genome.fa.s16.2.7.7.80.10.50.1000.4.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_018397269.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5666189

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

This is table  4  of  14  ( 1598 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)
1201744--1201799	23	2.4	24	82	8	62	23	1	1	73	1.03
1207299--1207401	45	2.3	45	79	18	133	33	13	17	34	1.89
1207389--1207454	31	2.2	31	88	2	98	39	10	13	36	1.80
1207389--1207462	31	2.4	31	86	2	87	36	12	14	36	1.84
1207537--1207596	30	2.0	30	87	6	86	41	15	10	33	1.80
1222442--1222478	19	1.9	19	94	0	65	35	2	0	62	1.10
1224628--1227953	252	13.3	250	77	6	2647	34	11	7	46	1.69
1224608--1227953	502	6.7	501	78	5	2796	34	11	7	46	1.69
1228406--1228534	68	1.9	68	90	1	204	24	8	8	58	1.56
1229518--1229553	17	2.1	17	94	0	63	44	8	16	30	1.77
1240031--1240363	167	2.0	167	93	0	576	31	19	15	32	1.94
1245535--1245629	47	2.0	47	87	4	138	17	12	27	42	1.86
1259030--1259072	15	2.9	15	85	0	59	44	11	13	30	1.80
1259293--1259372	33	2.4	33	87	6	108	26	6	1	66	1.23
1265732--1265760	2	15.0	2	92	7	51	51	0	0	48	1.00
1269837--1270114	141	2.0	141	88	0	412	31	12	21	33	1.91
1278425--1278602	62	2.9	61	79	7	153	57	1	3	37	1.27
1278523--1278580	26	2.3	25	80	8	64	56	0	3	39	1.16
1280326--1280366	21	2.0	21	85	9	57	48	4	7	39	1.52
1281088--1281119	16	1.9	17	93	6	57	37	0	9	53	1.34
1290913--1290939	3	9.0	3	100	0	54	33	0	0	66	0.92
1292153--1292180	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1294857--1294895	12	3.2	12	85	0	51	58	2	38	0	1.12
1295656--1295688	16	2.0	17	88	5	50	57	0	3	39	1.14
1295600--1295835	82	2.9	81	78	7	253	45	6	8	39	1.60
1309865--1309902	2	19.0	2	100	0	76	50	0	0	50	1.00
1310964--1311057	46	2.1	45	85	2	125	32	7	19	40	1.79
1312785--1312857	3	24.3	3	77	5	58	0	42	1	56	1.08
1312785--1312840	21	2.7	21	86	5	78	0	44	1	53	1.11
1312785--1312847	15	4.3	15	77	2	65	0	42	1	55	1.09
1313485--1313542	30	2.0	29	83	6	73	39	1	0	58	1.08
1322365--1322399	6	5.8	6	86	0	52	11	65	2	20	1.37
1322364--1322402	12	3.2	12	85	0	60	10	61	7	20	1.52
1322365--1322417	24	2.1	27	89	10	85	13	58	3	24	1.51
1337629--1337912	93	3.1	93	89	4	439	27	19	15	38	1.91
1341581--1341625	2	22.5	2	100	0	90	48	0	0	51	1.00
1347000--1347120	61	2.0	61	88	1	181	41	6	21	30	1.79
1349044--1349073	15	2.1	14	93	6	51	50	0	0	50	1.00
1349142--1349261	21	5.6	21	67	18	59	46	3	6	43	1.46
1348756--1349612	337	2.6	329	81	12	961	45	6	7	40	1.58
1349862--1349913	19	2.7	19	73	11	52	59	0	0	40	0.97
1350247--1350284	15	2.5	15	84	16	51	42	0	2	55	1.14
1351323--1351355	17	1.9	17	88	11	50	9	9	3	78	1.05
1353330--1353374	21	2.3	19	85	11	63	64	2	0	33	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1353332--1353374	11	4.0	11	80	17	54	62	2	0	34	1.08
1359370--1359405	19	1.9	18	88	5	54	44	25	11	19	1.83
1360458--1360509	17	3.2	17	82	12	65	48	5	0	46	1.26
1360458--1360509	15	3.2	16	82	17	63	48	5	0	46	1.26
1364308--1364367	24	2.5	25	78	8	70	43	10	10	36	1.72
1381510--1381569	25	2.6	23	76	19	63	56	1	0	41	1.09
1381777--1381823	18	2.6	18	79	0	58	46	12	6	34	1.67
1382294--1382393	42	2.3	44	86	3	132	42	3	2	53	1.28
1382318--1382422	44	2.4	43	79	4	111	42	2	3	50	1.35
1382399--1382445	22	2.1	22	81	14	53	48	2	6	42	1.40
1386994--1387028	18	1.9	18	88	0	52	42	8	8	40	1.66
1388285--1388309	6	4.2	6	100	0	50	48	36	0	16	1.46
1404550--1404592	20	2.0	20	86	8	59	4	9	2	83	0.87
1404757--1404807	25	2.3	22	83	16	61	33	13	5	47	1.67
1408113--1408164	18	2.7	19	76	21	54	53	0	3	42	1.19
1410348--1410411	29	2.2	30	91	2	103	34	0	3	62	1.11
1419400--1419430	16	1.9	16	100	0	62	12	12	16	58	1.64
1419975--1420097	66	1.9	64	93	5	212	36	4	8	49	1.56
1420396--1420421	2	13.0	2	100	0	52	50	0	0	50	1.00
1420949--1421050	49	2.1	48	87	5	143	35	2	4	56	1.36
1424267--1424521	101	2.5	102	91	2	399	41	15	16	25	1.88
1431199--1431252	26	2.0	27	89	3	83	40	14	11	33	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1433031--1433125	26	3.8	25	73	14	70	38	9	5	46	1.59
1433031--1433120	25	3.6	24	74	15	60	37	8	5	47	1.58
1433765--1433823	30	2.0	30	93	0	100	49	6	8	35	1.60
1439074--1439330	121	2.1	122	84	2	331	46	12	12	29	1.77
1439074--1439399	121	2.7	117	75	11	318	46	13	10	30	1.76
1446837--1446892	27	2.1	27	89	0	85	28	16	26	28	1.97
1454903--1454949	21	2.2	20	85	11	58	8	59	0	31	1.27
1460064--1460088	1	25.0	1	100	0	50	0	100	0	0	0.00
1461435--1461463	14	2.1	14	100	0	58	48	17	13	20	1.81
1466735--1466764	2	15.0	2	92	0	51	46	0	3	50	1.18
1467483--1467510	3	9.3	3	100	0	56	0	32	0	67	0.91
1469812--1469894	41	2.0	41	95	0	148	24	10	18	46	1.80
1481707--1481838	63	2.1	62	86	6	178	43	14	15	26	1.84
1483579--1483646	22	2.8	23	85	12	84	47	0	1	51	1.09
1483616--1483671	16	3.6	15	83	9	60	50	1	1	46	1.22
1483622--1483677	16	3.6	16	83	7	53	46	1	3	48	1.30
1483962--1483986	13	1.9	13	100	0	50	12	24	0	64	1.27
1493060--1493086	13	2.1	13	100	0	54	44	7	14	33	1.73
1493845--1493979	35	3.9	35	78	1	103	27	14	13	45	1.82
1494726--1494820	28	3.4	28	77	8	122	25	29	9	35	1.87
1494757--1494849	27	3.4	27	76	8	116	23	24	11	39	1.88
1494726--1494849	55	2.3	55	97	0	230	24	27	10	37	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1494902--1494967	29	2.3	29	79	12	73	24	28	9	37	1.86
1496153--1496206	26	2.1	26	86	3	74	33	3	0	62	1.12
1496151--1496243	28	3.4	28	77	11	102	34	2	0	63	1.07
1496352--1496396	19	2.2	20	84	7	56	2	22	2	73	1.05
1496551--1496588	8	4.6	8	84	15	51	34	0	0	65	0.93
1496551--1496588	16	2.3	17	95	4	69	34	0	0	65	0.93
1497027--1497088	26	2.5	25	80	15	58	59	0	3	37	1.13
1498732--1498813	24	3.5	23	71	17	71	53	0	0	46	1.00
1504080--1504122	23	1.9	22	90	4	68	34	6	2	55	1.39
1522360--1522388	2	14.5	2	100	0	58	48	0	0	51	1.00
1525178--1525273	36	2.9	32	75	17	95	40	12	16	30	1.86
1526008--1526046	2	19.5	2	100	0	78	48	0	0	51	1.00
1535863--1535888	2	13.0	2	100	0	52	50	0	0	50	1.00
1538873--1538901	2	14.5	2	100	0	58	48	0	0	51	1.00
1549742--1549832	15	6.1	15	87	1	130	38	5	21	34	1.77
1549742--1549825	30	2.8	30	96	0	150	36	4	22	35	1.76
1549987--1550128	27	5.1	27	68	20	89	34	2	0	62	1.12
1550045--1550123	7	11.7	7	76	12	69	32	0	0	67	0.91
1550029--1550196	49	3.2	49	70	22	149	33	2	1	62	1.18
1550052--1550114	22	2.9	23	84	15	89	33	0	0	66	0.92
1550050--1550198	56	2.7	56	72	16	139	33	2	0	63	1.14
1550055--1550124	22	3.3	21	80	20	76	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549992--1550137	29	5.2	29	66	22	87	34	2	0	62	1.15
1549975--1550198	111	2.0	113	92	4	382	33	3	0	62	1.17
1550276--1550344	7	9.7	7	71	20	54	26	1	0	72	0.93
1550281--1550344	5	12.4	5	72	18	51	26	1	0	71	0.94
1550186--1550350	17	9.3	19	67	19	81	29	3	0	66	1.11
1552178--1552211	17	2.0	17	88	11	52	58	11	17	11	1.62
1554455--1554487	2	16.5	2	93	0	57	48	0	3	48	1.17
1555344--1555374	14	2.1	15	94	5	55	32	0	6	61	1.21
1574892--1574926	3	11.7	3	93	0	61	31	0	2	65	1.07
1574893--1574931	12	3.2	12	85	7	53	30	0	5	64	1.15

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