genome.fa.s2.2.7.7.80.10.50.1000.12.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_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

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   

This is table  12  of  31  ( 3649 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)
6148774--6148880	26	4.1	26	85	2	144	36	14	14	35	1.86
6148774--6148880	52	2.1	52	91	3	171	36	14	14	35	1.86
6149193--6149657	214	2.1	215	84	5	598	46	5	7	39	1.57
6164969--6165018	25	2.0	25	100	0	100	28	24	16	32	1.96
6168462--6168541	29	2.7	30	81	11	78	42	1	1	55	1.16
6168493--6168594	30	3.4	29	78	17	111	38	2	0	58	1.13
6168819--6168867	25	2.0	25	84	8	64	48	0	0	51	1.00
6170115--6170150	14	2.6	14	86	4	56	36	0	2	61	1.11
6170810--6170856	24	2.0	23	87	4	67	36	0	4	59	1.17
6171268--6171299	6	5.3	6	96	0	55	31	46	0	21	1.52
6191808--6191886	24	3.3	24	98	0	149	34	24	0	41	1.55
6192219--6192300	30	2.7	29	83	7	92	63	1	2	32	1.15
6193793--6193836	23	1.9	23	81	9	54	38	15	6	38	1.75
6208165--6208204	15	2.5	16	88	8	55	22	10	7	60	1.54
6226959--6226986	6	4.7	6	100	0	56	85	0	0	14	0.59
6231200--6231231	17	1.9	17	93	6	57	18	6	12	62	1.50
6232573--6232691	42	2.8	42	90	0	184	20	27	31	20	1.97
6238878--6238903	2	13.0	2	100	0	52	50	0	50	0	1.00
6246303--6246332	15	2.0	15	100	0	60	33	26	6	33	1.83
6248629--6248659	3	10.3	3	92	0	53	35	32	32	0	1.58
6252377--6252401	5	5.0	5	100	0	50	0	0	80	20	0.72
6263994--6264113	61	2.0	61	93	0	204	46	14	19	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6265905--6265955	2	25.5	2	100	0	102	50	0	0	49	1.00
6265955--6265992	2	19.0	2	100	0	76	50	0	50	0	1.00
6288047--6288080	3	11.3	3	93	0	59	64	0	2	32	1.08
6291755--6291807	3	18.7	3	77	11	58	0	37	1	60	1.08
6291755--6291788	11	3.0	11	91	4	50	0	32	0	67	0.91
6291754--6291789	8	4.4	8	86	6	54	0	36	0	63	0.94
6307954--6308036	43	2.0	42	85	7	114	57	1	9	31	1.38
6308088--6308117	6	5.0	6	95	0	51	80	0	0	20	0.72
6309016--6309067	14	3.7	14	73	17	54	26	0	5	67	1.13
6310050--6310175	27	4.7	27	78	0	108	42	7	6	42	1.59
6309989--6310154	54	3.1	54	80	0	161	41	10	6	41	1.64
6310050--6310175	54	2.3	54	80	0	135	42	7	6	42	1.59
6310189--6310219	15	2.1	15	100	0	62	38	0	0	61	0.96
6313707--6313733	2	13.5	2	100	0	54	48	0	0	51	1.00
6314826--6314864	17	2.3	17	100	0	78	15	7	25	51	1.70
6322009--6322033	2	12.5	2	100	0	50	52	0	0	48	1.00
6322545--6322582	2	19.0	2	100	0	76	50	0	0	50	1.00
6323347--6323384	2	19.0	2	100	0	76	50	0	0	50	1.00
6324474--6324498	2	12.5	2	100	0	50	48	0	0	52	1.00
6333857--6333919	33	1.9	33	90	0	99	41	7	11	39	1.70
6342569--6342617	23	2.1	23	96	0	89	34	2	8	55	1.41
6344494--6344534	19	2.1	19	86	13	57	80	0	0	19	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6345871--6345950	28	2.9	28	96	1	144	42	0	0	57	0.98
6345937--6346006	24	3.0	23	81	12	79	41	0	0	58	0.98
6350709--6350740	17	1.9	17	93	6	57	65	0	0	34	0.93
6353164--6353200	15	2.6	14	91	8	58	45	0	0	54	1.00
6354128--6354185	27	2.1	28	90	3	91	56	0	0	43	0.99
6354148--6354187	17	2.4	17	87	8	55	55	0	0	45	0.99
6354260--6354310	25	2.0	27	84	7	70	70	1	0	27	0.98
6354426--6354477	25	2.0	26	82	10	63	57	1	3	36	1.28
6354450--6354483	15	2.3	15	90	10	52	55	2	2	38	1.30
6354393--6354487	40	2.3	40	85	7	129	53	1	4	41	1.27
6354397--6354527	55	2.4	54	72	15	126	53	0	3	41	1.24
6354458--6354532	15	4.7	15	72	18	55	52	1	1	45	1.17
6354513--6354570	27	2.0	27	84	15	73	65	0	0	34	0.93
6366751--6366811	24	2.4	25	76	12	63	32	1	1	63	1.13
6366924--6367001	29	2.7	29	100	0	156	52	0	3	43	1.19
6366941--6366989	15	3.3	15	72	16	57	57	0	2	40	1.10
6368205--6368229	2	12.5	2	100	0	50	0	0	48	52	1.00
6387438--6387493	14	3.9	14	80	17	62	64	3	0	32	1.11
6387438--6387499	28	2.2	29	82	8	74	62	4	1	30	1.25
6387507--6387544	16	2.3	17	90	4	60	60	0	5	34	1.19
6387790--6387821	15	2.0	17	88	11	50	25	0	0	75	0.81
6418298--6419209	356	2.6	346	80	10	916	45	7	6	40	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6422551--6422584	17	2.1	16	88	5	50	29	35	14	20	1.93
6428701--6428876	59	3.0	59	97	1	327	46	5	19	28	1.73
6430530--6430557	2	14.0	2	100	0	56	50	0	0	50	1.00
6430624--6430653	13	2.2	13	94	5	51	50	0	0	50	1.00
6431151--6431176	2	13.0	2	100	0	52	50	0	0	50	1.00
6443637--6443663	12	2.2	12	100	0	54	59	14	25	0	1.36
6452346--6452388	21	2.0	21	86	8	61	0	23	0	76	0.78
6452675--6452890	107	2.0	107	86	3	301	38	12	19	29	1.88
6455190--6455236	5	9.6	5	76	4	51	51	0	6	42	1.27
6455172--6455234	24	2.5	24	87	7	72	49	4	4	41	1.45
6455183--6455234	24	2.2	24	92	0	86	48	1	5	44	1.38
6456274--6456302	14	2.0	15	93	6	51	62	0	37	0	0.96
6457844--6457939	48	2.0	48	95	2	176	51	16	17	14	1.77
6460346--6460561	115	1.9	115	85	7	300	46	12	13	27	1.80
6463089--6463121	10	3.3	10	91	8	50	63	3	0	33	1.10
6472445--6472588	73	2.0	73	86	2	200	38	6	9	45	1.63
6478602--6478644	22	1.9	22	85	4	59	67	2	0	30	1.03
6481048--6481107	30	2.0	30	93	0	102	35	18	10	36	1.84
6485860--6485908	21	2.3	21	92	0	80	34	14	4	46	1.63
6489219--6489313	19	5.2	19	83	10	135	30	5	18	45	1.72
6489213--6489313	53	1.9	51	86	6	139	30	6	18	43	1.77
6489229--6489294	34	1.9	34	100	0	132	33	6	18	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6493937--6494055	33	3.6	33	72	10	82	30	16	27	25	1.97
6493992--6494067	33	2.3	33	81	4	91	31	21	22	25	1.98
6496665--6496695	5	6.4	5	92	7	55	0	16	0	83	0.64
6506044--6506081	15	2.7	15	88	8	53	15	2	2	78	0.97
6515857--6515966	57	1.9	57	87	3	159	24	16	27	31	1.96
6516402--6516574	43	3.9	43	91	5	283	40	12	16	31	1.85
6516556--6516702	69	2.1	70	93	1	251	30	8	21	39	1.83
6516560--6516702	70	2.1	68	93	1	187	30	6	21	40	1.80
6521246--6521283	2	19.5	2	94	5	69	52	0	0	47	1.00
6522329--6522365	2	18.5	2	94	0	65	48	0	2	48	1.15
6527013--6527046	2	17.0	2	87	0	50	0	44	0	55	0.99
6535141--6535212	33	2.2	33	85	7	92	33	6	4	55	1.46
6535529--6535564	19	1.9	19	88	5	56	44	5	8	41	1.58
6536922--6536959	15	2.5	15	91	8	60	2	28	0	68	1.03
6537121--6537178	30	2.0	28	83	6	71	46	1	1	50	1.22
6538679--6538736	19	3.0	20	82	7	75	50	1	0	48	1.11
6541140--6541191	22	2.4	22	83	0	68	63	5	0	30	1.18
6552087--6552124	16	2.3	16	86	13	51	23	10	13	52	1.71
6558425--6558483	30	2.1	27	81	12	66	32	1	5	61	1.28
6567899--6567941	4	10.8	4	89	0	59	23	4	23	48	1.69
6573039--6573082	2	22.0	2	85	0	61	43	6	0	50	1.29
6573039--6573082	8	5.5	8	97	0	70	43	6	0	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6580721--6580898	85	2.1	86	91	2	288	39	14	15	31	1.86
6582596--6582628	16	2.1	16	88	5	50	63	15	0	21	1.30
6594075--6594112	20	1.9	20	84	10	51	36	7	13	42	1.73
6596155--6596208	17	3.2	17	74	10	65	37	7	9	46	1.64
6602195--6602328	49	2.7	49	88	0	187	34	10	15	39	1.82
6602482--6602540	24	2.5	24	88	0	91	50	13	6	28	1.67
6602619--6602718	30	3.4	30	73	8	105	41	9	13	37	1.75
6602606--6602745	59	2.4	59	81	4	140	38	11	11	38	1.78
6603174--6603219	20	2.2	20	85	11	58	78	0	10	10	0.97
6603292--6603322	10	3.1	10	90	0	53	61	0	0	38	0.96

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