genome.fa.s7923.2.7.7.80.10.50.1000.4.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   

This is table  4  of  40  ( 4704 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)
834697--834751	11	5.1	11	75	18	53	49	0	3	47	1.19
836360--836440	29	2.9	28	87	7	119	30	14	9	44	1.78
841119--841200	29	2.8	29	94	1	137	32	14	9	42	1.79
857312--857444	44	3.0	44	97	0	248	27	21	29	22	1.99
857360--857429	20	3.3	20	67	21	61	27	24	31	17	1.97
857340--857409	24	3.1	24	66	21	69	27	21	30	21	1.98
857423--857492	32	2.2	32	94	2	122	34	28	14	22	1.93
860374--860405	15	2.1	15	94	0	55	56	0	0	43	0.99
861720--861751	3	10.7	3	93	0	55	37	0	0	62	0.95
862037--862076	18	2.2	19	86	4	55	45	0	0	55	0.99
862789--862968	90	2.0	90	93	2	308	33	10	16	38	1.83
869790--869830	10	4.2	10	90	6	66	34	0	0	65	0.93
869765--869823	19	3.1	19	76	16	59	27	0	0	72	0.84
869785--869827	3	14.0	3	81	13	52	32	0	0	67	0.91
869799--869840	19	2.2	19	87	8	59	38	2	0	59	1.10
872618--872660	16	2.6	16	85	7	52	32	4	4	58	1.39
884382--884467	43	2.0	43	81	6	102	26	30	19	23	1.98
884745--884774	14	2.1	14	93	6	51	16	0	0	83	0.65
884745--884785	20	2.0	21	85	4	57	21	0	0	78	0.76
884767--884807	10	4.2	10	90	6	57	31	0	0	68	0.90
884747--884803	15	3.7	14	78	17	51	26	0	0	73	0.83
884776--884817	19	2.2	19	83	8	50	35	2	0	61	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
884762--884810	25	2.0	26	84	8	66	30	0	0	69	0.89
887574--887616	16	2.6	16	85	7	52	32	4	4	58	1.39
888214--888264	24	2.0	25	88	7	77	23	0	5	70	1.09
893441--893563	59	2.1	59	80	7	142	34	10	12	42	1.77
893492--893586	29	3.2	30	73	14	81	40	10	9	40	1.72
893450--893571	60	2.1	58	85	3	163	35	9	11	44	1.72
899947--900033	45	1.9	45	100	0	174	31	20	17	31	1.96
904958--904987	2	15.0	2	100	0	60	50	0	0	50	1.00
909073--909143	20	3.5	20	92	0	115	45	9	19	25	1.81
914088--914131	16	2.7	18	76	20	51	56	2	2	38	1.24
914077--914135	24	2.6	23	76	12	59	59	1	1	37	1.18
914371--914428	25	2.3	25	75	0	62	37	10	17	34	1.84
936070--936105	2	17.5	2	94	5	63	50	0	2	47	1.15
936315--936339	2	12.5	2	100	0	50	48	0	0	52	1.00
941251--941292	15	2.8	15	78	7	50	66	2	0	30	1.04
942903--942954	6	8.7	6	97	0	95	13	0	50	36	1.42
944595--944666	22	3.4	21	73	11	67	16	16	26	40	1.90
944618--944685	19	3.4	19	71	11	64	19	16	22	42	1.89
944595--944688	41	2.3	41	92	0	161	18	17	24	40	1.91
945422--945491	19	3.5	19	72	11	68	42	20	17	20	1.89
945419--945512	22	4.6	21	70	11	70	41	21	17	20	1.90
945419--945511	41	2.3	41	92	0	150	41	21	16	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
945518--945586	20	3.4	20	76	4	75	40	21	21	15	1.91
947217--947261	20	2.2	20	92	0	72	42	13	0	44	1.43
949091--949124	12	2.6	13	90	9	52	20	2	0	76	0.92
955588--955631	23	1.9	23	95	0	79	45	11	9	34	1.72
962835--962866	2	16.5	2	93	6	57	50	0	50	0	1.00
968170--968201	14	2.1	16	88	11	50	68	6	12	12	1.37
978384--978424	21	2.0	21	90	0	64	43	19	4	31	1.72
986033--986137	39	2.7	39	84	1	147	23	15	10	50	1.75
986420--986453	2	17.0	2	100	0	68	50	0	0	50	1.00
993032--993071	20	1.9	22	90	10	66	40	17	17	25	1.91
993189--993681	71	7.0	70	81	5	514	26	11	18	43	1.84
1009740--1009786	20	2.4	19	79	10	58	55	8	17	19	1.67
1012078--1012143	33	2.0	33	87	0	96	28	1	45	24	1.62
1013928--1013971	19	2.4	19	92	3	72	31	2	9	56	1.43
1014051--1015862	199	9.1	199	96	1	3319	37	15	15	31	1.88
1014051--1015862	397	4.6	398	96	2	3319	37	15	15	31	1.88
1017311--1017378	21	3.4	18	69	21	55	36	8	35	19	1.83
1017311--1017408	6	16.3	6	80	0	70	36	7	34	21	1.81
1017326--1017412	3	29.0	3	77	0	84	35	5	34	24	1.79
1017314--1017404	42	2.2	42	91	0	146	35	7	35	21	1.83
1017311--1017408	18	5.4	18	78	0	88	36	7	34	21	1.81
1018840--1019678	179	4.7	183	94	3	1458	35	14	15	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1018840--1019678	362	2.3	362	94	3	1466	35	14	15	34	1.89
1022199--1022259	22	2.7	23	85	5	72	36	6	19	37	1.78
1022220--1022269	22	2.2	23	86	10	68	36	2	18	44	1.61
1023055--1023096	21	1.9	23	90	9	70	33	4	16	45	1.69
1023295--1023329	18	1.9	18	88	0	52	31	5	11	51	1.61
1046166--1046210	21	2.2	21	88	4	65	48	2	11	37	1.51
1053116--1053180	7	9.4	7	77	14	64	84	3	12	0	0.73
1053118--1053174	13	4.3	13	79	16	55	84	3	12	0	0.75
1053124--1053176	13	4.0	13	80	11	63	86	3	9	0	0.68
1053115--1053187	35	2.1	35	89	2	112	82	5	12	0	0.83
1053116--1053176	11	5.2	12	76	9	63	85	3	11	0	0.72
1053131--1053180	21	2.4	21	86	0	73	86	4	10	0	0.71
1053126--1053201	19	3.8	20	78	16	70	81	5	11	1	0.91
1053116--1053189	11	6.7	11	76	16	55	82	4	13	0	0.81
1053799--1053847	22	2.2	22	92	0	80	36	28	8	26	1.85
1055444--1055592	43	3.5	42	66	15	115	34	24	19	21	1.96
1055544--1055984	106	4.2	106	91	1	661	33	24	19	23	1.97
1056909--1056943	3	11.7	3	87	0	52	25	0	0	74	0.82
1056908--1056946	6	6.5	6	93	0	51	23	0	0	76	0.78
1056908--1056946	12	3.2	12	88	0	60	23	0	0	76	0.78
1058136--1058163	10	2.8	10	100	0	56	25	0	0	75	0.81
1058808--1059014	45	4.6	45	93	1	353	41	1	13	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065715--1065741	4	6.8	4	100	0	54	77	0	0	22	0.76
1065731--1065789	29	2.0	29	90	6	93	55	3	10	30	1.49
1066940--1066981	17	2.5	17	88	7	59	80	0	2	16	0.81
1066940--1066981	20	2.2	19	86	4	57	80	0	2	16	0.81
1066953--1066994	15	3.0	14	80	10	50	78	2	0	19	0.86
1066943--1067000	26	2.2	26	82	8	73	79	1	1	17	0.90
1066957--1067000	16	2.7	16	82	3	52	81	2	0	15	0.78
1067032--1067266	35	6.8	36	78	15	230	44	10	3	41	1.56
1067049--1067248	35	5.9	35	80	16	235	44	9	3	43	1.52
1067117--1067176	24	2.5	24	84	7	79	48	8	1	41	1.43
1067085--1067211	59	2.2	59	92	4	213	46	7	2	43	1.45
1067197--1067224	14	2.0	14	100	0	56	42	7	7	42	1.59
1067138--1067248	37	3.0	37	84	9	147	44	9	3	43	1.53
1067290--1067358	30	2.2	30	80	15	77	36	7	17	39	1.77
1067438--1067557	21	5.7	21	84	9	156	22	37	19	20	1.94
1067438--1067559	42	2.9	43	89	4	178	22	37	18	21	1.94
1067578--1067723	21	7.0	21	87	3	190	21	25	26	26	2.00
1067817--1067856	20	1.9	21	85	10	55	37	37	10	15	1.80
1068375--1068483	37	2.8	39	79	9	114	44	12	4	38	1.64
1068497--1068584	39	2.3	38	86	5	124	47	9	1	42	1.42
1068375--1068602	124	1.8	123	80	11	273	45	10	3	41	1.53
1069976--1070121	21	6.9	22	77	12	119	22	21	21	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1069983--1070121	42	3.3	42	79	7	156	23	21	21	33	1.97
1069982--1070108	65	2.0	64	90	6	202	21	20	22	36	1.95
1070974--1071024	21	2.5	19	79	17	57	41	19	19	19	1.91
1070993--1071089	21	4.7	20	83	3	86	36	22	19	21	1.95
1072106--1072174	34	2.0	34	94	0	120	34	27	1	36	1.66
1072285--1072339	21	2.6	21	88	2	83	40	18	12	29	1.87
1074886--1074927	7	5.9	7	88	5	66	66	0	0	33	0.92
1083999--1084044	19	2.3	20	81	7	58	28	28	17	26	1.98
1084123--1084215	21	4.5	21	78	4	100	39	18	24	17	1.91
1084123--1084215	41	2.3	41	100	0	186	39	18	24	17	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40