genome.fa.s7957.2.7.7.80.10.50.1000.5.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  5  of  43  ( 5063 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)
944789--944964	57	3.1	57	70	23	170	42	2	11	44	1.53
944821--945170	143	2.5	144	87	9	501	44	2	10	42	1.52
944821--945341	25	22.0	23	68	22	130	43	2	10	43	1.51
944963--945265	115	2.6	116	88	7	425	45	2	9	42	1.50
945202--945344	13	10.6	13	72	19	75	44	2	9	44	1.47
944998--945379	211	1.8	208	88	6	592	43	1	9	44	1.47
945320--945408	46	1.9	47	83	2	117	41	3	5	49	1.43
947752--947833	32	2.6	32	83	11	98	46	12	0	41	1.41
948381--948501	29	4.2	29	94	2	201	23	31	29	14	1.95
948622--948681	29	2.1	29	96	0	111	18	28	28	25	1.98
957176--957250	35	2.1	35	90	0	114	33	29	26	10	1.90
957328--957402	24	3.2	23	84	5	105	36	21	17	25	1.95
957332--957417	23	3.7	23	84	3	109	38	19	17	24	1.93
957311--957424	47	2.4	47	80	2	131	40	20	14	24	1.90
958562--958597	18	2.0	18	88	0	54	30	16	0	52	1.44
959884--959914	7	4.3	7	92	8	53	25	25	35	12	1.92
959883--959917	15	2.3	15	100	0	70	22	25	37	14	1.92
959883--959934	8	6.6	8	78	12	63	19	25	40	15	1.90
959906--959942	17	2.2	17	100	0	74	10	21	48	18	1.78
961968--962042	35	2.1	35	90	0	114	33	29	26	10	1.90
962121--962195	24	3.2	24	88	1	116	36	21	17	25	1.95
962104--962228	47	2.7	46	82	3	142	41	19	14	24	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
962118--962218	23	4.3	24	82	3	107	38	20	15	24	1.92
963355--963390	18	2.0	18	88	0	54	30	16	0	52	1.44
964667--964748	8	10.4	8	74	15	73	23	23	37	15	1.93
964667--964736	15	4.2	16	87	9	88	24	24	35	15	1.94
964667--964716	23	2.1	25	88	7	77	28	24	34	14	1.93
964677--964738	17	3.8	17	91	4	76	22	24	38	14	1.91
964720--964754	13	2.7	13	90	0	52	17	20	45	17	1.85
971113--971149	17	2.2	17	90	9	58	29	0	5	64	1.15
978723--978783	29	2.1	29	93	0	104	44	11	13	31	1.79
984355--984389	18	1.9	18	94	0	61	20	17	34	28	1.95
984882--984907	13	2.0	13	100	0	52	46	15	30	7	1.74
996061--996125	29	2.2	29	80	0	76	40	7	10	41	1.69
998021--998066	21	2.1	21	84	8	56	67	6	2	23	1.25
999547--999591	3	15.0	3	90	0	72	62	0	2	35	1.08
1000157--1000484	113	2.9	113	86	4	466	28	19	15	36	1.92
1000847--1000927	22	3.8	22	77	6	85	35	16	13	34	1.88
1000864--1000929	20	3.2	20	84	4	87	39	13	16	30	1.87
1000856--1000929	22	3.5	21	79	7	87	37	13	16	32	1.87
1003999--1004056	29	2.1	29	81	12	68	46	15	17	20	1.84
1004247--1004281	17	2.1	17	100	0	70	28	11	11	48	1.74
1005572--1005598	14	1.9	14	100	0	54	0	25	0	74	0.83
1008335--1008373	20	2.0	20	84	0	51	64	7	10	17	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1008561--1008649	43	2.0	44	84	2	117	35	19	11	33	1.87
1009466--1009556	46	1.9	49	84	6	125	29	20	14	35	1.92
1010015--1010061	24	1.9	25	86	4	69	68	0	2	29	1.02
1010026--1010084	28	2.1	27	85	14	77	62	0	5	32	1.17
1010725--1010757	2	16.5	2	100	0	66	51	0	0	48	1.00
1012850--1012910	23	2.7	23	80	10	79	27	27	24	19	1.99
1012926--1013143	103	2.1	103	97	0	409	36	23	13	25	1.92
1017852--1017912	23	2.7	23	84	0	86	26	26	26	21	1.99
1017920--1018141	99	2.2	99	90	4	347	37	23	13	26	1.91
1019003--1019051	2	24.5	2	95	0	80	44	0	4	51	1.20
1018991--1019051	20	3.0	20	92	0	95	40	0	8	50	1.32
1018991--1019051	22	2.8	22	92	0	95	40	0	8	50	1.32
1020618--1020675	3	19.3	3	84	7	73	58	0	5	36	1.20
1023627--1023671	23	2.0	22	86	4	63	28	24	20	26	1.99
1026554--1026674	54	2.2	53	86	5	163	28	27	17	26	1.97
1027953--1028010	18	3.4	18	88	6	77	15	31	0	53	1.42
1041420--1041457	19	2.0	19	85	10	51	52	5	0	42	1.24
1041452--1041499	13	3.6	13	74	2	51	39	0	8	52	1.32
1042833--1042878	20	2.3	20	81	3	58	73	13	2	10	1.17
1043965--1044016	24	2.2	24	85	0	68	9	15	26	48	1.76
1043975--1044016	14	3.3	14	75	25	56	7	14	26	52	1.67
1043975--1044023	24	2.0	24	100	0	98	8	14	24	53	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1043981--1044036	24	2.3	24	90	0	85	12	10	19	57	1.64
1045111--1045182	16	4.7	16	88	5	96	9	9	19	61	1.55
1049345--1049375	12	2.6	12	100	0	62	48	0	35	16	1.46
1050766--1050857	28	3.1	29	81	9	132	34	28	11	25	1.91
1056531--1056561	2	15.5	2	100	0	62	48	0	0	51	1.00
1064309--1064346	18	2.1	18	100	0	76	26	21	18	34	1.96
1065338--1065820	240	2.0	240	93	1	835	41	16	11	29	1.84
1065898--1065944	24	2.0	24	87	8	69	63	4	2	29	1.25
1068133--1068292	44	3.7	43	86	6	198	45	10	18	25	1.82
1072656--1072770	3	38.0	3	84	11	137	37	1	0	60	1.13
1075188--1075221	15	2.3	15	94	0	59	52	11	23	11	1.70
1075197--1075226	15	2.0	15	93	0	51	50	10	26	13	1.73
1081239--1081526	119	2.4	119	91	1	479	32	16	19	32	1.94
1081463--1081516	20	2.7	20	88	0	72	25	24	22	27	2.00
1081657--1081741	3	28.0	3	76	15	68	41	2	0	56	1.12
1081664--1081751	9	9.6	9	76	23	69	44	2	0	53	1.13
1081661--1081751	25	3.7	25	79	8	98	43	2	0	53	1.12
1083035--1083084	22	2.4	20	83	6	55	50	2	4	44	1.32
1082963--1083288	161	2.0	159	97	2	611	42	3	5	48	1.42
1087536--1087669	68	2.0	68	100	0	268	41	22	5	29	1.77
1100716--1101057	168	2.0	168	94	5	598	44	12	13	29	1.81
1102910--1102961	24	2.2	24	96	0	95	13	11	32	42	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1103543--1103656	58	2.0	57	94	5	205	24	25	15	34	1.95
1104337--1104433	32	3.0	32	75	3	106	40	11	7	41	1.69
1105599--1105668	19	3.5	21	79	11	67	31	15	24	28	1.96
1109721--1109774	24	2.3	23	81	6	65	44	1	5	48	1.37
1109721--1109776	23	2.5	23	78	18	64	46	1	5	46	1.36
1110290--1110336	24	1.9	24	87	12	69	57	2	6	34	1.36
1110491--1110545	16	3.5	16	75	5	58	16	16	20	47	1.83
1111420--1111548	68	1.9	68	83	3	170	40	9	16	34	1.80
1112049--1112073	2	12.5	2	100	0	50	48	0	0	52	1.00
1115362--1115613	102	2.5	102	77	11	232	33	21	17	27	1.96
1116317--1116368	21	2.5	21	81	3	61	38	19	25	17	1.93
1116357--1116491	20	6.7	20	80	7	121	33	24	17	24	1.96
1116354--1116485	61	2.2	61	87	0	183	35	24	16	23	1.95
1116659--1116702	22	2.0	22	90	0	70	20	43	15	20	1.88
1116775--1116804	16	1.9	15	93	6	51	16	3	0	80	0.85
1116946--1116989	20	2.2	20	87	0	61	11	18	20	50	1.77
1117126--1117180	25	2.2	24	78	15	58	20	9	18	52	1.71
1118309--1118353	18	2.5	18	88	0	72	26	44	15	13	1.83
1118330--1118381	25	2.1	25	100	0	104	26	44	7	21	1.79
1118860--1118926	20	3.4	20	81	2	73	38	23	22	14	1.92
1118915--1118973	14	3.9	14	76	20	64	49	23	16	10	1.77
1118899--1118990	33	2.8	33	98	0	175	47	21	18	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1118899--1118995	19	5.6	19	71	22	97	46	21	19	12	1.83
1119007--1119096	14	5.8	14	70	21	63	12	15	23	48	1.78
1119002--1119113	33	3.4	32	88	3	170	13	16	22	47	1.82
1119110--1119153	20	2.2	20	87	0	61	18	25	22	34	1.96
1119519--1119606	41	2.1	42	85	2	124	21	43	14	20	1.88
1121017--1121055	14	2.8	14	84	0	51	35	0	17	46	1.49
1121192--1121242	19	2.7	19	93	0	84	49	13	19	17	1.80
1121266--1121359	20	4.7	20	77	5	109	17	22	21	39	1.92
1121255--1121339	40	2.2	40	93	2	145	17	21	20	41	1.91
1121264--1121359	40	2.4	40	84	3	122	17	22	20	38	1.93

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