genome.fa.s12.2.7.7.80.10.50.1000.14.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_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8065533

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  14  of  18  ( 2130 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)
5666664--5666707	21	2.1	21	91	0	70	50	9	4	36	1.55
5666779--5667658	252	3.5	249	83	5	993	34	9	8	48	1.66
5669002--5669084	28	3.0	28	90	0	139	53	16	3	26	1.60
5674435--5674486	27	1.9	27	92	0	86	44	5	11	38	1.65
5675311--5675417	34	3.2	33	74	5	106	36	20	16	26	1.94
5682380--5682753	203	1.8	203	87	2	563	47	10	12	29	1.75
5683925--5684813	356	2.5	350	85	2	1165	29	14	16	38	1.89
5689091--5689265	72	2.4	73	80	4	203	19	20	16	44	1.87
5694049--5694082	1	34.0	1	100	0	68	0	0	100	0	0.00
5699023--5699077	3	18.3	3	80	0	56	3	32	0	63	1.12
5704909--5705027	62	1.9	62	81	10	145	40	5	42	10	1.64
5723780--5723814	6	6.0	6	96	3	63	65	0	0	34	0.93
5735566--5735819	135	1.9	134	83	4	332	31	8	16	42	1.79
5740638--5740671	17	2.1	17	94	5	61	17	8	47	26	1.77
5747728--5747770	17	2.6	16	78	10	50	4	16	0	79	0.90
5758045--5758090	2	23.0	2	82	8	58	45	0	4	50	1.21
5758045--5758090	15	3.1	15	84	3	58	45	0	4	50	1.21
5758338--5758412	27	2.6	29	81	12	91	33	20	14	32	1.92
5769619--5769653	2	17.5	2	100	0	70	51	0	0	48	1.00
5773998--5774094	50	1.9	50	89	0	149	37	12	15	35	1.85
5781454--5781516	29	2.2	29	85	5	83	41	0	0	58	0.98
5793726--5793778	27	2.0	27	92	0	88	47	13	9	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5794196--5794288	27	3.4	26	75	10	71	47	11	5	35	1.63
5794227--5794300	27	2.8	28	73	8	73	44	13	4	37	1.63
5797359--5797407	23	2.1	23	96	0	89	40	10	22	26	1.86
5844482--5844664	80	2.3	80	81	6	210	37	13	7	42	1.71
5844976--5845018	18	2.4	18	88	3	61	37	13	27	20	1.91
5845060--5845288	23	9.9	23	80	0	224	35	16	26	21	1.94
5845060--5845288	46	5.0	46	82	1	262	35	16	26	21	1.94
5845056--5845288	92	2.5	92	86	2	315	35	16	26	21	1.94
5850061--5850244	90	2.0	90	86	4	255	40	7	7	45	1.60
5873767--5873808	21	2.0	21	82	13	52	45	21	7	26	1.77
5878088--5878184	48	2.0	48	100	0	194	26	22	14	36	1.93
5878120--5878153	17	2.0	17	94	0	59	26	29	8	35	1.87
5878917--5879037	35	3.5	34	82	4	143	37	30	13	19	1.89
5880576--5880603	14	2.0	14	100	0	56	35	14	0	50	1.43
5881290--5881351	22	3.0	22	65	29	64	37	3	24	35	1.72
5881276--5881351	39	1.9	39	97	0	143	35	2	25	36	1.70
5894215--5894617	211	1.9	211	87	4	589	35	16	6	40	1.75
5896932--5896990	15	3.9	15	79	0	64	38	8	22	30	1.83
5897206--5897270	33	2.0	33	87	0	94	29	4	0	66	1.12
5897437--5897467	15	2.1	15	93	0	53	29	12	16	41	1.85
5908588--5908646	25	2.4	25	100	0	118	6	32	0	61	1.22
5909591--5909686	31	3.0	32	75	13	99	48	20	8	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5909597--5909679	16	5.2	16	70	8	71	50	19	8	21	1.73
5912157--5912185	14	2.1	14	100	0	58	72	6	0	20	1.07
5913829--5913989	83	1.9	84	82	8	204	40	7	8	43	1.62
5919678--5919723	13	3.4	13	80	11	56	60	2	2	34	1.21
5927998--5928032	17	2.0	18	88	5	54	51	0	0	48	1.00
5931897--5931934	16	2.4	16	86	0	58	15	15	26	42	1.87
5935645--5935711	29	2.3	29	81	0	80	43	11	13	31	1.80
5939434--5939570	68	2.0	68	100	0	274	37	18	17	26	1.93
5953182--5953256	13	5.6	14	84	13	104	28	0	0	72	0.86
5953167--5953256	26	3.4	26	80	7	83	25	3	0	71	1.02
5953184--5953255	3	22.7	3	78	18	67	27	0	0	72	0.85
5953184--5953256	31	2.3	31	88	9	103	27	0	0	72	0.85
5954026--5954056	13	2.4	13	100	0	62	38	6	6	48	1.55
5954709--5954775	19	3.3	19	65	15	53	34	13	11	40	1.81
5954699--5954784	42	2.0	42	100	0	172	32	11	11	44	1.77
5955381--5955429	21	2.3	21	96	0	89	24	24	18	32	1.97
5958062--5958105	21	2.0	22	91	4	72	31	0	6	61	1.22
5988360--5988414	26	2.1	26	83	6	67	65	3	0	30	1.10
5988381--5988436	21	2.6	21	75	16	53	64	7	0	28	1.20
5988536--5988622	42	2.1	41	82	2	102	33	11	17	37	1.85
5991949--5992011	31	2.0	31	100	0	126	46	19	3	31	1.65
5992159--5992204	20	2.2	20	92	3	74	26	15	15	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5993054--5993100	21	2.2	21	92	3	76	44	8	14	31	1.76
5993053--5993094	21	2.0	21	100	0	84	38	9	14	38	1.78
5993800--5993824	2	12.5	2	100	0	50	52	0	0	48	1.00
5997228--5997461	80	2.9	79	86	1	308	35	6	21	35	1.79
5998288--5998318	2	15.5	2	100	0	62	51	0	0	48	1.00
5998596--5998696	33	2.7	38	79	16	113	67	0	2	29	1.06
5998588--5998663	33	2.3	33	89	8	120	65	0	3	30	1.10
5998641--5998761	34	3.6	33	91	3	179	68	0	3	28	1.05
5998683--5998743	20	3.3	20	70	25	71	65	0	6	27	1.17
6000138--6000760	215	2.9	213	88	2	863	47	4	13	34	1.63
6005009--6005068	25	2.4	25	86	2	77	28	20	11	40	1.87
6007195--6007262	28	2.4	29	77	2	75	38	4	11	45	1.61
6007524--6007574	15	3.4	15	78	5	50	49	7	1	41	1.43
6007650--6007690	19	2.0	21	90	9	68	39	4	4	51	1.45
6028236--6028321	43	2.0	43	88	4	129	32	3	10	53	1.52
6030030--6030117	43	2.0	43	95	0	158	30	10	10	48	1.70
6030385--6030468	42	2.0	42	86	4	116	42	25	14	17	1.87
6041404--6041542	45	3.1	45	82	0	179	30	23	16	29	1.96
6055334--6055434	30	3.7	30	71	22	112	10	62	9	16	1.54
6055336--6055439	51	2.0	52	98	1	201	11	60	11	16	1.58
6055410--6055506	38	2.5	38	83	11	110	12	54	12	20	1.69
6064679--6064721	21	2.1	20	91	4	68	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6064672--6064734	28	2.2	28	82	2	81	36	0	1	61	1.05
6064685--6064731	21	2.2	21	84	0	67	36	0	2	61	1.08
6080498--6080554	29	2.0	29	85	0	78	24	10	15	49	1.76
6101170--6101226	29	2.0	29	92	0	96	43	14	12	29	1.81
6107702--6107746	22	2.1	21	84	12	56	0	28	8	62	1.25
6111101--6111132	3	10.7	3	100	0	64	68	0	0	31	0.90
6117891--6117915	11	2.3	11	100	0	50	24	16	0	60	1.36
6118587--6118645	28	2.1	28	90	0	91	44	18	10	27	1.82
6118733--6118889	78	2.0	78	87	0	224	36	17	13	33	1.88
6126580--6126744	56	2.9	56	93	1	269	36	18	21	23	1.95
6132877--6132902	1	26.0	1	100	0	52	0	0	100	0	0.00
6143612--6143667	23	2.4	23	93	0	94	26	7	19	46	1.76
6158043--6158098	23	2.4	23	81	0	67	37	7	30	25	1.82
6158149--6158341	47	4.1	47	81	5	210	30	18	29	22	1.97
6158218--6158297	23	3.4	23	74	3	88	30	23	27	18	1.98
6158149--6158341	94	2.1	94	84	2	244	30	18	29	22	1.97
6158965--6159168	31	6.6	31	91	0	309	31	13	19	35	1.91
6162953--6163136	93	2.0	93	83	0	233	29	30	12	27	1.93
6162883--6163093	62	3.4	61	75	6	201	30	28	12	27	1.93
6162982--6163164	93	2.0	93	88	0	276	27	28	13	30	1.94
6162982--6163186	93	2.2	93	86	0	275	27	28	14	29	1.95
6163007--6163217	93	2.3	92	78	3	224	28	29	13	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6163152--6163347	93	2.1	93	77	7	218	29	29	14	26	1.95
6162930--6163347	31	13.5	31	69	4	169	29	28	13	27	1.94
6173778--6173802	2	12.5	2	100	0	50	52	0	48	0	1.00
6179506--6179573	28	2.4	28	87	0	91	47	14	2	35	1.60
6188467--6188534	21	3.2	21	85	4	66	61	0	0	38	0.96
6188492--6188535	3	14.3	3	85	4	52	61	0	0	38	0.96
6188569--6188624	2	28.0	2	100	0	112	50	0	0	50	1.00
6189188--6189225	11	3.5	11	92	0	58	18	0	2	78	0.86
6202998--6203033	16	2.2	17	90	5	56	44	0	16	38	1.48
6204232--6204277	17	2.8	15	81	18	56	52	0	2	45	1.13

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18