genome.fa.s2.2.7.7.80.10.50.1000.5.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   

This is table  5  of  31  ( 3649 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)
2421321--2421611	147	2.0	147	92	0	483	26	18	16	38	1.92
2423547--2423673	62	2.0	62	98	0	245	24	14	26	34	1.93
2436886--2436910	13	1.9	13	100	0	50	72	0	4	24	1.02
2437915--2438019	52	2.0	52	83	0	129	26	21	22	28	1.99
2439014--2439049	16	2.2	16	90	5	54	58	2	0	38	1.13
2442990--2443016	14	1.9	14	100	0	54	77	22	0	0	0.76
2447739--2447770	2	16.0	2	100	0	64	50	0	0	50	1.00
2447823--2447906	28	2.9	28	74	13	71	38	0	1	60	1.04
2448445--2448474	10	2.9	10	95	5	51	13	0	0	86	0.57
2477718--2477786	35	2.0	35	97	0	129	34	17	11	36	1.86
2478785--2478937	20	7.3	20	68	19	73	69	1	1	27	1.07
2478779--2478850	35	2.1	35	89	10	112	72	0	0	27	0.85
2478785--2478939	15	10.6	15	68	22	91	69	1	1	27	1.07
2491063--2491131	30	2.4	28	83	9	84	34	13	13	39	1.83
2491138--2491308	76	2.3	75	82	3	225	36	14	10	38	1.81
2491272--2491329	21	2.8	21	78	0	62	48	18	10	22	1.78
2503466--2503490	12	2.1	12	100	0	50	68	0	8	24	1.16
2503692--2503734	17	2.6	16	75	7	50	46	2	0	51	1.13
2503690--2503742	15	3.3	16	75	14	56	49	1	0	49	1.12
2512313--2512344	2	16.5	2	93	6	57	50	0	0	50	1.00
2520366--2520399	2	17.0	2	87	0	50	47	2	2	47	1.32
2526372--2526438	29	2.4	29	85	5	84	59	0	5	34	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2531931--2532006	33	2.3	32	88	2	107	36	34	7	21	1.82
2531899--2532006	32	3.3	32	80	2	108	35	32	11	21	1.88
2533773--2533823	19	2.4	21	75	18	52	41	1	0	56	1.10
2534568--2534610	16	2.8	16	86	10	54	55	0	0	44	0.99
2534787--2534817	16	1.9	16	93	0	53	45	6	0	48	1.28
2543006--2543046	18	2.3	18	87	8	57	48	4	4	41	1.46
2549338--2549370	15	2.2	15	94	0	57	24	9	18	48	1.76
2549432--2549461	7	4.3	7	95	0	51	0	63	0	36	0.95
2549422--2549461	14	2.8	14	84	3	53	0	62	2	35	1.09
2550320--2550364	21	2.1	21	91	0	72	20	0	48	31	1.49
2554088--2554121	2	17.0	2	93	0	59	47	0	2	50	1.16
2591071--2591506	211	2.0	213	87	4	619	47	4	6	41	1.50
2593534--2593585	18	3.0	17	81	15	54	46	15	0	38	1.46
2594230--2594319	43	2.1	43	89	0	135	28	15	16	38	1.90
2611867--2611920	28	1.9	28	92	0	90	40	7	18	33	1.78
2620555--2620591	11	3.5	11	82	17	51	29	0	0	70	0.88
2640735--2640765	2	15.5	2	100	0	62	0	48	0	51	1.00
2644573--2644630	26	2.2	26	85	11	75	44	0	0	55	0.99
2644539--2644628	35	2.6	35	79	13	96	45	0	0	54	0.99
2644669--2644725	26	2.2	27	81	15	75	40	3	3	52	1.35
2661823--2661852	16	1.9	16	93	6	53	26	26	10	36	1.88
2675219--2675248	2	15.0	2	100	0	60	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)
2680335--2680365	4	7.8	4	92	0	53	25	0	0	74	0.82
2681734--2681761	2	14.0	2	100	0	56	50	0	0	50	1.00
2682981--2683007	4	6.8	4	100	0	54	48	0	0	51	1.00
2683320--2683818	66	7.6	66	81	4	301	21	29	23	26	1.99
2683427--2683850	66	6.4	66	84	2	422	21	29	22	25	1.99
2683379--2683850	132	3.6	132	80	3	448	21	29	23	25	1.99
2684846--2684877	2	15.5	2	93	6	55	50	0	3	46	1.17
2697728--2697760	17	1.9	17	93	0	57	45	3	0	51	1.16
2697722--2697764	17	2.7	15	76	13	50	46	2	0	51	1.13
2697784--2697834	15	3.3	15	81	15	59	49	1	0	49	1.12
2712963--2713037	18	3.7	19	77	15	71	53	4	0	42	1.19
2712963--2713030	21	3.5	20	84	10	77	51	4	0	44	1.21
2713013--2713079	35	1.9	34	85	8	91	52	1	0	46	1.09
2716414--2716456	12	3.4	12	80	20	52	23	0	0	76	0.78
2716601--2716634	16	2.2	16	89	5	52	38	0	0	61	0.96
2719446--2719477	11	2.9	11	95	0	55	71	0	3	25	1.00
2719672--2719723	21	2.6	21	79	8	56	69	1	3	25	1.16
2724741--2724781	19	2.2	19	100	0	82	24	26	0	48	1.51
2730206--2730286	42	2.0	41	80	7	94	66	1	2	29	1.12
2730344--2730404	6	9.7	6	72	10	50	72	0	3	24	1.00
2730338--2730408	32	2.2	33	87	2	99	70	0	2	26	1.01
2730328--2730380	19	2.7	20	77	14	56	69	0	1	28	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2730357--2730402	13	3.5	13	78	16	51	71	0	4	23	1.03
2730338--2730409	33	2.2	32	87	2	99	69	0	2	27	1.02
2730363--2730425	15	3.9	15	76	13	54	65	1	4	28	1.22
2730550--2730594	21	2.0	23	87	8	67	31	11	2	55	1.47
2731092--2731119	14	2.0	14	100	0	56	50	14	14	21	1.78
2732820--2732925	24	4.4	24	91	0	176	50	4	41	3	1.41
2732820--2732925	12	8.8	12	70	4	79	50	4	41	3	1.41
2735957--2736013	28	2.0	28	93	0	96	35	7	7	50	1.56
2739757--2739808	25	2.1	25	100	0	104	28	32	3	34	1.76
2742978--2743017	20	2.0	20	100	0	80	30	25	5	40	1.77
2743228--2743314	44	2.0	44	83	0	111	31	6	16	45	1.73
2743241--2743314	22	3.4	22	80	0	85	29	8	16	45	1.76
2743346--2743406	23	2.7	23	79	2	70	37	18	6	37	1.76
2743734--2743798	27	2.3	28	84	5	78	47	6	4	41	1.49
2743775--2743821	23	2.0	24	88	8	71	55	2	4	38	1.31
2745828--2745897	28	2.4	27	81	13	70	54	2	1	41	1.24
2745823--2745897	29	2.6	28	79	12	73	53	2	1	42	1.23
2750187--2750600	85	4.9	85	85	0	551	33	13	11	39	1.80
2755287--2755339	18	2.9	18	88	5	72	30	0	0	69	0.88
2755308--2755370	26	2.3	27	81	13	67	28	0	0	71	0.86
2755304--2755361	21	3.0	20	82	7	57	31	0	0	68	0.89
2755305--2755395	30	3.1	28	85	6	103	31	0	2	65	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2755326--2755395	30	2.4	29	90	2	104	32	0	2	64	1.08
2755467--2755554	33	2.7	33	78	0	104	48	2	4	44	1.35
2761739--2761785	25	1.9	24	87	12	69	25	19	12	42	1.86
2768810--2768840	15	2.1	15	93	0	53	38	6	22	32	1.80
2769027--2769086	26	2.7	21	71	24	50	30	3	3	63	1.27
2775712--2775742	4	7.8	4	100	0	62	77	0	22	0	0.77
2796275--2796468	95	2.1	94	84	4	248	36	9	12	41	1.76
2797035--2797190	77	2.0	77	92	0	258	39	16	17	26	1.90
2801201--2801241	20	2.0	21	85	4	57	26	12	12	48	1.75
2801308--2801361	26	2.0	27	89	7	83	64	0	0	35	0.94
2817096--2817127	13	2.4	14	94	5	57	90	0	9	0	0.45
2817789--2817835	18	2.6	18	77	12	51	31	10	27	29	1.90
2818246--2818270	3	8.3	3	100	0	50	0	36	0	64	0.94
2819010--2819106	38	2.5	39	93	3	160	32	4	25	37	1.75
2820319--2820363	3	15.0	3	100	0	90	66	0	0	33	0.92
2824539--2824568	2	15.0	2	100	0	60	50	0	50	0	1.00
2825291--2825364	29	2.5	30	84	4	96	47	1	6	44	1.38
2825454--2825636	55	3.3	55	76	2	154	44	6	6	43	1.53
2825458--2825636	27	6.6	27	74	4	126	44	6	6	43	1.54
2828483--2828544	26	2.5	24	78	7	61	38	3	0	58	1.15
2828542--2828574	13	2.4	14	90	5	50	45	0	0	54	0.99
2831325--2831368	16	2.8	15	82	6	52	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2831584--2831632	18	2.6	18	78	18	55	46	0	0	53	1.00
2857715--2857743	2	14.5	2	100	0	58	48	0	0	51	1.00
2868726--2868772	22	2.2	21	81	11	51	6	14	21	57	1.60
2871975--2872001	6	4.5	6	100	0	54	0	29	33	37	1.58
2882104--2882150	2	23.5	2	100	0	94	0	48	0	51	1.00
2882150--2882174	2	12.5	2	100	0	50	48	0	0	52	1.00
2887494--2887553	25	2.5	24	75	5	59	61	6	10	21	1.50
2889908--2889939	3	10.7	3	93	0	55	71	0	28	0	0.86
2891133--2891179	17	2.7	17	81	12	51	40	2	0	57	1.11
2901306--2901419	57	2.0	57	94	0	201	33	31	13	21	1.92

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