genome.fa.s7956.2.7.7.80.10.50.1000.5.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: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3102597

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

This is table  5  of  14  ( 1676 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)
937593--937631	3	13.0	3	100	0	78	66	0	0	33	0.92
939554--939649	44	2.2	45	85	9	128	33	25	13	28	1.93
939582--939649	22	3.1	22	97	0	127	32	27	11	27	1.92
941868--941917	21	2.4	21	90	6	75	34	26	12	28	1.92
942246--942281	16	2.1	18	90	10	58	63	0	5	30	1.17
942389--942536	30	4.9	30	94	1	242	43	2	22	31	1.68
942389--942536	61	2.5	60	91	2	242	43	2	22	31	1.68
943774--943806	17	1.9	17	93	0	57	12	9	9	69	1.36
949147--949205	26	2.3	26	96	0	109	35	20	20	23	1.96
955886--956105	117	1.9	116	79	6	248	27	12	10	49	1.73
958807--958890	23	3.6	23	70	17	66	19	26	26	28	1.98
960887--960957	29	2.4	30	74	9	74	53	2	7	36	1.43
963431--963462	16	2.0	16	93	0	55	34	9	6	50	1.60
966776--966818	3	14.7	3	85	4	52	67	0	0	32	0.91
966776--966815	20	2.0	20	85	0	53	67	0	0	32	0.91
970579--970641	19	3.5	19	74	20	55	50	4	0	44	1.23
972666--972723	27	2.2	24	80	14	62	53	3	3	39	1.35
974066--974103	19	2.1	18	90	5	58	47	0	7	44	1.32
986756--986820	28	2.3	29	81	2	69	24	6	20	49	1.71
986876--986905	15	2.0	15	93	0	51	70	0	0	30	0.88
987558--987603	18	2.6	18	89	0	65	32	23	4	39	1.75
987570--987604	18	1.9	18	100	0	70	28	22	2	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
988730--988758	13	2.2	13	100	0	58	31	6	20	41	1.79
990846--990922	39	2.0	39	85	12	106	32	5	1	61	1.26
997104--997128	3	8.3	3	100	0	50	32	32	0	36	1.58
1009730--1009769	19	2.1	19	85	4	53	42	27	0	30	1.56
1018432--1018509	23	3.3	23	83	1	102	32	23	21	23	1.98
1018516--1018733	103	2.1	103	93	0	364	37	22	13	26	1.91
1023946--1024023	23	3.3	23	81	1	93	32	23	20	24	1.98
1024030--1024247	103	2.1	103	95	0	391	37	22	13	26	1.92
1026681--1026914	83	2.8	83	77	9	235	28	18	16	36	1.93
1026671--1026933	83	3.1	84	76	5	230	28	19	15	36	1.93
1027594--1027619	12	2.2	12	100	0	52	42	15	7	34	1.75
1027760--1027816	31	1.9	28	82	10	69	56	1	0	42	1.10
1030142--1030212	30	2.4	31	84	9	87	54	7	14	23	1.64
1030163--1030315	61	2.5	60	78	7	150	57	10	13	18	1.64
1030229--1030315	30	2.9	31	84	5	124	58	11	14	14	1.63
1032073--1032148	35	2.2	35	90	0	116	39	22	1	36	1.63
1032976--1033004	13	2.1	14	93	6	51	34	6	0	58	1.25
1033537--1033570	3	11.3	3	87	12	52	64	0	2	32	1.08
1033531--1033563	15	2.2	15	94	0	57	66	0	3	30	1.06
1033752--1034096	134	2.6	133	85	3	451	26	16	32	24	1.96
1034809--1034878	32	2.2	32	84	5	88	30	21	15	32	1.94
1035916--1035968	20	2.6	20	81	3	52	3	13	3	79	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1035916--1035987	32	2.2	32	83	11	85	4	15	2	77	1.03
1035935--1035987	13	4.1	12	77	15	52	1	15	1	81	0.87
1037821--1037882	32	1.9	32	83	6	81	58	9	11	20	1.61
1039542--1039582	22	1.9	22	90	5	66	60	12	0	26	1.31
1039733--1039943	60	3.5	61	76	5	225	54	11	15	18	1.70
1039733--1039919	59	3.1	59	76	9	184	55	12	14	17	1.69
1039730--1039923	30	6.5	30	77	9	155	56	11	14	17	1.68
1041345--1041378	3	11.3	3	87	12	52	64	0	2	32	1.08
1041339--1041371	15	2.2	15	94	0	57	66	0	3	30	1.06
1043480--1043546	15	4.8	15	70	17	54	50	0	0	49	1.00
1043465--1043550	40	2.2	38	91	4	136	50	0	0	50	1.00
1054520--1054595	2	38.0	2	100	0	152	50	0	0	50	1.00
1056408--1056492	13	6.5	12	71	16	55	82	1	8	8	0.90
1056401--1056493	8	11.0	8	75	21	66	81	1	9	7	0.92
1056404--1056493	14	6.7	13	72	19	53	82	1	8	7	0.90
1056404--1056490	21	4.2	20	72	10	75	81	1	9	8	0.92
1056401--1056493	17	5.4	17	74	12	66	81	1	9	7	0.92
1056404--1056487	25	3.4	25	73	20	79	80	1	9	8	0.94
1057894--1058227	132	2.5	133	82	2	402	30	20	14	34	1.92
1057749--1058302	134	4.1	134	78	5	469	31	18	14	35	1.91
1059414--1059458	11	4.1	11	80	8	56	17	35	28	17	1.93
1060881--1060937	12	4.8	12	77	0	69	12	19	12	56	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1060881--1060937	24	2.4	24	87	0	87	12	19	12	56	1.67
1061081--1061156	32	2.4	31	78	4	89	13	22	32	31	1.92
1065499--1065553	18	3.1	18	86	0	83	23	16	32	27	1.96
1077788--1077824	14	2.6	14	95	0	65	21	21	37	18	1.94
1081566--1081590	3	8.3	3	100	0	50	68	0	0	32	0.90
1081812--1081870	23	2.6	24	81	10	70	27	22	28	22	1.99
1088714--1088765	23	2.3	23	93	0	86	28	28	25	17	1.97
1088985--1089045	32	1.9	31	83	3	77	32	22	6	37	1.80
1090403--1090464	26	2.4	26	88	0	88	20	16	25	37	1.93
1090402--1090471	26	2.8	24	72	12	68	22	14	27	35	1.93
1090449--1090487	18	2.2	17	95	4	69	17	15	33	33	1.92
1093263--1093305	7	6.1	7	97	0	77	0	44	0	55	0.99
1093388--1093443	21	2.7	21	97	0	103	42	7	17	32	1.77
1094723--1094758	18	2.0	18	88	0	54	16	16	33	33	1.92
1094741--1094808	26	2.6	26	97	0	127	17	16	32	33	1.92
1097569--1097611	22	2.0	22	86	9	61	18	6	4	69	1.29
1098053--1098414	131	2.8	131	84	2	494	32	9	16	42	1.80
1103419--1103874	133	3.4	133	91	0	700	46	14	17	22	1.83
1105956--1106657	199	3.5	198	83	4	851	32	14	13	39	1.86
1110874--1110957	18	4.7	18	95	0	150	0	39	0	60	0.97
1111142--1111230	25	3.2	25	73	23	72	22	46	0	31	1.52
1111142--1111220	33	2.4	33	93	0	140	24	46	0	29	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1111267--1111329	21	3.0	20	90	4	90	15	33	11	39	1.83
1113718--1113758	20	2.0	20	100	0	82	21	14	24	39	1.91
1113718--1113771	20	2.7	20	91	0	72	22	14	20	42	1.88
1113763--1114550	182	4.3	182	90	1	1134	27	17	13	40	1.88
1113760--1114550	362	2.2	363	88	0	1172	27	17	14	40	1.88
1116890--1116947	30	1.9	30	85	0	80	15	24	20	39	1.91
1117475--1117574	47	2.1	48	94	1	175	45	4	6	45	1.47
1117989--1118057	23	3.0	22	77	14	59	53	4	0	42	1.20
1123368--1123398	13	2.5	12	94	5	53	54	6	9	29	1.57
1123620--1123704	23	3.7	22	70	16	73	29	27	25	17	1.98
1128447--1128491	22	2.1	22	87	4	65	24	28	26	20	1.99
1128797--1128827	13	2.5	12	94	5	53	54	6	9	29	1.57
1129049--1129133	23	3.7	22	70	16	73	29	27	25	17	1.98
1140888--1140975	33	2.6	34	78	18	80	50	1	2	46	1.21
1142964--1142996	12	2.8	12	100	0	66	48	6	0	45	1.27
1142980--1143029	24	2.0	25	84	3	66	56	2	0	42	1.11
1144358--1144384	13	2.1	13	100	0	54	14	22	0	62	1.31
1144523--1144561	15	2.6	15	84	12	53	41	12	2	43	1.56
1146427--1146460	14	2.3	15	95	5	61	41	0	0	58	0.98
1174198--1174231	17	2.0	17	88	0	50	29	14	5	50	1.67
1182725--1182769	20	2.4	19	85	10	65	62	0	33	4	1.15
1183960--1184003	23	1.9	23	85	0	61	38	4	2	54	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185066--1185110	21	2.1	22	84	12	58	51	8	0	40	1.33
1185126--1185173	15	3.1	15	84	3	60	54	8	0	37	1.31
1185061--1185212	76	2.0	74	86	5	207	50	10	1	38	1.45
1185056--1185177	59	2.1	58	80	9	131	50	9	0	40	1.36
1185156--1185239	19	4.0	21	73	17	75	53	13	3	29	1.56
1188377--1188437	28	2.1	30	90	6	99	57	11	0	31	1.34
1188455--1188516	14	4.4	14	88	6	90	1	38	0	59	1.07
1189836--1189877	16	2.4	18	80	11	52	50	0	0	50	1.00
1189819--1189889	22	3.0	22	74	10	61	57	1	0	40	1.07
1190248--1190295	25	1.9	25	91	8	80	47	0	0	52	1.00

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