genome.fa.s8424.2.7.7.80.10.50.1000.5.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  5  of  16  ( 1819 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)
997506--997701	81	2.4	80	81	2	241	39	10	20	29	1.87
997040--997903	297	2.9	298	87	2	1234	33	13	22	30	1.92
997648--997809	68	2.4	68	86	0	225	30	14	24	30	1.95
997660--997852	68	2.8	67	84	1	224	32	13	23	30	1.94
1001481--1001551	37	2.0	35	83	10	90	54	1	26	16	1.50
1001465--1001551	35	2.4	36	80	14	92	57	1	25	16	1.46
1003645--1003688	18	2.4	18	100	0	88	29	36	13	20	1.91
1012898--1012942	16	2.8	16	86	3	63	11	15	40	33	1.83
1026229--1026368	31	4.5	31	88	0	199	34	15	27	23	1.94
1031373--1031480	50	2.2	50	100	0	216	25	21	26	26	1.99
1036258--1036364	51	2.1	51	91	0	169	27	10	21	41	1.85
1037831--1037906	6	12.7	6	98	0	134	36	28	0	34	1.58
1041864--1042041	90	2.0	90	94	0	311	44	5	11	38	1.65
1047698--1047768	31	2.3	31	97	0	133	19	26	33	19	1.96
1049561--1049627	28	2.6	25	78	17	68	47	2	2	46	1.33
1049619--1049648	14	2.1	15	93	6	53	46	0	20	33	1.51
1050892--1050927	18	2.1	18	89	5	56	72	2	0	25	0.98
1052247--1052296	20	2.6	19	81	6	57	38	0	2	60	1.09
1052281--1052392	14	7.4	15	81	14	108	58	0	1	39	1.08
1052290--1052391	3	35.7	3	82	9	133	60	0	1	37	1.08
1052692--1053463	113	6.9	113	95	1	1348	30	18	13	37	1.90
1052692--1053463	335	2.3	337	95	1	1367	30	18	13	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1054097--1054300	83	2.5	83	90	3	304	37	22	14	25	1.92
1054244--1054508	52	5.1	52	100	0	530	36	23	15	25	1.94
1055652--1055751	1	100.0	1	77	0	83	0	13	0	87	0.56
1055653--1055744	11	8.6	10	83	16	98	0	13	0	86	0.56
1055650--1055737	22	3.9	23	84	10	110	0	14	0	85	0.60
1055653--1055754	7	14.3	7	81	15	104	0	13	0	86	0.58
1055653--1055751	42	2.3	42	89	6	146	0	13	0	86	0.56
1055650--1055752	34	3.0	34	82	10	131	0	15	0	84	0.62
1067163--1067198	19	1.9	19	94	5	65	72	5	0	22	1.05
1068520--1068576	20	2.9	20	84	2	62	33	0	1	64	1.04
1068575--1068672	3	32.7	3	89	4	153	63	0	3	33	1.10
1070260--1070613	184	1.9	185	92	2	597	45	10	3	40	1.56
1072664--1073181	91	5.7	91	92	0	849	25	22	15	37	1.93
1072857--1072898	22	2.0	21	86	13	59	19	28	9	42	1.82
1073130--1073195	21	3.3	21	67	26	61	18	27	9	45	1.79
1073123--1073220	39	2.5	39	94	0	169	20	22	11	45	1.82
1073668--1073935	66	4.1	66	73	17	195	40	15	19	24	1.90
1073665--1073819	66	2.3	66	83	7	199	39	14	21	23	1.91
1073909--1074017	36	3.0	37	87	5	150	42	11	16	30	1.83
1074054--1074335	90	3.1	90	93	2	469	34	22	17	25	1.96
1074253--1074747	81	5.9	81	85	9	677	34	21	18	24	1.96
1074054--1074747	171	4.0	171	92	2	1104	34	21	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1074334--1074505	90	1.9	89	93	1	299	32	21	19	26	1.97
1074504--1074676	90	1.9	90	93	0	301	33	21	18	26	1.96
1074054--1074747	341	2.0	346	91	3	1121	34	21	18	25	1.96
1076847--1076900	19	3.3	19	62	37	52	48	5	3	42	1.44
1076848--1076920	30	2.5	30	93	4	123	49	6	2	41	1.44
1082895--1082934	21	1.9	21	89	0	62	25	40	25	10	1.86
1085440--1085511	30	2.5	30	93	4	121	47	8	4	40	1.53
1086331--1086376	7	6.4	7	80	5	56	4	15	0	80	0.86
1086306--1086370	22	3.0	23	82	8	73	10	10	0	78	0.97
1086608--1086635	2	14.0	2	100	0	56	50	0	0	50	1.00
1090328--1090382	21	2.6	21	75	13	60	60	5	7	27	1.46
1093323--1093370	23	2.0	24	84	11	64	66	4	0	29	1.10
1097422--1097513	36	2.6	35	70	15	89	30	17	16	35	1.92
1105415--1105579	72	2.3	72	85	5	210	26	16	18	37	1.93
1105414--1105577	35	4.6	36	76	6	165	26	17	18	37	1.93
1109584--1109739	65	2.4	64	84	3	188	35	17	19	27	1.94
1110613--1110670	31	1.9	31	82	6	75	15	18	10	55	1.68
1111341--1111380	21	1.9	21	85	10	55	35	15	10	40	1.80
1112623--1112680	23	2.5	23	77	0	62	74	3	12	10	1.19
1112654--1112763	32	3.6	30	75	16	100	79	1	12	6	1.00
1112700--1112726	10	2.7	10	100	0	54	85	0	0	14	0.61
1112719--1112784	30	2.2	29	78	7	71	78	0	18	3	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112721--1112784	13	4.8	13	70	16	51	78	0	18	3	0.89
1112682--1112768	28	3.0	28	80	11	79	79	1	13	5	0.97
1114922--1114967	20	2.3	20	100	0	92	30	30	19	19	1.97
1115029--1115316	132	2.2	132	83	0	360	32	21	16	29	1.95
1115221--1115307	44	2.0	44	86	0	120	32	21	19	26	1.97
1115089--1115499	176	2.3	175	81	4	441	32	19	18	28	1.96
1115233--1115349	44	2.7	44	83	2	137	32	21	16	29	1.95
1116653--1116743	27	3.4	28	72	17	77	25	8	7	58	1.55
1122598--1122633	11	3.2	11	88	4	54	16	2	5	75	1.12
1123685--1123783	22	4.5	22	71	7	76	39	18	6	36	1.75
1125098--1125127	14	2.1	14	100	0	60	40	6	0	53	1.27
1126425--1126689	93	2.8	92	81	11	324	31	6	6	54	1.53
1126673--1126705	12	2.5	13	85	14	50	42	0	3	54	1.15
1126666--1126732	26	2.6	24	76	19	64	37	2	2	56	1.30
1126717--1126765	12	3.8	13	79	17	50	26	0	6	67	1.14
1135798--1135903	53	2.1	50	92	5	176	42	20	15	21	1.89
1139816--1139932	53	2.2	52	80	5	121	52	20	7	18	1.69
1139870--1140001	64	2.0	65	88	1	194	54	19	5	20	1.63
1150925--1150968	19	2.3	19	88	0	61	27	31	22	18	1.97
1151005--1151041	19	1.9	19	88	0	56	18	32	27	21	1.97
1157404--1157443	17	2.3	18	95	4	73	12	50	27	10	1.72
1157411--1157454	18	2.5	18	85	3	54	15	47	25	11	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1157453--1157533	28	2.9	28	80	14	94	34	4	20	39	1.75
1157449--1157552	29	3.6	29	81	11	133	32	4	23	39	1.76
1164792--1164837	19	2.4	19	96	0	83	21	34	23	19	1.96
1164859--1164902	18	2.5	18	88	3	63	20	45	22	11	1.83
1164898--1165002	29	3.6	29	81	3	122	32	6	22	38	1.80
1168004--1168057	2	27.0	2	100	0	108	50	0	0	50	1.00
1173795--1173932	55	2.5	55	84	0	177	36	15	17	31	1.91
1176016--1176072	27	2.0	27	86	10	78	19	22	0	57	1.40
1180410--1180505	50	1.9	50	82	0	120	32	23	22	20	1.98
1187603--1187737	55	2.5	55	82	2	155	36	18	16	28	1.93
1192030--1192074	22	2.1	21	84	12	56	20	2	35	42	1.64
1197300--1197340	15	2.7	15	96	3	73	26	26	17	29	1.97
1205000--1205044	22	2.1	21	84	12	56	17	2	35	44	1.62
1206669--1206701	15	2.1	16	88	5	50	57	21	0	21	1.41
1214860--1214977	53	2.2	53	84	3	148	33	5	16	44	1.70
1220266--1220365	7	14.9	7	73	12	75	2	13	4	81	0.93
1220266--1220371	23	5.1	21	72	14	76	1	13	3	81	0.92
1220255--1220307	23	2.2	24	86	3	72	1	7	9	81	0.96
1220266--1220371	13	7.8	13	74	11	79	1	13	3	81	0.92
1224176--1224290	51	2.3	51	83	10	139	59	11	12	17	1.61
1229709--1230165	20	19.6	20	65	25	88	41	15	22	20	1.89
1229729--1229836	47	2.3	48	96	1	200	41	15	24	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1229749--1230052	75	4.2	74	70	18	251	42	16	22	19	1.89
1229824--1230175	47	7.5	47	92	1	562	42	15	22	20	1.89
1229749--1230005	27	10.5	26	67	23	141	42	16	22	19	1.89
1230059--1230146	27	3.5	27	67	20	82	42	14	22	20	1.89
1231095--1231152	8	7.2	8	77	12	57	65	3	1	29	1.19
1231128--1231192	15	4.3	15	70	5	51	63	3	1	32	1.19
1231276--1231326	2	26.5	2	88	7	79	50	1	0	47	1.12
1231757--1231807	21	2.4	22	72	21	54	29	3	3	62	1.31
1231964--1232009	21	2.2	21	88	0	65	34	36	10	17	1.85
1231974--1232022	21	2.3	21	89	0	71	36	30	12	20	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16