genome.fa.s1.2.7.7.80.10.50.1000.6.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   

This is table  6  of  32  ( 3821 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)
2605634--2605668	17	2.1	17	88	0	52	51	0	5	42	1.25
2611804--2611855	19	2.7	20	80	16	65	19	3	0	76	0.93
2611804--2611855	20	2.7	19	82	8	61	19	3	0	76	0.93
2611804--2611860	22	2.8	19	78	10	60	19	3	0	77	0.92
2612840--2612897	27	2.1	27	84	15	75	31	10	3	55	1.50
2626402--2626467	33	2.0	33	93	0	114	37	22	10	28	1.88
2628583--2628622	6	6.7	6	86	11	55	15	45	0	40	1.46
2642762--2642792	2	15.5	2	100	0	62	48	0	0	51	1.00
2652925--2653007	39	2.1	39	93	0	139	45	14	19	20	1.85
2654911--2655104	51	3.7	51	74	16	150	41	3	7	47	1.48
2654896--2655098	104	2.0	102	83	5	257	41	4	7	46	1.53
2655016--2655107	27	3.5	27	75	10	100	39	2	7	51	1.43
2654985--2655105	24	4.8	24	78	8	116	41	3	7	47	1.48
2654913--2655098	102	1.8	102	84	6	259	43	3	6	46	1.48
2668241--2668269	2	14.5	2	100	0	58	51	0	0	48	1.00
2693837--2693864	2	14.0	2	100	0	56	0	50	0	50	1.00
2727120--2727160	15	2.7	15	88	0	55	9	7	2	80	0.99
2727458--2727895	220	2.0	220	88	3	650	46	6	12	34	1.66
2730019--2730073	18	3.0	18	73	19	51	12	12	0	74	1.07
2738976--2739201	120	1.9	119	86	4	323	61	0	7	30	1.28
2740372--2740428	30	1.9	30	88	0	87	31	15	33	19	1.93
2743888--2743915	6	4.7	6	100	0	56	32	35	14	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2753191--2753217	2	13.5	2	100	0	54	51	0	0	48	1.00
2753388--2753428	15	2.7	15	96	0	73	31	7	26	34	1.84
2753430--2753565	54	2.5	54	97	0	254	41	8	22	27	1.82
2753644--2753897	27	9.1	27	68	18	137	33	2	0	63	1.11
2753715--2753893	23	8.1	22	65	22	74	33	1	0	64	1.08
2753632--2753975	112	3.1	112	94	3	597	33	2	0	63	1.12
2753819--2753892	15	5.1	15	72	20	50	32	0	0	67	0.91
2753688--2753958	27	9.9	26	71	18	171	33	2	0	63	1.09
2753704--2754063	176	2.1	172	79	11	395	31	2	0	65	1.10
2753989--2754111	48	2.4	51	81	12	139	31	2	0	65	1.12
2753978--2754103	53	2.3	52	84	10	148	30	2	0	66	1.10
2754045--2754108	34	1.9	33	84	15	87	31	1	0	67	1.00
2765263--2765325	24	2.6	24	75	9	67	41	0	1	57	1.08
2765531--2765608	30	2.7	30	78	6	88	58	1	2	37	1.20
2783627--2783651	5	5.0	5	100	0	50	80	0	20	0	0.72
2784965--2784992	2	14.0	2	100	0	56	50	0	0	50	1.00
2784995--2785026	2	16.0	2	100	0	64	50	0	50	0	1.00
2787864--2787914	7	7.4	7	74	12	52	68	0	0	31	0.90
2787867--2787917	21	2.5	20	87	3	75	70	0	0	29	0.87
2787885--2787939	17	3.5	16	76	11	60	65	0	1	32	1.03
2795523--2795548	2	13.0	2	100	0	52	50	0	0	50	1.00
2802486--2802511	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2808568--2808624	2	30.0	2	83	16	77	49	1	0	49	1.11
2817580--2817609	13	2.3	13	94	0	51	90	0	0	10	0.47
2831215--2831241	6	4.5	6	100	0	54	18	0	14	66	1.25
2833357--2833402	23	1.9	25	86	8	69	50	4	2	43	1.34
2833361--2833427	23	2.9	24	76	17	61	49	4	2	43	1.38
2844755--2844802	24	1.9	26	91	8	82	58	22	6	12	1.57
2858729--2858805	30	2.5	30	85	4	100	9	63	11	15	1.51
2859358--2859427	22	3.2	21	80	8	77	22	7	28	41	1.80
2859497--2859579	23	3.7	23	83	1	96	39	28	8	22	1.83
2859565--2859630	22	2.9	24	86	6	68	46	18	6	28	1.72
2859579--2859630	22	2.4	22	93	0	86	46	15	5	32	1.70
2861487--2861539	20	2.7	19	80	11	63	52	0	0	47	1.00
2861486--2861551	29	2.3	30	80	15	77	56	0	0	43	0.99
2863016--2863073	28	2.0	29	83	9	75	56	3	3	36	1.33
2863064--2863102	19	2.1	18	85	4	51	46	2	0	51	1.14
2865644--2865694	18	2.9	17	83	13	59	72	0	0	27	0.85
2865631--2865694	22	2.9	22	80	15	62	70	0	1	28	0.97
2868081--2868129	12	4.3	11	77	10	53	18	20	0	61	1.35
2868081--2868126	18	2.6	17	82	3	56	19	21	0	58	1.39
2881733--2881780	23	2.0	24	84	11	64	6	18	2	72	1.15
2881733--2881778	24	1.9	24	82	8	58	6	17	2	73	1.14
2887651--2887713	31	2.0	31	84	6	83	73	1	7	17	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2890512--2890548	2	18.5	2	100	0	74	48	0	0	51	1.00
2899787--2899825	11	3.5	11	92	3	60	38	20	20	20	1.94
2911200--2911224	2	12.5	2	100	0	50	48	0	0	52	1.00
2916956--2917162	28	7.5	28	76	2	132	45	8	4	41	1.53
2916956--2917113	55	2.9	55	74	0	145	46	9	3	41	1.52
2917130--2917203	37	2.0	37	83	0	94	43	8	5	43	1.57
2918409--2918439	5	6.2	5	92	0	53	25	19	35	19	1.95
2931318--2931407	36	2.5	36	81	3	110	23	40	20	16	1.91
2931352--2931431	12	6.7	12	75	0	52	23	45	17	13	1.84
2931364--2931431	24	2.8	24	84	0	64	25	44	17	13	1.85
2953124--2953174	24	2.1	24	100	0	102	35	15	0	49	1.45
2956340--2956473	21	6.2	21	91	6	207	29	19	22	28	1.98
2958400--2958534	69	1.9	70	85	4	184	49	4	15	30	1.64
2964544--2964599	29	1.9	29	82	7	69	46	1	17	33	1.59
2976726--2976799	37	2.0	37	89	0	112	29	18	31	20	1.97
2978225--2978255	14	2.2	14	94	0	53	48	0	0	51	1.00
3005140--3005169	14	2.1	14	93	0	51	70	0	26	3	1.03
3009767--3009793	2	13.5	2	100	0	54	48	0	0	51	1.00
3032119--3032152	18	1.9	17	94	5	59	50	8	0	41	1.34
3039235--3039259	2	12.5	2	100	0	50	48	0	0	52	1.00
3040012--3040040	2	14.5	2	100	0	58	0	48	0	51	1.00
3053462--3053510	25	2.0	25	84	8	64	48	0	6	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3074407--3074433	11	2.5	11	100	0	54	81	0	0	18	0.69
3078864--3078892	2	14.5	2	100	0	58	48	0	0	51	1.00
3097077--3097106	12	2.5	12	88	0	51	56	0	33	10	1.32
3110653--3110677	13	1.9	13	100	0	50	80	0	0	20	0.72
3130138--3130168	11	2.7	12	95	5	55	51	0	29	19	1.47
3131175--3131206	2	16.0	2	100	0	64	50	50	0	0	1.00
3142000--3142049	22	2.3	22	86	6	66	48	28	6	18	1.71
3143549--3143592	21	2.1	21	91	0	70	65	6	4	22	1.35
3143549--3143597	21	2.5	20	86	6	64	65	6	4	24	1.33
3143554--3143625	23	3.2	23	82	3	67	63	4	4	27	1.31
3143611--3143661	26	1.9	26	84	4	66	52	0	3	43	1.19
3147188--3147247	30	2.0	30	86	0	84	31	21	11	35	1.90
3158915--3158943	2	14.5	2	100	0	58	48	0	0	51	1.00
3161138--3161162	2	12.5	2	100	0	50	48	0	0	52	1.00
3161162--3161187	2	13.0	2	100	0	52	0	0	50	50	1.00
3162541--3162578	2	19.0	2	88	0	58	47	2	2	47	1.30
3164284--3164377	30	3.2	29	75	14	86	43	5	1	50	1.32
3164682--3164718	18	2.1	18	90	10	58	54	0	0	45	1.00
3171318--3171347	14	2.1	14	100	0	60	30	6	36	26	1.82
3181778--3181807	2	15.0	2	92	0	51	50	3	0	46	1.18
3184834--3184874	18	2.2	19	86	4	57	31	0	2	65	1.05
3185919--3186092	73	2.4	74	93	1	287	37	18	20	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3194851--3195122	131	2.1	132	88	3	406	33	14	18	33	1.92
3197225--3197271	6	7.8	6	90	0	76	17	68	2	12	1.31
3198901--3198933	2	16.5	2	93	0	57	48	3	0	48	1.17
3209337--3209408	30	2.4	30	88	4	110	56	2	0	40	1.13
3222154--3222219	30	2.2	30	83	0	78	30	6	6	57	1.47
3222407--3222437	14	2.2	14	100	0	62	51	0	0	48	1.00
3222409--3222463	24	2.2	24	83	3	65	45	0	0	54	0.99
3222435--3222467	16	2.1	16	88	11	50	51	0	0	48	1.00
3234692--3234732	22	1.9	21	85	5	55	65	21	2	9	1.34
3243527--3243556	12	2.6	11	94	5	51	46	0	3	50	1.18

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