genome.fa.s9.2.7.7.80.10.50.1000.9.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  9  of  20  ( 2302 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)
3024015--3024044	6	4.8	6	95	4	51	53	0	0	46	1.00
3024015--3024046	12	2.5	13	90	10	57	53	0	0	46	1.00
3024619--3024657	15	2.7	15	88	4	53	64	0	2	33	1.08
3024610--3024691	31	2.5	33	84	13	100	65	0	3	30	1.09
3024647--3024752	31	3.6	30	73	12	87	65	0	4	29	1.19
3025838--3025871	14	2.4	14	85	0	50	52	0	0	47	1.00
3041690--3041733	22	2.0	22	83	12	56	25	2	6	65	1.28
3051637--3051673	2	18.5	2	100	0	74	51	0	0	48	1.00
3052623--3052648	2	13.0	2	100	0	52	50	0	0	50	1.00
3055218--3055262	23	2.0	22	83	12	56	51	4	0	44	1.21
3059332--3059359	2	14.0	2	100	0	56	50	0	0	50	1.00
3061027--3061140	59	1.9	59	89	3	176	48	7	13	30	1.70
3064691--3064839	81	1.9	78	88	4	226	36	4	16	42	1.69
3066810--3067006	81	2.4	81	88	1	288	39	8	10	41	1.70
3067386--3067450	25	2.7	25	83	4	80	38	15	21	24	1.92
3067436--3067588	51	3.0	51	89	1	227	33	14	22	28	1.94
3081992--3082020	2	14.5	2	100	0	58	51	0	0	48	1.00
3086599--3086734	39	3.4	39	75	5	130	29	4	16	50	1.64
3090024--3090199	87	2.0	87	94	0	307	27	32	9	29	1.89
3090260--3090304	14	3.1	14	82	17	65	40	48	0	11	1.39
3090254--3090358	15	6.8	15	69	21	74	34	46	0	18	1.55
3090347--3090572	124	1.8	124	91	3	375	28	30	11	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3090648--3090747	34	3.0	33	82	8	139	31	38	7	24	1.82
3090733--3090762	15	2.0	15	93	0	51	40	43	0	16	1.48
3090899--3090991	31	3.0	31	70	17	86	33	20	13	32	1.92
3090883--3090975	30	3.1	29	75	14	98	34	20	12	32	1.91
3090868--3091013	61	2.4	60	71	12	143	30	21	13	34	1.91
3098796--3098836	20	2.0	20	90	9	66	34	2	17	46	1.61
3104007--3104049	18	2.2	20	80	12	54	58	0	4	37	1.19
3104009--3104056	19	2.6	19	90	3	71	56	0	4	39	1.19
3117047--3117940	446	2.0	444	89	2	1355	37	15	10	36	1.82
3135074--3135175	2	51.0	2	84	0	87	43	3	7	45	1.51
3135074--3135176	14	7.4	14	84	0	98	42	3	8	44	1.53
3142457--3142482	2	13.0	2	100	0	52	50	0	0	50	1.00
3147559--3147718	80	2.0	80	93	0	275	41	7	13	38	1.72
3148340--3148379	20	2.0	20	85	5	53	22	2	5	70	1.19
3151001--3151044	23	1.9	23	90	0	70	52	4	0	43	1.22
3156135--3156168	15	2.3	15	94	0	59	50	8	20	20	1.75
3162602--3162673	36	1.9	38	86	5	103	37	23	8	30	1.84
3163219--3163431	63	3.4	63	80	6	157	24	12	18	44	1.85
3177321--3177351	2	15.5	2	93	0	53	48	3	0	48	1.17
3186124--3186156	2	16.5	2	100	0	66	48	0	0	51	1.00
3186962--3186994	17	2.0	17	88	5	50	51	3	9	36	1.49
3190218--3190242	12	2.1	12	100	0	50	40	0	16	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3193099--3193185	23	3.8	23	82	0	120	22	27	14	34	1.94
3193099--3193197	23	4.3	23	82	0	117	21	28	16	34	1.94
3193617--3193744	42	3.1	41	65	8	100	40	6	13	39	1.69
3193531--3193839	80	3.9	80	88	2	408	39	7	11	41	1.70
3193659--3193782	38	3.2	38	64	13	97	37	5	12	44	1.65
3211904--3211963	24	2.4	25	81	10	61	40	8	0	51	1.32
3214435--3214467	15	2.1	17	88	11	52	54	6	0	39	1.25
3215249--3215656	214	1.9	214	90	1	656	40	9	4	45	1.56
3216048--3216072	7	3.6	7	100	0	50	16	16	12	56	1.68
3219012--3219049	18	2.1	18	85	9	51	10	26	0	63	1.27
3219007--3219049	15	2.6	16	82	14	52	11	25	0	62	1.29
3223922--3223946	9	2.8	9	100	0	50	12	8	0	80	0.92
3226955--3226984	2	15.0	2	92	0	51	50	3	0	46	1.18
3228522--3228571	20	2.4	21	83	6	57	66	2	2	30	1.14
3229099--3229123	13	1.9	13	100	0	50	24	0	0	76	0.80
3230152--3230180	15	2.0	15	93	6	51	62	10	6	20	1.50
3233691--3233793	54	1.9	53	84	5	136	26	19	17	36	1.94
3233691--3233794	27	3.9	27	83	3	122	26	19	17	36	1.94
3237007--3237141	66	2.0	66	95	0	243	38	22	5	33	1.77
3242019--3242133	57	2.0	57	94	0	203	36	11	20	32	1.88
3242882--3242982	31	3.3	31	78	0	121	47	11	8	31	1.71
3244461--3244621	22	7.5	22	75	4	105	22	10	22	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3244460--3244619	43	3.8	42	75	6	153	23	10	23	43	1.84
3244594--3244667	23	3.3	23	75	9	71	21	5	29	43	1.75
3244705--3244745	21	2.0	21	90	0	64	41	17	9	31	1.82
3245783--3245866	22	3.9	22	77	3	89	29	11	16	41	1.84
3245888--3245955	23	3.0	23	71	16	61	32	25	11	30	1.91
3247183--3247297	31	3.7	31	77	9	101	34	5	3	56	1.39
3252243--3252270	2	14.0	2	100	0	56	0	50	0	50	1.00
3262004--3262082	27	2.9	28	86	3	108	17	29	11	41	1.84
3269401--3269672	39	7.0	39	78	5	237	21	21	19	37	1.94
3269409--3269637	117	2.0	117	83	5	293	21	20	20	37	1.95
3271322--3271390	35	2.0	35	82	5	86	27	15	14	42	1.86
3281941--3282012	25	2.9	25	78	0	81	6	37	2	52	1.43
3285277--3285302	12	2.2	12	100	0	52	30	0	0	69	0.89
3292826--3292926	29	3.5	28	74	5	78	56	10	8	23	1.62
3293361--3293394	2	17.0	2	93	0	59	50	2	0	47	1.16
3297413--3297455	15	2.9	15	83	13	61	25	0	0	74	0.82
3299026--3299050	6	4.2	6	100	0	50	16	16	52	16	1.76
3306339--3306379	22	1.9	22	85	5	57	43	4	4	46	1.46
3311547--3311591	22	2.0	22	86	0	63	57	2	6	33	1.37
3315128--3315156	7	4.1	7	100	0	58	86	0	13	0	0.58
3316377--3316402	3	8.7	3	100	0	52	34	0	0	65	0.93
3317584--3317631	22	2.4	19	75	18	51	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3320108--3320726	309	2.0	312	97	0	1163	30	14	16	37	1.90
3331871--3331900	14	2.1	14	93	0	51	76	0	23	0	0.78
3333984--3334098	61	1.9	58	84	7	149	56	7	0	35	1.28
3334056--3334103	22	2.2	22	82	10	55	66	2	0	31	1.03
3335924--3335956	2	16.5	2	100	0	66	48	0	0	51	1.00
3337419--3337451	14	2.2	16	89	10	52	78	0	12	9	0.95
3346018--3346069	22	2.4	22	75	18	54	28	7	17	46	1.75
3346119--3346167	22	2.2	23	92	3	82	36	26	8	28	1.85
3346228--3346298	21	3.3	21	73	11	72	43	21	12	22	1.86
3346204--3346328	43	2.9	43	90	1	187	44	19	11	25	1.84
3346210--3346364	22	7.2	22	74	6	111	44	20	11	23	1.84
3352292--3352376	44	1.9	44	83	4	109	48	2	7	42	1.43
3352691--3352751	19	3.1	19	69	17	52	49	1	0	49	1.10
3352701--3352779	28	2.9	27	81	14	90	45	2	0	51	1.14
3352726--3352788	29	2.2	28	85	2	81	41	3	0	55	1.16
3358575--3358627	21	2.5	23	76	17	69	66	7	7	18	1.41
3358879--3358914	10	3.5	10	88	7	54	63	0	2	33	1.08
3361543--3361572	1	30.0	1	100	0	60	0	0	0	100	0.00
3364104--3364244	71	2.0	71	98	0	273	24	12	20	42	1.87
3365555--3365580	4	6.5	4	100	0	52	26	0	23	50	1.50
3372127--3372182	20	2.7	20	83	8	67	55	1	1	41	1.21
3374016--3374080	34	1.9	34	81	6	78	4	36	0	58	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3385512--3385542	3	10.3	3	100	0	62	64	0	35	0	0.94
3391674--3391698	8	3.1	8	100	0	50	12	0	0	88	0.53
3395551--3395598	23	2.1	23	100	0	96	27	33	16	22	1.96
3395590--3395646	22	2.5	22	81	13	55	52	14	10	22	1.71
3395747--3395862	60	1.9	60	80	3	135	40	17	7	34	1.78
3407040--3407100	27	2.2	28	82	8	81	19	24	22	32	1.97
3407105--3407222	54	2.2	54	78	6	130	22	27	18	31	1.97
3410785--3410986	103	2.0	101	94	1	350	38	17	14	29	1.90
3414043--3414084	17	2.5	17	85	11	52	76	0	4	19	0.96
3416856--3416913	29	2.1	28	83	6	73	32	0	0	67	0.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20