genome.fa.s7960.2.7.7.80.10.50.1000.5.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  5  of  39  ( 4646 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)
852814--852855	21	2.0	21	95	0	75	26	14	26	33	1.94
853363--853449	33	2.6	34	87	1	122	66	13	0	19	1.24
853515--853547	16	1.9	18	88	11	52	60	3	0	36	1.12
858031--858114	23	3.7	23	90	0	114	29	27	25	17	1.98
860575--860625	18	2.8	18	96	0	93	52	7	21	17	1.69
862209--862248	19	2.1	19	90	0	62	52	0	5	42	1.23
863991--864047	25	2.2	26	84	12	82	21	0	14	64	1.28
870125--870171	23	2.0	23	83	4	58	38	8	12	40	1.74
871904--871985	3	27.0	3	82	7	76	37	1	2	58	1.19
873282--873332	14	3.6	14	77	12	52	31	0	1	66	1.03
873344--873410	29	2.3	29	76	0	71	44	2	0	52	1.16
875750--875836	34	2.6	34	81	3	104	21	12	8	57	1.61
876034--876117	42	2.0	42	83	0	105	51	14	15	19	1.77
878631--878706	11	7.5	10	76	16	59	84	0	14	1	0.69
878631--878707	19	4.1	19	83	9	95	84	0	14	1	0.69
878651--878697	6	7.7	6	90	9	69	87	0	12	0	0.55
881211--881314	54	1.9	54	92	0	172	36	13	23	26	1.92
881677--881759	22	3.8	22	88	3	123	33	16	10	38	1.84
882315--882378	20	3.2	20	63	20	53	42	9	23	25	1.84
882299--882628	123	2.7	123	88	1	493	41	12	18	27	1.87
882047--882509	236	2.0	235	88	1	694	39	13	19	27	1.89
882988--883069	3	28.0	3	80	4	87	36	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
884530--884807	146	1.9	146	84	9	379	39	6	6	46	1.57
884530--884840	146	2.1	144	81	11	323	40	6	7	46	1.57
888827--889074	81	3.1	79	79	9	236	34	18	18	27	1.95
888758--889038	41	6.9	41	79	7	243	37	17	17	28	1.92
888942--889074	41	3.4	37	79	5	104	28	19	21	30	1.97
889089--889425	30	11.3	30	79	10	236	54	1	6	37	1.35
889086--889418	60	5.6	58	77	8	265	54	1	6	37	1.35
889089--889417	180	1.8	178	83	7	441	55	1	6	37	1.35
889823--889862	21	1.9	21	89	0	62	22	2	7	67	1.28
898124--898170	19	2.4	19	82	10	51	21	21	6	51	1.70
902551--902581	11	2.8	11	90	0	53	61	0	0	38	0.96
902551--902593	17	2.5	18	81	11	54	55	0	0	44	0.99
902548--902593	20	2.3	21	85	11	69	56	0	0	43	0.99
902785--902899	37	3.2	37	93	4	191	18	17	18	46	1.85
914100--914159	21	2.6	22	82	15	61	45	5	3	46	1.41
914179--914222	18	2.4	19	85	7	56	59	4	2	34	1.30
915538--915568	11	2.8	11	90	0	53	61	0	0	38	0.96
915538--915580	17	2.5	18	81	11	54	55	0	0	44	0.99
915535--915580	20	2.3	21	85	11	69	56	0	0	43	0.99
916941--916976	18	2.1	18	89	5	56	75	0	8	16	1.04
918516--918746	106	2.2	107	87	1	322	21	18	25	34	1.96
919144--919271	31	3.9	31	72	17	82	33	12	21	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
919046--919238	67	2.8	67	83	4	235	37	12	21	28	1.90
919193--919307	33	3.5	33	89	5	162	32	11	19	37	1.87
919348--919870	37	15.4	36	68	20	206	37	12	19	30	1.88
919476--919534	30	2.0	30	86	6	84	32	10	16	40	1.82
919422--919768	100	3.5	99	88	5	474	37	12	19	31	1.89
919553--919938	166	2.3	166	91	4	623	36	12	20	31	1.90
919655--919834	66	2.8	65	90	5	276	35	12	21	31	1.90
919718--919953	102	2.3	105	90	3	363	35	13	20	30	1.91
919953--920052	36	2.8	36	70	3	85	43	12	15	30	1.82
921164--921496	180	1.9	177	91	3	551	30	21	21	27	1.98
926212--926260	22	2.2	22	96	0	89	38	18	4	38	1.70
930822--931177	185	1.9	185	94	2	626	42	3	8	45	1.50
931215--931243	9	3.2	9	100	0	58	20	10	20	48	1.79
931876--932096	42	5.3	42	93	1	376	34	23	20	22	1.97
931876--932102	21	11.0	21	74	16	188	34	22	20	22	1.97
932111--932163	21	2.5	21	87	0	79	20	22	28	28	1.99
939010--939034	13	1.9	13	100	0	50	56	0	8	36	1.29
939066--939099	2	17.0	2	100	0	68	50	0	0	50	1.00
939610--939703	42	2.2	42	83	7	111	35	15	19	29	1.93
939610--939703	20	4.5	21	72	9	66	35	15	19	29	1.93
948222--948259	15	2.4	16	86	4	51	7	15	68	7	1.37
949410--949467	25	2.3	25	85	11	75	34	25	10	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
949573--949683	2	59.5	2	71	13	76	48	0	0	51	1.00
949573--949670	38	2.7	34	79	13	115	47	0	0	52	1.00
949751--949824	30	2.5	30	90	0	112	18	28	12	40	1.87
950361--950539	66	2.7	66	89	5	274	31	22	23	22	1.99
953570--953907	60	5.6	62	76	9	292	53	1	6	39	1.34
953570--953909	30	11.3	29	77	8	254	53	1	6	39	1.34
953964--954006	14	3.1	14	96	0	77	30	18	6	44	1.76
959109--959163	24	2.3	24	96	0	101	27	38	27	7	1.83
962667--962891	42	5.3	42	80	6	249	22	22	20	34	1.97
969682--969999	157	2.0	155	83	5	401	46	5	6	41	1.53
969967--970000	2	17.0	2	87	0	50	47	2	0	50	1.16
971466--971558	3	31.0	3	82	4	107	62	1	2	34	1.14
974597--974807	43	4.9	43	85	1	262	30	19	24	25	1.98
974601--974804	87	2.4	86	86	1	275	30	18	24	26	1.98
977186--977306	22	5.5	22	95	0	215	33	13	13	39	1.83
977904--977956	24	2.2	24	100	0	106	52	0	20	26	1.46
977999--978119	45	2.7	45	93	1	199	30	20	19	29	1.97
978144--978342	45	4.4	45	88	1	290	25	23	19	32	1.97
978144--978342	90	2.2	90	92	1	326	25	23	19	32	1.97
978274--978465	76	2.6	76	82	5	228	26	20	18	34	1.95
978013--978418	213	1.9	211	87	2	589	26	21	18	32	1.97
978369--978639	116	2.3	116	89	1	409	31	20	20	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978898--978997	3	33.3	3	78	7	105	34	2	1	63	1.13
980032--980063	14	2.2	15	94	5	57	37	6	9	46	1.61
980179--980218	21	1.9	21	85	10	55	30	7	0	62	1.23
980366--980773	157	2.5	158	82	9	443	39	7	7	45	1.59
980795--980846	2	26.0	2	96	0	95	50	0	1	48	1.12
984435--984539	51	2.0	54	83	12	139	61	10	3	23	1.44
984435--984541	54	2.0	54	80	14	123	62	10	3	23	1.43
987687--988006	85	3.8	84	83	3	401	34	16	23	25	1.95
988050--988675	53	11.7	53	81	3	493	41	17	8	32	1.80
988254--988780	55	9.7	55	81	2	433	42	15	8	33	1.78
988081--988430	161	2.2	158	83	3	441	42	17	7	32	1.77
988081--988759	214	3.1	215	86	3	830	41	16	8	33	1.79
988081--988485	161	2.5	157	78	7	440	42	17	7	32	1.77
988081--988780	110	6.5	109	79	3	589	41	16	8	33	1.79
988256--988779	165	3.2	164	79	3	488	42	15	8	32	1.78
990728--990798	37	1.9	36	83	8	90	7	14	2	76	1.11
990748--990848	22	4.9	19	80	11	69	3	15	0	80	0.86
990742--990832	36	2.5	37	82	15	109	4	16	0	79	0.89
990745--990848	53	1.9	52	86	7	136	4	15	0	79	0.89
990766--990848	16	5.3	15	73	16	71	4	14	0	80	0.86
990748--990848	38	2.6	37	81	12	114	3	15	0	80	0.86
990813--990858	20	2.2	20	85	11	58	4	13	4	78	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990740--990848	20	5.5	19	76	17	89	4	15	0	79	0.88
992871--993179	167	1.9	166	95	0	555	30	15	18	34	1.92
995786--995832	24	2.0	25	83	8	62	19	8	8	63	1.48
995998--996038	21	2.0	21	85	9	57	26	4	4	63	1.35
1000477--1000515	17	2.3	17	100	0	78	41	12	5	41	1.65
1000924--1000998	9	9.2	8	74	14	57	80	1	17	1	0.86
1000927--1000998	21	3.5	21	80	12	96	79	1	18	1	0.88
1000930--1000998	7	9.1	7	76	13	50	79	1	17	1	0.88
1000913--1000998	40	2.1	41	89	6	131	77	4	16	1	0.99
1002959--1003494	55	9.9	54	82	3	490	31	9	15	42	1.80

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