genome.fa.s9634.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  3  of  78  ( 9351 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486530--486566	19	2.0	19	89	5	58	37	0	8	54	1.30
486756--486791	19	1.9	18	88	5	54	16	11	0	72	1.12
489974--490011	2	19.5	2	94	5	69	50	0	0	50	1.00
491063--491214	4	39.0	4	70	23	53	26	3	0	69	1.03
491061--491213	24	6.1	24	67	17	80	27	3	0	69	1.04
491171--491214	17	2.6	17	96	3	81	22	0	0	77	0.77
491258--491310	17	3.2	16	81	5	52	16	9	1	71	1.21
491357--491399	14	3.1	14	84	15	63	13	2	4	79	1.00
491357--491417	14	4.5	13	77	20	54	11	3	6	78	1.05
491356--491432	28	2.8	27	80	13	77	11	3	7	76	1.13
492488--492637	80	1.9	82	87	4	225	50	16	9	23	1.74
492847--492890	23	1.9	23	81	9	54	47	15	15	20	1.82
496339--496436	46	2.1	48	86	3	137	28	13	19	38	1.89
508155--508188	17	2.0	17	100	0	68	35	29	11	23	1.90
508578--508639	21	3.0	20	75	13	63	24	37	24	14	1.93
508579--508617	20	1.9	20	89	5	60	20	38	25	15	1.92
509497--509570	24	3.0	24	66	24	62	27	37	12	22	1.90
514231--514289	23	2.6	23	80	0	73	28	27	23	20	1.99
514305--514522	103	2.1	103	94	0	391	37	22	12	26	1.91
521070--521219	72	2.1	72	96	0	273	25	26	11	36	1.90
521881--522011	55	2.4	55	86	0	172	19	21	16	43	1.88
522299--522395	45	2.1	46	84	5	124	32	22	13	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
527627--527847	109	2.0	112	93	2	385	34	21	5	38	1.78
538482--538508	8	3.4	8	100	0	54	66	11	0	22	1.22
546000--546032	3	11.0	3	93	0	57	66	3	0	30	1.06
546482--546522	18	2.3	18	91	4	66	29	4	2	63	1.28
548175--548210	18	2.0	18	94	0	63	25	27	22	25	2.00
548548--548572	9	2.8	9	100	0	50	44	32	24	0	1.54
554448--554510	21	3.0	21	90	0	99	25	28	17	28	1.97
554790--554825	12	3.2	12	92	7	58	44	5	5	44	1.50
557338--557406	35	1.9	36	91	2	113	27	18	26	27	1.98
557672--557724	2	26.5	2	100	0	106	50	0	0	49	1.00
567675--567956	42	6.7	41	79	8	200	21	18	21	37	1.94
567665--568002	105	3.2	105	92	0	559	21	19	21	37	1.95
567656--567872	63	3.5	62	80	8	260	21	19	22	36	1.95
567780--567977	63	3.1	63	81	8	217	22	18	22	36	1.95
567864--567995	63	2.1	63	95	0	237	21	18	21	38	1.93
568565--568597	12	2.8	12	90	0	57	6	15	45	33	1.70
568715--568851	21	6.6	21	77	12	149	33	27	20	18	1.96
568681--568826	42	3.5	42	94	1	251	34	24	19	21	1.97
568680--568851	82	2.1	83	86	8	244	33	24	20	21	1.97
568866--568912	21	2.2	21	96	0	85	19	19	31	29	1.96
586042--586085	2	22.0	2	85	0	52	47	6	2	43	1.42
599220--599248	15	1.9	15	100	0	58	13	31	34	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
603942--604049	52	2.1	52	92	0	180	32	11	12	43	1.78
608067--608261	73	2.7	74	80	12	208	22	33	23	21	1.97
613948--613997	22	2.3	22	82	3	66	20	44	18	18	1.88
615946--616017	30	2.3	30	85	4	90	43	1	19	36	1.60
616328--616525	75	2.6	76	86	7	253	23	33	23	19	1.97
617351--617445	30	3.1	31	78	6	86	25	17	22	34	1.96
617374--617465	30	3.0	30	83	1	103	25	19	21	33	1.97
618843--619672	83	10.0	83	81	3	887	23	18	22	35	1.96
618847--619672	84	9.9	84	81	2	905	23	18	23	35	1.96
618847--619672	165	5.0	166	85	3	978	23	18	23	35	1.96
621186--621258	30	2.4	30	90	0	110	24	21	21	31	1.98
623908--623949	2	21.0	2	100	0	84	50	0	0	50	1.00
626395--626489	31	3.1	31	77	6	86	24	17	22	35	1.95
626418--626518	30	3.3	30	83	2	94	23	18	22	34	1.96
627899--628727	84	9.9	84	83	1	932	23	18	22	35	1.96
627899--628727	167	5.0	167	86	1	1052	23	18	22	35	1.96
627895--628727	251	3.3	249	83	2	981	24	18	22	35	1.96
636876--636998	59	2.1	59	83	3	149	34	12	17	34	1.87
645341--645371	14	2.1	15	94	5	55	35	0	29	35	1.58
651743--651821	10	8.3	9	78	9	77	13	29	30	26	1.94
651742--651819	19	4.1	19	80	14	88	15	26	30	26	1.96
651723--651821	29	3.4	29	77	10	87	15	27	29	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
651828--651858	7	4.4	7	100	0	62	16	29	29	25	1.96
658892--658950	9	6.3	9	78	7	64	15	27	28	28	1.96
658892--658950	19	3.2	19	82	2	84	15	27	28	28	1.96
658947--658984	5	7.8	5	88	5	60	21	55	21	2	1.56
658945--658984	14	2.7	15	92	3	64	20	55	20	5	1.62
658981--659017	7	5.4	7	87	6	58	18	27	29	24	1.98
658981--659017	13	2.7	14	87	8	58	18	27	29	24	1.98
660671--660719	21	2.3	21	82	6	55	51	2	0	46	1.12
662920--662969	25	2.0	25	96	0	91	32	0	26	42	1.56
664616--664661	23	2.0	24	83	12	60	50	8	4	36	1.53
666214--666428	88	2.5	86	85	7	278	25	18	18	37	1.94
666516--666862	189	1.8	190	85	3	493	25	21	16	37	1.93
666833--667082	131	1.9	131	91	0	410	23	20	18	37	1.94
667739--667763	6	4.2	6	100	0	50	0	32	16	52	1.44
672063--672102	13	2.9	14	85	7	55	45	7	12	35	1.70
684008--684079	33	2.1	35	85	10	96	51	4	1	43	1.29
689057--689099	18	2.5	18	92	7	72	20	16	34	27	1.94
693783--693814	3	10.7	3	100	0	64	65	0	0	34	0.93
695773--695844	35	2.1	35	94	0	126	33	22	11	33	1.89
697796--697867	35	2.1	35	89	0	108	33	19	12	34	1.89
699982--700025	22	2.0	21	83	16	54	36	2	2	59	1.23
701508--701553	24	1.9	24	95	0	83	21	13	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
704032--704085	24	2.3	24	84	9	67	53	5	3	37	1.42
707264--707336	23	3.2	23	84	0	101	41	20	5	32	1.75
707743--707838	23	4.2	23	93	0	165	37	19	6	36	1.77
709632--710421	178	4.4	180	95	4	1409	33	17	15	33	1.91
709632--710421	358	2.2	357	96	2	1453	33	17	15	33	1.91
710420--711180	196	3.8	200	94	2	1342	31	18	14	35	1.92
710420--711180	396	1.9	396	94	2	1334	31	18	14	35	1.92
711303--711363	19	3.3	18	88	2	59	52	11	1	34	1.47
711315--711363	19	2.6	19	96	0	89	55	10	2	32	1.45
713211--713275	21	3.1	21	93	0	103	16	30	10	41	1.83
713742--713767	12	2.2	12	100	0	52	34	7	7	50	1.60
715331--715373	15	2.9	15	100	0	86	11	67	13	6	1.41
716675--716721	17	2.7	17	78	15	60	21	14	10	53	1.71
716648--717087	178	2.5	180	87	4	612	26	17	14	41	1.87
716852--716897	20	2.3	20	89	10	76	17	17	10	54	1.70
716648--717109	182	2.6	179	87	4	627	26	16	14	42	1.87
718753--719163	43	9.6	42	81	2	428	31	18	23	26	1.97
718753--719163	85	4.8	84	83	3	414	31	18	23	26	1.97
718770--719134	127	2.9	126	84	4	446	32	18	24	25	1.97
719273--719330	21	2.8	21	92	2	91	51	20	6	20	1.70
720257--720383	66	1.9	66	88	0	191	39	25	13	22	1.90
722242--722728	41	11.8	40	82	7	453	33	19	18	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
722248--722681	165	2.6	164	83	7	533	33	19	18	28	1.96
722242--722726	124	3.9	122	80	9	484	33	19	18	28	1.96
723935--723962	14	2.0	14	100	0	56	35	7	7	50	1.57
723622--724259	321	2.0	321	100	0	1276	26	20	15	36	1.93
726918--726973	22	2.5	22	94	5	94	55	1	0	42	1.10
726935--726991	28	2.0	28	82	0	69	54	3	0	42	1.17
734067--734116	21	2.4	21	96	0	91	22	14	30	34	1.93
734068--734128	21	2.9	21	90	4	79	22	18	29	29	1.97
739783--739839	23	2.5	23	82	0	78	31	24	24	19	1.98
741287--741447	63	2.5	63	79	4	180	25	22	19	32	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78