genome.fa.s8242.2.7.7.80.10.50.1000.50.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  50  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)
11891723--11891796	3	23.7	3	79	8	69	62	0	6	31	1.21
11892920--11892957	3	12.7	3	83	10	51	34	0	2	63	1.09
11894778--11895112	166	2.0	168	98	1	656	35	12	10	40	1.78
11902774--11902939	85	2.0	85	80	4	192	30	17	19	32	1.95
11902917--11902991	13	5.8	13	90	0	105	32	14	21	32	1.93
11902980--11903043	28	2.3	28	100	0	128	29	23	18	28	1.98
11906581--11907333	133	5.7	133	84	3	933	30	22	16	30	1.96
11910242--11910295	24	2.3	23	90	9	83	40	7	5	46	1.55
11910241--11910295	25	2.2	24	84	9	76	41	7	5	45	1.55
11910265--11910313	20	2.6	19	81	9	55	44	8	2	44	1.45
11910344--11910382	21	1.9	21	94	5	71	35	12	7	43	1.72
11911005--11911571	200	2.8	199	77	5	577	27	17	19	34	1.95
11910828--11911537	201	3.5	197	75	7	613	27	17	19	35	1.95
11935623--11935665	20	2.2	19	84	12	52	74	0	6	18	1.04
11936659--11936692	12	2.8	12	86	0	50	67	0	2	29	1.05
11936659--11936720	25	2.5	24	84	7	63	67	0	3	29	1.06
11936685--11936721	9	3.9	10	82	10	51	67	0	2	29	1.04
11938034--11938153	38	3.2	36	77	13	109	43	7	2	46	1.45
11938057--11938154	36	2.6	37	87	4	126	44	7	3	44	1.46
11938127--11938171	20	2.2	21	96	4	83	40	11	4	44	1.60
11939712--11939915	15	13.0	15	81	11	212	46	1	2	49	1.26
11939854--11939912	14	3.9	14	77	18	64	40	0	3	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11939867--11939966	32	3.5	31	71	25	101	37	0	8	55	1.30
11939892--11939934	22	2.0	22	95	0	77	37	0	11	51	1.39
11939787--11939944	69	2.3	67	87	6	221	43	0	5	51	1.28
11939869--11939983	54	2.1	54	96	0	212	35	0	9	54	1.33
11939993--11940405	32	12.7	32	68	22	211	34	0	12	53	1.40
11939998--11940517	54	9.5	54	77	9	552	34	0	12	52	1.41
11940081--11940122	22	1.9	22	90	0	66	33	0	11	54	1.37
11940048--11940319	86	3.3	82	87	8	363	34	0	12	52	1.40
11940246--11940288	22	2.0	22	95	0	77	34	0	11	53	1.37
11939914--11940517	219	2.8	220	96	0	1084	34	0	12	53	1.41
11940268--11940502	80	2.9	82	88	6	336	33	0	12	53	1.43
11940465--11940507	22	2.0	22	100	0	86	34	0	13	51	1.42
11940531--11940590	31	1.9	31	89	0	93	45	10	5	40	1.60
11944977--11945023	21	2.2	21	88	0	67	40	12	29	17	1.86
11948343--11948417	8	9.9	8	73	11	59	30	1	28	40	1.65
11948364--11948404	20	2.0	20	90	0	64	26	2	26	43	1.67
11948805--11948866	31	2.0	31	87	3	90	22	29	35	12	1.91
11948988--11949051	31	2.1	31	100	0	128	34	18	3	43	1.66
11952667--11952735	30	2.3	30	89	0	102	43	2	30	23	1.68
11953755--11953784	12	2.5	12	94	0	51	23	43	3	30	1.70
11956091--11956165	35	2.1	35	92	0	123	33	29	28	9	1.88
11956243--11956317	24	3.2	23	84	5	105	36	21	17	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11956247--11956332	23	3.7	23	84	3	109	38	19	17	24	1.93
11956226--11956339	47	2.4	47	80	2	131	40	20	14	24	1.90
11957220--11957255	18	2.0	18	88	0	54	50	0	16	33	1.46
11958416--11958456	22	1.9	21	85	5	55	26	14	21	36	1.93
11958557--11958621	34	1.9	34	100	0	130	7	29	30	32	1.85
11959740--11959777	16	2.2	18	86	9	53	42	0	2	55	1.14
11965036--11965072	12	3.1	12	92	0	65	0	27	40	32	1.57
11965036--11965072	6	6.2	6	90	0	56	0	27	40	32	1.57
11975536--11975572	18	2.1	18	94	0	65	0	24	43	32	1.55
11975538--11975574	6	6.2	6	93	0	56	0	21	43	35	1.53
11977620--11977656	18	2.1	18	89	0	56	0	21	43	35	1.53
11990339--11990375	6	6.2	6	87	0	56	0	13	45	40	1.43
11994439--11994481	6	7.2	6	91	0	68	2	18	46	32	1.62
11994749--11994801	22	2.4	23	75	9	56	32	5	22	39	1.78
12001946--12001998	22	2.4	22	83	0	70	30	11	22	35	1.89
12007784--12007838	22	2.5	22	75	0	65	29	9	21	40	1.84
12010641--12010700	5	11.2	5	79	13	66	18	53	21	6	1.67
12010655--12010707	27	2.0	27	100	0	106	18	50	22	7	1.72
12010641--12010695	22	2.5	22	100	0	110	18	52	21	7	1.69
12011590--12011666	31	2.5	31	82	2	100	14	25	31	28	1.95
12011590--12011713	63	2.0	63	82	6	153	16	27	29	26	1.97
12015740--12015783	5	8.8	5	92	0	61	4	40	36	18	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12015781--12015883	6	17.2	6	80	0	107	3	16	39	39	1.67
12021783--12021825	6	7.2	6	89	0	59	0	18	44	37	1.50
12022100--12022153	22	2.5	22	78	0	63	31	7	22	38	1.82
12026550--12027197	331	2.0	332	85	4	878	31	13	9	45	1.75
12027141--12027339	75	2.7	76	77	6	194	32	15	10	41	1.81
12027141--12027330	38	5.1	37	78	7	154	34	14	10	40	1.81
12027141--12027284	37	4.0	35	78	8	128	30	14	11	43	1.82
12027824--12028107	159	1.8	156	82	5	365	35	17	16	30	1.92
12028078--12028178	35	2.9	35	96	0	184	47	19	14	17	1.82
12028236--12028315	35	2.3	35	91	0	124	31	17	21	30	1.96
12028674--12028723	24	2.1	24	84	0	64	42	6	4	48	1.46
12035637--12035695	22	2.8	21	79	5	66	20	22	16	40	1.91
12035637--12035701	20	3.2	20	74	12	60	23	20	16	40	1.92
12043638--12043667	5	6.0	5	100	0	60	20	0	0	80	0.72
12044443--12044472	13	2.3	13	100	0	60	13	23	46	16	1.82
12044970--12045030	13	4.2	13	74	22	59	16	19	44	19	1.87
12044979--12045014	19	1.9	19	94	5	65	16	16	44	22	1.86
12048244--12048370	3	40.3	3	66	17	53	31	6	2	59	1.35
12048289--12048345	20	2.8	20	82	15	64	36	3	1	57	1.26
12048325--12048380	13	4.4	13	86	8	71	33	7	1	57	1.37
12055595--12055637	19	2.3	19	84	8	52	13	32	30	23	1.93
12055647--12055685	17	2.3	17	95	0	69	15	46	23	15	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12066649--12066689	20	2.0	20	85	0	55	36	2	2	58	1.24
12071320--12071828	55	9.4	55	79	7	442	29	20	18	31	1.96
12071320--12071828	110	4.7	111	80	5	560	29	20	18	31	1.96
12071930--12072030	36	2.8	37	84	3	125	23	20	16	38	1.93
12076757--12076800	8	5.5	8	97	0	79	47	11	2	38	1.52
12085467--12085541	28	2.6	28	74	17	73	48	14	13	24	1.80
12085886--12085940	26	2.1	25	83	12	67	67	3	3	25	1.23
12085895--12085947	27	2.0	27	81	7	63	67	3	3	24	1.23
12087118--12087185	31	2.2	31	89	0	100	13	1	38	47	1.52
12087225--12087269	3	15.0	3	95	0	81	68	0	0	31	0.89
12088415--12088466	27	1.9	27	100	0	104	36	17	7	38	1.78
12091391--12091437	21	2.2	21	88	0	76	40	17	17	25	1.90
12093573--12093779	2	109.0	2	67	24	94	47	4	3	43	1.41
12093580--12093790	7	28.7	7	67	21	69	47	3	3	44	1.39
12093569--12093669	43	2.3	43	86	6	132	52	3	3	39	1.39
12095000--12095067	20	3.3	20	70	13	57	26	17	17	38	1.92
12095123--12095235	22	5.1	22	97	0	208	33	18	13	34	1.90
12099278--12099317	21	2.0	20	85	5	53	37	20	15	27	1.92
12110918--12111226	148	2.1	147	93	0	519	31	7	4	56	1.48
12111256--12111285	13	2.3	13	100	0	60	30	6	0	63	1.20
12111852--12112139	36	7.8	37	79	9	275	46	4	6	42	1.51
12112189--12112231	21	2.0	21	95	0	77	32	4	4	58	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12112991--12113250	92	2.8	92	97	0	493	36	17	11	34	1.86
12113124--12113196	38	1.9	38	97	0	137	38	16	8	36	1.79
12113169--12113283	54	2.1	54	95	0	203	37	16	14	31	1.89
12113617--12113790	94	1.9	94	82	4	226	25	22	13	37	1.92
12113613--12113810	94	2.1	94	80	7	224	25	23	13	37	1.92
12113814--12113869	21	2.7	21	94	0	103	33	17	14	33	1.90
12117934--12117980	20	2.3	20	92	0	76	29	17	12	40	1.86
12119946--12120189	54	4.5	54	85	3	314	36	18	14	30	1.90
12120521--12120715	94	2.1	95	82	2	232	26	23	12	36	1.91
12127005--12127053	20	2.4	21	83	6	66	34	16	18	30	1.93

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   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