genome.fa.s8428.2.7.7.80.10.50.1000.12.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  12  of  30  ( 3508 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)
3031332--3031658	176	1.9	176	86	2	478	21	19	28	30	1.97
3032029--3032061	17	2.0	17	88	5	50	36	9	0	54	1.32
3039150--3039199	25	2.0	26	92	4	84	46	16	14	24	1.83
3041543--3041585	21	2.0	23	86	9	63	51	11	6	30	1.65
3043869--3043896	2	14.0	2	100	0	56	50	0	0	50	1.00
3046088--3046135	19	2.6	19	80	3	53	47	0	12	39	1.41
3048262--3048301	12	3.6	12	77	16	50	45	0	0	55	0.99
3048262--3048303	22	2.0	21	90	4	66	45	0	0	54	0.99
3048288--3048765	22	21.7	22	91	0	769	39	0	11	48	1.43
3050640--3050770	44	3.1	44	76	7	146	51	6	17	25	1.68
3050620--3050769	42	3.6	42	73	8	153	50	5	17	26	1.67
3050781--3051043	88	3.0	89	78	8	236	51	5	17	25	1.67
3050781--3051258	43	11.1	42	73	11	251	49	6	17	25	1.70
3050778--3051258	85	5.6	84	75	10	350	49	6	18	26	1.70
3050778--3051261	128	3.8	128	78	8	441	49	6	17	26	1.70
3051159--3051285	43	3.0	43	81	6	107	51	7	18	22	1.71
3051123--3051301	85	2.1	86	80	5	202	53	6	16	23	1.66
3051470--3051556	40	2.2	40	85	4	113	33	26	17	22	1.96
3051550--3051698	20	7.4	20	75	7	131	42	23	14	19	1.88
3051485--3051655	40	4.3	40	78	12	181	40	22	15	21	1.91
3051530--3051697	80	2.1	82	85	3	234	41	23	15	20	1.90
3051562--3051718	60	2.6	61	77	11	178	40	22	14	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3051685--3051757	19	3.7	20	89	7	105	38	21	9	30	1.86
3051485--3051757	20	13.6	20	76	14	129	39	22	14	23	1.91
3051913--3051950	16	2.5	15	84	12	51	28	5	0	65	1.14
3052649--3052702	24	2.2	24	93	0	90	20	18	20	40	1.91
3052877--3052901	12	2.1	12	100	0	50	72	0	28	0	0.86
3054962--3054997	18	2.0	18	94	0	63	55	25	2	16	1.55
3055372--3055547	66	2.6	65	86	7	237	53	15	2	28	1.56
3056875--3056993	42	2.8	42	82	5	141	21	20	35	22	1.96
3056875--3056992	21	5.7	20	72	14	78	21	20	35	22	1.96
3058437--3058878	222	2.0	220	99	0	866	30	25	19	25	1.98
3059367--3059413	20	2.3	20	85	0	67	19	8	27	44	1.79
3059413--3059469	20	2.8	20	91	0	87	26	19	15	38	1.92
3059467--3059595	20	6.4	20	82	7	163	20	16	24	38	1.92
3059467--3059595	60	2.2	60	92	0	213	20	16	24	38	1.92
3060603--3060649	21	2.2	21	100	0	94	25	25	4	44	1.72
3065255--3065444	102	1.9	102	89	2	301	25	32	14	26	1.95
3068445--3068474	15	2.0	15	93	0	51	40	10	20	30	1.85
3076553--3076605	26	2.0	26	100	0	106	49	7	3	39	1.49
3083113--3083296	90	2.0	92	95	4	336	35	9	13	41	1.77
3083401--3083445	20	2.2	21	84	4	56	26	33	28	11	1.91
3086978--3087011	9	3.8	9	100	0	68	35	20	0	44	1.52
3087725--3087783	30	2.0	30	83	6	75	44	0	15	40	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095497--3096029	269	2.0	262	95	4	955	23	17	18	39	1.92
3096031--3096091	2	32.0	2	83	9	83	44	0	1	54	1.10
3096180--3096262	24	3.5	24	68	15	64	20	7	6	66	1.38
3099153--3099210	13	4.4	14	79	16	70	81	5	12	1	0.94
3099139--3099209	26	2.8	25	76	17	76	77	5	15	1	1.02
3099168--3099210	14	3.2	14	81	18	56	83	4	11	0	0.78
3099853--3099907	22	2.5	22	96	0	101	38	27	10	23	1.88
3100641--3100972	106	3.1	106	92	0	558	34	25	16	22	1.95
3101146--3102078	106	8.8	106	90	0	1429	34	24	18	22	1.96
3100475--3101466	498	2.0	498	96	0	1815	34	23	17	23	1.96
3102265--3102605	83	4.1	83	82	4	362	33	22	18	25	1.97
3103079--3103183	37	2.8	37	94	0	174	40	18	13	27	1.87
3103633--3103685	2	26.5	2	100	0	106	49	0	0	50	1.00
3103755--3103783	2	14.5	2	100	0	58	48	0	0	51	1.00
3109140--3109915	394	2.0	394	89	0	1194	31	14	22	31	1.94
3110428--3110517	14	6.4	14	70	23	55	77	1	12	8	1.04
3110435--3110532	15	6.8	14	71	14	58	77	1	13	8	1.03
3110425--3110516	24	3.9	24	70	17	75	77	1	13	8	1.05
3110472--3110537	20	3.2	20	79	18	64	77	0	15	7	0.98
3112708--3112775	36	1.9	35	84	3	91	27	17	10	44	1.81
3112706--3112921	101	2.1	101	81	2	245	31	16	12	40	1.85
3113189--3113761	163	3.5	162	85	2	740	37	14	21	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113704--3113800	39	2.5	39	86	3	115	45	12	19	22	1.84
3113736--3113795	17	3.2	17	75	20	66	46	10	21	21	1.80
3118957--3119155	45	4.4	45	93	0	319	32	20	7	40	1.79
3118993--3119116	25	5.4	25	62	31	71	32	21	7	38	1.81
3119221--3119342	40	3.0	40	97	0	226	34	26	16	22	1.95
3121229--3121295	30	2.2	30	97	0	125	32	13	5	47	1.67
3121238--3121312	30	2.5	30	89	4	107	33	13	6	46	1.69
3124487--3124515	15	1.9	15	100	0	58	27	27	17	27	1.97
3124554--3124604	21	2.4	21	96	0	93	7	11	39	41	1.71
3124684--3124746	3	20.7	3	83	6	74	63	0	3	33	1.10
3124930--3125378	134	3.4	133	82	6	514	28	16	21	33	1.95
3124930--3125498	134	4.2	133	80	6	501	28	15	21	33	1.95
3124976--3125495	268	1.9	268	80	6	588	29	16	21	32	1.95
3125965--3126386	233	1.8	230	85	4	598	33	19	16	30	1.94
3129707--3129775	29	2.3	31	80	9	81	43	4	8	43	1.55
3129818--3129849	16	1.9	17	93	6	57	46	0	3	50	1.17
3129835--3129895	22	2.7	21	80	10	68	50	0	3	45	1.17
3129883--3129925	11	3.8	11	84	6	50	27	0	2	69	1.00
3136919--3136965	23	2.0	23	91	0	76	38	8	21	31	1.83
3136879--3137041	87	1.9	87	92	2	274	41	12	14	31	1.83
3137472--3137529	22	2.7	22	94	2	100	25	17	18	37	1.93
3137617--3138362	201	3.7	201	92	0	1201	34	13	15	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3142161--3142889	200	3.6	200	91	0	971	28	14	16	40	1.87
3144364--3144398	12	2.9	12	91	0	52	25	31	2	40	1.70
3145946--3147248	199	6.6	199	92	1	2025	27	15	15	42	1.86
3147248--3147595	176	2.0	175	93	2	592	31	12	10	45	1.77
3147718--3147767	19	2.6	19	90	0	73	58	8	2	32	1.39
3149237--3149274	18	2.1	18	95	0	67	5	39	0	55	1.23
3149935--3149990	24	2.5	21	76	18	58	50	7	1	41	1.40
3150953--3150994	18	2.3	18	84	8	50	45	4	2	47	1.36
3151243--3151309	19	3.6	18	91	4	98	35	16	1	46	1.56
3151279--3151423	58	2.5	58	94	0	245	39	15	4	40	1.68
3151828--3151881	20	2.7	20	97	0	99	14	16	22	46	1.84
3155767--3155804	19	2.0	20	89	5	60	50	0	39	10	1.37
3156520--3156564	23	1.9	24	86	4	65	40	8	6	44	1.62
3157179--3157248	32	2.2	32	87	7	99	42	2	2	51	1.31
3159433--3159522	44	2.0	44	97	0	171	15	31	18	34	1.93
3159667--3159734	3	21.3	3	88	11	100	61	0	0	38	0.96
3160580--3160664	34	2.6	31	80	12	91	22	9	29	38	1.85
3165000--3165042	18	2.3	19	92	8	79	55	16	9	18	1.67
3167713--3167745	2	16.5	2	93	0	57	48	3	0	48	1.17
3169953--3169980	2	14.0	2	100	0	56	50	0	0	50	1.00
3172802--3173201	54	7.4	54	88	0	575	39	18	12	29	1.87
3172802--3173192	108	3.6	108	93	0	638	39	18	12	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3173979--3174030	24	2.2	24	89	0	77	38	21	19	21	1.94
3174037--3174097	23	2.7	23	94	0	104	32	24	27	14	1.95
3180091--3180170	23	3.5	23	88	6	119	33	28	21	16	1.95
3181099--3181148	20	2.5	20	93	0	82	28	30	14	28	1.95
3185895--3185939	23	2.0	23	90	0	72	42	0	35	22	1.54
3185881--3185937	23	2.3	24	79	11	62	33	0	38	28	1.57
3190448--3190507	23	2.6	23	89	0	84	35	0	40	25	1.56
3192205--3192613	54	7.6	54	86	1	570	40	17	13	29	1.87
3192205--3192614	108	3.8	107	90	2	635	40	17	13	29	1.87
3199293--3199350	23	2.5	23	91	0	98	24	31	17	27	1.97

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