genome.fa.s8653.2.7.7.80.10.50.1000.6.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: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778368

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1032 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)
1052253--1052313	32	1.9	32	93	3	106	59	11	16	13	1.62
1055826--1055933	3	36.0	3	88	7	157	66	1	0	31	1.02
1058426--1058557	32	4.2	32	79	2	124	29	27	26	16	1.97
1061801--1061841	18	2.3	18	86	0	55	48	21	9	19	1.77
1070860--1070901	20	2.0	21	82	13	52	47	2	2	47	1.28
1073953--1074002	12	4.2	12	94	0	91	10	34	22	34	1.87
1073941--1073993	24	2.2	24	89	0	79	16	35	15	32	1.90
1073956--1074002	3	15.7	3	86	0	58	8	34	23	34	1.85
1078648--1078709	3	20.0	3	90	6	97	35	0	0	64	0.94
1087877--1087975	42	2.4	41	73	11	103	22	22	24	31	1.98
1088339--1088441	42	2.5	41	76	7	118	25	25	20	29	1.99
1087868--1088899	233	4.4	233	85	3	1291	31	17	18	32	1.94
1088666--1088704	20	2.0	20	94	0	69	23	33	23	20	1.97
1088820--1088900	41	2.0	41	82	4	101	33	20	19	25	1.97
1088839--1089588	233	3.2	231	87	2	1065	34	16	15	34	1.90
1090439--1090480	3	14.3	3	95	5	77	30	0	0	69	0.89
1091289--1091326	20	2.0	19	90	10	60	47	10	23	18	1.79
1092753--1092780	2	14.0	2	100	0	56	50	0	0	50	1.00
1093495--1093527	15	2.1	16	88	5	50	33	0	3	63	1.10
1095833--1096100	132	2.0	131	88	2	394	33	16	15	33	1.91
1103220--1103326	24	4.5	24	71	0	70	50	14	13	21	1.77
1103220--1103328	48	2.3	48	75	0	110	50	14	13	21	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1108090--1108196	24	4.5	24	73	0	88	48	14	14	21	1.80
1108090--1108198	48	2.3	48	75	0	110	48	14	15	21	1.80
1118050--1118089	18	2.3	18	91	4	64	40	0	0	60	0.97
1118050--1118112	19	3.4	18	80	8	65	34	1	0	63	1.04
1122512--1122592	6	12.8	6	72	12	56	72	2	4	19	1.14
1125720--1125780	28	2.3	27	80	11	72	50	1	11	36	1.48
1125860--1125921	27	2.3	27	78	8	63	40	30	6	22	1.79
1126277--1126308	5	6.4	5	100	0	64	0	81	0	18	0.70
1126768--1127091	120	2.7	120	89	2	429	36	8	14	39	1.78
1126919--1127369	117	3.8	117	79	7	378	37	8	12	42	1.73
1128311--1128434	62	2.0	62	93	0	212	27	14	29	29	1.95
1131681--1131723	22	2.0	22	100	0	86	16	18	37	27	1.92
1132661--1132702	2	21.0	2	100	0	84	50	0	0	50	1.00
1133479--1133521	18	2.4	18	100	0	86	37	4	16	41	1.69
1134619--1134651	17	1.9	17	100	0	66	60	9	6	24	1.49
1137968--1138010	21	2.0	23	90	9	72	69	0	4	25	1.07
1140398--1140482	32	2.7	32	76	7	100	38	15	17	28	1.90
1144938--1145086	72	2.1	72	92	2	246	40	2	35	21	1.65
1151202--1151292	45	2.0	46	89	2	139	34	6	19	39	1.78
1154781--1154833	26	2.0	26	85	0	70	39	16	7	35	1.78
1161032--1161083	22	2.5	21	79	14	63	38	15	17	28	1.90
1163040--1163096	20	2.9	18	75	14	51	24	29	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163547--1163604	29	2.0	29	93	0	98	31	18	18	31	1.96
1164829--1165060	113	2.0	114	97	0	439	31	12	11	44	1.77
1165662--1165695	14	2.4	14	95	0	59	5	38	0	55	1.24
1165917--1165957	22	1.9	22	95	5	75	53	0	21	24	1.46
1166185--1166235	2	25.5	2	92	7	86	49	0	1	49	1.12
1170008--1170070	20	2.9	21	79	9	65	15	25	34	23	1.95
1175886--1175918	17	1.9	18	88	11	52	27	18	0	54	1.44
1182087--1182156	36	1.9	36	100	0	140	27	35	14	22	1.93
1189152--1189182	2	15.5	2	100	0	62	51	0	0	48	1.00
1189180--1189274	4	22.2	4	73	19	52	68	0	3	28	1.05
1189192--1189273	35	2.4	34	75	22	82	65	0	3	30	1.09
1189164--1189325	26	6.0	26	70	17	84	65	1	2	30	1.13
1189160--1189306	43	3.4	41	75	19	120	63	0	2	32	1.13
1189160--1189325	38	5.0	35	71	20	99	65	1	2	31	1.13
1190447--1190541	39	2.6	36	77	14	95	25	6	25	43	1.78
1190527--1190758	36	6.6	36	76	12	214	40	13	18	27	1.88
1190561--1190750	100	1.9	100	82	6	242	41	12	17	27	1.86
1190822--1190890	36	1.9	36	90	0	111	40	13	20	26	1.88
1190824--1190907	36	2.3	36	85	0	105	44	11	17	26	1.84
1190795--1191033	102	2.4	102	89	0	363	36	11	19	33	1.87
1190942--1191117	87	2.0	87	91	0	280	35	11	18	34	1.87
1191426--1191700	106	2.6	106	90	2	417	21	18	24	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1192279--1192391	32	3.5	32	82	3	129	38	18	12	30	1.88
1193324--1193458	69	2.0	69	86	2	191	28	14	20	37	1.92
1193533--1193581	13	4.0	12	87	12	73	2	16	2	79	0.92
1193532--1193581	26	2.0	24	92	7	82	4	16	2	78	1.00
1196785--1196933	47	3.5	42	76	18	146	63	1	2	32	1.17
1196886--1196912	2	13.5	2	100	0	54	51	0	0	48	1.00
1196904--1196952	24	2.0	25	84	7	66	65	4	4	26	1.29
1197877--1197993	38	3.1	39	78	11	118	45	0	14	39	1.51
1198139--1198183	18	2.6	17	93	6	74	33	6	31	28	1.83
1198763--1198835	38	1.9	38	94	2	130	41	36	9	12	1.75
1198975--1199056	33	2.5	33	85	0	119	41	39	7	12	1.70
1201261--1201312	17	3.2	17	75	10	54	32	1	13	51	1.52
1202351--1202423	36	2.1	35	82	12	87	49	5	0	45	1.25
1209684--1209713	15	2.0	15	93	0	51	40	23	13	23	1.90
1211660--1211794	67	2.0	67	100	0	270	34	16	19	30	1.94
1221045--1221114	37	1.9	37	88	2	106	47	2	1	48	1.25
1221792--1221974	91	2.0	91	100	0	366	40	14	7	37	1.74
1223934--1223967	12	2.8	12	81	0	50	44	26	0	29	1.55
1224193--1224298	22	4.8	22	94	0	185	22	24	22	30	1.99
1224193--1224304	44	2.5	44	95	0	206	22	24	22	31	1.99
1227780--1227871	44	2.1	44	84	8	116	17	6	6	69	1.32
1227780--1227885	45	2.4	46	77	16	109	16	6	5	71	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1230907--1230958	26	2.0	27	88	7	81	73	3	17	5	1.19
1230891--1230975	11	7.4	11	70	19	50	74	3	17	4	1.14
1232070--1232184	31	3.6	31	81	4	122	28	13	22	34	1.93
1232077--1232170	32	2.9	32	85	3	127	29	12	21	36	1.91
1233578--1233624	21	2.2	21	85	7	60	36	2	0	61	1.08
1234771--1234863	43	2.2	42	84	11	118	22	8	4	64	1.39
1234788--1234879	43	2.1	44	88	6	134	19	7	6	66	1.39
1235573--1235630	30	1.9	30	96	0	107	56	0	15	27	1.39
1237269--1237315	3	16.7	3	87	12	73	27	0	0	72	0.85
1242530--1242566	18	2.1	18	94	0	65	10	24	5	59	1.52
1243955--1243993	3	13.0	3	94	0	69	33	64	0	2	1.08
1252103--1252243	64	2.2	63	81	6	160	32	15	23	28	1.95
1252251--1252288	20	1.9	20	88	0	58	31	21	23	23	1.98
1253811--1253850	19	2.1	19	100	0	80	42	0	10	47	1.37
1256282--1256421	64	2.2	63	83	7	176	32	17	23	26	1.97
1256409--1256466	20	2.6	22	89	10	84	31	20	22	25	1.98
1269955--1270030	19	3.9	19	67	8	55	46	5	17	31	1.70
1270054--1270123	13	5.5	13	75	10	65	54	1	20	24	1.53
1273231--1273264	18	1.9	17	94	5	59	58	5	17	17	1.57
1273333--1273383	22	2.3	22	86	0	75	31	21	21	25	1.98
1274610--1274656	25	1.9	25	83	12	62	44	19	4	31	1.70
1274539--1274708	87	2.0	87	93	0	295	37	21	12	28	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1282336--1282384	24	2.1	23	85	11	64	34	0	24	40	1.55
1282500--1283032	170	3.1	169	85	1	710	30	16	21	31	1.95
1285750--1285797	20	2.6	18	76	20	53	33	2	4	60	1.27
1286338--1286452	55	2.1	55	85	0	149	26	23	19	31	1.98
1290933--1290965	17	2.0	17	88	5	50	33	3	6	57	1.38
1291004--1291028	12	2.1	12	100	0	50	24	8	0	68	1.16
1298527--1298652	60	2.1	60	100	0	252	21	6	19	52	1.68
1300164--1300195	11	2.9	11	100	0	64	0	28	56	15	1.40
1300345--1300399	12	4.6	12	79	0	56	12	12	47	27	1.78
1300397--1300459	24	2.6	25	78	16	71	44	0	0	55	0.99

Tables:   1   2   3   4   5   6   7   8   9