genome.fa.s14.2.7.7.80.10.50.1000.11.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_018397267.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_204.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6982396

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

This is table  11  of  12  ( 1406 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)
6296089--6296158	22	3.1	22	73	19	63	35	5	21	37	1.77
6296079--6296175	46	2.1	46	83	7	117	36	7	19	37	1.80
6298679--6298717	2	19.5	2	100	0	78	51	0	0	48	1.00
6308595--6308629	3	11.7	3	100	0	70	65	0	0	34	0.93
6308861--6308937	26	2.9	28	70	20	74	58	0	7	33	1.27
6310376--6310437	21	3.0	21	90	0	106	22	12	20	43	1.86
6310546--6310584	18	2.2	18	86	9	53	23	23	28	25	1.99
6317273--6317339	12	5.0	13	74	16	57	64	0	0	35	0.94
6317273--6317306	13	2.5	14	90	4	52	52	0	0	47	1.00
6317829--6317875	18	2.6	18	96	3	85	8	8	0	82	0.83
6326537--6326730	96	2.0	96	87	2	282	35	13	30	21	1.91
6326763--6326828	33	2.0	33	100	0	132	33	12	24	30	1.91
6330343--6330368	13	2.0	13	100	0	52	46	0	23	30	1.53
6338869--6339003	70	1.9	70	90	0	216	53	3	8	34	1.48
6351661--6351731	19	4.2	19	69	22	50	33	0	0	66	0.92
6351661--6351709	23	2.2	22	88	3	71	32	0	0	67	0.91
6351668--6351715	23	2.1	23	84	0	60	37	0	0	62	0.95
6351671--6351731	31	2.0	31	87	6	88	37	0	0	62	0.96
6352370--6352437	6	11.3	6	77	12	59	50	11	0	38	1.39
6352366--6352430	10	6.3	10	78	7	58	50	12	0	36	1.40
6352374--6352437	18	3.6	18	86	0	101	50	10	0	39	1.38
6352361--6352436	36	2.1	36	95	0	134	50	14	0	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6352374--6352437	4	16.0	4	83	0	65	50	10	0	39	1.38
6352374--6352437	10	6.4	10	85	0	65	50	10	0	39	1.38
6374659--6374699	15	2.7	15	96	0	73	39	26	2	31	1.70
6396731--6396788	25	2.3	25	79	5	64	65	0	3	31	1.09
6397802--6397858	27	2.1	27	83	6	71	28	0	8	63	1.24
6397889--6397931	15	2.6	17	78	17	54	55	0	4	39	1.20
6409609--6409668	31	1.9	31	96	0	111	55	15	8	21	1.66
6409608--6409675	31	2.2	31	89	0	109	55	13	8	22	1.65
6423002--6423027	2	13.0	2	100	0	52	50	0	0	50	1.00
6424993--6425278	92	3.1	92	82	4	308	29	16	30	24	1.96
6424984--6425277	139	2.1	139	83	8	357	28	15	30	24	1.96
6424966--6425276	47	6.7	46	77	11	251	28	16	30	25	1.96
6433968--6434069	50	2.0	50	96	0	186	30	19	11	38	1.88
6451903--6451935	3	11.0	3	93	0	57	69	0	0	30	0.88
6454357--6454424	23	3.0	23	80	8	84	32	11	30	25	1.91
6454541--6454624	23	3.7	23	73	7	64	33	14	25	27	1.94
6454607--6454677	23	3.1	23	77	0	79	33	19	19	26	1.96
6456898--6458006	341	3.3	339	80	11	1152	41	6	7	44	1.58
6459810--6459845	2	18.0	2	100	0	72	50	0	0	50	1.00
6461289--6461318	15	2.0	15	93	0	51	70	6	0	23	1.11
6461454--6461506	19	2.6	20	85	11	72	77	0	1	20	0.87
6461466--6461512	14	3.2	14	80	11	58	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6461455--6461515	25	2.5	25	84	7	81	80	0	1	18	0.80
6474746--6474794	19	2.6	21	75	21	54	30	0	0	69	0.89
6474743--6474939	63	3.1	61	81	6	234	31	7	2	58	1.37
6498677--6498754	30	2.6	30	82	8	88	64	1	0	34	1.02
6498711--6498753	21	2.1	20	82	4	50	67	0	0	32	0.91
6499776--6499818	17	2.4	18	80	7	52	46	0	2	51	1.13
6500361--6500552	97	2.0	96	85	7	264	53	7	6	32	1.55
6502094--6502136	22	2.0	22	86	9	61	41	2	2	53	1.26
6502577--6502713	73	1.9	73	89	3	213	42	4	7	45	1.51
6502798--6502833	13	2.7	13	91	4	54	44	0	2	52	1.15
6505866--6505948	32	2.6	31	84	3	121	40	18	7	33	1.78
6507039--6507075	18	2.1	18	100	0	74	27	5	21	45	1.73
6516678--6516722	21	2.1	22	87	4	65	44	0	2	53	1.13
6517500--6517551	26	2.0	25	82	10	61	50	0	1	48	1.12
6517507--6517573	32	2.1	32	91	2	109	56	0	1	41	1.08
6518033--6518101	32	2.1	33	97	2	131	57	0	2	39	1.13
6517171--6518180	529	2.0	510	81	7	1180	42	10	7	40	1.67
6519776--6519834	15	3.9	15	90	0	91	35	0	23	40	1.55
6520134--6520229	4	22.8	4	75	13	68	53	1	0	45	1.07
6521514--6521575	31	2.0	31	90	0	97	38	17	4	38	1.71
6524202--6524240	21	1.9	21	89	5	62	20	5	38	35	1.75
6526031--6526071	15	2.7	15	96	0	73	31	7	26	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6526226--6526479	28	9.2	27	65	24	81	33	2	0	62	1.13
6526297--6526366	20	3.4	20	75	23	65	31	0	0	68	0.90
6526289--6526479	15	12.3	15	66	25	55	33	1	0	64	1.07
6526271--6526369	33	3.2	31	75	13	80	35	1	0	63	1.01
6526221--6526554	111	3.0	109	91	6	514	33	2	0	62	1.14
6526351--6526507	37	4.3	36	68	13	106	35	2	0	61	1.15
6526221--6526554	110	3.0	109	89	6	505	33	2	0	62	1.14
6526511--6526585	34	2.2	35	85	7	100	29	2	0	68	1.04
6526634--6526699	14	5.2	13	77	15	68	24	1	0	74	0.91
6526633--6526687	18	3.0	18	84	12	76	23	1	0	74	0.91
6526634--6526687	17	3.0	18	84	15	76	24	1	0	74	0.92
6526289--6526700	12	32.2	12	64	25	86	31	2	0	65	1.11
6526645--6526711	31	2.1	32	84	13	86	29	1	0	68	0.98
6530291--6530315	1	25.0	1	100	0	50	0	100	0	0	0.00
6531168--6531232	33	2.0	33	100	0	130	24	16	15	43	1.87
6540410--6540478	22	3.2	22	75	2	68	30	8	10	50	1.66
6540619--6540698	38	2.1	38	88	2	117	41	16	3	38	1.66
6540812--6540862	26	2.0	26	92	0	84	29	5	1	62	1.29
6543526--6544394	147	6.0	142	86	5	1049	27	18	14	37	1.90
6543526--6544394	438	2.0	431	86	4	1219	27	18	14	37	1.90
6566605--6566632	3	9.3	3	100	0	56	32	0	35	32	1.58
6576609--6576678	21	3.1	23	76	15	67	55	8	2	32	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6583324--6583374	20	2.5	20	78	6	50	49	5	1	43	1.38
6585687--6585721	18	1.9	18	88	0	52	45	0	2	51	1.16
6586356--6586391	19	2.0	18	89	10	56	52	2	0	44	1.15
6587730--6587756	2	13.5	2	100	0	54	48	0	0	51	1.00
6588361--6588412	18	2.8	18	74	20	54	57	1	9	30	1.42
6596264--6596300	12	3.2	12	96	3	67	59	5	16	18	1.55
6601055--6601219	89	1.9	89	86	0	240	16	18	21	44	1.87
6604161--6604200	2	20.0	2	89	0	62	50	0	2	47	1.14
6607905--6607969	23	2.8	24	83	2	87	44	3	12	40	1.57
6609916--6610404	164	3.0	164	91	1	766	34	23	12	29	1.91
6618228--6618258	2	15.5	2	100	0	62	51	0	48	0	1.00
6620779--6620803	9	2.8	9	100	0	50	56	44	0	0	0.99
6621030--6621070	22	2.0	20	85	9	55	24	0	14	60	1.34
6629353--6629380	2	14.0	2	100	0	56	50	0	0	50	1.00
6633780--6633843	33	1.9	33	87	6	94	57	4	15	21	1.56
6634142--6634185	23	2.0	22	81	4	52	40	0	6	52	1.28
6635595--6635628	16	2.1	17	88	5	52	38	5	0	55	1.24
6638858--6638892	2	17.5	2	100	0	70	51	0	0	48	1.00
6651433--6651507	26	3.1	22	83	14	78	52	1	0	46	1.09
6651418--6651477	32	1.9	32	86	3	86	53	0	0	46	1.00
6651408--6651516	26	5.0	21	70	23	73	52	0	0	45	1.13
6651431--6651633	105	1.9	106	81	12	247	57	1	0	39	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6651431--6651619	18	10.1	19	65	25	68	55	1	1	41	1.16
6658341--6658370	11	2.7	11	94	0	51	80	3	0	16	0.85
6658443--6658487	23	2.0	23	86	0	63	28	15	4	51	1.63
6678774--6678799	2	13.0	2	100	0	52	50	0	0	50	1.00
6686665--6686698	12	2.8	12	86	0	50	38	44	11	5	1.65
6691791--6692207	216	1.9	212	81	9	490	39	18	17	24	1.91
6693073--6693588	172	3.0	172	89	2	788	32	23	12	31	1.91
6693911--6694614	237	3.0	237	91	1	1126	37	16	15	30	1.90
6694965--6695001	18	2.1	18	100	0	74	43	24	5	27	1.76
6701112--6701218	56	1.9	57	83	9	139	50	1	7	40	1.41

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