genome.fa.s1.2.7.7.80.10.50.1000.27.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  27  of  32  ( 3821 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)
13204014--13204145	50	2.6	52	76	5	128	31	15	16	35	1.91
13204336--13204388	27	2.0	27	100	0	106	47	3	22	26	1.68
13205288--13205335	24	2.0	24	91	0	78	47	14	10	27	1.76
13206471--13206585	59	1.9	59	82	3	142	40	8	8	41	1.67
13206550--13206622	29	2.6	28	78	8	76	46	16	4	32	1.66
13206578--13206634	29	2.0	29	82	6	71	42	15	10	31	1.81
13210768--13210803	2	18.0	2	88	0	54	50	5	0	44	1.25
13212773--13212831	30	1.9	30	82	6	73	52	13	10	23	1.71
13212901--13213049	45	3.3	45	88	0	199	32	20	18	28	1.96
13213019--13213136	21	5.5	21	77	9	103	25	18	22	33	1.96
13212974--13213137	66	2.5	66	88	0	247	26	18	21	32	1.97
13213153--13213223	25	2.9	24	81	10	72	38	18	15	28	1.91
13223525--13223559	17	2.1	18	89	10	56	37	11	22	28	1.89
13237898--13238001	31	3.3	30	81	10	102	9	59	14	16	1.60
13238123--13238150	10	2.8	10	100	0	56	42	39	17	0	1.50
13247793--13247823	3	10.3	3	92	0	53	64	0	35	0	0.94
13254841--13254885	18	2.5	18	96	0	81	37	20	11	31	1.87
13262577--13262676	46	2.2	45	78	5	110	44	14	17	25	1.85
13263051--13263080	3	10.0	3	92	0	51	30	0	3	66	1.07
13264024--13264078	20	2.8	19	83	5	56	40	1	14	43	1.56
13264142--13264192	17	2.9	17	77	11	57	47	1	3	47	1.32
13264394--13264520	67	1.9	67	83	4	166	47	3	8	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13272384--13272823	224	2.0	224	87	2	643	45	15	17	22	1.85
13272802--13272835	6	5.5	6	89	6	50	76	0	20	2	0.92
13275216--13275263	25	1.9	25	95	0	87	47	22	4	25	1.69
13275634--13276228	86	7.0	86	89	2	837	40	8	7	44	1.63
13275646--13276228	259	2.3	258	90	2	899	40	8	7	43	1.63
13281099--13281514	206	2.0	206	96	0	760	34	11	16	36	1.86
13283015--13283188	42	4.1	43	76	5	174	31	10	22	35	1.88
13283036--13283217	42	4.3	42	73	4	141	32	9	22	35	1.87
13283506--13283535	14	2.1	14	100	0	60	23	33	13	30	1.93
13296494--13296613	34	3.8	31	77	11	102	58	4	18	19	1.55
13302326--13302365	18	2.2	19	95	4	73	47	5	5	42	1.47
13304444--13304634	75	2.5	75	82	5	217	40	16	10	32	1.82
13312420--13312461	8	5.4	8	88	5	50	57	0	0	42	0.99
13313309--13313422	37	3.1	36	75	12	99	34	12	8	44	1.73
13318224--13318316	35	2.7	35	79	0	105	24	26	15	33	1.95
13324949--13325024	21	3.6	21	81	12	75	50	3	1	44	1.29
13325002--13325058	27	2.2	26	84	6	71	54	3	0	42	1.17
13325082--13325262	42	4.3	41	74	12	152	54	1	2	41	1.22
13325135--13325186	22	2.4	22	83	0	77	55	1	0	42	1.10
13325004--13325299	128	2.4	123	81	10	341	54	2	1	41	1.23
13325274--13325325	25	2.0	26	88	3	79	51	1	0	46	1.12
13325254--13325324	22	3.1	22	74	16	63	52	1	0	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13325282--13325333	25	2.1	25	82	7	61	55	0	0	44	0.99
13330772--13330802	2	15.5	2	93	0	53	45	0	0	54	0.99
13336864--13336893	3	10.0	3	92	0	51	0	33	3	63	1.11
13345854--13345878	6	4.2	6	100	0	50	36	48	16	0	1.46
13346677--13346849	46	4.0	40	77	16	175	28	9	32	29	1.88
13346699--13346843	46	3.1	46	88	4	211	29	7	33	28	1.85
13347583--13347707	42	2.9	41	82	9	135	52	2	0	44	1.19
13347615--13347678	21	3.0	22	65	9	60	54	0	1	43	1.09
13347815--13347918	40	2.5	42	84	6	149	54	1	4	38	1.33
13348118--13348218	42	2.3	45	80	11	129	53	0	1	44	1.11
13352446--13352482	10	3.6	10	88	3	56	48	0	0	51	1.00
13352456--13352512	23	2.4	24	80	14	64	45	1	0	52	1.11
13357175--13357221	24	2.0	24	95	0	85	29	4	17	48	1.65
13365661--13366108	224	2.0	225	85	3	598	34	16	18	30	1.93
13369077--13369272	28	6.8	28	76	9	160	38	11	9	40	1.74
13369077--13369272	29	6.7	29	74	9	157	38	11	9	40	1.74
13369077--13369272	59	3.4	57	76	9	189	38	11	9	40	1.74
13369174--13369280	57	1.9	57	82	1	135	42	10	9	37	1.71
13371322--13371348	13	2.1	13	100	0	54	44	0	29	25	1.54
13374585--13374805	100	2.2	99	79	4	230	27	21	27	23	1.99
13381048--13381081	17	1.9	18	88	5	52	47	17	0	35	1.48
13394131--13394210	34	2.5	31	79	6	88	53	11	11	23	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13394160--13394238	31	2.6	30	78	8	79	53	10	12	24	1.69
13397341--13397385	17	2.9	15	78	12	54	57	11	2	28	1.45
13404784--13404863	36	2.2	36	93	0	133	30	15	31	23	1.95
13411386--13411425	21	1.9	21	85	10	55	35	2	10	52	1.48
13415292--13415319	1	28.0	1	100	0	56	0	100	0	0	0.00
13425164--13425190	14	1.9	14	100	0	54	37	14	11	37	1.82
13429671--13429879	108	1.9	107	93	0	355	43	4	16	35	1.67
13431327--13431365	19	2.2	17	86	9	51	69	5	0	25	1.09
13439449--13439492	20	2.2	20	84	8	54	47	4	6	40	1.50
13439643--13439694	16	3.2	16	94	0	86	38	13	0	48	1.43
13442138--13442188	18	2.9	18	82	2	59	23	11	5	58	1.55
13447838--13447883	15	3.0	16	78	6	51	41	0	2	56	1.11
13453619--13453697	39	2.0	39	97	0	149	41	21	13	22	1.89
13455357--13455482	55	2.3	55	81	8	132	37	10	6	46	1.64
13463392--13463439	21	2.3	20	82	7	60	62	4	2	31	1.26
13481151--13481323	73	2.4	73	88	2	251	41	18	16	24	1.90
13481750--13481840	32	2.7	35	77	10	116	29	9	23	37	1.87
13481729--13481828	32	3.0	32	73	8	92	26	12	23	39	1.89
13481729--13481863	67	2.0	66	84	8	175	27	12	23	36	1.91
13489206--13489366	73	2.2	73	89	0	241	42	16	16	25	1.88
13489796--13489900	33	3.2	33	68	21	101	29	7	20	41	1.80
13489830--13489934	32	3.2	32	69	12	104	27	9	19	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13489794--13489943	67	2.3	67	95	1	275	28	8	20	43	1.81
13494731--13494776	23	2.0	22	83	4	56	36	0	4	58	1.18
13497208--13497241	16	2.1	17	88	5	52	11	11	2	73	1.20
13497438--13497546	58	1.9	58	84	1	148	38	4	4	52	1.43
13499931--13499959	2	14.5	2	100	0	58	51	0	0	48	1.00
13503162--13503194	2	16.5	2	100	0	66	0	51	0	48	1.00
13503259--13503284	2	13.0	2	100	0	52	0	50	0	50	1.00
13504896--13505006	55	2.0	55	92	0	186	17	14	18	50	1.78
13517838--13517895	21	2.8	21	86	0	71	51	18	1	27	1.56
13528306--13528395	25	3.5	26	73	19	73	40	4	2	53	1.33
13528350--13528427	34	2.4	32	82	8	86	38	2	2	56	1.27
13529207--13529302	35	2.8	34	79	4	93	32	13	27	27	1.94
13536526--13536590	28	2.5	25	76	16	60	40	1	1	56	1.18
13536664--13536709	16	2.7	18	76	13	51	23	2	10	63	1.38
13537511--13537545	17	2.1	16	89	5	52	51	0	0	48	1.00
13557582--13557710	35	3.7	35	90	0	177	29	10	24	34	1.90
13557595--13557710	35	3.3	35	92	0	178	31	11	24	33	1.90
13558258--13558321	22	2.9	22	93	4	94	56	0	6	37	1.25
13558258--13558315	11	5.3	11	76	15	66	58	0	3	37	1.15
13558284--13558321	11	3.3	12	78	14	53	52	0	10	36	1.36
13559372--13559396	2	12.5	2	100	0	50	52	0	0	48	1.00
13573087--13573129	21	2.0	22	81	4	52	27	4	6	60	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13573661--13573697	16	2.3	16	90	0	56	54	5	2	37	1.38
13573569--13573763	100	1.9	101	88	3	295	48	12	5	34	1.63
13575140--13575199	28	2.1	28	96	0	111	13	16	6	63	1.50
13576198--13576283	29	2.9	29	77	10	93	22	17	10	50	1.76
13577969--13578054	37	2.3	37	84	9	104	36	16	17	30	1.92
13582395--13582444	15	3.2	16	78	18	52	44	4	0	52	1.20
13583177--13583220	21	2.0	22	91	4	72	29	0	9	61	1.27
13583889--13583930	21	2.0	21	81	9	50	30	11	35	21	1.90
13584926--13585035	51	2.2	52	85	3	143	36	7	14	41	1.74
13584910--13585042	51	2.6	50	78	5	140	39	6	15	38	1.73

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32