genome.fa.s8893.2.7.7.80.10.50.1000.6.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: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2797279

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

This is table  6  of  13  ( 1547 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)
993310--993369	6	10.3	6	76	20	65	78	0	1	20	0.84
993301--993371	18	3.5	21	78	18	71	76	0	1	22	0.87
993327--993369	18	2.2	20	92	8	72	79	0	2	18	0.85
993301--993369	26	2.7	25	75	16	77	76	0	1	21	0.86
1003174--1003205	15	2.1	15	94	0	55	53	15	25	6	1.65
1017421--1017585	41	4.0	41	87	1	231	33	21	16	27	1.95
1017482--1017548	21	3.2	21	66	16	57	34	20	16	28	1.95
1017421--1017585	83	2.0	82	90	1	258	33	21	16	27	1.95
1017553--1017617	32	2.0	32	84	0	85	35	24	9	30	1.87
1020731--1020780	21	2.3	20	80	12	55	74	0	8	18	1.06
1021544--1021612	9	7.7	9	73	16	63	40	0	0	59	0.97
1021549--1021633	34	2.5	34	98	0	161	42	0	0	57	0.98
1023060--1023120	24	2.5	24	81	2	68	62	13	11	13	1.55
1027213--1027250	19	2.0	19	89	0	58	36	0	5	57	1.21
1027690--1027740	2	25.5	2	100	0	102	49	0	0	50	1.00
1028992--1029084	21	4.5	21	78	4	100	39	18	24	17	1.91
1029073--1029187	20	5.7	20	78	6	97	32	25	18	24	1.97
1028992--1029084	41	2.3	41	100	0	186	39	18	24	17	1.91
1029070--1029207	41	3.4	41	75	6	127	34	23	17	23	1.96
1029661--1029703	20	2.2	20	95	0	77	9	18	18	53	1.70
1031023--1031067	18	2.5	18	88	0	72	26	44	15	13	1.83
1031537--1031603	20	3.4	20	81	2	73	38	23	22	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031592--1031649	14	3.9	14	72	16	53	48	20	17	13	1.81
1031576--1031668	32	2.8	33	90	3	143	46	18	19	16	1.85
1031682--1031756	32	2.3	33	90	2	125	12	17	24	46	1.81
1031685--1031740	14	3.7	14	73	17	58	8	14	25	51	1.70
1031729--1031795	19	3.5	19	83	4	89	14	23	23	37	1.93
1031741--1031795	20	2.8	19	89	5	83	16	25	23	34	1.95
1034353--1034406	24	2.2	24	83	0	63	25	14	18	40	1.89
1036885--1037011	33	3.8	33	86	4	184	44	19	21	14	1.87
1036886--1037018	66	2.0	66	94	0	230	42	19	21	16	1.89
1036885--1037015	19	7.7	19	63	23	76	44	19	21	14	1.86
1037011--1037053	20	2.2	20	83	4	52	18	18	20	41	1.90
1037194--1037230	14	2.6	14	91	0	65	45	24	0	29	1.53
1038588--1038654	21	3.2	21	68	4	55	19	20	35	23	1.95
1040713--1040772	20	3.0	21	78	9	70	45	18	21	15	1.86
1040737--1040835	33	3.0	33	89	1	144	39	26	22	12	1.89
1040712--1040896	19	10.1	19	76	15	158	43	22	21	12	1.86
1040807--1040896	39	2.3	38	94	1	153	46	22	18	12	1.82
1040885--1040927	19	2.3	19	83	0	50	9	18	20	51	1.74
1040892--1040972	19	4.5	19	73	16	73	9	17	23	49	1.76
1041488--1041540	20	2.7	20	93	0	88	26	20	28	24	1.99
1041549--1041602	20	2.7	20	97	0	99	25	18	24	31	1.97
1041489--1041605	61	1.9	61	85	0	162	23	17	24	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1041489--1041623	61	2.2	61	81	2	155	22	20	24	32	1.98
1041673--1041713	21	2.0	21	85	0	55	34	31	17	17	1.93
1043786--1043870	26	3.3	26	96	0	152	23	30	22	23	1.99
1044175--1044218	5	8.8	5	94	0	79	63	0	36	0	0.95
1044174--1044228	10	5.4	10	91	2	65	65	0	34	0	0.93
1044174--1044222	15	3.3	15	91	0	71	65	0	34	0	0.93
1044350--1044393	21	2.1	21	91	0	70	29	0	15	54	1.42
1044370--1044423	28	1.9	28	100	0	108	27	0	14	57	1.38
1044954--1044991	15	2.5	15	83	8	51	50	2	2	44	1.30
1047611--1047646	19	1.9	19	94	5	65	33	5	16	44	1.71
1047686--1047899	49	4.3	49	95	0	374	43	0	10	45	1.37
1047743--1047868	21	5.3	21	67	23	72	46	0	7	46	1.30
1048107--1048351	35	7.5	35	76	19	239	35	0	13	50	1.46
1048116--1048281	8	19.2	8	76	18	124	34	0	13	51	1.42
1048101--1048471	97	3.8	95	83	7	451	38	0	12	48	1.47
1048132--1048354	19	11.6	19	67	27	116	34	0	14	50	1.47
1048177--1048377	60	3.3	60	85	10	225	36	0	13	48	1.50
1048363--1048422	14	4.6	13	82	13	79	46	1	6	45	1.39
1048343--1048422	26	3.1	25	84	10	90	47	2	7	42	1.45
1048365--1048433	14	4.9	15	80	10	67	44	1	7	46	1.40
1048408--1048471	19	3.6	17	80	16	60	35	0	14	50	1.43
1048425--1048471	19	2.5	19	92	0	76	34	0	17	48	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048606--1048646	17	2.4	17	83	0	55	41	0	2	56	1.13
1049866--1049894	14	2.1	14	100	0	58	51	0	0	48	1.00
1050915--1050961	16	3.0	16	84	3	60	61	8	0	29	1.25
1051001--1051088	30	2.9	30	89	1	131	46	12	0	40	1.42
1051605--1051637	14	2.4	14	94	0	57	24	18	48	9	1.76
1051720--1051764	23	2.0	23	95	0	81	13	40	24	22	1.90
1051733--1051797	33	2.0	33	87	0	94	12	44	20	23	1.84
1051791--1051855	33	2.0	33	84	0	85	20	33	23	23	1.97
1051720--1051849	56	2.3	56	78	5	147	14	39	23	23	1.91
1053688--1053743	14	3.9	14	77	9	67	51	0	10	37	1.37
1053688--1053740	15	3.6	15	75	12	56	52	0	11	35	1.37
1068532--1068558	4	6.8	4	100	0	54	51	22	0	25	1.48
1077731--1077778	17	2.7	17	77	6	51	77	2	4	16	1.03
1079311--1079367	2	28.5	2	96	0	105	50	1	0	47	1.11
1079650--1079693	21	2.1	22	83	8	56	15	13	0	70	1.17
1083004--1083053	24	2.1	24	85	7	66	24	0	14	62	1.32
1089841--1089884	21	2.1	22	87	8	65	13	15	0	70	1.17
1089828--1089917	46	2.0	46	84	4	119	12	21	0	66	1.23
1090417--1090695	142	2.0	142	100	0	558	29	26	20	24	1.99
1093201--1093250	24	2.1	24	85	7	66	26	0	12	62	1.30
1103177--1103226	24	2.1	24	85	7	66	24	2	14	60	1.45
1111243--1111294	24	2.2	24	96	0	95	40	0	3	55	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1122032--1122200	81	2.1	81	98	0	329	21	23	14	40	1.90
1124172--1124261	33	2.7	34	92	3	155	38	24	14	22	1.91
1138276--1138354	37	2.1	34	82	13	86	35	3	3	56	1.35
1140002--1140135	62	2.2	62	90	2	207	20	17	26	36	1.94
1140064--1140198	41	3.3	41	91	0	225	16	20	25	38	1.92
1139998--1140218	103	2.2	102	84	0	289	17	18	24	39	1.91
1140085--1140219	20	6.7	20	72	3	99	13	20	23	42	1.88
1140218--1140283	19	3.3	19	72	12	60	19	16	21	42	1.89
1141006--1141150	42	3.3	41	72	16	130	41	22	18	17	1.90
1141003--1141172	89	1.9	89	93	0	295	39	22	18	20	1.92
1141003--1141140	48	3.0	48	73	17	157	39	21	19	19	1.92
1144982--1145073	31	3.0	31	77	6	105	43	8	7	40	1.64
1150153--1150231	30	2.6	30	78	11	99	25	16	7	50	1.71
1154206--1154238	17	1.9	17	93	0	57	27	0	6	66	1.15
1154812--1154863	14	4.1	13	77	18	56	46	0	0	53	1.00
1159085--1159432	173	2.0	173	97	2	655	33	18	9	38	1.83
1161390--1161722	55	6.0	54	81	10	291	29	26	17	27	1.97
1163055--1163186	55	2.4	58	82	12	154	9	16	0	72	1.15
1163088--1163181	9	10.1	9	72	15	59	11	17	0	71	1.15
1176123--1176149	13	2.1	13	100	0	54	7	0	7	85	0.75
1176694--1176782	45	1.9	47	93	4	155	28	11	23	37	1.89
1186438--1186553	8	13.9	8	73	21	87	73	0	18	7	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187879--1188242	51	6.9	51	86	6	365	28	16	26	28	1.97
1187875--1188349	111	4.5	105	78	11	384	28	15	25	30	1.96
1187881--1188349	166	2.9	161	81	8	498	28	15	25	30	1.96
1187889--1188349	55	8.6	55	85	6	363	28	16	25	29	1.96
1198652--1198738	43	2.0	43	93	0	147	47	12	9	31	1.73
1201632--1201729	49	2.0	49	100	0	196	34	14	26	24	1.94
1213772--1213808	12	3.1	12	100	0	74	24	32	8	35	1.85
1220296--1220389	20	4.7	20	76	5	73	34	26	11	27	1.91
1225782--1225824	18	2.5	17	85	7	61	25	4	2	67	1.22
1227488--1227516	5	5.8	5	100	0	58	17	0	0	82	0.66

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