genome.fa.s15.2.7.7.80.10.50.1000.6.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  6  of  13  ( 1452 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)
3117887--3117913	14	1.9	14	100	0	54	14	0	29	55	1.40
3121189--3121239	24	2.3	23	80	12	61	54	7	0	37	1.29
3121235--3121289	21	2.5	23	77	14	62	49	3	7	40	1.48
3133749--3133792	17	2.6	17	82	10	54	70	6	13	9	1.33
3140964--3141066	30	3.5	28	75	9	80	54	6	4	33	1.48
3142258--3142305	24	2.0	25	84	12	64	27	0	12	60	1.32
3143290--3143319	14	2.1	14	93	0	51	26	0	0	73	0.84
3143620--3143649	2	15.0	2	100	0	60	50	0	0	50	1.00
3154021--3154066	15	3.0	16	78	21	62	30	0	0	69	0.89
3154018--3154119	30	3.4	29	74	6	80	36	2	1	58	1.24
3155027--3155057	15	2.1	15	93	0	53	51	3	0	45	1.17
3155065--3155111	20	2.6	18	78	15	53	70	2	2	25	1.10
3157903--3157939	11	3.4	11	92	7	58	81	0	18	0	0.70
3157903--3157939	17	2.2	16	90	4	56	81	0	18	0	0.70
3166709--3166734	2	13.0	2	100	0	52	50	0	50	0	1.00
3168416--3168448	14	2.2	16	89	10	52	36	0	0	63	0.95
3185424--3185448	2	12.5	2	100	0	50	52	0	0	48	1.00
3189912--3189944	2	16.5	2	100	0	66	51	0	0	48	1.00
3190450--3190484	3	11.7	3	100	0	70	0	65	0	34	0.93
3195619--3195688	30	2.3	30	85	4	88	40	0	2	57	1.14
3197531--3197574	17	2.4	18	85	7	54	50	4	0	45	1.22
3198836--3198874	20	1.9	21	84	5	53	5	33	5	56	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3203179--3203208	2	15.0	2	92	0	51	50	3	0	46	1.18
3222126--3222172	23	2.0	25	83	8	62	68	8	19	4	1.33
3225167--3225204	18	2.2	16	90	9	58	0	18	0	81	0.69
3225167--3225203	6	6.3	6	85	14	51	0	16	0	83	0.64
3237610--3237638	9	3.0	10	90	10	51	48	0	0	51	1.00
3240035--3240283	133	1.9	133	96	0	462	28	14	22	35	1.92
3244718--3244763	2	23.0	2	95	0	65	50	6	0	43	1.28
3247294--3247350	21	2.6	23	78	18	68	28	1	7	63	1.30
3253300--3253331	2	16.0	2	100	0	64	50	0	0	50	1.00
3256773--3256807	18	1.9	18	88	0	52	34	11	11	42	1.77
3256813--3256870	24	2.5	23	83	8	64	48	8	13	29	1.73
3262015--3262086	22	3.3	22	80	3	83	26	9	15	48	1.75
3262154--3262242	23	3.9	23	73	10	74	29	7	23	39	1.83
3262250--3262317	21	3.2	21	76	12	75	44	17	11	26	1.83
3262372--3262413	22	1.9	22	85	0	57	50	21	9	19	1.75
3264690--3264729	20	2.0	20	85	9	55	52	0	2	45	1.14
3278528--3278557	12	2.5	12	88	0	51	46	0	0	53	1.00
3321200--3321274	37	2.0	37	82	5	89	48	1	8	42	1.41
3342077--3342120	20	2.2	20	83	0	52	63	2	9	25	1.35
3343818--3343851	2	17.0	2	100	0	68	0	50	0	50	1.00
3347534--3347605	35	2.1	35	91	0	117	34	23	12	29	1.92
3364357--3364509	80	1.9	79	89	6	238	39	5	13	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3365382--3365408	2	13.5	2	100	0	54	0	51	0	48	1.00
3385158--3385222	21	3.1	21	79	0	76	27	9	16	46	1.78
3385187--3385230	21	2.1	21	83	8	54	27	2	18	52	1.57
3385335--3385420	21	4.0	21	80	3	82	32	0	12	54	1.38
3385328--3385415	43	2.0	43	88	0	131	31	0	11	56	1.35
3385449--3385494	22	2.1	22	83	0	56	41	4	10	43	1.59
3385680--3385747	20	3.4	20	87	4	93	41	7	11	39	1.70
3385680--3385755	40	1.9	40	84	10	102	40	7	11	39	1.71
3391241--3391267	14	1.9	14	100	0	54	0	3	7	88	0.61
3407397--3407457	32	1.9	32	89	0	95	40	31	9	18	1.83
3424642--3424757	58	2.0	58	88	1	171	40	11	21	26	1.87
3430204--3430228	2	12.5	2	100	0	50	52	0	0	48	1.00
3434044--3434099	18	3.1	18	100	0	112	55	10	5	28	1.56
3436123--3436239	58	2.0	58	84	0	153	43	11	18	25	1.85
3436603--3436663	20	3.0	20	74	9	61	67	0	1	31	1.01
3436614--3437234	20	30.1	20	66	21	116	64	0	2	32	1.12
3436838--3436903	5	11.0	6	74	20	50	68	0	0	31	0.90
3436823--3436891	23	3.1	23	71	25	67	65	0	0	34	0.93
3436838--3436903	11	5.5	12	69	24	50	68	0	0	31	0.90
3436756--3437105	63	5.7	62	71	22	197	63	0	2	34	1.10
3436753--3437304	112	5.0	114	91	7	931	63	0	2	33	1.11
3437170--3437236	6	11.0	6	76	17	50	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3436753--3437304	220	2.5	222	93	5	972	63	0	2	33	1.11
3436783--3437097	23	12.9	26	67	24	63	62	0	2	34	1.12
3436823--3437300	27	17.2	27	67	20	170	62	0	2	34	1.11
3440993--3441024	3	10.7	3	100	0	64	68	0	0	31	0.90
3444357--3444410	1	54.0	1	88	0	81	0	5	0	94	0.31
3444859--3444888	2	15.0	2	100	0	60	50	0	0	50	1.00
3454593--3454629	2	18.5	2	94	0	65	48	0	2	48	1.15
3454629--3454659	2	15.5	2	100	0	62	51	0	48	0	1.00
3457790--3457825	3	12.0	3	93	0	63	0	30	0	69	0.89
3458373--3458417	21	2.1	22	84	12	58	42	20	2	35	1.64
3458411--3458461	19	2.5	21	78	6	61	56	23	1	17	1.51
3467203--3467242	21	1.9	21	89	0	62	40	5	0	55	1.22
3467876--3467942	21	2.9	23	82	10	75	44	10	0	44	1.38
3467963--3468009	15	3.0	15	79	17	51	53	6	0	40	1.27
3467203--3468334	348	3.3	341	83	6	1370	41	7	6	44	1.57
3469452--3469503	17	3.4	17	65	29	53	36	15	26	21	1.93
3474845--3474893	14	3.5	14	78	10	55	32	4	2	61	1.26
3476489--3476521	17	1.9	17	93	0	57	72	0	6	21	1.05
3478816--3478862	22	2.2	20	85	14	60	42	4	4	48	1.42
3496492--3496529	20	1.9	20	88	0	58	47	0	7	44	1.32
3503274--3503316	22	2.0	22	81	9	52	34	2	2	60	1.22
3503675--3503711	14	2.7	15	88	12	53	43	2	0	54	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3506775--3506834	32	1.9	31	86	3	84	58	0	0	41	0.98
3516050--3516082	17	1.9	17	88	11	50	0	3	30	66	1.06
3519954--3520007	14	3.7	15	79	13	60	44	0	1	53	1.11
3522377--3522443	27	2.5	27	95	0	125	38	10	14	35	1.81
3524229--3524312	24	3.3	24	64	16	62	46	14	30	8	1.74
3524201--3524401	51	3.9	51	87	1	260	45	14	30	8	1.75
3524202--3524285	27	3.2	26	66	16	66	50	16	27	5	1.68
3524229--3524307	27	3.0	26	63	29	60	45	13	31	8	1.75
3524201--3524401	102	2.0	102	87	2	287	45	14	30	8	1.75
3532467--3532515	20	2.6	19	84	12	57	44	0	4	51	1.20
3532472--3532517	20	2.4	19	82	13	58	39	0	4	56	1.19
3534147--3534185	20	1.9	21	84	5	53	15	5	7	71	1.26
3543604--3543707	46	2.2	47	84	3	138	38	8	22	30	1.84
3544169--3544417	125	2.0	124	88	0	372	39	16	17	26	1.91
3550306--3550330	13	1.9	13	100	0	50	76	0	0	24	0.80
3570509--3570652	74	1.9	75	90	1	227	19	12	21	46	1.82
3573243--3573288	2	23.0	2	81	0	56	52	43	2	2	1.25
3575370--3575415	24	2.0	24	86	4	67	30	13	13	43	1.81
3576867--3576900	2	17.0	2	93	0	59	50	2	0	47	1.16
3576861--3576900	10	4.0	10	93	0	53	50	7	0	42	1.30
3577694--3577735	12	3.5	12	86	0	57	50	9	0	40	1.35
3577694--3577729	16	2.2	16	100	0	72	50	11	0	38	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3577695--3577733	20	2.0	20	94	0	69	51	10	0	38	1.36
3579960--3579992	17	1.9	17	88	11	50	0	21	0	78	0.75
3594094--3594198	45	2.3	45	85	3	131	29	19	20	31	1.96
3594264--3594352	33	3.0	29	84	12	117	41	10	8	39	1.70
3594268--3594361	29	3.2	29	81	14	95	42	11	8	37	1.72
3595118--3595178	27	2.2	28	88	5	88	73	0	22	3	0.97
3595586--3595674	29	3.0	29	80	1	106	19	15	11	53	1.71
3596212--3597642	249	5.9	247	80	8	1452	39	12	19	27	1.89
3596295--3597596	245	5.4	237	81	7	870	39	12	19	27	1.88
3599074--3599126	16	3.0	17	78	15	63	67	1	1	28	1.11

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13