genome.fa.s26.2.7.7.80.10.50.1000.3.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_018397279.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_239.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2022356

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 501 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)
1067622--1067675	28	1.9	28	88	0	81	44	14	16	24	1.85
1082532--1082570	18	2.4	17	87	12	55	46	0	0	53	1.00
1089992--1090057	30	2.2	30	78	5	71	30	28	16	24	1.97
1099378--1099407	11	2.8	11	95	5	53	53	16	30	0	1.44
1103361--1103420	30	2.0	30	100	0	120	46	16	3	33	1.64
1107028--1107065	16	2.3	17	81	4	51	47	0	44	7	1.32
1138492--1138539	19	2.5	19	82	0	60	58	2	4	35	1.29
1144730--1144771	20	2.1	20	100	0	84	50	0	4	45	1.23
1150638--1150713	23	3.2	22	74	17	71	52	2	2	42	1.29
1160149--1160333	13	14.3	13	66	21	63	68	0	1	29	1.03
1160155--1160336	7	27.1	7	70	12	80	68	0	1	29	1.03
1160246--1160332	6	13.7	6	72	15	68	74	0	1	24	0.88
1160154--1160316	87	1.8	88	84	6	220	67	0	1	30	1.06
1160244--1160327	26	3.2	26	78	8	82	73	0	1	25	0.90
1160244--1160332	39	2.3	39	86	9	121	74	0	1	24	0.89
1160247--1160337	32	2.8	32	81	6	112	72	0	1	26	0.91
1161010--1161097	3	29.3	3	81	11	83	30	2	5	61	1.31
1160973--1161090	54	2.2	54	95	0	209	28	4	10	56	1.51
1161205--1161235	3	10.3	3	100	0	62	32	0	0	67	0.91
1161026--1161295	138	1.9	139	94	4	479	31	11	8	49	1.68
1162057--1162116	29	2.1	29	87	0	84	61	0	1	36	1.06
1163047--1163072	3	8.7	3	100	0	52	30	34	34	0	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1170603--1170667	30	2.2	30	94	0	112	12	29	26	32	1.92
1176605--1176629	2	12.5	2	100	0	50	52	0	0	48	1.00
1176629--1176655	2	13.5	2	100	0	54	51	0	48	0	1.00
1187889--1187931	22	2.0	22	82	8	54	25	4	2	67	1.22
1189313--1189346	17	2.0	17	100	0	68	58	11	0	29	1.33
1197446--1197504	28	2.1	29	84	9	77	55	3	13	27	1.54
1202202--1202385	66	2.8	66	88	4	264	34	27	15	22	1.94
1202625--1203055	57	7.9	54	82	9	529	29	28	16	25	1.97
1202625--1203045	111	3.9	110	86	8	567	29	28	16	25	1.97
1202874--1202964	45	2.0	45	95	0	164	27	29	17	25	1.97
1202706--1203023	102	3.0	102	88	5	431	29	27	16	25	1.97
1202763--1203055	159	1.9	156	88	2	442	30	28	17	23	1.97
1227494--1227530	16	2.3	16	86	13	58	43	2	5	48	1.40
1239120--1239150	7	4.6	7	92	8	55	0	58	0	41	0.98
1239113--1239150	20	2.0	20	90	10	62	0	57	0	42	0.98
1241463--1241492	2	15.0	2	100	0	60	50	0	0	50	1.00
1249078--1249105	2	14.0	2	100	0	56	0	50	0	50	1.00
1266536--1266583	24	2.0	24	83	0	60	33	0	6	60	1.22
1269625--1269654	14	2.1	14	100	0	60	20	0	6	73	1.05
1269815--1269866	15	3.6	15	79	7	63	42	1	0	55	1.10
1269813--1269869	13	4.2	13	74	12	51	38	1	0	59	1.08
1269821--1269888	26	2.5	28	76	13	70	38	2	1	57	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1285040--1285079	19	2.2	19	86	13	57	42	52	0	5	1.23
1287549--1287574	13	2.0	13	100	0	52	46	7	30	15	1.74
1292434--1292819	106	3.5	108	83	9	467	24	16	28	30	1.97
1292434--1292819	57	7.0	54	85	8	485	24	16	28	30	1.97
1293054--1293199	62	2.3	64	81	10	169	23	15	28	32	1.95
1300270--1300316	24	2.0	25	83	8	62	51	2	2	44	1.25
1306567--1306608	17	2.4	18	80	4	50	50	4	0	45	1.23
1306709--1306734	2	13.0	2	100	0	52	50	0	0	50	1.00
1307271--1307319	21	2.4	21	79	3	55	65	4	2	28	1.22
1326924--1327036	50	2.3	50	96	0	208	30	20	10	38	1.86
1331299--1331349	2	25.5	2	91	0	84	0	47	1	50	1.12
1331284--1331349	22	3.0	22	82	8	64	3	43	3	50	1.33
1332043--1332095	24	2.2	24	100	0	106	22	3	33	39	1.72
1334238--1334315	6	12.8	6	70	17	54	78	3	14	3	1.04
1334237--1334291	18	3.0	18	84	12	60	80	1	14	3	0.94
1334237--1334291	19	2.9	19	79	15	53	80	1	14	3	0.94
1334239--1334315	26	2.8	26	76	14	75	79	3	12	3	1.01
1334259--1334303	18	2.5	17	86	10	63	80	6	11	2	0.99
1335142--1335175	14	2.4	14	95	0	59	55	0	0	44	0.99
1335826--1335894	24	2.9	24	80	6	70	59	1	1	37	1.15
1335857--1335900	23	2.0	22	90	4	70	68	0	0	31	0.90
1346620--1346657	2	19.0	2	100	0	76	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1349305--1349368	22	2.7	24	83	11	71	45	0	0	54	0.99
1349330--1349384	22	2.5	21	82	8	65	40	0	0	60	0.97
1349738--1349772	18	1.9	18	88	11	54	65	0	5	28	1.15
1351189--1351225	2	18.5	2	100	0	74	51	0	0	48	1.00
1353676--1353718	17	2.4	18	84	7	52	23	2	0	74	0.93
1354841--1354897	15	3.8	15	83	0	69	33	8	24	33	1.86
1355228--1355304	33	2.3	35	78	13	99	27	1	0	71	0.94
1355228--1355307	14	5.6	14	70	29	62	28	1	0	70	0.96
1371659--1371864	71	2.9	69	81	6	234	41	11	23	23	1.87
1375947--1375978	7	4.2	8	92	8	50	15	0	0	84	0.63
1375949--1375975	7	3.9	7	100	0	54	11	0	0	88	0.50
1378966--1378993	2	14.0	2	100	0	56	50	0	0	50	1.00
1383460--1383511	15	3.5	15	83	0	59	34	9	25	30	1.88
1383702--1383734	12	2.8	12	82	17	50	39	6	0	54	1.25
1383709--1383790	33	2.5	34	82	9	107	34	1	0	64	1.01
1383690--1383819	26	4.9	25	75	15	68	33	2	0	63	1.07
1383717--1383801	18	4.7	18	67	23	54	32	1	0	65	1.00
1383690--1383824	28	5.2	25	73	19	64	34	2	0	62	1.10
1383842--1384028	26	6.6	29	69	22	96	32	1	0	65	1.07
1383849--1384030	21	8.4	21	68	20	108	32	1	0	64	1.07
1383665--1384090	111	3.9	112	92	6	703	34	2	0	62	1.13
1383720--1384100	27	14.0	26	69	18	138	33	2	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1383828--1384141	20	15.3	20	65	23	102	32	2	0	64	1.12
1384126--1384192	24	2.7	26	72	4	66	31	1	1	65	1.10
1385995--1386032	8	4.9	8	80	6	51	73	0	0	26	0.83
1385991--1386023	15	2.1	16	94	5	59	66	0	0	33	0.92
1385995--1386029	15	2.3	15	85	0	52	77	0	0	22	0.78
1399006--1399053	15	3.3	15	77	14	55	58	0	0	41	0.98
1398998--1399053	29	2.0	28	89	3	85	58	0	0	41	0.98
1399021--1399094	23	3.3	23	79	5	71	50	0	0	50	1.00
1399076--1399132	15	3.6	16	81	13	55	40	0	0	59	0.97
1399313--1399344	16	2.0	16	93	0	55	46	12	15	25	1.81
1400009--1400069	13	4.5	14	73	8	63	68	0	0	31	0.89
1400011--1400087	33	2.3	33	86	10	104	70	0	1	28	0.96
1400698--1400728	15	2.1	15	93	0	53	48	0	0	51	1.00
1408261--1408301	6	6.8	6	85	0	55	48	46	2	2	1.28
1408979--1409024	23	2.1	22	88	8	67	23	26	10	39	1.88
1409116--1409146	16	1.9	16	100	0	62	45	6	3	45	1.45
1411600--1411658	23	2.5	23	86	2	73	20	27	20	32	1.97
1411619--1411671	23	2.3	23	90	0	88	16	30	20	32	1.95
1412006--1412318	80	3.9	80	92	2	486	42	7	11	38	1.69
1412135--1412258	38	3.2	38	63	13	97	43	6	9	40	1.63
1415958--1415995	2	19.0	2	100	0	76	50	0	0	50	1.00
1445552--1445591	18	2.2	19	86	4	55	35	2	0	62	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1452231--1452358	39	3.2	41	76	12	99	44	14	4	35	1.67
1452274--1452358	40	2.2	39	82	6	100	42	14	4	38	1.66
1452283--1452358	40	1.9	40	86	2	109	42	14	5	38	1.68
1463441--1463563	60	2.0	60	82	3	149	34	8	27	28	1.87
1463476--1463836	111	3.3	111	78	6	351	36	8	29	25	1.86
1463763--1463871	50	2.2	50	81	6	123	34	8	31	25	1.86
1464235--1464320	45	1.9	45	90	2	138	31	9	29	30	1.88
1464386--1464481	46	2.1	46	86	7	133	38	6	31	23	1.80
1464464--1464717	105	2.4	107	80	8	250	38	9	25	26	1.85
1464952--1465211	105	2.4	105	80	5	261	39	8	26	25	1.85

Tables:   1   2   3   4   5