genome.fa.s4.2.7.7.80.10.50.1000.180.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  180  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)
56270805--56270838	15	2.2	16	89	5	52	67	0	0	32	0.91
56270992--56271035	23	1.9	23	81	9	54	54	9	2	34	1.44
56274880--56274923	20	2.0	20	83	12	52	45	4	0	50	1.22
56276362--56276545	93	2.0	92	84	4	237	40	18	7	33	1.78
56276683--56276729	21	2.2	22	82	17	64	59	6	4	29	1.41
56276683--56276729	20	2.3	21	85	10	62	59	6	4	29	1.41
56276964--56277033	19	3.7	19	71	17	65	32	2	2	61	1.25
56276916--56277063	57	2.6	57	84	6	178	29	7	2	60	1.38
56276973--56277066	10	10.2	8	70	23	53	27	5	2	64	1.26
56276964--56277049	29	3.1	28	78	5	102	31	3	2	62	1.24
56276999--56277090	10	9.4	10	70	11	57	27	5	2	65	1.26
56276964--56277063	19	5.3	19	72	14	64	31	5	2	62	1.28
56276980--56277066	18	4.7	18	77	13	70	28	5	1	64	1.24
56281174--56281356	100	1.8	100	88	2	278	37	8	4	49	1.52
56289246--56289316	30	2.6	26	74	14	63	61	1	1	35	1.13
56289379--56289438	19	3.0	20	80	9	79	65	3	6	25	1.33
56289381--56289439	20	3.0	20	80	14	70	66	1	6	25	1.26
56294875--56294907	15	2.2	15	100	0	66	42	33	6	18	1.75
56298154--56298184	15	2.1	15	100	0	62	19	22	0	58	1.40
56298404--56298435	16	2.0	16	100	0	64	25	6	18	50	1.70
56301427--56301456	9	3.3	9	90	0	51	10	3	0	86	0.67
56313783--56313886	52	2.0	52	92	0	172	46	19	2	31	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56316073--56316164	28	3.2	28	73	11	96	38	1	31	29	1.65
56316081--56316210	29	4.4	31	72	14	105	36	0	26	36	1.62
56316041--56316171	58	2.2	58	91	1	208	35	2	29	32	1.70
56316041--56316141	29	3.4	30	71	13	93	35	2	29	31	1.73
56316154--56316294	30	4.7	30	82	9	164	33	2	24	39	1.67
56317048--56317111	23	2.6	24	74	18	69	1	20	7	70	1.21
56317374--56317429	28	2.0	27	86	10	78	32	3	0	64	1.11
56317375--56317413	3	13.0	3	84	10	53	30	2	0	66	1.05
56318128--56318186	6	10.0	6	77	17	61	54	1	1	42	1.20
56318136--56318196	11	5.9	10	75	19	54	55	3	1	39	1.26
56318129--56318186	31	1.9	30	92	3	98	55	1	1	41	1.20
56318512--56318669	52	3.3	52	68	26	173	27	18	17	36	1.94
56318453--56318710	92	2.8	92	96	0	480	27	18	17	36	1.94
56318696--56318806	31	3.4	31	73	13	114	27	18	15	37	1.91
56318653--56319489	68	11.9	68	86	6	1125	29	19	16	34	1.94
56318653--56319489	212	4.0	204	87	6	1111	29	19	16	34	1.94
56318908--56319368	31	13.5	31	65	20	161	29	19	16	34	1.94
56318653--56319489	280	3.0	280	94	1	1417	29	19	16	34	1.94
56331262--56331353	28	3.2	28	70	11	87	36	1	32	29	1.65
56331270--56331566	30	10.1	30	77	13	194	37	2	23	37	1.67
56331230--56331321	29	3.1	29	71	13	89	36	2	29	31	1.69
56331230--56331360	58	2.2	58	90	1	199	35	1	30	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56331335--56331566	60	3.9	59	85	5	299	37	2	22	38	1.66
56331343--56331571	30	7.7	29	82	9	223	37	2	21	37	1.68
56331343--56331566	59	3.8	59	86	7	276	37	2	21	38	1.66
56332638--56332693	28	2.0	27	86	10	78	32	3	0	64	1.11
56332639--56332677	3	13.0	3	84	10	53	30	2	0	66	1.05
56333391--56333449	6	10.0	6	77	17	61	54	1	1	42	1.20
56333399--56333459	11	5.9	10	75	19	54	55	3	1	39	1.26
56333392--56333449	31	1.9	30	92	3	98	55	1	1	41	1.20
56334254--56334303	6	9.0	6	75	16	54	48	0	2	50	1.12
56334255--56334284	15	2.0	15	100	0	60	46	0	0	53	1.00
56334254--56334303	21	2.3	23	89	6	77	48	0	2	50	1.12
56334277--56334319	17	2.5	17	88	0	59	51	0	2	46	1.13
56334901--56334941	19	2.2	19	86	0	55	41	0	7	51	1.30
56335081--56335112	15	2.1	15	94	0	55	59	6	3	31	1.38
56336182--56336252	29	2.5	28	84	6	88	35	19	4	40	1.71
56336211--56336405	59	3.3	58	75	9	198	33	26	1	38	1.66
56336319--56336418	30	3.4	28	72	14	85	37	30	3	30	1.72
56336319--56336420	29	3.4	29	75	12	100	37	29	2	30	1.72
56336240--56336456	117	1.8	118	81	6	271	34	25	2	37	1.71
56339554--56339623	31	2.1	34	85	15	94	40	12	28	18	1.88
56339737--56339800	20	3.2	20	77	14	69	4	4	17	73	1.18
56339778--56339812	16	2.2	16	89	0	52	8	2	17	71	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56339738--56339853	57	2.0	60	84	6	157	5	5	18	71	1.23
56339738--56339834	28	3.4	28	72	13	74	4	5	19	71	1.22
56339823--56339903	11	7.1	11	72	12	56	7	2	17	72	1.18
56339737--56339837	31	3.4	30	71	16	86	3	4	19	71	1.21
56339823--56339904	43	1.9	43	84	0	110	7	2	17	73	1.17
56339848--56339917	20	3.3	20	75	9	68	11	1	17	70	1.24
56340935--56340959	2	12.5	2	100	0	50	48	0	0	52	1.00
56341045--56341077	16	2.1	16	94	0	57	42	12	27	18	1.85
56348678--56348730	8	6.3	9	79	14	51	28	0	5	66	1.15
56350422--56350483	24	2.5	24	79	7	72	54	1	3	40	1.26
56365462--56365576	58	2.0	58	93	3	196	33	0	20	46	1.50
56369718--56369776	27	2.1	28	81	3	66	38	3	10	47	1.54
56372454--56372672	69	3.0	69	81	12	294	49	11	15	24	1.77
56372523--56372672	79	1.9	79	91	0	246	50	11	15	23	1.76
56394050--56394098	22	2.2	23	78	10	57	63	8	0	28	1.23
56395152--56395195	21	2.2	20	88	12	63	70	2	0	27	0.99
56395157--56395219	20	3.1	20	79	6	56	60	1	3	34	1.22
56399895--56399933	9	4.4	9	90	3	62	53	0	0	46	1.00
56400821--56400887	21	3.0	22	78	10	57	46	2	2	47	1.33
56402690--56402731	16	2.7	16	85	10	52	57	2	0	40	1.12
56403630--56403656	6	4.5	6	100	0	54	33	0	51	14	1.43
56404971--56405063	42	2.2	42	82	3	107	26	23	22	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56407663--56407719	22	2.7	20	83	5	60	66	3	1	28	1.18
56410738--56410771	15	2.3	15	90	5	52	26	0	0	73	0.83
56410890--56410917	10	2.8	10	100	0	56	28	0	0	71	0.86
56410780--56411143	141	2.5	139	80	12	391	35	1	15	48	1.53
56411217--56411276	24	2.5	22	72	17	57	30	0	11	58	1.34
56411365--56411455	44	2.2	41	79	16	98	24	0	8	67	1.19
56416719--56416929	30	7.2	27	68	21	97	31	2	31	34	1.72
56416705--56416959	59	4.3	59	86	4	327	32	3	30	33	1.74
56416703--56416959	117	2.2	118	85	3	340	32	3	31	33	1.75
56416823--56416958	28	4.7	29	75	20	122	36	2	27	33	1.69
56416823--56416960	30	4.7	29	75	20	117	36	2	27	34	1.69
56418769--56418816	17	2.8	18	84	9	64	37	0	2	60	1.09
56420609--56420643	15	2.3	15	100	0	70	31	14	14	40	1.86
56432549--56432582	2	17.0	2	100	0	68	50	0	50	0	1.00
56436394--56436455	24	2.7	22	80	12	63	58	6	0	35	1.24
56436591--56436700	28	4.0	26	75	13	78	34	1	6	57	1.35
56438976--56439060	19	4.7	19	71	19	56	31	1	2	64	1.13
56444729--56444758	2	15.0	2	100	0	60	50	0	0	50	1.00
56449097--56449159	24	2.6	24	76	0	72	49	11	12	26	1.74
56451081--56451131	24	2.1	24	88	0	75	52	5	11	29	1.61
56456643--56456672	15	2.1	15	93	6	53	36	0	0	63	0.95
56462920--56462968	24	2.0	24	84	7	64	75	4	2	18	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56463783--56463841	15	3.9	15	100	0	118	40	5	6	47	1.52
56474381--56474426	18	2.5	19	75	6	51	69	2	0	28	1.00
56492707--56492760	26	2.1	26	82	6	65	38	1	1	57	1.20
56492917--56492960	18	2.4	18	81	7	54	43	2	2	52	1.26
56493227--56493264	20	1.9	20	84	10	51	44	0	5	50	1.24
56494054--56494100	24	2.0	24	91	0	76	70	6	0	23	1.10
56495745--56495886	23	6.4	23	71	15	120	44	21	22	11	1.85
56495751--56495825	39	1.9	39	88	0	114	44	20	22	13	1.86
56495792--56495883	22	4.0	22	77	12	78	42	21	22	13	1.87
56500669--56500708	18	2.2	18	86	0	53	42	5	2	50	1.37

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