genome.fa.s9580.2.7.7.80.10.50.1000.5.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: VEPZ01009580.1 Hibiscus syriacus cultivar Beakdansim tig00116954_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1633873

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 709 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)
1062588--1062620	5	6.6	5	86	13	50	21	3	0	75	0.93
1062592--1062620	14	2.0	15	93	6	51	20	3	0	75	0.94
1071094--1071483	194	2.0	194	100	0	780	41	14	19	24	1.89
1072291--1072335	23	2.0	23	90	0	72	24	26	26	22	2.00
1072303--1072615	148	2.1	148	97	2	594	33	21	17	27	1.95
1073919--1073963	21	2.1	21	87	0	63	15	24	28	31	1.96
1076531--1076575	21	2.1	21	91	0	72	15	24	26	33	1.95
1079581--1079630	24	2.1	24	92	0	82	22	20	20	38	1.94
1079705--1079852	74	2.0	74	98	1	289	35	13	29	20	1.91
1082397--1082445	25	2.0	25	95	0	89	26	8	18	46	1.76
1082408--1082540	66	2.0	66	100	0	266	31	10	18	39	1.85
1082889--1082925	18	2.1	18	89	0	56	32	5	10	51	1.60
1082881--1082933	24	2.2	24	86	0	70	35	3	13	47	1.61
1084285--1084389	32	3.1	33	66	25	85	57	13	1	27	1.47
1085673--1085750	21	3.9	20	85	11	115	23	21	35	19	1.96
1087760--1087813	20	2.7	19	78	13	56	50	18	14	16	1.79
1088215--1088263	22	2.3	21	80	10	55	24	14	40	20	1.89
1088222--1088279	22	2.6	22	86	0	80	22	18	39	18	1.92
1088381--1088439	20	3.0	20	94	0	100	15	15	25	44	1.85
1088387--1088462	20	3.8	20	83	0	89	21	10	23	44	1.83
1088387--1088493	40	2.7	40	79	2	108	21	12	24	42	1.87
1090516--1090542	14	1.9	14	100	0	54	40	0	7	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1091772--1092110	169	2.0	170	98	0	662	30	12	26	30	1.92
1093631--1093690	28	2.1	28	93	0	102	36	15	15	33	1.88
1098305--1098501	98	2.0	98	100	0	394	35	20	26	17	1.95
1103286--1103334	21	2.3	21	92	0	80	12	36	30	20	1.89
1103286--1103345	21	2.9	21	87	0	66	11	36	26	25	1.90
1113779--1114010	99	2.3	99	96	0	419	24	25	15	34	1.94
1113871--1113950	39	2.1	39	87	0	115	26	27	13	32	1.94
1113916--1114050	60	2.2	60	82	2	173	24	22	15	37	1.93
1115281--1115350	31	2.3	31	89	0	104	27	27	12	32	1.93
1115292--1115355	31	2.1	31	96	0	119	21	28	15	34	1.94
1120825--1120876	23	2.3	21	78	15	59	48	1	0	50	1.12
1123951--1124077	41	3.1	41	82	3	96	31	11	15	40	1.84
1123973--1124076	39	2.6	40	90	3	156	31	9	17	41	1.82
1130058--1130109	2	26.0	2	100	0	104	0	50	0	50	1.00
1135465--1135493	15	1.9	15	100	0	58	48	0	13	37	1.43
1139688--1139841	68	2.3	68	91	2	247	34	19	15	30	1.93
1139782--1139995	100	2.1	100	94	0	374	36	20	14	28	1.91
1144279--1144584	149	2.1	148	91	0	486	26	16	22	35	1.94
1144560--1144620	23	2.7	23	92	2	97	21	27	26	24	1.99
1145739--1145780	21	2.0	20	86	4	57	40	7	14	38	1.73
1147721--1147765	18	2.5	18	96	0	81	26	35	22	15	1.94
1148075--1148113	10	3.7	10	80	12	51	82	7	2	7	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1148075--1148115	22	1.9	21	95	5	73	80	7	2	9	0.99
1148146--1148178	15	2.1	16	88	5	50	39	0	0	60	0.97
1149063--1149191	60	2.2	59	86	6	172	55	1	3	39	1.25
1149321--1149346	12	2.2	12	100	0	52	34	0	0	65	0.93
1160688--1160739	10	5.1	10	77	11	52	50	3	0	46	1.20
1161231--1161277	20	2.4	19	82	10	67	53	10	17	19	1.72
1161019--1161492	182	2.6	183	90	2	720	41	14	17	26	1.87
1161413--1161459	20	2.4	19	89	10	76	55	10	17	17	1.69
1163679--1163743	21	3.1	21	90	0	94	43	10	29	16	1.82
1163777--1163842	33	2.0	33	90	0	105	28	0	48	22	1.51
1165630--1165678	19	2.6	19	96	0	89	32	2	10	55	1.45
1165900--1166407	200	2.5	200	98	0	962	36	14	18	30	1.91
1166233--1166579	174	2.0	174	95	0	622	35	14	19	30	1.92
1168098--1168198	6	16.8	6	85	4	114	38	3	30	26	1.75
1169402--1169972	183	3.1	182	95	1	991	35	14	16	33	1.89
1173405--1173449	23	2.0	23	90	0	72	40	11	6	42	1.67
1176793--1176827	18	2.0	17	94	5	61	22	34	22	20	1.97
1178067--1178436	205	1.8	197	84	8	494	47	8	7	37	1.61
1179040--1179074	16	2.2	16	89	0	52	20	22	17	40	1.92
1179683--1179770	10	8.1	10	72	12	59	9	34	32	23	1.86
1179668--1179770	33	3.1	33	76	14	104	9	35	31	23	1.87
1179712--1179744	14	2.4	14	94	0	57	6	30	39	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179731--1179768	20	1.9	20	100	0	76	10	28	36	23	1.88
1187099--1187133	17	2.1	17	88	0	52	51	17	17	14	1.77
1188577--1188651	38	2.0	37	84	5	98	48	2	1	48	1.24
1197551--1197661	57	1.9	57	90	0	177	39	20	17	22	1.92
1199814--1199839	10	2.6	10	100	0	52	23	0	0	76	0.78
1200309--1200338	15	2.0	15	100	0	60	26	6	26	40	1.81
1206765--1206793	2	14.5	2	100	0	58	51	0	0	48	1.00
1207183--1207266	41	2.0	42	88	2	125	42	13	5	38	1.68
1207187--1207260	23	3.4	23	67	17	68	43	13	6	36	1.71
1214144--1214196	21	2.5	21	87	0	79	20	24	18	35	1.95
1214186--1214298	20	5.7	20	97	0	208	39	21	19	19	1.92
1214486--1214561	22	3.5	22	88	0	107	25	39	15	19	1.91
1214929--1215071	20	7.5	20	74	9	93	16	18	25	39	1.92
1214898--1215071	73	2.4	73	93	2	287	15	18	24	41	1.89
1215038--1215081	20	2.2	20	91	0	70	11	13	20	54	1.69
1216963--1217141	20	9.6	20	76	16	143	42	22	17	16	1.89
1216963--1217160	40	5.4	38	75	14	163	43	22	18	16	1.88
1216977--1217171	107	1.8	107	92	0	327	44	22	18	15	1.87
1217184--1217252	20	3.5	20	85	0	93	18	18	23	39	1.93
1217736--1217840	21	5.0	21	71	3	86	20	36	19	23	1.95
1217733--1217843	42	2.6	42	77	5	109	20	36	18	23	1.95
1219229--1219266	19	2.0	20	94	5	69	28	15	28	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1219234--1219392	63	2.5	62	85	4	194	31	19	22	27	1.98
1219848--1220147	147	2.0	147	99	0	591	26	16	21	35	1.94
1220125--1220170	23	2.0	23	91	0	74	21	23	26	28	1.99
1225871--1225908	19	2.0	20	94	5	69	28	15	28	26	1.96
1225876--1226034	63	2.5	62	84	4	194	32	19	21	26	1.97
1226487--1226788	149	2.0	147	98	1	577	27	16	21	35	1.94
1226766--1226811	23	2.0	23	86	0	65	23	23	23	28	2.00
1228297--1228390	33	2.8	34	88	3	127	43	19	22	14	1.87
1228403--1228455	20	2.7	20	85	8	81	15	20	26	37	1.92
1231791--1231877	20	4.3	20	94	0	147	22	18	28	29	1.97
1231864--1231996	20	6.7	20	90	0	185	22	18	17	42	1.89
1231993--1232033	21	2.0	21	90	0	64	41	17	21	19	1.90
1232398--1232461	30	2.1	30	91	0	101	28	26	9	35	1.87
1233245--1233346	50	2.0	50	100	0	204	38	15	11	34	1.84
1235447--1235676	18	12.8	18	82	1	228	46	13	15	25	1.82
1235447--1235702	36	7.0	36	81	4	237	45	12	16	26	1.81
1235652--1235697	21	2.2	21	88	7	67	43	6	13	36	1.69
1239503--1239550	2	24.0	2	95	0	87	47	0	0	52	1.00
1244060--1244124	29	2.2	29	100	0	130	40	27	9	23	1.85
1257502--1257568	28	2.4	28	94	2	116	46	4	11	37	1.61
1258275--1258377	30	3.4	30	93	0	170	30	23	21	25	1.99
1258275--1258394	60	2.0	60	85	0	159	31	23	21	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259106--1259163	20	2.6	22	84	10	75	27	22	18	31	1.97
1259151--1259292	65	2.2	63	82	8	171	26	22	16	34	1.95
1262314--1262375	30	2.1	30	93	0	106	30	22	20	25	1.98
1262314--1262393	30	2.7	30	86	0	88	31	22	21	25	1.98
1263126--1263183	20	2.6	22	86	10	75	25	20	20	32	1.97
1263171--1263312	65	2.2	63	81	8	162	26	23	17	32	1.97
1270685--1271098	206	2.0	207	99	0	821	42	19	19	18	1.89
1271107--1271133	2	13.5	2	100	0	54	0	48	0	51	1.00
1277199--1277527	164	2.0	164	100	0	658	46	13	7	32	1.72
1286150--1286199	22	2.3	22	93	3	84	40	0	10	50	1.36

Tables:   1   2   3   4   5   6