genome.fa.s9.2.7.7.80.10.50.1000.129.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  129  of  182  ( 21729 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)
40908183--40908268	28	3.1	28	68	15	70	58	2	2	37	1.24
40908803--40908913	37	3.1	37	89	7	183	27	14	21	36	1.93
40908803--40908908	34	3.0	35	93	4	169	28	15	20	35	1.93
40908842--40908898	19	3.2	19	68	27	61	29	14	21	35	1.92
40910683--40910721	6	6.5	6	87	0	51	23	30	0	46	1.53
40914242--40914284	23	1.9	23	85	4	61	48	11	9	30	1.71
40916094--40916125	3	10.7	3	93	0	55	65	0	31	3	1.08
40921697--40921762	31	2.1	31	86	10	91	68	4	1	25	1.18
40921711--40921762	5	10.2	5	83	4	59	71	3	1	23	1.13
40921788--40921962	60	2.9	59	80	4	208	38	2	20	38	1.67
40921788--40921962	30	5.9	29	81	8	147	38	2	20	38	1.67
40922476--40922520	23	2.0	23	82	4	56	24	0	8	66	1.20
40923701--40923742	20	2.2	19	86	4	57	2	30	0	66	1.04
40924317--40924384	28	2.5	28	83	4	86	39	0	2	57	1.14
40924340--40924394	18	3.1	18	76	7	58	41	1	1	54	1.21
40924335--40924394	28	2.1	28	81	6	68	40	1	3	55	1.27
40924847--40924928	19	4.2	18	73	18	58	31	3	2	62	1.26
40924865--40924928	20	3.2	20	74	12	69	31	3	3	62	1.26
40924853--40924917	29	2.2	30	81	10	71	29	4	3	63	1.30
40926064--40926099	13	2.8	13	91	0	54	41	19	0	38	1.52
40926462--40926590	46	2.8	46	84	1	161	17	20	17	44	1.87
40926555--40927070	45	11.5	45	76	4	434	23	18	17	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40926565--40927070	90	5.6	89	85	1	636	23	18	17	40	1.91
40927074--40927284	45	4.7	45	76	1	199	22	18	19	39	1.93
40927074--40927284	89	2.4	90	90	2	318	22	18	19	39	1.93
40926866--40927278	208	2.0	208	96	0	763	23	19	18	38	1.93
40934141--40934690	59	9.4	58	87	4	712	34	4	28	31	1.78
40934141--40934688	176	3.1	175	86	3	760	35	4	28	31	1.78
40934147--40934688	235	2.3	235	88	2	777	35	4	28	31	1.78
40936219--40936257	20	2.0	20	89	0	60	17	17	48	15	1.81
40936300--40936352	14	3.9	14	80	9	65	16	18	30	33	1.94
40936375--40936470	6	16.0	6	72	16	74	47	2	1	48	1.20
40936403--40936461	25	2.5	23	81	10	73	52	3	1	42	1.28
40936399--40936472	31	2.5	31	85	12	95	52	2	1	43	1.23
40936400--40936470	17	4.4	17	74	16	71	53	2	1	42	1.24
40936838--40936909	22	3.2	22	80	4	81	33	31	15	19	1.93
40938523--40938571	24	2.0	26	88	8	75	71	4	2	22	1.13
40939070--40939108	20	2.0	20	89	0	60	17	17	48	15	1.81
40939151--40939203	14	3.9	14	80	9	65	16	18	30	33	1.94
40939226--40939321	6	16.0	6	72	16	74	47	2	1	48	1.20
40939254--40939312	25	2.5	23	81	10	73	52	3	1	42	1.28
40939250--40939323	31	2.5	31	85	12	95	52	2	1	43	1.23
40939251--40939321	17	4.4	17	74	16	71	53	2	1	42	1.24
40939654--40940364	68	10.5	68	95	0	1219	26	20	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40952329--40952759	59	7.4	58	87	5	573	33	4	29	31	1.79
40952329--40952757	118	3.7	118	88	1	632	33	4	29	31	1.79
40954285--40954323	20	2.0	20	89	0	60	17	17	48	15	1.81
40954366--40954418	14	3.9	14	80	9	65	16	18	30	33	1.94
40954441--40954566	6	21.0	6	73	16	93	48	2	1	47	1.24
40954465--40954554	31	2.9	31	93	4	148	50	3	2	44	1.31
40954442--40954522	43	1.9	42	82	7	101	44	2	1	51	1.22
40954531--40954566	16	2.2	16	90	0	54	61	2	0	36	1.11
40954933--40955004	22	3.2	22	80	4	81	33	31	15	19	1.93
40956617--40956667	25	2.0	27	88	7	79	72	3	1	21	1.11
40968155--40968226	35	2.1	35	100	0	144	29	27	2	40	1.70
40968524--40968571	18	2.7	17	84	9	60	0	31	0	68	0.90
40969186--40969242	29	1.9	29	85	3	78	42	15	10	31	1.81
40969540--40969616	10	8.3	9	70	24	54	35	2	1	61	1.18
40969542--40969604	28	2.3	27	83	8	74	36	1	1	60	1.16
40969538--40969609	16	4.2	17	73	21	60	37	2	1	58	1.21
40973975--40974250	150	1.9	146	85	5	383	30	8	14	46	1.73
40983691--40983742	27	1.9	27	84	7	70	38	21	0	40	1.53
40990922--40991100	43	4.2	43	76	6	175	29	27	18	24	1.98
40991077--40991124	25	1.9	25	86	0	69	29	16	27	27	1.97
40991034--40991162	68	1.9	68	86	0	186	30	23	19	27	1.98
40993689--40993718	16	1.9	15	93	6	51	46	13	16	23	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40998061--40998228	82	2.0	82	81	2	194	27	25	23	23	2.00
40998057--40998240	41	4.5	41	81	0	170	27	26	23	22	2.00
41001827--41001875	20	2.7	17	74	17	53	48	2	0	48	1.12
41007218--41007273	2	28.0	2	100	0	112	50	0	0	50	1.00
41019124--41019153	14	2.2	13	94	5	51	63	3	0	33	1.11
41019210--41019236	4	6.8	4	100	0	54	48	0	0	51	1.00
41019977--41020045	33	2.1	33	82	12	81	55	10	8	26	1.62
41033842--41034559	358	2.0	358	99	0	1427	38	17	11	33	1.85
41034691--41034728	17	2.2	17	90	0	58	55	10	13	21	1.67
41039787--41039847	24	2.5	22	82	15	68	54	0	0	45	1.00
41041492--41041535	22	2.0	22	86	0	61	50	2	6	40	1.42
41042721--41042774	15	3.8	14	81	18	67	50	0	3	46	1.19
41042721--41042774	8	6.4	8	81	14	56	50	0	3	46	1.19
41043100--41043149	13	3.8	13	83	0	64	42	6	8	44	1.58
41043815--41043883	28	2.5	28	100	0	138	47	7	10	34	1.65
41045237--41045285	20	2.5	20	89	0	71	48	14	10	26	1.75
41047132--41047163	3	10.7	3	100	0	64	31	0	0	68	0.90
41047726--41047764	10	3.8	10	80	6	51	71	0	7	20	1.10
41048597--41048661	20	3.0	20	77	16	67	67	23	3	6	1.27
41048611--41048656	12	3.8	12	79	0	56	69	21	4	4	1.24
41048613--41048658	24	2.0	23	91	4	74	67	23	4	4	1.27
41048585--41048693	44	2.5	43	80	7	121	67	19	3	9	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41048716--41048786	21	3.2	22	78	11	65	69	19	4	7	1.29
41048699--41048798	22	4.6	20	74	18	76	65	21	7	7	1.41
41049038--41049102	24	2.8	23	75	13	62	40	10	1	47	1.48
41049053--41049519	142	3.3	139	79	10	509	44	7	2	44	1.47
41049080--41049498	142	2.9	142	82	6	526	45	6	3	44	1.46
41050186--41050296	27	3.9	27	71	15	89	48	10	17	23	1.78
41050183--41050377	58	3.3	58	84	3	230	49	10	14	25	1.75
41057208--41057271	24	2.7	23	78	2	74	26	12	17	43	1.84
41057261--41057306	23	2.0	23	87	8	67	41	10	17	30	1.84
41060074--41060115	16	2.6	16	88	7	59	69	9	2	19	1.28
41065845--41065915	31	2.2	32	82	2	90	33	12	14	39	1.83
41068575--41068603	14	2.0	15	93	6	51	68	3	0	27	1.05
41073621--41073668	10	4.7	10	79	20	55	31	0	8	60	1.26
41080583--41080616	15	2.3	15	100	0	68	17	11	26	44	1.83
41094377--41094423	24	1.9	24	82	4	58	42	2	4	51	1.33
41094697--41094728	2	16.0	2	100	0	64	0	50	0	50	1.00
41095917--41095948	12	2.6	12	95	5	55	81	0	15	3	0.82
41100077--41100103	14	1.9	14	100	0	54	33	0	14	51	1.43
41107143--41107329	102	1.8	104	85	2	270	44	11	10	33	1.76
41110460--41110614	27	5.8	27	83	4	172	35	21	18	25	1.95
41111254--41111341	31	2.8	31	91	0	131	30	14	21	32	1.94
41118601--41118680	29	2.8	29	74	9	83	48	0	2	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41118598--41118724	57	2.2	58	84	6	161	48	0	1	49	1.16
41122474--41122578	46	2.5	44	82	13	114	37	25	5	31	1.80
41122485--41122578	44	2.1	44	86	7	127	37	26	5	30	1.79
41122560--41122631	16	4.5	16	92	0	117	27	31	4	36	1.76
41129377--41129422	24	1.9	23	86	8	65	54	6	4	34	1.46
41129488--41129521	13	2.6	13	85	0	50	58	11	0	29	1.33
41130450--41130485	11	3.2	11	92	4	54	0	16	2	80	0.83
41130475--41130529	24	2.3	24	87	9	85	12	10	1	74	1.15
41130478--41130530	10	4.8	10	78	19	52	13	13	1	71	1.22
41130489--41130519	14	2.3	14	94	5	55	12	9	0	77	0.99

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