genome.fa.s17.2.7.7.80.10.50.1000.9.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_018397270.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_55.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4719911

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

This is table  9  of  10  ( 1158 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)
3414031--3414084	25	2.2	25	100	0	108	9	14	29	46	1.76
3414860--3414884	12	2.1	12	100	0	50	32	24	16	28	1.96
3430005--3430037	2	16.5	2	100	0	66	51	48	0	0	1.00
3431121--3431174	24	2.2	24	96	3	99	22	5	14	57	1.58
3436167--3436632	78	6.0	78	88	1	652	18	29	15	36	1.92
3448086--3448122	2	18.5	2	100	0	74	48	0	0	51	1.00
3449649--3449698	21	2.4	21	80	16	59	36	4	0	60	1.16
3456950--3457003	28	1.9	28	84	0	72	24	1	14	59	1.46
3457557--3457582	7	3.7	7	100	0	52	46	0	0	53	1.00
3465291--3465650	176	2.0	177	86	1	499	43	8	14	33	1.75
3466355--3466391	13	2.8	13	95	4	65	27	35	0	37	1.57
3477073--3477134	21	3.0	21	81	9	72	33	24	8	33	1.85
3481802--3482814	350	2.9	338	77	8	977	39	7	7	43	1.62
3489121--3489171	14	3.8	13	77	15	50	45	31	0	23	1.53
3489125--3489163	20	2.0	20	94	0	69	41	33	0	25	1.56
3491747--3491791	12	3.8	12	90	0	63	4	42	17	35	1.70
3494045--3494075	10	2.9	11	90	9	55	38	0	0	61	0.96
3497982--3498076	28	3.2	31	61	11	81	40	5	9	45	1.59
3497973--3498089	58	2.0	58	98	0	225	38	6	9	45	1.63
3505219--3505297	37	2.2	37	93	2	133	30	12	11	45	1.77
3517510--3517553	18	2.2	21	84	11	58	4	27	2	65	1.23
3530183--3530221	17	2.3	18	82	13	55	43	5	2	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3561307--3563074	859	2.0	861	79	6	1892	38	12	10	38	1.77
3576061--3576336	113	2.4	114	85	2	358	32	6	19	42	1.76
3579052--3579088	19	1.9	19	88	0	56	32	10	0	56	1.34
3590491--3590521	4	8.0	4	92	7	55	74	0	0	25	0.82
3594398--3594540	72	2.0	73	87	1	207	40	13	12	32	1.83
3613972--3613996	8	3.1	8	100	0	50	52	0	0	48	1.00
3614441--3614544	33	3.2	33	90	0	172	23	10	14	51	1.72
3614441--3614531	18	5.4	18	63	15	59	23	9	14	52	1.71
3618807--3618835	12	2.5	12	94	5	51	31	0	0	68	0.89
3623134--3623204	35	2.0	35	100	0	142	43	11	11	33	1.76
3647140--3647262	28	4.4	28	80	2	113	23	18	6	51	1.69
3660435--3660469	16	2.2	16	89	0	52	80	0	17	2	0.84
3662140--3662185	23	2.0	23	86	0	65	43	13	17	26	1.85
3662223--3662283	31	2.1	27	82	14	70	31	8	3	57	1.44
3664974--3665004	16	1.9	16	93	0	53	58	0	6	35	1.24
3670015--3670072	22	2.8	20	80	17	66	70	0	0	29	0.87
3670015--3670087	24	3.0	23	82	9	67	69	0	0	30	0.88
3671776--3671849	38	1.9	38	97	0	139	51	12	10	25	1.71
3676668--3676738	28	2.5	28	88	0	97	46	14	14	25	1.81
3679411--3679580	85	2.0	85	96	0	313	37	18	14	30	1.90
3688399--3688571	86	2.0	87	85	1	231	34	11	15	38	1.83
3699365--3699519	29	5.5	29	73	11	117	36	10	12	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3699370--3699472	28	3.6	28	75	10	84	33	10	11	43	1.76
3699573--3699707	69	2.0	68	86	1	189	28	19	17	34	1.94
3703873--3703918	2	23.0	2	100	0	92	50	0	0	50	1.00
3710106--3710182	36	2.1	37	83	7	104	35	25	12	25	1.92
3711893--3711931	16	2.4	16	91	0	60	41	7	5	46	1.55
3726457--3726481	3	8.3	3	100	0	50	32	32	36	0	1.58
3753856--3753914	31	1.9	31	92	0	100	61	6	3	28	1.38
3754196--3754229	14	2.4	14	95	0	59	85	0	14	0	0.60
3754183--3754238	12	4.7	12	77	20	55	76	1	21	0	0.87
3754196--3754247	12	3.9	13	79	20	63	78	1	19	0	0.84
3757478--3757502	13	1.9	13	100	0	50	24	8	20	48	1.76
3768587--3768627	12	3.3	12	86	3	55	19	0	0	80	0.71
3768587--3768628	20	2.2	19	86	4	57	19	0	0	80	0.70
3792302--3792343	21	2.0	21	90	9	68	23	19	23	33	1.97
3811662--3811724	32	2.0	32	96	0	117	30	33	17	19	1.95
3814335--3814370	17	2.1	17	94	0	63	19	16	8	55	1.66
3820497--3820526	11	2.7	11	94	0	51	53	6	20	20	1.67
3821553--3821582	2	15.0	2	100	0	60	50	0	0	50	1.00
3826660--3826740	29	2.8	30	83	5	85	18	28	8	44	1.79
3829359--3829388	2	15.0	2	100	0	60	50	0	0	50	1.00
3844930--3844965	17	2.1	17	94	0	63	27	13	0	58	1.36
3846986--3847029	21	2.1	21	95	0	79	36	15	13	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3863765--3863791	2	13.5	2	100	0	54	48	0	0	51	1.00
3864465--3864504	20	2.0	21	90	5	64	20	5	17	57	1.58
3864996--3865030	18	2.0	17	88	5	52	45	0	5	48	1.26
3872176--3872205	15	1.9	16	93	6	53	63	6	23	6	1.43
3879831--3879876	23	2.0	23	100	0	92	43	17	8	30	1.79
3881099--3881135	15	2.6	14	87	8	56	62	0	0	37	0.96
3890201--3890226	12	2.2	12	100	0	52	34	7	0	57	1.27
3892159--3892222	22	3.1	19	75	18	56	56	1	3	39	1.25
3897179--3897234	28	1.9	30	89	7	89	33	3	7	55	1.45
3899429--3899487	17	3.3	18	82	15	70	71	0	3	25	1.02
3899430--3899485	14	4.1	14	80	19	57	69	0	3	26	1.04
3899430--3899487	30	2.0	29	83	10	73	70	0	3	25	1.03
3901832--3901870	3	12.7	3	89	5	60	66	2	0	30	1.05
3901832--3901869	19	2.0	19	94	0	67	68	2	0	28	1.03
3907189--3907235	23	2.0	23	83	0	58	31	6	0	61	1.21
3917152--3917223	36	2.0	36	100	0	144	25	13	25	36	1.93
3923495--3923549	24	2.2	26	81	12	71	58	5	25	10	1.53
3930650--3930783	51	2.6	51	86	0	178	23	26	18	31	1.97
3930719--3930993	144	1.9	144	86	1	390	23	25	15	36	1.94
3958077--3958141	6	11.3	6	80	9	64	33	0	44	21	1.53
3958079--3958140	9	7.2	9	80	10	76	33	0	43	22	1.54
3958088--3958141	15	3.6	15	97	0	99	33	0	44	22	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3992227--3992272	24	2.0	23	82	4	56	36	8	10	43	1.71
3995445--3995494	24	2.1	23	85	3	64	50	2	0	48	1.12
3997859--3998048	48	3.9	47	76	11	195	29	18	22	30	1.97
4008651--4008687	4	9.2	4	100	0	74	51	0	0	48	1.00
4023910--4023976	29	2.3	28	82	12	82	59	4	1	34	1.26
4034499--4034555	29	2.0	29	92	0	96	26	29	14	29	1.95
4044503--4044577	28	2.6	29	78	6	80	48	1	10	40	1.46
4045601--4045678	41	1.9	41	94	0	138	33	6	15	44	1.72
4045970--4045995	13	2.0	13	100	0	52	30	0	7	61	1.24
4046807--4046834	13	2.2	13	100	0	56	32	14	32	21	1.93
4050865--4050911	21	2.2	22	96	3	87	40	6	14	38	1.72
4052073--4052127	23	2.4	23	96	0	101	30	27	1	40	1.67
4053135--4053167	17	1.9	17	100	0	66	18	6	15	60	1.54
4073783--4073868	35	2.5	35	88	0	127	18	24	17	39	1.92
4073853--4073956	35	3.0	34	85	4	136	27	21	22	28	1.99
4081735--4081772	11	3.5	11	82	10	51	0	31	0	68	0.90
4085177--4085259	42	2.0	42	92	0	139	36	6	19	38	1.76
4097636--4098258	208	3.0	208	91	1	1034	33	18	14	33	1.92
4112600--4112624	2	12.5	2	100	0	50	52	0	0	48	1.00
4118125--4118178	3	18.3	3	92	3	92	29	0	1	68	1.00
4120457--4120485	2	14.5	2	100	0	58	51	0	0	48	1.00
4121434--4121558	66	1.9	66	100	0	250	32	9	17	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4125729--4125786	24	2.3	25	75	21	59	50	5	13	31	1.64
4129624--4129658	6	5.7	6	86	6	52	31	34	0	34	1.58
4129624--4129658	13	2.8	12	83	8	52	31	34	0	34	1.58
4133822--4133853	16	2.0	16	100	0	64	37	12	25	25	1.91
4162253--4162285	6	5.5	6	96	0	57	12	33	21	33	1.90
4183194--4183220	3	9.0	3	100	0	54	33	33	0	33	1.58
4189102--4189168	15	4.5	15	73	14	50	49	0	1	49	1.10
4190205--4190257	26	2.0	26	81	0	61	45	11	15	28	1.80
4190273--4190311	18	2.2	18	85	0	51	46	17	17	17	1.85
4190292--4190370	28	2.8	28	80	0	104	46	21	10	21	1.80

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