genome.fa.s8.2.7.7.80.10.50.1000.2.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  2  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)
168520--168551	7	4.6	7	100	0	64	31	31	12	25	1.92
175824--175848	8	3.1	8	100	0	50	88	0	12	0	0.53
179572--179617	21	2.0	22	84	12	58	54	4	6	34	1.46
183455--184280	217	3.8	217	87	2	1124	38	11	18	32	1.86
183889--184604	388	1.8	386	84	2	981	36	11	19	32	1.88
186218--186442	29	7.8	28	81	10	229	39	12	8	39	1.73
186230--186442	57	3.7	57	81	9	227	40	12	8	38	1.73
190830--190896	20	3.5	20	80	15	88	50	1	4	43	1.31
191479--191543	30	2.2	30	91	0	103	36	7	3	52	1.46
200345--200378	15	2.3	15	89	0	50	44	2	17	35	1.64
202045--202079	18	1.9	18	88	0	52	85	2	11	0	0.69
204296--204965	332	2.0	334	89	2	1017	40	14	10	34	1.81
205132--205169	20	1.9	20	94	0	67	31	2	7	57	1.41
211491--211567	40	1.9	40	84	5	102	38	25	12	22	1.90
211562--211637	40	1.9	40	84	7	102	34	26	10	28	1.90
218411--218451	19	2.2	19	86	0	55	65	2	9	21	1.34
223773--223805	2	16.5	2	100	0	66	51	0	0	48	1.00
223864--223904	19	2.2	19	86	0	55	65	2	9	21	1.34
224431--224468	20	1.9	20	88	0	58	76	2	2	18	1.02
236935--236980	12	3.0	17	70	29	57	45	13	13	28	1.80
248111--248210	35	2.9	34	80	8	112	45	5	21	29	1.73
249129--249191	29	2.2	29	80	2	74	33	12	20	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
259573--259754	44	4.1	44	81	5	206	29	23	18	29	1.98
259764--259860	45	2.2	45	81	7	108	26	18	20	34	1.96
260742--260773	16	2.0	16	93	0	55	28	0	46	25	1.53
267031--267087	27	2.2	25	82	14	71	42	3	5	49	1.42
267126--267314	65	2.9	64	70	20	178	41	1	2	54	1.24
266941--267408	155	3.2	148	81	11	514	40	1	2	54	1.27
267184--267236	27	1.9	28	88	3	81	41	1	5	50	1.36
267116--267396	139	2.1	133	86	8	383	40	1	3	54	1.25
267238--267273	16	2.3	16	85	4	56	50	0	0	50	1.00
267301--267329	15	1.9	15	100	0	58	13	0	3	82	0.79
267351--267397	22	2.2	21	76	20	53	40	0	2	57	1.11
267317--267514	106	1.8	105	80	11	229	39	0	4	55	1.23
267442--267544	21	4.9	22	70	10	63	43	0	3	52	1.19
267487--267549	19	3.2	19	70	18	56	46	0	1	52	1.10
269805--271008	253	4.8	251	86	4	1453	47	6	9	36	1.62
270666--270698	17	1.9	17	88	11	50	36	0	12	51	1.39
269805--271008	504	2.4	501	83	4	1503	47	6	9	36	1.62
270696--271307	322	1.9	322	82	4	759	47	6	10	34	1.65
271324--271402	35	2.3	35	86	4	106	48	8	11	31	1.70
272043--272110	17	3.8	17	76	19	75	60	1	1	36	1.15
272039--272102	22	3.2	22	71	24	70	62	0	1	35	1.05
272059--272140	43	1.9	43	85	9	114	54	1	6	37	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273226--273320	29	3.3	29	77	5	86	45	7	28	18	1.77
275058--275303	122	2.0	122	94	1	431	28	26	8	36	1.86
275325--275396	31	2.3	32	83	11	103	70	2	4	22	1.17
276621--276756	60	2.3	59	87	5	186	60	5	2	31	1.33
276732--276776	23	1.9	24	90	4	74	62	0	0	37	0.96
278312--278387	29	2.6	30	83	6	93	14	27	10	47	1.77
281210--281295	29	3.0	29	82	3	102	18	24	9	47	1.78
284253--284312	8	7.4	8	73	16	52	51	1	0	46	1.10
284592--284637	2	23.0	2	100	0	92	50	0	0	50	1.00
290339--290391	19	2.8	19	100	0	106	52	9	11	26	1.67
295665--295697	16	2.0	17	88	5	50	27	0	6	66	1.15
304358--304390	16	2.2	15	89	10	50	3	18	9	69	1.28
305100--305200	49	2.0	50	86	1	141	30	28	16	23	1.97
309632--309701	28	2.4	29	83	9	90	48	4	31	15	1.65
309686--309715	14	2.1	14	93	0	51	56	0	36	6	1.26
310224--310248	2	12.5	2	100	0	50	48	0	0	52	1.00
311583--311674	25	3.4	28	69	25	81	36	0	0	63	0.95
321460--321598	61	2.3	61	84	2	172	38	8	12	39	1.75
327589--327645	30	1.9	30	82	7	71	43	10	5	40	1.62
330624--330649	5	5.2	5	100	0	52	0	19	0	80	0.71
330810--330925	57	2.0	57	94	0	205	33	30	7	28	1.85
333602--333665	29	2.3	27	78	10	65	34	1	1	62	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333598--333666	28	2.4	28	78	4	66	36	1	1	60	1.14
339559--339591	16	2.0	17	88	5	50	9	21	6	63	1.45
340689--340735	24	2.0	24	91	0	76	36	12	14	36	1.85
345954--346010	27	2.0	28	93	6	98	49	0	3	47	1.18
345970--346061	41	2.2	43	80	5	109	44	2	2	51	1.25
346037--346220	86	2.1	84	81	10	212	38	3	2	56	1.28
346169--346379	117	1.8	116	82	7	275	36	2	3	56	1.32
346101--346396	117	2.6	109	73	17	257	38	2	3	55	1.31
346304--346393	6	13.4	7	67	24	52	44	1	2	52	1.20
355692--355734	4	10.8	4	89	0	68	51	23	2	23	1.60
359408--359454	20	2.4	20	79	10	53	27	14	19	38	1.91
370590--370659	35	2.0	35	97	0	131	22	12	11	52	1.71
377968--377997	2	15.0	2	100	0	60	50	0	50	0	1.00
379173--379205	2	16.5	2	100	0	66	51	0	0	48	1.00
395097--395182	27	3.1	28	80	5	70	32	10	15	41	1.81
395115--395190	28	2.8	27	79	2	80	32	6	15	44	1.73
400807--400848	15	2.8	15	79	10	50	59	4	26	9	1.48
407568--407661	36	2.6	36	83	1	118	37	4	12	45	1.62
414086--414241	35	4.5	35	78	7	151	39	5	10	44	1.62
414079--414226	71	2.1	68	90	3	224	37	5	11	45	1.63
427009--427081	21	3.4	21	88	1	101	39	19	16	24	1.91
439516--439606	29	3.3	27	80	7	92	38	14	7	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439528--439613	29	3.0	29	83	5	104	32	15	9	43	1.78
447676--447762	43	2.0	43	84	0	111	29	14	16	39	1.88
451333--451372	13	3.0	13	85	3	53	55	2	2	40	1.27
468032--468057	3	8.7	3	100	0	52	30	0	69	0	0.89
469519--469563	20	2.3	19	84	3	54	28	0	13	57	1.36
470231--470272	16	2.6	16	88	0	57	28	9	9	52	1.65
470704--470775	27	2.7	27	82	0	72	43	6	16	33	1.75
470733--470856	27	4.6	27	72	9	83	37	12	17	32	1.87
476872--476919	22	2.1	23	88	3	71	22	6	4	66	1.32
477041--477102	26	2.4	26	91	0	97	20	9	12	56	1.65
480803--480849	23	2.0	23	83	0	58	21	12	6	59	1.55
482091--482128	13	3.0	13	80	7	51	5	52	0	42	1.24
489024--489161	47	2.9	46	88	2	195	52	11	9	26	1.68
492889--493474	299	2.0	299	90	0	938	41	16	10	31	1.82
495940--496077	47	2.9	47	87	4	190	50	11	9	28	1.69
495940--496118	94	1.9	94	80	8	213	50	11	9	28	1.69
496279--496366	32	2.8	32	78	0	104	39	27	10	22	1.86
517909--517934	2	13.0	2	100	0	52	50	0	0	50	1.00
519685--519736	22	2.4	20	76	17	59	30	11	17	40	1.85
522038--522066	2	14.5	2	100	0	58	51	0	0	48	1.00
534016--534071	6	9.0	6	76	20	53	3	16	0	80	0.85
534036--534066	11	2.8	11	100	0	62	0	9	0	90	0.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537888--537941	2	27.0	2	84	0	72	46	0	7	46	1.31
537888--537941	24	2.2	24	100	0	108	46	0	7	46	1.31
538374--538404	2	15.5	2	93	0	53	48	3	0	48	1.17
539723--539756	17	2.0	17	88	0	50	44	8	8	38	1.67
552441--552612	36	4.9	35	80	1	173	45	12	6	35	1.67
552441--552612	71	2.4	71	80	2	193	45	12	6	35	1.67
554814--554881	34	2.0	35	83	13	88	41	2	7	48	1.46
567151--567342	80	2.4	80	88	0	267	33	23	9	33	1.87
568899--568940	19	2.2	19	86	0	57	26	2	35	35	1.70
573485--573534	24	2.1	24	96	0	91	12	18	22	48	1.80

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