genome.fa.s8242.2.7.7.80.10.50.1000.42.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  42  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)
10134613--10134979	134	2.7	134	83	3	443	23	16	34	25	1.95
10134865--10134980	43	2.8	41	76	12	112	21	18	37	21	1.94
10135036--10135213	35	5.3	35	65	16	117	42	14	19	23	1.88
10135068--10135124	29	2.0	29	86	6	80	40	14	21	24	1.90
10135005--10135225	64	3.4	65	84	3	268	42	15	18	23	1.88
10135372--10135521	36	4.1	37	71	7	110	40	10	20	29	1.84
10136758--10136796	20	1.9	21	94	5	71	0	20	10	69	1.17
10136750--10136807	28	2.2	26	90	6	89	0	18	8	72	1.10
10136756--10136803	7	6.9	7	79	9	53	0	22	10	66	1.22
10138045--10138084	20	2.0	20	85	5	53	55	12	15	17	1.70
10140480--10140538	30	2.0	30	86	6	84	64	5	13	16	1.45
10140447--10140584	60	2.3	59	77	13	131	63	8	11	16	1.52
10140495--10140588	30	3.1	30	80	7	111	63	7	11	17	1.49
10142078--10142111	3	11.3	3	87	12	52	67	0	0	32	0.91
10143173--10143212	17	2.2	19	86	8	57	30	15	32	22	1.94
10143974--10144031	21	2.8	21	76	7	55	31	6	24	37	1.82
10149569--10149625	24	2.4	25	77	11	66	57	8	7	26	1.54
10151161--10151195	15	2.2	16	90	10	54	5	11	5	77	1.12
10151161--10151193	17	1.9	17	93	0	57	6	12	6	75	1.16
10159670--10159712	20	2.2	20	83	8	52	37	4	2	55	1.33
10161404--10161451	17	2.9	17	93	3	80	10	10	22	56	1.63
10173344--10173401	23	2.7	20	70	17	53	32	18	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10173390--10173445	21	2.7	21	100	0	112	33	14	25	26	1.94
10173431--10173457	14	1.9	14	100	0	54	37	14	14	33	1.88
10176179--10176224	11	4.2	11	86	8	58	67	4	6	21	1.32
10176238--10176283	14	3.4	14	75	24	53	65	2	0	32	1.05
10176236--10176281	21	2.1	21	84	11	58	67	2	0	30	1.03
10176175--10176342	9	16.6	10	66	24	52	66	1	7	25	1.27
10176896--10177000	37	2.8	37	83	0	138	32	14	13	40	1.84
10177731--10179211	106	14.0	105	89	2	2073	23	17	24	34	1.96
10179585--10179621	18	2.0	19	94	5	67	43	32	5	18	1.73
10180037--10180106	22	3.2	22	91	0	122	22	14	24	38	1.91
10180716--10180785	26	2.8	24	72	20	63	1	12	5	80	0.96
10180730--10180781	15	3.6	14	75	17	52	0	13	3	82	0.80
10180716--10180776	11	5.0	11	78	11	50	1	14	3	80	0.92
10180717--10180778	8	7.5	8	72	13	54	1	12	3	82	0.87
10185397--10185427	2	15.5	2	100	0	62	51	0	0	48	1.00
10185421--10185465	21	2.1	21	87	4	63	66	0	0	33	0.92
10185729--10185771	20	2.1	21	86	4	61	65	2	4	27	1.25
10185909--10185948	12	3.6	11	87	9	55	65	5	5	25	1.34
10185967--10186010	21	2.1	21	87	8	63	68	2	0	29	1.02
10186615--10186719	37	2.8	37	85	0	138	31	15	12	40	1.84
10189333--10189375	18	2.4	18	80	7	52	0	32	6	60	1.23
10189832--10192184	896	2.6	896	99	0	4661	31	18	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10193980--10194040	31	2.0	31	96	0	113	54	8	6	31	1.56
10194132--10194217	33	2.6	32	76	7	82	53	8	2	36	1.43
10194087--10194449	98	3.7	96	70	13	263	48	8	3	38	1.53
10193998--10194428	198	2.2	198	83	4	539	49	9	3	37	1.53
10195598--10195645	13	3.7	13	83	8	62	20	47	14	16	1.82
10195611--10195677	31	2.2	31	88	0	98	19	46	19	14	1.84
10195624--10195664	18	2.3	18	91	0	64	19	46	21	12	1.82
10195645--10195697	13	3.9	13	80	7	61	16	39	22	20	1.92
10195593--10195683	44	2.1	44	87	0	128	19	46	17	16	1.85
10195641--10195698	26	2.1	28	87	6	84	17	41	22	18	1.90
10195675--10195705	7	4.3	7	92	8	53	12	35	25	25	1.92
10195673--10195705	15	2.2	15	100	0	66	15	36	24	24	1.93
10198094--10198183	23	3.8	24	86	1	112	26	15	18	38	1.91
10198260--10198336	37	2.1	36	92	4	129	9	28	29	32	1.88
10206895--10206935	17	2.3	19	87	8	59	36	14	4	43	1.67
10210697--10210762	34	1.9	34	90	0	105	45	9	16	28	1.78
10210803--10210848	2	23.5	2	95	4	85	47	0	0	52	1.00
10212949--10213063	58	1.9	59	81	10	137	42	6	18	33	1.75
10223522--10223560	3	12.7	3	83	5	51	64	0	0	35	0.94
10223764--10224330	111	5.1	111	92	1	850	29	16	23	30	1.96
10223764--10224326	221	2.5	221	89	2	853	29	16	23	30	1.96
10231927--10231986	27	2.3	27	82	8	70	30	1	0	68	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10240438--10240496	26	2.2	26	81	9	64	38	0	3	57	1.15
10240871--10240926	18	3.1	17	79	18	60	60	1	1	35	1.17
10241533--10241588	22	2.5	22	83	8	78	62	0	1	35	1.06
10241552--10241613	31	1.9	33	81	12	76	59	1	3	35	1.23
10241766--10242040	137	2.0	137	99	0	541	46	10	14	28	1.78
10248908--10248944	3	12.3	3	100	0	74	64	0	0	35	0.94
10249000--10249097	45	2.2	44	83	3	124	50	3	0	46	1.17
10249072--10249126	23	2.5	22	80	8	69	50	0	1	47	1.11
10249047--10249104	30	2.0	28	86	6	80	50	1	0	48	1.11
10249077--10249131	22	2.5	21	82	2	65	49	0	1	49	1.11
10253230--10253324	47	2.0	47	100	0	190	14	12	31	41	1.84
10253561--10253616	2	29.0	2	92	7	98	48	0	0	51	1.00
10259647--10260173	277	1.9	274	98	1	1011	24	14	29	30	1.95
10273808--10273888	19	4.3	19	90	0	117	28	24	16	30	1.96
10277452--10277535	3	27.0	3	73	17	57	61	2	2	33	1.21
10277540--10277576	2	19.0	2	88	5	58	51	2	0	45	1.15
10277460--10277561	43	2.3	43	90	6	152	58	2	2	35	1.28
10277615--10277679	21	3.1	20	78	8	67	43	7	1	47	1.41
10280560--10280661	33	3.1	33	90	4	161	33	3	28	34	1.76
10285521--10285559	14	2.8	14	96	0	69	33	0	12	53	1.39
10286562--10286626	19	3.4	19	84	0	85	29	15	20	35	1.93
10286639--10286740	19	5.4	19	68	8	55	28	8	18	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10286639--10286749	39	2.9	37	79	11	102	29	8	18	43	1.79
10287557--10287741	36	5.2	36	72	10	121	30	11	17	40	1.86
10288988--10289025	15	2.7	15	84	8	53	23	5	2	68	1.23
10289534--10289571	2	19.0	2	94	0	67	47	0	0	52	1.00
10291628--10291667	18	2.2	18	100	0	80	20	32	12	35	1.90
10293382--10293428	16	3.1	15	85	14	62	80	6	12	0	0.88
10293389--10293461	38	2.0	36	84	10	94	78	6	15	0	0.96
10294113--10294161	22	2.2	22	92	0	80	32	24	14	28	1.94
10295105--10295366	36	7.4	36	78	10	263	27	19	13	39	1.89
10295105--10295373	73	3.8	72	78	11	313	26	19	13	40	1.89
10295039--10295428	137	2.8	137	85	1	496	28	19	12	38	1.88
10295147--10295330	101	1.8	101	89	2	289	28	17	14	39	1.89
10295315--10295497	64	2.8	65	83	5	224	31	21	9	37	1.85
10295324--10295496	68	2.6	66	86	3	224	32	21	9	36	1.85
10296092--10296644	105	5.3	105	92	3	861	32	27	17	22	1.96
10296092--10296644	208	2.7	210	90	4	854	32	27	17	22	1.96
10301871--10302155	54	5.3	54	87	1	401	25	18	19	36	1.94
10301871--10302155	109	2.6	108	89	1	435	25	18	19	36	1.94
10304185--10304282	48	2.0	48	100	0	196	20	25	15	38	1.92
10308752--10309330	54	10.8	54	85	6	775	26	17	20	35	1.95
10308912--10308996	27	3.2	27	60	9	66	25	16	20	37	1.93
10310380--10310468	36	2.5	35	79	3	97	31	14	19	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10310452--10310541	36	2.5	36	83	0	117	36	11	12	40	1.78
10310492--10310614	36	3.4	35	75	5	84	34	15	12	38	1.85
10327805--10327869	22	2.9	22	82	8	69	35	4	0	60	1.18
10331030--10331073	3	14.3	3	80	4	52	43	0	0	56	0.99
10331022--10331081	22	2.6	22	82	10	68	48	0	0	51	1.00
10331075--10331104	2	15.0	2	100	0	60	50	0	0	50	1.00
10337496--10337657	64	2.5	63	84	6	184	34	17	20	27	1.95
10338831--10338935	31	3.4	31	88	2	131	30	17	19	33	1.94
10338848--10338954	31	3.5	31	89	0	142	30	16	21	30	1.96
10338913--10339009	30	3.2	30	88	1	113	22	20	24	31	1.98

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