genome.fa.s8338.2.7.7.80.10.50.1000.9.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: VEPZ01008338.1 Hibiscus syriacus cultivar Beakdansim tig00111059_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2210178

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

This is table  9  of  12  ( 1386 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)
1405689--1405803	20	5.7	20	82	6	124	32	26	18	23	1.97
1405687--1405823	41	3.4	40	82	6	168	34	24	17	23	1.96
1406271--1406329	20	3.0	20	87	0	73	15	18	22	44	1.87
1406466--1406520	25	2.2	24	78	15	58	20	9	18	52	1.71
1407647--1407694	18	2.7	18	93	0	87	27	45	12	14	1.81
1408246--1408290	20	2.3	20	84	3	65	37	15	24	22	1.93
1408254--1408370	19	6.6	19	67	19	74	44	19	20	15	1.87
1408282--1408365	33	2.5	33	94	0	141	50	20	17	11	1.78
1408408--1408482	20	3.8	20	89	1	107	17	25	24	33	1.96
1408449--1408508	20	3.0	20	87	2	75	23	15	26	35	1.94
1408409--1408502	40	2.4	40	82	5	102	19	21	25	34	1.96
1408674--1408743	21	3.3	20	72	7	59	24	41	15	18	1.89
1408667--1408755	42	2.1	42	89	0	133	22	42	14	20	1.88
1410161--1410199	14	2.8	14	84	0	51	35	0	17	46	1.49
1410339--1410391	19	2.8	19	88	0	79	50	18	18	11	1.76
1410422--1410498	20	3.8	20	89	3	118	14	22	22	41	1.89
1410555--1410809	127	2.0	127	100	0	510	45	18	10	25	1.82
1410848--1410924	20	3.8	20	87	0	100	29	19	25	24	1.98
1410857--1410965	20	5.4	20	80	6	103	25	18	26	29	1.98
1410906--1410987	41	2.0	41	81	9	96	20	18	23	37	1.94
1410955--1411003	20	2.4	21	79	3	55	20	20	16	42	1.89
1410996--1411048	21	2.5	22	75	6	56	33	16	24	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1417256--1417315	31	1.9	31	86	6	86	36	3	20	40	1.69
1418983--1419038	2	28.0	2	100	0	112	50	0	0	50	1.00
1421354--1421413	31	1.9	31	83	6	77	38	3	20	38	1.69
1421778--1421914	64	2.2	64	81	6	154	34	16	22	26	1.95
1422536--1422605	21	3.2	21	72	9	68	44	5	20	30	1.74
1423113--1423150	2	19.0	2	100	0	76	50	0	0	50	1.00
1427812--1428194	136	2.8	137	84	2	475	33	25	15	26	1.95
1429834--1429868	2	17.5	2	100	0	70	48	0	0	51	1.00
1429955--1429996	11	3.3	12	84	15	50	23	4	0	71	1.05
1431875--1431925	2	25.5	2	100	0	102	50	0	0	49	1.00
1438052--1438099	19	2.5	20	82	3	62	29	12	6	52	1.63
1438953--1439022	34	2.1	32	86	5	95	25	30	12	31	1.93
1439219--1439503	143	2.0	143	100	0	570	29	14	23	32	1.94
1439397--1439645	124	2.0	124	100	0	498	31	17	24	26	1.97
1440986--1441010	13	1.9	13	100	0	50	44	24	16	16	1.86
1447024--1447077	6	9.0	6	87	0	81	16	27	0	55	1.42
1447024--1447083	18	3.3	18	95	0	93	16	25	0	58	1.38
1447019--1447094	24	3.2	24	84	1	91	15	21	0	63	1.31
1459130--1459254	47	2.7	47	78	2	144	32	16	19	32	1.94
1461280--1461342	16	4.0	16	93	2	110	0	39	9	50	1.35
1461640--1461685	23	2.0	23	100	0	92	21	17	17	43	1.88
1462348--1462394	22	2.1	22	100	0	94	17	29	12	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1467921--1467974	21	2.6	21	77	13	67	20	24	25	29	1.99
1469855--1469887	12	2.8	12	100	0	66	9	39	0	51	1.34
1472503--1472546	2	22.0	2	95	0	79	47	0	2	50	1.13
1472460--1472604	21	7.0	21	75	14	88	43	6	2	47	1.42
1473575--1473618	17	2.6	18	78	10	56	27	25	13	34	1.93
1473593--1473669	36	2.1	36	87	0	109	27	20	14	37	1.91
1475640--1475717	30	2.6	31	84	8	90	34	0	1	64	1.02
1475680--1475747	16	4.4	16	75	12	61	32	1	1	64	1.11
1475668--1475709	21	2.2	20	83	12	52	30	0	0	69	0.89
1475657--1475718	23	2.7	22	78	12	72	33	0	0	66	0.92
1488794--1488834	21	1.9	21	85	5	55	26	0	17	56	1.41
1496514--1496573	30	2.0	30	100	0	120	16	40	10	33	1.82
1498669--1498765	21	4.6	21	81	2	106	24	19	27	27	1.99
1502018--1502241	99	2.3	99	81	3	254	37	18	12	30	1.88
1502970--1503129	64	2.5	63	82	10	173	35	22	15	26	1.94
1503107--1503149	19	2.4	19	88	7	63	23	27	18	30	1.98
1504895--1504928	17	2.0	17	100	0	68	47	11	11	29	1.76
1508556--1508637	23	3.6	23	69	11	71	26	26	20	25	1.99
1518741--1518765	13	1.9	13	100	0	50	16	24	0	60	1.36
1520153--1520206	21	2.6	21	96	0	99	37	16	18	27	1.93
1530845--1530879	17	2.0	18	88	5	54	54	2	0	42	1.15
1530876--1530938	30	2.1	31	82	8	76	36	0	6	57	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1531506--1531532	4	6.8	4	100	0	54	74	0	0	25	0.83
1540617--1540720	49	2.1	49	100	0	208	35	9	15	39	1.80
1543946--1544025	29	2.7	29	82	3	88	46	16	7	30	1.74
1544973--1545134	53	3.1	53	94	1	290	37	17	14	30	1.90
1545472--1545498	14	1.9	14	100	0	54	7	18	22	51	1.70
1545939--1545996	25	2.2	28	78	12	68	55	1	0	43	1.10
1546147--1546219	34	2.2	32	77	17	78	63	5	2	28	1.31
1547532--1547580	3	16.7	3	87	12	75	67	0	0	32	0.91
1547884--1548305	112	3.8	112	87	3	555	28	18	15	37	1.91
1547884--1548302	228	1.9	220	85	5	570	28	18	15	37	1.91
1549217--1549555	115	3.0	115	95	1	592	31	18	14	35	1.91
1549849--1549897	16	2.8	17	81	12	64	48	6	8	36	1.58
1550248--1550338	20	4.8	20	73	17	77	1	16	0	82	0.73
1550246--1550338	14	6.6	14	79	17	88	1	17	0	81	0.75
1550249--1550320	10	7.7	9	85	11	92	0	16	0	83	0.65
1550246--1550337	30	2.8	32	78	17	93	1	17	0	81	0.75
1563635--1563689	23	2.4	23	84	6	67	16	23	18	41	1.89
1565135--1565252	29	4.1	29	88	1	148	22	22	15	40	1.90
1565130--1565268	58	2.4	57	82	2	161	21	21	15	41	1.89
1568738--1568764	2	13.5	2	100	0	54	48	0	0	51	1.00
1570897--1571002	9	12.5	8	70	19	56	73	0	3	21	1.05
1570872--1570950	35	2.2	35	80	14	90	77	0	5	17	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1570905--1570950	24	2.0	23	87	12	67	78	0	2	19	0.86
1570888--1570995	5	21.8	5	72	15	57	74	0	4	20	1.06
1571055--1571088	9	3.8	9	88	11	52	88	2	0	8	0.62
1572331--1572557	69	3.1	68	76	15	199	42	5	4	47	1.47
1572363--1572557	36	5.3	38	73	15	153	42	5	4	47	1.46
1573190--1573577	90	4.5	81	83	9	355	33	24	21	20	1.97
1573190--1573606	171	2.4	173	82	7	506	33	24	21	21	1.97
1573314--1573606	90	3.3	90	89	0	408	31	23	22	22	1.99
1578400--1578669	89	3.0	90	81	3	296	32	22	22	22	1.98
1581330--1581384	18	3.0	18	89	2	65	23	29	29	18	1.98
1581342--1581384	18	2.4	18	96	0	77	25	27	30	16	1.97
1582246--1582275	2	15.5	2	93	6	53	46	0	0	53	1.00
1582257--1582390	38	3.5	37	79	16	139	47	6	2	44	1.42
1582682--1582721	2	20.0	2	100	0	80	50	0	0	50	1.00
1596237--1596310	37	2.0	38	92	5	125	44	20	5	29	1.73
1599438--1599469	15	2.1	15	94	0	55	6	25	15	53	1.65
1600626--1600734	35	3.0	36	86	5	157	44	19	5	31	1.73
1602161--1602244	42	2.0	42	84	8	111	54	8	4	32	1.51
1602409--1602457	24	2.1	23	84	3	62	69	0	4	26	1.06
1602525--1602568	2	23.5	2	82	13	58	50	0	2	47	1.13
1602623--1602711	48	1.9	47	80	17	107	60	1	3	34	1.20
1602752--1602787	18	2.1	18	89	5	56	66	2	5	25	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1604306--1604824	106	5.0	105	86	4	664	23	18	22	35	1.96
1605412--1605496	37	2.3	37	81	4	91	42	15	17	24	1.88
1605643--1605718	36	2.1	37	90	2	118	36	13	22	27	1.91
1606205--1606240	18	2.0	18	88	0	54	41	30	8	19	1.81
1607280--1607345	30	2.2	30	81	5	80	1	12	7	78	1.01
1607302--1607359	10	5.6	10	81	6	71	0	12	5	82	0.82
1607302--1607359	20	2.8	20	87	7	82	0	12	5	82	0.82
1607290--1607366	30	2.6	29	84	12	93	1	10	6	81	0.91
1612143--1612175	2	16.5	2	100	0	66	51	0	0	48	1.00
1612423--1612458	18	2.1	18	89	5	56	66	2	5	25	1.27

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