genome.fa.s9.2.7.7.80.10.50.1000.33.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  33  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)
12793407--12793688	29	9.7	28	65	25	106	33	31	3	32	1.74
12793388--12793702	116	2.7	117	83	4	404	33	30	3	32	1.75
12795189--12795242	27	2.0	27	88	0	81	37	24	7	31	1.83
12795216--12795437	39	5.6	40	78	4	193	33	22	16	27	1.95
12795110--12795320	107	2.0	107	94	0	368	34	22	16	26	1.95
12795216--12795398	80	2.3	80	91	0	294	33	22	16	26	1.96
12796379--12796441	20	3.4	18	77	14	67	44	3	1	50	1.27
12798453--12798831	59	6.5	58	82	8	393	34	28	1	35	1.68
12798453--12798768	29	10.9	28	75	15	279	34	28	1	34	1.67
12798493--12798831	57	5.8	58	83	8	381	34	28	1	35	1.68
12800620--12800763	71	2.0	71	93	2	245	49	3	22	25	1.65
12810420--12810473	19	2.9	19	81	10	67	12	14	0	72	1.13
12810432--12810474	17	2.4	19	85	14	65	13	13	0	72	1.13
12813508--12813560	22	2.3	23	81	12	65	50	7	1	39	1.41
12813520--12813561	22	1.9	22	90	0	66	52	9	2	35	1.47
12815263--12815303	4	10.2	4	84	10	57	24	0	4	70	1.06
12815288--12815455	59	2.8	58	80	8	203	51	3	0	44	1.23
12815980--12818220	40	56.5	40	73	9	1291	26	18	24	31	1.97
12815980--12817956	79	24.9	79	81	5	1622	25	18	24	31	1.97
12816012--12817875	119	15.7	119	72	11	550	25	18	24	31	1.98
12816023--12818220	79	27.7	80	77	8	989	26	18	24	31	1.97
12818494--12818633	49	2.9	49	80	0	163	18	26	19	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12819517--12819563	21	2.2	22	88	11	71	0	21	0	78	0.75
12819515--12819570	22	2.5	24	83	13	75	1	19	0	78	0.84
12833468--12834095	200	3.1	200	90	0	934	35	19	23	21	1.96
12834540--12834607	27	2.5	27	87	0	100	36	26	17	19	1.94
12835299--12835385	9	9.1	9	71	15	59	51	2	3	42	1.31
12835351--12835387	18	2.1	18	94	0	65	51	0	2	45	1.15
12836127--12836228	33	3.2	33	76	16	99	25	13	3	56	1.54
12836465--12836636	29	5.9	29	71	18	108	34	27	4	34	1.76
12836496--12836601	30	3.6	31	75	21	111	34	24	2	37	1.70
12836467--12836609	59	2.4	58	89	4	216	34	27	3	34	1.74
12836467--12836627	59	2.7	59	83	7	204	35	25	3	35	1.74
12838302--12838410	57	1.9	58	87	7	161	53	2	0	43	1.21
12838302--12838415	56	2.0	56	85	9	153	53	2	0	42	1.20
12844247--12844286	20	2.0	21	90	5	64	47	10	0	42	1.37
12849930--12849967	18	2.1	18	90	9	60	23	10	15	50	1.75
12855195--12855269	38	2.0	38	84	5	98	37	14	8	40	1.76
12858514--12858574	24	2.5	24	76	12	70	60	3	0	36	1.13
12862626--12862676	16	3.1	15	79	17	57	66	1	0	31	1.03
12864878--12864947	23	3.0	23	85	2	95	28	11	17	42	1.83
12864930--12864976	23	2.0	23	84	8	60	44	8	12	34	1.73
12867810--12867845	13	2.8	13	82	0	54	27	0	5	66	1.13
12867810--12867861	26	2.0	26	88	0	77	26	0	9	63	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12870076--12870128	17	3.0	18	88	5	81	30	11	16	41	1.84
12872883--12872976	41	2.3	42	86	1	127	21	27	26	24	1.99
12898244--12898277	11	2.9	12	86	8	52	11	5	2	79	1.02
12900023--12900064	22	1.9	22	95	0	75	69	4	2	23	1.20
12913550--12913574	1	25.0	1	100	0	50	0	0	100	0	0.00
12916574--12916615	18	2.2	20	87	8	61	61	7	0	30	1.22
12916571--12916624	20	2.7	19	83	11	65	59	7	0	33	1.25
12916606--12916652	24	2.0	24	91	0	76	55	2	0	42	1.12
12916566--12916657	18	5.2	18	71	17	59	61	4	0	33	1.15
12917728--12917933	59	3.5	58	82	5	220	38	4	25	31	1.76
12917800--12917900	29	3.5	28	78	16	116	36	2	24	35	1.71
12917786--12917933	58	2.5	59	85	5	203	39	3	25	32	1.72
12917800--12917943	29	5.0	28	76	13	114	36	2	27	33	1.71
12917886--12917949	31	2.1	32	85	11	89	39	4	26	29	1.76
12917886--12917963	31	2.6	29	80	12	77	35	3	25	34	1.74
12919160--12919205	6	7.5	6	85	4	65	47	2	0	50	1.13
12919608--12919667	25	2.4	25	85	0	66	23	8	45	23	1.80
12919895--12919995	6	17.0	6	74	13	93	48	1	1	47	1.24
12919920--12919973	13	3.8	13	77	17	63	46	3	0	50	1.19
12919895--12919990	30	3.2	30	94	1	158	47	2	2	47	1.25
12919903--12919993	17	5.8	17	75	19	90	50	2	1	46	1.20
12922149--12922191	23	1.9	23	86	13	63	58	4	4	32	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12934351--12934413	31	2.0	31	100	0	126	31	9	9	49	1.68
12935322--12935368	14	3.3	14	77	16	51	25	4	2	68	1.19
12937003--12937039	2	18.5	2	100	0	74	51	48	0	0	1.00
12942882--12942923	21	2.0	22	85	4	59	21	0	4	73	1.01
12945776--12945819	22	2.0	23	86	13	65	2	22	2	72	1.07
12947376--12947410	2	17.5	2	100	0	70	48	0	0	51	1.00
12951742--12951790	15	3.1	15	76	5	53	55	2	0	42	1.11
12953909--12953933	2	12.5	2	100	0	50	52	0	0	48	1.00
12954151--12954261	57	1.9	57	90	0	177	25	18	14	42	1.87
12955472--12955522	18	2.9	18	72	13	52	50	5	1	41	1.37
12965339--12965381	11	4.2	10	80	13	52	65	0	0	34	0.93
12965332--12965381	22	2.3	21	80	16	66	64	0	0	36	0.94
12965332--12965381	21	2.3	21	83	10	66	64	0	0	36	0.94
12965779--12965824	23	2.0	24	82	4	58	39	10	8	41	1.71
12968721--12968802	31	2.6	31	83	7	96	51	12	8	28	1.68
12970191--12970232	19	2.2	19	83	8	50	66	4	2	26	1.23
12973158--12973200	14	3.1	14	80	12	61	32	0	0	67	0.91
12975185--12975225	12	3.3	12	86	6	64	53	2	0	43	1.13
12978361--12978390	13	2.3	13	100	0	60	23	30	16	30	1.96
12983937--12984000	32	2.0	32	84	6	85	18	21	0	59	1.38
12984997--12985040	22	2.0	23	86	4	63	38	4	6	50	1.50
12990664--12990838	51	3.4	51	91	0	287	30	16	22	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12991615--12991674	21	2.9	21	79	0	66	40	11	20	28	1.87
13001479--13001544	9	7.0	9	73	19	55	25	1	3	69	1.11
13001479--13001541	18	3.3	18	77	16	65	23	1	3	71	1.09
13001480--13001545	19	3.5	20	79	8	75	27	1	3	68	1.13
13001552--13001602	19	2.6	19	84	9	59	37	1	7	52	1.42
13006600--13006624	7	3.6	7	100	0	50	84	0	16	0	0.63
13007285--13007421	58	2.3	59	81	8	145	45	8	2	43	1.50
13007739--13007780	21	2.0	21	90	0	66	19	0	14	66	1.25
13007838--13007870	16	2.1	16	94	0	57	21	0	27	51	1.48
13014508--13014810	149	2.0	148	99	0	597	50	9	8	31	1.66
13019109--13019318	29	7.2	29	75	11	133	30	3	27	37	1.75
13019125--13019298	29	5.9	29	78	14	178	32	2	27	36	1.72
13019125--13019322	59	3.4	58	77	10	192	32	3	28	36	1.73
13019125--13019389	30	9.0	29	75	14	145	33	3	26	36	1.74
13020449--13020492	6	6.7	6	80	19	52	43	0	0	56	0.99
13022016--13022150	40	3.4	38	73	12	96	30	28	20	21	1.98
13022048--13022151	37	2.7	38	76	5	93	31	26	19	22	1.97
13023004--13023085	13	6.6	12	74	16	60	51	1	1	46	1.16
13028146--13028280	40	3.4	38	73	12	96	30	28	20	21	1.98
13028178--13028281	37	2.7	38	76	5	93	31	26	19	22	1.97
13029134--13029215	13	6.6	12	74	16	60	51	1	1	46	1.16
13029576--13029623	6	8.2	6	79	4	53	54	2	0	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13029576--13029651	17	4.4	17	79	1	89	55	3	0	40	1.18
13029597--13029652	28	2.0	28	86	6	78	55	5	0	39	1.23
13029576--13029651	34	2.2	35	88	2	109	55	3	0	40	1.18
13030741--13030792	19	2.9	18	76	15	54	67	5	0	26	1.13
13030749--13030794	19	2.4	19	82	7	58	67	4	0	28	1.10
13038034--13038078	18	2.5	18	77	0	54	48	2	0	48	1.13
13045596--13045656	31	2.0	31	93	0	104	44	4	8	42	1.55
13045592--13045677	31	2.8	31	83	3	84	44	4	5	45	1.48
13052147--13052245	23	4.4	22	83	5	101	38	26	23	12	1.90
13057966--13058019	23	2.3	24	75	9	58	33	11	7	48	1.67

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