genome.fa.s9634.2.7.7.80.10.50.1000.46.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  46  of  78  ( 9351 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)
9150262--9150295	2	17.0	2	87	0	50	50	5	0	44	1.26
9150088--9151824	865	2.0	866	98	0	3350	32	13	19	34	1.91
9153555--9153597	22	2.0	22	100	0	86	39	18	23	18	1.92
9154067--9154109	21	2.0	21	100	0	86	27	9	13	48	1.73
9154935--9154999	17	3.9	17	69	4	51	73	4	3	18	1.13
9161045--9161339	105	2.8	105	83	2	333	25	26	16	32	1.96
9163071--9163130	28	2.1	29	87	6	88	68	1	1	28	1.09
9164304--9164478	7	24.4	7	77	14	162	52	4	1	42	1.27
9164304--9164482	2	97.0	2	69	26	112	52	3	1	42	1.27
9164304--9164436	9	15.8	8	74	15	85	53	3	1	42	1.25
9164304--9164478	59	3.1	57	84	11	218	52	4	1	42	1.27
9169737--9169942	75	2.7	76	85	3	274	21	24	32	22	1.98
9170549--9170592	17	2.6	17	85	7	63	56	29	0	13	1.38
9170544--9170594	9	6.2	8	78	17	52	58	27	0	13	1.36
9172523--9172562	21	1.9	21	89	0	62	10	25	40	25	1.86
9172543--9172605	20	2.9	21	79	9	65	15	25	34	23	1.95
9178375--9178581	75	2.7	76	82	4	258	21	24	31	22	1.98
9179730--9179796	34	2.0	34	87	0	98	23	28	16	31	1.96
9180227--9180274	20	2.5	19	82	3	60	39	16	6	37	1.74
9184531--9184568	19	2.1	19	90	5	60	63	7	15	13	1.51
9189012--9189395	2	207.0	2	66	24	168	53	5	0	40	1.29
9189012--9189391	7	53.4	7	72	18	222	53	5	0	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9189012--9189333	66	4.7	65	73	16	199	54	4	0	40	1.27
9196635--9196710	20	3.9	20	81	11	104	28	11	28	30	1.92
9197147--9197200	21	2.6	21	84	0	72	42	11	18	27	1.84
9197332--9197388	21	2.7	21	87	12	82	19	21	29	29	1.97
9197332--9197410	21	3.6	22	83	14	78	20	21	27	30	1.98
9204596--9204632	19	1.9	19	94	0	65	45	0	2	51	1.15
9204598--9204638	19	2.2	19	86	4	57	51	0	2	46	1.14
9205419--9205495	34	2.2	35	79	9	86	58	12	7	20	1.59
9205470--9205519	26	1.9	26	91	0	82	58	14	8	20	1.61
9205472--9205527	26	2.2	26	83	0	67	60	16	5	17	1.53
9205429--9205553	62	2.0	60	83	6	153	57	12	8	20	1.62
9205489--9205563	36	2.1	36	87	2	105	60	13	6	20	1.55
9218839--9218884	19	2.4	19	77	0	56	71	4	13	10	1.27
9219220--9219302	42	2.1	38	86	8	112	39	20	9	30	1.84
9221397--9221454	21	2.8	21	81	0	71	15	13	31	39	1.86
9228226--9228283	21	2.8	21	94	0	98	15	18	31	34	1.93
9229277--9229341	21	2.9	24	76	21	70	49	0	0	50	1.00
9229273--9229333	20	3.1	19	75	11	61	44	0	0	55	0.99
9232428--9232560	60	2.2	59	79	10	146	36	15	13	33	1.87
9236509--9236554	18	2.5	19	85	3	58	50	10	10	28	1.71
9236509--9236563	19	2.9	19	82	12	69	49	10	10	29	1.72
9238594--9238649	14	4.2	13	80	13	60	73	1	3	21	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9238618--9238671	17	3.2	16	85	12	65	66	1	0	31	1.02
9238700--9238929	36	6.5	35	79	6	248	43	10	4	41	1.60
9238706--9238929	72	3.1	72	84	6	276	42	10	4	41	1.61
9246791--9246903	46	2.5	46	92	5	185	30	29	5	35	1.80
9249148--9249227	21	3.8	21	78	14	76	17	23	35	23	1.96
9255002--9255060	21	2.8	21	97	0	109	11	27	37	23	1.90
9255091--9255153	22	2.9	21	88	4	72	19	22	36	22	1.95
9255098--9255157	22	2.7	22	92	0	93	16	23	38	21	1.93
9262022--9262060	20	2.0	20	89	0	60	33	10	23	33	1.88
9262681--9262721	18	2.3	18	86	0	55	19	14	48	17	1.81
9285804--9285905	5	20.0	5	69	18	50	69	2	1	25	1.13
9285834--9285885	9	5.6	9	76	15	52	71	1	0	26	0.97
9285838--9285887	18	2.7	19	85	11	61	70	2	0	28	0.99
9285834--9285882	14	3.6	14	91	2	73	71	2	0	26	0.97
9285844--9285902	17	3.4	17	84	11	59	66	3	0	30	1.08
9285933--9286067	37	3.7	38	84	8	111	45	8	4	41	1.55
9285937--9286303	35	10.3	35	77	10	298	41	11	5	41	1.64
9285973--9286242	73	3.8	68	78	10	217	40	11	4	42	1.62
9287071--9287235	40	4.1	40	99	0	321	39	17	7	35	1.79
9291177--9291234	28	2.0	28	83	3	71	51	12	12	24	1.72
9293837--9293876	22	1.9	20	85	10	53	55	5	10	30	1.54
9295889--9295915	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9307762--9308081	178	1.8	175	91	3	534	37	19	14	28	1.91
9310618--9310655	20	1.9	19	89	5	58	39	23	2	34	1.69
9313498--9313545	22	2.2	22	81	7	53	35	8	16	39	1.79
9322861--9322901	22	1.9	21	95	5	73	9	24	36	29	1.87
9323404--9323428	13	1.9	13	100	0	50	44	16	0	40	1.47
9326626--9326664	21	1.9	21	84	5	53	28	15	15	41	1.87
9332392--9332436	2	22.5	2	100	0	90	51	0	0	48	1.00
9332864--9333362	82	6.1	82	86	5	643	26	18	19	34	1.95
9332864--9333362	41	12.2	41	85	2	583	26	18	19	34	1.95
9333773--9333815	10	4.1	11	82	8	54	44	0	2	53	1.13
9333737--9333813	22	3.8	20	68	22	52	45	2	1	50	1.23
9333798--9333849	22	2.4	22	93	0	95	55	3	1	38	1.29
9336628--9336794	43	3.9	43	80	3	176	45	16	15	22	1.85
9336804--9336897	43	2.2	43	86	0	125	39	24	13	22	1.90
9338633--9338687	15	3.7	15	97	0	101	47	9	25	18	1.78
9340874--9341084	12	17.2	12	67	20	66	73	2	5	18	1.14
9340874--9340929	24	2.3	23	88	11	78	78	5	0	16	0.92
9340875--9340943	34	2.0	36	81	16	83	78	5	1	14	1.01
9340898--9341010	42	2.7	41	77	9	102	74	3	5	16	1.15
9340973--9341056	23	3.5	24	78	9	82	72	1	8	17	1.15
9340953--9341106	48	3.0	48	76	20	136	72	1	6	18	1.15
9340948--9341048	25	4.1	25	75	12	93	73	0	5	19	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9341044--9341085	4	10.5	4	85	10	59	71	2	2	23	1.10
9340996--9341105	57	1.9	57	81	7	134	72	1	7	18	1.16
9341384--9341439	29	1.9	29	96	0	103	28	33	5	32	1.80
9342806--9344044	106	12.0	106	89	6	1902	22	17	25	33	1.96
9343303--9343458	43	3.4	43	66	16	116	22	18	25	33	1.96
9342806--9344044	200	6.0	205	92	3	1784	22	17	25	33	1.96
9342806--9344044	306	4.0	295	88	7	1733	22	17	25	33	1.96
9343503--9343658	43	3.4	43	68	19	136	21	17	26	35	1.95
9343809--9343964	43	3.4	43	69	13	141	21	18	25	34	1.96
9348303--9348532	7	29.6	7	65	23	54	74	2	5	16	1.12
9348327--9348438	42	2.7	41	77	10	102	75	2	5	16	1.11
9348377--9348513	25	5.7	25	66	20	78	73	1	5	19	1.09
9348401--9348494	23	3.9	24	74	12	77	73	1	7	18	1.12
9348381--9348489	48	2.3	48	80	17	129	74	0	6	18	1.08
9348381--9348505	48	2.6	49	79	15	127	73	1	5	19	1.11
9348483--9348518	4	9.0	4	88	11	56	72	2	0	25	0.98
9348818--9348873	29	2.0	28	96	3	103	28	32	5	33	1.80
9349971--9350014	22	2.0	22	82	8	54	38	0	6	54	1.27
9349975--9350042	26	2.9	23	73	26	63	38	0	7	54	1.28
9353651--9353691	18	2.3	18	95	0	73	34	21	14	29	1.93
9357083--9357140	18	3.4	18	71	23	63	55	0	3	41	1.17
9357086--9357162	31	2.4	32	82	10	95	53	1	2	42	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9357083--9357187	16	6.5	17	65	17	53	54	1	1	41	1.22
9357135--9357186	17	2.9	17	73	15	50	53	3	0	42	1.19
9357166--9357226	32	2.0	32	81	12	76	47	0	0	52	1.00
9357506--9357557	26	2.0	26	88	7	79	50	0	0	50	1.00
9361631--9361753	36	3.3	35	69	13	102	39	10	14	34	1.81
9361619--9361821	75	2.7	76	87	2	284	38	12	17	30	1.87
9368549--9369813	6	211.2	6	98	0	2050	46	20	0	33	1.51
9375009--9375078	9	7.7	9	81	7	79	82	0	14	2	0.77
9375009--9375066	10	6.0	10	86	7	59	82	0	17	0	0.66
9375009--9375081	28	2.7	27	82	2	92	82	0	15	2	0.79

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   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78