genome.fa.s3.2.7.7.80.10.50.1000.42.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  42  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)
18328881--18328922	13	3.1	14	83	13	52	69	11	9	9	1.38
18328887--18328930	13	3.2	13	84	15	54	75	6	9	9	1.20
18330518--18330605	31	2.8	30	80	10	97	56	1	1	40	1.14
18331250--18331310	24	2.5	24	79	12	79	45	1	1	50	1.21
18331821--18331856	16	2.1	18	90	10	58	44	2	0	52	1.15
18332900--18332962	29	2.2	29	80	11	76	61	3	6	28	1.36
18336737--18336810	31	2.4	32	80	15	84	59	2	0	37	1.12
18337109--18337156	24	2.0	24	87	0	69	18	18	18	43	1.88
18339759--18339792	17	1.9	18	94	5	61	17	0	2	79	0.86
18339672--18339919	96	2.6	95	82	5	270	27	7	8	56	1.56
18340759--18340849	31	2.9	31	85	8	121	49	2	6	41	1.41
18341399--18341508	53	2.1	53	89	3	170	55	6	12	25	1.61
18346213--18346376	28	5.7	30	83	9	150	35	3	26	34	1.74
18346246--18346395	30	5.1	31	82	13	167	37	3	26	33	1.73
18346246--18346395	58	2.5	57	83	13	180	37	3	26	33	1.73
18348173--18348235	17	3.7	17	85	4	65	57	1	3	38	1.24
18350719--18350757	18	2.1	19	85	4	53	79	5	15	0	0.90
18356238--18356266	5	5.8	5	100	0	58	20	17	20	41	1.90
18361951--18361990	3	13.3	3	100	0	80	65	0	35	0	0.93
18367430--18367470	2	20.5	2	100	0	82	0	48	0	51	1.00
18367470--18367514	2	22.5	2	100	0	90	48	0	0	51	1.00
18367501--18367579	38	2.0	40	80	9	92	56	6	3	32	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18367979--18368102	28	4.4	27	73	16	92	64	4	2	29	1.24
18368029--18368095	19	3.6	18	72	11	64	64	4	0	31	1.14
18368746--18368793	20	2.4	21	86	6	73	52	0	4	43	1.20
18368746--18368837	20	4.7	19	75	12	55	58	1	3	36	1.21
18369576--18369613	20	1.9	20	88	0	58	44	0	5	50	1.24
18369577--18369619	20	2.2	20	83	4	52	44	2	4	48	1.36
18369628--18369686	19	3.0	19	69	16	57	30	1	3	64	1.20
18369628--18369707	41	2.0	39	95	4	142	31	2	3	62	1.26
18379481--18379549	30	2.3	30	76	11	70	52	10	4	33	1.55
18382330--18382391	20	3.1	20	83	0	79	38	6	6	48	1.55
18382905--18382955	18	2.7	19	78	6	59	41	0	1	56	1.10
18387679--18387713	18	1.9	18	94	0	61	48	2	2	45	1.32
18387655--18387708	28	1.9	28	85	7	74	44	3	3	48	1.38
18387938--18387997	29	2.1	29	83	0	75	28	10	13	48	1.74
18388823--18388862	21	2.0	21	90	5	64	62	0	5	32	1.17
18389835--18389917	22	3.6	21	75	21	85	43	2	0	54	1.13
18389848--18389962	28	4.3	28	84	12	179	51	0	0	47	1.06
18389835--18389945	50	2.2	49	98	1	213	45	1	0	53	1.11
18389875--18389917	22	2.0	22	100	0	86	46	2	0	51	1.13
18390816--18390863	3	16.0	3	95	0	87	33	2	0	64	1.05
18391367--18391398	16	2.0	16	93	0	55	31	28	0	40	1.57
18417025--18417108	38	2.2	38	97	2	159	30	17	25	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18418651--18418690	19	2.1	19	100	0	80	20	0	35	45	1.51
18421941--18421993	18	3.0	17	76	13	54	45	3	0	50	1.19
18422342--18422374	16	1.9	18	88	11	52	15	18	0	66	1.25
18422918--18422946	6	4.8	6	100	0	58	51	0	34	13	1.42
18423606--18423656	16	3.2	16	76	13	52	60	0	17	21	1.36
18423924--18423953	9	3.4	9	90	9	53	10	10	0	80	0.92
18434318--18434382	20	3.4	18	76	21	62	23	13	6	56	1.59
18434560--18434603	17	2.5	17	81	7	52	22	18	0	59	1.38
18436729--18436778	18	2.7	19	78	9	59	64	2	6	28	1.28
18436974--18437022	20	2.2	21	79	17	55	67	4	4	24	1.26
18437054--18437155	15	7.1	14	70	11	64	69	5	2	21	1.23
18437012--18437164	67	2.3	66	79	8	148	67	5	3	22	1.27
18437132--18437183	11	4.5	11	77	15	52	67	5	1	25	1.23
18437302--18437392	15	5.7	15	68	25	53	69	4	3	23	1.22
18437248--18437392	29	5.3	26	70	21	84	66	4	4	24	1.28
18437443--18437485	16	2.8	16	82	3	52	74	6	2	16	1.14
18437508--18437536	3	9.7	3	100	0	58	68	0	0	31	0.89
18438558--18438602	3	15.7	3	86	9	67	68	0	2	28	1.01
18438910--18438970	25	2.5	25	82	15	74	63	1	8	26	1.31
18440389--18440471	29	2.9	29	88	0	85	46	12	13	27	1.78
18440403--18440465	23	2.7	24	75	4	67	49	12	12	25	1.76
18449622--18449656	3	11.7	3	100	0	70	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18452740--18452793	16	3.2	16	80	15	65	37	1	0	61	1.07
18454768--18455125	30	12.1	30	79	7	333	38	21	2	37	1.66
18454768--18455103	59	5.7	59	83	5	358	39	21	2	37	1.65
18454802--18455256	118	3.8	117	77	10	306	37	21	4	37	1.73
18466962--18466999	20	1.9	20	94	0	67	36	23	18	21	1.95
18467213--18467990	92	8.5	92	94	2	1374	32	15	19	31	1.94
18467213--18467990	275	2.8	274	95	1	1377	32	15	19	31	1.94
18468252--18468294	17	2.6	17	88	3	61	48	0	0	51	1.00
18470274--18470600	29	11.1	30	75	11	236	39	23	2	34	1.68
18470278--18470599	118	2.7	118	81	7	323	39	22	2	35	1.68
18470698--18470759	28	2.2	28	82	5	81	33	27	9	29	1.88
18474001--18474057	6	9.7	6	81	11	64	49	0	3	47	1.18
18474003--18474070	17	3.9	17	82	5	75	48	0	2	48	1.16
18475791--18476026	29	7.9	29	76	11	187	38	19	1	39	1.62
18475789--18476027	59	4.0	59	83	7	272	38	19	1	40	1.61
18475791--18476137	29	11.8	29	70	19	134	36	21	2	39	1.66
18475979--18476156	58	3.1	58	80	6	218	33	25	2	38	1.71
18475979--18476225	116	2.1	117	82	8	290	32	25	3	38	1.74
18476000--18476231	58	4.0	58	78	10	208	31	26	4	37	1.77
18487760--18488326	50	11.5	50	69	10	326	41	20	24	13	1.88
18487761--18488326	101	5.8	100	84	8	712	41	20	24	13	1.88
18487760--18488326	203	2.9	190	86	7	725	41	20	24	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18487954--18488326	187	2.0	188	89	2	579	41	19	25	13	1.88
18488144--18488353	100	2.1	98	85	6	271	41	19	24	14	1.88
18488729--18488791	11	5.7	11	79	7	74	44	0	1	53	1.10
18488732--18488790	17	3.6	16	90	6	91	40	0	1	57	1.09
18488740--18488794	23	2.4	23	90	0	83	41	0	1	56	1.10
18489744--18489804	23	2.6	23	92	7	97	55	1	19	22	1.52
18490498--18490585	30	3.0	29	74	12	81	37	23	1	37	1.63
18490495--18490564	30	2.3	30	82	4	88	37	25	1	35	1.65
18490549--18490842	58	5.1	58	84	8	325	31	27	2	37	1.71
18490567--18490731	29	5.7	29	69	21	105	32	27	2	37	1.70
18490495--18490804	29	10.7	29	65	24	104	34	27	2	36	1.70
18490549--18490838	117	2.5	117	82	7	326	32	28	2	36	1.72
18500337--18500370	13	2.6	13	90	0	50	47	26	0	26	1.53
18499790--18500941	584	2.0	585	98	0	2236	41	13	11	32	1.82
18510908--18510947	2	20.5	2	89	5	64	52	47	0	0	1.00
18519543--18519579	2	18.5	2	100	0	74	48	0	0	51	1.00
18520735--18520786	24	2.2	24	86	6	70	51	0	0	48	1.00
18529501--18529593	34	2.7	34	86	3	125	18	27	2	51	1.57
18530657--18530707	26	2.0	26	88	0	75	37	13	0	49	1.43
18538746--18538886	73	1.9	73	100	0	282	23	7	21	46	1.77
18550089--18550149	18	3.4	18	78	10	54	62	0	1	36	1.05
18574096--18574123	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18577225--18577257	14	2.4	14	90	10	50	69	0	30	0	0.88
18587238--18587287	23	2.2	23	80	20	61	34	2	2	62	1.18
18597286--18597325	18	2.2	18	86	4	53	47	2	0	50	1.14
18599322--18599380	29	2.0	30	83	3	75	47	18	5	28	1.70
18600317--18600815	48	9.5	53	80	11	261	29	47	6	16	1.72
18600303--18600815	166	3.3	160	84	9	593	29	47	7	15	1.72
18600403--18600908	48	10.3	48	85	8	573	30	49	6	14	1.69
18607398--18607428	8	3.9	8	100	0	62	61	12	12	12	1.58
18618128--18618163	18	2.0	18	100	0	72	44	16	16	22	1.86
18624197--18624268	17	4.2	17	80	7	83	44	1	1	52	1.18

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