genome.fa.s8275.2.7.7.80.10.50.1000.5.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: VEPZ01008275.1 Hibiscus syriacus cultivar Beakdansim tig00110933_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991061

Tables:   1   2   3   4   5   6   7   8   

This is table  5  of  8  ( 944 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)
991284--991964	128	5.4	127	91	3	1110	21	24	20	33	1.97
991284--991964	251	2.7	252	91	3	1115	21	24	20	33	1.97
992097--992151	23	2.4	23	81	6	58	45	0	21	32	1.52
992357--992457	34	3.2	33	76	16	113	38	2	3	54	1.34
992388--992458	28	2.5	27	84	8	88	39	1	2	56	1.23
992977--993085	42	2.6	42	92	0	182	23	25	32	18	1.97
992977--993088	21	5.3	21	83	8	147	23	25	32	18	1.97
993098--993142	21	2.1	21	87	0	63	24	15	35	24	1.94
994868--994956	34	2.7	31	82	6	97	59	2	0	38	1.10
994868--994947	34	2.4	33	85	8	101	61	1	0	37	1.04
998605--998659	29	1.9	29	88	3	85	41	1	0	56	1.10
999641--999678	20	2.0	19	90	10	60	23	21	5	50	1.69
999648--999685	20	1.9	20	88	0	58	26	23	5	44	1.74
1001961--1002054	22	4.3	22	91	0	161	29	26	19	24	1.98
1001961--1002054	44	2.1	44	98	0	179	29	26	19	24	1.98
1002209--1002246	16	2.4	16	86	4	51	26	21	13	39	1.89
1016907--1016936	16	1.9	16	93	6	53	76	3	0	20	0.92
1028558--1028609	26	2.0	26	81	7	61	44	3	5	46	1.45
1030677--1030752	36	2.1	36	92	0	125	35	13	38	13	1.83
1037127--1037220	20	4.7	20	81	2	116	36	20	22	21	1.95
1037112--1037200	41	2.2	41	83	0	106	32	19	21	26	1.97
1037207--1037253	20	2.3	20	92	0	76	31	27	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038092--1038145	24	2.2	24	93	0	90	20	18	20	40	1.91
1040565--1040657	20	4.8	19	80	9	107	37	24	19	18	1.94
1040565--1040655	38	2.3	38	84	3	110	37	25	19	17	1.94
1040694--1040748	20	2.8	20	94	0	92	16	20	14	49	1.80
1040724--1040814	33	2.7	33	87	3	119	15	24	18	41	1.89
1040919--1040955	14	2.6	14	86	0	56	48	21	0	29	1.50
1042901--1042988	20	4.4	20	86	1	115	39	22	18	19	1.92
1043031--1043209	20	9.6	20	77	17	170	17	18	21	42	1.89
1045035--1045089	20	2.7	21	85	5	76	40	25	18	16	1.91
1045435--1045483	22	2.2	22	92	0	80	24	12	38	24	1.90
1045423--1045488	22	3.0	21	82	8	78	24	15	36	24	1.93
1045683--1045792	20	5.4	20	76	2	103	20	19	17	42	1.89
1045683--1045792	41	2.7	41	80	4	125	20	19	17	42	1.89
1045793--1045833	21	2.0	21	90	0	64	43	17	21	17	1.87
1047748--1047812	30	2.1	30	82	2	76	49	1	12	36	1.50
1055703--1055792	44	2.0	44	89	4	137	33	10	20	36	1.86
1056801--1056872	31	2.3	31	82	0	90	48	16	20	13	1.80
1063249--1063321	36	2.1	36	97	2	139	41	5	19	34	1.74
1064222--1064252	15	2.1	15	93	0	53	19	32	29	19	1.96
1067049--1067074	2	13.0	2	100	0	52	50	0	0	50	1.00
1069870--1069913	3	14.3	3	95	4	79	68	0	0	31	0.90
1075473--1075530	27	2.2	27	84	9	75	74	5	3	17	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1075664--1075772	58	1.9	57	81	5	130	68	1	5	23	1.20
1075702--1075777	26	2.9	27	75	12	70	71	0	3	25	1.03
1078207--1078426	67	3.3	65	79	9	203	39	10	19	30	1.85
1078374--1078600	36	6.4	36	76	10	200	41	12	18	27	1.87
1078387--1078494	37	3.0	36	80	2	108	42	12	19	25	1.87
1078409--1078668	101	2.6	101	83	3	290	39	11	18	30	1.86
1078616--1078687	37	1.9	37	82	0	90	40	9	20	29	1.85
1080147--1080353	69	3.0	69	96	0	369	27	14	21	37	1.91
1083649--1083694	9	4.9	9	79	10	56	80	0	6	13	0.89
1083776--1083833	15	3.9	15	75	20	59	72	0	5	22	1.04
1083776--1083835	16	3.8	16	79	16	63	73	0	5	21	1.02
1083794--1083857	5	12.2	5	75	18	51	73	1	3	21	1.06
1083780--1083863	44	2.0	41	83	6	105	71	1	3	23	1.09
1083824--1083881	15	3.6	16	78	19	59	68	3	3	24	1.20
1083795--1083850	24	2.3	24	78	9	60	71	1	3	23	1.11
1083782--1083865	39	2.1	40	82	10	102	71	1	3	23	1.09
1083869--1083917	25	2.0	25	84	8	64	61	2	8	28	1.36
1094373--1094425	16	3.1	18	77	22	53	43	3	0	52	1.19
1094394--1094420	2	13.5	2	100	0	54	48	0	0	51	1.00
1095990--1096124	59	2.3	59	87	10	195	35	14	11	37	1.83
1098019--1098066	24	2.0	24	100	0	96	12	25	12	50	1.75
1099313--1099341	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1100392--1100529	60	2.3	60	82	3	154	34	21	5	39	1.76
1102122--1102155	15	2.3	15	89	0	50	50	8	20	20	1.75
1118813--1118917	52	2.0	52	100	0	210	28	28	21	20	1.99
1119798--1120109	4	79.2	4	94	4	528	25	1	25	48	1.61
1120257--1120313	21	2.7	21	97	0	105	21	33	14	31	1.92
1127220--1127249	14	2.1	14	100	0	60	46	6	0	46	1.29
1127729--1127772	14	3.1	14	80	0	52	25	0	29	45	1.54
1127729--1127772	21	2.1	21	86	0	61	25	0	29	45	1.54
1127747--1127829	34	2.4	34	91	2	139	22	0	31	45	1.53
1127897--1128117	35	6.1	35	75	12	144	24	1	27	46	1.63
1127945--1128102	7	22.6	7	68	20	50	24	1	27	46	1.60
1127910--1128008	42	2.4	42	89	0	144	24	0	31	44	1.54
1127968--1128032	21	3.4	21	70	27	72	24	0	29	46	1.53
1127908--1128110	28	7.2	28	71	10	121	24	1	28	45	1.62
1128057--1128116	14	4.3	13	80	19	68	18	5	25	51	1.66
1128064--1128122	28	2.1	28	90	0	91	20	3	22	54	1.59
1128924--1128996	28	2.6	28	100	0	146	39	21	20	17	1.92
1129079--1129103	12	2.1	12	100	0	50	16	0	24	60	1.36
1131338--1131548	104	2.0	104	92	0	350	34	22	18	24	1.96
1134930--1134973	20	2.2	20	100	0	88	29	27	0	43	1.55
1135319--1135371	25	2.2	23	78	15	54	54	1	9	33	1.43
1136261--1136329	36	1.9	35	82	8	86	62	1	4	31	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1137989--1138017	14	2.1	14	100	0	58	27	0	6	65	1.18
1142407--1142457	26	2.0	26	96	0	93	41	19	17	21	1.91
1151681--1151708	12	2.3	12	100	0	56	42	0	0	57	0.99
1155863--1155917	23	2.4	23	81	0	65	32	20	7	40	1.80
1161562--1161979	206	2.0	206	99	0	827	30	14	15	39	1.87
1162752--1162793	21	2.0	20	86	4	57	38	7	2	52	1.42
1163915--1163943	14	2.1	14	100	0	58	20	0	27	51	1.47
1168026--1168089	3	22.0	3	93	6	114	67	0	0	32	0.91
1171561--1171741	89	2.0	89	100	0	362	37	11	15	36	1.83
1172540--1172596	28	2.1	27	84	9	73	40	21	14	24	1.90
1180050--1180097	18	2.9	17	78	9	55	60	2	6	31	1.33
1190578--1190727	77	1.9	77	93	0	255	34	20	14	32	1.92
1192597--1192768	85	2.0	85	100	0	344	54	16	5	23	1.64
1209523--1209582	3	21.0	3	74	16	56	60	1	0	38	1.07
1209523--1209582	8	7.4	8	78	14	61	60	1	0	38	1.07
1209710--1210345	76	8.4	76	96	1	1100	36	19	20	22	1.95
1210851--1210903	20	2.5	21	87	6	81	41	13	11	33	1.80
1212354--1212422	36	1.9	35	82	8	86	31	21	15	30	1.95
1215438--1215478	17	2.3	18	83	8	57	2	12	2	82	0.86
1222075--1222148	15	5.1	14	76	19	55	58	1	0	40	1.07
1222082--1222146	3	21.0	3	81	6	76	60	1	0	38	1.07
1222117--1222152	18	2.0	18	94	0	63	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227114--1227176	21	3.0	21	77	6	58	61	1	0	36	1.05
1228399--1228764	179	2.0	184	96	3	679	28	18	16	36	1.93
1228766--1229125	179	2.0	179	99	0	711	33	20	18	27	1.96
1233217--1233292	30	2.6	30	95	4	138	34	7	3	53	1.48
1233506--1233546	22	1.9	21	90	5	64	46	7	19	26	1.76
1237132--1237345	109	2.0	105	95	3	383	22	15	28	32	1.95
1241755--1241793	21	1.9	20	84	5	51	56	5	5	33	1.43
1247539--1247565	11	2.5	11	100	0	54	0	25	0	74	0.83
1247531--1247588	18	3.3	18	83	7	75	3	25	0	70	1.03
1249084--1249125	17	2.5	17	92	0	66	66	0	0	33	0.92

Tables:   1   2   3   4   5   6   7   8