genome.fa.s9574.2.7.7.80.10.50.1000.7.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: VEPZ01009574.1 Hibiscus syriacus cultivar Beakdansim tig00116939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2686660

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

This is table  7  of  14  ( 1597 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)
1345139--1345183	23	2.0	23	86	8	65	26	20	6	46	1.75
1345332--1345371	21	1.9	21	85	10	55	35	10	2	52	1.48
1347756--1347809	2	26.5	2	96	3	99	48	1	0	50	1.11
1353183--1353274	32	2.9	32	82	9	127	25	17	22	34	1.96
1357126--1357169	17	2.6	16	82	10	52	34	4	15	45	1.67
1357131--1357169	18	2.3	18	86	8	55	33	5	12	48	1.63
1357441--1357503	31	2.0	31	87	0	90	23	14	25	36	1.93
1358336--1358365	15	2.0	15	93	0	51	43	6	3	46	1.46
1359061--1359104	2	22.0	2	100	0	88	50	0	0	50	1.00
1359222--1359363	60	2.4	60	82	9	173	32	16	4	45	1.69
1359489--1359657	60	2.8	59	79	7	153	43	3	19	33	1.68
1359549--1359671	60	2.0	60	81	6	142	47	4	16	31	1.68
1364479--1364562	34	2.5	33	98	1	159	40	0	0	59	0.97
1364471--1364559	9	9.8	9	74	20	60	42	0	0	57	0.98
1365155--1365194	16	2.4	17	83	12	55	60	0	2	37	1.11
1367582--1367635	21	2.6	21	96	0	99	29	29	20	20	1.98
1368176--1368214	6	6.8	6	97	2	64	0	17	53	28	1.44
1370897--1370972	21	3.6	21	100	0	152	40	25	15	18	1.90
1371158--1371208	22	2.3	22	96	0	93	23	45	11	19	1.83
1371564--1371629	19	3.5	19	95	4	116	10	18	22	48	1.78
1372725--1372838	20	5.6	20	76	8	95	28	21	21	28	1.99
1373818--1373964	20	7.7	20	77	13	130	14	16	20	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1376052--1376150	21	4.7	21	76	9	94	26	32	18	23	1.97
1376052--1376150	42	2.4	42	83	6	137	26	32	18	23	1.97
1377538--1377671	64	2.4	55	78	21	152	29	2	17	50	1.58
1377727--1377805	20	4.0	20	79	0	95	36	17	21	24	1.94
1377737--1377813	40	1.9	40	97	0	145	32	19	22	25	1.97
1378107--1378142	18	2.0	18	94	0	63	16	2	25	55	1.55
1380413--1380464	24	2.2	24	82	0	59	38	19	19	23	1.93
1381386--1381518	20	6.7	20	76	9	112	25	11	23	39	1.88
1386887--1386935	25	2.0	25	84	8	64	32	10	2	55	1.45
1389057--1389163	36	3.0	34	73	9	88	30	16	14	38	1.88
1389130--1389255	66	1.9	66	80	6	148	31	17	11	38	1.86
1389927--1390596	137	4.9	137	83	2	761	33	27	16	22	1.95
1389925--1390596	276	2.4	274	83	2	812	33	27	16	22	1.95
1390686--1390950	122	2.2	121	88	0	386	34	22	15	27	1.94
1393030--1393070	20	2.0	20	85	4	55	26	7	0	65	1.18
1395643--1395676	17	2.0	17	100	0	68	29	23	17	29	1.97
1407958--1407999	3	14.0	3	89	0	66	61	0	2	35	1.09
1408035--1408068	17	2.0	17	88	0	50	41	5	8	44	1.60
1408507--1408569	6	10.5	6	75	16	51	53	1	0	44	1.10
1414827--1414892	25	2.8	24	75	13	66	43	0	1	54	1.09
1417136--1417170	13	2.8	13	91	8	56	5	11	0	82	0.82
1417137--1417174	12	3.2	12	82	14	51	7	10	0	81	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1421276--1421315	21	2.0	20	85	5	53	20	7	0	72	1.08
1423521--1423577	24	2.3	23	80	11	60	36	0	10	52	1.36
1431426--1431465	20	2.0	20	90	0	62	40	20	10	30	1.85
1433942--1434072	59	2.2	57	78	15	142	32	25	6	35	1.81
1434195--1434323	60	2.2	60	80	2	152	42	5	20	31	1.75
1435803--1435852	26	2.0	26	92	4	84	52	4	12	32	1.57
1447965--1448187	117	1.9	117	79	5	254	28	13	8	49	1.72
1450962--1450989	2	14.0	2	100	0	56	50	0	0	50	1.00
1451174--1451216	20	2.3	19	88	8	61	25	25	9	39	1.85
1452478--1452662	60	3.1	60	83	0	210	37	5	25	31	1.78
1453602--1453725	64	1.9	64	81	3	151	41	12	10	35	1.78
1453762--1453825	27	2.4	27	82	15	80	20	7	4	67	1.35
1454397--1454573	88	2.0	89	92	1	293	32	16	15	35	1.91
1455335--1455370	14	2.4	16	82	17	51	36	0	5	58	1.22
1461142--1461257	60	1.9	59	84	5	153	37	18	17	26	1.92
1465004--1465059	21	2.7	21	91	0	94	30	19	25	25	1.98
1465150--1465200	19	2.7	19	96	0	93	31	19	25	23	1.98
1470728--1470760	16	2.0	17	88	5	50	30	15	3	51	1.58
1471697--1471736	21	1.9	21	85	10	55	30	7	7	55	1.56
1478624--1478662	16	2.5	15	84	8	51	30	0	10	58	1.31
1479366--1479432	23	2.8	23	84	4	80	35	14	4	44	1.66
1480949--1480974	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1485530--1485560	15	2.0	16	93	6	55	51	29	0	19	1.47
1487064--1487359	55	5.5	54	80	7	254	29	24	17	29	1.97
1487064--1487359	110	2.8	105	81	7	334	29	24	17	29	1.97
1487383--1487488	37	2.9	37	85	2	133	24	20	16	38	1.92
1488722--1488805	40	2.1	40	82	8	100	11	25	0	63	1.28
1488724--1488805	41	2.0	40	83	6	103	10	24	0	64	1.25
1488758--1488801	17	2.6	18	89	7	65	11	18	0	70	1.16
1488673--1488811	50	2.7	50	77	14	151	10	23	0	66	1.23
1488758--1488794	17	2.2	17	95	4	67	13	16	0	70	1.17
1493993--1494069	38	2.0	38	94	0	136	24	29	11	33	1.91
1500398--1500428	15	2.0	16	93	6	55	51	29	0	19	1.47
1504773--1505096	177	1.8	177	87	0	477	42	12	13	30	1.82
1504906--1505297	197	2.0	197	88	1	579	40	13	15	30	1.85
1506482--1506712	117	2.0	114	94	4	410	48	10	15	24	1.77
1507338--1507498	72	2.2	73	84	7	204	42	13	13	30	1.83
1507490--1507885	194	2.0	194	80	7	453	37	14	13	35	1.85
1507773--1508138	131	2.8	130	85	2	506	40	12	12	34	1.80
1508510--1508558	23	2.1	23	81	7	55	32	16	16	34	1.91
1510336--1510418	23	3.6	23	80	3	96	37	26	19	16	1.93
1510521--1510574	16	3.4	16	75	14	58	44	18	3	33	1.67
1516626--1516675	21	2.3	22	83	13	68	28	26	16	30	1.96
1517951--1518015	30	2.1	32	82	5	80	50	15	4	29	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1518151--1518282	66	1.9	67	89	8	205	40	16	0	43	1.48
1518405--1518506	23	4.4	23	69	0	69	40	23	17	18	1.91
1518577--1518614	16	2.5	15	87	12	51	42	21	2	34	1.67
1520257--1520302	22	2.0	23	87	4	67	30	13	30	26	1.93
1520180--1520369	95	2.0	96	85	3	258	31	16	24	27	1.97
1520183--1520400	95	2.3	95	80	5	208	31	16	24	27	1.96
1521038--1521494	68	6.7	68	92	0	698	29	14	24	31	1.95
1521445--1521680	81	2.9	81	91	0	382	36	13	22	27	1.92
1521658--1521724	28	2.4	28	92	0	107	44	13	20	20	1.85
1535057--1535093	19	1.9	19	88	0	56	43	5	0	51	1.24
1535946--1535984	20	1.9	21	89	5	62	35	7	7	48	1.61
1536465--1536594	66	2.0	63	95	4	233	48	11	4	35	1.60
1537186--1537301	42	2.8	42	97	1	216	15	20	19	43	1.87
1537494--1537549	22	2.5	22	81	13	62	46	1	0	51	1.11
1537576--1537644	24	2.5	26	71	22	61	43	0	2	53	1.15
1537494--1537619	51	2.5	51	76	14	134	46	1	0	50	1.16
1537562--1537650	29	3.0	28	75	17	74	42	0	2	55	1.12
1537514--1537623	53	2.1	51	81	9	134	46	1	0	50	1.18
1537603--1537648	20	2.3	20	80	0	56	45	0	2	52	1.13
1537810--1537879	20	3.5	20	96	0	131	35	14	10	40	1.79
1537810--1537888	40	2.0	40	89	0	122	35	15	8	40	1.78
1537862--1537943	15	5.5	15	85	2	112	35	18	7	39	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1537862--1537943	30	2.8	30	92	1	130	35	18	7	39	1.78
1545703--1545732	3	10.0	3	92	0	51	30	0	3	66	1.07
1546447--1546574	59	2.2	58	84	8	163	29	23	7	39	1.83
1547780--1547817	19	2.0	19	100	0	76	47	5	15	31	1.68
1550113--1550278	50	3.3	51	68	16	146	26	17	15	40	1.89
1553795--1553857	30	2.1	29	88	2	90	36	20	15	26	1.93
1556143--1556392	50	4.8	51	66	13	134	24	15	16	43	1.87
1555909--1556392	207	2.4	204	85	4	652	23	15	17	42	1.88
1555909--1556392	103	4.7	102	82	7	561	23	15	17	42	1.88
1556395--1556444	20	2.5	20	90	0	73	24	14	24	38	1.92

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