genome.fa.s1.2.7.7.80.10.50.1000.9.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_018397254.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_30.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15579451

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   27   28   29   30   31   32   

This is table  9  of  32  ( 3821 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)
4551062--4551110	17	2.6	19	75	15	57	22	4	2	71	1.13
4561891--4561930	21	1.9	21	84	0	53	10	35	7	47	1.65
4574696--4574782	33	2.6	33	85	7	113	67	0	2	29	1.03
4574995--4575038	15	2.9	15	89	0	61	34	22	4	38	1.75
4577450--4577488	15	2.6	15	91	0	60	53	0	5	41	1.23
4582109--4582157	2	24.5	2	82	0	62	44	2	6	46	1.39
4594838--4594897	30	2.0	30	90	0	93	33	21	11	33	1.90
4595414--4595453	9	4.8	9	79	17	50	22	67	0	10	1.20
4595416--4595456	15	2.7	15	85	14	66	21	68	0	9	1.18
4611580--4611618	18	2.2	19	86	9	55	20	17	23	38	1.93
4634569--4634606	20	1.9	20	84	10	51	73	0	26	0	0.83
4653832--4653863	3	10.7	3	100	0	64	0	68	0	31	0.90
4660435--4660478	19	2.3	19	84	0	52	59	0	2	38	1.10
4662373--4662424	22	2.3	23	93	6	88	28	7	30	32	1.85
4662373--4662436	22	2.9	21	84	9	67	32	7	25	34	1.84
4662705--4662768	31	2.1	31	85	11	87	53	14	1	31	1.50
4665742--4665927	102	1.8	102	81	6	234	36	16	9	38	1.80
4670297--4670437	65	2.2	65	98	0	273	26	25	15	31	1.96
4671536--4671573	19	2.0	20	89	5	60	76	7	5	10	1.15
4675259--4675321	33	1.9	33	86	0	90	55	9	23	11	1.64
4675282--4675321	15	2.7	14	85	11	53	62	5	25	7	1.42
4683764--4683802	16	2.5	16	83	4	53	51	2	5	41	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4684036--4684311	149	1.9	145	83	3	354	41	16	10	31	1.83
4684565--4685023	222	2.1	224	96	2	845	44	11	8	35	1.72
4689019--4689048	6	5.0	6	100	0	60	50	16	0	33	1.46
4690963--4690993	2	15.5	2	100	0	62	0	48	0	51	1.00
4691932--4691956	5	5.0	5	100	0	50	20	0	0	80	0.72
4698075--4698108	6	5.7	6	86	13	52	85	0	14	0	0.60
4716753--4716778	5	5.2	5	100	0	52	80	0	0	19	0.71
4719811--4719857	19	2.5	19	79	6	51	65	6	0	27	1.16
4720026--4720052	2	13.5	2	100	0	54	51	0	0	48	1.00
4732203--4732274	35	2.1	35	100	0	144	37	13	11	37	1.81
4741249--4741372	59	2.1	59	98	1	241	44	15	17	22	1.86
4741629--4741657	10	2.7	11	89	10	51	34	10	0	55	1.34
4744292--4744363	22	3.6	22	77	21	79	45	4	0	50	1.21
4746262--4746306	21	2.1	21	95	0	81	35	4	31	28	1.77
4755830--4755854	13	1.9	13	100	0	50	64	8	20	8	1.46
4762423--4762447	11	2.3	11	100	0	50	48	8	8	36	1.62
4779030--4779226	96	2.1	96	99	0	385	47	23	12	16	1.80
4784351--4784424	22	3.5	21	76	16	82	51	1	0	47	1.09
4784346--4784408	19	3.2	19	77	18	74	55	1	0	42	1.09
4784369--4784421	15	3.9	14	74	20	58	52	0	0	47	1.00
4784589--4784639	16	3.2	16	78	15	61	50	1	1	45	1.24
4784587--4784725	31	4.8	28	72	18	97	54	2	1	41	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4784553--4785107	118	4.7	118	74	15	412	54	3	1	40	1.28
4784702--4784793	41	2.2	41	79	9	98	51	2	3	43	1.30
4784770--4784898	30	4.6	29	69	26	89	51	7	0	41	1.31
4784744--4784955	83	2.6	81	92	3	311	54	5	0	39	1.31
4784836--4784955	21	5.7	22	64	22	62	55	5	0	39	1.22
4784901--4785144	129	1.9	126	87	2	353	53	2	2	41	1.25
4785065--4785174	15	7.3	15	66	26	54	49	0	1	48	1.18
4785109--4785186	27	2.9	28	77	12	65	50	2	0	47	1.15
4785171--4785212	18	2.3	19	80	12	52	69	4	0	26	1.08
4785217--4785249	15	2.2	15	94	0	57	12	3	0	84	0.72
4800935--4800960	3	8.7	3	100	0	52	69	0	0	30	0.89
4805109--4805217	43	2.5	43	97	2	202	56	16	0	26	1.40
4826196--4826220	2	12.5	2	100	0	50	52	0	0	48	1.00
4832606--4832632	2	13.5	2	100	0	54	48	0	0	51	1.00
4833778--4833838	25	2.5	24	78	7	68	55	1	0	42	1.09
4833777--4833836	26	2.3	26	77	11	70	56	1	0	41	1.09
4837200--4837229	13	2.2	14	94	5	53	76	13	0	10	1.01
4841494--4841546	27	2.0	27	85	10	74	28	11	18	41	1.85
4859288--4859380	35	2.7	35	79	0	114	26	9	11	51	1.69
4862321--4862360	17	2.3	17	95	4	71	22	17	10	50	1.76
4877289--4877394	49	2.2	49	100	0	212	22	35	13	28	1.92
4893422--4893451	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)
4895652--4895694	2	21.5	2	95	0	77	48	0	2	48	1.14
4898801--4898830	2	15.5	2	93	6	53	50	50	0	0	1.00
4900006--4900176	80	2.1	81	90	1	263	23	9	16	50	1.74
4900006--4900143	38	3.5	38	68	7	105	24	10	15	49	1.76
4900165--4900209	22	2.0	22	91	8	74	33	13	13	40	1.83
4905694--4905727	16	2.1	16	88	0	50	52	0	2	44	1.16
4905699--4905757	26	2.2	27	78	3	66	52	0	0	47	1.00
4905782--4905828	25	2.0	25	83	8	62	46	0	0	53	1.00
4906171--4906219	21	2.2	23	82	7	57	40	4	4	51	1.40
4906518--4906580	24	2.5	26	84	10	85	38	0	0	61	0.96
4952977--4953016	17	2.5	17	88	11	59	32	5	0	62	1.17
4952977--4953018	15	2.7	16	86	13	61	30	7	0	61	1.22
4953051--4953097	20	2.2	22	81	7	62	29	0	6	63	1.19
4983313--4983355	22	2.0	22	90	0	68	58	0	2	39	1.11
4983327--4983391	29	2.2	29	83	2	76	66	0	1	32	1.01
4987447--4987488	15	2.5	17	88	11	61	9	9	0	80	0.89
4990600--4990625	3	8.7	3	100	0	52	65	0	0	34	0.93
5013292--5013326	16	2.2	16	90	5	54	60	0	0	40	0.97
5013439--5013482	11	3.9	11	79	5	52	70	2	0	27	0.99
5013438--5013483	23	2.0	22	87	4	65	71	2	0	26	0.97
5014712--5014759	2	24.0	2	100	0	96	50	0	0	50	1.00
5023420--5023586	62	2.7	62	83	0	208	34	16	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5024029--5024073	19	2.4	20	79	20	53	55	2	6	35	1.38
5024157--5024205	18	2.7	18	83	3	62	73	2	2	22	1.04
5025555--5025581	2	13.5	2	100	0	54	48	0	0	51	1.00
5041383--5041417	6	5.7	6	96	3	61	48	14	2	34	1.58
5053768--5053911	73	2.0	73	90	2	227	49	21	11	18	1.78
5054817--5054858	17	2.6	16	85	11	50	42	2	2	52	1.27
5058980--5059008	13	2.2	13	100	0	58	37	27	17	17	1.92
5059215--5059279	27	2.7	22	81	15	58	52	1	1	44	1.19
5060212--5060249	20	1.9	20	88	0	58	2	47	5	44	1.39
5072077--5072112	16	2.3	15	90	4	54	61	0	0	38	0.96
5072086--5072131	21	2.2	21	84	0	56	69	4	0	26	1.07
5072256--5072296	4	10.8	4	80	19	52	73	0	0	26	0.84
5077481--5077515	16	2.2	16	90	10	54	40	0	0	60	0.97
5078358--5078406	9	5.4	9	92	0	71	32	24	36	6	1.80
5078350--5078406	15	3.8	15	88	0	69	33	22	35	8	1.85
5078352--5078406	6	9.2	6	85	0	65	32	23	36	7	1.82
5080231--5080302	33	2.1	34	87	5	101	62	0	6	30	1.21
5080517--5080546	15	2.0	15	100	0	60	40	20	0	40	1.52
5082560--5082592	15	2.3	15	89	5	50	30	0	0	69	0.88
5083489--5083526	11	3.5	11	85	7	51	0	2	18	78	0.86
5084180--5084209	3	10.0	3	100	0	60	33	0	33	33	1.58
5092103--5092147	23	2.0	22	82	8	54	42	0	4	53	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5098697--5098730	6	5.7	6	92	0	59	32	2	47	17	1.63
5102176--5102200	3	8.3	3	100	0	50	68	0	0	32	0.90
5103058--5103083	2	13.0	2	100	0	52	50	0	0	50	1.00
5105724--5105749	2	13.0	2	100	0	52	0	50	0	50	1.00
5113268--5113327	30	2.0	30	84	9	79	33	5	0	61	1.17
5113313--5113348	15	2.4	15	100	0	72	41	0	0	58	0.98
5113536--5113590	19	3.1	18	82	12	53	18	14	3	63	1.44
5115475--5115522	22	2.2	22	81	7	53	6	27	8	58	1.51
5121794--5121824	3	10.3	3	100	0	62	0	32	0	67	0.91
5137355--5137643	87	3.3	85	81	4	326	42	8	20	27	1.82

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   27   28   29   30   31   32