genome.fa.s8225.2.7.7.80.10.50.1000.8.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: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1890193

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

This is table  8  of  10  ( 1082 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)
1363737--1363839	20	4.9	23	73	20	75	29	3	0	66	1.09
1363723--1363828	13	9.1	12	71	20	50	28	3	0	67	1.07
1363760--1363845	42	2.1	41	85	10	113	25	3	0	70	1.02
1365673--1365717	3	15.0	3	100	0	90	66	0	0	33	0.92
1378952--1378983	2	16.0	2	100	0	64	50	0	0	50	1.00
1380943--1380979	2	19.0	2	94	5	67	48	0	0	51	1.00
1384668--1384729	31	2.0	31	100	0	124	29	22	9	38	1.86
1385725--1385789	12	5.6	12	74	7	53	47	21	13	16	1.82
1385720--1385791	22	3.2	22	84	5	92	45	20	15	18	1.85
1388402--1388439	20	1.9	20	84	10	51	21	0	15	63	1.31
1388934--1388977	20	2.2	20	91	0	70	36	22	18	22	1.95
1388971--1389037	20	3.3	20	81	8	91	41	25	13	19	1.88
1389025--1389097	19	3.7	20	85	5	85	35	23	12	28	1.91
1389005--1389105	40	2.5	41	77	4	107	38	22	11	26	1.89
1389273--1389310	16	2.5	15	84	12	51	28	5	0	65	1.14
1390050--1390103	24	2.2	24	90	0	81	22	18	18	40	1.91
1392806--1392844	20	2.0	20	94	0	69	15	15	25	43	1.86
1393207--1393259	24	2.2	24	86	0	70	33	3	13	49	1.60
1393916--1393948	14	2.4	14	90	5	50	27	6	0	66	1.15
1394202--1394237	18	2.0	18	94	0	63	55	22	2	19	1.56
1394424--1394461	13	2.9	13	85	14	60	39	31	21	7	1.82
1394491--1394615	63	2.0	63	90	7	200	51	16	1	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1395657--1395698	4	10.5	4	84	0	57	69	2	2	26	1.13
1396057--1396253	45	4.6	44	65	15	115	24	10	40	24	1.86
1397715--1397753	20	2.0	19	85	5	51	15	12	23	48	1.79
1398076--1398122	22	2.2	22	88	11	71	19	14	46	19	1.84
1398239--1398322	20	4.2	20	78	0	87	16	13	25	45	1.83
1398280--1398328	20	2.5	20	86	0	62	16	10	22	51	1.74
1400251--1400336	35	2.5	35	86	0	109	40	19	1	38	1.60
1400305--1400347	21	2.0	21	100	0	86	46	13	0	39	1.44
1400467--1400500	16	2.0	18	88	11	54	26	0	8	64	1.22
1400962--1401205	128	1.9	128	93	0	416	36	13	14	35	1.86
1406739--1407055	126	2.5	130	78	7	340	27	18	19	33	1.96
1407836--1407870	16	2.1	17	89	5	54	68	20	0	11	1.20
1408057--1408100	14	2.9	15	86	10	63	9	15	0	75	1.05
1408568--1408631	3	21.3	3	100	0	128	67	0	0	32	0.91
1411182--1411207	2	13.0	2	100	0	52	50	0	0	50	1.00
1411946--1412041	46	2.1	46	86	3	131	41	9	8	40	1.67
1413534--1413562	14	2.0	15	93	6	51	44	0	0	55	0.99
1413885--1413976	28	3.3	28	95	0	166	40	34	6	18	1.77
1416775--1416843	24	2.9	23	76	4	66	24	14	13	47	1.79
1417907--1417933	2	13.5	2	100	0	54	51	0	0	48	1.00
1418590--1418656	33	2.0	34	97	2	127	19	14	23	41	1.89
1426734--1426822	31	2.8	30	80	8	97	42	1	2	53	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1426767--1426816	20	2.5	20	78	12	59	40	2	2	56	1.22
1426736--1426827	11	9.2	10	70	21	52	41	1	2	55	1.19
1428128--1428230	30	3.4	30	97	0	188	33	24	18	24	1.97
1428128--1428255	60	2.1	61	88	1	186	34	25	17	22	1.96
1428903--1428931	7	4.3	7	95	4	51	44	24	0	31	1.54
1429248--1429404	64	2.5	64	75	10	151	26	20	20	32	1.97
1429944--1429979	3	12.0	3	93	0	54	61	0	33	5	1.19
1432515--1432616	30	3.4	30	91	2	170	33	22	18	25	1.97
1432602--1432693	30	3.0	31	77	6	89	35	21	16	26	1.94
1450134--1450472	172	2.0	167	93	6	585	21	33	12	32	1.90
1452066--1452205	64	2.2	63	83	3	165	33	18	22	25	1.97
1452921--1453076	31	5.0	31	88	3	201	22	18	21	37	1.94
1457180--1457211	15	2.1	15	100	0	64	46	12	15	25	1.81
1459969--1460109	45	3.1	45	83	9	155	30	12	19	37	1.88
1469870--1469925	25	2.2	25	84	9	69	71	1	19	7	1.18
1469901--1469935	11	3.3	11	88	4	54	74	2	14	8	1.17
1469865--1469957	7	11.2	8	73	24	54	74	1	15	9	1.13
1471229--1471338	36	3.0	36	84	4	130	40	17	20	22	1.92
1471229--1471338	37	3.0	37	85	1	132	40	17	20	22	1.92
1471341--1471804	51	8.9	51	88	5	484	29	16	26	27	1.97
1471578--1471808	110	2.1	109	87	4	301	30	17	24	27	1.97
1472199--1472229	15	2.1	15	100	0	62	48	12	12	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1475194--1475349	31	5.0	31	86	3	208	21	17	20	40	1.92
1476046--1476086	21	2.0	21	90	0	64	29	17	21	31	1.96
1476104--1476143	20	2.0	20	85	0	53	30	17	10	42	1.82
1480234--1480973	105	7.0	105	94	1	1239	22	17	25	34	1.96
1491218--1491251	10	3.4	10	87	0	50	73	0	5	20	1.04
1492461--1492506	13	3.6	13	82	2	58	82	6	2	8	0.91
1492553--1492609	12	4.6	13	70	16	50	59	0	1	38	1.08
1502735--1502865	57	2.3	57	95	0	235	33	24	14	27	1.94
1517860--1520083	749	2.9	754	95	2	3942	39	10	13	36	1.80
1522055--1522115	15	4.2	16	76	16	55	55	3	0	40	1.16
1522183--1522256	31	2.4	30	82	6	78	27	6	9	56	1.56
1524949--1524998	21	2.4	21	90	6	75	24	26	24	26	2.00
1525847--1525893	21	2.2	21	96	0	85	27	23	25	23	2.00
1526618--1526731	35	3.2	34	87	7	174	33	17	18	30	1.94
1528475--1528516	13	3.0	13	83	16	57	35	19	23	21	1.96
1528475--1528531	29	1.9	30	85	3	80	35	19	24	21	1.96
1531051--1531143	35	2.7	35	86	3	125	43	27	2	26	1.67
1531295--1531589	150	2.0	148	93	2	511	36	7	9	46	1.64
1532074--1532177	35	3.0	34	84	4	109	31	0	25	43	1.55
1532097--1532177	35	2.3	36	91	2	128	35	0	20	43	1.53
1532504--1532555	3	17.3	3	100	0	104	32	0	0	67	0.91
1533263--1533302	14	3.1	13	82	10	55	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534534--1534608	3	25.0	3	91	0	123	62	0	1	36	1.04
1534924--1535377	113	4.0	114	82	4	551	31	18	12	37	1.89
1536081--1536712	83	7.7	83	88	3	983	37	23	13	25	1.91
1536079--1536699	165	3.8	165	96	1	1099	38	23	13	25	1.91
1537400--1537436	16	2.3	16	90	0	56	54	5	8	32	1.53
1537758--1537838	7	11.1	7	75	17	76	0	18	0	81	0.69
1537758--1537833	8	9.6	8	76	12	77	0	18	0	81	0.69
1537758--1537832	31	2.4	31	85	12	100	0	18	0	81	0.69
1537759--1537833	23	3.2	24	79	11	84	0	18	0	81	0.69
1537759--1537838	29	2.7	28	83	9	97	0	18	0	81	0.70
1549209--1549248	14	3.1	13	82	10	55	60	0	0	40	0.97
1552432--1552461	15	2.0	15	93	0	51	90	0	10	0	0.47
1553615--1553972	131	2.7	131	87	0	491	31	11	16	40	1.84
1553844--1554142	159	1.9	159	79	5	345	33	8	16	41	1.79
1554586--1554846	130	2.0	130	95	0	468	38	8	19	32	1.83
1556193--1556237	22	2.0	22	95	0	81	35	20	0	44	1.51
1557488--1557593	43	2.5	43	83	7	128	28	11	5	54	1.58
1557498--1557763	41	6.3	40	74	13	166	27	14	7	50	1.69
1557531--1557634	43	2.5	43	81	10	126	27	14	4	52	1.61
1557618--1557867	42	5.9	42	74	10	161	27	17	8	46	1.76
1558659--1558722	31	2.0	32	85	8	87	45	6	4	43	1.50
1561188--1561254	30	2.2	30	91	0	107	32	4	17	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570119--1570197	21	3.9	21	85	9	110	16	25	30	27	1.97
1570119--1570197	39	2.0	41	85	7	108	16	25	30	27	1.97
1571682--1572064	190	2.0	190	100	0	766	42	14	16	25	1.87
1576894--1576924	7	4.3	7	92	8	53	16	29	29	25	1.96
1576896--1576924	15	1.9	15	100	0	58	13	31	27	27	1.94
1578228--1578263	18	2.0	18	88	0	54	52	0	16	30	1.44
1579531--1579560	2	15.0	2	100	0	60	50	0	0	50	1.00
1587301--1587340	17	2.4	17	87	4	55	37	2	2	57	1.26
1608185--1608247	28	2.3	28	94	2	110	12	6	36	44	1.68
1608850--1608886	18	2.1	18	100	0	74	29	21	5	43	1.75

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