genome.fa.s8199.2.7.7.80.10.50.1000.5.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: VEPZ01008199.1 Hibiscus syriacus cultivar Beakdansim tig00110819_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2638622

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

This is table  5  of  11  ( 1254 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)
1030065--1030156	21	4.4	20	82	5	94	22	36	20	19	1.95
1030671--1030717	20	2.3	21	88	7	78	27	17	14	40	1.89
1030806--1030849	20	2.2	20	87	0	61	38	22	15	22	1.92
1032253--1032306	21	2.6	21	82	11	67	20	12	33	33	1.91
1035155--1035196	12	3.5	12	83	6	50	23	0	7	69	1.13
1035340--1035438	21	4.7	21	81	6	103	25	31	18	25	1.97
1035340--1035458	42	2.8	41	77	16	118	25	33	16	24	1.96
1035365--1035458	21	4.5	20	80	11	91	26	34	17	22	1.96
1036801--1036833	14	2.4	14	100	0	66	33	0	21	45	1.52
1036801--1036962	78	2.1	78	91	0	261	29	2	18	49	1.61
1036876--1036912	14	2.6	14	100	0	74	29	0	21	48	1.50
1037035--1037081	20	2.3	20	92	0	76	27	19	23	29	1.98
1039757--1039790	12	2.8	12	90	0	50	14	0	29	55	1.40
1040581--1040674	20	4.7	20	75	6	82	29	12	22	35	1.91
1040613--1040682	21	3.4	21	80	9	81	32	11	25	30	1.91
1040645--1040743	41	2.5	40	72	8	92	30	15	24	30	1.95
1040705--1040771	20	3.3	20	74	15	75	34	13	26	25	1.93
1040698--1040795	40	2.5	40	81	0	124	28	15	26	29	1.96
1048540--1048567	2	14.0	2	100	0	56	0	50	0	50	1.00
1057363--1057573	15	14.1	15	82	0	197	28	14	12	44	1.81
1058842--1058926	33	2.9	27	78	18	98	29	44	0	25	1.54
1058883--1058938	6	8.8	6	74	18	51	23	48	0	28	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1058856--1058948	33	2.9	33	87	4	138	26	48	0	24	1.51
1061551--1061610	31	1.9	32	86	6	88	25	40	20	15	1.90
1063726--1063802	30	2.6	30	97	0	145	18	23	41	16	1.90
1063977--1064078	50	2.0	50	100	0	204	25	1	15	56	1.50
1070211--1070277	22	3.0	22	100	0	134	26	26	26	19	1.99
1070497--1070556	30	2.0	31	90	3	95	33	23	6	36	1.81
1070930--1071069	68	2.1	69	86	5	196	18	29	24	27	1.98
1070931--1071091	68	2.4	67	82	8	184	18	27	24	29	1.98
1077131--1077197	22	3.0	22	100	0	134	26	26	26	19	1.99
1077417--1077476	30	2.0	31	90	3	95	33	23	6	36	1.81
1077834--1077986	68	2.2	69	87	4	213	18	27	26	27	1.98
1077834--1078008	67	2.6	67	84	7	194	18	27	26	28	1.98
1086281--1086332	20	2.6	20	96	0	95	40	7	23	28	1.82
1093791--1094012	111	2.0	111	96	0	408	35	7	10	45	1.68
1095815--1095853	18	2.2	18	90	0	60	30	20	35	12	1.90
1095812--1095851	21	1.9	21	89	0	62	30	20	37	12	1.89
1096061--1096133	35	2.1	35	82	14	89	28	9	8	53	1.62
1106906--1106939	2	17.0	2	93	0	59	0	52	0	47	1.00
1107281--1107328	18	2.6	18	76	3	51	58	12	0	29	1.35
1108464--1108490	2	13.5	2	100	0	54	51	0	0	48	1.00
1110352--1110409	29	2.0	29	89	0	89	13	36	27	22	1.92
1110449--1110533	10	7.7	10	72	25	57	23	36	28	11	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1110452--1110490	14	2.8	14	92	0	69	20	41	28	10	1.85
1110480--1110533	20	2.7	20	97	0	99	24	35	29	11	1.90
1110520--1110552	14	2.4	14	94	0	57	24	39	30	6	1.79
1110480--1110533	10	5.4	10	79	16	67	24	35	29	11	1.90
1110587--1110673	29	3.0	29	79	3	95	19	26	36	17	1.94
1116077--1116138	20	2.9	21	80	9	63	16	25	35	22	1.94
1119943--1119982	21	1.9	21	85	10	55	35	10	2	52	1.48
1126236--1126297	21	3.0	21	76	4	72	17	17	25	38	1.92
1126328--1126381	22	2.5	22	93	0	99	16	16	27	38	1.90
1126423--1126488	21	3.2	21	73	4	80	16	18	27	37	1.92
1126427--1126526	41	2.5	41	90	8	152	21	18	24	37	1.94
1126475--1126565	21	4.4	20	73	13	78	23	15	24	37	1.93
1126660--1126726	6	11.2	6	100	0	134	34	49	16	0	1.46
1127212--1127243	6	5.3	6	100	0	64	0	18	46	34	1.49
1127356--1127558	41	4.9	42	90	3	247	39	23	19	18	1.92
1127353--1127469	22	5.5	22	67	20	88	40	23	18	17	1.91
1127356--1127530	83	2.1	83	86	6	239	40	22	19	17	1.91
1127481--1127554	21	3.6	21	72	3	78	35	25	17	21	1.95
1128207--1128358	60	2.5	60	75	13	150	30	21	3	44	1.70
1128521--1128673	60	2.6	59	78	8	166	43	7	16	33	1.75
1129726--1129777	22	2.4	22	86	0	77	42	19	3	34	1.69
1135400--1135454	22	2.5	22	96	0	101	40	20	5	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1138619--1138702	31	2.7	31	77	1	87	26	30	28	14	1.95
1142635--1142819	80	2.3	80	94	0	316	27	17	24	31	1.97
1142762--1143299	121	4.5	123	83	7	611	24	18	24	32	1.97
1143099--1143299	110	1.8	110	91	2	332	23	19	24	31	1.98
1143140--1143716	299	1.9	301	89	3	894	26	16	22	35	1.95
1144289--1144348	25	2.4	25	94	0	111	21	23	15	40	1.91
1147407--1147437	13	2.4	13	94	0	53	9	16	51	22	1.73
1149102--1149126	2	12.5	2	100	0	50	48	0	0	52	1.00
1152565--1152631	30	2.2	29	82	10	73	43	0	4	52	1.21
1152791--1152849	23	2.6	23	88	0	82	40	16	5	37	1.71
1153748--1154240	183	2.7	183	93	0	844	33	17	15	34	1.91
1155639--1155683	3	15.0	3	80	0	54	24	33	4	37	1.76
1155643--1155731	12	7.4	12	85	0	106	19	34	8	37	1.83
1155655--1155731	36	2.1	36	90	0	118	18	35	10	36	1.85
1155643--1155734	6	15.3	6	76	0	76	18	34	8	38	1.82
1157197--1158557	199	6.9	200	96	1	2426	31	17	14	36	1.90
1158679--1158727	19	2.6	19	93	0	80	57	10	2	30	1.43
1160276--1160326	28	1.9	27	81	18	63	1	45	0	52	1.12
1160602--1160646	21	2.1	21	91	0	72	15	31	11	42	1.82
1162845--1162887	20	2.3	18	85	14	61	20	16	11	51	1.75
1162850--1162896	20	2.4	19	82	10	67	19	17	10	53	1.72
1163126--1163610	228	2.2	226	95	1	886	39	8	7	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1163857--1163881	11	2.3	11	100	0	50	36	24	8	32	1.84
1165596--1165639	21	2.0	22	86	4	63	52	0	0	47	1.00
1168281--1168320	20	2.1	19	86	9	55	30	7	0	62	1.23
1170897--1170971	39	1.9	39	83	0	96	41	6	2	49	1.43
1170906--1170986	39	2.1	39	83	4	101	44	6	2	46	1.41
1173814--1173880	31	2.2	31	89	5	100	44	16	16	22	1.86
1174055--1174088	2	17.0	2	100	0	68	50	0	0	50	1.00
1174290--1174624	41	8.1	41	77	7	264	27	20	18	33	1.96
1174287--1174620	42	8.0	42	79	10	359	27	20	18	32	1.97
1174287--1174620	83	4.0	83	88	1	456	27	20	18	32	1.97
1176069--1176115	22	2.1	22	100	0	94	17	19	12	51	1.77
1177824--1178115	43	6.7	43	76	8	209	29	26	17	26	1.97
1179118--1179165	18	2.7	18	77	9	53	41	0	6	52	1.27
1184013--1184063	25	2.0	26	84	3	68	35	9	0	54	1.33
1184014--1184070	25	2.2	26	81	6	62	42	8	0	49	1.34
1184855--1184912	23	2.6	23	94	5	102	39	3	12	44	1.58
1184926--1184960	13	2.8	13	91	4	54	57	0	0	42	0.99
1187377--1187405	14	2.1	14	93	6	51	48	0	3	48	1.18
1188017--1188075	25	2.4	25	94	0	100	22	10	25	42	1.84
1197614--1197711	21	4.7	21	83	2	110	44	18	22	14	1.85
1202492--1202737	108	2.3	108	84	3	316	36	22	20	20	1.95
1202477--1202703	36	6.3	36	90	2	339	36	23	21	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203119--1203524	51	7.8	51	84	3	461	32	19	24	23	1.98
1203118--1203524	104	3.9	104	86	3	516	32	19	24	23	1.98
1203526--1203844	53	5.9	53	91	2	503	28	14	30	26	1.95
1203526--1203844	108	3.0	108	95	0	552	28	14	30	26	1.95
1203501--1203839	161	2.1	161	89	4	506	29	14	30	26	1.95
1210338--1210377	21	1.9	21	85	10	55	35	10	2	52	1.48
1216025--1216073	22	2.2	22	100	0	98	36	8	18	36	1.81
1218830--1218858	2	14.5	2	100	0	58	48	0	0	51	1.00
1224833--1224891	23	2.6	23	89	5	84	30	13	8	47	1.73
1231161--1231209	26	1.9	25	87	4	71	65	2	26	6	1.27

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