genome.fa.s8225.2.7.7.80.10.50.1000.6.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: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890193

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  6  of  10  ( 1082 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)
852017--852070	26	2.2	26	86	6	76	61	1	3	33	1.25
852017--852087	24	2.9	25	79	10	76	61	1	5	30	1.27
852553--852589	2	18.5	2	100	0	74	51	0	0	48	1.00
855870--855897	2	14.0	2	100	0	56	50	0	0	50	1.00
856173--856204	16	2.0	16	93	0	55	40	0	6	53	1.26
856768--856824	28	2.0	28	93	0	96	42	15	15	26	1.87
865492--865626	70	1.9	70	92	0	225	47	8	9	34	1.66
868194--868243	22	2.3	22	100	0	100	28	32	22	18	1.97
873532--873717	29	6.3	29	78	9	171	33	3	19	43	1.67
881027--881157	30	4.5	29	79	3	102	37	4	16	41	1.68
881014--881199	59	3.2	57	77	7	194	34	3	17	44	1.67
881014--881206	29	6.6	29	79	5	174	34	3	17	44	1.66
885146--885202	19	2.9	19	75	14	62	66	1	8	22	1.29
885286--885345	21	2.8	20	76	18	59	68	0	3	28	1.05
885292--885398	22	4.9	21	69	18	76	62	0	4	31	1.22
885359--885395	19	2.0	18	89	5	56	62	2	5	29	1.31
885604--885650	23	2.0	23	84	15	62	70	0	2	27	0.99
885648--885676	8	3.6	8	100	0	58	51	10	0	37	1.36
886075--886178	37	2.8	37	91	0	154	30	13	14	41	1.84
886922--888197	106	12.0	106	92	0	2003	23	18	24	33	1.96
889807--889854	13	3.3	15	77	16	57	4	10	4	81	0.97
894099--894156	21	2.8	21	80	12	57	70	1	8	18	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
894452--894576	32	3.9	32	69	16	89	65	1	3	29	1.17
894528--894576	18	2.7	18	77	3	53	63	0	0	36	0.95
894968--895060	37	2.5	37	85	0	114	31	13	12	41	1.83
895825--895877	21	2.5	21	87	0	79	20	24	18	35	1.95
895899--895952	20	2.7	20	88	0	90	29	22	18	29	1.97
899255--899423	20	8.4	20	89	1	259	33	24	23	18	1.97
899415--899491	34	2.3	34	90	4	120	45	19	22	12	1.84
899506--899591	34	2.5	34	88	3	120	12	20	18	47	1.81
899708--899744	14	2.6	14	86	0	56	48	21	0	29	1.50
901131--901223	42	2.2	42	80	3	107	22	17	39	20	1.92
901703--901831	20	6.4	20	88	1	143	39	22	17	20	1.92
901890--901942	20	2.7	20	90	0	88	16	16	22	43	1.88
901981--902018	20	1.9	20	94	0	67	18	18	21	42	1.90
901916--902009	33	2.8	34	78	3	109	15	18	20	45	1.85
903617--903656	20	2.0	20	95	0	71	57	20	12	10	1.63
903617--903666	20	2.5	20	86	0	55	54	24	10	12	1.67
903638--903711	33	2.2	34	83	7	89	45	25	17	10	1.81
904319--904364	21	2.2	21	88	0	65	39	19	23	17	1.92
915264--916062	400	2.0	399	99	0	1573	39	12	15	31	1.85
919265--919654	192	2.0	197	97	2	745	32	14	18	34	1.91
921188--921249	22	2.7	23	92	2	99	37	20	4	37	1.75
928011--928105	21	4.6	21	74	10	88	36	26	18	17	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
929762--929818	29	2.0	30	86	13	84	42	7	10	40	1.66
931418--931466	25	2.0	25	88	8	73	34	8	0	57	1.29
931765--931804	18	2.3	18	91	4	64	62	7	5	25	1.42
933551--933603	26	2.0	26	82	13	65	47	9	0	43	1.36
951529--951554	2	13.0	2	100	0	52	50	0	0	50	1.00
952720--952874	66	2.3	66	94	0	265	27	11	21	39	1.88
959798--959826	2	14.5	2	100	0	58	48	0	0	51	1.00
961655--961690	14	2.6	14	95	0	63	19	25	11	44	1.83
962701--962768	28	2.5	27	73	4	66	17	14	10	57	1.65
965174--965282	1	109.0	1	74	0	83	86	0	11	1	0.70
965174--965268	8	11.4	8	82	12	104	87	1	11	0	0.60
965176--965277	10	9.7	10	82	12	107	86	0	11	0	0.68
965174--965282	27	4.2	25	84	12	130	86	0	11	1	0.70
966807--966862	28	2.0	28	93	6	96	28	25	25	21	1.99
968155--968641	40	12.2	40	94	0	796	29	16	12	41	1.85
968155--968741	40	14.9	40	91	2	616	29	16	12	40	1.86
968632--968775	36	3.9	36	89	2	180	27	18	14	40	1.89
968779--968892	36	3.2	36	80	6	115	26	20	14	38	1.91
968912--968993	28	2.9	28	82	10	112	31	14	14	39	1.87
968969--969193	61	3.7	61	90	0	344	30	16	14	39	1.88
969467--969530	20	3.2	20	65	12	51	40	12	21	25	1.88
969546--969887	136	2.6	135	86	5	473	33	16	22	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
970255--970288	3	11.7	3	87	6	52	38	0	0	61	0.96
971764--971789	12	2.2	12	100	0	52	15	0	0	84	0.62
972028--972056	2	14.5	2	100	0	58	48	0	0	51	1.00
972125--972179	2	27.5	2	100	0	110	49	0	0	50	1.00
972318--972375	23	2.5	23	88	0	89	31	15	12	41	1.84
974104--974131	3	9.3	3	100	0	56	32	0	0	67	0.91
977083--977141	28	2.1	27	81	3	64	55	18	0	25	1.42
987415--987472	27	2.2	25	82	11	64	37	1	5	55	1.33
998421--998459	16	2.4	17	86	8	62	15	5	23	56	1.59
998427--998459	16	2.1	16	100	0	66	12	6	24	57	1.57
1001704--1001734	3	10.3	3	100	0	62	0	35	0	64	0.94
1005809--1005845	14	2.5	15	91	8	58	54	0	0	45	1.00
1005961--1006010	20	2.5	20	86	0	64	32	16	26	26	1.96
1010043--1010191	3	51.0	3	85	5	207	34	3	0	61	1.12
1010189--1010247	9	6.8	9	75	12	52	69	0	0	30	0.89
1010190--1010247	17	3.4	16	77	15	62	70	0	0	29	0.87
1010194--1010248	24	2.5	21	82	11	65	70	0	0	29	0.87
1010708--1010745	19	2.1	19	95	5	69	78	5	15	0	0.91
1011844--1011896	17	3.1	18	72	10	56	54	0	5	39	1.24
1022967--1023014	11	4.2	11	94	5	78	87	0	12	0	0.54
1022970--1023016	12	3.9	12	88	5	69	87	0	12	0	0.55
1023346--1023387	19	2.2	20	91	4	68	30	4	11	52	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024171--1024639	52	9.1	52	95	1	847	25	14	23	36	1.93
1024583--1024826	83	3.0	83	91	0	409	28	11	22	36	1.90
1025440--1025871	113	3.8	113	94	1	706	38	14	20	27	1.91
1026124--1026275	3	50.7	3	91	0	250	33	3	0	63	1.11
1026274--1026318	20	2.3	19	84	3	54	62	2	0	35	1.08
1026791--1026833	21	2.0	21	86	9	59	74	6	18	0	1.04
1026797--1026835	19	2.2	18	90	9	62	76	7	15	0	0.99
1027948--1028000	17	3.1	18	72	10	56	54	0	5	39	1.24
1028784--1028832	21	2.3	22	79	10	57	32	0	0	67	0.91
1029303--1029356	16	3.4	16	86	0	81	31	0	0	68	0.90
1029298--1029359	23	2.9	22	81	13	76	33	0	0	66	0.92
1029299--1029368	32	2.2	32	89	2	106	37	0	0	62	0.95
1031532--1031565	3	11.3	3	100	0	68	67	0	0	32	0.91
1039497--1039615	38	3.1	38	100	0	238	28	10	10	50	1.70
1044590--1044627	19	2.0	20	84	5	51	52	2	5	39	1.38
1048652--1048715	31	2.1	31	96	0	119	45	15	4	34	1.67
1055686--1056575	445	2.0	445	98	0	1717	32	16	16	34	1.92
1059127--1059227	4	25.0	4	73	10	64	69	2	7	19	1.27
1059163--1059238	16	4.6	17	76	14	61	72	2	9	15	1.21
1059491--1059515	2	12.5	2	100	0	50	48	0	0	52	1.00
1059629--1059676	2	24.0	2	95	0	87	50	2	0	47	1.12
1061267--1062037	105	7.4	105	90	2	1176	22	18	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1072216--1072248	10	3.4	10	87	8	50	75	0	0	24	0.80
1073289--1073356	17	4.1	16	72	14	50	75	1	10	13	1.12
1081142--1081253	24	4.7	24	94	4	172	36	22	18	22	1.95
1083731--1083755	13	1.9	13	100	0	50	20	16	48	16	1.82
1090415--1090476	3	21.0	3	96	3	117	67	0	0	32	0.91
1098693--1098739	22	2.1	22	88	7	69	36	12	0	51	1.40
1098847--1098893	3	16.0	3	91	4	51	31	0	8	59	1.27
1103445--1103473	13	2.2	13	100	0	58	6	62	31	0	1.22
1104182--1104252	3	24.3	3	74	5	65	56	1	0	42	1.08
1104171--1104215	11	4.1	11	94	0	72	57	0	0	42	0.98

Tables:   1   2   3   4   5   6   7   8   9   10