genome.fa.s8094.2.7.7.80.10.50.1000.9.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   

This is table  9  of  43  ( 5090 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)
1567203--1567269	12	5.3	12	75	10	62	80	4	11	2	0.97
1567203--1567276	39	1.9	38	83	2	94	78	4	14	2	1.01
1568320--1568407	32	2.8	32	77	6	97	29	14	25	30	1.95
1570070--1570107	7	5.3	7	87	12	51	42	0	2	55	1.14
1570073--1570108	18	2.1	17	89	5	54	38	0	2	58	1.13
1571354--1571416	29	2.1	29	85	14	83	12	3	1	82	0.86
1575160--1575190	2	16.0	2	93	6	55	48	0	0	51	1.00
1583789--1583897	20	5.5	20	82	9	102	50	16	17	15	1.78
1583789--1583966	20	8.9	20	78	12	84	44	19	19	16	1.87
1583886--1583967	20	4.0	20	82	7	94	37	23	21	17	1.93
1584085--1584116	6	5.5	6	96	3	57	31	50	18	0	1.48
1584845--1584889	6	7.5	6	100	0	90	0	15	51	33	1.44
1585020--1585107	20	4.4	20	87	5	133	13	22	23	39	1.90
1585003--1585131	40	3.2	40	86	4	152	17	23	22	37	1.94
1585170--1585219	20	2.5	20	93	0	82	12	20	20	48	1.80
1585210--1585261	19	2.7	19	88	8	70	15	19	25	40	1.90
1588190--1588393	82	2.5	81	86	4	268	37	12	15	34	1.85
1588190--1588420	82	2.8	81	81	5	209	36	14	14	35	1.86
1591114--1591139	13	2.0	13	100	0	52	53	7	7	30	1.57
1592798--1592836	15	2.6	15	87	0	60	46	12	12	28	1.79
1593005--1593055	21	2.4	21	86	0	75	29	23	23	23	1.99
1593256--1593310	13	4.2	13	75	13	58	49	12	3	34	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1593296--1593392	32	3.0	32	91	4	151	46	14	7	31	1.72
1593387--1593426	21	1.9	21	94	0	71	47	7	15	30	1.72
1595694--1595746	15	3.9	13	88	9	72	16	16	16	49	1.81
1595694--1595753	15	4.6	12	84	11	66	16	18	18	46	1.84
1595693--1595747	13	4.1	13	82	13	67	20	16	16	47	1.83
1596547--1596606	3	20.0	3	100	0	120	33	0	0	66	0.92
1597431--1597474	3	15.0	3	90	4	72	34	2	0	63	1.07
1600729--1600769	8	5.4	8	80	11	50	26	0	2	70	0.99
1600863--1600899	2	18.5	2	100	0	74	48	0	0	51	1.00
1601083--1601109	2	13.5	2	100	0	54	48	0	0	51	1.00
1601139--1601212	14	5.6	13	71	13	53	16	8	4	71	1.25
1602126--1602150	4	6.2	4	100	0	50	24	0	0	76	0.80
1611384--1611431	23	2.1	23	100	0	96	12	29	37	20	1.90
1612382--1613332	106	9.0	106	93	0	1477	33	25	18	22	1.97
1615437--1615497	9	6.6	9	79	7	68	18	3	3	75	1.08
1615546--1615572	2	13.5	2	100	0	54	48	0	0	51	1.00
1618777--1618832	27	2.1	27	100	0	112	35	32	10	21	1.88
1621146--1621332	60	3.1	59	81	10	211	32	22	4	40	1.74
1621203--1621296	31	3.1	30	68	11	84	29	23	6	40	1.79
1621529--1621608	27	2.8	28	74	10	72	45	2	18	33	1.63
1623894--1623931	19	2.0	19	100	0	76	15	21	26	36	1.93
1632677--1632729	2	25.5	2	88	7	79	45	0	3	50	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632687--1632735	24	2.0	24	100	0	98	40	0	8	51	1.32
1633659--1633686	13	2.2	13	100	0	56	32	14	21	32	1.93
1634292--1634359	27	2.6	27	93	4	113	30	11	14	42	1.82
1637942--1638009	27	2.6	27	93	4	113	30	11	14	42	1.82
1641907--1641953	21	2.2	21	100	0	94	59	17	0	23	1.37
1648380--1648435	18	3.3	18	68	27	59	28	0	5	66	1.14
1650813--1650879	31	2.2	31	86	0	89	46	11	7	34	1.69
1651967--1652018	24	2.2	24	82	0	59	36	19	19	25	1.95
1652002--1652086	23	3.8	23	81	6	93	36	27	16	20	1.93
1652041--1652081	21	2.0	21	95	0	73	39	29	12	19	1.88
1653826--1653863	20	1.9	20	94	0	67	28	28	15	26	1.96
1653899--1653967	18	3.5	19	76	21	70	20	20	18	40	1.92
1657577--1657644	22	3.0	22	97	2	127	26	27	26	19	1.99
1657864--1657923	30	2.0	31	90	3	95	33	23	6	36	1.81
1657938--1658009	29	2.5	29	90	4	110	37	13	9	38	1.78
1658312--1658485	67	2.6	67	84	7	201	17	27	28	27	1.97
1663747--1663806	20	2.9	19	80	14	57	25	30	26	18	1.98
1663790--1663849	21	2.9	21	92	2	95	26	38	25	10	1.87
1664238--1664271	4	8.8	4	87	6	52	73	0	0	26	0.83
1664238--1664271	16	2.2	15	94	5	59	73	0	0	26	0.83
1668688--1668877	65	2.9	64	88	1	254	34	16	18	30	1.93
1670846--1670881	12	2.9	12	87	4	54	50	5	8	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1671380--1671454	23	3.3	23	66	14	66	30	22	18	28	1.97
1671368--1671470	44	2.3	44	93	0	179	30	20	20	29	1.98
1677250--1677438	65	2.9	64	83	4	236	35	16	17	30	1.92
1678794--1678831	11	3.5	11	82	17	53	60	0	0	39	0.97
1685051--1685104	22	2.4	21	76	11	54	53	0	1	44	1.11
1686377--1686417	19	2.2	19	100	0	82	26	14	4	53	1.61
1707673--1707702	13	2.3	13	94	0	51	30	10	6	53	1.60
1713146--1713345	55	3.6	55	95	0	346	28	20	22	30	1.98
1714706--1714866	64	2.5	64	81	10	186	31	18	26	23	1.97
1714854--1714911	20	2.6	22	86	10	75	31	18	22	27	1.97
1715386--1715415	2	15.0	2	100	0	60	50	0	0	50	1.00
1715666--1715734	18	3.8	18	96	0	129	15	27	33	23	1.95
1716720--1716761	20	2.2	20	86	4	59	30	14	21	33	1.93
1718251--1718294	23	1.9	23	90	0	70	31	29	9	29	1.88
1723611--1723785	96	1.8	96	88	2	271	40	10	18	30	1.85
1724497--1724537	18	2.3	18	83	8	57	43	24	0	31	1.54
1728002--1728050	23	2.2	22	82	7	64	20	20	38	20	1.93
1738008--1738115	53	2.0	53	94	0	189	46	6	16	30	1.72
1738491--1738565	22	3.4	21	73	15	62	68	2	1	28	1.12
1738562--1738636	40	2.0	38	82	15	93	56	4	0	40	1.18
1740235--1740286	20	2.7	19	85	5	68	32	17	13	36	1.89
1741615--1741657	16	2.6	16	86	13	61	72	4	23	0	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1751655--1752082	102	4.2	100	75	9	332	36	11	12	39	1.80
1751701--1752079	202	1.9	202	82	2	474	36	11	12	39	1.80
1752765--1752849	3	27.0	3	83	9	98	0	41	0	58	0.98
1752773--1752849	16	4.8	16	96	0	136	0	42	0	57	0.99
1753920--1753953	2	17.0	2	100	0	68	50	0	0	50	1.00
1754223--1754283	22	2.8	22	92	0	104	31	19	24	24	1.98
1754970--1755010	21	2.0	21	85	4	57	29	19	26	24	1.98
1755294--1755628	102	3.3	98	73	12	277	36	12	12	37	1.82
1757190--1757369	77	2.4	76	84	5	222	37	16	10	36	1.82
1757240--1758036	263	3.0	264	87	3	1120	35	15	10	38	1.82
1757993--1758310	158	2.0	158	85	2	433	33	15	11	39	1.84
1758739--1758873	22	6.1	21	68	12	56	40	0	3	56	1.17
1758784--1758881	22	4.5	22	78	7	94	34	0	3	62	1.11
1758789--1758879	43	2.1	45	83	8	116	34	0	3	62	1.11
1758784--1758881	21	4.6	21	74	13	74	34	0	3	62	1.11
1763139--1763288	58	2.6	58	98	0	291	30	12	14	42	1.83
1768704--1768895	93	2.1	93	94	0	339	30	22	21	25	1.99
1775509--1775560	2	26.0	2	100	0	104	50	0	0	50	1.00
1776177--1776221	23	2.0	23	86	8	65	51	0	0	48	1.00
1776179--1776306	54	2.4	54	78	15	131	46	1	1	50	1.20
1776232--1776280	23	2.1	23	88	0	71	48	2	2	46	1.25
1776206--1776301	28	3.4	31	73	15	82	44	2	2	51	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1780213--1780274	24	2.7	23	79	2	70	67	0	9	22	1.19
1782327--1782952	85	7.4	85	87	0	824	26	17	19	35	1.94
1783182--1783333	42	3.6	42	65	15	105	23	21	25	30	1.99
1783019--1783312	86	3.4	86	87	0	401	22	22	25	29	1.99
1784488--1784689	99	2.0	99	88	5	302	32	20	15	31	1.94
1788568--1788592	13	1.9	13	100	0	50	56	0	0	44	0.99
1790030--1790102	2	37.0	2	97	2	139	49	0	0	50	1.00
1790990--1791027	2	19.0	2	94	0	67	47	0	0	52	1.00
1791011--1791054	23	1.9	23	85	0	61	50	0	2	47	1.13
1791357--1791382	11	2.4	11	100	0	52	65	0	0	34	0.93

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