genome.fa.s4.2.7.7.80.10.50.1000.105.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  105  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)
33783788--33783833	16	2.9	16	96	0	83	36	6	0	56	1.25
33784467--33784505	15	2.8	14	81	11	53	23	7	17	51	1.71
33784504--33784643	17	8.3	16	85	7	147	53	1	0	45	1.09
33784520--33784643	6	22.0	6	72	12	102	54	1	0	44	1.10
33784505--33784645	67	2.2	66	83	9	184	53	1	0	44	1.09
33787414--33787444	16	1.9	16	100	0	62	45	12	0	41	1.42
33788457--33788538	37	2.2	37	93	0	137	37	34	20	7	1.81
33799119--33799258	47	3.0	47	100	0	280	47	8	15	29	1.74
33799842--33799942	53	1.9	53	85	4	141	21	16	34	26	1.95
33813081--33813139	31	1.9	31	92	0	100	28	22	11	37	1.89
33816857--33816886	2	15.0	2	100	0	60	50	0	0	50	1.00
33819182--33819326	30	4.8	30	83	1	157	35	7	22	34	1.82
33819183--33819326	60	2.4	60	83	2	182	36	6	22	34	1.81
33821036--33821159	40	3.1	40	81	6	153	28	17	20	33	1.96
33821240--33821363	50	2.5	50	85	2	151	24	25	16	33	1.95
33831838--33831995	59	2.6	60	83	5	194	34	5	24	35	1.79
33831838--33831995	30	5.3	30	81	6	185	34	5	24	35	1.79
33833454--33833512	30	1.9	32	86	13	88	27	5	8	59	1.48
33833576--33833643	34	2.0	33	83	13	86	38	1	2	57	1.23
33834156--33834189	6	5.5	6	96	3	59	0	32	0	67	0.91
33835181--33835322	64	2.2	66	80	7	150	49	3	9	38	1.52
33837614--33837787	96	1.8	95	97	1	330	35	12	10	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33838834--33838867	3	11.0	3	87	6	50	35	2	0	61	1.11
33842137--33842197	13	4.8	13	80	9	72	36	8	6	49	1.59
33842137--33842190	26	2.1	26	89	0	81	33	5	7	53	1.52
33847618--33847839	109	2.0	111	97	1	421	57	7	11	23	1.59
33848246--33848284	21	2.0	20	90	10	62	61	2	0	35	1.10
33848296--33848577	141	2.0	141	100	0	564	40	16	14	29	1.87
33849337--33849372	18	1.9	19	94	5	65	13	0	8	77	0.98
33849279--33849770	187	2.6	186	88	6	696	30	10	12	46	1.75
33849710--33849746	19	1.9	19	88	0	56	13	2	5	78	1.03
33850128--33850158	3	10.7	3	93	6	55	32	0	0	67	0.91
33854008--33854084	17	4.5	17	90	0	109	42	1	3	51	1.28
33854000--33854024	12	2.1	12	100	0	50	40	8	0	52	1.31
33854016--33854113	6	17.3	6	68	18	59	42	0	5	52	1.23
33854057--33854108	26	2.0	26	85	7	70	40	0	3	55	1.18
33854023--33854108	11	7.8	11	72	10	59	41	0	4	53	1.21
33854016--33854144	17	7.6	17	79	13	106	44	0	4	50	1.22
33854095--33854142	18	2.7	18	83	3	53	45	0	4	50	1.21
33854780--33854815	9	4.0	9	85	0	54	50	0	2	47	1.15
33855903--33856097	30	6.6	30	89	2	245	39	22	3	35	1.70
33855903--33856127	30	7.7	29	84	6	240	37	24	3	35	1.71
33855930--33855984	15	3.3	19	63	36	54	40	27	3	29	1.73
33856080--33856209	29	4.5	30	71	23	100	33	29	1	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33856079--33856209	59	2.3	57	86	5	183	34	29	1	35	1.67
33863028--33863060	12	2.8	12	90	0	57	66	0	30	3	1.06
33868006--33868240	46	5.1	46	59	15	108	33	20	18	27	1.96
33867844--33868286	92	4.8	92	97	0	814	33	20	17	27	1.95
33868553--33868649	17	5.8	17	86	4	117	45	1	3	50	1.24
33868545--33868569	12	2.1	12	100	0	50	40	8	0	52	1.31
33868568--33868653	11	7.8	11	73	10	68	43	0	3	53	1.18
33868561--33868658	6	17.3	6	70	18	68	43	0	4	52	1.20
33868561--33868689	17	7.6	17	79	13	115	45	0	3	50	1.20
33869328--33869363	9	4.0	9	85	0	54	50	0	2	47	1.15
33870515--33870569	15	3.3	19	63	36	54	40	27	3	29	1.73
33870455--33870683	30	7.7	30	85	8	256	37	22	2	37	1.67
33870665--33870822	29	5.5	28	70	20	94	34	31	1	32	1.69
33870664--33870799	58	2.3	58	87	3	202	31	32	2	33	1.70
33870665--33870822	58	2.7	57	81	9	151	34	31	1	32	1.69
33875558--33875806	53	4.7	53	85	2	322	28	17	22	32	1.96
33877845--33877891	25	2.0	25	87	8	71	36	4	6	53	1.46
33878269--33878307	14	2.7	15	80	8	53	25	7	10	56	1.59
33885010--33885042	16	2.1	16	94	0	57	33	6	9	51	1.58
33891958--33892002	22	2.0	22	86	0	63	6	35	26	31	1.82
33893055--33893080	3	8.7	3	100	0	52	65	0	34	0	0.93
33893098--33893143	3	15.3	3	100	0	92	67	0	32	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33894215--33894291	33	2.4	32	89	4	120	36	3	1	58	1.25
33895058--33895088	6	5.0	6	92	7	53	80	0	19	0	0.71
33897787--33897830	17	2.5	18	88	7	72	36	0	6	56	1.26
33897787--33897862	35	2.2	35	82	0	89	38	2	6	52	1.41
33899739--33899833	30	3.1	30	75	11	95	40	22	2	35	1.66
33903878--33903912	18	1.9	18	100	0	70	40	0	14	45	1.45
33907327--33907406	29	2.6	30	84	5	90	45	15	7	32	1.74
33917746--33917789	21	2.2	21	88	8	65	9	27	4	59	1.48
33920000--33920073	13	6.1	12	73	17	55	43	0	8	48	1.32
33920001--33920074	36	2.1	36	100	0	148	41	0	8	50	1.32
33919999--33920058	18	3.3	19	73	17	72	43	0	8	48	1.33
33920013--33920071	18	3.3	18	73	17	68	44	0	5	50	1.24
33920230--33920278	20	2.4	21	80	10	57	63	2	0	34	1.06
33920242--33920280	15	2.6	14	88	8	51	66	0	0	33	0.92
33920320--33920352	16	2.0	17	88	5	50	18	6	24	51	1.68
33921962--33921996	13	2.5	15	90	9	56	62	0	2	34	1.10
33922673--33922743	35	2.0	35	88	0	106	30	25	2	40	1.70
33923731--33923788	20	2.8	20	70	10	55	36	20	13	29	1.91
33923827--33923871	21	2.1	21	88	8	65	28	17	17	35	1.93
33924554--33924591	13	2.9	13	96	0	67	89	7	0	2	0.57
33924564--33924605	17	2.4	17	84	4	57	85	9	0	4	0.72
33924555--33924591	7	5.6	7	81	12	51	89	8	0	2	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33932997--33933066	32	2.3	31	85	9	90	15	4	4	75	1.11
33934595--33934727	70	1.9	67	84	4	176	43	14	12	30	1.81
33936556--33936585	14	2.1	14	100	0	60	60	13	6	20	1.55
33945496--33945572	21	3.7	21	76	0	82	32	27	9	31	1.88
33945726--33945765	21	1.9	21	89	0	62	30	25	20	25	1.99
33953548--33953747	41	4.8	41	86	3	265	27	27	10	35	1.89
33953517--33953747	83	2.8	83	86	5	306	26	25	10	36	1.88
33958056--33958112	28	2.2	25	84	9	69	61	8	3	26	1.42
33958216--33958284	19	3.3	20	80	15	79	40	0	4	55	1.20
33958581--33959863	437	3.0	429	81	8	1341	35	10	12	41	1.78
33962389--33962458	31	2.3	31	79	0	77	40	10	8	41	1.69
33962608--33962755	73	2.0	73	93	0	251	38	19	8	33	1.83
33966210--33966292	43	1.9	43	92	0	139	27	14	24	33	1.94
33976193--33976236	19	2.3	19	84	0	52	43	2	9	45	1.48
33977145--33977175	15	2.1	15	94	5	55	19	22	29	29	1.98
33983594--33983640	16	2.9	16	87	3	67	48	23	0	27	1.51
33984508--33984634	33	3.8	33	88	6	177	31	0	46	22	1.52
33984531--33984727	66	3.0	65	77	10	211	29	2	45	22	1.64
33984548--33984727	33	5.5	33	77	9	125	29	2	45	22	1.64
33984763--33984874	51	2.2	51	90	0	170	32	9	24	33	1.88
33991593--33991627	17	2.1	17	89	10	54	17	11	0	71	1.14
34004720--34004833	38	3.0	38	88	0	165	18	19	21	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34013868--34013928	19	3.2	19	80	13	72	36	0	3	60	1.13
34014686--34014719	16	2.2	15	89	5	50	91	0	5	2	0.51
34017969--34018024	25	2.3	24	73	11	60	17	1	17	62	1.42
34035016--34035060	3	15.3	3	90	4	74	28	0	0	71	0.87
34042937--34042974	20	1.9	20	84	10	51	42	0	2	55	1.14
34046600--34046664	31	2.1	32	85	2	87	24	4	9	61	1.45
34047036--34047069	17	2.0	17	100	0	68	52	11	5	29	1.61
34049216--34049265	23	2.1	24	88	3	75	54	4	0	42	1.19
34051299--34051335	19	1.9	19	88	0	56	37	16	13	32	1.87
34064334--34064525	78	2.5	76	80	7	226	36	18	21	23	1.95

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