genome.fa.s4.2.7.7.80.10.50.1000.53.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  53  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)
16445803--16445829	3	9.0	3	100	0	54	66	33	0	0	0.92
16446245--16446297	24	2.2	24	93	0	88	5	11	18	64	1.46
16447178--16447217	20	2.1	20	86	9	57	15	5	15	65	1.44
16449352--16449397	18	2.6	18	82	6	58	28	28	19	23	1.98
16456281--16456349	18	3.8	18	78	0	75	28	21	23	26	1.99
16456282--16456353	36	2.0	36	89	5	110	30	22	22	25	1.99
16457970--16458063	40	2.4	40	87	5	129	28	23	17	30	1.97
16459579--16459650	13	5.5	13	77	6	74	38	16	1	43	1.57
16459876--16460131	45	5.7	45	81	4	248	23	22	14	40	1.90
16459876--16460176	90	3.3	90	81	5	279	23	22	14	39	1.91
16459963--16460179	45	4.8	45	77	9	149	22	23	13	40	1.90
16459876--16460168	135	2.2	134	79	4	304	23	23	13	39	1.91
16470931--16470989	25	2.4	25	91	5	95	40	8	30	20	1.82
16473570--16473611	15	2.5	17	77	18	52	4	33	0	61	1.17
16479221--16479287	33	2.0	33	88	0	98	16	23	22	37	1.94
16482022--16482154	25	5.4	25	84	1	162	43	20	7	28	1.79
16491692--16491746	28	2.0	28	88	0	83	23	32	14	29	1.94
16495161--16495261	7	14.4	7	70	7	53	43	29	3	22	1.71
16495350--16495392	17	2.4	18	92	7	79	51	18	4	25	1.66
16496149--16496245	43	2.3	43	92	0	158	45	13	12	28	1.80
16497207--16497255	17	2.9	17	100	0	98	67	0	0	32	0.91
16497172--16497248	29	2.7	28	71	16	77	64	3	0	31	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16497258--16497304	16	2.9	16	81	6	51	0	31	0	68	0.90
16498233--16498274	14	2.9	15	78	7	59	59	0	0	40	0.97
16498233--16498294	29	2.1	29	82	11	74	59	0	3	37	1.13
16499691--16499719	2	14.5	2	100	0	58	51	0	0	48	1.00
16504116--16504237	60	2.0	60	81	9	142	36	4	20	38	1.72
16510196--16510303	9	11.9	9	70	19	73	62	1	3	31	1.23
16510208--16510391	9	19.7	9	70	15	52	62	3	2	31	1.25
16510200--16510240	20	2.0	20	90	0	64	68	2	4	24	1.22
16510200--16510303	19	5.7	18	73	15	63	64	1	3	29	1.22
16510248--16510303	25	2.2	25	83	6	67	66	0	1	32	1.03
16510268--16510302	16	2.2	16	89	0	52	65	0	0	34	0.93
16510311--16510360	19	2.7	18	87	9	73	58	8	0	34	1.28
16510208--16510623	10	43.7	9	68	18	111	60	3	2	33	1.28
16510325--16510542	29	7.6	29	68	16	107	61	4	1	32	1.25
16511886--16512084	59	3.4	59	80	5	197	37	5	24	32	1.78
16511923--16512415	29	16.8	29	79	10	414	35	3	26	34	1.72
16511923--16512416	59	8.4	59	78	8	413	35	3	26	35	1.72
16511982--16512449	59	7.9	60	78	10	427	34	2	26	35	1.72
16513629--16513694	27	2.4	28	82	7	82	57	9	0	33	1.30
16513611--16513665	16	3.4	16	82	5	74	54	3	0	41	1.18
16514321--16514381	18	3.3	18	75	8	68	34	0	3	62	1.12
16514322--16514395	20	3.8	20	77	13	75	35	0	2	62	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16516099--16516225	59	2.2	59	86	2	175	39	4	23	32	1.76
16516193--16516277	29	2.9	29	83	10	111	38	1	25	34	1.64
16517009--16517138	17	8.1	17	71	18	100	51	3	1	43	1.29
16517022--16517138	6	20.0	6	71	15	84	51	4	1	42	1.31
16517022--16517138	11	10.0	12	71	14	84	51	4	1	42	1.31
16517051--16517127	26	3.2	24	78	9	68	49	5	1	44	1.33
16517461--16518295	206	4.1	201	88	2	1133	21	22	20	35	1.96
16518358--16518580	39	5.7	39	64	9	114	25	20	28	26	1.99
16518345--16518578	77	3.0	78	83	6	312	24	18	29	27	1.98
16518818--16519076	101	2.6	100	84	2	322	15	25	18	40	1.89
16520241--16520268	13	2.2	13	100	0	56	0	14	7	78	0.95
16525547--16525694	58	2.5	59	84	7	187	35	5	26	33	1.79
16525652--16526113	29	15.8	29	82	5	484	34	3	26	35	1.73
16525652--16526113	59	7.9	58	81	4	484	34	3	26	35	1.73
16527984--16528107	17	7.4	17	71	11	78	50	4	1	44	1.30
16528002--16528107	6	18.0	6	72	14	78	50	3	1	43	1.30
16528058--16528107	23	2.2	23	89	7	75	56	4	0	40	1.18
16532174--16532455	139	2.0	139	99	0	555	26	13	20	39	1.89
16532778--16532831	20	2.7	20	88	0	63	31	7	31	29	1.85
16536551--16536645	31	3.1	29	82	10	100	28	16	7	47	1.74
16536817--16536868	16	3.2	16	83	0	59	38	3	25	32	1.74
16536850--16536943	44	2.1	46	84	7	122	29	3	28	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16537040--16537185	59	2.5	59	81	10	183	52	1	2	43	1.24
16547339--16547381	21	2.0	22	86	4	61	46	0	0	53	1.00
16548364--16548408	3	15.0	3	100	0	90	66	0	0	33	0.92
16549912--16550180	135	2.0	134	90	2	423	33	18	14	33	1.92
16550845--16550874	12	2.4	13	94	5	53	10	13	0	76	1.01
16558619--16558718	24	4.1	24	78	10	87	25	20	23	32	1.98
16564242--16564299	21	2.8	21	94	0	98	27	15	25	31	1.96
16570098--16570261	45	3.6	44	77	3	166	32	14	25	27	1.94
16570217--16570323	26	4.1	26	75	4	99	34	17	23	24	1.96
16570220--16570322	52	2.0	52	88	0	152	34	18	21	25	1.96
16583733--16583775	18	2.4	18	84	0	59	25	18	25	30	1.98
16592957--16593007	21	2.4	21	76	0	57	39	15	17	27	1.90
16595103--16595141	15	2.6	15	95	0	69	17	30	5	46	1.70
16597896--16597950	19	2.9	18	78	10	56	45	0	5	49	1.25
16598260--16598325	26	2.5	26	97	0	123	25	24	13	36	1.92
16599783--16599855	28	2.6	28	100	0	146	49	8	8	34	1.62
16601805--16601831	6	4.5	6	100	0	54	70	0	0	29	0.88
16604873--16604992	61	2.0	61	100	0	240	39	1	20	39	1.62
16617425--16617601	50	3.6	48	78	7	167	38	17	21	22	1.93
16618200--16618229	14	2.1	15	93	6	53	73	0	0	26	0.84
16627724--16627757	17	2.0	17	100	0	68	17	11	17	52	1.73
16627727--16627765	17	2.4	16	87	8	53	23	10	17	48	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16629647--16629685	17	2.2	18	86	13	55	53	2	12	30	1.52
16629784--16629819	16	2.2	17	90	5	56	50	0	8	41	1.33
16630105--16630155	20	2.5	21	84	9	61	37	7	5	49	1.56
16630833--16630875	2	21.5	2	100	0	86	51	0	0	48	1.00
16637190--16637216	10	2.7	10	100	0	54	11	0	37	51	1.37
16641880--16641931	19	2.7	19	84	0	59	44	0	0	55	0.99
16646979--16647019	19	2.1	20	86	13	59	53	7	0	39	1.29
16647037--16647081	19	2.3	20	88	3	65	64	2	2	31	1.18
16660461--16660520	18	3.3	18	72	9	59	23	45	18	13	1.84
16661666--16661712	24	2.0	24	91	0	76	53	0	25	21	1.46
16662569--16662617	16	3.1	16	79	5	55	59	2	0	38	1.09
16663310--16663337	3	9.3	3	100	0	56	67	0	0	32	0.91
16664767--16664914	27	5.7	27	75	13	134	23	16	25	35	1.95
16664876--16664946	26	2.7	25	77	12	72	26	19	25	28	1.99
16665667--16665722	21	2.7	21	91	0	94	41	10	23	25	1.86
16665667--16665722	12	5.2	12	70	24	52	41	10	23	25	1.86
16678115--16678151	17	2.1	18	85	14	51	37	0	8	54	1.30
16690378--16690405	2	14.0	2	100	0	56	50	0	0	50	1.00
16692342--16692381	21	1.9	21	85	10	55	70	0	2	27	1.01
16693543--16693586	20	2.3	19	84	4	52	34	9	13	43	1.76
16693692--16693729	16	2.4	16	90	0	58	52	0	21	26	1.47
16693700--16693737	16	2.4	16	90	0	58	47	0	18	34	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16693906--16694043	59	2.4	56	77	9	143	50	5	2	41	1.39
16694040--16694085	24	1.9	24	86	8	67	63	2	2	32	1.19
16698752--16698840	42	2.1	42	87	4	126	22	25	23	28	1.99
16701085--16701136	3	17.0	3	84	4	50	40	3	0	55	1.18
16701628--16702042	50	8.4	49	68	14	153	45	2	7	43	1.48
16701564--16702139	148	3.9	146	86	6	754	45	2	8	43	1.49
16701564--16702139	292	2.0	297	85	5	794	45	2	8	43	1.49
16705719--16705785	28	2.4	28	92	0	107	38	20	11	28	1.88
16710643--16710705	28	2.2	29	91	2	101	41	25	6	26	1.79
16723407--16723451	18	2.5	18	81	0	54	35	31	20	13	1.91

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