genome.fa.s4.2.7.7.80.10.50.1000.43.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  43  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)
13089597--13089686	47	1.9	47	81	4	110	33	6	8	51	1.59
13091461--13091549	45	2.0	45	90	0	142	32	24	23	19	1.97
13091846--13091904	28	2.1	28	83	0	73	49	23	0	27	1.51
13093200--13093228	14	2.1	14	100	0	58	34	37	0	27	1.57
13094917--13094982	4	16.2	4	83	9	80	0	31	0	68	0.90
13094924--13094983	21	2.9	21	85	9	79	0	33	0	66	0.92
13094917--13094982	17	4.1	16	84	7	80	0	31	0	68	0.90
13098321--13098414	40	2.4	40	78	3	93	21	13	9	55	1.67
13100956--13101005	20	2.4	21	80	6	57	4	16	2	78	1.00
13101439--13101484	21	2.2	21	88	0	65	13	41	23	21	1.88
13102405--13102584	32	5.6	32	82	4	175	33	15	19	31	1.92
13102404--13102584	96	1.9	97	81	1	220	33	15	19	31	1.93
13102424--13102584	64	2.5	64	87	0	232	34	14	19	32	1.91
13102580--13102805	34	6.6	34	81	6	224	34	34	10	20	1.86
13102579--13102805	68	3.3	68	80	4	271	34	34	10	20	1.87
13102576--13102805	102	2.3	102	82	0	271	35	33	10	20	1.87
13106426--13106487	30	2.1	30	84	0	79	50	25	16	8	1.72
13106904--13106941	12	3.2	12	81	11	51	26	21	31	21	1.98
13109241--13109282	14	3.0	14	79	6	50	19	19	26	35	1.95
13110528--13110555	4	7.0	4	100	0	56	25	0	25	50	1.50
13116438--13116489	24	2.2	24	82	6	61	32	28	15	23	1.95
13116499--13116536	20	1.9	20	88	0	58	13	15	21	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13117654--13117690	19	1.9	19	88	0	56	21	43	21	13	1.87
13118269--13118298	2	15.0	2	100	0	60	50	0	0	50	1.00
13124421--13124458	20	1.9	20	88	0	58	15	15	21	47	1.82
13125634--13125662	12	2.3	13	94	5	51	13	13	20	51	1.75
13128369--13128413	10	4.4	11	72	16	51	42	0	0	57	0.98
13129043--13129078	14	2.6	14	86	0	54	66	5	2	25	1.27
13129684--13129727	21	2.1	21	82	0	52	61	0	2	36	1.09
13129828--13129866	15	2.6	15	95	0	69	28	23	10	38	1.87
13141613--13141661	25	1.9	26	91	4	82	22	24	4	48	1.67
13142218--13142314	27	3.6	27	71	2	88	16	24	26	31	1.96
13142389--13142424	18	2.0	18	89	10	56	30	0	2	66	1.06
13142683--13142715	6	5.5	6	86	13	50	48	3	0	48	1.17
13143033--13143064	6	5.7	6	92	7	50	84	0	15	0	0.63
13156662--13156719	28	2.1	28	96	0	107	36	3	17	43	1.66
13157244--13157305	12	5.4	12	73	11	67	32	25	1	40	1.66
13157246--13157305	22	2.7	23	89	5	95	33	25	1	40	1.66
13157441--13157506	19	3.5	19	78	10	73	33	0	0	66	0.92
13157443--13157506	18	3.5	18	74	16	60	32	0	0	67	0.91
13157495--13157524	14	2.2	13	94	5	51	33	0	0	66	0.92
13157448--13157532	20	4.2	20	71	14	57	35	0	0	64	0.94
13159039--13159117	22	3.5	22	91	1	122	37	27	20	13	1.91
13159106--13159182	23	3.3	23	83	0	91	45	22	22	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13159039--13159141	45	2.3	44	82	12	122	38	25	22	13	1.91
13161877--13161931	21	2.5	22	85	11	78	49	21	0	29	1.50
13161887--13161934	20	2.4	18	81	18	60	52	18	0	29	1.46
13162338--13162381	22	2.0	22	100	0	88	22	22	22	31	1.98
13167576--13167626	18	2.8	18	68	11	50	29	7	17	45	1.77
13168063--13168090	3	9.3	3	100	0	56	35	0	0	64	0.94
13168497--13169002	148	3.4	147	85	5	632	42	3	10	42	1.58
13168571--13168941	50	7.5	49	68	17	146	44	3	9	41	1.55
13169490--13169518	5	5.8	5	100	0	58	0	58	0	41	0.98
13169602--13169635	10	3.3	10	84	8	50	20	2	0	76	0.92
13169603--13169653	21	2.5	20	87	6	66	25	5	0	68	1.12
13169613--13169651	16	2.5	15	84	12	51	25	7	0	66	1.18
13169605--13169651	17	2.8	16	87	6	58	25	6	0	68	1.13
13172437--13172606	61	2.8	59	85	7	209	28	19	6	45	1.75
13172437--13172656	30	7.3	30	83	7	202	31	20	5	42	1.75
13173789--13173832	18	2.4	18	100	0	88	36	6	6	50	1.56
13176202--13176244	21	2.0	21	83	16	54	41	6	20	30	1.79
13184784--13185287	78	6.4	77	79	8	358	34	22	16	26	1.95
13184884--13185229	40	8.8	40	79	8	336	36	20	15	28	1.93
13184784--13185107	78	4.1	78	87	3	404	33	23	16	26	1.96
13184797--13185281	118	4.1	118	76	9	353	35	22	16	26	1.94
13185830--13185862	15	2.2	15	100	0	66	15	27	21	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13186939--13187043	30	3.5	30	82	1	95	31	18	5	44	1.73
13186964--13187074	30	3.6	30	76	10	109	27	18	5	49	1.69
13186965--13187110	61	2.4	60	80	12	156	30	19	4	45	1.70
13192354--13192390	18	2.1	18	89	0	56	10	62	8	18	1.52
13204423--13204459	16	2.3	15	86	13	56	45	0	24	29	1.53
13204634--13204785	57	2.6	56	82	8	189	54	1	1	42	1.20
13218440--13218546	45	2.4	42	79	13	115	28	24	14	32	1.95
13218539--13218702	45	3.8	43	82	13	169	32	26	16	24	1.96
13218539--13218702	87	1.9	86	85	8	226	32	26	16	24	1.96
13218643--13218774	66	2.0	66	95	0	237	31	24	21	21	1.98
13218715--13219117	45	9.2	43	71	13	182	32	24	16	26	1.96
13219395--13219435	16	2.6	16	84	0	55	65	21	0	12	1.25
13220813--13220855	11	3.9	12	88	11	58	30	0	0	69	0.88
13232982--13233033	26	2.0	26	92	0	86	30	13	32	23	1.93
13236335--13236388	18	2.9	18	82	17	58	5	18	0	75	0.98
13236334--13236391	26	2.2	27	84	9	75	5	17	0	77	0.94
13236479--13236534	27	2.1	27	93	0	94	17	46	16	19	1.84
13237769--13237805	15	2.5	15	100	0	74	13	54	13	18	1.71
13240661--13240749	43	2.1	43	97	0	169	17	42	11	28	1.84
13241920--13241986	29	2.3	29	97	0	125	17	26	31	23	1.97
13244973--13244999	13	2.1	13	100	0	54	37	7	40	14	1.74
13247899--13247935	15	2.5	16	87	12	53	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13248005--13248036	9	3.4	9	91	8	55	37	0	0	62	0.95
13248074--13248162	37	2.5	36	74	16	96	46	0	0	53	1.00
13248386--13248484	17	5.5	17	73	9	72	35	4	2	58	1.28
13248418--13248484	7	9.4	7	81	15	84	38	2	0	58	1.14
13248441--13248527	24	3.5	24	83	9	88	34	9	0	56	1.31
13248411--13248527	14	8.8	12	75	14	72	35	6	0	57	1.31
13251024--13251049	12	2.2	12	100	0	52	15	30	15	38	1.88
13253745--13253810	29	2.3	28	89	2	96	37	3	3	56	1.30
13253969--13254058	34	2.6	34	89	0	135	16	6	12	64	1.47
13260734--13260772	17	2.3	17	86	0	51	17	10	25	46	1.80
13268885--13268958	25	3.0	25	79	0	94	41	22	13	21	1.88
13270825--13271010	101	1.8	101	98	0	363	38	26	18	16	1.92
13279752--13279814	25	2.6	25	89	2	92	38	23	15	22	1.93
13283681--13283726	19	2.4	20	75	10	51	54	8	0	36	1.32
13290454--13290479	11	2.4	11	100	0	52	69	11	0	19	1.18
13290487--13290538	27	1.9	27	96	0	95	15	30	34	19	1.93
13291050--13291101	27	1.9	27	92	7	88	19	32	30	17	1.95
13300394--13300432	18	2.2	18	85	0	51	23	10	28	38	1.87
13300494--13300639	69	2.1	69	88	0	211	23	31	23	20	1.98
13300335--13300835	265	1.9	265	90	0	804	22	24	25	27	2.00
13304950--13304990	3	13.7	3	100	0	82	68	31	0	0	0.90
13305186--13305232	20	2.3	20	89	7	69	59	2	2	36	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13305249--13305444	51	4.0	49	66	20	115	44	2	8	44	1.47
13305213--13305581	149	2.5	147	85	3	458	42	3	8	46	1.49
13305544--13305602	21	2.7	22	89	10	95	45	0	3	50	1.18
13307031--13307061	6	5.2	6	100	0	62	0	67	0	32	0.91
13308494--13308542	15	2.9	18	73	17	59	6	18	14	61	1.53
13314941--13315046	41	2.5	43	81	7	119	40	11	26	21	1.87
13316825--13317132	109	2.8	108	83	1	382	27	15	26	30	1.96
13319760--13320055	52	5.7	52	83	1	351	30	12	22	34	1.92
13324911--13324940	14	2.1	14	93	0	51	10	13	0	76	1.01
13332770--13332826	25	2.3	25	81	0	69	61	7	3	28	1.39

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