genome.fa.s9000.2.7.7.80.10.50.1000.5.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: VEPZ01009000.1 Hibiscus syriacus cultivar Beakdansim tig00112382_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742898

Tables:   1   2   3   4   5   6   7   8   9   

This is table  5  of  9  ( 1003 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)
840032--840068	19	1.9	19	88	0	56	32	10	29	27	1.90
843999--844028	12	2.5	12	94	0	51	30	10	10	50	1.69
848014--849619	802	2.0	802	100	0	3212	41	10	10	36	1.75
858708--858773	22	3.3	20	78	16	66	40	0	1	57	1.08
858718--858770	20	2.6	22	80	16	62	39	0	1	58	1.09
861419--861446	14	2.0	14	100	0	56	50	14	0	35	1.43
861522--861564	13	3.2	13	74	6	50	53	13	13	18	1.73
861864--861921	16	3.5	17	76	6	57	77	3	0	18	0.91
861864--861929	32	2.1	32	85	5	89	75	3	1	19	1.01
865182--865253	36	2.0	36	100	0	144	22	19	19	38	1.93
867106--867149	19	2.3	19	84	7	54	31	0	4	63	1.14
873068--873348	66	4.3	67	84	1	336	29	19	12	38	1.89
873068--873314	67	3.7	67	86	1	320	28	19	12	39	1.89
873089--873365	133	2.1	131	84	3	349	29	19	12	37	1.89
873342--873425	36	2.3	37	81	4	98	36	20	8	34	1.83
875078--875122	18	2.5	19	79	17	51	31	0	6	62	1.21
886954--887010	29	2.0	29	85	0	78	43	8	17	29	1.79
889705--889814	58	1.9	56	87	3	157	27	18	29	25	1.98
890764--890873	53	2.1	53	89	0	166	29	16	23	30	1.96
892140--892188	22	2.2	22	85	7	64	24	0	8	67	1.18
901307--901355	22	2.2	23	85	10	66	48	8	2	40	1.44
903692--903725	16	2.1	16	88	0	50	32	20	2	44	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
907935--908526	225	2.7	226	85	3	756	38	12	16	32	1.86
908532--908859	130	2.5	131	80	5	366	32	12	12	43	1.79
909071--909441	179	2.1	178	82	1	447	35	14	12	38	1.83
909249--909734	200	2.4	198	82	5	584	34	12	14	37	1.85
915910--915971	23	2.9	21	85	7	81	22	35	24	17	1.95
923767--923816	12	4.2	12	84	0	73	6	38	0	56	1.24
926632--926832	68	2.9	69	96	1	386	44	17	13	24	1.84
932392--932482	32	2.8	32	88	5	121	59	5	16	18	1.56
932654--932713	31	1.9	31	83	6	77	36	8	5	50	1.55
933107--933197	47	2.0	46	97	2	173	43	13	7	35	1.72
935277--935308	14	2.4	14	94	5	57	68	0	3	28	1.04
935280--935315	14	2.5	15	81	9	56	61	0	2	36	1.11
937875--937920	16	2.8	16	90	3	65	8	13	34	43	1.74
938320--938363	21	2.1	21	83	8	54	54	9	0	36	1.32
938644--938673	11	2.7	11	100	0	60	26	0	36	36	1.57
939212--939249	10	3.9	10	86	6	60	47	0	0	52	1.00
939213--939251	9	4.2	9	83	6	51	46	0	0	53	1.00
939212--939248	19	2.0	19	94	5	67	45	0	0	54	1.00
944055--944107	15	3.5	15	84	0	61	11	62	15	11	1.55
944056--944113	30	1.9	30	89	0	89	12	62	13	12	1.56
944065--944115	15	3.4	15	83	0	66	13	60	13	11	1.59
949246--949351	55	1.9	55	88	0	158	30	7	17	44	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
952666--953016	158	2.2	158	84	2	443	35	16	18	29	1.93
953170--953255	30	2.8	30	77	11	77	44	6	17	31	1.75
958433--959220	393	2.0	394	99	0	1551	27	10	7	54	1.61
960346--960394	25	1.9	26	87	4	73	32	6	24	36	1.80
960358--960522	73	2.2	76	83	3	201	32	10	18	38	1.85
960677--960905	71	3.2	70	79	3	262	32	17	22	27	1.96
965844--965877	18	1.9	18	88	5	52	44	0	0	55	0.99
966436--966597	38	4.5	37	72	24	118	43	0	8	48	1.32
966466--966511	23	2.0	24	95	4	85	47	0	6	45	1.28
966436--966565	63	2.0	64	92	5	219	43	0	8	47	1.33
966465--966523	25	2.4	25	86	13	86	44	0	8	47	1.33
966489--966634	37	3.8	38	82	8	163	45	0	8	44	1.40
966456--966602	65	2.3	63	82	8	154	45	0	8	46	1.33
966611--966703	24	4.0	23	74	12	82	43	3	10	43	1.55
967034--967367	167	2.0	166	89	2	510	42	21	20	15	1.88
967589--967636	11	4.5	11	80	14	57	43	2	0	54	1.12
967589--967629	13	3.4	12	81	18	50	46	2	0	51	1.14
968817--968859	15	2.9	15	76	13	52	37	4	0	58	1.19
969543--969576	11	3.1	11	100	0	68	17	0	8	73	1.08
976423--976558	36	3.6	36	76	13	123	35	18	24	22	1.96
976941--976981	9	4.8	9	80	20	52	43	0	0	56	0.99
978129--978171	15	2.9	15	76	13	52	34	4	2	58	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978983--979044	5	11.6	5	79	19	56	20	3	0	75	0.94
978988--979044	17	3.5	15	76	19	53	21	3	0	75	0.95
982976--983015	21	1.9	21	89	0	62	55	7	7	30	1.56
986832--986890	21	2.8	21	78	2	64	27	30	23	18	1.98
994413--994490	22	3.5	23	74	8	81	20	12	2	64	1.40
994406--994490	44	1.9	44	92	0	143	21	14	2	62	1.43
999683--999716	2	17.5	2	93	6	61	52	0	0	47	1.00
999638--999756	54	2.2	53	86	7	161	46	3	5	44	1.44
999699--999806	40	2.7	39	86	8	139	44	4	9	41	1.57
999777--999830	25	2.2	25	90	6	83	48	5	9	37	1.59
999742--999881	57	2.3	60	84	11	171	42	5	10	42	1.60
999909--999963	14	3.9	14	77	13	51	23	1	0	74	0.91
999911--999968	20	3.0	18	79	16	62	22	1	0	75	0.89
1001124--1001164	20	2.1	20	86	13	59	19	12	0	68	1.21
1001195--1001240	23	2.0	22	84	12	58	17	4	0	78	0.91
1001278--1001316	15	2.6	16	84	12	55	25	10	0	64	1.25
1002073--1002128	26	2.1	27	93	3	96	19	5	37	37	1.75
1002931--1002988	23	2.5	23	100	0	116	27	10	3	58	1.47
1004711--1004760	23	2.4	19	73	20	55	50	0	10	40	1.36
1004711--1004765	21	2.6	20	74	20	58	49	1	9	40	1.45
1005023--1005128	39	2.7	38	78	16	119	44	2	17	34	1.64
1009539--1009662	60	2.1	60	82	0	149	37	17	13	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010331--1010384	22	2.3	23	78	18	58	48	0	0	51	1.00
1015492--1015533	22	1.9	22	85	0	57	61	7	9	21	1.50
1033533--1033758	110	2.1	110	94	2	402	42	7	7	41	1.62
1035037--1035107	3	23.7	3	80	5	81	61	0	0	38	0.96
1035257--1036047	76	10.4	76	96	1	1442	34	22	21	21	1.97
1042088--1042129	2	21.0	2	100	0	84	50	0	0	50	1.00
1046977--1047203	110	2.1	111	96	1	422	42	7	7	41	1.63
1048029--1048069	21	2.0	21	85	4	57	0	21	21	56	1.43
1048487--1048557	3	23.7	3	80	5	81	61	0	0	38	0.96
1049891--1050019	39	3.1	39	73	20	134	54	6	9	30	1.57
1049851--1050019	86	2.0	87	97	1	322	52	6	7	33	1.54
1051268--1051325	26	2.2	27	84	3	73	63	6	0	29	1.20
1051529--1051586	28	2.1	28	90	3	91	41	8	10	39	1.70
1052205--1052231	2	13.5	2	100	0	54	48	0	0	51	1.00
1058581--1058734	77	2.0	78	85	10	208	39	10	6	43	1.65
1063191--1063242	20	2.5	21	81	12	63	28	19	19	32	1.96
1072080--1072177	46	2.2	46	78	8	107	34	10	22	32	1.88
1081756--1081792	12	2.8	13	88	12	58	64	0	21	13	1.27
1081781--1081832	24	2.3	23	80	16	63	78	0	17	3	0.89
1081783--1081832	22	2.2	22	86	10	66	80	0	16	4	0.87
1083002--1083560	111	5.0	111	93	1	888	30	22	17	29	1.96
1082998--1083560	220	2.5	222	92	0	932	30	22	17	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1089789--1089844	3	18.3	3	96	3	103	64	0	0	35	0.94
1090033--1090519	131	3.7	131	80	1	501	26	17	30	25	1.97
1090033--1090519	262	1.8	264	82	4	617	26	17	30	25	1.97
1090589--1090648	32	1.9	31	86	3	84	43	10	15	31	1.79
1090630--1090754	65	2.0	62	84	4	160	41	12	14	32	1.82
1090618--1090775	62	2.5	64	77	7	180	43	12	13	31	1.80
1090936--1091031	32	3.0	32	92	0	147	29	25	14	31	1.95
1092064--1092151	11	7.9	11	75	16	67	3	14	3	78	1.02
1092079--1092126	14	3.5	14	77	13	55	2	14	4	79	0.98
1092070--1092169	25	3.8	24	72	18	67	3	15	5	77	1.07

Tables:   1   2   3   4   5   6   7   8   9