genome.fa.s8.2.7.7.80.10.50.1000.123.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: CP032252.1 Gossypioides kirkii chromosome KI_10
Parameters: 2 7 7 80 10 50 1000
Length:  47257441

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   

This is table  123  of  163  ( 19493 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)
33959195--33959269	24	3.1	24	96	0	132	25	12	9	53	1.67
33962009--33962039	15	2.1	15	100	0	62	19	25	25	29	1.99
33964248--33964366	45	2.8	43	88	7	163	22	7	25	44	1.79
33973356--33973397	19	2.2	19	83	8	50	26	14	2	57	1.50
33976628--33976660	17	1.9	18	88	11	52	45	0	12	42	1.41
33978423--33978460	20	1.9	19	85	15	51	52	2	0	44	1.14
33980419--33980471	27	2.0	27	88	0	79	67	0	15	16	1.23
33981659--33981699	21	2.0	21	100	0	82	34	21	9	34	1.87
33998659--33998691	12	2.8	12	86	13	50	54	0	0	45	0.99
33998683--33998749	19	3.7	18	67	32	54	55	2	1	40	1.24
33998631--33998749	59	2.1	57	83	10	147	53	3	1	41	1.27
34000147--34000204	31	1.9	31	85	3	82	46	3	3	46	1.36
34002428--34002640	29	7.3	29	73	18	142	36	2	29	31	1.72
34002428--34002652	59	3.8	59	82	8	273	36	2	28	32	1.71
34002426--34002678	116	2.2	118	85	9	356	35	3	28	32	1.73
34004328--34004371	13	3.3	13	80	3	52	13	11	27	47	1.77
34004325--34004383	26	2.2	27	81	3	66	16	10	25	47	1.78
34004426--34004470	16	2.7	17	86	6	65	57	2	0	40	1.11
34004441--34004490	23	2.2	24	79	17	61	54	4	0	42	1.19
34004429--34004482	27	2.0	28	85	3	74	55	5	0	38	1.23
34004448--34004490	11	3.9	11	82	8	52	53	4	0	41	1.21
34006589--34006718	23	5.4	23	77	6	116	32	16	26	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34017272--34017485	107	2.0	107	92	0	356	29	13	10	46	1.77
34021759--34021794	14	2.6	14	90	0	54	63	0	8	27	1.23
34022970--34022994	2	12.5	2	100	0	50	48	0	0	52	1.00
34025920--34025949	15	2.0	15	100	0	60	40	13	20	26	1.89
34046179--34046221	18	2.4	19	84	11	63	44	0	0	55	0.99
34058782--34058895	23	5.0	23	76	7	115	48	15	10	25	1.77
34058762--34058862	46	2.2	46	89	3	150	46	14	13	24	1.82
34058782--34058895	46	2.5	46	83	0	138	48	15	10	25	1.77
34061641--34061670	15	2.0	15	100	0	60	33	6	20	40	1.78
34063121--34063203	30	2.8	29	89	7	121	24	31	16	27	1.97
34064165--34064218	22	2.5	22	87	0	81	48	5	18	27	1.70
34064878--34064958	35	2.4	34	82	16	96	18	16	27	38	1.92
34064909--34064957	17	2.9	17	73	11	55	18	16	26	38	1.91
34069985--34070009	10	2.5	10	100	0	50	0	8	44	48	1.32
34070633--34070679	5	9.4	5	100	0	94	59	0	0	40	0.97
34072790--34072819	9	3.3	9	100	0	60	33	23	13	30	1.93
34073060--34073179	53	2.2	54	88	1	179	22	33	19	25	1.97
34075249--34075291	21	2.0	21	95	0	77	37	20	9	32	1.85
34076037--34076109	24	3.2	24	66	15	64	47	2	9	39	1.50
34076035--34076124	44	2.0	44	91	0	144	50	2	8	38	1.46
34076092--34076125	17	1.9	18	88	5	52	52	2	5	38	1.41
34078850--34078912	28	2.2	30	83	11	78	30	12	28	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34078896--34079260	58	6.2	58	88	4	500	35	2	28	33	1.71
34078896--34079265	117	3.2	117	85	2	537	35	2	28	33	1.71
34078896--34079289	29	13.5	29	72	14	258	34	2	28	34	1.72
34080966--34081064	6	17.3	6	70	14	66	50	5	2	42	1.35
34080966--34081071	34	3.1	35	74	14	87	50	4	1	42	1.34
34081022--34081070	17	2.9	16	79	8	53	53	4	0	42	1.20
34090670--34090725	26	2.2	25	84	12	71	69	0	1	28	0.98
34090954--34091033	32	2.5	32	80	10	83	25	3	5	66	1.29
34091260--34091318	17	3.5	16	75	25	59	42	1	38	16	1.59
34091261--34091330	34	2.1	34	91	0	113	42	1	38	17	1.58
34096089--34096124	2	18.0	2	100	0	72	50	0	0	50	1.00
34096482--34096540	17	3.5	17	68	25	52	45	1	33	18	1.60
34096486--34096554	34	2.0	34	91	0	111	44	2	33	18	1.65
34099155--34099205	23	2.3	22	90	10	77	45	0	3	50	1.20
34103216--34103256	20	2.0	20	85	4	55	39	0	4	56	1.21
34104081--34104162	29	2.9	28	82	8	103	37	18	1	42	1.58
34104138--34104211	29	2.5	29	82	6	78	36	28	5	29	1.79
34104375--34104433	28	2.1	29	84	15	79	15	8	5	71	1.28
34104383--34104433	14	3.5	14	76	15	50	17	5	5	70	1.28
34107820--34107863	2	22.0	2	100	0	88	50	0	0	50	1.00
34115507--34115536	6	5.0	6	91	0	51	30	33	3	33	1.74
34119907--34119950	18	2.3	20	88	7	65	25	0	4	70	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34122241--34122292	24	2.2	24	82	0	59	53	7	5	32	1.53
34128621--34128657	17	2.1	18	95	5	67	18	10	10	59	1.59
34131814--34131877	13	4.8	13	72	16	51	48	40	0	10	1.38
34136651--34136754	23	4.5	22	74	13	75	11	25	19	44	1.84
34136683--34136755	25	3.0	24	76	15	78	13	23	19	43	1.86
34142541--34142649	48	2.3	47	83	10	132	12	29	20	37	1.90
34142519--34142621	23	4.4	23	76	18	97	11	29	20	38	1.88
34145242--34145282	20	2.0	20	85	4	55	39	0	4	56	1.21
34145630--34145765	66	2.1	66	98	0	263	41	33	2	22	1.69
34148634--34148660	6	4.5	6	100	0	54	0	18	0	81	0.69
34177120--34177182	24	2.6	24	89	0	99	50	11	14	23	1.74
34177751--34177850	51	2.0	51	95	0	182	29	23	13	35	1.92
34183401--34183486	3	27.7	3	72	6	55	54	4	4	36	1.42
34184541--34184678	30	4.6	30	75	13	117	37	21	2	38	1.68
34184633--34184765	59	2.3	60	80	8	168	32	21	9	37	1.84
34190096--34190147	16	3.2	16	89	5	70	86	1	11	0	0.65
34190096--34190159	27	2.3	28	81	5	76	82	1	15	0	0.74
34190885--34191407	51	10.4	49	66	13	195	41	19	25	13	1.88
34190885--34191337	51	9.0	49	66	12	213	40	18	26	14	1.89
34190882--34191412	101	5.3	101	84	2	645	41	19	25	13	1.88
34191407--34191652	92	2.7	92	95	0	440	32	17	18	31	1.94
34191736--34191883	39	3.8	39	70	7	120	25	26	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34192143--34192260	49	2.4	49	100	0	236	34	19	22	22	1.96
34191967--34192472	254	2.0	255	90	0	798	35	17	22	23	1.95
34192195--34192880	205	3.4	205	85	4	917	35	18	23	22	1.96
34193223--34193267	22	2.1	21	91	4	72	37	0	6	55	1.26
34193234--34193286	27	2.0	27	92	0	88	39	0	3	56	1.17
34193219--34193289	17	4.2	17	76	7	74	42	0	4	53	1.20
34193219--34193269	11	4.6	11	82	4	59	41	0	5	52	1.25
34193228--34193315	27	3.2	27	77	4	79	44	2	4	48	1.35
34194031--34194119	3	28.7	3	73	6	61	56	4	2	37	1.32
34195151--34195349	29	6.7	29	78	6	186	39	22	2	36	1.68
34197924--34197957	17	2.1	16	88	5	50	64	0	0	35	0.94
34199348--34199394	24	2.0	24	91	0	76	17	14	14	53	1.74
34204700--34204750	15	3.5	15	74	15	61	35	5	1	56	1.35
34206276--34206830	96	5.4	107	70	13	292	34	15	14	35	1.88
34207223--34207382	86	1.9	87	83	9	211	36	20	11	31	1.88
34208821--34208859	14	2.7	14	80	4	51	23	15	5	56	1.59
34211790--34211973	52	3.5	52	83	3	228	28	24	15	30	1.96
34220889--34220946	29	2.0	29	82	0	71	27	3	10	58	1.47
34231096--34231150	17	3.4	17	76	16	55	49	1	1	47	1.23
34231105--34231147	18	2.4	19	80	11	54	48	2	2	46	1.27
34240109--34240142	3	11.0	3	87	6	50	29	0	67	2	1.05
34263323--34263403	40	2.0	40	97	0	153	27	18	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34270049--34270092	17	2.5	17	85	3	52	36	2	0	61	1.09
34270383--34270421	20	2.0	20	94	0	69	58	7	0	33	1.26
34272032--34272127	43	2.2	44	83	10	117	43	5	2	48	1.36
34272032--34272182	43	3.6	41	75	16	109	44	3	1	50	1.29
34274287--34274357	35	2.0	35	100	0	142	50	8	8	32	1.63
34274849--34275067	112	2.0	112	89	1	341	49	12	8	29	1.71
34277861--34277918	25	2.3	25	96	3	107	27	6	17	48	1.72
34284823--34284882	21	2.7	22	78	17	61	36	0	1	61	1.06
34285646--34285686	19	2.1	20	86	4	57	43	2	0	53	1.13
34291083--34291270	60	3.2	59	82	11	210	38	17	9	34	1.82

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   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163