genome.fa.s1.2.7.7.80.10.50.1000.13.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: CP032244.1 Gossypioides kirkii chromosome KI_01
Parameters: 2 7 7 80 10 50 1000
Length:  38174113

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   

This is table  13  of  126  ( 15035 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)
4264120--4264249	68	1.9	70	93	3	228	32	18	20	28	1.96
4264121--4264354	107	2.2	107	96	1	427	33	17	20	28	1.95
4264228--4264463	68	3.5	68	96	0	418	34	16	20	28	1.95
4264761--4264864	6	16.8	6	74	16	79	49	0	2	47	1.23
4264765--4264827	11	5.8	11	75	16	60	44	0	3	52	1.17
4264766--4264828	31	2.0	31	90	0	99	44	0	3	52	1.17
4264778--4264850	31	2.4	29	80	13	76	50	0	2	46	1.15
4266081--4266131	27	1.9	27	88	4	77	13	25	52	7	1.67
4266682--4267035	30	11.9	30	92	2	527	38	22	3	35	1.70
4266682--4267041	89	4.0	89	89	3	526	38	22	3	35	1.70
4267047--4267142	30	3.2	30	72	8	106	30	29	6	34	1.82
4267050--4267184	59	2.3	58	84	5	173	25	30	9	34	1.88
4271201--4271234	16	2.2	16	89	5	52	32	0	0	67	0.91
4279855--4280008	69	2.2	69	92	0	254	29	22	16	31	1.96
4287947--4288012	30	2.2	31	83	8	82	56	3	0	40	1.15
4292156--4292203	25	1.9	25	86	0	69	25	10	2	62	1.38
4297441--4297470	6	5.0	6	100	0	60	33	16	33	16	1.92
4300364--4300424	31	2.0	31	100	0	122	26	27	9	36	1.88
4301643--4301714	35	2.0	36	89	2	110	38	8	11	41	1.71
4301972--4302012	19	2.2	19	86	0	55	17	4	4	73	1.19
4308453--4308509	26	2.2	26	84	6	71	45	3	14	36	1.61
4323291--4323319	2	14.5	2	100	0	58	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4325090--4325178	46	1.9	46	86	0	124	34	19	0	46	1.50
4326667--4326723	2	29.5	2	92	7	100	49	0	0	50	1.00
4330512--4330579	27	2.4	29	86	13	90	58	1	5	33	1.31
4330858--4330913	29	1.9	29	89	7	87	60	0	1	37	1.07
4330858--4330915	21	2.9	20	73	21	59	58	0	1	39	1.08
4330858--4330915	11	5.8	10	77	18	59	58	0	1	39	1.08
4331166--4331232	29	2.3	30	86	2	91	31	10	14	43	1.80
4332480--4332522	18	2.4	18	88	7	61	46	2	0	51	1.13
4337831--4337864	6	5.7	6	85	0	50	17	20	0	61	1.34
4342745--4342785	7	5.7	7	91	5	64	19	0	0	80	0.71
4344300--4344354	21	2.6	22	86	11	71	52	3	1	41	1.29
4344300--4344395	20	5.1	20	73	20	73	47	4	1	46	1.28
4347042--4347086	24	1.9	23	86	4	63	40	2	2	55	1.24
4350256--4350372	58	2.0	58	100	0	234	46	8	13	31	1.74
4351203--4351242	21	1.9	20	85	10	53	47	0	5	47	1.24
4362122--4362200	29	2.8	29	79	9	83	55	2	0	41	1.13
4362193--4362229	17	2.1	18	85	14	51	56	0	0	43	0.99
4362081--4362232	81	1.9	81	82	8	193	55	1	0	42	1.16
4371751--4371891	72	2.0	70	91	5	230	41	14	15	28	1.87
4374122--4374165	10	4.4	10	82	5	54	77	0	0	22	0.77
4384119--4384148	12	2.5	12	100	0	60	16	46	0	36	1.47
4404972--4405036	32	2.0	32	100	0	130	53	0	6	40	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4411684--4411839	78	2.0	78	98	0	303	28	14	9	47	1.76
4412999--4413024	2	13.0	2	100	0	52	50	0	0	50	1.00
4425005--4425244	120	2.0	120	97	0	453	32	7	20	38	1.82
4426134--4426167	18	1.9	17	88	5	50	38	0	11	50	1.39
4432016--4432055	20	2.0	20	100	0	80	55	20	5	20	1.62
4432146--4432251	23	5.0	21	80	15	96	42	1	1	53	1.22
4432126--4432228	40	2.7	38	79	11	102	41	1	2	53	1.27
4432184--4432247	29	2.2	29	80	5	76	40	1	0	57	1.08
4432166--4432242	40	1.9	40	89	5	120	40	1	1	57	1.15
4432275--4432408	12	10.3	12	74	16	51	32	3	0	62	1.18
4432275--4432441	15	10.9	15	69	19	62	32	3	1	61	1.23
4432358--4432386	11	2.5	12	94	5	51	37	0	0	62	0.96
4432275--4432362	3	30.3	3	71	22	64	31	4	0	63	1.14
4432336--4432446	17	7.1	17	70	22	66	34	1	3	60	1.25
4433921--4433947	12	2.2	12	100	0	54	29	7	14	48	1.71
4436982--4437039	21	2.8	22	82	10	70	65	0	0	34	0.93
4446911--4446973	30	2.1	30	81	0	72	34	17	14	33	1.90
4447060--4447101	21	2.0	21	86	9	59	66	9	2	21	1.32
4447183--4447255	18	4.0	18	70	8	58	60	4	2	32	1.30
4449648--4449740	24	3.9	24	94	0	159	34	27	27	9	1.88
4451650--4451784	61	2.2	62	83	1	164	36	5	16	42	1.70
4451906--4451954	24	2.0	24	100	0	98	59	4	0	36	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4460585--4460623	21	1.9	21	84	5	53	64	7	0	28	1.21
4461149--4461185	8	4.5	8	96	3	65	56	0	0	43	0.99
4461570--4461622	27	2.0	27	85	7	74	47	1	0	50	1.12
4466444--4466776	159	2.1	159	92	2	553	21	16	26	34	1.95
4466657--4466923	147	1.8	147	83	3	358	24	16	24	34	1.96
4468024--4468161	61	2.3	61	87	0	195	51	13	9	25	1.71
4470657--4470701	20	2.3	19	82	14	56	31	0	15	53	1.43
4470657--4470721	21	3.2	20	81	14	64	32	0	13	53	1.40
4471015--4471062	25	1.9	25	83	8	62	31	2	0	66	1.03
4470804--4471246	141	3.2	140	86	9	638	37	4	4	53	1.41
4471167--4471218	18	2.7	19	80	13	54	34	1	3	59	1.27
4471231--4471255	12	2.1	12	100	0	50	24	0	8	68	1.16
4471803--4471828	3	8.7	3	100	0	52	30	0	0	69	0.89
4471985--4472154	55	2.9	60	77	14	192	49	13	7	30	1.68
4474538--4474812	133	2.1	131	97	1	514	42	20	16	21	1.89
4476941--4476973	15	2.3	15	89	5	50	42	6	27	24	1.78
4484509--4484588	24	3.3	24	82	0	106	28	33	17	20	1.95
4492880--4492912	16	2.0	17	88	5	50	39	24	6	30	1.79
4494892--4494943	21	2.4	21	81	12	61	42	7	9	40	1.66
4497338--4497369	15	2.1	16	94	5	57	62	0	6	31	1.20
4500482--4500515	18	1.9	18	88	5	52	29	0	5	64	1.17
4500612--4500690	32	2.4	32	81	10	88	62	1	0	36	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4502253--4502281	13	2.1	14	93	6	51	58	0	0	41	0.98
4506636--4506670	6	5.5	6	90	10	52	34	20	17	28	1.95
4515957--4515986	14	2.1	14	93	0	51	50	6	3	40	1.45
4525251--4525285	17	2.1	17	89	5	54	60	0	0	40	0.97
4525956--4526286	120	2.9	114	82	7	416	34	9	16	40	1.80
4526576--4526667	44	2.1	45	83	2	114	34	6	25	33	1.82
4538823--4539219	59	6.7	58	88	3	578	35	4	27	32	1.77
4538823--4539219	118	3.4	118	92	0	652	35	4	27	32	1.77
4539207--4539493	30	9.5	30	81	1	360	34	3	25	36	1.74
4541165--4541219	15	3.7	15	77	20	62	12	10	54	21	1.68
4541386--4541493	6	18.0	6	74	17	82	49	1	0	48	1.18
4541429--4541478	25	2.0	25	88	0	73	54	4	0	42	1.19
4541422--4541485	31	2.1	31	91	5	103	53	3	0	43	1.16
4541400--4541493	42	2.3	43	83	5	113	50	2	0	47	1.13
4541423--4541493	17	4.4	16	79	16	85	54	2	0	42	1.14
4541890--4541916	4	6.8	4	100	0	54	25	0	25	48	1.52
4544970--4545008	2	19.5	2	100	0	78	51	0	48	0	1.00
4552409--4552442	2	17.0	2	100	0	68	50	0	0	50	1.00
4553592--4553637	21	2.2	21	84	7	58	4	23	4	67	1.27
4556706--4556973	134	2.0	134	95	0	482	37	16	16	29	1.91
4561494--4561536	20	2.3	18	88	8	59	44	0	2	53	1.13
4561985--4562010	13	2.0	13	100	0	52	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4561992--4562100	29	3.8	30	67	23	83	46	1	0	51	1.11
4562015--4562092	26	2.7	30	76	17	83	44	2	0	52	1.14
4565320--4565357	19	2.0	19	100	0	76	21	31	21	26	1.98
4573095--4573138	12	3.7	12	81	0	52	45	43	0	11	1.40
4577927--4577951	11	2.3	11	100	0	50	0	0	80	20	0.72
4578904--4578960	28	2.0	28	83	10	71	35	1	1	61	1.17
4594124--4594159	17	2.1	17	94	0	63	22	38	0	38	1.54
4605922--4605970	24	2.0	24	88	7	73	38	0	0	61	0.96
4607920--4607975	27	2.2	26	84	15	73	44	14	1	39	1.55
4618444--4618479	15	2.4	15	95	0	63	44	2	0	52	1.15

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