genome.fa.s8920.2.7.7.80.10.50.1000.4.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: VEPZ01008920.1 Hibiscus syriacus cultivar Beakdansim tig00112224_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1287743

Tables:   1   2   3   4   

This is table  4  of  4  ( 465 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)
981400--981426	2	13.5	2	100	0	54	51	0	0	48	1.00
983748--983815	2	34.0	2	100	0	136	50	0	0	50	1.00
983957--983993	2	19.0	2	94	5	67	51	0	0	48	1.00
984148--984180	2	16.5	2	100	0	66	48	0	0	51	1.00
985371--985412	21	2.0	21	100	0	84	33	9	33	23	1.87
986790--987063	43	6.4	43	78	8	245	25	20	5	47	1.72
986836--987099	130	2.0	130	82	7	313	25	19	5	50	1.68
991901--991974	19	3.7	19	73	18	60	35	16	21	27	1.94
991901--991974	22	3.6	21	77	8	73	35	16	21	27	1.94
992452--992715	20	11.7	20	68	21	132	42	12	22	22	1.87
992446--992746	46	6.5	46	90	0	451	42	11	21	24	1.86
995746--995826	34	2.3	36	87	6	112	32	4	2	60	1.31
995749--995805	17	3.4	17	77	0	69	36	3	1	57	1.26
996083--996399	173	1.9	174	82	6	416	50	9	10	30	1.68
1001758--1001839	35	2.3	37	87	4	114	31	4	3	59	1.36
1015267--1015334	23	3.0	23	86	2	93	17	25	30	26	1.97
1015302--1015350	22	2.2	23	85	3	64	22	30	20	26	1.98
1021108--1021158	20	2.6	20	90	3	86	15	29	35	19	1.93
1022387--1022439	20	2.6	21	85	11	74	28	11	20	39	1.87
1023391--1023439	26	1.9	25	88	12	73	14	8	6	71	1.29
1023391--1023441	13	3.9	14	78	14	56	17	7	5	68	1.34
1030540--1030595	19	2.8	20	86	5	78	41	10	12	35	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042048--1042080	15	2.2	15	100	0	66	30	24	0	45	1.53
1044082--1044315	64	3.7	64	89	2	355	36	24	16	22	1.94
1046281--1046306	12	2.2	12	100	0	52	69	23	0	7	1.14
1046354--1046396	14	3.0	14	86	3	50	62	0	2	34	1.08
1046488--1046533	23	2.0	22	84	12	58	63	0	8	28	1.24
1046488--1046533	24	2.0	21	84	12	56	63	0	8	28	1.24
1046784--1046850	29	2.3	29	100	0	134	40	14	0	44	1.46
1046784--1046861	29	2.7	29	92	2	104	35	14	2	47	1.58
1047730--1047994	143	1.9	143	86	0	386	31	20	21	27	1.97
1050545--1050578	16	2.1	16	89	10	52	29	0	0	70	0.87
1054839--1054878	20	2.0	21	85	5	55	32	0	30	37	1.58
1057758--1057782	11	2.3	11	100	0	50	40	8	36	16	1.77
1060925--1061106	90	2.0	91	88	1	267	21	27	23	28	1.99
1061939--1061981	22	2.0	22	85	0	59	34	6	13	44	1.72
1062139--1062275	70	2.0	70	88	2	204	27	13	24	35	1.93
1065860--1065951	31	3.0	29	81	9	112	38	7	19	34	1.80
1071354--1071388	13	2.6	14	86	13	56	42	5	14	37	1.69
1071634--1071664	2	15.5	2	100	0	62	51	0	0	48	1.00
1105344--1105378	13	2.8	12	87	8	52	51	0	22	25	1.48
1111209--1111243	12	2.8	13	87	12	56	22	0	2	74	0.95
1114049--1114094	21	2.2	21	88	7	67	45	4	0	50	1.21
1114091--1114144	26	2.0	27	85	3	74	44	3	5	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1115138--1115314	30	5.9	29	73	12	99	61	9	9	20	1.52
1117050--1117907	128	6.7	128	80	2	818	27	17	27	27	1.97
1117050--1117904	255	3.4	256	80	2	864	27	17	27	27	1.97
1117047--1117907	383	2.2	380	82	5	995	27	17	27	27	1.97
1120590--1120629	8	5.1	8	93	6	73	52	12	22	12	1.72
1120590--1120642	16	3.7	15	85	14	76	50	13	22	13	1.75
1122727--1122833	30	3.5	29	68	15	81	63	8	8	19	1.48
1127403--1129842	948	2.7	930	84	6	3081	33	10	18	37	1.85
1134424--1134590	84	2.0	84	90	0	262	28	10	22	38	1.87
1140143--1140236	46	2.0	46	91	0	152	32	19	18	29	1.95
1140993--1141066	29	2.5	29	82	2	85	31	14	8	45	1.74
1146691--1146733	22	2.0	20	82	8	50	39	2	18	39	1.64
1153783--1153810	14	2.0	14	100	0	56	42	0	7	50	1.30
1158744--1158770	14	1.9	14	100	0	54	22	18	22	37	1.95
1160734--1160852	48	2.4	50	80	8	154	27	19	15	37	1.91
1165532--1165572	21	2.0	21	95	0	73	48	17	14	19	1.81
1167566--1167664	49	2.0	48	90	1	153	25	23	15	36	1.93
1168293--1168348	21	2.7	21	94	0	103	33	17	14	33	1.90
1171143--1171223	40	2.0	40	100	0	162	37	7	17	38	1.78
1172130--1172163	17	2.0	17	94	0	59	67	0	0	32	0.91
1172769--1172811	22	2.0	22	95	0	77	27	4	0	67	1.10
1172772--1172812	12	3.6	12	74	12	50	29	4	0	65	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1180624--1180670	22	2.1	23	81	18	55	53	8	2	36	1.44
1185483--1185528	16	2.9	16	83	0	65	47	32	15	4	1.65
1185518--1185558	17	2.5	17	88	4	57	46	24	17	12	1.82
1185539--1185603	33	2.0	33	93	0	112	52	26	10	10	1.69
1185653--1185685	15	2.1	16	94	5	59	45	30	12	12	1.78
1190256--1190331	20	3.8	20	80	3	80	30	17	17	35	1.92
1191416--1191532	47	2.5	47	83	8	141	42	20	10	26	1.84
1232984--1233038	24	2.3	24	83	0	65	40	18	23	18	1.91
1233025--1233151	24	5.3	24	70	5	78	43	12	19	24	1.86
1244001--1244208	41	5.1	41	73	9	145	32	11	18	38	1.86
1244057--1244265	82	2.6	82	81	8	229	31	11	21	35	1.90
1244076--1244226	41	3.7	41	75	7	146	31	11	21	35	1.89
1251110--1251170	24	2.5	24	91	0	95	40	3	13	42	1.60
1252856--1253078	82	2.7	82	82	0	266	31	13	21	34	1.91
1252801--1253068	41	6.5	41	76	3	189	31	11	20	36	1.89
1259776--1259846	20	3.5	20	100	0	142	19	23	11	45	1.83
1261323--1261366	19	2.5	18	82	13	56	63	0	2	34	1.07
1261319--1261366	18	2.6	17	78	12	51	62	0	2	35	1.07
1261443--1261476	16	2.0	16	88	11	50	79	0	0	20	0.73
1261830--1261857	13	2.2	13	100	0	56	64	0	0	35	0.94
1261926--1261960	6	5.5	6	87	12	52	85	0	0	14	0.59
1261930--1261975	14	3.1	14	90	6	65	80	2	2	15	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1263140--1263179	20	2.1	19	90	4	62	60	2	0	37	1.11
1263462--1263505	3	13.7	3	86	13	61	0	31	0	68	0.90
1263458--1263505	13	3.8	13	82	17	57	0	31	0	68	0.90
1263459--1263504	10	4.5	10	97	2	83	0	30	0	69	0.89
1264528--1264587	31	2.0	30	93	3	102	36	1	25	36	1.66
1264819--1264869	23	2.2	23	89	0	75	17	23	29	29	1.97
1265542--1265602	22	2.7	22	82	12	70	42	9	1	45	1.47
1272410--1272443	15	2.3	15	94	0	59	20	8	20	50	1.75
1275152--1275200	22	2.2	22	100	0	98	8	28	14	48	1.72
1279510--1279911	81	5.0	81	89	3	535	35	10	22	31	1.89
1279510--1279911	161	2.5	162	88	3	562	35	10	22	31	1.89
1279925--1280194	45	6.0	45	86	1	371	41	11	22	24	1.87
1279967--1280224	135	1.9	133	84	7	324	44	11	20	23	1.83
1285510--1285777	45	6.0	45	85	3	353	24	22	11	41	1.87
1285510--1285777	89	3.0	89	83	5	326	24	22	11	41	1.87
1285510--1285777	134	2.0	134	86	4	380	24	22	11	41	1.87
1285790--1286187	80	5.0	80	86	5	477	30	22	11	35	1.89

Tables:   1   2   3   4

The End!