genome.fa.s4.2.7.7.80.10.50.1000.116.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  116  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)
36961076--36961121	23	2.0	23	86	0	65	32	26	0	41	1.56
36961213--36961339	62	2.1	61	96	1	236	30	9	12	47	1.73
36964219--36964273	28	2.0	28	85	0	74	30	25	20	23	1.98
36964289--36964377	28	3.2	28	83	0	106	35	19	12	32	1.89
36967124--36967155	2	16.5	2	93	6	57	53	0	0	46	1.00
36970242--36970501	41	6.2	41	86	4	315	22	26	11	40	1.87
36971299--36971346	22	2.2	21	77	3	51	37	12	2	47	1.53
36971719--36971763	21	2.2	21	88	4	65	37	8	13	40	1.76
36972691--36972769	28	2.8	30	75	11	85	31	20	5	43	1.73
36973834--36973883	27	1.9	25	88	8	73	44	0	4	52	1.20
36982411--36982725	157	2.0	157	99	0	621	39	15	13	31	1.87
36984189--36984234	23	2.0	23	87	4	67	43	0	0	56	0.99
36992685--36992719	18	1.9	18	88	0	52	51	5	17	25	1.67
36994980--36995016	14	2.7	14	88	12	51	67	5	13	13	1.39
37003066--37003205	62	2.2	62	92	1	235	8	40	3	47	1.51
37003126--37003150	12	2.1	12	100	0	50	0	52	0	48	1.00
37003119--37003158	19	2.1	19	90	0	62	0	50	0	50	1.00
37003117--37003158	7	6.3	7	78	10	52	0	52	0	47	1.00
37003553--37003593	21	2.0	21	85	0	55	19	14	2	63	1.41
37005412--37005447	14	2.6	14	90	0	54	27	25	8	38	1.84
37006388--37006443	21	2.7	21	88	2	78	71	7	3	17	1.23
37006407--37006444	10	3.7	10	80	19	51	73	7	0	18	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37006406--37006443	11	3.5	11	78	7	51	76	7	0	15	1.01
37006481--37006549	28	2.5	28	77	13	70	62	4	1	31	1.24
37007217--37007385	10	17.6	10	68	25	73	35	1	3	59	1.22
37007247--37007372	27	4.8	26	73	14	91	37	1	3	57	1.24
37007313--37007436	10	13.8	9	68	25	68	32	1	3	62	1.20
37007343--37007375	11	3.1	11	86	8	50	33	0	3	63	1.10
37007324--37007416	47	2.0	47	81	14	111	36	1	3	59	1.21
37007498--37007536	10	3.7	10	86	6	51	71	2	0	25	0.98
37007878--37007902	12	2.1	12	100	0	50	48	8	8	36	1.62
37015894--37015919	13	2.0	13	100	0	52	30	15	15	38	1.88
37022228--37022257	14	2.1	14	100	0	60	30	26	13	30	1.94
37026575--37026634	22	2.7	22	89	0	84	30	21	23	25	1.99
37028018--37028135	25	4.8	25	84	2	105	44	16	6	31	1.74
37028053--37028135	25	3.3	25	89	0	121	45	19	6	28	1.74
37031276--37031348	29	2.5	29	84	8	96	32	21	6	38	1.80
37034745--37034789	23	2.0	23	86	0	63	44	2	2	51	1.26
37039028--37039140	56	2.0	55	91	1	181	41	7	15	36	1.74
37039992--37040069	41	1.9	41	89	5	122	28	17	7	46	1.76
37040306--37040442	30	4.6	30	73	17	122	45	10	16	26	1.80
37040252--37040442	90	2.1	88	84	3	249	43	13	18	24	1.86
37040659--37040738	31	2.7	30	81	14	87	31	7	23	37	1.83
37045249--37045293	21	2.1	22	84	12	58	22	31	2	44	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37045319--37045366	24	1.9	26	87	8	73	4	25	4	66	1.27
37046649--37046715	27	2.5	27	100	0	134	43	13	10	32	1.78
37047540--37047601	24	2.6	24	92	2	99	30	11	24	33	1.90
37050062--37050437	205	1.9	195	82	6	475	26	27	18	27	1.98
37060213--37060302	17	5.6	16	71	22	73	38	0	5	55	1.23
37060213--37060306	46	2.0	46	88	8	138	39	0	5	55	1.23
37060987--37061047	3	19.3	3	77	9	59	60	1	0	37	1.07
37062167--37062223	30	1.9	30	92	0	96	35	21	5	38	1.76
37062246--37062340	28	3.3	28	77	4	91	28	30	11	29	1.92
37066840--37066886	24	2.0	24	86	0	67	42	6	2	48	1.40
37071608--37071640	10	3.3	10	84	16	50	3	15	0	81	0.80
37071586--37071641	25	2.2	25	74	0	58	7	12	1	78	1.02
37072390--37072455	24	2.6	25	75	25	66	37	0	1	60	1.06
37077649--37077728	11	7.2	11	73	1	52	18	6	8	66	1.40
37078672--37078721	23	2.2	23	100	0	100	32	0	26	42	1.56
37084609--37084641	11	3.0	11	83	16	50	18	36	27	18	1.94
37084649--37084690	7	6.0	7	82	0	57	19	26	23	30	1.98
37084632--37084690	21	2.8	21	82	5	57	22	23	22	32	1.98
37091756--37091789	15	2.3	15	100	0	68	47	35	5	11	1.65
37091814--37091856	22	2.0	21	86	4	59	20	25	25	27	1.99
37096103--37096164	31	2.0	31	96	0	115	37	25	12	24	1.91
37097249--37097284	12	2.9	12	91	4	54	61	0	2	36	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37098352--37098460	7	16.4	7	76	11	68	33	26	19	21	1.97
37098512--37098562	20	2.5	20	96	0	93	13	3	35	47	1.62
37101869--37101900	14	2.3	14	94	0	55	15	9	6	68	1.36
37107906--37108014	53	2.1	53	100	0	218	7	23	15	53	1.67
37111694--37111735	22	1.9	22	95	0	75	21	23	9	45	1.81
37111698--37111749	22	2.4	22	80	6	61	23	21	15	40	1.91
37112426--37112551	40	3.1	39	78	7	135	14	20	15	49	1.80
37112461--37112546	42	2.0	43	86	2	120	11	22	16	50	1.77
37125147--37125344	24	8.4	23	82	3	198	25	23	18	32	1.97
37127565--37127605	19	2.2	19	91	4	66	19	21	34	24	1.97
37128146--37128194	21	2.3	21	89	0	80	24	16	20	38	1.92
37131112--37131173	30	2.1	30	100	0	124	30	3	12	53	1.55
37136756--37137043	29	10.0	29	64	15	105	38	4	26	30	1.76
37136741--37137013	57	4.7	58	85	5	306	38	3	26	30	1.74
37136723--37137009	115	2.5	116	81	9	295	37	4	27	30	1.77
37136856--37137043	59	3.2	59	85	5	188	39	5	24	30	1.77
37137031--37137104	29	2.5	29	86	2	94	40	2	20	36	1.67
37137061--37137135	29	2.6	29	82	0	78	36	2	24	37	1.69
37138133--37138159	3	9.0	3	100	0	54	33	0	0	66	0.92
37138895--37138934	16	2.4	17	87	8	64	42	0	0	57	0.98
37138922--37138960	16	2.4	16	86	4	51	53	5	0	41	1.23
37139298--37139863	198	2.8	200	88	1	841	24	23	17	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37151819--37152108	30	9.9	28	70	17	148	40	3	26	30	1.74
37151847--37152108	59	4.4	59	81	8	266	40	3	25	30	1.72
37151847--37152108	119	2.2	119	82	8	302	40	3	25	30	1.72
37153140--37153175	3	12.0	3	100	0	72	33	0	0	66	0.92
37153881--37153954	18	4.2	18	79	8	73	51	2	0	45	1.15
37153881--37153954	6	12.7	6	70	11	55	51	2	0	45	1.15
37153882--37153937	29	1.9	29	82	7	69	50	3	0	46	1.19
37153881--37153982	17	5.9	17	77	4	98	52	4	0	42	1.22
37153881--37153954	35	2.1	35	82	5	87	51	2	0	45	1.15
37154301--37154340	22	1.9	20	90	10	62	35	7	0	57	1.27
37155143--37155168	8	3.2	8	100	0	52	11	38	0	50	1.39
37160913--37161005	10	9.6	9	72	16	62	58	0	3	38	1.15
37160910--37161007	39	2.5	37	79	14	108	56	0	3	40	1.15
37160958--37161011	9	5.5	10	73	20	51	51	0	1	46	1.11
37162320--37162391	20	3.6	20	80	12	78	58	8	0	33	1.28
37163046--37163079	3	11.0	3	93	6	59	64	0	35	0	0.94
37167053--37167090	17	2.2	17	86	13	51	63	2	0	34	1.09
37167117--37167161	21	2.3	19	84	7	54	57	2	4	35	1.31
37168812--37168848	11	3.5	11	82	17	51	16	0	5	78	0.93
37168803--37168849	21	2.2	22	81	11	62	21	2	4	72	1.12
37168802--37168855	20	2.7	19	77	11	54	22	1	5	70	1.18
37168802--37168848	20	2.3	20	85	3	58	21	2	4	72	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37171450--37171735	144	2.0	144	97	0	545	39	17	18	24	1.92
37174017--37174190	72	2.4	73	94	0	296	40	11	8	39	1.71
37174852--37174911	22	2.9	21	85	5	86	6	6	21	65	1.40
37174839--37174907	21	3.2	22	83	4	88	5	5	20	68	1.32
37174842--37174919	21	3.7	21	65	17	54	5	5	21	67	1.30
37174905--37174996	12	7.8	12	82	2	105	8	2	18	70	1.23
37174835--37174943	43	2.5	42	77	14	107	5	4	22	67	1.29
37174916--37174989	23	3.2	23	86	9	98	9	2	16	71	1.23
37174905--37174996	35	2.6	36	87	1	123	8	2	18	70	1.23
37175664--37175723	27	2.2	27	85	5	77	31	1	0	66	1.01

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