genome.fa.s8826.2.7.7.80.10.50.1000.6.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  6  of  18  ( 2089 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)
1179722--1179824	39	2.6	38	83	6	125	21	7	14	56	1.63
1180676--1180706	15	2.1	15	93	0	53	12	16	0	70	1.16
1187285--1187320	14	2.6	14	100	0	72	83	0	16	0	0.65
1187285--1187325	18	2.2	19	86	4	57	80	0	19	0	0.71
1189409--1189433	9	2.8	9	100	0	50	48	0	0	52	1.00
1199478--1199524	5	10.2	5	82	13	57	82	0	17	0	0.66
1199456--1199533	12	6.6	12	78	14	74	80	0	16	2	0.82
1199457--1199525	27	2.6	25	80	13	75	84	0	13	2	0.74
1200671--1200976	83	3.7	83	94	1	495	27	13	22	35	1.92
1201707--1202263	113	5.0	112	91	2	813	35	14	19	29	1.92
1202191--1202246	17	3.2	17	68	26	53	48	8	25	17	1.76
1202493--1202567	3	25.3	3	84	8	55	45	0	0	54	0.99
1203045--1203084	20	2.0	20	90	0	62	85	0	15	0	0.61
1210089--1210133	19	2.4	19	92	0	72	20	28	33	17	1.95
1210160--1210320	29	5.6	29	88	2	218	40	4	21	34	1.73
1210160--1210321	57	2.8	58	86	1	218	40	4	20	34	1.73
1210161--1210320	86	1.9	85	89	1	248	40	4	20	34	1.72
1211350--1211403	26	2.1	26	89	0	81	27	7	16	48	1.73
1217547--1217611	12	5.8	12	71	14	66	15	43	26	15	1.86
1217550--1217611	22	2.8	22	100	0	124	14	41	27	16	1.87
1217616--1217817	57	3.5	57	85	4	262	37	5	20	36	1.76
1217616--1217817	29	7.0	29	87	3	264	37	5	20	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1217886--1217911	12	2.2	12	100	0	52	38	23	23	15	1.92
1218874--1218927	26	2.1	26	89	0	81	27	7	16	48	1.73
1221719--1221758	18	2.2	18	95	0	71	32	30	17	20	1.95
1226243--1227407	132	8.8	132	91	0	1855	31	22	20	25	1.98
1226729--1226789	20	3.0	19	71	15	59	22	26	31	19	1.98
1227299--1227482	90	2.0	90	91	0	296	32	21	20	25	1.97
1227576--1227725	43	3.5	42	86	4	192	29	30	15	24	1.95
1229003--1229063	26	2.3	26	85	5	77	21	4	34	39	1.75
1229694--1229770	7	11.9	7	81	15	53	0	16	1	81	0.75
1229710--1229773	12	5.4	12	76	10	69	0	14	1	84	0.70
1229693--1229773	35	2.3	35	86	2	108	0	16	1	82	0.73
1229693--1229784	43	2.1	43	86	4	123	0	15	3	81	0.81
1229695--1229784	24	3.8	24	76	19	82	0	15	3	81	0.83
1229694--1229773	18	4.5	18	77	16	78	0	16	1	82	0.73
1232262--1232286	6	4.2	6	100	0	50	52	16	16	16	1.76
1237548--1237579	12	2.7	12	100	0	64	31	0	0	68	0.90
1247224--1247272	22	2.2	22	96	0	89	20	48	22	8	1.75
1247296--1247405	29	3.8	29	88	0	148	38	6	23	31	1.80
1247277--1247407	29	4.5	29	86	0	145	37	6	20	35	1.80
1251587--1251655	23	3.0	23	91	0	102	28	26	24	20	1.99
1256380--1256417	15	2.4	16	86	4	51	28	7	18	44	1.78
1258105--1258268	29	5.7	28	85	6	186	34	4	23	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1258105--1258266	58	2.8	58	85	3	220	35	4	24	35	1.77
1266806--1266844	16	2.4	17	86	8	62	17	17	2	61	1.46
1267110--1267154	21	2.1	21	84	8	56	37	24	0	37	1.56
1271078--1271129	3	17.7	3	88	11	81	67	0	0	32	0.91
1271369--1272228	229	3.9	224	75	12	706	30	18	12	38	1.88
1271369--1271828	113	4.1	113	83	7	540	30	19	12	38	1.88
1271736--1271919	91	2.0	91	84	4	237	34	15	13	36	1.86
1271827--1272191	111	3.3	113	86	5	571	30	17	11	40	1.85
1273016--1273590	94	6.1	94	96	0	1037	34	21	14	30	1.93
1283706--1284657	472	2.0	471	99	0	1868	34	7	19	38	1.81
1284668--1284741	23	3.2	22	80	3	76	21	27	18	32	1.97
1290928--1290988	23	2.9	21	87	7	79	24	32	24	18	1.97
1312098--1312136	19	2.1	19	100	0	78	53	5	0	41	1.23
1312228--1312278	25	2.0	25	100	0	102	27	21	3	47	1.68
1321585--1321639	21	2.7	21	86	8	78	23	20	14	41	1.89
1321625--1321717	40	2.3	40	85	5	125	29	20	12	37	1.90
1321624--1321741	20	6.0	19	73	16	73	28	20	12	38	1.89
1322501--1322534	12	2.8	12	90	0	50	55	29	0	14	1.40
1322655--1322701	24	2.0	24	86	0	67	27	21	17	34	1.95
1325258--1325314	29	2.0	29	96	0	105	26	15	26	31	1.96
1325260--1325322	29	2.2	29	88	0	90	30	15	25	28	1.96
1325299--1325364	20	3.3	20	86	0	87	48	15	21	15	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1325374--1325436	20	3.2	20	75	2	65	22	20	20	36	1.95
1327452--1327498	21	2.2	21	84	0	58	29	38	14	17	1.89
1329644--1329722	20	4.0	20	91	0	113	22	18	18	39	1.93
1335145--1336049	256	3.5	256	87	2	1251	34	17	16	31	1.92
1335884--1335985	42	2.5	41	76	9	107	31	20	25	22	1.98
1336494--1336601	42	2.6	42	79	5	103	32	20	25	22	1.98
1336088--1336730	254	2.5	255	87	3	929	34	16	16	32	1.91
1335465--1336669	620	1.9	627	90	1	1904	34	16	17	32	1.92
1339281--1339330	20	2.4	20	86	6	64	62	12	14	12	1.56
1340669--1340701	17	1.9	17	93	0	57	33	24	6	36	1.80
1344348--1344589	57	4.3	55	85	5	265	33	18	11	35	1.87
1344384--1344597	57	3.8	58	87	6	291	33	19	12	34	1.89
1346557--1346614	3	19.7	3	86	10	84	70	0	0	29	0.87
1351572--1351598	5	5.4	5	100	0	54	81	0	0	18	0.69
1359989--1360038	14	3.6	14	74	12	50	28	2	12	58	1.45
1363441--1363646	83	2.6	83	81	10	220	46	15	13	24	1.82
1372954--1373010	24	2.4	24	93	0	96	29	31	15	22	1.95
1383288--1383397	39	2.8	37	78	9	114	48	1	16	33	1.57
1386507--1386695	41	4.8	41	78	7	185	30	19	17	32	1.95
1387533--1387660	68	2.0	67	87	7	192	41	6	8	43	1.60
1387532--1387636	34	3.2	33	71	18	87	40	6	7	45	1.59
1387563--1387664	34	3.0	33	76	15	109	40	7	8	43	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1388151--1388183	15	2.2	15	89	10	50	30	3	0	66	1.06
1398938--1399040	50	2.0	51	86	1	145	34	9	4	50	1.57
1399992--1400086	48	2.0	48	89	4	149	26	14	13	45	1.82
1406605--1406655	14	3.6	14	86	5	66	23	23	29	23	1.99
1408584--1408616	15	2.1	16	94	5	59	36	9	6	48	1.60
1413782--1413825	20	2.3	19	81	11	54	20	27	9	43	1.82
1413788--1413825	20	1.9	20	88	0	58	21	26	10	42	1.85
1418979--1419024	22	2.1	22	100	0	92	43	23	4	28	1.73
1422293--1422374	19	4.1	19	77	11	92	20	21	19	37	1.94
1422274--1422380	42	2.6	40	88	2	151	20	20	22	36	1.95
1422354--1422459	42	2.5	40	86	6	122	21	19	21	36	1.95
1422293--1422443	63	2.4	63	87	2	207	21	20	21	36	1.95
1422516--1422542	6	4.5	6	100	0	54	33	51	14	0	1.43
1423044--1423074	6	5.2	6	92	0	53	3	16	45	35	1.63
1423192--1423376	21	8.8	21	77	12	184	38	20	19	21	1.94
1423180--1423385	21	10.0	19	77	9	142	37	21	18	21	1.94
1423213--1423385	42	4.2	42	88	4	246	37	21	19	21	1.94
1424123--1424174	25	2.2	23	86	6	68	50	1	0	48	1.12
1426764--1426844	21	3.8	21	71	20	69	19	16	27	37	1.93
1428945--1428970	13	2.0	13	100	0	52	23	15	38	23	1.92
1431818--1431858	16	2.6	16	100	0	82	17	19	56	7	1.64
1431955--1431985	2	15.5	2	100	0	62	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1431987--1432098	3	37.0	3	87	1	161	60	0	0	38	1.03
1432430--1432859	113	3.8	113	97	0	797	28	17	14	38	1.90
1432818--1432891	39	1.9	38	94	2	130	27	14	17	40	1.89
1433080--1433605	73	7.4	73	90	5	592	33	20	21	24	1.97
1433269--1433611	76	5.0	64	82	12	389	34	20	21	23	1.97
1433619--1433916	163	1.8	165	89	4	469	38	12	12	36	1.81
1434432--1434510	22	3.6	22	73	0	77	41	13	8	35	1.76
1436926--1437151	114	2.0	114	91	0	362	31	21	14	32	1.93
1439212--1439281	7	10.4	7	77	11	58	0	10	7	82	0.83
1439212--1439281	13	5.2	13	73	23	56	0	10	7	82	0.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18