genome.fa.s5.2.7.7.80.10.50.1000.6.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_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  6  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)
2923852--2923887	18	1.9	19	88	5	56	80	2	13	2	0.93
2943998--2944038	13	3.2	13	80	19	50	29	9	0	60	1.28
2991231--2991261	16	1.9	16	93	0	53	51	0	0	48	1.00
2991514--2991548	13	2.8	12	87	8	52	31	0	2	65	1.07
3002195--3002229	17	2.1	17	89	5	54	51	0	0	48	1.00
3002449--3002491	21	2.0	21	82	8	52	65	0	0	34	0.93
3013756--3013819	33	1.9	33	96	0	119	12	37	14	35	1.83
3014536--3014577	15	2.8	15	92	0	66	33	26	11	28	1.92
3016003--3016043	18	2.3	17	87	8	55	36	2	39	21	1.67
3016806--3016904	48	2.1	48	100	0	198	20	6	32	41	1.76
3018182--3018210	15	1.9	15	100	0	58	37	20	0	41	1.53
3020982--3021020	19	2.1	18	90	4	60	46	0	0	53	1.00
3022766--3022814	2	25.5	2	87	8	75	0	46	0	53	1.00
3030292--3030319	2	14.0	2	100	0	56	0	50	0	50	1.00
3036177--3036259	19	4.4	19	76	18	68	69	0	1	28	0.96
3036177--3036251	33	2.3	32	84	13	91	69	0	1	29	0.97
3036190--3036443	14	17.9	15	66	21	68	64	0	2	31	1.13
3036415--3036480	12	5.5	12	72	24	59	66	0	1	31	1.01
3036404--3036817	32	14.3	28	65	20	94	63	0	3	33	1.14
3036329--3036998	110	6.0	111	88	8	956	62	0	3	33	1.16
3036546--3036710	31	5.4	30	69	22	87	65	0	3	30	1.10
3036754--3036932	18	9.1	20	65	18	58	63	0	2	33	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3036311--3036998	339	2.0	337	96	3	1278	62	0	3	33	1.17
3037148--3037180	15	2.2	15	94	0	57	33	24	9	33	1.87
3041293--3041343	10	4.6	11	75	18	52	35	0	1	62	1.06
3041325--3041358	13	2.5	14	90	4	52	32	2	0	64	1.08
3041967--3041996	15	2.0	15	93	0	51	50	0	0	50	1.00
3049719--3049764	22	2.1	22	84	8	58	54	4	0	41	1.20
3049733--3049795	22	2.9	23	81	9	69	53	3	0	42	1.16
3055431--3055475	22	2.1	21	87	4	63	71	6	2	20	1.20
3055435--3055483	22	2.2	21	79	10	53	69	4	2	24	1.17
3070852--3070885	17	2.1	17	88	5	52	44	0	0	55	0.99
3073342--3073417	31	2.5	31	89	2	109	38	3	2	55	1.33
3081340--3081365	2	13.0	2	100	0	52	50	0	0	50	1.00
3087066--3087093	2	14.0	2	100	0	56	50	0	0	50	1.00
3106903--3106947	16	2.9	16	81	15	51	51	0	0	48	1.00
3114544--3114683	49	2.8	49	93	4	235	32	7	30	30	1.84
3114761--3114815	15	3.9	15	74	13	62	21	0	45	32	1.52
3114770--3114826	27	2.1	27	100	0	114	17	0	49	33	1.47
3114761--3114823	15	4.4	15	74	11	60	22	0	44	33	1.53
3114727--3115238	122	4.5	107	71	16	392	25	9	33	30	1.88
3114854--3114889	18	2.0	18	100	0	72	22	0	44	33	1.53
3114986--3115040	15	3.9	15	72	13	62	21	0	45	32	1.52
3114995--3115051	27	2.1	27	96	0	105	19	0	47	33	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3114986--3115048	15	4.4	15	72	11	60	22	0	44	33	1.53
3115096--3115161	15	4.6	15	81	11	93	22	0	42	34	1.54
3115096--3115173	27	2.8	27	88	5	102	23	0	42	34	1.54
3114986--3115236	122	2.1	122	94	0	439	25	7	35	31	1.84
3115190--3115305	37	3.0	40	79	18	163	29	13	30	26	1.94
3115356--3115391	15	2.4	15	95	0	63	19	0	47	33	1.50
3115291--3115616	80	4.1	80	98	0	625	25	12	33	28	1.92
3115150--3115449	141	2.1	137	82	11	372	27	13	31	27	1.94
3115436--3115471	15	2.4	15	95	0	63	19	0	47	33	1.50
3115516--3115551	15	2.4	15	95	0	63	19	0	47	33	1.50
3115663--3115690	13	2.2	13	100	0	56	42	35	0	21	1.53
3116333--3116397	7	9.3	7	96	0	121	26	13	30	29	1.94
3118655--3118699	21	2.1	21	95	0	81	35	15	4	44	1.67
3134674--3134718	14	3.3	13	84	6	54	75	2	2	20	1.01
3137003--3137033	14	2.3	13	94	5	53	51	16	0	32	1.44
3142456--3142576	64	1.9	64	89	0	188	30	9	23	36	1.87
3142668--3142726	31	1.9	31	92	0	100	57	5	6	30	1.46
3145701--3145783	41	2.0	41	100	0	166	31	18	12	38	1.87
3190455--3190497	22	2.0	22	81	9	52	53	13	2	30	1.53
3190687--3190746	31	1.9	31	82	0	75	66	6	0	26	1.16
3191913--3192684	370	2.0	373	81	7	884	36	14	4	44	1.64
3193256--3193304	21	2.3	21	86	6	64	30	18	6	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3196718--3196747	15	2.0	15	93	0	51	56	0	0	43	0.99
3217790--3217829	22	1.9	22	90	10	66	62	0	0	37	0.95
3218257--3218284	12	2.3	12	100	0	56	67	7	0	25	1.15
3218405--3218456	9	5.4	9	73	13	50	59	1	1	36	1.19
3230514--3230565	18	2.9	17	73	18	52	53	5	0	40	1.25
3248848--3248911	31	2.1	31	100	0	128	28	9	14	48	1.74
3252582--3252612	9	3.4	9	90	0	53	32	0	25	41	1.56
3258708--3258809	44	2.4	42	79	14	118	67	0	1	30	1.01
3258742--3258814	33	2.2	33	87	4	103	65	0	2	31	1.06
3258755--3258822	15	4.3	15	76	10	64	69	0	1	29	0.98
3258755--3258878	49	2.5	50	80	11	132	64	0	2	33	1.07
3263221--3263260	15	2.7	15	88	7	55	47	0	7	45	1.31
3263989--3264072	42	2.0	42	97	0	159	39	13	19	28	1.89
3267476--3267510	18	1.9	18	88	11	54	45	0	0	54	0.99
3274372--3274432	23	2.7	22	80	9	61	65	0	3	31	1.09
3274461--3274655	60	3.3	56	73	14	146	38	1	1	58	1.14
3274577--3274636	27	2.3	27	91	2	95	35	1	0	63	1.05
3274603--3274645	18	2.4	18	81	11	52	39	0	0	60	0.97
3274602--3274643	19	2.3	18	80	8	50	40	0	0	59	0.97
3287667--3287712	22	2.1	22	88	8	67	32	4	2	60	1.28
3290392--3290427	7	5.1	7	93	0	54	41	19	11	27	1.85
3299777--3299816	6	6.7	6	85	0	53	37	17	0	45	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3321295--3321333	2	19.5	2	94	0	69	48	0	2	48	1.15
3323258--3323345	42	2.1	42	82	12	110	46	3	0	50	1.18
3323256--3323530	128	2.2	128	85	7	381	40	2	2	55	1.24
3323258--3323478	22	10.5	21	68	22	92	42	2	0	54	1.21
3323398--3323450	25	2.0	27	86	13	76	37	1	1	58	1.20
3323325--3323542	64	3.5	59	74	18	178	38	1	2	56	1.22
3323261--3323616	21	17.0	20	66	21	85	41	2	2	54	1.25
3323499--3323722	31	7.9	27	71	20	131	42	1	2	53	1.23
3323380--3323691	143	2.2	144	85	10	406	40	1	2	55	1.23
3323592--3323761	58	3.1	56	76	15	190	41	1	2	55	1.20
3323673--3323724	16	3.3	16	79	15	72	50	1	0	48	1.12
3323380--3323705	144	2.3	144	82	11	402	40	1	2	55	1.24
3323531--3323740	55	3.7	55	75	15	185	43	1	2	52	1.23
3328782--3328834	27	2.0	27	96	0	97	33	26	5	33	1.80
3334677--3335038	27	13.6	27	74	7	195	42	10	8	38	1.70
3334860--3335521	327	2.0	331	82	2	798	38	12	9	38	1.76
3337317--3337344	13	2.2	13	100	0	56	14	17	14	53	1.73
3341438--3341463	3	8.7	3	100	0	52	0	30	0	69	0.89
3357151--3357194	22	2.0	22	86	8	63	50	0	0	50	1.00
3360347--3360537	86	2.2	86	81	0	220	43	9	13	33	1.76
3362011--3362102	15	6.1	15	70	17	66	64	5	1	29	1.23
3364767--3364815	22	2.3	21	78	3	53	42	6	2	48	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3367542--3367585	17	2.7	15	83	16	52	65	4	2	27	1.23
3367542--3367585	16	2.6	16	82	7	52	65	4	2	27	1.23
3368857--3368955	25	4.0	25	78	0	81	5	41	29	24	1.76
3373632--3373705	38	1.9	38	88	0	112	44	8	22	24	1.80
3381042--3381083	2	21.0	2	100	0	84	50	0	0	50	1.00
3388517--3388597	42	1.9	42	92	5	137	32	18	3	45	1.67
3389383--3389430	17	2.8	17	75	12	53	35	0	0	64	0.94
3389389--3389437	26	1.9	25	83	4	62	36	0	0	63	0.95
3389577--3389889	160	2.0	159	93	0	536	26	12	6	54	1.61
3392452--3392517	22	3.0	22	82	6	71	27	4	1	66	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