genome.fa.s4.2.7.7.80.10.50.1000.175.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  175  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)
54522691--54522769	20	4.3	18	70	16	56	41	3	2	51	1.33
54522748--54522864	62	1.9	62	87	5	177	41	2	4	51	1.35
54524948--54524973	1	26.0	1	100	0	52	0	100	0	0	0.00
54526139--54526184	22	2.1	22	91	0	74	30	6	17	45	1.73
54530126--54530165	17	2.2	19	86	8	57	40	0	0	60	0.97
54530125--54530177	27	2.0	27	84	0	70	39	0	0	60	0.97
54532760--54532807	18	2.6	18	78	15	53	60	10	2	27	1.41
54538861--54538889	1	29.0	1	100	0	58	0	0	0	100	0.00
54542109--54542154	25	2.0	24	83	12	60	34	21	13	30	1.91
54542164--54542213	22	2.3	22	100	0	100	8	4	36	52	1.50
54547543--54547699	19	8.5	19	66	19	66	59	1	5	34	1.28
54552338--54552382	19	2.4	19	82	10	58	55	0	2	42	1.12
54556397--54556438	9	4.7	9	80	8	50	61	2	0	35	1.09
54556397--54556444	19	2.6	18	83	6	51	58	6	0	35	1.23
54563800--54563843	14	2.8	16	80	16	56	47	0	0	52	1.00
54564162--54564201	3	13.3	3	100	0	80	32	0	0	67	0.91
54566864--54566925	29	2.1	29	88	5	90	51	6	14	27	1.66
54567443--54567483	20	2.1	20	86	4	57	68	0	0	31	0.90
54586633--54586677	2	22.5	2	100	0	90	51	0	0	48	1.00
54587250--54587293	22	2.0	22	91	4	72	40	6	0	52	1.28
54588881--54588959	26	3.0	25	79	5	77	39	2	2	55	1.27
54592191--54592259	18	3.9	17	73	15	59	63	0	2	33	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54594461--54594495	17	2.1	18	89	10	56	42	11	0	45	1.40
54595418--54595455	19	2.0	19	94	0	67	52	13	10	23	1.71
54596733--54596761	12	2.3	13	94	5	51	86	0	0	13	0.58
54602231--54602282	26	1.9	26	84	7	68	50	3	5	40	1.45
54603139--54603251	56	2.0	56	98	0	217	30	14	26	29	1.95
54609562--54609599	17	2.2	17	90	0	58	15	10	26	47	1.78
54611593--54611653	26	2.2	28	80	8	72	52	1	0	45	1.10
54615066--54615149	39	2.2	40	80	6	100	41	5	0	52	1.26
54627470--54627630	79	2.0	80	97	1	306	32	25	14	27	1.95
54637169--54637269	17	6.0	16	78	9	94	41	0	2	55	1.15
54637173--54637250	28	2.8	28	82	3	95	41	0	3	55	1.18
54637179--54637269	6	16.2	6	73	21	56	41	0	2	56	1.12
54637176--54637250	11	6.8	11	76	11	73	42	0	2	54	1.14
54637172--54637271	50	2.0	50	86	3	139	43	0	3	54	1.16
54637179--54637272	28	3.6	26	73	16	79	43	0	2	54	1.12
54638050--54638078	9	3.2	9	100	0	58	58	0	0	41	0.98
54638049--54638089	18	2.3	19	83	12	59	63	0	0	36	0.95
54639126--54639346	30	7.4	30	89	2	304	37	23	1	36	1.66
54639126--54639322	91	2.2	91	89	2	301	38	24	1	35	1.65
54647981--54648049	19	3.5	19	68	12	50	24	4	10	60	1.47
54650692--54650756	27	2.4	28	87	7	98	40	1	1	56	1.18
54650669--54650758	17	5.8	16	76	16	73	42	1	1	55	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54650664--54650758	6	17.0	6	70	18	71	42	1	1	55	1.13
54650659--54650758	11	9.0	11	73	16	73	41	1	1	57	1.12
54650733--54650783	16	3.2	16	81	10	52	54	0	3	41	1.19
54650676--54650769	44	2.1	44	84	7	120	42	1	2	54	1.19
54651478--54651578	3	32.7	3	74	9	69	53	2	2	40	1.31
54651509--54651552	13	3.3	13	87	3	61	45	2	4	47	1.35
54652602--54653024	58	7.2	57	86	3	542	32	30	3	33	1.76
54652602--54652885	29	9.8	28	69	18	163	32	30	3	33	1.76
54652690--54653024	30	11.4	29	64	19	124	32	30	4	33	1.77
54654909--54654933	2	12.5	2	100	0	50	48	0	0	52	1.00
54659099--54659135	19	1.9	19	88	0	56	21	5	16	56	1.59
54659124--54659175	15	3.4	16	71	7	54	30	1	11	55	1.46
54659153--54659213	20	3.0	20	72	9	59	26	1	13	59	1.44
54668458--54668484	9	3.0	9	100	0	54	88	0	0	11	0.50
54669190--54669228	19	2.1	18	85	4	51	41	2	0	56	1.13
54670235--54670303	29	2.4	29	78	9	86	42	0	2	55	1.15
54672021--54672078	30	1.9	31	89	3	91	51	3	1	43	1.28
54673177--54673257	31	2.7	30	78	5	83	50	6	7	35	1.55
54676748--54676939	59	3.3	58	85	6	255	34	2	28	34	1.71
54676788--54676945	29	5.4	30	68	22	122	32	2	28	36	1.71
54676846--54676965	29	4.1	28	75	14	100	32	2	25	39	1.69
54676777--54676974	58	3.4	57	82	7	204	34	3	25	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54678462--54678526	26	2.5	26	100	0	112	23	6	24	46	1.75
54678932--54679007	17	4.5	17	75	5	73	52	3	1	42	1.28
54688345--54688386	22	2.0	21	85	4	57	45	7	4	42	1.52
54697290--54697348	17	3.4	17	76	15	59	61	20	1	16	1.44
54697291--54697348	18	3.3	17	74	11	55	62	20	1	15	1.42
54697360--54697392	14	2.3	15	89	5	50	66	15	0	18	1.25
54698346--54698389	14	2.8	16	80	16	56	47	0	0	52	1.00
54704803--54704861	17	3.4	17	76	15	59	61	20	1	16	1.44
54704804--54704861	18	3.3	17	74	11	55	62	20	1	15	1.42
54704873--54704905	14	2.3	15	89	5	50	66	15	0	18	1.25
54705858--54705901	14	2.8	16	80	16	56	47	0	0	52	1.00
54713655--54713702	24	1.9	26	87	8	73	39	10	18	31	1.85
54748984--54749200	108	2.0	108	100	0	434	38	15	19	26	1.92
54765500--54765547	3	16.0	3	91	0	78	29	0	4	66	1.10
54766785--54766840	17	3.3	17	67	7	51	41	0	1	57	1.09
54770631--54770788	86	1.8	85	83	4	210	45	10	12	32	1.75
54775941--54775973	15	2.3	15	89	5	50	51	6	3	39	1.42
54777863--54777933	36	2.0	35	86	8	99	56	2	7	33	1.41
54783122--54783163	21	2.0	22	90	4	68	76	4	7	11	1.15
54787076--54787166	39	2.4	37	82	7	96	46	2	2	49	1.26
54787100--54787179	39	2.1	38	83	6	99	52	2	1	43	1.22
54793608--54793651	21	2.1	21	87	4	63	36	15	9	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54793638--54793694	21	2.6	22	75	2	62	43	17	7	31	1.76
54796044--54796088	22	2.0	22	100	0	90	13	20	17	48	1.80
54800135--54800202	33	2.1	33	100	0	136	61	8	14	14	1.55
54801760--54801817	30	2.0	30	83	10	75	34	1	1	62	1.16
54803277--54803340	29	2.2	30	83	8	80	54	0	0	45	0.99
54803394--54803438	13	3.5	13	84	3	56	0	51	0	48	1.00
54804039--54804075	13	2.8	13	88	12	58	40	0	59	0	0.97
54804115--54804175	16	3.5	16	74	20	59	39	0	0	60	0.97
54804158--54804199	22	2.0	22	90	4	68	54	0	0	45	0.99
54804111--54804195	9	10.0	9	70	25	51	43	0	0	56	0.99
54804351--54804409	31	1.9	31	86	6	84	57	13	20	8	1.62
54807174--54807305	68	1.9	70	87	4	196	37	21	21	18	1.94
54820664--54820688	3	8.3	3	100	0	50	68	0	32	0	0.90
54826414--54826454	19	2.2	19	86	4	57	60	0	0	39	0.96
54826414--54826496	18	4.6	18	76	7	62	62	0	1	36	1.03
54840003--54840041	4	10.0	4	94	5	71	76	0	0	23	0.78
54842104--54842174	29	2.4	29	84	9	99	52	4	0	43	1.20
54848491--54848580	47	1.9	47	88	0	135	35	15	13	35	1.87
54855331--54855435	51	2.0	52	88	1	158	17	10	17	55	1.69
54855951--54856218	132	2.0	132	97	0	509	36	15	8	39	1.77
54860503--54860595	30	3.0	30	80	10	89	58	16	2	23	1.49
54860503--54860606	33	3.2	33	80	12	101	58	14	3	23	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54860723--54860756	16	2.2	16	90	10	54	58	0	0	41	0.98
54860795--54860823	8	3.8	8	95	4	51	48	0	0	51	1.00
54860903--54860936	14	2.3	15	85	10	52	64	0	0	35	0.94
54861323--54861371	18	2.7	18	87	3	62	53	0	0	46	1.00
54861323--54861371	19	2.7	18	81	9	55	53	0	0	46	1.00
54871327--54871388	20	3.0	21	73	13	58	50	1	0	48	1.10
54871330--54871431	30	3.2	30	74	22	86	50	2	0	45	1.23
54878062--54878108	21	2.3	21	77	3	51	59	2	4	34	1.29
54878071--54878127	30	1.9	30	82	7	71	63	0	5	31	1.17
54878464--54878523	20	3.0	20	78	9	61	41	1	1	55	1.20

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