genome.fa.s4.2.7.7.80.10.50.1000.124.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  124  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)
39184459--39184517	21	2.8	22	75	17	61	30	15	18	35	1.92
39187394--39187630	28	8.3	29	71	13	131	39	21	14	24	1.90
39187441--39187622	56	3.2	56	77	6	181	40	20	14	24	1.90
39187845--39187889	18	2.5	19	82	10	58	37	6	8	46	1.61
39188978--39189108	65	2.0	65	96	0	244	41	16	9	32	1.81
39190696--39190797	26	4.0	26	71	6	100	23	29	20	26	1.99
39192935--39193126	25	7.6	25	73	2	98	34	22	16	25	1.95
39192934--39193071	50	2.7	49	77	5	132	32	22	18	26	1.97
39192914--39193071	25	6.2	25	72	5	102	33	21	18	25	1.97
39198767--39198808	17	2.4	18	84	11	61	69	2	2	26	1.13
39202866--39202923	18	3.2	18	73	9	64	13	29	8	48	1.73
39214833--39215414	192	3.0	191	89	1	894	27	19	19	33	1.96
39220150--39220181	6	5.3	6	96	0	55	3	15	28	53	1.57
39221207--39221478	41	6.7	41	80	3	244	32	20	28	18	1.96
39221207--39221470	123	2.2	123	83	2	325	32	21	28	17	1.96
39221207--39221470	82	3.2	82	79	2	280	32	21	28	17	1.96
39222275--39222335	31	2.0	31	93	0	104	40	21	6	31	1.78
39246456--39246529	32	2.3	32	97	0	139	6	29	27	36	1.82
39252852--39252920	33	2.1	33	97	0	129	23	5	13	57	1.57
39253619--39253690	37	1.9	37	83	5	92	41	18	11	29	1.84
39254207--39254232	13	2.0	13	100	0	52	69	0	15	15	1.20
39260847--39261154	57	5.3	58	82	8	290	33	2	27	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39260851--39261158	29	10.7	29	76	10	204	34	2	27	35	1.72
39260822--39261154	58	5.7	58	79	8	304	34	2	27	36	1.71
39261052--39261227	30	5.9	30	76	10	123	36	1	26	35	1.64
39262978--39263014	17	2.2	17	90	0	56	59	5	0	35	1.20
39262996--39263037	7	5.7	7	82	17	50	57	2	0	40	1.12
39265780--39265807	2	14.0	2	100	0	56	50	0	0	50	1.00
39266147--39266197	24	2.1	24	92	0	84	29	23	17	29	1.97
39280208--39280254	17	2.7	17	90	3	67	53	0	0	46	1.00
39292802--39292836	17	2.1	17	94	0	61	31	8	0	60	1.27
39295981--39296041	14	4.6	13	71	18	54	29	0	13	57	1.36
39298687--39298736	20	2.7	19	70	11	50	66	4	0	30	1.10
39298773--39298834	19	3.2	19	86	2	79	59	1	6	32	1.32
39298766--39298826	28	2.2	28	82	5	70	55	1	8	34	1.39
39298801--39298844	19	2.2	20	84	8	54	63	9	2	25	1.35
39298991--39299033	20	2.2	19	84	12	52	30	2	0	67	1.03
39298999--39299130	19	6.9	18	71	14	79	30	4	3	62	1.30
39298992--39299149	9	16.6	9	70	19	65	30	4	2	62	1.28
39299012--39299123	29	3.8	29	77	5	100	28	5	3	62	1.34
39299080--39299104	11	2.3	11	100	0	50	24	0	0	76	0.80
39299174--39299203	15	1.9	15	93	6	51	20	0	0	80	0.72
39301647--39301701	24	2.2	24	83	6	65	21	7	5	65	1.38
39302358--39302428	35	2.0	35	94	0	124	30	14	11	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39305248--39305387	23	6.3	23	72	15	125	44	23	20	11	1.84
39307739--39307776	3	12.7	3	94	0	67	71	0	28	0	0.87
39308428--39308506	20	3.9	21	76	12	67	82	1	13	2	0.84
39308427--39308505	13	6.0	12	74	12	59	81	1	15	2	0.87
39308451--39308512	30	2.0	30	87	6	88	77	1	20	0	0.85
39308427--39308506	9	8.7	9	71	13	56	81	1	15	2	0.87
39308819--39309045	112	2.0	112	86	0	319	29	18	12	39	1.87
39309470--39309674	49	4.2	49	83	0	248	39	18	22	19	1.93
39309495--39309701	98	2.1	97	80	5	238	39	17	24	18	1.92
39310304--39310512	50	4.2	50	73	8	172	39	18	16	25	1.91
39310225--39310512	151	1.9	151	82	2	364	37	18	17	26	1.92
39310992--39311021	14	2.1	15	93	6	53	73	0	0	26	0.84
39313245--39313361	58	2.0	58	100	0	234	49	9	13	27	1.73
39313437--39313463	14	1.9	14	100	0	54	22	3	7	66	1.33
39315887--39316044	80	2.0	80	89	0	244	25	20	24	30	1.98
39320583--39320628	24	1.9	24	86	0	65	30	41	13	15	1.85
39320592--39320700	32	3.2	32	73	12	110	30	43	10	16	1.81
39320646--39320695	12	4.5	12	73	19	54	36	44	10	10	1.72
39320646--39320697	14	3.4	14	71	19	50	36	44	9	9	1.70
39321637--39321739	54	1.9	54	85	0	143	33	15	19	31	1.93
39330974--39331045	20	3.7	19	81	7	83	55	6	0	37	1.27
39331001--39331076	16	4.4	16	74	11	62	53	3	0	42	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39330995--39331112	52	2.2	52	79	4	130	57	4	0	37	1.24
39343824--39343862	17	2.3	17	90	0	60	23	17	41	17	1.91
39344970--39345021	22	2.4	22	90	0	77	13	34	28	23	1.92
39348321--39348358	20	1.9	20	84	10	51	65	2	5	26	1.27
39348692--39348739	18	2.7	18	87	3	71	62	0	0	37	0.95
39349531--39349572	20	2.0	21	90	4	68	40	2	11	45	1.54
39350767--39350899	68	2.0	66	85	8	182	45	7	3	43	1.47
39352423--39352461	21	1.9	19	90	10	60	48	2	0	48	1.15
39356229--39356271	20	2.2	20	87	4	61	58	2	2	37	1.24
39357177--39357201	13	1.9	13	100	0	50	48	8	4	40	1.51
39360665--39360691	9	3.0	9	100	0	54	66	11	11	11	1.45
39361715--39361937	40	5.6	40	81	2	232	37	20	17	25	1.93
39364159--39364366	103	2.0	103	92	1	346	40	9	19	30	1.83
39370403--39370446	22	2.0	22	81	0	52	11	13	6	68	1.39
39380004--39380053	15	3.4	15	75	10	50	56	0	10	34	1.33
39385741--39385765	2	12.5	2	100	0	50	52	0	0	48	1.00
39406165--39406402	69	3.5	68	80	2	217	33	21	24	21	1.97
39406289--39406468	69	2.6	67	82	6	182	31	21	25	21	1.98
39407117--39407152	1	36.0	1	100	0	72	0	0	100	0	0.00
39449101--39449133	16	1.9	18	88	11	52	36	3	0	60	1.12
39450875--39450905	16	1.9	16	100	0	62	45	19	0	35	1.51
39455155--39455219	34	1.9	34	84	3	87	16	18	4	60	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39455623--39455657	2	17.5	2	100	0	70	48	0	0	51	1.00
39462530--39462809	153	1.8	154	90	0	454	35	15	17	32	1.91
39463327--39463801	59	8.1	58	82	6	528	34	2	29	33	1.73
39463416--39463512	29	3.3	29	70	24	87	31	3	37	27	1.73
39463432--39463523	30	3.1	30	68	21	86	28	3	34	33	1.74
39463535--39463738	29	7.0	28	69	18	130	34	1	29	33	1.69
39463326--39463801	176	2.7	173	82	6	539	34	2	29	32	1.73
39476085--39477349	38	35.6	38	74	16	1029	33	17	21	27	1.96
39476194--39476998	69	11.6	68	84	7	860	33	17	21	27	1.96
39476123--39477022	137	6.4	136	82	9	933	33	17	21	27	1.96
39476075--39477215	492	2.3	492	98	0	2196	33	17	21	27	1.96
39477217--39477425	69	3.0	69	87	2	269	34	18	19	27	1.95
39477769--39477870	6	17.0	6	74	15	77	50	0	1	48	1.12
39477773--39477837	17	4.1	15	81	15	78	43	0	3	53	1.16
39477777--39477840	31	2.1	31	91	5	103	43	0	3	53	1.16
39477759--39477839	11	7.5	11	72	19	64	41	0	3	54	1.18
39477769--39477859	42	2.2	40	82	5	101	47	0	2	50	1.13
39478029--39478088	20	3.0	20	90	2	93	20	43	16	20	1.88
39478573--39478671	9	10.3	9	72	16	74	49	4	6	40	1.46
39478573--39478644	30	2.4	30	100	0	144	48	2	5	43	1.40
39478576--39478640	21	3.1	21	81	0	67	46	3	6	44	1.44
39478922--39478977	15	3.8	15	78	19	64	73	1	23	1	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39478930--39478984	15	3.7	15	75	17	53	70	1	25	1	1.06
39479670--39480166	30	16.6	30	88	1	685	37	23	2	36	1.69
39484267--39484382	6	20.0	6	72	16	77	52	3	2	41	1.32
39484253--39484382	17	7.1	17	72	20	77	52	3	2	42	1.29
39484270--39484364	11	7.7	12	73	19	54	53	3	3	40	1.33
39484268--39484382	17	6.7	16	71	17	79	53	3	2	40	1.32
39507414--39507457	19	2.2	20	80	15	56	27	11	0	61	1.30
39507937--39507966	3	10.0	3	100	0	60	0	33	0	66	0.92
39510751--39511031	140	2.0	140	100	0	562	46	7	16	28	1.75
39516532--39516575	18	2.4	19	81	14	56	45	2	2	50	1.27

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