genome.fa.s7931.2.7.7.80.10.50.1000.8.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: VEPZ01007931.1 Hibiscus syriacus cultivar Beakdansim tig00110339_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2341804

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

This is table  8  of  12  ( 1358 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)
1431451--1431485	13	2.7	13	90	0	52	42	5	11	40	1.65
1431958--1432034	23	3.6	22	77	8	70	29	16	19	33	1.94
1444457--1444941	59	8.2	59	92	0	783	32	14	18	34	1.91
1454577--1454752	90	2.0	90	90	0	280	45	7	9	36	1.66
1455665--1455786	18	6.8	19	79	12	116	29	8	15	46	1.75
1470335--1470681	135	2.6	135	93	0	588	35	14	22	27	1.93
1470654--1470697	17	2.6	17	92	0	70	45	9	25	20	1.80
1470519--1470833	152	2.1	152	87	1	443	35	14	22	27	1.93
1472133--1472382	108	2.3	109	78	6	258	20	12	16	50	1.77
1472652--1472689	18	2.2	18	90	4	60	15	7	2	73	1.17
1472651--1472689	17	2.2	19	81	13	55	15	7	2	74	1.15
1474647--1474693	20	2.5	19	80	12	53	68	2	4	25	1.19
1476778--1476822	20	2.2	20	96	0	81	33	15	15	35	1.89
1479617--1479679	24	2.6	24	80	9	83	20	12	15	50	1.77
1481462--1481496	17	2.1	17	94	0	61	11	14	31	42	1.81
1484159--1484199	21	2.0	21	85	0	55	31	14	17	36	1.90
1484590--1484698	4	27.8	4	78	3	60	29	10	19	41	1.84
1485005--1485158	8	19.2	8	95	0	272	25	11	24	38	1.88
1485534--1485567	16	2.1	17	88	5	52	38	2	17	41	1.65
1486060--1486116	3	19.7	3	87	7	73	36	1	0	61	1.07
1486060--1486122	32	1.9	33	90	3	101	39	1	0	58	1.07
1486061--1486124	14	4.5	14	78	7	58	40	1	0	57	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1486076--1486131	29	1.9	29	82	7	69	41	1	0	57	1.09
1489110--1489149	19	2.1	19	86	9	55	40	10	12	37	1.77
1489225--1489326	36	2.8	36	95	0	177	40	17	14	27	1.89
1489796--1489880	42	2.0	43	93	2	145	31	9	22	36	1.86
1489956--1489995	6	5.9	7	83	16	57	15	17	10	57	1.64
1489956--1489995	13	2.9	14	86	13	57	15	17	10	57	1.64
1490112--1490155	14	3.3	13	78	15	54	20	9	9	61	1.53
1490120--1490162	14	3.2	13	81	12	52	23	9	6	60	1.51
1494878--1494924	24	2.0	24	95	0	85	36	29	17	17	1.92
1494997--1495176	75	2.4	75	87	1	254	31	16	22	30	1.95
1495999--1496274	54	5.1	54	83	3	322	37	15	19	27	1.92
1497330--1497732	45	8.9	45	89	0	572	26	21	19	32	1.97
1497636--1497873	116	2.0	117	84	5	311	28	20	20	30	1.97
1499288--1499336	14	3.4	14	78	10	62	81	12	4	2	0.91
1499293--1499343	15	3.3	16	74	17	54	76	13	5	3	1.11
1504133--1504214	3	28.0	3	85	4	105	34	2	0	63	1.08
1504146--1504220	29	2.6	29	85	2	98	37	2	0	60	1.11
1504713--1504744	16	2.0	16	93	0	55	59	28	0	12	1.34
1507920--1507968	14	3.4	14	78	10	62	81	12	4	2	0.91
1507925--1507975	15	3.3	16	74	17	54	76	13	5	3	1.11
1512775--1512856	3	28.0	3	87	4	114	35	2	0	62	1.09
1513355--1513386	16	2.0	16	93	0	55	59	28	0	12	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1518039--1518102	21	3.0	21	80	8	65	18	23	23	34	1.96
1518066--1518124	23	2.6	23	100	0	118	22	30	18	28	1.97
1522689--1522754	28	2.4	28	92	2	116	13	9	34	42	1.76
1528980--1529004	4	6.2	4	100	0	50	24	0	0	76	0.80
1530178--1530230	16	3.2	16	77	17	54	32	3	0	64	1.12
1530376--1530411	2	18.0	2	100	0	72	50	0	0	50	1.00
1541023--1541092	6	11.3	6	93	6	122	84	0	15	0	0.63
1541988--1542276	110	2.7	108	81	6	345	37	23	15	23	1.93
1542935--1542998	12	6.0	11	80	12	64	43	3	0	53	1.16
1544187--1544270	13	6.0	13	75	18	64	26	2	1	70	1.07
1544185--1544270	16	5.2	16	71	15	52	26	2	1	69	1.07
1545518--1545547	14	2.1	14	93	0	51	50	6	0	43	1.28
1545809--1545937	7	18.9	7	68	13	63	25	0	31	43	1.55
1545809--1545939	14	9.6	14	71	14	76	25	0	31	42	1.55
1545798--1545856	28	2.1	28	90	6	93	23	0	32	44	1.54
1545812--1545892	21	3.9	21	73	11	76	23	0	30	45	1.53
1547311--1547361	23	2.2	23	96	0	93	23	13	21	41	1.89
1556998--1557042	2	23.5	2	91	8	76	51	0	0	48	1.00
1557908--1558070	87	1.9	87	97	0	308	41	11	14	33	1.81
1558205--1559774	181	8.6	182	93	1	2605	28	16	12	42	1.85
1558205--1559774	544	2.9	545	93	1	2680	28	16	12	42	1.85
1560690--1560740	3	17.0	3	79	0	57	27	31	3	37	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1560694--1560744	12	4.2	12	92	0	66	25	31	5	37	1.80
1560706--1560744	12	3.2	12	96	0	69	20	33	7	38	1.81
1560706--1560757	6	8.7	6	78	0	50	19	30	9	40	1.83
1562267--1563408	200	5.7	200	98	0	2194	31	18	14	35	1.91
1563668--1563716	19	2.6	19	93	6	82	57	10	2	30	1.43
1565267--1565354	33	2.7	33	91	3	142	3	44	0	52	1.18
1565542--1565607	33	2.0	33	93	0	114	22	46	0	30	1.52
1565644--1565684	21	2.0	21	90	0	64	19	26	12	41	1.87
1567940--1567986	20	2.4	19	79	10	58	19	14	10	55	1.68
1567907--1568380	182	2.6	181	87	2	662	27	16	13	43	1.85
1578420--1578463	3	14.7	3	100	0	88	31	0	0	68	0.90
1583461--1583549	22	4.2	20	72	16	63	30	4	3	61	1.32
1586640--1586842	102	2.0	102	90	0	316	25	18	27	28	1.98
1597266--1597305	16	2.5	16	100	0	80	45	32	5	17	1.70
1599532--1599561	10	3.0	10	95	0	51	36	20	10	33	1.86
1599679--1599992	161	2.0	160	86	3	443	33	20	19	27	1.96
1599715--1600033	160	2.0	160	83	4	385	35	20	17	26	1.95
1600291--1600370	3	26.0	3	89	5	124	30	0	2	67	1.04
1601053--1601155	23	4.4	23	80	1	107	35	24	22	17	1.95
1601055--1601155	46	2.2	47	82	5	125	36	22	22	17	1.95
1604320--1604423	45	2.3	46	91	6	176	35	28	17	18	1.93
1607256--1607282	14	1.9	14	100	0	54	22	29	3	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1609824--1609988	90	1.8	89	94	1	294	38	10	6	44	1.65
1616721--1616893	90	1.9	89	96	1	319	38	10	6	43	1.65
1619087--1619155	23	3.0	23	78	0	75	37	26	18	17	1.93
1620686--1620784	3	32.7	3	97	2	189	33	0	0	66	0.92
1620820--1620865	17	2.7	17	74	19	51	43	34	0	21	1.53
1626559--1626661	23	4.4	23	80	2	107	46	13	11	28	1.78
1626559--1626661	47	2.2	46	82	5	127	46	13	11	28	1.78
1634646--1634694	23	2.1	23	92	0	80	38	8	20	32	1.82
1634610--1634771	87	1.9	87	97	0	306	41	11	14	32	1.82
1635154--1636035	182	4.8	182	87	3	1308	26	15	14	43	1.85
1635154--1636035	365	2.4	364	93	0	1496	26	15	14	43	1.85
1636029--1636076	23	2.1	23	92	0	78	37	8	22	31	1.84
1640047--1640614	199	2.8	195	80	6	611	33	13	14	37	1.87
1640513--1640555	20	2.0	21	86	8	61	34	13	6	44	1.72
1640474--1641413	200	4.7	200	91	1	1359	28	14	14	42	1.85
1641381--1641431	21	2.4	21	100	0	102	33	15	15	35	1.90
1641524--1641575	24	2.2	24	100	0	104	34	0	25	40	1.56
1641524--1641585	24	2.6	24	89	2	72	37	3	22	37	1.71
1641680--1641738	24	2.4	24	91	2	91	49	11	0	38	1.40
1641688--1641724	18	2.1	18	89	0	56	51	10	0	37	1.37
1641678--1641720	6	7.2	6	83	0	50	46	9	0	44	1.35
1642300--1642333	18	1.9	18	88	5	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642292--1642333	19	2.3	18	84	12	50	61	0	2	35	1.09
1642886--1642990	56	1.9	55	82	9	133	39	4	5	50	1.47
1642999--1643027	2	14.5	2	100	0	58	48	0	0	51	1.00
1656978--1657179	45	4.5	45	95	0	361	38	7	23	30	1.82
1658429--1658462	9	3.8	9	84	0	50	61	5	5	26	1.42
1658425--1658465	18	2.3	18	100	0	82	60	4	4	29	1.38
1659636--1659681	22	2.1	22	91	0	74	36	10	19	32	1.87
1661945--1661980	17	2.1	17	100	0	72	47	13	5	33	1.67
1680707--1680798	2	46.0	2	100	0	184	50	0	0	50	1.00
1682038--1682103	12	5.5	12	70	20	57	53	7	13	25	1.66

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