genome.fa.s8213.2.7.7.80.10.50.1000.5.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: VEPZ01008213.1 Hibiscus syriacus cultivar Beakdansim tig00110839_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2348840

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1057 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)
963491--963841	114	3.1	114	88	3	501	36	14	23	24	1.93
963737--963795	19	3.0	20	69	23	52	44	10	22	23	1.83
963737--963801	20	3.3	20	70	22	57	41	10	21	26	1.86
970143--970193	26	2.0	26	84	0	66	49	1	7	41	1.43
986023--986055	17	1.9	17	93	0	57	42	21	0	36	1.53
986278--986310	17	1.9	17	88	11	50	33	0	0	66	0.92
987614--987936	47	6.9	47	93	0	529	20	21	13	43	1.86
988343--988519	94	1.9	94	84	4	241	27	22	12	36	1.91
995486--995554	20	3.1	20	71	25	66	21	24	10	43	1.83
995442--995672	47	4.9	47	84	2	293	22	20	12	44	1.84
996078--996255	94	1.9	94	80	4	207	27	23	14	35	1.93
1006918--1006967	25	2.0	25	88	7	75	28	6	18	48	1.71
1009444--1009486	20	2.1	21	87	12	63	41	2	6	48	1.43
1009704--1009750	19	2.6	17	83	10	58	25	29	17	27	1.97
1017940--1017979	20	2.0	21	85	14	57	42	5	7	45	1.54
1022736--1022969	129	1.8	128	83	6	312	33	18	14	33	1.91
1023699--1023748	25	2.0	25	88	7	75	28	6	18	48	1.71
1028221--1028287	33	2.0	33	88	0	98	26	13	26	32	1.94
1028359--1028462	44	2.3	44	85	6	129	37	7	23	31	1.83
1035739--1035767	14	2.1	14	100	0	58	6	20	20	51	1.70
1036723--1036829	29	3.7	29	80	6	101	24	22	16	36	1.94
1036734--1036865	57	2.3	58	77	5	142	21	23	16	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038470--1038507	20	1.9	20	94	0	67	34	0	2	63	1.09
1038476--1038521	20	2.3	20	85	7	58	34	4	0	60	1.16
1049046--1049200	77	2.0	77	100	0	310	45	6	23	24	1.76
1051282--1051313	3	10.7	3	100	0	64	0	0	31	68	0.90
1053237--1053534	148	2.0	149	98	1	580	34	12	10	43	1.75
1068843--1068925	43	1.9	44	90	2	132	26	19	12	42	1.86
1097505--1097554	24	2.1	24	100	0	100	34	16	42	8	1.77
1098373--1098420	17	2.9	16	79	20	55	20	6	0	72	1.05
1098341--1098400	22	2.8	21	78	14	61	18	3	5	73	1.16
1098341--1098416	9	8.7	9	74	17	54	19	2	3	73	1.11
1108561--1109269	354	2.0	354	100	0	1418	37	13	15	33	1.87
1111063--1111097	2	17.5	2	100	0	70	48	0	0	51	1.00
1111221--1111257	2	18.5	2	100	0	74	48	0	0	51	1.00
1111393--1111447	22	2.5	21	80	13	58	12	5	7	74	1.20
1111422--1111481	31	1.9	32	86	3	86	15	5	5	75	1.15
1111453--1111531	5	16.2	5	70	19	51	15	5	2	77	1.05
1111453--1111528	9	7.9	9	73	12	62	14	5	2	77	1.05
1115171--1115212	12	3.6	12	80	3	50	80	9	9	0	0.89
1129343--1129438	23	4.2	23	72	0	75	35	25	18	20	1.95
1129532--1129584	16	3.5	15	78	16	56	43	20	1	33	1.63
1129543--1129652	45	2.4	45	80	3	123	36	20	8	34	1.83
1132393--1132480	36	2.4	36	86	0	113	45	9	14	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1132413--1132496	36	2.3	36	83	0	105	51	7	11	29	1.65
1137832--1137900	15	4.6	14	79	13	66	81	7	11	0	0.88
1137857--1137900	11	4.2	11	82	11	56	84	4	11	0	0.77
1137847--1137910	16	4.1	15	78	13	67	81	6	10	1	0.94
1139468--1140530	423	2.5	424	92	1	1738	33	24	18	22	1.97
1139437--1140530	106	10.3	106	91	1	1640	33	25	18	22	1.97
1143105--1143238	45	3.0	45	94	3	225	41	6	21	30	1.79
1145518--1145587	4	18.0	4	92	2	90	42	0	0	57	0.99
1145518--1145587	6	12.0	6	84	6	90	42	0	0	57	0.99
1145518--1145587	10	7.2	10	87	6	90	42	0	0	57	0.99
1149583--1149826	132	1.9	131	90	2	391	31	18	11	38	1.86
1149607--1150095	244	2.0	245	99	0	971	29	18	12	39	1.87
1150175--1150794	53	11.7	52	83	7	718	27	28	14	29	1.95
1150164--1150807	108	6.1	107	83	8	728	27	27	14	30	1.95
1151552--1151852	124	2.4	125	88	2	448	23	27	16	32	1.96
1153046--1153075	16	1.9	15	93	6	51	13	20	0	66	1.24
1153069--1153158	23	3.9	23	73	16	78	6	18	0	74	1.03
1153045--1153158	6	18.5	6	67	20	58	8	18	0	72	1.09
1156898--1156922	13	1.9	13	100	0	50	52	16	16	16	1.76
1157165--1157262	21	4.7	21	88	2	119	16	21	17	44	1.86
1157174--1157262	42	2.1	42	89	4	135	16	21	16	44	1.86
1161552--1161695	63	2.3	64	90	1	227	29	18	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1161555--1161661	34	3.3	34	69	12	107	29	16	18	34	1.94
1161693--1161763	22	3.2	22	89	2	97	22	26	15	35	1.94
1161713--1161766	22	2.5	22	96	0	99	22	27	12	37	1.91
1171000--1171038	20	2.0	20	90	10	62	7	12	5	74	1.20
1171001--1171046	20	2.3	20	85	10	60	6	15	4	73	1.19
1177258--1177289	15	2.1	15	94	0	55	40	15	0	43	1.47
1177826--1177919	39	2.4	39	87	3	127	22	30	13	32	1.93
1179604--1179638	18	2.0	18	94	5	63	11	17	5	65	1.43
1179802--1179919	48	2.4	48	84	1	155	39	16	20	22	1.92
1179802--1179919	24	4.9	24	72	9	105	39	16	20	22	1.92
1189408--1189447	2	20.5	2	89	5	64	47	2	0	50	1.14
1208475--1208543	5	13.8	5	92	0	84	2	37	36	23	1.70
1208541--1208601	6	10.2	6	96	0	95	4	16	49	29	1.66
1208876--1208930	22	2.5	22	75	0	56	29	9	23	38	1.85
1217046--1217080	17	2.1	17	88	0	52	14	14	20	51	1.76
1219410--1219447	20	1.9	20	94	0	67	34	0	23	42	1.55
1224787--1225159	54	6.9	54	89	0	530	34	19	18	28	1.95
1237724--1238226	215	2.3	216	81	1	596	33	19	17	29	1.95
1237724--1238203	54	8.9	54	83	0	584	33	19	17	29	1.94
1243005--1243041	13	2.8	13	91	0	56	40	5	10	43	1.63
1245069--1245108	18	2.2	18	95	0	71	17	0	30	52	1.45
1245334--1245374	20	2.0	20	95	0	73	29	0	26	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246572--1246646	20	3.7	20	71	3	60	32	14	20	33	1.92
1259119--1259189	35	2.0	35	94	0	124	29	9	30	29	1.89
1259211--1259259	23	2.1	23	84	0	62	26	18	18	36	1.94
1262735--1263018	143	2.0	143	94	0	496	41	16	15	26	1.88
1269349--1269768	143	2.9	143	90	0	651	43	16	14	26	1.85
1270633--1270664	15	2.1	15	100	0	64	34	40	0	25	1.56
1276870--1276896	12	2.2	12	100	0	54	33	25	14	25	1.95
1277722--1277780	30	2.0	30	93	0	100	32	23	5	38	1.77
1277802--1277873	29	2.5	29	100	0	144	38	11	11	38	1.76
1281925--1281959	18	1.9	18	88	0	52	28	17	0	54	1.43
1283109--1283191	19	4.6	19	82	14	113	18	36	28	16	1.93
1283133--1283199	14	4.4	14	81	17	80	19	37	28	14	1.91
1283115--1283199	33	2.6	33	96	0	152	20	36	28	15	1.92
1286940--1286974	18	1.9	18	88	0	52	28	17	0	54	1.43
1288127--1288209	19	4.6	19	82	14	113	18	36	28	16	1.93
1288151--1288217	14	4.4	14	81	17	80	19	37	28	14	1.91
1288133--1288217	33	2.6	33	96	0	152	20	36	28	15	1.92
1290054--1290534	183	2.8	170	81	8	507	46	12	13	26	1.80
1290214--1290907	183	3.7	182	84	6	847	45	12	14	27	1.82
1290523--1290547	11	2.3	11	100	0	50	44	12	0	44	1.41
1290216--1290907	377	1.8	376	88	1	1064	44	13	14	27	1.82
1291297--1291342	19	2.4	19	92	0	74	43	0	19	36	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1292602--1292657	24	2.4	24	80	14	64	41	1	10	46	1.49
1292895--1292937	9	4.8	9	88	0	59	34	6	53	4	1.49
1293345--1293383	18	2.2	18	95	0	69	53	0	41	5	1.23
1294854--1294902	18	2.7	18	93	3	80	30	2	10	57	1.43
1295230--1296285	199	5.3	198	91	2	1689	41	16	14	27	1.87
1296662--1296719	15	3.7	15	83	6	71	22	50	1	25	1.59
1297039--1297088	2	25.0	2	100	0	100	50	0	0	50	1.00
1297877--1297917	3	13.7	3	84	0	55	39	2	31	26	1.70
1297877--1297916	12	3.3	12	92	0	62	40	2	32	25	1.69
1299877--1299920	20	2.2	19	84	12	52	45	4	11	38	1.61

Tables:   1   2   3   4   5   6   7   8   9