genome.fa.s9462.2.7.7.80.10.50.1000.8.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  8  of  91  ( 10815 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)
1425724--1426337	164	3.7	162	80	6	671	25	19	23	31	1.98
1425696--1426337	249	2.6	248	83	4	785	25	19	23	30	1.98
1431668--1431721	18	2.9	18	81	10	56	75	1	5	16	1.07
1431686--1431727	16	2.6	16	85	14	52	73	0	4	21	1.01
1433057--1433305	37	6.9	36	81	8	276	45	3	2	48	1.34
1433052--1433304	69	3.5	70	79	14	259	45	3	2	47	1.34
1433060--1433306	73	3.5	71	80	14	285	45	3	2	48	1.34
1433060--1433324	142	1.8	143	82	6	338	47	3	3	45	1.36
1433856--1434555	84	8.4	84	79	6	629	25	18	23	32	1.97
1433947--1434551	164	3.7	163	79	8	591	25	19	24	31	1.98
1433932--1434519	249	2.4	247	85	4	754	25	18	25	31	1.98
1438554--1438805	36	6.9	37	84	4	316	45	3	2	49	1.31
1438669--1438796	11	10.8	11	65	20	53	46	3	1	48	1.27
1438557--1438804	73	3.4	72	88	5	358	45	3	2	49	1.31
1443281--1443320	14	2.9	14	85	3	55	57	27	12	2	1.48
1443576--1443631	14	4.1	14	73	21	57	55	16	14	14	1.70
1456317--1456777	249	1.8	251	84	6	637	33	11	16	38	1.84
1465922--1465967	24	2.0	23	83	12	58	43	2	0	54	1.12
1466461--1466527	29	2.3	30	82	7	75	32	2	1	62	1.19
1471230--1471275	22	2.1	22	95	0	83	36	4	10	47	1.58
1476857--1476919	21	2.9	21	86	9	74	68	1	1	28	1.08
1476889--1476926	17	2.2	18	90	4	60	71	2	0	26	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1480182--1480237	28	2.0	28	92	0	94	35	28	14	21	1.92
1483849--1483905	18	3.1	18	72	22	55	35	0	1	63	1.05
1484258--1484289	16	2.1	16	94	5	57	28	0	0	71	0.86
1489821--1489855	16	2.2	17	90	10	56	54	0	14	31	1.40
1490308--1490349	22	1.9	22	90	0	66	38	2	16	42	1.61
1493410--1493459	25	2.0	25	84	4	64	36	16	2	46	1.58
1494316--1494349	2	17.0	2	87	0	50	52	2	0	44	1.16
1494316--1494353	10	3.9	10	86	3	51	52	5	0	42	1.24
1498036--1498077	15	2.6	16	82	17	52	33	4	0	61	1.17
1510976--1511568	56	9.6	67	66	16	229	28	19	17	35	1.94
1511043--1511757	56	11.9	56	68	17	346	29	18	17	34	1.94
1510975--1511749	122	6.3	122	85	1	944	29	18	16	35	1.93
1511508--1511563	29	1.9	29	85	7	78	28	21	19	30	1.98
1511669--1511760	27	3.3	27	70	16	80	34	15	17	32	1.91
1511759--1512761	89	11.3	89	83	3	1146	30	18	19	30	1.96
1512140--1512372	42	5.3	42	65	18	116	32	19	22	25	1.97
1512290--1512512	47	5.0	45	63	17	124	30	17	20	31	1.96
1511759--1512803	444	2.3	445	84	4	1388	31	18	19	30	1.96
1514890--1514931	15	2.6	16	82	17	52	33	4	0	61	1.17
1515814--1515921	39	2.8	39	83	10	132	31	25	26	15	1.96
1519119--1519155	18	2.0	20	84	10	51	21	32	0	45	1.52
1527467--1527523	21	2.7	21	80	0	69	29	21	19	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1527515--1527628	21	5.4	21	93	0	192	22	27	21	28	1.99
1528308--1528368	21	2.9	21	100	0	122	29	22	27	19	1.98
1528360--1528422	21	3.0	21	76	0	63	30	20	22	26	1.98
1535513--1535544	15	2.2	14	94	5	55	31	0	15	53	1.43
1535760--1535823	23	2.6	25	78	16	71	39	7	0	53	1.30
1535760--1535825	24	2.7	23	76	19	64	39	7	0	53	1.30
1535792--1535918	30	4.2	30	82	7	132	38	7	0	54	1.28
1535813--1535931	30	4.0	30	86	1	150	42	5	0	51	1.32
1535964--1536313	30	11.9	29	73	12	142	52	1	8	38	1.41
1535995--1536051	24	2.4	25	79	8	73	52	1	5	40	1.34
1536003--1536056	24	2.3	24	87	3	74	53	1	5	38	1.35
1536161--1536315	59	2.6	60	82	9	192	54	1	7	36	1.39
1536311--1536360	18	2.7	18	78	3	55	44	0	10	46	1.37
1537316--1537363	25	2.0	25	84	11	66	41	4	4	50	1.41
1537516--1537561	15	3.5	15	67	32	50	50	4	0	45	1.21
1537519--1537566	24	2.0	24	100	0	96	54	4	0	41	1.20
1538864--1538919	23	2.3	22	77	17	58	46	0	1	51	1.11
1540939--1541014	21	3.6	21	77	13	93	17	19	27	35	1.94
1540945--1541039	42	2.3	42	98	0	181	20	18	25	35	1.95
1540964--1541035	21	3.4	21	76	14	85	19	19	23	37	1.94
1541781--1541934	63	2.4	63	94	0	272	33	25	20	20	1.97
1541753--1541940	21	9.0	21	79	12	199	34	23	21	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1544523--1544548	11	2.4	11	100	0	52	7	15	0	76	0.99
1544504--1544551	12	3.9	13	81	15	57	10	12	0	77	1.00
1545159--1545187	2	14.5	2	100	0	58	48	0	0	51	1.00
1549731--1550040	121	2.6	121	83	1	379	24	14	26	34	1.94
1549994--1550155	60	2.7	60	88	4	238	27	14	20	38	1.91
1551470--1551526	2	28.5	2	100	0	114	49	0	0	50	1.00
1564457--1564615	78	2.0	78	98	0	309	23	13	11	51	1.73
1564950--1564982	13	2.5	13	100	0	66	15	15	24	45	1.84
1565052--1565081	13	2.2	14	94	5	53	13	6	0	80	0.91
1565116--1565189	15	5.1	15	75	18	59	27	2	0	70	1.01
1565109--1565196	22	4.0	21	70	19	63	25	4	0	70	1.06
1569022--1569251	113	2.1	110	95	2	415	44	5	14	35	1.69
1569835--1569870	14	2.6	14	100	0	72	27	0	30	41	1.56
1570120--1570206	35	2.5	35	83	7	122	32	19	22	25	1.98
1571174--1571227	26	2.0	27	82	3	65	24	11	22	42	1.85
1582418--1582458	20	2.0	20	90	4	64	53	7	0	39	1.29
1583044--1583070	12	2.2	12	100	0	54	74	0	7	18	1.05
1583081--1583107	13	2.1	13	100	0	54	22	25	14	37	1.93
1585518--1585547	14	2.2	14	94	5	53	56	3	0	40	1.16
1586922--1586991	30	2.3	32	85	7	92	42	10	18	28	1.82
1587782--1587841	31	2.0	31	86	3	86	35	10	23	31	1.88
1589434--1589492	18	3.3	18	69	9	57	42	1	18	37	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593788--1594108	103	3.1	103	97	0	606	26	12	23	37	1.91
1594125--1594184	23	2.6	23	91	0	93	21	26	28	23	1.99
1597716--1597745	11	2.7	11	100	0	60	53	0	26	20	1.46
1599239--1599552	99	3.2	101	87	8	429	27	14	23	35	1.93
1599239--1599554	100	3.2	100	86	8	429	27	13	23	35	1.93
1599555--1599605	22	2.3	22	86	3	66	25	27	25	21	1.99
1600369--1600451	38	2.2	36	77	8	85	39	6	13	40	1.69
1600979--1601039	22	2.8	22	92	0	95	34	18	26	21	1.96
1601339--1601397	6	9.8	6	81	7	66	42	1	18	37	1.61
1601339--1601397	18	3.3	18	86	9	77	42	1	18	37	1.61
1601346--1601409	18	3.6	18	76	16	69	35	1	21	40	1.63
1603370--1603718	130	2.7	129	87	3	520	26	19	16	38	1.92
1603928--1603963	14	2.6	14	90	0	54	25	13	2	58	1.49
1609430--1609478	2	24.5	2	79	8	55	42	2	4	51	1.32
1610982--1611077	29	3.3	29	86	1	131	20	26	15	37	1.93
1620737--1620774	20	1.9	20	84	10	51	31	10	31	26	1.90
1621729--1622220	245	2.0	245	100	0	984	33	16	16	33	1.91
1625595--1625642	16	3.1	16	77	17	57	62	0	2	35	1.07
1625741--1625786	24	2.0	24	86	4	67	30	8	0	60	1.26
1630671--1630708	16	2.4	16	86	8	51	26	15	13	44	1.83
1631131--1631216	27	3.5	27	64	26	82	41	0	32	25	1.56
1631124--1631216	45	2.0	46	91	2	152	41	0	30	27	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1631525--1631572	15	3.2	15	80	16	55	37	8	2	52	1.44
1633015--1633563	112	4.9	112	94	1	913	47	14	13	24	1.80
1633459--1633915	182	2.5	182	89	2	686	44	12	15	27	1.82
1635674--1635727	2	27.0	2	100	0	108	50	0	0	50	1.00
1640266--1640321	2	28.5	2	96	3	105	51	0	0	48	1.00
1643625--1643702	36	2.3	35	75	20	85	55	1	2	41	1.22
1648281--1648314	11	3.1	11	91	8	52	32	0	0	67	0.91
1648280--1648315	14	2.6	14	91	8	56	30	0	0	69	0.89
1648322--1648373	3	17.3	3	84	7	70	61	0	0	38	0.96
1648646--1649711	223	4.8	226	93	2	1742	27	19	14	38	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91