genome.fa.s4.2.7.7.80.10.50.1000.4.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_018397257.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_95.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12062019

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   

This is table  4  of  26  ( 3073 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)
1232316--1232584	144	1.9	144	84	4	364	31	14	22	30	1.94
1235015--1235054	21	2.0	20	85	14	55	37	5	12	45	1.64
1235981--1236026	23	2.0	23	95	0	83	34	0	23	41	1.55
1242854--1243015	76	2.1	76	88	2	245	40	8	12	38	1.75
1243307--1243894	170	3.4	171	78	6	631	35	12	13	37	1.83
1257244--1257270	4	6.8	4	100	0	54	48	25	0	25	1.52
1265456--1265932	258	1.8	258	94	0	837	34	9	14	41	1.78
1269686--1269714	15	2.0	15	93	6	51	27	10	13	48	1.75
1274982--1275033	21	2.5	21	81	3	61	38	19	11	30	1.87
1279639--1280055	215	1.9	215	89	0	647	30	9	25	34	1.87
1282203--1282238	18	1.9	19	94	5	65	41	5	16	36	1.72
1282590--1282698	31	3.7	29	76	14	107	42	7	5	44	1.55
1293674--1293704	14	2.3	14	94	5	55	0	16	0	83	0.64
1314190--1314222	16	2.1	16	88	11	50	81	3	0	15	0.80
1315413--1315453	20	2.0	20	95	0	73	31	19	19	29	1.96
1315436--1315613	92	1.9	92	83	2	232	33	17	17	30	1.94
1337452--1337527	35	2.2	35	95	0	134	23	13	28	34	1.92
1338767--1338806	16	2.5	16	83	0	53	55	12	2	30	1.50
1340304--1340474	85	2.0	86	90	1	272	36	21	11	30	1.88
1358425--1358768	74	4.7	75	85	4	416	22	19	15	42	1.89
1361475--1361572	49	2.0	48	90	2	151	36	17	11	34	1.85
1366784--1366840	22	2.6	21	78	8	60	43	3	1	50	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1371634--1371669	2	18.0	2	100	0	72	50	0	0	50	1.00
1377727--1377770	21	2.0	22	86	4	63	29	0	9	61	1.27
1378416--1378451	12	3.1	12	96	4	65	41	16	41	0	1.48
1388640--1388679	20	2.0	21	85	5	55	52	2	0	45	1.14
1389223--1389256	13	2.6	13	95	0	59	29	20	8	41	1.82
1389388--1389494	51	2.1	51	89	0	160	27	21	14	37	1.92
1389876--1390069	81	2.4	81	88	2	264	40	7	11	40	1.70
1395000--1395214	71	3.0	68	77	11	209	39	16	18	25	1.91
1395043--1395286	71	3.4	71	78	10	239	38	18	18	25	1.93
1398213--1398310	36	2.7	36	82	0	124	30	14	20	34	1.92
1398287--1398363	36	2.1	36	90	0	118	31	14	18	36	1.90
1398305--1398411	36	3.0	36	83	0	115	34	14	15	34	1.89
1404004--1404084	22	3.7	22	75	6	74	28	11	18	41	1.84
1404124--1404259	21	6.3	21	75	4	74	20	10	25	44	1.83
1404124--1404165	22	2.0	21	85	4	57	23	11	19	45	1.83
1404306--1404372	22	3.0	21	78	8	71	16	11	28	43	1.83
1410441--1410494	22	2.5	21	81	3	63	44	25	9	20	1.81
1414905--1415030	30	4.3	28	76	7	117	41	8	7	42	1.65
1414905--1415029	59	2.1	58	86	7	182	41	8	8	42	1.63
1414905--1415043	29	4.8	28	77	7	116	40	10	7	41	1.68
1416218--1416325	44	2.4	45	78	6	105	43	25	10	21	1.83
1416407--1416509	45	2.3	45	83	6	120	39	24	10	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1416865--1416910	19	2.4	19	88	0	65	26	8	39	26	1.85
1433451--1433511	29	2.1	29	84	0	77	32	13	19	34	1.90
1435146--1435205	29	2.1	29	100	0	120	20	18	16	45	1.86
1440615--1440646	12	2.6	13	90	9	50	43	0	3	53	1.16
1440611--1440646	14	2.6	14	86	0	54	44	0	2	52	1.15
1442075--1442127	21	2.5	20	77	16	63	62	13	0	24	1.31
1449527--1449567	17	2.4	18	80	12	50	58	7	2	31	1.38
1466203--1466235	2	16.5	2	100	0	66	0	48	0	51	1.00
1467564--1467598	3	11.7	3	100	0	70	34	31	0	34	1.58
1470501--1470526	12	2.2	12	100	0	52	15	30	0	53	1.42
1470696--1470758	21	3.0	21	90	0	99	25	19	17	38	1.93
1473180--1473233	20	2.8	19	80	8	56	57	11	1	29	1.44
1473644--1473683	13	3.2	13	85	7	55	65	7	0	27	1.20
1481974--1482173	28	7.0	28	82	5	229	40	10	12	38	1.76
1481974--1482173	85	2.3	85	81	9	228	40	10	12	38	1.76
1482013--1482204	28	6.6	29	76	16	112	41	9	10	38	1.73
1482346--1482378	17	1.9	17	88	11	50	42	3	12	42	1.57
1489167--1489195	12	2.3	13	94	5	51	44	6	6	41	1.58
1491144--1491183	21	1.9	21	94	0	71	47	17	5	30	1.69
1494178--1494361	73	2.5	73	83	5	221	27	19	13	39	1.89
1494680--1494766	35	2.5	34	77	5	95	36	14	24	24	1.93
1496411--1496495	27	3.3	27	64	26	65	21	5	22	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496335--1496515	51	3.5	51	83	1	218	22	6	20	50	1.71
1496335--1496541	102	2.0	104	80	3	231	22	7	20	49	1.73
1496863--1496968	44	2.4	44	80	1	133	34	9	16	39	1.80
1499508--1499570	19	3.5	17	76	21	56	3	28	0	68	1.05
1499526--1499574	20	2.4	21	80	16	59	2	28	0	69	1.00
1499508--1499580	38	2.0	35	82	15	85	2	28	0	68	1.03
1501132--1501694	294	1.9	295	87	1	824	43	21	9	25	1.82
1505298--1505327	15	1.9	16	93	6	53	50	13	0	36	1.42
1515412--1515634	29	7.6	31	78	14	138	40	11	7	41	1.68
1515441--1515640	29	7.0	28	83	5	238	39	12	8	40	1.72
1515441--1515640	57	3.5	57	84	4	233	39	12	8	40	1.72
1522054--1522101	23	2.2	21	85	10	62	18	25	27	29	1.98
1522784--1522980	29	6.8	29	74	14	158	37	11	10	41	1.75
1522864--1522974	57	2.0	56	86	12	156	34	11	9	44	1.74
1529233--1529323	27	3.4	27	71	6	76	26	20	30	21	1.98
1533559--1533587	15	1.9	15	100	0	58	48	10	6	34	1.64
1535289--1535335	22	2.1	23	84	11	62	48	17	6	27	1.71
1536331--1536441	33	3.4	33	79	0	132	33	36	9	21	1.85
1540534--1540560	2	13.5	2	100	0	54	51	0	0	48	1.00
1540754--1540871	58	2.0	58	86	0	164	28	13	30	27	1.94
1540856--1540920	27	2.4	27	87	5	87	24	23	32	20	1.98
1540862--1541192	161	2.1	161	88	2	495	27	23	30	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1541035--1541128	48	2.0	47	81	6	109	24	22	30	22	1.99
1541091--1541143	26	2.0	27	96	3	99	22	26	32	18	1.97
1541143--1541206	27	2.4	27	84	5	76	32	20	31	15	1.94
1541162--1541213	27	1.9	27	92	0	86	25	26	32	15	1.95
1541163--1541226	27	2.4	27	84	5	76	25	25	31	18	1.98
1541276--1541332	27	2.1	27	83	0	69	29	17	31	21	1.96
1543469--1543594	30	4.2	30	77	2	119	38	42	11	7	1.70
1547808--1548099	151	1.9	151	92	1	487	32	20	14	32	1.93
1561494--1561589	30	3.2	29	79	13	97	42	6	1	50	1.34
1562449--1562551	54	1.9	55	84	9	142	65	0	2	32	1.08
1562457--1562573	54	2.3	53	79	16	124	65	0	4	29	1.11
1562542--1562610	33	2.1	33	86	2	93	68	0	2	28	1.04
1562529--1562722	32	5.6	33	72	16	126	64	0	2	32	1.09
1562593--1562660	25	2.8	24	74	14	66	58	1	2	36	1.22
1562561--1562711	33	4.4	33	73	11	108	64	0	1	33	1.10
1562656--1562721	6	11.0	6	74	20	50	68	0	0	31	0.90
1562643--1562721	20	3.9	19	77	19	65	67	0	0	32	0.91
1562566--1562901	112	3.0	112	91	7	544	62	0	2	34	1.12
1562731--1562834	48	2.2	49	80	15	119	64	0	1	33	1.05
1562744--1562802	17	3.4	17	75	15	59	66	0	1	32	1.02
1562768--1562834	22	2.8	25	77	15	77	68	0	0	31	0.90
1562665--1562827	21	7.4	20	65	19	67	65	0	1	32	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1562714--1562875	16	10.3	15	66	27	54	61	0	3	33	1.18
1562619--1562895	15	17.3	15	66	20	86	62	0	2	34	1.12
1563051--1563089	15	2.6	15	91	0	60	35	25	5	33	1.78
1567982--1568193	35	6.1	36	87	4	283	46	13	7	33	1.71
1567982--1568193	71	3.0	69	87	6	293	46	13	7	33	1.71
1574390--1574467	21	3.8	21	93	1	122	47	12	8	30	1.73
1579027--1579067	2	19.5	2	85	9	55	43	2	4	48	1.37
1579502--1579560	25	2.4	25	94	0	100	28	16	23	30	1.97
1582895--1582938	21	2.0	23	86	13	65	43	0	0	56	0.99
1582947--1582986	21	1.9	21	84	0	53	40	0	5	55	1.22

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