genome.fa.s9.2.7.7.80.10.50.1000.15.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   

This is table  15  of  182  ( 21729 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)
6133469--6133523	23	2.4	23	90	0	92	14	23	23	38	1.92
6133484--6133616	23	5.8	23	78	5	135	15	21	24	39	1.92
6145223--6145287	31	2.1	31	97	0	121	33	9	4	52	1.54
6149208--6149243	18	2.0	18	88	0	54	41	2	0	55	1.14
6155689--6155728	18	2.3	17	84	16	55	37	17	17	27	1.92
6157359--6157400	5	8.4	5	80	19	52	57	0	0	42	0.99
6157339--6157422	30	2.8	30	85	0	96	51	1	2	45	1.22
6163134--6163178	14	2.9	16	78	15	58	53	0	0	46	1.00
6176095--6176132	18	2.2	18	86	9	53	23	2	7	65	1.32
6176859--6176909	26	2.0	26	84	3	68	29	3	5	60	1.38
6177395--6177459	19	3.5	18	73	12	60	64	1	1	32	1.12
6177622--6177666	20	2.3	19	88	7	72	42	0	2	55	1.12
6178470--6178552	21	3.8	21	69	20	55	50	1	10	37	1.45
6183329--6183362	17	1.9	17	88	5	50	61	14	0	23	1.33
6188959--6189010	6	8.7	6	95	0	77	32	57	0	9	1.31
6199585--6199619	17	2.1	17	100	0	70	17	17	17	48	1.81
6200579--6200725	23	6.3	23	82	6	170	41	22	25	10	1.86
6200581--6200725	46	3.1	46	85	5	202	40	22	25	11	1.87
6212043--6212078	16	2.2	16	90	0	54	61	0	0	38	0.96
6219835--6219892	30	2.0	29	87	9	84	48	1	3	46	1.29
6227016--6227066	20	2.6	19	84	6	66	60	0	3	35	1.15
6227023--6227066	19	2.3	19	88	4	61	65	0	4	29	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6227016--6227066	10	5.1	10	73	7	50	60	0	3	35	1.15
6228669--6228707	17	2.2	18	86	4	53	30	0	2	66	1.05
6229054--6229114	25	2.4	27	76	20	69	59	0	0	40	0.98
6233717--6233982	42	6.4	41	80	4	232	26	24	25	22	2.00
6235319--6235440	43	2.8	43	88	0	181	23	18	32	24	1.97
6236976--6237010	7	5.0	7	100	0	70	57	0	42	0	0.99
6242616--6242642	9	3.0	9	100	0	54	44	11	44	0	1.39
6245256--6247126	955	2.0	939	83	6	2358	36	19	15	29	1.92
6248669--6248731	32	2.0	32	83	0	81	41	9	6	42	1.63
6255340--6255401	30	2.1	29	85	8	81	59	1	19	19	1.46
6255497--6255544	18	2.6	18	86	3	60	45	12	2	39	1.54
6271828--6271860	11	3.1	11	91	8	50	66	3	0	30	1.06
6271828--6271864	10	3.5	11	89	10	51	67	2	0	29	1.04
6279908--6279963	26	2.2	25	90	6	94	19	17	5	57	1.59
6283341--6283408	23	2.9	24	73	6	68	45	5	1	47	1.36
6284186--6284220	18	1.9	18	94	0	61	54	34	8	2	1.46
6298438--6298489	25	2.1	25	96	0	95	59	7	9	23	1.54
6300321--6300368	25	1.9	25	86	0	69	58	6	10	25	1.54
6304610--6304634	4	6.2	4	100	0	50	48	0	0	52	1.00
6306276--6306301	2	13.0	2	100	0	52	50	0	0	50	1.00
6308831--6308860	15	2.0	15	93	0	51	70	3	13	13	1.30
6312115--6312153	20	1.9	21	84	5	53	35	7	5	51	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6315664--6315704	18	2.3	18	100	0	82	41	4	4	48	1.46
6317593--6317652	32	2.0	31	90	9	97	55	10	3	31	1.50
6329225--6329276	26	2.0	26	96	0	95	44	3	25	26	1.71
6329687--6329738	19	2.7	19	88	8	70	34	0	7	57	1.27
6335065--6335163	46	2.2	46	90	0	162	29	4	6	60	1.39
6342214--6342259	18	2.7	18	83	6	60	67	2	4	26	1.21
6342304--6342356	25	2.1	25	100	0	106	30	9	20	39	1.84
6347376--6347400	2	12.5	2	100	0	50	0	48	0	52	1.00
6353861--6354489	135	4.6	135	89	4	914	35	19	17	27	1.95
6353830--6354489	263	2.4	269	85	7	895	35	18	17	28	1.93
6370719--6370768	21	2.3	22	93	6	84	42	0	0	58	0.98
6370764--6370797	15	2.2	16	89	5	52	67	0	0	32	0.91
6370958--6371013	27	2.2	25	81	9	67	51	1	7	39	1.40
6370963--6371017	26	2.1	27	89	3	85	56	0	7	36	1.27
6385380--6385425	17	2.6	18	79	6	58	13	2	19	65	1.37
6387043--6387085	21	2.0	21	86	8	61	79	2	4	13	1.00
6399752--6399782	2	15.5	2	100	0	62	51	0	48	0	1.00
6415985--6416031	19	2.3	20	86	13	62	34	2	6	57	1.36
6429414--6429482	34	2.0	34	86	5	95	53	7	0	39	1.29
6433650--6433685	18	2.0	18	88	0	54	5	36	8	50	1.56
6437689--6437721	11	2.9	12	91	8	52	0	15	0	84	0.61
6442852--6442886	18	1.9	18	94	0	61	62	22	2	11	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6442921--6442968	2	24.0	2	100	0	96	50	0	0	50	1.00
6450447--6450503	28	2.0	28	80	12	64	35	5	1	57	1.31
6454078--6454118	18	2.3	18	83	4	57	24	2	4	68	1.22
6454508--6454542	17	2.0	18	88	5	54	68	8	0	22	1.16
6456454--6456528	30	2.5	29	80	6	78	45	1	2	50	1.24
6458636--6458698	32	2.0	32	87	0	90	36	11	9	42	1.73
6459499--6459529	16	1.9	16	93	0	53	83	3	0	12	0.75
6477993--6478028	16	2.2	17	90	5	56	61	27	2	8	1.39
6484852--6484893	13	2.9	15	75	17	52	30	0	7	61	1.22
6485841--6485894	18	3.1	17	81	7	54	59	3	3	33	1.33
6491638--6491668	7	4.4	7	95	0	53	87	3	9	0	0.66
6494926--6494991	31	2.1	31	81	10	73	39	13	9	37	1.77
6497015--6497149	40	3.4	38	73	12	96	30	28	20	21	1.98
6497047--6497150	37	2.7	38	76	5	93	31	26	19	22	1.97
6497943--6497993	23	2.1	23	89	7	75	5	15	1	76	1.07
6498016--6498074	11	4.9	12	76	13	50	52	1	0	45	1.10
6499149--6499200	22	2.5	20	81	9	59	44	25	21	9	1.82
6499119--6499209	45	2.0	46	81	16	109	40	23	24	12	1.88
6499281--6499328	26	1.9	26	83	8	64	33	22	0	43	1.54
6512692--6512936	130	1.9	129	84	2	330	38	11	15	34	1.83
6514239--6514280	14	2.8	16	78	14	52	42	0	0	57	0.99
6527381--6527419	16	2.5	15	80	12	51	12	10	2	74	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6529658--6529713	23	2.4	23	79	5	60	17	37	21	23	1.94
6535730--6535812	41	2.0	41	100	0	166	51	9	14	24	1.71
6543986--6544012	2	13.5	2	100	0	54	51	0	0	48	1.00
6556414--6556529	23	5.0	23	84	1	151	26	12	19	41	1.87
6556414--6556547	46	2.9	45	82	5	126	27	11	19	41	1.87
6560408--6560448	20	2.2	18	86	8	55	12	7	2	78	1.06
6569887--6569918	3	10.7	3	100	0	64	34	0	31	34	1.58
6578371--6578410	4	10.0	4	100	0	80	0	25	0	75	0.81
6583717--6583754	2	19.0	2	100	0	76	0	0	50	50	1.00
6585040--6585078	17	2.3	17	86	0	51	28	5	2	64	1.28
6585052--6585083	17	1.9	17	93	6	57	21	3	0	75	0.95
6586677--6586823	58	2.5	58	78	9	154	36	17	12	34	1.87
6590233--6590274	2	21.0	2	100	0	84	50	0	0	50	1.00
6592642--6592717	34	2.2	34	83	0	107	28	18	0	52	1.45
6600470--6600529	31	1.9	31	90	6	95	28	16	8	46	1.76
6600426--6600596	90	1.9	91	81	6	213	25	15	11	47	1.78
6612504--6612541	18	2.1	18	90	0	58	57	0	2	39	1.12
6612761--6612814	28	2.0	27	92	3	90	51	3	5	38	1.43
6624609--6624705	41	2.5	40	82	14	114	58	4	0	37	1.17
6628026--6628060	18	1.9	18	88	11	54	28	40	0	31	1.57
6635880--6635917	17	2.2	18	85	4	51	68	7	18	5	1.34
6638414--6638451	18	2.2	17	90	4	58	42	0	2	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6638652--6638691	21	2.0	19	85	9	53	52	5	7	35	1.51
6640229--6640746	261	2.0	261	98	0	1011	31	12	20	35	1.90
6648447--6648497	6	8.5	6	86	0	75	52	0	27	19	1.46
6650110--6650168	28	2.1	29	81	9	68	52	1	0	45	1.10
6668118--6668148	6	5.2	6	100	0	62	16	32	0	51	1.44
6668618--6668732	55	2.1	57	83	6	146	33	14	12	40	1.83
6669998--6670044	17	2.8	17	75	15	53	25	0	6	68	1.13
6670182--6670206	5	5.0	5	100	0	50	40	0	0	60	0.97
6670302--6670611	155	2.1	147	88	7	459	35	7	10	45	1.68
6687175--6687225	16	3.4	15	74	15	52	5	29	3	60	1.38

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   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182