genome.fa.s9643.2.7.7.80.10.50.1000.6.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   

This is table  6  of  41  ( 4862 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)
1054497--1054581	3	28.7	3	89	7	120	34	3	0	62	1.12
1054577--1054608	11	2.8	11	95	4	55	56	0	0	43	0.99
1056910--1056949	21	1.9	21	100	0	80	45	7	25	22	1.78
1056928--1056973	15	3.1	15	78	6	58	45	8	15	30	1.76
1057310--1057364	23	2.5	22	82	8	58	41	3	1	52	1.29
1057351--1057485	26	5.1	27	70	15	88	51	2	0	45	1.18
1057457--1057499	17	2.4	18	80	7	52	60	0	0	39	0.97
1057352--1057502	26	5.9	25	67	16	71	52	1	0	45	1.17
1057681--1057795	42	2.8	42	81	6	153	47	19	14	18	1.82
1066681--1066737	2	29.0	2	96	3	107	50	0	0	49	1.00
1068092--1068117	10	2.6	10	100	0	52	42	15	30	11	1.82
1069607--1069634	3	9.3	3	100	0	56	64	0	0	35	0.94
1072979--1073063	44	1.9	44	85	0	116	30	10	14	44	1.78
1075184--1075235	26	2.0	25	85	3	68	44	5	11	38	1.65
1078537--1078577	21	2.0	21	85	0	55	36	0	2	60	1.10
1079419--1079455	15	2.3	17	86	9	51	40	0	0	59	0.97
1079440--1079528	28	3.3	26	75	17	83	47	2	1	49	1.21
1079464--1079534	26	3.0	22	68	20	52	47	2	1	47	1.25
1079470--1079552	24	3.4	23	72	14	69	48	2	1	48	1.22
1082667--1082733	23	2.9	23	82	4	64	59	14	5	19	1.56
1082691--1082740	23	2.1	23	85	3	64	60	14	6	20	1.55
1083899--1084089	60	3.2	60	76	8	160	34	21	4	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1084297--1084325	15	1.9	15	100	0	58	48	27	6	17	1.72
1084469--1084730	127	2.0	127	83	5	321	42	2	8	46	1.47
1084496--1084741	127	1.9	131	89	3	392	41	2	10	46	1.49
1086901--1086965	31	2.1	31	88	5	96	30	15	23	30	1.95
1093350--1093395	23	2.0	23	100	0	92	30	8	30	30	1.87
1103275--1103370	27	3.3	29	86	5	133	14	4	20	60	1.51
1103301--1103378	27	2.8	27	90	3	120	12	5	23	58	1.54
1103516--1103616	23	4.4	23	82	5	116	23	9	16	49	1.76
1103534--1103640	23	4.7	23	80	8	96	26	8	16	48	1.75
1106378--1106414	11	3.5	11	82	17	51	35	0	0	64	0.94
1108224--1108267	21	2.0	23	86	8	65	36	18	18	27	1.94
1120152--1120186	3	11.3	3	93	6	61	0	31	0	68	0.90
1121618--1121678	27	2.3	27	94	0	104	27	19	19	32	1.96
1123934--1123967	16	2.1	16	94	0	59	32	8	26	32	1.87
1136524--1136563	21	1.9	21	89	0	62	27	15	10	47	1.77
1136558--1136656	33	3.0	33	94	1	164	32	7	15	45	1.73
1136642--1136696	13	4.2	13	75	13	58	34	3	12	49	1.59
1137092--1137147	15	3.6	15	79	9	67	32	12	12	42	1.80
1137111--1137144	18	1.9	18	94	5	61	38	11	11	38	1.79
1137238--1137269	16	2.0	17	88	11	50	43	21	21	12	1.86
1140151--1140473	103	3.1	103	95	0	576	27	13	22	36	1.92
1140482--1140549	23	3.0	23	88	0	91	22	27	25	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1142275--1142450	83	2.1	83	82	4	212	34	23	7	34	1.83
1155874--1156021	73	2.0	73	85	2	199	35	12	9	41	1.76
1170825--1170868	14	3.2	14	93	3	72	27	11	11	50	1.72
1172711--1172770	22	2.8	21	75	9	68	40	13	3	43	1.60
1177994--1178537	205	2.5	209	85	8	679	25	11	25	37	1.90
1179428--1179477	2	25.5	2	95	4	93	50	0	0	50	1.00
1185847--1185871	12	2.1	12	100	0	50	16	24	24	36	1.94
1189050--1189103	27	2.0	27	100	0	108	51	22	3	22	1.63
1192048--1192082	2	17.5	2	100	0	70	48	0	0	51	1.00
1192372--1192486	21	5.5	21	82	2	133	20	21	18	40	1.92
1192350--1192486	62	2.2	62	80	5	152	21	22	18	37	1.94
1192476--1192522	21	2.3	20	85	3	58	42	19	19	19	1.89
1193113--1193183	19	3.7	19	82	1	88	45	22	19	12	1.84
1193179--1193218	19	2.1	19	95	0	71	12	22	17	47	1.81
1194893--1195268	94	4.1	93	94	2	616	21	12	19	47	1.82
1195365--1195421	19	2.9	19	92	2	87	49	22	21	7	1.73
1195430--1195524	33	2.8	33	90	1	145	7	20	26	46	1.76
1195427--1195524	19	5.7	18	71	23	77	7	20	26	45	1.76
1195945--1196037	42	2.2	41	77	5	96	21	35	17	25	1.95
1196737--1196803	30	2.2	30	91	0	107	32	23	17	25	1.97
1196795--1196891	31	3.1	31	79	8	124	34	19	17	28	1.95
1198387--1198428	21	2.0	21	81	9	50	19	21	26	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1201715--1201781	30	2.2	30	94	0	116	32	23	19	23	1.97
1201770--1201867	31	3.2	30	78	13	117	32	18	19	29	1.96
1203378--1203419	21	2.0	21	90	0	66	16	19	28	35	1.93
1205589--1205654	19	3.7	19	75	19	70	45	22	22	9	1.80
1205664--1205757	33	2.8	33	91	0	152	12	23	18	45	1.83
1205699--1205777	19	4.4	19	72	16	69	13	21	20	44	1.86
1205730--1205823	20	4.7	20	72	13	68	21	20	23	35	1.96
1207077--1207144	24	2.8	24	81	0	82	39	20	16	23	1.91
1207993--1208059	21	3.2	21	75	12	84	38	13	25	22	1.90
1208005--1208065	20	3.0	20	72	13	70	37	14	22	24	1.92
1213305--1213329	5	5.0	5	100	0	50	0	0	20	80	0.72
1216801--1216843	16	2.7	16	88	0	59	55	2	4	37	1.33
1220676--1220732	6	9.5	6	100	0	114	33	50	15	0	1.44
1221349--1221445	20	4.8	20	82	2	122	40	23	21	14	1.90
1232135--1232184	19	2.6	20	79	17	61	50	2	0	48	1.12
1232133--1232187	27	2.0	27	82	6	67	52	1	0	45	1.11
1232839--1232920	40	2.0	40	90	0	128	30	13	15	40	1.86
1239835--1239864	14	2.1	14	93	0	51	63	16	6	13	1.50
1240203--1240271	21	3.3	21	93	0	111	17	18	31	31	1.94
1241476--1241518	23	1.9	22	86	13	61	60	0	0	39	0.97
1242128--1242216	33	2.7	32	82	8	99	77	0	6	15	0.97
1242153--1242217	9	7.7	9	72	16	50	78	0	4	16	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1242179--1242217	18	2.2	18	95	0	69	79	0	7	12	0.93
1242154--1242218	8	7.9	8	75	13	60	76	0	4	18	0.95
1242128--1242231	40	2.5	42	81	7	113	76	0	7	15	0.99
1242272--1242322	16	3.3	15	81	13	50	70	5	1	21	1.18
1243116--1243264	41	3.7	41	75	19	136	47	6	2	44	1.39
1243233--1243295	28	2.2	28	94	0	108	46	9	1	42	1.46
1243126--1243267	76	1.8	78	85	5	191	47	5	2	44	1.38
1243261--1243521	37	7.4	36	75	15	181	44	8	3	43	1.51
1243192--1243397	65	3.1	66	82	8	224	44	7	4	44	1.51
1243310--1243376	26	2.5	27	85	7	100	41	5	7	44	1.57
1243143--1243451	102	3.0	99	78	11	324	44	6	3	44	1.47
1243338--1243523	36	5.0	38	87	10	228	45	8	2	43	1.48
1243359--1243548	37	5.3	36	83	12	180	45	8	2	43	1.46
1243358--1243550	36	5.3	35	83	11	166	45	8	2	44	1.45
1244381--1244848	137	3.4	135	80	9	488	42	12	13	31	1.81
1246130--1246188	27	2.1	29	90	6	95	49	0	0	50	1.00
1248663--1248708	24	1.9	24	86	8	67	30	0	4	65	1.12
1248686--1248719	17	2.0	17	94	0	59	38	0	5	55	1.24
1248684--1248731	17	2.5	19	77	19	55	35	2	6	56	1.36
1250003--1250048	23	2.0	23	82	0	56	30	28	23	17	1.97
1250366--1250433	25	2.8	24	82	10	75	42	8	11	36	1.73
1251307--1251339	3	10.7	3	93	6	57	66	0	33	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1251845--1252535	351	2.0	351	93	1	1188	28	13	22	36	1.92
1252665--1252697	10	3.3	10	100	0	66	9	18	39	33	1.82
1252945--1252995	24	2.1	24	85	7	68	17	35	21	25	1.95
1256386--1256759	185	2.0	185	94	0	649	28	17	21	32	1.96
1259751--1259947	108	1.9	103	83	11	256	27	10	17	44	1.82
1260396--1260978	291	2.0	288	88	3	875	29	16	20	32	1.95
1265198--1265263	27	2.5	27	95	4	118	39	16	12	31	1.85
1265761--1265792	7	4.6	7	100	0	64	0	28	12	59	1.34
1271889--1272013	64	1.9	66	90	6	202	27	20	16	35	1.94
1271889--1272049	64	2.5	63	84	5	198	27	21	17	33	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41