genome.fa.s7918.2.7.7.80.10.50.1000.4.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: VEPZ01007918.1 Hibiscus syriacus cultivar Beakdansim tig00110321_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2302251

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1022 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)
925559--925721	65	2.5	65	85	3	222	30	26	15	26	1.96
935945--936099	31	5.0	31	88	2	215	36	21	20	21	1.95
935945--936097	62	2.5	62	90	5	240	36	21	20	21	1.95
936276--936321	22	2.0	22	87	8	65	34	21	0	43	1.53
936920--936964	21	2.1	21	87	0	63	15	24	28	31	1.96
951159--951224	35	1.9	35	84	9	91	50	4	0	45	1.22
967862--967895	16	2.1	16	94	0	59	32	8	26	32	1.87
976442--976488	24	2.0	24	100	0	94	38	12	6	42	1.69
977799--977830	2	16.0	2	93	0	55	46	0	0	53	1.00
978931--978984	27	2.0	26	82	3	63	59	0	5	35	1.21
988838--988862	13	1.9	13	100	0	50	44	0	8	48	1.32
989732--989863	60	2.2	60	82	5	151	49	5	12	33	1.63
994337--994434	45	2.2	45	92	0	160	21	23	26	28	1.99
997936--998051	2	60.5	2	72	17	95	51	3	2	42	1.32
997936--998038	20	4.9	21	76	19	108	52	2	1	42	1.27
998189--998239	18	2.7	18	87	6	66	58	3	1	35	1.28
998173--998240	24	2.8	23	72	18	57	54	5	2	36	1.40
1016653--1016689	18	2.1	18	100	0	74	48	13	10	27	1.75
1017293--1017350	16	3.7	16	76	4	64	34	10	8	46	1.69
1017295--1017364	31	2.3	31	94	0	122	32	12	8	45	1.73
1017311--1017364	15	3.5	15	75	5	63	31	14	9	44	1.77
1021670--1021721	21	2.4	23	84	9	65	51	17	1	28	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1023269--1023312	3	14.3	3	85	4	61	61	2	0	36	1.09
1024257--1024355	47	2.1	47	82	0	117	33	13	10	43	1.77
1032839--1032919	41	2.0	41	92	0	135	41	3	32	22	1.71
1037602--1037643	15	2.9	15	89	3	59	76	0	2	21	0.90
1037595--1037652	9	6.8	9	79	15	61	77	0	1	20	0.86
1037595--1037653	24	2.5	23	86	8	75	77	0	1	20	0.85
1037595--1037663	15	5.0	14	74	17	56	76	0	1	21	0.86
1037637--1037661	10	2.5	10	100	0	50	80	0	0	20	0.72
1037684--1037860	36	5.4	31	72	20	121	44	4	2	48	1.37
1037684--1037857	69	2.6	67	81	9	180	45	4	2	47	1.38
1037678--1037832	36	4.4	34	78	14	136	46	3	2	47	1.34
1037890--1037983	2	50.0	2	83	12	110	55	2	0	42	1.12
1038517--1039122	84	7.3	87	84	5	333	24	20	23	31	1.98
1038582--1040207	84	19.7	84	79	6	1485	24	20	23	30	1.98
1038567--1040207	489	3.3	485	81	6	1743	24	20	23	30	1.98
1038685--1040058	573	2.4	571	84	4	1750	24	20	24	30	1.98
1044597--1044661	13	5.2	12	79	20	55	72	0	3	24	0.99
1044598--1044647	21	2.3	22	82	6	66	74	0	4	22	0.99
1044599--1044674	17	4.7	15	74	21	57	69	1	2	26	1.09
1044619--1044659	9	4.6	9	82	17	50	75	0	2	21	0.92
1044676--1044858	35	5.4	33	71	18	135	44	4	2	48	1.36
1044701--1044858	34	4.6	34	78	14	157	44	5	2	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1044676--1044857	34	5.4	33	74	17	126	44	4	2	48	1.36
1044814--1044897	40	2.1	41	79	14	97	45	5	2	46	1.40
1044883--1044927	2	24.0	2	82	13	60	48	0	0	51	1.00
1044883--1044927	9	4.8	10	78	15	60	48	0	0	51	1.00
1048298--1048322	7	3.6	7	100	0	50	32	0	0	68	0.90
1049796--1049926	62	2.1	62	80	7	140	36	3	10	48	1.56
1056054--1056098	22	2.0	22	86	0	63	40	11	8	40	1.72
1056450--1056499	23	2.2	23	92	0	82	38	22	6	34	1.78
1055643--1057882	490	4.8	447	85	10	2607	40	10	7	41	1.67
1056909--1056980	23	3.2	23	88	2	101	38	19	5	36	1.75
1057396--1057468	23	3.2	23	90	0	110	39	21	5	32	1.77
1056009--1057882	490	3.9	486	93	4	3161	40	10	7	41	1.68
1057844--1057904	22	2.8	22	77	2	70	47	8	11	32	1.69
1057922--1057994	23	3.2	23	92	0	119	34	5	21	38	1.77
1058110--1059307	200	6.0	200	95	0	2159	31	18	14	36	1.90
1059529--1059589	19	3.3	18	88	2	59	52	11	1	34	1.47
1059541--1059589	19	2.6	19	96	0	89	55	10	2	32	1.45
1061476--1061540	21	3.1	21	93	0	103	16	30	10	41	1.83
1063739--1064210	181	2.6	182	89	0	696	27	16	13	42	1.85
1063739--1064225	182	2.7	181	86	3	658	27	16	13	42	1.86
1070636--1070718	30	2.8	30	78	7	82	49	20	2	27	1.61
1070647--1070891	120	2.0	120	92	0	400	36	30	6	26	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1070763--1070838	30	2.6	29	79	8	82	44	21	2	31	1.66
1075520--1075596	30	2.6	29	84	8	102	24	12	12	49	1.77
1082685--1082813	60	2.2	60	81	2	152	31	18	17	31	1.95
1083707--1083786	2	40.0	2	100	0	160	50	0	0	50	1.00
1101934--1102253	157	2.0	157	98	0	622	35	17	15	31	1.91
1112984--1113016	16	2.1	16	94	5	59	78	6	0	15	0.93
1112987--1113029	16	2.6	16	85	10	52	79	6	2	11	1.02
1114914--1114944	15	2.1	15	94	5	55	25	12	25	35	1.92
1123490--1123516	6	4.5	6	100	0	54	81	0	0	18	0.69
1125957--1125995	19	2.0	19	85	5	51	38	7	0	53	1.30
1128932--1128965	17	2.0	17	88	0	50	26	2	0	70	1.01
1130422--1130502	41	2.0	41	82	0	99	46	7	4	40	1.53
1136245--1136288	18	2.4	18	92	0	79	50	4	4	40	1.43
1142489--1142549	31	2.0	31	93	3	106	39	9	18	32	1.83
1142796--1142848	23	2.3	24	83	6	74	45	0	1	52	1.11
1145342--1145383	21	2.0	21	90	9	68	40	11	0	47	1.40
1145426--1145466	21	2.0	21	95	4	75	51	0	0	48	1.00
1149436--1149876	216	2.0	220	97	1	845	30	14	14	40	1.86
1157919--1158181	95	2.7	94	86	4	339	33	15	17	32	1.92
1159093--1159236	72	2.0	73	86	6	204	29	16	13	40	1.86
1159093--1159290	72	2.7	71	80	8	179	29	16	13	40	1.86
1159270--1159424	39	4.1	39	82	5	147	30	18	14	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1159351--1159675	36	9.0	36	76	13	303	26	20	12	41	1.86
1159539--1159569	15	2.1	15	93	0	53	35	16	6	41	1.74
1159538--1159818	72	4.0	68	79	13	259	26	20	12	40	1.88
1159588--1159780	102	1.9	103	89	1	298	26	20	11	40	1.87
1159690--1159834	37	3.9	37	87	8	204	22	19	14	43	1.87
1159806--1159855	21	2.4	21	86	0	73	24	16	12	48	1.79
1159732--1159911	93	1.9	94	86	6	254	26	19	14	40	1.90
1159831--1159912	36	2.3	36	91	0	128	29	20	14	35	1.93
1159925--1160085	73	2.2	73	86	0	214	24	19	15	40	1.90
1159927--1160085	37	4.4	36	82	3	194	25	19	15	40	1.90
1165387--1165429	16	2.6	17	75	10	54	65	0	4	30	1.13
1170733--1170766	3	11.3	3	100	0	68	32	0	0	67	0.91
1174045--1174154	36	2.9	37	76	9	98	39	4	6	50	1.49
1174424--1174471	24	2.0	23	84	11	62	33	0	6	60	1.22
1174941--1174987	20	2.4	19	79	17	51	44	19	6	29	1.75
1176238--1176314	31	2.5	31	86	0	109	35	3	12	48	1.60
1180996--1181021	13	2.0	13	100	0	52	38	15	30	15	1.88
1187672--1187730	29	2.0	29	96	0	109	16	33	10	38	1.83
1187622--1187781	78	2.0	79	93	1	277	24	26	10	38	1.88
1187701--1187803	49	2.1	51	90	3	165	30	21	12	35	1.90
1192294--1192336	22	2.0	22	95	0	77	32	23	13	30	1.93
1199114--1199169	28	2.0	28	92	0	94	35	25	10	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201906--1201957	26	2.1	26	85	7	72	40	0	5	53	1.25
1203124--1203189	22	3.0	22	86	4	89	57	34	1	6	1.33
1205498--1205590	30	3.1	30	80	0	105	41	7	3	47	1.48
1205704--1205745	21	1.9	23	85	9	61	54	0	4	40	1.21
1208626--1208827	99	2.0	99	84	1	262	27	23	21	27	1.99
1211278--1211328	16	3.2	16	78	15	54	49	1	0	49	1.12
1211967--1212018	12	4.2	12	73	22	54	67	3	13	15	1.37
1212007--1212102	24	3.8	25	75	18	76	75	0	8	16	1.04
1212020--1212098	24	3.2	26	83	13	89	75	0	8	15	1.02
1212022--1212217	46	4.2	45	70	19	127	71	2	9	16	1.21

Tables:   1   2   3   4   5   6   7   8   9