genome.fa.s914.2.7.7.80.10.50.1000.6.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: VEPZ01000914.1 Hibiscus syriacus cultivar Beakdansim tig00001825_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1342319

Tables:   1   2   3   4   5   6   

This is table  6  of  6  ( 706 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)
1195730--1195754	12	2.1	12	100	0	50	0	28	0	72	0.86
1195929--1195982	24	2.2	24	90	0	81	40	20	16	22	1.91
1196768--1196819	21	2.5	21	87	3	70	38	17	23	21	1.93
1196808--1196886	20	3.9	20	75	9	61	35	21	18	24	1.96
1197109--1197156	20	2.4	20	96	0	87	37	27	20	14	1.92
1197188--1197241	14	3.5	14	77	22	63	11	20	20	48	1.80
1197170--1197240	33	2.2	33	84	0	88	19	19	21	39	1.93
1198812--1198904	42	2.2	42	82	3	114	21	15	41	21	1.89
1198907--1198952	20	2.3	20	92	0	74	8	23	30	36	1.85
1199289--1199354	20	3.3	20	82	4	80	37	19	22	19	1.94
1199269--1199354	40	2.2	40	81	8	95	37	22	19	20	1.95
1199401--1199464	19	3.6	19	74	20	75	12	20	21	45	1.84
1199449--1199503	20	2.8	19	83	8	65	16	23	23	36	1.94
1200046--1200085	18	2.2	18	90	0	62	15	15	42	27	1.86
1201405--1201447	20	2.2	20	91	0	68	53	16	18	11	1.72
1201726--1201769	22	2.0	22	95	0	79	18	15	45	20	1.85
1201936--1202114	41	4.4	40	80	5	173	24	17	23	35	1.95
1201956--1202069	20	5.7	20	77	2	102	24	16	26	32	1.96
1202064--1202151	20	4.3	21	77	9	92	22	21	18	37	1.94
1201936--1202111	20	8.6	20	71	9	81	24	17	23	34	1.96
1202003--1202132	41	3.2	41	89	4	183	22	20	22	34	1.97
1202141--1202181	21	2.0	21	100	0	82	31	14	29	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213892--1213964	21	3.4	21	74	20	78	32	28	17	20	1.96
1213878--1213963	44	2.0	44	92	0	145	30	29	17	23	1.97
1214128--1214168	21	2.0	21	85	9	57	56	12	0	31	1.36
1236967--1237011	17	2.6	17	96	0	81	60	17	8	13	1.58
1237428--1237533	46	2.3	46	80	7	110	60	0	6	33	1.23
1237487--1237590	54	1.9	53	81	16	126	63	1	1	32	1.16
1237560--1237602	18	2.5	17	81	7	52	69	2	2	25	1.12
1237562--1237600	14	2.8	13	88	11	51	71	2	2	23	1.10
1237953--1238056	37	2.8	37	82	0	109	32	11	11	44	1.77
1238600--1239222	105	6.0	105	92	2	932	21	17	26	33	1.96
1239434--1239504	36	2.0	36	91	0	115	35	16	23	23	1.95
1239704--1239758	15	3.7	15	87	4	76	34	10	25	29	1.90
1239405--1239805	106	3.9	105	90	3	589	36	12	21	29	1.90
1239823--1239979	72	2.1	76	82	11	193	40	12	19	28	1.87
1241126--1241662	183	2.9	183	95	1	961	30	20	21	27	1.98
1245691--1245730	20	2.0	21	85	5	55	72	0	10	17	1.11
1245849--1245899	12	4.2	11	81	18	57	66	3	1	27	1.20
1245781--1245868	16	5.8	16	71	23	57	63	2	2	31	1.19
1245781--1245893	61	2.0	60	81	10	137	62	2	2	31	1.22
1246252--1246336	37	2.3	37	83	0	107	31	12	15	40	1.85
1253182--1253239	28	2.1	28	90	0	89	44	1	8	44	1.44
1253226--1253338	31	3.5	30	70	13	91	45	5	1	47	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254331--1254402	36	2.0	36	100	0	144	30	13	19	36	1.91
1266375--1266414	19	2.1	19	90	0	62	40	5	10	45	1.60
1270964--1271000	2	18.5	2	88	0	56	43	0	5	51	1.24
1276104--1276230	28	4.6	27	92	4	200	59	17	17	6	1.58
1276103--1276230	57	2.3	55	89	8	204	59	17	17	6	1.57
1279593--1279622	6	5.0	6	95	0	51	16	16	20	46	1.84
1285594--1285925	80	4.2	80	95	0	574	31	17	20	29	1.96
1285933--1286008	22	3.6	21	72	15	75	27	15	21	35	1.94
1285926--1286014	42	2.1	42	93	0	151	26	16	20	35	1.94
1285926--1286056	42	3.1	42	83	3	131	27	17	19	35	1.95
1286485--1286738	53	4.8	53	91	1	375	30	20	26	22	1.98
1287101--1287226	57	2.3	55	89	8	193	58	17	17	6	1.58
1287101--1287226	28	4.6	27	92	6	200	58	17	17	6	1.58
1287102--1287226	54	2.3	54	91	6	198	58	17	17	6	1.59
1295014--1295120	39	2.7	39	76	12	112	42	5	6	44	1.53
1295043--1295116	40	1.9	37	86	8	103	47	6	5	40	1.53
1295093--1295139	24	2.0	22	84	8	58	48	4	4	42	1.42
1295182--1295250	33	2.1	32	86	7	95	44	5	5	43	1.52
1295197--1295235	20	1.9	21	84	5	53	46	7	5	41	1.55
1295043--1295305	108	2.5	102	78	16	238	46	4	6	42	1.50
1295355--1295393	18	2.2	18	86	9	53	23	15	0	61	1.33
1302660--1302711	29	1.9	27	81	14	63	36	5	1	55	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1303163--1303211	7	7.0	7	97	0	80	0	53	0	46	1.00
1305641--1305788	15	9.5	15	84	11	190	47	0	2	50	1.12
1305716--1305843	37	3.6	37	75	11	142	42	0	6	51	1.27
1305782--1305860	18	4.4	18	66	23	58	35	0	11	53	1.37
1305791--1305833	22	2.0	22	95	0	77	37	0	11	51	1.39
1305686--1305868	69	2.7	67	81	9	235	42	0	6	50	1.28
1305768--1306496	54	13.4	54	77	10	709	34	0	12	52	1.41
1305813--1305919	32	3.7	32	74	23	135	35	0	12	52	1.39
1305845--1305887	22	2.0	22	95	0	77	37	0	11	51	1.39
1305890--1305937	22	2.4	18	73	23	51	33	0	14	52	1.42
1305867--1306261	80	4.9	80	91	5	641	32	0	13	53	1.41
1305970--1306017	22	2.4	18	73	23	51	33	0	14	52	1.42
1305768--1306496	220	3.4	214	86	7	883	34	0	12	52	1.41
1306025--1306384	32	11.7	32	72	21	263	34	0	12	53	1.39
1306224--1306266	22	2.0	22	100	0	86	34	0	13	51	1.42
1306278--1306320	22	2.0	22	95	0	77	37	0	11	51	1.39
1306511--1306569	31	1.9	31	85	0	82	44	8	5	42	1.57
1308369--1308458	31	2.9	30	75	9	83	32	27	24	15	1.95
1310033--1310110	31	2.5	30	77	8	75	10	30	33	25	1.89
1310073--1310126	22	2.5	22	81	0	63	7	29	38	24	1.82
1313092--1313225	26	5.4	25	71	17	86	38	2	12	46	1.55
1313109--1313140	16	2.0	16	100	0	64	37	0	18	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1313226--1313279	24	2.2	24	83	6	65	50	3	5	40	1.44
1313239--1313285	24	2.0	24	91	0	76	46	4	2	46	1.34
1313837--1313877	13	3.1	13	92	3	64	21	0	34	43	1.53
1313800--1313879	7	11.6	7	83	2	72	18	5	37	38	1.73
1314419--1314464	13	3.7	13	82	11	60	45	2	4	47	1.34
1314417--1314568	24	6.4	24	69	13	82	44	7	3	44	1.49
1314562--1314593	16	2.0	16	100	0	64	43	18	0	37	1.51
1314544--1314577	11	3.2	11	87	8	52	44	14	2	38	1.61
1314550--1314610	26	2.4	25	83	10	79	47	16	0	36	1.47
1314477--1314681	98	2.1	93	79	12	211	45	11	2	39	1.56
1316185--1316324	74	1.9	72	92	5	237	46	13	12	27	1.80
1323070--1323110	2	21.0	2	95	5	75	0	51	0	48	1.00
1328378--1328411	14	2.4	14	100	0	68	29	50	20	0	1.49
1329325--1329361	18	2.1	18	100	0	74	27	5	16	51	1.66
1334736--1334795	30	2.0	30	100	0	120	40	6	13	40	1.71
1334740--1334792	18	3.3	18	65	29	55	39	7	15	37	1.75
1336991--1337055	3	21.7	3	78	12	71	33	0	0	66	0.92
1337525--1337563	16	2.4	16	83	8	53	51	35	12	0	1.40

Tables:   1   2   3   4   5   6

The End!