genome.fa.s4.2.7.7.80.10.50.1000.133.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  133  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)
41952691--41953214	246	2.1	247	98	0	1005	43	2	7	47	1.42
41953118--41953444	112	2.8	115	85	7	418	42	1	7	48	1.41
41952965--41953711	300	2.5	300	93	1	1243	43	1	6	48	1.37
41953117--41953443	120	2.8	118	85	6	395	42	1	7	48	1.41
41953348--41953461	38	3.2	37	74	20	125	47	0	5	47	1.24
41953404--41953429	13	2.0	13	100	0	52	46	0	7	46	1.31
41953595--41953687	46	2.0	46	82	0	114	34	0	5	60	1.20
41953419--41953796	112	3.3	114	84	6	453	42	1	5	51	1.33
41953674--41953730	30	1.9	30	100	0	114	56	3	0	40	1.17
41952796--41953713	180	5.1	179	72	15	505	43	1	6	48	1.37
41953745--41953818	8	9.1	8	77	2	58	50	1	1	47	1.18
41953749--41953842	33	2.7	36	77	12	106	48	2	3	45	1.30
41953711--41953821	41	2.6	42	83	7	136	45	1	3	49	1.30
41957371--41957442	24	3.2	23	76	21	73	48	1	8	41	1.42
41958158--41958352	41	4.8	40	87	6	230	15	34	23	26	1.95
41958158--41958352	82	2.4	83	87	4	270	15	34	23	26	1.95
41962089--41962123	2	17.5	2	100	0	70	48	0	0	51	1.00
41963636--41963674	19	2.1	18	85	4	51	5	20	0	74	1.01
41968079--41968133	24	2.2	24	96	3	101	41	9	14	34	1.77
41968332--41968379	15	3.4	15	72	16	57	64	2	0	33	1.05
41974700--41974807	57	1.9	57	86	3	155	47	8	11	33	1.69
41977944--41978029	17	5.1	17	86	0	127	37	1	3	58	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41977939--41978030	6	15.8	6	74	10	66	38	1	3	57	1.22
41977944--41978029	34	2.5	34	92	0	145	37	1	3	58	1.23
41978594--41978637	4	11.2	4	80	4	54	68	0	0	31	0.90
41978844--41978890	20	2.3	21	85	3	60	63	2	14	19	1.40
41980316--41980609	30	9.9	28	78	9	176	36	24	2	36	1.69
41980303--41980626	60	5.5	59	74	9	212	35	25	2	36	1.71
41980308--41980598	91	3.2	91	79	9	269	36	24	2	37	1.69
41980468--41980609	29	4.9	29	84	3	151	38	28	0	32	1.62
41986172--41986212	9	4.9	9	85	14	61	80	0	19	0	0.71
41986155--41986244	7	12.6	7	79	11	85	80	0	16	3	0.85
41986179--41986234	15	3.7	15	90	4	78	80	0	19	0	0.71
41986155--41986258	36	2.9	36	80	11	97	77	0	19	2	0.89
41986206--41986257	21	2.4	21	90	6	77	76	0	21	1	0.87
41987188--41987777	49	11.9	50	76	7	438	34	16	32	16	1.92
41987202--41987777	99	5.8	99	80	3	527	33	17	32	16	1.92
41987196--41987669	148	3.2	146	79	6	445	34	15	32	16	1.91
41987196--41987779	198	3.0	197	83	3	701	34	16	32	16	1.92
41987188--41987777	50	11.9	50	77	6	495	34	16	32	16	1.92
41988182--41988281	39	2.6	39	81	0	128	23	29	22	26	1.99
41988249--41988448	43	4.8	43	69	16	125	24	33	19	23	1.97
41988064--41988448	78	4.9	78	73	11	253	25	31	19	23	1.98
41988383--41988466	39	2.2	39	84	4	107	26	35	15	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41988954--41989005	17	3.1	17	91	0	86	38	0	1	59	1.08
41988949--41989006	6	9.8	6	79	9	57	39	0	1	58	1.08
41988950--41989006	23	2.4	23	80	8	62	40	0	1	57	1.09
41989528--41989571	4	11.2	4	80	4	54	68	0	0	31	0.90
41990584--41990855	30	9.3	29	77	10	200	35	26	3	34	1.74
41990688--41990855	29	5.9	29	79	6	173	36	29	2	30	1.72
41990584--41990855	59	4.7	57	75	9	228	35	26	3	34	1.74
41999644--41999761	16	7.6	16	74	9	93	38	22	11	27	1.88
42001873--42001929	25	2.3	25	100	0	114	59	19	3	17	1.51
42005674--42005699	8	3.2	8	100	0	52	53	0	0	46	1.00
42005687--42005756	17	4.1	16	74	18	61	64	2	1	31	1.17
42005687--42005726	16	2.4	16	87	4	53	65	2	0	32	1.06
42009165--42009197	15	2.1	16	88	5	50	63	0	0	36	0.95
42013458--42013509	20	2.5	22	81	9	63	48	23	0	28	1.51
42014160--42014244	37	2.3	37	85	0	116	42	5	16	35	1.72
42016362--42016422	6	10.2	6	76	13	63	52	0	4	42	1.23
42016363--42016422	17	3.7	17	80	13	81	53	0	5	41	1.23
42016363--42016421	31	1.9	31	96	0	109	54	0	5	40	1.23
42016626--42017451	76	10.9	76	94	0	1393	33	16	14	34	1.90
42029404--42029466	27	2.3	28	83	10	85	26	11	31	30	1.91
42029417--42029609	29	6.7	28	73	21	150	30	5	31	32	1.81
42029443--42029612	59	2.9	58	90	3	261	30	4	31	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42039634--42039740	31	3.4	31	88	2	142	52	2	4	40	1.37
42039658--42039708	16	3.2	16	71	15	52	52	1	3	41	1.31
42039616--42039748	31	4.2	32	83	7	139	51	3	3	41	1.35
42042033--42042075	15	2.9	15	75	0	50	41	2	39	16	1.61
42061392--42061418	3	9.0	3	100	0	54	66	0	0	33	0.92
42086457--42086493	18	2.1	18	89	0	56	24	27	0	48	1.51
42090448--42090499	18	3.0	18	83	10	65	48	0	0	51	1.00
42091571--42091606	2	18.0	2	100	0	72	0	50	0	50	1.00
42091606--42091640	2	17.5	2	100	0	70	48	0	0	51	1.00
42092554--42092603	20	2.4	21	83	12	68	6	2	18	74	1.12
42093212--42093243	16	2.0	16	100	0	64	50	12	18	18	1.78
42103060--42103085	12	2.2	12	100	0	52	34	15	7	42	1.75
42105356--42105381	3	8.7	3	100	0	52	69	30	0	0	0.89
42105380--42105415	3	12.3	3	94	5	65	69	0	0	30	0.89
42106478--42106546	21	3.3	20	84	6	84	27	30	24	17	1.97
42106499--42106546	10	4.7	10	94	2	78	25	29	27	18	1.98
42106583--42106612	15	2.0	15	93	0	51	20	3	33	43	1.68
42113337--42113367	15	2.1	15	100	0	62	35	6	12	45	1.68
42114440--42114464	7	3.6	7	100	0	50	0	12	0	88	0.53
42114935--42114988	14	3.9	14	83	7	74	62	0	0	37	0.95
42114935--42114989	29	1.9	28	96	3	101	61	0	0	38	0.96
42114934--42115001	29	2.4	28	85	7	100	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42115632--42115657	2	13.0	2	100	0	52	50	0	0	50	1.00
42129436--42129478	23	1.9	22	86	13	61	30	4	0	65	1.13
42144033--42144062	3	10.0	3	100	0	60	33	0	33	33	1.58
42149098--42149160	28	2.3	27	83	8	81	20	12	1	65	1.35
42152416--42152477	29	2.1	30	82	8	74	46	6	1	45	1.38
42155057--42155103	22	2.2	21	84	3	58	74	4	6	14	1.17
42155917--42155959	19	2.3	19	84	8	52	58	4	0	37	1.19
42157508--42157551	17	2.5	18	79	17	56	77	0	4	18	0.94
42161056--42161095	21	1.9	21	85	10	55	25	15	15	45	1.84
42162619--42162680	22	2.9	22	85	7	74	72	3	11	12	1.23
42162645--42162674	15	1.9	16	93	6	53	70	3	13	13	1.30
42163478--42163520	19	2.3	19	84	8	52	58	4	0	37	1.19
42164550--42164589	20	2.0	20	90	4	64	30	5	7	57	1.48
42167123--42167166	3	15.0	3	90	4	72	65	0	2	31	1.05
42168102--42168174	31	2.4	31	81	2	85	38	9	10	41	1.73
42190348--42190377	15	1.9	16	93	6	53	0	43	30	26	1.55
42194267--42194343	37	2.1	37	92	0	127	40	7	15	36	1.76
42194685--42194713	12	2.4	12	100	0	58	31	34	6	27	1.83
42195331--42195358	6	4.7	6	100	0	56	0	14	0	85	0.59
42195588--42195625	20	1.9	20	88	0	58	55	0	0	44	0.99
42195868--42195955	43	2.0	43	88	0	131	38	14	6	39	1.73
42197372--42197415	17	2.6	17	78	3	54	25	2	0	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42201260--42201320	21	3.1	21	64	22	60	24	11	18	45	1.82
42201246--42201327	37	2.2	37	97	0	155	20	9	18	51	1.74
42202873--42202919	26	1.9	26	83	12	64	63	6	4	25	1.36
42203560--42203638	34	2.4	33	83	10	92	31	8	2	56	1.43
42203953--42204007	23	2.4	22	85	11	67	30	7	3	58	1.43
42207195--42207219	6	4.2	6	100	0	50	84	0	16	0	0.63
42210860--42210928	29	2.3	30	85	7	88	52	10	2	34	1.50
42211927--42211988	32	2.0	32	84	9	85	50	4	0	45	1.23
42212737--42212785	22	2.4	21	80	12	57	55	12	0	32	1.37
42212895--42212932	2	19.0	2	100	0	76	50	0	0	50	1.00

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