genome.fa.s4.2.7.7.80.10.50.1000.88.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  88  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)
28989007--28989044	18	2.1	18	95	0	67	60	0	0	39	0.97
28990077--28990354	29	9.6	29	66	18	116	33	26	4	35	1.77
28990075--28990214	60	2.4	56	77	12	140	32	27	3	36	1.74
28990164--28990442	58	4.8	57	79	6	224	34	25	5	35	1.79
28990079--28990470	117	3.4	116	77	9	284	32	25	5	36	1.79
28996019--28996067	19	2.5	20	83	3	64	69	2	28	0	1.00
28997279--28997471	49	3.9	48	74	9	167	34	13	32	19	1.91
28997756--28997902	39	3.8	38	78	8	154	23	33	21	21	1.97
28997719--28997907	78	2.4	78	86	5	249	23	30	22	23	1.99
28997929--28998351	161	2.6	161	90	0	659	36	20	21	21	1.95
28998165--28998708	207	2.6	209	87	1	788	36	17	22	23	1.95
28999007--28999117	17	6.4	17	73	13	84	41	1	3	53	1.29
28999007--28999117	18	6.4	18	79	6	113	41	1	3	53	1.29
28999038--28999117	6	13.7	6	68	19	53	45	2	2	50	1.28
28999007--28999117	35	3.2	35	79	6	120	41	1	3	53	1.29
29000995--29001111	61	1.9	59	84	6	155	35	23	1	40	1.65
29000994--29001111	29	4.0	29	77	10	130	34	23	1	39	1.65
29000994--29001133	61	2.4	59	80	10	151	34	24	2	39	1.67
29001137--29001305	58	2.9	58	85	5	207	36	24	7	32	1.82
29001650--29001841	96	2.0	96	84	4	253	29	17	13	39	1.88
29003950--29003995	3	15.7	3	95	4	85	65	0	0	34	0.93
29005260--29005299	21	1.9	21	89	0	62	35	0	7	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29011719--29011777	6	10.5	6	72	20	56	81	0	18	0	0.69
29011719--29011779	17	3.6	16	83	16	70	78	0	21	0	0.75
29012773--29013329	49	11.4	49	74	7	362	40	18	23	17	1.90
29012823--29013329	148	3.5	145	79	5	490	41	18	23	16	1.90
29012772--29013331	99	5.7	98	74	7	271	40	18	23	17	1.90
29015467--29015529	28	2.2	28	88	2	90	28	7	28	34	1.85
29015511--29015910	59	6.8	58	77	10	327	38	2	23	34	1.70
29015482--29015793	29	10.7	28	69	17	129	37	3	24	34	1.72
29015487--29015714	28	7.8	28	68	18	83	38	3	23	35	1.71
29015629--29015915	117	2.5	116	86	5	375	41	2	23	32	1.69
29015510--29015944	176	2.5	173	79	9	452	40	2	23	34	1.69
29015699--29015947	117	2.1	116	87	5	349	41	2	21	33	1.68
29015691--29015948	29	8.8	28	74	11	162	41	2	21	33	1.67
29018311--29018362	14	3.5	15	84	7	61	65	1	9	23	1.32
29018312--29018369	30	2.0	28	86	6	80	65	3	8	22	1.36
29018328--29018369	14	3.0	14	83	10	59	69	4	7	19	1.31
29018515--29018793	29	9.5	30	81	7	286	34	3	27	34	1.75
29018515--29018717	60	3.4	58	85	11	270	33	4	28	33	1.77
29018515--29018772	59	4.4	58	80	6	243	35	4	27	33	1.76
29018729--29018898	60	2.8	59	76	7	139	35	4	26	33	1.76
29018729--29018875	30	4.9	29	75	6	105	35	3	27	34	1.74
29020076--29020126	17	3.0	16	85	5	57	58	3	1	35	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29020734--29021031	39	7.7	37	72	15	174	24	21	30	23	1.99
29020711--29021055	39	8.9	39	68	15	162	24	20	31	24	1.98
29020712--29021151	78	5.7	78	81	5	462	25	18	31	24	1.98
29021003--29021169	78	2.1	78	78	9	171	28	19	26	25	1.98
29023358--29023397	19	2.2	17	86	8	53	37	12	12	37	1.81
29032901--29032941	14	2.9	14	82	10	57	68	4	7	19	1.32
29033048--29033197	30	5.2	29	77	14	114	34	5	26	34	1.79
29033065--29033197	30	4.6	29	85	7	180	33	4	26	35	1.77
29033069--29033197	58	2.2	59	91	1	206	33	4	27	34	1.77
29033088--29033248	58	2.8	57	85	4	198	36	3	24	35	1.72
29045011--29045097	30	2.9	30	75	11	90	42	5	21	29	1.76
29046188--29046217	15	2.0	15	93	0	51	10	6	50	33	1.62
29046366--29046429	17	3.8	17	77	4	67	53	4	4	37	1.43
29051298--29051342	23	2.0	23	95	0	81	20	6	15	57	1.60
29051360--29051407	22	2.2	22	88	3	71	27	4	8	60	1.44
29052108--29052138	15	2.1	15	100	0	62	48	12	6	32	1.67
29053626--29053700	35	2.1	36	85	5	107	48	4	10	37	1.57
29053729--29053775	24	2.0	24	86	0	67	42	6	6	44	1.55
29060617--29060663	25	1.9	24	91	8	69	42	27	14	14	1.86
29061748--29061810	20	3.1	20	78	17	67	38	0	4	57	1.20
29072288--29072677	130	3.0	131	83	5	505	31	17	21	29	1.96
29074744--29074785	20	2.0	21	90	4	68	21	4	28	45	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29074753--29074827	27	2.7	27	78	10	89	29	8	26	36	1.85
29074816--29074855	21	2.0	20	85	5	53	27	10	27	35	1.89
29076579--29077080	250	2.0	250	98	1	972	34	10	33	21	1.88
29079502--29079599	33	3.0	33	84	0	115	31	25	16	26	1.96
29083367--29083648	153	1.8	153	90	1	449	34	15	17	32	1.91
29084165--29084520	59	6.1	59	82	7	406	34	3	30	30	1.75
29084165--29084520	118	3.0	117	83	6	468	34	3	30	30	1.75
29084165--29084450	30	9.7	29	67	20	114	34	3	30	30	1.75
29084442--29084520	29	2.7	29	73	22	76	32	3	30	32	1.76
29084791--29084835	23	1.9	24	81	4	56	68	2	8	20	1.27
29086097--29086161	24	2.7	23	80	17	62	23	6	26	44	1.76
29093914--29094010	47	2.0	48	92	2	160	37	18	7	37	1.79
29099675--29099699	13	1.9	13	100	0	50	8	0	44	48	1.32
29099686--29099741	27	2.2	26	90	6	87	16	5	37	41	1.71
29100274--29100351	28	2.8	28	75	9	79	43	26	1	28	1.63
29101550--29101782	23	10.1	23	87	0	322	36	6	12	45	1.67
29101550--29101782	69	3.4	69	89	0	367	36	6	12	45	1.67
29102989--29103193	23	9.0	23	80	1	223	35	5	12	45	1.66
29102989--29103193	46	4.5	46	84	1	261	35	5	12	45	1.66
29102987--29103195	69	3.0	69	81	0	249	35	5	12	45	1.66
29104408--29104868	23	20.0	23	86	0	562	35	5	13	46	1.66
29104410--29104871	69	6.7	69	87	0	627	35	5	13	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29105021--29105061	3	13.3	3	94	5	73	63	0	2	34	1.08
29106192--29106255	14	4.7	14	78	5	60	20	4	34	40	1.73
29106218--29106255	7	5.6	7	84	3	51	26	2	28	42	1.69
29106360--29106391	16	1.9	17	93	6	57	46	15	18	18	1.84
29107364--29107427	27	2.4	27	97	2	121	76	3	10	9	1.12
29115896--29116161	103	2.6	103	87	2	367	30	24	21	24	1.99
29117462--29117494	2	16.5	2	100	0	66	48	0	0	51	1.00
29118237--29118276	21	1.9	21	94	0	71	20	12	12	55	1.69
29118646--29118717	18	3.7	19	80	10	74	36	0	5	58	1.22
29118604--29118719	21	5.6	21	72	17	75	37	0	4	57	1.24
29118654--29118717	20	3.2	20	78	8	69	35	0	4	59	1.18
29118797--29118841	9	5.0	9	77	0	54	26	6	17	48	1.72
29118797--29118844	18	2.7	18	100	0	96	27	6	16	50	1.69
29120260--29120317	30	1.9	30	85	0	80	29	10	13	46	1.77
29121916--29122068	71	2.1	71	97	2	288	52	11	13	22	1.71
29121937--29122087	71	2.1	69	86	12	234	50	11	13	25	1.74
29122137--29122161	13	1.9	13	100	0	50	16	4	8	72	1.24
29134238--29134497	127	2.0	128	88	0	396	33	21	15	30	1.94
29135492--29135533	17	2.5	17	84	7	50	59	0	0	40	0.97
29141183--29141243	24	2.8	22	81	16	65	45	3	0	50	1.17
29143633--29143714	28	2.9	29	79	1	85	12	28	26	32	1.92
29143643--29143714	29	2.5	28	79	2	81	11	30	26	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29153065--29153772	210	3.4	209	88	1	1004	32	19	16	31	1.94
29155643--29155813	81	2.1	81	94	0	297	18	26	13	42	1.87
29158462--29158503	21	2.0	21	100	0	84	47	9	4	38	1.57
29160345--29160385	20	2.1	20	86	4	57	56	7	12	24	1.61
29172295--29172327	9	3.5	10	92	8	52	18	0	0	81	0.68
29173105--29173151	21	2.2	21	92	0	76	21	36	17	25	1.94
29176417--29176484	4	17.0	4	78	6	75	1	32	0	66	1.01
29177406--29177431	13	2.0	13	100	0	52	46	7	0	46	1.31
29177662--29177704	18	2.4	18	88	7	61	53	0	0	46	1.00
29184794--29184826	17	1.9	17	88	11	50	63	0	0	36	0.95

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