genome.fa.s3132.2.7.7.80.10.50.1000.6.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: VEPZ01003132.1 Hibiscus syriacus cultivar Beakdansim tig00006570_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1555756

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 823 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)
1147837--1147875	19	2.1	19	85	0	51	58	5	0	35	1.20
1148327--1148374	21	2.3	21	81	0	60	20	10	41	27	1.85
1148399--1148441	21	2.0	21	95	0	77	20	23	27	27	1.99
1161122--1161191	21	3.1	22	65	25	56	35	20	27	17	1.94
1163582--1163743	64	2.5	63	75	9	150	28	19	18	33	1.96
1169517--1169579	29	2.2	28	86	8	83	19	22	15	42	1.88
1169937--1170056	64	1.9	64	83	10	156	27	17	16	38	1.91
1170918--1171125	115	1.8	115	86	2	301	32	21	15	30	1.95
1171033--1171382	137	2.6	137	93	0	576	29	26	16	27	1.97
1171724--1171765	12	3.4	12	93	3	66	47	2	0	50	1.14
1172140--1172188	20	2.5	20	96	0	89	24	48	14	12	1.77
1178511--1178565	27	2.0	27	100	0	110	32	10	14	41	1.81
1181076--1181115	16	2.5	16	95	0	71	32	15	25	27	1.95
1181095--1181146	22	2.4	22	93	6	88	44	11	19	25	1.84
1182247--1182290	14	3.1	14	80	6	54	47	0	2	50	1.13
1182235--1182290	27	2.0	28	82	3	69	50	1	1	46	1.22
1183660--1183745	2	44.0	2	95	4	158	48	0	0	51	1.00
1183895--1183956	30	2.0	32	87	9	92	41	8	8	41	1.64
1184871--1185270	200	2.0	200	99	0	784	34	19	12	34	1.89
1185616--1185653	17	2.2	17	100	0	76	36	31	18	13	1.89
1188972--1189015	23	1.9	23	95	0	79	27	27	29	15	1.96
1189487--1189526	16	2.5	17	76	15	50	60	0	30	10	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1194183--1194229	21	2.2	22	84	3	60	25	36	19	19	1.95
1194944--1194987	23	2.0	23	91	8	74	36	22	20	20	1.95
1195068--1195120	22	2.3	24	81	9	67	33	24	5	35	1.79
1197424--1197498	36	2.1	36	90	5	116	40	26	8	25	1.83
1199143--1199252	29	3.8	29	93	2	186	45	15	20	18	1.85
1201282--1201326	6	7.5	6	87	0	54	44	4	46	4	1.43
1205550--1205702	64	2.4	64	75	10	152	35	18	17	27	1.94
1206083--1206192	29	3.8	29	95	2	195	45	16	20	17	1.85
1206277--1206310	15	2.3	15	94	0	59	14	20	32	32	1.93
1207560--1207595	7	5.1	7	100	0	72	27	13	16	41	1.87
1207949--1208027	6	12.2	6	84	10	54	44	0	0	55	0.99
1207954--1208015	14	4.5	13	84	13	54	46	0	0	53	1.00
1207949--1208027	18	4.4	18	73	21	67	44	0	0	55	0.99
1207975--1208016	2	21.5	2	95	4	77	47	0	0	52	1.00
1212534--1212573	7	5.9	7	86	13	57	15	17	12	55	1.70
1212591--1212637	13	3.6	13	82	8	60	23	12	2	61	1.42
1215188--1215222	11	2.9	12	91	8	54	85	0	14	0	0.59
1215189--1215222	12	2.8	12	90	4	50	88	0	11	0	0.52
1217519--1217705	42	4.6	42	68	16	124	32	16	22	28	1.96
1219120--1219198	22	3.6	22	84	0	104	36	13	11	37	1.81
1219922--1220504	45	13.0	45	92	0	950	22	23	20	33	1.97
1220687--1220751	3	21.3	3	81	9	78	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1224958--1225003	17	2.5	19	79	10	51	45	2	2	50	1.26
1225914--1225948	17	2.1	17	94	0	61	40	8	11	40	1.72
1229713--1229890	90	2.0	90	100	0	356	19	35	12	32	1.89
1230613--1230647	3	11.7	3	100	0	70	65	0	0	34	0.93
1231116--1231216	52	2.0	50	94	3	175	42	13	21	21	1.88
1235570--1235672	52	2.0	52	94	0	179	40	12	24	22	1.88
1240870--1240943	17	4.2	17	75	19	62	59	1	1	37	1.14
1241373--1241419	21	2.2	20	85	7	58	72	6	0	21	1.07
1243193--1243226	15	2.3	15	94	0	59	52	14	8	23	1.69
1244071--1244144	33	2.2	33	100	0	148	43	8	5	43	1.57
1245074--1245120	22	2.2	21	85	11	60	55	0	0	44	0.99
1245086--1245151	25	2.8	23	80	14	73	50	1	1	46	1.20
1245131--1245207	10	7.8	11	68	22	55	44	1	2	51	1.23
1246691--1246726	2	18.0	2	100	0	72	50	0	0	50	1.00
1247829--1247872	22	2.0	21	86	4	61	18	25	31	25	1.97
1248054--1248087	13	2.5	14	90	4	52	73	0	2	23	0.97
1248057--1248117	28	2.2	28	82	11	72	70	1	4	22	1.15
1249477--1249736	37	7.1	36	84	6	308	41	9	3	45	1.54
1249422--1249736	74	4.3	74	82	6	340	41	9	4	44	1.55
1249469--1249750	111	2.6	109	85	6	340	41	9	4	44	1.57
1249493--1249765	37	7.5	37	85	4	261	42	8	3	45	1.53
1249760--1249792	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1250277--1250378	53	1.9	53	97	0	195	44	12	3	39	1.61
1250789--1250815	2	13.5	2	100	0	54	48	0	0	51	1.00
1251493--1251530	17	2.3	17	90	4	60	47	5	2	44	1.39
1251749--1251917	80	2.1	80	85	2	223	34	8	11	44	1.71
1251884--1251954	29	2.4	29	88	2	97	32	5	14	47	1.67
1251831--1252099	138	1.9	138	87	3	389	34	9	11	44	1.73
1252023--1252100	29	2.7	29	86	9	113	33	8	11	46	1.71
1252551--1252589	17	2.2	18	86	4	53	41	2	5	51	1.38
1252551--1252597	18	2.6	17	83	6	58	40	2	4	53	1.32
1257379--1257424	24	1.9	24	82	8	58	45	2	2	50	1.26
1262141--1262170	13	2.3	13	94	0	51	43	20	16	20	1.88
1262523--1262552	3	10.3	3	92	7	53	30	0	0	70	0.88
1268557--1268601	4	11.2	4	100	0	90	51	24	0	24	1.49
1273152--1273199	20	2.4	20	96	0	87	14	27	10	47	1.76
1273368--1273434	8	8.1	8	76	12	55	68	2	0	28	1.04
1273365--1273424	30	2.0	31	87	9	88	66	3	0	30	1.07
1279811--1279910	39	2.6	39	82	1	112	29	22	28	21	1.99
1287230--1287323	39	2.4	39	89	0	134	30	23	27	18	1.97
1289443--1289544	48	2.1	48	81	3	116	32	15	2	49	1.60
1291346--1291447	16	6.2	16	79	6	114	35	24	25	14	1.94
1291338--1291438	35	3.0	35	82	5	118	36	24	24	13	1.92
1298355--1298454	43	2.3	43	94	0	173	36	13	21	30	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298355--1298424	23	3.2	23	61	19	58	35	11	20	32	1.88
1306644--1306686	21	2.0	21	100	0	86	23	18	9	48	1.76
1318222--1318271	23	2.2	23	92	0	82	38	8	22	32	1.83
1318185--1318357	87	2.0	86	94	1	301	41	11	15	31	1.83
1318312--1318369	22	2.6	23	94	2	100	32	10	20	36	1.87
1318364--1319292	201	4.6	199	82	8	1068	31	14	14	39	1.86
1318393--1319292	401	2.2	401	85	5	1180	30	14	14	39	1.87
1323399--1324168	201	3.8	198	82	3	882	32	16	12	38	1.86
1323399--1324168	402	1.9	401	82	5	975	32	16	12	38	1.86
1324465--1324517	25	2.1	25	93	6	90	49	9	3	37	1.53
1325497--1325540	3	14.7	3	80	0	52	25	31	2	40	1.68
1325497--1325540	12	3.7	12	90	0	61	25	31	2	40	1.68
1327021--1328377	200	6.8	198	84	4	1511	31	17	14	36	1.90
1327021--1328377	601	2.3	598	83	6	1642	31	17	14	36	1.90
1328729--1328796	19	3.6	19	97	0	127	55	10	0	33	1.34
1330352--1330408	18	3.2	18	100	0	114	0	43	0	56	0.99
1330508--1330637	66	2.0	67	82	1	163	22	43	3	31	1.69
1330659--1330702	21	2.1	21	95	0	79	13	34	11	40	1.81
1331090--1331145	24	2.4	23	80	8	69	51	3	0	44	1.18
1333684--1333727	18	2.5	17	85	10	61	15	2	2	79	0.93
1333686--1333737	10	5.6	9	76	17	52	15	1	1	80	0.88
1333683--1333736	9	6.0	9	74	21	51	18	1	1	77	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1333683--1333737	19	3.0	18	75	19	60	18	1	1	78	0.94
1334909--1335398	182	2.7	181	85	4	621	27	15	14	42	1.85
1335873--1335971	49	2.0	49	98	0	189	47	7	0	45	1.30
1343229--1343284	27	2.0	27	86	6	76	53	0	3	42	1.18
1343812--1343863	21	2.4	21	93	3	86	42	0	1	55	1.10
1347586--1347705	40	3.1	40	66	16	117	17	15	11	55	1.68
1347579--1347730	75	2.0	75	98	0	295	19	14	12	53	1.71
1347618--1347730	35	3.0	37	66	16	97	19	13	12	54	1.69
1347598--1347717	37	3.1	39	70	16	124	16	14	12	56	1.67
1348469--1348598	65	2.0	65	100	0	260	35	23	9	32	1.86

Tables:   1   2   3   4   5   6   7