genome.fa.s8919.2.7.7.80.10.50.1000.4.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: VEPZ01008919.1 Hibiscus syriacus cultivar Beakdansim tig00112223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1453011

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 485 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)
1080753--1080814	27	2.2	28	78	13	74	59	11	17	11	1.60
1086224--1086248	11	2.3	11	100	0	50	32	0	48	20	1.50
1088396--1088454	23	2.5	24	83	5	84	64	10	15	10	1.49
1089199--1089250	24	2.2	24	82	0	59	28	23	19	28	1.98
1095756--1095805	19	2.6	19	79	17	59	66	0	18	16	1.26
1096213--1096264	19	2.6	21	90	6	81	46	5	13	34	1.67
1099827--1100164	170	2.0	168	96	3	626	34	10	15	38	1.82
1105659--1105727	33	2.1	33	83	5	86	30	36	1	31	1.67
1108212--1108242	14	2.1	15	94	5	55	51	12	19	16	1.76
1108211--1108245	15	2.3	16	85	14	56	54	14	17	14	1.72
1110104--1110172	33	2.1	33	83	5	86	30	36	1	31	1.67
1113051--1113701	321	2.0	324	91	3	1069	28	23	10	37	1.87
1113793--1113821	15	1.9	15	100	0	58	89	0	10	0	0.48
1120632--1120670	18	2.2	18	100	0	78	25	33	15	25	1.95
1121446--1121477	16	2.0	16	93	0	55	43	3	21	31	1.68
1124913--1124944	16	2.0	16	93	0	55	43	3	21	31	1.68
1127990--1128041	21	2.6	21	90	6	81	34	13	5	46	1.67
1130666--1130718	22	2.6	19	85	11	70	47	5	13	33	1.66
1132210--1132266	9	6.8	9	76	13	59	3	15	0	80	0.84
1132221--1132267	15	3.2	14	79	14	51	4	12	0	82	0.80
1132213--1132250	11	3.4	11	86	13	51	5	13	0	81	0.85
1134348--1134404	9	6.8	9	76	13	59	3	15	0	80	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1134359--1134405	15	3.2	14	79	14	51	4	12	0	82	0.80
1134351--1134388	11	3.4	11	86	13	51	5	13	0	81	0.85
1140248--1140347	33	2.9	33	78	10	78	31	2	35	32	1.69
1140298--1140362	13	5.4	12	75	21	57	29	3	35	32	1.73
1140267--1140395	36	3.7	36	87	4	165	30	3	35	30	1.76
1140734--1140784	19	2.6	20	87	3	68	45	5	15	33	1.71
1148465--1148511	19	2.5	19	93	6	78	72	4	12	10	1.25
1148523--1148563	18	2.3	18	87	8	57	80	0	19	0	0.71
1149294--1149361	35	1.9	36	93	3	120	29	2	36	30	1.72
1154959--1155027	33	2.1	33	83	5	86	31	1	36	30	1.67
1156897--1156927	14	2.1	15	94	5	55	16	19	12	51	1.76
1159455--1159535	35	2.3	35	80	14	96	29	2	37	30	1.71
1163822--1163850	2	15.0	2	92	7	51	48	0	0	51	1.00
1165204--1165256	15	3.7	15	80	12	58	15	20	0	64	1.29
1166093--1166164	20	3.6	20	92	3	110	47	6	12	33	1.68
1167029--1167111	30	2.7	32	83	5	91	53	9	9	27	1.65
1169390--1169461	17	4.2	17	80	1	63	40	12	6	40	1.70
1169413--1169462	17	2.9	17	87	0	73	44	12	2	42	1.53
1169855--1169906	25	2.1	25	96	0	95	34	21	19	25	1.96
1172725--1172816	17	5.4	17	74	11	62	39	14	6	40	1.71
1173215--1173268	25	2.2	24	90	3	81	35	22	16	25	1.95
1176286--1176434	36	4.1	36	83	0	190	31	4	36	27	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1179982--1180025	21	2.2	19	84	8	52	0	13	6	79	0.92
1180390--1180538	36	4.1	36	84	0	181	30	4	36	28	1.76
1180444--1180505	13	5.0	13	75	18	53	30	3	37	29	1.73
1190112--1190146	14	2.5	14	100	0	70	40	8	0	51	1.33
1195226--1195297	17	4.2	17	78	5	65	38	12	8	40	1.73
1195699--1195750	25	2.1	25	92	0	86	34	21	17	26	1.95
1199686--1199710	10	2.5	10	100	0	50	32	20	12	36	1.89
1201841--1201888	21	2.3	21	96	0	87	56	20	12	10	1.65
1216614--1216653	19	2.0	20	90	4	64	65	0	15	20	1.28
1229612--1229651	19	2.0	20	86	13	57	22	10	0	67	1.20
1231220--1231310	36	2.6	36	92	1	148	28	5	38	27	1.79
1235280--1235416	36	3.8	36	91	0	213	29	4	33	32	1.77
1235297--1235417	11	10.2	11	69	21	68	30	4	33	31	1.77
1245220--1245393	23	7.3	23	69	25	98	31	36	3	28	1.74
1245220--1245376	11	13.2	11	72	23	115	31	36	3	28	1.73
1245217--1245393	36	4.9	36	95	0	311	31	36	3	28	1.76
1249333--1249506	23	7.3	23	69	25	98	31	36	3	28	1.74
1249333--1249489	11	13.2	11	72	23	115	31	36	3	28	1.73
1249330--1249506	36	4.9	36	95	0	311	31	36	3	28	1.76
1251116--1251149	16	2.2	16	89	5	52	0	20	0	79	0.73
1251138--1251191	23	2.2	25	83	6	67	11	16	11	61	1.57
1251694--1251732	20	1.9	21	84	5	53	30	0	41	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1252070--1252120	19	2.6	20	90	3	77	43	5	15	35	1.71
1252957--1253016	30	2.0	31	83	3	77	55	10	8	26	1.61
1255034--1255087	24	2.2	24	100	0	108	22	16	16	44	1.86
1255733--1255773	19	2.1	20	90	4	66	41	12	7	39	1.70
1262172--1262221	24	2.1	24	84	0	64	34	16	12	38	1.85
1264353--1264386	17	2.0	17	88	0	50	41	0	17	41	1.50
1266855--1266900	8	5.6	8	79	5	56	0	17	2	80	0.81
1272921--1272966	20	2.3	20	85	7	58	67	0	13	19	1.23
1273391--1273440	21	2.5	21	90	6	77	48	8	12	32	1.69
1276582--1276646	19	3.2	19	78	21	69	3	16	3	76	1.03
1276597--1276647	20	2.7	19	77	17	52	3	15	3	76	1.08
1277358--1277409	19	2.6	21	90	6	81	46	7	13	32	1.72
1279738--1279793	19	2.8	20	89	5	87	42	10	10	35	1.74
1286190--1286231	22	2.0	21	85	4	57	23	23	21	30	1.99
1286475--1286514	19	2.0	20	85	4	55	22	15	0	62	1.32
1294098--1294131	15	2.3	15	89	0	50	41	8	5	44	1.60
1294338--1294394	12	4.8	12	82	6	62	0	7	10	82	0.84
1294332--1294390	23	2.6	22	84	10	75	1	6	10	81	0.94
1294351--1294392	11	3.7	11	87	6	66	0	4	7	88	0.64
1294338--1294392	23	2.3	24	93	3	94	0	7	9	83	0.81
1300626--1300738	36	3.2	36	89	1	165	32	35	3	28	1.74
1300709--1300777	33	2.1	33	83	5	86	30	36	1	31	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306359--1306471	36	3.2	36	88	1	156	32	34	3	29	1.75
1314972--1315001	13	2.4	13	94	5	53	26	30	0	43	1.55
1316569--1316601	16	2.1	16	100	0	66	33	18	6	42	1.75
1327265--1327290	13	2.0	13	100	0	52	30	30	0	38	1.58
1330015--1330044	15	2.1	15	93	6	53	0	20	3	76	0.92
1330039--1330105	28	2.4	28	76	14	66	14	13	11	59	1.61
1331797--1331849	21	2.6	21	91	5	83	43	5	13	37	1.67
1332278--1332325	19	2.5	20	79	3	53	43	6	14	35	1.71
1337018--1337085	35	1.9	36	93	3	120	29	2	36	30	1.72
1337429--1337479	19	2.6	20	87	3	68	45	5	15	33	1.71
1344845--1344914	29	2.4	29	95	2	124	28	17	27	27	1.97
1364504--1364530	13	2.1	13	100	0	54	0	0	7	92	0.38
1365833--1366004	91	1.9	90	84	7	231	23	26	21	29	1.99
1377547--1377590	21	2.2	21	88	8	65	36	11	6	45	1.67
1381552--1381601	21	2.5	21	90	6	77	32	12	8	48	1.69
1384962--1385002	19	2.1	20	86	13	59	24	12	0	63	1.28
1392227--1392262	19	1.9	20	88	11	58	22	11	0	66	1.22
1401186--1401237	19	2.6	21	84	6	72	46	3	15	34	1.64
1405746--1405813	35	1.9	36	84	3	93	33	2	33	29	1.73
1408012--1408052	15	2.6	16	84	11	57	80	4	14	0	0.87
1410738--1410805	35	1.9	36	93	3	120	29	2	36	30	1.72
1414726--1414759	16	2.1	16	89	10	52	0	11	5	82	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1414726--1414765	20	2.0	20	85	9	55	0	10	10	80	0.92
1414726--1414765	19	2.0	20	85	4	55	0	10	10	80	0.92
1415134--1415180	24	2.0	22	84	15	60	29	0	34	36	1.58
1415134--1415201	35	1.9	36	90	3	111	29	1	36	32	1.67
1423341--1423387	24	2.0	23	84	15	62	34	31	0	34	1.58
1428513--1428552	20	1.9	22	90	10	66	27	20	7	45	1.78
1438286--1438365	35	2.2	37	91	4	128	31	37	3	27	1.74
1438743--1438790	12	4.1	11	80	19	53	77	4	18	0	0.93
1438812--1438858	14	3.1	15	75	12	51	72	6	19	2	1.17
1442181--1442260	35	2.2	37	91	4	128	31	37	3	27	1.74

Tables:   1   2   3   4   5