Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_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: 2417150
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 14
Found at i:892065 original size:7 final size:7
Alignment explanation
Indices: 892043--892122 Score: 63
Period size: 7 Copynumber: 11.3 Consensus size: 7
892033 TATATATATC
892043 ATGGTTTT
1 ATGG-TTT
*
892051 AGGGTTT
1 ATGGTTT
*
892058 ATGTTTT
1 ATGGTTT
*
892065 AGGGTTT
1 ATGGTTT
*
892072 AGGGTTT
1 ATGGTTT
*
892079 ATGTTTT
1 ATGGTTT
892086 ATGGTTT
1 ATGGTTT
*
892093 AGGGTTT
1 ATGGTTT
892100 A-GGATTT
1 ATGG-TTT
*
892107 AGGGTTT
1 ATGGTTT
*
892114 AAGGTTT
1 ATGGTTT
892121 AT
1 AT
892123 ATTTATATTT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
6 2 0.03
7 52 0.88
8 5 0.08
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.51
Consensus pattern (7 bp):
ATGGTTT
Found at i:892065 original size:14 final size:14
Alignment explanation
Indices: 892048--892121 Score: 85
Period size: 14 Copynumber: 5.3 Consensus size: 14
892038 ATATCATGGT
* *
892048 TTTAGGGTTTATGT
1 TTTAGGGTTTAGGG
892062 TTTAGGGTTTAGGG
1 TTTAGGGTTTAGGG
* * *
892076 TTTATGTTTTATGG
1 TTTAGGGTTTAGGG
*
892090 TTTAGGGTTTAGGA
1 TTTAGGGTTTAGGG
*
892104 TTTAGGGTTTAAGG
1 TTTAGGGTTTAGGG
892118 TTTA
1 TTTA
892122 TATTTATATT
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 49 1.00
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTAGGG
Found at i:892073 original size:21 final size:21
Alignment explanation
Indices: 892048--892122 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
892038 ATATCATGGT
892048 TTTAGGGTTTATGTTTTAGGG
1 TTTAGGGTTTATGTTTTAGGG
*
892069 TTTAGGGTTTATGTTTTATGG
1 TTTAGGGTTTATGTTTTAGGG
* *
892090 TTTAGGGTTTAGGATTTAGGG
1 TTTAGGGTTTATGTTTTAGGG
*
892111 TTTAAGGTTTAT
1 TTTAGGGTTTAT
892123 ATTTATATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (21 bp):
TTTAGGGTTTATGTTTTAGGG
Found at i:892129 original size:6 final size:6
Alignment explanation
Indices: 892118--892142 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
892108 GGGTTTAAGG
892118 TTTATA TTTATA TTTATA TTTATA T
1 TTTATA TTTATA TTTATA TTTATA T
892143 AAACTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTATA
Found at i:892175 original size:20 final size:20
Alignment explanation
Indices: 892150--892217 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 20
892140 TATAAACTAC
892150 ATACTATAATTTATATTTAT
1 ATACTATAATTTATATTTAT
*
892170 ATACTATATTTTATACTATTTAT
1 ATACTATA-ATT-TA-TATTTAT
* *
892193 AAACTATAGTTTATATTTAT
1 ATACTATAATTTATATTTAT
892213 ATACT
1 ATACT
892218 TTATATATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
20 19 0.46
21 4 0.10
22 4 0.10
23 14 0.34
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.53
Consensus pattern (20 bp):
ATACTATAATTTATATTTAT
Found at i:892193 original size:23 final size:23
Alignment explanation
Indices: 892163--892207 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
892153 CTATAATTTA
* *
892163 TATTTATATACTATATTTTATAC
1 TATTTATAAACTATAGTTTATAC
892186 TATTTATAAACTATAGTTTATA
1 TATTTATAAACTATAGTTTATA
892208 TTTATATACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTATAAACTATAGTTTATAC
Found at i:892285 original size:18 final size:18
Alignment explanation
Indices: 892264--892360 Score: 86
Period size: 18 Copynumber: 4.9 Consensus size: 18
892254 AAGGTTGATA
*
892264 TTTATATATGAACTATAG
1 TTTACATATGAACTATAG
* *
892282 TTTACATGTAAACTATATAG
1 TTTACATATGAAC--TATAG
*
892302 TTTACATATAAACTATAG
1 TTTACATATGAACTATAG
892320 TTAATATTTACATATGAACTATAG
1 ------TTTACATATGAACTATAG
892344 TTTACATATGAACTATA
1 TTTACATATGAACTATA
892361 TATATAAACT
Statistics
Matches: 66, Mismatches: 5, Indels: 16
0.76 0.06 0.18
Matches are distributed among these distances:
18 32 0.48
20 17 0.26
24 17 0.26
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.41
Consensus pattern (18 bp):
TTTACATATGAACTATAG
Found at i:892302 original size:20 final size:20
Alignment explanation
Indices: 892277--892458 Score: 89
Period size: 20 Copynumber: 9.2 Consensus size: 20
892267 ATATATGAAC
*
892277 TATAGTTTACATGTAAACTA
1 TATAGTTTACATATAAACTA
892297 TATAGTTTACATATAAACTA
1 TATAGTTTACATATAAACTA
* *
892317 TAGTTAATATTTACATATGAAC--
1 TA--T-A-GTTTACATATAAACTA
*
892339 TATAGTTTACATATGAAC--
1 TATAGTTTACATATAAACTA
892357 TATA---T--ATATAAACTA
1 TATAGTTTACATATAAACTA
* *
892372 TATAGTTTACATATGACCTA
1 TATAGTTTACATATAAACTA
* *
892392 TATA-TATATATATATATA-TA
1 TATAGT-T-TACATATAAACTA
** *
892412 CTATAGTTGATATTTATATACTA
1 -TATAGTT--TACATATAAACTA
* *
892435 TATAGTTTACATATGACCTA
1 TATAGTTTACATATAAACTA
892455 TATA
1 TATA
892459 TATATACTAT
Statistics
Matches: 128, Mismatches: 17, Indels: 34
0.72 0.09 0.19
Matches are distributed among these distances:
13 7 0.05
15 5 0.04
18 18 0.14
19 2 0.02
20 49 0.38
21 11 0.09
22 21 0.16
23 3 0.02
24 12 0.09
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.42
Consensus pattern (20 bp):
TATAGTTTACATATAAACTA
Found at i:892378 original size:33 final size:33
Alignment explanation
Indices: 892339--892469 Score: 171
Period size: 33 Copynumber: 4.1 Consensus size: 33
892329 ACATATGAAC
* *
892339 TATAGTTTACATATGAACTATATATATAAACTA
1 TATAGTTTACATATGACCTATATATATATACTA
892372 TATAGTTTACATATGACCTATATATATATA-TA
1 TATAGTTTACATATGACCTATATATATATACTA
* ** *
892404 TATA-TATAC-TAT-AGTTGATATTTATATACTA
1 TATAGTTTACATATGACCT-ATATATATATACTA
892435 TATAGTTTACATATGACCTATATATATATACTA
1 TATAGTTTACATATGACCTATATATATATACTA
892468 TA
1 TA
892470 GTTTATATTC
Statistics
Matches: 83, Mismatches: 10, Indels: 10
0.81 0.10 0.10
Matches are distributed among these distances:
29 2 0.02
30 13 0.16
31 10 0.12
32 10 0.12
33 46 0.55
34 2 0.02
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (33 bp):
TATAGTTTACATATGACCTATATATATATACTA
Found at i:892397 original size:2 final size:2
Alignment explanation
Indices: 892390--892525 Score: 71
Period size: 2 Copynumber: 63.0 Consensus size: 2
892380 ACATATGACC
*
892390 TA TA TA TA TA TA TA TA TA TA TA CTA TA GT- TGA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA -TA T-A TA TA TA TA TA
* * ** *
892432 CTA TA TA GTT TA CA TA TGA CC TA TA TA TA TA TA CTA TA GTT TA TA
1 -TA TA TA -TA TA TA TA T-A TA TA TA TA TA TA TA -TA TA -TA TA TA
*
892477 T- TCA TA TA CTA TA TA T- TA TA TA TA TA AA CTA TA TA TA CTA TA
1 TA T-A TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA
892519 TA GTA TA
1 TA -TA TA
892526 ATTTACATAT
Statistics
Matches: 104, Mismatches: 14, Indels: 32
0.69 0.09 0.21
Matches are distributed among these distances:
1 3 0.03
2 82 0.79
3 19 0.18
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:892464 original size:53 final size:53
Alignment explanation
Indices: 892400--892518 Score: 168
Period size: 53 Copynumber: 2.2 Consensus size: 53
892390 TATATATATA
* * *
892400 TATATATATATACTATAGTTGATATTTATATACTATATAGTT-TACATATGACC
1 TATATATATATACTATAGTTGATATTCATATACTATATA-TTATACATATAAAC
* *
892453 TATATATATATACTATAGTTTATATTCATATACTATATATTATATATATAAAC
1 TATATATATATACTATAGTTGATATTCATATACTATATATTATACATATAAAC
892506 TATATATACTATA
1 TATATATA-TATA
892519 TAGTATAATT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
52 2 0.03
53 53 0.90
54 4 0.07
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.46
Consensus pattern (53 bp):
TATATATATATACTATAGTTGATATTCATATACTATATATTATACATATAAAC
Found at i:892476 original size:20 final size:20
Alignment explanation
Indices: 892453--892525 Score: 80
Period size: 20 Copynumber: 3.6 Consensus size: 20
892443 ACATATGACC
892453 TATATATATATACTATAGT-T
1 TATATATATATACTATA-TAT
892473 TATAT-TCATATACTATATAT
1 TATATAT-ATATACTATATAT
*
892493 TATATATATAAACTATATA-
1 TATATATATATACTATATAT
892512 TACTATATAGTATA
1 TA-TATATA-TATA
892526 ATTTACATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
19 4 0.09
20 38 0.83
21 4 0.09
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.47
Consensus pattern (20 bp):
TATATATATATACTATATAT
Found at i:892599 original size:33 final size:33
Alignment explanation
Indices: 892562--892716 Score: 170
Period size: 33 Copynumber: 4.5 Consensus size: 33
892552 TCCTAAACCC
*
892562 TAAACTATACATTATATAGTTTATTAGTATATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
* * *
892595 TAAACTATATAACA-TATGTAG-ACTATATCGTATATA
1 TAAAC--TAT-ACATTATATAGTTC-AT-TAGTATATA
892631 TAAACTATACATTATATATAGTTCATTAGTATATA
1 TAAACTATACA-T-TATATAGTTCATTAGTATATA
*
892666 TAAACTATATATTATATAGTTCATTAGTATATA
1 TAAACTATACATTATATAGTTCATTAGTATATA
* *
892699 TAAACTATATAGTATATA
1 TAAACTATACATTATATA
892717 TAAACTATAT
Statistics
Matches: 104, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
33 46 0.44
34 4 0.04
35 29 0.28
36 24 0.23
37 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (33 bp):
TAAACTATACATTATATAGTTCATTAGTATATA
Found at i:892629 original size:51 final size:51
Alignment explanation
Indices: 892562--892839 Score: 287
Period size: 51 Copynumber: 5.3 Consensus size: 51
892552 TCCTAAACCC
* * ** *
892562 TAAACTATACATTATATAGTTTATTAGTATATATAAACTATATAACATATG
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATA
* * * *
892613 TAGACTATATCGTATATATAAACTATACATTA-TATATAGT--TC-AT-TAGTATATA
1 TAAACTATA---TAT-TATATAGT-T-CATTAGTATATA-TAAACTATATAGTATATA
892666 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATA
*
892717 TAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAGTATATGGTACA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATA---T--A
* *
892773 TACAAACTATATATTATATATTTCATTATTATATATAAACTATATAGTATATA
1 T--AAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATA
892826 TAAACTATATATTA
1 TAAACTATATATTA
892840 ATTGATTAAT
Statistics
Matches: 191, Mismatches: 17, Indels: 38
0.78 0.07 0.15
Matches are distributed among these distances:
47 6 0.03
48 7 0.04
49 7 0.04
50 5 0.03
51 78 0.41
53 16 0.08
54 5 0.03
55 8 0.04
56 9 0.05
57 5 0.03
58 45 0.24
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (51 bp):
TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATA
Found at i:892646 original size:18 final size:18
Alignment explanation
Indices: 892586--892836 Score: 159
Period size: 18 Copynumber: 14.1 Consensus size: 18
892576 TATAGTTTAT
892586 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
** * *
892604 TAACATATGTAGACTATA
1 TAGTATATATAAACTATA
*
892622 TCGTATATATAAACTATA
1 TAGTATATATAAACTATA
* * **
892640 CATTATATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
892657 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
892675 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
892690 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
892708 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
**
892726 TA-T-TATAT-AGTTCAT-
1 TAGTATATATAAACT-ATA
*
892741 TAGTATATATAACCTATA
1 TAGTATATATAAACTATA
892759 TAGTATATGGTACATACAAACTATA
1 TAGTATA---T--AT--AAACTATA
* **
892784 TATTATATAT-TTC-AT-
1 TAGTATATATAAACTATA
*
892799 TATTATATATAAACTATA
1 TAGTATATATAAACTATA
892817 TAGTATATATAAACTATA
1 TAGTATATATAAACTATA
892835 TA
1 TA
892837 TTAATTGATT
Statistics
Matches: 177, Mismatches: 33, Indels: 46
0.69 0.13 0.18
Matches are distributed among these distances:
15 18 0.10
16 19 0.11
17 31 0.18
18 90 0.51
20 2 0.01
21 1 0.01
22 1 0.01
23 2 0.01
25 13 0.07
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (18 bp):
TAGTATATATAAACTATA
Found at i:892698 original size:104 final size:107
Alignment explanation
Indices: 892562--892836 Score: 308
Period size: 109 Copynumber: 2.6 Consensus size: 107
892552 TCCTAAACCC
* * * * *
892562 TAAACTATACATTATATAGTTTATTAGTATATATAAACTATATAACATATGTAGACTATATCGTA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAACATATATAAACTATATAGTA
* *
892627 TATA-T-A-AACTATACATTA-TATATAGT-TCATTAGTATATA
66 TATAGTCATAACTATACATAACTATATAGTAT-A-TAGTACATA
** *
892666 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAGTATATATAAACTATATATTA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAACATATATAAACTATATAGTA
* * * *
892731 TATAGTTCATTAGTATATATAACCTATATAGTATATGGTACATA
66 TATAG-TCATAACTATACATAA-CTATATAGTATATAGTACATA
* * * **
892775 CAAACTATATATTATATATTTCATTATTATATATAAACTATATAGTATATATAAACTATATA
1 TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAACATATATAAACTATATA
892837 TTAATTGATT
Statistics
Matches: 147, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
104 61 0.41
106 1 0.01
107 1 0.01
108 8 0.05
109 66 0.45
110 9 0.06
111 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (107 bp):
TAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAACATATATAAACTATATAGTA
TATAGTCATAACTATACATAACTATATAGTATATAGTACATA
Found at i:892745 original size:33 final size:33
Alignment explanation
Indices: 892708--892825 Score: 117
Period size: 33 Copynumber: 3.8 Consensus size: 33
892698 ATAAACTATA
*
892708 TAGTATATATAAACTATATATTATATAGTTCAT
1 TAGTATATATAAACTATATAGTATATAGTTCAT
*
892741 TAGTATATATAACCTATATAGTATAT-G-----
1 TAGTATATATAAACTATATAGTATATAGTTCAT
* * * *
892768 --GTACATACAAACTATATATTATATATTTCAT
1 TAGTATATATAAACTATATAGTATATAGTTCAT
*
892799 TATTATATATAAACTATATAGTATATA
1 TAGTATATATAAACTATATAGTATATA
892826 TAAACTATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
25 20 0.30
32 1 0.02
33 45 0.68
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (33 bp):
TAGTATATATAAACTATATAGTATATAGTTCAT
Found at i:892780 original size:58 final size:58
Alignment explanation
Indices: 892704--892825 Score: 190
Period size: 58 Copynumber: 2.1 Consensus size: 58
892694 ATATATAAAC
* * *
892704 TATATAGTATATATAAACTATATATTATATAGTTCATTAGTATATATAACCTATATAG
1 TATATAGTACATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
* * *
892762 TATATGGTACATACAAACTATATATTATATATTTCATTATTATATATAAACTATATAG
1 TATATAGTACATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
892820 TATATA
1 TATATA
892826 TAAACTATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (58 bp):
TATATAGTACATACAAACTATATATTATATAGTTCATTAGTATATATAAACTATATAG
Found at i:893023 original size:6 final size:6
Alignment explanation
Indices: 893001--893073 Score: 50
Period size: 6 Copynumber: 12.3 Consensus size: 6
892991 AAACTAGATT
*
893001 ATATTA ATA-TA A-GTTA ATATTA ATATT- A-ATT- ATATTA ATATTA
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA ATATTA
893044 AT-TATA ATATATA ATTATTTTA ATATTA AT
1 ATAT-TA ATAT-TA A-TA--TTA ATATTA AT
893074 TATAAATAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
4 4 0.07
5 11 0.20
6 28 0.50
7 5 0.09
8 4 0.07
9 3 0.05
10 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (6 bp):
ATATTA
Found at i:893067 original size:28 final size:27
Alignment explanation
Indices: 892973--893098 Score: 109
Period size: 28 Copynumber: 4.6 Consensus size: 27
892963 TTTTATATTA
* *
892973 ATATTAATTATAAATTATAA-ACTAGATT
1 ATATTAA-TATTAATTATAATATTA-ATT
893001 ATATTAATA-TAAGTTAATATTAATATTAATT
1 ATATTAATATTAA--T--TA-TAATATTAATT
893032 ATATTAATATTAATTATAATATATAATT
1 ATATTAATATTAATTATAATAT-TAATT
*
893060 ATTTTAATATTAATTATAA-A-TAATT
1 ATATTAATATTAATTATAATATTAATT
*
893085 -TATTAATATAAATT
1 ATATTAATATTAATT
893099 TTATAGAAAT
Statistics
Matches: 85, Mismatches: 5, Indels: 20
0.77 0.05 0.18
Matches are distributed among these distances:
24 12 0.14
25 5 0.06
26 2 0.02
27 9 0.11
28 33 0.39
30 3 0.04
31 15 0.18
32 6 0.07
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (27 bp):
ATATTAATATTAATTATAATATTAATT
Found at i:896041 original size:16 final size:16
Alignment explanation
Indices: 896022--896060 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
896012 TGAGTCAATT
*
896022 ACAGGTCAGGTTCATA
1 ACAGGTCAGGTTCAAA
*
896038 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTCAAA
896054 ACAGGTC
1 ACAGGTC
896061 GGGTAATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (16 bp):
ACAGGTCAGGTTCAAA
Found at i:896882 original size:20 final size:20
Alignment explanation
Indices: 896836--896887 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
896826 ACATGTAAAG
*
896836 AATTTGACAAAACCGATTGG
1 AATTTGACAAAACCGATTGC
* *
896856 AAATTGACAAAACC-AGTTTC
1 AATTTGACAAAACCGA-TTGC
896876 AATTTGAACAAA
1 AATTTG-ACAAA
896888 CCGGTAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.04
20 20 0.77
21 5 0.19
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.25
Consensus pattern (20 bp):
AATTTGACAAAACCGATTGC
Found at i:897254 original size:198 final size:196
Alignment explanation
Indices: 896855--897496 Score: 850
Period size: 191 Copynumber: 3.3 Consensus size: 196
896845 AAACCGATTG
*
896855 GAAA-TTGACAAAACCAGTTTCAATTTGA-ACAAACCGGTAAAGAGCTATCGGAATTGTTGAAAT
1 GAAATTTGACAAAACCAGTTTCAATTTGACA-AAACCGGTAAAGAGCTACCGGAATTGTTGAAAT
*
896918 TTGTATCGATACATTTATATG--TA--TA-AAAGTTTTGGTACTTTAGTAAA-TTAAAAGAATTG
65 TTGTATCGATACATTTATATGTATATGTACAAAGTATTGGTACTTTAG-AAATTTAAAAGAATTG
* *
896977 AAATAA-AA-GCATCTATAAAGTATCGATACCTTACACACATGTATCGATACATGACAATATAAC
129 CAATAATAACGC--CTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAAC
897040 AAGTT
192 AAGTT
* * * * **
897045 GAAATTTGACAAAATCAATTTCAATTTGTCAAAACCGGTAAAGAGCTACCAGAATTGTTGATTTT
1 GAAATTTGACAAAACCAGTTTCAATTTGACAAAACCGGTAAAGAGCTACCGGAATTGTTGAAATT
* * * *
897110 TTTTTCGATACATTTATATGTATATGTACCAAAGTATTGGTACTTTAGGAATTTAAAAAGAAATG
66 TGTATCGATACATTTATATGTATATGTA-CAAAGTATTGGTACTTTAGAAATTT-AAAAGAATTG
*
897175 CAATAATAACGCCTATAAAGTATCGATACCTTAGACACATAG-ATCAATACATGACAATATAACA
129 CAATAATAACGCCTATAAAGTATCGATACCTTAGACACAT-GTATCGATACATGACAATATAACA
*
897239 TGTT
193 AGTT
* * * *
897243 AAAATTTGACAAAACCTGTTTCAATTTGACAAAACCGGTAAAGAGCTACCGCAATGGTTGAAATT
1 GAAATTTGACAAAACCAGTTTCAATTTGACAAAACCGGTAAAGAGCTACCGGAATTGTTGAAATT
*
897308 TGTATC-A-ATA-TT-T-T-TATATGTATCAAAGTATTGGTACTTTAGAAATTTAAAAGAATTGC
66 TGTATCGATACATTTATATGTATATGTA-CAAAGTATTGGTACTTTAGAAATTTAAAAGAATTGC
* * *
897367 AATAATAACGCCTATAAAATATCTATACCTTAGACACATGTATCGATACATGACAATATATCAAG
130 AATAATAACGCCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAG
897432 TT
195 TT
** *
897434 GAAATTTGACAAAACCAGTTTCAATTTGACAAAACTAGTAAAGTGCTACCGGAATTGTTGAAA
1 GAAATTTGACAAAACCAGTTTCAATTTGACAAAACCGGTAAAGAGCTACCGGAATTGTTGAAA
897497 GCATAGATAC
Statistics
Matches: 394, Mismatches: 44, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
190 5 0.01
191 195 0.49
192 33 0.08
193 3 0.01
194 1 0.00
195 4 0.01
196 4 0.01
197 20 0.05
198 124 0.31
199 3 0.01
200 2 0.01
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (196 bp):
GAAATTTGACAAAACCAGTTTCAATTTGACAAAACCGGTAAAGAGCTACCGGAATTGTTGAAATT
TGTATCGATACATTTATATGTATATGTACAAAGTATTGGTACTTTAGAAATTTAAAAGAATTGCA
ATAATAACGCCTATAAAGTATCGATACCTTAGACACATGTATCGATACATGACAATATAACAAGT
T
Found at i:897910 original size:131 final size:131
Alignment explanation
Indices: 897671--898027 Score: 502
Period size: 131 Copynumber: 2.7 Consensus size: 131
897661 CACGCAAAAT
* * * *
897671 GTATCGATACACATATATAAAGTATCGATACTTATAATTTCAAAACCTATTACTTTAAAGTAATA
1 GTATCGATACTCATACATAAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* * * * * * *
897736 TGTAAATTAACAATGTACAAGATAAACGTTTCTACCAGTATAATGAAAATAGGCGTAAATGCCCA
66 GGTAAATTAACAATGTACACGATAAATGTTTCTAACAGAATAATGAAAATAGGCATAAATGCACA
897801 A
131 A
* *
897802 GTATAGATACTCATACATAAAGTATCAATACTTATAATTTCGAAACCAATTACTTTAAAGTAATA
1 GTATCGATACTCATACATAAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
* ** * *
897867 GGTAAATTAACAATGTACACGACAAATGTTTCTAATGGAATAATGAAAATATGCATAAATGTACA
66 GGTAAATTAACAATGTACACGATAAATGTTTCTAACAGAATAATGAAAATAGGCATAAATGCACA
897932 A
131 A
* *
897933 GTATCGACACT-GT-CATATAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAAT
1 GTATCGATACTCATACATA-AAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAAT
897996 AGGTAAATTAACAATGTACACGATAATATGTT
65 AGGTAAATTAACAATGTACACGATAA-ATGTT
898028 GATAATATTG
Statistics
Matches: 201, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
129 4 0.02
130 70 0.35
131 127 0.63
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.32
Consensus pattern (131 bp):
GTATCGATACTCATACATAAAGTATCAATACTTATAATTTCGAAACCTATTACTTTAAAGTAATA
GGTAAATTAACAATGTACACGATAAATGTTTCTAACAGAATAATGAAAATAGGCATAAATGCACA
A
Found at i:898743 original size:43 final size:43
Alignment explanation
Indices: 898690--898897 Score: 296
Period size: 42 Copynumber: 4.9 Consensus size: 43
898680 TGATAACAAA
* * * *
898690 AAACGCCGCAAAAGGTCAAGATATATAGCGACATTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
*
898733 AAACACCGCAAAAGGTCGAGATCTATAGCGGCG-TTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
*
898775 AAACGCCGCTAAAA-GTCGAGATTTATAGCGGCGTTTTTGGAAC
1 AAACGCCGC-AAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
898818 AAATGCCACAAAAGGTC-AGATCTATAGCGGCGTTTTTGGAAC
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
* *
898860 AAACGCCGCAAAAGGTCGAGATTTATAACGGCGTTTTT
1 AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTT
898898 CTATACAAAC
Statistics
Matches: 147, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
42 78 0.53
43 69 0.47
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (43 bp):
AAACGCCGCAAAAGGTCGAGATCTATAGCGGCGTTTTTGGAAC
Found at i:898816 original size:85 final size:85
Alignment explanation
Indices: 898690--898897 Score: 312
Period size: 85 Copynumber: 2.4 Consensus size: 85
898680 TGATAACAAA
* * * * *
898690 AAACGCCGCAAAAGGTCAAGATATATAGCGACATTTTTGGAACAAACACCGCAAAAGGTCGAGAT
1 AAACGCCGCAAAAGGTCGAGATTTATAGCGGCGTTTTTGGAACAAACACCACAAAAGGTC-AGAT
898755 CTATAGCGGCG-TTTTGGAAC
65 CTATAGCGGCGTTTTTGGAAC
**
898775 AAACGCCGCTAAAA-GTCGAGATTTATAGCGGCGTTTTTGGAACAAATGCCACAAAAGGTCAGAT
1 AAACGCCGC-AAAAGGTCGAGATTTATAGCGGCGTTTTTGGAACAAACACCACAAAAGGTCAGAT
898839 CTATAGCGGCGTTTTTGGAAC
65 CTATAGCGGCGTTTTTGGAAC
*
898860 AAACGCCGCAAAAGGTCGAGATTTATAACGGCGTTTTT
1 AAACGCCGCAAAAGGTCGAGATTTATAGCGGCGTTTTT
898898 CTATACAAAC
Statistics
Matches: 112, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
84 19 0.17
85 89 0.79
86 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (85 bp):
AAACGCCGCAAAAGGTCGAGATTTATAGCGGCGTTTTTGGAACAAACACCACAAAAGGTCAGATC
TATAGCGGCGTTTTTGGAAC
Found at i:899056 original size:21 final size:21
Alignment explanation
Indices: 899032--899092 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
899022 TAATTAAGAC
899032 ACAAACTTGAAATCCATAACA
1 ACAAACTTGAAATCCATAACA
899053 ACAAACTTGAAATCCATAACA
1 ACAAACTTGAAATCCATAACA
*
899074 AGAAACTTGAAATCCATAA
1 ACAAACTTGAAATCCATAA
899093 TAATAAATCA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.20
Consensus pattern (21 bp):
ACAAACTTGAAATCCATAACA
Found at i:903211 original size:164 final size:166
Alignment explanation
Indices: 902986--903397 Score: 537
Period size: 164 Copynumber: 2.5 Consensus size: 166
902976 CTAAAATCGT
** * * * *
902986 CACTAAAGTATGAGTATTTAGCGACATTTTTGAATAAAATGCCACTAAAGTATTAGGTTTTAGCA
1 CACTAAAGTACAAGTATTTAGCGGCGTTTTTGAATAAAATGCCACTAAAGTACTAGGTTTTAGCG
*
903051 GCGTTTATTTAAAAACGCAACGATATATATACCCTATTGCGGCGTTTGTTTAAAAACGCCACTAA
66 GCGTTTATTTAAAAACGCAACAATATATATACCCTATTGCGGCGTTTGTTTAAAAACGCCACTAA
*
903116 AGAACGATTCTATGGCGGCG-TTTGTTTACAAACAC
131 AGAACGATTCTATGGCGGCGTTTTGTTTAAAAACAC
* *
903151 CACTAAAGTACAAGT-TTTAGCGGCGTTTTTGCATAAAATGCCTCTAAAGTACTAGGTTTTAGCG
1 CACTAAAGTACAAGTATTTAGCGGCGTTTTTGAATAAAATGCCACTAAAGTACTAGGTTTTAGCG
* * * * * *
903215 GCGTTTATCTAACAATGCCACAATATATGTACCCTATTGCGGTGTTTGTTTAAAAACGCCACTAA
66 GCGTTTATTTAAAAACGCAACAATATATATACCCTATTGCGGCGTTTGTTTAAAAACGCCACTAA
* *
903280 AGAACGATTCTATGGCGGCGTTTTTTTTAAAAACGC
131 AGAACGATTCTATGGCGGCGTTTTGTTTAAAAACAC
* * * * * *
903316 CACTAAAGTACTTA-TCTTTAGCGGCGCTTGTCGAAT-AAACGCCACTAAAGTACGA-GTTTTAG
1 CACTAAAGTAC-AAGTATTTAGCGGCG-TTTTTGAATAAAATGCCACTAAAGTACTAGGTTTTAG
* *
903378 CGGCGTTTGTTGAAAAACGC
64 CGGCGTTTATTTAAAAACGC
903398 CGTTAATGTT
Statistics
Matches: 213, Mismatches: 30, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
164 121 0.57
165 59 0.28
166 27 0.13
167 6 0.03
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (166 bp):
CACTAAAGTACAAGTATTTAGCGGCGTTTTTGAATAAAATGCCACTAAAGTACTAGGTTTTAGCG
GCGTTTATTTAAAAACGCAACAATATATATACCCTATTGCGGCGTTTGTTTAAAAACGCCACTAA
AGAACGATTCTATGGCGGCGTTTTGTTTAAAAACAC
Found at i:903340 original size:42 final size:41
Alignment explanation
Indices: 902939--903398 Score: 214
Period size: 41 Copynumber: 11.2 Consensus size: 41
902929 GTTAATGGTT
* *
902939 AAACGCCAATAAAGTACTAGGT-TTTAGCGGCGTTTGTCT-AA
1 AAACGCCACTAAAGTACGA-GTCTTTAGCGGCGTTTGT-TGAA
* * * * * *
902980 AATCGTCACTAAAGTATGAGTATTTAGCGACATTT-TTGAATA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTG-A-A
* ** * * *
903022 AAATGCCACTAAAGTATTAGGT-TTTAGCAGCGTTTATTTAA
1 AAACGCCACTAAAGTACGA-GTCTTTAGCGGCGTTTGTTGAA
* * * ** *
903063 AAACGCAACGATATA-TA-TACCCTATT-GCGGCGTTTGTTTAA
1 AAACGCCAC--TAAAGTACGAGTCT-TTAGCGGCGTTTGTTGAA
* * * * * *
903104 AAACGCCACTAAAGAACGATTCTATGGCGGCGTTTGTTTAC
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTGAA
* *
903145 AAACACCACTAAAGTACAAGT-TTTAGCGGCGTTT-TTGCATA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTG-A-A
* * * *
903186 AAATGCCTCTAAAGTACTAGGT-TTTAGCGGCGTTTATCT-AA
1 AAACGCCACTAAAGTACGA-GTCTTTAGCGGCGTTTGT-TGAA
* * * ** * *
903227 CAATGCCAC-AATA-TATGTACCCTATT-GCGGTGTTTGTTTAA
1 AAACGCCACTAA-AGTACG-AGTCT-TTAGCGGCGTTTGTTGAA
* * * * * *
903268 AAACGCCACTAAAGAACGATTCTATGGCGGCGTTTTTTTTAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCG-TTTGTTGAA
* * *
903310 AAACGCCACTAAAGTACTTA-TCTTTAGCGGCGCTTGTCGAA
1 AAACGCCACTAAAGTAC-GAGTCTTTAGCGGCGTTTGTTGAA
903351 TAAACGCCACTAAAGTACGAGT-TTTAGCGGCGTTTGTTGAA
1 -AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTGAA
903392 AAACGCC
1 AAACGCC
903399 GTTAATGTTA
Statistics
Matches: 319, Mismatches: 70, Indels: 61
0.71 0.16 0.14
Matches are distributed among these distances:
39 6 0.02
40 30 0.09
41 168 0.53
42 105 0.33
43 9 0.03
44 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTTGAA
Found at i:905093 original size:13 final size:14
Alignment explanation
Indices: 905067--905098 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
905057 TTTTTATCTC
905067 AATTTATCTTCTTT
1 AATTTATCTTCTTT
905081 AATTTAT-TTCTTT
1 AATTTATCTTCTTT
905094 -ATTTA
1 AATTTA
905099 ATTTTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.28
13 6 0.33
14 7 0.39
ACGTcount: A:0.25, C:0.09, G:0.00, T:0.66
Consensus pattern (14 bp):
AATTTATCTTCTTT
Found at i:910039 original size:29 final size:29
Alignment explanation
Indices: 910007--910063 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
909997 ATTTCAAAAT
910007 TATAATTATGAAA-AAAATATTAATTTATA
1 TATAATTAT-AAATAAAATATTAATTTATA
* *
910036 TATATTTATAAATAAAATATTTATTTAT
1 TATAATTATAAATAAAATATTAATTTAT
910064 TTAGAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (29 bp):
TATAATTATAAATAAAATATTAATTTATA
Found at i:910158 original size:20 final size:19
Alignment explanation
Indices: 910119--910160 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
910109 TTTCTTCGAT
910119 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
910138 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
910158 ATT
1 ATT
910161 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:910246 original size:120 final size:117
Alignment explanation
Indices: 910028--910252 Score: 258
Period size: 120 Copynumber: 1.9 Consensus size: 117
910018 AAAAAATATT
* * * *
910028 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGT
* * *
910093 GCCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAC
66 ACCTTAAGACAGCTCCTTTCTTCAATATT-AAAAATAAATAAATAATTAAAAC
**
910146 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-GGACATCCA
** **
910211 TTTATTTTAAGA-ATGC-CCTTTCTT-AATATTGAAAAATAAATA
63 GGTACCTTAAGACA-GCTCCTTTCTTCAATATT-AAAAATAAATA
910253 TTAAAACATG
Statistics
Matches: 89, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
118 10 0.11
119 22 0.25
120 41 0.46
121 16 0.18
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.38
Consensus pattern (117 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACATCCAGGT
ACCTTAAGACAGCTCCTTTCTTCAATATTAAAAATAAATAAATAATTAAAAC
Found at i:910288 original size:20 final size:20
Alignment explanation
Indices: 910253--910292 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
910243 AAAATAAATA
*
910253 TTAAAACATGATTAAAATAAG
1 TTAAAACATAATT-AAATAAG
910274 TTAAAA-ATAATTAAATAAG
1 TTAAAACATAATTAAATAAG
910293 ATTTTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (20 bp):
TTAAAACATAATTAAATAAG
Found at i:911727 original size:3 final size:3
Alignment explanation
Indices: 911721--911773 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
911711 ATTATTTATT
* *
911721 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
911765 TAA TAA TAA
1 TAA TAA TAA
911774 ATAAAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:911743 original size:19 final size:18
Alignment explanation
Indices: 911721--911776 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
911711 ATTATTTATT
911721 TAATAATAATAATATAATA
1 TAATAATAATAATA-AATA
* *
911740 TAATAATAATATTAAAACA
1 TAATAATAATAAT-AAATA
*
911759 AAATAATAATAATAAATA
1 TAATAATAATAATAAATA
911777 AAACAAATGA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.84
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:911746 original size:22 final size:21
Alignment explanation
Indices: 911699--911777 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
911689 ATTAGGCCTG
* * *
911699 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
911721 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
*
911743 TAATAATATTAAA-ACA-A-AA
1 TAATAATAATAAATA-ATATAA
911762 TAATAATAATAAATAA
1 TAATAATAATAAATAA
911778 AACAAATGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.31
20 3 0.06
21 2 0.04
22 23 0.47
23 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:911784 original size:22 final size:22
Alignment explanation
Indices: 911721--911784 Score: 69
Period size: 22 Copynumber: 2.9 Consensus size: 22
911711 ATTATTTATT
* *
911721 TAATAAT-AATAATATAATATAA
1 TAATAATAAATAAAACAA-ATAA
*
911743 TAATAATA-TTAAAACAAAATAA
1 TAATAATAAATAAAAC-AAATAA
911765 TAATAATAAATAAAACAAAT
1 TAATAATAAATAAAACAAAT
911785 GAAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 27 0.77
23 8 0.23
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (22 bp):
TAATAATAAATAAAACAAATAA
Found at i:912317 original size:113 final size:113
Alignment explanation
Indices: 912103--913118 Score: 1590
Period size: 113 Copynumber: 9.0 Consensus size: 113
912093 TGGAGTCATG
* * * *
912103 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCC-TCTTCAGATAAGTTCTTCTCC
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
912167 TTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
* *
912215 CAAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTAAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * * *
912280 TTATGAACTTTCTCTTGAAATGTTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
* * *
912328 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCGTTATTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**
912393 TTATGAACTTTCTCTGGAAAAGCTGATCCATCGAA-TGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATC-AAGTGATGAATTTGAA
* *
912441 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
912506 TTATGAACTTTCTCTGTAAAAGTTGATCCATCAAGTGATGAATTTGAG
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
* * *
912554 CAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTGCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
**
912619 TTATGAACTTTCTCTGGAAAAGCTGATCCATCGAA-TGATGAATTCAAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATC-AAGTGATGAATTTGAA
* *
912667 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
912732 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
*
912780 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * **
912845 TTATGAACTTTATCTGGAAAAGCTGATCCATCGAA-TAATGAATTCAAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATC-AAGTGATGAATTTGAA
* *
912893 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
912958 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAG
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
*
913006 CAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
913071 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAA
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
913119 TCTTTGCTAA
Statistics
Matches: 825, Mismatches: 72, Indels: 13
0.91 0.08 0.01
Matches are distributed among these distances:
112 46 0.06
113 773 0.94
114 6 0.01
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (113 bp):
CAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAA
Found at i:912494 original size:24 final size:23
Alignment explanation
Indices: 912459--912503 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
912449 TGAACAAATT
912459 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
912483 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
912504 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:925383 original size:28 final size:27
Alignment explanation
Indices: 925332--925385 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
925322 ATATTAATAA
* *
925332 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAAATATGAAAAT
*
925359 AATAAGTATATATAAAAAATTTGAAAA
1 AATAA-TATATATAAAAAATATGAAAA
925386 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AATAATATATATAAAAAATATGAAAAT
Found at i:926012 original size:20 final size:19
Alignment explanation
Indices: 925973--926014 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
925963 TTTCTTCGAT
925973 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
925992 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
926012 ATT
1 ATT
926015 TATAAAATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:926087 original size:120 final size:117
Alignment explanation
Indices: 925882--926106 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 117
925872 AAAAAATATT
* * * *
925882 AATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAAGACTTCTAGGT
1 AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCCAGGT
* * *
925947 GCCTTAAGACAGCTCTTTTCTTCGATATTAAAAAATAAATAAATAATTAAAAC
66 ACCTTAAGACAGCTCCTTTCTT-AATATTAAAAAATAAATAAATAATTAAAAC
** *
926000 AATTAATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 AATTAATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-AGACATCCA
* ** * *
926065 GTTATTTTAAGACTGC-CCTTTCTTAATATTGAAAAATAAATA
63 GGTACCTTAAGACAGCTCCTTTCTTAATATTAAAAAATAAATA
926107 TTAAAACAGG
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
118 10 0.11
119 22 0.25
120 40 0.45
121 17 0.19
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (117 bp):
AATTAATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCCAGGT
ACCTTAAGACAGCTCCTTTCTTAATATTAAAAAATAAATAAATAATTAAAAC
Found at i:926211 original size:3 final size:3
Alignment explanation
Indices: 926203--926235 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
926193 TTTATGGCTA
*
926203 AAT AAT AAT AAT AAT AAT AAT ATT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
926236 TAAAAGTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:927551 original size:3 final size:3
Alignment explanation
Indices: 927545--927597 Score: 60
Period size: 3 Copynumber: 19.0 Consensus size: 3
927535 ATTATTTATT
* *
927545 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
927589 TAA TAA TAA
1 TAA TAA TAA
927598 ATAAACAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
2 8 0.18
3 36 0.82
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:927567 original size:19 final size:18
Alignment explanation
Indices: 927545--927600 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 18
927535 ATTATTTATT
927545 TAATAATAATAATATAATA
1 TAATAATAATAATA-AATA
* *
927564 TAATAATAATATTAAAACA
1 TAATAATAATAAT-AAATA
*
927583 AAATAATAATAATAAATA
1 TAATAATAATAATAAATA
927601 AACAAATGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.84
20 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATAATAATAATAAATA
Found at i:927570 original size:22 final size:21
Alignment explanation
Indices: 927523--927601 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
927513 ATTAGGCCTG
* * *
927523 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
927545 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
*
927567 TAATAATATTAAA-ACA-A-AA
1 TAATAATAATAAATA-ATATAA
927586 TAATAATAATAAATAA
1 TAATAATAATAAATAA
927602 ACAAATGAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
19 15 0.31
20 3 0.06
21 2 0.04
22 23 0.47
23 6 0.12
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:928502 original size:2 final size:2
Alignment explanation
Indices: 928495--928527 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
928485 TACGTGATAA
928495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
928528 ATTCAAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:948903 original size:23 final size:23
Alignment explanation
Indices: 948873--948920 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
948863 ATATTCAAAC
*
948873 TCTTAATT-CTAACAAACTAAAAA
1 TCTTAATTAATAA-AAACTAAAAA
*
948896 TCTTAATTAATAAATACTAAAAA
1 TCTTAATTAATAAAAACTAAAAA
948919 TC
1 TC
948921 CTAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.33
Consensus pattern (23 bp):
TCTTAATTAATAAAAACTAAAAA
Found at i:952189 original size:27 final size:29
Alignment explanation
Indices: 952157--952211 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
952147 TAAATAATTA
952157 ATAATTTT-AA-GCAGAAATTAAAATAAC
1 ATAATTTTAAAGGCAGAAATTAAAATAAC
* *
952184 ATAATTTTAAAGGGAGAAGTTAAAATAA
1 ATAATTTTAAAGGCAGAAATTAAAATAA
952212 TAGTAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 14 0.58
ACGTcount: A:0.55, C:0.04, G:0.13, T:0.29
Consensus pattern (29 bp):
ATAATTTTAAAGGCAGAAATTAAAATAAC
Found at i:953523 original size:47 final size:46
Alignment explanation
Indices: 953449--953620 Score: 199
Period size: 47 Copynumber: 3.8 Consensus size: 46
953439 ATAAAATCTT
*
953449 TTACCATTT-ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
953494 TTACCATTTAAAT-TATATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT-AATCT-CATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* *
953542 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * * *
953588 TTTCCA-TTATTC-CAAAAACTCGTAAGCTTATTT
1 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTT
953621 GTATGCTTAC
Statistics
Matches: 109, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
44 19 0.17
45 14 0.13
46 11 0.10
47 47 0.43
48 18 0.17
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (46 bp):
TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:953764 original size:40 final size:40
Alignment explanation
Indices: 953720--953841 Score: 217
Period size: 40 Copynumber: 3.0 Consensus size: 40
953710 ACCGTAGTGC
*
953720 TACACATAAGGTCGTGACCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
953760 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
953800 TACACATAGGGTCGTGCCCGCCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
953840 TA
1 TA
953842 TAAACCTGCG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:958505 original size:17 final size:17
Alignment explanation
Indices: 958483--958516 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
958473 TCCATAAATC
*
958483 CAAAATCCAACAATCCA
1 CAAAATCAAACAATCCA
*
958500 CAAAATCAAACATTCCA
1 CAAAATCAAACAATCCA
958517 AAATATTCAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (17 bp):
CAAAATCAAACAATCCA
Found at i:960521 original size:21 final size:21
Alignment explanation
Indices: 960495--960534 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
960485 TAGAACCCCA
*
960495 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
960516 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
960535 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:960569 original size:20 final size:21
Alignment explanation
Indices: 960515--960577 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
960505 GATTCCCCTG
960515 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
960539 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
960559 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
960578 TGCACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:964430 original size:22 final size:21
Alignment explanation
Indices: 964388--964427 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
964378 GAGTTTGTTT
*
964388 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
964409 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
964428 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:966512 original size:11 final size:12
Alignment explanation
Indices: 966475--966524 Score: 54
Period size: 11 Copynumber: 4.4 Consensus size: 12
966465 TTCGAAATAC
966475 TTTGAAAGATTAT
1 TTTG-AAGATTAT
*
966488 TTTGAA-ATTGT
1 TTTGAAGATTAT
966499 TTT-AAGATTAT
1 TTTGAAGATTAT
966510 TTTGAA-A-TAT
1 TTTGAAGATTAT
966520 TTTGA
1 TTTGA
966525 GTAATGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
10 10 0.30
11 15 0.45
12 4 0.12
13 4 0.12
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.52
Consensus pattern (12 bp):
TTTGAAGATTAT
Found at i:966747 original size:13 final size:13
Alignment explanation
Indices: 966729--966755 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
966719 ATTAGTCCAT
966729 ATAATCAATATTC
1 ATAATCAATATTC
966742 ATAATCAATATTC
1 ATAATCAATATTC
966755 A
1 A
966756 ATAGGTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (13 bp):
ATAATCAATATTC
Found at i:966861 original size:15 final size:17
Alignment explanation
Indices: 966827--966863 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
966817 ATATTAAGCC
966827 CAAAAATACAAATAATT
1 CAAAAATACAAATAATT
*
966844 CAAAAAT-CAAA-CATT
1 CAAAAATACAAATAATT
966859 CAAAA
1 CAAAA
966864 CACAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 4 0.21
17 7 0.37
ACGTcount: A:0.65, C:0.16, G:0.00, T:0.19
Consensus pattern (17 bp):
CAAAAATACAAATAATT
Found at i:966925 original size:25 final size:25
Alignment explanation
Indices: 966876--966928 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
966866 CAAAATATCC
*
966876 AAACAACCAAATATTCAAATCTGTT
1 AAACAACCAAATATTCAAATATGTT
966901 AAACAACCAAATCCA-TCAAA-ATGTT
1 AAACAACCAAAT--ATTCAAATATGTT
966926 AAA
1 AAA
966929 ACAATGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 19 0.76
26 5 0.20
27 1 0.04
ACGTcount: A:0.53, C:0.21, G:0.04, T:0.23
Consensus pattern (25 bp):
AAACAACCAAATATTCAAATATGTT
Found at i:968572 original size:20 final size:20
Alignment explanation
Indices: 968543--968580 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
968533 ATTTTCATTT
968543 TTTATATTTTATATTTTAGA
1 TTTATATTTTATATTTTAGA
* *
968563 TTTATTTTTTATTTTTTA
1 TTTATATTTTATATTTTA
968581 TTGATAATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTATATTTTATATTTTAGA
Found at i:968745 original size:15 final size:16
Alignment explanation
Indices: 968725--968765 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
968715 GTTTACTTCA
*
968725 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
*
968740 GAATGATTCAAATGTT
1 GAATGATTCAAACGTT
968756 GAATGATTCA
1 GAATGATTCA
968766 GAGGCTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:968855 original size:27 final size:27
Alignment explanation
Indices: 968817--968883 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
968807 GATAATGGCT
968817 CTGAATCATTCAGAATGTACTTATGTG
1 CTGAATCATTCAGAATGTACTTATGTG
*
968844 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTATGTG
968871 CTGAATCATTCAG
1 CTGAATCATTCAG
968884 CATTGTTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTATGTG
Found at i:968971 original size:29 final size:29
Alignment explanation
Indices: 968937--968999 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
968927 CGAAACAAAC
968937 GCGCTGAATGCTGAACGGTTCAACATTCA
1 GCGCTGAATGCTGAACGGTTCAACATTCA
*
968966 GCGCTGAATGCTGAACGGTTCAACATTTA
1 GCGCTGAATGCTGAACGGTTCAACATTCA
968995 GCGCT
1 GCGCT
969000 AAAGGATTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.25
Consensus pattern (29 bp):
GCGCTGAATGCTGAACGGTTCAACATTCA
Found at i:977533 original size:13 final size:13
Alignment explanation
Indices: 977502--977541 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
977492 TCTAATGGGC
*
977502 AAGTTTGAAAACT
1 AAGTTTGAAAAAT
*
977515 -ATTTTGAAAAAT
1 AAGTTTGAAAAAT
977527 AAGTTTGAAAAAT
1 AAGTTTGAAAAAT
977540 AA
1 AA
977542 TAGTATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.33
Consensus pattern (13 bp):
AAGTTTGAAAAAT
Found at i:978138 original size:20 final size:20
Alignment explanation
Indices: 978115--978183 Score: 68
Period size: 22 Copynumber: 3.2 Consensus size: 20
978105 ATTGAAGCAA
*
978115 TATCGATACTATGC-TAGTAG
1 TATCGATACTA-GCAGAGTAG
*
978135 TATCAATACCTAGCAAGAGTAG
1 TATCGATA-CTAGC-AGAGTAG
978157 TATCGATACCTAGCAAGAGTAG
1 TATCGATA-CTAGC-AGAGTAG
978179 TATCG
1 TATCG
978184 GTATTGGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 9 0.21
21 3 0.07
22 31 0.72
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (20 bp):
TATCGATACTAGCAGAGTAG
Found at i:978183 original size:22 final size:22
Alignment explanation
Indices: 978130--978183 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
978120 ATACTATGCT
*
978130 AGTAGTATCAATACCTAGCAAG
1 AGTAGTATCGATACCTAGCAAG
978152 AGTAGTATCGATACCTAGCAAG
1 AGTAGTATCGATACCTAGCAAG
978174 AGTAGTATCG
1 AGTAGTATCG
978184 GTATTGGGTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (22 bp):
AGTAGTATCGATACCTAGCAAG
Found at i:985923 original size:40 final size:42
Alignment explanation
Indices: 985854--985955 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 42
985844 AAACGGTGAC
* **
985854 CCAACTCCTT-TGCGATGGTTGATCCAATGTGATGATG-A-T
1 CCAACTCCTTATGTGATGGACGATCCAATGTGATGATGTATT
* *
985893 CCAACTCCTTATGTGATGGACGATCTAATGTGATGGTGTTATT
1 CCAACTCCTTATGTGATGGACGATCCAATGTGATGATG-TATT
*
985936 TCAACTCCTTATGTGATGGA
1 CCAACTCCTTATGTGATGGA
985956 AATGAGATAA
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 10 0.19
40 22 0.42
42 1 0.02
43 20 0.38
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (42 bp):
CCAACTCCTTATGTGATGGACGATCCAATGTGATGATGTATT
Found at i:990003 original size:10 final size:10
Alignment explanation
Indices: 989989--990109 Score: 58
Period size: 10 Copynumber: 11.9 Consensus size: 10
989979 TTTGATCGAT
989989 TTTCTTTCTT-
1 TTTCTTT-TTC
989999 TTTCTTTTTC
1 TTTCTTTTTC
990009 TTTC--TTTC
1 TTTCTTTTTC
*
990017 TTTCTTTATC
1 TTTCTTTTTC
*
990027 -TTCTTTTGC
1 TTTCTTTTTC
*
990036 TTTATTTTT-
1 TTTCTTTTTC
*
990045 TCCTCTTTTTC
1 T-TTCTTTTTC
*
990056 TTT-TTTCATC
1 TTTCTTT-TTC
990066 TTT-TGTTTTC
1 TTTCT-TTTTC
990076 TTTTCTCTATCTTC
1 -TTTCT-T-T-TTC
*
990090 TTTCTTTTTT
1 TTTCTTTTTC
990100 TTTCTCTTTT
1 TTTCT-TTTT
990110 TTATGTAGTG
Statistics
Matches: 86, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
8 8 0.09
9 13 0.15
10 42 0.49
11 11 0.13
12 3 0.03
13 6 0.07
14 3 0.03
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:990101 original size:40 final size:38
Alignment explanation
Indices: 990010--990109 Score: 89
Period size: 36 Copynumber: 2.6 Consensus size: 38
990000 TTCTTTTTCT
* * *
990010 TTCTTTCTTTCTTTATCTTCTTTTGCTTTATTTTTTCCTC
1 TTCTTTCTTT-TTTTTC-TCTTTTGCTTTATTTTCTCATC
* *
990050 TT-TTTC--TTTTTTCATCTTTTGTTTTCTTTTCTCTATC
1 TTCTTTCTTTTTTTTC-TCTTTTGCTTTATTTTCTC-ATC
990087 TTCTTTCTTTTTTTTTCTCTTTT
1 TTCTTTC-TTTTTTTTCTCTTTT
990110 TTATGTAGTG
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
36 21 0.43
37 5 0.10
38 4 0.08
39 4 0.08
40 8 0.16
41 7 0.14
ACGTcount: A:0.04, C:0.20, G:0.02, T:0.74
Consensus pattern (38 bp):
TTCTTTCTTTTTTTTCTCTTTTGCTTTATTTTCTCATC
Found at i:991051 original size:11 final size:11
Alignment explanation
Indices: 991031--991064 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
991021 AATGCGAAAA
991031 GTAAATGCAAT
1 GTAAATGCAAT
* *
991042 TTAGATGCAAT
1 GTAAATGCAAT
991053 GTAAATGCAAT
1 GTAAATGCAAT
991064 G
1 G
991065 CATGGTGCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (11 bp):
GTAAATGCAAT
Found at i:995751 original size:29 final size:25
Alignment explanation
Indices: 995711--995780 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 25
995701 ACAAAGAATA
995711 AAAATAAATAAAACATGAGGACTAAATT
1 AAAATAAATAAAACAT--GG-CTAAATT
995739 AAAATAAACTAAAATTACATGGCTAAATT
1 AAAATAAA-T-AAA--ACATGGCTAAATT
995768 AAAATAAATAAAA
1 AAAATAAATAAAA
995781 AATAGATTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 11
0.78 0.00 0.22
Matches are distributed among these distances:
25 1 0.03
27 3 0.08
28 9 0.24
29 16 0.42
30 5 0.13
32 4 0.11
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.23
Consensus pattern (25 bp):
AAAATAAATAAAACATGGCTAAATT
Found at i:999927 original size:24 final size:21
Alignment explanation
Indices: 999870--999918 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
999860 AAATTTCAGC
999870 GGAGGAGAAGAAGATGGAGGG
1 GGAGGAGAAGAAGATGGAGGG
*
999891 GGAGGAGAAGAAGATGGAAGG
1 GGAGGAGAAGAAGATGGAGGG
999912 GGAGGAG
1 GGAGGAG
999919 GAGAGGAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.00, G:0.57, T:0.04
Consensus pattern (21 bp):
GGAGGAGAAGAAGATGGAGGG
Found at i:1001295 original size:42 final size:42
Alignment explanation
Indices: 1001213--1001299 Score: 111
Period size: 42 Copynumber: 2.1 Consensus size: 42
1001203 AAAAAGGAAT
**
1001213 CCGACCAAACTCCAAAAAGTCACGGCGGGAATTCACCGGACA
1 CCGACCAAACTCCAAAAAGTCACGGCCAGAATTCACCGGACA
** * **
1001255 CCGACCAAACTCCAACTAGTCACGGCCAGAGTTCGTCGGACA
1 CCGACCAAACTCCAAAAAGTCACGGCCAGAATTCACCGGACA
1001297 CCG
1 CCG
1001300 TTAATACATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.31, C:0.36, G:0.22, T:0.11
Consensus pattern (42 bp):
CCGACCAAACTCCAAAAAGTCACGGCCAGAATTCACCGGACA
Found at i:1001919 original size:25 final size:26
Alignment explanation
Indices: 1001895--1001942 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
1001885 TATCCTATCA
1001895 AACTT-TCTTCTTC-TCCCTTCCATC
1 AACTTCTCTTCTTCTTCCCTTCCATC
**
1001919 ATTTTCTCTTCTTCTTCCCTTCCA
1 AACTTCTCTTCTTCTTCCCTTCCA
1001943 AAATCAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 3 0.15
25 8 0.40
26 9 0.45
ACGTcount: A:0.10, C:0.40, G:0.00, T:0.50
Consensus pattern (26 bp):
AACTTCTCTTCTTCTTCCCTTCCATC
Found at i:1002920 original size:20 final size:20
Alignment explanation
Indices: 1002895--1002935 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
1002885 ACATAGTGGA
1002895 GTATCGATACCT-ACGGAAGG
1 GTATCGAT-CCTAACGGAAGG
*
1002915 GTATCGATGCTAACGGAAGG
1 GTATCGATCCTAACGGAAGG
1002935 G
1 G
1002936 CCAATATCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.29, C:0.17, G:0.34, T:0.20
Consensus pattern (20 bp):
GTATCGATCCTAACGGAAGG
Found at i:1003564 original size:21 final size:20
Alignment explanation
Indices: 1003539--1003583 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
1003529 AGGGAATGTA
1003539 TATTTTCAAATCCTTATTTTG
1 TATTTTCAAA-CCTTATTTTG
**
1003560 TATTTTTGTAACCTTATTTTG
1 TA-TTTTCAAACCTTATTTTG
1003581 TAT
1 TAT
1003584 AATCGAGTCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
20 1 0.05
21 14 0.67
22 6 0.29
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.60
Consensus pattern (20 bp):
TATTTTCAAACCTTATTTTG
Found at i:1006745 original size:21 final size:21
Alignment explanation
Indices: 1006719--1006860 Score: 189
Period size: 21 Copynumber: 6.7 Consensus size: 21
1006709 AAGGTGTCAA
1006719 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
1006740 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
1006761 AGTGCATCCATGCACCCCTAC
1 AGTGCATCCATGCACCCCTGC
*
1006782 AGTGCATTCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
* *
1006803 AATGCATCCATGCACCTGCC-AC
1 AGTGCATCCATGCACC--CCTGC
* *
1006825 TAGTGCATCGATGCA-CCATGC
1 -AGTGCATCCATGCACCCCTGC
1006846 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
1006861 TCAAACACCG
Statistics
Matches: 105, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
20 14 0.13
21 75 0.71
22 2 0.02
23 14 0.13
ACGTcount: A:0.23, C:0.39, G:0.18, T:0.20
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:1007055 original size:21 final size:21
Alignment explanation
Indices: 1007026--1007065 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1007016 TTTGAGTAGA
1007026 AAAATCATCCCCAAACGGCTCC
1 AAAATCATCCCC-AACGGCTCC
*
1007048 AAAA-CATCCTCAACGGCT
1 AAAATCATCCCCAACGGCT
1007066 ATATACAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 6 0.35
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1010364 original size:20 final size:20
Alignment explanation
Indices: 1010339--1010392 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1010329 ATGCAATTAG
*
1010339 TGCATCGATGCACCCTACTT
1 TGCATCCATGCACCCTACTT
*
1010359 TGCATCCATACACCCTACTT
1 TGCATCCATGCACCCTACTT
*
1010379 TGTATCCATGCACC
1 TGCATCCATGCACC
1010393 AAGGCTGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.37, G:0.11, T:0.30
Consensus pattern (20 bp):
TGCATCCATGCACCCTACTT
Found at i:1011610 original size:10 final size:10
Alignment explanation
Indices: 1011595--1011619 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1011585 TGATATATGT
1011595 GAACATAAGA
1 GAACATAAGA
1011605 GAACATAAGA
1 GAACATAAGA
1011615 GAACA
1 GAACA
1011620 AAGTATAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.12, G:0.20, T:0.08
Consensus pattern (10 bp):
GAACATAAGA
Found at i:1012029 original size:21 final size:21
Alignment explanation
Indices: 1011919--1012044 Score: 108
Period size: 21 Copynumber: 5.9 Consensus size: 21
1011909 TCGATGGTTC
1011919 TATGTGGTCATTCGGGACATA
1 TATGTGGTCATTCGGGACATA
* * * * *
1011940 TATATGATCCTTTGGAACATA
1 TATGTGGTCATTCGGGACATA
* * *
1011961 TATGAGGTCATCCGAGACATA
1 TATGTGGTCATTCGGGACATA
* *
1011982 TATTTGGTCATTCGGGATAATTA
1 TATGTGGTCATTCGGGA-CA-TA
* *
1012005 TATGTGGTCCTTTGGGACATA
1 TATGTGGTCATTCGGGACATA
* *
1012026 TATGAGGTCAATCGGGACA
1 TATGTGGTCATTCGGGACA
1012045 AATTTTATAT
Statistics
Matches: 77, Mismatches: 26, Indels: 4
0.72 0.24 0.04
Matches are distributed among these distances:
21 59 0.77
22 2 0.03
23 16 0.21
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (21 bp):
TATGTGGTCATTCGGGACATA
Found at i:1014381 original size:23 final size:25
Alignment explanation
Indices: 1014355--1014401 Score: 71
Period size: 23 Copynumber: 1.9 Consensus size: 25
1014345 GTTTTCCATT
1014355 TTTTTCTTTC-A-TGTTTTTTTTTC
1 TTTTTCTTTCAACTGTTTTTTTTTC
1014378 TTTTTCTTTCGAACTGTTTTTTTT
1 TTTTTCTTTC-AACTGTTTTTTTT
1014402 CGAACTGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
25 1 0.05
26 10 0.48
ACGTcount: A:0.06, C:0.13, G:0.06, T:0.74
Consensus pattern (25 bp):
TTTTTCTTTCAACTGTTTTTTTTTC
Found at i:1014402 original size:15 final size:16
Alignment explanation
Indices: 1014377--1014418 Score: 59
Period size: 15 Copynumber: 2.6 Consensus size: 16
1014367 GTTTTTTTTT
1014377 CTTTTTCTTTCGAACTG
1 CTTTTT-TTTCGAACTG
1014394 -TTTTTTTTCGAACTG
1 CTTTTTTTTCGAACTG
1014409 CTATTTTTTT
1 CT-TTTTTTT
1014419 TCATGGTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 10 0.43
16 6 0.26
17 7 0.30
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.62
Consensus pattern (16 bp):
CTTTTTTTTCGAACTG
Found at i:1022749 original size:15 final size:15
Alignment explanation
Indices: 1022731--1022763 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1022721 TGTGGTTGAT
1022731 GCTTTCGTGGCTGAC
1 GCTTTCGTGGCTGAC
1022746 GCTTTCGTGGCTGAC
1 GCTTTCGTGGCTGAC
1022761 GCT
1 GCT
1022764 CTTTCTTGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.06, C:0.27, G:0.33, T:0.33
Consensus pattern (15 bp):
GCTTTCGTGGCTGAC
Found at i:1023496 original size:60 final size:60
Alignment explanation
Indices: 1023401--1023579 Score: 189
Period size: 60 Copynumber: 3.0 Consensus size: 60
1023391 TCATATGATC
* * * *
1023401 CTAAACTATGACTCTTATTTTAAATTAGTCATTAAACTTTTAAATATTTCAATTTCATCA
1 CTAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATCA
* * * * * * * * *
1023461 TTAAACTATGATTCTCATTCTAAATTAATCCTTAAAATTTTGAACATTTGAATTTTATCC
1 CTAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATCA
* * * *
1023521 CAAAACTATGAATCTCACTCTAAATTAGTCTCTT-AACTTTTAGATCTTTCAATTTCATC
1 CTAAACTATGAATCTCATTCTAAATTAGTC-CTTAAACTTTTAAATATTTCAATTTCATC
1023580 CCCAAATTCA
Statistics
Matches: 94, Mismatches: 24, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
60 91 0.97
61 3 0.03
ACGTcount: A:0.35, C:0.17, G:0.04, T:0.44
Consensus pattern (60 bp):
CTAAACTATGAATCTCATTCTAAATTAGTCCTTAAACTTTTAAATATTTCAATTTCATCA
Found at i:1027509 original size:46 final size:46
Alignment explanation
Indices: 1027442--1027534 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
1027432 TTTAGGTTAA
*
1027442 AAGTGGAGTTGTTTTTAGTCTTAATCTCGACTTTCTAGGAATGAAG
1 AAGTGGAGTTGTTTTTAGTCTTAATCTCAACTTTCTAGGAATGAAG
1027488 AAGTGGAGTTGTTTTTAGTCTTAATCTCAACTTTCTAGGAATGAAG
1 AAGTGGAGTTGTTTTTAGTCTTAATCTCAACTTTCTAGGAATGAAG
1027534 A
1 A
1027535 CATTACTTTC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.11, G:0.23, T:0.39
Consensus pattern (46 bp):
AAGTGGAGTTGTTTTTAGTCTTAATCTCAACTTTCTAGGAATGAAG
Found at i:1028267 original size:16 final size:17
Alignment explanation
Indices: 1028238--1028269 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
1028228 TCTAAAATTT
1028238 TTAATTTTTCTTATATA
1 TTAATTTTTCTTATATA
1028255 TTAATTTTT-TTATAT
1 TTAATTTTTCTTATAT
1028270 TTTCTATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (17 bp):
TTAATTTTTCTTATATA
Found at i:1033908 original size:21 final size:21
Alignment explanation
Indices: 1033871--1033945 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
1033861 TGTCCCCAAA
* *
1033871 GACCTCATC-TATGTCCCGAAT
1 GACCT-ATCATATATCCCGAAG
*
1033892 GATCTATCATATATCCCGAAG
1 GACCTATCATATATCCCGAAG
*
1033913 GACCTATCATATGTCCCGAAG
1 GACCTATCATATATCCCGAAG
1033934 GACCTATCATAT
1 GACCTATCATAT
1033946 CATATGTCCC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 3 0.06
21 45 0.94
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
GACCTATCATATATCCCGAAG
Found at i:1033953 original size:26 final size:26
Alignment explanation
Indices: 1033917--1033966 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
1033907 CCGAAGGACC
*
1033917 TATCATATGTCCCGAAGGACCTATCA
1 TATCATATGTCCCGAAAGACCTATCA
1033943 TATCATATGTCCCGAAAGACCTAT
1 TATCATATGTCCCGAAAGACCTAT
1033967 GTAACCCTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (26 bp):
TATCATATGTCCCGAAAGACCTATCA
Found at i:1037931 original size:21 final size:21
Alignment explanation
Indices: 1037905--1037954 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
1037895 GTTGAAGGTT
*
1037905 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCATTCGGGACAA
*
1037926 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCATTCGGGACAA
1037947 TTATGTGG
1 TTATGTGG
1037955 CACTTTGGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (21 bp):
TTATGTGGTCATTCGGGACAA
Found at i:1037978 original size:23 final size:23
Alignment explanation
Indices: 1037948--1038020 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
1037938 TCGGGACAAT
*
1037948 TATGTGGCACTTTGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
1037971 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* *
1037994 TATGTGGCACTTCGATGTAAACC
1 TATGTGGCACTTCGGTGCAAACC
1038017 TATG
1 TATG
1038021 AGGTCATTCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.30
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:1037984 original size:44 final size:44
Alignment explanation
Indices: 1037927--1038102 Score: 194
Period size: 44 Copynumber: 4.0 Consensus size: 44
1037917 TCGGGATAAT
* * *
1037927 TATGTGGTCCTTCGGGACAATTATGTGGCACTTTGGTGCAAACC
1 TATGTGGTCATTCGGGACAATTATATGGCACTTAGGTGCAAACC
* * * * *
1037971 TATGTGG-CACTTCGGTG-CAAACCTATGTGGCACTTCGATGTAAACC
1 TATGTGGTCA-TTCGG-GAC-AA-TTATATGGCACTTAGGTGCAAACC
* * *
1038017 TATGAGGTCATTCAGGATAATTATATGGCACTTAGGTGCAAACC
1 TATGTGGTCATTCGGGACAATTATATGGCACTTAGGTGCAAACC
*
1038061 TATATGGTCATTCGGGACAATTATATGGCACTTAGGTGCAAA
1 TATGTGGTCATTCGGGACAATTATATGGCACTTAGGTGCAAA
1038103 TTACGAGCTG
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
43 1 0.01
44 70 0.64
45 6 0.06
46 30 0.28
47 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
TATGTGGTCATTCGGGACAATTATATGGCACTTAGGTGCAAACC
Found at i:1038064 original size:23 final size:23
Alignment explanation
Indices: 1037952--1038102 Score: 88
Period size: 23 Copynumber: 6.7 Consensus size: 23
1037942 GACAATTATG
* *
1037952 TGGCACTTTGGTGCAAACCTATG
1 TGGCACTTAGGTGCAAACCTATA
* *
1037975 TGGCACTTCGGTGCAAACCTATG
1 TGGCACTTAGGTGCAAACCTATA
* * *
1037998 TGGCACTTCGATGTAAACCTATGA
1 TGGCACTTAGGTGCAAACCTAT-A
*
1038022 -GGTCA-TTCA-G-G-ATAA-TTATA
1 TGG-CACTT-AGGTGCA-AACCTATA
1038042 TGGCACTTAGGTGCAAACCTATA
1 TGGCACTTAGGTGCAAACCTATA
* *
1038065 TGGTCA-TTCGG-G-ACAA-TTATA
1 TGG-CACTTAGGTGCA-AACCTATA
1038086 TGGCACTTAGGTGCAAA
1 TGGCACTTAGGTGCAAA
1038103 TTACGAGCTG
Statistics
Matches: 102, Mismatches: 11, Indels: 31
0.71 0.08 0.22
Matches are distributed among these distances:
20 6 0.06
21 21 0.21
22 12 0.12
23 59 0.58
24 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (23 bp):
TGGCACTTAGGTGCAAACCTATA
Found at i:1039717 original size:34 final size:34
Alignment explanation
Indices: 1039664--1039748 Score: 145
Period size: 34 Copynumber: 2.5 Consensus size: 34
1039654 CCCCTTACTA
*
1039664 TAACACTTCT-CCCCTTTAAAAACATTCAACACT
1 TAACATTTCTCCCCCTTTAAAAACATTCAACACT
1039697 TAACATTTCTCCCCCTTTAAAAACATTCAACACT
1 TAACATTTCTCCCCCTTTAAAAACATTCAACACT
*
1039731 TAACATTTCTCCCTCTTT
1 TAACATTTCTCCCCCTTT
1039749 TTGTTAAATT
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 9 0.18
34 40 0.82
ACGTcount: A:0.32, C:0.33, G:0.00, T:0.35
Consensus pattern (34 bp):
TAACATTTCTCCCCCTTTAAAAACATTCAACACT
Found at i:1039813 original size:2 final size:2
Alignment explanation
Indices: 1039806--1039838 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1039796 CAATTGTTAT
1039806 TA TA TA TA 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 TA TA TA TA T
1039839 CTTAAGATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1045977 original size:22 final size:21
Alignment explanation
Indices: 1045935--1045974 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1045925 GAGTTTATTT
*
1045935 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1045956 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1045975 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1048055 original size:65 final size:65
Alignment explanation
Indices: 1047921--1048077 Score: 194
Period size: 65 Copynumber: 2.4 Consensus size: 65
1047911 ACTAAGAGTA
* * *
1047921 CATCGATGCATCAAGTGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGATG
1 CATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTAATG
* * * * *
1047985 CATCGATACATCAAATGCATTCGATGTTTTCATAAA-ATCCTCAGTGCATCGGTGTATGG-TAAT
1 CATCGATGCATCAAATGCATTCGATGTTTTCA-AAATAGCCACAGTGCATCGATGCATGGCTAA-
1048048 TG
64 TG
*
1048050 CATCGATGCATGAAATGCATTCGATGTT
1 CATCGATGCATCAAATGCATTCGATGTT
1048078 CAATTTAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
64 26 0.32
65 51 0.64
66 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.31
Consensus pattern (65 bp):
CATCGATGCATCAAATGCATTCGATGTTTTCAAAATAGCCACAGTGCATCGATGCATGGCTAATG
Found at i:1048117 original size:65 final size:63
Alignment explanation
Indices: 1047921--1048127 Score: 174
Period size: 65 Copynumber: 3.2 Consensus size: 63
1047911 ACTAAGAGTA
* * *
1047921 CATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGC-CAGAGTGCATCGATGCATGG-CTGA
1 CATCGATGCATCAAATGCATTCGATGTTTCATAAA-ATCTC--AGTGCATCGATGCATGGAATG-
1047983 TG
62 TG
* * *
1047985 CATCGATACATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGGTGTATGGTAAT-T
1 CATCGATGCATCAAATGCATTCGATG-TTTCATAAAAT-CTCAGTGCATCGATGCATGG-AATGT
1048049 G
63 G
* ** *
1048050 CATCGATGCATGAAATGCATTCGATG-TTCAATTTAAT-TCATGGTGCATCGATGCATGGATTGG
1 CATCGATGCATCAAATGCATTCGATGTTTC-ATAAAATCTCA--GTGCATCGATGCATGGAAT-G
1048113 TG
62 TG
*
1048115 CATCGGTGCATCA
1 CATCGATGCATCA
1048128 CTCTAAAAAA
Statistics
Matches: 117, Mismatches: 15, Indels: 21
0.76 0.10 0.14
Matches are distributed among these distances:
62 3 0.03
63 5 0.04
64 43 0.37
65 60 0.51
66 4 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
CATCGATGCATCAAATGCATTCGATGTTTCATAAAATCTCAGTGCATCGATGCATGGAATGTG
Found at i:1051496 original size:21 final size:21
Alignment explanation
Indices: 1051470--1051570 Score: 100
Period size: 21 Copynumber: 4.8 Consensus size: 21
1051460 GTCGAGGGTT
*
1051470 TTATGTGGTCCTTCGGGATAA
1 TTATGTGGTCCTTCGGGACAA
*
1051491 TTATGTGGTCCTTGGGGACAA
1 TTATGTGGTCCTTCGGGACAA
*
1051512 TTATGTGG-CACTTCGTG-CAAA
1 TTATGTGGTC-CTTCGGGAC-AA
* *
1051533 CCTATGTGGTCTTTCGGGACAA
1 -TTATGTGGTCCTTCGGGACAA
1051555 TTATGTGG-CACTTCGG
1 TTATGTGGTC-CTTCGG
1051571 TGCAAATTAC
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
20 3 0.05
21 46 0.71
22 14 0.22
23 2 0.03
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.35
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:1051552 original size:43 final size:44
Alignment explanation
Indices: 1051492--1051576 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 44
1051482 TCGGGATAAT
*
1051492 TATGTGGTCCTTGGGGACAATTATGTGGCACTTC-GTGCAAACC
1 TATGTGGTCCTTCGGGACAATTATGTGGCACTTCGGTGCAAACC
*
1051535 TATGTGGTCTTTCGGGACAATTATGTGGCACTTCGGTGCAAA
1 TATGTGGTCCTTCGGGACAATTATGTGGCACTTCGGTGCAAA
1051577 TTACGAGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 32 0.82
44 7 0.18
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (44 bp):
TATGTGGTCCTTCGGGACAATTATGTGGCACTTCGGTGCAAACC
Found at i:1054511 original size:31 final size:30
Alignment explanation
Indices: 1054441--1054511 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
1054431 GAATGTAAAA
* *
1054441 TTTAAAAGTTTGAAGACTAAAGTGTAAAGT
1 TTTAAAAGTTTGAAGACTAAAATATAAAGT
* *
1054471 TGTAAAAGTTT-AAGGACTAAAAATATAAATT
1 TTTAAAAGTTTGAA-GACT-AAAATATAAAGT
1054502 TTTAAAAGTT
1 TTTAAAAGTT
1054512 AAATTTTAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 2 0.06
30 14 0.41
31 18 0.53
ACGTcount: A:0.46, C:0.03, G:0.15, T:0.35
Consensus pattern (30 bp):
TTTAAAAGTTTGAAGACTAAAATATAAAGT
Found at i:1055980 original size:18 final size:19
Alignment explanation
Indices: 1055945--1055981 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1055935 CGCGGAATGT
1055945 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1055965 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1055982 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1056150 original size:15 final size:15
Alignment explanation
Indices: 1056132--1056161 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1056122 AATTCTAAAA
1056132 ATTTAAATAAAAATT
1 ATTTAAATAAAAATT
*
1056147 ATTTATATAAAAATT
1 ATTTAAATAAAAATT
1056162 TTATCTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTTAAATAAAAATT
Found at i:1059646 original size:74 final size:75
Alignment explanation
Indices: 1059555--1059760 Score: 353
Period size: 74 Copynumber: 2.7 Consensus size: 75
1059545 GACCGTTGAA
1059555 CAGGGGGGAATCGGTACCCCCTATGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAG
1 CAGGGGGGAATCGGTACCCCCTATGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAG
1059620 CCAAACCATT
66 CCAAACCATT
* *
1059630 CA-GGGGGAATCGGTACCCCCTATGGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 CAGGGGGGAATCGGTACCCCCTATGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAG
1059694 CCAAACCATT
66 CCAAACCATT
*
1059704 CAGGGGGGAATCGGTACCCCCT-TGGGGGGGAATCGGTTCCCTCTGAGCAATCTGGAA
1 CAGGGGGGAATCGGTACCCCCTAT--GGGGGAATCGGTTCCCTCTGAGCATTCTGGAA
1059761 TTTTTGGCTT
Statistics
Matches: 124, Mismatches: 4, Indels: 5
0.93 0.03 0.04
Matches are distributed among these distances:
74 73 0.59
75 21 0.17
76 30 0.24
ACGTcount: A:0.22, C:0.27, G:0.31, T:0.20
Consensus pattern (75 bp):
CAGGGGGGAATCGGTACCCCCTATGGGGGAATCGGTTCCCTCTGAGCATTCTGGAAATCTCAGAG
CCAAACCATT
Found at i:1062103 original size:21 final size:21
Alignment explanation
Indices: 1062077--1062116 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1062067 CAGAACCCCA
*
1062077 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
1062098 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
1062117 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:1062151 original size:20 final size:21
Alignment explanation
Indices: 1062097--1062159 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
1062087 GATTCCCCTG
1062097 TGGGGGGAATCGGTTCCCCTTCAA
1 TGGGGGG-ATCGGTT-CCC-TCAA
* *
1062121 AGGGGGAATCGGTTCCCTC-A
1 TGGGGGGATCGGTTCCCTCAA
*
1062141 TGGGGGGATCGATTCCCTC
1 TGGGGGGATCGGTTCCCTC
1062160 TACACCAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 17 0.50
21 2 0.06
22 3 0.09
23 7 0.21
24 5 0.15
ACGTcount: A:0.16, C:0.25, G:0.35, T:0.24
Consensus pattern (21 bp):
TGGGGGGATCGGTTCCCTCAA
Found at i:1068442 original size:21 final size:22
Alignment explanation
Indices: 1068416--1068464 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
1068406 AATGTATCGC
*
1068416 AGATTATATAAAAAATAAA-CA
1 AGATTAAATAAAAAATAAATCA
*
1068437 AGATTAAATATAAAATAAATCA
1 AGATTAAATAAAAAATAAATCA
1068459 ATGATT
1 A-GATT
1068465 CCCAAAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.71
22 3 0.12
23 4 0.17
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (22 bp):
AGATTAAATAAAAAATAAATCA
Found at i:1070478 original size:3 final size:3
Alignment explanation
Indices: 1070470--1070582 Score: 226
Period size: 3 Copynumber: 37.7 Consensus size: 3
1070460 AAGAAACAAT
1070470 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1070518 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1070566 TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TT
1070583 GCTTTGATGA
Statistics
Matches: 110, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 110 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1070670 original size:2 final size:2
Alignment explanation
Indices: 1070663--1070716 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1070653 CAAAGCCCAT
1070663 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1070705 TC TC TC TC TC TC
1 TC TC TC TC TC TC
1070717 AATAGAACTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1077944 original size:13 final size:13
Alignment explanation
Indices: 1077917--1077956 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1077907 TTTTCTATTA
1077917 GGGTTTATG--TT
1 GGGTTTATGATTT
1077928 GGGTTTATGATTT
1 GGGTTTATGATTT
1077941 GGGTTTA-GAGTTT
1 GGGTTTATGA-TTT
1077954 GGG
1 GGG
1077957 ACCAATTTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 9 0.35
12 2 0.08
13 15 0.58
ACGTcount: A:0.12, C:0.00, G:0.40, T:0.47
Consensus pattern (13 bp):
GGGTTTATGATTT
Found at i:1081940 original size:31 final size:31
Alignment explanation
Indices: 1081882--1081942 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
1081872 GATTTAGTTA
* *
1081882 GTGACCAAATTATAAGATTTTGTAAAGTTTG
1 GTGACCAAAGTATAAGATTTTGAAAAGTTTG
*
1081913 GTGACCAAAGTATAA-CTTTTAGAAAAGTTT
1 GTGACCAAAGTATAAGATTTT-GAAAAGTTT
1081943 AGGGACTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.36
Consensus pattern (31 bp):
GTGACCAAAGTATAAGATTTTGAAAAGTTTG
Found at i:1082776 original size:30 final size:30
Alignment explanation
Indices: 1082733--1082801 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 30
1082723 AAAAGCCTTA
* *
1082733 GAAAATTTAGGGACC-ATTCT-ATAATTTTT
1 GAAAAGTTAGGGACCAATT-TGATAATTTTG
*
1082762 GAAAAGTTAGGGGACCAATTTGGTAATTTTG
1 GAAAAGTTA-GGGACCAATTTGATAATTTTG
1082793 GAAAAGTTA
1 GAAAAGTTA
1082802 TGAATAATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.24
30 7 0.21
31 19 0.56
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (30 bp):
GAAAAGTTAGGGACCAATTTGATAATTTTG
Found at i:1085303 original size:30 final size:30
Alignment explanation
Indices: 1085267--1085334 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
1085257 TTTCGTTTTA
* * *
1085267 ATTCATTGGCATTGACTTCACTTTGCATAC
1 ATTCATTCGCATTCACTTCACTTTGCACAC
* *
1085297 ATTCATTCTCTTTCACTTCACTTTGCACAC
1 ATTCATTCGCATTCACTTCACTTTGCACAC
*
1085327 TTTCATTC
1 ATTCATTC
1085335 TCTTCACATG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.44
Consensus pattern (30 bp):
ATTCATTCGCATTCACTTCACTTTGCACAC
Found at i:1085335 original size:30 final size:30
Alignment explanation
Indices: 1085281--1085338 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
1085271 ATTGGCATTG
*
1085281 ACTTCACTTTGCATACATTCATTCTCTTTC
1 ACTTCACTTTGCACACATTCATTCTCTTTC
*
1085311 ACTTCACTTTGCACACTTTCATTCTCTT
1 ACTTCACTTTGCACACATTCATTCTCTT
1085339 CACATGGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.19, C:0.31, G:0.03, T:0.47
Consensus pattern (30 bp):
ACTTCACTTTGCACACATTCATTCTCTTTC
Found at i:1087090 original size:13 final size:13
Alignment explanation
Indices: 1087072--1087105 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
1087062 AGAGGTGTTG
1087072 TCACTAAACTTTC
1 TCACTAAACTTTC
1087085 TCACTAAACTTTC
1 TCACTAAACTTTC
1087098 TCACTAAA
1 TCACTAAA
1087106 TTTAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (13 bp):
TCACTAAACTTTC
Found at i:1087333 original size:27 final size:27
Alignment explanation
Indices: 1087281--1087333 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
1087271 AACTCAATGT
*
1087281 TTTAACGTCAGTAAGAAAATTGAGAAC
1 TTTAACGTCAGTAAGAAAAATGAGAAC
* *
1087308 TTTAACGTTTAGTGAGAAAAAT-AGAA
1 TTTAACG-TCAGTAAGAAAAATGAGAA
1087334 GTGAGAGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.45, C:0.08, G:0.19, T:0.28
Consensus pattern (27 bp):
TTTAACGTCAGTAAGAAAAATGAGAAC
Found at i:1094671 original size:18 final size:18
Alignment explanation
Indices: 1094648--1094690 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
1094638 TTAATTTTCC
*
1094648 TTTAATTTTATATTGAAT
1 TTTAATTTTATAGTGAAT
1094666 TTTAA-TTTATAGTGAAT
1 TTTAATTTTATAGTGAAT
*
1094683 TTTTATTT
1 TTTAATTT
1094691 GTACTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.07, T:0.63
Consensus pattern (18 bp):
TTTAATTTTATAGTGAAT
Found at i:1100358 original size:40 final size:42
Alignment explanation
Indices: 1100285--1100368 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
1100275 GAAAAAAATA
*
1100285 TATATATATATATACATCAAAATATTAATAAAATA-AATAAGC
1 TATATATATATATACAACAAAATATTAATAAAATAGAA-AAGC
*
1100327 TATATATATATATACAAC-AAATATTTA-AAAATAGAAAAGC
1 TATATATATATATACAACAAAATATTAATAAAATAGAAAAGC
1100367 TA
1 TA
1100369 CCCTCTCACT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
40 12 0.31
41 10 0.26
42 17 0.44
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (42 bp):
TATATATATATATACAACAAAATATTAATAAAATAGAAAAGC
Found at i:1100813 original size:49 final size:53
Alignment explanation
Indices: 1100733--1100850 Score: 122
Period size: 51 Copynumber: 2.3 Consensus size: 53
1100723 AGATAATTAC
** * *
1100733 AATATATATAGTA-ATAATAGACTTATAAGTAAAATATTAAA-G-AAAT-ATAT
1 AATATATATA-TATATAATAGAAATATAAGTAAAAAATCAAATGAAAATAATAT
*
1100783 ATATATATATATATATAATA-AAATAT-AGTAAAAAATCAAATGAAAATAATTT
1 A-ATATATATATATATAATAGAAATATAAGTAAAAAATCAAATGAAAATAATAT
*
1100835 AAAATATATATATATA
1 AATATATATATATATA
1100851 CGTATAATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
49 12 0.21
50 8 0.14
51 33 0.58
52 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (53 bp):
AATATATATATATATAATAGAAATATAAGTAAAAAATCAAATGAAAATAATAT
Done.