genome.fa.s4.2.7.7.80.10.50.1000.106.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  106  of  193  ( 23090 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)
34065871--34065914	22	2.1	20	83	8	52	27	11	9	52	1.67
34071947--34071990	22	2.1	20	83	8	52	27	11	9	52	1.67
34072582--34072726	76	1.9	76	86	0	209	38	22	18	20	1.93
34082028--34082080	23	2.3	23	74	3	54	54	0	3	41	1.18
34082132--34082161	7	4.3	7	100	0	60	60	0	0	40	0.97
34082116--34082158	14	3.0	14	86	3	50	46	2	0	51	1.13
34084294--34084341	18	2.7	18	93	0	78	14	18	18	47	1.82
34088757--34088820	32	2.0	32	100	0	128	31	9	6	53	1.58
34090815--34090987	86	2.0	86	97	0	328	32	15	14	37	1.88
34091677--34091735	29	2.0	29	83	6	75	27	6	18	47	1.74
34096729--34096760	16	1.9	17	93	6	57	31	0	6	62	1.20
34097014--34097046	16	1.9	18	88	11	52	66	0	0	33	0.92
34099827--34100019	66	2.9	66	94	0	332	26	16	31	25	1.96
34101499--34101541	23	1.9	23	95	4	79	32	4	20	41	1.73
34101988--34102149	87	1.9	86	85	1	225	36	24	15	24	1.94
34102199--34102244	17	2.9	16	81	15	51	30	19	0	50	1.48
34104892--34105076	59	3.1	58	69	13	153	38	5	23	32	1.77
34104906--34105155	118	2.1	115	81	9	267	38	6	24	30	1.80
34105163--34105274	30	3.8	29	79	9	111	34	2	25	36	1.71
34105115--34105269	58	2.6	58	79	12	147	34	4	27	33	1.77
34107231--34107315	6	14.7	6	72	20	65	51	0	7	41	1.29
34107231--34107315	17	5.2	16	76	12	75	51	0	7	41	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34107675--34108557	205	4.3	205	92	1	1441	21	23	21	33	1.97
34120550--34120604	29	1.9	29	85	3	76	36	10	25	27	1.89
34120688--34120749	27	2.2	28	83	8	74	27	8	30	33	1.86
34120866--34120989	29	4.3	30	71	19	102	35	4	23	37	1.74
34123597--34123626	15	2.0	15	93	0	51	20	3	33	43	1.68
34125688--34125726	20	2.0	20	89	0	60	38	10	2	48	1.51
34125693--34125736	20	2.2	20	84	8	54	38	11	2	47	1.52
34130495--34130588	24	3.9	24	80	2	100	26	27	22	23	1.99
34131023--34131069	16	3.0	15	79	14	51	31	17	2	48	1.58
34131038--34131069	16	2.0	16	93	0	55	28	18	0	53	1.45
34133724--34133812	34	2.6	35	83	7	119	32	23	10	33	1.88
34133845--34133993	19	7.8	19	78	7	160	21	27	18	32	1.96
34133842--34133993	38	4.0	38	84	5	191	21	26	17	33	1.96
34133842--34133991	57	2.6	57	81	8	180	22	27	17	33	1.96
34138182--34138250	35	2.0	35	88	0	102	52	11	10	26	1.69
34146991--34147020	3	10.0	3	100	0	60	66	0	0	33	0.92
34154926--34154977	22	2.4	22	90	0	77	50	11	5	32	1.62
34172711--34172755	22	2.1	22	87	4	65	31	15	2	51	1.56
34176849--34177142	43	6.9	43	87	3	355	27	25	10	36	1.89
34182955--34182993	15	2.6	15	100	0	78	17	33	0	48	1.48
34194679--34194751	38	1.9	38	82	0	92	28	20	21	28	1.98
34194758--34194816	26	2.3	26	79	5	66	28	22	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34205557--34205591	18	1.9	18	88	11	54	31	11	20	37	1.88
34207519--34207565	24	2.0	24	100	0	94	42	2	34	21	1.65
34212369--34212405	16	2.2	17	90	9	58	56	0	0	43	0.99
34212369--34212412	14	2.9	16	80	13	56	54	0	0	45	0.99
34213578--34213714	36	3.8	36	74	10	118	37	22	15	24	1.92
34217283--34217312	13	2.3	13	94	0	51	50	20	0	30	1.49
34217289--34217328	13	2.9	15	85	10	50	52	22	0	25	1.47
34217827--34217877	26	2.0	26	88	0	75	35	19	23	21	1.96
34229076--34229101	2	13.0	2	100	0	52	50	0	0	50	1.00
34230948--34231003	22	2.6	21	78	10	60	28	23	30	17	1.97
34238190--34238256	21	3.1	22	85	8	84	25	22	32	19	1.97
34241462--34241493	9	3.6	9	91	0	55	31	9	43	15	1.78
34241636--34241735	23	4.4	23	85	1	121	13	10	26	51	1.72
34241671--34241734	12	5.5	12	74	7	60	14	10	23	51	1.73
34242428--34242552	20	6.3	20	75	14	107	31	21	34	12	1.91
34242437--34242565	40	3.2	40	86	1	170	31	20	33	13	1.92
34242428--34242565	60	2.3	59	77	15	140	31	21	34	13	1.92
34246864--34246900	19	2.0	19	89	5	58	32	21	8	37	1.83
34247163--34247223	17	3.5	17	68	16	52	55	3	3	37	1.32
34247445--34247504	30	2.1	28	87	6	84	38	0	40	21	1.54
34247734--34247797	9	7.1	9	90	0	101	28	10	14	46	1.77
34247734--34247797	27	2.4	27	97	0	119	28	10	14	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34259946--34260006	27	2.3	25	83	5	68	26	18	22	32	1.97
34262676--34262713	19	2.0	19	85	10	51	36	13	0	50	1.42
34268770--34268901	60	2.2	58	85	9	169	36	7	22	33	1.83
34268793--34269022	59	3.9	59	75	9	193	33	4	25	36	1.77
34268890--34269072	30	6.2	29	71	15	92	34	3	24	37	1.72
34268817--34269062	118	2.1	118	81	5	293	34	4	26	34	1.78
34268876--34269049	30	5.9	30	72	14	112	35	2	26	35	1.72
34268818--34269101	59	4.8	59	76	10	217	35	4	24	35	1.76
34268817--34269092	118	2.3	117	79	6	272	35	5	24	34	1.78
34269607--34269638	13	2.6	12	90	9	55	6	18	0	75	1.01
34271784--34271808	8	3.1	8	100	0	50	48	0	0	52	1.00
34273837--34273875	15	2.6	16	84	12	55	28	0	0	71	0.86
34274047--34274094	9	5.3	9	80	9	62	25	22	33	18	1.97
34274039--34274102	27	2.4	27	97	0	119	26	23	34	15	1.95
34274733--34274782	24	2.1	23	82	10	57	20	12	0	68	1.21
34276768--34276807	20	2.0	21	85	14	57	32	2	10	55	1.47
34277321--34277359	17	2.3	17	86	8	53	71	2	2	23	1.10
34278680--34278720	6	6.8	6	97	0	73	12	68	0	19	1.21
34279896--34279930	16	2.2	16	90	10	54	22	2	8	65	1.34
34280837--34280906	20	3.5	20	72	14	72	50	1	0	48	1.09
34280835--34280911	40	1.9	40	97	0	145	50	1	0	48	1.09
34280899--34280938	20	2.0	20	100	0	80	45	10	0	45	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34286564--34286620	24	2.5	22	81	15	71	26	0	3	70	1.03
34287820--34287861	21	2.0	21	85	4	57	64	4	4	26	1.33
34288274--34288298	13	1.9	13	100	0	50	36	16	0	48	1.46
34298414--34298465	21	2.5	21	100	0	104	19	9	26	44	1.81
34298522--34298567	21	2.2	21	84	7	58	28	15	19	36	1.92
34299805--34299849	22	2.0	23	87	12	67	66	4	0	28	1.11
34300757--34300783	14	1.9	14	100	0	54	74	0	3	22	0.98
34308128--34308181	27	2.0	27	96	0	99	31	14	18	35	1.91
34309379--34309675	28	11.3	27	67	15	122	23	27	15	33	1.95
34309382--34309675	52	5.7	52	85	3	376	23	27	14	33	1.95
34309382--34309669	156	1.8	156	88	2	445	23	28	14	32	1.95
34310733--34310757	3	8.3	3	100	0	50	32	0	0	68	0.90
34311746--34311784	20	2.0	20	90	10	62	48	0	17	33	1.48
34314322--34314384	22	2.9	22	90	0	99	19	42	22	15	1.88
34319851--34319907	21	2.7	21	80	0	69	28	8	24	38	1.85
34320548--34320590	18	2.4	18	80	7	52	18	46	13	20	1.83
34327824--34327863	19	2.1	19	90	0	62	20	22	22	35	1.96
34334203--34334262	20	3.3	20	65	26	60	40	3	23	33	1.71
34334202--34334266	34	1.9	34	100	0	130	40	3	23	33	1.70
34335927--34336006	42	1.9	42	84	5	108	32	20	13	33	1.91
34340403--34340463	27	2.3	27	85	5	88	16	29	16	37	1.91
34342984--34343041	20	2.9	20	80	14	75	39	20	27	12	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34343797--34343839	22	2.0	22	85	0	59	67	11	9	11	1.42
34348800--34348840	2	20.5	2	100	0	82	51	0	0	48	1.00
34351657--34351681	13	1.9	13	100	0	50	40	4	0	56	1.18
34355179--34355296	58	2.0	58	98	0	227	43	14	11	30	1.81
34355203--34355303	31	3.4	31	68	15	95	39	13	12	33	1.83
34355674--34355715	20	2.0	22	90	9	70	40	19	2	38	1.64
34364434--34364508	25	3.2	25	71	21	88	34	8	14	42	1.75
34365125--34365239	43	2.7	43	90	1	178	38	9	22	29	1.86
34368804--34368921	56	2.1	56	98	1	229	33	20	1	44	1.61
34371985--34372058	15	5.3	15	78	16	63	71	5	1	21	1.13

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   183   184   185   186   187   188   189   190   191   192   
          193