genome.fa.s7844.2.7.7.80.10.50.1000.4.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: VEPZ01007844.1 Hibiscus syriacus cultivar Beakdansim tig00110198_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2094103

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 732 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)
1043962--1044056	45	2.0	48	80	9	108	60	3	3	33	1.29
1050472--1050529	23	2.5	23	100	0	116	44	8	3	43	1.51
1051082--1051188	53	2.0	53	100	0	214	46	14	9	29	1.75
1064134--1064198	22	3.1	21	72	16	55	64	1	1	32	1.12
1083455--1083485	2	15.5	2	100	0	62	48	0	0	51	1.00
1085609--1085682	37	2.0	37	100	0	148	27	8	27	37	1.84
1087154--1087239	39	2.2	39	97	2	165	32	2	18	46	1.62
1089285--1089448	32	5.1	32	75	4	134	37	12	12	37	1.81
1090103--1090154	26	2.0	26	96	3	97	23	19	0	57	1.40
1090154--1090230	36	2.1	37	82	4	93	45	2	5	46	1.39
1090981--1091097	60	2.0	60	89	0	180	32	17	22	28	1.96
1098191--1098215	2	12.5	2	100	0	50	52	0	0	48	1.00
1104739--1104882	60	2.4	59	77	6	148	39	3	23	33	1.72
1107603--1107675	31	2.4	31	79	6	78	45	8	4	42	1.53
1110037--1110061	11	2.3	11	100	0	50	56	16	0	28	1.41
1112738--1112774	10	3.7	10	92	7	58	72	13	2	10	1.21
1114319--1114352	16	2.1	16	94	0	59	35	17	17	29	1.93
1153441--1153543	51	2.0	52	92	3	174	37	2	8	50	1.48
1156579--1156608	16	1.9	15	93	6	51	40	20	20	20	1.92
1167373--1167419	23	2.1	22	84	11	60	78	0	14	6	0.93
1169412--1169745	116	2.9	116	87	4	478	26	13	15	44	1.83
1172467--1172835	20	18.5	20	85	4	458	34	26	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1173516--1173562	24	2.0	24	87	8	69	25	14	21	38	1.92
1173736--1173760	12	2.1	12	100	0	50	72	0	28	0	0.86
1174739--1175111	93	4.0	93	98	1	723	46	19	12	21	1.83
1174739--1175111	184	2.0	186	98	1	723	46	19	12	21	1.83
1176799--1176888	14	5.7	14	74	23	81	42	23	25	8	1.83
1176791--1176905	33	3.5	33	95	0	212	45	20	24	9	1.81
1176798--1176910	19	6.8	18	72	23	88	43	22	24	9	1.83
1176922--1176976	14	3.6	14	73	21	56	9	25	23	41	1.83
1176906--1176976	33	2.2	33	94	0	124	8	22	25	43	1.81
1176917--1176998	33	2.5	33	89	2	119	9	25	21	42	1.84
1176929--1177017	20	4.8	20	72	19	75	12	24	19	43	1.85
1177096--1177166	33	2.2	33	92	0	115	47	18	22	11	1.80
1177540--1177732	20	9.6	20	82	5	219	19	19	25	35	1.95
1177540--1177732	60	3.2	60	83	0	251	19	19	25	35	1.95
1177788--1177839	20	2.6	20	96	0	95	21	13	26	38	1.90
1178012--1178051	15	2.9	15	82	14	50	52	2	7	37	1.43
1178747--1178806	29	2.2	28	85	11	81	51	0	6	41	1.28
1186155--1186191	16	2.2	18	85	9	51	45	2	8	43	1.47
1187641--1187686	20	2.6	18	81	18	60	23	23	10	41	1.86
1189044--1189128	3	28.3	3	100	0	170	67	0	32	0	0.91
1189184--1189222	2	19.5	2	100	0	78	51	0	0	48	1.00
1192820--1192856	20	2.0	20	84	10	51	43	18	0	37	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1193812--1194018	56	3.7	54	81	8	213	44	12	14	28	1.81
1194945--1194986	21	2.0	21	86	9	59	52	7	4	35	1.50
1195605--1195654	23	2.2	22	79	10	57	64	0	2	34	1.05
1196499--1196553	3	18.3	3	100	0	110	32	0	0	67	0.91
1197751--1198157	137	2.9	135	80	6	442	30	12	14	42	1.82
1204693--1204730	18	2.1	19	85	5	51	71	0	5	23	1.07
1206171--1206317	60	2.5	60	88	10	205	31	14	21	32	1.94
1220051--1220097	16	2.9	16	100	0	94	57	23	12	6	1.58
1220021--1220184	87	1.9	87	97	0	310	48	17	10	23	1.79
1220132--1220222	10	9.7	10	67	25	65	57	21	12	8	1.62
1220136--1220216	16	5.1	16	96	0	153	56	23	12	7	1.60
1220969--1221016	10	4.4	10	78	19	51	56	22	10	10	1.63
1220969--1221017	24	2.0	24	92	0	80	55	22	12	10	1.66
1224782--1224831	24	2.1	24	85	7	66	28	2	12	58	1.45
1230390--1230439	24	2.1	24	85	7	66	28	2	12	58	1.45
1241678--1241716	20	2.0	20	89	0	60	30	17	15	35	1.91
1242287--1242326	21	1.9	21	84	0	53	37	12	2	47	1.55
1242688--1242725	20	1.9	20	88	0	58	44	2	0	52	1.14
1255867--1255926	20	2.9	21	90	7	95	31	25	25	18	1.97
1255960--1256004	22	2.0	22	86	4	63	28	31	26	13	1.94
1257422--1257489	23	3.0	23	91	0	100	20	27	26	25	1.99
1264227--1264274	2	24.0	2	100	0	96	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1279745--1279998	82	3.1	82	98	0	490	41	18	11	29	1.85
1280714--1280773	28	2.1	28	93	0	102	45	16	11	26	1.82
1281391--1281859	233	2.0	233	100	0	938	34	21	18	25	1.96
1283340--1283397	22	2.7	21	83	5	62	41	13	1	43	1.55
1283393--1283441	24	2.0	24	88	7	73	53	2	8	36	1.43
1283989--1284061	36	2.0	36	100	0	146	21	13	13	50	1.76
1286409--1286640	114	2.0	114	85	5	308	33	15	13	37	1.87
1289984--1290063	31	2.7	30	75	5	81	33	13	12	40	1.83
1294865--1294913	23	2.1	23	92	0	80	16	32	24	26	1.96
1296200--1296241	22	2.0	22	85	4	59	23	26	21	28	1.99
1311699--1311967	129	2.1	129	92	1	441	40	5	9	44	1.62
1315199--1315273	39	1.9	39	100	0	150	36	6	12	45	1.68
1316097--1316127	2	15.5	2	100	0	62	48	0	0	51	1.00
1318772--1318806	6	5.8	6	96	0	61	17	2	62	17	1.44
1318917--1318974	22	2.6	22	83	5	64	58	0	1	39	1.08
1328848--1329106	130	2.0	130	92	0	428	36	5	12	45	1.66
1329326--1329359	3	11.3	3	100	0	68	35	0	0	64	0.94
1334560--1334965	201	2.0	205	97	1	775	35	13	11	38	1.81
1340049--1340091	18	2.5	17	85	7	61	67	2	4	25	1.22
1340440--1340544	37	2.8	37	83	0	129	31	12	14	41	1.82
1343939--1343963	2	12.5	2	100	0	50	48	0	0	52	1.00
1344855--1344912	21	2.8	21	73	5	55	56	8	27	6	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1345742--1345819	35	2.3	35	95	2	140	44	3	5	46	1.43
1353894--1353943	3	16.7	3	100	0	100	34	0	0	66	0.92
1354110--1354179	31	2.3	31	92	0	113	27	12	14	45	1.81
1364366--1364392	3	9.0	3	100	0	54	66	0	0	33	0.92
1364532--1364571	21	1.9	21	85	10	55	52	0	7	40	1.30
1364937--1364977	17	2.4	17	88	8	57	56	2	0	41	1.13
1366812--1366842	16	1.9	16	93	0	53	58	0	0	41	0.98
1375314--1375997	229	3.0	229	98	0	1313	41	17	7	32	1.78
1380956--1381022	28	2.4	28	92	2	109	41	37	10	10	1.74
1381178--1381269	38	2.4	38	85	3	123	40	39	7	13	1.72
1381201--1381279	37	2.1	38	85	2	106	45	31	7	15	1.74
1383021--1383066	23	2.0	23	100	0	92	52	21	4	21	1.64
1386327--1386357	16	1.9	16	93	0	53	61	9	0	29	1.28
1397025--1397051	2	13.5	2	100	0	54	0	48	0	51	1.00
1402670--1402734	21	3.0	22	88	11	98	29	9	52	9	1.64
1405629--1405886	129	2.0	129	100	0	516	23	20	17	38	1.93
1408282--1408315	16	2.1	16	94	0	59	32	26	8	32	1.87
1410595--1410656	25	2.4	25	81	7	72	37	12	8	41	1.73
1410698--1410761	31	2.1	31	94	2	112	42	4	20	32	1.73
1411003--1411070	24	2.8	24	77	18	86	22	25	25	27	1.99
1411566--1411607	21	2.0	21	95	0	75	28	21	23	26	1.99
1412790--1412836	18	2.6	18	79	3	58	23	36	8	31	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1420135--1420317	99	1.8	99	86	5	262	51	16	9	22	1.73
1423187--1423229	21	2.0	21	90	0	68	44	9	18	27	1.80
1423398--1423526	49	2.6	50	77	10	117	48	1	0	49	1.10
1423600--1423661	23	2.7	23	80	7	63	45	1	1	51	1.20
1423637--1423689	20	2.7	20	75	16	56	49	1	0	49	1.12
1423645--1423817	29	5.9	30	70	17	107	51	1	0	46	1.12
1423733--1423791	14	3.8	16	70	20	61	49	0	1	49	1.11
1423716--1423808	26	3.5	26	74	18	77	52	1	1	45	1.15
1435340--1435395	26	2.2	26	81	12	62	55	3	7	33	1.45
1438627--1438664	17	2.2	17	100	0	76	26	5	36	31	1.79

Tables:   1   2   3   4   5   6   7