genome.fa.s4.2.7.7.80.10.50.1000.178.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  178  of  193  ( 23090 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)
55592103--55592157	23	2.5	22	80	13	60	60	7	3	29	1.41
55595303--55595334	16	2.0	16	93	0	55	53	0	3	43	1.16
55595729--55595802	28	2.6	27	79	12	87	63	1	0	35	1.03
55595766--55595804	9	3.9	10	83	12	53	64	0	0	35	0.94
55599107--55599158	26	2.0	25	88	3	77	36	11	26	25	1.90
55607997--55608023	14	1.9	14	100	0	54	33	37	7	22	1.82
55610550--55610588	13	2.9	13	81	7	51	48	5	5	41	1.47
55619342--55619519	88	2.0	88	98	0	347	29	27	12	30	1.93
55623227--55623626	137	2.9	137	90	2	613	48	5	4	41	1.48
55630025--55630079	2	29.5	2	78	14	55	50	0	0	49	1.00
55630024--55630079	25	2.2	25	78	6	60	50	0	0	50	1.00
55630370--55631019	323	2.0	322	98	0	1248	40	8	18	32	1.81
55634221--55634293	10	7.5	10	70	21	57	57	2	0	39	1.13
55634226--55634293	20	3.5	19	84	11	86	55	2	0	41	1.15
55634226--55634298	18	3.9	19	84	10	73	54	2	0	42	1.14
55634243--55634310	27	2.6	27	81	4	77	57	2	0	39	1.14
55634302--55634343	18	2.4	17	84	11	57	71	2	2	23	1.10
55637551--55637722	59	2.9	58	81	6	195	23	15	9	51	1.73
55637563--55637723	60	2.7	61	80	8	190	23	16	9	50	1.73
55637899--55637966	32	2.2	31	83	2	82	55	10	8	25	1.62
55647234--55647416	61	3.0	61	94	2	318	25	12	25	37	1.90
55649770--55649804	15	2.3	15	100	0	70	54	0	5	40	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55659850--55659894	18	2.5	18	89	7	65	48	0	2	48	1.13
55659976--55660020	11	3.8	12	78	21	51	28	0	2	68	1.01
55659972--55660025	21	2.6	20	83	13	65	25	0	1	72	0.95
55659976--55660025	10	4.5	11	79	20	52	28	0	2	70	0.99
55681275--55681320	23	2.0	22	83	4	56	50	2	6	41	1.40
55692334--55692458	60	2.1	59	84	7	157	20	23	8	47	1.78
55696524--55696566	15	2.9	15	92	0	68	27	30	6	34	1.83
55696677--55696729	22	2.3	23	77	3	54	35	24	24	15	1.94
55696682--55696869	23	8.1	23	76	9	109	41	22	24	11	1.87
55701622--55701664	16	2.7	16	82	10	52	53	0	4	41	1.21
55706359--55706403	18	2.4	18	85	7	54	37	0	11	51	1.38
55709289--55709324	3	12.0	3	100	0	72	33	0	66	0	0.92
55709325--55709403	39	2.0	39	90	0	122	35	0	27	36	1.57
55709638--55709679	19	2.2	19	83	8	50	64	4	0	30	1.14
55709759--55709815	19	2.9	19	78	14	71	29	3	17	49	1.63
55711003--55711037	14	2.6	13	86	8	52	31	0	2	65	1.07
55714641--55714715	28	2.7	28	81	8	82	64	0	0	36	0.94
55714646--55714678	16	2.1	16	94	0	57	72	0	0	27	0.85
55715186--55715235	15	3.6	14	79	12	50	22	4	4	70	1.21
55717657--55717692	17	2.1	18	94	5	65	33	0	5	61	1.19
55717818--55717895	32	2.5	32	75	12	81	32	1	2	64	1.15
55719022--55719047	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55720498--55720537	13	3.0	13	78	7	53	30	7	12	50	1.68
55722998--55723103	25	4.5	22	82	11	86	9	26	20	43	1.82
55722998--55723125	48	2.7	45	82	9	132	10	25	20	44	1.82
55722998--55723122	23	5.4	22	77	14	99	10	25	20	43	1.84
55723715--55723748	12	2.7	13	90	4	52	58	0	0	41	0.98
55734333--55734787	237	1.9	240	86	4	652	42	9	9	37	1.72
55734269--55734799	126	4.3	126	76	12	444	42	10	9	37	1.72
55741250--55741291	22	1.9	21	85	9	57	64	0	0	35	0.94
55743453--55743498	24	2.0	23	91	4	74	26	4	2	67	1.21
55743453--55743509	24	2.4	24	85	8	64	26	3	1	68	1.15
55744110--55744165	14	3.8	14	74	21	51	28	0	3	67	1.07
55744147--55744188	15	2.9	14	83	13	57	38	0	2	59	1.10
55744135--55744222	40	2.2	41	78	11	103	38	0	2	59	1.10
55745192--55745218	8	3.4	8	100	0	54	66	0	0	33	0.92
55748620--55748658	12	3.2	12	88	3	60	51	25	2	20	1.60
55749187--55749226	14	2.9	14	85	3	55	42	30	0	27	1.56
55749200--55749311	49	2.3	49	100	0	224	41	29	0	29	1.57
55763206--55763242	18	2.2	18	90	9	60	40	0	0	59	0.97
55767430--55767455	12	2.2	12	100	0	52	42	26	23	7	1.81
55769268--55769320	22	2.4	21	78	15	63	26	5	26	41	1.78
55769268--55769318	21	2.3	22	83	12	61	27	5	27	39	1.79
55771770--55771826	12	4.7	12	72	12	53	52	1	0	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55771778--55771853	26	3.0	25	70	19	59	46	0	0	53	1.00
55771836--55771879	13	3.3	14	84	9	56	50	0	0	50	1.00
55771836--55771964	15	8.5	15	67	21	56	48	4	0	46	1.28
55772864--55772925	31	2.1	31	84	6	83	38	4	6	50	1.50
55777612--55777675	29	2.2	29	83	5	76	37	10	18	32	1.86
55779584--55779619	17	2.1	17	89	0	54	44	2	0	52	1.15
55780274--55780306	3	11.0	3	93	0	57	69	0	0	30	0.88
55781479--55781631	29	5.1	30	80	11	163	36	29	3	30	1.73
55781452--55781630	60	3.0	59	80	9	175	36	28	3	31	1.74
55781750--55781811	28	2.2	28	94	5	108	35	30	8	25	1.85
55781597--55781969	146	2.6	147	80	7	413	32	26	7	33	1.85
55781895--55781958	28	2.2	29	86	8	87	31	28	10	29	1.91
55784258--55784296	6	6.5	6	93	0	69	48	0	30	20	1.50
55786053--55786078	5	5.2	5	100	0	52	76	0	0	23	0.78
55792980--55793108	63	2.0	63	100	0	258	37	18	19	24	1.94
55797423--55797754	165	2.0	165	95	0	592	15	36	20	27	1.93
55797724--55797766	6	7.2	6	91	0	68	2	48	2	46	1.27
55798897--55798951	27	2.0	27	82	0	65	43	7	1	47	1.41
55799653--55799743	28	3.2	28	81	4	112	34	7	7	50	1.60
55799902--55799966	30	2.1	31	85	2	87	38	9	7	44	1.65
55800741--55800787	9	5.2	9	76	7	51	72	0	0	27	0.85
55800738--55800774	17	2.2	17	90	0	56	78	0	0	21	0.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55804012--55804050	20	2.0	20	100	0	78	48	5	10	35	1.59
55819393--55819473	29	2.7	31	83	9	87	53	11	4	30	1.57
55820410--55820449	19	2.1	19	85	0	53	57	0	5	37	1.21
55825094--55825160	35	2.0	33	82	8	82	32	2	8	55	1.46
55826941--55826991	15	3.5	15	70	5	50	58	3	1	35	1.28
55853571--55853665	34	2.8	34	75	4	84	30	25	24	20	1.98
55854837--55854896	17	3.3	18	73	15	61	68	0	1	30	0.99
55858230--55858677	195	2.3	196	80	7	489	27	20	26	25	1.99
55860977--55861044	32	2.1	32	86	5	93	32	11	16	39	1.84
55861084--55861131	19	2.5	19	83	10	62	27	6	16	50	1.69
55863940--55863974	2	17.5	2	100	0	70	48	0	0	51	1.00
55865336--55865376	18	2.3	18	87	8	57	56	0	0	43	0.99
55869900--55869999	17	5.9	17	82	3	112	37	3	3	57	1.30
55871777--55872071	58	5.0	58	83	5	292	32	24	4	37	1.76
55871787--55872008	29	7.6	29	74	8	173	33	23	4	38	1.74
55872122--55872183	28	2.2	28	82	0	70	32	29	12	25	1.93
55888109--55888145	17	2.2	17	90	4	58	70	0	0	29	0.88
55888389--55888429	12	3.2	12	80	12	55	51	2	0	46	1.14
55890669--55890729	21	2.9	21	97	0	113	22	19	21	36	1.95
55894383--55894437	25	2.2	25	87	3	76	23	20	16	40	1.91
55902558--55902589	16	2.1	16	88	11	50	31	15	3	50	1.60
55907553--55907594	21	2.0	20	82	13	50	35	11	0	52	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55910423--55910526	34	3.0	34	82	1	118	56	0	23	19	1.47
55911543--55911585	22	2.0	22	90	4	70	20	4	69	4	1.25
55928744--55928786	6	6.8	6	94	5	68	34	0	0	65	0.93
55942193--55942238	23	2.0	23	95	0	83	50	8	15	26	1.73
55950103--55950160	30	1.9	30	85	0	80	55	0	17	27	1.42
55950943--55950978	11	3.3	11	84	0	54	50	0	0	50	1.00
55951722--55951772	2	25.5	2	100	0	102	49	0	0	50	1.00
55967094--55967142	24	2.0	26	84	8	66	34	2	4	59	1.28
55967139--55967196	24	2.3	25	85	14	75	31	0	5	63	1.16
55971318--55971374	30	1.9	30	86	13	82	47	1	0	50	1.11

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   183   184   185   186   187   188   189   190   191   192   
          193