genome.fa.s4.2.7.7.80.10.50.1000.158.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  158  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)
48787772--48787831	31	2.0	31	83	3	77	48	1	3	46	1.28
48788203--48788313	31	3.7	29	83	6	114	39	6	8	45	1.59
48789794--48789846	24	2.2	24	93	0	88	13	9	37	39	1.77
48789791--48789850	24	2.3	27	77	16	81	11	10	40	38	1.75
48789874--48789903	12	2.5	12	88	0	51	16	6	50	26	1.70
48791911--48791956	24	1.9	24	86	8	67	69	4	0	26	1.07
48797531--48797569	11	3.9	11	83	16	50	69	0	0	30	0.89
48797549--48797649	16	6.1	16	75	14	71	61	0	0	36	1.09
48797572--48797601	2	15.0	2	100	0	60	50	0	0	50	1.00
48799527--48799617	37	2.5	38	86	10	120	62	2	0	35	1.07
48799506--48799609	39	2.6	40	80	13	126	59	2	0	37	1.12
48805329--48805354	3	8.7	3	100	0	52	34	30	0	34	1.58
48811051--48811105	2	30.5	2	72	20	50	52	0	0	47	1.00
48811051--48811105	11	4.9	11	82	12	67	52	0	0	47	1.00
48811054--48811105	19	2.8	20	85	8	65	51	0	0	48	1.00
48811324--48811383	22	2.7	22	75	12	52	55	1	0	43	1.10
48814427--48814456	15	2.0	15	93	0	51	23	0	0	76	0.78
48814455--48814481	4	6.8	4	100	0	54	74	0	0	25	0.83
48814719--48814766	15	3.1	15	75	6	51	16	54	18	10	1.70
48820235--48820746	255	2.0	255	100	0	1024	27	23	14	34	1.94
48822639--48822674	18	2.1	18	89	5	56	33	25	0	41	1.55
48829074--48829364	40	7.4	40	80	8	276	31	26	16	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48829074--48829285	80	2.7	78	89	2	309	30	26	16	25	1.97
48829137--48829364	117	1.9	119	88	5	347	33	24	17	25	1.96
48832765--48832809	12	3.9	11	83	11	54	40	0	2	57	1.11
48832776--48832839	6	11.0	6	80	6	60	50	3	0	46	1.17
48832791--48832832	22	1.9	22	90	0	66	54	4	0	40	1.21
48833609--48833651	15	2.9	15	82	6	52	44	0	0	55	0.99
48833584--48833657	40	1.9	39	81	13	91	44	0	4	51	1.20
48834039--48834095	30	1.9	29	85	3	78	12	22	49	15	1.78
48834519--48834603	29	3.0	28	88	8	127	43	20	1	35	1.59
48834578--48834826	58	4.3	58	83	9	228	32	28	3	35	1.73
48834578--48834782	29	7.1	28	71	18	138	32	28	3	35	1.74
48834578--48834886	59	5.3	57	80	11	269	31	29	3	35	1.74
48841798--48841911	23	5.0	23	81	8	126	10	24	24	40	1.87
48841798--48841911	46	2.5	45	79	12	142	10	24	24	40	1.87
48849751--48849917	48	3.5	48	92	0	253	38	15	26	19	1.91
48849846--48850361	195	2.6	196	88	3	752	37	19	23	20	1.94
48850770--48850804	16	2.1	17	89	5	54	51	8	0	40	1.33
48850769--48850810	22	1.9	22	85	0	57	54	7	0	38	1.28
48851581--48851623	15	2.9	15	82	6	52	44	0	0	55	0.99
48851556--48851629	40	1.9	39	81	13	91	44	0	4	51	1.20
48852493--48852570	29	2.7	29	86	4	104	43	20	1	34	1.60
48852609--48852710	29	3.6	28	76	16	102	31	28	1	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48852550--48852827	117	2.4	117	76	13	277	30	28	3	37	1.73
48852552--48852831	58	4.8	57	78	9	235	31	28	3	37	1.73
48862734--48862772	20	2.0	19	85	5	51	41	0	5	53	1.23
48864915--48864948	18	1.9	18	88	5	52	41	11	11	35	1.78
48869938--48869998	29	2.1	29	84	3	79	34	9	22	32	1.87
48869979--48870060	29	2.8	28	72	7	65	32	0	30	36	1.58
48869966--48870175	59	3.5	59	79	6	185	37	5	22	33	1.78
48870038--48870175	60	2.3	59	85	4	188	39	7	21	31	1.81
48870191--48870381	29	6.6	29	77	10	176	37	1	25	36	1.63
48870191--48870385	59	3.3	58	77	9	193	38	1	25	35	1.63
48871454--48871501	3	16.3	3	91	4	80	35	0	0	64	0.94
48872147--48872239	18	5.3	17	79	6	105	52	4	1	41	1.28
48872147--48872239	6	15.8	6	70	12	68	52	4	1	41	1.28
48883918--48884019	42	2.4	43	78	12	106	36	0	12	50	1.47
48883919--48884015	44	2.3	44	79	12	112	36	1	12	50	1.47
48884186--48884223	18	2.1	18	85	9	51	23	7	15	52	1.69
48884285--48884334	14	3.4	14	81	10	55	34	16	14	36	1.88
48887210--48887234	6	4.2	6	100	0	50	32	20	0	48	1.50
48892902--48893039	23	6.0	23	74	9	111	14	18	22	44	1.85
48915433--48915566	59	2.3	57	85	6	180	47	1	0	50	1.15
48915723--48915792	16	4.4	16	79	0	86	31	25	1	41	1.64
48917386--48917413	5	5.6	5	100	0	56	35	42	21	0	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48920350--48920467	40	3.0	40	89	2	184	41	10	21	27	1.85
48921153--48921209	21	2.7	21	91	0	87	24	15	26	33	1.95
48931924--48931954	15	2.0	16	93	6	55	74	0	0	25	0.82
48934680--48934793	57	2.0	57	84	3	149	25	21	16	36	1.94
48935826--48935853	2	14.0	2	100	0	56	50	0	50	0	1.00
48942537--48942589	2	26.5	2	100	0	106	49	0	50	0	1.00
48943587--48943697	56	2.0	56	92	0	186	45	14	7	33	1.72
48953352--48953522	85	2.0	85	83	2	218	30	9	21	38	1.85
48968956--48968998	18	2.3	18	84	4	50	41	9	4	44	1.57
48994040--48994120	28	2.9	28	85	3	101	24	1	17	56	1.48
48994053--48994112	7	8.6	7	83	7	77	25	0	15	60	1.35
49004041--49004080	18	2.2	19	86	8	57	70	0	0	30	0.88
49004122--49004160	18	2.4	16	84	16	53	74	0	0	25	0.82
49004123--49004161	16	2.4	16	87	8	53	71	0	0	28	0.86
49007535--49007587	25	2.1	26	82	10	65	62	1	0	35	1.06
49007963--49008023	28	2.2	28	82	11	72	57	4	0	37	1.20
49016147--49016230	42	2.0	43	97	2	161	63	8	7	21	1.47
49019587--49019759	58	2.9	59	79	7	154	27	13	8	49	1.72
49022258--49022502	9	26.0	9	63	19	56	35	2	2	58	1.26
49022426--49022484	19	3.1	18	80	9	73	32	1	3	62	1.21
49022443--49022501	29	2.2	25	82	11	64	35	1	1	61	1.16
49025521--49025579	21	2.8	21	89	0	82	71	20	1	6	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49025513--49025624	21	5.5	21	77	9	70	67	18	7	6	1.35
49031849--49031984	68	2.0	68	100	0	272	32	14	10	42	1.80
49037459--49037516	13	4.5	13	78	6	55	55	0	1	43	1.10
49038383--49038422	19	2.1	19	86	9	55	55	0	15	30	1.41
49038540--49038573	17	2.0	17	94	0	59	47	20	11	20	1.81
49052814--49052857	17	2.6	17	85	7	54	56	2	0	40	1.11
49054065--49054382	59	5.4	59	85	2	419	33	30	2	33	1.71
49054065--49054379	116	2.7	117	89	3	456	33	30	2	33	1.70
49058287--49058318	13	2.3	15	89	10	50	71	15	0	12	1.14
49059380--49059434	25	2.2	25	93	0	92	69	0	5	25	1.10
49059396--49059463	29	2.4	28	85	5	82	69	2	4	23	1.21
49059389--49059463	25	2.8	27	81	13	84	66	2	5	25	1.26
49059446--49059481	18	1.9	19	94	5	65	69	0	2	27	1.02
49065954--49065996	22	2.0	22	81	9	52	13	25	2	58	1.48
49068841--49068910	16	4.4	16	80	3	70	42	2	24	30	1.69
49069079--49069187	57	1.9	58	88	5	168	50	1	0	47	1.11
49072802--49072828	2	13.5	2	100	0	54	0	48	0	51	1.00
49072848--49072968	59	2.1	59	98	0	233	29	8	27	34	1.86
49074250--49074278	2	14.5	2	100	0	58	0	48	0	51	1.00
49074294--49074414	59	2.1	59	96	0	224	28	8	27	35	1.86
49075692--49075722	2	15.5	2	100	0	62	0	48	0	51	1.00
49075734--49075854	59	2.1	59	96	0	224	28	8	27	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49078707--49078784	29	2.7	29	72	16	81	60	6	1	32	1.30
49086275--49086337	28	2.3	28	83	8	76	36	1	1	60	1.16
49087246--49087315	31	2.3	31	82	7	81	32	7	10	50	1.63
49089428--49089471	19	2.2	20	84	4	54	70	0	0	29	0.88
49090376--49090491	59	2.0	59	85	0	160	37	23	12	26	1.90
49092203--49092250	17	2.8	17	80	0	60	35	0	2	62	1.07
49092941--49093002	11	5.6	11	74	22	51	62	1	3	32	1.20
49093985--49094327	29	11.7	29	73	12	177	34	29	3	32	1.74
49094156--49094222	30	2.2	30	84	7	82	34	23	2	38	1.70
49094164--49094411	30	8.3	31	70	14	92	34	27	3	34	1.74

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