genome.fa.s8511.2.7.7.80.10.50.1000.6.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: VEPZ01008511.1 Hibiscus syriacus cultivar Beakdansim tig00111366_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2221980

Tables:   1   2   3   4   5   6   7   8   9   

This is table  6  of  9  ( 1077 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)
1202938--1202974	18	2.0	20	84	10	51	21	13	16	48	1.80
1216260--1216389	40	3.3	40	76	14	105	28	24	11	35	1.90
1216235--1216373	20	6.9	20	73	11	104	30	25	11	32	1.91
1216676--1216714	19	2.1	19	95	0	69	30	17	25	25	1.97
1217521--1217601	20	3.9	21	73	7	67	30	13	19	35	1.91
1217536--1217636	42	2.5	41	85	6	125	29	12	22	34	1.92
1219059--1219100	20	2.2	20	86	4	59	59	0	2	38	1.10
1219267--1219347	39	2.0	40	90	6	130	48	17	17	17	1.82
1228739--1228784	13	3.5	13	75	0	56	39	8	6	45	1.61
1228105--1229014	467	1.9	463	80	6	1003	34	11	13	39	1.82
1229797--1230095	80	3.7	80	87	3	431	29	25	21	23	1.99
1229782--1230095	162	1.9	163	89	1	488	31	25	21	21	1.98
1235182--1235287	30	3.5	30	96	0	185	48	8	4	38	1.55
1235516--1235597	21	4.0	20	69	12	67	23	23	18	35	1.96
1235635--1235721	20	4.3	20	78	8	95	34	25	19	20	1.96
1235875--1235908	12	2.9	12	86	4	52	17	41	5	35	1.74
1236688--1236712	12	2.1	12	100	0	50	72	0	28	0	0.86
1238977--1239115	20	6.9	20	87	6	192	33	21	25	19	1.97
1240750--1240841	42	2.2	42	90	1	150	21	15	41	21	1.90
1240777--1240837	21	2.9	21	73	9	70	21	13	42	22	1.87
1241659--1241706	18	2.7	18	93	0	87	14	12	45	27	1.81
1243023--1243096	20	3.8	20	81	1	69	43	22	17	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1243347--1243401	22	2.5	22	90	0	92	16	18	45	20	1.86
1243586--1243699	20	5.7	20	82	6	131	23	18	26	31	1.97
1243569--1243701	41	3.3	41	84	6	189	23	17	25	33	1.96
1243586--1243721	41	3.3	41	84	5	143	22	19	25	33	1.97
1243733--1243782	21	2.4	22	76	6	59	38	18	24	20	1.93
1246434--1246499	2	33.0	2	100	0	132	50	0	0	50	1.00
1246582--1246639	24	2.4	23	83	8	71	43	17	6	32	1.75
1253862--1253909	23	2.1	22	92	3	78	68	0	10	20	1.18
1267504--1267535	11	3.1	11	82	17	50	65	0	0	34	0.93
1267886--1267958	36	2.0	36	100	0	146	36	21	16	24	1.94
1269297--1269352	22	2.5	23	85	5	62	32	25	16	26	1.96
1269310--1269352	22	2.0	22	95	0	77	30	27	18	23	1.98
1274865--1274903	16	2.5	15	84	8	51	28	5	0	66	1.12
1275454--1275488	12	2.9	12	91	0	52	54	31	0	14	1.40
1277924--1277959	18	2.0	18	94	0	63	55	25	2	16	1.55
1277999--1278043	22	2.0	22	100	0	90	35	8	8	46	1.66
1278297--1278360	20	3.2	20	80	4	67	15	20	21	42	1.89
1279160--1279245	38	2.2	38	93	6	147	47	18	15	18	1.82
1279452--1279527	20	3.8	20	87	0	116	15	18	25	40	1.90
1279566--1279696	61	2.1	62	87	7	185	49	17	0	32	1.52
1281057--1281155	21	4.7	21	74	8	85	22	19	35	23	1.96
1281037--1281155	42	2.8	42	75	5	114	22	20	35	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1281107--1281162	21	2.7	20	71	20	51	26	14	33	25	1.94
1283284--1283334	20	2.5	20	93	0	84	52	19	21	5	1.66
1283688--1283780	43	2.2	43	98	0	177	26	3	37	32	1.73
1283842--1284009	20	8.4	20	79	9	182	19	16	22	41	1.90
1283842--1284020	40	4.5	39	86	9	245	19	15	23	41	1.90
1283842--1284040	40	5.0	39	85	10	235	20	16	23	40	1.91
1283855--1284040	79	2.3	80	86	8	238	20	15	23	40	1.91
1284014--1284060	20	2.3	20	85	0	58	25	14	23	36	1.93
1284107--1284160	20	2.7	19	75	8	63	24	14	33	27	1.94
1290202--1290279	2	39.5	2	97	2	149	50	0	0	50	1.00
1293730--1293799	12	5.8	12	80	6	79	51	18	15	14	1.77
1293728--1293836	48	2.3	47	85	3	137	47	17	16	18	1.83
1293728--1293836	24	4.5	25	78	6	109	47	17	16	18	1.83
1295366--1295465	31	3.2	31	63	31	77	27	27	10	36	1.88
1295371--1295493	63	2.0	63	98	0	237	28	28	8	34	1.87
1296412--1296443	7	4.4	7	92	7	55	25	28	34	12	1.92
1296420--1296508	13	6.3	13	82	14	97	16	22	43	16	1.87
1296454--1296495	18	2.3	18	91	0	75	9	21	50	19	1.75
1296441--1296512	31	2.3	31	92	0	126	12	20	48	18	1.80
1296413--1296472	8	8.5	8	75	25	64	20	25	40	15	1.90
1296456--1296512	18	3.5	17	72	22	59	12	19	49	19	1.79
1298571--1298640	12	5.8	12	80	6	79	51	18	15	14	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1298569--1298677	48	2.3	47	85	3	137	47	17	16	18	1.83
1298569--1298677	24	4.5	25	78	6	109	47	17	16	18	1.83
1301255--1301286	7	4.4	7	92	7	55	25	28	34	12	1.92
1301263--1301351	13	6.3	13	82	14	97	16	22	43	16	1.87
1301297--1301338	18	2.3	18	91	0	75	9	21	50	19	1.75
1301284--1301355	31	2.3	31	92	0	126	12	20	48	18	1.80
1301256--1301315	8	8.5	8	75	25	64	20	25	40	15	1.90
1301299--1301355	18	3.5	17	72	22	59	12	19	49	19	1.79
1302612--1302649	20	1.9	20	88	0	58	47	13	0	39	1.42
1303719--1303777	29	2.0	29	86	0	82	38	6	18	35	1.78
1307965--1308023	29	2.0	29	93	0	100	35	8	8	47	1.64
1312350--1312425	8	9.8	8	70	24	56	39	2	1	56	1.21
1312366--1312434	23	3.1	22	76	19	72	42	4	0	53	1.20
1314428--1314876	229	2.0	227	94	0	781	45	7	7	39	1.60
1314942--1314987	19	2.4	19	88	3	74	54	10	17	17	1.70
1315107--1315153	20	2.4	19	79	10	58	55	8	17	19	1.67
1317450--1317515	33	2.0	33	87	0	96	28	1	45	24	1.62
1319310--1319353	19	2.4	19	92	3	72	31	2	9	56	1.43
1319435--1320055	196	3.1	198	96	2	1133	37	14	15	32	1.88
1320851--1320918	21	3.4	18	69	21	55	36	8	35	19	1.83
1320851--1320948	6	16.3	6	80	0	70	36	7	34	21	1.81
1320866--1320952	3	29.0	3	77	0	84	35	5	34	24	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1320854--1320944	42	2.2	42	91	0	146	35	7	35	21	1.83
1320851--1320948	18	5.4	18	78	0	88	36	7	34	21	1.81
1322423--1322910	184	2.7	184	97	0	913	35	14	15	34	1.88
1325467--1325529	23	2.7	23	90	0	90	36	6	19	38	1.77
1325467--1325539	23	3.2	23	86	3	85	35	5	19	39	1.75
1325897--1325959	23	2.7	23	90	0	90	36	6	19	38	1.77
1325897--1325969	23	3.2	23	86	3	85	35	5	19	39	1.75
1325368--1326389	430	2.4	431	99	0	2030	40	8	13	38	1.74
1326327--1326391	23	2.8	23	90	0	94	35	7	18	38	1.80
1326595--1326631	18	2.1	18	89	0	56	32	5	10	51	1.60
1335676--1335730	2	28.5	2	78	7	60	49	1	0	49	1.11
1335623--1335723	51	2.0	48	87	9	141	51	0	0	47	1.07
1358014--1358075	31	2.0	31	93	0	106	54	12	19	12	1.70
1363251--1363287	17	2.2	17	90	0	56	56	0	0	43	0.99
1364137--1364171	17	2.1	17	89	10	54	57	5	0	37	1.23
1370805--1370842	17	2.1	18	85	9	51	42	5	21	31	1.75
1371594--1371633	19	2.1	19	86	9	55	60	0	5	35	1.19
1372231--1372300	31	2.3	31	90	5	106	30	24	11	34	1.90
1383923--1383949	14	1.9	14	100	0	54	51	0	18	29	1.46
1384420--1384483	22	2.9	22	81	4	67	18	14	10	56	1.67
1385805--1385881	29	2.7	29	97	0	145	23	27	35	14	1.93
1390215--1390371	60	2.6	60	82	6	183	30	26	4	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390929--1390966	19	2.0	19	85	10	51	60	2	5	31	1.33
1392607--1392641	2	17.5	2	100	0	70	51	0	0	48	1.00
1401192--1401251	31	1.9	31	93	0	102	31	25	15	28	1.95
1406335--1406608	138	2.0	138	99	0	539	40	18	14	26	1.89
1414653--1414718	20	3.3	20	77	8	80	25	13	15	45	1.83
1414649--1414731	40	2.1	40	90	0	130	22	14	16	45	1.84
1414661--1414734	20	3.7	20	70	13	62	22	16	17	43	1.88
1414763--1414800	20	1.9	20	88	0	58	21	15	15	47	1.82
1414807--1415003	63	3.1	62	63	16	143	27	17	19	34	1.95
1414726--1415046	126	2.6	126	89	1	511	26	16	20	35	1.94

Tables:   1   2   3   4   5   6   7   8   9