genome.fa.s2341.2.7.7.80.10.50.1000.4.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: VEPZ01002341.1 Hibiscus syriacus cultivar Beakdansim tig00004779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1266629

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 574 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)
905183--905301	52	2.3	47	77	17	130	50	6	0	42	1.34
905115--905372	129	2.0	125	83	7	324	51	6	0	40	1.33
905148--905337	90	2.1	86	80	13	222	50	6	1	42	1.34
905348--905372	12	2.1	12	100	0	50	52	8	0	40	1.31
905262--905400	36	3.8	36	78	16	133	47	5	1	45	1.35
905329--905439	36	3.1	34	82	11	118	45	9	0	44	1.41
907366--907399	2	17.5	2	93	6	61	50	0	0	50	1.00
915201--915248	25	2.0	24	84	12	62	50	18	14	16	1.79
915452--915512	30	2.0	30	96	0	113	34	11	18	36	1.86
915646--915672	14	1.9	14	100	0	54	11	14	29	44	1.80
921881--921924	13	3.5	13	84	6	63	18	47	18	15	1.83
924079--924180	50	2.0	50	100	0	204	27	10	33	28	1.90
924311--924353	20	2.2	20	100	0	86	30	9	4	55	1.52
925947--926003	19	3.0	19	97	0	105	15	26	3	54	1.57
930026--930200	82	2.1	82	92	2	287	31	11	4	52	1.57
930259--930288	13	2.3	13	94	0	51	63	0	3	33	1.11
930378--930413	19	2.0	17	89	10	54	66	0	0	33	0.92
933169--933777	245	2.5	247	81	5	723	25	18	23	33	1.96
933970--934272	108	2.9	106	85	9	392	25	18	22	34	1.96
939498--939573	36	2.1	36	97	0	143	43	14	10	31	1.79
940102--940165	23	2.8	23	81	9	85	31	26	23	18	1.98
940848--940988	64	2.2	62	83	8	169	26	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
947763--947901	64	2.2	60	82	8	163	28	19	15	36	1.93
951038--951079	18	2.3	18	80	8	50	50	4	7	38	1.51
957196--957236	3	13.3	3	94	5	73	0	34	0	65	0.93
961110--961159	18	2.8	18	81	0	64	28	18	36	18	1.94
971088--971156	34	2.0	34	97	0	129	27	8	15	47	1.75
971122--971688	305	1.9	305	98	0	1107	27	14	13	44	1.82
979428--979478	22	2.4	21	77	6	59	47	0	0	52	1.00
981499--981553	17	3.2	17	84	0	83	29	32	16	21	1.95
996390--996439	24	2.3	21	80	16	57	38	0	4	58	1.17
1003408--1003453	18	2.3	20	82	10	60	47	0	6	45	1.28
1004213--1004311	49	2.0	49	88	3	146	40	13	15	31	1.85
1006359--1006430	37	1.9	37	86	5	101	40	20	13	25	1.90
1006770--1006796	2	13.5	2	100	0	54	48	0	0	51	1.00
1012809--1012855	7	6.9	7	83	9	53	38	2	2	57	1.23
1013036--1013075	7	5.7	7	87	0	62	30	2	0	67	1.04
1013036--1013082	21	2.3	20	85	7	60	29	2	0	68	1.02
1013199--1013232	16	2.1	16	100	0	68	17	29	23	29	1.97
1013577--1013618	2	21.5	2	95	4	77	50	0	0	50	1.00
1016166--1016251	43	2.0	43	93	0	145	16	31	18	33	1.93
1020728--1020902	60	2.9	59	79	5	174	44	6	18	30	1.74
1021987--1022025	14	2.7	15	77	22	55	56	2	0	41	1.13
1022256--1022295	15	2.8	15	85	11	57	5	37	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1024697--1024748	26	2.0	26	100	0	104	23	30	23	23	1.99
1030948--1030990	18	2.3	19	92	4	70	51	4	2	41	1.35
1030960--1031090	18	6.9	18	70	17	88	45	6	3	44	1.46
1030933--1031142	98	2.2	97	83	6	255	47	5	4	42	1.47
1031051--1031140	15	6.1	14	70	22	69	44	5	5	44	1.50
1031176--1031304	2	65.5	2	69	19	76	46	3	4	45	1.39
1031109--1031266	76	2.1	75	90	1	244	46	3	4	44	1.41
1031472--1031581	42	2.6	42	95	0	193	39	8	12	40	1.73
1031513--1031605	24	4.3	22	67	20	54	39	6	11	41	1.67
1031709--1031743	14	2.5	14	90	0	52	42	25	0	31	1.55
1031764--1031798	18	1.9	18	94	0	61	40	11	5	42	1.65
1031872--1032140	2	139.0	2	65	23	87	49	2	4	43	1.37
1032197--1032253	7	8.6	7	70	18	50	45	36	1	15	1.57
1032223--1032253	14	2.2	14	100	0	62	45	35	0	19	1.51
1032306--1032441	57	2.4	57	80	4	152	44	8	6	40	1.62
1032472--1032524	21	2.5	21	81	0	70	37	7	5	49	1.55
1032471--1032650	88	2.0	88	85	6	240	41	5	4	48	1.46
1032471--1032612	21	6.6	21	67	16	60	41	6	4	47	1.50
1032499--1032672	88	2.0	88	84	8	230	44	5	3	47	1.42
1032689--1032731	12	3.2	12	77	22	50	48	0	0	51	1.00
1032669--1032735	28	2.4	28	85	7	82	47	0	1	50	1.10
1032670--1032731	22	2.9	23	77	17	62	48	0	1	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1034098--1034123	13	2.0	13	100	0	52	15	30	38	15	1.88
1034139--1034247	29	3.8	29	95	2	184	14	31	32	22	1.94
1034276--1034479	102	2.0	102	99	0	399	26	27	18	26	1.98
1034528--1034579	25	2.1	25	100	0	104	26	11	34	26	1.91
1034592--1034637	23	2.0	23	91	0	74	47	4	34	13	1.62
1034592--1034652	23	2.6	23	81	5	59	50	6	32	9	1.61
1034642--1034694	21	2.5	21	96	0	97	62	0	35	1	1.06
1034640--1034671	17	1.9	16	93	6	55	62	0	37	0	0.95
1034902--1034992	45	2.0	48	86	6	134	40	0	12	47	1.41
1035156--1035202	16	3.0	16	84	9	53	29	0	10	59	1.31
1035177--1035207	15	2.1	14	94	5	53	38	0	6	54	1.26
1037358--1037390	17	1.9	17	93	0	57	45	12	6	36	1.66
1037375--1037443	22	3.0	22	73	19	77	47	7	4	40	1.51
1037582--1037668	38	2.4	37	81	9	99	51	4	2	41	1.35
1037598--1037825	14	17.1	13	72	18	111	46	8	2	42	1.47
1037598--1037825	26	9.2	26	72	12	165	46	8	2	42	1.47
1037614--1037883	124	2.2	123	91	2	436	46	9	1	42	1.46
1041019--1041081	19	3.4	19	69	18	60	49	11	0	39	1.38
1041152--1041178	14	1.9	14	100	0	54	74	14	3	7	1.18
1041149--1041181	17	1.9	17	88	11	50	72	15	3	9	1.21
1041492--1041594	47	2.2	46	84	5	136	45	10	0	43	1.38
1041572--1041620	21	2.3	21	82	3	62	51	18	0	30	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1042052--1042119	35	1.9	35	96	0	127	25	16	29	29	1.96
1042159--1042183	12	2.1	12	100	0	50	24	60	0	16	1.36
1042177--1042276	29	3.4	29	98	0	191	19	34	26	21	1.96
1042438--1042502	31	2.1	31	100	0	130	35	32	29	3	1.73
1042525--1042609	29	2.9	29	100	0	170	18	28	38	14	1.90
1045982--1046030	20	2.5	20	93	0	89	44	22	24	8	1.79
1045982--1046058	20	3.8	20	80	1	82	41	23	20	14	1.89
1047229--1047271	18	2.3	19	92	4	70	51	4	2	41	1.35
1047241--1047371	18	6.9	18	70	17	88	45	6	3	44	1.46
1047214--1047423	98	2.2	97	83	6	255	47	5	4	42	1.47
1047332--1047421	15	6.1	14	70	22	69	44	5	5	44	1.50
1047457--1047591	2	69.0	2	68	20	63	47	2	5	44	1.40
1047463--1047499	15	2.4	15	90	4	56	51	5	2	40	1.39
1047390--1047545	76	2.1	75	90	1	240	47	3	4	44	1.41
1047803--1047912	42	2.6	42	95	0	193	39	8	12	40	1.73
1047844--1047936	24	4.3	22	67	20	54	39	6	11	41	1.67
1048038--1048072	14	2.5	14	90	0	52	42	25	0	31	1.55
1048093--1048127	18	1.9	18	94	0	61	40	11	5	42	1.65
1048201--1048465	2	137.0	2	64	23	70	49	2	4	43	1.38
1048522--1048578	7	8.6	7	70	18	50	45	36	1	15	1.57
1048548--1048578	14	2.2	14	100	0	62	45	35	0	19	1.51
1048795--1048847	21	2.5	21	81	0	70	37	7	5	49	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1048794--1048973	88	2.0	88	85	6	240	41	5	4	48	1.46
1048794--1048935	21	6.6	21	67	16	60	41	6	4	47	1.50
1048822--1048995	88	2.0	88	84	8	230	44	5	3	47	1.42
1048992--1049051	21	2.9	19	77	20	59	46	0	1	51	1.10
1050567--1050611	20	2.2	20	88	0	63	15	8	15	60	1.59
1050704--1050757	23	2.3	23	80	0	63	25	9	25	38	1.86
1051523--1051572	23	2.1	24	92	3	84	50	2	0	48	1.12
1051807--1051893	16	5.4	16	88	0	120	42	12	24	20	1.87
1055179--1055264	21	4.1	21	96	0	154	25	23	26	24	2.00
1055285--1055325	22	2.0	21	85	9	57	29	24	19	26	1.98

Tables:   1   2   3   4   5