genome.fa.s7860.2.7.7.80.10.50.1000.9.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: VEPZ01007860.1 Hibiscus syriacus cultivar Beakdansim tig00110223_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2941097

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

This is table  9  of  16  ( 1828 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)
1380653--1380789	55	2.5	55	90	0	220	22	24	24	29	1.99
1385982--1386020	21	1.9	21	84	5	53	28	15	5	51	1.64
1388118--1388169	21	2.5	21	96	0	95	21	19	26	32	1.97
1388415--1388470	18	3.1	18	84	2	76	50	8	7	33	1.61
1389661--1389690	5	6.2	5	92	7	53	16	0	0	83	0.65
1389663--1389692	14	2.1	14	100	0	60	13	0	0	86	0.57
1405716--1405774	24	2.3	26	91	8	104	23	18	30	27	1.98
1413098--1413155	29	2.0	29	96	0	107	10	36	31	22	1.88
1413157--1413279	10	11.3	10	70	16	66	9	37	28	24	1.87
1413168--1413279	33	3.4	33	88	1	152	10	35	29	24	1.89
1413316--1413373	29	2.0	29	89	0	89	22	27	36	13	1.92
1420887--1420975	42	2.1	42	83	4	108	31	11	19	38	1.87
1440940--1440979	17	2.4	17	86	0	53	52	0	0	47	1.00
1445337--1445423	40	2.3	38	82	6	104	25	22	28	22	1.99
1445351--1445430	40	2.0	40	90	0	124	26	21	27	25	1.99
1446807--1446860	21	2.6	21	100	0	108	29	18	14	37	1.91
1447018--1447076	30	2.0	30	93	3	102	35	6	13	44	1.71
1447156--1447196	21	2.0	21	100	0	82	24	36	14	24	1.93
1456582--1456616	13	2.6	14	95	4	63	25	28	31	14	1.95
1456582--1456616	7	5.1	7	93	6	63	25	28	31	14	1.95
1456609--1456647	17	2.3	17	95	0	69	15	23	43	17	1.87
1459094--1459152	30	2.0	30	90	9	95	37	6	13	42	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1459232--1459329	21	4.7	20	81	10	99	24	32	18	24	1.97
1459296--1459404	20	5.8	18	74	12	62	28	31	15	24	1.96
1464442--1464578	31	4.4	30	77	7	114	13	25	29	32	1.93
1464442--1464579	62	2.2	62	81	2	152	13	26	28	31	1.93
1464471--1464579	31	3.5	31	81	2	121	13	26	28	31	1.94
1468133--1468277	31	4.7	31	83	4	177	13	24	31	31	1.93
1468133--1468277	62	2.3	62	90	0	218	13	24	31	31	1.93
1473819--1473854	12	3.0	12	87	0	54	52	2	38	5	1.39
1479496--1479543	21	2.3	21	100	0	96	29	18	29	22	1.98
1480102--1480176	31	2.4	33	82	14	104	45	4	4	46	1.40
1487737--1487807	35	2.0	35	100	0	142	22	8	36	32	1.84
1493612--1493710	3	33.0	3	88	8	148	32	0	1	66	0.98
1503045--1503337	1	293.0	1	71	0	199	85	0	13	0	0.64
1503045--1503337	7	43.3	7	83	12	357	85	0	13	0	0.64
1503045--1503337	13	21.6	14	85	10	357	85	0	13	0	0.64
1504413--1504546	70	1.9	70	85	8	184	35	17	21	25	1.95
1505042--1505138	3	32.0	3	89	6	151	31	0	1	67	0.98
1506241--1506265	11	2.3	11	100	0	50	32	0	0	68	0.90
1506271--1506324	2	27.0	2	100	0	108	50	0	0	50	1.00
1506505--1506540	16	2.2	16	90	0	54	22	5	0	72	1.05
1506409--1506686	151	1.8	150	79	10	316	38	8	5	47	1.58
1511093--1511156	29	2.2	29	86	2	85	21	10	17	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1512762--1512786	13	1.9	13	100	0	50	36	0	16	48	1.46
1521476--1521542	34	2.0	34	90	0	107	25	28	14	31	1.95
1521959--1522026	20	3.5	20	82	9	68	36	20	7	35	1.81
1525116--1525186	35	2.0	36	83	8	92	35	16	23	23	1.95
1526223--1526289	30	2.2	30	86	5	91	37	26	23	11	1.90
1530599--1530677	33	2.4	34	85	10	103	50	0	3	45	1.19
1530590--1530677	32	2.7	31	78	13	97	51	0	4	44	1.22
1531826--1531869	23	1.9	23	90	0	70	43	9	13	34	1.76
1531786--1531947	87	1.9	87	94	0	288	41	10	13	33	1.79
1531942--1532641	200	3.5	198	81	6	766	30	15	14	39	1.87
1535230--1535288	29	2.0	30	90	6	93	35	5	15	44	1.68
1535370--1535445	21	3.6	21	84	8	93	25	35	14	25	1.93
1538259--1538326	29	2.3	29	87	0	91	42	23	7	26	1.80
1545712--1545779	29	2.3	29	87	0	91	44	23	4	27	1.72
1545732--1545808	29	2.7	29	85	0	91	45	24	6	23	1.76
1545816--1545850	18	2.0	17	94	5	61	11	22	48	17	1.79
1546756--1546803	19	2.5	20	82	3	62	52	6	12	29	1.63
1548078--1548136	30	2.0	30	93	6	102	35	3	16	44	1.65
1548216--1548268	21	2.5	21	90	0	88	18	35	18	26	1.95
1548226--1548250	13	1.9	13	100	0	50	16	40	20	24	1.91
1548872--1548905	14	2.4	14	100	0	68	26	17	17	38	1.92
1548890--1549408	201	2.6	201	90	1	763	31	16	14	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1549153--1549605	251	1.8	250	86	3	669	31	16	15	37	1.89
1552437--1553153	201	3.6	200	92	1	1161	31	16	15	36	1.89
1553439--1553487	19	2.6	19	96	0	89	57	8	0	34	1.29
1555276--1555341	33	2.0	33	87	0	96	24	43	0	31	1.54
1555375--1555440	21	3.1	21	88	0	96	16	31	9	42	1.80
1555835--1555890	24	2.4	24	82	5	71	50	5	0	44	1.25
1557685--1557730	20	2.3	19	78	10	56	21	17	8	52	1.71
1557651--1558126	182	2.6	182	86	2	634	28	16	13	41	1.86
1564186--1564233	23	2.1	23	96	0	87	35	6	12	45	1.67
1567772--1567797	6	4.3	6	100	0	52	53	30	0	15	1.42
1570933--1570969	13	2.7	14	84	15	51	43	8	0	48	1.32
1570938--1570983	15	3.0	15	78	21	51	41	8	0	50	1.33
1571517--1571584	10	6.7	10	90	6	54	45	2	1	50	1.26
1571536--1571588	2	27.0	2	96	3	99	49	0	0	50	1.00
1571754--1571863	2	55.0	2	98	0	211	49	0	0	50	1.07
1571927--1571966	15	2.7	15	84	0	53	50	5	2	42	1.37
1574902--1575075	39	4.4	39	83	4	215	40	15	4	39	1.68
1574902--1575075	80	2.2	77	86	5	233	40	15	4	39	1.68
1575021--1575353	96	3.5	96	79	8	344	41	13	6	38	1.70
1575021--1575376	187	1.9	190	80	7	429	42	13	6	37	1.69
1575407--1575602	58	3.4	58	85	2	252	45	11	6	36	1.66
1578600--1578651	26	2.0	26	89	10	81	34	3	3	57	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1579030--1579091	20	2.9	21	80	9	63	16	25	35	22	1.94
1585186--1585396	58	3.7	58	90	3	284	44	13	7	35	1.71
1585556--1585703	45	3.3	44	83	3	179	41	16	7	34	1.76
1585904--1585936	14	2.3	15	89	5	50	57	15	3	24	1.52
1587360--1587390	16	1.9	16	93	0	53	51	22	3	22	1.62
1587410--1587640	2	118.5	2	79	13	241	47	3	3	45	1.36
1588195--1588250	21	2.6	21	83	11	69	46	14	7	32	1.71
1588448--1588484	13	2.8	13	92	8	58	72	13	0	13	1.11
1591595--1591631	2	18.5	2	100	0	74	48	0	0	51	1.00
1593489--1593561	3	25.0	3	75	10	71	65	0	1	32	1.01
1593912--1594338	113	3.7	116	81	11	479	27	19	14	37	1.91
1594739--1594866	20	6.2	20	84	10	177	39	12	16	32	1.86
1594731--1594866	42	3.2	41	86	6	177	38	12	16	33	1.86
1594739--1594866	62	2.1	62	95	0	229	39	12	16	32	1.86
1594722--1594871	22	7.1	22	83	8	179	38	12	15	34	1.85
1596154--1596322	74	2.3	75	82	4	198	28	20	15	35	1.93
1599558--1599594	11	3.5	11	92	3	58	8	10	0	81	0.89
1599557--1599630	10	8.1	10	84	13	65	6	18	0	74	1.04
1599553--1599594	10	4.1	10	93	3	66	11	11	0	76	1.03
1599579--1599625	8	5.8	8	90	10	69	2	21	0	76	0.89
1599579--1599625	15	2.9	16	90	9	69	2	21	0	76	0.89
1602664--1602694	16	1.9	16	93	0	53	38	3	12	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1602805--1602873	7	10.0	7	95	1	122	56	13	14	15	1.67
1602948--1603057	43	2.5	43	91	1	166	37	19	12	30	1.89
1602948--1603077	43	3.0	43	86	3	154	34	22	10	32	1.89
1605325--1605384	15	3.9	15	77	14	59	63	1	8	26	1.32
1606272--1606322	27	1.9	26	84	11	68	0	3	31	64	1.11
1606805--1606878	3	25.0	3	81	8	89	67	0	0	32	0.91
1616802--1616852	16	3.2	16	86	5	68	27	21	9	41	1.84
1617086--1617136	23	2.2	23	85	3	66	41	0	7	50	1.31
1617341--1617373	12	2.8	12	90	4	50	66	0	6	27	1.15
1617367--1617406	11	3.5	11	83	6	53	47	5	7	40	1.54

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