genome.fa.s8162.2.7.7.80.10.50.1000.6.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

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

This is table  6  of  16  ( 1865 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)
1178304--1178334	2	15.5	2	100	0	62	48	0	0	51	1.00
1178539--1178608	28	2.5	28	93	4	115	37	0	10	52	1.35
1178543--1178627	28	3.0	27	83	13	75	40	0	11	48	1.40
1179669--1179697	2	15.0	2	92	7	51	48	0	0	51	1.00
1186203--1186234	16	2.0	16	93	0	55	21	3	6	68	1.26
1192769--1192823	27	2.0	27	85	0	74	74	3	5	16	1.15
1196635--1196759	63	2.0	63	93	0	214	26	6	34	32	1.82
1198520--1198569	17	2.9	17	77	14	57	66	0	8	26	1.19
1199324--1199461	72	1.9	72	91	1	224	55	12	2	29	1.51
1201298--1201349	23	2.3	23	96	0	95	34	1	30	32	1.69
1203547--1203705	75	2.1	75	79	3	178	42	3	7	46	1.48
1203547--1203705	37	4.3	37	81	4	176	42	3	7	46	1.48
1206129--1206204	29	2.6	29	95	0	134	18	32	22	26	1.97
1206481--1206570	27	3.5	25	76	13	94	34	2	3	60	1.26
1206724--1206805	32	2.6	31	83	7	94	30	2	2	64	1.19
1208688--1209269	291	2.0	291	91	0	932	36	18	17	27	1.93
1210595--1211064	81	5.8	81	84	4	529	28	25	10	36	1.88
1210595--1211064	162	2.9	161	87	2	613	28	25	10	36	1.88
1211024--1211483	68	6.8	68	87	2	627	30	23	14	31	1.95
1212158--1212469	154	2.0	154	94	2	547	25	20	15	38	1.92
1213852--1213889	3	13.0	3	94	5	69	68	0	0	31	0.90
1218358--1218396	2	19.5	2	89	0	60	46	0	5	48	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1218359--1218396	10	3.8	10	96	0	67	44	0	5	50	1.24
1222907--1224429	511	3.0	510	96	2	2772	32	20	16	30	1.95
1227679--1227750	24	3.0	24	85	2	101	50	18	12	19	1.78
1227683--1227751	12	5.8	12	75	10	61	49	18	14	17	1.80
1230188--1230228	18	2.3	18	91	0	64	14	19	48	17	1.81
1234825--1234927	42	2.5	42	76	9	102	37	19	14	28	1.91
1235735--1235791	21	2.7	21	79	12	71	21	26	15	36	1.93
1238493--1238535	2	22.0	2	80	4	52	58	0	0	41	0.98
1239128--1239168	18	2.3	18	83	4	57	46	4	21	26	1.72
1239431--1239481	17	2.9	17	88	5	66	27	21	27	23	1.99
1239431--1239515	19	4.7	17	80	10	80	25	21	28	24	1.99
1248046--1248255	65	3.3	63	78	8	192	26	18	24	30	1.98
1248616--1248655	21	1.9	21	89	0	62	32	30	17	20	1.95
1249567--1249622	22	2.6	22	86	8	71	23	25	16	35	1.94
1263312--1263372	20	2.9	21	87	7	79	18	26	34	21	1.96
1271388--1271420	12	2.8	12	86	13	50	69	0	12	18	1.18
1280970--1281007	20	1.9	20	88	0	58	13	26	34	26	1.93
1284809--1284848	21	1.9	21	85	10	55	35	10	2	52	1.48
1286744--1286783	20	2.0	20	95	0	71	12	25	40	22	1.89
1287853--1287962	37	3.0	36	88	4	150	49	21	6	22	1.72
1288536--1288608	33	2.3	32	76	6	76	47	5	0	46	1.25
1288758--1288803	25	2.0	24	83	12	60	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1291763--1291801	18	2.2	18	85	0	51	30	17	35	15	1.91
1295047--1295073	11	2.5	11	100	0	54	0	22	0	77	0.76
1295058--1295124	29	2.3	29	79	5	73	7	20	7	64	1.44
1295977--1296012	17	2.1	17	100	0	72	33	0	33	33	1.58
1296395--1296429	11	3.1	11	87	4	52	77	0	5	17	0.96
1303422--1303482	21	2.8	22	82	7	70	24	36	22	16	1.94
1314131--1314172	19	2.2	19	95	0	75	42	0	4	52	1.22
1314142--1314180	19	2.0	19	85	5	51	38	2	7	51	1.44
1324176--1324243	32	2.1	32	100	0	136	47	8	14	29	1.75
1327000--1327058	29	2.0	30	90	3	93	45	18	18	16	1.85
1330259--1330284	11	2.4	11	100	0	52	76	0	7	15	0.99
1331297--1331321	13	1.9	13	100	0	50	56	12	0	32	1.36
1333112--1333151	18	2.2	18	86	8	55	47	10	12	30	1.74
1333618--1333997	132	2.9	130	79	7	426	34	17	17	30	1.93
1335136--1335189	5	9.8	5	88	9	63	3	18	0	77	0.91
1335135--1335193	6	10.3	6	85	7	63	3	18	0	77	0.90
1336172--1336240	25	2.9	24	83	10	79	42	18	11	27	1.85
1336839--1336921	44	1.9	44	85	7	116	33	16	18	31	1.93
1336957--1337341	132	2.9	132	81	4	427	34	17	16	30	1.93
1337873--1337953	22	3.6	21	80	14	90	2	23	0	74	0.94
1337873--1337941	31	2.2	32	87	7	97	2	23	0	73	0.96
1337873--1337946	15	4.7	16	80	11	82	2	22	0	74	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1337889--1337958	31	2.4	31	85	7	92	1	24	0	74	0.90
1338628--1338688	25	2.6	23	80	19	72	3	16	0	80	0.84
1338653--1338685	16	2.1	15	94	5	57	3	12	0	84	0.72
1339598--1339674	25	3.3	23	84	15	97	45	16	12	24	1.83
1340419--1340752	132	2.5	132	83	3	388	33	17	17	32	1.93
1341232--1341333	42	2.4	42	93	0	168	13	21	11	52	1.72
1341328--1341398	21	3.0	22	71	24	56	5	12	1	80	0.95
1341325--1341383	27	2.3	28	80	16	74	5	15	0	79	0.89
1341332--1341408	9	8.2	9	72	16	59	6	11	1	80	0.95
1341368--1341411	17	2.6	17	92	3	72	6	9	2	81	0.94
1341934--1341973	18	2.2	18	90	0	62	35	32	2	30	1.71
1342097--1342144	6	7.5	6	80	13	51	4	14	0	81	0.84
1353196--1353239	23	1.9	23	86	9	63	40	6	9	43	1.63
1355585--1355630	21	2.2	21	88	0	65	45	21	15	17	1.85
1355597--1355639	21	2.0	21	81	0	50	41	23	16	18	1.89
1356959--1357036	24	3.2	23	70	20	61	69	1	24	5	1.16
1356998--1357060	33	1.9	33	93	0	108	63	3	25	7	1.37
1361572--1361639	21	3.2	21	63	29	54	32	16	4	47	1.66
1367940--1367982	22	2.0	22	81	9	52	69	6	0	23	1.12
1368080--1368109	10	3.0	10	100	0	60	70	10	0	20	1.16
1368266--1368470	109	1.9	109	80	3	241	55	12	11	20	1.68
1369608--1370197	139	4.3	138	81	4	618	26	19	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1369606--1370199	275	2.1	278	83	4	745	26	19	17	35	1.95
1378531--1378569	18	2.2	18	100	0	78	46	15	23	15	1.83
1379977--1380014	20	1.9	20	94	0	67	23	21	21	34	1.97
1380022--1380159	64	2.2	64	84	3	179	24	22	18	34	1.96
1383963--1383992	7	4.1	7	91	8	51	13	13	60	13	1.60
1383963--1383992	15	2.1	15	93	6	53	13	13	60	13	1.60
1385958--1385982	11	2.3	11	100	0	50	76	0	8	16	1.02
1394234--1394272	20	2.0	20	94	0	69	38	30	17	12	1.88
1394233--1394272	9	4.2	9	81	12	53	37	32	17	12	1.87
1394275--1394331	28	2.0	28	93	0	96	24	21	36	17	1.94
1394350--1394429	29	2.8	29	88	3	108	16	30	31	22	1.96
1394505--1394560	27	2.1	27	100	0	112	28	25	21	25	1.99
1394706--1394751	23	2.0	23	100	0	92	47	4	39	8	1.54
1394706--1394766	23	2.6	23	86	5	59	50	6	36	6	1.54
1394946--1395037	46	2.0	48	87	8	136	41	0	11	46	1.41
1397515--1397574	26	2.3	26	82	2	68	53	3	5	38	1.39
1397614--1397672	26	2.3	24	78	16	64	40	3	8	47	1.51
1398510--1398560	21	2.4	21	86	3	75	52	15	0	31	1.43
1399172--1399233	29	2.1	29	96	0	115	17	33	32	16	1.92
1400296--1400654	181	2.0	183	92	2	607	33	24	11	30	1.91
1402137--1402204	30	2.3	30	92	0	109	29	19	29	22	1.98
1404266--1404292	14	1.9	14	100	0	54	37	0	3	59	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1411567--1411619	22	2.4	22	96	0	97	37	13	13	35	1.83
1412850--1412909	17	3.5	16	80	17	59	46	0	1	51	1.10
1412850--1412910	14	4.0	14	78	19	52	47	0	1	50	1.10
1419618--1419690	30	2.9	23	73	24	74	30	24	24	20	1.99
1427398--1427499	49	2.1	49	94	0	177	36	14	20	28	1.92
1431452--1431553	49	2.1	49	100	0	204	37	14	20	27	1.92
1443127--1443163	17	2.1	18	85	14	51	75	0	16	8	1.02
1472762--1472804	21	2.0	21	100	0	86	27	9	27	34	1.88
1478980--1479044	21	3.1	21	81	0	58	35	15	12	36	1.85
1481982--1482024	18	2.3	18	88	8	59	51	23	0	25	1.49

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