genome.fa.s8531.2.7.7.80.10.50.1000.8.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  8  of  19  ( 2279 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)
1442113--1442161	22	2.2	22	85	3	62	57	12	0	30	1.36
1442169--1442240	22	3.2	22	70	22	60	52	18	0	29	1.45
1442195--1442358	53	3.1	53	94	3	296	51	12	0	36	1.40
1442294--1442392	21	4.6	21	71	20	87	50	10	0	39	1.36
1442340--1442468	15	8.5	15	77	14	131	49	2	0	48	1.14
1442340--1442489	30	5.0	30	81	12	159	48	3	0	48	1.18
1442356--1442510	60	2.5	62	79	16	162	47	4	0	47	1.22
1442449--1442503	26	2.0	27	89	6	85	49	7	0	43	1.30
1455666--1455847	2	91.5	2	86	7	210	44	1	1	52	1.20
1455877--1456088	38	6.1	35	80	15	226	45	3	5	46	1.42
1455988--1456130	31	4.6	29	69	20	76	44	2	5	47	1.38
1456006--1456070	28	2.4	28	87	7	100	44	4	4	46	1.44
1455819--1456061	110	2.2	109	81	7	294	45	3	6	45	1.45
1455877--1456061	35	5.1	35	80	14	182	45	3	5	45	1.42
1456054--1456152	29	3.2	30	84	8	110	46	2	5	46	1.36
1456061--1456131	31	2.3	29	85	7	97	46	1	4	47	1.30
1456164--1456193	15	2.0	15	93	0	51	50	0	3	46	1.18
1456178--1456228	27	1.9	27	88	11	79	45	0	1	52	1.12
1456226--1456299	25	2.9	26	82	9	75	27	2	1	68	1.10
1461184--1461309	50	2.5	50	92	2	200	35	18	19	26	1.94
1461795--1462163	84	4.4	83	82	2	387	33	22	19	24	1.97
1462705--1462755	2	26.0	2	92	4	86	49	1	0	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1462738--1462936	38	5.2	36	83	13	126	43	5	6	45	1.51
1462741--1462929	76	2.5	76	83	13	230	43	5	6	44	1.53
1462832--1462892	12	4.9	12	70	21	54	40	6	8	44	1.60
1462781--1462929	76	2.0	75	89	9	232	43	5	6	44	1.51
1462914--1463001	32	2.8	30	82	6	95	48	2	4	44	1.35
1463081--1463129	3	16.7	3	82	4	55	24	6	0	69	1.11
1463078--1463146	26	2.7	25	80	10	77	26	4	1	68	1.17
1464400--1464439	4	10.0	4	94	0	71	27	0	22	50	1.50
1464437--1464467	4	7.8	4	92	0	53	25	19	29	25	1.99
1464466--1464573	2	54.0	2	98	0	207	0	0	49	50	1.07
1465285--1465324	19	2.1	19	100	0	80	37	5	5	52	1.45
1465386--1465434	2	24.5	2	100	0	98	51	0	0	48	1.00
1466342--1466384	22	2.0	21	86	13	61	30	41	20	6	1.79
1466342--1466384	21	2.0	22	86	13	63	30	41	20	6	1.79
1467436--1467492	29	2.0	28	86	10	80	52	5	1	40	1.34
1467562--1467617	17	2.9	19	82	14	71	42	7	1	48	1.41
1467587--1467627	17	2.4	17	87	0	55	43	9	0	46	1.36
1470324--1470523	95	2.1	95	87	1	285	40	13	21	25	1.90
1470492--1470540	22	2.2	22	96	0	89	40	10	18	30	1.84
1470970--1471286	45	7.2	45	84	7	402	41	14	21	22	1.89
1471136--1471286	82	1.9	81	85	4	214	43	13	20	21	1.87
1477673--1478344	336	2.0	336	100	0	1344	30	17	17	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1479787--1479888	30	3.4	30	81	0	123	27	33	19	19	1.96
1489793--1489878	43	2.0	43	93	0	145	36	36	18	9	1.83
1491273--1492185	55	16.6	55	80	5	828	28	22	18	31	1.97
1491273--1492185	110	8.3	110	81	4	921	28	22	18	31	1.97
1492295--1492542	37	6.6	37	84	5	286	23	18	17	39	1.91
1492321--1492537	112	1.9	112	92	1	364	23	18	17	40	1.91
1499855--1499901	2	23.5	2	100	0	94	51	0	0	48	1.00
1500974--1501002	14	2.0	15	93	6	51	0	37	0	62	0.96
1500966--1500999	14	2.4	14	95	0	59	0	38	0	61	0.96
1502079--1502117	20	2.0	20	89	0	60	33	5	23	38	1.77
1502396--1502452	30	1.9	30	85	0	78	29	33	19	17	1.95
1503653--1503696	21	2.1	21	83	8	54	27	31	2	38	1.69
1504330--1504401	21	3.6	21	74	16	62	44	6	1	47	1.38
1504313--1504378	22	2.9	22	80	8	69	45	7	1	45	1.41
1504357--1504397	17	2.4	17	87	0	55	46	7	0	46	1.30
1506098--1506155	29	2.0	30	86	3	82	51	3	20	24	1.62
1509738--1509799	23	2.7	23	80	12	72	69	1	1	27	1.07
1509735--1509799	27	2.4	27	84	7	78	69	1	1	27	1.07
1511096--1511137	16	2.7	15	82	14	50	71	2	9	16	1.23
1511206--1511315	42	2.5	44	78	14	120	44	6	2	46	1.43
1511374--1511402	14	2.1	14	100	0	58	44	6	6	41	1.58
1521096--1521135	15	2.8	15	92	7	66	42	12	7	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527212--1527257	24	1.9	24	90	0	74	43	19	8	28	1.80
1532448--1532489	16	2.6	16	96	0	75	26	23	7	42	1.80
1534972--1535013	20	2.0	20	86	9	57	40	0	30	28	1.57
1537036--1537142	55	1.9	55	86	3	153	38	7	15	38	1.76
1537275--1537849	81	7.1	81	87	3	750	36	10	21	32	1.87
1537911--1537975	2	32.5	2	100	0	130	49	0	0	50	1.00
1539233--1539644	59	7.0	58	87	3	565	33	20	13	32	1.92
1539233--1539644	118	3.5	118	93	1	684	33	20	13	32	1.92
1540061--1540119	22	2.8	22	75	10	61	28	25	11	33	1.91
1546232--1546757	59	8.9	58	87	3	723	31	20	14	32	1.93
1546232--1546756	118	4.5	118	91	2	833	32	20	14	32	1.93
1547078--1547302	95	2.4	95	79	5	224	30	23	15	31	1.95
1550599--1550662	28	2.3	29	84	10	89	68	1	1	28	1.07
1551104--1551151	20	2.4	20	92	0	78	35	27	20	16	1.94
1551939--1551978	5	7.8	5	83	5	53	75	0	7	17	1.03
1551931--1551979	21	2.3	21	86	6	73	75	2	6	16	1.09
1551939--1551978	16	2.6	15	88	4	53	75	0	7	17	1.03
1552099--1552232	61	2.3	55	83	14	157	43	10	4	41	1.59
1552141--1552177	19	1.9	19	100	0	74	43	8	5	43	1.57
1552144--1552253	39	3.0	35	71	16	89	43	10	4	40	1.60
1552224--1552263	22	2.0	21	85	14	57	47	15	0	37	1.45
1552255--1552321	9	7.4	9	73	15	50	44	0	1	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1552292--1552324	12	2.7	13	90	9	52	54	0	0	45	0.99
1561374--1561419	15	3.5	15	67	32	50	26	10	13	50	1.74
1561366--1561426	24	2.6	24	97	2	115	22	11	11	54	1.68
1567800--1568056	2	132.5	2	68	21	93	38	1	5	54	1.34
1567797--1568048	14	17.9	15	68	23	115	37	1	5	55	1.34
1567818--1568037	13	16.3	13	69	21	91	36	1	5	56	1.33
1567895--1568037	57	2.6	53	78	14	164	37	1	6	53	1.37
1570071--1570127	16	3.2	18	73	12	55	73	0	3	22	0.98
1570193--1570245	2	27.0	2	87	11	74	50	0	3	45	1.19
1571623--1571874	110	2.3	108	86	5	341	24	18	23	34	1.96
1572589--1572773	65	2.8	65	83	7	214	37	8	21	32	1.84
1572721--1572948	37	6.5	36	73	13	143	40	11	19	28	1.86
1572752--1572785	15	2.2	16	89	5	52	41	8	20	29	1.82
1572665--1572926	138	1.9	140	84	3	350	41	11	20	27	1.86
1572857--1573049	37	5.5	36	73	14	170	37	12	20	29	1.89
1572759--1573136	102	3.7	102	85	2	402	38	11	19	30	1.88
1573056--1573130	37	2.0	38	84	2	98	34	13	21	30	1.92
1574782--1574839	26	2.4	24	82	8	64	1	18	3	75	1.03
1574782--1574833	13	3.9	13	80	11	61	1	17	3	76	1.02
1575812--1575881	34	2.1	32	89	5	104	21	31	15	31	1.95
1576125--1576185	20	3.0	21	82	4	79	13	27	36	22	1.92
1578486--1578555	34	2.1	32	89	5	104	21	31	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1578903--1578965	21	3.0	21	83	2	83	15	28	36	19	1.92
1581516--1581563	17	2.8	17	77	22	55	68	0	12	18	1.20
1581588--1581683	36	2.6	37	75	9	97	68	5	5	20	1.29
1581589--1581683	37	2.6	36	77	14	95	69	5	5	20	1.28
1581845--1581918	21	3.4	22	75	14	64	68	1	2	27	1.10
1583907--1583994	45	1.9	46	90	2	142	28	25	18	28	1.98
1590261--1590303	19	2.3	18	80	11	50	37	2	11	48	1.52
1591417--1591460	21	2.1	21	82	0	52	9	43	15	31	1.79
1592606--1592693	46	1.9	46	90	2	142	30	26	17	26	1.97
1597089--1597125	15	2.5	15	95	0	65	35	16	18	29	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19