genome.fa.s1129.2.7.7.80.10.50.1000.7.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  7  of  89  ( 10573 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)
1337437--1337574	38	3.6	39	92	3	219	34	6	8	50	1.59
1337485--1337545	18	3.2	19	68	23	56	29	4	9	55	1.53
1338202--1338313	21	5.3	21	94	0	188	31	18	15	34	1.92
1342095--1342152	21	2.8	21	78	2	64	12	24	31	32	1.91
1348493--1348534	21	1.9	23	90	9	70	54	0	2	42	1.13
1348494--1348542	21	2.2	21	82	10	53	55	4	2	38	1.31
1349795--1349849	16	3.5	16	77	22	71	56	3	7	32	1.44
1349791--1349857	31	2.2	31	100	0	134	58	2	5	32	1.38
1350585--1350646	3	21.0	3	87	9	92	33	0	0	66	0.92
1350632--1350663	2	17.0	2	87	12	50	46	0	0	53	1.00
1350600--1350662	12	5.2	12	87	12	78	39	0	0	60	0.97
1352681--1352753	30	2.4	30	82	11	78	17	12	1	68	1.27
1356316--1356387	14	5.2	13	76	15	63	80	4	13	1	0.92
1356316--1356387	27	2.5	28	82	12	85	80	4	13	1	0.92
1357419--1357492	32	2.3	32	83	0	94	28	13	20	37	1.90
1357678--1357970	64	4.6	64	81	5	344	36	19	13	30	1.90
1358053--1358397	124	2.8	124	87	3	477	35	25	15	23	1.94
1358465--1359211	171	4.4	171	83	2	840	35	21	17	25	1.95
1358460--1359211	86	8.8	86	82	2	811	35	21	17	25	1.95
1361569--1361666	21	4.7	21	69	15	69	37	21	20	20	1.94
1361634--1361915	20	13.6	20	71	12	122	37	24	18	18	1.93
1361701--1361910	41	5.2	41	90	1	325	38	24	18	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1362471--1362526	21	2.7	21	91	8	89	53	16	19	10	1.71
1362552--1362684	33	3.8	33	78	10	122	15	21	17	45	1.84
1362557--1362713	71	2.2	73	83	4	194	14	22	17	46	1.83
1362649--1362704	20	2.8	20	77	20	71	17	25	17	39	1.92
1362582--1362713	19	7.1	19	73	20	91	13	21	17	46	1.82
1364388--1364767	94	4.1	94	95	1	647	21	11	18	47	1.81
1364859--1364946	33	2.7	33	85	3	117	46	22	21	9	1.79
1364870--1364927	14	3.8	14	73	20	53	46	18	24	10	1.80
1364996--1365062	20	3.3	20	87	4	82	22	19	20	37	1.95
1365545--1365586	21	2.2	19	87	12	59	21	35	19	23	1.96
1368986--1369046	20	3.0	20	90	4	88	21	21	19	37	1.94
1368996--1369049	20	2.7	20	94	5	92	22	18	20	38	1.93
1369058--1369124	21	3.2	21	93	0	107	35	17	28	17	1.93
1369174--1369404	20	11.6	20	76	7	202	19	18	24	37	1.94
1369174--1369404	40	5.8	40	84	4	288	19	18	24	37	1.94
1369195--1369404	60	3.5	61	78	7	248	20	17	23	38	1.93
1369413--1369465	20	2.7	20	88	5	72	15	18	22	43	1.87
1369518--1369572	20	2.8	20	73	15	60	20	18	29	32	1.96
1373091--1373130	20	1.9	21	90	10	64	22	0	37	40	1.54
1373091--1373143	22	2.4	22	84	6	63	24	0	41	33	1.55
1374985--1375036	23	2.3	22	77	9	61	26	23	28	21	1.99
1375604--1375755	64	2.4	64	83	6	175	25	18	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1375614--1375755	63	2.2	63	82	6	162	25	19	21	33	1.97
1381811--1381855	23	2.0	23	86	0	63	26	26	24	22	2.00
1382441--1382581	63	2.2	64	84	1	176	26	19	20	34	1.96
1384062--1384873	210	3.8	210	92	2	1231	50	8	11	29	1.67
1384904--1385003	31	3.3	30	80	9	89	49	1	4	46	1.27
1384897--1385003	2	54.5	2	71	14	80	49	0	4	44	1.29
1385140--1385185	22	2.1	21	96	4	83	39	0	8	52	1.33
1385412--1385438	5	5.4	5	100	0	54	44	37	18	0	1.50
1385606--1385640	2	17.5	2	100	0	70	48	0	0	51	1.00
1385641--1385674	7	4.9	7	85	0	50	17	0	35	47	1.48
1385671--1385701	6	5.2	6	100	0	62	32	0	0	67	0.91
1385671--1385775	22	5.0	20	73	17	88	38	6	0	54	1.33
1385727--1385792	31	2.1	31	86	11	89	37	7	4	50	1.52
1385838--1385952	18	5.9	18	76	18	106	41	9	6	41	1.64
1385851--1386048	20	10.2	20	69	20	100	41	9	7	42	1.64
1385931--1386059	33	4.1	33	79	13	162	41	8	6	43	1.62
1385990--1386101	53	2.1	53	88	3	163	40	7	4	48	1.51
1385949--1386081	61	2.2	60	84	6	171	40	7	6	45	1.57
1385951--1386101	20	7.8	20	69	14	68	41	7	5	46	1.54
1385982--1386092	2	54.0	2	68	18	50	39	6	4	49	1.48
1386186--1386236	18	2.8	18	87	0	75	49	5	5	39	1.51
1386197--1386294	29	3.5	27	80	16	85	44	7	6	41	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1386238--1386286	17	3.2	17	70	27	54	42	6	6	44	1.54
1386197--1386391	58	3.4	57	73	18	181	43	7	7	41	1.61
1386215--1386427	51	4.1	49	71	22	159	44	7	6	42	1.57
1386159--1386391	56	3.8	68	69	26	203	43	7	6	41	1.60
1386224--1386387	29	5.7	28	76	15	156	43	8	6	41	1.61
1386326--1386400	18	4.3	18	74	16	77	45	6	6	41	1.57
1386387--1386453	27	2.6	26	81	9	66	55	2	2	38	1.31
1386455--1386589	61	2.2	61	85	2	173	49	5	10	34	1.59
1388474--1388518	18	2.5	18	100	0	90	24	33	17	24	1.96
1389124--1389170	14	3.7	14	71	26	50	51	4	0	44	1.21
1389122--1389171	23	2.1	24	96	3	93	48	4	0	48	1.20
1389340--1389376	19	1.9	19	94	0	65	43	5	0	51	1.24
1389439--1389490	16	3.4	16	82	15	74	40	13	28	17	1.87
1392314--1392356	15	2.9	15	85	0	59	32	4	27	34	1.78
1394755--1394853	39	2.5	39	93	0	162	39	2	38	20	1.64
1399961--1400059	39	2.5	39	91	0	153	40	1	38	20	1.59
1403970--1404003	2	17.0	2	93	0	59	50	2	0	47	1.16
1404919--1404967	23	2.2	22	82	10	55	12	12	8	67	1.42
1405434--1405515	3	27.3	3	90	9	132	67	0	1	31	0.99
1405677--1406168	135	3.7	134	85	4	608	28	17	26	27	1.98
1406187--1406363	88	2.0	87	90	1	273	30	19	22	27	1.98
1406629--1406700	32	2.2	32	82	0	81	30	23	13	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1415969--1416010	2	21.0	2	100	0	84	50	0	0	50	1.00
1416153--1416201	25	2.0	24	84	15	64	57	10	4	28	1.50
1420725--1420773	21	2.3	21	85	0	71	36	26	6	30	1.81
1422713--1422769	30	1.9	30	82	7	71	66	3	12	17	1.37
1422830--1422872	21	2.0	22	86	4	61	65	2	11	20	1.36
1424188--1424370	84	2.2	85	81	3	210	23	19	25	31	1.98
1424368--1424488	33	3.6	34	85	5	165	31	9	19	39	1.84
1424540--1424790	36	7.1	36	75	13	227	39	15	19	25	1.91
1424605--1424790	101	1.9	100	85	5	259	39	15	19	26	1.91
1424682--1424740	28	2.1	29	84	9	77	37	11	18	32	1.87
1425760--1425800	22	1.9	22	85	5	57	26	29	24	19	1.98
1426704--1426793	38	2.4	38	90	0	135	24	24	26	24	2.00
1430926--1430959	15	2.1	17	89	10	54	73	0	11	14	1.10
1432219--1432277	29	2.0	30	81	15	70	66	3	10	20	1.36
1432989--1433035	19	2.5	19	83	13	53	61	2	0	36	1.08
1434799--1434850	26	2.0	26	96	0	95	26	21	11	40	1.87
1445677--1445714	19	2.0	19	85	10	51	31	0	2	65	1.06
1448685--1448731	23	2.0	23	84	8	60	57	12	2	27	1.47
1462296--1462335	20	2.0	20	90	9	64	60	12	5	22	1.52
1466420--1466477	20	3.0	20	75	12	66	53	0	3	43	1.17
1470446--1470526	28	2.8	28	83	11	92	6	19	6	67	1.34
1475679--1475941	133	2.0	133	92	1	438	31	14	12	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1476297--1476342	2	23.5	2	91	4	76	47	0	0	52	1.00
1477593--1477631	20	2.0	20	85	14	55	56	0	0	43	0.99
1480154--1480343	95	2.0	95	92	0	317	28	25	21	24	1.99
1495301--1495339	20	1.9	21	84	5	53	35	2	10	51	1.50
1495448--1495484	15	2.6	15	91	8	60	29	0	0	70	0.88
1495448--1495477	14	2.2	13	94	5	51	26	0	0	73	0.84
1495464--1495514	24	2.2	23	82	10	59	41	1	1	54	1.22
1497589--1497635	24	2.0	24	86	0	67	46	2	0	51	1.13
1498562--1498642	39	2.1	39	95	0	144	35	16	8	39	1.79
1507947--1507991	9	4.9	9	84	10	56	86	8	4	0	0.69

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