genome.fa.s18.2.7.7.80.10.50.1000.9.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_018397271.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_89.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4184555

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

This is table  9  of  11  ( 1249 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)
3165315--3165889	167	3.4	167	88	3	792	44	7	7	41	1.60
3165315--3165912	253	2.3	258	86	5	822	44	7	7	40	1.61
3170649--3170889	121	2.0	120	95	2	430	35	9	13	41	1.78
3179223--3179297	25	3.0	25	94	0	123	36	0	0	64	0.94
3181010--3181197	48	3.9	47	78	8	189	40	14	9	34	1.79
3181017--3181199	98	1.9	94	83	8	235	40	14	9	35	1.78
3186426--3186714	48	6.0	48	72	6	129	39	16	11	32	1.85
3199951--3200057	55	1.9	57	85	11	150	63	1	4	29	1.25
3200031--3200116	33	2.5	33	85	7	102	66	0	5	27	1.15
3200897--3200939	23	1.9	22	85	4	59	16	6	2	74	1.14
3213010--3213266	44	5.7	44	77	10	211	27	12	11	49	1.74
3213010--3213205	90	2.2	87	83	7	234	27	10	11	50	1.72
3213503--3213537	16	2.2	16	89	0	52	34	2	17	45	1.63
3216402--3216441	2	20.0	2	94	0	71	47	0	2	50	1.14
3226001--3226056	28	2.0	29	82	3	69	64	5	21	8	1.42
3235233--3235356	61	2.0	61	98	0	239	33	23	12	30	1.91
3235810--3235881	31	2.4	31	81	11	94	29	9	11	50	1.70
3235831--3235912	31	2.7	29	77	15	76	25	13	9	51	1.71
3240014--3240442	48	8.5	49	72	17	143	32	9	16	41	1.80
3240180--3240443	146	1.8	146	86	1	386	31	8	15	44	1.76
3240180--3240571	48	8.1	48	78	4	322	32	9	15	43	1.79
3240406--3240571	49	3.4	47	76	5	143	34	10	13	41	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3240204--3240572	146	2.5	145	77	6	343	32	10	15	42	1.80
3241759--3241796	15	2.4	16	86	4	51	68	2	2	26	1.16
3245628--3245673	16	2.9	16	87	3	67	58	4	0	36	1.18
3245618--3245686	13	5.1	13	71	20	52	60	4	0	34	1.16
3246965--3247049	42	2.0	42	84	4	109	27	18	41	12	1.87
3247916--3247945	7	4.3	7	95	0	51	23	40	3	33	1.71
3258782--3258838	29	2.0	29	96	0	105	38	12	14	35	1.83
3263393--3263482	25	3.6	25	68	14	69	42	6	11	40	1.67
3263440--3263489	26	1.9	26	84	8	66	46	8	12	34	1.70
3263543--3263615	28	2.6	28	77	12	78	45	13	13	27	1.82
3279697--3279751	27	2.0	28	82	7	67	43	5	1	49	1.36
3279770--3279870	42	2.4	43	78	5	107	35	0	0	62	1.09
3285575--3285607	16	2.1	17	88	11	52	33	0	24	42	1.55
3288631--3288683	19	2.7	20	76	5	54	30	0	5	64	1.17
3298282--3298359	25	3.2	25	74	15	74	42	0	0	57	0.98
3298298--3298359	18	3.8	18	68	24	64	40	0	0	59	0.97
3298365--3298418	22	2.4	23	87	6	76	48	1	0	50	1.11
3298348--3298418	22	3.3	22	80	5	74	47	2	0	49	1.16
3304044--3304075	12	2.7	12	90	0	55	46	15	0	37	1.46
3314936--3314987	15	3.5	15	71	10	52	50	0	1	48	1.12
3315391--3315464	32	2.3	33	83	9	98	48	14	8	28	1.72
3316819--3316864	19	2.4	19	100	0	92	13	17	21	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3319975--3320018	15	2.9	15	96	0	79	34	9	27	29	1.87
3320332--3320555	35	6.3	35	73	8	150	37	5	10	45	1.62
3320327--3320555	107	2.2	105	80	3	244	37	6	10	45	1.63
3320369--3320565	71	2.8	71	77	3	200	39	4	10	45	1.58
3330148--3330239	36	2.6	36	85	0	130	32	20	11	34	1.89
3335653--3335698	21	2.2	21	92	0	74	60	6	8	23	1.49
3337430--3337662	121	1.9	122	89	3	362	35	12	16	35	1.86
3338887--3338920	2	17.0	2	100	0	68	50	0	50	0	1.00
3344560--3344602	2	21.5	2	95	0	77	0	48	2	48	1.14
3357956--3357988	10	3.4	10	87	4	50	30	21	0	48	1.50
3359321--3359368	20	2.4	21	79	10	64	33	20	10	35	1.87
3361045--3361143	31	3.2	32	76	11	107	53	6	15	25	1.64
3361308--3361398	25	3.6	25	92	0	146	32	24	8	34	1.86
3365970--3366059	25	3.6	25	82	5	110	33	21	7	37	1.82
3369913--3369943	10	3.1	10	95	0	53	12	19	35	32	1.90
3370081--3370140	25	2.4	24	86	2	75	53	8	1	36	1.41
3372818--3373051	85	2.7	86	88	3	339	40	14	3	41	1.64
3375235--3375315	18	4.5	18	76	11	76	30	0	24	44	1.54
3376612--3376699	13	6.7	13	70	16	56	69	1	28	1	1.03
3376612--3376699	26	3.3	26	70	20	67	69	1	28	1	1.03
3378719--3378830	59	1.9	59	92	0	188	28	15	11	44	1.81
3397530--3397574	23	2.0	23	95	0	81	40	20	8	31	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3409785--3409846	28	2.2	28	88	0	88	29	14	14	41	1.85
3409889--3409993	35	3.0	35	97	0	201	31	20	11	36	1.89
3420157--3420186	12	2.5	12	94	0	51	36	3	13	46	1.60
3420150--3420226	14	5.7	14	68	13	54	36	9	12	41	1.75
3420172--3420222	26	2.0	26	96	0	93	37	9	13	39	1.78
3420193--3420271	16	5.1	16	73	17	67	39	15	10	35	1.81
3420167--3420228	14	4.6	14	74	8	65	38	11	11	38	1.77
3420222--3420270	14	3.4	14	78	10	62	42	16	8	32	1.77
3420188--3420270	30	2.7	30	83	3	94	39	14	10	34	1.81
3424175--3424228	28	2.0	28	85	3	74	57	1	1	38	1.20
3425761--3425983	114	2.0	112	93	3	387	45	15	9	29	1.78
3429516--3429576	16	3.8	16	73	2	59	11	8	11	68	1.38
3430030--3430102	34	2.1	34	94	0	128	36	19	16	27	1.93
3434944--3435016	31	2.3	31	90	4	110	54	13	12	19	1.70
3434959--3435012	17	3.4	17	70	15	60	55	16	11	16	1.68
3435277--3435695	226	1.8	227	86	2	599	50	5	8	35	1.56
3435716--3436103	198	1.9	200	86	4	543	47	6	10	35	1.63
3435904--3437728	251	7.4	250	76	8	1369	48	6	10	33	1.62
3435908--3436853	250	3.8	248	80	5	948	49	6	9	34	1.61
3436436--3437337	482	1.9	466	83	5	1011	48	6	9	33	1.61
3436920--3437728	249	3.3	246	78	7	714	48	6	10	34	1.63
3441286--3443357	171	12.1	170	79	5	1834	38	12	13	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3441285--3443340	342	6.0	342	80	4	2072	38	12	13	35	1.83
3441348--3443342	690	2.9	680	82	5	2301	38	12	13	35	1.82
3445458--3445495	19	2.0	20	84	5	51	57	18	15	7	1.62
3462816--3462914	49	2.0	50	86	2	137	41	21	7	30	1.79
3471847--3473696	250	7.4	249	83	3	2094	34	9	5	49	1.60
3473497--3473534	19	2.1	18	85	9	51	28	5	5	60	1.40
3475885--3475923	20	2.0	20	100	0	78	41	2	10	46	1.51
3481042--3481074	17	1.9	17	88	11	50	42	12	3	42	1.57
3481217--3481351	31	4.5	31	81	10	142	37	10	9	42	1.72
3481227--3481351	30	4.2	30	82	10	152	40	9	8	40	1.69
3481227--3481351	60	2.1	58	86	5	171	40	9	8	40	1.69
3483443--3483474	17	1.9	17	93	6	57	15	6	6	71	1.26
3500737--3500883	74	2.0	73	85	5	199	40	3	19	37	1.68
3508323--3508377	28	2.0	28	100	0	110	36	18	10	34	1.86
3508325--3508384	28	2.1	28	93	0	102	36	23	10	30	1.87
3508364--3508484	64	1.9	64	84	0	161	34	20	13	31	1.91
3509087--3509150	20	3.1	20	84	4	65	48	20	6	25	1.72
3509098--3509157	20	3.0	20	85	2	66	45	20	6	28	1.76
3509189--3509290	21	4.8	22	81	10	106	49	17	4	28	1.67
3509190--3509290	43	2.4	44	82	14	124	49	17	4	27	1.67
3510040--3510091	22	2.4	22	80	0	59	21	1	23	53	1.55
3510040--3510098	22	2.7	22	73	5	57	22	3	23	50	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3510191--3510239	22	2.2	22	85	0	62	48	14	8	28	1.72
3510198--3510277	22	3.6	22	74	0	79	51	12	8	27	1.69
3510379--3510504	50	2.5	50	86	1	180	38	18	11	31	1.86
3510771--3510826	29	2.0	28	82	3	67	35	14	10	39	1.81
3517634--3517665	2	16.0	2	93	0	55	53	0	46	0	1.00
3517800--3517915	61	1.9	61	96	0	214	18	25	13	42	1.87
3519260--3519300	2	20.5	2	94	0	73	48	2	0	48	1.14
3535684--3535775	19	4.9	18	71	11	60	46	7	10	34	1.67
3535673--3535775	37	2.7	39	87	3	147	47	7	9	34	1.65
3535674--3535732	19	3.2	19	72	13	68	47	6	10	35	1.64

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