genome.fa.s3.2.7.7.80.10.50.1000.27.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  27  of  171  ( 20472 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)
12394611--12394709	30	3.1	31	81	16	114	40	5	0	54	1.22
12396808--12396865	18	3.5	18	66	22	54	43	3	0	53	1.17
12396801--12396842	22	1.9	23	90	9	70	42	4	0	52	1.22
12396802--12396860	31	2.0	29	93	6	100	44	3	0	52	1.17
12402306--12402335	15	2.0	15	100	0	60	53	0	0	46	1.00
12404895--12404925	16	1.9	16	93	0	53	32	12	0	54	1.38
12406171--12406219	27	1.9	24	84	12	62	22	16	38	22	1.92
12414860--12414896	2	18.5	2	94	0	65	48	2	0	48	1.15
12439328--12439389	13	5.2	12	73	21	51	43	0	1	54	1.09
12444613--12444637	3	8.3	3	100	0	50	0	36	0	64	0.94
12445328--12445368	21	2.0	21	85	9	57	43	21	0	34	1.53
12456435--12456583	53	2.9	49	77	8	145	25	26	16	32	1.96
12456435--12456583	49	2.9	48	80	14	140	25	26	16	32	1.96
12456493--12456679	97	1.9	95	80	11	209	27	21	13	37	1.91
12469864--12469933	30	2.3	30	82	0	86	28	8	4	58	1.47
12470753--12470943	61	3.1	61	86	6	271	34	18	21	25	1.96
12471362--12471418	11	5.2	11	73	0	51	22	7	3	66	1.31
12482494--12482535	18	2.3	18	87	0	57	4	4	71	19	1.22
12482604--12482652	15	3.3	15	79	0	53	10	4	67	18	1.36
12483897--12483935	17	2.2	18	86	9	53	28	2	2	66	1.18
12493806--12493931	63	2.0	63	100	0	252	28	26	20	23	1.99
12495384--12495454	23	3.1	21	79	18	63	50	4	2	42	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12495429--12495476	20	2.4	20	73	13	53	41	8	6	43	1.60
12499144--12499186	15	2.8	16	82	10	54	25	2	6	65	1.30
12499993--12500048	25	2.2	25	83	3	67	58	1	3	35	1.26
12535927--12536033	37	2.9	36	77	14	96	41	1	2	54	1.26
12535927--12536002	11	6.8	11	75	19	61	40	1	1	56	1.16
12536188--12536239	22	2.5	20	75	9	50	48	0	3	48	1.20
12539042--12539075	17	2.0	17	100	0	68	29	11	23	35	1.90
12539891--12539925	7	5.0	7	100	0	70	42	28	0	28	1.56
12552152--12552194	22	1.9	24	81	13	56	48	2	9	39	1.48
12554424--12554520	51	1.9	51	87	4	142	42	16	5	36	1.71
12555271--12555325	2	27.5	2	100	0	110	49	0	0	50	1.00
12558916--12558955	20	2.0	20	85	0	53	30	0	5	65	1.14
12578977--12579036	22	2.7	22	75	10	59	48	1	3	46	1.28
12586604--12586628	6	4.2	6	100	0	50	48	32	0	20	1.50
12588258--12588297	6	6.8	6	86	13	57	0	30	0	70	0.88
12590668--12590717	7	7.1	7	100	0	100	14	58	14	14	1.65
12593756--12593799	14	2.8	16	86	13	56	65	4	25	4	1.30
12608120--12608160	20	1.9	21	85	14	57	21	34	0	43	1.53
12613581--12613623	23	2.0	21	81	9	50	37	6	18	37	1.78
12616614--12616778	80	2.1	80	83	4	208	30	25	20	23	1.98
12616822--12617024	79	2.5	80	88	5	304	31	26	20	21	1.98
12626067--12626112	23	2.0	23	91	0	74	43	13	15	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12628279--12628305	1	27.0	1	100	0	54	0	0	100	0	0.00
12628860--12628929	23	3.0	24	85	10	92	38	18	11	31	1.86
12632831--12632893	26	2.3	28	81	5	76	38	0	0	61	0.96
12632971--12633013	15	2.7	16	82	10	52	62	2	0	34	1.08
12632983--12633021	15	2.6	15	91	0	60	61	0	0	38	0.96
12634665--12634735	28	2.4	29	83	6	90	30	15	11	42	1.82
12634686--12634751	28	2.4	28	82	7	80	30	15	16	37	1.90
12635839--12635868	1	30.0	1	93	0	51	0	3	0	96	0.21
12637753--12637778	6	4.3	6	100	0	52	50	0	0	50	1.00
12642877--12642917	15	2.5	17	80	11	59	65	0	0	34	0.93
12642868--12642944	25	3.1	24	75	7	73	57	0	1	41	1.07
12644810--12644893	44	1.9	44	97	0	159	30	13	19	36	1.89
12654993--12655026	17	2.0	16	88	11	50	70	2	0	26	1.01
12656510--12656546	2	18.5	2	100	0	74	51	0	0	48	1.00
12660610--12660646	19	1.9	19	94	0	65	45	0	2	51	1.15
12660695--12660745	16	3.2	16	70	10	50	50	1	0	47	1.12
12663025--12663109	31	2.8	29	82	8	98	38	3	8	49	1.50
12663036--12663109	31	2.4	30	84	4	103	37	2	8	51	1.46
12663057--12663117	31	2.0	31	83	0	77	39	3	6	50	1.45
12677064--12677088	1	25.0	1	100	0	50	0	100	0	0	0.00
12678181--12678261	40	2.1	40	88	9	123	33	20	12	33	1.90
12680991--12681040	7	6.9	7	88	8	66	12	2	4	82	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12684270--12684296	13	2.1	13	100	0	54	14	22	7	55	1.64
12687751--12689037	428	3.0	427	92	1	2119	36	16	11	35	1.85
12688580--12688607	3	9.3	3	100	0	56	67	0	0	32	0.91
12688626--12688686	25	2.4	26	78	15	65	50	4	1	42	1.33
12689012--12689038	3	9.0	3	100	0	54	33	0	0	66	0.92
12710949--12710984	3	11.7	3	94	5	63	69	0	30	0	0.89
12710948--12710981	16	2.1	16	100	0	68	70	0	29	0	0.87
12710949--12710985	19	1.9	19	100	0	74	70	0	29	0	0.88
12717150--12717175	3	8.7	3	100	0	52	30	0	0	69	0.89
12717456--12717509	21	2.6	21	78	0	72	61	12	3	22	1.47
12722748--12722773	13	2.0	13	100	0	52	53	7	0	38	1.30
12723706--12723733	5	5.6	5	100	0	56	39	17	21	21	1.93
12733550--12733596	25	1.9	25	82	4	60	44	4	4	46	1.42
12744126--12744163	15	2.5	15	87	8	51	36	2	0	60	1.11
12744149--12744205	30	1.9	30	85	3	80	43	3	3	49	1.36
12744154--12744226	29	2.5	30	82	6	78	42	1	4	52	1.29
12745132--12745181	20	2.5	20	80	6	57	52	8	0	40	1.31
12750318--12750366	20	2.5	20	80	6	55	53	8	0	38	1.31
12750576--12750615	21	2.0	20	85	5	53	25	25	7	42	1.80
12753054--12753150	47	2.1	47	98	0	185	27	8	25	38	1.84
12754936--12754967	15	2.1	16	94	5	57	71	0	0	28	0.86
12755426--12755490	30	2.2	30	97	0	121	23	3	15	58	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12757947--12758005	24	2.5	24	94	0	100	15	16	38	28	1.89
12758867--12758892	13	2.0	13	100	0	52	61	0	0	38	0.96
12770572--12770610	16	2.4	16	91	0	60	33	2	30	33	1.72
12770887--12770935	19	2.7	18	78	12	55	57	0	2	40	1.10
12774840--12774868	12	2.4	12	100	0	58	6	48	31	13	1.69
12774840--12774886	15	3.3	15	85	8	55	4	51	29	14	1.62
12799290--12799321	11	2.9	11	90	0	55	34	9	18	37	1.83
12811151--12811354	84	2.4	86	82	6	245	25	22	20	31	1.98
12807018--12811448	43	104.6	43	76	3	2834	24	19	21	34	1.96
12811772--12811821	18	2.8	18	84	0	64	52	0	0	48	1.00
12813857--12813976	43	2.9	40	81	9	150	27	19	22	30	1.98
12813887--12818886	213	23.5	214	73	9	2281	23	15	22	38	1.92
12813887--12818886	43	117.3	43	76	5	2730	23	15	22	38	1.92
12819361--12819400	11	4.1	10	81	18	57	35	0	0	65	0.93
12819341--12819400	29	2.0	29	84	9	77	28	0	1	70	0.97
12819766--12819818	22	2.4	22	76	17	56	64	5	1	28	1.27
12826308--12826340	9	3.7	9	91	0	57	0	30	9	60	1.27
12836144--12836337	23	8.4	22	75	14	151	42	22	23	11	1.86
12836188--12836337	23	6.4	23	83	6	185	44	22	22	11	1.84
12836144--12836333	71	2.7	68	83	12	210	43	22	22	12	1.86
12838604--12838654	12	4.4	11	75	22	50	19	0	5	74	1.02
12839438--12839472	16	2.2	16	94	0	61	8	5	5	80	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12870789--12870844	26	2.2	26	87	3	78	60	16	1	21	1.44
12871981--12872041	23	2.6	23	87	7	79	40	4	1	52	1.33
12872802--12872835	2	17.0	2	100	0	68	50	0	0	50	1.00
12877707--12877747	19	2.2	19	86	8	57	56	4	2	36	1.34
12886743--12886774	2	16.0	2	93	0	55	53	0	46	0	1.00
12903693--12903757	30	2.2	30	94	0	112	21	1	15	61	1.42
12914512--12914552	3	13.7	3	100	0	82	31	0	0	68	0.90
12935605--12935680	38	2.0	37	82	14	93	40	6	5	47	1.52
12955209--12955234	6	4.3	6	100	0	52	30	15	34	19	1.93
12957188--12957224	18	2.1	18	100	0	74	27	21	21	29	1.99

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