genome.fa.s14.2.7.7.80.10.50.1000.6.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  6  of  12  ( 1406 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)
3611997--3612026	2	15.0	2	100	0	60	50	0	0	50	1.00
3624868--3624928	25	2.5	22	70	29	52	26	21	9	42	1.84
3648306--3648356	24	2.1	25	88	3	77	49	0	3	47	1.20
3654463--3654518	28	2.0	28	100	0	112	25	21	10	42	1.85
3660853--3660881	14	2.0	15	93	6	51	0	0	65	34	0.93
3667213--3667252	20	2.1	19	86	13	55	5	20	0	75	0.99
3671985--3672044	24	2.5	24	73	26	65	48	0	13	38	1.42
3678073--3678391	63	5.1	63	94	2	570	24	36	10	28	1.89
3683546--3683608	23	2.7	23	80	11	67	53	3	4	38	1.38
3684149--3684181	17	2.0	17	88	5	50	24	0	21	54	1.45
3684369--3684429	27	2.2	28	94	2	106	47	4	3	44	1.41
3689089--3689136	24	2.0	24	87	0	69	0	22	6	70	1.09
3689286--3689316	15	2.1	15	93	0	53	38	12	22	25	1.90
3700050--3700129	29	2.8	29	72	14	67	41	3	0	55	1.18
3700936--3700996	31	2.0	29	84	6	77	36	0	1	62	1.05
3706994--3707041	7	6.6	7	88	7	69	83	0	16	0	0.65
3716926--3716992	31	2.2	31	94	0	116	34	19	23	22	1.97
3724318--3724343	6	4.3	6	100	0	52	15	15	34	34	1.89
3724308--3724366	15	4.1	15	78	12	61	22	11	33	32	1.90
3724294--3724366	21	3.3	21	75	5	65	23	12	31	32	1.91
3728096--3728122	7	3.9	7	100	0	54	0	55	0	44	0.99
3737571--3737613	22	2.0	22	100	0	86	32	13	9	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3752398--3752507	53	2.1	53	93	3	186	39	13	12	34	1.83
3757393--3757444	6	8.7	6	89	0	68	5	19	42	32	1.75
3758260--3758314	28	2.0	27	82	13	67	67	0	0	32	0.91
3770966--3771009	23	1.9	23	90	0	70	52	20	11	15	1.74
3771769--3771876	45	2.5	43	79	7	119	49	0	4	45	1.29
3771773--3771866	45	2.1	45	85	0	125	47	1	5	45	1.32
3772553--3772599	21	2.2	22	92	3	78	36	25	12	25	1.92
3795938--3795965	6	4.7	6	100	0	56	35	14	50	0	1.43
3802154--3802273	22	5.5	22	80	4	118	28	17	15	38	1.91
3802149--3802283	44	3.1	44	84	7	166	28	17	14	40	1.89
3802167--3802284	44	2.7	45	87	7	170	27	16	16	38	1.90
3802336--3802406	23	3.1	23	78	9	65	39	23	11	25	1.88
3802370--3802418	23	2.1	23	88	0	71	38	18	12	30	1.87
3802452--3802507	22	2.5	22	82	0	67	51	16	3	28	1.60
3809647--3809693	23	2.1	23	92	4	78	40	4	0	55	1.19
3827671--3827710	15	2.7	15	84	0	53	37	5	10	47	1.59
3829697--3829742	22	2.1	22	83	0	56	23	0	6	69	1.11
3831189--3831247	30	2.0	30	86	0	82	38	3	3	54	1.34
3840577--3840631	27	2.0	27	82	10	67	43	0	9	47	1.35
3840847--3840875	9	3.2	9	100	0	58	10	0	0	89	0.48
3850319--3850393	35	2.1	35	92	0	123	53	10	10	25	1.67
3872298--3872325	2	14.0	2	100	0	56	0	50	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3881022--3881075	20	2.6	21	79	5	65	68	20	9	1	1.27
3881596--3881672	26	3.1	26	72	14	81	67	1	1	29	1.07
3881593--3881694	33	3.1	33	78	13	120	66	1	1	29	1.13
3882295--3882380	35	2.4	35	86	9	113	55	1	0	43	1.07
3882337--3882374	14	2.7	14	88	8	51	52	2	0	44	1.14
3882444--3882585	74	1.9	74	88	0	212	45	7	4	42	1.50
3883752--3883828	33	2.3	33	100	0	154	45	12	11	29	1.78
3884233--3884276	23	1.9	23	85	0	61	59	2	9	29	1.41
3887973--3888006	2	17.0	2	100	0	68	50	0	0	50	1.00
3888854--3888878	2	12.5	2	100	0	50	52	0	0	48	1.00
3898085--3898120	2	18.0	2	100	0	72	0	50	0	50	1.00
3903925--3903954	10	3.0	10	90	0	51	0	13	0	86	0.57
3905088--3905337	127	2.0	127	89	3	387	36	21	10	32	1.87
3909030--3909083	26	2.0	27	82	3	65	62	16	5	14	1.49
3911654--3911738	44	2.0	42	93	4	143	45	10	9	34	1.71
3913219--3913268	3	16.7	3	100	0	100	68	0	0	32	0.90
3913941--3914091	72	2.1	74	89	3	234	38	15	11	34	1.84
3916565--3916594	2	15.0	2	92	0	51	50	3	0	46	1.18
3928819--3929262	42	10.0	42	71	16	261	37	12	19	30	1.89
3928859--3929321	51	10.0	50	70	18	281	39	12	18	29	1.88
3928909--3929322	93	4.6	85	75	15	250	39	12	18	29	1.87
3928825--3929080	135	1.9	135	87	1	379	37	12	19	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3928966--3929174	91	2.3	91	92	1	346	40	11	17	30	1.85
3928857--3929306	226	2.0	226	89	0	693	38	12	18	29	1.88
3929059--3929322	135	2.0	133	87	3	386	39	11	18	29	1.86
3935439--3935463	2	12.5	2	100	0	50	52	0	0	48	1.00
3959621--3959687	26	2.6	26	82	0	89	34	14	19	31	1.92
3969183--3969222	18	2.2	18	100	0	80	52	7	20	20	1.70
3983034--3983079	19	2.2	20	82	17	51	41	4	0	54	1.20
3986494--3986583	47	1.9	47	88	0	135	37	16	8	36	1.80
3986962--3987022	30	2.0	30	100	0	122	36	16	16	31	1.91
3993908--3993943	2	18.0	2	100	0	72	50	0	0	50	1.00
4021698--4021741	20	2.1	21	83	4	54	63	6	2	27	1.31
4021929--4022001	36	2.0	36	100	0	146	24	13	10	50	1.74
4035182--4035212	6	5.0	6	96	4	53	16	3	48	32	1.62
4042895--4042919	2	12.5	2	100	0	50	52	0	0	48	1.00
4055101--4055131	2	15.5	2	100	0	62	48	0	0	51	1.00
4061358--4061400	22	1.9	23	85	4	61	34	4	0	60	1.17
4061334--4061402	32	2.2	31	82	7	77	27	4	2	65	1.26
4098881--4098937	29	2.0	28	89	3	87	17	31	7	43	1.76
4105304--4105339	19	1.9	19	94	5	65	25	5	16	52	1.65
4105552--4105608	23	2.5	22	83	5	78	21	8	33	36	1.84
4105669--4105718	22	2.3	22	89	0	73	48	20	8	24	1.76
4111384--4111549	78	2.1	78	93	2	280	33	17	19	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4121288--4121318	11	2.9	11	95	4	55	45	0	0	54	0.99
4137610--4137693	42	2.0	42	100	0	168	21	16	14	47	1.82
4141311--4141343	11	2.8	12	81	9	50	12	0	6	81	0.85
4152995--4153029	2	17.5	2	100	0	70	0	0	48	51	1.00
4156444--4156476	6	5.5	6	100	0	66	51	0	0	48	1.00
4157978--4158020	15	2.8	15	80	16	52	37	0	4	58	1.19
4159642--4159693	13	4.0	13	75	14	54	38	3	0	57	1.17
4164167--4164204	17	2.2	18	90	4	60	84	5	10	0	0.77
4168370--4168397	6	4.7	6	100	0	56	50	14	0	35	1.43
4169439--4169486	19	2.6	19	96	3	89	39	8	16	35	1.79
4172831--4172860	2	15.0	2	100	0	60	0	50	0	50	1.00
4176427--4176457	2	15.5	2	93	0	53	0	45	3	51	1.17
4191118--4191154	2	18.5	2	94	0	65	51	0	48	0	1.00
4199439--4199473	6	5.8	6	96	0	61	62	0	0	37	0.95
4207950--4208018	34	2.0	34	97	0	129	47	5	31	14	1.68
4211276--4211449	87	2.0	87	93	0	294	16	24	15	43	1.87
4228683--4228721	15	2.5	16	87	4	62	30	5	0	64	1.15
4229131--4229192	20	3.0	21	74	21	60	24	1	4	69	1.17
4242471--4242499	2	14.5	2	100	0	58	51	0	0	48	1.00
4244606--4244662	15	3.8	15	88	0	78	38	0	19	42	1.51
4247447--4247473	2	13.5	2	100	0	54	0	48	0	51	1.00
4256537--4256566	3	10.3	3	92	7	53	30	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4262379--4262418	16	2.5	16	91	0	62	27	27	15	30	1.96
4267211--4267474	133	2.0	133	95	0	476	25	18	14	41	1.89
4271147--4271181	1	35.0	1	100	0	70	0	0	100	0	0.00
4276546--4276585	2	20.0	2	100	0	80	50	0	0	50	1.00
4281996--4282020	3	8.3	3	100	0	50	36	32	0	32	1.58
4287137--4287281	66	2.2	66	82	3	177	35	8	13	42	1.75
4293233--4293306	28	2.6	28	78	8	78	32	0	1	66	1.00
4293422--4293510	21	4.1	22	72	20	80	53	1	0	44	1.07
4294361--4294467	55	1.9	55	83	5	135	52	9	0	37	1.40
4294485--4294520	18	1.9	19	94	5	65	47	0	0	52	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12