
Alignment explanation
Indices: 770662--770690 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
770652 TATGTGAATC
770662 ATATATGAAAAA
1 ATATATGAAAAA
770674 A-ATATGAAAAA
1 ATATATGAAAAA
770685 ATATAT
1 ATATAT
770691 ATGTATTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (12 bp):
ATATATGAAAAA
Found at i:775849 original size:14 final size:14
Alignment explanation
Indices: 775830--775857 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
775820 AATTCAGTTA
775830 TAACCACTTGTGAC
1 TAACCACTTGTGAC
775844 TAACCACTTGTGAC
1 TAACCACTTGTGAC
775858 GGGTTATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
TAACCACTTGTGAC
Found at i:779680 original size:14 final size:14
Alignment explanation
Indices: 779661--779687 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
779651 CATTTTTTTC
779661 TTATTCGAGTCAAG
1 TTATTCGAGTCAAG
779675 TTATTCGAGTCAA
1 TTATTCGAGTCAA
779688 CTCGAATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
TTATTCGAGTCAAG
Found at i:780584 original size:64 final size:64
Alignment explanation
Indices: 780531--780653 Score: 153
Period size: 64 Copynumber: 1.9 Consensus size: 64
780521 GCACAGGTAG
** *
780531 TGCATCGATGCA-CTCTTTTAA-AATAAAAAGATCGAATGCA-ATTAGTGCATCGATGCATAAGG
1 TGCATCGATGCATC-CCATTAATAAT-AAAACATCGAATGCATATTA-TGCATCGATGCATAAGG
780593 CA
63 CA
* *
780595 TGCATCGATGTATCCCATTAATAATAAAACATCGAATGCATTTTATGCATCGATGCATA
1 TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGCATCGATGCATA
780654 CCTTCATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
64 44 0.86
65 7 0.14
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATCCCATTAATAATAAAACATCGAATGCATATTATGCATCGATGCATAAGGCA
Found at i:781062 original size:29 final size:29
Alignment explanation
Indices: 781029--781166 Score: 251
Period size: 29 Copynumber: 4.8 Consensus size: 29
781019 TATGTGATAT
*
781029 GAGAAATGACATGAGTTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
*
781058 GAGAAATGACATGAGTTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
781087 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
781116 GAGAAATGACATGAGCTACATGATCACAA
1 GAGAAATGACATGAGCTACATGATCACAA
781145 GAGAAATGACATGAG-TACATGA
1 GAGAAATGACATGAGCTACATGA
781167 ACATATGGAA
Statistics
Matches: 108, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
28 7 0.06
29 101 0.94
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (29 bp):
GAGAAATGACATGAGCTACATGATCACAA
Found at i:783952 original size:5 final size:5
Alignment explanation
Indices: 783933--783966 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
783923 TTATTAATAT
783933 TCCTC -CCTC -CCTC TCCTC TCCTC TCCTC TCCTC T
1 TCCTC TCCTC TCCTC TCCTC TCCTC TCCTC TCCTC T
783967 TTCTCCCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (5 bp):
TCCTC
Found at i:783988 original size:1 final size:1
Alignment explanation
Indices: 783982--784012 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
783972 CCTCCCAACG
783982 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
784013 AAAAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:791008 original size:21 final size:21
Alignment explanation
Indices: 790983--791024 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
790973 GAAAACCATG
790983 AATTTAGCTGCTGAAGCATAC
1 AATTTAGCTGCTGAAGCATAC
791004 AATTTAGCTGCTGAAGCATAC
1 AATTTAGCTGCTGAAGCATAC
791025 TGAGGTGAAA
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:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (21 bp):
AATTTAGCTGCTGAAGCATAC
Found at i:795235 original size:16 final size:17
Alignment explanation
Indices: 795209--795253 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
795199 TATGGTAGTA
*
795209 AATATTATTTTTA-AAT
1 AATACTATTTTTACAAT
795225 AATTA-TATTTTTACAAT
1 AA-TACTATTTTTACAAT
795242 AATACTATTTTT
1 AATACTATTTTT
795254 TCATCCCATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
AATACTATTTTTACAAT
Found at i:795282 original size:15 final size:15
Alignment explanation
Indices: 795262--795296 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
795252 TTTCATCCCA
*
795262 TAAAATTATAAATAG
1 TAAAATTAAAAATAG
795277 TAAAATTAAAAATAG
1 TAAAATTAAAAATAG
795292 -AAAAT
1 TAAAAT
795297 ATTTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
TAAAATTAAAAATAG
Found at i:796085 original size:24 final size:23
Alignment explanation
Indices: 796044--796089 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
796034 ATTTTGTAAA
* *
796044 AAATTATATAAATTTATAAATTT
1 AAATTATAAAAATATATAAATTT
796067 AAATTAATAAAAATATATAAATT
1 AAATT-ATAAAAATATATAAATT
796090 GAAAAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
AAATTATAAAAATATATAAATTT
Found at i:796094 original size:16 final size:17
Alignment explanation
Indices: 796075--796108 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
796065 TTAAATTAAT
796075 AAAAATATATAA-ATTG
1 AAAAATATATAAGATTG
796091 AAAAATATATAAGATTG
1 AAAAATATATAAGATTG
796108 A
1 A
796109 TAAGGGGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (17 bp):
AAAAATATATAAGATTG
Found at i:799658 original size:52 final size:53
Alignment explanation
Indices: 799599--799704 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
799589 TTATATTCTG
*
799599 CAAAAAACTGAAATAAC-AACGCACTTAATTTCATTGAGCTCTATGTATCTAA
1 CAAAAAACTGAAATAACAAACGCACTTAATTTCATTGAGCTCTAAGTATCTAA
799651 CAAAAAACTGAAATAACAAACGCACTTAATTTCATTGAGCTCTAAGTATCTAA
1 CAAAAAACTGAAATAACAAACGCACTTAATTTCATTGAGCTCTAAGTATCTAA
799704 C
1 C
799705 TGGTAAAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
52 17 0.33
53 35 0.67
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.27
Consensus pattern (53 bp):
CAAAAAACTGAAATAACAAACGCACTTAATTTCATTGAGCTCTAAGTATCTAA
Found at i:809877 original size:22 final size:21
Alignment explanation
Indices: 809832--809886 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
809822 TTAAAAAATT
* *
809832 ATTTAAATTTGAATATAATAAA
1 ATTTAAATTT-AACAAAATAAA
*
809854 ATTTTAAATTTAACAAAATCAA
1 A-TTTAAATTTAACAAAATAAA
809876 ATTTAAATTTA
1 ATTTAAATTTA
809887 TTTGATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 10 0.34
22 10 0.34
23 9 0.31
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTTAAATTTAACAAAATAAA
Found at i:809975 original size:2 final size:2
Alignment explanation
Indices: 809922--809955 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
809912 CGGAGATAAT
809922 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
809956 ACAGTTATAT
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:810259 original size:20 final size:20
Alignment explanation
Indices: 810234--810285 Score: 104
Period size: 20 Copynumber: 2.6 Consensus size: 20
810224 ATCGATAAAT
810234 TTAGAGATCCAACTCTCAAC
1 TTAGAGATCCAACTCTCAAC
810254 TTAGAGATCCAACTCTCAAC
1 TTAGAGATCCAACTCTCAAC
810274 TTAGAGATCCAA
1 TTAGAGATCCAA
810286 TGACATATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.25
Consensus pattern (20 bp):
TTAGAGATCCAACTCTCAAC
Found at i:812489 original size:8 final size:8
Alignment explanation
Indices: 812476--812532 Score: 53
Period size: 8 Copynumber: 7.0 Consensus size: 8
812466 TACACATCAT
812476 TTTGAGAG
1 TTTGAGAG
812484 TTTGAGAG
1 TTTGAGAG
* *
812492 TTTCAAAG
1 TTTGAGAG
*
812500 ATTGAGAG
1 TTTGAGAG
*
812508 TTAGACG-G
1 TTTGA-GAG
812516 TTTGAGAAG
1 TTTGAG-AG
812525 TTTGAGAG
1 TTTGAGAG
812533 ATGTAGTAGA
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
7 1 0.03
8 29 0.76
9 8 0.21
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (8 bp):
TTTGAGAG
Found at i:812518 original size:24 final size:25
Alignment explanation
Indices: 812477--812532 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
812467 ACACATCATT
*
812477 TTGAGAGTTTGAGAGTTTCA-AAGA
1 TTGAGAGTTAGAGAGTTTCAGAAGA
* *
812501 TTGAGAGTTAGACG-GTTTGAGAAGT
1 TTGAGAGTTAGA-GAGTTTCAGAAGA
812526 TTGAGAG
1 TTGAGAG
812533 ATGTAGTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.30, C:0.04, G:0.34, T:0.32
Consensus pattern (25 bp):
TTGAGAGTTAGAGAGTTTCAGAAGA
Found at i:812849 original size:23 final size:23
Alignment explanation
Indices: 812823--812867 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
812813 ATTTTGATAA
*
812823 AATAATTGAATATTTAAA-AAATC
1 AATAATTAAATA-TTAAATAAATC
812846 AATAATTAAATATTAAATAAAT
1 AATAATTAAATATTAAATAAAT
812868 ATAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (23 bp):
AATAATTAAATATTAAATAAATC
Found at i:819611 original size:18 final size:19
Alignment explanation
Indices: 819571--819608 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
819561 TGGTTCACGT
819571 AATGTAAGATTATCAGTGGG
1 AATGTAAGATTATCAG-GGG
819591 AATGTAAGATTATCAGGG
1 AATGTAAGATTATCAGGG
819609 AATAGGATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.37, C:0.05, G:0.29, T:0.29
Consensus pattern (19 bp):
AATGTAAGATTATCAGGGG
Found at i:820371 original size:29 final size:29
Alignment explanation
Indices: 820338--820395 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
820328 GGTGATCTAA
820338 GCGTTTTCGATTATTGTGTGATTCAAACG
1 GCGTTTTCGATTATTGTGTGATTCAAACG
820367 GCGTTTTCGATTATTGTGTGATTCAAACG
1 GCGTTTTCGATTATTGTGTGATTCAAACG
820396 TTTTCTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.14, G:0.24, T:0.41
Consensus pattern (29 bp):
GCGTTTTCGATTATTGTGTGATTCAAACG
Found at i:821757 original size:18 final size:16
Alignment explanation
Indices: 821734--821779 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
821724 TGTTTATGAG
*
821734 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTAT--A
*
821752 GGAATTGTAATCTATA
1 GGAATTGGAATCTATA
821768 GGAATTGGAATC
1 GGAATTGGAATC
821780 CAATTCCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 12 0.48
18 13 0.52
ACGTcount: A:0.35, C:0.07, G:0.28, T:0.30
Consensus pattern (16 bp):
GGAATTGGAATCTATA
Found at i:822228 original size:17 final size:17
Alignment explanation
Indices: 822206--822252 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
822196 TCAAAATAAT
*
822206 AATAAAAAAATTTATTC
1 AATAAAAAAATTGATTC
* *
822223 AATAAAAACATTGATTT
1 AATAAAAAAATTGATTC
822240 AATTAAAAAAATT
1 AA-TAAAAAAATT
822253 ATATATAGAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
17 16 0.64
18 9 0.36
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (17 bp):
AATAAAAAAATTGATTC
Found at i:822416 original size:27 final size:28
Alignment explanation
Indices: 822359--822420 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
822349 AACCCGACCT
822359 GACCCGAATATCACACTTAAAAAAACCC
1 GACCCGAATATCACACTTAAAAAAACCC
822387 GACCCGAATATCACACTT-AAAAAACCC
1 GACCCGAATATCACACTTAAAAAAACCC
822414 GACCCGA
1 GACCCGA
822421 CCTGAACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 16 0.47
28 18 0.53
ACGTcount: A:0.44, C:0.34, G:0.10, T:0.13
Consensus pattern (28 bp):
GACCCGAATATCACACTTAAAAAAACCC
Found at i:822647 original size:37 final size:37
Alignment explanation
Indices: 822588--822677 Score: 144
Period size: 37 Copynumber: 2.4 Consensus size: 37
822578 CCTAAACCCG
*
822588 ACCCGACCTGACCCGACACGAATATCACACTTAAAAA
1 ACCCGACCCGACCCGACACGAATATCACACTTAAAAA
* *
822625 ACCCGACCCGACTCGACCCGAATATCACACTTAAAAA
1 ACCCGACCCGACCCGACACGAATATCACACTTAAAAA
*
822662 ACCCGACCCTACCCGA
1 ACCCGACCCGACCCGA
822678 ACAAAATAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.37, C:0.40, G:0.11, T:0.12
Consensus pattern (37 bp):
ACCCGACCCGACCCGACACGAATATCACACTTAAAAA
Found at i:822924 original size:37 final size:38
Alignment explanation
Indices: 822846--822927 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
822836 TTCACCCTAA
* *
822846 ACCCGACCCGACCCGAATATTACACTTAAAAAAGCCCG
1 ACCCGACACGACCCGAATATCACACTTAAAAAAGCCCG
822884 ACCCGACACGACCCGAATATCACACTTAAAAAA-CCCG
1 ACCCGACACGACCCGAATATCACACTTAAAAAAGCCCG
822921 ACCCGAC
1 ACCCGAC
822928 CCGAACAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
37 11 0.26
38 31 0.74
ACGTcount: A:0.38, C:0.39, G:0.12, T:0.11
Consensus pattern (38 bp):
ACCCGACACGACCCGAATATCACACTTAAAAAAGCCCG
Found at i:823064 original size:253 final size:250
Alignment explanation
Indices: 822300--823116 Score: 1130
Period size: 254 Copynumber: 3.2 Consensus size: 250
822290 TATAAGGTAA
* *
822300 AATTATATATTTTTTTCGGGTCGGTCCCG-TTTTTTTCACCCTAAACCGGAACCCGACCTGACCC
1 AATTATATA-TATTTTCGGGTCGGT-CCGATTTTTTTCACCCT--A----AACCCGACCCGACCC
822364 GAATATCACACTTAAAAAA----A--C--C-CGACCCGAATATCACACTTAAAAAACCCGACCCG
58 GAATATCACACTTAAAAAACCCGACCCGACACGACCCGAATATCACACTTAAAAAACCCGACCCG
* *
822420 ACCTGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATT----CGATCC
123 ACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATTCACCCGACCC
*
822481 GACTTGAAATAATAAAAAA-A-TTTTATTTAAT-AAAACAGTGACTTAATCCGACCCGACCCG
188 GACTCGAAATAATAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
822541 AATTATATATATTTTCGGGTCGGTCCGA-TTTTTTCACCCTAAACCCGACCCGACCTGACCCGAC
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGA--C--CC-GA--C--C
*
822605 ACGAATATCACACTTAAAAAACCCGACCCGACTCGACCCGAATATCACACTTAAAAAACCCGACC
57 -CGAATATCACACTTAAAAAACCCGACCCGACACGACCCGAATATCACACTTAAAAAACCCGACC
* *
822670 CTACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCCGA
121 CGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATTC-ACCCGA
* *
822735 CCCGACCCGAAATAATAAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTAATCCGACCCGAC
185 CCCGACTCGAAATAAT--AAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGAC
822800 CCG
248 CCG
* * *
822803 AATTATATATATTTTCGGGTCGATCTGATTTTTTTCACCCTAAACCCGACCCGACCCGAATATTA
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGACCCGACCCGAATATCA
822868 CACTTAAAAAAGCCCGACCCGACACGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAA
66 CACTTAAAAAA-CCCGACCCGACACGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAA
*
822933 CAAAATAAAGTTTCATCCGACCCGACCCGAATATATAAATTAGAAATTCAACCCGACCCGACTCG
130 CAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATTC-ACCCGACCCGACTCG
822998 AAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
194 AAATAATAAAAAA-TATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
* * *
823056 ATTTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCTAAACCTGAACCCGACCCGAA
1 AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCG-ACCCGACCCGAA
823117 CAAAATAAAG
Statistics
Matches: 518, Mismatches: 24, Indels: 55
0.87 0.04 0.09
Matches are distributed among these distances:
233 7 0.01
235 1 0.00
237 2 0.00
238 2 0.00
239 15 0.03
240 15 0.03
241 9 0.02
242 1 0.00
243 20 0.04
247 1 0.00
249 1 0.00
251 1 0.00
252 92 0.18
253 105 0.20
254 132 0.25
256 1 0.00
257 16 0.03
258 2 0.00
259 8 0.02
260 1 0.00
261 11 0.02
262 55 0.11
263 20 0.04
ACGTcount: A:0.36, C:0.28, G:0.12, T:0.24
Consensus pattern (250 bp):
AATTATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGACCCGACCCGAATATCA
CACTTAAAAAACCCGACCCGACACGACCCGAATATCACACTTAAAAAACCCGACCCGACCCGAAC
AAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATTCACCCGACCCGACTCGAA
ATAATAAAAAATATTTTTATTTAATAAAAACAGTGACTTAATCCGACCCGACCCG
Found at i:823124 original size:184 final size:184
Alignment explanation
Indices: 822914--823299 Score: 639
Period size: 184 Copynumber: 2.1 Consensus size: 184
822904 CACACTTAAA
822914 AAACCCG-ACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATAAATTAGAA
1 AAACCCGAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATAAATTAGAA
* * * *
822978 ATTCAACCCGACCCGACTCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTAAT
66 ATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTAAT
* * *
823043 CCGACCCGACCCGATTTATATATATTTTCGGGTCGGTCCGGTTTTTTTCACCCT
131 CCGACCCGACCCGAATTATATATATTTTCGGGTCGATCCGATTTTTTTCACCCT
* *
823097 AAACCTGAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAA
1 AAACCCGAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATAAATTAGAA
* * * * *
823162 ATCCGACCTGACTCGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAATAGTGACTTATT
66 ATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTAAT
823227 CCGACCCGACCCGAATTATATATATTTTCGGGTCGATCCGATTTTTTTCACCCT
131 CCGACCCGACCCGAATTATATATATTTTCGGGTCGATCCGATTTTTTTCACCCT
823281 AAACCCGAACCCGACCCGA
1 AAACCCGAACCCGACCCGA
823300 CCCGAATATC
Statistics
Matches: 187, Mismatches: 15, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
183 6 0.03
184 181 0.97
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (184 bp):
AAACCCGAACCCGACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATAAATTAGAA
ATCCAACCCGACCCGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTAAT
CCGACCCGACCCGAATTATATATATTTTCGGGTCGATCCGATTTTTTTCACCCT
Found at i:823510 original size:221 final size:222
Alignment explanation
Indices: 823110--823529 Score: 682
Period size: 226 Copynumber: 1.9 Consensus size: 222
823100 CCTGAACCCG
* * *
823110 ACCCGAACAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAATCCGACCTGACT
1 ACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAACCTGACC
*
823175 CGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAATAGTGACTTATTCCGACCCGACCCG
66 CGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTA---C-ACCCGACCCG
*
823240 AATTATATATATTTTCGGGTCGATCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCGA
127 AATTATATATATTTTCGGGTCGATCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCAA
823305 ATATCACACTTAAAAAACCCGACCCGACCAT
192 ATATCACACTTAAAAAACCCGACCCGACCAT
*
823336 ACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATTCAATCC-GAC
1 ACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAA-CCTGAC
* * * *
823400 CCGACCCGAAATAATAAAAAATTATTTTTATTTAATAAAAACAGTGACTTA-ATCCGACCTGAAT
65 CCGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTACACCCGACCCGAAT
*
823464 TATATATATTTTCGGGTCGGTCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCAAATA
130 TATATATATTTTCGGGTCGATCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCAAATA
823529 T
195 T
823530 ATGAATTAGA
Statistics
Matches: 182, Mismatches: 11, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
221 75 0.41
226 105 0.58
227 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (222 bp):
ACCCGAACAAAATAAAGTTTCATCCAACCCGACCCGAATATATGAATTAGAAATCCAACCTGACC
CGACCCGAAATAATAAAAAAATATTTTTATTTAAGAAAAACAGTGACTTACACCCGACCCGAATT
ATATATATTTTCGGGTCGATCCGATTTTTTTCACCCTAAACCCGAACCCGACCCGACCCAAATAT
CACACTTAAAAAACCCGACCCGACCAT
Found at i:823782 original size:26 final size:26
Alignment explanation
Indices: 823746--823805 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
823736 CGATAGAATT
823746 GGATTCCAATTTCC-ACCAATTCCAAG
1 GGATTCCAA-TTCCTACCAATTCCAAG
*
823772 GGATTCCAATTCCTACCAATTTCAAG
1 GGATTCCAATTCCTACCAATTCCAAG
823798 GGATTCCA
1 GGATTCCA
823806 TCCAACCAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (26 bp):
GGATTCCAATTCCTACCAATTCCAAG
Found at i:831494 original size:29 final size:30
Alignment explanation
Indices: 831423--831503 Score: 96
Period size: 29 Copynumber: 2.7 Consensus size: 30
831413 GTCTGCATGT
*
831423 GCCATGCACGTCCCCAAC-ACCCAACACAGGTC
1 GCCATGCAC-T-CCCAACGA-CCTACACAGGTC
831455 GCCATGC-CTCCCAACGACCTACA-AGGTC
1 GCCATGCACTCCCAACGACCTACACAGGTC
*
831483 GCCATGCACTCCCAGCGACCT
1 GCCATGCACTCCCAACGACCT
831504 TGTAGGTCGC
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
28 12 0.27
29 23 0.51
30 2 0.04
31 1 0.02
32 7 0.16
ACGTcount: A:0.25, C:0.46, G:0.17, T:0.12
Consensus pattern (30 bp):
GCCATGCACTCCCAACGACCTACACAGGTC
Found at i:831510 original size:29 final size:29
Alignment explanation
Indices: 831450--831533 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
831440 CACCCAACAC
*
831450 AGGTCGCCATGC-CTCCCAACGACCTACA
1 AGGTCGCCATGCACTCCCAGCGACCTACA
***
831478 AGGTCGCCATGCACTCCCAGCGACCTTGT
1 AGGTCGCCATGCACTCCCAGCGACCTACA
* * *
831507 AGGTCGCCAAGCAGTCCCGGCGACCTA
1 AGGTCGCCATGCACTCCCAGCGACCTA
831534 TGGCCATTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 12 0.26
29 35 0.74
ACGTcount: A:0.21, C:0.39, G:0.24, T:0.15
Consensus pattern (29 bp):
AGGTCGCCATGCACTCCCAGCGACCTACA
Found at i:831780 original size:29 final size:29
Alignment explanation
Indices: 831732--831839 Score: 153
Period size: 29 Copynumber: 3.7 Consensus size: 29
831722 AACCAAGCTT
* * * ***
831732 GGTCGCCGGGACTGCTTGGCGACCTACAA
1 GGTCGCTGGGAGTGCATGGCGACCTTGTA
831761 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCATGGCGACCTTGTA
831790 GGTCGCTGGGAGTGCATGGCGACCTTGTA
1 GGTCGCTGGGAGTGCATGGCGACCTTGTA
*
831819 GGTCGCTAGGAGTGCATGGCG
1 GGTCGCTGGGAGTGCATGGCG
831840 GCCTGTGTTG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 72 1.00
ACGTcount: A:0.15, C:0.23, G:0.41, T:0.21
Consensus pattern (29 bp):
GGTCGCTGGGAGTGCATGGCGACCTTGTA
Found at i:831868 original size:32 final size:31
Alignment explanation
Indices: 831827--831907 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 31
831817 TAGGTCGCTA
* * *
831827 GGAGTGCATGGCGGCCTGTGTTGGGGTGTTGG
1 GGAGTGCATGGCGACATGTGTT-GAGTGTTGG
*
831859 GGAGTGCATGGAGACATGTGTTGAGTGTTGG
1 GGAGTGCATGGCGACATGTGTTGAGTGTTGG
831890 GGACGTGCATGGC-ACATG
1 GGA-GTGCATGGCGACATG
831908 CAGACGTCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 16 0.37
32 27 0.63
ACGTcount: A:0.15, C:0.12, G:0.47, T:0.26
Consensus pattern (31 bp):
GGAGTGCATGGCGACATGTGTTGAGTGTTGG
Found at i:831907 original size:31 final size:32
Alignment explanation
Indices: 831843--831907 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
831833 CATGGCGGCC
* *
831843 TGTGTTGGGGTGTTGGGGAGTGCATGGAGACA
1 TGTGTTGGAGTGTTGGGGAGTGCATGGACACA
831875 TGTGTT-GAGTGTTGGGGACGTGCATGG-CACA
1 TGTGTTGGAGTGTTGGGGA-GTGCATGGACACA
831906 TG
1 TG
831908 CAGACGTCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.15, C:0.09, G:0.46, T:0.29
Consensus pattern (32 bp):
TGTGTTGGAGTGTTGGGGAGTGCATGGACACA
Found at i:833601 original size:20 final size:20
Alignment explanation
Indices: 833578--833616 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
833568 AAATATAATT
*
833578 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
833598 AAATATCACTAAAACAATA
1 AAATAAAACTAAAACAATA
833617 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:834754 original size:16 final size:16
Alignment explanation
Indices: 834713--834754 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
834703 ACCGTTGGCT
834713 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
* *
834729 GAGACTGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
834745 GAGGCGGCTG
1 GAGGCGGCTG
834755 TGCATGGGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.19, C:0.19, G:0.52, T:0.10
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:834892 original size:3 final size:3
Alignment explanation
Indices: 834884--834967 Score: 168
Period size: 3 Copynumber: 28.0 Consensus size: 3
834874 ATATATATAT
834884 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
834932 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
834968 TGAGTAAAAA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 81 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:835361 original size:114 final size:113
Alignment explanation
Indices: 835220--836319 Score: 1644
Period size: 114 Copynumber: 9.6 Consensus size: 113
835210 GCTTTTGATG
*
835220 AATTCTTCTCATTATGAACTT-TCTCTTCTTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 AATTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
** * * * *
835284 CTGAAAAAAATAACCCATCAAGTAATAGATTTGAG-CAAAAAGGTTGAACA
65 CTGGCAAAAATAATCCATCAAGTGAT-GAATTCAGAC-AAAAGGTTGAACA
835334 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
835399 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
66 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
*
835447 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTTT
* * * *
835512 CTCTGG-AAAAGCTAATCCATCAATTTGATGAATTCAAATAAAAGGTTGAACA
63 CTCTGGCAAAA-ATAATCCATCAA-GTGATGAATTCAGACAAAAGGTTGAACA
*
835564 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTGTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
835629 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
66 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
835677 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
835741 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
66 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
* *
835789 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAATTATTCTCATTATGAAC-TTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
*
835853 TGGCAAAAATAATCCATCAAGTGATGAATTCAGATAAAAGGTTGAACA
66 TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
*
835901 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTATGAAC-TT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAACTTT
** * *
835965 CTCTGGCAAAGCTAATCCATCAATTTGATGAATTCA-AGCAAAAGATTGAACA
63 CTCTGGCAAAAATAATCCATCAA-GTGATGAATTCAGA-CAAAAGGTTGAACA
836017 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T
* * * *
836082 AC-CTGGCAAAGATAATCCATCAACTTGATGAATTCAGAAAAAAGGTTGAACA
62 TCTCTGGCAAAAATAATCCATCAA-GTGATGAATTCAGACAAAAGGTTGAACA
*
836134 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * * * ** *
836199 TGG-AAAAGACTGATTCATCAAATGATGGATTCGGGTAAAAGATTGAACA
66 TGGCAAAA-A-TAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
836248 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
836313 TGG-AAAA
66 TGGCAAAA
836320 GCTAATCTTT
Statistics
Matches: 916, Mismatches: 48, Indels: 44
0.91 0.05 0.04
Matches are distributed among these distances:
112 196 0.21
113 145 0.16
114 245 0.27
115 65 0.07
116 119 0.13
117 143 0.16
118 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (113 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGCAAAAATAATCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
Found at i:835516 original size:230 final size:229
Alignment explanation
Indices: 835220--836319 Score: 1619
Period size: 230 Copynumber: 4.8 Consensus size: 229
835210 GCTTTTGATG
* *
835220 AATTCTTCTCATTATGAACTT-TCTCTTCTTTCTTC--A-GATGAGTTCTTCTCATTATGAACTT
1 AATTCTTCTCATTATGAACTTCT-TCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCT
* * * * *
835281 TCTCTGAAAAAAATAACCCATCAAGTAATAGATTTGAGCAAAAAGGTTGAACAAATTCTTCTCAT
65 TCTCTGGAAAAACTAATCCATCAAGTGAT-GATTTCAGCAAAAAGGTTGAACAAATTCTTCTCAT
835346 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAA
129 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAA
835411 TCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
194 TCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
835447 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
* * * *
835512 CTCTGGAAAAGCTAATCCATCAATTTGATGAATTCA-AATAAAAGGTTGAACAAATTCTTCTCAT
66 CTCTGGAAAAACTAATCCATCAA-GTGATGATTTCAGCA-AAAAGGTTGAACAAATTCTTCTCAT
*
835576 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTGTCATTATGAACTTTCTCTGGCAAAAATAA
129 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAA
835641 TCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
194 TCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
835677 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTC--A-GATGAGTTCTTCTCATTATGAA-CTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
*
835738 CTCTGGCAAAAA-TAATCCATCAAGTGATGAATTCAG-ACAAAAGGTTGAACAAATTCTTCTCAT
66 CTCTGG-AAAAACTAATCCATCAAGTGATGATTTCAGCA-AAAAGGTTGAACAAATTCTTCTCAT
* *
835801 TATGAACTTCTTCTTCCTTCTTCAGATGAATTATTCTCATTATGAAC-TTCTCTGGCAAAAATAA
129 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAA
*
835865 TCCATCAAGTGATGAATTCAGATAAAAGGTTGAACA
194 TCCATCAAGTGATGAATTCAGACAAAAGGTTGAACA
*
835901 AATTCTTCTCATTATGAACTTCTTCTTCCTCCTTCAGATGATGAGTTCTTCTCATTATGAA-CTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
* * * * *
835965 CTCTGGCAAAGCTAATCCATCAATTTGATGAATTCAAGC-AAAAGATTGAACAAATTCTTCTCAT
66 CTCTGGAAAAACTAATCCATCAA-GTGATGATTTC-AGCAAAAAGGTTGAACAAATTCTTCTCAT
* *
836029 TATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-CTGGCAAAG
129 TATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-TTCTCTGGCAAAA
* *
836093 ATAATCCATCAACTTGATGAATTCAGAAAAAAGGTTGAACA
190 ATAATCCATCAA-GTGATGAATTCAGACAAAAGGTTGAACA
*
836134 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT-A--AGTTCTTCTCATTATGAACTTT
1 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
* * * * ** *
836196 CTCTGGAAAAGACTGATTCATCAAATGATGGA-TTCGGGTAAAAGATTGAACAAATTCTTCTCAT
66 CTCTGGAAAA-ACTAATCCATCAAGTGAT-GATTTCAGCAAAAAGGTTGAACAAATTCTTCTCAT
836260 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG-AAAA
129 TATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAA
836320 GCTAATCTTT
Statistics
Matches: 806, Mismatches: 41, Indels: 52
0.90 0.05 0.06
Matches are distributed among these distances:
224 86 0.11
225 81 0.10
226 24 0.03
227 105 0.13
228 88 0.11
229 4 0.00
230 228 0.28
231 91 0.11
232 33 0.04
233 66 0.08
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (229 bp):
AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGATGAGTTCTTCTCATTATGAACCTT
CTCTGGAAAAACTAATCCATCAAGTGATGATTTCAGCAAAAAGGTTGAACAAATTCTTCTCATTA
TGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGGCAAAAATAATC
CATCAAGTGATGAATTCAGACAAAAGGTTGAACA
Found at i:837152 original size:83 final size:83
Alignment explanation
Indices: 837061--837619 Score: 1003
Period size: 83 Copynumber: 6.7 Consensus size: 83
837051 GTAGTTCTTA
837061 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
837126 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
837144 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
837209 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
837227 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
837292 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
837310 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCA
837374 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * *
837393 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
837458 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * *
837476 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
837541 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
837559 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTT
837620 TCATTTAATG
Statistics
Matches: 462, Mismatches: 12, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
82 2 0.00
83 459 0.99
84 1 0.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCAAATTCATCTTCCAA
ATTCAATGATTGGTTCTG
Found at i:838664 original size:9 final size:9
Alignment explanation
Indices: 838652--838711 Score: 81
Period size: 9 Copynumber: 6.9 Consensus size: 9
838642 CTTGACCCCC
838652 TTTTTC-TT
1 TTTTTCTTT
838660 TTTTTCTTT
1 TTTTTCTTT
838669 TTTTTC--T
1 TTTTTCTTT
*
838676 TTTCTCTTT
1 TTTTTCTTT
838685 TTTTTCTTT
1 TTTTTCTTT
838694 TTTTTCTTT
1 TTTTTCTTT
838703 CTTTTTCTT
1 -TTTTTCTT
838712 CAAGAATAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
7 6 0.13
8 6 0.13
9 26 0.57
10 8 0.17
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:838686 original size:25 final size:23
Alignment explanation
Indices: 838651--838702 Score: 86
Period size: 25 Copynumber: 2.2 Consensus size: 23
838641 CCTTGACCCC
838651 CTTTTTCTTTTTTTCTTTTTTTT
1 CTTTTTCTTTTTTTCTTTTTTTT
838674 CTTTTCTCTTTTTTTTCTTTTTTTT
1 CTTTT-TC-TTTTTTTCTTTTTTTT
838699 CTTT
1 CTTT
838703 CTTTTTCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 5 0.19
24 2 0.07
25 20 0.74
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (23 bp):
CTTTTTCTTTTTTTCTTTTTTTT
Found at i:838703 original size:24 final size:24
Alignment explanation
Indices: 838658--838708 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 24
838648 CCCCTTTTTC
838658 TTTTTTTCTTTTTTTTCTTTTCTCT
1 TTTTTTTCTTTTTTTTCTTTTCT-T
838683 TTTTTTTCTTTTTTTTC-TTTCTT
1 TTTTTTTCTTTTTTTTCTTTTCTT
838706 TTT
1 TTT
838709 CTTCAAGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 4 0.15
24 5 0.19
25 17 0.65
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (24 bp):
TTTTTTTCTTTTTTTTCTTTTCTT
Found at i:850137 original size:20 final size:20
Alignment explanation
Indices: 850114--850152 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
850104 AAATATAATT
*
850114 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
850134 AAATATCACTAAAACAATA
1 AAATAAAACTAAAACAATA
850153 TATATTTTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:851254 original size:16 final size:16
Alignment explanation
Indices: 851229--851270 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
851219 ACCGTTGGCT
851229 GAGGCGGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
*
851245 GAGGCTGCTGGAGGCA
1 GAGGCGGCTGGAGGCA
851261 GAGGCGGCTG
1 GAGGCGGCTG
851271 TGCATGGGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.17, C:0.19, G:0.55, T:0.10
Consensus pattern (16 bp):
GAGGCGGCTGGAGGCA
Found at i:851413 original size:3 final size:3
Alignment explanation
Indices: 851405--851493 Score: 133
Period size: 3 Copynumber: 29.7 Consensus size: 3
851395 TATATATATT
* *
851405 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
851453 TAA AAA TAT TTA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
851494 TGAGTAAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:851441 original size:30 final size:30
Alignment explanation
Indices: 851405--851490 Score: 163
Period size: 30 Copynumber: 2.9 Consensus size: 30
851395 TATATATATT
851405 TAATAATAATAATAATAATAATAATATTTA
1 TAATAATAATAATAATAATAATAATATTTA
*
851435 TAATAATAATAATAATAATAAAAATATTTA
1 TAATAATAATAATAATAATAATAATATTTA
851465 TAATAATAATAATAATAATAATAATA
1 TAATAATAATAATAATAATAATAATA
851491 ATATGAGTAA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
TAATAATAATAATAATAATAATAATATTTA
Found at i:872443 original size:15 final size:16
Alignment explanation
Indices: 872396--872435 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
872386 ACCCTGCACA
* *
872396 AAAATAAATGAGAAAT
1 AAAATAAATTAAAAAT
872412 -AAATAAATTAAAAAT
1 AAAATAAATTAAAAAT
872427 AAAATAAAT
1 AAAATAAAT
872436 AATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAATAAATTAAAAAT
Found at i:872486 original size:25 final size:24
Alignment explanation
Indices: 872443--872490 Score: 62
Period size: 27 Copynumber: 1.9 Consensus size: 24
872433 AATAATAATA
872443 ATATATATATAAACGTTTTCAAAAAC
1 ATATATATATAAAC-TTTT-AAAAAC
872469 ATATAATATATAAA-TTTTAAAA
1 ATAT-ATATATAAACTTTTAAAA
872491 TGTTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 4 0.19
25 4 0.19
26 4 0.19
27 9 0.43
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (24 bp):
ATATATATATAAACTTTTAAAAAC
Found at i:872629 original size:27 final size:25
Alignment explanation
Indices: 872594--872695 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 25
872584 AGTATATATT
*
872594 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
872620 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
*
872645 ATATAT-TT-TCAAAATGGTTTTTAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAA
872671 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
872696 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
22 1 0.02
23 5 0.08
24 5 0.08
25 10 0.16
26 10 0.16
27 17 0.28
28 9 0.15
29 4 0.07
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:872633 original size:36 final size:37
Alignment explanation
Indices: 872513--872644 Score: 146
Period size: 36 Copynumber: 3.6 Consensus size: 37
872503 AAAAAAAAAC
* * * *
872513 TATA-TATATGTATTTTCAAAATGGTTTTTAAAAATTA
1 TATATTATATATATTTTCAAAA-CGTTTTCAAAAACTA
* * *
872550 TATATTATATAAATGTTTTCATAACGTTTTC-AAAAGTA
1 TATATTATAT--ATATTTTCAAAACGTTTTCAAAAACTA
872588 TATATTATATATATTTT-AAAACGTTTTCAAAAACTA
1 TATATTATATATATTTTCAAAACGTTTTCAAAAACTA
872624 TATATTATATA-ATTTTCAAAA
1 TATATTATATATATTTTCAAAA
872645 ATATATTTTC
Statistics
Matches: 81, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
35 15 0.19
36 27 0.33
37 4 0.05
38 21 0.26
39 5 0.06
40 9 0.11
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATTATATATATTTTCAAAACGTTTTCAAAAACTA
Found at i:872654 original size:14 final size:15
Alignment explanation
Indices: 872630--872658 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
872620 ACTATATATT
872630 ATATAATTTTCAAAA
1 ATATAATTTTCAAAA
872645 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
872659 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAATTTTCAAAA
Found at i:872688 original size:125 final size:122
Alignment explanation
Indices: 872523--872770 Score: 460
Period size: 125 Copynumber: 2.0 Consensus size: 122
872513 TATATATATG
872523 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
1 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
*
872588 TATATTATATATATTTTAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATA
66 TATATTATATAT-TTTAAAAACGTTTTCAAAAAC--TATATTATATAATTTTCAAAAATA
872648 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
1 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
872713 TATATTATATATTTTAAAAACGTTTTCAAAAACTATATTATATAATTTTCAAAAATA
66 TATATTATATATTTTAAAAACGTTTTCAAAAACTATATTATATAATTTTCAAAAATA
872770 T
1 T
872771 TTTAAAAACT
Statistics
Matches: 122, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
122 25 0.20
124 20 0.16
125 77 0.63
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (122 bp):
TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
TATATTATATATTTTAAAAACGTTTTCAAAAACTATATTATATAATTTTCAAAAATA
Found at i:872740 original size:34 final size:33
Alignment explanation
Indices: 872697--872819 Score: 115
Period size: 35 Copynumber: 3.6 Consensus size: 33
872687 ATGTTTTCAT
872697 AACGTTTTCAAAAGTATATATTATATATTTTAAA
1 AACGTTTTCAAAA-TATATATTATATATTTTAAA
872731 AACGTTTTCAAAA-ACTATATTATATAATTTTCAAA
1 AACGTTTTCAAAATA-TATATTATAT-ATTTT-AAA
** * * *
872766 AATATTTTAAAAACTATATATATACATATTTCAAA
1 AACGTTTTCAAAA-TATATAT-TATATATTTTAAA
* *
872801 AATGTTTT-AAACTATATAT
1 AACGTTTTCAAAATATATAT
872820 GTATTTTCAA
Statistics
Matches: 76, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
32 1 0.01
33 17 0.22
34 21 0.28
35 23 0.30
36 9 0.12
37 5 0.07
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.42
Consensus pattern (33 bp):
AACGTTTTCAAAATATATATTATATATTTTAAA
Found at i:872755 original size:33 final size:33
Alignment explanation
Indices: 872713--872833 Score: 133
Period size: 35 Copynumber: 3.7 Consensus size: 33
872703 TTCAAAAGTA
872713 TATATTATATATTTT-AAAAACGTTTTCAAAAAC
1 TATATTATATATTTTCAAAAACGTTTT-AAAAAC
**
872746 TATATTATATAATTTTCAAAAATATTTTAAAAAC
1 TATATTATAT-ATTTTCAAAAACGTTTTAAAAAC
* *
872780 TATATATATACATATTTCAAAAATGTTTT--AAAC
1 TATAT-TATATAT-TTTCAAAAACGTTTTAAAAAC
*
872813 TATA-TATGTATTTTCAAAAAC
1 TATATTATATATTTTCAAAAAC
872834 AATTTGCAAA
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
30 9 0.12
31 5 0.06
33 18 0.23
34 18 0.23
35 27 0.35
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (33 bp):
TATATTATATATTTTCAAAAACGTTTTAAAAAC
Found at i:872767 original size:35 final size:34
Alignment explanation
Indices: 872713--872833 Score: 130
Period size: 33 Copynumber: 3.7 Consensus size: 34
872703 TTCAAAAGTA
872713 TATATTATAT-ATTTT-AAAAACGTTTTCAAAAAC
1 TATATTATATAATTTTCAAAAACGTTTT-AAAAAC
**
872746 TATATTATATAATTTTCAAAAATATTTTAAAAAC
1 TATATTATATAATTTTCAAAAACGTTTTAAAAAC
*
872780 TATA-TATATACATATTTCAAAAATGTTTT--AAAC
1 TATATTATATA-AT-TTTCAAAAACGTTTTAAAAAC
*
872813 TATA-TATGT-ATTTTCAAAAAC
1 TATATTATATAATTTTCAAAAAC
872834 AATTTGCAAA
Statistics
Matches: 79, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
30 9 0.11
31 2 0.03
33 28 0.35
34 17 0.22
35 23 0.29
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.43
Consensus pattern (34 bp):
TATATTATATAATTTTCAAAAACGTTTTAAAAAC
Found at i:873486 original size:84 final size:84
Alignment explanation
Indices: 873345--873548 Score: 360
Period size: 84 Copynumber: 2.5 Consensus size: 84
873335 TTCTGATTAG
873345 AATCGAACTCGACAGTTTTGTTGACAGATAGCCCTTCTTGCATTGAGCTATTCTGTAAGCTTGAT
1 AATCGAACTCGACAGTTTTGTTGACAGATAGCCCTTCTTGCATTGAGCTATTCTGTAAGCTTGAT
873410 TTGCCTCTAAGTTGAATAT
66 TTGCCTCTAAGTTGAATAT
873429 AATCGAACTCGACAGTTTTGTTGACAGATAGCCCTTCTTGCATTGAGCTATTCTGTAAGCTTGAT
1 AATCGAACTCGACAGTTTTGTTGACAGATAGCCCTTCTTGCATTGAGCTATTCTGTAAGCTTGAT
873494 TTGCCTCTAAGTTGAATAT
66 TTGCCTCTAAGTTGAATAT
* *
873513 AATCGAACTCGA-AGGTCT-TT-AGCAGATAGCCCTTCT
1 AATCGAACTCGACAGTTTTGTTGA-CAGATAGCCCTTCT
873549 CGACTTAAGC
Statistics
Matches: 117, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
81 1 0.01
82 16 0.14
83 4 0.03
84 96 0.82
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.35
Consensus pattern (84 bp):
AATCGAACTCGACAGTTTTGTTGACAGATAGCCCTTCTTGCATTGAGCTATTCTGTAAGCTTGAT
TTGCCTCTAAGTTGAATAT
Found at i:873707 original size:165 final size:166
Alignment explanation
Indices: 873512--874442 Score: 1268
Period size: 165 Copynumber: 5.6 Consensus size: 166
873502 AAGTTGAATA
** * * *
873512 TAATCGAACTCGAAGGTCTTTAG-CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCGGGGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
*
873576 GCCTTGGAGCTGAGCGGAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
873641 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * *
873677 TAATCGAACTCGGGGGTCTTTGG-CAGATAGCGCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCGGGGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
873741 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
873806 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * *
873842 TAATCGAACTCGGGGGTCTTTGG-CAGATAGCGCTTCTCGACTTAAGCTATGCTGCAAATGATGT
1 TAATCGAACTCGGGGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
873906 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
873971 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
131 GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * * *
874007 TAATCGAACTCGGGGGTCTTTTGGTCATAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGA
1 TAATCGAACTCGGGGGTC-TTTGGTC--AGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGA
* * * * ** * * *
874072 TGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TTTGG---CAGATAGCCCTTCTCGAC
63 TGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCC
* * * * * * *
874133 TTAAGCTATTCTGCAAATGATGTG-CCTTGGAGCTGAGCG
127 TTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* ** * * * *
874172 TAGTCGAACTCGAAGGTC-TTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGGGGGTCTTTGGT--CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGAT
* * * * **
874236 GTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCACAGATAACCCTTCTAGCCT
64 GTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCT
874301 TGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
128 TGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
* * * *
874340 TAATCGAACTCGGGGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGAT
1 TAATCGAACTCGGGGGTCTTTGGT--CAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGAT
*
874405 ATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
64 GTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
874443 GGTGGCAGGT
Statistics
Matches: 702, Mismatches: 51, Indels: 23
0.90 0.07 0.03
Matches are distributed among these distances:
163 80 0.11
164 5 0.01
165 371 0.53
166 40 0.06
167 36 0.05
168 56 0.08
169 87 0.12
170 27 0.04
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.29
Consensus pattern (166 bp):
TAATCGAACTCGGGGGTCTTTGGTCAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGA
GTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:874027 original size:250 final size:250
Alignment explanation
Indices: 873535--874470 Score: 1269
Period size: 250 Copynumber: 3.8 Consensus size: 250
873525 AGGTCTTTAG
* * * * * * * * * * *
873535 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGGAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
** * * * *
873599 ACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCC
66 ACTCGGGGGTC-TTTGG--ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTG-CC
* * * * ** * * * * * *
873664 TCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGG---CAGATAGCGCTTCTCGACTTAAGCTA
127 TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTA
* * * * * **
873726 TGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCA
192 TGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCA
873784 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * *
873849 ACTCGGGGGTCTTTGG-CAGATAGCGCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGG
66 ACTCGGGGGTCTTTGGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGG
873913 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGC
131 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGC
873978 TGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCA
195 TGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCA
*
874034 TAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * *
874099 ACTCGGGGGTCTTTGG-CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTGCCTTGG
66 ACTCGGGGGTCTTTGGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGG
874163 AGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT
131 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT
874227 GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCA
196 GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCA
874282 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
* * * * *
874347 ACTCGGGGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCTT
66 ACTCGGGGGTCTTTGG--ACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTT
** * * *
874412 GGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGTGGCAGGTAGCCCTTCTGGCCTTGAG
129 GGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAG
874471 CTAAGCTGCA
Statistics
Matches: 622, Mismatches: 56, Indels: 16
0.90 0.08 0.02
Matches are distributed among these distances:
245 27 0.04
246 40 0.06
248 172 0.28
249 76 0.12
250 215 0.35
251 92 0.15
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (250 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
ACTCGGGGGTCTTTGGACAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATGATGTGCCTTGG
AGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCT
GTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGTCA
Found at i:874039 original size:85 final size:84
Alignment explanation
Indices: 873535--874470 Score: 1130
Period size: 85 Copynumber: 11.3 Consensus size: 84
873525 AGGTCTTTAG
* * * * * * * * * * *
873535 CAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGGAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
**
873599 ACTCGAAGGTCTTTTGGTCA
66 ACTCGGGGGTC-TTTGGTCA
873619 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
873684 ACTCGGGGGTCTTTGG---
66 ACTCGGGGGTCTTTGGTCA
* * * * * * * * * * *
873700 CAGATAGCGCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
**
873764 ACTCGAAGGTCTTTTGGTCA
66 ACTCGGGGGTC-TTTGGTCA
873784 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
873849 ACTCGGGGGTCTTTGG---
66 ACTCGGGGGTCTTTGGTCA
* * * * * * * * * * *
873865 CAGATAGCGCTTCTCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
**
873929 ACTCGAAGGTCTTTTGGTCA
66 ACTCGGGGGTC-TTTGGTCA
873949 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
874014 ACTCGGGGGTCTTTTGGTCA
66 ACTCGGGGGTC-TTTGGTCA
*
874034 TAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
874099 ACTCGGGGGTCTTTGG---
66 ACTCGGGGGTCTTTGGTCA
* * * * * * * * * * *
874115 CAGATAGCCCTTCTCGACTTAAGCTATTCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
**
874179 ACTCGAAGGTC-TTGGTCA
66 ACTCGGGGGTCTTTGGTCA
874197 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
874262 ACTCGGGGGTCTTTTGGTCA
66 ACTCGGGGGTC-TTTGGTCA
874282 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
874347 ACTCGGGGGTCTTTGGTCA
66 ACTCGGGGGTCTTTGGTCA
* * * * *
874366 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGA
1 CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
** **
874430 ACTCGAAGGTC-TTGGTGG
66 ACTCGGGGGTCTTTGGTCA
* * *
874448 CAGGTAGCCCTTCTGGCCTTGAG
1 CAGATAACCCTTCTAGCCTTGAG
874471 CTAAGCTGCA
Statistics
Matches: 730, Mismatches: 105, Indels: 36
0.84 0.12 0.04
Matches are distributed among these distances:
79 4 0.01
80 81 0.11
81 114 0.16
82 60 0.08
83 54 0.07
84 170 0.23
85 247 0.34
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (84 bp):
CAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTGTAATCGA
ACTCGGGGGTCTTTGGTCA
Found at i:877844 original size:18 final size:19
Alignment explanation
Indices: 877803--877847 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
877793 AGTTAATGTG
877803 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
* *
877822 AATGCACAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
877840 AATGCAAA
1 AATGCAAA
877848 ATGTCTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:880956 original size:38 final size:37
Alignment explanation
Indices: 880907--881210 Score: 188
Period size: 38 Copynumber: 7.8 Consensus size: 37
880897 TTTAAAAAAA
* *
880907 AAAAACTATATATTATATGTATTTTCAAAATGGTTTTT
1 AAAAACTATATATTATATATATTTTCAAAA-CGTTTTT
* * *
880945 AAAAATTATATATTATATAAATGTTTTCATAACG-TTTT
1 AAAAACTATATATTATAT--ATATTTTCAAAACGTTTTT
* * *
880983 CAAAAGTATATATTATATATATTTT-AAAACGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAACGTTTTT
*
881019 AAAAACTATATATTATATA-ATTTTCAAAAATATATTTTCAAAATGGTTTTT
1 AAAAACTATATATTATATATATTTTC---AA-A-A----C---G---TTTTT
* * * * *
881070 AAAAATTATATATTATATAAATGTTTTCATAACG-TTTT
1 AAAAACTATATATTATATATATTTTC--AAAACGTTTTT
* * * *
881108 CAAAAGTATATATTATATATATTTTAAAAACGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAACGTTTTT
*
881145 AAAAACTATATATTATATA-ATTTTCAAAA-ATATTTT
1 AAAAACTATATATTATATATATTTTCAAAACGT-TTTT
* *
881181 AAAAACTATATAATATACATATTTTCAAAA
1 AAAAACTATATATTATATATATTTTCAAAA
881211 ATGTTTTAAA
Statistics
Matches: 208, Mismatches: 35, Indels: 47
0.72 0.12 0.16
Matches are distributed among these distances:
35 11 0.05
36 60 0.29
37 30 0.14
38 62 0.30
39 3 0.01
40 10 0.05
41 1 0.00
45 2 0.01
49 1 0.00
50 1 0.00
51 23 0.11
52 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAAACTATATATTATATATATTTTCAAAACGTTTTT
Found at i:881032 original size:27 final size:25
Alignment explanation
Indices: 880997--881098 Score: 84
Period size: 27 Copynumber: 3.9 Consensus size: 25
880987 AGTATATATT
*
880997 ATATATATTTTAAAACGTTTTCAAAA
1 ATATATATTATAAAA-GTTTTCAAAA
*
881023 ACTATATATTATATAA-TTTTCAAAA
1 A-TATATATTATAAAAGTTTTCAAAA
*
881048 ATATAT-TT-TCAAAATGGTTTTTAAAA
1 ATATATATTAT-AAAA--GTTTTCAAAA
881074 ATTATATATTATATAAATGTTTTCA
1 A-TATATATTATA-AAA-GTTTTCA
881099 TAACGTTTTC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
22 1 0.02
23 5 0.08
24 5 0.08
25 10 0.16
26 10 0.16
27 17 0.28
28 9 0.15
29 4 0.07
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (25 bp):
ATATATATTATAAAAGTTTTCAAAA
Found at i:881036 original size:36 final size:37
Alignment explanation
Indices: 880907--881210 Score: 206
Period size: 36 Copynumber: 7.8 Consensus size: 37
880897 TTTAAAAAAA
* * *
880907 AAAAACTATATATTATATGTATTTTCAAAATGGTTTTT
1 AAAAACTATATATTATATATATTTTCAAAA-CGTTTTC
* * *
880945 AAAAATTATATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAACTATATATTATAT--ATATTTTCAAAACGTTTTC
*
880984 -AAAAGTATATATTATATATATTTT-AAAACGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAACGTTTTC
*
881019 AAAAACTATATATTATATA-ATTTTCAAAAATATATTTTCAAAATGGTTTTT
1 AAAAACTATATATTATATATATTTTC---AA-A-A----C------GTTTTC
* * * * *
881070 AAAAATTATATATTATATAAATGTTTTCATAACGTTTTC
1 AAAAACTATATATTATATATATTTTC--AAAACGTTTTC
* *
881109 -AAAAGTATATATTATATATATTTTAAAAACGTTTTC
1 AAAAACTATATATTATATATATTTTCAAAACGTTTTC
* *
881145 AAAAACTATATATTATATA-ATTTTCAAAA-ATATTTT
1 AAAAACTATATATTATATATATTTTCAAAACGT-TTTC
* *
881181 AAAAACTATATAATATACATATTTTCAAAA
1 AAAAACTATATATTATATATATTTTCAAAA
881211 ATGTTTTAAA
Statistics
Matches: 214, Mismatches: 29, Indels: 47
0.74 0.10 0.16
Matches are distributed among these distances:
35 16 0.07
36 62 0.29
37 27 0.13
38 54 0.25
39 12 0.06
40 10 0.05
41 1 0.00
45 2 0.01
49 1 0.00
50 1 0.00
51 24 0.11
52 4 0.02
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.44
Consensus pattern (37 bp):
AAAAACTATATATTATATATATTTTCAAAACGTTTTC
Found at i:881057 original size:14 final size:15
Alignment explanation
Indices: 881033--881061 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
881023 ACTATATATT
881033 ATATAATTTTCAAAA
1 ATATAATTTTCAAAA
881048 ATAT-ATTTTCAAAA
1 ATATAATTTTCAAAA
881062 TGGTTTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (15 bp):
ATATAATTTTCAAAA
Found at i:881061 original size:74 final size:75
Alignment explanation
Indices: 880908--881047 Score: 180
Period size: 74 Copynumber: 1.9 Consensus size: 75
880898 TTAAAAAAAA
* * * *
880908 AAAACTATATATTATATGTATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAATCGTTTTCAAAAACTATATATTATATAAA-GTTTTC
* *
880973 ATAACGTTTTC
65 AAAACATTTTC
*
880984 AAAAGTATATATTATATATATTTT-AAAA-CGTTTTCAAAAACTATATATTATAT-AA-TTTTCA
1 AAAACTATATATTATATATATTTTCAAAATCGTTTTCAAAAACTATATATTATATAAAGTTTTCA
881045 AAA
66 AAA
881048 ATATATTTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
71 8 0.14
73 2 0.03
74 22 0.38
75 4 0.07
76 22 0.38
ACGTcount: A:0.44, C:0.06, G:0.05, T:0.45
Consensus pattern (75 bp):
AAAACTATATATTATATATATTTTCAAAATCGTTTTCAAAAACTATATATTATATAAAGTTTTCA
AAACATTTTC
Found at i:881086 original size:125 final size:126
Alignment explanation
Indices: 880926--881177 Score: 497
Period size: 125 Copynumber: 2.0 Consensus size: 126
880916 ATATTATATG
880926 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
1 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
880991 TATATTATATATATTTT-AAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATA
66 TATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATA
881051 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
1 TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
881116 TATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATA
66 TATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATA
881177 T
1 T
881178 TTTAAAAACT
Statistics
Matches: 126, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
125 82 0.65
126 44 0.35
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (126 bp):
TATTTTCAAAATGGTTTTTAAAAATTATATATTATATAAATGTTTTCATAACGTTTTCAAAAGTA
TATATTATATATATTTTAAAAACGTTTTCAAAAACTATATATTATATAATTTTCAAAAATA
Found at i:881160 original size:37 final size:37
Alignment explanation
Indices: 881048--881228 Score: 183
Period size: 37 Copynumber: 4.9 Consensus size: 37
881038 ATTTTCAAAA
** *
881048 ATATATTTTCAAAATGGTTTTTAAAAATTATATATTAT
1 ATATATTTTCAAAAACG-TTTTAAAAACTATATATTAT
* * * *
881086 ATAAATGTTTTC-ATAACGTTTTCAAAAGTATATATTAT
1 AT--ATATTTTCAAAAACGTTTTAAAAACTATATATTAT
881124 ATATATTTT-AAAAACGTTTTCAAAAACTATATATTAT
1 ATATATTTTCAAAAACGTTTT-AAAAACTATATATTAT
** *
881161 ATA-ATTTTCAAAAATATTTTAAAAACTATATAATAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
* *
881197 ACATATTTTCAAAAATGTTTT--AAACTATATAT
1 ATATATTTTCAAAAACGTTTTAAAAACTATATAT
881229 GTATTTTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 15
0.80 0.11 0.10
Matches are distributed among these distances:
35 10 0.08
36 37 0.31
37 42 0.35
38 22 0.18
39 3 0.02
40 7 0.06
ACGTcount: A:0.45, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
ATATATTTTCAAAAACGTTTTAAAAACTATATATTAT
Found at i:885166 original size:12 final size:12
Alignment explanation
Indices: 885149--885178 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
885139 TCCCTTGAAA
885149 CACTCTTAGTAG
1 CACTCTTAGTAG
885161 CACTCTTAGTAG
1 CACTCTTAGTAG
885173 CACTCT
1 CACTCT
885179 GTTCAAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.30, G:0.13, T:0.33
Consensus pattern (12 bp):
CACTCTTAGTAG
Found at i:889340 original size:3 final size:3
Alignment explanation
Indices: 889332--889358 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
889322 CTGTAGGCGC
889332 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
889359 GTCACGTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:900250 original size:31 final size:31
Alignment explanation
Indices: 900156--900250 Score: 163
Period size: 31 Copynumber: 3.1 Consensus size: 31
900146 GGGTCGAGGG
*
900156 TTACCTATGTTCTTCGGGACATATGGACTAT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
900187 TTACCTATGTTCTTCGGGACATATGAACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
900218 TTACCTATGTTCTTCGGGACATATGGATTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
900249 TT
1 TT
900251 CTTCGGGACA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 60 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.41
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:900296 original size:53 final size:52
Alignment explanation
Indices: 900194--900314 Score: 145
Period size: 53 Copynumber: 2.3 Consensus size: 52
900184 TATTTACCTA
** * * *
900194 TGTTCTTCGGGACATATGAACTGTTTACCTATGTTCTTCGGGACATATGGAT
1 TGTTCTTCGGGACATATGAACCATTTACCTAGGTTCTTCGGAACATATGGAC
*
900246 TGTTTCTTCGGGACATATGGACCATTTACCTAGGTTCTTCGGAATC-TATGGAC
1 TG-TTCTTCGGGACATATGAACCATTTACCTAGGTTCTTCGGAA-CATATGGAC
*
900299 TGATCATTCGGGACAT
1 TGTTC-TTCGGGACAT
900315 TTATACGAGT
Statistics
Matches: 59, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
52 4 0.07
53 54 0.92
54 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (52 bp):
TGTTCTTCGGGACATATGAACCATTTACCTAGGTTCTTCGGAACATATGGAC
Found at i:901073 original size:22 final size:22
Alignment explanation
Indices: 901045--901089 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
901035 GGCACACTGT
*
901045 AGCACTGTTCATGGTATTGTTC
1 AGCACTGATCATGGTATTGTTC
901067 AGCACTGATCATGGTATTGTTC
1 AGCACTGATCATGGTATTGTTC
901089 A
1 A
901090 TACCGTATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (22 bp):
AGCACTGATCATGGTATTGTTC
Found at i:903720 original size:2 final size:2
Alignment explanation
Indices: 903713--903737 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
903703 GAATTTAACC
903713 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
903738 TGGGAGGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:904607 original size:21 final size:21
Alignment explanation
Indices: 904581--904620 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
904571 ATATAAATAC
904581 CATCGATTATAACAAAATAAT
1 CATCGATTATAACAAAATAAT
904602 CATCGATTATAACAAAATA
1 CATCGATTATAACAAAATA
904621 TTTTAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.05, T:0.28
Consensus pattern (21 bp):
CATCGATTATAACAAAATAAT
Found at i:909804 original size:59 final size:59
Alignment explanation
Indices: 909720--909832 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
909710 GATAAGTATA
* * *
909720 CTATCGAACCCTCCTAGTCGCAATGAAAAGGCAAACTCGATAATATGGCTCTAAGTGTC
1 CTATCGAACCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATGACTCTAAGTGTC
*
909779 CTATCGAATCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATGACTCTAA
1 CTATCGAACCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATGACTCTAA
909833 CCAACCCTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (59 bp):
CTATCGAACCCTCCTAGTCACAATGAAAAGACAAACTCGATAATATGACTCTAAGTGTC
Found at i:914152 original size:150 final size:154
Alignment explanation
Indices: 913781--914141 Score: 453
Period size: 150 Copynumber: 2.3 Consensus size: 154
913771 AATTTTATTG
* *
913781 TGGTATATGAGCATGTGGTTCAAATTTAGTAAAAGAAAGACTTAAAATAAAGGATGAATTGAAGA
1 TGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGAAAGACTTAAAATAAAGGATGAATTGAAGA
* * * * *
913846 AATAAGGAAAATATAAAAGATCAAGGGACTAGATTGGAAAATAAAAAATTTGTTATCAAAAAGAG
66 AATAAAGAAAATAGAAAAAATCAAGGGACTAAATT----AATAAAAAATTTGTTATAAAAAAGAG
* * *
913911 GAATTGAAAGTACATATGCATTCTATGA
127 GAATTGAAAGTAAATATGCATTCCAAGA
* ** *
913939 TGGTTTATGAGCATGTGGTTCAAATTTGATAAAAGATTGACCTAAAATAAAGGATGAATTGAAGA
1 TGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGAAAGACTTAAAATAAAGGATGAATTGAAGA
* * *
914004 AATAAATAAAATAGGAAAAAAT-AA-GGACTAAATT-A-AAAAAA-TTGTTATAAAAAAGATGAG
66 AATAAAGAAAATA-GAAAAAATCAAGGGACTAAATTAATAAAAAATTTGTTATAAAAAAGAGGAA
*
914064 TTGAAAGTAAATATGTATTCCAAGA
130 TTGAAAGTAAATATGCATTCCAAGA
* *
914089 TGGTTTATGAGCATGTAGTTCAAATTTGGTAAAAAAAAGACTTAAAATGAAAG
1 TGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGAAAGACTTAAAAT-AAAG
914142 AAAAATTGAA
Statistics
Matches: 177, Mismatches: 24, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
150 79 0.45
151 10 0.06
152 1 0.01
157 9 0.05
158 72 0.41
159 6 0.03
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.27
Consensus pattern (154 bp):
TGGTTTATGAGCATGTGGTTCAAATTTGGTAAAAGAAAGACTTAAAATAAAGGATGAATTGAAGA
AATAAAGAAAATAGAAAAAATCAAGGGACTAAATTAATAAAAAATTTGTTATAAAAAAGAGGAAT
TGAAAGTAAATATGCATTCCAAGA
Found at i:914609 original size:38 final size:38
Alignment explanation
Indices: 914563--914653 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
914553 TTTTTCTCTT
** ** *
914563 TAACATTTTCGATTAAACCTAAAATATTAAGAAAAAGA
1 TAACATTTTAAATTAAACAAAAAATATTAAAAAAAAGA
* * *
914601 TAACATTTTAAATTCAATAAAAAATATTAAAAAAAATA
1 TAACATTTTAAATTAAACAAAAAATATTAAAAAAAAGA
914639 TAACATTTTAAATTA
1 TAACATTTTAAATTA
914654 CGTTCAACTT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (38 bp):
TAACATTTTAAATTAAACAAAAAATATTAAAAAAAAGA
Found at i:914649 original size:19 final size:19
Alignment explanation
Indices: 914589--914650 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
914579 ACCTAAAATA
* *
914589 TTAAGAAAAAGATAACATT
1 TTAAAAAAAATATAACATT
*** * * *
914608 TTAAATTCAATAAAAAATA
1 TTAAAAAAAATATAACATT
914627 TTAAAAAAAATATAACATT
1 TTAAAAAAAATATAACATT
914646 TTAAA
1 TTAAA
914651 TTACGTTCAA
Statistics
Matches: 29, Mismatches: 14, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
TTAAAAAAAATATAACATT
Found at i:915295 original size:72 final size:72
Alignment explanation
Indices: 915178--915324 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
915168 GTAAACAATC
*
915178 TAGAGACAAAAGAAGTTAAATGTCTAAAGTTCAATGAGTAAATCGAAAAAATTAAAAGTACGATG
1 TAGAGACAAAAAAAGTTAAATGTCTAAAGTTCAATGAGTAAATCGAAAAAATTAAAAGTACGATG
915243 AATGAAA
66 AATGAAA
*
915250 TAGAGACAAAAAAAGTTAAATGTTTAAAGTTCAATGAGTAAATCGAAAAAATTAAAAGTACGATG
1 TAGAGACAAAAAAAGTTAAATGTCTAAAGTTCAATGAGTAAATCGAAAAAATTAAAAGTACGATG
915315 AATGAAA
66 AATGAAA
915322 TAG
1 TAG
915325 GAGAGTAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.23
Consensus pattern (72 bp):
TAGAGACAAAAAAAGTTAAATGTCTAAAGTTCAATGAGTAAATCGAAAAAATTAAAAGTACGATG
AATGAAA
Found at i:922499 original size:18 final size:17
Alignment explanation
Indices: 922476--922514 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
922466 TAAAAAAAAT
*
922476 ATAAAAGATATAATTATA
1 ATAAAAAATAT-ATTATA
*
922494 ATAAAAAATATTTTATA
1 ATAAAAAATATATTATA
922511 ATAA
1 ATAA
922515 CTCACTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
ATAAAAAATATATTATA
Found at i:926283 original size:31 final size:32
Alignment explanation
Indices: 926210--926271 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
926200 AACTCGGGTG
926210 ACCATATCTTAATTAAATAAAAAACGAAAGTA
1 ACCATATCTTAATTAAATAAAAAACGAAAGTA
*
926242 ACCGTATCTTAATTAAAT-AAAAACGAAAGT
1 ACCATATCTTAATTAAATAAAAAACGAAAGT
926272 TGTCATATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 12 0.41
32 17 0.59
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.26
Consensus pattern (32 bp):
ACCATATCTTAATTAAATAAAAAACGAAAGTA
Found at i:929955 original size:26 final size:27
Alignment explanation
Indices: 929919--929975 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
929909 ATAAATACTT
* *
929919 ATAATTAAATTTAAATAAAAACT-TAA
1 ATAATTAAATTCAAATAAAAAATATAA
* *
929945 ATAATTTAATTCAATTAAAAAATATAA
1 ATAATTAAATTCAAATAAAAAATATAA
929972 ATAA
1 ATAA
929976 GATTAAAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 19 0.73
27 7 0.27
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (27 bp):
ATAATTAAATTCAAATAAAAAATATAA
Found at i:931355 original size:12 final size:12
Alignment explanation
Indices: 931338--931368 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
931328 AATAAATAGT
931338 ATATAAATTAAA
1 ATATAAATTAAA
931350 ATATAAATTAAA
1 ATATAAATTAAA
931362 ATATAAA
1 ATATAAA
931369 CTAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATATAAATTAAA
Found at i:936489 original size:36 final size:36
Alignment explanation
Indices: 936439--936561 Score: 115
Period size: 36 Copynumber: 3.4 Consensus size: 36
936429 AAACTGTTTA
* * *
936439 AAGTAAGATGAAATTTATTTCAAGGGAAATTATCTC
1 AAGTGAGATAAAATTTATTTCAAGGAAAATTATCTC
** * *
936475 AAGTGAGATAAAATTTTATTTTGA-GAAAAAT-TGTC
1 AAGTGAGATAAAA-TTTATTTCAAGGAAAATTATCTC
** * * *
936510 AAGTGAGACGAAATTTGTTTTAAGGAAAATCATCTC
1 AAGTGAGATAAAATTTATTTCAAGGAAAATTATCTC
936546 AAGTGAGATAAAATTT
1 AAGTGAGATAAAATTT
936562 TTGTTTCGAA
Statistics
Matches: 68, Mismatches: 16, Indels: 6
0.76 0.18 0.07
Matches are distributed among these distances:
34 8 0.12
35 19 0.28
36 33 0.49
37 8 0.12
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (36 bp):
AAGTGAGATAAAATTTATTTCAAGGAAAATTATCTC
Found at i:936545 original size:71 final size:74
Alignment explanation
Indices: 936428--936650 Score: 244
Period size: 71 Copynumber: 3.1 Consensus size: 74
936418 TTGTTCAAGG
* * * * * * *
936428 GAAACTGTTTAAAGTAAGATGAAATTTATTTCAAGGGAAATTATCTCAAGTGAGATAAAATTTTA
1 GAAACTGTGTCAAGTGAGACGAAATTTGTTTTAAGGAAAATTATCTCAAGTGAGATAAAATTTT-
936493 T-TTT-GAGAA
65 TGTTTCGA-AA
*
936502 -AAA-T-TGTCAAGTGAGACGAAATTTGTTTTAAGGAAAATCATCTCAAGTGAGATAAAATTTTT
1 GAAACTGTGTCAAGTGAGACGAAATTTGTTTTAAGGAAAATTATCTCAAGTGAGATAAAATTTTT
936564 GTTTCGAAA
66 GTTTCGAAA
* ** * **
936573 GAAACTGTTTTGAGTGAGACG-AATTTGTTTTAAGGAAAATTATCCCAAGTGAG-GCAAATTTTT
1 GAAACTGTGTCAAGTGAGACGAAATTTGTTTTAAGGAAAATTATCTCAAGTGAGATAAAATTTTT
*
936636 GTTTCGAGA
66 GTTTCGAAA
936645 GAAACT
1 GAAACT
936651 ATCTCAAATA
Statistics
Matches: 128, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
70 1 0.01
71 54 0.42
72 28 0.22
73 34 0.27
74 11 0.09
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (74 bp):
GAAACTGTGTCAAGTGAGACGAAATTTGTTTTAAGGAAAATTATCTCAAGTGAGATAAAATTTTT
GTTTCGAAA
Found at i:947777 original size:49 final size:49
Alignment explanation
Indices: 947640--947784 Score: 227
Period size: 49 Copynumber: 3.0 Consensus size: 49
947630 GAAAACACGG
* *
947640 ATCGTCATCTTCGTCTTCGATGAACCTTTGACATATATGAAAAGCGCGT
1 ATCGTCATCTTCGTCTTCGATGAACCTTTGACATATATGGAAGGCGCGT
*
947689 ATTGTCATCTTCGTCTTCGATGAACCTTTGACATATATGGAAGGCGCGT
1 ATCGTCATCTTCGTCTTCGATGAACCTTTGACATATATGGAAGGCGCGT
* * * *
947738 ATCGTCATCATCGTCTTCGTTAAACCTCTGACATATATGGAAGGCGC
1 ATCGTCATCTTCGTCTTCGATGAACCTTTGACATATATGGAAGGCGC
947785 AAATCATGGT
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 88 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (49 bp):
ATCGTCATCTTCGTCTTCGATGAACCTTTGACATATATGGAAGGCGCGT
Found at i:952459 original size:59 final size:59
Alignment explanation
Indices: 952384--952632 Score: 205
Period size: 59 Copynumber: 4.1 Consensus size: 59
952374 TGTTTTAGTA
* * * *
952384 CTTTAAATTTCTG-TTTTGCTTTGTTAGTCCCTTAACTTTCGGTTTTTACTATCATAGCC
1 CTTTAAGTTTCTGTTTTTGCTTT-TTAGTCCTTTAACTTTCTGTTTTTACTATCTTAGCC
* * * * *
952443 CTTTAAGTTTCTGTTTTTGTCTTTTTATTCCTTTAATTTTCTG-TTTTGCTTTGTTAGCC
1 CTTTAAGTTTCTGTTTTTG-CTTTTTAGTCCTTTAACTTTCTGTTTTTACTATCTTAGCC
* * * * * **
952502 CTTTAACTTTATGTTTTTGCTATTTTAGTCCTTTAACTGTCTATTTTTACTATTTTAATC
1 CTTTAAGTTTCTGTTTTTGCT-TTTTAGTCCTTTAACTTTCTGTTTTTACTATCTTAGCC
* * * * * *
952562 CTTTAAGTTTCTATTTTTGTTTTGCTGTGTTAGCCCTTTAACTTTATGTTTTTGCTATGTTAGCC
1 CTTTAAGTTTC----TGT-TTTTGCT-TTTTAGTCCTTTAACTTTCTGTTTTTACTATCTTAGCC
952627 CTTTAA
1 CTTTAA
952633 CTATTTTTAT
Statistics
Matches: 148, Mismatches: 33, Indels: 12
0.77 0.17 0.06
Matches are distributed among these distances:
58 2 0.01
59 58 0.39
60 40 0.27
61 4 0.03
64 2 0.01
65 42 0.28
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (59 bp):
CTTTAAGTTTCTGTTTTTGCTTTTTAGTCCTTTAACTTTCTGTTTTTACTATCTTAGCC
Found at i:952476 original size:30 final size:30
Alignment explanation
Indices: 952376--952634 Score: 186
Period size: 30 Copynumber: 8.5 Consensus size: 30
952366 TTATTTTGTG
* *
952376 TTTTAGTACTTTAAATTTCTG-TTTTGCT-
1 TTTTAGTCCTTTAACTTTCTGTTTTTGCTA
* * *
952404 TTGTTAGTCCCTTAACTTTCGGTTTTTACTA
1 TT-TTAGTCCTTTAACTTTCTGTTTTTGCTA
** * *
952435 TCATAGCCCTTTAAGTTTCTGTTTTTGTCT-
1 TTTTAGTCCTTTAACTTTCTGTTTTTG-CTA
* *
952465 TTTTATTCCTTTAATTTTCTG-TTTTGCT-
1 TTTTAGTCCTTTAACTTTCTGTTTTTGCTA
* *
952493 TTGTTAGCCCTTTAACTTTATGTTTTTGCTA
1 TT-TTAGTCCTTTAACTTTCTGTTTTTGCTA
* * *
952524 TTTTAGTCCTTTAACTGTCTATTTTTACTA
1 TTTTAGTCCTTTAACTTTCTGTTTTTGCTA
* * * *
952554 TTTTAATCCTTTAAGTTTCTATTTTTGTTTTGCTG
1 TTTTAGTCCTTTAACTTTC----TGT-TTTTGCTA
* * *
952589 TGTTAGCCCTTTAACTTTATGTTTTTGCTA
1 TTTTAGTCCTTTAACTTTCTGTTTTTGCTA
* *
952619 TGTTAGCCCTTTAACT
1 TTTTAGTCCTTTAACT
952635 ATTTTTATTT
Statistics
Matches: 180, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
28 6 0.03
29 35 0.19
30 110 0.61
31 7 0.04
34 2 0.01
35 20 0.11
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.57
Consensus pattern (30 bp):
TTTTAGTCCTTTAACTTTCTGTTTTTGCTA
Found at i:952519 original size:89 final size:89
Alignment explanation
Indices: 952384--952634 Score: 281
Period size: 89 Copynumber: 2.8 Consensus size: 89
952374 TGTTTTAGTA
* ** * *
952384 CTTTAAATTTCTGTTTTGCTTTGTTAGTCCC-TTAACTTTCGGTTTTTACTATCATAGCCCTTTA
1 CTTTAATTTTCTGTTTTGCTTTGTTAG-CCCTTTAACTTTATGTTTTTGCTATCTTAGCCCTTTA
* * * * *
952448 AGTTTCTGTTTTTGTCT-TTTTATTC
65 ACTGTCTATTTTT-ACTATTTTAATC
* *
952473 CTTTAATTTTCTGTTTTGCTTTGTTAGCCCTTTAACTTTATGTTTTTGCTATTTTAGTCCTTTAA
1 CTTTAATTTTCTGTTTTGCTTTGTTAGCCCTTTAACTTTATGTTTTTGCTATCTTAGCCCTTTAA
952538 CTGTCTATTTTTACTATTTTAATC
66 CTGTCTATTTTTACTATTTTAATC
* * *
952562 CTTTAAGTTTCTATTTTTGTTTTGCTGTGTTAGCCCTTTAACTTTATGTTTTTGCTATGTTAGCC
1 CTTTAA-----T-TTTCTGTTTTGCTTTGTTAGCCCTTTAACTTTATGTTTTTGCTATCTTAGCC
952627 CTTTAACT
60 CTTTAACT
952635 ATTTTTATTT
Statistics
Matches: 138, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
88 5 0.04
89 76 0.55
94 1 0.01
95 56 0.41
ACGTcount: A:0.16, C:0.17, G:0.11, T:0.57
Consensus pattern (89 bp):
CTTTAATTTTCTGTTTTGCTTTGTTAGCCCTTTAACTTTATGTTTTTGCTATCTTAGCCCTTTAA
CTGTCTATTTTTACTATTTTAATC
Found at i:962399 original size:16 final size:16
Alignment explanation
Indices: 962378--962433 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 16
962368 TTCAATATGT
962378 TCGGGTTATTTTTGGA
1 TCGGGTTATTTTTGGA
** ** *
962394 TCGGGTTAAATTCAGT
1 TCGGGTTATTTTTGGA
962410 TCGGGTTATTTTTGGA
1 TCGGGTTATTTTTGGA
962426 TCGGGTTA
1 TCGGGTTA
962434 AATTCAGTTC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.16, C:0.09, G:0.30, T:0.45
Consensus pattern (16 bp):
TCGGGTTATTTTTGGA
Found at i:962417 original size:32 final size:32
Alignment explanation
Indices: 962376--962510 Score: 155
Period size: 32 Copynumber: 4.2 Consensus size: 32
962366 ATTTCAATAT
962376 GTTCGGGTTATTTTTGGATCGGGTTAAATTCA
1 GTTCGGGTTATTTTTGGATCGGGTTAAATTCA
962408 GTTCGGGTTATTTTTGGATCGGGTTAAATTCA
1 GTTCGGGTTATTTTTGGATCGGGTTAAATTCA
** * * * *
962440 GTTCGGGTTGCTTTCGGATTGGGTTAAAAATCG
1 GTTCGGGTTATTTTTGGATCGGGTT-AAATTCA
** * *
962473 GTTCAAGTT-TCTTTTGGTTCGGGTTAATTTCA
1 GTTCGGGTTAT-TTTTGGATCGGGTTAAATTCA
962505 GTTCGG
1 GTTCGG
962511 TTGCTTTCGG
Statistics
Matches: 84, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
32 61 0.73
33 23 0.27
ACGTcount: A:0.17, C:0.11, G:0.29, T:0.43
Consensus pattern (32 bp):
GTTCGGGTTATTTTTGGATCGGGTTAAATTCA
Found at i:962445 original size:16 final size:16
Alignment explanation
Indices: 962394--962448 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
962384 TATTTTTGGA
962394 TCGGGTTAAATTCAGT
1 TCGGGTTAAATTCAGT
** ** *
962410 TCGGGTTATTTTTGGA
1 TCGGGTTAAATTCAGT
962426 TCGGGTTAAATTCAGT
1 TCGGGTTAAATTCAGT
962442 TCGGGTT
1 TCGGGTT
962449 GCTTTCGGAT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.18, C:0.11, G:0.29, T:0.42
Consensus pattern (16 bp):
TCGGGTTAAATTCAGT
Found at i:964232 original size:30 final size:30
Alignment explanation
Indices: 964198--964261 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
964188 AATATAGATT
*
964198 GCCAGGTGATCTGGGCGACCAATGAATGTC
1 GCCAGGTGATCTGGGCGACCAATGAAGGTC
964228 GCCAGGTGATCTGGGCGACCAATGAAGGTC
1 GCCAGGTGATCTGGGCGACCAATGAAGGTC
964258 GCCA
1 GCCA
964262 TGTATGCTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.23, C:0.25, G:0.34, T:0.17
Consensus pattern (30 bp):
GCCAGGTGATCTGGGCGACCAATGAAGGTC
Found at i:965009 original size:15 final size:14
Alignment explanation
Indices: 964989--965018 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
964979 TGTTAGATGA
964989 AATAAATAAAATAAC
1 AATAAATAAAA-AAC
965004 AATAAATAAAAAAC
1 AATAAATAAAAAAC
965018 A
1 A
965019 GAAAGGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (14 bp):
AATAAATAAAAAAC
Found at i:969941 original size:18 final size:18
Alignment explanation
Indices: 969918--969952 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
969908 GTGTCCGAAG
969918 CGTGAGATTCGTCTGAAA
1 CGTGAGATTCGTCTGAAA
969936 CGTGAGATTCGTCTGAA
1 CGTGAGATTCGTCTGAA
969953 GCAAGTTGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (18 bp):
CGTGAGATTCGTCTGAAA
Found at i:971320 original size:22 final size:22
Alignment explanation
Indices: 971292--971345 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
971282 AGGACCCAGG
971292 ACCCGTGATTTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
* *
971314 ACCCGTGCTCTCTCCTTGCAGA
1 ACCCGTGATTTCTCCTTGCAGA
971336 ACCCGTGATT
1 ACCCGTGATT
971346 CTCACGTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.17, C:0.35, G:0.19, T:0.30
Consensus pattern (22 bp):
ACCCGTGATTTCTCCTTGCAGA
Found at i:975571 original size:2 final size:2
Alignment explanation
Indices: 975566--975655 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
975556 AGTTAATCTC
975566 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
975608 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
975650 AT AT AT
1 AT AT AT
975656 GTCTGTGTAG
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:977924 original size:26 final size:28
Alignment explanation
Indices: 977894--977955 Score: 74
Period size: 31 Copynumber: 2.2 Consensus size: 28
977884 AAAAATTTTA
977894 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCTGCAGAGTTTTCGAGTCGAGTCG
*
977920 AGCTCCATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCT-C--TGCAGAGTTTTCGAGTCGAGTCG
977951 AGCTC
1 AGCTC
977956 AGCAATACTC
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
26 4 0.13
27 1 0.03
30 2 0.07
31 23 0.77
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (28 bp):
AGCTCTGCAGAGTTTTCGAGTCGAGTCG
Found at i:978865 original size:20 final size:20
Alignment explanation
Indices: 978831--978888 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
978821 TTATATTTTA
* *
978831 TAATTATATATTATTTAAAT
1 TAATTATAAAATATTTAAAT
* **
978851 TAATTATAAACTATTT-TTT
1 TAATTATAAAATATTTAAAT
978870 TGAATTATAAAATATTTAA
1 T-AATTATAAAATATTTAA
978889 TTTTTATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 2 0.07
20 28 0.93
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (20 bp):
TAATTATAAAATATTTAAAT
Found at i:983748 original size:20 final size:20
Alignment explanation
Indices: 983723--983762 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
983713 TTTCTGTTAA
983723 GATGTTTCTGGATATTCATG
1 GATGTTTCTGGATATTCATG
983743 GATGTTTCTGGATATTCATG
1 GATGTTTCTGGATATTCATG
983763 AACTTCTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (20 bp):
GATGTTTCTGGATATTCATG
Found at i:987793 original size:38 final size:38
Alignment explanation
Indices: 987742--987825 Score: 159
Period size: 38 Copynumber: 2.2 Consensus size: 38
987732 AAATGCACAC
987742 CTCCACTTATATGAAATGCAATTCAATATAGCAATCTT
1 CTCCACTTATATGAAATGCAATTCAATATAGCAATCTT
*
987780 CTCCACTTATATGAAATGCAATTGAATATAGCAATCTT
1 CTCCACTTATATGAAATGCAATTCAATATAGCAATCTT
987818 CTCCACTT
1 CTCCACTT
987826 CTATATATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (38 bp):
CTCCACTTATATGAAATGCAATTCAATATAGCAATCTT
Found at i:999538 original size:2 final size:2
Alignment explanation
Indices: 999533--999564 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
999523 TTTTTTTGAA
999533 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
999565 TAAATATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1005463 original size:21 final size:22
Alignment explanation
Indices: 1005414--1005473 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
1005404 ATTTTATTAG
1005414 ATTATATAAAATTAATTTAAGT
1 ATTATATAAAATTAATTTAAGT
* *
1005436 ATT-TATAAATTTAATTT-ATT
1 ATTATATAAAATTAATTTAAGT
*
1005456 TTTATATAATAATTAATT
1 ATTATATAA-AATTAATT
1005474 AATAATTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 4 0.12
21 18 0.56
22 10 0.31
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATTATATAAAATTAATTTAAGT
Found at i:1005944 original size:2 final size:2
Alignment explanation
Indices: 1005937--1005963 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1005927 AACTATAGAC
1005937 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1005964 ACAGTTAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1011098 original size:16 final size:16
Alignment explanation
Indices: 1011077--1011107 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1011067 TTAAACGTTT
*
1011077 AAATATTAAATGATTC
1 AAATATGAAATGATTC
1011093 AAATATGAAATGATT
1 AAATATGAAATGATT
1011108 TAGAGTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (16 bp):
AAATATGAAATGATTC
Found at i:1011215 original size:23 final size:26
Alignment explanation
Indices: 1011164--1011219 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 26
1011154 AATGACTCTA
1011164 AATCATTTAGAATATATATTTGATGTTG
1 AATCATTTAG-ATATATATTT-ATGTTG
1011192 AATCATTTAG-TA-ATATTT-TGTTG
1 AATCATTTAGATATATATTTATGTTG
1011215 AATCA
1 AATCA
1011220 ATCAACACTG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.36
25 6 0.21
26 2 0.07
28 10 0.36
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.46
Consensus pattern (26 bp):
AATCATTTAGATATATATTTATGTTG
Found at i:1011639 original size:17 final size:17
Alignment explanation
Indices: 1011614--1011668 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
1011604 ATGTGTTACG
1011614 TATAGATTTTTAAAAAA
1 TATAGATTTTTAAAAAA
* *
1011631 TATATA-TTTTAAATAA
1 TATAGATTTTTAAAAAA
*
1011647 TATTAGATTTTTTTAAAAA
1 TA-TAGA-TTTTTAAAAAA
1011666 TAT
1 TAT
1011669 GAACGTGACA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 11 0.37
17 8 0.27
18 1 0.03
19 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAGATTTTTAAAAAA
Found at i:1012481 original size:2 final size:2
Alignment explanation
Indices: 1012476--1012504 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1012466 AAAAAAAAAA
1012476 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1012505 ATTTTAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1013625 original size:21 final size:21
Alignment explanation
Indices: 1013600--1013641 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1013590 CCAGAATAAG
1013600 GGGAATTGATACCCCTTCATA
1 GGGAATTGATACCCCTTCATA
* *
1013621 GGGAATTGATACTCTTTCATA
1 GGGAATTGATACCCCTTCATA
1013642 AATATTCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (21 bp):
GGGAATTGATACCCCTTCATA
Found at i:1013808 original size:29 final size:31
Alignment explanation
Indices: 1013776--1013835 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1013766 AAATTTTGAA
*
1013776 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1013805 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1013836 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:1016979 original size:7 final size:7
Alignment explanation
Indices: 1016967--1016996 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1016957 TAATCGAATC
1016967 ACCCTAA
1 ACCCTAA
1016974 ACCCTAA
1 ACCCTAA
1016981 ACCCTAA
1 ACCCTAA
*
1016988 ACCTTAA
1 ACCCTAA
1016995 AC
1 AC
1016997 AATAATAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.40, G:0.00, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:1020071 original size:29 final size:29
Alignment explanation
Indices: 1020026--1020126 Score: 121
Period size: 29 Copynumber: 3.5 Consensus size: 29
1020016 CGTTGACCGA
*
1020026 TGCTATTCTGGTAAATAATTCGGTTTTGG
1 TGCTATTCTGGTAAATAATTCGATTTTGG
*
1020055 TGTTATTCTGGTAAATAATTCGATTTTGG
1 TGCTATTCTGGTAAATAATTCGATTTTGG
* * * ** *
1020084 TGCTATTTTGGTAATTAAGTCGAAATGGG
1 TGCTATTCTGGTAAATAATTCGATTTTGG
*
1020113 TGCTATTTTGGTAA
1 TGCTATTCTGGTAA
1020127 TTATTTTAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.45
Consensus pattern (29 bp):
TGCTATTCTGGTAAATAATTCGATTTTGG
Done.