genome.fa.s8802.2.7.7.80.10.50.1000.5.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: VEPZ01008802.1 Hibiscus syriacus cultivar Beakdansim tig00111952_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1147353

Tables:   1   2   3   4   5   6   

This is table  5  of  6  ( 641 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)
918831--918894	30	2.1	30	97	0	119	40	10	6	42	1.65
920320--920344	12	2.1	12	100	0	50	84	0	0	16	0.63
921527--923028	80	18.4	80	85	4	1656	24	18	23	33	1.97
921527--923038	163	9.2	163	85	3	1776	24	18	23	33	1.97
924296--924351	29	2.0	29	85	3	78	5	16	3	75	1.13
924319--924374	25	2.3	24	82	11	69	3	17	1	76	1.01
927132--927201	23	3.0	23	81	8	88	27	34	20	18	1.96
927355--927392	16	2.4	16	86	8	51	57	7	5	28	1.49
927747--927771	12	2.1	12	100	0	50	84	0	0	16	0.63
928473--928512	20	2.1	19	85	4	53	12	5	15	67	1.38
930184--930224	3	13.7	3	100	0	82	31	34	0	34	1.58
931141--931183	17	2.6	16	81	7	50	53	2	0	44	1.13
934351--934442	24	3.7	24	83	16	132	47	0	1	51	1.07
934343--934414	14	5.7	13	68	15	53	44	0	1	54	1.08
934352--934467	52	2.2	53	92	4	191	44	0	1	53	1.10
934964--935023	31	1.9	31	93	0	102	43	10	6	40	1.64
938787--938833	22	2.1	22	84	4	58	38	23	12	25	1.90
943366--943407	22	1.9	22	90	0	66	28	14	19	38	1.90
944899--944969	34	2.1	33	89	2	106	23	28	15	32	1.95
945334--945409	21	3.7	21	92	1	127	27	17	35	19	1.94
945472--945529	21	2.8	21	94	0	98	25	17	34	22	1.96
945610--945669	30	2.0	30	93	0	102	45	18	5	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
946941--946988	19	2.5	20	82	3	62	29	12	6	52	1.63
947830--947900	34	2.1	33	86	2	97	22	28	15	33	1.95
948265--948458	8	25.8	8	64	24	50	26	17	32	24	1.96
948265--948340	21	3.7	21	92	1	127	28	15	35	19	1.93
948403--948460	21	2.8	21	97	0	107	25	18	34	20	1.96
948542--948601	30	2.0	30	96	0	111	45	20	5	30	1.72
948956--949010	26	2.2	25	80	9	58	5	18	3	72	1.18
950793--951132	81	4.2	81	91	0	545	28	22	12	36	1.91
953505--953557	23	2.5	20	78	18	63	35	15	32	16	1.90
958331--958400	34	2.0	35	91	2	115	24	5	14	55	1.60
961719--962196	57	8.4	57	90	0	724	36	10	18	33	1.86
961713--962261	171	3.2	170	86	4	723	36	10	18	34	1.86
962935--963049	45	2.6	45	88	5	162	46	6	21	25	1.76
966328--966364	19	1.9	19	89	10	58	2	40	0	56	1.13
967757--967861	19	5.7	19	75	17	96	20	20	35	23	1.96
967759--967861	36	2.9	34	83	11	127	21	20	33	24	1.97
967811--967861	17	2.8	19	91	5	79	17	17	41	23	1.90
970351--970419	21	3.3	21	80	8	77	23	13	27	36	1.92
970349--970448	42	2.4	42	81	1	103	25	16	23	36	1.94
972017--972091	30	2.5	30	85	8	107	49	10	12	28	1.73
987241--987438	2	100.5	2	75	17	148	52	4	1	42	1.28
987884--987922	13	3.0	13	84	0	51	28	23	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
989432--989498	30	2.2	30	100	0	134	56	10	16	16	1.66
993477--993596	41	2.9	40	74	7	107	31	20	10	37	1.87
993700--993917	41	5.3	41	86	3	287	30	21	15	33	1.94
995945--995995	20	2.6	20	90	3	77	47	9	13	29	1.75
996681--996719	21	1.9	20	84	5	51	41	7	12	38	1.72
1006876--1006967	44	2.1	42	84	13	125	35	17	18	28	1.93
1006999--1007208	41	5.1	41	90	2	307	33	16	16	33	1.91
1006999--1007208	81	2.6	82	90	4	300	33	16	16	33	1.91
1009695--1009728	2	17.0	2	93	0	59	52	0	0	47	1.00
1009698--1009738	8	5.4	8	88	8	50	60	0	0	39	0.96
1011286--1011327	3	13.7	3	80	14	50	64	0	0	35	0.94
1011278--1011321	22	2.0	22	86	8	63	63	0	2	34	1.07
1011286--1011327	14	2.9	15	80	13	52	64	0	0	35	0.94
1011675--1012027	136	2.6	136	92	0	593	27	22	18	32	1.97
1012039--1012480	90	4.9	90	91	2	676	32	21	20	25	1.97
1012039--1012486	181	2.5	181	91	2	717	32	20	20	25	1.97
1012529--1012932	43	9.1	43	82	10	445	30	27	14	27	1.95
1012481--1012814	141	2.4	140	89	3	485	30	29	13	26	1.94
1012677--1012932	130	2.0	129	86	3	363	30	27	14	26	1.95
1012991--1013272	36	8.0	36	84	4	333	35	16	23	24	1.95
1013140--1013228	15	5.5	15	75	15	88	34	19	25	20	1.96
1013191--1013249	21	3.1	21	65	25	58	33	18	25	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1013173--1013433	39	6.8	39	82	4	230	37	15	19	27	1.92
1013213--1013433	119	1.9	116	83	4	282	37	14	18	28	1.91
1013810--1013925	34	3.4	34	90	0	169	35	12	19	32	1.89
1014032--1014131	32	3.1	32	89	2	146	33	22	14	31	1.93
1015955--1015990	14	2.6	14	91	4	56	2	11	0	86	0.68
1015955--1016001	12	3.6	13	85	8	60	6	10	0	82	0.82
1018411--1018468	27	2.1	27	96	0	107	51	12	20	15	1.75
1018420--1018468	12	3.8	13	80	17	57	48	12	22	16	1.79
1019938--1019990	27	1.9	28	92	3	90	60	11	11	16	1.59
1022952--1022995	3	14.7	3	90	9	72	63	0	0	36	0.95
1023342--1023697	136	2.6	136	89	0	545	26	22	18	32	1.97
1023709--1024150	90	4.9	90	90	1	683	32	22	19	24	1.98
1023709--1024150	181	2.5	180	92	1	719	32	22	19	24	1.98
1024728--1024783	3	18.7	3	92	7	96	64	0	0	35	0.94
1025129--1025483	136	2.6	137	90	2	565	27	21	18	32	1.97
1025512--1025936	90	4.7	90	92	1	692	32	22	20	24	1.97
1025512--1025936	181	2.4	181	94	1	730	32	22	20	24	1.97
1026514--1026568	3	18.7	3	89	10	87	63	0	0	36	0.95
1026516--1026568	23	2.3	23	96	3	97	64	0	0	35	0.94
1026514--1026560	20	2.4	20	96	3	87	63	0	0	36	0.94
1028965--1029030	23	2.9	23	88	0	96	37	19	18	24	1.93
1030185--1030214	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1031556--1031609	21	2.6	21	96	0	99	51	0	25	22	1.48
1040677--1041086	81	5.1	81	88	2	556	30	22	12	34	1.91
1041190--1041390	109	1.8	110	93	1	350	34	17	9	38	1.82
1041190--1041390	55	3.7	55	92	0	332	34	17	9	38	1.82
1045894--1046546	81	8.1	81	90	1	898	30	21	11	35	1.90
1046654--1046965	55	5.7	55	90	2	450	33	17	10	37	1.85
1046654--1046965	108	2.9	108	90	1	462	33	17	10	37	1.85
1046654--1046956	163	1.9	163	90	0	489	34	17	10	37	1.84
1050906--1050942	18	2.0	19	94	5	67	24	10	0	64	1.25
1055348--1055419	30	2.4	30	83	0	90	33	13	25	27	1.94
1055431--1055590	29	5.6	29	76	6	146	41	20	21	16	1.90
1055431--1055590	58	2.8	58	86	2	216	41	20	21	16	1.90
1056273--1056309	12	2.9	13	92	8	67	21	16	37	24	1.93
1057617--1057679	30	2.1	31	81	3	74	41	9	20	28	1.84
1059429--1059458	15	1.9	16	93	6	53	76	0	6	16	0.99
1061037--1061074	18	2.2	18	90	4	60	0	13	0	86	0.56
1061037--1061074	9	4.2	9	80	12	51	0	13	0	86	0.56
1063171--1063373	107	1.9	108	97	1	390	36	9	17	35	1.83
1063164--1063375	55	3.9	55	94	3	385	36	10	17	35	1.84
1063632--1063671	21	2.0	20	90	5	62	55	0	0	45	0.99
1063658--1063733	14	5.6	13	72	17	57	43	2	2	51	1.29
1063700--1063759	13	4.5	13	79	8	59	50	5	0	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063760--1063848	40	2.2	41	77	16	107	49	0	4	46	1.22
1063773--1063872	40	2.6	38	84	7	121	50	1	3	46	1.23
1065312--1065942	2	331.5	2	70	10	313	1	61	0	36	1.09
1068489--1068612	64	2.0	63	85	7	171	43	4	6	45	1.51
1068601--1068687	33	2.5	33	78	12	95	44	5	4	44	1.48
1069657--1069810	55	2.7	57	79	6	152	38	5	11	44	1.62
1069657--1069814	56	2.8	56	80	4	176	37	5	11	44	1.64
1077140--1077207	19	3.6	19	80	4	75	20	22	19	38	1.94
1078524--1078572	24	2.0	24	84	8	62	40	4	10	44	1.57
1094451--1094484	2	17.0	2	100	0	68	50	0	0	50	1.00

Tables:   1   2   3   4   5   6