genome.fa.s8243.2.7.7.80.10.50.1000.16.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  16  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)
2958189--2958262	32	2.3	33	79	6	80	14	8	31	45	1.74
2965329--2965399	20	3.4	21	65	16	58	39	9	8	42	1.69
2965298--2965403	42	2.5	43	96	1	196	41	13	7	37	1.72
2971000--2971048	12	4.1	12	79	10	64	40	14	18	26	1.89
2974287--2974557	41	6.7	41	83	5	307	29	19	16	33	1.94
2974286--2974557	83	3.3	82	83	6	345	30	19	16	33	1.94
2974330--2974557	121	1.9	121	85	4	318	30	19	15	34	1.93
2977951--2978173	86	2.6	85	82	2	268	27	19	18	34	1.95
2977951--2978173	43	5.2	42	83	5	227	27	19	18	34	1.95
2979388--2979426	18	2.2	18	90	0	60	43	0	7	48	1.31
2985531--2985589	24	2.4	25	75	18	61	32	8	1	57	1.39
2987982--2988037	28	2.0	29	92	3	96	48	0	0	51	1.00
2993050--2993162	57	2.0	57	96	0	208	44	5	23	26	1.75
2994468--2994522	25	2.2	24	74	3	56	12	34	9	43	1.74
2998635--2998672	14	2.7	14	88	8	51	65	5	0	28	1.14
2999816--2999901	38	2.2	38	83	6	102	46	1	4	47	1.30
3000036--3000073	20	2.0	20	94	5	69	18	26	10	44	1.82
3000037--3000080	20	2.3	19	88	4	61	20	29	9	40	1.83
3004871--3004898	6	4.7	6	100	0	56	14	17	14	53	1.73
3010399--3010898	55	9.1	55	81	9	343	32	23	15	28	1.95
3010432--3010899	110	4.3	110	84	6	594	31	24	15	28	1.96
3010465--3010915	55	8.3	53	81	8	397	32	24	15	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3012278--3012429	40	3.8	39	75	14	123	7	17	0	73	1.10
3012277--3012386	42	2.7	41	77	14	104	6	20	0	72	1.11
3012353--3012443	31	3.0	30	77	6	87	7	15	0	76	0.99
3012369--3012446	17	4.5	16	68	22	50	7	14	0	78	0.96
3027437--3027527	20	4.9	20	67	22	65	35	5	15	43	1.70
3027436--3027588	53	2.9	52	94	2	263	33	5	12	48	1.65
3027542--3027581	20	2.0	20	90	9	64	37	5	10	47	1.59
3037367--3037405	19	2.1	19	100	0	78	23	10	20	46	1.81
3042457--3042495	19	2.1	19	95	0	69	30	5	12	51	1.62
3046735--3046849	34	3.2	35	87	7	160	22	22	22	32	1.98
3051725--3052164	220	2.0	221	99	0	873	34	19	24	21	1.96
3052900--3052941	22	2.0	21	90	4	66	61	7	7	23	1.47
3057604--3057634	2	15.5	2	93	0	53	51	3	0	45	1.17
3060312--3060431	42	2.9	42	93	0	213	17	20	17	44	1.87
3060612--3060686	30	2.5	29	79	14	73	50	0	0	49	1.00
3060605--3060677	8	9.1	8	77	12	53	49	0	0	50	1.00
3060620--3060732	51	2.3	47	76	20	115	47	0	0	50	1.13
3060630--3060703	30	2.5	31	82	14	93	48	1	0	50	1.09
3060702--3060748	24	2.0	23	83	4	58	40	0	2	57	1.11
3060713--3060790	29	2.7	28	77	16	88	42	1	1	55	1.16
3060722--3060792	10	7.3	10	68	16	51	43	1	1	53	1.18
3060956--3061019	20	3.2	20	97	0	119	34	12	9	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3060956--3061034	40	2.0	40	84	0	104	35	12	8	43	1.74
3061008--3061089	30	2.8	30	88	1	121	35	15	7	41	1.75
3061024--3061089	15	4.4	15	90	0	105	37	18	6	37	1.75
3067768--3067834	20	3.3	20	79	4	89	40	17	23	17	1.91
3067758--3067853	41	2.3	41	96	0	174	40	17	22	18	1.91
3067778--3067853	21	3.7	20	78	5	89	39	18	25	17	1.91
3067780--3067914	41	3.3	41	81	6	123	37	20	21	20	1.94
3067842--3067936	20	4.7	20	80	2	91	34	24	17	23	1.96
3068124--3068167	22	2.0	22	95	0	79	20	45	15	18	1.85
3068431--3068468	20	1.9	20	88	0	58	13	15	21	50	1.78
3069788--3069832	18	2.5	18	82	7	56	26	40	15	17	1.90
3070304--3070370	20	3.4	20	81	2	73	38	23	22	14	1.92
3070359--3070416	14	3.9	14	79	16	71	48	25	17	8	1.75
3070343--3070433	32	2.8	33	94	3	166	47	23	18	10	1.80
3070304--3070438	19	7.6	19	71	19	85	42	23	20	12	1.86
3070450--3070507	14	3.9	14	79	16	71	8	17	25	48	1.75
3070445--3070523	32	2.4	33	95	2	142	10	18	24	46	1.80
3070466--3070565	19	5.5	19	77	12	77	14	21	22	43	1.87
3070508--3070562	20	2.8	19	89	5	83	18	25	21	34	1.96
3072433--3072468	14	2.6	14	90	0	54	30	0	22	47	1.52
3072575--3072651	14	4.7	15	74	22	59	45	19	22	12	1.84
3072585--3072651	18	3.8	19	81	18	92	46	17	22	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3072677--3072727	20	2.5	20	93	0	84	19	23	23	33	1.97
3073093--3073128	14	2.6	14	90	0	54	30	0	22	47	1.52
3073250--3073303	19	2.8	19	97	0	99	16	22	16	44	1.86
3074386--3074444	24	2.5	24	82	0	73	28	16	18	35	1.93
3074619--3074643	12	2.1	12	100	0	50	72	0	28	0	0.86
3076938--3077035	19	5.7	19	69	22	90	43	19	24	12	1.85
3076938--3077031	33	2.8	33	98	0	179	43	19	24	12	1.85
3077194--3077230	14	2.6	14	91	0	65	45	24	0	29	1.53
3078587--3078653	21	3.2	21	66	6	55	19	19	35	25	1.95
3078587--3078709	42	2.9	41	80	7	113	22	17	36	23	1.94
3080710--3080880	19	9.1	19	84	10	199	43	22	22	12	1.86
3080710--3080880	39	4.6	38	81	10	199	43	22	22	12	1.86
3080876--3080946	19	3.7	19	84	1	79	11	19	23	45	1.83
3081462--3081575	20	5.7	20	82	2	111	23	18	24	33	1.97
3081462--3081576	61	1.9	61	85	0	158	23	18	24	33	1.96
3081462--3081596	61	2.2	61	80	5	148	22	20	23	34	1.97
3099303--3099371	24	2.9	24	91	8	122	31	30	4	33	1.77
3100232--3100272	15	2.9	15	82	7	50	53	2	0	43	1.13
3100657--3100695	19	2.0	20	90	5	62	41	5	0	53	1.23
3107033--3107073	18	2.3	18	87	4	57	60	2	7	29	1.36
3114978--3115031	10	5.4	10	80	8	65	74	7	1	16	1.14
3114995--3115033	11	3.8	11	83	16	57	74	7	0	17	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3114978--3115032	20	2.7	21	88	5	78	72	7	1	18	1.16
3121185--3121216	2	16.0	2	100	0	64	50	0	0	50	1.00
3128510--3128538	14	2.1	14	100	0	58	55	13	17	13	1.70
3128797--3128833	20	1.9	19	89	10	58	45	10	24	18	1.81
3129368--3129424	24	2.4	24	100	0	114	22	22	29	24	1.99
3129382--3129433	24	2.2	24	82	0	59	23	32	19	25	1.97
3133792--3133882	44	2.1	44	100	0	182	21	16	18	42	1.89
3141053--3141083	3	10.3	3	100	0	62	0	35	0	64	0.94
3147498--3147561	34	2.0	31	82	14	76	68	0	17	14	1.21
3147573--3147609	18	2.1	17	90	5	56	70	0	5	24	1.08
3147686--3147733	24	2.0	24	88	8	71	66	2	0	31	1.03
3147689--3147739	15	3.3	15	78	10	50	64	1	0	33	1.05
3149376--3149779	102	4.0	102	91	1	614	39	13	18	29	1.88
3149605--3149781	37	5.0	37	70	13	140	38	13	19	28	1.90
3149376--3149767	203	1.9	203	92	0	649	38	13	18	29	1.89
3151234--3151417	95	1.9	94	85	3	253	32	15	18	34	1.92
3155820--3155884	17	3.6	17	69	15	58	21	21	29	27	1.99
3155808--3155886	38	2.1	38	95	0	140	26	22	25	25	2.00
3157434--3157496	15	4.2	14	79	18	65	79	1	4	14	0.97
3157439--3157494	24	2.4	24	85	5	71	80	1	5	12	0.96
3157436--3157494	23	2.6	22	84	7	73	81	1	5	11	0.93
3157435--3157502	22	3.0	22	77	18	68	77	1	5	14	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3157470--3157531	21	3.2	19	80	13	72	70	0	9	19	1.14
3157585--3157631	17	2.8	17	80	0	58	63	2	2	31	1.18
3167786--3167817	15	2.1	15	94	0	55	0	15	0	84	0.63
3170847--3170903	27	2.1	28	81	15	66	50	1	0	47	1.11
3171041--3171079	20	2.0	20	84	0	51	38	7	10	43	1.67
3174288--3174324	4	9.5	4	94	5	67	51	0	0	48	1.00
3175175--3175215	22	2.0	20	90	9	64	34	0	0	65	0.93
3182033--3182127	48	1.9	50	87	4	140	35	9	11	43	1.74
3183080--3183201	59	2.1	59	83	10	151	50	3	11	35	1.55
3186430--3186495	31	2.2	31	86	8	91	33	19	15	31	1.93

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