genome.fa.s8527.2.7.7.80.10.50.1000.12.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  12  of  37  ( 4336 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)
2962859--2963171	149	2.1	148	90	2	486	26	15	22	35	1.94
2967824--2967883	20	2.9	21	87	7	95	31	25	25	18	1.97
2968860--2968984	31	4.0	31	91	2	189	21	19	21	37	1.94
2969465--2969507	21	2.0	21	82	8	52	32	4	13	48	1.63
2970472--2970513	20	2.1	20	86	8	59	33	7	14	45	1.72
2991241--2991296	17	3.2	17	76	23	55	39	1	3	55	1.28
2995293--2995334	20	2.1	20	90	0	66	38	19	16	26	1.92
2995508--2995561	19	2.8	19	80	0	63	38	20	18	22	1.93
3001793--3001869	31	2.5	31	80	2	91	27	31	27	14	1.95
3002739--3002783	7	6.4	7	94	0	81	28	28	26	15	1.96
3002780--3002836	5	10.8	5	77	17	53	7	22	50	19	1.71
3002772--3002836	21	3.0	21	97	2	121	9	24	47	18	1.77
3002833--3002911	19	4.2	18	78	16	88	27	29	29	13	1.95
3002858--3002932	29	2.5	31	89	8	120	29	26	26	17	1.97
3002833--3002931	9	10.3	9	80	10	90	29	27	28	15	1.96
3009055--3009131	31	2.5	31	80	2	91	27	31	27	14	1.95
3009008--3009131	63	2.0	63	82	6	153	25	29	28	16	1.97
3009992--3010022	7	4.4	7	91	0	53	25	25	29	19	1.99
3010012--3010054	22	2.0	22	100	0	86	9	23	48	18	1.76
3010051--3010129	19	4.2	18	78	16	88	27	29	29	13	1.95
3010076--3010150	29	2.5	31	89	8	120	29	26	26	17	1.97
3010051--3010149	9	10.3	9	80	10	90	29	27	28	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3012226--3012253	6	4.7	6	100	0	56	35	0	17	46	1.49
3018240--3018273	13	2.6	13	95	0	59	29	14	11	44	1.81
3019091--3019425	30	11.2	30	81	5	240	34	5	35	24	1.79
3019108--3019157	15	3.2	16	68	21	52	34	4	36	26	1.75
3019116--3019427	120	2.6	119	88	2	455	34	5	35	24	1.80
3019287--3019440	15	10.3	15	66	12	66	36	4	34	24	1.76
3019091--3019425	150	2.2	150	90	1	519	34	5	35	24	1.79
3019091--3019449	60	6.0	61	78	4	356	34	5	35	24	1.78
3022351--3022391	22	1.9	21	85	5	55	60	9	12	17	1.57
3022470--3022500	15	2.1	15	100	0	62	48	25	0	25	1.52
3024959--3025017	31	1.9	31	96	0	109	44	5	6	44	1.52
3025041--3025381	22	15.5	22	87	1	459	46	9	0	43	1.36
3026601--3026654	27	2.0	27	92	0	90	57	16	0	25	1.40
3028248--3028626	189	2.0	189	98	1	742	39	13	18	27	1.89
3029966--3030334	20	18.5	20	85	4	458	34	26	18	20	1.96
3031226--3031250	12	2.1	12	100	0	50	72	0	28	0	0.86
3033377--3033702	19	18.4	19	80	15	405	47	17	20	14	1.82
3033377--3033702	33	9.2	34	82	13	321	47	17	20	14	1.82
3033405--3033724	161	2.0	157	93	3	552	46	16	21	14	1.83
3033405--3033724	52	6.0	52	93	4	550	46	16	21	14	1.83
3033731--3033832	19	5.6	19	85	12	151	14	23	17	44	1.86
3033938--3033974	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3033955--3034025	37	1.9	37	97	0	133	52	16	1	29	1.53
3033955--3034034	37	2.2	37	90	0	124	53	17	1	27	1.51
3035883--3035939	14	3.7	14	77	20	60	45	22	21	10	1.82
3035864--3035956	33	2.8	33	95	0	168	47	21	20	10	1.80
3035827--3035961	19	7.6	19	76	16	128	45	23	19	11	1.82
3035957--3036085	19	7.3	19	75	17	125	8	17	28	45	1.77
3035957--3036048	33	2.8	33	93	3	150	7	18	28	45	1.76
3036129--3036599	93	5.1	93	98	1	903	46	18	12	22	1.82
3038304--3038393	14	5.7	14	74	23	81	42	23	25	8	1.83
3038296--3038410	33	3.5	33	92	0	194	45	22	23	8	1.80
3038427--3038481	14	3.6	14	73	21	56	9	25	23	41	1.83
3038411--3038481	33	2.2	33	94	0	124	8	22	25	43	1.81
3038422--3038503	33	2.5	33	89	2	119	9	25	21	42	1.84
3038434--3038522	20	4.8	20	72	19	75	12	24	19	43	1.85
3038602--3038672	33	2.2	33	92	0	115	47	18	22	11	1.80
3038854--3038908	22	2.5	22	81	0	74	20	16	40	23	1.91
3039054--3039247	20	9.6	20	82	5	221	19	19	25	35	1.95
3039054--3039247	60	3.2	60	83	0	253	19	19	25	35	1.95
3039240--3039316	21	3.7	20	70	13	57	27	16	23	32	1.96
3039302--3039353	20	2.6	20	96	0	95	21	13	26	38	1.90
3040107--3040140	14	2.4	14	100	0	68	35	11	35	17	1.87
3041848--3041874	5	5.4	5	100	0	54	0	22	55	22	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3041895--3041931	11	3.7	10	89	10	58	35	29	21	13	1.92
3041877--3041932	20	2.8	19	84	7	67	28	28	25	17	1.98
3041871--3041931	9	6.3	9	80	10	50	27	27	27	16	1.97
3049073--3049111	5	7.4	5	83	11	51	5	23	51	20	1.67
3049064--3049101	17	2.2	17	95	0	67	10	23	44	21	1.83
3049108--3049147	9	4.3	9	84	6	53	30	30	27	12	1.93
3052360--3052402	13	3.3	13	81	12	52	41	6	0	51	1.29
3052823--3052875	21	2.5	21	84	0	70	22	24	16	35	1.95
3052868--3052906	20	2.0	20	94	0	69	46	20	12	20	1.83
3052873--3052917	20	2.2	20	84	0	54	46	22	13	17	1.83
3053114--3053179	22	3.0	22	86	0	96	25	39	13	21	1.90
3053516--3053585	20	3.5	20	82	1	88	10	14	24	51	1.72
3055454--3055610	20	8.5	20	72	18	90	38	21	20	19	1.93
3055477--3055569	33	2.8	34	76	3	89	41	21	21	15	1.89
3055677--3055743	20	3.3	20	87	0	98	17	16	22	43	1.88
3057716--3057751	14	2.6	14	90	0	54	30	0	22	47	1.52
3057857--3057952	33	2.8	33	88	3	138	42	19	23	13	1.87
3057967--3058062	33	2.8	33	90	3	138	12	22	20	43	1.86
3058034--3058082	20	2.5	20	90	6	73	18	22	24	34	1.96
3060512--3060565	24	2.2	24	90	0	81	40	14	18	25	1.89
3061408--3061454	20	2.3	20	92	0	76	21	19	27	31	1.97
3061470--3061515	21	2.2	21	88	0	65	41	17	23	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3061766--3061800	12	2.9	12	91	0	52	45	2	2	48	1.32
3061786--3061839	23	2.3	23	87	3	72	44	7	3	44	1.49
3061870--3061927	29	2.0	29	83	6	73	37	1	0	60	1.07
3061886--3061923	18	2.2	17	95	4	67	34	2	0	63	1.09
3065837--3065875	20	1.9	20	85	15	53	33	0	30	35	1.58
3073448--3073510	21	3.0	21	86	4	90	26	28	20	23	1.99
3073452--3073510	22	2.8	21	80	14	75	27	28	22	22	1.99
3074733--3074851	63	1.9	63	85	0	166	33	34	10	21	1.87
3076352--3076409	2	30.0	2	93	6	102	50	0	0	50	1.00
3076501--3076550	22	2.3	22	78	0	55	34	6	0	60	1.21
3076581--3076685	2	53.5	2	70	23	64	42	5	0	50	1.32
3076518--3076667	24	6.6	24	65	23	76	40	7	0	52	1.34
3076518--3076662	69	2.1	70	83	10	183	39	7	0	52	1.35
3076572--3076685	13	9.4	13	68	25	56	42	6	0	50	1.33
3076745--3076780	2	19.5	2	83	16	51	47	0	0	52	1.00
3077656--3077774	41	2.9	41	79	9	136	26	21	18	34	1.96
3080854--3081099	43	5.8	41	80	6	222	27	19	17	36	1.94
3080854--3081122	85	3.2	86	75	7	253	26	18	17	36	1.94
3085808--3085873	35	2.0	32	85	11	89	46	3	0	50	1.16
3090800--3090830	13	2.4	13	100	0	62	35	25	6	32	1.82
3106222--3106246	13	1.9	13	100	0	50	44	8	16	32	1.76
3111134--3111168	14	2.5	14	85	0	52	57	2	14	25	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3113525--3113616	21	4.2	21	61	15	51	34	3	17	44	1.65
3113520--3113662	67	2.1	67	83	5	173	33	3	18	44	1.67
3118412--3118448	19	1.9	19	89	10	58	21	29	21	27	1.99
3123801--3123827	7	3.9	7	100	0	54	59	0	0	40	0.98
3126542--3126637	45	2.1	45	96	1	174	30	8	12	48	1.70
3131094--3131124	9	3.4	9	90	0	53	45	3	0	51	1.17
3131862--3131913	14	3.5	15	82	12	54	69	1	1	26	1.10
3132496--3132684	76	2.7	67	79	13	188	57	12	1	29	1.43
3132636--3132694	24	2.8	19	73	22	55	54	15	0	30	1.42
3132648--3132703	24	2.3	24	93	0	94	53	14	1	30	1.51

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