genome.fa.s15.2.7.7.80.10.50.1000.4.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

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

This is table  4  of  13  ( 1452 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)
2176681--2176725	22	1.9	22	86	13	63	24	8	2	64	1.34
2182804--2182870	32	2.1	33	88	2	100	35	10	14	38	1.81
2187351--2187375	13	1.9	13	100	0	50	72	0	24	4	1.02
2202835--2202876	20	2.1	20	100	0	84	40	23	19	16	1.91
2209573--2209753	97	1.9	97	94	0	317	39	14	6	38	1.73
2211549--2211573	2	12.5	2	100	0	50	48	0	0	52	1.00
2231052--2231156	52	2.0	52	98	0	201	27	18	20	33	1.96
2241609--2241636	2	14.0	2	100	0	56	50	0	0	50	1.00
2257520--2257819	148	2.0	148	90	0	474	44	14	9	28	1.76
2273816--2273910	46	2.1	46	95	0	172	40	25	8	26	1.84
2275659--2275696	18	2.1	18	85	9	51	57	0	13	28	1.36
2279316--2279344	2	14.5	2	100	0	58	48	0	0	51	1.00
2279650--2279688	20	2.0	20	85	10	53	56	2	0	41	1.13
2279650--2279689	21	2.0	20	85	5	53	57	2	0	40	1.12
2283438--2283468	4	7.8	4	92	0	53	0	25	0	74	0.82
2285870--2285939	30	2.3	31	78	11	74	31	10	1	57	1.41
2286146--2286205	30	2.0	30	83	6	77	56	0	5	38	1.21
2286307--2286357	25	2.0	25	96	0	93	39	9	29	21	1.85
2293656--2293707	19	2.6	21	79	17	65	44	0	0	55	0.99
2294195--2294257	24	2.5	24	69	21	58	57	1	4	36	1.30
2303629--2303689	27	2.2	27	77	13	63	21	0	6	72	1.07
2305342--2305396	28	1.9	30	89	10	89	60	0	3	36	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2317522--2317547	2	13.0	2	100	0	52	0	50	0	50	1.00
2326577--2326603	4	6.8	4	100	0	54	51	22	0	25	1.48
2332690--2332737	25	1.9	25	87	8	71	43	8	4	43	1.53
2334925--2334970	15	3.1	15	76	14	51	32	2	13	52	1.52
2338772--2338832	33	1.9	29	81	15	68	9	57	19	13	1.63
2338746--2338872	40	3.4	40	73	20	139	11	59	14	13	1.61
2338747--2339023	72	4.2	71	81	15	280	11	61	13	13	1.58
2338775--2339026	30	7.9	32	69	21	140	12	60	13	13	1.60
2338848--2339019	30	5.6	30	76	13	156	13	60	12	13	1.59
2338848--2339023	59	2.9	59	88	5	253	13	60	12	13	1.59
2339126--2339183	26	2.3	26	96	3	109	48	32	12	6	1.67
2346123--2346177	27	2.0	27	83	13	69	58	7	1	32	1.36
2350114--2350156	14	2.9	16	80	20	65	58	4	0	37	1.19
2351866--2351938	27	2.8	26	79	4	92	24	24	21	28	1.99
2355068--2355117	26	1.9	26	100	0	100	26	14	24	36	1.93
2355506--2355611	53	2.0	53	88	0	158	37	18	9	33	1.83
2355630--2355762	45	3.0	45	80	0	122	31	16	11	40	1.84
2358870--2358899	2	15.0	2	100	0	60	50	0	0	50	1.00
2364702--2364732	2	15.5	2	100	0	62	48	0	0	51	1.00
2394096--2394128	2	16.5	2	93	0	57	48	0	3	48	1.17
2395079--2395120	22	2.0	21	86	13	59	76	2	4	16	1.07
2397828--2398053	121	1.9	122	87	0	337	48	14	21	15	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2401245--2401644	176	2.3	179	79	4	416	38	15	10	36	1.82
2402161--2402231	27	2.5	28	80	8	81	59	5	4	30	1.40
2408974--2409003	7	4.1	7	95	4	51	13	0	0	86	0.57
2414459--2414687	116	2.0	113	87	5	327	37	13	6	41	1.72
2415330--2415371	16	2.5	17	81	14	52	64	0	0	35	0.94
2422236--2422428	66	2.9	66	88	0	278	19	18	33	27	1.96
2440657--2440703	16	3.0	15	79	14	51	29	2	0	68	1.02
2440694--2440743	18	2.7	18	76	17	57	50	0	0	50	1.00
2446810--2447036	27	8.4	27	84	3	251	39	26	15	18	1.91
2446815--2447026	54	3.9	54	86	3	293	39	25	16	17	1.91
2447019--2447104	33	2.6	33	96	0	154	30	27	15	26	1.96
2447071--2447162	27	3.4	27	82	5	105	26	27	16	30	1.97
2447153--2447243	27	3.4	27	82	0	92	31	26	14	27	1.95
2447843--2447885	21	2.0	21	86	8	61	53	11	13	20	1.71
2451978--2452063	42	2.0	42	91	4	138	25	1	26	46	1.60
2457458--2457488	2	15.5	2	100	0	62	0	51	0	48	1.00
2466545--2466589	21	2.2	20	96	4	81	42	28	17	11	1.84
2471335--2471369	16	2.3	15	90	5	52	51	0	0	48	1.00
2473101--2473143	18	2.4	17	77	11	50	9	32	0	58	1.30
2479005--2479036	2	16.0	2	100	0	64	50	0	0	50	1.00
2479545--2479584	11	3.6	11	80	12	55	47	0	0	52	1.00
2488540--2488628	33	2.7	33	75	0	88	35	5	6	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2507884--2507915	2	16.0	2	93	0	55	0	46	0	53	1.00
2510259--2510284	2	13.0	2	100	0	52	0	50	0	50	1.00
2515850--2515902	15	3.5	15	92	0	79	47	16	30	5	1.70
2532595--2532621	2	13.5	2	100	0	54	48	0	0	51	1.00
2536672--2536786	52	2.2	51	84	1	140	37	3	9	49	1.52
2553712--2553750	19	2.1	19	85	0	51	58	2	0	38	1.12
2560119--2560150	13	2.5	13	94	0	55	15	3	0	81	0.82
2562319--2562565	123	2.0	123	85	1	334	40	12	17	29	1.86
2564805--2564835	14	2.1	15	94	5	55	51	0	0	48	1.00
2564806--2564835	11	2.8	11	95	5	53	53	0	0	46	1.00
2592011--2592052	22	2.0	22	90	4	68	59	7	21	11	1.56
2593168--2593193	2	13.0	2	100	0	52	50	0	0	50	1.00
2600611--2600667	28	2.0	28	96	0	105	22	19	12	45	1.83
2601884--2601915	16	2.0	16	100	0	64	62	0	0	37	0.95
2601989--2602031	20	2.2	20	87	8	61	32	0	0	67	0.91
2602777--2602803	14	1.9	14	100	0	54	22	7	0	70	1.12
2604820--2604978	84	1.9	84	81	5	196	30	6	15	46	1.72
2618371--2618396	2	13.0	2	100	0	52	50	0	0	50	1.00
2622922--2622985	28	2.2	30	88	5	96	53	4	7	34	1.51
2627658--2627715	25	2.2	26	81	6	64	70	5	1	22	1.16
2629317--2629342	2	13.0	2	100	0	52	50	0	0	50	1.00
2632382--2632435	7	7.7	7	91	0	90	85	1	12	0	0.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2640797--2640827	2	15.5	2	93	0	53	0	45	0	54	0.99
2643397--2643429	14	2.4	14	94	0	57	39	9	30	21	1.84
2653227--2653391	85	1.9	86	87	1	242	47	18	9	23	1.78
2655212--2655242	16	1.9	16	93	0	53	61	16	0	22	1.34
2656325--2656352	2	14.0	2	100	0	56	50	0	0	50	1.00
2656485--2656535	27	2.0	26	85	11	70	43	23	9	23	1.83
2660435--2660489	14	4.2	13	76	15	51	40	0	0	60	0.97
2660435--2660488	18	2.8	18	75	10	54	40	0	0	59	0.98
2660495--2660529	16	2.2	16	89	0	52	51	5	2	40	1.40
2660745--2660803	28	2.1	27	84	9	75	52	1	3	42	1.28
2661770--2661828	28	2.1	29	87	3	84	40	0	0	59	0.97
2667687--2667725	4	10.0	4	88	5	62	25	2	23	48	1.63
2667706--2667932	125	1.8	125	83	1	303	25	7	22	44	1.79
2674130--2674176	2	24.0	2	95	4	87	0	48	0	51	1.00
2675333--2675370	5	7.6	5	85	8	51	0	21	2	76	0.91
2675323--2675370	15	3.2	14	82	11	51	2	20	2	75	1.02
2677262--2677295	2	17.5	2	93	6	61	50	0	0	50	1.00
2679786--2679814	2	14.5	2	100	0	58	48	0	0	51	1.00
2687024--2687072	22	2.3	21	83	16	57	38	2	0	59	1.09
2687006--2687076	31	2.3	32	80	9	85	38	2	0	59	1.12
2688937--2688967	2	15.5	2	100	0	62	48	0	51	0	1.00
2693639--2694460	33	24.9	33	74	8	340	30	28	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2698360--2698397	2	19.0	2	88	0	58	0	44	2	52	1.14
2698360--2698413	8	6.5	8	75	8	54	0	38	3	57	1.17
2698360--2698415	16	3.5	16	83	7	69	0	37	3	58	1.15
2699131--2699175	21	2.2	21	84	11	58	22	17	11	48	1.78
2701211--2701270	29	2.1	29	100	0	120	13	16	10	60	1.59
2712177--2712203	14	1.9	14	100	0	54	48	0	22	29	1.51
2713357--2713397	8	5.4	8	88	5	50	12	0	2	85	0.70
2713364--2713390	7	3.9	7	100	0	54	11	0	0	88	0.50
2713421--2713459	21	1.9	20	84	5	51	10	5	20	64	1.44
2717845--2717887	22	2.0	22	100	0	86	41	9	23	25	1.84

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