genome.fa.s15.2.7.7.80.10.50.1000.2.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_018397268.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_81.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6219335

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

This is table  2  of  13  ( 1452 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)
749785--749852	24	3.0	23	81	10	86	33	0	0	66	0.92
749700--749929	114	2.0	114	93	0	397	31	3	2	62	1.26
749712--749894	57	3.2	57	70	11	176	32	3	2	61	1.26
749919--750073	5	30.4	5	64	17	52	29	1	1	67	1.09
749883--749969	33	2.6	33	85	5	104	27	2	2	67	1.14
749950--750015	35	1.9	32	82	17	80	33	3	0	63	1.10
750044--750075	15	2.1	15	100	0	64	34	0	0	65	0.93
751673--751702	15	2.0	15	100	0	60	20	33	33	13	1.91
760534--760583	22	2.4	20	80	6	55	60	0	2	38	1.09
760673--760736	16	4.3	15	74	18	55	37	3	0	59	1.13
760677--760804	14	7.9	17	66	22	62	34	1	0	64	1.03
760733--760792	32	1.9	32	86	6	88	31	0	0	68	0.90
760732--760822	30	3.0	30	80	4	85	31	0	1	67	0.98
771108--771133	4	6.5	4	100	0	52	0	0	46	53	1.00
800023--800169	73	2.0	72	96	3	269	21	10	22	44	1.83
802384--802448	21	3.1	20	80	8	76	26	30	21	21	1.98
812347--812514	87	1.9	86	93	1	291	29	18	14	37	1.91
838082--838115	16	2.1	17	88	5	52	50	0	0	50	1.00
838342--838395	15	3.5	15	78	14	56	42	0	0	57	0.98
838352--838396	22	2.0	22	83	8	56	42	0	0	57	0.98
849506--849579	37	2.0	37	100	0	148	35	8	21	35	1.83
869332--869396	33	2.0	33	90	0	103	46	15	1	36	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
873708--873999	125	2.3	125	85	2	383	28	20	21	28	1.98
876143--876189	20	2.6	18	77	12	51	29	19	10	40	1.85
877378--877419	21	2.0	21	85	0	57	21	11	19	47	1.81
880738--880954	108	2.0	108	89	1	328	35	19	18	26	1.95
884285--884397	51	2.2	51	87	3	165	49	21	9	19	1.76
887411--887456	23	2.0	23	86	0	65	36	13	17	32	1.88
891888--891941	26	2.1	26	100	0	108	51	11	29	7	1.64
900126--900399	93	2.9	93	93	1	460	25	26	28	20	1.99
913468--913493	2	13.0	2	100	0	52	50	50	0	0	1.00
946154--946217	30	2.1	30	94	0	110	21	9	3	65	1.35
950111--950162	27	1.9	27	92	0	86	50	7	0	42	1.31
951280--951322	2	21.5	2	100	0	86	48	0	0	51	1.00
954440--954519	32	2.5	32	81	2	97	32	2	11	53	1.50
954778--954919	76	1.9	74	83	2	185	42	2	7	47	1.47
962251--962275	2	12.5	2	100	0	50	52	0	0	48	1.00
965414--965488	31	2.5	29	81	10	89	36	0	9	54	1.33
965415--965490	17	4.5	17	77	12	77	36	0	9	53	1.33
966030--966057	4	7.0	4	100	0	56	50	25	0	25	1.50
967357--967421	14	4.6	13	76	14	58	58	1	3	36	1.23
967762--967897	50	2.7	50	78	10	136	52	7	9	30	1.61
976308--976353	22	2.1	22	100	0	92	39	8	8	43	1.66
978395--978431	12	3.2	12	81	11	51	54	16	0	29	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1004133--1004163	2	15.5	2	100	0	62	48	0	0	51	1.00
1006146--1006179	2	17.0	2	100	0	68	50	0	50	0	1.00
1008371--1008408	20	1.9	19	89	5	58	65	0	0	34	0.93
1009006--1009048	21	2.0	22	86	4	61	37	0	0	62	0.95
1016826--1016905	39	2.1	38	83	6	99	18	8	62	10	1.52
1020700--1020735	18	2.0	18	88	0	54	41	0	2	55	1.14
1022024--1022065	22	2.0	21	86	13	59	7	14	0	78	0.95
1111130--1111158	5	5.8	5	100	0	58	82	0	0	17	0.66
1113227--1113274	24	1.9	24	83	8	60	47	2	6	43	1.40
1113267--1113308	17	2.5	17	81	18	52	40	2	4	52	1.35
1113252--1113710	219	2.1	218	82	7	554	45	4	7	42	1.51
1114288--1114441	82	1.9	82	87	0	227	44	14	11	29	1.80
1117676--1117703	2	14.0	2	100	0	56	50	0	0	50	1.00
1121163--1121190	2	14.0	2	100	0	56	50	0	0	50	1.00
1127121--1127156	13	2.8	13	100	0	72	33	8	38	19	1.82
1136276--1136309	16	2.1	16	89	10	52	55	2	0	41	1.15
1136518--1136569	27	1.9	27	84	0	68	76	3	0	19	0.93
1137399--1137449	21	2.3	22	83	6	59	27	9	11	50	1.70
1139534--1139560	2	13.5	2	100	0	54	0	48	0	51	1.00
1140656--1140684	2	14.5	2	100	0	58	48	0	0	51	1.00
1149516--1149586	23	3.0	22	80	14	63	42	5	0	52	1.25
1149523--1149576	27	2.0	27	85	7	74	42	5	0	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1149710--1149737	2	14.0	2	100	0	56	0	50	0	50	1.00
1151445--1151842	150	2.7	150	81	3	446	39	15	11	32	1.84
1156708--1156752	19	2.3	20	84	3	56	22	8	17	51	1.73
1158863--1158903	21	2.0	21	85	9	57	60	26	7	4	1.43
1159301--1159392	31	3.0	31	85	0	130	26	14	21	38	1.91
1166806--1166853	24	2.0	24	100	0	96	41	8	12	37	1.73
1168661--1168690	2	15.0	2	100	0	60	50	0	0	50	1.00
1187631--1187764	54	2.5	52	85	6	169	22	26	29	21	1.99
1187660--1187781	54	2.3	54	83	0	154	25	28	26	19	1.99
1189028--1189288	54	5.0	52	90	3	375	24	28	14	32	1.95
1189028--1189288	105	2.5	105	88	5	377	24	28	14	32	1.95
1198029--1198110	42	2.0	42	90	0	128	35	17	10	36	1.85
1246416--1246448	14	2.4	14	90	5	50	78	0	21	0	0.75
1278250--1278683	178	2.4	182	81	8	522	38	12	16	32	1.87
1279029--1279061	16	2.1	16	88	5	50	54	3	12	30	1.52
1285930--1286204	92	3.0	93	85	1	358	37	8	16	37	1.79
1285929--1286204	91	3.0	92	84	2	358	38	8	16	37	1.79
1304830--1304900	29	2.4	29	76	17	76	39	7	2	50	1.44
1305062--1305120	22	2.6	22	83	5	73	55	1	1	40	1.20
1311357--1311387	2	15.5	2	100	0	62	51	0	0	48	1.00
1319346--1319385	20	1.9	21	85	10	55	25	27	7	40	1.82
1320973--1321022	17	2.7	18	77	22	59	64	0	2	34	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1330444--1330517	37	2.0	37	91	0	121	22	9	12	55	1.65
1330674--1330712	18	2.2	18	86	4	53	61	0	5	33	1.18
1330574--1330790	88	2.5	88	87	3	303	53	6	3	35	1.44
1360614--1360656	15	2.8	16	79	13	54	9	18	0	72	1.11
1399191--1399223	11	3.0	11	90	0	57	60	0	9	30	1.27
1404948--1405004	27	2.1	28	86	3	80	47	0	3	49	1.18
1405034--1405073	2	20.0	2	100	0	80	50	0	0	50	1.00
1405957--1405990	2	17.0	2	87	0	50	47	2	2	47	1.32
1408516--1408548	16	2.1	16	100	0	66	39	6	24	30	1.79
1432703--1432738	18	1.9	19	88	5	56	36	0	0	63	0.94
1447028--1447067	18	2.1	18	86	9	53	37	0	0	62	0.95
1452343--1452424	39	2.1	39	88	2	121	28	18	24	29	1.98
1463239--1463296	32	1.9	30	86	13	84	39	3	0	56	1.16
1465454--1465496	13	3.2	14	80	6	54	37	0	2	60	1.10
1465476--1465535	22	2.8	20	76	23	59	40	3	0	56	1.16
1466722--1466761	13	3.1	14	79	17	50	47	0	0	52	1.00
1468690--1468734	23	1.9	22	90	9	63	68	13	2	15	1.30
1472628--1472662	18	1.9	18	88	0	52	40	2	40	17	1.64
1473613--1473740	64	2.0	64	92	0	211	25	9	24	40	1.85
1491134--1491249	62	1.9	61	83	1	151	33	6	2	56	1.39
1498019--1498048	2	15.0	2	100	0	60	50	0	0	50	1.00
1508868--1508929	24	2.6	24	82	10	65	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521968--1521992	2	12.5	2	100	0	50	48	0	0	52	1.00
1524083--1524123	21	2.0	21	95	0	73	43	7	21	26	1.79
1524075--1524135	21	2.6	24	72	20	65	45	9	18	26	1.80
1534956--1534987	7	4.6	7	96	0	55	0	34	15	50	1.45
1551921--1551986	31	2.1	31	85	5	87	62	1	0	36	1.05
1559389--1559414	2	13.0	2	100	0	52	50	0	0	50	1.00
1575551--1575662	26	4.3	26	69	13	70	38	11	8	41	1.71
1575645--1575762	66	1.9	60	83	14	152	42	5	11	40	1.65
1576297--1576329	10	2.9	12	86	13	52	72	3	0	24	0.98
1581872--1581999	65	2.0	65	92	3	213	36	10	13	39	1.78

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