genome.fa.s913.2.7.7.80.10.50.1000.6.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: VEPZ01000913.1 Hibiscus syriacus cultivar Beakdansim tig00001818_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1610646

Tables:   1   2   3   4   5   6   7   

This is table  6  of  7  ( 813 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)
1168154--1168275	60	2.0	60	80	9	133	44	4	17	33	1.70
1169722--1169754	16	1.9	18	88	11	52	36	0	3	60	1.12
1179832--1179898	17	3.9	17	88	5	91	23	7	11	56	1.60
1182274--1182318	3	14.7	3	82	13	56	62	0	0	37	0.96
1182275--1182317	22	2.0	22	86	9	61	60	0	0	39	0.97
1182448--1182704	76	3.4	76	92	2	428	35	19	19	24	1.96
1182829--1183191	76	4.8	76	96	0	656	34	21	19	24	1.96
1182829--1183187	151	2.4	152	95	0	648	35	21	18	24	1.96
1183863--1183939	22	3.5	22	96	0	145	40	14	11	33	1.82
1188131--1188193	32	2.0	32	93	0	108	22	17	15	44	1.86
1188806--1188891	1	86.0	1	88	0	109	0	8	0	91	0.41
1188804--1188906	8	12.6	8	83	9	111	0	12	0	87	0.55
1188807--1188902	6	14.4	7	82	10	89	0	11	0	88	0.51
1188798--1188891	28	3.4	28	85	2	120	0	10	0	89	0.49
1191486--1191525	21	1.9	21	94	0	71	60	12	10	17	1.59
1194618--1194651	17	2.0	17	88	11	52	70	2	0	26	1.01
1194623--1194665	22	2.0	22	86	9	61	72	2	0	25	0.97
1194611--1194652	16	2.5	17	78	17	52	66	2	0	30	1.04
1196089--1196130	3	13.7	3	85	9	50	61	0	0	38	0.96
1196077--1196123	22	2.2	20	85	7	58	55	0	0	44	0.99
1201713--1201752	18	2.1	20	86	9	57	65	5	5	25	1.34
1201847--1201890	21	2.2	20	84	12	54	63	6	6	22	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1203891--1204049	65	2.5	65	84	5	198	27	18	23	31	1.97
1203890--1204099	65	3.2	64	75	12	196	26	18	23	31	1.97
1206659--1206757	43	2.3	43	82	8	121	29	21	25	24	1.99
1210586--1210625	21	1.9	21	85	10	55	35	10	2	52	1.48
1212537--1212585	19	2.7	17	84	9	53	26	20	28	24	1.99
1212557--1212766	65	3.2	64	76	12	205	26	19	23	30	1.98
1214258--1214465	57	3.6	55	82	5	229	43	12	6	37	1.68
1217153--1217199	23	2.0	23	83	4	58	48	8	12	29	1.71
1226069--1226133	29	2.2	30	83	2	78	36	6	20	36	1.77
1227292--1227373	40	2.0	40	100	0	164	23	17	26	32	1.96
1227478--1227603	47	2.8	45	84	5	164	39	7	22	30	1.82
1233318--1233365	20	2.4	20	86	6	62	45	14	4	35	1.64
1233332--1233527	72	2.7	73	89	5	294	44	18	10	26	1.82
1233475--1233546	19	3.8	18	78	10	63	41	20	11	26	1.86
1235118--1235164	21	2.2	21	84	0	58	10	25	29	34	1.90
1235452--1235518	24	2.9	24	75	6	75	22	7	19	50	1.72
1237637--1237679	22	2.0	21	86	8	61	74	0	0	25	0.82
1240201--1240327	39	3.5	38	68	16	106	44	18	10	26	1.82
1240133--1240327	72	2.7	73	86	6	276	43	17	11	27	1.83
1240275--1240346	19	3.8	18	78	10	63	41	20	11	26	1.86
1241926--1241970	20	2.2	20	88	4	63	11	24	31	33	1.90
1242247--1242313	24	2.9	24	75	6	75	22	7	19	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1246888--1246993	56	1.9	56	84	3	142	32	10	13	44	1.77
1258055--1258211	64	2.5	65	80	10	173	34	20	19	26	1.96
1258938--1259002	31	2.1	31	88	0	94	24	16	23	35	1.95
1258958--1259015	31	1.9	30	86	10	82	24	15	24	36	1.94
1263409--1263472	30	2.1	31	88	2	94	23	20	23	32	1.98
1266335--1266431	51	1.9	52	87	4	144	18	29	30	20	1.97
1266320--1266475	51	3.1	50	76	11	135	19	28	30	21	1.97
1268335--1268375	18	2.3	18	91	0	73	29	31	19	19	1.96
1272458--1272578	51	2.4	50	86	4	172	27	21	24	26	1.99
1272590--1272717	51	2.5	51	88	1	177	17	32	33	15	1.92
1275942--1275987	22	2.1	22	95	0	83	36	43	6	13	1.69
1280609--1280656	16	2.9	17	84	9	64	60	0	0	39	0.97
1280609--1280658	20	2.3	23	86	10	70	58	0	0	42	0.98
1291503--1291546	5	8.8	5	100	0	88	0	59	0	40	0.98
1292884--1293245	182	2.0	180	98	1	706	37	20	11	29	1.88
1308379--1308462	42	2.0	42	100	0	168	19	16	19	45	1.86
1312018--1312081	20	3.2	20	78	10	60	31	10	18	39	1.86
1315281--1315317	18	2.1	18	100	0	74	62	10	5	21	1.48
1325650--1325872	95	2.3	96	79	7	222	32	16	24	26	1.96
1325816--1325871	22	2.7	20	79	15	69	32	19	26	21	1.97
1326195--1326384	57	3.3	57	90	0	308	37	11	18	32	1.86
1326365--1326400	18	2.0	18	100	0	72	50	11	11	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1326308--1326460	75	2.0	75	97	0	288	39	10	17	32	1.84
1326383--1327146	57	13.5	57	89	2	1168	36	12	18	32	1.88
1326251--1326514	132	2.0	132	90	0	411	39	11	17	31	1.85
1329125--1329214	27	3.2	27	85	4	117	25	22	23	28	1.99
1334573--1334607	18	1.9	18	100	0	70	28	17	28	25	1.97
1339724--1339855	30	4.4	30	82	11	89	18	10	8	62	1.51
1339744--1339866	30	4.1	30	88	9	171	17	11	8	62	1.52
1357326--1357446	16	7.6	16	73	5	75	55	13	8	23	1.64
1357326--1357446	32	3.8	32	75	6	102	55	13	8	23	1.64
1359817--1360042	54	4.3	54	81	8	248	27	23	25	23	2.00
1370746--1370813	35	1.9	35	87	0	100	22	20	11	45	1.83
1370746--1370841	35	2.7	35	81	0	93	23	21	10	43	1.84
1371412--1371582	93	1.8	93	84	2	236	36	9	7	46	1.63
1373121--1373185	26	2.5	26	97	0	121	21	6	10	61	1.50
1380212--1380407	99	2.0	99	88	2	295	34	16	17	31	1.92
1381922--1382409	85	5.8	85	83	0	575	34	20	17	26	1.95
1385081--1385137	30	1.9	30	85	0	78	35	12	1	50	1.50
1389536--1389572	17	2.1	18	90	5	58	51	5	2	40	1.39
1392919--1393184	103	2.6	103	81	3	304	35	17	15	31	1.91
1398002--1398050	23	2.1	24	84	3	64	40	2	2	55	1.23
1400133--1400163	13	2.4	13	94	0	53	19	45	19	16	1.86
1408809--1408889	41	2.0	41	95	0	144	28	22	12	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1409403--1409518	51	2.3	51	93	0	196	29	20	12	37	1.89
1410554--1410594	10	4.1	10	84	12	57	31	29	0	39	1.57
1410718--1410939	111	2.0	111	94	1	392	35	8	11	44	1.72
1412816--1412862	15	3.1	15	90	0	76	31	14	36	17	1.90
1413679--1413786	49	2.2	49	81	5	119	24	27	33	14	1.94
1415282--1415342	2	30.5	2	100	0	122	50	0	0	49	1.00
1421015--1421079	32	2.0	32	100	0	130	53	12	9	24	1.67
1424293--1424680	185	2.1	183	90	4	613	46	8	2	42	1.48
1425623--1425697	24	3.1	22	81	12	69	37	4	1	57	1.26
1425607--1425770	55	3.0	52	79	14	163	36	6	0	56	1.30
1425623--1425697	25	3.1	23	80	16	73	37	4	1	57	1.26
1425643--1425707	24	2.7	25	90	4	98	41	1	0	56	1.08
1425609--1425777	29	6.1	28	80	13	165	36	7	0	55	1.33
1428664--1428705	14	3.0	14	86	10	59	28	14	26	30	1.95
1430284--1430343	2	30.0	2	100	0	120	50	0	0	50	1.00
1438385--1438436	18	2.9	18	86	11	79	32	7	13	46	1.72
1438566--1438646	41	2.0	41	97	0	153	23	17	16	43	1.88
1441831--1441879	14	3.5	14	78	10	55	26	22	26	24	2.00
1443495--1443542	22	2.2	22	84	0	60	45	8	31	14	1.74
1444142--1444175	2	17.5	2	93	6	61	50	0	0	50	1.00
1444107--1444179	26	2.7	28	77	16	73	47	1	1	49	1.18
1445338--1445385	24	2.0	23	92	4	78	27	0	6	66	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1445408--1445441	17	1.9	18	88	5	52	44	8	0	47	1.34
1445480--1445536	23	2.5	22	83	8	62	7	7	7	78	1.08
1445491--1445585	12	7.7	12	74	16	52	8	9	4	77	1.10
1445491--1445572	23	3.7	24	77	18	72	8	9	3	78	1.08
1445501--1445574	14	5.4	14	70	24	52	8	9	2	79	1.02
1445541--1445587	20	2.4	19	83	13	60	10	6	2	80	0.96
1445479--1445574	21	4.4	21	72	12	68	7	9	4	79	1.05
1445482--1445585	13	8.3	12	71	13	50	7	8	4	78	1.07
1455978--1456015	17	2.2	17	90	9	60	84	2	13	0	0.73
1456053--1456105	6	8.7	6	78	17	56	83	1	13	1	0.82

Tables:   1   2   3   4   5   6   7