genome.fa.s8242.2.7.7.80.10.50.1000.43.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  43  of  73  ( 8740 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)
10338940--10339012	30	2.4	30	95	0	128	24	20	24	30	1.99
10342128--10342288	64	2.5	63	85	7	191	34	18	21	26	1.96
10342777--10342823	2	23.5	2	95	0	76	51	4	0	44	1.21
10343478--10343576	31	3.2	30	89	2	108	33	18	17	31	1.94
10343495--10343604	31	3.6	31	90	1	150	31	19	20	29	1.96
10343560--10343656	30	3.2	30	88	1	113	22	20	24	31	1.98
10343587--10343659	30	2.4	30	95	0	128	24	20	24	30	1.99
10346378--10346413	11	2.9	13	84	16	58	77	0	16	5	0.94
10346378--10346426	24	1.9	25	88	12	73	75	0	18	6	1.00
10346372--10346432	16	4.5	15	78	19	55	75	0	18	6	1.01
10348565--10348784	114	1.9	114	90	0	350	34	15	20	30	1.93
10349925--10350098	76	2.3	75	87	2	249	29	14	24	31	1.94
10351423--10351500	22	3.5	22	91	1	120	34	10	12	42	1.77
10352016--10352341	170	2.0	167	91	4	534	34	14	12	38	1.84
10352345--10352987	76	8.5	76	95	0	1099	24	19	21	35	1.96
10353107--10353166	22	2.7	23	82	10	79	51	0	0	48	1.00
10353131--10353181	2	28.0	2	77	18	58	49	0	0	50	1.00
10360652--10360705	22	2.5	22	93	0	90	22	9	18	50	1.75
10362322--10362388	35	1.9	35	87	0	98	25	19	22	32	1.97
10367133--10367165	17	1.9	17	93	0	57	45	12	6	36	1.66
10371426--10371487	18	3.2	20	78	19	62	61	0	1	37	1.06
10371452--10371641	63	3.1	58	82	13	147	56	1	0	42	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10371479--10371579	21	4.8	21	65	24	59	55	1	0	42	1.11
10371482--10371641	63	2.6	62	90	7	245	56	1	0	41	1.07
10371599--10371644	12	3.9	12	78	21	53	67	0	0	32	0.91
10373060--10373456	131	3.0	130	90	2	618	31	13	12	42	1.82
10373569--10373626	26	2.2	26	96	0	107	24	18	17	39	1.92
10375703--10375741	10	3.8	11	90	9	57	17	20	25	35	1.95
10375703--10375741	21	1.9	20	89	5	60	17	20	25	35	1.95
10375704--10375745	9	4.3	10	85	11	52	16	23	26	33	1.96
10375742--10375806	18	3.7	18	97	2	123	16	47	23	12	1.80
10385242--10385284	20	2.2	20	91	0	68	27	23	13	34	1.93
10385182--10385638	191	2.4	196	82	7	583	32	17	10	39	1.84
10385438--10385475	20	1.9	20	94	0	67	34	15	10	39	1.82
10385453--10385821	175	2.1	176	84	1	479	32	16	10	40	1.83
10388418--10388571	6	25.7	6	98	0	227	33	10	16	39	1.83
10390669--10391061	196	2.0	196	100	0	786	33	17	23	25	1.96
10391791--10391987	2	98.0	2	68	19	90	49	4	4	42	1.40
10391791--10392001	9	23.0	9	65	24	79	50	3	3	41	1.38
10391789--10391869	11	7.1	11	72	16	67	48	2	1	48	1.23
10391802--10391988	11	17.8	11	68	18	80	49	4	4	41	1.42
10391962--10392001	17	2.3	18	87	12	57	60	2	0	37	1.11
10391928--10392008	11	7.4	11	71	15	60	55	2	2	39	1.26
10392736--10392815	20	3.9	19	68	27	56	28	20	25	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10393359--10393419	22	2.8	22	76	0	68	32	18	24	24	1.97
10393950--10393998	21	2.3	21	82	3	62	26	20	28	24	1.99
10397771--10397795	12	2.1	12	100	0	50	44	0	16	40	1.47
10402239--10402317	21	3.8	21	76	14	65	13	25	37	22	1.91
10402261--10402319	19	2.9	20	87	7	75	15	27	35	22	1.94
10406071--10406110	21	1.9	21	85	10	55	35	10	2	52	1.48
10408949--10409497	22	24.5	22	69	23	162	53	2	7	36	1.43
10408926--10409596	47	15.2	43	70	20	263	52	2	7	37	1.42
10408926--10409531	24	25.8	23	68	25	275	53	2	7	36	1.43
10408971--10409543	40	14.6	39	68	22	187	53	2	7	36	1.43
10408986--10409663	159	4.2	155	77	15	572	52	2	7	37	1.44
10409152--10409682	47	11.2	47	72	20	268	52	2	8	37	1.44
10409317--10409621	47	6.8	47	79	12	324	52	2	8	36	1.46
10408985--10409541	2	274.5	2	63	25	79	52	2	7	37	1.43
10409073--10409593	32	16.9	31	69	22	195	52	2	8	37	1.44
10409574--10409619	23	2.0	23	87	12	67	54	4	8	32	1.51
10409666--10409905	78	3.0	80	92	4	403	51	5	7	35	1.53
10410313--10410345	16	2.1	16	94	0	57	39	9	24	27	1.85
10411786--10411845	27	2.2	28	93	6	113	50	0	13	36	1.42
10412691--10413187	54	9.2	54	87	0	670	36	20	17	26	1.94
10417814--10417911	45	2.2	45	86	1	133	28	20	18	32	1.96
10419784--10420252	54	8.7	54	87	1	618	36	20	16	27	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10419793--10419878	27	3.2	27	62	6	66	38	18	16	26	1.92
10422259--10422321	21	3.0	21	80	15	69	14	9	1	74	1.13
10422323--10422369	17	2.6	17	78	18	51	23	2	2	72	1.06
10422421--10422555	5	25.2	5	70	19	69	14	7	2	75	1.13
10422433--10422556	23	5.5	22	74	16	101	14	6	3	75	1.12
10422421--10422490	32	2.2	31	82	14	81	14	7	2	75	1.12
10422438--10422531	12	7.6	13	74	20	53	13	7	3	75	1.14
10422497--10422554	12	4.8	12	74	18	57	13	5	3	77	1.07
10422505--10422549	18	2.5	19	82	10	58	13	6	4	75	1.15
10422451--10422626	69	2.6	70	80	13	172	13	9	2	74	1.17
10422472--10422640	43	3.9	42	78	16	127	13	9	2	74	1.16
10422584--10422618	11	3.4	11	88	11	56	14	8	0	77	0.99
10422564--10422618	19	2.8	20	81	13	53	12	10	0	76	1.02
10422472--10422638	20	9.1	19	68	21	65	13	8	2	74	1.15
10423207--10423255	18	2.8	17	87	9	55	28	28	10	32	1.90
10424440--10424490	22	2.4	21	84	12	68	35	3	1	58	1.28
10424440--10424490	21	2.4	22	81	18	63	35	3	1	58	1.28
10434356--10434424	24	2.7	26	82	8	72	50	17	2	28	1.60
10434701--10434757	30	2.0	30	82	6	73	49	21	7	22	1.73
10441069--10441130	23	2.7	23	92	2	99	22	32	25	19	1.97
10443176--10443233	11	5.3	11	78	15	66	53	10	1	34	1.45
10444225--10444268	18	2.4	18	84	0	61	2	20	38	38	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10444361--10444403	6	7.7	6	92	7	65	55	0	0	44	0.99
10444361--10444408	18	2.9	16	82	14	62	58	0	0	41	0.98
10447165--10447237	26	2.8	26	85	0	101	46	15	6	31	1.71
10449964--10450065	15	6.7	15	69	4	69	44	15	7	32	1.75
10449962--10450065	30	3.4	30	89	2	145	44	16	7	31	1.76
10452018--10452142	31	4.0	31	76	15	116	39	20	17	22	1.93
10452018--10452142	62	2.0	62	84	6	164	39	20	17	22	1.93
10457384--10457492	31	3.5	31	97	0	200	39	22	19	19	1.93
10459032--10459074	22	2.0	22	86	9	61	11	25	6	55	1.60
10464079--10464111	16	2.1	16	100	0	66	45	18	0	36	1.49
10465895--10465957	2	31.5	2	100	0	126	50	0	0	49	1.00
10466416--10466479	21	3.0	21	81	4	74	15	23	35	25	1.94
10479659--10479698	20	2.0	20	95	0	71	20	32	25	22	1.98
10479659--10479717	23	2.8	21	87	7	75	22	30	27	20	1.98
10479702--10479741	21	1.9	21	89	0	62	30	35	25	10	1.88
10482357--10482411	21	2.6	21	100	0	110	14	47	23	14	1.81
10484917--10485027	31	3.6	31	96	0	195	39	22	18	18	1.92
10490243--10490313	31	2.3	31	95	0	124	39	21	18	21	1.93
10490870--10490924	20	2.8	20	100	0	110	25	34	16	23	1.95
10494164--10494241	26	3.0	26	82	0	84	48	14	6	30	1.68
10494488--10494605	15	7.6	15	75	7	101	46	19	5	27	1.73
10494513--10494567	17	3.4	17	80	10	69	50	20	1	27	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10494488--10494605	32	3.8	32	84	2	150	46	19	5	27	1.73
10494939--10494976	18	2.1	18	90	9	60	52	15	5	26	1.64
10501519--10501556	20	2.0	20	85	15	53	60	2	2	34	1.24
10501893--10502362	240	2.0	229	95	4	841	40	21	15	22	1.90
10512392--10512442	21	2.4	21	83	0	66	35	23	41	0	1.55
10512437--10512476	21	1.9	21	84	0	53	50	15	30	5	1.65
10512790--10512895	44	2.4	44	87	4	144	32	18	17	31	1.95
10512818--10512903	44	2.0	44	95	0	154	32	19	16	31	1.94
10512983--10513140	42	3.8	42	76	8	142	40	22	13	23	1.90
10513036--10513189	43	3.6	43	83	6	170	34	24	15	25	1.95

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