genome.fa.s8539.2.7.7.80.10.50.1000.7.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  7  of  31  ( 3630 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)
1151688--1151729	21	2.0	21	86	9	59	50	2	0	47	1.14
1154914--1154942	2	14.5	2	100	0	58	51	0	0	48	1.00
1156044--1156101	24	2.4	24	97	0	107	36	18	10	34	1.85
1166562--1166614	21	2.5	21	93	0	88	22	30	26	20	1.98
1174570--1174613	20	2.2	20	87	0	61	22	36	27	13	1.92
1178238--1178272	2	17.5	2	93	0	61	48	2	0	48	1.16
1184261--1184298	15	2.5	15	84	12	51	68	5	2	23	1.23
1185286--1185318	6	5.7	6	92	3	50	3	0	84	12	0.72
1191950--1192000	21	2.5	21	96	3	95	45	3	21	29	1.70
1192455--1192480	6	4.3	6	100	0	52	0	15	0	84	0.62
1199880--1199959	22	3.6	22	98	0	151	26	3	27	42	1.72
1203676--1203727	14	3.6	14	94	2	86	15	21	7	55	1.64
1206490--1206547	18	3.0	19	78	14	73	50	12	8	29	1.69
1209498--1209537	21	1.9	21	85	10	55	15	10	37	37	1.80
1209723--1209789	20	3.5	20	83	4	57	34	20	7	37	1.81
1213620--1213736	32	3.7	32	95	0	189	31	16	20	31	1.95
1213865--1214006	66	2.1	66	81	3	160	32	13	13	40	1.83
1214142--1214306	82	2.0	82	92	0	276	27	28	16	26	1.97
1214160--1214288	40	3.2	40	68	16	111	27	27	17	27	1.98
1217330--1217410	40	2.0	41	92	2	137	53	4	2	39	1.36
1225662--1225703	20	2.1	20	90	0	66	47	11	14	26	1.78
1225439--1225925	182	2.7	181	87	2	681	42	12	17	27	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1227885--1227940	24	2.4	23	80	8	69	42	0	7	50	1.30
1230201--1231075	201	4.4	201	90	1	1344	37	13	14	34	1.85
1230207--1231075	400	2.2	402	91	1	1384	37	13	14	34	1.85
1232298--1232323	9	2.9	9	100	0	52	34	30	23	11	1.90
1233326--1233378	24	2.2	24	82	0	61	37	3	11	47	1.58
1234895--1234938	21	2.0	21	82	4	52	25	11	11	52	1.70
1234776--1236143	203	6.7	203	77	10	1178	37	14	14	33	1.86
1235244--1235287	20	2.2	20	95	0	79	38	6	22	31	1.81
1235319--1235362	21	2.0	21	82	4	52	25	15	11	47	1.79
1235034--1235484	221	2.0	223	92	0	744	37	13	16	33	1.87
1234830--1235972	424	2.8	416	86	5	1462	37	14	14	34	1.87
1239077--1239534	245	1.9	245	96	0	844	31	21	16	31	1.95
1240241--1240952	198	3.6	197	86	4	927	39	14	15	30	1.88
1240946--1241002	23	2.4	23	76	2	60	36	14	12	36	1.83
1254815--1255234	41	10.3	41	73	8	304	28	16	16	38	1.90
1254815--1255234	81	5.2	80	79	4	416	28	16	16	38	1.90
1254815--1255234	161	2.6	162	82	7	496	28	16	16	38	1.90
1257017--1257133	51	2.3	50	78	11	114	70	0	7	21	1.11
1258513--1258974	39	12.1	38	79	11	409	46	4	2	45	1.38
1258513--1258967	193	2.4	185	83	10	530	46	5	2	45	1.39
1258848--1258904	11	4.9	11	73	12	51	47	3	1	47	1.29
1259077--1259113	2	19.5	2	83	10	51	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1259861--1260970	85	13.0	85	85	2	1359	25	16	21	35	1.95
1259860--1260970	171	6.5	170	86	1	1413	25	16	21	35	1.95
1266935--1266983	20	2.5	20	96	0	89	12	8	26	53	1.66
1267490--1267539	23	2.2	23	82	13	59	74	2	2	22	1.03
1267485--1267553	12	5.7	12	75	13	52	69	2	2	24	1.16
1267508--1267552	23	1.9	24	86	4	65	68	0	2	28	1.01
1267587--1267967	40	9.9	36	81	12	324	46	4	3	44	1.41
1267588--1267969	39	9.9	38	85	9	451	46	4	3	45	1.41
1267952--1267983	2	16.5	2	93	6	57	50	0	0	50	1.00
1267916--1268025	50	2.2	48	85	7	141	47	6	1	44	1.39
1274865--1274930	31	2.1	32	94	2	116	33	22	18	25	1.97
1275202--1275235	15	2.3	15	94	0	59	44	0	0	55	0.99
1276467--1276522	23	2.4	23	85	5	69	19	19	10	50	1.77
1284897--1285052	65	2.4	65	79	3	172	29	21	16	32	1.96
1298747--1298869	23	5.7	21	70	21	94	30	22	18	27	1.97
1298748--1298867	44	2.7	43	86	6	161	31	22	18	27	1.97
1301157--1301185	13	2.3	13	94	5	51	44	6	6	41	1.58
1301531--1301706	65	2.7	64	81	9	198	28	22	17	31	1.96
1302882--1303040	76	2.1	76	96	1	293	27	17	21	33	1.96
1304096--1304152	20	2.7	22	75	10	64	31	12	26	29	1.92
1304814--1305002	68	2.8	68	81	1	218	30	13	24	31	1.94
1304934--1305169	81	2.9	81	90	0	373	35	12	24	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305067--1305509	109	4.1	109	88	0	663	39	11	22	26	1.88
1305090--1305582	109	4.5	109	85	1	387	40	11	21	26	1.87
1308367--1308409	21	2.0	21	90	0	68	39	9	4	46	1.57
1309440--1309759	118	2.8	118	81	7	361	24	21	14	39	1.91
1319647--1319671	2	12.5	2	100	0	50	52	0	0	48	1.00
1325035--1325077	21	2.0	21	82	8	52	65	9	0	25	1.22
1325838--1325876	2	19.5	2	100	0	78	48	0	0	51	1.00
1326338--1326388	24	2.1	24	96	0	93	33	7	17	41	1.79
1328148--1328285	70	2.0	70	92	2	233	29	22	20	27	1.98
1328507--1328535	2	14.5	2	100	0	58	51	0	0	48	1.00
1328958--1328982	2	12.5	2	100	0	50	52	0	0	48	1.00
1329190--1329251	22	2.9	22	84	13	85	48	0	4	46	1.23
1329295--1329324	2	15.0	2	100	0	60	50	0	0	50	1.00
1330544--1330921	80	4.7	81	82	8	389	50	10	10	28	1.70
1330544--1330921	165	2.3	159	82	7	442	50	10	10	28	1.70
1336058--1336082	12	2.1	12	100	0	50	28	16	24	32	1.96
1337965--1338002	20	1.9	20	88	0	58	55	0	2	42	1.14
1338933--1339565	39	17.4	36	79	8	429	37	13	19	29	1.90
1338941--1339219	101	2.7	101	86	3	382	38	11	19	30	1.87
1339144--1339205	21	3.2	21	63	25	55	41	11	20	25	1.86
1339125--1339565	78	5.8	76	88	2	475	37	14	19	28	1.91
1339127--1339566	117	3.9	112	83	4	494	37	14	19	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1339559--1339747	75	2.5	75	85	6	242	40	14	15	30	1.87
1344370--1344398	10	2.7	11	89	10	51	68	17	13	0	1.20
1352533--1352564	16	2.0	16	93	0	55	12	0	34	53	1.39
1352858--1352895	20	1.9	20	88	0	58	55	0	2	42	1.14
1352973--1353205	48	4.9	48	89	3	337	32	16	21	30	1.95
1352973--1353205	95	2.4	96	86	4	337	32	16	21	30	1.95
1353204--1353347	37	3.9	37	90	0	225	22	15	20	40	1.91
1357347--1357378	12	2.7	12	95	0	55	43	21	15	18	1.87
1357401--1357444	21	2.1	21	91	0	70	25	25	22	27	2.00
1358762--1358817	20	2.8	21	86	8	80	23	28	16	32	1.96
1363519--1363543	2	12.5	2	100	0	50	52	0	0	48	1.00
1364236--1364332	8	12.1	8	84	6	63	50	3	2	44	1.29
1364272--1364333	2	31.0	2	100	0	124	50	0	0	50	1.00
1367410--1367472	31	2.0	31	96	0	117	33	20	12	33	1.90
1368661--1368823	29	5.6	29	73	3	121	38	7	20	32	1.82
1368695--1368825	58	2.2	59	82	1	156	39	8	18	33	1.81
1375231--1375396	29	5.7	29	79	2	170	37	6	22	33	1.80
1375231--1375396	60	2.8	58	83	1	197	37	6	22	33	1.80
1375494--1376719	609	2.0	611	96	1	2267	29	16	18	34	1.94
1386302--1386357	21	2.5	22	80	13	62	26	32	3	37	1.74
1386386--1386418	15	2.2	15	89	10	50	24	45	0	30	1.53
1386416--1386443	3	9.3	3	100	0	56	32	67	0	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1390412--1390472	30	2.0	30	96	0	113	21	32	16	29	1.95
1392444--1392525	28	2.9	28	87	3	103	29	15	21	32	1.95
1392749--1392796	3	16.0	3	100	0	96	33	0	0	66	0.92
1393325--1393355	9	3.3	9	95	4	53	64	0	0	35	0.94
1393969--1394037	36	1.9	35	91	2	111	42	5	21	30	1.76
1394002--1394047	15	3.1	15	78	6	58	43	8	19	28	1.80
1394390--1394453	23	2.7	24	82	4	76	48	1	0	50	1.10
1394444--1394608	29	5.7	29	70	16	103	50	1	0	47	1.13
1394524--1394582	14	3.8	16	72	20	61	45	0	1	52	1.10
1394553--1394588	17	2.1	17	94	0	63	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31