genome.fa.s5606.2.7.7.80.10.50.1000.4.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: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3509357

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  4  of  11  ( 1295 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)
976441--976505	34	1.9	34	87	0	94	44	13	16	24	1.85
976353--976584	113	2.1	112	85	4	306	40	12	19	26	1.88
976565--976708	45	3.4	45	71	20	166	32	11	25	29	1.92
976452--976758	79	3.9	79	89	1	472	37	13	22	27	1.91
980858--981183	79	4.1	79	88	0	481	37	12	23	26	1.91
981037--981308	124	2.2	124	86	0	382	37	12	22	26	1.91
980951--981372	203	2.1	203	89	0	655	36	13	23	26	1.92
981195--981259	34	1.9	34	87	6	96	35	10	24	29	1.89
980872--981465	282	2.1	282	89	0	911	37	12	23	26	1.91
980991--981417	203	2.2	198	85	5	544	38	12	22	26	1.90
981161--981663	79	6.4	79	86	2	724	37	12	21	27	1.90
981649--981698	26	1.9	26	91	0	82	48	8	18	26	1.75
982192--982221	2	15.0	2	100	0	60	50	0	0	50	1.00
988638--988862	112	2.0	112	84	1	292	36	19	16	28	1.93
994324--994365	17	2.5	17	96	0	75	35	23	16	23	1.95
997525--997570	22	2.0	22	83	12	56	52	13	2	32	1.52
1000221--1000323	42	2.5	41	83	1	134	25	22	21	31	1.98
1000114--1001092	256	4.0	231	83	6	807	31	16	17	34	1.92
1000703--1000808	41	2.6	42	77	7	119	24	21	21	32	1.98
1000445--1001379	256	3.7	258	82	4	1058	31	16	17	33	1.93
1001586--1001658	38	1.9	38	91	0	119	26	16	16	41	1.89
1001623--1001744	44	2.7	45	83	1	156	27	13	17	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1001586--1001760	45	4.1	44	79	6	173	25	13	17	42	1.86
1002358--1002817	125	3.5	130	80	9	400	30	16	19	34	1.94
1003004--1003028	3	8.3	3	100	0	50	36	0	0	64	0.94
1009055--1009168	26	4.4	26	70	20	62	49	5	5	40	1.48
1012048--1012134	14	6.2	13	75	13	75	3	17	2	77	1.02
1012425--1012465	22	1.9	21	85	5	55	21	2	36	39	1.67
1019160--1019196	2	18.5	2	100	0	74	51	0	0	48	1.00
1041944--1041979	16	2.2	16	95	0	63	30	2	22	44	1.67
1047632--1047773	49	2.9	49	82	1	178	40	13	21	25	1.89
1061913--1061940	2	14.0	2	100	0	56	50	0	0	50	1.00
1063732--1063793	29	2.1	30	84	6	81	58	8	3	30	1.43
1064988--1065031	3	14.7	3	90	0	70	68	0	2	29	1.02
1070559--1070602	22	2.0	22	95	0	79	25	27	18	29	1.98
1077076--1077155	40	2.0	40	87	4	117	20	25	27	27	1.99
1077381--1077427	22	2.1	23	92	4	78	44	12	4	38	1.62
1093126--1093181	26	2.2	26	96	0	103	39	8	33	17	1.81
1094707--1094747	13	3.2	13	92	0	64	39	2	26	31	1.70
1101260--1101311	26	2.0	26	85	11	70	19	5	11	63	1.47
1105619--1105643	2	12.5	2	100	0	50	52	0	0	48	1.00
1105701--1105914	85	2.5	85	86	3	279	32	17	19	30	1.95
1105886--1105915	13	2.3	13	94	0	51	43	16	16	23	1.87
1105893--1105937	13	3.5	13	81	0	54	33	15	20	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1105893--1105945	13	4.1	13	82	0	52	32	15	20	32	1.93
1107187--1107339	65	2.4	64	87	3	209	29	22	17	30	1.97
1113095--1113188	44	2.2	43	84	1	116	29	23	19	27	1.98
1114467--1114522	8	6.8	8	80	15	60	16	0	30	53	1.43
1115189--1115322	65	2.1	64	84	4	171	30	20	18	29	1.97
1127379--1127439	31	2.0	31	93	0	104	36	9	14	39	1.80
1140819--1141212	54	7.3	54	87	2	533	27	16	21	34	1.95
1143149--1143194	24	1.9	24	100	0	92	41	15	13	30	1.85
1147159--1147578	208	2.0	209	99	0	824	27	24	16	30	1.97
1152281--1152361	19	4.4	19	76	3	76	38	9	17	34	1.83
1160405--1160509	44	2.4	44	91	1	165	22	28	18	30	1.97
1162658--1162715	19	3.1	19	82	0	62	41	8	20	29	1.82
1165355--1165424	32	2.2	32	100	0	140	52	5	18	22	1.66
1165961--1166032	29	2.5	29	80	8	76	43	4	18	34	1.69
1169787--1169840	26	2.1	26	100	0	108	29	11	14	44	1.80
1171879--1172249	39	9.5	39	74	13	314	42	12	7	37	1.71
1171982--1172048	30	2.2	31	86	5	100	43	13	2	40	1.59
1171904--1172249	128	3.0	109	76	15	295	43	12	6	37	1.70
1171942--1172087	69	2.1	71	87	6	217	44	13	4	36	1.65
1172026--1172187	89	1.8	88	85	1	225	41	12	8	36	1.74
1172194--1172379	100	1.9	100	81	2	230	41	12	8	36	1.74
1172619--1172814	45	4.4	45	84	3	252	40	17	9	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175081--1175124	19	2.4	19	92	3	72	38	6	6	47	1.57
1175548--1175584	2	18.5	2	94	0	65	51	0	0	48	1.00
1175820--1175879	23	2.6	23	81	0	66	23	11	16	48	1.79
1176624--1176695	24	3.0	24	87	0	117	51	18	13	16	1.77
1176626--1176695	12	5.8	12	73	6	61	51	18	14	15	1.77
1176624--1176730	48	2.2	48	85	6	137	48	16	14	19	1.81
1177860--1177895	18	2.0	18	88	0	54	30	16	0	52	1.44
1179186--1179230	8	5.5	8	84	10	56	26	24	33	15	1.95
1183010--1183187	89	2.0	89	100	0	356	34	17	12	34	1.88
1194143--1194176	16	2.1	16	88	0	50	29	2	17	50	1.61
1217694--1217718	12	2.1	12	100	0	50	32	16	16	36	1.90
1222349--1222475	46	2.8	44	81	9	157	32	22	7	37	1.83
1224668--1224724	20	2.8	20	89	0	78	19	29	22	28	1.98
1227215--1227370	64	2.4	65	81	6	183	28	21	20	28	1.98
1227434--1227484	21	2.4	21	96	0	93	23	27	23	25	2.00
1228464--1229045	54	10.8	53	88	2	804	36	19	9	34	1.85
1235534--1235584	21	2.6	20	79	11	61	25	25	17	31	1.97
1239005--1239055	22	2.3	22	83	6	68	43	11	19	25	1.85
1239736--1239983	117	2.1	117	81	4	277	31	22	10	36	1.87
1240393--1240430	19	2.1	18	85	9	51	28	23	15	31	1.96
1251592--1251695	45	2.3	46	94	3	183	43	12	24	20	1.86
1258549--1258876	45	7.3	45	85	1	424	44	11	22	21	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258689--1258803	24	5.0	23	62	23	55	45	11	18	25	1.82
1270435--1270582	29	5.1	29	75	14	108	50	5	10	34	1.59
1270835--1270902	22	3.1	22	89	0	100	29	17	33	19	1.95
1284545--1284586	19	2.2	19	100	0	84	14	30	21	33	1.93
1284800--1284861	29	2.1	30	85	8	83	16	25	25	32	1.96
1284800--1284855	10	5.6	10	78	6	60	16	23	26	33	1.95
1292088--1292153	10	6.7	10	81	8	82	12	22	28	36	1.90
1292088--1292196	19	5.6	19	76	12	98	12	23	28	34	1.92
1292088--1292153	29	2.2	30	89	2	107	12	22	28	36	1.90
1292088--1292196	29	3.8	29	77	9	98	12	23	28	34	1.92
1292193--1292221	14	2.1	14	100	0	58	20	55	24	0	1.44
1292217--1292254	7	5.4	7	87	0	58	18	26	26	28	1.98
1295253--1295532	41	6.8	41	79	8	273	39	20	10	30	1.85
1295259--1295532	82	3.3	82	84	3	336	40	20	9	29	1.84
1295286--1295523	123	1.9	123	83	5	302	41	19	10	29	1.84
1298885--1298959	2	36.5	2	79	10	71	44	2	4	49	1.35
1301355--1301442	32	2.8	32	80	0	86	32	9	19	38	1.83
1303525--1303576	20	2.6	20	81	6	61	38	17	25	19	1.93
1304266--1304635	68	5.4	68	88	0	524	30	13	22	34	1.92
1304266--1304635	137	2.7	136	87	1	544	30	13	22	34	1.92
1304266--1304710	205	2.2	203	83	4	554	31	12	22	33	1.91
1304632--1305221	81	7.3	81	83	2	637	35	10	24	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304632--1305225	162	3.7	162	84	2	708	35	10	24	29	1.89
1304632--1305221	243	2.4	242	82	3	702	35	10	24	29	1.89
1310655--1310700	22	2.2	20	85	11	58	30	0	13	56	1.37
1316179--1316209	15	2.1	15	93	0	53	41	22	9	25	1.84
1324555--1325014	44	10.7	43	83	6	465	41	11	19	27	1.85
1324886--1324955	34	2.1	34	88	0	104	44	14	18	22	1.86
1324840--1325000	78	2.1	78	84	0	205	42	12	19	25	1.86
1325900--1325974	20	3.7	20	73	15	64	32	18	26	22	1.97
1325996--1326037	19	2.2	19	86	0	57	33	14	26	26	1.94
1326459--1326622	79	2.1	79	88	2	240	38	9	23	28	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11