genome.fa.s6856.2.7.7.80.10.50.1000.3.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: VEPZ01006856.1 Hibiscus syriacus cultivar Beakdansim tig00017446_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1184065

Tables:   1   2   3   4   

This is table  3  of  4  ( 400 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)
720604--720654	24	2.1	25	92	7	88	56	13	17	11	1.66
734749--734801	23	2.3	23	93	0	88	37	3	26	32	1.74
736389--736525	59	2.3	59	81	2	177	28	18	24	29	1.98
736626--736737	47	2.5	46	83	4	147	36	8	21	33	1.83
738293--738336	12	3.8	12	90	3	63	11	9	47	31	1.71
738291--738336	24	2.0	24	91	4	76	10	10	47	30	1.73
738354--738414	24	2.6	25	78	17	69	44	0	0	55	0.99
738450--738494	13	3.5	13	93	3	74	13	15	53	17	1.73
743706--743817	47	2.5	46	85	7	140	38	7	22	32	1.81
747812--747871	30	2.0	30	96	0	111	51	13	16	18	1.76
749982--750010	14	2.1	14	100	0	58	27	0	27	44	1.54
753774--753808	2	17.5	2	93	0	61	48	0	0	51	1.00
755358--755406	19	2.5	20	86	3	64	46	6	14	32	1.69
758716--758784	5	13.8	5	75	24	58	1	18	2	76	0.98
758718--758779	13	4.8	13	72	21	51	1	19	3	75	1.02
758696--758764	19	3.7	19	76	20	65	5	17	2	73	1.15
758696--758767	37	1.9	37	83	10	94	5	16	2	75	1.12
758715--758785	17	4.3	15	77	22	63	1	18	2	77	0.97
758718--758769	18	2.8	17	83	16	68	1	19	1	76	0.97
758714--758777	32	2.0	32	85	14	87	3	18	3	75	1.08
759480--759530	19	2.6	20	87	3	68	45	5	15	33	1.71
764572--764667	40	2.3	42	84	8	117	36	2	8	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
765457--765481	9	2.8	9	100	0	50	72	12	16	0	1.13
769669--769714	22	2.1	22	84	11	60	23	26	23	26	2.00
784065--784114	20	2.5	20	83	3	66	42	6	6	46	1.53
793331--793527	61	3.2	61	86	1	243	37	13	20	28	1.91
797378--797463	13	7.2	12	72	22	58	30	3	36	30	1.74
797360--797464	36	2.9	36	92	1	176	29	4	35	30	1.78
809563--809659	44	2.2	44	98	0	185	32	8	5	53	1.53
811367--811406	14	2.9	14	88	3	55	22	42	0	35	1.54
811372--811406	13	2.6	14	90	4	54	25	45	0	28	1.54
812019--812055	16	2.3	16	90	0	56	21	18	0	59	1.38
816725--817108	198	1.9	198	96	0	705	33	16	17	33	1.92
821590--821619	15	2.1	15	93	6	53	0	20	3	76	0.92
821612--821673	27	2.2	28	78	13	74	11	17	11	59	1.60
832656--832734	35	2.3	35	90	0	122	27	35	3	32	1.75
838813--838863	20	2.6	20	87	3	77	33	13	3	49	1.61
839207--839286	35	2.3	35	88	0	124	26	37	3	32	1.74
843998--844060	18	3.4	18	78	21	69	1	20	3	74	1.04
853267--853311	21	2.1	21	84	8	56	62	0	17	20	1.33
854727--854831	36	2.9	36	92	1	176	30	36	3	29	1.75
855434--855485	16	3.3	15	77	17	52	17	15	0	67	1.24
859178--859249	11	6.2	11	75	22	67	33	36	2	27	1.72
859214--859266	22	2.3	23	93	3	90	32	35	3	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
859176--859246	36	2.0	36	97	0	133	32	36	2	28	1.72
869587--869628	22	2.0	21	86	13	61	28	14	9	47	1.75
871128--871174	25	1.9	24	86	4	67	36	12	2	48	1.53
871958--872001	19	2.2	20	88	4	63	34	13	6	45	1.70
871958--872008	20	2.6	19	87	3	66	31	13	7	47	1.72
874669--874904	91	2.6	91	91	0	366	21	25	20	31	1.98
875703--875764	27	2.2	28	78	13	74	61	11	16	11	1.57
888365--888410	23	2.0	23	83	8	58	36	6	8	47	1.60
893177--893222	23	2.0	23	83	8	58	39	6	6	47	1.55
900964--901019	25	2.2	24	78	9	58	12	16	14	57	1.66
903598--903695	38	2.6	38	91	1	151	19	24	12	43	1.85
903636--904334	123	5.6	123	82	6	757	25	17	16	40	1.90
903931--904316	133	3.0	133	84	8	523	26	18	15	39	1.90
904064--904334	120	2.2	120	87	3	375	26	16	16	39	1.90
903700--904317	256	2.5	255	83	7	788	26	17	16	40	1.90
928400--928441	17	2.4	17	88	11	59	0	21	2	76	0.90
936913--937615	351	2.0	351	93	0	1201	39	14	18	27	1.90
939672--939751	35	2.2	37	88	4	119	31	36	3	28	1.75
940197--940243	14	3.1	15	75	12	51	72	6	19	2	1.17
944518--944596	35	2.2	37	88	4	117	30	36	3	29	1.75
950002--950098	36	2.7	36	95	1	169	29	5	35	29	1.79
953435--953472	14	2.6	15	79	8	51	2	15	5	76	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
953935--954020	11	7.2	12	72	22	58	30	2	36	31	1.70
953925--954021	36	2.7	36	91	1	160	29	4	35	30	1.76
960636--960670	9	3.7	9	85	14	52	91	8	0	0	0.42
960643--960672	11	2.7	11	100	0	60	93	6	0	0	0.35
965367--965408	1	42.0	1	85	0	57	92	7	0	0	0.37
965367--965408	12	3.5	12	100	0	84	92	7	0	0	0.37
970086--970122	11	3.5	11	96	3	67	91	8	0	0	0.41
970086--970122	10	3.6	10	92	7	65	91	8	0	0	0.41
980150--980204	24	2.3	25	81	6	60	32	16	21	29	1.95
984049--984089	22	1.9	21	85	5	55	26	9	9	53	1.65
985030--985072	20	2.2	20	87	4	61	34	9	6	48	1.62
985484--985538	22	2.6	21	80	11	58	23	9	0	67	1.19
989418--989502	11	7.2	11	74	22	75	32	36	2	28	1.70
989416--989519	36	2.9	36	90	4	158	32	35	2	28	1.72
990059--990099	22	1.9	21	85	5	55	41	34	2	21	1.67
991147--991199	21	2.5	22	93	3	90	0	20	0	79	0.74
991143--991170	14	2.0	14	100	0	56	0	21	0	78	0.75
991149--991195	10	4.5	10	84	7	58	0	21	0	78	0.75
997640--997669	9	3.4	9	95	4	53	73	16	10	0	1.09
999762--999812	14	3.4	15	83	8	68	0	5	9	84	0.78
999771--999795	13	1.9	13	100	0	50	0	0	4	96	0.24
1000965--1003974	809	3.7	808	95	1	5384	26	17	16	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1010174--1010203	13	2.4	13	94	5	53	26	30	0	43	1.55
1013338--1013371	12	2.8	12	95	4	59	82	0	17	0	0.67
1013395--1013441	14	3.1	15	75	12	51	72	6	19	2	1.17
1020583--1020612	13	2.4	13	94	5	53	43	0	30	26	1.55
1023674--1023729	20	2.8	20	94	5	96	39	12	5	42	1.65
1028710--1028739	13	2.4	13	94	5	53	43	0	30	26	1.55
1032593--1032696	33	3.1	33	82	9	95	30	36	1	30	1.69
1037062--1037165	33	3.1	33	82	9	95	30	36	1	30	1.69
1038443--1038493	19	2.6	20	93	3	86	43	5	13	37	1.69
1039601--1039640	21	1.9	21	84	0	53	35	22	7	35	1.82
1044373--1044476	33	3.1	33	82	9	95	30	36	1	30	1.69
1049075--1049126	19	2.6	21	84	6	72	46	7	11	34	1.69
1050796--1050900	36	2.9	36	86	0	147	28	38	3	29	1.75
1051353--1051396	12	3.8	12	78	6	54	79	4	13	2	0.98
1055270--1055373	23	4.4	23	69	23	65	28	36	4	29	1.78
1055267--1055444	36	4.9	36	90	0	275	28	36	5	29	1.80
1055270--1055411	11	12.0	11	67	23	58	28	35	5	30	1.80
1058538--1058641	23	4.4	23	69	23	65	28	36	4	29	1.78
1058536--1058712	36	4.9	36	91	0	282	28	37	5	29	1.78
1058538--1058679	11	12.0	11	67	23	58	28	35	5	30	1.80
1059159--1059204	23	2.1	22	88	8	67	82	4	10	2	0.89
1063122--1063225	23	4.4	23	69	23	65	28	36	4	29	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1063120--1063296	36	4.9	36	91	0	282	28	37	5	29	1.78
1063122--1063263	11	12.0	11	67	23	58	28	35	5	30	1.80
1065138--1065170	16	2.1	16	100	0	66	36	6	24	33	1.80
1068647--1068679	16	2.1	16	94	0	57	39	6	21	33	1.78
1069492--1069545	23	2.4	22	79	14	56	40	5	11	42	1.64
1078158--1078219	13	4.9	13	72	18	51	32	37	1	29	1.67
1078160--1078239	35	2.2	37	88	4	119	32	37	2	27	1.70
1078669--1078715	14	3.1	15	75	12	51	72	6	19	2	1.17
1081761--1081812	24	2.2	24	96	0	95	7	13	21	57	1.61
1082537--1082576	21	1.9	21	85	10	55	62	0	17	20	1.33

Tables:   1   2   3   4