genome.fa.s9.2.7.7.80.10.50.1000.3.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_018397262.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_67.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8984705

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  3  of  20  ( 2302 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)
861567--861627	27	2.3	27	81	16	65	63	1	6	27	1.28
862298--862445	74	2.0	74	95	0	269	31	18	14	35	1.90
862315--862461	74	2.0	74	84	4	190	32	19	14	34	1.91
862833--862893	31	1.9	33	86	6	90	50	0	1	47	1.10
862870--862956	31	2.8	31	76	11	81	34	3	5	56	1.40
866956--866980	6	4.2	6	100	0	50	36	16	16	32	1.90
867200--867233	12	2.8	12	90	0	50	0	17	0	82	0.67
874380--874455	31	2.5	30	79	16	84	51	6	2	39	1.42
874593--874641	13	3.8	13	86	5	64	55	0	0	44	0.99
874590--874639	15	3.4	15	74	20	52	56	0	0	44	0.99
874959--875036	29	2.8	28	79	12	88	39	1	1	57	1.15
876816--876873	30	1.9	30	92	0	98	36	12	5	46	1.63
876893--876956	30	2.2	29	85	2	83	50	7	10	31	1.66
876906--876966	29	2.1	30	93	3	106	49	6	8	36	1.59
877169--877206	3	12.7	3	100	0	76	65	0	0	34	0.93
889538--889773	117	2.0	117	98	0	454	37	14	16	30	1.90
894931--894962	2	16.0	2	100	0	64	50	0	50	0	1.00
906629--906653	2	12.5	2	100	0	50	52	0	48	0	1.00
911551--911600	25	2.0	25	88	3	75	60	0	34	6	1.21
911565--911618	24	2.3	23	81	6	63	59	1	35	3	1.26
912019--912123	54	2.0	52	90	3	165	30	10	6	52	1.61
913716--913752	19	1.9	19	88	0	56	56	0	8	35	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
923693--923754	12	5.2	12	76	1	54	30	4	1	62	1.25
924422--924471	24	2.1	24	92	0	82	36	30	0	34	1.58
927376--927429	29	1.9	28	88	7	83	33	1	0	64	1.04
927380--927440	29	2.3	26	76	15	63	39	1	0	59	1.08
927739--927793	18	2.8	21	72	16	62	43	0	0	56	0.99
929108--929174	24	2.8	23	78	10	73	53	0	0	46	1.00
929824--929862	20	2.0	20	94	0	69	33	5	33	28	1.79
930872--930936	24	2.6	25	78	11	71	55	0	0	44	0.99
937110--937146	18	2.0	19	89	5	58	51	13	0	35	1.41
940848--940890	21	2.0	21	82	8	52	62	2	0	34	1.08
944986--945016	2	15.5	2	100	0	62	48	0	0	51	1.00
945395--945437	2	22.0	2	95	4	79	0	51	0	48	1.00
957011--957091	29	2.8	28	70	17	74	33	3	4	58	1.37
957622--957656	2	18.0	2	88	5	54	51	2	0	45	1.16
960927--960955	7	4.1	7	100	0	58	13	17	55	13	1.70
969974--970000	14	1.9	14	100	0	54	22	22	7	48	1.75
973344--973401	22	2.6	21	78	10	62	24	5	32	37	1.77
973878--973932	28	1.9	29	85	3	76	36	1	0	61	1.06
992764--992804	16	2.6	16	85	11	50	63	0	36	0	0.95
993456--993497	12	3.3	13	80	12	52	52	7	0	40	1.29
994414--994453	18	2.2	18	95	0	71	22	20	32	25	1.98
994982--995035	15	3.2	17	79	15	58	75	0	22	1	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
994996--995040	22	2.0	23	86	4	65	80	2	17	0	0.82
994996--995031	13	3.0	13	80	19	51	80	0	19	0	0.71
995558--995671	39	2.8	41	77	15	119	27	6	10	56	1.57
1003498--1003534	18	2.1	18	100	0	74	27	37	0	35	1.57
1006103--1006144	18	2.3	18	100	0	84	45	4	7	42	1.52
1008543--1008603	4	15.2	4	92	0	59	39	0	11	49	1.39
1008543--1008603	18	3.4	18	88	0	77	39	0	11	49	1.39
1008558--1008600	22	2.0	22	100	0	86	32	0	16	51	1.45
1012704--1012768	30	2.2	30	83	2	78	61	1	0	36	1.05
1012858--1012907	3	16.7	3	95	0	91	32	0	2	66	1.03
1013324--1013353	2	15.5	2	93	6	53	53	0	0	46	1.00
1013512--1013567	29	1.9	29	96	0	103	32	3	1	62	1.23
1013768--1013845	29	2.7	30	78	13	99	56	0	2	41	1.13
1021020--1021054	17	2.1	17	89	5	54	34	0	0	65	0.93
1030451--1030504	27	2.0	27	96	0	99	25	9	24	40	1.85
1052217--1052259	19	2.3	19	91	0	68	37	2	0	60	1.10
1053853--1053888	17	2.0	19	89	10	58	38	2	0	58	1.13
1061294--1061363	31	2.3	29	83	11	79	22	28	22	25	1.99
1062876--1063053	90	2.0	90	84	4	234	27	12	14	45	1.81
1063285--1063363	27	2.9	27	78	0	86	35	16	17	30	1.92
1063798--1063852	27	2.1	26	83	10	67	36	0	3	60	1.15
1063791--1063862	34	2.1	33	82	14	85	37	0	2	59	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1065177--1065297	42	2.8	42	80	14	140	41	12	4	42	1.62
1071269--1071310	1	42.0	1	90	0	66	2	0	95	2	0.32
1074969--1075001	16	2.0	17	88	5	50	27	0	6	66	1.15
1078974--1079018	20	2.2	21	84	4	56	6	17	0	75	1.01
1079186--1079224	18	2.3	16	82	8	51	30	0	0	69	0.89
1079171--1079237	30	2.4	28	80	7	73	35	0	0	64	0.94
1079219--1079262	15	2.9	14	81	18	52	50	0	0	50	1.00
1079219--1079262	16	2.9	15	86	6	61	50	0	0	50	1.00
1079225--1079262	15	2.5	15	91	4	58	52	0	0	47	1.00
1079412--1079452	21	2.0	21	85	9	57	63	0	0	36	0.95
1096529--1096568	7	5.9	7	85	5	55	0	0	87	12	0.54
1099074--1099102	4	7.2	4	100	0	58	24	24	0	51	1.48
1110030--1110067	19	2.0	20	84	5	51	39	0	5	55	1.23
1122794--1122910	30	3.9	30	69	17	82	37	9	9	43	1.69
1122863--1122964	29	3.5	28	84	6	114	40	12	7	39	1.72
1122793--1122964	59	2.9	56	75	10	157	37	12	9	41	1.75
1124822--1124858	17	2.2	17	95	4	67	24	2	16	56	1.53
1126514--1126681	60	2.8	60	82	3	185	28	14	29	27	1.95
1126465--1126717	60	4.2	59	75	7	172	30	13	30	25	1.94
1129469--1129587	53	2.2	53	100	0	238	48	10	22	17	1.78
1150741--1150799	30	1.9	31	82	3	75	50	8	8	32	1.63
1150844--1150903	20	3.0	20	72	13	52	41	1	6	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1150935--1150993	29	2.1	28	83	3	73	64	0	0	35	0.94
1150947--1150993	12	3.8	12	76	18	51	68	0	0	31	0.90
1164392--1164501	26	4.3	26	78	18	106	29	9	9	52	1.63
1164392--1164501	24	4.3	26	78	16	81	29	9	9	52	1.63
1164422--1164499	24	3.2	25	82	14	83	29	7	10	52	1.63
1164598--1164665	26	2.6	25	81	6	82	32	7	10	50	1.64
1164601--1164681	26	3.2	25	75	8	76	29	8	11	50	1.67
1165928--1166036	55	2.0	52	85	5	146	31	10	9	49	1.68
1166063--1166104	18	2.3	19	83	4	50	40	0	2	57	1.12
1170943--1171502	277	2.0	278	92	1	937	41	7	9	41	1.65
1175296--1175355	25	2.4	25	80	5	68	70	0	0	30	0.88
1175298--1175371	24	3.0	24	86	7	87	71	1	0	27	0.94
1183514--1183555	18	2.4	17	77	14	50	52	0	0	47	1.00
1183655--1183698	21	2.1	21	83	8	54	43	0	0	56	0.99
1189377--1189416	3	13.3	3	100	0	80	65	0	0	35	0.93
1191051--1191078	2	14.0	2	100	0	56	50	0	0	50	1.00
1196258--1196486	113	2.0	115	92	1	381	34	20	17	27	1.95
1209789--1209820	14	2.3	14	94	0	55	50	37	3	9	1.51
1211321--1211428	22	4.9	23	75	7	80	25	7	26	39	1.82
1211435--1211488	22	2.5	22	78	6	56	24	11	31	33	1.90
1214145--1214200	18	3.1	18	70	14	53	55	3	5	35	1.40
1227186--1227230	12	3.6	12	77	11	54	46	11	4	37	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227184--1227235	14	3.9	14	82	10	72	46	11	3	38	1.59
1227186--1227243	26	2.2	26	93	0	98	46	15	3	34	1.63
1227200--1227243	6	7.0	6	82	10	52	47	18	2	31	1.61
1227346--1227443	20	5.0	20	83	5	119	44	14	5	35	1.67
1227346--1227413	26	2.6	26	97	0	127	47	14	2	35	1.60
1227359--1227443	38	2.2	38	93	0	143	45	14	4	35	1.65
1227359--1227425	6	10.8	6	84	6	89	46	14	4	34	1.65
1230659--1230749	45	2.0	45	89	0	137	43	13	26	16	1.84
1230704--1230790	33	2.6	33	85	0	111	39	14	29	16	1.88
1233337--1233408	23	3.1	23	75	0	63	37	25	8	29	1.85

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20