genome.fa.s8243.2.7.7.80.10.50.1000.6.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   41   42   43   44   45   46   47   48   
          49   

This is table  6  of  49  ( 5786 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)
959391--959450	17	3.4	17	69	24	52	48	11	25	15	1.78
959694--959792	9	11.0	9	81	12	123	39	0	0	60	0.97
959694--959792	12	8.2	12	84	8	123	39	0	0	60	0.97
959697--959792	21	4.6	21	89	7	126	39	0	0	60	0.97
962569--962750	76	2.4	76	91	0	292	25	20	19	33	1.97
962763--963189	113	3.7	112	83	5	446	39	14	19	26	1.90
962984--963313	123	2.7	123	90	2	504	40	14	19	25	1.89
963528--963586	3	19.0	3	83	10	66	35	1	0	62	1.05
970335--970411	37	2.1	37	85	4	102	48	1	3	46	1.28
970557--970594	20	1.9	20	88	0	58	21	26	10	42	1.85
970938--970983	2	23.0	2	100	0	92	50	0	0	50	1.00
971857--971904	25	2.1	23	81	14	55	47	4	16	31	1.65
972826--972868	19	2.3	19	87	0	59	51	2	16	30	1.57
973480--973527	18	2.5	19	86	6	62	47	0	6	45	1.27
974031--974066	19	1.9	19	94	5	65	41	22	0	36	1.54
974037--974082	19	2.4	19	85	7	58	41	23	0	34	1.55
975024--975048	7	3.6	7	100	0	50	76	0	0	24	0.80
979363--979412	19	2.7	19	82	14	68	14	28	30	28	1.95
979363--979412	9	5.3	9	80	7	55	14	28	30	28	1.95
986616--986656	10	4.3	9	85	11	55	14	29	29	26	1.95
986616--986656	19	2.2	19	86	8	57	14	29	29	26	1.95
990381--990413	18	1.9	17	88	11	50	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
990664--990734	37	1.9	37	83	11	92	67	1	5	25	1.20
992000--992046	3	15.0	3	86	8	67	63	0	0	36	0.94
992180--992282	45	2.3	45	96	0	188	33	22	23	21	1.98
992216--992358	76	1.9	74	94	2	250	33	23	23	20	1.97
992290--992403	45	2.5	45	92	2	183	31	21	24	21	1.98
992180--992480	121	2.5	122	96	0	559	33	21	23	21	1.97
992337--992633	77	3.9	76	92	2	490	34	21	21	22	1.97
992576--992678	45	2.3	45	94	0	179	32	23	23	21	1.98
992488--992754	121	2.2	121	91	2	426	33	21	21	23	1.97
992612--992807	76	2.6	76	95	1	342	34	22	20	22	1.97
993477--993528	19	2.5	21	81	15	72	38	15	7	38	1.76
994869--995045	76	2.3	75	80	7	205	27	22	18	31	1.97
996022--996235	114	1.9	114	90	0	338	30	19	15	34	1.93
1000886--1001422	269	2.0	266	97	2	1006	25	18	19	36	1.94
1003070--1003140	37	1.9	37	83	11	92	67	1	5	25	1.20
1004403--1004455	3	17.0	3	88	7	79	64	0	0	35	0.94
1009573--1009613	10	4.1	10	84	12	57	31	29	0	39	1.57
1011464--1011499	18	2.0	18	100	0	72	27	27	22	22	1.99
1011842--1011876	3	11.7	3	93	0	61	34	31	31	2	1.73
1015598--1015720	49	2.5	51	82	7	155	30	21	21	26	1.98
1016215--1016305	45	2.0	45	100	0	182	45	13	6	35	1.69
1025297--1025338	20	2.0	21	86	4	59	47	14	0	38	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1027216--1027284	36	1.9	36	90	0	111	62	11	5	20	1.49
1028018--1028162	69	2.1	69	96	0	272	42	17	15	24	1.88
1030430--1030501	15	4.9	15	77	3	83	43	6	16	33	1.75
1030430--1030501	30	2.4	29	90	2	117	43	6	16	33	1.75
1030484--1030553	20	3.5	20	96	0	131	40	10	14	35	1.79
1030714--1030813	27	3.6	27	77	16	80	52	2	2	44	1.24
1030825--1030873	15	3.4	14	75	8	53	59	0	0	40	0.98
1030830--1030875	21	2.2	20	85	11	58	56	0	0	43	0.99
1030798--1030873	30	2.5	31	81	16	88	52	0	1	46	1.08
1030830--1030875	20	2.2	21	85	11	60	56	0	0	43	0.99
1030781--1030899	53	2.3	50	81	11	125	50	0	0	47	1.12
1030826--1030897	29	2.4	30	81	6	85	54	0	0	45	0.99
1031073--1031188	42	2.8	42	95	0	205	44	18	18	17	1.87
1033815--1033931	29	3.8	31	74	16	109	59	0	2	36	1.17
1033815--1033900	13	6.1	14	68	21	56	60	1	1	37	1.12
1036413--1036444	2	16.0	2	93	0	55	53	0	0	46	1.00
1036906--1036997	35	2.6	37	84	5	109	31	13	16	39	1.86
1037458--1038315	98	8.3	104	82	7	806	21	21	24	32	1.98
1037507--1037990	109	4.6	107	81	9	514	21	20	24	33	1.97
1037458--1038303	206	4.1	205	77	10	720	21	21	24	32	1.98
1038000--1038171	55	3.3	55	66	27	160	17	24	26	31	1.97
1038055--1038213	43	3.4	43	68	21	131	16	22	27	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1038851--1039016	65	2.6	65	96	0	305	36	12	19	30	1.89
1038916--1039373	102	4.5	101	93	1	763	36	12	20	29	1.90
1038981--1039391	37	11.9	37	67	18	251	36	13	21	28	1.91
1038816--1039133	167	1.9	169	91	2	525	36	12	20	30	1.90
1039287--1039391	36	2.9	36	89	1	156	39	12	23	24	1.89
1040250--1040300	22	2.3	22	96	0	93	25	11	27	35	1.91
1040908--1040967	20	3.0	20	80	4	59	1	15	6	76	1.06
1040942--1040984	22	2.0	23	86	9	63	0	20	4	74	1.00
1045615--1045652	2	19.5	2	89	5	60	52	0	2	44	1.14
1045641--1045700	22	2.6	23	77	15	61	63	0	8	28	1.23
1045672--1045709	16	2.4	16	82	4	51	63	0	5	31	1.17
1045779--1045817	16	2.5	15	84	12	51	82	0	2	15	0.79
1045902--1045937	2	18.0	2	94	0	63	52	0	0	47	1.00
1046420--1046488	37	1.9	37	88	11	108	31	15	13	39	1.86
1049869--1049911	22	2.0	22	85	0	59	46	27	16	9	1.77
1049694--1050032	187	1.8	187	92	1	572	45	29	10	14	1.78
1049986--1050076	32	2.8	32	81	3	85	49	29	7	13	1.69
1050305--1050334	14	2.1	14	93	0	51	40	16	0	43	1.48
1050959--1051001	17	2.5	17	85	11	52	76	0	4	18	0.95
1053511--1053549	17	2.4	16	83	8	51	58	0	2	38	1.12
1053917--1053976	30	2.0	30	90	0	93	46	11	10	31	1.73
1054210--1054302	33	2.9	32	71	10	82	41	17	11	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1055865--1055904	18	2.2	18	100	0	80	35	15	22	27	1.94
1057979--1058061	39	2.1	39	86	4	114	21	15	24	38	1.92
1065920--1065951	6	5.3	6	100	0	64	31	0	50	18	1.48
1071254--1071283	12	2.5	12	100	0	60	53	0	23	23	1.46
1071660--1071747	31	2.8	32	77	6	99	30	17	15	36	1.91
1072565--1072609	18	2.5	18	85	0	63	60	17	8	13	1.58
1078928--1079002	20	4.0	20	76	16	88	25	17	30	26	1.97
1079032--1079123	20	4.8	20	77	17	81	27	14	27	31	1.95
1079053--1079122	36	1.9	36	88	5	106	28	15	25	30	1.96
1079336--1079392	18	3.0	19	80	14	64	49	10	12	28	1.73
1082360--1082398	18	2.1	19	90	4	62	69	12	5	12	1.35
1084218--1084304	39	2.2	39	85	4	113	37	10	35	16	1.82
1085722--1085773	21	2.5	21	81	3	61	38	19	25	17	1.93
1085762--1085876	20	5.7	20	76	5	97	36	22	16	24	1.94
1085759--1085876	61	1.9	62	82	5	150	38	22	16	23	1.93
1085792--1085870	41	1.9	41	89	0	122	39	22	15	22	1.91
1086046--1086087	22	1.9	22	90	0	66	23	38	16	21	1.93
1086350--1086408	20	3.0	20	87	0	73	16	18	22	42	1.89
1086542--1086596	25	2.2	24	78	15	58	20	9	18	52	1.71
1087720--1087764	18	2.5	18	88	0	72	26	44	15	13	1.83
1088257--1088300	19	2.3	20	88	11	74	40	18	20	20	1.91
1088265--1088379	19	6.6	19	69	22	83	45	20	19	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1088300--1088357	14	3.9	14	70	16	53	50	22	15	12	1.77
1088284--1088374	32	2.8	33	89	3	148	48	20	17	13	1.81
1088391--1088448	14	3.9	14	77	16	62	10	18	22	48	1.78
1088375--1088467	32	2.8	33	86	3	134	10	17	22	49	1.77
1088407--1088506	19	5.5	19	76	11	95	14	20	20	46	1.84
1088869--1088976	41	2.6	41	80	2	108	21	38	16	23	1.92
1090373--1090408	14	2.6	14	90	0	54	30	0	22	47	1.52
1090535--1090588	14	3.5	14	77	22	63	48	20	20	11	1.80
1090620--1090707	20	4.4	20	81	5	115	17	21	23	37	1.94
1090600--1090687	40	2.4	37	85	11	110	15	21	21	40	1.90

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   41   42   43   44   45   46   47   48   
          49