genome.fa.s8983.2.7.7.80.10.50.1000.6.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: VEPZ01008983.1 Hibiscus syriacus cultivar Beakdansim tig00112347_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1350231

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 735 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)
1082562--1082682	50	2.4	49	74	17	124	45	0	2	51	1.20
1082633--1082685	22	2.5	21	77	17	56	43	0	1	54	1.11
1083014--1083065	20	2.6	20	90	0	77	38	13	7	40	1.73
1083049--1083120	30	2.4	30	95	2	128	31	15	5	47	1.68
1083064--1083114	15	3.4	15	76	10	59	37	15	5	41	1.72
1090966--1091008	18	2.4	18	84	0	59	30	16	16	37	1.91
1095883--1095919	15	2.5	15	100	0	74	24	43	5	27	1.76
1102258--1102299	12	3.5	12	87	6	59	42	0	7	50	1.30
1106332--1106375	20	2.1	21	87	4	63	47	0	0	52	1.00
1106672--1106731	23	2.6	23	83	0	66	40	10	16	33	1.82
1106653--1106818	87	1.9	87	89	0	260	42	10	14	31	1.80
1106768--1106841	23	3.2	23	88	0	103	41	6	16	35	1.74
1106672--1106917	110	2.2	110	88	0	375	41	11	13	32	1.81
1107475--1107523	20	2.5	20	93	3	82	44	16	8	30	1.76
1107364--1107636	130	2.1	131	93	2	469	44	12	11	31	1.78
1108130--1108530	110	3.6	111	87	2	565	47	11	10	30	1.73
1107308--1109393	894	2.3	897	89	5	3109	43	10	10	35	1.74
1109024--1109393	111	3.3	111	91	2	584	44	11	12	31	1.78
1113034--1113074	18	2.2	18	86	8	55	56	4	4	34	1.42
1113443--1113495	27	2.0	27	85	7	72	50	24	1	22	1.59
1115473--1115530	20	2.7	22	75	21	68	46	13	12	27	1.79
1115517--1115590	20	3.6	19	72	16	60	35	14	21	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120755--1121255	55	9.1	54	83	4	506	29	24	17	28	1.97
1120777--1121255	110	4.4	110	87	1	595	28	24	17	28	1.98
1122618--1122667	7	7.4	7	82	17	70	12	12	0	76	1.04
1122612--1122718	14	6.6	17	74	17	86	9	14	0	75	1.03
1122618--1122711	8	12.0	8	75	15	65	9	13	0	76	1.01
1122618--1122670	20	2.7	20	85	14	74	11	11	0	77	1.00
1122646--1122713	23	2.9	24	81	12	79	7	14	0	77	0.96
1132345--1132450	45	2.3	47	88	6	153	38	20	9	31	1.85
1150844--1150892	15	3.3	15	88	0	71	42	32	18	6	1.75
1150912--1150957	17	2.7	17	79	0	56	19	28	28	23	1.98
1152063--1152096	16	2.1	17	88	5	52	44	2	11	41	1.56
1169523--1169636	30	3.8	30	97	0	210	28	24	21	25	1.99
1169520--1169653	60	2.2	60	87	1	196	30	23	22	23	1.99
1170816--1170860	21	2.1	21	87	0	63	15	24	28	31	1.96
1173590--1173673	30	2.8	30	96	0	150	28	25	21	25	1.99
1174367--1174408	22	2.0	22	85	4	59	33	26	0	40	1.56
1174856--1174900	21	2.1	21	91	0	72	15	22	28	33	1.95
1185706--1185786	33	2.6	32	82	5	85	48	8	6	37	1.59
1186134--1186161	14	2.0	14	100	0	56	28	0	0	71	0.86
1186123--1186161	14	2.9	13	85	7	51	33	0	0	66	0.92
1187139--1187191	14	3.8	13	80	12	52	52	0	3	43	1.19
1189224--1189329	45	2.3	45	85	4	133	30	19	20	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1189270--1189413	65	2.2	63	80	11	150	25	18	23	32	1.97
1190441--1190484	21	2.1	21	86	0	61	34	15	40	9	1.79
1192023--1192100	23	3.5	22	74	15	79	30	21	25	21	1.98
1196196--1196240	22	2.0	23	86	4	65	26	0	4	68	1.08
1197686--1197715	15	2.0	15	93	0	51	23	0	6	70	1.11
1198999--1199089	46	1.9	49	82	10	118	34	14	21	29	1.93
1199798--1199861	30	2.1	30	94	0	110	39	15	28	17	1.90
1205712--1205871	75	2.1	75	86	1	214	33	16	20	30	1.94
1207990--1208298	113	2.8	110	85	6	424	36	13	19	29	1.91
1210271--1210309	15	2.5	15	91	4	60	25	0	5	69	1.09
1212596--1212646	21	2.4	21	96	0	93	25	27	23	23	2.00
1212681--1212729	19	2.7	17	84	9	53	26	20	28	24	1.99
1212700--1212805	45	2.3	45	85	4	133	29	19	20	30	1.97
1228017--1228049	14	2.4	14	90	10	50	51	0	0	48	1.00
1228770--1228807	20	1.9	20	94	0	67	31	28	15	23	1.96
1228860--1228901	19	2.2	19	86	0	57	19	23	21	35	1.96
1229014--1229077	33	1.9	33	96	0	119	35	6	28	29	1.82
1238482--1238605	47	2.6	46	82	8	135	12	20	12	54	1.69
1242028--1242063	18	2.1	17	89	5	54	30	0	2	66	1.06
1243413--1243466	21	2.5	20	82	17	65	50	0	0	50	1.00
1244567--1244608	21	2.0	21	100	0	84	42	0	0	57	0.99
1244611--1244642	13	2.5	13	95	5	57	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1244596--1244658	18	3.6	16	76	16	63	38	0	1	60	1.07
1244817--1244887	14	4.9	14	79	5	70	54	0	4	40	1.20
1244820--1244887	29	2.3	29	92	0	109	54	0	4	41	1.20
1244834--1244892	15	4.1	15	82	6	77	57	0	3	38	1.15
1245692--1245740	22	2.2	22	88	0	71	51	2	0	46	1.12
1245753--1245840	31	2.8	30	74	16	72	50	6	1	42	1.36
1247196--1247230	12	2.8	13	91	4	54	42	0	11	45	1.40
1248404--1248485	23	3.6	23	70	17	73	31	21	25	20	1.98
1252239--1252281	20	2.2	19	84	16	52	34	6	4	53	1.49
1254641--1254675	14	2.5	14	90	0	52	45	11	8	34	1.71
1258328--1258427	35	2.8	35	83	1	128	33	0	23	44	1.54
1259234--1259280	23	2.0	23	87	0	67	65	14	4	14	1.41
1260507--1260568	25	2.5	25	94	0	106	50	4	0	45	1.23
1265967--1266008	19	2.2	20	86	4	59	52	2	2	42	1.27
1267400--1267517	3	39.3	3	93	0	173	60	0	5	33	1.21
1267841--1268512	113	6.0	113	96	0	1157	28	18	14	38	1.90
1269351--1269891	82	6.6	82	94	1	933	35	22	13	27	1.92
1269351--1269891	165	3.3	164	95	1	933	35	22	13	27	1.92
1269300--1269891	247	2.4	247	92	3	965	35	22	13	28	1.92
1278314--1278346	15	2.3	15	89	5	50	48	3	0	48	1.17
1283836--1283962	3	42.3	3	93	0	209	62	0	3	33	1.14
1287667--1287808	60	2.3	61	79	3	153	35	14	14	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1306234--1306270	2	19.0	2	94	5	67	51	0	0	48	1.00
1308317--1308678	103	3.4	108	81	9	420	24	17	23	34	1.96
1309771--1309815	23	2.0	23	82	8	56	0	20	2	77	0.87
1312653--1312684	5	6.4	5	100	0	64	0	18	37	43	1.51
1312774--1312833	19	3.3	18	76	19	70	3	11	31	53	1.53
1317049--1317088	21	1.9	21	90	10	64	67	5	7	20	1.34
1320426--1320486	25	2.4	26	83	10	81	73	1	8	16	1.14
1322671--1322715	20	2.2	20	84	7	56	8	13	15	62	1.54
1323543--1323599	30	1.9	30	85	7	80	28	8	7	56	1.56
1327913--1328024	10	10.9	9	70	24	55	76	1	7	14	1.07
1327898--1328068	41	3.8	43	74	16	136	73	2	8	16	1.18
1327913--1327976	18	3.6	17	74	17	58	81	1	4	12	0.92
1328078--1328151	9	8.6	9	66	19	50	71	1	1	25	1.02
1328045--1328154	17	6.6	16	70	22	68	71	0	1	25	1.01
1328043--1328156	50	2.3	47	80	18	133	72	0	1	24	0.99
1328104--1328151	19	2.6	19	73	3	53	72	0	0	27	0.84
1329443--1329578	37	3.6	37	80	7	168	45	5	2	46	1.40
1330292--1330884	85	7.0	85	86	2	744	25	17	20	35	1.95
1339069--1339175	9	10.2	9	68	25	52	74	2	5	16	1.12
1339071--1339172	8	11.9	8	67	13	51	75	2	5	15	1.12
1339081--1339161	34	2.3	35	85	12	114	72	3	7	16	1.21
1339080--1339174	34	2.8	34	83	10	108	73	3	6	16	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339102--1339155	17	3.2	17	67	27	51	70	3	9	16	1.28
1339072--1339216	77	1.9	75	83	8	186	73	3	6	17	1.18
1339110--1339226	43	2.7	42	78	16	114	70	2	8	17	1.23
1339233--1339273	15	2.5	17	73	11	50	73	0	4	21	1.02
1340507--1340556	14	3.6	14	81	13	50	76	0	2	22	0.89
1340609--1340789	36	4.9	35	74	14	150	44	5	3	46	1.43
1340662--1340903	38	6.3	39	73	17	177	43	5	3	47	1.44
1340774--1340805	2	16.5	2	93	6	57	50	0	0	50	1.00
1340824--1340874	24	2.1	24	89	7	77	47	9	0	43	1.36
1340739--1340906	60	2.9	57	83	10	193	44	4	3	47	1.41

Tables:   1   2   3   4   5   6   7