genome.fa.s4.2.7.7.80.10.50.1000.33.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  33  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)
10333680--10333705	13	2.0	13	100	0	52	30	0	15	53	1.42
10342232--10342268	2	18.5	2	100	0	74	48	0	51	0	1.00
10343404--10343447	3	14.3	3	95	4	79	31	2	0	65	1.05
10346810--10346875	33	2.0	33	96	0	123	25	22	15	36	1.93
10349230--10349267	17	2.3	17	86	13	53	18	7	2	71	1.23
10359125--10359164	21	1.9	21	90	10	64	20	15	25	40	1.90
10365086--10365168	6	13.2	6	72	18	62	22	2	13	61	1.43
10365091--10365163	26	2.8	26	91	0	101	24	2	12	60	1.45
10365086--10365169	32	2.6	33	83	11	111	22	2	14	60	1.45
10365311--10365416	6	17.0	6	77	14	81	64	10	1	23	1.35
10365317--10365400	32	2.6	32	88	0	114	64	8	2	25	1.34
10365310--10365443	38	3.4	38	77	11	151	62	11	2	23	1.39
10365349--10365443	50	1.9	50	88	0	145	64	10	2	23	1.36
10365458--10365533	27	2.8	27	78	7	91	21	23	30	25	1.99
10370076--10370141	13	5.1	13	72	7	53	36	21	6	36	1.78
10374248--10374286	17	2.3	17	86	8	53	17	12	25	43	1.85
10381941--10381987	24	2.0	24	100	0	94	23	8	0	68	1.17
10394363--10395194	75	11.0	76	94	2	1371	32	16	18	32	1.93
10394363--10395194	151	5.5	152	92	3	1371	32	16	18	32	1.93
10394385--10395114	38	19.4	37	68	20	403	32	15	19	32	1.93
10395565--10395639	6	13.0	6	72	22	54	49	4	0	46	1.20
10395565--10395622	17	3.5	17	92	2	91	43	5	0	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10395576--10395631	17	3.3	17	75	9	51	50	5	0	44	1.25
10396070--10396124	28	2.0	28	85	0	74	40	29	3	27	1.73
10397259--10397751	162	3.1	161	88	3	712	25	17	12	44	1.83
10397825--10398098	29	9.5	27	73	16	212	32	29	2	35	1.73
10397822--10398129	58	5.3	58	89	3	442	31	30	3	34	1.75
10397822--10398165	115	3.0	114	85	6	435	31	30	4	33	1.78
10405494--10405593	39	2.6	38	85	4	130	50	8	5	37	1.54
10407919--10408006	46	1.9	46	88	0	131	40	20	9	29	1.83
10410948--10410975	10	2.8	10	100	0	56	50	0	10	39	1.37
10415557--10415590	17	2.0	17	88	0	50	41	23	0	35	1.55
10415740--10415797	18	3.1	18	83	9	64	56	1	0	41	1.09
10420509--10420566	24	2.4	24	85	0	80	31	20	22	25	1.98
10420555--10420624	27	2.6	27	93	2	113	34	22	20	22	1.97
10423681--10423737	17	3.3	17	82	4	78	33	0	7	59	1.24
10423705--10423762	23	2.5	24	88	2	91	39	1	3	55	1.27
10423734--10423776	17	2.4	18	84	3	52	39	6	0	53	1.28
10423705--10423762	6	9.8	6	80	10	57	39	1	3	55	1.27
10425576--10425893	29	10.9	28	76	10	226	36	19	3	41	1.67
10425588--10425978	29	13.4	29	76	8	213	35	21	3	39	1.70
10425851--10425978	56	2.2	58	86	5	172	35	26	3	34	1.75
10425966--10426124	58	2.8	58	81	6	155	33	23	6	36	1.80
10425994--10426124	29	4.5	29	76	11	124	35	24	6	34	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10425760--10426173	87	4.8	88	75	12	290	35	24	4	36	1.75
10426020--10426183	29	5.6	29	71	15	88	34	25	3	36	1.74
10426258--10426315	24	2.4	24	82	8	64	22	8	5	63	1.42
10427796--10428153	84	4.2	84	91	2	527	38	15	22	22	1.92
10431411--10431485	25	3.0	25	81	11	82	78	1	14	5	0.99
10431432--10431495	13	4.8	13	70	18	51	78	1	15	4	1.00
10432409--10432953	50	10.9	50	76	7	480	36	18	29	15	1.91
10432449--10432988	202	2.7	201	87	1	769	37	17	29	15	1.90
10432411--10432947	151	3.6	146	75	7	445	36	18	29	14	1.91
10432817--10432973	50	3.1	49	74	6	136	38	17	27	17	1.92
10433145--10433229	40	2.1	40	84	4	109	32	15	16	35	1.90
10433223--10433324	39	2.6	40	80	9	122	27	31	18	22	1.97
10433416--10435037	209	7.8	209	88	2	2107	37	18	21	22	1.95
10436897--10437611	29	24.5	28	72	10	305	37	22	3	36	1.72
10436914--10437611	88	8.0	88	74	9	303	36	23	3	36	1.72
10436884--10437557	117	5.8	114	74	11	410	36	23	3	36	1.71
10437133--10437611	86	5.5	87	77	9	340	36	23	3	35	1.73
10437717--10437780	24	2.6	23	82	9	65	20	12	4	62	1.47
10437891--10438067	97	1.8	98	88	3	277	27	18	16	37	1.92
10441930--10441982	26	2.0	26	88	0	79	28	15	26	30	1.96
10442016--10442074	26	2.3	26	93	0	100	23	20	23	32	1.98
10446973--10447005	12	2.8	12	95	0	57	27	12	18	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10453891--10453927	6	6.0	6	96	3	65	48	0	2	48	1.15
10460903--10460937	3	11.7	3	93	0	61	31	0	2	65	1.07
10461461--10461537	39	2.0	39	100	0	154	44	3	7	44	1.51
10470943--10471076	68	2.0	68	90	0	214	35	6	11	45	1.68
10472052--10472085	4	8.5	4	86	0	50	44	26	5	23	1.76
10472052--10472085	16	2.1	16	100	0	68	44	26	5	23	1.76
10475903--10475966	29	2.1	30	82	5	76	37	4	23	34	1.76
10476002--10476115	60	1.9	60	82	10	144	37	7	21	33	1.82
10476122--10476200	30	2.7	28	79	9	95	36	3	26	32	1.75
10476063--10476347	29	9.8	30	74	11	163	37	3	24	34	1.72
10476100--10476251	59	2.6	57	79	7	144	36	2	24	36	1.70
10476131--10476348	29	7.5	29	77	9	176	35	3	25	35	1.72
10476118--10476339	87	2.5	88	78	5	236	36	3	25	34	1.72
10476094--10476349	58	4.4	58	76	11	186	37	2	24	35	1.70
10477372--10477430	19	3.6	16	77	18	59	30	3	1	64	1.20
10478611--10479106	39	12.7	38	68	11	247	28	21	29	21	1.98
10478587--10479106	78	6.7	78	84	0	630	27	20	30	21	1.98
10478587--10479106	156	3.3	155	85	2	695	27	20	30	21	1.98
10481010--10481058	21	2.3	21	100	0	98	32	6	38	22	1.79
10483890--10483928	6	6.5	6	87	0	51	23	30	0	46	1.53
10490549--10490573	10	2.5	10	100	0	50	72	8	20	0	1.10
10492462--10492602	58	2.5	57	80	9	144	31	2	31	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10492593--10492698	29	3.6	29	72	8	81	38	2	25	33	1.71
10492519--10492720	59	3.5	59	71	14	143	35	2	27	34	1.71
10492343--10492720	30	12.9	29	69	15	172	34	2	27	35	1.72
10493731--10493774	21	2.1	22	87	8	65	29	9	18	43	1.80
10493839--10493863	7	3.6	7	100	0	50	56	0	0	44	0.99
10496007--10496124	62	1.9	61	85	1	164	43	8	19	28	1.80
10509688--10509733	20	2.3	20	92	3	76	36	15	6	41	1.73
10511222--10511356	29	4.6	28	73	15	80	37	10	19	33	1.86
10511239--10511377	29	4.7	29	73	15	99	38	8	21	31	1.84
10511243--10511377	59	2.3	58	75	13	134	38	8	20	32	1.82
10511394--10511843	58	7.7	58	75	12	332	34	2	26	36	1.72
10511488--10511597	59	1.9	57	85	7	150	30	6	30	32	1.82
10511298--10511843	146	3.7	145	79	7	507	34	3	26	35	1.74
10511396--10511863	29	15.9	30	74	13	198	34	3	27	35	1.73
10511360--10511863	58	8.6	59	76	11	274	34	3	27	35	1.74
10513671--10513752	17	5.0	17	76	8	89	57	3	1	37	1.24
10514252--10514305	28	1.9	28	85	7	74	24	24	22	29	1.99
10514243--10514375	70	1.9	70	92	0	221	27	26	21	24	1.99
10514322--10514381	28	2.1	28	90	6	95	28	28	18	25	1.98
10518236--10518296	28	2.1	29	81	3	70	39	26	8	26	1.84
10524017--10524143	4	31.5	4	81	4	112	66	5	2	25	1.25
10524019--10524121	29	3.6	28	80	6	102	67	4	2	24	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10530470--10530531	20	3.0	19	76	15	61	30	1	0	67	1.00
10537017--10537149	20	6.7	20	74	3	79	41	5	11	42	1.63
10537033--10537150	40	3.0	40	76	5	103	43	6	10	39	1.65
10540529--10540629	51	2.0	51	94	0	175	30	15	13	39	1.87
10550272--10550298	4	6.8	4	100	0	54	25	0	22	51	1.48
10550459--10550492	16	2.1	16	100	0	68	29	11	11	47	1.76
10550705--10550810	31	3.5	31	69	21	91	25	17	12	44	1.84
10550707--10550873	59	2.8	60	84	7	218	23	17	13	45	1.84
10551093--10551174	31	2.7	31	85	5	107	48	9	13	28	1.74
10551093--10551158	29	2.2	29	89	5	96	48	10	12	28	1.74

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