genome.fa.s4.2.7.7.80.10.50.1000.123.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  123  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)
38818784--38818817	12	2.8	12	86	0	50	0	23	5	70	1.09
38824749--38824773	3	8.3	3	100	0	50	64	0	0	36	0.94
38825485--38825540	29	1.9	29	81	0	67	39	3	5	51	1.42
38825608--38825674	33	2.0	33	88	0	98	50	11	7	29	1.66
38829613--38829659	24	2.0	24	87	8	69	31	14	31	21	1.94
38832468--38832536	29	2.3	31	87	9	99	27	8	15	47	1.75
38832490--38832548	29	2.0	29	90	3	91	28	5	15	50	1.65
38832494--38832557	30	2.2	29	82	2	74	34	4	10	50	1.59
38843754--38843786	2	16.5	2	100	0	66	51	0	0	48	1.00
38843786--38843811	2	13.0	2	100	0	52	50	0	50	0	1.00
38843960--38844009	15	3.3	15	80	5	57	24	6	32	38	1.79
38851818--38851898	39	2.1	39	97	0	153	32	13	18	35	1.90
38856687--38856727	18	2.3	18	87	4	57	34	9	4	51	1.56
38865420--38865448	12	2.4	12	100	0	58	17	34	17	31	1.93
38868740--38868767	3	9.3	3	100	0	56	32	0	0	67	0.91
38871299--38871407	53	2.1	53	96	0	200	33	16	10	39	1.82
38877577--38877654	28	2.7	28	86	4	102	50	2	2	44	1.29
38883592--38883666	11	6.5	11	75	11	62	5	25	0	69	1.09
38883599--38883663	23	2.8	22	79	11	58	6	24	0	69	1.11
38884078--38884112	14	2.4	15	90	4	54	48	31	5	14	1.67
38884138--38884164	10	2.7	10	100	0	54	11	29	37	22	1.89
38884164--38884252	20	4.8	19	71	18	71	20	22	21	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38884164--38884227	7	9.4	7	69	6	51	20	25	23	31	1.98
38884164--38884247	27	3.1	27	78	0	105	20	23	21	34	1.97
38885309--38885333	3	8.3	3	100	0	50	32	0	0	68	0.90
38890717--38890791	11	6.5	11	75	11	62	5	25	0	69	1.09
38890724--38890788	23	2.8	22	79	11	58	6	24	0	69	1.11
38891202--38891236	14	2.4	15	90	4	54	48	31	5	14	1.67
38891278--38891327	20	2.5	19	78	9	55	20	22	24	34	1.97
38891279--38891351	27	2.7	27	85	2	94	19	24	23	32	1.97
38895590--38895864	136	2.0	135	90	0	424	26	24	16	33	1.95
38898265--38898295	16	1.9	16	93	0	53	80	0	0	19	0.71
38898629--38898974	180	1.9	180	84	4	464	31	6	19	42	1.76
38900517--38900549	17	1.9	17	93	0	57	27	6	9	57	1.53
38900959--38901431	159	3.0	156	81	4	547	33	13	16	37	1.87
38901965--38902146	96	1.9	95	82	7	226	38	12	19	29	1.88
38902475--38902681	58	3.6	57	77	5	209	36	6	25	31	1.82
38902578--38902668	29	3.2	28	71	21	71	39	5	23	31	1.77
38902512--38902678	58	2.9	59	82	5	214	40	5	22	31	1.77
38902591--38902680	29	3.1	29	75	12	103	36	5	25	32	1.79
38902653--38902711	18	3.1	18	72	13	64	32	1	30	35	1.68
38902683--38902801	30	4.0	28	70	14	87	31	4	26	36	1.76
38903587--38903646	20	3.0	20	77	22	63	25	8	3	63	1.38
38903843--38903885	18	2.4	17	88	7	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38904568--38904624	18	3.2	18	72	2	53	43	5	0	50	1.24
38904600--38904637	16	2.4	16	90	0	58	55	2	0	42	1.14
38906910--38906967	24	2.4	24	88	0	80	27	43	3	25	1.71
38906934--38907063	69	1.9	69	85	6	183	26	50	1	21	1.58
38907080--38907128	24	2.0	24	84	0	62	24	46	0	28	1.53
38909886--38909986	32	3.2	32	81	2	87	47	23	6	21	1.75
38909926--38910002	32	2.5	32	87	4	104	51	25	1	20	1.55
38910699--38910740	18	2.2	20	83	8	52	26	9	0	64	1.24
38918351--38918419	31	2.2	31	84	5	86	43	4	18	33	1.70
38920051--38920088	18	2.1	18	90	0	58	28	2	0	68	1.03
38921732--38921838	56	1.9	56	84	3	144	43	8	2	44	1.49
38921929--38922037	57	1.9	57	81	1	130	41	8	10	40	1.69
38933773--38933853	35	2.4	34	89	8	128	41	6	1	50	1.35
38943191--38943229	16	2.4	16	91	0	60	30	43	2	23	1.67
38943825--38943883	29	2.0	29	93	0	100	35	5	25	33	1.78
38944597--38944980	61	6.3	61	95	0	660	31	12	18	37	1.88
38947942--38948012	21	3.4	21	78	5	65	28	8	26	36	1.86
38947964--38948012	21	2.4	20	86	6	71	28	10	28	32	1.90
38947975--38948023	21	2.3	21	86	6	64	26	16	20	36	1.93
38951164--38951238	33	2.3	33	83	0	87	21	44	5	29	1.74
38951263--38951357	33	2.9	34	84	9	117	21	45	0	33	1.52
38952372--38952409	16	2.4	16	90	0	58	15	7	34	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38952803--38952881	9	9.1	9	70	16	51	53	17	2	26	1.57
38952802--38952884	13	6.3	13	71	21	66	54	18	2	25	1.56
38952786--38952884	52	1.9	51	87	2	144	51	16	4	28	1.62
38954872--38954970	13	7.5	13	68	10	58	55	18	5	21	1.61
38955316--38955377	30	2.0	30	87	3	88	58	11	8	22	1.59
38954994--38955552	276	2.0	278	96	2	1023	48	17	9	24	1.76
38961801--38961841	14	2.9	14	80	20	50	53	2	7	36	1.42
38961992--38962302	156	2.0	154	98	1	604	38	18	17	25	1.92
38963654--38963687	17	1.9	18	88	5	52	50	0	5	44	1.26
38978125--38978380	37	6.9	37	85	1	343	37	31	17	12	1.88
38978129--38978192	16	3.7	16	71	18	56	35	31	21	10	1.88
38997738--38997797	2	30.0	2	93	6	104	50	0	1	48	1.11
39003431--39003473	16	2.5	17	82	17	54	39	0	9	51	1.34
39004301--39004613	170	1.8	170	91	2	522	36	11	21	30	1.90
39004694--39004756	30	2.1	30	81	0	72	33	20	17	28	1.95
39011227--39011326	50	2.0	50	100	0	200	26	20	8	46	1.78
39019882--39019931	21	2.3	22	75	3	57	42	6	2	50	1.38
39043122--39043155	15	2.3	15	90	10	52	44	2	0	52	1.16
39047000--39047029	15	2.0	15	93	0	51	63	0	0	36	0.95
39050493--39050534	2	21.0	2	100	0	84	50	0	0	50	1.00
39050842--39050866	11	2.3	11	100	0	50	20	0	16	64	1.30
39050924--39050975	23	2.4	22	81	15	63	44	5	7	42	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39058520--39058584	30	2.2	30	94	0	112	58	13	3	24	1.50
39066230--39066278	21	2.3	21	85	0	62	26	12	28	32	1.92
39067665--39067698	12	2.9	12	91	4	52	23	23	0	52	1.47
39068855--39069036	52	3.6	52	84	2	226	35	23	14	25	1.94
39071191--39071349	59	2.6	60	84	3	203	44	12	16	25	1.83
39077611--39077702	46	2.0	46	100	0	184	28	19	21	30	1.98
39078400--39078448	25	1.9	26	84	12	66	44	4	0	51	1.20
39087434--39087460	2	13.5	2	100	0	54	48	0	0	51	1.00
39091165--39091221	25	2.4	25	85	5	73	47	5	5	42	1.48
39093324--39093377	26	2.2	25	90	6	83	44	11	16	27	1.82
39093420--39093491	27	2.7	27	76	4	74	29	23	25	22	1.99
39096085--39096158	37	2.0	37	94	0	130	24	13	29	32	1.93
39121901--39121979	23	3.4	23	92	0	122	11	26	20	41	1.86
39121992--39122038	23	2.1	22	88	4	67	17	19	27	36	1.93
39129142--39129263	23	5.4	23	77	10	94	16	22	19	41	1.90
39129181--39129259	23	3.5	22	85	3	104	15	20	25	39	1.91
39134769--39134808	21	1.9	21	89	0	62	32	22	17	27	1.96
39135326--39135400	24	3.1	24	82	0	87	29	22	20	28	1.98
39142577--39142997	87	4.9	87	84	6	514	24	17	22	35	1.95
39142577--39142997	173	2.4	173	88	3	603	24	17	22	35	1.95
39149714--39149933	43	5.1	43	81	5	248	32	9	23	35	1.87
39149719--39149923	85	2.4	86	87	1	286	32	10	21	35	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39165440--39165623	19	9.8	19	79	2	122	30	18	23	27	1.97
39165427--39165623	38	5.3	37	74	8	148	30	18	23	27	1.97
39165420--39165610	75	2.5	75	80	1	177	29	17	23	29	1.97
39165455--39165621	57	2.9	57	76	5	158	32	17	22	26	1.96
39171809--39171998	42	4.5	42	82	3	204	39	12	24	23	1.89
39172654--39172709	21	2.7	21	77	5	60	30	12	25	32	1.92
39178399--39178533	40	3.4	38	73	12	96	30	28	20	21	1.98
39178431--39178534	37	2.7	38	76	5	93	31	26	19	22	1.97
39178637--39178675	6	6.5	6	93	0	69	20	30	0	48	1.50
39181736--39181845	42	2.6	42	88	0	166	38	9	26	26	1.86

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