genome.fa.s10.2.7.7.80.10.50.1000.6.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_018397263.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_86.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8461613

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2155 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)
3014505--3014544	21	1.9	21	85	10	55	35	12	20	32	1.90
3031169--3031293	62	2.0	62	98	0	241	36	20	20	23	1.96
3043407--3043495	16	5.5	16	70	17	60	46	2	1	50	1.21
3043407--3043455	16	3.1	16	82	11	66	46	0	0	53	1.00
3043308--3043664	149	2.3	153	79	10	401	53	2	2	40	1.29
3043604--3043657	27	2.0	27	88	0	81	48	1	3	46	1.30
3043824--3043854	16	1.9	16	93	0	53	19	16	0	64	1.29
3046527--3046566	20	1.9	22	85	10	57	85	7	7	0	0.76
3046837--3046874	20	1.9	20	88	0	58	55	0	0	44	0.99
3048555--3048698	68	2.1	68	96	1	263	30	22	11	35	1.89
3051476--3051510	17	2.1	17	89	10	54	0	14	0	85	0.59
3051778--3051811	3	11.3	3	93	0	59	0	29	0	70	0.87
3058061--3058343	26	10.5	26	69	17	125	53	2	2	42	1.26
3058083--3058556	27	20.1	23	64	23	109	52	2	2	41	1.31
3058184--3058382	41	4.4	43	72	22	140	52	2	3	42	1.28
3058062--3058878	142	5.7	143	80	8	847	52	2	2	41	1.30
3058344--3058420	25	3.0	26	75	19	81	53	1	5	40	1.32
3058723--3058765	22	2.0	22	81	9	52	65	2	2	30	1.18
3058822--3058875	27	2.0	27	88	0	81	48	1	3	46	1.30
3059038--3059068	16	1.9	16	93	0	53	19	16	0	64	1.29
3063833--3063891	29	2.0	29	81	12	68	50	5	5	38	1.46
3064137--3064226	35	2.6	35	81	10	114	47	10	14	27	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067414--3067459	23	2.0	23	83	8	58	56	21	2	19	1.52
3070751--3070776	2	13.0	2	100	0	52	50	0	0	50	1.00
3085985--3086012	2	14.0	2	100	0	56	50	0	0	50	1.00
3090104--3090136	2	16.5	2	100	0	66	51	0	0	48	1.00
3090781--3090805	2	12.5	2	100	0	50	48	0	0	52	1.00
3091513--3091547	18	1.9	18	88	0	52	37	8	2	51	1.47
3091886--3093688	599	3.0	600	98	0	3497	30	16	20	33	1.94
3104945--3105020	29	2.6	30	76	14	77	57	7	5	28	1.49
3116671--3116742	31	2.3	31	97	0	135	20	26	13	38	1.90
3132359--3132392	18	2.0	16	88	11	50	55	0	20	23	1.43
3134800--3134831	17	1.9	16	93	6	55	0	18	15	65	1.27
3136244--3136300	26	2.0	28	83	12	73	45	5	28	21	1.73
3138058--3138098	22	1.9	22	85	14	59	21	17	12	48	1.79
3152379--3152418	2	20.5	2	84	5	55	50	0	0	50	1.00
3155472--3155528	28	2.0	27	80	12	62	57	0	0	42	0.98
3155945--3155986	18	2.4	18	80	11	52	45	0	0	54	0.99
3160652--3160727	29	2.6	29	91	0	125	47	15	14	22	1.82
3163777--3163808	5	6.4	5	92	0	55	18	0	3	78	0.89
3177128--3177187	24	2.6	22	81	7	66	48	1	6	43	1.39
3177128--3177197	22	3.1	22	83	6	70	48	2	5	42	1.41
3182220--3182254	2	17.5	2	93	0	61	54	0	0	45	0.99
3193289--3193325	2	18.5	2	100	0	74	48	0	51	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3193812--3193846	4	8.8	4	100	0	70	51	22	0	25	1.48
3195148--3195188	21	2.0	21	85	0	55	41	2	4	51	1.36
3202827--3202851	12	2.1	12	100	0	50	24	28	16	32	1.96
3210009--3210122	59	1.9	59	81	0	138	41	14	7	37	1.72
3209993--3210281	27	10.6	28	71	14	124	40	14	7	37	1.74
3209993--3210273	54	5.1	54	74	11	182	41	14	7	36	1.75
3234319--3234893	251	2.3	252	79	5	619	35	7	6	48	1.58
3235076--3235122	24	2.0	24	83	8	60	29	2	2	65	1.15
3235090--3235123	18	2.0	18	88	11	54	32	0	0	67	0.91
3235273--3235317	14	3.2	15	75	15	51	48	0	0	51	1.00
3254973--3255130	35	4.5	35	80	1	181	39	6	9	44	1.64
3254948--3255139	70	2.8	71	84	5	232	41	6	8	43	1.61
3254945--3255143	71	2.9	70	82	6	244	40	6	9	44	1.62
3255030--3255143	35	3.2	34	79	7	138	40	6	11	42	1.66
3260990--3261022	13	2.4	14	90	5	50	81	0	18	0	0.68
3271303--3271335	2	16.5	2	100	0	66	51	0	0	48	1.00
3274061--3274128	31	2.2	31	92	7	120	30	33	4	30	1.77
3274064--3274123	16	3.9	15	89	6	93	30	35	5	30	1.79
3274355--3274425	15	4.7	15	75	6	81	9	43	29	16	1.80
3274345--3274425	30	2.7	30	86	0	108	12	43	27	17	1.84
3279589--3279648	14	4.3	15	76	16	67	26	36	5	31	1.78
3279588--3279648	28	2.2	27	83	16	81	27	36	4	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3284222--3284247	2	13.0	2	100	0	52	50	0	0	50	1.00
3284872--3284913	18	2.3	19	79	4	50	66	16	2	14	1.35
3289845--3289869	13	1.9	13	100	0	50	12	0	0	88	0.53
3296377--3296425	10	5.0	10	79	16	50	77	0	0	22	0.77
3305400--3305435	3	12.0	3	93	0	63	33	2	0	63	1.08
3307841--3307875	16	2.2	16	100	0	70	42	0	0	57	0.99
3308304--3308376	31	2.4	31	84	8	96	31	2	0	65	1.06
3325015--3325055	18	2.2	19	87	12	59	36	0	4	58	1.20
3325093--3325130	17	2.1	19	90	9	62	57	2	0	39	1.12
3325092--3325156	23	2.8	24	77	11	73	58	1	0	40	1.07
3325197--3325239	17	2.6	17	88	3	61	44	0	2	53	1.13
3336607--3336678	31	2.3	31	97	2	135	31	25	12	30	1.92
3340468--3340496	3	9.7	3	100	0	58	31	0	0	68	0.89
3342865--3342901	6	6.2	6	93	0	65	13	0	21	64	1.27
3343915--3343942	12	2.3	12	100	0	56	25	7	0	67	1.15
3344454--3344483	15	2.0	15	93	0	51	53	3	0	43	1.17
3348555--3348610	15	3.7	15	76	9	51	35	3	37	23	1.72
3351805--3351872	29	2.5	25	76	19	73	67	10	11	10	1.42
3351823--3351881	29	2.0	29	96	0	109	62	11	15	10	1.54
3358717--3358789	32	2.2	33	85	2	94	52	1	2	43	1.24
3366917--3366946	4	7.8	4	92	7	53	0	23	0	76	0.78
3370970--3371039	34	2.1	34	91	0	113	52	7	20	20	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3379973--3380023	25	2.0	25	81	11	59	35	3	0	60	1.15
3381359--3381387	12	2.4	12	100	0	58	31	0	6	62	1.22
3381782--3381970	9	21.9	9	63	22	50	31	3	0	64	1.13
3381887--3381972	33	2.6	33	83	5	93	29	3	0	67	1.07
3381940--3382066	31	3.8	32	72	21	91	29	1	2	66	1.13
3381805--3382057	73	3.4	72	77	16	209	30	2	1	65	1.16
3383860--3383985	30	4.2	30	76	5	130	53	5	3	36	1.43
3383982--3384020	20	2.0	19	85	5	51	43	0	2	53	1.14
3390563--3390610	24	2.0	26	84	12	66	54	27	2	16	1.54
3406181--3406237	27	2.1	27	90	0	87	42	10	19	28	1.84
3419658--3419685	2	14.0	2	100	0	56	50	0	0	50	1.00
3425502--3425532	2	15.5	2	100	0	62	51	0	0	48	1.00
3427690--3427719	2	15.5	2	93	6	53	50	0	0	50	1.00
3429405--3429434	14	2.1	14	93	0	51	16	30	30	23	1.96
3429544--3429578	6	5.8	6	96	0	61	37	62	0	0	0.95
3435905--3436169	5	52.4	5	65	16	75	29	3	0	66	1.08
3435915--3436032	27	4.4	27	72	19	111	29	4	0	66	1.11
3435910--3435990	32	2.5	32	80	11	85	28	3	0	67	1.07
3435905--3436176	81	3.4	81	87	9	371	30	3	0	66	1.08
3440544--3440647	30	3.5	29	74	16	97	53	1	4	39	1.33
3440565--3440650	29	2.9	29	81	3	100	58	2	3	36	1.28
3452416--3452445	4	7.5	4	92	0	51	23	3	0	73	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3473879--3473938	29	2.1	29	100	0	120	56	3	6	33	1.42
3479672--3479822	28	5.4	28	80	4	139	47	9	21	22	1.79
3481194--3481252	26	2.2	27	90	3	93	28	6	3	61	1.38
3482485--3482632	14	10.3	14	66	5	89	30	29	6	33	1.83
3482486--3482632	43	3.4	43	98	0	276	30	29	6	32	1.83
3482508--3482629	29	4.2	28	67	13	77	32	31	7	27	1.84
3482725--3482848	39	3.2	39	97	1	232	7	30	37	24	1.82
3483794--3483910	60	2.0	60	87	0	171	15	35	23	25	1.94
3485309--3485454	14	10.3	14	66	5	78	30	29	6	33	1.82
3485313--3485454	42	3.3	43	97	2	259	31	30	6	31	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18