genome.fa.s4.2.7.7.80.10.50.1000.179.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  179  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)
55974545--55974574	13	2.2	14	94	5	53	3	30	0	66	1.07
55976628--55976681	25	2.2	25	96	0	99	18	16	24	40	1.90
55981255--55981310	19	3.1	18	84	7	60	55	0	1	42	1.10
55981256--55981310	18	3.1	17	82	10	56	54	0	1	43	1.10
55985130--55985597	59	7.9	58	87	5	443	32	2	31	33	1.72
55985194--55985278	28	3.0	29	71	22	97	34	3	28	34	1.74
55985130--55985557	116	3.6	116	84	6	386	31	2	31	34	1.72
55985293--55985597	29	10.3	31	74	17	256	30	2	32	34	1.70
55987310--55987395	17	5.4	16	73	14	79	53	2	1	43	1.21
55987310--55987395	6	15.0	6	70	13	65	53	2	1	43	1.21
55987345--55987406	11	5.9	11	79	11	76	56	3	0	40	1.15
55987343--55987403	30	2.0	30	100	0	122	52	3	0	44	1.17
55987356--55987392	19	1.9	19	94	0	65	51	2	0	45	1.15
55987347--55987422	11	7.2	11	77	12	70	55	7	0	36	1.29
55990072--55990106	16	2.1	17	89	5	54	51	2	0	45	1.16
56000286--56000345	28	2.1	28	87	9	86	40	11	3	45	1.57
56007071--56007177	55	1.9	55	81	3	126	49	17	10	22	1.77
56009514--56009569	24	2.3	26	82	14	66	67	3	7	21	1.30
56014236--56014279	18	2.5	17	85	7	54	56	0	20	22	1.42
56014234--56014286	23	2.3	23	84	12	74	56	0	18	24	1.42
56028143--56028168	8	3.2	8	100	0	52	11	0	0	88	0.52
56030271--56030343	26	2.8	25	75	6	65	42	5	15	36	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56035340--56035376	18	2.0	18	89	5	56	72	5	0	21	1.04
56048671--56048709	16	2.3	17	86	8	53	20	0	2	76	0.90
56048685--56048719	14	2.6	14	90	4	54	28	0	0	71	0.86
56052035--56052098	31	2.1	30	85	5	85	34	9	12	43	1.75
56052251--56052364	61	1.9	58	81	12	133	37	9	10	42	1.72
56061248--56061298	2	25.5	2	100	0	102	50	0	0	49	1.00
56061483--56061516	18	1.9	18	88	5	52	55	2	2	38	1.30
56072092--56072124	6	5.7	6	96	3	59	0	30	0	69	0.88
56072338--56072387	16	3.2	16	77	11	50	56	2	2	40	1.22
56078123--56078150	6	4.7	6	100	0	56	53	0	32	14	1.41
56078408--56078433	13	2.0	13	100	0	52	53	15	15	15	1.73
56084294--56084335	11	3.9	11	81	3	50	40	0	4	54	1.21
56084313--56084357	17	2.8	16	83	12	56	40	0	4	55	1.20
56084294--56084335	22	2.0	22	85	4	59	40	0	4	54	1.21
56084313--56084366	16	3.3	16	79	5	54	42	1	3	51	1.30
56085132--56085172	12	3.4	12	86	0	55	58	0	2	39	1.11
56085132--56085165	15	2.3	15	94	0	59	55	0	2	41	1.15
56085162--56085200	20	1.9	21	94	5	71	48	0	2	48	1.15
56086208--56086490	30	9.5	30	65	25	131	31	28	2	36	1.71
56086196--56086524	59	5.6	59	90	1	482	31	29	2	36	1.71
56086197--56086547	29	11.9	30	66	22	158	32	28	2	37	1.70
56090999--56091038	15	2.7	15	88	0	53	32	5	2	60	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56093767--56093804	3	12.7	3	100	0	76	34	0	0	65	0.93
56096518--56096562	19	2.4	19	81	7	56	40	0	2	57	1.11
56099287--56099332	24	1.9	24	86	8	67	32	6	21	39	1.79
56105552--56105789	127	1.8	131	81	7	297	31	21	16	29	1.96
56105677--56105910	122	1.9	122	86	8	334	31	17	17	32	1.94
56105661--56105910	61	4.1	60	84	8	301	31	19	16	33	1.94
56106609--56106648	20	2.0	20	86	13	57	60	5	0	35	1.19
56108495--56108526	11	3.0	11	95	4	57	9	18	46	25	1.79
56109577--56109603	12	2.2	12	100	0	54	59	0	0	40	0.98
56109760--56110349	80	7.3	80	89	4	821	37	6	3	52	1.46
56110512--56110569	20	2.9	20	86	0	71	10	29	20	39	1.86
56112228--56112281	24	2.2	24	83	6	65	24	33	31	11	1.90
56113158--56113277	43	2.9	41	71	8	107	34	26	12	26	1.92
56122669--56122708	19	2.0	20	95	4	73	57	5	7	30	1.48
56126157--56126229	19	3.8	19	71	20	53	63	4	4	28	1.32
56127562--56127638	32	2.4	33	79	12	88	48	23	7	20	1.76
56128457--56128520	32	2.0	32	100	0	128	37	12	18	31	1.88
56131453--56131494	21	2.0	22	85	4	59	57	4	4	33	1.41
56132871--56132975	12	8.9	12	71	4	61	69	12	5	12	1.35
56132878--56132962	35	2.4	35	86	3	127	69	11	7	11	1.36
56143358--56143535	99	1.8	97	81	7	225	39	17	7	35	1.77
56143650--56143683	9	3.9	9	84	7	52	58	0	11	29	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56143846--56143924	28	2.8	26	77	12	68	29	2	5	63	1.29
56143831--56143955	56	2.2	55	80	10	137	30	3	3	63	1.26
56143875--56143929	28	2.0	28	89	7	85	29	1	1	67	1.11
56144042--56144296	90	2.8	92	78	9	277	38	16	9	35	1.81
56144387--56144455	15	4.4	15	71	18	52	27	1	1	69	1.05
56144426--56144455	15	1.9	16	93	6	53	23	0	0	76	0.78
56144603--56144838	89	2.7	85	73	10	213	33	8	19	38	1.83
56149361--56149418	27	2.3	26	82	8	66	44	8	3	43	1.51
56149757--56149790	15	2.2	16	89	5	52	32	0	0	67	0.91
56149780--56149847	28	2.3	29	80	12	77	41	2	4	51	1.37
56149798--56149865	28	2.4	27	83	9	75	50	2	1	45	1.26
56155148--56155184	18	2.1	18	89	0	56	48	0	5	45	1.25
56156295--56156388	29	3.2	29	72	8	91	34	32	4	28	1.77
56156278--56156427	59	2.5	59	93	0	246	31	32	4	32	1.76
56156307--56156399	30	3.1	30	71	20	95	32	30	4	33	1.77
56156324--56156418	30	3.2	30	72	19	99	34	33	4	27	1.76
56156327--56156427	29	3.5	28	72	18	89	32	32	3	30	1.76
56167558--56167604	19	2.5	20	76	13	55	34	4	0	61	1.15
56168238--56168287	18	2.7	19	81	6	59	40	2	2	56	1.22
56168578--56168633	25	2.2	25	80	3	58	32	16	0	51	1.44
56173526--56173563	19	2.0	20	89	5	60	36	0	5	57	1.21
56180722--56180915	96	2.0	96	100	0	388	24	19	31	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56181474--56181513	21	1.9	21	90	10	64	35	2	2	60	1.24
56181482--56181522	21	2.0	21	85	0	55	34	2	2	60	1.23
56189028--56189446	139	3.0	139	95	1	752	23	14	20	42	1.88
56190272--56190320	25	2.0	25	100	0	98	44	6	20	28	1.75
56193988--56194129	26	5.0	26	70	18	88	47	0	0	51	1.05
56193989--56194115	32	4.3	31	72	17	99	48	0	0	51	1.00
56193961--56194131	58	2.9	58	83	9	206	46	1	0	52	1.11
56194287--56194358	16	4.5	16	92	0	126	26	30	5	37	1.79
56195399--56195486	42	2.1	42	97	0	167	23	31	2	42	1.67
56200386--56200478	30	3.1	30	65	9	82	45	12	5	36	1.66
56200511--56200560	16	3.2	16	73	21	52	34	0	6	60	1.21
56201266--56201309	17	2.6	17	82	7	54	50	4	0	45	1.22
56203023--56203059	18	2.1	18	89	0	56	24	27	0	48	1.51
56210215--56210255	16	2.5	17	88	4	57	63	2	12	21	1.40
56215479--56215511	17	2.0	17	94	5	59	45	0	0	54	0.99
56215657--56215692	17	2.1	17	94	0	63	27	5	8	58	1.50
56220327--56220357	2	15.5	2	100	0	62	51	0	0	48	1.00
56222927--56222991	30	2.2	30	94	0	112	44	10	24	20	1.83
56227348--56227390	19	2.3	19	88	8	61	44	2	6	46	1.43
56229518--56229554	18	2.2	18	85	9	51	29	8	10	51	1.65
56237655--56237695	22	1.9	21	85	14	57	73	2	9	14	1.19
56237655--56237695	21	1.9	22	85	14	59	73	2	9	14	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56239186--56239246	19	3.4	19	71	17	58	32	1	6	59	1.33
56244537--56244586	14	3.6	14	81	5	66	38	26	18	18	1.93
56248460--56248486	14	1.9	14	100	0	54	22	22	0	55	1.44
56250633--56250704	28	2.5	28	86	6	99	45	13	8	31	1.74
56250828--56250903	22	3.4	22	74	5	53	69	3	13	13	1.32
56251436--56251529	27	3.5	27	85	2	109	27	23	7	41	1.81
56266218--56266289	25	2.8	24	75	17	65	45	8	4	41	1.53
56267087--56267123	20	1.9	18	89	10	56	37	8	18	35	1.81
56270446--56270533	30	2.9	31	77	19	96	52	0	1	46	1.08
56270456--56270533	30	2.5	31	81	12	97	50	0	1	48	1.09

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