genome.fa.s8702.2.7.7.80.10.50.1000.6.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: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3201804

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

This is table  6  of  14  ( 1641 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)
1092973--1093020	23	2.0	24	84	11	64	70	0	2	27	0.98
1098536--1098569	5	6.4	5	96	3	50	76	0	0	23	0.79
1099746--1099773	14	2.0	14	100	0	56	71	0	0	28	0.86
1099783--1099819	2	18.5	2	100	0	74	48	0	0	51	1.00
1100053--1100229	84	2.1	84	82	0	210	23	18	26	31	1.97
1100226--1100376	33	4.6	33	90	4	234	31	9	17	41	1.81
1100362--1100527	37	4.8	34	75	17	128	39	12	21	27	1.89
1100455--1100515	17	3.4	17	70	26	54	44	9	19	26	1.82
1100429--1100536	37	2.9	37	91	1	173	43	12	19	24	1.86
1100429--1100567	73	1.9	73	83	4	181	42	12	20	24	1.86
1100586--1100654	36	1.9	36	96	0	129	36	14	23	26	1.93
1105192--1105234	23	1.9	23	86	13	63	72	0	9	18	1.11
1105221--1105249	14	2.1	14	93	6	51	75	0	0	24	0.80
1106411--1106474	3	21.3	3	75	12	51	62	0	1	35	1.05
1106428--1106456	14	2.1	14	100	0	58	72	0	0	27	0.85
1106724--1106898	84	2.1	84	85	2	235	21	19	26	33	1.97
1106886--1107046	33	4.9	33	85	3	218	30	9	19	40	1.83
1106886--1107046	67	2.4	66	85	6	211	30	9	19	40	1.83
1107032--1107198	37	4.7	38	77	15	155	38	14	19	26	1.90
1107099--1107236	36	3.8	37	86	1	181	42	13	18	25	1.86
1107099--1107236	73	1.9	73	86	3	197	42	13	18	25	1.86
1107255--1107323	36	1.9	36	96	0	129	34	14	24	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1107417--1107891	124	3.8	122	71	12	379	25	18	22	32	1.97
1114458--1114505	25	1.9	25	83	8	62	41	4	4	50	1.41
1115143--1115267	59	2.1	59	86	5	173	48	9	4	38	1.55
1117309--1117365	19	3.0	19	75	14	55	73	1	5	19	1.11
1117299--1117358	11	5.4	11	74	16	52	75	1	5	18	1.07
1117408--1117496	33	2.7	33	76	10	83	73	3	10	13	1.22
1120755--1121042	81	3.6	81	85	1	375	26	18	23	31	1.98
1121187--1121657	36	13.3	36	73	16	342	41	13	18	26	1.87
1121383--1121505	42	3.1	41	88	6	173	46	15	17	20	1.84
1121129--1121647	180	2.9	173	83	8	638	41	12	18	26	1.87
1122959--1123141	95	1.9	95	86	6	264	31	20	18	30	1.96
1124810--1124858	10	4.8	11	78	16	61	16	18	26	38	1.91
1124811--1124865	9	5.6	10	79	12	69	14	20	29	36	1.92
1132024--1132078	9	5.6	10	70	12	51	14	23	29	32	1.94
1132091--1132140	18	2.8	18	87	0	73	18	46	20	16	1.85
1132143--1132207	29	2.2	29	88	0	94	21	10	29	38	1.87
1135323--1135360	16	2.4	16	82	8	51	81	2	2	13	0.90
1135441--1135519	12	6.4	12	70	4	50	70	2	2	24	1.11
1135939--1135963	2	12.5	2	100	0	50	52	0	0	48	1.00
1141125--1141194	34	2.1	33	84	7	88	61	12	11	14	1.57
1158050--1158089	21	1.9	21	90	10	64	32	7	5	55	1.50
1158060--1158102	21	2.0	21	82	8	52	37	4	6	51	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1160058--1160096	21	1.9	21	94	5	71	10	25	35	28	1.89
1162731--1162766	3	12.0	3	100	0	72	33	0	0	66	0.92
1177643--1177680	15	2.5	15	91	0	58	39	36	2	21	1.67
1180365--1180482	60	2.0	60	83	6	150	48	11	5	35	1.61
1184979--1185024	15	3.0	15	84	12	58	47	0	0	52	1.00
1184987--1185033	19	2.3	21	82	10	62	42	0	0	57	0.98
1185004--1185051	24	2.0	25	84	12	64	43	0	0	56	0.99
1186852--1186889	3	12.3	3	94	5	67	31	0	0	68	0.90
1186854--1186886	16	2.1	16	100	0	66	30	0	0	69	0.88
1186852--1186890	19	2.1	19	100	0	78	30	0	0	69	0.89
1189970--1190100	60	2.2	60	78	9	151	36	17	13	32	1.89
1192847--1192893	25	1.9	24	83	12	60	74	2	8	14	1.15
1192873--1192927	23	2.2	26	84	12	71	76	3	7	12	1.12
1192853--1192925	29	2.4	29	80	13	78	76	2	8	12	1.10
1195012--1195051	20	2.0	20	100	0	80	20	25	10	45	1.81
1195043--1195088	20	2.2	22	77	14	53	28	17	17	36	1.92
1195877--1195908	15	2.2	15	94	5	57	12	12	0	75	1.06
1196688--1196769	12	6.8	12	81	2	56	51	17	13	18	1.77
1196686--1196769	24	3.5	24	80	1	96	51	16	13	19	1.77
1199249--1199282	15	2.1	16	89	10	52	23	26	35	14	1.94
1210534--1210602	8	7.9	8	73	20	50	76	2	2	17	1.03
1210530--1210594	13	4.9	13	78	16	62	76	3	1	18	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1210530--1210602	22	3.3	20	78	14	74	76	2	2	17	1.02
1210547--1210602	23	2.5	23	80	11	64	76	1	3	17	1.01
1210618--1210663	21	2.2	21	84	7	58	78	0	2	19	0.86
1210627--1210663	14	2.6	14	86	4	56	75	0	0	24	0.80
1212946--1213023	40	2.0	39	89	2	120	41	6	15	37	1.73
1214346--1214465	15	8.5	13	66	19	53	73	2	3	20	1.10
1215833--1215888	14	4.1	13	76	17	51	64	1	0	33	1.04
1215832--1215876	19	2.3	20	85	14	67	66	0	0	33	0.92
1215902--1215945	22	2.0	22	90	0	70	36	9	4	50	1.55
1215944--1216145	35	5.9	35	82	6	225	41	8	3	46	1.53
1215960--1216145	100	1.8	102	87	3	277	40	9	4	45	1.55
1221803--1221841	20	2.0	20	89	0	60	33	10	23	33	1.88
1235670--1235753	34	2.4	34	77	13	82	64	0	8	27	1.22
1236432--1236479	4	11.2	4	81	16	53	75	0	2	22	0.91
1236431--1236479	13	3.8	13	89	7	73	75	0	2	22	0.90
1236512--1236556	22	2.0	22	86	0	63	37	6	4	51	1.49
1236532--1236794	35	7.5	35	82	4	289	42	9	3	44	1.55
1236544--1236794	105	2.4	105	89	4	371	43	9	3	43	1.53
1243405--1243449	18	2.6	18	83	13	51	13	13	0	73	1.10
1249548--1249627	40	2.0	41	87	2	117	41	5	15	38	1.68
1251697--1252235	268	2.0	267	89	1	819	32	14	17	35	1.89
1253321--1253393	30	2.5	31	80	13	82	41	9	17	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1254564--1254613	24	2.1	24	96	0	91	34	6	12	48	1.65
1262717--1262749	16	2.1	16	88	5	50	66	0	3	30	1.06
1264969--1265012	14	3.1	15	83	6	56	47	0	2	50	1.13
1273885--1273960	23	3.4	23	67	20	70	34	23	19	22	1.97
1273875--1273977	44	2.3	44	86	0	143	33	19	21	26	1.97
1284153--1284191	2	19.5	2	94	0	69	48	2	0	48	1.15
1285481--1285536	14	3.9	14	83	4	76	42	3	21	32	1.70
1285481--1285537	29	2.0	29	100	0	114	43	3	21	31	1.69
1285724--1285779	27	2.0	27	86	10	78	39	3	0	57	1.16
1285725--1285830	48	2.1	47	78	10	113	45	1	0	51	1.18
1285960--1286006	22	2.1	23	92	4	78	55	0	0	44	0.99
1285967--1286023	22	2.6	22	81	10	64	54	0	0	45	0.99
1291370--1291424	10	5.7	10	76	8	51	16	21	32	29	1.95
1291370--1291426	19	3.0	19	81	0	69	15	24	31	28	1.96
1291460--1291703	29	8.4	29	90	0	348	31	3	19	45	1.66
1291612--1291719	29	3.7	29	90	2	101	34	2	18	44	1.64
1293214--1293252	2	19.5	2	100	0	78	51	0	0	48	1.00
1294019--1294133	24	4.8	24	86	6	135	42	18	15	23	1.88
1294051--1294151	48	2.1	48	83	3	123	42	18	14	23	1.88
1294345--1294373	15	1.9	15	100	0	58	34	13	20	31	1.92
1296605--1296642	13	2.9	13	84	0	58	15	21	44	18	1.86
1303250--1303373	29	4.3	29	91	0	176	33	1	17	47	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1304792--1304844	2	26.5	2	96	0	97	49	0	0	50	1.00
1305296--1305347	27	2.0	25	85	7	68	42	7	3	46	1.51
1317956--1317980	13	1.9	13	100	0	50	76	0	16	8	1.02
1320972--1321042	24	3.0	24	87	0	97	19	9	30	39	1.84
1324159--1324330	45	3.8	45	86	0	236	30	19	9	40	1.83
1324170--1324369	90	2.2	90	81	1	231	31	21	9	38	1.85
1324333--1324537	79	2.6	79	88	1	304	28	23	12	35	1.91
1324831--1324870	22	2.0	21	85	14	57	27	25	17	30	1.97
1328678--1328704	2	13.5	2	100	0	54	48	0	0	51	1.00
1329208--1329378	45	3.8	45	81	3	182	30	18	9	40	1.84

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