genome.fa.s8242.2.7.7.80.10.50.1000.5.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  5  of  73  ( 8740 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)
746673--747072	54	7.1	54	75	14	353	35	0	11	52	1.41
746722--747055	32	11.5	32	73	23	269	35	0	11	52	1.40
746863--746905	22	2.0	22	95	0	77	37	0	11	51	1.39
746894--746946	14	3.5	14	72	18	52	37	0	5	56	1.23
746673--747113	86	5.3	86	78	13	456	35	0	11	52	1.41
747471--747506	17	2.1	17	89	0	54	44	8	16	30	1.77
750322--750352	15	2.1	15	93	0	53	70	0	0	29	0.87
762128--762593	240	1.9	240	89	1	729	36	30	16	16	1.91
769675--769746	29	2.4	30	86	6	103	62	5	15	16	1.50
769691--769747	15	3.8	16	70	25	52	61	5	14	19	1.51
778203--778249	23	2.1	23	92	4	78	21	25	31	21	1.98
778187--778260	23	3.5	22	77	15	75	21	28	25	24	1.99
780896--780946	22	2.3	22	100	0	102	47	15	15	21	1.83
785029--785080	22	2.4	22	100	0	104	40	38	7	13	1.73
787236--787342	42	2.6	40	86	7	151	29	21	22	26	1.99
787504--787609	41	2.5	42	83	3	133	33	21	18	25	1.96
787688--787909	57	4.0	56	77	10	247	40	18	9	31	1.82
787690--787915	110	2.0	110	88	4	330	40	18	9	31	1.82
789615--789672	29	2.0	30	96	3	109	29	20	22	27	1.99
789615--789671	17	3.6	17	75	24	70	29	21	22	26	1.99
789640--789691	19	2.9	18	80	16	63	28	21	25	25	1.99
791345--791411	21	3.2	21	100	0	134	28	10	26	34	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
791428--791470	22	2.0	22	85	0	59	23	25	25	25	2.00
792576--792628	28	2.0	24	82	13	61	20	3	33	41	1.70
793682--793722	16	2.5	17	77	18	50	19	17	19	43	1.88
794337--794384	4	12.2	4	80	12	55	6	20	0	72	1.05
797994--798030	16	2.3	16	90	0	56	32	0	2	64	1.07
801554--802211	182	3.6	182	87	2	883	43	13	15	27	1.84
804053--804108	24	2.5	22	77	13	60	39	0	8	51	1.33
804781--804819	18	2.2	18	90	0	60	56	0	35	7	1.28
805123--805156	17	2.0	17	100	0	68	52	5	11	29	1.61
806307--806356	19	2.6	19	93	0	82	30	2	10	58	1.42
806632--807446	198	4.1	198	92	1	1314	35	17	14	31	1.90
807987--808023	18	2.1	17	90	10	56	75	0	13	10	1.04
809780--810442	105	6.3	105	97	0	1231	23	18	25	32	1.97
817821--817869	20	2.3	22	75	13	57	16	18	2	63	1.41
821743--821779	18	2.1	17	90	10	56	75	0	13	10	1.04
823545--823597	15	3.5	15	81	0	70	18	43	3	33	1.68
826343--826388	21	2.1	21	84	4	56	30	15	10	43	1.81
826006--826527	197	2.6	200	83	3	680	38	17	13	30	1.88
826507--826542	14	2.6	14	100	0	72	25	16	16	41	1.89
829742--830264	198	2.6	196	81	6	608	38	14	16	30	1.89
830343--830387	23	2.0	23	90	0	72	37	17	8	35	1.81
830259--830421	87	1.9	87	92	0	272	30	14	13	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
831911--831968	3	19.0	3	75	3	53	31	3	3	62	1.29
831920--831958	19	2.1	19	90	0	60	33	2	2	61	1.23
833991--834027	10	3.8	10	80	20	51	37	0	2	59	1.12
834011--834071	23	2.7	23	80	12	63	26	3	1	68	1.14
834024--834059	16	2.2	16	90	0	54	22	0	2	75	0.94
834711--834735	11	2.3	11	100	0	50	44	16	0	40	1.47
837026--837066	20	2.0	20	95	0	73	26	24	7	41	1.81
837661--837707	22	2.1	22	84	7	60	68	6	23	2	1.24
837673--837716	22	2.0	21	86	4	61	68	9	22	0	1.18
837704--837734	16	1.9	16	100	0	62	83	6	9	0	0.79
838766--838835	32	2.2	33	87	7	99	35	10	22	31	1.87
840096--840176	35	2.3	36	78	8	94	34	19	12	33	1.89
840514--840595	28	2.9	28	83	7	103	20	14	15	48	1.80
840603--840961	133	2.7	134	86	3	499	26	30	17	25	1.97
841162--841213	3	17.0	3	80	4	59	32	3	1	61	1.25
841165--841203	19	2.1	19	95	0	69	33	2	0	64	1.08
844073--844109	10	3.8	10	80	20	51	37	0	2	59	1.12
844071--844125	16	3.6	16	80	11	62	36	0	1	61	1.06
844071--844115	19	2.4	19	85	3	65	37	0	2	60	1.09
850804--850968	3	55.0	3	93	0	276	33	3	0	63	1.12
852262--852299	19	2.1	19	95	5	69	23	0	5	71	1.07
863751--863825	17	4.4	16	80	14	87	80	0	18	1	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
863754--863821	9	7.4	9	81	1	73	80	0	17	1	0.78
863752--863821	36	1.9	36	86	11	99	80	0	18	1	0.80
863752--863826	26	2.8	28	77	20	97	78	0	20	1	0.82
864154--864199	18	2.6	17	76	6	56	36	4	4	54	1.40
864154--864199	19	2.6	18	76	10	51	36	4	4	54	1.40
864983--865273	83	3.5	83	98	0	555	27	14	20	36	1.92
866015--866582	116	4.9	116	93	1	931	36	11	21	29	1.89
866903--867029	3	42.3	3	95	0	209	33	3	0	62	1.14
868394--868431	19	2.1	19	95	5	69	23	0	5	71	1.07
870418--870532	57	2.0	57	91	0	185	35	36	10	17	1.84
888215--888252	17	2.2	18	81	13	53	31	2	0	65	1.06
891908--891952	23	2.0	23	82	8	56	22	31	22	24	1.99
893955--894020	23	2.9	23	81	4	71	19	21	24	34	1.96
896356--896436	39	2.0	41	86	9	114	48	13	3	34	1.60
914786--914835	2	25.0	2	100	0	100	50	0	0	50	1.00
917569--917865	54	5.5	54	94	0	522	18	25	18	36	1.94
918241--918356	37	3.2	37	81	7	130	26	19	19	33	1.96
918260--918364	36	2.9	36	84	4	131	26	18	21	33	1.96
919579--919828	126	2.0	125	82	2	304	24	25	16	33	1.96
923222--923372	72	2.1	72	93	0	257	23	25	12	38	1.90
924047--924169	55	2.2	55	91	2	194	20	21	13	43	1.86
942150--942212	32	2.0	32	93	0	108	39	3	9	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
948305--948338	6	5.7	6	100	0	68	70	0	0	29	0.87
948847--948888	22	1.9	22	85	9	59	59	4	9	26	1.48
949898--949941	3	15.3	3	86	9	56	63	0	4	31	1.14
950500--950969	61	7.7	61	83	4	599	25	15	20	38	1.92
950500--950970	246	1.9	247	89	1	739	25	15	20	38	1.92
957070--957121	18	2.9	18	85	0	68	26	30	19	23	1.98
957862--957919	20	2.6	22	86	10	75	25	20	20	32	1.97
957907--958047	64	2.2	63	81	7	160	24	23	18	33	1.97
959533--959598	30	2.2	30	86	5	89	65	7	10	16	1.46
959851--960159	152	2.0	155	97	2	588	46	12	15	24	1.82
962065--962141	40	2.0	39	87	12	115	45	33	7	12	1.72
970050--970080	16	1.9	16	100	0	62	38	0	0	61	0.96
970011--970243	107	2.2	107	88	7	341	39	3	4	53	1.36
970011--970271	107	2.5	106	82	10	270	39	3	4	52	1.39
971025--971225	4	51.5	4	72	4	61	0	66	0	33	0.92
971025--971225	6	34.3	6	76	5	61	0	66	0	33	0.92
971029--971224	12	16.9	12	79	12	153	0	67	0	32	0.91
972568--972655	3	29.0	3	88	8	126	37	0	0	62	0.95
974034--974065	15	2.0	17	88	11	50	50	6	3	40	1.43
974048--974634	293	2.0	293	95	4	1069	39	8	7	44	1.65
975510--975563	28	2.0	27	81	3	63	20	25	24	29	1.99
975602--975627	10	2.6	10	100	0	52	76	7	7	7	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978801--978829	10	2.7	11	89	10	51	0	6	6	86	0.72
980703--980765	31	2.0	31	96	0	117	26	19	19	34	1.95
981840--981878	3	12.7	3	83	5	51	58	0	2	38	1.12
982338--982396	30	1.9	31	96	3	111	44	6	11	37	1.68
982335--982407	30	2.4	29	84	4	101	43	6	15	34	1.73
995426--995504	24	3.7	22	75	19	71	30	18	26	24	1.98
996188--996236	20	2.4	19	77	12	53	26	16	22	34	1.95
996215--996259	23	1.9	24	86	4	65	28	13	22	35	1.92
1009498--1009584	23	3.8	23	87	0	102	49	11	22	16	1.77
1014002--1014046	20	2.3	20	84	3	56	31	13	17	37	1.89

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