genome.fa.s9.2.7.7.80.10.50.1000.30.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  30  of  182  ( 21729 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)
11869694--11869728	18	1.9	18	94	0	61	40	0	0	60	0.97
11874053--11874095	11	3.8	11	84	9	52	25	0	6	67	1.15
11874396--11874467	36	1.9	37	83	5	92	34	4	2	58	1.32
11877688--11877793	23	4.6	23	73	3	88	32	19	13	34	1.90
11877688--11877793	47	2.3	47	83	3	135	32	19	13	34	1.90
11877840--11877901	23	2.7	22	79	16	63	29	16	12	41	1.85
11900254--11900321	36	1.9	34	85	11	93	42	1	4	51	1.31
11905147--11905201	26	2.1	26	96	0	101	34	23	9	32	1.86
11908435--11908628	59	3.3	57	73	9	176	37	4	29	28	1.76
11908604--11908897	30	9.8	30	88	1	360	35	4	23	37	1.74
11908632--11908902	60	4.5	60	92	0	434	35	4	22	36	1.75
11908604--11908902	90	3.3	91	89	3	439	35	4	23	36	1.75
11910740--11910829	6	14.8	6	75	11	67	48	2	2	46	1.26
11910765--11910824	31	1.9	31	89	0	93	55	3	1	40	1.27
11910766--11910839	17	4.5	17	81	10	82	55	4	1	39	1.27
11911564--11911686	14	8.9	13	70	15	61	24	1	30	43	1.64
11911564--11911617	21	2.6	21	87	0	81	24	1	31	42	1.65
11911567--11911667	28	3.6	28	72	10	98	23	1	29	44	1.64
11911689--11911733	13	3.4	14	77	20	51	26	0	31	42	1.56
11911737--11911808	31	2.3	31	85	0	99	26	4	27	41	1.74
11920053--11920087	18	1.9	18	88	0	52	0	40	8	51	1.33
11921218--11921265	23	2.1	22	84	3	60	56	2	0	41	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11926897--11926922	2	13.0	2	100	0	52	50	0	0	50	1.00
11928102--11928149	16	3.1	16	68	31	50	29	14	2	54	1.52
11938253--11938277	2	12.5	2	100	0	50	52	0	0	48	1.00
11938777--11938821	21	2.1	22	84	12	58	53	0	2	44	1.13
11947728--11947786	3	20.3	3	86	6	86	33	0	0	66	0.92
11947747--11947795	23	2.1	23	88	7	73	36	0	2	61	1.08
11948649--11948722	29	2.5	29	82	4	85	50	13	14	21	1.78
11949161--11949343	43	4.2	43	88	0	249	19	29	24	26	1.98
11949142--11949345	86	2.3	87	84	3	277	21	27	24	26	1.99
11950554--11950584	15	2.1	15	93	0	53	38	12	6	41	1.69
11950933--11950990	22	2.6	22	100	0	116	10	22	13	53	1.70
11951249--11951322	26	2.9	27	69	15	66	41	0	4	54	1.19
11952070--11952533	41	11.3	41	79	9	405	22	25	25	26	2.00
11952070--11952533	82	5.7	81	79	8	458	22	25	25	26	2.00
11957599--11957656	30	1.9	30	85	0	80	29	3	6	60	1.39
11958777--11958810	3	11.7	3	87	6	52	2	32	0	64	1.08
11963361--11963407	16	2.8	16	84	12	51	59	2	0	38	1.09
11965117--11965153	14	2.6	15	91	8	60	0	21	0	78	0.75
11965433--11965466	11	3.3	11	92	8	54	70	0	0	29	0.87
11965642--11965680	14	2.7	15	84	8	53	51	0	0	48	1.00
11966784--11967502	359	2.0	359	99	0	1429	44	13	11	30	1.79
11969613--11969686	16	4.6	16	72	11	53	55	2	2	39	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11973247--11973291	18	2.6	18	82	3	56	35	0	4	60	1.17
11973364--11973412	23	2.1	23	81	7	55	65	0	0	34	0.93
11974397--11974422	2	13.0	2	100	0	52	50	0	0	50	1.00
11974985--11975015	6	5.3	6	96	3	55	51	0	0	48	1.00
11978234--11978272	3	13.0	3	100	0	78	66	0	0	33	0.92
11983910--11983961	13	3.8	13	78	9	59	46	5	5	42	1.51
11983968--11984013	20	2.2	20	84	3	56	39	4	15	41	1.67
11984582--11984626	19	2.4	19	81	7	56	37	0	4	57	1.19
11991338--11991368	16	1.9	16	93	0	53	29	0	6	64	1.18
11994713--11994796	44	1.9	44	100	0	168	47	14	14	23	1.80
12003789--12003864	37	2.0	37	87	10	109	56	14	0	28	1.39
12005063--12005123	31	2.1	30	82	11	74	31	6	16	45	1.73
12005316--12005382	29	2.2	30	81	5	73	53	8	1	35	1.41
12009004--12009048	17	2.6	18	82	3	56	31	4	4	60	1.37
12014466--12014523	30	2.0	30	89	3	91	36	3	8	51	1.49
12015061--12015123	2	31.5	2	100	0	126	49	0	0	50	1.00
12019628--12019666	6	6.5	6	87	0	51	46	0	30	23	1.53
12020664--12020718	23	2.4	23	79	8	60	60	1	1	36	1.18
12023702--12023728	2	13.5	2	100	0	54	0	51	0	48	1.00
12025888--12025919	3	10.7	3	100	0	64	31	0	0	68	0.90
12028426--12028666	75	3.3	75	83	4	319	27	18	19	34	1.95
12031019--12031061	22	2.0	22	90	0	68	34	18	13	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12031272--12031319	24	2.0	24	87	0	69	33	4	2	60	1.27
12046212--12046267	28	2.0	28	100	0	112	28	10	21	39	1.87
12048220--12048260	22	1.9	21	85	5	55	19	2	14	63	1.41
12048812--12048870	22	2.7	22	86	0	73	42	8	15	33	1.77
12049812--12049848	3	12.3	3	100	0	74	67	0	0	32	0.91
12051060--12051092	17	1.9	17	93	0	57	21	3	0	75	0.93
12053454--12053487	12	2.8	12	81	0	50	47	0	26	26	1.53
12056358--12056509	23	6.5	22	84	7	133	11	24	21	43	1.85
12056359--12056483	46	2.7	47	83	6	155	11	23	21	44	1.84
12056382--12056528	69	2.1	71	87	9	214	12	23	20	44	1.85
12056379--12056528	46	3.2	44	80	12	142	12	22	21	44	1.85
12063720--12063911	23	8.3	23	85	6	239	12	22	21	43	1.86
12065960--12066165	104	2.0	103	82	6	247	36	17	14	31	1.89
12066404--12066471	26	2.7	26	77	11	77	69	1	7	22	1.22
12066506--12066603	30	3.3	30	81	2	117	40	4	24	30	1.74
12066521--12066614	30	3.2	31	77	8	97	36	3	22	38	1.70
12071969--12072021	21	2.5	21	75	6	54	35	24	13	26	1.92
12072075--12072137	21	2.8	22	71	17	58	46	23	4	25	1.72
12075987--12076029	22	1.9	23	86	13	63	69	0	2	27	1.00
12077019--12077069	2	25.5	2	100	0	102	0	49	0	50	1.00
12085990--12086093	16	6.4	16	75	15	83	34	1	0	62	1.13
12085956--12086012	29	1.9	30	82	10	73	38	1	1	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12085999--12086095	11	8.9	11	71	22	64	34	2	1	62	1.13
12090266--12090308	17	2.4	18	81	11	54	53	0	0	46	1.00
12091641--12091711	37	2.0	36	81	10	83	50	1	4	43	1.30
12091809--12091859	3	17.3	3	93	4	86	29	0	1	68	1.00
12096458--12096527	22	3.1	21	78	17	70	52	2	0	44	1.15
12096458--12096539	23	3.6	22	79	15	64	50	2	2	45	1.28
12096470--12096540	22	3.2	22	75	15	58	47	2	2	46	1.31
12096742--12096796	25	2.2	25	81	12	60	47	0	5	47	1.25
12112234--12112297	31	2.1	31	93	0	110	35	21	6	35	1.79
12112291--12112436	73	2.0	73	97	0	274	43	7	7	41	1.61
12117099--12117152	27	2.0	28	89	7	85	27	12	35	24	1.92
12117136--12117349	30	7.2	30	71	20	164	33	3	31	31	1.74
12117130--12117387	59	4.4	59	90	0	392	32	2	32	32	1.72
12117167--12117417	30	8.6	28	71	21	128	32	3	30	33	1.75
12118183--12118220	20	1.9	20	88	0	58	36	15	2	44	1.61
12118451--12118489	17	2.4	16	86	4	51	35	0	0	64	0.94
12119291--12119387	6	16.2	6	75	16	94	54	1	2	42	1.19
12119294--12119374	17	4.9	17	77	13	98	55	0	2	41	1.13
12119291--12119382	23	3.9	23	75	14	98	54	1	2	42	1.19
12119300--12119351	11	4.9	11	72	9	54	55	0	3	40	1.18
12120108--12120132	10	2.5	10	100	0	50	56	12	8	24	1.62
12121272--12121566	59	5.0	57	80	10	299	32	2	30	34	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12121293--12121564	29	9.2	29	69	16	173	31	2	30	34	1.70
12121492--12121594	29	3.5	30	74	21	92	35	2	25	35	1.71
12121264--12121593	60	5.6	59	80	11	327	32	2	30	34	1.72
12123739--12123856	23	5.0	23	82	11	150	11	25	22	39	1.88
12123739--12123856	48	2.5	46	86	8	166	11	25	22	39	1.88
12123821--12123895	39	1.9	39	91	0	123	12	22	21	44	1.85
12123855--12123948	23	4.0	23	75	16	86	11	25	19	43	1.84
12130181--12130298	23	5.0	23	82	11	150	11	25	22	39	1.88
12130181--12130298	48	2.5	46	86	8	166	11	25	22	39	1.88
12130263--12130337	39	1.9	39	91	0	123	12	22	21	44	1.85

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