genome.fa.s8558.2.7.7.80.10.50.1000.7.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: VEPZ01008558.1 Hibiscus syriacus cultivar Beakdansim tig00111463_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2950132

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

This is table  7  of  14  ( 1626 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)
1428527--1428587	32	1.9	32	90	6	97	60	11	13	14	1.59
1430004--1430067	26	2.5	26	97	0	119	45	7	7	39	1.62
1430494--1430648	29	5.4	28	71	11	91	59	8	14	18	1.59
1430575--1430637	27	2.3	28	86	2	83	60	9	11	19	1.57
1433553--1433729	89	2.0	89	95	0	318	35	9	9	46	1.67
1443017--1443177	81	2.0	81	87	0	232	34	20	24	20	1.96
1444585--1444618	18	1.9	18	88	5	52	50	0	0	50	1.00
1448046--1448140	45	2.1	45	98	0	181	31	20	21	27	1.97
1448082--1448241	65	2.5	65	82	7	184	26	18	24	30	1.98
1450759--1450838	23	3.6	22	76	5	90	23	23	26	26	2.00
1454665--1454704	21	1.9	21	90	10	64	37	10	0	52	1.35
1456607--1456655	19	2.7	17	84	9	53	26	20	28	24	1.99
1456627--1456836	65	3.2	65	79	9	207	26	18	24	30	1.98
1458290--1458352	34	1.9	32	83	6	81	33	1	4	60	1.27
1460205--1460570	149	2.4	150	89	3	540	32	16	13	37	1.87
1460595--1460636	10	3.9	11	87	6	52	73	2	7	16	1.15
1461933--1461974	19	2.3	19	88	8	61	23	11	42	21	1.86
1462171--1462211	3	14.0	3	94	5	75	65	0	0	34	0.93
1473340--1473371	17	1.9	17	93	6	57	18	21	12	46	1.82
1474741--1475020	66	4.2	66	77	4	208	40	13	20	26	1.89
1478816--1478861	13	3.5	13	88	5	65	39	19	21	19	1.93
1479610--1479639	4	7.5	4	100	0	60	23	0	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1489728--1489763	18	2.0	18	88	0	54	19	19	33	27	1.96
1492919--1492949	15	2.1	15	100	0	62	80	6	0	12	0.89
1493388--1493442	28	1.9	29	88	3	85	61	7	7	23	1.47
1494331--1494380	17	2.9	17	87	0	73	4	32	32	32	1.76
1496025--1496051	4	6.8	4	100	0	54	22	0	0	77	0.76
1496252--1496310	25	2.4	25	76	0	64	22	40	25	11	1.88
1500058--1500084	14	1.9	14	100	0	54	14	18	14	51	1.76
1500058--1500112	20	2.7	20	88	5	74	16	20	16	47	1.83
1500080--1500121	22	1.9	22	85	0	57	19	23	14	42	1.87
1503298--1503388	38	2.4	38	83	3	103	25	19	10	43	1.84
1503951--1504769	130	6.3	128	76	7	652	35	17	15	31	1.91
1505354--1505389	15	2.4	15	100	0	72	22	22	19	36	1.95
1513569--1513620	20	2.5	20	81	6	59	36	13	26	23	1.92
1514153--1514242	23	4.0	23	81	8	114	27	15	25	31	1.96
1519687--1519735	21	2.3	21	85	0	62	28	22	10	38	1.87
1523251--1523353	52	2.0	52	94	0	179	21	23	13	41	1.88
1530593--1530651	29	2.0	29	83	0	73	45	6	15	32	1.72
1543855--1543919	30	2.2	30	85	0	85	15	26	18	40	1.90
1546286--1546333	25	2.0	24	83	4	60	39	10	6	43	1.64
1547607--1547647	20	2.0	21	90	4	66	48	2	4	43	1.37
1547620--1547700	27	3.1	25	70	15	74	37	2	6	54	1.39
1550824--1550883	27	2.2	27	78	0	66	31	1	11	55	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556908--1557021	59	1.9	59	85	7	160	35	13	12	38	1.82
1557286--1557314	3	9.7	3	100	0	58	34	0	0	65	0.93
1557619--1557660	22	2.0	22	86	13	63	73	2	0	23	0.94
1562113--1562163	3	17.0	3	100	0	102	33	0	0	66	0.92
1566998--1567044	24	2.0	24	86	0	67	23	0	51	25	1.49
1567711--1567767	22	2.7	21	78	13	64	35	14	21	29	1.92
1573495--1573584	44	2.0	44	89	4	137	33	16	17	32	1.93
1579325--1579444	64	1.9	64	96	0	222	28	20	6	45	1.76
1586503--1586563	26	2.2	28	85	5	90	70	1	6	21	1.19
1586604--1586677	29	2.6	28	83	8	87	78	1	4	16	0.97
1586543--1586689	17	8.5	16	68	19	57	74	2	6	17	1.12
1586599--1586699	46	2.1	49	80	10	120	73	0	3	21	1.06
1586653--1586745	37	2.6	34	77	15	91	68	1	2	27	1.07
1586753--1586809	25	2.3	25	84	0	69	68	3	3	24	1.21
1587321--1587395	37	2.0	37	97	0	141	30	17	12	40	1.86
1587832--1587914	34	2.4	35	93	2	141	32	10	16	39	1.84
1587899--1588026	67	1.9	67	85	3	177	37	14	20	28	1.91
1587911--1588105	102	1.9	104	86	4	279	39	13	20	26	1.89
1588253--1588513	106	2.5	106	91	3	420	24	18	23	34	1.96
1589175--1589288	33	3.5	32	80	4	122	37	19	11	31	1.87
1590369--1590428	13	4.8	12	74	15	50	3	15	3	78	1.01
1593444--1593500	26	2.1	27	90	3	89	73	0	7	19	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594683--1594709	14	1.9	14	100	0	54	22	44	0	33	1.53
1596559--1596613	23	2.5	21	81	16	67	27	23	25	23	2.00
1596553--1596633	20	3.8	20	75	12	63	22	20	30	25	1.98
1600086--1600262	64	2.8	64	80	5	196	32	22	20	25	1.98
1600772--1601055	31	9.2	31	88	0	424	39	11	15	33	1.84
1600775--1601054	62	4.5	62	93	0	470	39	12	15	33	1.84
1604163--1604287	64	2.0	64	87	3	180	34	21	20	23	1.97
1604849--1605132	31	9.2	31	91	0	460	37	12	17	33	1.87
1608873--1608924	25	2.1	24	82	10	61	71	1	1	25	1.07
1609550--1609657	37	2.9	37	95	0	189	31	12	13	41	1.83
1610000--1610050	22	2.3	22	86	6	68	50	0	0	49	1.00
1610022--1610051	15	1.9	16	93	6	53	53	0	0	46	1.00
1610004--1610060	22	2.5	23	77	8	62	56	1	0	42	1.10
1614233--1614270	18	2.0	20	85	10	53	47	7	0	44	1.32
1615561--1615632	20	3.7	20	69	23	53	47	0	8	44	1.33
1615574--1615623	20	2.5	20	84	15	77	46	0	12	42	1.41
1615594--1615672	31	2.6	31	94	4	135	45	0	7	46	1.31
1615594--1615684	31	3.0	29	86	10	121	49	0	6	43	1.28
1615662--1615698	19	1.9	19	88	0	56	51	0	5	43	1.24
1616679--1616719	18	2.3	19	79	12	50	78	9	9	2	1.06
1617255--1617445	75	2.5	75	87	1	265	25	30	22	20	1.98
1623171--1623253	21	3.9	21	74	10	60	22	37	25	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1625054--1625099	24	1.9	24	100	0	92	39	21	17	21	1.93
1626294--1626344	9	6.2	8	76	19	52	13	0	27	58	1.36
1626296--1626339	17	2.6	17	85	7	63	13	0	29	56	1.38
1626577--1626607	15	2.1	15	100	0	62	32	0	19	48	1.49
1626942--1627147	75	2.7	75	85	5	265	23	31	24	20	1.98
1629443--1629490	23	2.1	23	96	0	87	56	8	2	33	1.41
1629650--1629740	31	3.0	31	95	3	159	34	6	16	42	1.74
1629887--1629928	21	2.0	21	95	0	75	23	21	28	26	1.99
1629957--1629996	20	1.9	21	85	10	55	37	37	10	15	1.80
1630203--1630306	34	3.1	34	91	2	158	32	15	29	22	1.94
1639218--1639306	27	3.1	30	89	9	134	21	22	3	52	1.61
1641289--1641346	25	2.4	25	85	2	73	37	0	0	62	0.96
1641301--1641361	25	2.8	20	76	23	70	29	0	0	70	0.88
1641301--1641350	25	2.0	25	96	0	91	34	0	0	66	0.92
1642549--1642584	3	11.7	3	88	5	54	30	0	2	66	1.06
1642604--1642644	17	2.4	17	91	0	73	21	19	0	58	1.39
1646752--1647932	84	14.3	83	80	5	1097	31	23	19	25	1.98
1646743--1647932	331	3.6	324	78	7	1094	31	23	19	25	1.98
1646752--1647932	248	4.8	249	80	5	1174	31	23	19	25	1.98
1652264--1652312	26	1.9	25	83	4	62	55	4	10	30	1.52
1653073--1653349	148	1.9	149	90	0	448	29	14	14	40	1.86
1653310--1654235	263	3.6	257	84	5	1125	33	16	13	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669175--1669276	6	17.0	6	77	0	78	28	14	21	35	1.93
1669176--1669485	18	17.6	18	75	4	139	33	11	16	38	1.85
1669186--1669418	12	19.9	12	76	5	91	34	12	15	38	1.84
1669176--1669412	24	10.1	24	76	5	135	33	12	16	37	1.85
1669277--1669311	2	17.5	2	100	0	70	51	0	0	48	1.00
1669324--1669430	6	17.8	6	78	0	61	35	14	14	36	1.86
1669320--1669430	24	4.6	24	81	0	96	36	13	13	36	1.84
1669482--1669562	6	13.5	6	88	0	63	23	7	25	43	1.80
1669483--1669546	12	5.3	12	86	0	74	20	9	29	40	1.84
1669483--1669546	18	3.6	18	82	0	74	20	9	29	40	1.84

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