genome.fa.s8621.2.7.7.80.10.50.1000.8.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: VEPZ01008621.1 Hibiscus syriacus cultivar Beakdansim tig00111584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991651

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  8  of  11  ( 1297 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)
1291248--1291464	72	3.1	70	83	10	232	46	17	21	14	1.84
1291460--1291576	53	2.2	53	98	1	227	13	23	17	44	1.85
1291479--1291576	19	5.4	19	84	13	143	14	22	17	45	1.84
1291683--1291719	14	2.6	14	91	0	65	45	21	0	32	1.52
1293184--1293337	19	8.6	19	76	14	148	46	22	19	11	1.82
1293259--1293315	14	3.7	14	77	20	60	45	22	21	10	1.82
1293202--1293332	33	3.8	33	89	5	181	47	22	19	10	1.80
1293349--1293375	14	1.9	14	100	0	54	7	14	29	48	1.71
1293333--1293427	33	2.9	33	85	6	138	8	15	26	49	1.73
1293333--1293461	19	7.3	19	75	17	125	9	15	27	48	1.75
1293506--1293881	93	4.1	93	99	0	736	46	19	12	22	1.83
1295582--1295678	20	5.2	20	70	18	91	46	17	23	12	1.82
1295629--1295685	14	3.7	14	75	20	60	43	22	24	8	1.81
1295580--1295702	33	3.5	33	88	10	165	46	18	23	11	1.81
1295719--1295775	14	3.7	14	75	20	60	8	24	22	43	1.81
1295703--1295823	33	3.4	33	85	11	143	10	22	20	46	1.81
1295763--1295835	21	3.5	21	81	3	103	13	23	17	45	1.84
1295759--1295836	41	1.9	41	100	0	156	14	24	16	44	1.84
1295914--1295984	33	2.2	33	94	0	124	47	16	23	11	1.79
1296364--1296556	20	9.6	20	84	5	237	19	18	26	35	1.95
1296845--1296917	31	2.4	31	88	0	101	21	10	15	52	1.73
1308620--1308676	23	2.5	23	85	0	78	14	19	19	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1308620--1308687	23	3.0	23	84	0	73	14	19	16	50	1.79
1315037--1315089	27	2.0	27	92	0	88	43	1	16	37	1.60
1315355--1315388	15	2.1	16	89	10	52	41	2	0	55	1.15
1322415--1322448	17	2.1	17	89	10	54	38	11	17	32	1.86
1330067--1330192	64	2.0	65	88	1	191	30	23	17	29	1.97
1330434--1330469	12	3.1	12	92	4	56	63	8	19	8	1.47
1336088--1336139	20	2.6	20	100	0	104	28	28	25	17	1.97
1337483--1337549	22	3.0	22	100	0	134	26	26	26	19	1.99
1338150--1338187	20	1.9	20	88	0	58	10	31	34	23	1.89
1338152--1338301	69	2.2	69	87	4	209	18	28	27	26	1.98
1338281--1338323	21	2.0	21	86	0	59	16	25	27	30	1.97
1344335--1344401	22	3.0	22	100	0	134	26	26	26	19	1.99
1344995--1345147	69	2.2	69	89	1	227	18	28	26	26	1.98
1345127--1345169	21	2.0	21	86	0	59	16	25	27	30	1.97
1347759--1347920	65	2.5	65	83	1	200	32	21	15	30	1.94
1348528--1348569	3	14.3	3	80	5	50	26	2	2	69	1.13
1361786--1361861	10	7.3	10	75	17	66	82	0	11	5	0.81
1362849--1363060	51	4.4	49	72	13	138	26	27	19	25	1.99
1363263--1363304	3	14.3	3	80	5	50	26	2	2	69	1.13
1363709--1363764	30	1.9	30	92	3	96	75	7	16	1	1.11
1366842--1366871	2	15.0	2	100	0	60	50	0	0	50	1.00
1369502--1369889	131	3.0	131	96	1	699	24	31	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1379645--1379748	55	1.9	55	89	0	163	33	20	3	42	1.70
1381051--1381155	35	3.0	35	82	8	126	46	13	9	30	1.75
1386845--1386891	15	3.2	15	78	6	51	44	0	0	55	0.99
1386843--1386950	29	3.9	28	74	21	93	45	0	0	53	1.06
1395941--1396310	185	2.0	185	100	0	740	30	14	19	35	1.92
1397448--1397521	37	1.9	40	89	8	118	41	13	5	39	1.67
1399284--1399324	21	2.0	21	95	0	73	41	0	17	41	1.49
1406037--1406079	21	2.1	20	83	12	52	51	4	6	37	1.50
1411687--1411718	12	2.7	12	95	0	55	46	18	18	15	1.84
1412049--1412078	8	3.8	8	100	0	60	33	0	13	53	1.40
1412069--1412123	13	4.2	13	75	13	58	34	3	12	49	1.59
1412526--1412569	17	2.6	17	78	3	54	31	9	9	50	1.65
1412663--1412694	16	2.0	17	88	11	50	43	21	21	12	1.86
1415235--1415395	64	2.5	65	86	7	204	33	18	21	26	1.96
1416831--1417145	149	2.1	149	94	2	553	26	17	21	34	1.96
1417113--1417157	23	2.0	23	90	0	72	22	26	26	24	2.00
1420480--1420640	64	2.5	65	86	7	204	33	18	21	26	1.96
1422072--1422384	149	2.1	148	93	3	533	26	17	21	34	1.96
1422352--1422396	23	2.0	23	90	0	72	22	26	26	24	2.00
1425976--1426001	6	4.3	6	100	0	52	15	0	0	84	0.62
1426110--1426215	54	2.0	54	90	0	167	50	4	8	36	1.54
1430202--1430861	182	3.6	181	89	3	952	44	13	15	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1430203--1430861	363	1.8	362	89	4	1040	44	13	15	26	1.84
1430940--1430983	21	2.1	21	100	0	88	34	4	22	38	1.75
1433126--1433168	12	3.5	12	83	3	59	39	2	9	48	1.48
1433124--1433176	24	2.2	24	89	0	79	43	1	7	47	1.42
1433348--1435261	200	9.7	200	85	6	2018	40	16	13	29	1.87
1439058--1439220	87	1.9	87	90	2	265	33	14	10	41	1.80
1439142--1439186	23	2.0	23	90	0	72	37	17	8	35	1.81
1439229--1439269	16	2.5	17	80	11	50	31	26	7	34	1.84
1457467--1457525	31	1.9	31	92	0	100	40	6	10	42	1.65
1457580--1457849	32	9.6	32	71	26	227	52	14	0	32	1.41
1457640--1457682	22	2.0	22	95	0	77	53	11	0	34	1.37
1457608--1458025	54	7.8	54	78	12	273	52	12	0	35	1.41
1457642--1457690	22	2.2	22	85	3	62	57	12	0	30	1.36
1457608--1457973	134	2.7	134	97	0	678	52	13	0	34	1.43
1457540--1457794	80	3.0	83	90	6	347	53	12	0	33	1.39
1457696--1457770	22	3.2	23	75	17	82	54	17	0	28	1.43
1457774--1457816	22	2.0	22	100	0	86	51	13	0	34	1.42
1457776--1457824	22	2.2	22	88	3	71	55	14	0	30	1.40
1457779--1457928	80	1.9	80	92	0	255	52	14	0	33	1.46
1457831--1457897	22	2.8	25	76	17	77	53	16	0	29	1.43
1457873--1457973	32	3.5	31	72	26	103	51	10	0	36	1.44
1457908--1458010	22	4.5	22	72	7	98	51	9	0	38	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1457953--1458040	15	5.5	15	79	18	97	53	3	0	43	1.17
1467338--1467371	15	2.3	15	90	10	52	70	0	0	29	0.87
1470840--1470877	20	1.9	20	100	0	76	36	5	28	28	1.79
1470999--1471046	18	2.7	18	77	9	53	43	0	4	52	1.20
1471997--1472039	14	3.2	14	80	6	54	60	2	0	37	1.10
1475927--1475987	22	2.8	21	80	7	68	54	3	29	13	1.55
1480706--1481004	150	2.0	150	99	0	589	25	15	27	31	1.95
1481763--1481969	108	1.9	105	88	6	310	18	25	17	37	1.93
1482175--1482419	121	2.0	121	100	0	490	19	24	18	37	1.94
1482316--1484129	411	4.4	413	75	11	1567	27	24	16	31	1.96
1483234--1483326	48	2.0	45	89	6	141	26	31	12	29	1.93
1485205--1485230	2	13.0	2	100	0	52	50	0	0	50	1.00
1486355--1486412	29	2.0	29	93	0	98	31	12	22	34	1.91
1486688--1486956	87	3.1	84	80	5	281	28	10	19	41	1.84
1486651--1486956	129	2.4	130	81	6	363	29	10	18	41	1.83
1486651--1486966	86	3.7	86	76	10	270	28	9	19	42	1.83
1486704--1486981	42	6.5	42	81	4	259	28	10	19	41	1.85
1487174--1487242	27	2.6	26	79	6	77	40	10	13	36	1.78
1488117--1488369	127	2.0	129	96	1	474	23	19	15	41	1.89
1494638--1494667	2	15.0	2	100	0	60	50	0	0	50	1.00
1495976--1496345	182	2.0	182	99	0	731	25	18	6	49	1.72
1496544--1496613	29	2.4	29	83	11	90	40	5	1	52	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496787--1496820	2	17.5	2	93	6	61	50	0	0	50	1.00
1497017--1497056	20	2.0	20	90	0	62	55	22	12	10	1.67
1497039--1497078	14	2.9	14	88	3	64	60	27	10	2	1.42
1497016--1497055	10	4.0	10	83	0	53	57	22	10	10	1.61
1497344--1497393	24	2.1	24	81	7	57	8	44	8	40	1.63
1497556--1497625	33	2.1	33	91	0	113	18	41	15	24	1.89
1503361--1503400	21	1.9	21	89	0	62	37	17	17	27	1.92
1504135--1504176	22	1.9	22	85	9	59	30	33	0	35	1.58
1504795--1504972	63	2.8	64	85	1	225	28	17	31	22	1.96
1506069--1506171	51	2.0	51	100	0	206	15	19	28	36	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11