genome.fa.s16.2.7.7.80.10.50.1000.12.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_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  12  of  14  ( 1598 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)
4562222--4562261	4	10.8	4	84	10	50	50	0	47	2	1.14
4562222--4562261	18	2.2	18	86	13	55	50	0	47	2	1.14
4568913--4568948	3	13.0	3	83	16	51	27	0	0	72	0.85
4568913--4568948	11	3.3	11	100	0	72	27	0	0	72	0.85
4573004--4573033	16	1.9	16	93	6	53	70	10	13	6	1.34
4578640--4578681	19	2.3	19	91	4	68	47	4	2	45	1.36
4597299--4597445	29	5.1	29	80	10	158	40	8	12	38	1.72
4597302--4597447	28	5.1	27	77	12	132	40	8	11	39	1.71
4598598--4598668	35	2.0	36	86	2	99	35	5	9	49	1.60
4598687--4598725	17	2.2	18	86	13	55	41	5	2	51	1.38
4598686--4598726	18	2.3	19	80	20	52	43	4	2	48	1.37
4606744--4606821	28	2.8	29	90	3	115	37	8	15	38	1.79
4606748--4606836	29	3.1	28	85	6	106	41	6	14	37	1.72
4612894--4613306	180	2.3	180	80	5	471	36	12	13	36	1.84
4632797--4633354	69	8.1	69	80	4	572	22	28	32	16	1.96
4633085--4633122	18	2.1	18	90	9	60	23	23	31	21	1.98
4632797--4633354	23	24.4	23	80	2	514	22	28	32	16	1.96
4641561--4641592	2	16.0	2	93	0	55	0	0	46	53	1.00
4643596--4643629	6	5.7	6	92	0	59	67	0	14	17	1.23
4649549--4649608	22	2.7	23	78	5	68	28	25	11	35	1.91
4660368--4660418	2	26.0	2	82	4	50	45	1	1	50	1.24
4664282--4664312	13	2.4	13	94	0	53	32	3	16	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4663903--4664339	229	1.9	229	89	0	685	30	6	16	46	1.73
4669627--4669668	22	2.0	21	86	13	59	50	4	0	45	1.23
4670209--4670287	40	2.0	40	92	0	131	27	22	10	39	1.86
4673969--4673993	11	2.3	11	100	0	50	84	0	0	16	0.63
4674516--4674896	189	2.0	187	85	3	505	46	6	9	37	1.62
4674704--4675380	251	2.7	251	80	5	578	47	5	10	36	1.60
4679882--4680323	123	3.6	123	76	3	325	27	16	18	37	1.92
4679841--4680503	62	10.8	61	74	2	380	28	16	17	37	1.92
4682606--4682647	9	4.1	10	80	17	50	2	14	0	83	0.75
4682606--4682649	19	2.3	21	81	18	60	4	13	0	81	0.83
4688362--4688404	21	2.0	21	90	0	68	30	0	9	60	1.28
4690163--4690204	15	2.6	16	88	7	59	30	7	0	61	1.22
4691256--4691296	21	2.0	21	85	9	57	0	7	21	70	1.11
4696888--4696912	2	12.5	2	100	0	50	48	0	0	52	1.00
4697463--4697498	17	2.1	18	90	10	58	27	0	5	66	1.13
4701738--4701834	36	2.7	36	79	1	106	32	15	17	34	1.91
4704776--4704805	3	10.0	3	100	0	60	33	0	0	66	0.92
4710401--4710444	15	2.9	15	93	0	70	29	9	27	34	1.87
4710663--4710726	26	2.6	24	75	17	69	31	1	0	67	1.00
4710603--4710927	104	3.0	114	86	12	468	31	4	2	61	1.29
4710794--4710842	21	2.4	20	82	3	62	28	2	2	67	1.13
4710768--4710927	51	3.1	50	73	20	159	30	5	1	62	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4710921--4711061	46	3.1	45	75	18	130	26	2	2	68	1.15
4723337--4723378	21	2.1	20	91	8	68	59	11	0	28	1.33
4727151--4727340	95	2.0	95	98	0	371	46	22	7	23	1.77
4728243--4728301	20	3.0	20	95	5	102	40	18	11	28	1.86
4729254--4729503	68	3.7	68	87	1	349	36	11	17	35	1.86
4731727--4731759	6	5.5	6	96	0	57	72	0	27	0	0.85
4737190--4737234	22	2.0	22	100	0	90	35	13	13	37	1.84
4741300--4741347	24	2.0	24	84	8	62	22	33	14	29	1.94
4746985--4747150	74	2.2	73	79	4	188	21	16	15	45	1.85
4750485--4750796	156	2.0	156	96	0	579	29	13	17	39	1.87
4755958--4756134	73	2.4	73	84	4	223	21	17	18	42	1.89
4773380--4773452	31	2.4	31	88	4	103	23	28	16	31	1.96
4773403--4773465	31	2.0	31	93	0	108	25	31	14	28	1.95
4773403--4773481	31	2.5	31	87	0	95	24	29	16	30	1.96
4773603--4773933	68	4.9	68	84	5	336	33	19	10	35	1.87
4775052--4775089	16	2.3	17	90	4	60	68	10	2	18	1.30
4786613--4786637	2	12.5	2	100	0	50	0	48	0	52	1.00
4787233--4787270	2	19.0	2	100	0	76	50	0	0	50	1.00
4794886--4794960	33	2.3	33	90	0	114	42	9	13	34	1.76
4795811--4795858	5	9.4	5	82	13	53	70	0	2	27	0.98
4795900--4796369	14	33.2	14	66	27	132	64	0	2	32	1.12
4795970--4796374	27	14.7	26	69	20	199	62	0	2	33	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4795941--4796374	109	4.0	110	86	11	626	63	0	2	33	1.12
4796012--4796186	22	8.4	22	67	24	87	65	1	1	31	1.10
4796108--4796305	38	5.0	41	66	23	104	65	0	1	32	1.02
4795931--4796302	32	12.2	31	68	19	126	64	0	2	32	1.11
4796115--4796362	82	3.0	85	75	14	207	64	0	2	33	1.05
4796523--4796563	15	2.7	15	100	0	82	36	26	4	31	1.78
4797447--4797484	15	2.4	16	82	4	51	15	2	15	65	1.38
4804010--4804156	71	2.0	73	81	5	174	47	7	15	29	1.73
4808591--4808631	18	2.3	18	86	0	55	17	14	48	19	1.81
4812324--4812361	20	1.9	20	88	0	58	52	13	13	21	1.73
4825950--4826111	73	2.2	74	83	5	204	26	20	14	38	1.91
4828547--4828586	17	2.2	19	86	8	57	42	2	5	50	1.37
4828802--4828884	40	2.1	40	81	4	96	16	15	16	50	1.78
4846475--4846571	37	2.7	36	76	6	97	39	22	23	14	1.91
4849352--4849533	29	6.3	28	76	11	170	43	9	11	35	1.73
4849352--4849500	57	2.6	57	81	7	169	43	10	12	33	1.76
4849448--4849559	59	1.9	59	81	3	136	49	8	8	34	1.62
4855394--4855470	40	1.9	41	83	2	102	42	2	0	54	1.14
4855459--4855539	24	3.5	23	72	16	62	32	2	1	64	1.15
4855578--4855659	19	4.1	18	71	22	58	42	1	1	54	1.15
4855834--4855891	27	2.1	27	81	6	64	46	3	1	48	1.29
4855372--4856258	153	5.8	155	77	7	770	40	2	2	53	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4855955--4855988	17	2.0	17	88	11	52	35	0	0	64	0.94
4855984--4856067	27	3.2	27	84	3	118	45	0	3	51	1.18
4856154--4856288	41	3.3	40	84	12	159	42	0	2	54	1.18
4856184--4856288	42	2.6	41	92	3	167	43	0	0	55	1.06
4855989--4856270	117	2.4	116	75	7	266	42	1	3	53	1.24
4856181--4856282	16	7.3	15	69	20	69	42	0	0	56	1.05
4859106--4859162	25	2.2	27	84	6	73	22	14	36	26	1.92
4861365--4861527	28	5.6	28	77	5	155	39	10	11	38	1.76
4861365--4861527	87	1.9	88	84	1	220	39	10	11	38	1.76
4862717--4862742	2	13.0	2	100	0	52	0	50	0	50	1.00
4863206--4863244	20	2.0	20	84	0	51	23	17	17	41	1.91
4870656--4870723	30	2.3	30	97	0	127	30	4	11	52	1.57
4872579--4872677	8	12.5	8	78	5	94	55	3	39	2	1.27
4872592--4872636	23	2.0	23	86	0	63	62	4	31	2	1.27
4872587--4872682	31	3.1	31	87	0	129	55	2	40	2	1.23
4875682--4875757	8	9.0	8	77	13	73	61	2	35	0	1.10
4875695--4875738	23	1.9	23	90	0	70	68	2	29	0	1.02
4881776--4881818	17	2.5	17	92	0	68	37	9	11	41	1.74
4884693--4884743	16	3.1	16	82	2	57	1	37	1	58	1.20
4890369--4890429	25	2.4	25	88	0	95	29	29	16	24	1.96
4891623--4891673	4	12.5	4	82	14	52	0	29	0	70	0.87
4902053--4902082	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4902003--4902162	86	1.9	85	92	3	268	43	8	6	41	1.61
4905313--4905347	18	1.9	18	88	0	52	48	22	2	25	1.64
4905293--4905323	2	15.5	2	100	0	62	51	0	0	48	1.00
4908736--4909199	80	5.8	80	85	5	578	33	26	9	30	1.89
4908749--4909198	240	1.9	240	86	2	645	32	26	10	30	1.89
4910258--4910336	21	3.8	21	71	18	67	39	13	13	32	1.85
4910252--4910305	18	2.7	20	77	19	58	35	14	14	35	1.88
4914677--4914734	28	2.1	27	87	3	80	25	12	24	37	1.90
4922216--4922253	18	2.2	18	85	4	51	68	7	15	7	1.37
4924027--4924083	26	2.3	25	80	14	64	64	7	5	22	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14