genome.fa.s8826.2.7.7.80.10.50.1000.7.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

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

This is table  7  of  18  ( 2089 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)
1439575--1439603	2	14.5	2	100	0	58	51	0	0	48	1.00
1442587--1442638	28	1.9	26	88	7	77	59	9	9	21	1.57
1444069--1444116	17	2.6	19	80	9	55	72	2	0	25	0.95
1444069--1444116	20	2.5	19	80	13	53	72	2	0	25	0.95
1444756--1444801	15	3.3	15	76	14	53	56	0	2	41	1.11
1446161--1446289	3	43.3	3	88	1	161	58	0	0	40	1.03
1451224--1451281	31	1.9	30	89	3	89	29	10	6	53	1.61
1453218--1453266	23	2.1	23	85	7	64	26	2	14	57	1.48
1453755--1453784	11	2.7	11	94	0	51	16	0	10	73	1.09
1455556--1455599	21	2.1	21	86	0	61	27	25	18	29	1.98
1459907--1459951	20	2.2	20	84	7	56	13	22	0	64	1.28
1463742--1463772	11	2.8	11	90	0	53	19	6	6	67	1.35
1464743--1464805	23	2.7	23	90	0	99	15	26	25	31	1.96
1466029--1466067	19	2.1	18	85	4	51	28	10	17	43	1.82
1469430--1469461	14	2.3	14	94	0	55	34	3	0	62	1.11
1475508--1475586	38	2.1	38	97	0	149	17	11	12	58	1.63
1475514--1475596	38	2.3	35	88	10	116	15	12	10	61	1.57
1475757--1475854	21	4.7	21	69	15	69	38	19	20	21	1.93
1475822--1476035	20	10.6	20	80	5	207	39	24	18	17	1.92
1475822--1476032	80	2.6	80	85	2	253	39	24	18	18	1.92
1477599--1477972	92	4.1	93	87	5	519	22	11	18	47	1.81
1478060--1478109	17	2.8	17	87	6	73	46	22	22	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478076--1478181	19	5.8	19	82	10	123	48	27	16	8	1.74
1478020--1478190	38	4.6	38	77	13	133	45	25	16	12	1.82
1478111--1478137	14	1.9	14	100	0	54	48	29	14	7	1.71
1478093--1478156	33	1.9	33	100	0	128	48	29	15	6	1.70
1478076--1478175	52	1.9	52	87	0	146	48	27	16	9	1.75
1478020--1478190	19	9.2	19	76	14	117	45	25	16	12	1.82
1478243--1478311	20	3.5	20	95	0	120	18	18	21	40	1.91
1478225--1478311	40	2.2	40	87	0	120	21	17	20	40	1.92
1479569--1479664	33	2.8	33	87	3	120	42	20	21	14	1.88
1480882--1480943	22	2.6	25	74	20	62	50	1	0	48	1.10
1481277--1481425	20	7.3	20	78	6	165	18	18	24	38	1.92
1481277--1481425	41	3.7	41	91	0	230	18	18	24	38	1.92
1481434--1481483	20	2.5	20	83	6	66	14	20	24	42	1.88
1481536--1481589	20	2.7	19	71	18	56	16	18	31	33	1.93
1483645--1483686	22	2.0	21	85	4	57	50	2	2	45	1.27
1486215--1486255	21	2.0	21	90	0	64	29	21	26	21	1.99
1486482--1486520	20	2.0	20	95	5	71	25	12	15	46	1.81
1486951--1487005	21	2.6	21	100	0	110	27	27	27	18	1.98
1490010--1490054	20	2.2	20	84	0	63	22	17	11	48	1.78
1490478--1490518	21	2.0	21	95	0	73	29	24	26	19	1.98
1495795--1495824	14	2.1	14	100	0	60	43	13	0	43	1.43
1498222--1498299	31	2.6	29	76	9	84	37	11	10	41	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1498384--1498438	28	2.0	28	96	0	101	36	16	10	36	1.84
1502534--1502605	36	2.0	36	88	0	108	31	23	20	23	1.98
1503813--1503856	21	2.2	20	84	12	54	20	4	4	70	1.23
1503805--1503856	20	2.7	21	77	22	60	25	3	5	65	1.32
1503923--1504026	30	3.3	30	78	18	106	28	1	0	69	0.99
1503934--1504018	4	22.2	4	77	17	67	24	1	0	74	0.89
1503937--1504018	17	4.8	17	75	20	73	24	1	0	74	0.89
1507150--1507215	12	5.3	12	81	5	69	81	6	12	0	0.85
1507150--1507215	13	5.1	13	82	10	82	81	6	12	0	0.85
1507289--1507419	69	1.9	69	95	0	235	38	22	13	25	1.91
1508289--1508401	32	3.5	32	81	3	129	30	12	19	37	1.89
1509208--1509246	14	2.7	15	88	4	53	28	0	0	71	0.86
1509404--1509563	4	40.8	4	68	18	52	26	3	0	69	1.08
1509403--1509492	39	2.3	39	86	5	121	31	2	0	66	1.04
1509526--1509599	23	3.2	23	72	11	62	16	10	0	72	1.10
1509433--1509584	60	2.5	59	79	10	157	24	3	0	71	1.08
1513635--1513739	23	4.5	24	80	10	110	58	16	12	13	1.64
1513630--1513739	47	2.3	47	84	0	148	58	15	11	14	1.64
1516986--1517029	14	3.1	14	80	6	52	29	0	0	70	0.88
1517725--1517764	21	2.0	21	85	5	55	25	12	2	60	1.45
1522918--1522988	35	2.0	35	88	0	106	23	19	29	26	1.98
1535848--1535891	16	2.7	16	78	3	52	72	0	9	18	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1535902--1535932	16	1.9	16	100	0	62	77	0	12	9	0.99
1536082--1536134	21	2.4	22	79	17	56	75	0	1	22	0.90
1537270--1537588	35	8.5	35	72	17	175	46	5	3	44	1.43
1537425--1537568	37	3.8	39	76	14	108	44	10	2	42	1.53
1537509--1537586	40	1.9	41	80	15	90	44	8	2	43	1.49
1537462--1537568	42	2.7	42	81	9	120	43	11	2	42	1.55
1538097--1539167	84	12.8	84	85	0	1266	23	19	25	31	1.98
1539826--1539870	23	2.0	23	90	0	72	24	26	26	22	2.00
1539838--1540152	149	2.1	149	94	2	553	34	21	17	26	1.96
1541049--1541083	18	1.9	18	88	11	54	22	17	5	54	1.64
1541575--1541699	64	1.9	66	90	6	202	27	20	16	35	1.94
1541575--1541717	64	2.2	64	86	8	193	27	21	16	34	1.95
1545036--1545080	23	2.0	23	90	0	72	24	26	26	22	2.00
1545048--1545364	151	2.1	149	92	3	530	34	21	17	26	1.96
1546248--1546282	18	1.9	18	88	11	54	22	17	5	54	1.64
1546772--1546932	64	2.5	63	85	8	200	26	21	18	33	1.96
1550252--1550296	23	2.0	23	90	0	72	24	26	26	22	2.00
1550264--1550574	149	2.1	145	91	4	500	34	21	18	26	1.96
1551463--1551497	18	1.9	18	88	11	54	22	17	5	54	1.64
1551984--1552149	64	2.6	63	84	7	208	27	21	18	33	1.96
1552918--1553112	84	2.3	84	86	1	275	22	18	25	33	1.96
1554002--1554419	55	7.5	55	85	0	467	31	25	16	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1554000--1554417	112	3.8	111	85	1	516	31	25	16	26	1.97
1554431--1554545	37	3.1	37	83	3	133	27	17	18	36	1.93
1555848--1555910	21	3.2	20	79	18	69	4	19	0	76	0.96
1555865--1555925	6	8.2	8	84	15	55	8	14	0	77	0.99
1555848--1555910	6	9.5	6	80	14	63	4	19	0	76	0.96
1555871--1555934	14	4.4	14	75	21	53	7	14	0	78	0.96
1564163--1564226	33	1.9	34	83	3	85	3	26	7	62	1.38
1568752--1568815	31	2.1	31	84	0	83	18	21	20	39	1.93
1570350--1570600	95	2.6	95	81	5	274	31	16	17	34	1.93
1573914--1573950	16	2.2	17	86	13	51	72	2	8	16	1.19
1573937--1574003	22	2.8	23	80	13	73	71	1	8	17	1.19
1574134--1574189	14	4.1	14	78	19	55	75	3	1	19	1.05
1575253--1575288	10	3.5	10	88	3	54	72	0	2	25	0.98
1575285--1575380	38	2.5	38	86	3	113	55	4	0	40	1.19
1575316--1575518	35	5.5	34	75	12	145	45	3	2	48	1.32
1575358--1575631	75	3.6	80	74	11	204	44	6	2	47	1.41
1575468--1575653	37	4.7	42	75	15	143	45	8	1	44	1.44
1580541--1580596	14	4.3	14	76	17	66	10	12	23	53	1.69
1580548--1580617	24	2.9	24	87	4	97	12	10	18	58	1.62
1581341--1581415	10	7.7	10	69	21	61	9	12	21	57	1.62
1581347--1581411	16	4.1	16	95	0	121	7	12	23	56	1.61
1581692--1581762	36	2.0	36	88	5	108	29	4	19	46	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1581807--1581900	49	1.9	49	86	0	134	36	12	6	44	1.68
1587031--1587074	2	22.0	2	100	0	88	50	0	0	50	1.00
1588811--1588865	6	9.3	6	81	18	55	69	1	0	29	0.99
1588809--1588866	21	2.9	19	80	15	55	68	1	0	29	0.99
1588864--1589025	34	4.8	32	69	22	93	41	11	5	41	1.64
1588862--1589028	67	2.5	67	77	14	173	41	10	5	41	1.64
1589730--1589961	36	6.7	36	71	17	161	37	12	21	27	1.90
1589860--1589964	37	2.9	36	88	1	156	34	12	24	28	1.92
1590342--1591229	211	4.2	210	94	1	1523	22	18	25	33	1.96
1590343--1591229	418	2.1	419	94	0	1553	22	18	25	33	1.96

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