genome.fa.s4.2.7.7.80.10.50.1000.16.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  16  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)
6252774--6252861	24	3.6	24	80	9	90	28	1	1	69	1.03
6252553--6252881	15	22.8	14	66	24	59	30	3	1	65	1.16
6252812--6252884	15	5.1	14	77	11	60	27	0	0	72	0.85
6252873--6252915	19	2.3	19	88	8	61	51	0	0	48	1.00
6252833--6252902	34	2.1	33	86	2	95	32	0	0	67	0.91
6253345--6253378	2	17.0	2	100	0	68	50	0	0	50	1.00
6259692--6259889	98	2.0	98	94	0	342	34	18	12	34	1.88
6261069--6261177	54	2.0	54	96	0	200	25	20	5	48	1.71
6262313--6262364	15	3.4	15	86	2	77	38	11	19	30	1.87
6262584--6262651	21	3.3	21	76	19	72	30	0	0	69	0.89
6262608--6262717	14	7.8	14	71	22	63	33	1	0	63	1.11
6262613--6262654	13	2.8	16	82	17	54	33	0	0	66	0.92
6262605--6262681	29	2.6	30	77	18	81	35	1	0	63	1.03
6262660--6262707	11	4.2	11	79	10	51	33	2	2	62	1.18
6262653--6262712	24	2.4	25	80	5	77	35	3	1	60	1.23
6262514--6262725	109	2.0	107	86	9	297	33	2	0	63	1.13
6262521--6262760	110	2.2	106	80	9	274	33	2	1	62	1.18
6270705--6270736	3	10.7	3	100	0	64	34	0	0	65	0.93
6285553--6285583	2	15.5	2	93	0	53	45	0	3	51	1.17
6285910--6285934	11	2.3	11	100	0	50	0	8	0	92	0.40
6289950--6289995	24	1.9	24	86	8	67	32	4	60	2	1.28
6294045--6294077	17	1.9	17	100	0	66	42	24	21	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6303612--6303654	21	2.1	20	83	12	52	44	0	2	53	1.13
6315455--6315516	31	2.0	31	90	0	97	38	4	16	40	1.69
6316202--6316245	17	2.4	19	81	7	56	61	2	4	31	1.28
6316289--6316318	15	2.0	15	93	0	51	53	10	0	36	1.35
6316314--6316365	12	4.3	12	77	15	54	71	3	0	25	1.03
6317394--6317453	19	3.1	19	78	17	70	51	0	1	46	1.10
6317623--6317675	28	2.0	26	85	7	70	43	0	1	54	1.11
6317458--6317905	190	2.4	189	83	4	582	50	4	3	41	1.40
6320892--6320928	18	2.1	18	100	0	74	10	21	5	62	1.48
6332405--6332473	36	1.9	36	85	5	95	13	23	23	40	1.89
6338803--6338954	77	2.0	76	97	1	286	36	11	17	34	1.86
6359793--6359834	22	1.9	22	85	0	57	14	7	7	71	1.29
6362160--6362197	13	2.7	14	84	12	51	84	13	0	2	0.73
6370163--6370199	19	1.9	19	94	0	65	67	5	24	2	1.25
6374241--6374482	28	8.8	28	70	11	117	39	13	9	38	1.76
6374259--6374482	55	4.1	55	81	1	227	39	13	8	38	1.75
6374329--6374482	27	5.6	27	75	3	119	40	14	7	37	1.75
6376993--6377058	15	4.3	15	74	16	64	30	0	6	63	1.18
6377993--6378038	24	1.9	24	81	0	56	36	36	13	13	1.83
6388178--6388216	18	2.2	18	85	0	51	51	17	7	23	1.71
6419198--6419238	16	2.7	15	82	17	50	43	0	2	53	1.13
6441106--6441266	27	6.0	27	76	2	130	15	23	26	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6441106--6441266	54	3.0	53	79	6	164	15	23	26	34	1.94
6441285--6441572	53	5.4	53	76	5	233	14	27	25	32	1.95
6441282--6441514	107	2.2	106	82	0	268	13	26	27	32	1.94
6441309--6441594	27	10.7	27	68	5	116	15	26	25	31	1.96
6463495--6463537	6	7.2	6	94	0	59	39	18	32	9	1.83
6463495--6463537	12	3.6	12	90	0	68	39	18	32	9	1.83
6466369--6466394	2	13.0	2	100	0	52	50	0	0	50	1.00
6481007--6481043	12	3.1	12	88	0	56	54	5	0	40	1.24
6496700--6496759	29	2.1	28	81	9	68	25	6	10	58	1.55
6496894--6496934	21	1.9	22	85	14	59	51	0	4	43	1.23
6496890--6497060	36	4.8	35	69	13	109	52	1	2	43	1.24
6497134--6497185	19	2.8	19	82	2	61	51	1	5	40	1.37
6498570--6498613	22	2.0	23	86	13	65	20	4	22	52	1.65
6499369--6499835	186	2.5	188	86	2	618	25	10	25	37	1.89
6499369--6499893	186	2.8	186	83	4	495	25	11	24	38	1.88
6503847--6503966	46	2.6	46	83	0	150	36	20	9	33	1.85
6503899--6504091	23	8.4	23	70	2	91	34	18	10	36	1.85
6503899--6504091	69	2.8	69	87	1	262	34	18	10	36	1.85
6503950--6504061	46	2.4	46	76	5	111	36	16	10	36	1.83
6504228--6504287	26	2.4	26	80	5	70	45	18	6	30	1.75
6504486--6504557	27	2.7	27	79	10	76	27	25	12	34	1.92
6505040--6505074	18	1.9	18	88	0	52	28	2	42	25	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6505902--6505938	2	18.5	2	100	0	74	51	0	48	0	1.00
6520931--6521009	27	2.9	27	85	9	99	25	36	29	8	1.86
6521060--6521116	15	3.9	15	84	6	73	31	5	33	29	1.80
6521091--6521115	13	1.9	13	100	0	50	36	0	40	24	1.55
6526140--6526167	14	2.0	14	100	0	56	21	35	28	14	1.92
6526193--6526250	27	2.1	27	96	0	107	24	34	29	12	1.91
6526295--6526343	15	3.3	15	85	5	73	30	4	34	30	1.76
6530972--6531022	23	2.2	23	82	6	59	35	5	5	52	1.50
6539835--6539873	2	19.5	2	100	0	78	51	0	0	48	1.00
6542095--6542124	15	1.9	16	93	6	53	63	6	0	30	1.20
6542248--6542305	13	4.1	14	77	14	57	70	1	1	25	1.06
6542248--6542305	29	2.1	27	84	12	73	70	1	1	25	1.06
6555202--6555276	37	2.0	38	89	2	116	32	9	20	38	1.84
6556411--6556455	23	1.9	24	86	4	65	51	0	0	48	1.00
6556438--6556496	20	3.2	19	77	15	61	44	3	1	50	1.28
6561714--6561770	29	1.9	30	92	3	98	26	38	5	29	1.78
6561715--6561777	15	4.3	15	80	9	76	28	34	4	31	1.78
6561713--6561777	30	2.2	29	86	2	94	29	35	4	30	1.78
6562283--6562638	51	7.0	51	77	6	312	9	36	32	21	1.86
6562283--6562638	153	2.3	153	76	9	350	9	36	32	21	1.86
6564830--6564894	20	3.0	20	74	23	67	46	1	0	52	1.10
6564837--6564897	26	2.3	27	75	16	74	47	1	0	50	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6582678--6582704	3	9.0	3	100	0	54	33	0	0	66	0.92
6591887--6591931	16	2.7	18	80	16	60	31	8	0	60	1.28
6602912--6602936	6	4.2	6	100	0	50	0	68	16	16	1.22
6604792--6604823	15	2.0	17	88	11	50	34	56	6	3	1.40
6604797--6604840	21	2.0	22	83	12	56	29	68	2	0	1.02
6609309--6609405	41	2.4	40	79	5	106	53	1	1	44	1.14
6621401--6621494	50	1.9	50	89	4	147	19	13	15	51	1.77
6633739--6633903	57	2.9	57	92	1	280	27	16	13	41	1.86
6641237--6641337	32	3.4	30	77	12	91	39	2	0	56	1.21
6662721--6662746	10	2.6	10	100	0	52	92	0	0	7	0.39
6678565--6678608	14	3.1	14	90	9	63	20	0	0	79	0.73
6679160--6679227	27	2.5	26	81	15	77	55	4	2	36	1.35
6679387--6679461	29	2.6	29	80	6	80	45	10	2	41	1.53
6699587--6699667	39	2.1	39	100	0	162	29	4	25	39	1.77
6702340--6702368	14	2.1	14	100	0	58	27	6	6	58	1.50
6711863--6711906	21	2.1	21	95	0	79	29	4	15	50	1.64
6712296--6712329	17	2.0	17	100	0	68	35	11	11	41	1.78
6718535--6718560	3	8.7	3	100	0	52	69	0	30	0	0.89
6719681--6719859	16	10.9	17	65	25	66	65	0	1	32	1.07
6719705--6719855	29	5.6	25	70	21	85	66	0	1	30	1.07
6719780--6720076	34	8.6	34	66	20	109	62	0	2	35	1.10
6719889--6720075	14	13.8	14	69	21	98	63	0	1	34	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6719700--6720131	14	30.3	14	65	21	93	62	0	2	34	1.12
6719816--6720144	111	3.0	111	90	7	516	61	0	2	35	1.12
6720289--6720334	15	3.1	15	93	0	74	30	26	8	34	1.86
6727453--6727488	2	18.0	2	100	0	72	50	0	0	50	1.00
6743091--6743117	13	2.1	13	100	0	54	29	33	14	22	1.94
6747061--6747103	22	2.0	22	85	0	59	34	27	4	32	1.78
6752554--6752606	4	13.2	4	91	0	70	20	0	30	49	1.50
6759739--6759785	23	2.0	23	100	0	94	23	12	8	55	1.64
6761927--6761983	20	2.9	20	84	7	64	59	0	0	40	0.97
6762282--6762323	21	1.9	22	85	9	59	59	0	2	38	1.10

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