genome.fa.s10.2.7.7.80.10.50.1000.9.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   

This is table  9  of  135  ( 16099 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)
4034820--4034889	37	1.9	36	85	8	97	54	4	0	41	1.20
4042621--4042855	23	10.5	23	71	13	123	40	21	24	14	1.90
4042714--4042855	46	3.1	45	83	4	167	38	23	24	14	1.92
4049413--4049521	30	3.5	31	74	18	84	49	9	14	26	1.73
4050664--4050804	62	2.3	61	81	6	171	36	11	19	31	1.88
4055138--4055195	26	2.2	26	87	0	80	32	3	10	53	1.52
4061255--4061513	86	3.0	86	94	0	473	41	8	25	24	1.83
4062465--4062509	23	1.9	24	82	13	58	51	4	0	44	1.21
4062920--4063846	308	3.0	308	95	2	1658	39	11	8	40	1.71
4082221--4082256	3	12.0	3	100	0	72	33	0	0	66	0.92
4088040--4088082	15	2.6	17	82	10	54	65	4	0	30	1.13
4090292--4090323	2	16.0	2	100	0	64	50	0	0	50	1.00
4092189--4092229	16	2.5	18	77	22	54	36	21	24	17	1.94
4092513--4092603	25	3.7	26	71	15	77	53	2	0	43	1.12
4092862--4092894	16	2.1	16	88	11	50	45	9	0	45	1.35
4092668--4093197	234	2.2	245	81	9	565	44	7	10	37	1.68
4094499--4094561	3	21.3	3	96	3	119	68	0	31	0	0.90
4097672--4097700	6	4.8	6	100	0	58	31	51	0	17	1.45
4101192--4101388	84	2.4	81	78	7	202	29	15	6	48	1.69
4103249--4103283	2	17.5	2	100	0	70	48	0	0	51	1.00
4103378--4103426	23	2.2	21	85	7	62	63	2	2	32	1.17
4104190--4104229	21	1.9	21	90	10	64	65	2	12	20	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4106272--4106324	21	2.4	23	75	15	58	67	1	0	30	1.01
4110589--4110683	46	2.1	46	97	0	181	32	21	11	34	1.89
4112280--4112330	2	25.5	2	100	0	102	50	0	49	0	1.00
4113221--4113258	19	2.0	19	100	0	76	36	10	5	47	1.61
4115183--4115249	9	7.1	9	73	9	53	37	2	1	58	1.23
4122594--4122630	3	12.3	3	94	0	65	32	0	2	64	1.07
4137874--4137903	15	2.0	15	93	0	51	53	0	3	43	1.17
4154852--4154942	20	4.6	20	73	21	75	52	0	0	47	1.00
4154890--4154924	11	3.4	11	92	7	56	57	0	0	42	0.99
4155598--4155670	29	2.4	30	90	4	112	45	1	0	53	1.09
4155623--4155675	9	6.8	9	71	28	50	47	0	0	52	1.00
4155633--4155674	22	2.0	22	90	9	70	47	0	0	52	1.00
4157979--4158015	17	2.2	17	90	4	58	40	0	0	59	0.97
4159671--4159714	23	2.0	23	86	4	63	25	6	9	59	1.53
4160240--4160321	29	2.9	27	80	8	94	51	10	12	25	1.72
4160252--4160314	29	2.2	29	91	2	101	58	11	7	22	1.58
4161360--4161422	30	2.1	32	82	8	78	33	7	7	50	1.60
4176842--4176880	14	2.6	15	84	12	53	33	10	0	56	1.33
4177359--4177409	27	1.9	26	84	11	68	25	7	29	37	1.84
4193461--4193585	59	2.1	60	79	7	139	48	10	16	24	1.77
4197313--4197346	17	2.0	17	88	0	50	64	8	0	26	1.22
4210313--4210369	24	2.4	24	82	5	71	24	31	26	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4212874--4212931	28	2.1	28	96	0	107	46	5	27	20	1.72
4219628--4219667	21	2.0	21	86	13	59	22	20	0	57	1.41
4219722--4219771	22	2.2	24	82	10	61	24	2	12	62	1.40
4220107--4220148	18	2.3	18	95	0	75	47	4	9	38	1.57
4220388--4220465	37	2.1	37	97	0	147	43	2	17	35	1.63
4231113--4231170	31	1.9	30	89	10	91	39	13	12	34	1.82
4234974--4235058	26	3.2	26	81	8	84	61	2	5	30	1.32
4237935--4238089	46	3.5	46	85	5	203	44	5	9	40	1.61
4260265--4260304	16	2.3	18	87	8	57	50	0	0	50	1.00
4260265--4260310	16	2.6	19	77	19	55	50	0	0	50	1.00
4276352--4276384	2	16.5	2	100	0	66	48	0	51	0	1.00
4288941--4288980	15	2.6	16	84	15	57	62	2	2	32	1.22
4308264--4308314	17	2.7	19	73	17	52	58	9	0	31	1.30
4323041--4323077	17	2.2	18	85	9	51	75	8	0	16	1.02
4324364--4324405	20	2.1	20	95	0	75	16	4	11	66	1.40
4324837--4324970	30	4.6	30	80	11	136	52	11	10	25	1.68
4324786--4324970	87	2.1	88	82	6	214	50	12	12	24	1.74
4324904--4324957	25	2.1	26	83	10	67	59	11	9	20	1.59
4325020--4325076	22	2.3	26	74	25	77	42	1	7	49	1.40
4325028--4325080	22	2.4	22	100	0	106	41	0	9	49	1.35
4330734--4330787	22	2.5	21	82	11	56	51	5	0	42	1.25
4334133--4334170	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4339228--4339266	20	2.0	20	85	14	55	61	5	7	25	1.44
4343060--4343112	14	3.6	14	78	12	52	32	1	9	56	1.42
4344082--4344132	24	2.0	25	88	7	77	50	1	1	45	1.24
4344138--4344189	19	2.7	18	80	11	50	57	0	5	36	1.23
4344286--4344346	21	2.9	21	83	13	81	37	8	0	54	1.31
4353584--4353626	19	2.2	20	83	4	52	48	0	0	51	1.00
4353713--4353742	7	4.3	7	100	0	60	60	26	0	13	1.34
4360755--4360800	15	3.1	15	73	17	51	56	10	6	26	1.58
4361133--4361171	21	1.9	21	94	5	71	51	2	0	46	1.14
4364557--4364592	18	2.0	18	94	0	63	58	0	0	41	0.98
4367415--4367474	27	2.2	27	82	11	70	26	0	1	71	0.95
4367412--4367454	22	2.0	22	81	9	52	30	0	2	67	1.03
4388087--4388138	2	26.0	2	100	0	104	50	0	0	50	1.00
4389211--4389280	22	3.2	22	93	0	122	41	25	21	11	1.86
4393874--4393940	29	2.4	28	78	11	75	35	1	4	58	1.28
4393892--4393961	29	2.3	30	85	4	88	40	1	4	54	1.29
4399654--4399703	23	2.2	23	100	0	100	56	4	16	24	1.57
4402764--4402867	37	2.7	38	76	5	93	31	26	19	22	1.97
4403726--4403807	13	6.6	12	74	16	60	51	1	1	46	1.16
4404528--4404554	6	4.5	6	100	0	54	29	33	0	37	1.58
4404658--4404723	31	2.1	31	88	0	96	36	3	6	54	1.41
4404729--4404824	31	3.1	31	100	0	192	42	9	6	41	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4408818--4408843	2	13.0	2	100	0	52	50	0	0	50	1.00
4408894--4408930	17	2.2	17	100	0	74	59	0	24	16	1.37
4411153--4411198	15	3.1	15	76	17	51	58	0	0	41	0.98
4411168--4411207	18	2.5	15	84	15	53	57	0	0	42	0.98
4413943--4414098	77	2.0	77	85	2	206	28	7	25	39	1.82
4418341--4418573	117	2.0	117	98	0	448	27	24	13	34	1.93
4420685--4420712	11	2.5	11	100	0	56	64	0	0	35	0.94
4421331--4421370	15	2.6	16	84	4	55	52	2	2	42	1.28
4421377--4421412	15	2.2	17	90	9	58	33	0	2	63	1.08
4421569--4421608	19	2.2	18	86	4	53	42	0	0	57	0.98
4423531--4423604	38	1.9	38	86	5	105	55	8	6	29	1.55
4424870--4424905	10	3.5	10	96	3	63	0	30	0	69	0.89
4424865--4424905	16	2.6	16	85	11	50	2	29	0	68	1.03
4430951--4431030	31	2.6	30	86	7	108	47	12	6	33	1.66
4432930--4432994	29	2.2	31	86	5	89	46	0	0	53	1.00
4432914--4433023	36	3.0	37	80	9	109	46	0	0	53	1.00
4434439--4434468	15	2.0	15	100	0	60	26	20	0	53	1.46
4447729--4447761	16	2.1	16	88	11	50	54	6	0	39	1.25
4472550--4472582	14	2.4	14	90	5	50	33	0	12	54	1.37
4494589--4494631	18	2.5	17	82	10	52	32	0	2	65	1.06
4498758--4498802	6	7.5	6	89	0	63	22	31	0	46	1.52
4501098--4501369	30	9.1	30	84	5	345	36	25	1	37	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4501098--4501369	89	3.0	88	87	4	368	36	25	1	37	1.63
4502867--4502906	19	2.1	19	90	0	62	52	0	2	45	1.14
4504296--4504321	2	13.0	2	100	0	52	0	50	0	50	1.00
4507508--4507552	6	7.5	6	89	0	54	51	0	24	24	1.49
4509717--4509767	2	25.5	2	100	0	102	49	0	0	50	1.00
4521220--4521253	15	2.3	15	100	0	68	11	32	0	55	1.36
4521482--4521525	16	2.8	16	80	16	56	47	2	0	50	1.13
4522149--4522207	31	2.0	30	86	6	84	32	6	15	45	1.72
4522146--4522218	31	2.5	29	79	16	71	35	8	15	41	1.77
4522393--4522456	29	2.2	29	83	8	76	45	12	9	32	1.74

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   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135