genome.fa.s7800.2.7.7.80.10.50.1000.6.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  6  of  23  ( 2671 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)
1160318--1160386	20	3.5	20	91	0	102	20	17	26	36	1.94
1160318--1160396	20	4.0	20	86	3	88	18	17	22	40	1.91
1160533--1160587	25	2.2	24	78	15	58	20	9	18	52	1.71
1161344--1161373	15	1.9	16	93	6	53	26	3	13	56	1.52
1161717--1161761	18	2.5	18	88	0	72	26	44	15	13	1.83
1162243--1162309	20	3.4	20	81	2	73	38	23	22	14	1.92
1162243--1162363	19	6.6	19	77	13	92	42	22	21	14	1.88
1162375--1162432	14	3.9	14	77	16	62	10	15	24	50	1.75
1162370--1162448	32	2.4	33	91	2	124	12	16	22	48	1.80
1162435--1162488	20	2.7	20	86	8	74	14	22	24	38	1.91
1162857--1162937	40	2.0	42	85	4	112	22	43	12	22	1.86
1164345--1164380	14	2.6	14	90	0	54	30	0	22	47	1.52
1164463--1164501	20	2.0	20	94	0	69	46	30	10	12	1.75
1164507--1164571	19	3.7	19	84	15	95	46	18	21	13	1.84
1164597--1164665	19	3.5	20	90	5	115	15	23	27	33	1.95
1164878--1164928	20	2.5	20	96	0	93	19	29	19	31	1.97
1165901--1165925	12	2.1	12	100	0	50	72	0	28	0	0.86
1168216--1168313	19	5.7	19	67	22	81	43	18	24	13	1.85
1168216--1168309	33	2.8	33	95	0	170	43	18	24	13	1.86
1168324--1168380	14	3.7	14	70	20	51	10	22	21	45	1.82
1168309--1168398	33	2.7	33	92	0	144	14	21	20	44	1.86
1168340--1168398	19	3.4	19	66	22	56	13	20	18	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1168505--1168541	14	2.6	14	86	0	56	45	24	2	27	1.66
1169898--1169991	42	2.2	42	81	7	102	21	21	34	23	1.97
1170237--1170421	91	2.0	90	88	6	273	47	17	12	22	1.82
1172094--1172225	19	7.1	19	78	11	121	43	20	22	13	1.87
1172221--1172264	18	2.4	19	80	7	54	6	15	25	52	1.68
1172855--1172908	20	2.7	20	97	0	99	25	18	24	31	1.97
1175010--1175038	12	2.3	13	94	5	51	68	0	0	31	0.89
1175135--1175201	28	2.5	26	81	15	75	79	4	4	11	1.03
1175145--1175195	14	3.8	13	78	21	52	78	1	5	13	1.02
1177217--1177282	31	2.1	31	91	5	107	30	9	18	42	1.81
1177289--1177375	37	2.4	36	86	1	111	39	13	21	25	1.90
1177289--1177527	102	2.4	100	79	4	230	39	12	19	28	1.88
1177500--1177578	28	2.8	28	100	0	158	43	17	22	16	1.88
1177702--1178176	217	2.2	211	84	3	592	24	18	22	34	1.96
1177703--1178173	106	4.4	107	83	3	556	24	18	22	33	1.96
1178843--1178929	32	2.7	32	90	0	129	37	22	10	28	1.87
1179982--1180042	26	2.3	26	81	10	70	1	13	8	77	1.07
1180002--1180048	19	2.5	19	76	13	51	2	10	10	76	1.10
1180000--1180056	26	2.2	26	84	12	73	1	12	8	77	1.07
1181582--1181685	52	2.0	52	88	0	154	24	24	14	37	1.92
1183190--1183243	23	2.4	22	84	6	63	77	7	1	12	1.05
1183224--1183275	24	2.1	24	86	10	70	69	3	5	21	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1184571--1184612	2	21.5	2	95	4	77	50	0	0	50	1.00
1186098--1186135	2	19.0	2	100	0	76	50	0	0	50	1.00
1187015--1187054	20	2.0	20	95	0	71	35	22	20	22	1.96
1187048--1187294	20	12.3	19	78	11	219	40	23	15	20	1.91
1187048--1187294	40	6.2	39	79	10	241	40	23	15	20	1.91
1187060--1187294	60	3.9	60	80	8	262	40	23	15	20	1.91
1188577--1188632	20	2.8	20	84	10	87	14	16	25	44	1.84
1188834--1188870	18	2.1	18	94	0	65	16	2	24	56	1.53
1194901--1194960	24	2.5	24	76	10	77	38	16	18	26	1.92
1195890--1195982	19	4.7	20	83	10	93	30	10	23	35	1.89
1195891--1196201	20	15.6	20	75	13	128	23	14	24	36	1.93
1195891--1195982	39	2.3	41	85	5	118	30	10	23	34	1.89
1195891--1196002	60	1.9	58	85	3	152	29	12	23	34	1.91
1195961--1196161	60	3.3	60	78	12	232	21	16	23	38	1.92
1195949--1196201	100	2.5	100	83	6	291	21	15	25	37	1.92
1195930--1196201	20	13.6	19	75	15	148	22	15	25	37	1.92
1197226--1197302	31	2.5	31	89	2	111	25	25	12	35	1.92
1202553--1202628	39	1.9	39	97	0	143	36	13	7	42	1.73
1202677--1202754	40	2.0	40	94	0	138	29	21	12	35	1.91
1203483--1203549	30	2.2	30	94	0	116	35	8	32	22	1.85
1203847--1203905	29	2.0	29	96	0	109	16	5	15	62	1.49
1205849--1205888	16	2.5	16	83	0	53	67	2	0	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1206040--1206078	2	19.5	2	94	0	69	51	0	2	46	1.14
1211661--1211726	12	6.1	12	70	22	56	66	1	0	31	1.01
1211659--1211732	30	2.6	29	82	8	89	66	1	0	32	1.00
1211696--1211733	17	2.2	18	90	4	60	71	2	0	26	1.00
1211961--1211994	14	2.5	14	95	4	61	5	32	50	11	1.63
1213439--1213519	24	3.4	24	88	5	112	43	17	27	12	1.84
1213824--1213884	20	3.1	19	82	13	70	31	3	3	62	1.27
1213815--1213883	20	3.5	20	71	25	58	31	2	2	62	1.25
1222030--1222108	39	2.0	39	100	0	158	35	15	7	41	1.75
1222154--1222231	40	2.0	40	94	0	138	29	21	12	35	1.91
1222382--1222407	2	13.0	2	100	0	52	50	0	0	50	1.00
1226727--1226771	17	2.6	17	85	3	54	42	22	13	22	1.88
1236445--1236519	30	2.5	30	80	4	80	56	10	14	18	1.67
1237736--1237774	3	12.7	3	89	5	60	64	0	0	35	0.94
1238108--1238195	40	2.2	40	93	0	149	30	20	20	28	1.98
1238020--1238320	166	1.8	166	88	2	462	26	18	23	30	1.98
1238148--1238705	126	4.4	126	88	1	850	26	19	23	30	1.98
1238995--1239083	32	2.8	33	79	5	83	31	21	13	33	1.92
1242209--1242339	63	2.1	63	88	1	192	40	13	19	25	1.89
1244163--1244249	30	2.9	30	81	3	95	57	11	11	19	1.64
1245480--1245543	34	1.9	34	90	6	105	32	9	25	32	1.88
1245672--1245730	3	19.3	3	77	10	57	59	1	1	37	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1245686--1245743	29	2.0	28	90	3	89	55	3	0	41	1.17
1253689--1253735	19	2.5	19	96	0	85	51	6	21	21	1.70
1253689--1253744	19	2.9	18	87	10	67	51	7	19	21	1.70
1254283--1255161	439	2.0	439	94	0	1537	31	20	14	33	1.93
1257008--1257044	16	2.2	17	86	13	51	56	0	2	40	1.13
1258830--1258893	3	20.7	3	87	6	92	64	1	1	32	1.13
1264695--1264735	18	2.3	18	86	0	55	14	17	0	68	1.22
1268305--1268381	30	2.5	31	79	6	86	53	10	14	22	1.71
1270721--1270797	34	2.3	34	88	8	113	24	14	23	37	1.92
1271193--1271298	43	2.4	43	84	4	124	25	16	13	44	1.84
1271208--1271310	43	2.3	44	86	5	145	28	18	12	40	1.87
1271217--1271333	45	2.7	44	83	2	119	22	17	13	47	1.82
1277866--1277893	13	2.2	13	100	0	56	25	28	0	46	1.53
1278297--1278340	19	2.3	19	88	0	61	54	9	15	20	1.68
1285702--1285758	3	18.7	3	82	10	71	66	0	1	31	1.02
1285717--1285770	9	6.1	9	79	12	58	68	0	1	29	1.00
1290003--1290072	30	2.4	30	83	6	92	54	4	2	38	1.35
1290053--1290216	29	5.7	29	82	5	172	50	12	1	35	1.48
1290053--1290216	59	2.8	58	81	5	172	50	12	1	35	1.48
1291378--1291422	18	2.5	19	85	7	58	33	2	0	64	1.06
1293588--1293620	2	16.5	2	100	0	66	51	0	0	48	1.00
1306305--1306352	19	2.5	19	82	0	60	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306423--1306447	2	12.5	2	100	0	50	48	0	0	52	1.00
1308453--1308543	8	11.2	8	75	11	51	74	0	8	16	1.05
1308515--1308550	4	8.8	4	93	6	63	72	0	2	25	0.98
1308554--1308590	2	18.5	2	100	0	74	51	0	0	48	1.00
1308651--1308706	18	3.2	17	73	12	51	73	3	0	23	0.99
1308842--1309008	65	2.6	61	75	13	151	58	3	4	33	1.37
1309428--1309524	37	2.6	37	90	0	149	29	13	16	40	1.87
1310255--1311938	106	15.9	106	92	0	2643	23	18	24	33	1.96
1312671--1312725	22	2.5	22	100	0	110	23	12	27	36	1.91
1313320--1313386	10	6.5	11	77	16	56	0	11	5	82	0.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23