genome.fa.s8136.2.7.7.80.10.50.1000.7.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: VEPZ01008136.1 Hibiscus syriacus cultivar Beakdansim tig00110691_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1585607

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1001 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)
1125539--1125590	17	3.1	17	72	10	52	59	0	0	40	0.97
1125557--1125637	3	27.7	3	75	9	78	59	0	0	40	0.98
1125557--1125622	12	5.3	12	87	7	87	56	0	0	43	0.99
1125854--1126136	120	2.4	120	97	0	530	27	18	15	38	1.91
1126364--1127624	113	11.2	113	91	1	1895	27	19	15	36	1.93
1126150--1127626	226	6.6	226	91	2	2143	27	19	15	36	1.93
1126094--1127613	339	4.6	340	90	3	2283	27	19	15	36	1.93
1128358--1128412	22	2.5	22	90	0	92	41	14	9	34	1.77
1129732--1129985	75	3.4	75	86	2	321	29	23	16	30	1.96
1131083--1131303	114	1.9	114	95	0	397	30	20	16	32	1.94
1135416--1135446	7	4.4	7	100	0	62	61	12	12	12	1.58
1137876--1137916	21	1.9	22	85	5	57	68	2	2	26	1.15
1139157--1139248	3	30.7	3	75	14	75	60	0	0	39	0.97
1139159--1139248	17	4.9	18	71	20	62	61	0	0	38	0.96
1139157--1139235	12	6.8	12	80	13	85	59	0	0	40	0.97
1140281--1140323	2	21.5	2	100	0	86	51	0	0	48	1.00
1145603--1145628	11	2.4	11	100	0	52	26	26	26	19	1.99
1148690--1148741	26	2.0	26	92	0	86	9	28	21	40	1.84
1166738--1166802	2	32.5	2	100	0	130	49	0	0	50	1.00
1170516--1170546	2	15.5	2	100	0	62	51	0	0	48	1.00
1170869--1170902	18	1.9	17	88	5	50	50	20	17	11	1.77
1173222--1173339	24	5.0	24	86	5	150	39	18	17	23	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173257--1173357	48	2.1	48	85	7	134	41	18	15	23	1.89
1174446--1174483	18	2.1	18	90	0	58	28	18	0	52	1.45
1175786--1175818	15	2.2	15	100	0	66	24	27	36	12	1.91
1175808--1175839	13	2.5	13	94	0	55	15	25	43	15	1.86
1175777--1175821	8	5.5	8	89	10	65	22	28	35	13	1.92
1175816--1175856	18	2.3	18	91	0	64	14	19	48	17	1.81
1175808--1175874	31	2.2	31	88	0	98	17	19	46	16	1.85
1175834--1175865	13	2.5	13	100	0	64	18	18	46	15	1.84
1177936--1178050	24	4.8	24	88	5	153	40	18	19	22	1.92
1177968--1178068	48	2.1	48	85	7	134	41	18	15	23	1.89
1179159--1179193	18	1.9	18	88	0	52	28	17	0	54	1.43
1180499--1180531	15	2.2	15	100	0	66	24	27	36	12	1.91
1180521--1180564	13	3.4	13	90	0	70	20	18	45	15	1.85
1180480--1180534	8	6.5	8	85	12	67	23	27	34	14	1.94
1182978--1183088	25	4.4	25	97	0	204	30	20	24	24	1.99
1193752--1193789	12	3.0	13	92	3	60	52	5	2	39	1.38
1195868--1195959	38	2.3	40	83	5	125	46	4	14	34	1.64
1198803--1198831	3	9.7	3	100	0	58	65	0	0	34	0.93
1203729--1203768	21	1.9	21	89	0	62	50	5	10	35	1.58
1204711--1204822	60	1.9	59	83	5	145	40	6	23	30	1.79
1211329--1211498	34	4.9	34	71	18	109	47	2	5	43	1.42
1211714--1211777	33	1.9	33	90	0	101	23	32	26	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1213091--1213117	12	2.2	12	100	0	54	29	0	0	70	0.88
1216428--1216671	95	2.7	94	84	10	296	30	18	18	31	1.95
1217779--1219772	250	8.0	250	85	3	2323	30	23	19	25	1.98
1217779--1219815	165	12.3	165	81	5	1580	30	23	19	25	1.98
1220211--1220413	39	5.4	37	82	10	218	44	4	7	43	1.52
1220210--1220413	75	2.7	75	86	3	241	44	4	7	43	1.52
1220294--1220534	126	1.9	123	81	10	292	43	4	6	44	1.52
1220421--1220532	34	3.0	36	80	11	113	45	6	7	41	1.57
1220525--1220603	34	2.2	38	84	11	103	48	0	3	48	1.19
1220580--1220628	25	2.0	25	83	0	62	38	0	10	51	1.36
1223158--1223197	3	13.0	3	94	5	71	67	0	0	32	0.91
1228779--1228809	2	15.5	2	100	0	62	51	0	0	48	1.00
1228829--1229018	85	2.2	85	83	5	224	29	20	21	29	1.98
1231480--1231515	3	12.0	3	93	0	54	61	0	5	33	1.19
1232289--1232338	21	2.5	19	84	12	73	10	0	32	58	1.31
1232295--1232337	21	2.0	21	95	0	77	9	0	30	60	1.28
1233325--1233382	20	2.6	22	89	10	84	31	20	22	25	1.98
1235096--1235285	71	2.6	72	84	5	242	37	7	5	48	1.56
1235053--1235312	37	7.3	36	78	10	241	40	7	4	47	1.53
1235096--1235320	72	3.2	68	81	11	244	39	7	5	47	1.55
1235256--1235374	56	2.0	60	84	9	156	42	5	4	48	1.44
1236477--1236512	15	2.6	13	84	16	54	38	16	19	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1236483--1236513	15	2.1	15	100	0	62	41	12	19	25	1.87
1247829--1247871	21	2.0	21	86	0	59	76	2	2	18	1.00
1247902--1247947	19	2.4	19	82	7	58	76	4	4	15	1.11
1247897--1247949	24	2.3	23	83	9	63	75	3	5	15	1.13
1249016--1249050	3	11.3	3	93	6	61	68	0	0	31	0.90
1249009--1249053	16	2.8	16	93	3	72	71	0	0	28	0.87
1249062--1249190	37	3.5	38	79	15	137	48	4	2	44	1.36
1249120--1249259	32	4.2	32	75	18	126	47	6	3	42	1.46
1249064--1249437	36	9.9	37	76	17	230	45	5	4	44	1.47
1249266--1249423	37	4.3	35	88	7	210	42	5	5	46	1.51
1249292--1249464	36	4.6	37	85	6	109	43	7	5	43	1.56
1250195--1251059	84	10.4	84	86	2	1136	23	20	25	30	1.98
1250195--1251023	251	3.3	252	90	0	1261	23	20	25	30	1.98
1252439--1252471	3	11.0	3	100	0	66	66	0	0	33	0.92
1252472--1252622	37	4.3	37	75	17	99	51	3	3	41	1.37
1252515--1252580	30	2.2	30	86	5	89	50	4	3	42	1.38
1252545--1252774	37	6.2	36	82	12	236	44	7	4	43	1.52
1252545--1252774	74	3.1	74	82	11	267	44	7	4	43	1.52
1252558--1252776	111	1.9	114	84	9	299	45	7	4	42	1.53
1254023--1254075	26	2.1	26	86	6	74	43	3	0	52	1.19
1255529--1255566	20	1.9	20	94	0	67	52	10	5	31	1.58
1259590--1259675	24	3.6	24	82	0	91	19	16	15	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259609--1259672	12	5.3	12	69	14	51	15	14	15	54	1.71
1261617--1261646	2	15.0	2	100	0	60	50	0	0	50	1.00
1263989--1264027	2	20.0	2	94	5	71	48	0	0	51	1.00
1268180--1268268	38	2.3	38	84	7	110	39	34	12	13	1.82
1269661--1269702	2	21.5	2	95	4	77	50	0	0	50	1.00
1270002--1270062	19	3.1	19	83	7	77	37	4	0	57	1.20
1270035--1270069	16	2.1	17	89	5	54	34	5	0	60	1.21
1271641--1271680	2	20.0	2	100	0	80	50	0	0	50	1.00
1275998--1276030	15	2.1	17	88	11	52	48	6	12	33	1.65
1276069--1276112	19	2.3	19	100	0	88	13	4	9	72	1.24
1275972--1276212	114	2.1	114	89	3	369	36	4	8	49	1.55
1276090--1276300	94	2.3	95	90	5	333	37	5	10	46	1.62
1276185--1276393	115	1.8	114	89	7	334	39	4	10	45	1.59
1275969--1276393	209	2.0	211	86	7	607	39	4	9	46	1.58
1280670--1280712	14	3.1	15	80	12	56	41	0	0	58	0.98
1285563--1285601	20	2.0	20	89	0	60	64	10	2	23	1.37
1290308--1290361	21	2.6	21	100	0	108	31	11	31	25	1.91
1291698--1291818	59	2.1	59	90	3	190	35	23	14	26	1.94
1296108--1296165	23	2.6	23	78	13	66	46	12	22	18	1.82
1298183--1298215	17	1.9	17	93	0	57	36	9	24	30	1.86
1299213--1299388	43	4.1	43	91	0	271	24	22	23	29	1.99
1299273--1299422	43	3.5	43	87	3	115	25	22	21	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1299241--1299422	86	2.1	86	83	2	222	25	23	21	29	1.99
1299591--1299649	21	2.8	21	84	0	73	55	20	5	18	1.61
1310332--1310364	7	4.9	7	92	7	50	21	0	33	45	1.52
1310332--1310364	13	2.4	14	90	5	50	21	0	33	45	1.52
1310402--1310466	29	2.2	30	86	2	87	16	13	38	30	1.88
1310480--1310540	18	3.4	18	90	2	88	18	13	37	31	1.88
1313808--1313832	5	5.0	5	100	0	50	80	0	0	20	0.72
1313842--1313976	71	1.9	71	87	0	198	55	8	15	20	1.66
1313840--1314006	71	2.3	71	82	1	190	53	7	14	23	1.67
1314199--1314246	23	2.1	23	84	0	60	39	0	22	37	1.55

Tables:   1   2   3   4   5   6   7   8   9