genome.fa.s8258.2.7.7.80.10.50.1000.7.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: VEPZ01008258.1 Hibiscus syriacus cultivar Beakdansim tig00110911_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1617810

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 931 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)
1237068--1237118	24	2.1	26	85	10	72	15	9	0	74	1.06
1237274--1237319	4	12.0	4	82	17	62	26	2	0	71	0.97
1237398--1237427	13	2.3	13	94	0	51	30	0	0	70	0.88
1242661--1243317	85	7.7	85	88	1	926	35	21	18	25	1.96
1242661--1243317	254	2.6	254	86	1	888	35	21	18	25	1.96
1243938--1243991	28	1.9	28	81	7	65	40	3	7	48	1.49
1243938--1244216	75	3.7	74	86	7	375	45	2	7	44	1.45
1243938--1244216	112	2.5	113	87	5	397	45	2	7	44	1.45
1244050--1244103	28	1.9	28	85	7	74	48	3	5	42	1.44
1243938--1244216	37	7.5	37	88	7	368	45	2	7	44	1.45
1245298--1245361	31	2.1	30	85	8	85	14	7	1	76	1.07
1245441--1245469	12	2.4	12	100	0	58	17	0	6	75	1.01
1245316--1245459	52	2.7	54	75	20	149	22	9	1	66	1.28
1246710--1246751	17	2.4	18	81	18	54	26	9	4	59	1.48
1246843--1246888	23	2.0	24	83	12	60	76	4	8	10	1.15
1249499--1249552	15	3.7	15	72	20	51	46	7	7	38	1.60
1249506--1249609	30	3.6	29	83	10	133	42	7	9	40	1.66
1249527--1249576	15	3.3	15	72	10	57	44	10	12	34	1.75
1250047--1250105	22	2.5	22	72	8	55	47	5	5	42	1.47
1250335--1250410	36	2.1	38	82	5	93	57	6	1	34	1.33
1253501--1253553	26	2.1	26	92	3	90	22	11	30	35	1.89
1255795--1255858	31	2.1	31	100	0	128	40	18	10	29	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1255829--1256062	120	2.0	119	85	4	321	37	15	18	29	1.91
1260102--1260163	20	2.9	20	85	9	79	17	25	35	20	1.95
1263977--1264016	21	1.9	21	90	10	64	37	10	0	52	1.35
1267826--1267874	23	2.1	23	92	0	80	36	8	14	40	1.75
1268628--1269394	333	2.2	344	84	6	979	31	13	13	41	1.84
1269209--1269257	21	2.3	21	100	0	98	26	18	14	40	1.89
1270831--1270886	24	2.3	24	90	0	85	51	12	7	28	1.65
1270831--1270867	18	2.1	18	89	0	56	51	10	8	29	1.65
1273759--1274130	179	2.1	178	89	2	559	30	15	12	41	1.85
1273938--1274329	199	2.0	200	91	0	633	31	15	13	40	1.85
1274138--1274505	176	2.1	177	91	2	596	29	16	12	41	1.85
1274315--1274784	199	2.4	199	89	2	723	32	15	11	40	1.83
1273731--1274704	375	2.6	377	91	1	1553	31	15	12	40	1.85
1274868--1274904	19	1.9	19	94	0	65	32	29	16	21	1.95
1275858--1275911	24	2.2	24	90	0	81	22	18	18	40	1.91
1276101--1276136	14	2.5	15	86	9	56	55	22	16	5	1.62
1278259--1278541	140	2.0	140	98	0	548	27	13	15	43	1.84
1278512--1278688	20	8.9	20	94	0	300	30	21	20	27	1.98
1283520--1283664	66	2.2	65	82	3	182	26	42	2	28	1.67
1283809--1283844	18	2.1	17	89	5	54	2	55	5	36	1.38
1284073--1284122	24	2.0	24	84	3	64	42	8	0	50	1.32
1286109--1286885	183	4.3	183	90	2	1206	27	14	14	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1286109--1286885	365	2.1	364	91	2	1236	27	14	14	42	1.85
1286876--1286925	21	2.4	21	89	0	82	36	12	16	36	1.85
1287064--1287088	11	2.3	11	100	0	50	24	12	20	44	1.85
1287102--1287143	22	1.9	22	90	0	66	57	26	0	16	1.40
1292069--1292114	3	15.3	3	86	0	56	60	2	6	30	1.34
1295253--1295321	34	2.1	34	86	8	97	26	28	14	30	1.95
1295783--1295838	20	2.8	20	86	0	76	30	14	28	26	1.95
1296804--1296868	29	2.2	29	81	5	78	32	13	16	36	1.89
1299031--1299133	20	5.1	20	71	9	73	33	22	10	33	1.88
1299035--1299145	20	5.4	20	70	8	62	31	23	10	34	1.89
1299074--1299266	20	9.6	20	64	13	76	31	22	10	35	1.89
1300031--1300064	12	2.8	12	95	0	59	55	26	0	17	1.42
1302470--1302505	18	2.0	18	94	0	63	55	25	2	16	1.55
1302867--1302941	20	3.8	20	91	1	116	41	20	10	28	1.85
1302867--1302959	40	2.3	40	85	1	116	41	19	9	29	1.83
1302793--1302984	20	9.9	20	78	10	105	43	21	8	26	1.81
1302793--1302965	94	1.8	94	79	7	199	43	21	8	26	1.81
1302999--1303178	74	2.4	74	85	3	211	22	12	22	42	1.86
1303052--1303107	20	2.8	20	83	0	67	23	14	25	37	1.92
1303091--1303121	14	2.2	14	94	0	53	12	16	29	41	1.85
1303105--1303212	20	5.4	20	71	0	81	23	11	21	44	1.84
1303032--1303212	40	4.7	40	74	8	158	22	12	21	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1305062--1305108	21	2.2	21	84	0	58	29	14	36	19	1.92
1305080--1305144	21	3.1	21	86	4	87	29	12	36	21	1.90
1305278--1305318	12	3.4	12	82	0	55	65	2	2	29	1.18
1305439--1305596	63	2.5	63	80	9	164	34	36	9	19	1.84
1305436--1305596	21	7.7	21	70	10	116	34	36	9	19	1.85
1305697--1305838	42	3.5	41	84	2	153	23	14	37	24	1.93
1305722--1305848	42	3.0	42	86	2	166	25	15	34	24	1.95
1307326--1307417	34	2.7	32	85	6	112	51	17	14	17	1.77
1307348--1307386	20	2.0	19	90	5	60	58	12	10	17	1.61
1307403--1307440	20	1.9	20	89	10	60	34	18	13	34	1.89
1307438--1307483	20	2.3	20	92	0	74	4	17	21	56	1.58
1307443--1307520	34	2.3	34	88	0	111	8	14	23	53	1.68
1307434--1307500	20	3.7	20	67	22	56	10	16	20	52	1.73
1307879--1307928	22	2.3	22	96	0	91	16	22	46	16	1.84
1308059--1308106	20	2.4	20	85	0	60	33	14	25	27	1.94
1308217--1308254	20	1.9	20	94	0	67	23	10	31	34	1.89
1309020--1309063	2	22.0	2	100	0	88	50	0	0	50	1.00
1315159--1315285	64	2.0	64	90	0	200	33	21	12	33	1.91
1347327--1347366	20	2.0	21	95	5	73	45	0	30	25	1.54
1348196--1348254	21	2.8	21	97	0	109	10	38	10	40	1.73
1351506--1351602	51	1.9	51	89	0	149	27	17	17	37	1.92
1359306--1359389	21	3.9	20	73	13	69	47	2	1	48	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1359325--1359361	18	2.1	18	89	0	56	45	5	0	48	1.25
1359318--1359391	12	6.4	12	71	12	57	45	2	1	50	1.24
1359519--1359548	14	2.1	14	93	0	51	13	30	16	40	1.87
1360522--1360574	21	2.5	21	84	0	70	20	26	18	33	1.96
1361772--1362741	493	2.0	477	95	3	1760	32	14	15	38	1.87
1370751--1370775	13	1.9	13	100	0	50	32	24	20	24	1.98
1370763--1370908	44	3.5	41	75	6	141	28	19	20	32	1.97
1370763--1370853	42	2.1	42	87	4	128	29	20	19	29	1.97
1371001--1371158	53	3.0	53	91	1	246	29	22	27	19	1.98
1371301--1371421	62	2.0	62	93	0	206	41	4	4	49	1.43
1371381--1371468	23	3.8	24	76	16	80	45	1	1	52	1.15
1371386--1371480	3	33.3	3	71	10	56	41	1	2	55	1.18
1371374--1371468	20	4.7	20	70	17	70	46	1	1	51	1.15
1371590--1371619	14	2.1	14	93	0	51	13	30	16	40	1.87
1373297--1373357	21	2.8	22	74	13	56	32	3	13	50	1.57
1373470--1373572	2	52.5	2	96	3	192	48	0	0	51	1.00
1375079--1375176	45	2.1	48	86	5	139	28	13	19	38	1.89
1381757--1381790	16	2.1	16	89	10	52	61	8	23	5	1.47
1384478--1384559	42	2.0	42	82	4	103	18	17	15	48	1.81
1384511--1384575	33	2.0	33	82	11	80	21	13	15	49	1.79
1385656--1385715	30	2.0	30	100	0	120	50	3	26	20	1.64
1386473--1386506	16	2.1	16	88	0	50	73	2	8	14	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1387509--1387541	15	2.2	15	100	0	66	6	18	69	6	1.30
1388737--1388772	3	12.0	3	93	0	63	33	2	0	63	1.08
1391490--1391609	63	1.9	63	84	6	163	42	5	7	44	1.56
1401203--1401237	18	1.9	18	88	11	54	34	5	20	40	1.76
1405285--1405326	21	2.0	21	90	0	66	21	21	28	28	1.99
1406322--1406368	18	2.6	18	83	6	60	29	0	2	68	1.02
1406320--1406367	21	2.3	21	82	7	62	33	0	2	64	1.05
1409912--1409986	28	2.7	27	85	6	105	84	5	8	2	0.87
1409912--1409986	14	5.4	14	84	10	91	84	5	8	2	0.87
1414248--1414282	3	11.7	3	93	0	61	31	0	0	68	0.90

Tables:   1   2   3   4   5   6   7   8