genome.fa.s8964.2.7.7.80.10.50.1000.6.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: VEPZ01008964.1 Hibiscus syriacus cultivar Beakdansim tig00112305_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2156694

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

This is table  6  of  11  ( 1293 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)
996917--997225	117	2.8	112	87	6	423	24	19	15	40	1.90
997147--997316	91	1.9	89	85	7	238	25	18	15	41	1.89
997234--997582	136	2.6	136	92	0	556	25	21	17	35	1.95
998464--998537	8	10.0	7	76	12	51	10	12	0	77	1.01
998458--998516	20	3.2	20	79	18	65	8	13	0	77	0.97
998470--998535	31	2.2	30	88	2	96	9	13	0	77	0.99
998479--998550	31	2.3	31	85	4	101	8	13	1	76	1.08
1011692--1011731	3	13.3	3	100	0	80	67	0	0	32	0.91
1013793--1013844	27	1.9	28	88	7	81	59	9	3	26	1.46
1021990--1022075	30	2.9	30	87	1	120	27	0	41	30	1.56
1025686--1025735	20	2.5	20	78	12	59	40	2	2	56	1.22
1025672--1025739	31	2.2	31	86	7	93	41	1	2	54	1.24
1026465--1026578	10	11.0	10	67	23	58	55	1	1	41	1.20
1026467--1026547	19	4.6	19	68	24	61	55	1	2	40	1.21
1026465--1026577	31	3.6	31	90	2	156	55	1	1	40	1.20
1029324--1029390	20	3.2	22	65	16	61	62	10	2	23	1.41
1029751--1029775	13	1.9	13	100	0	50	16	24	24	36	1.94
1030955--1031055	37	2.7	37	79	1	112	32	19	15	31	1.94
1031780--1031808	11	2.6	11	100	0	58	27	6	0	65	1.18
1034385--1034450	20	3.3	20	97	0	123	43	25	13	16	1.85
1034605--1034652	22	2.2	22	92	0	78	22	45	12	18	1.83
1035021--1035074	20	2.7	19	80	2	63	16	14	20	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1036742--1036791	21	2.4	21	82	0	64	20	16	32	32	1.94
1036808--1036857	21	2.4	21	80	6	57	22	12	36	30	1.90
1037273--1037314	20	2.1	20	90	0	66	45	21	11	21	1.84
1037318--1037388	20	3.5	20	88	0	97	33	19	14	32	1.92
1037408--1037450	20	2.2	20	91	0	68	27	23	11	37	1.89
1037414--1037463	20	2.5	20	83	6	66	30	18	12	40	1.86
1037423--1037490	20	3.5	19	76	11	59	26	23	11	38	1.89
1038257--1038290	12	2.8	12	90	0	50	55	29	0	14	1.40
1038416--1038469	24	2.2	24	86	0	72	20	14	18	46	1.84
1041056--1041099	20	2.2	20	91	0	70	20	20	20	38	1.94
1041170--1041219	25	2.0	25	92	0	82	28	8	20	44	1.79
1043240--1043272	13	2.4	14	95	5	59	48	21	0	30	1.50
1044624--1044693	21	3.3	21	77	0	77	24	22	31	21	1.98
1045407--1045442	16	2.3	16	90	4	56	63	0	5	30	1.17
1046361--1046417	24	2.4	24	88	2	80	49	12	1	36	1.51
1046367--1046424	24	2.4	25	85	11	84	50	12	1	36	1.50
1046791--1046840	25	2.0	25	96	0	91	44	22	8	26	1.80
1046985--1047042	29	2.0	29	86	0	80	25	17	24	32	1.96
1049585--1049638	24	2.2	24	86	0	72	38	18	20	22	1.93
1050414--1050505	20	4.6	20	82	4	105	29	10	22	36	1.88
1050415--1050520	40	2.6	41	82	10	137	27	12	23	36	1.91
1050385--1050505	20	6.0	20	79	8	102	31	10	24	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1050515--1050580	20	3.3	20	91	0	105	24	19	19	36	1.95
1050494--1050585	40	2.3	40	81	14	118	22	17	20	39	1.93
1050514--1050600	40	2.2	40	85	4	113	25	17	22	34	1.96
1053569--1053596	2	14.0	2	100	0	56	50	0	0	50	1.00
1070799--1070837	2	19.5	2	100	0	78	48	0	0	51	1.00
1072467--1072496	15	2.0	15	100	0	60	46	20	20	13	1.83
1078062--1078109	20	2.4	19	93	6	78	62	0	35	2	1.07
1078396--1078436	21	2.0	20	85	4	55	39	2	7	51	1.43
1083663--1083784	40	3.0	40	100	0	244	22	17	27	32	1.96
1083888--1083999	47	2.5	44	88	4	152	38	8	21	31	1.84
1084455--1084492	18	2.1	18	85	9	51	36	5	7	50	1.54
1085066--1085427	54	6.7	54	89	1	476	38	18	12	30	1.88
1085066--1085449	162	2.4	161	86	1	527	37	18	14	29	1.90
1087997--1088101	17	6.1	17	74	12	88	40	9	12	38	1.76
1090360--1090388	2	14.5	2	100	0	58	48	0	0	51	1.00
1090631--1090657	14	1.9	14	100	0	54	51	0	7	40	1.30
1091746--1091867	17	7.1	17	79	10	131	38	8	13	40	1.74
1091860--1091901	17	2.5	17	84	0	57	40	11	19	28	1.87
1093164--1093233	17	4.1	17	83	5	88	38	8	12	40	1.74
1093164--1093233	34	2.1	34	86	5	97	38	8	12	40	1.74
1095973--1095998	10	2.6	10	100	0	52	0	19	0	80	0.71
1097260--1097324	17	3.9	17	76	11	62	36	7	10	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1097286--1097329	17	2.6	17	88	0	61	40	9	9	40	1.68
1097385--1097426	17	2.5	17	84	0	57	42	11	14	30	1.81
1104965--1104997	15	2.3	15	89	5	50	60	0	0	39	0.97
1109986--1110579	46	12.6	46	82	11	595	43	10	23	22	1.84
1110032--1110409	118	3.1	116	83	9	495	43	11	23	21	1.85
1110079--1110235	72	2.2	72	90	0	242	44	12	22	21	1.84
1110156--1110552	129	3.0	127	89	5	569	43	10	23	22	1.84
1109975--1110579	26	25.4	26	66	24	320	44	10	22	22	1.83
1110012--1110567	20	24.7	20	67	23	183	43	10	23	22	1.84
1114822--1114862	21	2.0	21	90	0	64	31	24	17	26	1.97
1120848--1122507	829	2.0	828	94	3	2946	31	13	20	34	1.92
1125663--1125708	23	1.9	25	91	8	78	41	15	21	21	1.90
1127056--1127107	27	2.0	27	85	11	72	34	15	0	50	1.45
1127423--1127448	7	3.7	7	100	0	52	11	15	0	73	1.11
1132288--1132333	2	23.5	2	95	4	85	47	0	0	52	1.00
1132917--1132974	29	2.0	29	82	3	71	29	5	20	44	1.73
1136336--1136478	23	6.2	23	86	1	160	29	16	11	41	1.84
1138739--1138812	35	2.1	35	97	0	139	44	5	9	40	1.60
1139841--1139870	2	15.0	2	92	0	51	46	0	0	53	1.00
1139895--1139961	27	2.5	27	90	2	100	38	11	0	49	1.40
1140669--1140807	59	2.4	58	83	7	156	38	15	13	33	1.86
1141692--1141817	2	63.0	2	100	0	252	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1141826--1141856	2	15.5	2	100	0	62	51	0	0	48	1.00
1147343--1147368	3	8.7	3	100	0	52	0	34	30	34	1.58
1149405--1149434	8	3.8	8	95	0	51	63	0	0	36	0.95
1149395--1149468	29	2.5	31	82	10	93	66	1	0	32	1.00
1149390--1149469	13	5.5	15	72	22	64	67	1	0	31	0.99
1149431--1149469	18	2.2	17	82	13	51	71	2	0	25	0.98
1150287--1150887	182	3.3	181	89	0	914	41	14	16	27	1.87
1153595--1153660	24	2.8	24	72	2	71	30	24	22	22	1.99
1153879--1153912	17	2.1	16	88	5	50	32	17	0	50	1.47
1154039--1154119	43	1.9	41	82	5	99	30	17	3	48	1.64
1154904--1154940	13	2.8	13	92	8	58	16	29	0	54	1.43
1159349--1159414	24	2.8	24	81	2	89	27	24	25	22	2.00
1159792--1159872	43	1.9	41	82	5	99	32	16	3	48	1.63
1161484--1161522	18	2.2	18	95	0	69	58	0	35	5	1.20
1163545--1164507	201	4.8	201	87	2	1258	38	14	15	32	1.87
1165163--1165196	2	17.0	2	100	0	68	50	0	0	50	1.00
1166007--1166065	3	19.7	3	85	0	82	38	1	32	27	1.67
1168862--1168925	28	2.3	26	77	15	65	48	3	21	26	1.65
1169087--1169178	32	2.9	32	76	13	100	33	16	17	32	1.92
1169088--1169211	31	4.0	31	76	5	97	29	17	20	32	1.96
1173875--1173938	28	2.3	26	77	15	65	48	3	21	26	1.65
1173994--1174025	13	2.3	15	89	10	50	43	0	18	37	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1174173--1174219	20	2.3	20	96	0	85	36	23	19	21	1.95
1174213--1174352	20	7.0	19	73	15	104	40	24	17	17	1.90
1174193--1174323	40	3.3	40	82	8	185	39	23	17	19	1.92
1174200--1174352	80	1.9	80	94	0	270	40	22	17	18	1.91
1174213--1174352	40	3.5	39	79	9	158	40	24	17	17	1.90
1174805--1174850	14	3.3	14	87	0	65	50	30	13	6	1.66
1177021--1177096	21	3.6	21	77	7	91	23	35	21	19	1.96
1176998--1177094	42	2.3	42	82	7	124	25	35	16	22	1.95
1178442--1178581	66	2.2	62	87	7	194	30	0	17	50	1.51
1178992--1179028	18	2.1	18	89	0	56	51	10	5	32	1.60

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