genome.fa.s4.2.7.7.80.10.50.1000.9.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   

This is table  9  of  26  ( 3073 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)
3174084--3174178	34	2.8	34	77	0	91	40	21	14	24	1.90
3184590--3184615	6	4.3	6	100	0	52	30	50	19	0	1.48
3186590--3186625	2	18.0	2	94	0	54	44	0	5	50	1.25
3187369--3187443	29	2.6	29	85	6	91	49	5	30	14	1.66
3187395--3187460	29	2.3	29	86	0	87	43	4	33	18	1.70
3192093--3192120	2	14.0	2	100	0	56	50	0	0	50	1.00
3193459--3193501	19	2.3	19	92	8	70	67	0	2	30	1.03
3211530--3211579	21	2.4	21	100	0	100	20	18	8	54	1.68
3216544--3216587	2	22.0	2	95	0	79	52	0	47	0	1.00
3227251--3227294	19	2.4	18	82	10	54	40	18	6	34	1.77
3229233--3229271	20	2.0	20	94	0	69	15	10	35	38	1.81
3229498--3229548	27	2.0	26	82	14	63	47	3	0	49	1.20
3232924--3232961	19	2.0	19	94	0	67	47	18	10	23	1.79
3234671--3234717	21	2.2	21	100	0	94	36	19	12	31	1.89
3234671--3234730	21	2.9	21	92	0	84	38	16	15	30	1.89
3236121--3236153	10	3.3	10	88	12	50	12	6	0	81	0.85
3239454--3239510	21	2.8	20	77	15	64	29	0	3	66	1.08
3239454--3239511	19	2.9	20	75	15	57	29	0	3	67	1.07
3241340--3241385	24	1.9	24	86	8	67	54	2	4	39	1.32
3241324--3241403	39	2.0	40	80	7	92	53	2	2	41	1.27
3242243--3242385	52	2.8	49	78	13	137	25	9	12	52	1.68
3257014--3257047	2	17.0	2	87	0	50	47	2	0	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3257563--3257604	18	2.3	19	79	4	50	35	23	0	40	1.55
3267239--3267305	2	33.5	2	80	0	53	38	2	8	49	1.50
3268179--3268299	58	2.1	58	98	0	233	25	11	27	35	1.91
3279402--3279476	30	2.4	30	82	6	96	34	18	9	37	1.83
3285115--3285182	34	2.0	34	97	0	127	19	11	36	32	1.88
3298881--3298905	12	2.1	12	100	0	50	36	32	8	24	1.84
3299995--3300028	2	17.0	2	100	0	68	50	0	0	50	1.00
3300022--3300096	39	1.9	39	86	5	107	37	2	14	45	1.59
3302339--3302407	35	2.0	35	91	0	111	36	11	21	30	1.89
3302340--3302418	35	2.3	35	84	0	104	37	12	20	29	1.89
3306866--3306923	21	2.8	21	83	0	71	68	0	0	31	0.89
3306875--3306935	15	3.8	15	78	16	68	72	0	0	27	0.85
3306866--3306935	34	2.0	35	86	13	101	70	0	0	30	0.88
3306866--3307067	33	6.2	33	70	23	126	67	0	2	29	1.07
3306877--3307007	55	2.4	54	83	8	149	68	0	2	28	1.07
3306881--3307166	15	19.4	14	66	21	63	65	0	3	30	1.13
3306977--3307084	33	2.9	37	76	16	116	65	0	3	29	1.16
3306881--3307182	9	35.2	9	63	26	54	65	0	2	30	1.12
3307101--3307180	24	3.4	23	80	11	92	68	0	0	31	0.90
3307102--3307182	33	2.5	33	80	11	89	69	0	0	30	0.89
3307021--3307251	115	2.0	114	95	0	417	62	1	3	32	1.21
3307401--3307444	15	2.9	15	82	0	52	31	22	6	38	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3307775--3307822	20	2.4	20	79	6	53	68	2	0	29	1.01
3307921--3307980	14	4.4	14	68	19	54	63	10	0	26	1.26
3307830--3308011	40	4.6	41	81	4	196	58	15	0	25	1.41
3311525--3311566	22	2.0	21	85	4	57	54	7	19	19	1.66
3314926--3314983	28	2.1	28	100	0	116	41	24	6	27	1.80
3318658--3318691	10	3.5	10	88	4	52	67	32	0	0	0.91
3319773--3319810	2	19.0	2	100	0	76	50	0	50	0	1.00
3337194--3337229	14	2.6	14	90	0	63	52	19	16	11	1.73
3340757--3340810	24	2.2	24	83	6	63	55	11	5	27	1.57
3341195--3341232	18	2.1	19	90	5	60	15	21	23	39	1.92
3341243--3341312	28	2.5	28	79	9	72	24	21	15	38	1.92
3341305--3341351	18	2.6	18	76	6	51	27	19	14	38	1.91
3341427--3341485	25	2.4	25	100	0	118	42	8	6	42	1.61
3341609--3341731	59	2.1	59	87	0	174	39	13	12	34	1.82
3346961--3347150	102	1.9	102	91	2	310	39	11	11	37	1.78
3354076--3354208	45	2.9	44	78	10	142	36	20	9	33	1.85
3354076--3354211	46	3.0	45	81	5	157	35	19	9	35	1.85
3363956--3364038	37	2.3	35	89	4	121	50	22	8	18	1.73
3366069--3366325	102	2.5	102	82	6	290	24	19	14	42	1.88
3367876--3367947	34	2.1	35	89	2	110	47	15	15	22	1.82
3371571--3371647	34	2.3	33	86	8	102	36	23	14	25	1.93
3372173--3372252	21	3.9	21	81	1	99	25	26	12	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3372506--3372545	21	1.9	21	89	0	62	45	12	10	32	1.75
3375645--3375688	20	2.2	20	95	0	79	68	11	15	4	1.36
3380211--3380268	29	2.0	29	100	0	116	24	17	17	41	1.90
3386150--3386182	17	1.9	17	88	11	50	42	15	3	39	1.62
3386343--3386454	28	3.9	29	78	9	113	37	9	9	42	1.71
3386344--3386548	29	7.1	29	76	8	161	36	11	9	42	1.74
3386358--3386551	57	3.4	56	75	7	174	36	11	9	42	1.74
3388310--3388352	18	2.4	18	84	7	52	60	0	23	16	1.35
3392044--3392197	51	2.9	52	78	9	161	36	7	14	42	1.73
3392044--3392243	53	3.8	52	75	7	156	37	8	12	42	1.72
3392044--3392248	54	3.9	53	79	6	159	38	7	12	41	1.71
3398374--3398410	18	2.0	19	89	5	58	35	2	21	40	1.68
3401293--3401412	61	2.0	61	96	3	224	26	9	18	45	1.79
3406701--3406730	15	2.0	15	100	0	60	33	20	0	46	1.51
3416501--3416733	35	6.7	34	80	6	200	37	4	13	44	1.65
3416494--3416714	107	2.1	103	83	5	264	37	4	12	45	1.63
3416524--3416737	71	3.0	69	83	4	266	37	5	12	44	1.65
3418007--3418107	48	2.1	48	94	0	175	42	16	14	25	1.87
3419467--3419519	27	2.0	27	96	0	97	24	24	15	35	1.94
3426727--3426781	24	2.3	24	79	17	62	9	12	1	76	1.10
3426730--3426780	23	2.2	23	82	6	59	7	13	1	76	1.09
3426875--3426988	49	2.3	49	100	0	228	41	0	18	40	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3427275--3427315	21	2.0	21	85	9	57	41	2	0	56	1.13
3428633--3428774	73	1.9	72	84	8	189	30	16	31	21	1.95
3432870--3432940	35	2.0	35	94	0	124	42	15	4	38	1.67
3437491--3437532	19	2.2	19	86	0	57	61	0	0	38	0.96
3445352--3446380	512	2.0	513	94	0	1790	36	11	16	35	1.85
3446430--3446562	30	4.7	29	78	8	103	42	9	11	37	1.72
3446419--3446657	57	4.2	56	79	4	221	39	9	11	39	1.75
3446418--3446657	28	8.5	28	77	8	200	39	9	12	39	1.75
3449353--3449421	27	2.5	27	90	6	104	40	13	11	34	1.80
3449353--3449424	28	2.6	27	86	8	101	41	12	11	34	1.78
3449262--3449500	126	1.9	128	81	4	297	41	12	14	31	1.83
3450095--3450167	27	2.7	27	100	0	146	28	21	20	28	1.98
3453830--3453889	22	2.7	22	84	0	75	26	13	23	36	1.92
3461939--3462050	59	1.9	58	85	8	156	32	33	13	21	1.92
3463406--3463462	26	2.2	26	81	3	62	21	19	17	42	1.90
3464189--3464218	15	2.0	15	93	0	51	76	0	23	0	0.78
3475880--3476041	77	2.1	77	89	4	247	24	14	11	48	1.77
3483495--3483613	36	3.3	36	76	4	98	36	14	12	36	1.84
3486156--3486238	35	2.4	35	85	0	103	31	12	26	30	1.92
3487570--3487705	73	1.9	73	85	0	191	27	18	13	40	1.88
3487162--3488896	600	2.9	601	86	1	2413	32	17	15	34	1.92
3488746--3488896	73	2.1	73	81	2	169	25	20	15	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3490232--3490349	35	3.4	35	83	2	157	31	11	25	32	1.90
3496190--3496220	10	3.1	10	95	0	53	45	48	6	0	1.28
3512305--3512371	33	2.0	34	88	2	100	52	1	7	38	1.39
3513120--3513199	41	2.0	41	92	0	133	20	23	17	38	1.93
3521804--3521854	2	25.5	2	100	0	102	49	0	0	50	1.00
3528753--3528801	17	2.6	18	81	12	55	0	26	2	71	0.97
3544265--3544304	21	1.9	21	85	10	55	12	20	12	55	1.69
3548651--3548683	16	2.1	16	88	11	50	30	6	3	60	1.36
3548864--3548889	7	3.7	7	100	0	52	0	38	0	61	0.96
3553012--3553271	43	5.9	43	87	3	331	27	13	11	46	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26