genome.fa.s3.2.7.7.80.10.50.1000.29.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  29  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)
13330249--13330300	18	2.8	19	82	11	81	46	0	28	25	1.53
13330402--13330502	38	2.6	40	71	10	100	21	19	28	29	1.98
13337146--13337185	19	2.1	19	85	0	53	37	2	5	55	1.35
13338544--13338593	25	2.0	25	100	0	100	28	16	24	32	1.96
13348426--13348459	7	4.9	7	88	0	50	41	8	29	20	1.82
13349204--13349253	3	16.3	3	95	4	91	66	0	34	0	0.92
13361099--13361169	22	3.2	22	95	2	124	9	23	26	39	1.86
13361078--13361186	45	2.4	47	80	13	129	12	26	23	36	1.91
13361111--13361194	22	3.6	25	90	6	74	11	26	26	35	1.91
13368171--13368205	12	2.9	12	86	0	52	11	2	51	34	1.53
13368681--13368733	26	2.0	26	100	0	106	50	0	7	41	1.30
13371381--13371435	22	2.5	22	90	0	83	63	5	9	21	1.44
13372819--13372862	24	2.0	22	82	13	54	38	29	13	18	1.89
13392716--13392897	90	2.0	90	97	0	346	39	13	12	35	1.82
13394170--13394566	54	7.2	54	72	12	231	28	16	16	39	1.90
13394170--13394566	108	3.6	107	79	9	329	28	16	16	39	1.90
13394298--13394566	110	2.4	111	85	6	346	28	17	14	39	1.89
13394463--13394899	60	7.4	60	77	11	368	29	18	14	37	1.91
13394497--13394893	59	6.8	58	76	15	211	30	18	14	36	1.91
13394287--13394894	112	5.3	117	77	11	435	28	17	15	37	1.91
13395591--13395624	17	2.0	17	94	0	59	67	0	32	0	0.91
13396357--13396457	38	2.6	40	73	10	109	21	20	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13396381--13396461	37	2.2	38	81	2	92	22	20	25	30	1.98
13399793--13399961	23	7.3	23	82	7	166	42	21	24	11	1.86
13399839--13399961	46	2.7	46	88	2	185	43	21	23	11	1.85
13399793--13399937	69	2.1	66	86	10	193	43	20	23	12	1.86
13400977--13401042	17	3.9	18	69	25	54	7	33	4	54	1.49
13407154--13407322	23	7.3	23	81	7	157	43	20	24	11	1.85
13407200--13407322	46	2.7	46	87	5	178	43	21	23	11	1.84
13407154--13407298	69	2.1	66	85	10	184	44	20	23	12	1.85
13410630--13410668	18	2.0	20	85	9	55	38	7	0	53	1.30
13410490--13410649	79	2.0	79	90	4	250	45	8	0	46	1.34
13410735--13410793	22	2.7	22	75	0	64	37	38	5	18	1.73
13411422--13411566	23	6.3	23	77	9	118	43	20	24	11	1.85
13411422--13411565	69	2.1	66	83	12	175	43	20	24	11	1.85
13414120--13414160	20	2.0	20	95	0	73	29	7	4	58	1.46
13414183--13414207	13	1.9	13	100	0	50	36	8	0	56	1.29
13414353--13414377	13	1.9	13	100	0	50	36	8	0	56	1.29
13414364--13414419	21	2.7	20	70	8	58	41	10	3	44	1.56
13414104--13414457	170	2.1	170	88	2	534	37	6	4	51	1.48
13415016--13415069	24	2.2	24	83	0	72	27	37	25	9	1.87
13415493--13415613	30	4.1	30	83	2	154	27	6	3	62	1.35
13416443--13417129	62	11.7	58	76	11	444	38	15	18	27	1.90
13416443--13417191	60	12.7	59	76	11	391	38	15	18	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13416470--13416963	60	8.2	61	79	9	475	39	15	17	27	1.89
13416853--13417238	53	7.0	51	73	14	229	38	16	18	26	1.92
13416852--13417239	111	3.5	111	78	13	359	38	16	18	26	1.92
13416849--13417129	112	2.5	111	83	9	363	38	15	18	27	1.91
13419451--13419501	25	2.0	24	82	14	59	21	0	5	72	1.05
13420430--13420501	36	2.0	36	100	0	144	13	11	19	55	1.68
13427741--13427800	30	2.0	30	96	0	111	36	10	11	41	1.75
13432987--13433038	18	3.0	18	81	10	56	51	0	1	46	1.12
13442767--13442817	3	17.3	3	91	4	86	62	0	1	35	1.06
13451524--13451574	26	2.0	26	88	0	75	50	9	21	17	1.74
13453713--13453854	71	2.0	71	98	0	275	33	13	11	41	1.80
13457369--13457435	36	2.0	32	83	13	82	50	1	5	41	1.36
13458695--13458739	20	2.2	20	88	0	63	44	2	0	53	1.13
13470180--13470258	40	2.0	40	100	0	158	40	10	22	26	1.86
13477304--13477352	25	2.0	24	88	4	71	40	4	8	46	1.52
13486571--13486628	27	2.2	27	93	6	102	29	0	18	51	1.47
13489341--13489412	31	2.3	31	80	7	83	61	4	2	31	1.29
13495067--13495154	42	2.1	42	89	0	131	50	19	0	30	1.48
13498128--13498255	59	2.2	54	80	14	132	37	6	17	38	1.76
13499776--13499839	27	2.3	28	84	7	78	25	25	20	29	1.99
13499777--13499830	14	3.9	14	82	4	65	25	25	20	27	1.99
13500021--13500059	14	2.6	15	88	8	53	35	7	2	53	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13500506--13500546	20	2.0	20	100	0	82	34	26	14	24	1.94
13501380--13501458	20	3.9	20	77	9	88	6	6	20	67	1.36
13501498--13501616	12	10.2	12	71	5	84	10	5	16	67	1.39
13517615--13517645	16	1.9	16	93	0	53	6	3	9	80	0.99
13521874--13522110	118	2.0	118	97	0	447	43	15	16	24	1.86
13533001--13533027	3	9.0	3	100	0	54	33	0	0	66	0.92
13538617--13538716	34	3.0	34	89	1	139	39	16	9	36	1.80
13554238--13554262	3	8.3	3	100	0	50	0	0	32	68	0.90
13556471--13556495	1	25.0	1	100	0	50	100	0	0	0	0.00
13561711--13561740	14	2.1	14	93	0	51	86	0	3	10	0.67
13562073--13562099	5	5.4	5	100	0	54	0	59	0	40	0.98
13573676--13573718	18	2.5	17	85	7	59	27	6	9	55	1.57
13588045--13588070	6	4.3	6	100	0	52	84	0	0	15	0.62
13590147--13590209	31	2.0	31	84	6	83	46	11	14	28	1.78
13600501--13600623	60	2.0	60	100	0	246	33	4	43	17	1.71
13606700--13606773	29	2.6	28	85	6	94	36	0	2	60	1.11
13609160--13609195	9	3.9	10	82	17	51	38	11	16	33	1.84
13609163--13609202	18	2.2	18	86	4	53	40	17	15	27	1.89
13631115--13631606	129	3.8	129	93	0	822	25	21	21	31	1.98
13634762--13634794	15	2.1	17	88	11	52	18	0	9	72	1.10
13638856--13638915	21	2.8	20	74	18	59	53	1	3	41	1.27
13643045--13643097	16	3.3	16	83	0	70	52	5	3	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13643043--13643103	32	1.9	32	86	3	88	52	8	3	36	1.48
13643385--13643419	16	2.1	17	89	5	54	37	2	8	51	1.47
13651281--13651365	44	2.0	43	83	2	107	17	29	18	34	1.94
13653552--13653586	18	1.9	18	88	0	52	34	0	0	65	0.93
13669306--13669351	6	7.4	7	92	7	50	65	0	34	0	0.93
13669313--13669351	3	12.7	3	94	5	69	66	0	33	0	0.92
13671256--13671294	2	19.5	2	100	0	78	0	48	0	51	1.00
13677621--13677763	6	24.3	6	76	18	54	15	2	70	11	1.25
13677657--13677824	42	4.1	41	72	13	123	18	0	67	13	1.27
13677697--13677736	13	3.2	13	89	10	66	15	0	85	0	0.61
13677691--13677739	19	2.8	17	90	6	71	16	0	81	2	0.78
13677616--13677796	36	4.9	37	73	11	113	15	1	70	12	1.24
13682024--13682080	12	4.8	12	76	4	53	68	22	5	3	1.25
13682031--13682095	23	2.8	23	83	4	87	63	23	9	4	1.43
13682024--13682092	35	2.0	35	82	5	86	65	24	7	2	1.32
13682899--13682949	22	2.4	20	80	9	57	58	0	1	39	1.09
13687731--13687791	31	2.0	31	87	6	88	47	4	6	40	1.51
13687723--13687791	31	2.2	31	84	5	84	46	4	5	43	1.47
13687779--13687835	29	1.9	30	89	3	89	43	8	7	40	1.63
13687783--13687848	29	2.2	29	81	8	69	45	9	7	37	1.64
13693078--13693107	14	2.1	14	93	0	51	70	3	6	20	1.25
13694544--13694755	31	6.9	30	73	12	137	42	2	19	35	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13694549--13694777	30	7.6	31	76	13	167	44	2	17	36	1.62
13698079--13698111	16	2.1	16	88	11	50	63	24	0	12	1.28
13698079--13698112	17	2.1	16	88	5	50	64	23	0	11	1.26
13704027--13704220	57	3.4	57	82	3	212	29	17	10	42	1.82
13704027--13704247	57	3.9	56	79	9	139	29	19	9	41	1.83
13704027--13704260	115	2.0	114	80	8	253	32	18	8	40	1.81
13704254--13704326	27	2.7	25	73	23	67	60	1	0	38	1.06
13704262--13704359	41	2.4	42	88	8	141	57	1	0	41	1.05
13704268--13704343	30	2.5	29	78	19	84	59	1	0	39	1.06
13704269--13704343	20	3.7	21	73	5	73	58	1	0	40	1.06

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