genome.fa.s9628.2.7.7.80.10.50.1000.6.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: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2284295

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

This is table  6  of  10  ( 1154 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)
1316619--1316717	27	3.7	27	80	0	108	40	13	33	13	1.83
1318913--1318975	31	2.0	31	96	0	117	22	17	9	50	1.74
1319355--1319407	22	2.4	22	75	12	54	32	9	20	37	1.85
1320011--1320071	26	2.3	27	77	8	72	45	6	6	40	1.56
1321319--1321343	12	2.1	12	100	0	50	52	16	8	24	1.70
1321605--1321668	31	2.1	31	96	0	119	34	29	7	28	1.85
1322200--1322253	23	2.3	23	93	0	90	46	18	24	11	1.81
1329182--1329234	25	2.1	25	89	0	79	50	1	1	45	1.23
1329193--1329234	13	3.3	13	86	6	68	50	0	0	50	1.00
1329311--1329345	11	3.1	11	84	8	52	37	2	0	60	1.12
1345431--1345479	19	2.6	19	96	0	89	26	14	34	24	1.94
1346950--1347010	23	2.7	23	89	0	104	18	27	26	27	1.98
1357246--1357291	13	3.7	13	85	8	60	52	2	2	43	1.25
1361063--1361111	20	2.5	19	87	9	55	24	2	2	71	1.07
1361215--1361247	17	1.9	17	88	11	50	36	0	3	60	1.12
1368114--1368141	13	2.2	13	100	0	56	17	0	32	50	1.47
1381625--1381703	34	2.3	34	93	0	131	43	8	24	24	1.82
1384153--1384205	20	2.7	20	88	5	72	45	24	16	13	1.83
1384214--1384364	61	2.5	61	86	2	196	36	24	18	20	1.95
1384214--1384408	41	4.8	40	80	3	176	36	24	18	20	1.94
1384214--1384407	20	9.6	20	75	7	176	36	24	18	20	1.95
1385017--1385116	33	2.8	35	81	13	114	13	21	21	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1385017--1385123	20	5.8	19	72	14	80	13	19	19	47	1.82
1386813--1387181	94	4.1	94	86	8	530	22	13	18	46	1.83
1386984--1387158	83	2.1	83	95	0	314	22	13	18	46	1.83
1387191--1387249	19	3.4	17	73	22	52	11	20	20	47	1.81
1387209--1387297	14	5.6	14	67	23	52	12	23	20	43	1.85
1387191--1387312	33	3.8	33	91	2	185	13	22	20	44	1.85
1387221--1387312	14	5.5	17	71	21	79	13	22	21	42	1.87
1387737--1387825	42	2.1	42	80	0	106	21	38	16	23	1.93
1389333--1389391	19	3.4	19	66	22	56	47	20	20	11	1.81
1389337--1389422	33	2.6	33	84	0	109	46	22	18	12	1.83
1389418--1389522	19	5.7	19	75	13	112	12	22	20	44	1.84
1389422--1389535	33	3.3	33	82	13	156	12	23	20	43	1.85
1389418--1389562	19	8.1	19	70	16	85	14	22	20	42	1.89
1389420--1389562	72	2.0	73	90	1	225	14	23	20	41	1.89
1389455--1389601	20	7.7	20	69	16	80	19	20	22	38	1.94
1392072--1392125	24	2.2	24	93	0	90	44	20	14	20	1.86
1392987--1393031	20	2.3	19	92	3	72	20	17	22	40	1.92
1393028--1393073	21	2.2	21	84	0	56	39	17	26	17	1.91
1410838--1410918	44	1.9	44	87	7	123	50	0	0	49	1.00
1410943--1410968	12	2.2	12	100	0	52	11	23	46	19	1.82
1412412--1412460	19	2.6	18	87	9	62	20	6	16	57	1.60
1414775--1414816	19	2.2	19	95	0	75	47	0	7	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415935--1415970	3	12.0	3	87	0	54	66	0	0	33	0.92
1418404--1418625	109	2.0	109	92	0	363	20	18	15	45	1.86
1436326--1436368	21	2.0	21	86	0	59	46	9	4	39	1.57
1443417--1443735	55	5.8	55	78	9	262	25	22	17	34	1.96
1443492--1444058	108	5.2	106	88	3	618	21	25	17	34	1.96
1443576--1444062	54	9.0	54	91	2	755	19	26	18	35	1.95
1444062--1444141	37	2.2	37	84	4	99	20	18	16	45	1.86
1444439--1444562	37	3.4	37	85	2	169	25	18	21	33	1.96
1444423--1444562	73	1.9	73	85	2	192	25	19	22	33	1.97
1449384--1449534	72	2.1	72	96	0	275	22	26	13	37	1.91
1450582--1450680	47	2.1	47	86	5	137	40	19	12	28	1.87
1454615--1454654	3	12.7	3	89	10	62	32	0	0	67	0.91
1455104--1455173	33	2.2	33	85	12	92	48	24	24	2	1.64
1455536--1455560	7	3.6	7	100	0	50	56	0	32	12	1.36
1455974--1456033	22	2.7	22	82	7	59	36	1	1	60	1.17
1456065--1456327	140	1.9	140	81	4	327	38	7	8	45	1.63
1458463--1458516	14	3.8	14	82	4	63	24	14	9	51	1.71
1462085--1462143	3	19.0	3	86	6	82	33	0	0	66	0.92
1463450--1463503	22	2.4	21	81	9	54	42	1	0	55	1.10
1464107--1464165	29	2.0	29	96	0	109	44	20	15	20	1.87
1466261--1466326	32	2.1	32	91	0	105	37	15	24	22	1.92
1466579--1466662	8	10.8	8	70	17	52	28	1	2	67	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1466579--1466662	24	3.2	26	78	8	82	28	1	2	67	1.10
1466568--1466614	16	3.0	16	76	17	53	31	2	0	65	1.04
1466607--1466671	32	2.0	32	82	11	80	27	0	4	67	1.10
1466631--1466672	19	2.2	20	86	4	59	23	0	4	71	1.05
1466583--1466672	12	7.2	12	69	19	51	28	1	3	66	1.14
1467657--1467708	2	26.0	2	100	0	104	50	0	0	50	1.00
1469479--1469804	103	3.2	103	94	0	571	26	11	24	38	1.88
1469816--1469883	23	3.0	23	80	0	82	17	23	26	32	1.97
1476564--1476891	103	3.2	103	96	0	611	25	11	25	37	1.90
1476909--1476968	23	2.6	23	78	0	57	20	20	26	33	1.97
1478233--1478279	24	2.0	24	91	0	76	29	6	55	8	1.55
1479691--1479810	32	3.9	31	81	5	127	35	20	18	26	1.95
1479688--1479810	31	4.0	31	74	11	101	34	20	17	26	1.95
1482033--1482095	32	2.0	32	96	0	117	20	3	19	57	1.54
1495547--1495620	2	37.5	2	97	2	141	51	0	0	48	1.00
1496360--1496443	23	3.7	23	81	0	114	20	25	23	30	1.98
1498675--1498754	35	2.3	35	86	0	106	40	21	1	37	1.61
1499247--1499539	148	2.0	149	90	2	466	46	11	7	35	1.67
1499717--1499796	35	2.3	35	89	4	117	31	0	22	46	1.52
1501803--1501845	18	2.3	19	84	11	54	44	6	2	46	1.43
1507895--1508209	99	3.1	102	93	3	539	35	24	13	26	1.92
1515951--1515998	22	2.1	24	81	11	57	62	4	4	29	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521947--1522020	34	2.2	34	95	4	132	37	36	9	16	1.81
1523356--1523430	21	3.6	21	78	1	80	25	24	17	33	1.96
1523428--1523468	20	2.0	20	95	0	73	29	19	17	34	1.94
1524329--1524382	24	2.2	24	93	0	90	20	18	20	40	1.91
1524570--1524605	14	2.5	14	90	4	54	58	22	13	5	1.56
1526849--1526931	20	4.2	19	72	15	69	36	21	18	24	1.95
1526895--1527045	19	8.7	19	66	21	80	43	19	23	13	1.87
1526933--1526987	14	3.6	14	73	21	56	45	21	23	9	1.80
1526915--1527041	33	3.8	33	91	0	209	43	18	24	13	1.86
1527070--1527108	19	2.1	19	100	0	78	10	23	20	46	1.81
1527223--1527259	14	2.6	14	91	0	65	45	21	0	32	1.52
1529128--1529237	19	5.6	19	80	4	121	47	20	20	11	1.81
1529128--1529237	39	2.8	38	84	5	130	47	20	20	11	1.81
1529152--1529274	58	2.2	53	85	9	158	47	24	18	8	1.77
1529281--1529318	20	1.9	20	94	0	67	7	15	23	52	1.69
1529313--1529375	20	3.2	20	84	4	92	11	19	15	53	1.71
1529286--1529350	33	1.9	34	90	3	105	7	16	24	50	1.71
1529470--1529755	94	3.1	94	96	0	511	47	18	12	20	1.81
1529699--1529731	17	1.9	17	88	11	50	45	12	18	24	1.83
1530961--1531147	31	6.0	31	93	1	313	36	20	20	21	1.95
1531929--1531974	21	2.2	21	88	0	65	15	26	28	30	1.96
1534004--1534180	19	10.1	18	71	20	117	45	20	22	11	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1534010--1534144	52	2.5	53	87	2	191	45	21	21	11	1.84
1534083--1534175	33	2.8	33	95	0	168	46	21	21	10	1.81
1534102--1534158	14	3.7	14	70	20	51	45	22	22	8	1.80
1534783--1534874	20	4.6	20	84	2	130	20	21	20	36	1.95
1534783--1534874	41	2.3	40	88	1	130	20	21	20	36	1.95
1534783--1534889	41	2.6	41	83	2	108	24	20	20	34	1.96
1534872--1534916	21	2.1	21	91	0	72	44	17	20	17	1.87
1535613--1535691	22	3.7	21	73	19	65	45	0	6	48	1.28
1539652--1539710	15	3.9	14	80	12	64	47	0	1	50	1.11
1539673--1539710	15	2.5	15	95	0	67	52	0	0	47	1.00

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