genome.fa.s21.2.7.7.80.10.50.1000.3.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_018397274.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_228.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2969030

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 846 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)
1069061--1069100	21	1.9	21	85	10	55	32	2	20	45	1.64
1086733--1086787	28	2.1	27	83	10	69	49	0	0	50	1.00
1096413--1096446	12	2.9	11	87	12	50	2	35	2	58	1.28
1102167--1102213	19	2.5	19	80	13	53	17	4	0	78	0.90
1105222--1105252	15	2.1	15	100	0	62	29	6	19	45	1.75
1106828--1106853	5	5.2	5	100	0	52	57	0	42	0	0.98
1110206--1110243	2	19.0	2	94	0	67	52	0	47	0	1.00
1122635--1122771	45	3.0	45	80	6	136	45	16	8	29	1.77
1128654--1128701	16	3.1	15	83	16	62	83	0	4	12	0.79
1128654--1128695	17	2.6	16	88	7	66	83	0	4	11	0.79
1133878--1134027	35	4.8	32	72	17	95	65	0	2	31	1.11
1133917--1134030	14	7.9	15	65	18	55	66	0	1	30	1.08
1133972--1134031	16	3.6	16	76	12	57	66	1	0	31	1.01
1133912--1134010	50	2.0	50	82	4	119	67	0	2	30	1.02
1133917--1134024	28	3.9	27	73	10	92	66	0	1	30	1.08
1134088--1134140	19	2.9	18	78	13	56	58	0	0	41	0.98
1134105--1134139	17	2.1	16	89	5	52	57	0	0	42	0.99
1146918--1146979	31	2.0	30	90	3	97	50	17	8	24	1.73
1147909--1147998	30	3.0	30	83	4	101	35	0	3	61	1.13
1150016--1150045	6	5.0	6	95	0	51	30	16	50	3	1.62
1151860--1151886	4	6.8	4	100	0	54	77	0	22	0	0.76
1154174--1154223	21	2.4	21	75	0	55	6	70	2	22	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1154190--1154248	31	1.9	31	89	6	93	6	62	5	25	1.41
1169835--1169860	7	3.7	7	100	0	52	30	0	0	69	0.89
1169836--1169869	14	2.4	14	90	5	50	35	0	0	64	0.94
1173501--1173619	23	5.2	23	78	2	114	33	12	16	36	1.87
1173521--1173740	23	9.7	23	72	5	115	35	10	19	35	1.86
1173501--1173626	46	2.7	45	78	9	139	34	11	16	36	1.86
1173644--1173703	22	2.7	22	77	10	59	30	11	23	35	1.90
1174850--1174887	15	2.5	15	100	0	76	39	18	18	23	1.92
1175681--1175719	14	2.8	14	100	0	78	43	15	0	41	1.46
1180085--1180121	18	2.0	19	85	15	51	24	0	0	75	0.80
1181779--1181838	30	2.0	30	87	6	86	48	8	8	35	1.63
1183357--1183396	21	2.0	21	85	5	55	50	5	5	40	1.46
1184770--1184848	29	2.7	28	75	7	77	55	2	3	37	1.31
1185492--1185537	20	2.2	21	81	14	60	41	0	4	54	1.20
1186606--1186660	15	3.1	17	77	22	51	60	0	0	40	0.97
1194084--1194113	15	2.0	15	100	0	60	40	13	33	13	1.83
1194365--1194400	19	1.9	19	88	5	56	41	2	0	55	1.14
1194418--1194459	21	2.0	21	90	9	68	42	0	0	57	0.99
1195214--1195253	20	2.0	21	90	5	64	35	12	2	50	1.54
1199945--1199983	19	2.0	19	90	5	60	41	5	0	53	1.23
1200569--1200596	3	9.3	3	100	0	56	67	0	32	0	0.91
1211912--1212044	67	2.0	67	96	0	248	24	15	20	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217453--1217495	19	2.2	19	83	4	50	55	2	2	39	1.25
1218289--1218395	52	2.1	52	100	0	214	23	30	5	40	1.78
1226515--1226543	7	4.3	7	91	8	51	72	13	13	0	1.13
1226515--1226543	13	2.1	14	93	6	51	72	13	13	0	1.13
1230282--1230335	17	2.9	19	75	10	58	46	1	3	48	1.30
1230645--1230798	5	30.4	5	69	19	79	70	0	1	26	1.02
1230649--1230960	26	12.1	25	68	20	116	67	0	2	28	1.10
1230747--1230967	33	7.0	33	72	15	150	66	1	2	28	1.13
1230740--1230829	39	2.4	37	77	14	94	74	0	1	24	0.89
1230897--1230958	27	2.3	27	89	8	92	72	0	0	27	0.85
1230890--1230949	20	3.0	20	76	9	61	70	0	0	30	0.88
1230808--1231016	97	2.1	100	90	6	331	64	1	3	30	1.20
1231174--1231217	15	2.9	15	93	0	79	31	22	6	38	1.81
1232639--1232712	19	3.7	20	75	15	66	55	0	1	43	1.08
1232676--1232743	25	2.7	23	69	22	57	57	0	0	42	0.98
1232692--1232764	30	2.4	31	84	8	98	52	0	0	47	1.00
1235478--1235780	167	1.8	166	92	3	511	24	12	20	43	1.85
1245041--1245076	15	2.4	15	100	0	72	50	13	8	27	1.71
1246101--1246284	90	2.0	90	89	0	278	29	9	15	45	1.77
1246657--1246725	29	2.4	29	80	0	75	40	23	17	18	1.91
1251031--1251068	19	2.0	19	94	0	67	18	26	2	52	1.58
1257873--1257905	4	8.2	4	100	0	66	75	0	24	0	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259571--1259634	31	2.1	31	84	0	83	20	21	17	40	1.91
1263797--1263861	30	2.2	30	88	5	96	35	3	3	58	1.29
1264570--1264619	20	2.4	21	86	6	75	48	2	0	50	1.12
1290181--1290255	25	3.1	24	73	17	66	56	1	1	41	1.16
1293916--1293961	22	2.0	23	84	12	60	30	4	0	65	1.12
1294088--1294128	21	2.0	21	85	0	55	26	4	4	63	1.35
1296792--1296874	40	2.1	39	84	6	105	66	3	25	4	1.28
1296871--1296936	32	2.1	32	97	0	123	59	9	12	19	1.59
1296898--1296991	42	2.2	41	75	5	98	60	7	15	15	1.56
1298180--1298227	25	1.9	25	83	8	62	66	6	6	20	1.36
1298523--1298624	28	3.7	27	72	11	91	50	2	1	44	1.28
1298523--1298624	27	3.8	28	71	8	86	50	2	1	44	1.28
1300237--1300286	24	2.1	24	92	0	82	18	30	10	42	1.82
1300955--1300993	19	2.1	19	95	0	69	51	0	28	20	1.48
1311570--1311594	12	2.1	12	100	0	50	40	28	8	24	1.83
1312286--1312331	16	2.9	16	83	0	56	17	2	8	71	1.21
1313519--1313757	68	3.5	67	79	2	228	38	9	17	34	1.82
1324797--1324836	21	1.9	21	85	10	55	37	10	22	30	1.87
1344085--1344120	15	2.5	14	86	4	54	61	0	0	38	0.96
1344083--1344129	22	2.1	22	84	0	58	57	0	2	40	1.11
1344083--1344168	26	3.3	27	78	12	92	60	0	1	38	1.04
1365099--1365165	22	3.0	21	77	16	64	49	0	1	49	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1365412--1365449	20	1.9	20	88	0	58	47	0	2	50	1.15
1365857--1365964	39	2.9	39	79	15	129	55	9	3	31	1.49
1365962--1366356	39	10.4	38	77	8	292	31	7	9	51	1.62
1365966--1366317	117	3.1	111	78	8	336	32	7	9	50	1.62
1366242--1366311	34	2.1	33	83	2	86	27	8	8	55	1.59
1367579--1367643	33	1.9	35	87	6	98	66	9	3	21	1.34
1367647--1367748	39	2.6	39	84	0	123	50	10	3	34	1.55
1367770--1367884	36	3.2	35	77	12	101	30	6	11	51	1.64
1367767--1368234	39	12.3	38	76	10	395	31	6	10	51	1.60
1368016--1368189	33	4.7	33	70	22	98	32	6	8	52	1.59
1368048--1368170	41	3.0	41	70	13	128	34	6	8	49	1.60
1369540--1369630	39	2.3	39	86	0	119	54	8	3	32	1.47
1369528--1369630	39	2.6	39	84	0	116	50	8	4	35	1.55
1369651--1369900	36	6.8	36	73	14	154	31	6	11	50	1.64
1369647--1369904	39	6.9	39	74	13	188	31	6	10	51	1.63
1369807--1369874	33	2.1	33	85	0	91	26	7	8	57	1.55
1372029--1372060	17	1.9	16	93	6	55	71	3	0	25	1.00
1375849--1375880	14	2.4	14	94	5	57	59	0	0	40	0.97
1380088--1380153	28	2.4	27	76	18	64	43	3	4	48	1.38
1381811--1381840	2	15.5	2	93	6	53	50	0	0	50	1.00
1382024--1382048	13	1.9	13	100	0	50	48	0	0	52	1.00
1384011--1384247	120	2.0	118	87	1	339	28	18	18	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1399728--1399896	89	1.9	88	87	1	248	46	10	14	28	1.77
1399997--1400038	22	2.0	22	85	4	59	52	0	2	45	1.13
1400495--1400753	89	2.9	88	83	4	331	47	11	13	27	1.78
1409479--1409736	89	2.9	88	83	3	338	47	12	13	26	1.78
1447171--1447197	6	4.5	6	100	0	54	0	0	62	37	0.95
1451028--1451079	17	3.2	17	74	20	65	34	11	38	15	1.83
1467652--1467766	59	1.9	59	87	0	167	23	23	15	37	1.93
1469705--1469769	33	2.0	33	93	6	114	30	13	21	33	1.92
1473147--1473175	3	10.0	3	92	7	51	31	0	0	68	0.89
1475488--1475512	11	2.3	11	100	0	50	36	8	20	36	1.82

Tables:   1   2   3   4   5   6   7   8