genome.fa.s11.2.7.7.80.10.50.1000.6.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: NW_018397264.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_130.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8132550

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

This is table  6  of  14  ( 1638 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)
2503947--2504031	30	2.8	30	81	0	107	11	37	29	21	1.89
2503947--2504031	15	5.7	15	87	0	71	11	37	29	21	1.89
2504088--2504192	51	2.1	51	87	0	147	5	34	33	26	1.80
2513237--2513284	20	2.5	19	78	21	55	47	0	2	50	1.12
2516290--2516316	6	4.5	6	100	0	54	0	18	0	81	0.69
2516458--2516506	13	3.8	13	81	5	55	73	2	0	24	0.94
2516874--2516940	26	2.5	26	80	4	71	17	22	8	50	1.74
2525154--2525467	168	1.9	168	91	0	511	28	11	17	41	1.85
2534353--2534381	4	7.2	4	100	0	58	0	24	24	51	1.48
2553649--2553674	2	13.0	2	100	0	52	50	0	0	50	1.00
2553810--2553885	29	2.7	29	85	2	100	39	9	9	42	1.69
2553794--2553873	29	2.7	30	74	3	90	43	10	8	37	1.69
2554327--2554376	23	2.2	23	96	0	91	56	12	14	18	1.68
2561730--2561754	2	12.5	2	100	0	50	48	0	0	52	1.00
2576513--2576545	15	2.2	15	94	0	57	72	3	12	12	1.23
2577371--2577491	59	2.1	59	85	3	163	45	18	12	23	1.83
2579197--2579267	36	2.0	36	85	0	97	33	7	12	46	1.69
2583207--2583239	2	17.0	2	93	6	59	0	0	51	48	1.00
2593245--2593468	112	2.0	109	85	4	297	22	21	11	44	1.84
2607308--2607347	1	40.0	1	100	0	80	0	100	0	0	0.00
2610819--2610885	34	2.0	33	91	2	107	55	8	10	25	1.63
2620766--2620797	3	10.7	3	100	0	64	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2628829--2628882	2	27.0	2	96	0	99	48	0	1	50	1.11
2632581--2632667	44	2.0	44	90	0	138	33	13	25	27	1.94
2634300--2634377	39	2.0	39	87	5	113	28	26	16	28	1.97
2648082--2648106	6	4.2	6	100	0	50	84	0	0	16	0.63
2657374--2657434	30	2.1	28	90	6	95	60	0	0	39	0.97
2657379--2657427	25	2.0	24	84	11	64	61	0	0	38	0.96
2658660--2658731	30	2.5	29	82	10	85	48	2	4	44	1.36
2669290--2669319	2	15.0	2	92	0	51	53	0	0	46	1.00
2669561--2669602	21	2.0	21	90	0	66	16	52	4	26	1.63
2692385--2693168	141	5.6	140	81	4	807	24	6	42	27	1.78
2693887--2693958	16	4.1	18	71	21	55	52	0	40	6	1.28
2695809--2695854	3	15.3	3	90	0	74	67	4	0	28	1.10
2698176--2698341	86	1.9	86	97	0	314	36	16	7	39	1.78
2705850--2705939	34	2.6	34	85	5	110	38	15	14	31	1.87
2712050--2712128	37	2.1	37	90	0	122	37	15	13	32	1.87
2714330--2714380	17	3.0	17	83	11	61	1	9	7	80	0.98
2723939--2724040	50	2.0	50	85	7	136	62	7	15	13	1.52
2756730--2756754	2	12.5	2	100	0	50	48	0	0	52	1.00
2757135--2757169	17	2.1	17	100	0	70	11	17	28	42	1.83
2775868--2775906	18	2.2	18	86	4	53	17	0	12	69	1.19
2777058--2777087	10	2.9	10	95	5	51	86	3	0	10	0.67
2781084--2781109	1	26.0	1	100	0	52	0	100	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2785130--2785177	25	2.0	24	84	12	62	50	12	2	35	1.52
2785430--2785546	58	2.0	59	91	1	191	51	9	2	36	1.48
2788611--2788649	17	2.4	17	82	4	53	58	0	0	41	0.98
2795224--2795285	23	2.7	23	76	0	61	30	8	0	61	1.25
2812624--2812681	28	2.1	28	90	6	91	37	0	0	62	0.96
2825169--2825242	29	2.4	29	82	6	85	41	2	1	54	1.23
2864229--2864385	28	5.5	28	78	8	122	36	6	15	41	1.73
2864187--2864366	86	2.1	86	85	2	236	38	5	16	38	1.72
2864161--2864512	29	12.2	29	71	7	166	36	7	16	38	1.77
2864258--2864512	57	4.4	57	72	12	162	36	7	16	39	1.77
2864220--2864389	86	2.0	86	84	2	225	37	6	15	40	1.73
2864318--2864512	86	2.3	86	81	5	207	35	9	16	38	1.81
2870826--2870851	2	13.0	2	100	0	52	50	0	0	50	1.00
2885161--2885185	10	2.5	10	100	0	50	16	0	52	32	1.44
2898890--2898974	43	2.0	43	100	0	170	30	21	11	36	1.89
2899357--2899399	18	2.3	19	84	15	54	51	11	13	23	1.74
2900464--2900501	17	2.2	18	85	4	51	21	21	18	39	1.93
2907615--2907650	6	6.0	6	93	0	54	55	0	44	0	0.99
2923582--2923611	10	3.0	10	100	0	60	80	0	0	20	0.72
2926547--2926585	2	19.5	2	100	0	78	51	0	0	48	1.00
2926772--2926828	15	3.8	15	80	0	69	36	8	22	31	1.85
2927007--2927071	32	2.0	32	94	5	114	41	4	0	53	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2927023--2927121	32	3.1	31	81	10	92	35	2	1	61	1.14
2927075--2927160	33	2.6	33	83	5	102	29	2	0	68	1.02
2927137--2927251	31	4.0	30	71	20	95	29	1	0	67	1.06
2927130--2927247	55	2.2	55	81	16	151	30	1	0	66	1.07
2929374--2929483	6	16.7	6	73	15	67	71	0	0	28	0.86
2929376--2929485	33	3.3	32	80	12	107	70	0	0	29	0.87
2929350--2929500	40	3.8	40	78	15	123	68	0	0	30	0.99
2933091--2933150	25	2.5	26	84	10	74	41	1	0	56	1.09
2933088--2933150	23	2.6	24	76	13	67	41	1	0	57	1.08
2935341--2935375	2	17.5	2	100	0	70	48	0	0	51	1.00
2936966--2937005	22	1.9	22	85	10	57	42	0	37	20	1.52
2938898--2938950	27	2.0	27	84	0	70	39	1	3	54	1.29
2940200--2940233	16	2.1	17	88	5	52	64	2	14	17	1.40
2942031--2942072	22	1.9	22	85	0	57	83	2	14	0	0.75
2950367--2950394	2	14.0	2	100	0	56	50	0	0	50	1.00
2951960--2951991	2	16.5	2	93	6	57	46	0	0	53	1.00
2963010--2963059	2	25.0	2	80	15	59	48	2	4	46	1.32
2964680--2964716	2	18.5	2	100	0	74	51	0	0	48	1.00
2977085--2977205	42	2.9	42	82	0	152	21	20	22	35	1.96
2980363--2980419	16	3.7	16	72	15	57	40	1	0	57	1.09
3004379--3004411	3	11.0	3	100	0	66	0	33	33	33	1.58
3006186--3006219	3	11.3	3	87	0	50	61	0	5	32	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3026818--3026861	21	2.2	20	83	4	52	11	20	25	43	1.85
3028257--3028282	2	13.0	2	100	0	52	50	0	0	50	1.00
3035074--3035114	21	2.0	21	85	0	55	29	21	19	29	1.98
3044345--3044386	22	1.9	21	85	9	57	64	14	11	9	1.50
3050990--3051015	2	13.0	2	100	0	52	50	0	0	50	1.00
3052026--3052108	40	2.1	39	82	6	96	43	3	1	51	1.26
3054133--3054174	22	1.9	22	90	0	66	66	0	2	30	1.04
3054133--3054175	12	3.8	12	81	12	54	65	0	2	32	1.06
3055518--3055547	14	2.2	14	94	5	53	56	0	0	43	0.99
3062502--3062554	22	2.4	22	93	0	88	37	18	26	16	1.93
3066101--3066135	18	1.9	18	88	0	52	40	0	20	40	1.52
3066845--3066909	35	1.9	33	81	9	78	41	3	7	47	1.48
3070827--3070860	15	2.3	15	100	0	68	47	5	11	35	1.65
3074322--3074364	17	2.4	18	92	3	70	41	9	0	48	1.35
3074561--3074602	19	2.2	18	87	8	57	33	4	0	61	1.17
3074700--3074747	23	2.1	24	81	14	57	39	8	2	50	1.44
3094819--3094856	16	2.2	19	86	13	55	7	23	10	57	1.58
3105387--3105440	27	2.0	27	100	0	108	37	7	29	25	1.83
3108294--3108331	1	38.0	1	100	0	76	0	100	0	0	0.00
3109908--3109935	3	9.3	3	100	0	56	67	0	0	32	0.91
3111547--3111571	3	8.3	3	100	0	50	68	0	32	0	0.90
3112492--3112525	16	2.1	16	88	0	50	52	5	2	38	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3112724--3112774	16	3.2	16	78	13	61	54	0	0	45	0.99
3112702--3112780	39	2.0	42	82	7	101	51	0	0	48	1.00
3112737--3112818	27	3.0	26	79	15	85	51	1	0	47	1.08
3112776--3112821	23	2.0	22	88	12	67	50	2	0	47	1.13
3112870--3112968	14	7.1	14	67	23	50	44	2	2	51	1.24
3112759--3113390	212	3.0	209	84	5	817	43	3	2	49	1.35
3112769--3113349	205	2.8	212	86	3	795	43	4	2	49	1.36
3114955--3115365	210	2.0	207	83	2	527	36	15	19	28	1.92
3115040--3115445	210	1.9	210	82	4	498	36	15	19	29	1.92
3117522--3117554	12	2.5	13	90	9	50	21	3	0	75	0.93

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