genome.fa.s8826.2.7.7.80.10.50.1000.13.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  13  of  18  ( 2089 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)
2864786--2864826	21	2.0	21	90	4	66	17	14	31	36	1.90
2868280--2868318	20	1.9	21	89	5	62	15	12	30	41	1.85
2870057--2870094	18	2.3	16	86	13	51	52	0	0	47	1.00
2875317--2875372	22	2.6	22	85	2	78	28	25	12	33	1.92
2877818--2877865	20	2.5	19	79	3	51	29	12	4	54	1.56
2894698--2894921	104	2.2	104	84	3	290	36	13	12	37	1.83
2895679--2895784	42	2.5	42	86	4	142	44	16	12	27	1.83
2898058--2898100	22	1.9	23	86	13	63	9	6	27	55	1.57
2899970--2900029	29	2.1	27	84	6	75	51	20	13	15	1.75
2907125--2907182	14	4.2	13	76	23	57	55	1	0	43	1.10
2907128--2907182	28	2.0	28	82	13	69	52	1	0	45	1.11
2911376--2911426	18	2.7	19	80	17	61	78	3	3	13	1.03
2911368--2911400	8	4.2	8	84	7	50	84	3	0	12	0.72
2913993--2914017	13	1.9	13	100	0	50	32	28	24	16	1.96
2914020--2914057	5	7.8	5	82	5	51	5	18	55	21	1.62
2921011--2921053	5	8.8	5	84	5	61	2	18	55	23	1.54
2921011--2921049	14	2.7	15	84	8	53	2	17	56	23	1.53
2921017--2921055	19	2.1	19	95	0	69	5	17	53	23	1.63
2921052--2921109	19	3.1	19	82	5	73	25	32	24	17	1.96
2921050--2921108	9	6.3	9	78	7	55	25	32	27	15	1.95
2922257--2922893	39	16.3	39	89	0	934	36	14	16	32	1.89
2922680--2922742	20	3.2	20	65	13	58	31	17	19	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2922894--2923066	76	2.3	76	87	3	244	42	12	14	31	1.82
2922853--2923066	76	2.9	72	81	6	243	40	13	14	31	1.84
2925804--2925863	29	2.0	30	87	3	86	56	13	16	13	1.67
2927701--2927752	13	4.0	13	78	7	52	78	3	3	13	1.02
2930492--2930596	43	2.4	43	83	0	129	20	21	24	33	1.97
2930493--2930623	43	3.0	43	80	3	120	19	23	20	36	1.95
2932578--2932637	29	2.0	31	90	6	97	41	16	6	35	1.75
2935945--2935994	22	2.3	22	96	0	91	14	8	26	52	1.68
2935975--2936005	16	1.9	16	93	0	53	16	6	22	54	1.64
2938241--2938320	27	3.0	27	81	3	90	77	5	6	11	1.11
2938262--2938301	21	1.9	21	84	0	53	82	2	0	15	0.77
2938245--2938305	13	4.6	14	72	10	56	78	6	1	13	1.01
2938382--2938441	5	12.0	5	81	16	63	80	1	1	16	0.89
2938395--2938446	12	4.5	12	85	4	72	84	1	0	13	0.70
2946112--2946175	30	2.1	29	85	5	83	23	18	26	31	1.98
2948928--2948979	27	1.9	27	88	0	77	44	3	1	50	1.31
2949097--2949135	18	2.2	18	90	0	60	38	0	0	61	0.96
2949107--2949179	27	2.8	25	91	8	112	42	0	1	56	1.08
2949106--2949168	3	21.0	3	76	12	58	39	0	1	58	1.07
2953644--2953684	7	5.9	7	83	11	57	14	17	9	58	1.62
2956230--2956268	9	4.1	9	83	9	51	84	0	15	0	0.62
2956226--2956268	8	5.2	8	81	13	52	83	0	16	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2956230--2956268	12	3.1	12	82	10	51	84	0	15	0	0.62
2958426--2958607	93	2.0	93	97	0	346	30	14	19	36	1.91
2958516--2958722	115	1.8	115	89	4	328	30	14	21	32	1.93
2960789--2960904	54	2.1	54	90	0	178	37	16	22	23	1.93
2961232--2961283	22	2.4	22	86	0	77	34	15	13	36	1.87
2961963--2962727	76	10.0	76	85	6	1057	22	20	21	35	1.96
2962363--2962446	31	2.8	31	94	3	145	21	17	23	36	1.94
2962288--2962832	107	5.2	107	71	9	480	22	20	21	35	1.96
2962435--2962539	55	1.9	55	98	0	201	32	20	19	28	1.96
2962673--2962756	31	2.8	31	94	3	145	21	19	23	35	1.96
2962600--2962832	106	2.2	106	94	3	418	21	21	22	35	1.96
2962704--2962899	76	2.6	76	98	0	374	21	20	21	35	1.96
2962103--2962975	386	2.3	385	85	8	1164	22	20	21	35	1.96
2962856--2962939	31	2.8	31	90	3	136	21	17	23	36	1.94
2962780--2962975	107	1.8	107	97	0	374	21	20	21	35	1.96
2962525--2962975	183	2.5	181	97	1	843	21	21	21	35	1.96
2963102--2963174	3	24.0	3	77	13	69	39	0	1	58	1.06
2963093--2963164	18	4.0	18	78	5	74	37	0	1	61	1.05
2963102--2963174	27	2.8	25	88	10	103	39	0	1	58	1.06
2963599--2963693	41	2.2	43	81	10	106	65	16	16	1	1.34
2965164--2965189	2	13.0	2	100	0	52	50	0	0	50	1.00
2965740--2965767	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2967999--2968037	2	19.5	2	100	0	78	48	0	0	51	1.00
2971716--2971761	22	2.1	22	100	0	92	17	26	26	30	1.97
2971836--2971876	2	20.5	2	100	0	82	51	0	0	48	1.00
2972909--2973016	37	2.9	37	91	0	171	32	10	15	41	1.81
2974154--2974660	110	4.6	110	90	0	789	25	15	22	35	1.94
2976307--2976365	13	4.4	13	78	17	59	0	16	5	77	0.93
2976296--2976365	14	5.2	12	75	20	59	0	15	5	78	0.93
2976307--2976376	20	3.6	18	75	16	59	1	17	4	77	1.01
2976296--2976371	7	10.7	7	69	18	50	0	15	5	78	0.91
2979399--2979448	26	1.9	26	88	8	75	72	2	6	20	1.16
2979395--2979455	26	2.3	27	78	15	74	70	1	9	18	1.23
2979484--2979545	21	3.0	20	73	15	63	77	0	3	19	0.90
2979483--2979537	19	2.8	20	79	17	55	76	0	3	20	0.94
2979502--2979570	35	2.0	35	83	11	88	73	0	4	21	1.00
2979499--2979568	32	2.2	32	82	12	90	74	0	4	21	0.99
2979564--2979672	2	54.5	2	87	3	130	55	0	0	43	1.12
2979708--2979779	24	2.9	26	72	17	71	65	1	6	26	1.26
2979786--2979815	8	3.8	8	100	0	60	86	0	13	0	0.57
2980294--2980401	37	2.9	37	91	0	162	32	11	14	41	1.81
2986747--2986771	3	8.3	3	100	0	50	68	0	0	32	0.90
2988073--2988114	21	2.0	21	90	9	68	23	11	26	38	1.90
2989057--2989148	23	4.0	23	84	0	121	31	23	27	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2992360--2992406	24	2.0	24	91	4	78	23	6	14	55	1.63
3009816--3009978	65	2.5	65	87	1	229	29	14	23	32	1.94
3024370--3024418	20	2.5	20	80	3	55	28	24	12	34	1.91
3028320--3028378	19	3.1	19	82	0	73	45	3	16	33	1.64
3028430--3028468	13	2.9	13	88	3	51	58	0	20	20	1.39
3028427--3028469	7	6.4	7	84	10	54	58	0	18	23	1.40
3030556--3030638	23	3.7	22	78	10	89	30	27	15	26	1.96
3031172--3031226	20	2.7	20	88	5	74	21	29	14	34	1.93
3033445--3033474	3	10.0	3	100	0	60	66	0	0	33	0.92
3033651--3033687	3	12.3	3	100	0	74	67	0	0	32	0.91
3033934--3033988	13	4.2	13	74	4	56	41	5	3	49	1.43
3033934--3033986	27	2.0	27	84	0	70	39	5	3	50	1.44
3033703--3034189	262	1.8	267	84	5	664	42	11	11	34	1.77
3036908--3036950	15	3.0	14	87	12	61	34	2	0	62	1.08
3037860--3037905	2	22.5	2	95	4	83	50	0	2	47	1.13
3039536--3039579	20	2.2	20	95	0	79	18	38	25	18	1.92
3040896--3040931	18	2.0	18	88	0	54	52	0	16	30	1.44
3045416--3045462	21	2.3	21	85	3	69	51	4	4	40	1.41
3045609--3045668	31	1.9	31	93	0	102	36	11	5	46	1.62
3047652--3047689	18	2.1	19	95	5	69	31	2	0	65	1.06
3049071--3049155	22	3.9	21	75	15	66	72	7	0	20	1.07
3049090--3049127	15	2.5	15	84	12	51	76	2	0	21	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3052157--3052214	5	10.8	5	78	14	62	6	22	51	18	1.70
3052150--3052214	22	3.0	22	100	0	130	9	23	49	18	1.76
3052236--3052311	29	2.6	30	85	2	109	28	23	26	21	1.99
3052211--3052309	9	10.3	9	72	10	54	30	25	26	18	1.98
3052211--3052309	19	5.2	19	72	12	60	30	25	26	18	1.98
3052272--3052310	21	1.9	21	89	5	62	33	23	25	17	1.96
3052236--3052310	9	7.8	9	76	14	60	29	24	26	20	1.99
3059467--3059504	16	2.3	16	95	4	67	13	26	42	18	1.87
3059480--3059521	12	3.8	12	84	15	63	11	23	45	19	1.83
3059460--3059526	22	3.0	21	86	6	89	13	25	43	17	1.86

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18