genome.fa.s4.2.7.7.80.10.50.1000.159.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  159  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)
49094079--49094418	179	1.9	179	94	3	605	35	27	2	34	1.72
49095687--49095725	20	1.9	21	89	5	62	43	7	2	46	1.46
49100467--49100511	23	2.0	23	81	0	54	44	0	4	51	1.21
49101344--49101386	23	1.9	22	90	4	68	62	0	6	30	1.21
49112676--49112700	13	1.9	13	100	0	50	8	12	24	56	1.62
49114171--49114253	32	2.6	32	78	3	96	33	6	13	46	1.67
49117547--49117834	52	5.6	51	87	4	418	28	13	22	35	1.92
49120757--49120788	2	16.5	2	93	6	57	50	0	0	50	1.00
49122175--49122218	23	1.9	23	90	0	70	45	2	2	50	1.27
49122165--49122225	23	2.7	22	80	5	68	45	1	3	49	1.28
49127019--49127059	3	13.7	3	100	0	82	65	0	0	34	0.93
49138783--49138814	17	1.9	17	93	6	57	65	3	0	31	1.08
49139214--49139264	27	1.9	27	84	11	70	37	3	7	50	1.50
49140516--49140569	16	3.4	16	86	0	72	48	5	18	27	1.70
49140739--49140893	58	2.6	59	84	9	192	51	1	1	45	1.17
49140858--49140908	24	2.1	24	82	10	59	56	0	5	37	1.23
49146833--49146900	31	2.2	30	82	7	75	45	0	1	52	1.09
49146780--49146949	83	2.0	84	82	7	204	46	0	0	52	1.09
49150790--49150814	13	1.9	13	100	0	50	64	20	0	16	1.30
49160799--49160841	22	2.0	21	95	4	77	32	11	0	55	1.36
49161617--49161804	92	2.0	92	83	9	231	28	12	6	51	1.66
49161808--49161848	4	11.0	4	80	15	52	21	0	2	75	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49161808--49161844	11	3.3	11	88	3	56	21	0	2	75	0.92
49161798--49161848	15	3.6	13	82	12	57	19	1	1	76	0.98
49163196--49163234	17	2.3	17	86	8	53	43	12	0	43	1.42
49164279--49164329	25	2.0	25	100	0	102	31	7	27	33	1.85
49165722--49165778	28	2.0	27	86	6	78	29	5	0	64	1.15
49175019--49175078	2	30.0	2	100	0	120	50	0	0	50	1.00
49175598--49175631	2	17.5	2	87	6	52	47	2	0	50	1.16
49177290--49177339	26	1.9	26	87	0	73	38	2	0	60	1.09
49185961--49186020	18	3.2	19	68	23	54	36	26	20	16	1.93
49198593--49198646	27	2.0	28	82	17	69	33	0	3	62	1.12
49202668--49202733	30	2.2	30	88	0	96	25	12	31	30	1.92
49202668--49202743	30	2.5	30	85	4	82	25	11	31	31	1.91
49203236--49203279	14	3.2	13	87	9	61	54	0	4	40	1.21
49207577--49207623	23	2.1	23	88	4	69	21	21	10	46	1.81
49207992--49208025	11	2.9	12	86	8	52	47	0	0	52	1.00
49210744--49210787	16	2.6	18	79	17	58	52	2	0	45	1.13
49211548--49211601	22	2.5	20	75	16	54	50	1	0	48	1.11
49216418--49216460	6	7.2	6	83	0	50	25	30	0	44	1.55
49216418--49216463	18	2.6	17	86	10	65	26	28	0	45	1.54
49218382--49218482	38	2.6	40	71	10	100	21	19	28	29	1.98
49221067--49221117	16	3.3	15	81	13	59	76	0	13	9	1.02
49221078--49221117	10	3.9	10	80	6	53	77	0	12	10	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49226794--49226821	3	9.3	3	100	0	56	64	0	35	0	0.94
49229859--49229914	27	2.1	26	83	9	69	51	0	3	44	1.18
49231977--49232021	10	4.3	11	83	8	58	66	0	4	28	1.11
49231993--49232065	30	2.5	28	77	18	69	56	2	1	39	1.22
49232063--49232104	21	1.9	23	90	9	70	47	0	2	50	1.14
49232470--49232494	10	2.5	10	100	0	50	28	0	0	72	0.86
49233394--49233421	3	9.3	3	100	0	56	32	0	0	67	0.91
49234441--49234489	23	2.1	23	85	7	64	30	16	20	32	1.94
49236650--49236717	21	3.3	21	89	2	102	41	38	4	16	1.68
49244390--49244470	39	2.0	40	90	4	128	34	11	6	48	1.64
49251988--49252016	15	2.0	15	93	6	51	34	17	13	34	1.89
49253251--49253351	22	5.2	22	61	30	68	31	13	1	52	1.52
49253228--49253369	37	3.9	37	94	0	232	32	11	3	52	1.55
49254046--49254123	31	2.5	31	95	0	138	33	20	14	32	1.92
49255725--49255766	20	2.1	20	90	0	66	71	2	2	23	1.10
49260989--49261017	7	4.3	7	91	8	51	72	0	0	27	0.85
49260989--49261017	13	2.1	14	93	6	51	72	0	0	27	0.85
49267144--49267221	31	2.5	31	82	0	84	32	20	21	25	1.98
49296231--49296280	18	2.8	18	77	19	52	44	0	0	56	0.99
49301352--49301433	39	2.1	38	82	8	94	24	1	8	65	1.27
49302742--49302780	19	2.1	19	95	0	69	33	15	12	38	1.85
49304024--49304120	25	3.9	25	83	5	108	31	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49303982--49304120	50	2.8	49	83	2	143	31	17	20	30	1.96
49303998--49304135	75	1.9	74	81	4	170	29	20	21	28	1.98
49304023--49304135	50	2.3	50	89	4	167	30	21	20	28	1.98
49304053--49304135	25	3.4	24	85	11	123	27	20	22	28	1.99
49304314--49304424	44	2.5	44	98	0	213	18	25	17	39	1.91
49329049--49329122	34	2.2	34	85	4	96	18	33	2	44	1.64
49339018--49339067	14	3.4	14	74	15	55	60	4	4	32	1.34
49339528--49339560	10	3.2	11	87	12	52	78	0	0	21	0.75
49344229--49344529	151	2.0	151	93	0	512	33	22	8	35	1.85
49344795--49344868	29	2.5	30	86	8	98	47	14	14	22	1.82
49345128--49345173	19	2.5	19	85	3	58	54	4	2	39	1.32
49346822--49346874	26	2.0	26	85	7	72	30	24	13	32	1.93
49347943--49348014	31	2.4	31	84	11	96	20	15	20	43	1.88
49348753--49348818	30	2.2	30	86	10	91	50	1	4	43	1.32
49348720--49348877	82	1.9	82	80	11	180	46	2	3	48	1.31
49355393--49355422	13	2.4	12	94	5	51	90	0	10	0	0.47
49359357--49359448	31	3.1	31	72	20	86	52	9	11	26	1.69
49361599--49361627	2	14.5	2	100	0	58	51	0	48	0	1.00
49364402--49364435	17	2.0	17	88	0	50	55	0	2	41	1.15
49369626--49369664	14	2.9	14	88	3	53	0	7	41	51	1.31
49370460--49370506	19	2.4	20	75	13	53	65	4	0	29	1.11
49373839--49373887	23	2.1	23	88	7	73	48	2	6	42	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49388762--49388827	29	2.2	29	83	5	78	30	7	12	50	1.67
49388783--49388841	29	2.0	29	86	3	82	30	5	11	52	1.59
49390111--49390260	79	2.0	76	83	8	191	38	28	12	21	1.89
49390232--49390447	70	3.0	71	89	7	310	32	24	9	33	1.87
49391151--49391231	32	2.5	32	91	0	126	49	6	9	34	1.61
49392470--49392783	156	2.0	156	94	0	556	37	22	16	23	1.93
49393448--49393888	224	2.0	220	90	1	702	32	12	18	37	1.87
49394271--49396006	295	5.9	295	86	4	2292	28	14	25	31	1.95
49398127--49398221	44	2.1	44	80	7	111	33	5	24	36	1.78
49401123--49401155	11	3.0	11	90	0	57	63	0	12	24	1.28
49417822--49417857	15	2.4	15	100	0	72	47	36	5	11	1.63
49417904--49417963	7	8.7	7	75	3	50	16	18	25	40	1.91
49417904--49417962	14	4.3	14	84	4	66	16	16	25	40	1.90
49419020--49419058	17	2.2	17	86	9	51	23	0	7	69	1.14
49421483--49421525	21	2.1	20	86	4	59	37	0	0	62	0.95
49424280--49424326	24	2.0	24	91	0	76	51	0	2	46	1.13
49424786--49424831	22	2.1	22	88	8	67	60	0	2	36	1.09
49424911--49424992	22	4.0	21	70	13	64	40	3	1	54	1.26
49426526--49426557	2	16.0	2	100	0	64	0	50	0	50	1.00
49429797--49429833	12	3.0	13	84	11	51	40	5	5	48	1.49
49429890--49429977	41	2.2	40	83	4	104	29	2	7	60	1.37
49431413--49431483	29	2.6	26	80	10	81	46	2	14	36	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49434245--49434374	30	4.3	30	82	3	163	26	26	23	23	2.00
49434239--49434374	60	2.3	60	93	0	227	25	26	25	23	2.00
49439507--49439559	17	3.1	17	79	17	56	7	22	3	66	1.34
49444451--49444502	21	2.5	21	83	0	68	25	5	30	38	1.79
49447901--49447991	31	2.9	31	76	9	96	37	14	4	43	1.65
49452744--49452798	27	2.0	27	96	0	101	30	20	20	29	1.97
49457677--49457714	12	3.2	12	85	11	51	15	50	15	18	1.79
49457784--49457864	15	5.4	15	87	0	108	24	23	33	18	1.97
49463469--49463509	6	6.8	6	91	0	55	36	4	41	17	1.71
49463469--49463513	12	3.8	12	90	0	72	35	6	40	17	1.76

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