genome.fa.s13.2.7.7.80.10.50.1000.16.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  16  of  18  ( 2072 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)
6429762--6429818	27	2.2	25	79	14	62	42	3	7	47	1.47
6429853--6430027	63	3.0	55	69	22	142	42	0	2	55	1.12
6429637--6429960	151	2.1	150	89	4	483	41	1	3	53	1.27
6429942--6429993	16	3.3	16	83	5	61	48	0	0	51	1.00
6430021--6430049	15	1.9	15	100	0	58	13	3	0	82	0.79
6429859--6430028	61	2.8	59	71	20	147	41	0	2	55	1.12
6430043--6430101	27	2.1	28	84	3	75	42	1	5	50	1.34
6429585--6430127	283	1.9	275	84	9	704	39	1	3	55	1.27
6430029--6430237	109	1.9	108	82	6	258	38	1	3	55	1.29
6430199--6430251	26	2.0	26	85	7	72	37	0	0	62	0.96
6430191--6430269	22	3.8	19	78	21	79	39	1	0	59	1.06
6432864--6432906	18	2.3	19	84	8	61	46	4	2	46	1.36
6433067--6433112	14	3.3	13	82	14	56	63	10	0	26	1.27
6433945--6433978	17	2.0	17	100	0	68	52	17	5	23	1.66
6465071--6465110	2	20.0	2	100	0	80	50	0	0	50	1.00
6470904--6470929	13	2.0	13	100	0	52	0	15	7	76	0.99
6475362--6475404	19	2.4	19	88	11	65	23	0	2	74	0.93
6475502--6475575	23	3.0	24	81	13	80	41	1	1	55	1.17
6475533--6475609	23	3.3	22	75	18	66	46	1	1	50	1.17
6486579--6486619	15	2.7	15	96	0	73	7	12	21	58	1.58
6488766--6488799	6	5.7	6	92	0	59	50	2	14	32	1.58
6499656--6499797	28	5.0	29	80	10	132	40	8	9	41	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6499689--6499817	59	2.2	58	81	5	143	37	7	9	44	1.65
6502343--6502438	32	3.0	32	98	0	183	28	27	9	35	1.88
6509941--6509998	29	2.0	29	93	0	98	15	22	25	36	1.94
6513315--6513444	66	2.1	58	78	16	136	17	12	52	17	1.75
6515077--6515182	36	2.9	36	85	0	149	14	33	6	46	1.70
6527789--6528453	340	2.0	340	85	3	910	45	11	12	31	1.77
6529370--6529435	28	2.4	28	89	5	98	50	22	4	22	1.67
6532997--6533070	33	2.2	34	81	11	91	20	14	14	50	1.78
6533005--6533069	34	1.9	33	85	14	89	18	15	15	50	1.78
6534754--6534785	15	2.1	15	94	0	55	68	0	0	31	0.90
6534750--6534825	33	2.4	33	85	12	97	68	0	2	28	1.03
6534756--6534834	7	11.9	7	74	14	53	68	0	2	29	1.03
6536665--6536713	22	2.2	22	85	3	62	28	14	26	30	1.95
6536632--6536751	23	5.2	23	76	4	98	29	13	20	36	1.91
6540116--6540558	76	5.9	74	79	2	366	24	15	25	34	1.95
6540151--6540574	152	2.8	150	78	2	443	25	16	25	33	1.96
6542059--6542240	81	2.2	81	76	8	172	24	25	18	31	1.98
6544756--6544861	31	3.4	31	90	0	158	33	18	16	31	1.93
6544882--6545064	87	2.1	87	86	2	251	32	26	14	26	1.95
6545602--6545682	23	3.5	23	88	6	119	27	27	17	28	1.97
6545671--6545719	23	2.1	23	88	0	71	26	26	14	32	1.94
6555817--6556118	153	2.0	149	87	2	433	36	24	10	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6562343--6562370	3	9.3	3	100	0	56	67	0	0	32	0.91
6562509--6562542	5	6.8	5	87	12	52	14	2	0	82	0.79
6562989--6563054	8	7.0	10	86	11	54	0	12	0	87	0.53
6562992--6563054	5	11.3	6	90	10	59	0	11	0	88	0.50
6563014--6563053	1	40.0	1	100	0	80	0	0	0	100	0.00
6565333--6565364	16	2.0	16	100	0	64	37	6	25	31	1.81
6568304--6568365	29	2.1	29	87	0	88	46	11	6	35	1.65
6568741--6568846	34	3.1	34	73	0	95	40	25	14	19	1.89
6597387--6597438	20	2.4	22	75	9	54	51	3	0	44	1.19
6597525--6597558	10	3.3	10	84	8	50	55	5	0	38	1.24
6599454--6599756	15	20.0	15	63	24	61	64	1	3	30	1.18
6599552--6599783	33	6.2	38	65	21	114	62	0	4	31	1.21
6599596--6599822	114	2.0	114	97	0	427	61	0	4	33	1.22
6599674--6599740	24	2.9	22	75	18	64	65	1	1	31	1.10
6603908--6603946	20	1.9	21	89	5	62	43	2	0	53	1.14
6606358--6606388	14	2.2	14	94	0	53	64	3	0	32	1.09
6607516--6607547	2	16.0	2	93	0	55	50	0	3	46	1.17
6611118--6611150	2	16.5	2	100	0	66	0	51	0	48	1.00
6612088--6612112	6	4.2	6	100	0	50	32	36	32	0	1.58
6631737--6632117	145	2.7	142	80	3	433	44	5	24	24	1.75
6632160--6632424	142	1.9	142	82	6	340	45	6	24	24	1.75
6632647--6632732	44	2.0	44	86	9	122	43	6	22	27	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6633214--6633452	44	5.7	44	71	15	157	38	4	28	28	1.77
6633203--6633362	81	2.0	82	88	3	243	35	3	31	30	1.73
6633554--6633740	98	1.9	98	85	0	257	46	9	17	26	1.78
6633654--6633730	39	2.0	39	84	5	102	42	9	22	25	1.82
6634190--6634227	19	2.0	19	85	10	51	65	0	7	26	1.19
6634190--6634232	15	2.9	15	83	13	54	62	0	9	27	1.25
6635120--6635193	15	4.9	15	86	6	105	32	6	25	35	1.82
6635442--6635473	16	1.9	17	93	6	57	31	0	0	68	0.90
6635409--6635474	24	2.7	25	73	15	66	30	1	1	66	1.10
6654468--6654533	32	2.1	32	82	5	80	43	16	6	33	1.73
6658699--6658728	2	15.0	2	92	0	51	46	0	3	50	1.18
6674843--6674882	20	2.0	20	85	0	53	30	17	10	42	1.82
6683986--6684077	34	2.7	34	89	0	130	22	16	25	35	1.94
6687661--6687687	3	9.0	3	100	0	54	66	0	0	33	0.92
6708257--6708289	16	2.1	17	88	11	52	39	3	12	45	1.57
6709960--6709990	15	2.0	16	93	6	55	64	0	0	35	0.94
6710968--6710998	15	2.1	14	94	5	53	58	3	0	38	1.15
6710973--6711042	15	4.6	16	77	13	69	47	7	0	45	1.30
6710993--6711051	31	2.0	31	86	6	86	44	8	0	47	1.33
6710690--6711360	367	1.9	351	83	6	880	40	7	7	45	1.60
6718332--6718360	2	14.5	2	100	0	58	48	0	0	51	1.00
6721489--6721530	19	2.3	19	80	15	52	50	2	21	26	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6726371--6726420	25	1.9	27	92	8	86	40	0	12	48	1.40
6732472--6732512	21	2.1	19	86	9	55	60	9	0	29	1.28
6733181--6733524	190	1.8	190	90	1	564	31	13	15	38	1.87
6734276--6734597	116	2.8	115	82	6	380	25	12	27	34	1.92
6735444--6735474	14	2.2	14	100	0	62	12	32	25	29	1.93
6743717--6743753	2	18.5	2	88	0	56	43	0	0	56	0.99
6743717--6743753	10	3.7	10	96	0	65	43	0	0	56	0.99
6747661--6747758	31	3.4	28	83	5	90	36	11	14	37	1.82
6747661--6747764	29	3.6	28	79	9	104	34	10	13	41	1.79
6747691--6747758	31	2.2	32	89	2	102	38	14	10	36	1.81
6747930--6747970	21	2.0	21	85	0	55	36	19	17	26	1.94
6748522--6748614	46	2.0	46	95	2	170	37	19	2	40	1.64
6751627--6751805	87	2.1	86	85	4	245	43	21	12	22	1.86
6754817--6754880	32	2.0	32	90	0	101	51	12	23	12	1.73
6761073--6761099	2	13.5	2	100	0	54	51	0	0	48	1.00
6769041--6769085	22	2.0	22	100	0	90	31	4	22	42	1.73
6787707--6787816	49	2.2	51	82	7	136	64	11	12	10	1.50
6788620--6788686	22	3.0	21	84	4	80	29	16	19	34	1.94
6788735--6788810	21	3.6	21	80	3	89	19	15	23	40	1.90
6788839--6788915	22	3.6	22	80	3	77	28	9	24	37	1.86
6793472--6793554	22	3.8	22	78	13	82	49	25	10	14	1.76
6793646--6793693	22	2.2	22	92	0	78	33	33	4	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6795044--6795081	3	12.7	3	94	0	67	65	0	2	31	1.06
6798947--6798984	19	2.1	18	85	9	51	31	5	2	60	1.33
6799105--6801070	250	7.9	249	82	5	2166	35	10	5	49	1.59
6800169--6800220	22	2.3	22	80	6	59	34	3	1	59	1.27
6799105--6801064	504	3.9	498	83	4	2274	35	10	5	49	1.59
6798932--6801070	754	2.9	748	85	4	2782	35	10	5	49	1.60
6800871--6801261	200	2.0	197	86	2	550	36	11	6	45	1.67
6801279--6801713	229	1.9	229	82	6	553	34	6	5	52	1.52
6806538--6806598	31	2.0	31	81	12	72	21	0	11	67	1.22
6811956--6811984	6	4.8	6	100	0	58	17	17	48	17	1.82

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