genome.fa.s5.2.7.7.80.10.50.1000.17.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_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11097736

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  17  of  22  ( 2636 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)
8493412--8493437	6	4.3	6	100	0	52	15	0	53	30	1.42
8498518--8498579	27	2.3	27	100	0	124	38	3	24	33	1.71
8499431--8499474	6	7.3	6	80	10	54	15	61	18	4	1.50
8503074--8503103	15	1.9	16	93	6	53	60	0	0	40	0.97
8512528--8512583	8	7.0	8	75	15	53	50	1	0	48	1.11
8512528--8512583	15	3.5	16	83	9	62	50	1	0	48	1.11
8518785--8518846	31	2.1	30	88	11	92	61	0	1	37	1.06
8518788--8518850	22	2.8	23	76	13	60	61	0	1	36	1.05
8522259--8522285	2	13.5	2	100	0	54	48	0	0	51	1.00
8523875--8523901	2	13.5	2	100	0	54	51	0	0	48	1.00
8532649--8532673	10	2.5	10	100	0	50	8	12	0	80	0.92
8536606--8536650	22	2.0	22	83	8	56	26	17	8	46	1.78
8538214--8538247	17	2.0	17	88	0	50	50	0	2	47	1.16
8538175--8538265	43	2.1	43	84	9	116	47	1	1	50	1.15
8538179--8538262	23	3.9	21	72	20	59	48	1	1	48	1.16
8544070--8544150	42	1.9	42	92	0	135	28	22	19	29	1.98
8547389--8547416	2	14.0	2	100	0	56	50	0	0	50	1.00
8550377--8550413	2	18.5	2	100	0	74	48	0	0	51	1.00
8552555--8552616	31	1.9	31	83	6	79	43	8	6	41	1.60
8552589--8552725	36	4.1	36	70	20	116	48	5	12	32	1.65
8552602--8552722	63	2.0	61	90	6	190	51	4	13	31	1.59
8554126--8554165	15	2.7	15	84	0	53	30	0	35	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8562552--8562585	11	2.9	12	86	8	52	82	0	2	14	0.79
8563249--8563281	15	2.1	16	88	5	50	57	0	0	42	0.98
8564694--8564755	9	6.8	9	80	10	72	61	0	4	33	1.17
8564790--8564826	13	2.8	13	100	0	74	48	0	0	51	1.00
8570336--8570415	32	2.6	30	77	16	83	7	20	1	71	1.17
8570530--8570567	16	2.3	17	90	4	60	34	5	0	60	1.19
8578791--8578845	27	2.0	27	100	0	110	30	25	14	29	1.95
8593476--8593587	53	2.1	54	93	1	190	26	16	13	43	1.84
8604267--8604322	29	1.9	29	92	0	94	37	12	17	32	1.88
8604263--8604352	29	3.3	29	80	7	91	40	15	14	30	1.87
8605235--8605319	35	2.3	37	86	6	111	10	18	23	47	1.80
8605441--8605478	20	1.9	20	84	10	51	23	5	18	52	1.65
8620251--8620318	28	2.4	28	100	0	136	50	10	16	23	1.75
8622110--8622151	16	2.8	15	85	7	50	64	9	4	21	1.42
8624475--8624534	30	2.0	30	83	0	75	28	20	15	36	1.92
8632394--8633134	370	2.0	368	97	1	1412	40	19	14	25	1.90
8639454--8639561	25	3.9	30	70	21	83	64	0	2	31	1.14
8639445--8639564	50	2.3	54	79	13	135	65	0	2	30	1.11
8639580--8639620	15	2.7	15	82	10	57	70	0	0	29	0.87
8639642--8639939	29	10.0	30	64	18	99	62	0	1	35	1.08
8639642--8639695	17	3.1	17	79	10	56	66	0	0	33	0.92
8639668--8639831	23	6.8	23	67	24	72	63	0	1	34	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8639660--8639704	17	2.7	18	75	25	53	64	0	0	35	0.94
8639766--8639939	6	28.2	6	67	25	62	64	0	1	34	1.01
8639581--8640112	107	5.0	109	84	12	668	61	0	2	35	1.12
8639918--8640109	56	3.4	59	72	20	201	60	0	3	35	1.14
8639580--8640110	215	2.5	207	86	10	708	61	0	2	35	1.12
8640260--8640300	15	2.7	15	84	0	55	34	24	7	34	1.83
8642444--8642488	24	2.0	23	86	8	65	26	6	8	57	1.54
8652444--8652469	11	2.4	11	100	0	52	0	38	0	61	0.96
8655695--8655827	66	2.0	66	94	0	230	50	18	7	23	1.72
8661507--8661535	14	2.0	15	93	6	51	27	10	13	48	1.75
8661538--8661630	27	3.3	26	66	22	71	16	13	18	51	1.76
8661540--8661657	58	2.0	59	95	1	211	15	16	21	47	1.82
8661550--8661639	27	3.2	27	66	22	76	15	13	21	50	1.78
8675443--8675543	31	3.4	31	69	27	99	52	12	16	17	1.75
8675439--8675557	59	2.0	59	98	0	229	50	11	16	21	1.77
8687547--8687624	31	2.5	31	91	0	129	42	17	24	15	1.88
8687643--8687950	31	10.0	31	86	2	352	39	19	19	21	1.93
8687643--8687950	122	2.5	123	83	2	368	39	19	19	21	1.93
8688548--8689360	47	17.4	46	79	5	642	26	30	15	27	1.96
8688582--8688746	23	7.0	23	66	19	90	27	35	13	23	1.93
8688595--8688723	24	5.5	24	66	20	74	28	35	13	21	1.92
8688548--8689360	186	4.3	187	80	4	759	26	30	15	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8688853--8688930	23	3.3	23	70	16	79	24	33	17	24	1.97
8688557--8689347	233	3.4	229	81	5	822	26	30	15	27	1.96
8689085--8689163	23	3.4	23	66	22	65	27	34	12	25	1.92
8689134--8689208	23	3.2	23	67	10	62	26	29	14	29	1.95
8689249--8689326	24	3.3	24	68	10	70	28	23	19	29	1.98
8692327--8692460	68	2.0	68	87	0	196	32	5	16	44	1.72
8699775--8699829	16	3.5	16	85	11	78	63	0	36	0	0.95
8700503--8700710	106	2.0	106	94	1	364	37	7	19	36	1.79
8707444--8707468	7	3.6	7	100	0	50	48	36	0	16	1.46
8709632--8709688	23	2.5	24	81	16	59	73	1	5	19	1.11
8720753--8720801	20	2.5	20	82	0	53	26	2	10	61	1.39
8720773--8720850	26	3.0	27	79	5	81	25	1	7	65	1.27
8724609--8724642	17	2.0	17	88	11	52	41	29	0	29	1.57
8742123--8742213	47	2.0	45	85	10	121	37	3	3	56	1.32
8742242--8742298	27	2.1	27	83	3	69	43	3	0	52	1.18
8746470--8746514	21	2.1	21	100	0	90	17	31	15	35	1.92
8752389--8752418	2	15.0	2	100	0	60	0	50	0	50	1.00
8752847--8752951	55	1.9	55	86	7	151	19	9	24	46	1.79
8755787--8755839	26	2.0	27	88	3	81	33	0	1	64	1.05
8756127--8756191	30	2.2	30	91	0	103	56	3	3	36	1.30
8756398--8756430	2	16.5	2	87	12	50	48	0	3	48	1.17
8762585--8762692	57	1.9	57	96	0	198	22	22	11	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8764994--8765032	2	19.5	2	89	0	60	48	5	0	46	1.24
8765704--8765733	14	2.2	14	94	5	53	43	0	10	46	1.37
8766618--8767033	215	1.9	214	86	3	586	47	4	7	40	1.52
8774223--8774272	24	2.2	22	82	7	55	28	4	6	62	1.37
8774272--8774304	11	3.0	11	95	0	57	75	0	6	18	1.00
8779154--8779201	24	2.0	24	95	0	87	31	4	22	41	1.73
8779575--8779682	35	3.1	35	86	1	135	25	22	25	26	2.00
8790773--8790804	16	2.0	17	88	11	50	3	12	0	84	0.74
8792055--8792096	18	2.3	18	87	0	57	16	11	11	59	1.61
8794742--8794801	17	3.6	17	67	13	52	61	6	1	30	1.31
8795031--8795062	2	16.0	2	93	0	55	50	0	3	46	1.17
8796615--8796714	52	1.9	53	87	2	148	22	24	9	45	1.81
8798028--8798071	21	2.1	21	91	0	70	31	9	18	40	1.81
8799100--8799187	37	2.4	37	96	0	158	22	10	34	32	1.88
8800033--8800086	22	2.4	22	75	22	58	25	37	1	35	1.67
8800294--8800362	14	4.8	15	69	24	51	4	14	1	79	0.95
8800309--8800367	10	6.3	9	77	11	57	3	13	1	81	0.90
8800309--8800367	19	3.2	18	74	11	57	3	13	1	81	0.90
8800877--8800955	7	11.3	7	74	17	67	0	15	2	82	0.78
8800882--8800965	17	4.9	16	77	13	80	0	15	2	82	0.78
8800877--8800966	14	6.7	13	77	8	83	0	15	2	82	0.77
8800880--8800968	21	4.4	20	78	9	74	0	15	2	82	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8800880--8800968	18	4.8	18	81	9	108	0	15	2	82	0.78
8800877--8800968	33	2.8	32	77	21	93	0	16	2	81	0.79
8812980--8813019	20	2.0	21	85	5	55	70	2	0	27	1.01
8826301--8826348	12	4.0	12	77	0	51	8	37	2	52	1.44
8828336--8828368	12	2.7	13	90	9	52	30	18	0	51	1.46
8835865--8835891	2	13.5	2	100	0	54	51	0	0	48	1.00
8841024--8841049	2	13.0	2	100	0	52	50	0	50	0	1.00
8846682--8846776	32	3.0	32	83	6	115	30	6	17	45	1.74
8849111--8849158	3	16.0	3	100	0	96	66	0	0	33	0.92
8852331--8852375	21	2.0	22	83	8	56	48	6	0	44	1.29

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22