genome.fa.s7746.2.7.7.80.10.50.1000.4.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: VEPZ01007746.1 Hibiscus syriacus cultivar Beakdansim tig00110009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3674400

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  4  of  15  ( 1700 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)
1014294--1015067	384	2.0	386	93	1	1329	36	9	19	34	1.84
1015258--1015304	23	2.0	23	91	0	76	14	23	23	38	1.92
1017659--1017692	17	1.9	18	88	5	52	47	0	2	50	1.16
1020670--1022078	481	2.9	482	83	4	1799	35	19	14	30	1.92
1022492--1022554	31	2.0	31	96	0	117	41	23	19	15	1.90
1024285--1024343	29	2.0	29	83	6	75	38	16	23	20	1.92
1025575--1027302	936	1.8	936	90	1	2764	35	10	21	33	1.87
1027859--1027916	23	2.5	23	100	0	116	29	13	22	34	1.93
1027880--1027949	23	3.0	23	85	0	77	21	20	22	35	1.96
1032859--1032894	18	2.0	18	88	0	54	38	0	5	55	1.23
1038677--1038742	27	2.2	32	84	15	97	63	0	1	34	1.04
1039110--1039180	33	2.2	33	94	0	124	28	11	19	40	1.86
1039230--1039291	3	20.7	3	81	15	67	69	0	0	30	0.89
1039637--1040394	84	9.1	82	76	7	584	25	20	23	30	1.98
1039678--1040404	249	2.9	249	87	1	990	25	20	23	30	1.98
1040521--1041168	110	5.9	110	87	1	908	25	17	22	34	1.96
1040527--1041168	331	2.0	327	87	2	937	25	17	21	34	1.96
1052595--1052619	6	4.2	6	100	0	50	16	16	16	52	1.76
1055560--1055596	15	2.4	16	90	4	58	13	10	5	70	1.32
1055949--1055996	10	4.5	10	85	14	69	87	8	4	0	0.66
1055948--1056005	10	5.7	10	80	11	55	82	13	3	0	0.79
1061195--1061391	43	4.5	43	77	10	191	25	12	27	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1061940--1061987	12	3.8	12	73	10	51	27	6	20	45	1.75
1062035--1062226	43	4.5	43	81	5	208	25	12	28	33	1.92
1062035--1062231	86	2.3	85	83	2	232	24	12	28	34	1.92
1062190--1062263	37	2.0	37	86	0	103	25	13	29	31	1.94
1087774--1087986	45	4.8	45	92	4	346	30	21	6	40	1.79
1087774--1087986	89	2.4	88	90	6	342	30	21	6	40	1.79
1088004--1088035	7	4.4	7	96	4	55	59	28	0	12	1.34
1088004--1088039	14	2.5	15	86	13	58	61	25	0	13	1.33
1088007--1088056	14	3.6	14	83	0	55	54	26	6	14	1.63
1088007--1088063	21	2.7	21	80	0	60	52	26	7	14	1.66
1088124--1088325	40	5.1	40	94	0	359	34	26	15	23	1.95
1089127--1089186	30	2.0	31	86	3	86	33	23	10	33	1.88
1095575--1095600	5	5.2	5	100	0	52	80	0	19	0	0.71
1105653--1106179	46	11.6	46	93	1	628	22	21	11	44	1.83
1105653--1106179	137	3.9	137	88	3	615	22	21	11	44	1.83
1105646--1106209	45	12.4	47	92	1	639	22	20	11	45	1.83
1106513--1106693	95	1.9	95	81	8	217	26	19	14	39	1.90
1112504--1112937	46	9.6	46	90	2	415	23	20	10	45	1.82
1112648--1112937	89	3.2	89	86	3	377	22	22	11	44	1.84
1113369--1113423	20	2.8	20	91	5	85	23	20	16	40	1.91
1119377--1119940	46	12.4	45	90	1	575	23	19	10	45	1.82
1125159--1125322	34	4.9	34	80	8	149	28	17	21	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1125182--1125279	31	3.1	31	82	8	124	28	19	22	29	1.98
1126187--1126215	14	2.1	14	93	6	51	34	3	0	62	1.12
1126987--1127210	75	2.9	79	79	9	259	33	9	10	45	1.72
1130190--1130315	47	2.8	45	83	5	155	29	22	7	40	1.82
1137155--1137280	47	2.8	44	78	5	117	27	21	9	41	1.84
1146067--1146092	6	4.3	6	100	0	52	15	0	0	84	0.62
1154770--1155141	184	2.0	184	80	5	421	33	7	13	45	1.72
1155542--1155583	21	2.2	19	87	12	59	52	2	7	38	1.42
1162279--1162324	21	2.2	21	84	0	56	21	19	30	28	1.98
1163218--1163277	2	30.0	2	93	0	102	50	3	0	46	1.18
1164418--1164468	25	2.0	25	96	0	93	15	17	23	43	1.88
1165118--1165155	17	2.2	18	85	4	51	21	2	5	71	1.19
1165137--1165169	15	2.2	15	94	0	57	30	3	6	60	1.36
1167286--1167327	22	1.9	22	85	0	57	30	4	7	57	1.47
1169630--1169666	14	2.6	14	91	0	56	16	24	13	45	1.83
1169612--1169708	20	4.8	20	75	12	74	17	16	9	56	1.65
1172361--1172411	7	6.5	8	80	17	54	82	0	11	5	0.83
1172366--1172423	18	3.2	18	80	9	73	82	0	13	3	0.79
1172361--1172422	29	2.1	29	85	11	83	80	0	14	4	0.87
1172376--1172430	24	2.2	25	77	3	58	78	0	20	1	0.85
1172412--1172450	7	5.7	7	93	3	62	64	0	35	0	0.94
1174875--1175239	137	2.6	138	85	2	462	35	15	21	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1175153--1175529	124	3.0	124	87	1	522	38	15	18	26	1.91
1181355--1181648	152	1.9	155	97	2	567	24	18	22	33	1.97
1189421--1189477	29	2.0	29	92	0	96	31	36	0	31	1.58
1191578--1191615	17	2.2	18	86	9	53	21	5	2	71	1.19
1195586--1195672	34	2.6	34	90	7	149	67	0	5	26	1.12
1196092--1196144	20	2.7	19	82	5	61	37	15	30	16	1.90
1196558--1197640	55	19.9	55	79	8	995	34	17	18	28	1.95
1203635--1203686	20	2.6	19	84	6	68	30	17	32	19	1.95
1204114--1205202	55	20.0	55	80	7	998	33	17	19	29	1.95
1204114--1205186	276	3.9	275	75	11	963	33	17	19	29	1.95
1208047--1208139	44	2.1	44	88	4	134	45	7	18	29	1.76
1210113--1210141	12	2.4	12	100	0	58	24	0	13	62	1.32
1210253--1210727	111	4.3	105	74	15	358	31	4	11	53	1.56
1210461--1210727	102	2.6	101	80	13	308	29	3	10	56	1.50
1212766--1212848	27	3.1	27	82	0	94	42	15	1	40	1.55
1213816--1213867	22	2.3	23	80	9	54	32	7	3	55	1.46
1215542--1215576	17	2.1	17	100	0	70	28	40	17	14	1.88
1227129--1227158	14	2.2	14	94	5	53	30	0	6	63	1.20
1227313--1227453	18	7.9	18	72	13	112	43	6	4	46	1.49
1227313--1227443	56	2.5	51	85	6	163	44	6	3	45	1.48
1228172--1228858	112	6.1	112	93	0	1115	45	13	15	25	1.83
1228172--1228858	223	3.1	224	92	0	1133	45	13	15	25	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1228172--1228858	335	2.0	337	92	1	1155	45	13	15	25	1.83
1229544--1229616	35	2.1	35	82	5	85	34	27	27	10	1.90
1229691--1229774	23	3.6	23	84	7	98	38	21	15	25	1.92
1232230--1232283	27	2.0	28	82	17	69	24	20	35	20	1.96
1234014--1234042	15	1.9	15	100	0	58	48	27	6	17	1.72
1234159--1234476	175	1.8	173	86	7	464	44	2	6	46	1.43
1234955--1234997	17	2.4	18	88	3	61	48	4	0	46	1.22
1240269--1240306	2	19.0	2	100	0	76	50	0	0	50	1.00
1240863--1240923	29	2.1	29	90	0	95	22	11	16	49	1.78
1242671--1242713	11	3.7	11	81	6	50	76	2	18	2	1.00
1243465--1243493	3	10.0	3	92	7	51	34	0	0	65	0.93
1244162--1244196	17	2.1	17	88	0	52	20	8	2	68	1.29
1244171--1244206	17	2.1	17	89	0	54	25	8	0	66	1.19
1244702--1244769	22	3.0	22	77	14	59	47	1	0	51	1.09
1244726--1244772	22	2.1	23	88	4	69	44	2	0	53	1.12
1244762--1244815	23	2.3	23	84	6	65	55	1	1	40	1.21
1244858--1244936	27	2.9	27	71	17	74	46	1	3	48	1.28
1244896--1244984	39	2.2	42	78	15	98	50	1	3	44	1.25
1245035--1245115	28	2.7	29	83	9	92	51	2	0	45	1.14
1245045--1245114	14	5.0	14	72	5	52	52	2	0	44	1.15
1245260--1245298	19	2.0	21	90	10	64	51	5	0	43	1.24
1249455--1249512	27	2.1	27	80	0	71	58	12	0	29	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1256885--1256941	19	2.9	19	89	2	87	40	17	21	21	1.92
1257761--1257791	15	2.1	15	93	0	53	41	22	9	25	1.84
1258379--1258403	6	4.2	6	100	0	50	52	0	48	0	1.00
1260365--1260434	20	3.3	22	77	16	69	35	21	21	21	1.96
1269750--1269793	23	1.9	23	100	0	88	47	9	13	29	1.74
1271094--1271300	101	2.0	101	100	0	414	35	13	15	35	1.87
1279428--1279474	16	3.1	15	79	8	51	23	2	6	68	1.24
1282622--1282673	20	2.6	20	100	0	104	21	34	25	19	1.96
1285249--1285331	23	3.7	23	83	1	78	22	31	24	21	1.98
1285259--1285332	23	3.2	23	82	0	94	20	35	22	21	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15