genome.fa.s13.2.7.7.80.10.50.1000.17.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_018397266.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_20.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7441454

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

This is table  17  of  18  ( 2072 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)
6812537--6812575	3	13.3	3	89	5	62	64	0	2	33	1.08
6830354--6830624	137	2.0	137	81	6	316	31	20	12	35	1.90
6831440--6831471	2	16.0	2	100	0	64	50	0	0	50	1.00
6834729--6834784	28	2.0	27	83	10	69	32	23	1	42	1.64
6837692--6837721	3	10.0	3	100	0	60	66	0	0	33	0.92
6839587--6839652	28	2.3	29	76	10	73	43	0	0	56	0.99
6839655--6839689	18	1.9	18	88	0	52	51	2	0	45	1.16
6839896--6839985	29	3.2	27	83	12	101	61	1	0	37	1.04
6839937--6839981	21	2.1	21	84	8	56	66	0	0	33	0.92
6840117--6840189	29	2.5	30	76	14	82	35	5	2	56	1.37
6845840--6845968	66	2.0	66	95	0	231	31	17	23	27	1.96
6858647--6858689	20	2.1	21	83	12	54	62	0	0	37	0.95
6865626--6865668	20	2.2	20	100	0	86	46	16	9	27	1.77
6875596--6875701	54	2.0	54	98	0	203	20	29	19	30	1.97
6879231--6879349	43	2.8	44	73	5	118	36	25	17	21	1.95
6880413--6880554	63	2.2	64	83	4	173	29	17	3	49	1.63
6887166--6887282	43	2.7	43	84	8	143	35	23	17	23	1.95
6887351--6887497	65	2.3	64	88	3	208	28	19	3	48	1.65
6887546--6887578	17	1.9	17	100	0	66	72	15	0	12	1.12
6892346--6892388	15	2.9	15	80	13	61	60	9	2	27	1.40
6892870--6893146	137	2.0	137	88	0	410	38	16	18	26	1.92
6895653--6895696	21	2.0	22	91	4	72	61	4	2	31	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6898114--6898151	14	2.5	15	83	12	51	13	18	10	57	1.63
6902740--6902790	26	2.0	26	92	7	86	31	21	11	35	1.90
6902817--6902926	54	2.0	54	85	0	148	32	25	15	26	1.95
6902871--6903060	88	2.2	86	92	3	308	26	23	20	29	1.99
6902871--6903093	43	5.0	45	92	2	328	27	21	20	30	1.98
6906573--6906647	30	2.5	30	89	4	107	14	33	4	48	1.63
6915189--6915425	120	2.0	120	95	0	429	38	13	15	32	1.87
6923427--6923526	34	2.9	35	83	4	134	25	10	29	36	1.88
6923427--6923535	35	3.1	34	79	8	130	24	10	28	36	1.88
6924895--6924969	32	2.4	31	82	8	89	42	2	1	53	1.23
6934853--6934906	23	2.3	23	90	0	81	29	16	29	24	1.97
6934769--6934917	81	1.8	81	82	5	194	26	15	30	26	1.96
6934926--6935001	23	3.3	23	76	10	66	26	7	36	28	1.84
6935033--6935085	23	2.3	23	86	0	70	33	15	32	18	1.92
6934979--6935156	81	2.2	80	81	7	191	32	11	31	24	1.90
6936205--6936310	31	3.4	31	78	0	122	31	16	15	36	1.90
6941418--6941489	28	2.6	28	86	0	108	36	12	16	34	1.87
6973599--6973640	8	6.0	7	84	15	52	28	0	16	54	1.42
6973599--6973640	10	4.0	11	80	20	54	28	0	16	54	1.42
6982469--6982510	17	2.5	17	80	11	50	11	14	0	73	1.09
6986432--6986478	22	2.1	22	92	0	76	42	8	8	40	1.66
6990251--6990956	76	9.3	76	81	2	585	37	18	16	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6990251--6990953	228	3.1	227	82	2	777	37	18	17	27	1.92
6994446--6994511	25	2.6	25	82	2	78	39	15	13	31	1.86
6994446--6994527	26	3.2	26	77	3	85	39	17	13	30	1.88
7005240--7005292	27	2.0	27	92	0	88	54	1	0	43	1.11
7007544--7007660	60	2.0	60	86	3	164	46	20	10	23	1.81
7014854--7014938	34	2.5	34	86	5	118	34	24	9	31	1.87
7015214--7015251	20	1.9	19	89	5	58	23	13	23	39	1.90
7015789--7015824	7	5.0	7	89	3	54	72	0	27	0	0.85
7016062--7016164	29	3.5	29	78	1	107	35	14	22	27	1.93
7019849--7019883	18	1.9	18	88	0	52	42	22	14	20	1.88
7024642--7024682	16	2.5	16	84	4	55	12	24	0	63	1.28
7024644--7024707	28	2.2	29	86	5	94	12	26	0	60	1.32
7029601--7029625	13	1.9	13	100	0	50	64	16	8	12	1.49
7040607--7040653	18	2.6	18	79	0	58	6	34	4	55	1.45
7040977--7041002	2	13.0	2	100	0	52	50	0	50	0	1.00
7060672--7061048	96	3.9	96	79	5	343	51	3	21	22	1.64
7060666--7061048	192	2.0	192	82	4	468	51	3	21	23	1.65
7062907--7062960	20	2.7	20	88	0	81	37	14	9	38	1.79
7070461--7073289	251	11.2	252	78	5	2237	44	7	13	34	1.73
7070504--7073289	503	5.5	499	76	7	2348	44	7	13	34	1.73
7080744--7081809	252	4.2	251	83	3	1200	45	7	12	34	1.71
7094159--7094199	21	2.0	20	90	4	64	21	4	7	65	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7094503--7094588	45	1.9	45	87	0	127	32	22	30	15	1.94
7096064--7096290	114	2.0	114	96	0	418	40	13	6	39	1.70
7106276--7106342	18	3.6	18	73	15	64	49	7	2	40	1.46
7109455--7109498	17	2.8	16	86	10	63	47	0	0	52	1.00
7110557--7110593	13	2.8	13	91	4	56	43	13	10	32	1.79
7115746--7115786	21	2.0	21	95	0	73	39	9	14	36	1.79
7115742--7115873	49	2.7	50	81	5	148	34	7	18	40	1.79
7123976--7124028	26	2.0	26	88	0	79	24	13	16	45	1.83
7137753--7137835	36	2.4	34	79	11	89	33	7	12	46	1.68
7137767--7137835	36	1.9	36	88	2	104	34	8	10	46	1.69
7139983--7140070	29	3.1	28	86	4	122	42	7	12	37	1.72
7140297--7140329	17	1.9	17	88	11	50	39	3	15	42	1.62
7141678--7141738	31	1.9	32	83	9	81	68	1	4	24	1.18
7141693--7141796	55	1.9	55	86	7	149	63	0	4	30	1.21
7141667--7141800	53	2.7	49	76	16	125	64	0	4	29	1.18
7141771--7141857	33	2.6	33	85	7	104	65	0	4	29	1.12
7142090--7142131	15	2.8	15	92	0	66	38	30	2	28	1.70
7145181--7145225	21	2.1	21	84	8	56	40	2	6	51	1.41
7149558--7149767	56	3.8	55	76	6	183	21	28	14	35	1.93
7162650--7162803	28	5.3	30	77	15	121	37	12	8	41	1.73
7162655--7162812	29	5.5	28	81	4	172	39	12	10	37	1.77
7162650--7162800	57	2.6	57	85	4	187	37	12	8	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7169245--7169282	17	2.2	17	86	9	51	52	5	2	39	1.38
7170611--7170739	59	2.2	58	84	5	163	40	10	6	43	1.63
7170616--7170767	29	5.2	28	80	8	153	40	11	7	40	1.68
7193742--7193798	21	2.7	21	83	0	69	35	12	22	29	1.91
7193885--7193940	20	2.8	20	97	0	103	35	7	16	41	1.75
7201387--7201433	14	3.3	14	80	19	53	55	2	0	42	1.12
7201683--7201709	14	1.9	14	100	0	54	44	14	7	33	1.73
7203694--7203753	25	2.4	25	85	0	75	28	18	31	21	1.97
7209065--7209227	35	4.7	35	83	7	181	45	12	6	35	1.68
7209065--7209227	71	2.3	68	84	7	202	45	12	6	35	1.68
7210431--7210741	155	2.0	155	94	0	541	35	12	21	30	1.90
7212065--7212158	36	2.7	35	83	3	125	30	6	17	45	1.73
7212058--7212176	36	3.4	34	79	5	112	31	6	15	46	1.71
7212058--7212261	35	5.7	35	70	2	156	32	5	12	44	1.67
7214565--7214597	2	17.0	2	93	6	59	0	0	48	51	1.00
7215131--7215181	25	2.1	25	88	3	77	52	17	5	23	1.66
7215508--7215553	22	2.1	22	83	0	56	43	6	13	36	1.69
7216240--7216282	2	22.0	2	90	4	70	48	0	2	48	1.14
7217565--7217606	21	2.0	21	95	0	75	40	4	14	40	1.67
7217569--7217614	21	2.2	21	84	0	56	41	6	8	43	1.61
7231174--7231239	29	2.3	29	81	5	80	45	7	7	39	1.61
7232338--7232507	90	1.9	90	83	2	225	25	8	17	47	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7240305--7240339	2	18.0	2	94	5	63	48	0	0	51	1.00
7241216--7241379	41	4.0	41	79	4	161	59	17	1	21	1.44
7241219--7241380	40	4.0	40	77	7	148	58	17	1	22	1.46
7241663--7241715	22	2.3	24	84	12	67	41	3	3	50	1.38
7241409--7242315	470	1.9	469	81	10	1080	43	6	8	41	1.61
7250109--7250134	7	3.7	7	100	0	52	73	0	0	26	0.84
7276783--7276860	30	2.7	28	78	9	86	60	0	1	38	1.05
7285746--7285786	21	2.0	21	85	0	55	31	9	19	39	1.84
7286271--7286440	83	2.0	84	90	1	270	45	14	10	29	1.79
7296547--7296607	30	2.0	30	96	0	113	29	4	16	49	1.66

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