genome.fa.s5.2.7.7.80.10.50.1000.15.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  15  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)
7530063--7531061	362	2.9	344	81	8	1129	45	7	7	40	1.59
7536706--7536807	53	1.9	52	86	2	141	29	15	16	38	1.90
7541625--7541707	41	2.0	41	92	0	139	39	16	16	26	1.90
7544709--7544785	29	2.6	30	81	4	84	42	10	6	40	1.65
7553605--7553639	3	11.7	3	100	0	70	34	0	0	65	0.93
7565120--7565188	23	2.9	24	89	2	95	34	8	5	50	1.57
7567706--7567844	72	1.9	72	83	0	179	33	15	16	34	1.91
7575187--7575249	28	2.2	29	88	2	92	30	23	11	34	1.90
7575195--7575251	29	2.0	28	93	3	96	26	21	12	40	1.88
7577554--7577616	31	2.0	31	90	0	99	30	17	23	28	1.97
7578479--7578664	41	4.7	41	74	13	140	63	0	2	33	1.10
7578555--7578622	28	2.4	29	87	9	104	72	0	0	27	0.85
7578504--7578629	48	2.7	45	82	14	141	68	0	0	30	0.96
7578501--7578706	74	2.7	75	83	10	208	65	0	2	31	1.12
7578637--7578815	49	3.4	49	70	26	148	62	0	5	31	1.23
7578718--7578814	23	4.2	23	74	15	85	65	0	3	30	1.07
7578734--7578868	16	8.2	17	67	21	65	62	0	4	32	1.15
7578640--7578868	113	2.0	114	98	0	442	62	0	5	32	1.21
7578637--7578815	16	11.1	15	70	20	78	62	0	5	31	1.23
7579018--7579046	15	1.9	15	100	0	58	41	24	0	34	1.55
7582482--7582613	28	4.8	28	71	12	85	43	7	6	42	1.57
7582489--7582555	27	2.4	27	82	2	71	41	5	5	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7582489--7582642	55	2.8	54	78	3	137	45	10	5	38	1.63
7582638--7582707	27	2.6	27	86	2	95	44	7	4	44	1.51
7582540--7582738	98	2.0	98	81	1	229	46	10	4	39	1.58
7582693--7582791	51	1.9	51	89	4	155	45	5	7	42	1.53
7582673--7582810	28	5.2	26	67	17	77	45	5	6	42	1.54
7582821--7583018	27	7.3	27	70	7	89	45	8	4	41	1.55
7582653--7583002	79	4.4	79	77	5	330	45	8	6	40	1.59
7584488--7584541	21	2.5	22	81	6	65	29	14	12	42	1.83
7584516--7584569	26	2.1	25	82	3	63	24	7	14	53	1.66
7588687--7588798	45	2.5	45	85	0	161	32	16	21	30	1.95
7593623--7593651	13	2.1	14	93	6	51	79	13	6	0	0.93
7614896--7614921	10	2.6	10	100	0	52	26	19	11	42	1.85
7621694--7621753	2	30.0	2	93	0	93	0	51	0	48	1.00
7635579--7635604	2	13.0	2	100	0	52	50	0	0	50	1.00
7640891--7641133	121	2.0	121	99	0	477	32	15	19	32	1.93
7647833--7647879	20	2.4	20	79	10	53	42	8	2	46	1.46
7650693--7650731	21	1.9	21	85	15	55	38	17	2	41	1.64
7651980--7652034	28	2.0	28	96	0	101	25	16	10	47	1.79
7652857--7652916	28	2.2	27	96	3	111	35	21	18	25	1.96
7657110--7657149	20	2.0	21	85	5	55	32	17	10	40	1.83
7667775--7667819	18	2.5	18	85	0	54	55	13	2	28	1.50
7678685--7678718	17	2.0	17	88	0	50	38	2	23	35	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7679482--7679583	27	3.7	27	74	8	100	35	6	15	42	1.74
7679482--7679583	28	3.7	27	72	6	98	35	6	15	42	1.74
7688259--7688298	21	1.9	21	89	0	62	25	5	17	52	1.64
7692976--7693008	3	11.0	3	100	0	66	33	0	0	66	0.92
7696179--7696230	27	1.9	27	92	0	86	36	17	15	30	1.91
7700951--7700992	20	2.0	20	82	17	50	19	0	14	66	1.25
7705434--7705466	17	1.9	17	100	0	66	36	24	30	9	1.86
7727441--7727467	6	4.5	6	100	0	54	14	48	18	18	1.82
7733899--7733945	11	4.3	11	75	20	53	36	0	2	61	1.08
7742855--7742893	2	19.5	2	100	0	78	51	0	0	48	1.00
7776643--7776707	32	2.0	33	87	3	96	21	21	6	50	1.70
7778194--7778268	39	1.9	39	88	0	114	30	29	14	25	1.95
7778204--7778278	39	1.9	39	86	0	105	29	28	14	28	1.95
7779432--7779601	29	5.9	28	75	9	144	41	9	10	38	1.72
7779432--7779594	59	2.8	59	82	6	167	41	9	9	39	1.70
7783806--7783943	57	2.4	56	80	7	136	36	26	10	26	1.89
7785111--7785163	21	2.5	22	78	9	65	26	22	3	47	1.68
7788153--7788193	21	2.0	21	90	0	64	46	17	17	19	1.85
7800244--7800268	2	12.5	2	100	0	50	52	0	48	0	1.00
7806479--7806513	2	18.0	2	88	5	54	51	2	0	45	1.16
7810811--7810844	15	2.3	15	89	0	50	64	0	0	35	0.94
7809232--7814185	495	10.0	490	80	6	4654	48	6	9	35	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7809232--7814185	249	20.0	247	80	6	4613	48	6	9	35	1.61
7814285--7814324	20	2.0	20	85	5	53	60	7	0	32	1.25
7814599--7814634	2	18.5	2	88	5	56	50	0	2	47	1.15
7820325--7820638	97	3.2	102	79	10	296	21	32	37	7	1.83
7820325--7820638	51	6.4	51	78	10	242	21	32	37	7	1.83
7820412--7820638	102	2.3	97	84	6	278	21	31	38	8	1.84
7821141--7821197	15	3.9	15	83	4	80	29	5	36	28	1.79
7821142--7821198	29	1.9	30	92	3	98	29	5	36	28	1.79
7821753--7821843	30	3.0	30	69	15	78	21	39	20	17	1.92
7822109--7822133	10	2.5	10	100	0	50	52	8	32	8	1.60
7843993--7844017	3	8.3	3	100	0	50	68	0	32	0	0.90
7856048--7856110	30	2.1	30	87	0	90	23	17	19	39	1.92
7867682--7867717	15	2.4	15	100	0	72	22	27	0	50	1.50
7872037--7872164	66	1.9	67	92	3	215	29	10	22	36	1.89
7872044--7872171	35	3.8	35	73	9	122	32	10	22	34	1.89
7876892--7876948	26	2.2	26	90	9	91	42	1	3	52	1.28
7876915--7877009	41	2.3	41	80	8	104	42	3	3	51	1.33
7877357--7877438	19	4.0	21	75	21	77	45	0	1	53	1.08
7883648--7883832	73	2.5	73	81	2	219	39	18	17	23	1.92
7902443--7902478	18	2.0	18	89	10	56	41	5	5	47	1.50
7919604--7919634	2	15.5	2	100	0	62	48	0	0	51	1.00
7920143--7920198	20	2.8	20	81	5	60	73	5	0	21	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7933852--7933916	33	2.0	33	81	6	78	32	6	13	47	1.68
7934418--7934456	13	2.8	13	88	7	51	46	0	2	51	1.14
7948883--7948918	2	18.0	2	94	0	63	47	0	2	50	1.15
7951220--7951244	4	6.2	4	100	0	50	52	0	0	48	1.00
7953369--7953463	43	2.3	41	82	7	111	15	38	1	44	1.54
7953399--7953493	43	2.2	43	90	0	145	13	36	1	48	1.50
7970030--7970097	21	3.1	22	77	10	68	64	10	7	17	1.46
7973926--7973979	26	2.1	26	100	0	108	37	3	14	44	1.63
7974224--7974277	27	2.1	26	86	6	74	25	0	11	62	1.28
7979552--7979797	122	2.0	122	92	0	411	34	15	12	36	1.85
7987340--7987393	29	1.9	28	88	7	83	46	20	9	24	1.79
7991646--7991686	20	2.0	21	85	4	57	63	7	26	2	1.33
7996063--7996099	19	1.9	19	88	0	56	45	0	0	54	1.00
7996402--7996458	22	2.6	21	78	8	60	43	3	1	50	1.29
7998526--7998601	28	3.0	25	78	16	84	48	0	1	50	1.09
7998540--7998604	15	4.4	15	73	21	57	47	0	1	50	1.10
7998659--7998692	7	4.9	7	100	0	68	85	0	0	14	0.60
7998707--7998787	15	6.1	14	69	23	68	56	1	0	41	1.07
7998743--7998830	25	3.6	25	74	13	85	61	1	0	37	1.04
7998676--7998800	40	3.1	39	80	10	135	57	1	0	40	1.08
7998707--7998818	22	5.1	22	72	16	83	57	1	0	41	1.09
7999002--7999104	32	3.1	32	92	4	161	30	28	0	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7999006--7999106	35	3.0	34	91	5	161	30	28	0	39	1.64
7999034--7999273	129	1.8	130	89	2	374	31	22	9	36	1.86
8009925--8009949	2	12.5	2	100	0	50	52	0	0	48	1.00
8015563--8015625	31	2.0	31	100	0	126	44	9	12	33	1.75
8020117--8020180	26	2.4	27	82	10	78	50	1	3	45	1.27
8020301--8020609	159	2.0	153	84	6	397	55	3	1	39	1.27
8020444--8020493	26	1.9	26	88	8	75	52	2	2	44	1.24
8020416--8020497	42	2.0	41	83	7	103	50	3	2	43	1.33
8020485--8020532	26	1.9	26	87	8	73	52	0	2	45	1.12
8020933--8020992	23	2.7	22	79	7	59	55	1	1	41	1.20

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