genome.fa.s8958.2.7.7.80.10.50.1000.7.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: VEPZ01008958.1 Hibiscus syriacus cultivar Beakdansim tig00112289_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2490255

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

This is table  7  of  11  ( 1296 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)
1248093--1248132	17	2.4	16	92	8	71	67	0	2	30	1.04
1248093--1248135	13	3.2	13	87	12	61	67	0	2	30	1.03
1248124--1248237	38	3.0	35	70	24	81	46	4	1	47	1.32
1248202--1248325	29	4.2	29	89	4	160	49	5	3	41	1.42
1248291--1248446	36	4.5	35	72	22	107	48	6	2	42	1.42
1248314--1248372	27	2.1	27	90	6	91	50	5	3	40	1.41
1248343--1248445	36	2.8	38	85	10	151	47	7	2	41	1.47
1250879--1250917	18	2.2	19	86	13	57	82	0	0	17	0.68
1250879--1250918	17	2.4	17	87	8	55	80	0	0	20	0.72
1251313--1251338	2	13.0	2	100	0	52	50	0	0	50	1.00
1251771--1251822	23	2.3	23	90	3	79	28	26	23	21	1.99
1251816--1251864	21	2.3	21	82	0	62	32	28	16	22	1.95
1253230--1253310	28	2.9	28	90	0	108	16	18	28	37	1.92
1258495--1258569	28	2.7	28	85	0	114	20	16	26	37	1.93
1259836--1259977	55	2.6	55	83	4	189	33	21	16	28	1.95
1266554--1266593	17	2.4	17	78	0	53	2	15	0	82	0.77
1266561--1266601	20	2.1	20	90	4	66	2	17	0	80	0.82
1266556--1266602	20	2.3	21	82	14	62	2	17	0	80	0.80
1285603--1285644	2	21.0	2	100	0	84	50	0	0	50	1.00
1286131--1286179	21	2.3	21	85	0	62	36	28	12	22	1.90
1288376--1288505	53	2.4	52	89	6	197	29	22	19	29	1.98
1290585--1290615	15	2.0	16	93	6	55	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1293629--1293686	27	2.1	27	100	0	116	37	18	6	36	1.78
1293824--1293861	12	3.2	12	88	0	58	31	15	21	31	1.94
1293965--1294024	2	30.0	2	100	0	120	50	0	0	50	1.00
1301265--1301386	40	3.0	40	93	0	217	23	15	26	34	1.95
1301491--1301720	51	4.8	48	86	8	267	40	6	21	30	1.80
1301491--1301720	98	2.4	98	83	11	294	40	6	21	30	1.80
1303378--1303431	22	2.5	22	90	3	83	27	31	11	29	1.91
1303504--1303603	42	2.4	42	84	3	130	29	10	29	32	1.89
1303530--1303639	20	5.4	21	78	9	104	24	10	29	35	1.89
1306132--1306168	3	12.3	3	94	0	65	67	2	0	29	1.04
1306524--1306703	42	4.3	43	82	6	210	30	21	22	25	1.99
1306626--1306687	20	2.9	22	65	18	58	29	24	20	25	1.99
1306543--1306696	83	1.9	83	86	2	220	30	22	20	25	1.98
1306739--1306864	59	2.1	59	92	0	207	26	12	30	29	1.93
1306771--1307093	142	2.3	143	87	1	459	30	14	26	28	1.95
1306970--1307141	85	2.0	85	90	0	272	32	16	25	26	1.96
1308618--1308691	14	5.3	14	65	12	53	21	4	33	40	1.72
1308612--1308693	28	2.9	28	98	0	155	20	3	34	41	1.70
1309327--1309412	12	6.8	12	75	19	68	2	17	0	80	0.82
1309324--1309393	21	3.4	20	81	16	81	1	17	0	81	0.77
1309324--1309428	45	2.4	41	81	13	106	3	16	0	80	0.86
1309333--1309425	14	6.1	16	69	20	58	4	17	0	78	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1309381--1309431	25	2.0	25	85	7	68	7	13	0	78	0.96
1309700--1309728	2	14.5	2	100	0	58	51	0	0	48	1.00
1310679--1310707	2	14.5	2	100	0	58	48	0	0	51	1.00
1312503--1312540	3	12.7	3	100	0	76	0	34	0	65	0.93
1316922--1316965	21	2.1	21	91	0	70	20	15	27	36	1.93
1318949--1319075	19	6.5	19	77	9	80	30	27	25	16	1.97
1318967--1319077	10	11.4	9	76	14	96	29	27	26	16	1.97
1318967--1319077	29	3.8	28	77	10	100	29	27	26	16	1.97
1318949--1319078	48	2.7	48	87	2	188	30	26	25	17	1.97
1326193--1326230	5	7.8	5	94	5	69	0	21	57	21	1.40
1326198--1326239	19	2.2	19	86	0	57	4	23	52	19	1.65
1326229--1326345	19	6.1	19	83	10	139	29	29	24	15	1.96
1326241--1326295	10	5.8	9	76	21	51	25	30	27	16	1.96
1326227--1326344	29	4.1	27	78	10	110	29	29	26	14	1.95
1326227--1326344	9	12.3	9	77	12	110	29	29	26	14	1.95
1327542--1327588	22	2.0	23	84	8	60	59	0	2	38	1.09
1328669--1328750	15	5.5	15	86	2	112	36	7	20	35	1.81
1328663--1328750	45	2.0	44	90	2	140	38	6	21	32	1.80
1328669--1328750	30	2.8	30	92	1	130	36	7	20	35	1.81
1328733--1328782	20	2.5	20	100	0	100	40	10	16	34	1.81
1328978--1329079	30	3.5	28	78	17	93	51	1	0	45	1.19
1328977--1329121	28	4.9	28	72	13	87	51	1	1	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1329092--1329137	19	2.5	18	83	13	58	58	0	0	41	0.98
1329105--1329149	21	2.0	24	87	12	69	53	0	0	46	1.00
1329096--1329149	28	2.0	27	85	3	72	55	0	0	44	0.99
1329092--1329155	21	3.1	22	79	16	59	54	0	0	45	0.99
1329341--1329452	42	2.7	42	97	0	206	45	16	19	17	1.86
1340324--1340365	21	2.0	21	90	0	66	26	21	11	40	1.88
1340659--1340712	23	2.3	23	93	0	99	48	11	12	27	1.76
1342996--1343149	31	5.0	31	91	1	238	20	20	22	36	1.95
1347230--1347383	31	5.0	31	91	1	238	20	20	22	36	1.95
1351708--1351917	101	2.1	101	92	2	350	26	13	22	37	1.92
1351934--1352001	23	3.0	23	84	0	82	22	25	26	26	2.00
1360379--1360427	3	17.3	3	87	12	77	67	0	0	32	0.91
1360379--1360430	14	3.7	14	90	10	88	67	0	0	32	0.91
1360587--1360611	2	12.5	2	100	0	50	48	0	0	52	1.00
1365759--1365789	16	1.9	16	93	0	53	22	0	3	74	0.96
1365803--1365880	39	2.0	40	92	7	133	41	2	25	30	1.69
1366863--1366905	21	2.0	21	81	0	50	27	27	25	18	1.98
1367556--1367623	23	3.0	23	88	0	91	20	26	26	26	1.99
1373660--1373702	21	2.0	21	86	0	59	30	27	23	18	1.98
1374351--1374413	23	2.7	23	92	0	99	19	28	26	25	1.98
1376084--1376174	18	4.9	18	84	5	119	28	30	19	20	1.97
1376084--1376177	38	2.5	38	88	6	131	28	29	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376913--1376958	22	2.1	22	100	0	92	17	17	26	39	1.91
1377224--1377265	19	2.3	18	84	12	50	38	21	4	35	1.75
1380400--1380454	23	2.8	18	76	23	65	25	7	5	61	1.44
1380400--1380457	9	6.9	9	74	18	54	24	8	5	62	1.45
1380412--1380459	23	2.1	23	100	0	96	20	8	4	66	1.35
1380418--1380470	23	2.3	23	83	0	61	18	11	11	58	1.62
1382989--1383060	18	3.9	18	79	15	85	30	31	19	18	1.95
1387182--1387228	20	2.3	20	100	0	94	27	19	27	25	1.99
1387741--1387832	23	4.0	23	86	0	112	30	25	26	18	1.98
1395688--1395829	64	2.2	65	78	8	150	32	18	23	25	1.97
1396784--1396849	23	2.9	23	72	0	60	18	25	24	31	1.97
1398739--1398808	19	3.7	19	84	0	77	32	12	12	41	1.82
1399042--1399073	9	3.6	9	95	0	55	53	0	21	25	1.46
1399381--1399417	2	19.0	2	94	5	67	48	0	0	51	1.00
1399371--1399417	16	2.9	17	90	9	73	48	0	0	51	1.00
1400123--1400156	17	2.0	17	88	0	50	47	0	0	52	1.00
1400503--1400553	18	2.8	18	75	3	57	43	5	1	49	1.38
1402491--1402519	2	14.5	2	100	0	58	0	48	0	51	1.00
1420092--1420149	28	2.1	28	100	0	116	32	17	20	29	1.95
1421011--1421195	90	2.0	93	88	6	279	28	15	14	42	1.86
1423873--1423941	23	3.0	23	80	0	84	33	24	23	18	1.97
1428265--1428305	21	2.0	21	90	0	64	26	21	7	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1429845--1429970	65	1.9	67	85	6	177	35	16	20	26	1.94
1429841--1429987	65	2.2	67	82	7	176	35	16	20	27	1.94
1429974--1430026	20	2.7	20	93	0	88	32	16	24	26	1.97
1431095--1431174	24	3.4	24	72	8	74	25	22	21	31	1.98
1431861--1431904	21	2.1	21	91	0	70	22	25	27	25	2.00
1433893--1433936	23	1.9	23	95	0	79	29	25	29	15	1.96
1436568--1436617	24	2.1	23	88	3	73	28	24	6	42	1.78
1439694--1439769	23	3.3	23	94	3	127	27	23	22	26	1.99
1461697--1461765	23	3.0	23	89	0	102	26	26	27	20	1.99
1462355--1462512	64	2.5	63	80	6	158	25	19	19	34	1.96

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