genome.fa.s4.2.7.7.80.10.50.1000.44.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  44  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)
13335815--13335871	30	2.0	29	83	10	73	35	1	7	56	1.37
13336299--13336339	5	8.2	5	88	0	64	39	14	19	26	1.90
13336299--13336339	15	2.7	15	96	0	73	39	14	19	26	1.90
13336919--13336994	34	2.2	34	90	0	116	38	14	13	34	1.85
13337468--13337592	58	2.2	58	89	0	187	36	0	15	48	1.51
13342656--13342681	2	13.0	2	100	0	52	50	0	0	50	1.00
13347226--13347289	33	1.9	33	90	0	101	37	7	18	35	1.80
13347927--13347967	3	13.7	3	100	0	82	0	0	31	68	0.90
13349341--13349370	11	2.8	11	95	5	53	16	0	6	76	0.99
13354051--13354250	97	2.1	97	90	0	310	26	19	10	45	1.81
13364306--13364349	10	4.4	10	84	15	56	81	0	18	0	0.68
13364309--13364349	11	3.8	11	83	3	57	80	0	19	0	0.71
13364309--13364349	22	1.9	21	90	5	64	80	0	19	0	0.71
13371610--13371812	103	2.0	103	83	5	259	32	12	16	39	1.85
13374284--13374347	27	2.3	27	78	7	67	28	4	0	67	1.11
13376556--13376612	28	2.0	28	93	0	96	45	19	8	26	1.79
13385746--13385799	26	2.0	26	85	3	72	66	12	3	16	1.38
13387312--13387431	58	2.1	58	88	3	179	32	0	19	48	1.49
13387644--13387688	23	2.0	23	86	0	63	35	20	13	31	1.91
13389882--13389919	2	19.0	2	100	0	76	50	0	0	50	1.00
13390698--13390752	18	3.2	18	87	5	78	34	5	1	58	1.32
13391906--13391955	25	2.0	25	88	0	73	22	12	8	58	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13396108--13396211	28	3.6	28	82	12	131	48	1	0	49	1.19
13397236--13397307	19	4.3	19	69	27	63	54	0	0	45	0.99
13397247--13397325	30	2.6	30	97	2	149	55	0	0	44	0.99
13397581--13397616	18	1.9	19	88	5	56	58	0	8	33	1.28
13399424--13399600	92	1.9	92	94	0	309	58	12	11	17	1.62
13401564--13401605	9	4.7	9	77	11	50	35	0	0	64	0.94
13403191--13403215	2	12.5	2	100	0	50	0	48	0	52	1.00
13404766--13404821	26	2.1	27	93	3	96	37	0	0	62	0.95
13404766--13404831	22	2.8	22	86	9	78	36	1	0	62	1.05
13407855--13407899	21	2.0	23	87	8	67	75	0	0	24	0.80
13410806--13410856	24	2.1	24	85	0	66	60	7	5	25	1.47
13411444--13411503	24	2.3	26	83	8	79	16	11	8	63	1.51
13412956--13413048	40	2.3	40	90	0	150	23	23	9	43	1.83
13413082--13413185	41	2.5	41	89	4	147	28	23	10	37	1.88
13420079--13420174	40	2.4	41	87	5	142	26	22	8	42	1.82
13420202--13420296	41	2.3	41	87	0	118	30	22	11	35	1.89
13427994--13428026	3	11.0	3	93	0	57	63	0	3	33	1.10
13437900--13438071	69	2.5	70	78	4	197	44	27	5	22	1.74
13440087--13440176	20	4.5	20	75	8	76	35	7	17	38	1.79
13440106--13440158	10	5.3	10	77	8	54	37	5	16	39	1.73
13442099--13442137	20	2.0	20	85	10	53	56	7	0	35	1.28
13445023--13445066	2	23.0	2	90	9	74	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13456105--13456130	7	3.7	7	100	0	52	30	15	0	53	1.42
13461990--13462051	30	2.1	30	96	0	115	38	8	6	46	1.59
13465460--13465527	27	2.5	27	78	7	66	38	19	19	23	1.93
13465523--13465613	27	3.3	27	80	7	94	35	19	19	25	1.96
13466857--13466891	14	2.5	14	90	0	52	42	5	20	31	1.75
13467258--13467366	46	2.3	48	84	4	132	44	16	11	28	1.82
13472226--13472272	13	3.5	14	83	13	55	42	21	17	19	1.89
13478340--13478374	13	2.7	13	100	0	70	31	8	8	51	1.63
13479695--13479724	3	10.3	3	92	7	53	0	36	0	63	0.95
13481257--13481297	19	2.0	20	90	9	66	31	0	2	65	1.05
13481259--13481305	24	2.0	24	87	8	69	31	0	2	65	1.04
13481395--13481484	39	2.3	40	86	7	130	54	5	0	40	1.24
13499914--13499972	30	2.0	30	83	6	75	33	11	32	22	1.90
13511097--13511141	22	2.0	22	100	0	90	51	4	0	44	1.21
13511708--13511804	46	2.1	46	92	1	160	26	17	30	24	1.97
13511791--13511855	30	2.2	30	94	0	112	29	21	26	23	1.99
13512121--13512293	81	2.1	81	90	4	285	39	2	16	41	1.63
13512555--13512609	18	2.9	19	81	5	76	74	0	0	25	0.82
13512988--13513043	20	3.2	17	76	16	60	42	1	1	53	1.21
13512988--13513055	19	3.7	19	83	12	72	42	1	1	54	1.18
13512998--13513071	20	3.5	20	75	20	69	39	1	1	58	1.15
13520699--13520799	52	1.9	54	85	4	143	37	5	1	54	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13520758--13520798	21	1.9	22	85	5	57	36	4	2	56	1.34
13520798--13520833	17	2.1	17	100	0	72	52	5	16	25	1.65
13520982--13521164	95	1.9	95	89	2	287	47	12	3	36	1.58
13521309--13521365	19	2.8	20	77	15	64	35	5	0	59	1.20
13524135--13524192	30	1.9	30	86	10	82	56	0	0	43	0.99
13524157--13524220	24	2.6	26	71	11	64	54	0	0	45	0.99
13533139--13533823	340	2.0	340	96	0	1262	36	11	16	34	1.86
13534611--13534652	18	2.4	18	80	4	50	4	11	14	69	1.34
13554711--13554747	17	2.2	17	90	0	56	48	0	8	43	1.32
13555514--13555558	23	2.0	23	86	0	63	44	2	0	53	1.13
13577216--13577275	32	1.9	32	86	3	86	40	13	8	38	1.75
13577379--13577569	10	20.6	9	67	19	81	60	1	4	34	1.26
13577450--13577531	27	3.0	27	83	3	92	62	2	4	30	1.29
13587245--13587290	19	2.3	20	78	10	51	65	4	4	26	1.30
13587295--13587347	19	2.8	20	70	18	51	60	3	7	28	1.41
13589602--13589660	19	3.1	19	71	9	66	52	10	6	30	1.61
13593950--13594012	29	2.2	29	82	5	83	7	11	4	76	1.15
13593969--13594010	22	1.9	22	85	9	59	4	14	2	78	1.01
13594665--13594704	19	2.1	19	85	4	53	75	0	2	22	0.93
13603103--13603129	12	2.2	12	100	0	54	40	25	0	33	1.56
13604795--13604850	23	2.4	22	82	11	58	51	5	1	41	1.35
13604869--13604922	26	2.0	29	85	10	78	51	0	3	44	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13605896--13605934	20	1.9	21	85	15	55	41	2	2	53	1.28
13615614--13615662	17	2.9	17	78	0	53	0	36	0	63	0.95
13615609--13615670	17	3.9	16	70	23	51	0	35	0	64	0.94
13622558--13622702	71	2.0	72	91	1	238	38	17	19	24	1.93
13627289--13627351	26	2.4	26	89	5	92	34	25	14	25	1.94
13628955--13629047	24	3.8	25	81	4	100	30	25	20	23	1.99
13651379--13651532	82	1.9	82	83	2	202	31	26	20	20	1.98
13653857--13655985	712	3.0	709	91	2	3378	35	18	14	31	1.91
13660552--13660618	26	2.6	26	87	0	98	35	17	16	29	1.92
13661602--13661681	17	4.7	16	71	11	61	45	8	23	22	1.80
13661722--13661754	13	2.8	12	90	9	50	72	12	0	15	1.12
13671809--13671868	26	2.3	26	85	8	86	33	26	16	23	1.96
13673515--13673567	24	2.2	24	86	3	70	33	26	16	22	1.96
13678012--13678165	79	1.9	79	89	0	236	31	26	20	20	1.98
13684269--13684318	22	2.3	21	86	10	73	30	2	2	66	1.14
13684277--13684349	34	2.1	34	84	2	92	35	0	2	61	1.10
13684311--13684371	20	3.0	20	79	20	72	40	0	4	54	1.22
13685456--13685502	14	3.2	16	82	17	66	38	0	0	61	0.96
13685457--13685498	7	5.9	7	86	13	59	38	0	0	61	0.96
13693531--13693665	36	3.8	36	94	0	243	33	16	28	22	1.95
13693639--13693693	28	2.0	28	92	0	92	30	18	30	20	1.96
13697892--13698548	48	13.6	49	72	4	258	21	26	16	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13697854--13698193	49	7.0	48	67	5	198	22	25	14	36	1.93
13697848--13698193	97	3.5	97	88	0	476	22	25	15	36	1.94
13698167--13698381	97	2.2	97	81	3	227	21	26	14	37	1.92
13697892--13698247	194	1.8	194	83	2	437	22	25	16	35	1.94
13698240--13698564	145	2.2	145	84	0	416	20	28	17	33	1.95
13698195--13698420	97	2.3	97	80	3	267	20	27	16	35	1.94
13698195--13698616	48	8.7	48	75	4	276	20	28	16	34	1.95
13698385--13698663	97	2.9	97	83	1	344	20	29	16	32	1.95
13720643--13720699	28	2.0	28	83	6	71	36	8	1	52	1.43
13728056--13728106	15	3.4	15	78	10	59	66	1	31	0	1.03

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