genome.fa.s8124.2.7.7.80.10.50.1000.6.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  6  of  19  ( 2165 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)
981415--981468	22	2.5	21	85	8	65	37	14	16	31	1.89
982772--982810	19	2.1	19	95	0	69	48	23	12	15	1.79
987417--987469	21	2.5	21	96	0	97	28	15	20	35	1.93
989056--989100	21	2.1	21	87	0	63	31	28	24	15	1.96
990132--990259	31	4.1	31	80	9	152	26	18	21	33	1.96
990218--990314	30	3.2	30	88	1	113	22	20	24	31	1.98
990245--990317	30	2.4	30	95	0	128	24	20	24	30	1.99
993234--993278	21	2.1	21	87	0	63	31	28	24	15	1.96
994461--994587	31	4.1	31	82	8	159	26	18	21	33	1.97
994463--994590	62	2.1	61	88	5	195	27	20	20	32	1.97
994546--994642	30	3.2	30	88	1	113	22	20	24	31	1.98
994573--994645	30	2.4	30	95	0	128	24	20	24	30	1.99
996340--996475	60	2.3	60	96	0	245	41	9	12	36	1.76
999350--999530	60	3.0	60	81	7	167	44	4	18	32	1.71
1000327--1000439	57	2.0	58	85	1	156	42	30	9	17	1.82
1000389--1000480	48	1.9	48	93	2	159	44	25	10	19	1.83
1000509--1000548	15	2.6	15	96	4	71	57	17	0	25	1.40
1010741--1010779	18	2.1	19	85	4	53	48	2	0	48	1.15
1011258--1011290	14	2.3	15	90	10	52	69	9	0	21	1.15
1011320--1011461	39	3.6	39	76	10	144	40	12	5	41	1.67
1011502--1011625	39	3.2	38	76	11	135	45	11	5	37	1.64
1011506--1011755	130	1.9	131	82	7	312	44	11	6	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1011641--1011755	39	2.9	39	80	5	126	44	10	6	38	1.66
1011710--1011877	39	4.4	38	70	17	107	44	16	2	37	1.60
1011901--1012225	39	8.3	39	80	6	311	47	10	5	36	1.62
1011902--1012224	79	4.1	78	79	8	336	47	10	5	36	1.61
1011901--1012224	118	2.8	117	79	7	368	47	10	5	36	1.62
1012231--1012318	39	2.3	38	88	7	124	45	11	5	37	1.64
1012397--1012615	58	3.7	58	80	8	248	39	13	9	37	1.77
1013073--1013105	2	16.5	2	100	0	66	51	0	0	48	1.00
1040345--1040413	15	4.6	15	96	0	129	49	5	33	11	1.63
1044429--1044461	15	2.1	17	88	11	52	42	0	3	54	1.15
1044591--1044649	28	2.1	28	84	6	75	32	0	5	62	1.17
1046180--1046227	21	2.3	21	85	0	60	25	39	12	22	1.89
1046231--1046324	21	4.5	21	92	5	145	18	34	27	20	1.95
1046846--1046942	33	2.9	34	85	3	133	55	4	3	37	1.35
1046844--1046949	34	3.2	33	82	8	133	54	4	2	37	1.36
1047335--1048216	128	6.9	128	93	1	1513	31	19	24	23	1.98
1048287--1048327	8	5.2	8	82	5	57	36	29	0	34	1.58
1066629--1066668	20	2.0	20	85	4	55	70	2	5	22	1.19
1068610--1068647	20	1.9	20	94	0	67	31	34	15	18	1.92
1068667--1068756	45	2.0	46	93	2	155	28	26	17	26	1.98
1068610--1068819	111	1.9	109	85	8	291	30	25	16	28	1.96
1068795--1068833	19	2.1	19	85	0	51	30	25	25	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075312--1075365	23	2.3	23	100	0	108	25	38	5	29	1.79
1076179--1076222	21	2.1	21	86	0	61	9	40	13	36	1.76
1084137--1084205	23	3.0	23	80	0	84	30	23	26	20	1.98
1093793--1094116	168	1.9	169	84	4	431	35	27	15	21	1.94
1096257--1096307	22	2.3	22	89	0	75	9	11	27	50	1.70
1096257--1096318	22	2.8	21	83	9	70	9	11	27	51	1.69
1096746--1096794	23	2.0	25	88	11	75	40	10	12	36	1.77
1098070--1098129	16	3.8	16	71	4	50	21	13	26	38	1.90
1101449--1101506	24	2.4	24	88	0	89	58	18	12	10	1.61
1101469--1101535	34	2.0	34	85	5	91	58	17	13	10	1.63
1101452--1101535	14	5.9	14	67	25	50	58	19	13	9	1.62
1101721--1101756	10	3.6	10	96	0	63	58	8	11	22	1.59
1103401--1103435	17	2.0	18	94	5	63	68	0	31	0	0.90
1114203--1114358	31	5.0	31	92	1	251	19	18	23	39	1.93
1116912--1117064	55	2.8	55	84	0	198	36	22	16	24	1.94
1116877--1117264	200	1.9	199	83	3	503	35	20	17	26	1.95
1117106--1117308	55	3.7	55	80	0	226	36	21	14	26	1.92
1117113--1117311	110	1.8	110	86	0	290	37	20	15	26	1.93
1117332--1117736	99	4.1	100	77	7	400	33	20	19	26	1.96
1117853--1117907	3	18.0	3	96	3	101	32	0	0	67	0.91
1121603--1121678	24	3.2	24	79	3	64	48	18	11	21	1.79
1121620--1121739	48	2.5	48	83	5	161	42	18	14	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1121620--1121735	24	4.8	24	83	6	137	42	18	14	25	1.88
1124268--1124309	13	3.2	13	89	0	66	19	19	45	16	1.86
1125853--1125929	31	2.5	31	82	0	100	28	11	11	48	1.75
1127480--1127560	14	6.1	14	76	16	55	13	11	19	55	1.68
1127494--1127520	10	2.7	10	100	0	54	18	11	11	59	1.60
1127480--1127561	24	3.3	23	73	18	74	13	10	19	56	1.67
1127507--1127560	28	1.9	28	88	0	81	11	12	22	53	1.70
1127729--1127767	10	3.9	10	86	0	60	17	12	10	58	1.61
1127729--1127766	20	1.9	20	94	0	67	18	13	10	57	1.63
1127748--1127797	23	2.1	24	85	3	66	14	8	16	62	1.54
1127781--1127815	14	2.5	14	100	0	70	5	0	22	71	1.07
1127799--1127850	23	2.2	24	89	3	79	9	7	21	61	1.51
1127758--1127876	61	2.0	61	81	0	139	10	10	19	60	1.56
1128954--1129068	42	2.7	42	98	0	221	16	19	20	44	1.87
1129263--1129312	23	2.3	22	83	12	68	52	0	0	48	1.00
1129582--1129651	20	3.5	20	92	0	122	35	14	8	41	1.76
1129634--1129715	15	5.5	15	88	2	121	35	19	7	37	1.80
1129634--1129715	30	2.8	30	94	1	139	35	19	7	37	1.80
1129634--1129720	45	2.0	44	93	2	147	33	19	6	40	1.78
1129767--1129805	3	13.0	3	94	0	69	64	0	2	33	1.08
1130594--1130658	23	2.8	23	100	0	130	33	9	21	35	1.85
1130557--1130765	110	1.9	110	90	0	337	41	11	13	32	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1130594--1130765	23	7.7	23	73	10	124	38	10	16	33	1.83
1130926--1130983	21	2.8	21	94	0	98	44	12	13	29	1.80
1131169--1131845	182	3.7	182	91	2	1060	27	15	13	43	1.84
1135526--1136308	199	3.9	199	91	1	1203	27	15	16	41	1.88
1136493--1136539	24	2.0	24	86	0	67	48	17	2	31	1.58
1137151--1137189	17	2.3	17	100	0	78	20	15	23	41	1.90
1137793--1137836	12	3.7	12	90	0	61	22	31	4	40	1.74
1137797--1137836	6	6.7	6	88	0	53	20	32	5	42	1.73
1137797--1137836	18	2.2	18	90	0	62	20	32	5	42	1.73
1138985--1139054	15	4.5	15	83	5	77	28	0	48	22	1.51
1139407--1141099	199	8.5	199	92	0	2717	27	14	15	41	1.86
1139427--1141099	797	2.1	796	92	1	2816	27	14	15	41	1.86
1141479--1141524	19	2.4	19	92	0	74	58	8	2	30	1.40
1142940--1142978	18	2.2	18	95	0	69	5	41	0	53	1.23
1143617--1143673	24	2.5	21	76	17	60	49	7	1	42	1.40
1144929--1145016	19	4.6	19	94	1	131	36	14	0	48	1.44
1145404--1146193	181	4.3	179	84	5	1007	26	15	13	44	1.83
1145404--1146200	363	2.2	363	90	2	1296	26	15	13	44	1.83
1146060--1146330	137	2.0	136	87	5	395	27	17	12	42	1.86
1146197--1146930	182	4.0	183	85	6	1015	26	15	14	43	1.85
1146197--1146930	366	2.0	365	93	0	1243	26	15	14	43	1.85
1146856--1146898	21	2.0	22	90	4	70	13	16	13	55	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1146857--1146904	21	2.3	20	86	10	62	12	18	12	56	1.67
1149330--1149373	16	2.8	16	85	0	70	54	25	13	6	1.63
1151349--1151433	29	2.9	29	83	0	107	12	29	40	17	1.87
1155018--1155096	23	3.4	23	91	1	113	11	10	15	63	1.52
1155018--1155091	10	6.8	10	75	17	58	12	9	14	63	1.52
1163839--1163886	2	24.0	2	100	0	96	50	0	0	50	1.00
1164616--1164730	37	3.0	38	76	11	119	35	14	3	46	1.62
1164884--1164918	2	17.5	2	100	0	70	48	0	0	51	1.00
1173648--1173691	21	2.1	21	86	0	61	38	4	0	56	1.20
1173737--1173775	15	2.6	15	91	0	60	61	5	0	33	1.18

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19