genome.fa.s9574.2.7.7.80.10.50.1000.5.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: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2686660

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

This is table  5  of  14  ( 1597 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)
965432--965490	21	2.8	21	78	0	64	25	37	27	10	1.88
965777--965806	6	5.0	6	100	0	60	50	16	16	16	1.79
971420--971477	28	2.1	28	96	0	107	41	15	15	27	1.87
971690--971729	21	1.9	21	84	0	53	2	50	0	47	1.14
972817--972933	33	3.6	33	95	1	200	11	8	37	42	1.71
973442--973567	44	2.9	43	90	3	198	36	23	12	27	1.91
973556--973602	18	2.7	17	86	3	67	29	29	8	31	1.87
983330--983360	16	1.9	16	100	0	62	6	12	12	67	1.40
983332--983367	16	2.2	16	90	0	54	5	16	8	69	1.33
991090--991131	21	2.0	21	90	0	66	14	28	28	28	1.95
996372--996400	3	9.7	3	100	0	58	68	0	0	31	0.89
997420--997444	8	3.1	8	100	0	50	88	0	0	12	0.53
1011898--1011963	27	2.5	27	95	2	116	33	25	4	36	1.77
1013269--1013316	24	2.0	23	84	11	62	41	4	4	50	1.41
1014216--1014268	19	2.6	21	79	11	65	32	22	18	26	1.97
1018946--1018988	14	3.1	14	90	6	52	16	0	39	44	1.48
1022423--1022890	119	4.0	119	91	5	783	42	10	20	27	1.84
1022423--1022870	229	2.0	229	96	0	824	42	10	20	27	1.84
1022524--1022870	110	3.1	110	89	6	550	42	9	20	27	1.83
1033603--1033681	36	2.2	36	90	0	122	16	40	11	31	1.84
1036519--1036553	18	1.9	18	88	0	52	34	25	31	8	1.86
1042196--1042224	14	2.1	14	93	6	51	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1046325--1046383	31	1.9	31	100	0	118	50	3	32	13	1.58
1046370--1046496	66	2.0	64	95	3	227	32	12	32	22	1.92
1052447--1052507	27	2.3	27	100	0	122	60	9	19	9	1.56
1054411--1054455	22	2.0	22	83	8	56	42	11	8	37	1.72
1054473--1054545	23	3.2	23	90	0	110	35	5	21	36	1.77
1054961--1055024	23	2.8	23	92	0	101	37	4	21	35	1.75
1054961--1055033	23	3.2	23	90	0	92	36	4	19	39	1.71
1055440--1055512	23	3.2	23	88	0	110	35	5	20	38	1.76
1054051--1057804	479	7.8	477	93	2	6146	41	7	10	40	1.67
1055917--1055989	23	3.2	23	92	0	110	35	4	20	39	1.72
1056393--1056465	23	3.2	23	90	0	110	35	5	20	38	1.76
1056807--1056854	22	2.2	22	78	14	55	39	12	6	41	1.68
1056872--1056944	23	3.2	23	90	0	110	35	5	20	38	1.76
1057291--1057337	23	2.0	23	84	8	60	48	10	8	31	1.68
1059302--1059366	2	32.5	2	96	0	121	47	0	1	50	1.10
1060713--1060771	31	2.0	29	83	6	73	45	1	16	35	1.58
1061367--1061441	18	3.9	18	78	13	87	21	20	30	28	1.98
1062013--1062064	21	2.4	21	80	3	68	25	23	26	25	2.00
1062332--1062410	31	2.5	31	93	0	131	15	13	25	45	1.83
1062437--1062586	10	13.2	10	68	20	57	58	19	11	10	1.61
1062420--1062567	24	6.2	24	74	2	129	58	19	11	10	1.60
1062420--1062567	47	3.1	47	85	0	197	58	19	11	10	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1064672--1064715	23	1.9	23	86	9	63	72	4	4	18	1.19
1064643--1064716	26	2.9	25	68	6	58	75	5	5	13	1.15
1066825--1067538	84	8.5	84	85	2	833	23	17	24	34	1.96
1066829--1067526	251	2.8	249	85	1	901	23	17	24	34	1.96
1068400--1068525	18	7.9	18	67	25	104	32	30	19	17	1.95
1068374--1068525	46	3.3	46	98	0	286	34	30	17	17	1.94
1069891--1069945	10	5.3	10	74	8	56	32	12	9	45	1.74
1069889--1069945	21	2.7	21	100	0	114	31	12	8	47	1.72
1069901--1069939	11	3.6	11	79	6	53	25	15	10	48	1.76
1070312--1070469	80	1.9	82	89	3	248	24	21	22	31	1.98
1071303--1071499	99	2.0	98	84	1	259	32	16	16	34	1.91
1072034--1072108	21	3.7	19	78	16	71	26	33	21	18	1.96
1076019--1076047	13	2.1	14	93	6	51	24	10	31	34	1.89
1076625--1076706	22	3.7	21	73	14	67	78	2	2	17	0.98
1076630--1076741	31	3.4	31	76	16	86	75	2	6	15	1.10
1076656--1076707	13	3.6	14	82	12	52	75	1	1	21	1.00
1076625--1076716	43	2.1	45	84	11	120	76	2	4	17	1.06
1076985--1077038	2	27.5	2	96	3	101	51	0	0	48	1.00
1077243--1077321	35	2.3	34	80	6	88	69	2	5	22	1.20
1084395--1084425	16	1.9	16	100	0	62	32	6	0	61	1.21
1086161--1086399	118	2.0	118	93	0	406	24	11	21	42	1.86
1091941--1091990	20	2.5	19	81	12	57	54	4	2	40	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1093315--1093349	8	4.2	8	88	3	52	82	2	2	11	0.88
1094358--1094578	23	10.0	22	71	18	138	52	4	2	40	1.34
1094338--1094578	7	33.9	7	74	15	158	53	4	2	39	1.33
1094895--1095224	175	1.9	176	85	0	464	26	21	20	32	1.97
1095144--1095397	85	3.0	85	92	0	418	25	18	21	33	1.96
1102661--1102698	2	19.0	2	100	0	76	50	0	0	50	1.00
1102899--1105032	56	38.8	56	83	5	1498	25	23	16	33	1.96
1103873--1103961	27	3.3	27	66	17	76	23	25	12	38	1.90
1103147--1104197	164	6.4	161	78	9	518	27	24	15	32	1.95
1104048--1104912	225	3.9	222	84	6	929	23	24	18	33	1.96
1105430--1105522	37	2.5	37	91	0	141	24	21	22	31	1.98
1106746--1106970	125	1.8	124	87	4	337	23	28	17	31	1.97
1110525--1110621	21	4.6	22	87	5	114	15	16	22	45	1.85
1119172--1119211	19	2.1	19	90	4	62	62	0	0	37	0.95
1119242--1119532	37	8.1	37	74	15	159	44	7	3	43	1.50
1119248--1119394	37	3.9	39	85	8	189	44	8	3	44	1.50
1119269--1119381	35	3.2	35	84	11	149	44	7	2	45	1.47
1119357--1119416	23	2.5	26	86	10	83	46	6	0	46	1.29
1119370--1119455	34	2.5	33	78	10	102	44	4	1	50	1.30
1119322--1119445	60	2.0	61	89	9	191	45	7	0	46	1.36
1119402--1119485	41	2.0	41	83	4	105	46	4	1	47	1.31
1120228--1120302	2	38.0	2	97	2	143	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1120473--1120508	2	18.0	2	100	0	72	50	0	0	50	1.00
1135520--1135555	17	2.1	17	90	10	56	30	22	16	30	1.96
1137832--1137888	24	2.4	24	82	5	62	26	14	24	35	1.93
1141432--1141591	65	2.5	65	84	5	200	28	18	22	30	1.97
1141432--1141641	65	3.2	64	79	11	198	27	18	22	31	1.97
1143519--1143580	24	2.6	24	84	5	72	24	17	22	35	1.95
1154074--1154118	21	2.1	22	91	4	74	13	15	8	62	1.54
1159098--1159248	2	78.0	2	92	6	258	49	0	0	49	1.05
1159168--1159288	31	3.7	32	82	10	104	50	1	4	42	1.33
1159345--1159379	17	2.1	18	89	10	56	45	8	5	40	1.58
1162118--1162186	27	2.4	28	83	11	86	18	11	7	62	1.51
1163086--1163135	15	3.4	14	84	15	57	28	4	8	60	1.43
1164985--1165015	8	4.0	8	95	4	55	22	12	12	51	1.74
1167650--1167751	36	2.8	37	84	3	134	36	17	10	35	1.85
1169060--1169303	121	2.0	121	100	0	488	41	13	10	34	1.78
1172376--1172644	141	1.9	141	89	1	423	21	16	18	43	1.88
1176195--1176276	28	2.9	28	82	7	103	24	15	14	45	1.84
1176284--1176644	134	2.7	134	82	4	406	27	30	18	24	1.98
1176850--1176887	3	12.7	3	89	10	60	31	0	0	68	0.90
1178298--1178370	30	2.4	29	75	6	74	17	10	9	61	1.55
1182101--1182136	12	2.9	12	91	4	54	55	16	5	22	1.62
1187196--1187246	17	2.9	17	77	13	59	39	3	11	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1187636--1187671	17	2.1	17	89	0	54	41	2	11	44	1.54
1188534--1188578	18	2.4	19	88	7	65	57	0	2	40	1.11
1188980--1189030	17	2.9	17	77	13	59	39	3	11	45	1.59
1189418--1189453	17	2.1	17	89	0	54	41	2	11	44	1.54
1190475--1190501	2	13.5	2	100	0	54	51	0	0	48	1.00
1194748--1194808	30	2.0	30	93	0	86	32	19	8	39	1.81
1194895--1195001	21	5.5	21	65	17	77	25	27	24	23	2.00
1194916--1194980	17	3.6	17	69	15	58	26	29	23	21	1.99
1194876--1195036	38	4.2	38	91	0	259	25	27	21	24	1.99
1195199--1195263	33	2.0	33	93	0	112	27	13	13	44	1.82

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