genome.fa.s1129.2.7.7.80.10.50.1000.80.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  80  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)
19217050--19217115	27	2.4	27	84	0	78	36	3	1	59	1.22
19217158--19217217	29	2.1	29	84	6	77	55	1	3	40	1.27
19219686--19219758	20	3.6	20	69	10	67	32	16	20	30	1.95
19219687--19219765	41	1.9	41	100	0	158	35	16	18	29	1.93
19219946--19219991	22	2.3	19	85	11	56	34	2	30	32	1.70
19220207--19220668	233	2.0	233	96	0	861	25	22	19	32	1.97
19223120--19223188	24	2.9	24	79	12	79	14	18	28	37	1.91
19223132--19223188	24	2.4	24	87	0	87	14	21	31	33	1.92
19236459--19236538	29	2.8	29	92	0	133	32	36	23	7	1.83
19236583--19236690	36	3.0	36	98	0	207	18	25	38	17	1.92
19236705--19236788	29	2.9	29	94	0	150	19	28	35	16	1.93
19236817--19236850	17	2.0	17	100	0	68	23	47	0	29	1.52
19237343--19237386	21	2.1	21	91	0	70	29	0	15	54	1.42
19238175--19238239	26	2.6	25	79	13	62	50	6	1	41	1.36
19241245--19241279	17	2.0	18	94	5	63	57	0	5	37	1.23
19241475--19241512	12	3.2	12	96	3	69	50	0	7	42	1.31
19241534--19241806	26	10.7	26	78	10	253	44	2	8	43	1.48
19241449--19241788	139	2.5	138	83	8	403	44	2	8	44	1.48
19241544--19241793	14	18.4	14	76	13	132	44	2	8	44	1.48
19241712--19242102	48	7.5	51	78	14	234	42	0	10	46	1.44
19241839--19241941	35	3.2	35	62	25	91	41	0	10	47	1.38
19241896--19242514	48	12.4	48	77	16	512	40	2	11	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19242220--19242303	14	5.7	14	67	20	55	39	1	10	48	1.46
19242177--19242569	60	7.1	60	83	11	433	41	0	11	46	1.44
19241781--19242509	407	1.8	396	94	3	1296	40	1	11	46	1.51
19242303--19242567	49	5.2	49	84	10	345	41	0	12	46	1.44
19242417--19242514	21	4.3	22	70	17	67	40	1	9	48	1.42
19242649--19242737	21	4.2	20	66	14	54	42	0	12	44	1.42
19242649--19242780	60	2.1	61	95	4	239	41	0	11	46	1.39
19244741--19244787	21	2.2	21	92	0	76	42	12	2	42	1.55
19244770--19244835	27	2.4	28	85	10	82	48	6	3	42	1.43
19245095--19245139	18	2.5	18	77	0	54	55	8	0	35	1.31
19245081--19245130	26	1.9	26	95	0	91	52	10	0	38	1.35
19245308--19245344	20	2.0	20	89	10	60	62	2	0	35	1.10
19245379--19245417	15	2.6	15	83	0	51	0	38	2	58	1.12
19245366--19245408	22	2.0	21	86	4	59	0	41	2	55	1.12
19245710--19245765	29	1.9	29	100	0	112	17	28	39	14	1.89
19245967--19246282	156	2.0	159	97	2	602	33	25	13	26	1.94
19249805--19249899	4	22.8	4	70	18	52	71	3	3	22	1.14
19251133--19251205	6	12.0	6	70	18	53	73	0	1	24	0.90
19251200--19251612	35	11.4	37	76	15	309	45	9	2	42	1.49
19251220--19251612	108	3.7	105	79	10	363	45	9	2	43	1.50
19252158--19252736	85	6.8	85	87	0	818	26	17	19	36	1.94
19256687--19256716	6	4.8	6	95	4	51	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19256840--19256940	4	24.8	4	71	20	52	72	1	2	22	1.09
19256844--19256940	12	7.6	11	71	24	59	72	2	3	22	1.10
19258050--19258086	20	1.9	19	89	10	58	45	10	24	18	1.81
19264716--19264839	44	2.8	42	76	8	122	29	26	17	25	1.98
19266381--19266424	21	2.1	21	91	0	70	6	36	15	40	1.74
19267481--19267519	19	2.1	19	95	0	69	20	38	15	25	1.92
19267467--19267629	65	2.5	65	84	3	213	30	27	15	26	1.96
19267685--19267742	22	2.6	22	97	0	107	24	34	15	25	1.95
19268675--19268719	19	2.4	19	85	7	56	73	2	8	15	1.18
19268759--19268891	34	4.0	32	83	10	176	47	9	0	42	1.42
19268760--19268891	68	1.9	68	87	6	196	46	9	0	42	1.42
19268828--19268906	21	4.0	21	72	27	84	48	8	0	43	1.34
19268846--19268870	13	1.9	13	100	0	50	52	8	0	40	1.31
19269001--19269027	14	1.9	14	100	0	54	55	7	0	37	1.28
19269229--19269254	6	4.3	6	100	0	52	69	0	0	30	0.89
19274300--19274403	33	3.2	33	93	1	174	44	16	7	31	1.76
19274398--19274439	21	2.0	21	95	0	75	47	7	14	30	1.71
19274685--19274847	87	1.9	87	96	0	299	41	10	15	33	1.81
19278360--19278606	120	2.1	120	94	0	431	37	15	14	32	1.87
19278195--19279389	303	4.0	303	97	0	2232	35	16	14	33	1.89
19278663--19278907	118	2.1	120	92	1	413	38	16	13	32	1.87
19278964--19279210	120	2.1	120	93	0	422	38	16	12	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19279084--19279672	183	3.2	183	96	1	1038	33	16	14	34	1.90
19280882--19280929	3	16.0	3	86	0	51	22	33	8	35	1.84
19280883--19280952	12	5.8	12	82	0	68	21	32	8	37	1.84
19280883--19280939	6	9.5	6	83	7	53	22	33	8	35	1.85
19282551--19283500	179	5.1	179	86	8	1243	31	18	14	35	1.91
19282731--19283121	200	2.0	200	95	0	701	31	18	13	36	1.90
19282422--19283500	379	2.8	379	94	0	1901	31	18	14	35	1.91
19283109--19283543	200	2.2	200	97	0	825	29	19	15	35	1.92
19283765--19283825	19	3.3	18	88	2	59	52	11	1	34	1.47
19283777--19283825	19	2.6	19	96	0	89	55	10	2	32	1.45
19285617--19285682	33	2.0	33	90	0	105	22	48	0	28	1.51
19285716--19285780	21	3.1	21	90	0	94	16	29	10	43	1.82
19292867--19292906	21	1.9	21	89	0	62	25	40	25	10	1.86
19297477--19297523	20	2.4	19	82	10	67	19	17	10	53	1.72
19297444--19297916	181	2.6	181	89	0	694	27	16	13	42	1.86
19300575--19300626	20	2.6	20	96	0	95	38	26	13	21	1.90
19300616--19300714	21	4.8	20	72	6	72	36	23	19	21	1.95
19300681--19300874	20	9.6	20	81	5	221	35	25	19	19	1.95
19300681--19300874	60	3.2	60	83	0	253	35	25	19	19	1.95
19301253--19301323	33	2.2	33	92	0	115	11	22	18	47	1.80
19301443--19301497	14	3.6	14	73	21	56	40	23	27	9	1.85
19301443--19301513	33	2.2	33	92	0	115	42	25	23	8	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19301514--19301627	33	3.5	33	91	1	185	10	23	21	44	1.83
19301509--19301605	19	5.7	18	70	21	75	11	23	22	42	1.86
19301563--19301619	14	3.7	14	79	20	69	8	26	24	40	1.84
19303324--19303705	185	2.1	186	98	0	748	22	12	18	46	1.83
19303324--19303703	93	4.1	93	98	0	744	22	12	18	46	1.83
19303747--19303875	19	7.3	19	75	17	125	45	28	17	8	1.77
19303783--19303875	33	2.8	32	91	4	150	46	27	18	7	1.76
19303747--19303875	52	2.5	52	74	14	140	45	28	17	8	1.77
19303871--19304005	19	7.6	19	76	16	137	10	19	24	45	1.81
19303893--19303949	14	3.7	14	77	20	60	8	21	24	45	1.80
19303876--19303968	33	2.8	33	98	0	177	9	20	22	47	1.79
19305819--19305891	38	1.9	38	97	0	137	28	1	16	53	1.51
19305814--19305878	19	3.4	19	64	8	51	24	1	15	58	1.46
19305873--19305908	14	2.6	14	95	0	63	33	0	22	44	1.53
19306015--19306115	19	5.6	19	82	15	142	43	17	23	14	1.87
19306144--19306539	19	22.4	19	81	15	503	14	20	17	47	1.82
19306122--19306507	52	7.3	50	91	7	460	14	21	17	46	1.83
19306144--19306539	71	5.6	71	85	11	518	14	20	17	47	1.82
19308846--19308870	12	2.1	12	100	0	50	0	28	0	72	0.86
19309045--19309091	24	2.0	24	87	8	69	38	21	14	25	1.92
19309763--19310171	20	20.5	20	85	5	486	20	18	25	35	1.95
19316679--19316704	12	2.2	12	100	0	52	34	15	7	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19316908--19316989	25	3.2	26	76	16	64	45	3	0	51	1.19
19316908--19316965	26	2.3	27	82	8	68	44	3	0	51	1.18
19316938--19317014	23	3.3	23	82	10	93	40	2	0	57	1.13
19316927--19317010	26	3.4	25	82	14	102	41	2	0	55	1.12
19318906--19318970	2	33.0	2	96	3	123	50	0	0	49	1.00
19321126--19321251	42	2.9	43	78	2	110	32	20	15	31	1.93
19332581--19332627	23	2.0	23	95	0	85	27	12	23	36	1.91
19333757--19333796	18	2.2	19	90	4	64	15	7	10	67	1.41
19338101--19338494	194	2.0	194	92	2	650	24	20	14	40	1.90
19341647--19341729	2	41.5	2	100	0	166	50	0	0	49	1.00

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