genome.fa.s4.2.7.7.80.10.50.1000.139.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  139  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)
43567767--43568026	39	6.7	39	88	0	367	23	15	20	41	1.90
43567725--43568026	78	3.9	78	84	0	361	24	15	19	40	1.91
43573148--43573181	4	8.8	4	90	6	52	82	0	17	0	0.67
43573147--43573183	12	3.2	12	88	3	58	83	0	16	0	0.64
43577641--43577680	21	1.9	21	85	10	55	10	22	0	67	1.20
43578738--43578775	12	3.2	12	92	0	58	42	34	0	23	1.55
43578738--43578772	6	5.8	6	96	0	52	42	34	0	22	1.54
43581232--43581256	13	1.9	13	100	0	50	28	0	0	72	0.86
43583915--43583976	31	2.0	31	81	12	74	46	6	9	37	1.62
43588177--43588219	18	2.5	17	76	3	50	62	0	4	32	1.15
43592139--43592188	22	2.3	22	96	0	91	52	10	18	20	1.73
43594210--43594242	16	2.1	16	88	11	50	48	0	3	48	1.17
43594172--43594258	44	2.0	45	84	6	115	42	0	3	54	1.17
43595005--43595083	41	1.9	41	92	0	131	35	13	7	43	1.73
43596326--43596371	24	1.9	24	95	0	83	36	6	26	30	1.82
43601693--43601754	30	2.0	31	87	3	90	37	0	12	50	1.41
43612145--43612207	3	21.3	3	93	3	110	33	0	0	66	0.92
43616919--43616946	11	2.5	11	100	0	56	50	10	14	25	1.75
43620317--43620346	3	10.0	3	100	0	60	66	0	0	33	0.92
43621734--43621758	3	8.3	3	100	0	50	68	0	0	32	0.90
43622286--43622351	30	2.2	31	81	8	73	51	9	9	30	1.64
43640524--43640556	14	2.4	14	90	5	50	39	15	6	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43641922--43641956	14	2.5	14	100	0	70	14	8	8	68	1.38
43653333--43653358	3	8.7	3	100	0	52	34	0	0	65	0.93
43659290--43659327	20	1.9	20	89	10	60	18	10	15	55	1.68
43659442--43659484	18	2.4	18	80	7	52	51	0	2	46	1.13
43681618--43681822	101	2.0	101	100	0	410	42	10	3	42	1.58
43681927--43681964	20	1.9	19	89	5	58	52	0	5	42	1.24
43682873--43682939	31	2.2	32	83	5	84	59	2	0	37	1.13
43684780--43684826	23	2.1	22	84	11	60	31	8	10	48	1.68
43711623--43711652	15	2.0	15	100	0	60	53	0	0	46	1.00
43711655--43711680	13	2.0	13	100	0	52	46	0	0	53	1.00
43714141--43714171	14	2.2	14	94	0	53	54	0	12	32	1.38
43718967--43719080	57	2.0	57	91	3	185	43	6	12	37	1.67
43729800--43729834	17	2.1	17	94	0	61	45	5	2	45	1.41
43739283--43739353	31	2.4	29	88	4	97	39	4	0	56	1.19
43739281--43739351	11	6.5	11	73	15	58	39	4	0	56	1.19
43739424--43739456	17	1.9	17	100	0	66	45	24	18	12	1.83
43740306--43740336	16	2.0	15	93	6	53	12	35	25	25	1.92
43740349--43740393	19	2.4	18	82	17	56	80	0	6	13	0.91
43740873--43741217	160	2.1	162	84	4	439	25	15	13	45	1.82
43741288--43741366	30	2.6	30	85	2	104	40	20	2	36	1.66
43741352--43741752	59	6.9	59	87	1	531	31	27	5	35	1.80
43741352--43741726	117	3.2	116	87	4	513	32	26	5	36	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43756909--43757163	31	7.7	31	69	21	162	35	18	18	27	1.94
43756866--43757374	204	2.6	204	89	5	740	34	17	20	28	1.94
43756866--43757311	68	6.6	68	95	0	725	34	17	19	27	1.95
43757261--43757421	56	2.9	56	96	0	286	36	13	22	27	1.92
43757286--43757377	31	3.2	31	60	28	74	36	10	23	28	1.89
43757727--43757797	31	2.4	29	88	4	97	39	4	0	56	1.19
43757725--43757795	11	6.5	11	73	15	58	39	4	0	56	1.19
43757868--43757907	17	2.4	16	88	8	62	40	25	25	10	1.86
43758792--43758835	19	2.3	18	82	17	54	79	0	6	13	0.92
43759315--43759659	161	2.1	162	82	4	421	26	15	13	45	1.82
43759731--43759815	30	2.8	30	87	1	116	37	24	4	32	1.76
43759795--43760254	59	7.8	59	88	3	608	31	27	4	35	1.78
43759884--43759991	28	3.8	28	68	20	80	32	28	4	34	1.78
43759795--43760248	176	2.6	177	89	2	684	32	26	4	36	1.77
43759743--43760254	29	17.4	29	63	13	111	32	27	4	35	1.78
43763641--43763734	30	3.1	30	100	0	188	28	19	17	35	1.94
43769585--43769647	31	2.1	31	81	3	74	36	3	9	50	1.51
43771085--43771301	29	7.4	29	74	17	139	29	27	5	37	1.79
43771085--43771271	59	3.2	58	84	10	220	29	27	5	36	1.79
43771107--43771295	59	3.2	58	82	8	215	31	25	4	38	1.77
43773368--43773397	3	10.0	3	100	0	60	66	0	33	0	0.92
43774031--43774082	17	3.1	16	82	17	61	65	0	1	32	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43774129--43774170	19	2.2	20	82	4	50	69	0	0	30	0.89
43774119--43774173	29	1.9	28	88	3	83	65	0	0	34	0.93
43774933--43776082	92	12.5	92	94	0	1937	33	15	17	32	1.92
43775270--43775516	40	5.6	40	66	24	122	32	15	17	34	1.91
43776852--43776890	19	2.0	20	85	14	55	51	20	12	15	1.76
43777185--43777237	9	6.2	9	73	20	51	58	0	0	41	0.98
43777165--43777231	24	2.7	25	77	9	75	56	1	0	41	1.08
43778238--43778422	30	6.2	29	78	10	162	37	17	1	43	1.56
43778237--43778422	60	3.1	59	84	6	248	37	17	1	43	1.57
43778237--43778422	90	2.1	90	80	8	209	37	17	1	43	1.57
43778401--43778683	57	4.9	58	80	7	281	30	24	4	39	1.75
43778490--43778653	28	5.7	27	71	9	94	32	26	1	39	1.67
43778380--43778683	58	5.2	58	80	6	280	31	24	4	39	1.75
43778411--43778683	29	9.4	29	72	13	172	30	24	4	39	1.76
43779651--43779678	3	9.3	3	100	0	56	67	0	0	32	0.91
43782072--43782138	21	3.1	22	75	12	75	14	8	11	64	1.50
43782123--43782165	21	2.0	21	86	0	59	16	4	11	67	1.38
43782135--43782208	24	3.2	24	84	5	82	8	4	17	70	1.28
43782132--43782171	21	1.9	21	94	0	71	12	5	12	70	1.33
43782156--43782249	12	7.8	12	75	0	71	7	5	20	67	1.36
43782156--43782230	36	2.1	36	84	0	96	5	6	20	68	1.33
43782156--43782230	24	3.1	24	88	0	96	5	6	20	68	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43782167--43782248	36	2.3	36	82	0	92	7	6	19	67	1.37
43794015--43794055	19	2.2	19	90	0	64	39	4	14	41	1.67
43796406--43796433	13	2.2	13	100	0	56	39	7	7	46	1.59
43798834--43798874	19	2.2	19	90	0	64	39	7	12	41	1.70
43800494--43800521	3	9.3	3	100	0	56	67	32	0	0	0.91
43814131--43814174	23	1.9	23	95	0	79	59	11	9	20	1.59
43814893--43814924	4	8.0	4	100	0	64	50	25	0	25	1.50
43815959--43816076	57	2.1	57	96	0	218	37	9	13	39	1.77
43817423--43817454	13	2.3	15	89	10	50	75	3	3	18	1.08
43820107--43820199	37	2.4	38	80	8	100	21	22	27	27	1.99
43823890--43823922	17	2.1	17	88	11	52	51	3	15	30	1.58
43836432--43836496	26	2.5	25	87	7	87	32	24	3	40	1.71
43842875--43842906	16	1.9	17	93	6	57	59	0	31	9	1.29
43853245--43853281	12	3.1	12	92	0	65	21	27	0	51	1.48
43853245--43853277	6	5.5	6	92	0	57	21	30	0	48	1.50
43853430--43853473	22	2.0	22	100	0	88	31	18	4	45	1.69
43853432--43853481	22	2.5	20	87	12	68	34	20	4	42	1.70
43861489--43861542	21	2.6	22	82	8	60	64	3	0	31	1.11
43864770--43864852	42	2.0	42	90	0	130	49	16	22	10	1.77
43865128--43865163	17	2.1	18	94	5	65	61	0	33	5	1.19
43866171--43866228	23	2.5	23	100	0	116	46	8	10	34	1.69
43868081--43868149	27	2.5	27	83	9	77	36	1	1	60	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43868112--43868154	11	3.8	11	80	17	52	32	2	0	65	1.06
43871423--43871463	21	2.0	21	85	0	55	51	9	12	26	1.70
43875631--43875664	11	3.0	12	83	16	54	23	0	0	76	0.79
43875641--43875675	15	2.2	16	90	5	54	22	2	0	74	0.95
43875631--43875673	22	2.0	22	86	9	61	23	2	0	74	0.93
43875796--43875858	21	3.0	20	80	8	72	71	1	1	25	1.04
43875802--43875842	15	2.8	15	79	17	50	73	0	2	24	0.96
43876824--43877045	30	7.4	30	78	7	193	40	21	1	36	1.64
43876844--43877045	59	3.4	60	77	9	205	40	21	1	36	1.63
43878018--43878047	5	5.8	5	92	7	51	20	3	0	76	0.92

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