genome.fa.s1840.2.7.7.80.10.50.1000.6.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: VEPZ01001840.1 Hibiscus syriacus cultivar Beakdansim tig00003725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2412736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1360 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)
1042542--1042581	18	2.2	18	100	0	80	25	32	22	20	1.98
1043854--1044231	190	2.0	188	96	3	706	21	23	17	37	1.94
1045662--1045784	49	2.5	51	89	5	189	26	21	25	26	2.00
1045796--1045912	51	2.3	51	83	4	139	19	31	30	17	1.95
1049350--1049461	56	2.0	56	100	0	224	30	12	14	42	1.82
1055146--1055200	26	2.1	26	93	0	92	49	20	10	20	1.78
1055471--1055579	55	2.0	54	94	1	191	29	13	16	40	1.87
1074163--1074434	90	3.0	90	92	3	449	37	15	6	40	1.73
1075435--1075549	58	2.0	60	85	3	162	45	11	4	39	1.60
1080376--1080400	10	2.5	10	100	0	50	88	0	12	0	0.53
1081479--1081752	148	1.9	145	82	9	319	38	6	7	47	1.58
1089522--1089681	75	2.1	75	85	0	212	32	17	20	30	1.95
1090945--1091002	22	2.6	22	88	0	89	34	18	12	34	1.88
1091668--1092363	73	9.5	73	91	1	1108	27	18	21	32	1.96
1091668--1092363	147	4.7	146	92	1	1108	27	18	21	32	1.96
1091668--1092363	220	3.2	220	91	2	1112	27	18	21	32	1.96
1092490--1092550	3	20.0	3	73	9	52	37	3	0	59	1.14
1092491--1092536	18	2.6	18	86	6	58	39	4	0	56	1.19
1095133--1095167	18	1.9	18	100	0	70	17	48	22	11	1.79
1095132--1095156	13	1.9	13	100	0	50	16	48	24	12	1.79
1095175--1095278	29	3.6	29	88	1	154	22	8	23	46	1.79
1097496--1097575	21	3.7	21	76	12	81	41	23	10	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100737--1100769	18	1.9	17	88	11	50	21	21	9	48	1.77
1101087--1101121	18	1.9	18	94	0	61	28	34	20	17	1.95
1101286--1101334	24	2.1	25	85	11	68	34	20	2	42	1.64
1110648--1110723	24	3.2	24	84	3	73	43	19	13	23	1.86
1110665--1110780	24	4.8	24	89	4	171	39	18	16	25	1.91
1110696--1110797	48	2.1	48	87	5	127	41	18	15	24	1.90
1115790--1115897	24	4.7	23	82	9	130	39	20	14	25	1.90
1115975--1116419	222	2.0	222	100	0	890	35	14	19	29	1.92
1119838--1119936	23	4.4	22	75	8	74	41	18	19	21	1.91
1119964--1120040	21	3.7	20	74	10	64	40	23	14	22	1.90
1124131--1124210	21	3.7	21	80	18	101	43	22	11	22	1.84
1124129--1124213	44	1.9	44	97	0	161	42	22	10	24	1.85
1126358--1126400	5	8.6	5	97	0	77	58	0	18	23	1.40
1139924--1140108	60	3.1	59	80	9	200	34	21	5	38	1.77
1140338--1140390	20	2.7	20	74	11	63	28	32	15	24	1.95
1140396--1140486	20	4.6	20	79	8	96	40	24	16	18	1.90
1140378--1140486	40	2.7	40	84	9	125	37	24	17	20	1.93
1140469--1140544	19	3.9	19	80	13	84	35	21	10	32	1.87
1140518--1140564	18	2.5	19	82	6	60	29	23	14	31	1.95
1141333--1141366	12	2.8	12	90	0	50	58	26	0	14	1.36
1141492--1141545	24	2.2	24	93	0	90	20	18	20	40	1.91
1144606--1144658	24	2.2	24	89	0	79	33	5	13	47	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1145620--1145655	18	2.0	18	94	0	63	55	22	2	19	1.56
1145948--1146001	28	1.9	28	84	0	72	48	20	0	31	1.50
1145965--1146001	14	2.6	14	100	0	74	48	21	0	29	1.50
1146869--1146981	21	5.4	21	71	4	75	20	21	37	21	1.95
1146907--1146987	42	1.9	42	85	5	110	19	17	39	23	1.92
1149105--1149158	20	2.7	19	83	8	72	46	22	16	14	1.84
1149165--1149203	20	1.9	21	89	5	62	15	10	20	53	1.70
1149545--1149602	22	2.6	22	91	0	89	17	18	44	18	1.87
1149732--1149962	20	11.6	20	77	4	207	18	14	24	42	1.88
1149711--1149962	40	6.3	40	79	7	244	19	15	24	41	1.89
1149714--1149945	79	2.9	80	81	3	236	19	15	23	41	1.90
1149729--1149962	60	3.9	60	80	8	264	18	15	24	41	1.89
1149954--1150030	21	3.7	21	100	0	154	38	20	24	15	1.92
1150049--1150102	20	2.7	19	75	8	63	24	14	33	27	1.94
1150746--1150805	2	30.0	2	100	0	120	50	0	0	50	1.00
1151101--1151139	2	19.5	2	100	0	78	48	0	0	51	1.00
1154806--1155646	445	1.9	450	92	2	1417	23	22	28	24	1.99
1161513--1161581	36	1.9	36	88	5	104	17	5	27	49	1.69
1161693--1161738	4	11.0	4	86	4	56	26	6	0	67	1.15
1162802--1162828	14	1.9	14	100	0	54	18	0	0	81	0.69
1171900--1171932	6	5.7	6	89	3	50	87	9	0	3	0.63
1171917--1171965	21	2.3	22	79	10	57	77	4	12	6	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1172699--1173475	105	7.4	105	93	0	1241	34	25	17	22	1.96
1175489--1175556	35	1.9	36	85	8	95	19	5	27	47	1.72
1175668--1175713	4	11.0	4	86	4	56	26	6	0	67	1.15
1184046--1184169	60	2.1	60	81	0	140	30	24	6	38	1.80
1186594--1186663	34	2.1	34	94	0	122	42	11	12	32	1.79
1187078--1187120	18	2.5	17	85	7	61	25	4	2	67	1.22
1190009--1190047	8	5.0	8	84	6	53	10	17	12	58	1.61
1191175--1191236	23	2.7	22	80	9	72	79	6	14	0	0.93
1191175--1191243	20	3.2	20	82	10	66	79	5	13	1	0.97
1191854--1191904	22	2.3	22	96	0	93	35	27	11	25	1.91
1191854--1191911	22	2.8	21	89	7	75	36	27	12	24	1.91
1192759--1192868	37	3.0	37	91	2	177	26	23	13	36	1.92
1192794--1193167	102	3.7	102	94	0	631	28	20	13	36	1.91
1193240--1193311	37	1.9	37	82	0	90	30	22	8	38	1.83
1193772--1194659	105	8.5	105	80	8	891	32	25	19	21	1.97
1193776--1194659	424	2.1	413	82	5	1112	32	25	20	21	1.97
1195122--1195245	34	3.8	34	76	14	125	43	10	13	32	1.78
1195604--1195643	18	2.3	18	83	8	57	25	5	2	67	1.23
1195681--1195735	28	2.0	28	82	13	69	34	3	0	61	1.13
1197494--1197574	39	2.1	39	88	4	119	7	19	43	29	1.78
1210647--1210844	100	2.0	101	93	1	344	25	6	12	55	1.60
1211141--1211165	12	2.1	12	100	0	50	40	8	0	52	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1211452--1211498	14	3.3	14	84	3	58	25	0	21	53	1.46
1211645--1211694	22	2.2	22	78	3	55	30	0	24	46	1.53
1212432--1212476	21	2.1	21	87	0	63	31	28	24	15	1.96
1213325--1213478	31	5.0	31	91	1	247	22	20	20	37	1.95
1216439--1216483	21	2.1	21	87	0	63	31	28	24	15	1.96
1217348--1217501	31	5.0	31	91	1	247	22	19	20	37	1.94
1218420--1218581	68	2.4	68	95	1	290	29	0	22	47	1.56
1218488--1218520	16	2.1	16	88	5	50	33	0	9	57	1.30
1218615--1218665	14	3.6	14	72	0	57	23	0	25	50	1.49
1218563--1218665	28	3.6	28	70	16	77	24	1	25	48	1.61
1218946--1218992	23	2.0	23	91	0	76	23	0	23	53	1.47
1222353--1222389	20	1.9	19	89	10	58	45	10	24	18	1.81
1222536--1222604	35	1.9	37	88	5	106	46	4	0	49	1.21
1222996--1223088	34	2.7	34	93	0	150	27	11	23	36	1.90
1224041--1224073	5	6.6	5	92	0	57	3	75	0	21	0.93
1228041--1228144	31	3.2	31	72	15	93	39	21	19	20	1.93
1229186--1229259	27	2.7	27	93	0	130	22	14	18	43	1.87
1230252--1230316	22	3.0	22	86	4	87	29	18	26	26	1.98
1231656--1231698	21	2.0	21	95	0	77	27	27	20	23	1.99
1231800--1231892	21	4.7	21	66	20	74	18	25	34	21	1.96
1231800--1231868	36	1.9	36	88	5	104	18	24	34	21	1.96
1238689--1238807	63	1.9	63	84	3	159	34	13	24	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1240854--1241210	183	2.0	183	82	0	435	37	14	26	21	1.92
1247884--1247915	17	1.9	17	93	6	57	37	25	0	37	1.56
1254448--1254531	3	27.7	3	80	2	96	36	1	1	60	1.12
1256036--1256078	21	2.0	21	86	8	61	41	6	0	51	1.29
1258486--1258531	18	2.6	18	86	6	58	21	43	19	15	1.87
1262900--1262942	21	2.0	21	100	0	86	55	13	9	20	1.66
1265845--1266029	1	185.0	1	72	0	136	85	0	14	0	0.59
1265845--1266029	7	26.6	7	95	3	338	85	0	14	0	0.59
1270670--1270756	44	2.0	44	93	4	149	33	14	12	39	1.85
1270670--1270749	22	3.6	22	91	0	133	33	16	12	37	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12