genome.fa.s18.2.7.7.80.10.50.1000.4.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_018397271.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_89.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4184555

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

This is table  4  of  11  ( 1249 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)
1046818--1046861	21	2.0	22	86	4	63	61	9	0	29	1.27
1047440--1047525	27	3.2	27	83	0	118	17	11	24	46	1.81
1048882--1048955	38	1.9	38	86	5	105	39	10	21	28	1.87
1050267--1050304	20	1.9	20	88	0	58	44	15	10	28	1.80
1063542--1063576	16	2.2	16	90	10	54	85	0	11	2	0.69
1063545--1063575	9	3.4	9	95	0	53	90	0	6	3	0.55
1067197--1067225	14	2.1	14	100	0	58	27	0	6	65	1.18
1068902--1068953	16	3.1	17	69	8	52	65	9	3	21	1.38
1069448--1069499	25	2.0	27	92	7	90	38	7	3	50	1.50
1071635--1071663	15	1.9	15	100	0	58	24	0	13	62	1.32
1083700--1083746	25	1.9	24	91	4	76	42	10	8	38	1.70
1087271--1087299	5	5.8	5	100	0	58	0	0	17	82	0.66
1087821--1087854	16	2.1	17	88	5	52	35	0	20	44	1.52
1090783--1090980	74	2.7	74	76	1	200	42	14	17	25	1.87
1098470--1098510	21	2.1	19	86	9	55	60	9	0	29	1.28
1102550--1102593	21	2.1	21	100	0	88	25	13	13	47	1.79
1102553--1102605	21	2.5	21	90	0	70	28	13	13	45	1.80
1107992--1108044	12	4.1	13	80	11	56	79	1	18	0	0.83
1107992--1108045	7	7.6	7	79	10	56	77	1	20	0	0.86
1107992--1108045	21	2.5	21	85	8	65	77	1	20	0	0.86
1107997--1108045	17	2.8	17	79	11	55	79	0	20	0	0.73
1109459--1109513	25	2.2	25	80	0	65	27	12	30	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1112399--1112423	13	1.9	13	100	0	50	48	16	0	36	1.46
1113222--1113314	37	2.5	37	77	5	98	44	15	16	24	1.86
1114741--1114876	28	5.0	28	78	8	127	37	11	9	41	1.73
1116016--1116040	10	2.5	10	100	0	50	48	20	0	32	1.50
1117650--1117691	20	2.0	21	86	4	59	40	21	9	28	1.84
1121149--1121190	21	2.0	21	100	0	84	38	14	23	23	1.92
1128553--1128585	15	2.1	16	94	5	59	51	15	12	21	1.75
1135607--1135746	73	1.9	73	82	2	174	29	22	14	34	1.93
1138614--1138661	24	2.0	24	84	8	62	60	4	2	33	1.27
1139397--1139446	2	25.0	2	79	0	55	42	0	10	48	1.37
1140708--1140754	21	2.2	21	77	7	51	25	17	29	27	1.97
1140811--1140851	3	13.7	3	84	0	55	7	0	58	34	1.26
1140811--1140854	15	2.9	15	96	0	79	9	0	56	34	1.31
1140811--1140863	15	3.5	15	89	5	63	9	1	54	33	1.43
1145599--1145628	6	5.0	6	100	0	60	33	16	50	0	1.46
1146429--1146483	26	2.3	23	78	9	56	61	1	1	34	1.17
1174668--1174707	20	2.0	21	90	5	64	45	0	7	47	1.31
1174948--1175001	23	2.3	23	96	0	99	46	3	14	35	1.63
1183407--1183482	20	3.8	20	70	1	55	61	7	1	28	1.32
1183572--1183616	22	2.0	22	87	8	65	55	8	6	28	1.56
1184839--1185602	10	73.5	10	65	18	106	51	13	5	29	1.64
1184899--1184996	41	2.4	41	80	9	103	48	17	4	29	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1185011--1185071	22	2.9	20	74	11	59	45	6	4	42	1.51
1185179--1185288	21	5.2	20	71	13	69	50	16	3	29	1.62
1185295--1185386	21	4.2	21	74	10	78	55	13	5	26	1.59
1185295--1185426	21	6.2	22	69	15	64	57	11	3	27	1.51
1185431--1185474	21	2.1	21	86	0	61	45	13	6	34	1.70
1185186--1185924	301	2.4	303	81	7	799	50	13	5	30	1.64
1185823--1185873	22	2.3	21	80	9	57	47	7	7	37	1.62
1185576--1187059	321	4.5	319	76	12	1246	50	13	6	29	1.67
1186308--1186384	20	3.8	21	71	8	70	62	9	1	27	1.33
1186329--1186394	20	3.3	20	73	14	64	63	7	1	27	1.30
1186507--1186572	10	6.6	10	73	11	55	53	18	1	27	1.54
1186503--1186571	21	3.4	20	74	6	68	50	18	2	27	1.61
1186534--1186582	21	2.3	21	78	0	53	59	14	2	24	1.46
1186503--1186582	41	2.0	40	85	5	106	55	16	2	26	1.54
1186639--1186708	20	3.7	18	69	17	52	60	7	4	28	1.43
1186729--1186803	32	2.4	32	84	8	93	41	17	9	32	1.81
1186899--1186977	21	3.8	21	70	0	59	55	13	6	24	1.61
1187056--1187113	22	2.8	21	78	5	73	60	13	5	20	1.53
1187056--1187114	21	2.8	20	77	7	73	59	13	5	22	1.54
1187282--1187400	21	5.8	21	73	15	61	50	13	6	29	1.67
1187317--1187496	10	17.2	10	69	14	80	47	15	7	30	1.72
1187455--1187494	21	1.9	21	84	0	53	45	17	7	30	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1190395--1190442	19	2.6	19	90	3	71	58	0	2	39	1.10
1191404--1191446	21	2.0	21	95	0	77	74	0	25	0	0.82
1191882--1191934	25	2.1	25	85	0	70	28	16	32	22	1.96
1196701--1197988	641	2.0	644	99	0	2537	31	18	13	36	1.89
1198084--1198116	17	1.9	17	93	0	57	54	12	18	15	1.71
1198773--1199361	292	2.0	293	96	0	1090	44	13	15	26	1.84
1201977--1202009	3	11.0	3	93	0	57	33	36	0	30	1.58
1204832--1204871	17	2.4	17	100	0	80	32	20	5	42	1.73
1223063--1223195	70	1.9	70	82	3	169	37	21	8	33	1.83
1223054--1223218	70	2.4	70	75	6	163	33	21	10	33	1.88
1226763--1226840	40	2.0	40	94	0	138	17	23	24	34	1.96
1232580--1232631	21	2.5	21	81	3	61	40	19	17	23	1.91
1238525--1238549	12	2.1	12	100	0	50	40	0	0	60	0.97
1239420--1239464	20	2.3	19	85	11	56	46	11	13	28	1.77
1239568--1239742	34	5.0	34	81	7	165	37	22	14	25	1.92
1239580--1239742	68	2.3	70	83	5	195	37	22	15	25	1.93
1239609--1239762	68	2.3	64	81	14	163	36	22	15	25	1.94
1239761--1239788	13	2.2	13	100	0	56	78	0	7	14	0.95
1243827--1243894	3	22.3	3	85	8	93	63	4	0	32	1.14
1246780--1246828	24	2.0	25	84	4	64	34	2	4	59	1.28
1254911--1254982	31	2.3	32	82	4	92	27	4	11	56	1.52
1257296--1257324	6	4.8	6	100	0	58	17	51	31	0	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259982--1260100	61	2.0	60	83	5	150	35	15	15	34	1.88
1264607--1264642	12	2.9	13	84	16	58	0	41	16	41	1.48
1271466--1271567	53	1.9	53	82	7	127	30	13	21	34	1.92
1271582--1271725	50	2.9	49	77	8	148	31	12	19	36	1.89
1289727--1289841	49	2.3	50	82	5	137	34	23	9	32	1.87
1318538--1318700	73	2.2	73	79	6	175	43	15	17	23	1.87
1319087--1319134	20	2.3	21	86	10	64	39	12	12	35	1.81
1319070--1319205	52	2.7	50	82	5	148	35	15	16	32	1.91
1322028--1322100	37	1.9	38	83	10	96	23	15	27	34	1.94
1326335--1326386	23	2.4	21	78	9	61	46	0	3	50	1.20
1326432--1326486	21	2.6	21	100	0	110	52	0	0	47	1.00
1335888--1335915	2	14.0	2	100	0	56	50	0	0	50	1.00
1345269--1345354	44	2.0	44	100	0	172	46	11	9	32	1.72
1353948--1354019	30	2.5	29	81	14	87	18	26	4	51	1.64
1353956--1354014	30	2.0	31	87	9	88	18	30	5	45	1.71
1354597--1354638	14	2.8	15	76	23	52	45	0	0	54	0.99
1360399--1360437	17	2.3	16	83	12	51	61	10	0	28	1.28
1368093--1368263	68	2.5	68	85	0	216	35	11	18	35	1.86
1377024--1377074	26	2.0	26	88	0	75	27	5	15	50	1.67
1376986--1377428	212	2.1	213	85	3	595	25	19	10	43	1.84
1381539--1381601	27	2.5	26	83	14	80	46	1	1	50	1.20
1381590--1381655	34	1.9	34	90	6	107	42	1	4	51	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1381725--1381937	108	2.0	107	91	2	347	38	2	1	56	1.25
1389449--1389518	28	2.5	28	85	2	95	62	17	1	18	1.40
1391943--1391974	14	2.3	14	100	0	64	59	28	0	12	1.34
1391948--1392037	37	2.4	37	90	0	144	48	24	4	22	1.68
1401389--1401431	1	43.0	1	95	0	77	97	2	0	0	0.16
1402006--1402036	11	2.8	11	95	0	53	0	12	0	87	0.55
1402005--1402034	15	1.9	16	93	6	53	0	13	0	86	0.57
1406956--1407000	4	11.2	4	95	0	81	48	24	2	24	1.62
1411753--1412123	184	2.0	184	97	0	697	29	21	10	38	1.86
1412192--1412216	2	12.5	2	100	0	50	0	48	0	52	1.00

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