genome.fa.s8.2.7.7.80.10.50.1000.7.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_018397261.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_50.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9139585

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

This is table  7  of  19  ( 2280 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)
2312601--2312650	18	2.8	18	93	0	82	36	14	16	34	1.88
2315786--2315851	31	2.1	31	82	0	78	57	9	15	18	1.63
2317730--2317852	50	2.5	50	95	0	219	64	0	2	33	1.07
2317730--2317838	17	6.5	18	74	9	81	64	0	1	33	1.05
2337346--2337424	39	2.0	39	90	0	122	25	30	7	36	1.84
2341489--2341541	26	2.0	28	85	7	74	64	0	0	35	0.94
2341497--2341540	22	2.0	22	82	8	54	63	0	0	36	0.95
2341692--2341736	22	2.0	22	82	0	54	35	0	4	60	1.17
2344113--2344148	17	2.1	17	100	0	72	16	5	27	50	1.68
2348777--2348825	18	2.7	18	80	0	53	16	18	20	44	1.86
2349378--2349427	21	2.4	21	89	0	73	60	0	22	18	1.37
2349583--2349615	10	3.4	10	87	8	50	66	0	0	33	0.92
2350640--2350668	2	14.5	2	100	0	58	48	0	0	51	1.00
2369781--2369823	2	21.5	2	100	0	86	51	0	0	48	1.00
2370198--2370225	3	9.3	3	100	0	56	35	0	0	64	0.94
2370340--2370381	3	14.0	3	94	0	75	66	2	0	30	1.04
2382609--2383060	228	2.0	223	87	6	653	44	11	8	35	1.71
2382944--2383122	100	1.8	94	83	11	236	46	9	5	38	1.60
2393414--2393466	27	1.9	27	84	3	70	60	9	9	20	1.55
2393415--2393473	28	2.1	27	81	3	64	61	11	10	16	1.57
2393667--2393701	18	2.0	17	94	5	61	28	5	22	42	1.76
2397335--2397360	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2408102--2408185	42	2.0	42	100	0	168	30	26	7	35	1.83
2408503--2408631	30	4.3	30	88	3	188	15	29	21	33	1.94
2410288--2410378	32	2.8	31	85	3	101	47	13	18	20	1.82
2413169--2413216	19	2.5	19	93	0	78	41	37	0	20	1.53
2417091--2417133	14	3.2	13	84	15	52	79	2	0	18	0.85
2427426--2427467	21	2.0	21	86	9	59	69	2	7	21	1.25
2429328--2429352	5	5.0	5	100	0	50	80	0	0	20	0.72
2431357--2431488	65	2.0	65	98	0	255	37	15	21	25	1.93
2446769--2446798	14	2.1	14	93	0	51	46	0	3	50	1.18
2473411--2473464	16	3.4	15	80	15	56	25	5	3	64	1.32
2478304--2478348	18	2.6	18	82	3	56	4	11	31	53	1.56
2483942--2483994	17	3.4	17	72	20	51	37	13	26	22	1.91
2483937--2483994	30	1.9	30	92	0	98	39	12	25	22	1.89
2484866--2484926	23	2.8	21	76	13	68	3	13	6	77	1.09
2484867--2484926	12	5.4	11	71	11	50	3	13	6	76	1.11
2485943--2485982	18	2.2	18	86	0	53	32	2	12	52	1.52
2487497--2487575	41	1.9	42	87	7	117	45	7	2	44	1.45
2498352--2498390	17	2.4	17	87	12	55	0	30	0	69	0.89
2503369--2503422	26	2.1	26	86	6	74	37	12	20	29	1.90
2504152--2504295	75	1.9	75	92	0	243	43	4	13	38	1.66
2504622--2504687	10	5.9	10	75	25	53	28	1	0	69	0.97
2504606--2504681	18	4.2	19	78	20	74	30	2	0	67	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2504605--2504768	52	3.2	52	75	22	175	31	3	0	64	1.16
2504619--2504695	30	2.5	32	85	6	97	32	1	0	66	1.00
2504614--2504690	17	4.7	17	74	17	65	29	2	0	67	1.04
2504555--2504770	103	2.1	101	85	13	284	31	4	0	62	1.19
2504599--2504797	100	2.0	100	83	12	250	31	5	1	62	1.23
2506196--2506346	75	2.0	75	86	0	212	43	19	16	21	1.88
2506975--2507021	24	1.9	25	83	12	62	55	8	4	31	1.49
2508789--2508816	10	2.8	10	100	0	56	60	0	0	39	0.97
2508840--2508881	15	2.6	16	81	11	50	50	4	0	45	1.23
2509432--2509461	6	5.0	6	91	0	51	30	0	0	70	0.88
2509839--2509874	19	1.9	19	88	5	56	63	0	0	36	0.94
2525426--2525457	2	16.0	2	100	0	64	50	0	50	0	1.00
2531315--2531375	32	1.9	32	89	0	95	39	8	18	34	1.80
2531394--2531446	23	2.3	23	75	18	56	58	0	5	35	1.22
2531594--2531671	25	3.0	26	83	5	95	30	1	0	67	0.98
2535892--2535931	21	1.9	21	84	0	53	47	2	7	42	1.45
2535953--2536641	338	2.0	350	81	8	831	45	6	6	41	1.56
2537902--2537936	19	1.9	17	88	11	52	65	0	2	31	1.07
2545626--2545663	18	2.1	19	90	5	60	21	0	7	71	1.11
2549587--2549624	16	2.4	16	81	0	58	10	18	7	63	1.50
2551272--2551356	29	3.1	27	80	6	98	34	9	12	43	1.75
2551297--2551508	80	2.6	80	78	12	222	32	12	11	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2551472--2551563	26	3.3	26	73	19	96	29	9	10	50	1.70
2551466--2551554	31	3.0	31	72	18	91	33	8	11	46	1.71
2551383--2551629	137	1.8	137	82	5	320	33	10	11	44	1.75
2554004--2554086	41	2.0	41	85	0	112	40	15	6	37	1.72
2554100--2554141	22	1.9	22	95	0	75	45	9	19	26	1.80
2560952--2560979	2	14.0	2	100	0	56	50	0	0	50	1.00
2570413--2570486	28	2.6	28	82	0	85	27	13	14	44	1.83
2576879--2576967	32	2.8	31	88	5	124	35	15	11	37	1.84
2579839--2579867	2	15.0	2	92	7	51	51	0	0	48	1.00
2581098--2581122	11	2.3	11	100	0	50	0	0	8	92	0.40
2582805--2582836	13	2.5	13	100	0	64	12	31	9	46	1.73
2584482--2584523	22	1.9	22	90	0	66	26	0	9	64	1.24
2585652--2585698	23	2.0	23	88	8	69	34	10	12	42	1.78
2589036--2589063	2	14.0	2	100	0	56	0	0	50	50	1.00
2589154--2589204	22	2.3	21	72	21	50	49	9	11	29	1.72
2597142--2597203	26	2.5	25	82	14	76	6	16	0	77	0.97
2597583--2598675	364	3.0	363	87	3	1516	35	19	18	25	1.95
2603911--2603966	27	2.1	27	89	0	85	46	7	8	37	1.63
2604040--2604122	27	3.0	27	78	7	78	44	9	9	36	1.70
2605310--2605444	71	1.9	71	81	0	162	40	8	13	37	1.74
2616050--2616134	44	1.9	44	88	9	129	37	22	12	27	1.91
2618620--2618650	8	3.8	8	91	8	53	87	9	3	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2619335--2619601	34	7.9	34	73	10	183	34	13	19	32	1.91
2619335--2619580	68	3.6	69	81	5	270	34	13	19	32	1.90
2624957--2625001	21	2.1	21	88	8	65	33	11	8	46	1.70
2626170--2626243	29	2.8	25	82	10	78	41	1	1	55	1.17
2626194--2626243	25	2.0	25	88	7	75	42	0	2	56	1.11
2626200--2626254	25	2.3	24	79	14	60	49	0	0	50	1.00
2630849--2630907	25	2.3	27	81	18	65	72	0	1	25	0.93
2630936--2631021	33	2.5	33	81	7	84	65	1	4	29	1.20
2631054--2631127	21	3.5	22	80	14	84	70	0	0	29	0.88
2631070--2631204	16	8.2	16	66	23	59	65	0	2	31	1.10
2630976--2631204	113	2.0	114	93	0	397	62	1	3	32	1.20
2631351--2631394	15	2.9	15	89	0	70	31	25	9	34	1.87
2633423--2633513	45	2.0	45	97	0	173	49	15	15	19	1.80
2635721--2635757	18	2.1	18	89	0	56	24	2	5	67	1.25
2645374--2645407	2	17.0	2	93	0	59	50	2	0	47	1.16
2646072--2646116	23	2.0	22	83	12	56	31	4	4	60	1.37
2649328--2649359	2	16.5	2	93	6	57	46	0	0	53	1.00
2657017--2657087	23	3.0	22	77	16	72	43	7	12	36	1.70
2657834--2657876	21	2.0	21	86	8	61	30	9	9	51	1.65
2658203--2658246	15	2.9	15	82	3	61	36	11	20	31	1.88
2658469--2658553	33	2.6	32	87	7	109	30	3	0	65	1.09
2658567--2658642	25	3.0	25	75	9	66	28	1	1	68	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2658534--2658600	35	2.0	32	83	16	82	32	1	0	65	1.02
2658544--2658657	5	22.4	5	67	15	56	28	1	0	68	1.05
2658525--2658660	50	2.6	52	80	14	149	30	1	0	66	1.05
2658530--2658657	55	2.4	51	83	15	152	29	1	0	67	1.05
2660623--2660695	35	2.1	35	86	0	101	45	8	16	30	1.76
2663917--2663946	1	30.0	1	93	0	51	0	96	0	3	0.21
2666625--2666670	19	2.3	21	82	14	62	76	4	2	17	1.06
2667415--2667508	47	2.0	47	95	0	170	27	17	25	29	1.97
2667537--2667638	35	2.9	35	91	0	168	5	28	34	31	1.81
2669090--2669192	52	2.0	51	94	1	179	30	22	11	35	1.90

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