genome.fa.s4.2.7.7.80.10.50.1000.122.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  122  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)
38574445--38574762	29	10.8	29	67	12	148	35	3	29	31	1.73
38574449--38574765	58	5.4	58	88	5	424	35	2	29	31	1.72
38574493--38574760	29	9.1	29	69	19	164	33	2	29	33	1.73
38574448--38574765	117	2.7	116	87	4	426	35	2	29	31	1.72
38576542--38576636	29	3.2	29	74	24	108	33	30	3	32	1.74
38576544--38576635	30	3.1	30	74	23	104	34	29	3	32	1.74
38576539--38576649	59	1.9	58	92	5	188	32	30	2	34	1.72
38584345--38584398	23	2.4	23	87	6	76	44	1	1	51	1.22
38584338--38584399	11	5.5	11	83	9	81	41	3	1	53	1.27
38584331--38584415	17	5.1	15	82	13	80	42	2	2	52	1.27
38584345--38584398	6	9.7	6	78	15	62	44	1	1	51	1.22
38584442--38584501	14	4.5	14	85	12	90	36	30	16	16	1.91
38584442--38584501	25	2.3	27	88	8	88	36	30	16	16	1.91
38584623--38584653	15	2.1	15	100	0	62	19	54	12	12	1.70
38586244--38586445	30	6.5	30	84	8	280	36	24	3	35	1.73
38586434--38586650	57	3.8	57	83	7	275	31	24	4	39	1.76
38586440--38586687	58	4.3	58	80	8	197	28	26	6	38	1.81
38598535--38599277	68	10.9	68	87	7	982	34	15	20	29	1.94
38598552--38599277	135	5.4	136	87	6	1005	34	15	20	29	1.93
38598785--38598896	32	3.3	32	68	22	95	37	14	17	30	1.90
38598914--38599166	31	7.7	31	68	21	124	33	16	20	29	1.94
38598552--38599306	273	2.8	269	90	6	1134	34	15	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38599621--38599682	11	5.5	11	81	9	72	40	3	1	54	1.26
38599614--38599699	33	2.6	32	81	9	100	41	2	2	53	1.26
38599614--38599682	5	12.6	5	75	14	57	40	2	1	55	1.24
38599631--38599698	17	4.1	16	87	9	84	42	1	2	52	1.25
38599706--38599765	25	2.7	21	87	12	77	33	28	20	18	1.96
38599723--38599768	14	3.5	14	77	17	62	34	28	19	17	1.94
38599894--38599924	15	2.1	15	100	0	62	19	54	12	12	1.70
38601532--38601786	30	8.4	30	85	4	350	37	23	3	36	1.71
38601559--38602047	60	8.3	58	79	12	323	33	24	3	38	1.74
38601532--38601821	90	3.2	89	83	5	361	36	24	3	35	1.73
38601738--38602054	58	5.5	58	83	9	357	31	25	4	39	1.75
38601872--38602031	29	5.5	29	70	7	119	29	25	3	41	1.72
38606175--38606281	37	2.8	37	74	22	114	34	14	15	34	1.89
38606175--38606327	76	2.0	76	91	5	247	34	15	16	33	1.90
38606251--38607056	76	9.9	88	81	13	638	34	15	17	32	1.91
38606340--38607111	76	9.7	76	80	10	857	34	15	17	32	1.91
38606568--38607056	167	2.9	165	92	3	809	35	15	17	32	1.91
38606958--38607089	38	3.5	38	72	16	130	35	15	17	31	1.91
38607389--38607461	17	4.4	17	80	3	67	42	0	1	56	1.08
38607388--38607478	33	2.8	33	81	0	92	43	1	1	53	1.15
38607420--38607477	23	2.6	23	83	5	66	50	1	0	48	1.11
38607415--38607487	17	4.4	17	82	3	76	50	2	0	46	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38607423--38607488	33	2.0	33	84	0	87	53	3	0	43	1.16
38609430--38609467	16	2.4	16	87	12	53	7	23	0	68	1.16
38615138--38615189	26	2.0	26	85	7	70	53	5	11	28	1.60
38615317--38615347	4	7.8	4	92	0	53	51	22	0	25	1.48
38615924--38615977	2	28.0	2	88	7	85	51	0	1	46	1.11
38615924--38615977	17	3.2	17	94	2	92	51	0	1	46	1.11
38627531--38627595	27	2.4	27	89	0	94	36	12	23	27	1.90
38629705--38629748	20	2.2	20	84	8	54	43	9	0	47	1.35
38642775--38642820	23	2.0	22	84	12	58	58	0	34	6	1.24
38651319--38651410	46	2.0	46	100	0	184	56	8	17	17	1.65
38653423--38653457	17	1.9	19	88	11	56	11	11	2	74	1.18
38653423--38653469	20	2.4	19	83	16	53	10	10	2	76	1.10
38653399--38653471	31	2.4	30	75	8	76	15	9	1	73	1.14
38654049--38654096	25	1.9	25	83	8	62	50	2	6	41	1.39
38654167--38654236	31	2.3	32	80	11	85	44	11	5	38	1.64
38655281--38655340	31	1.9	31	86	0	84	38	3	10	48	1.53
38659656--38660028	195	1.9	195	88	1	559	35	21	12	29	1.90
38665035--38665094	28	2.1	28	84	9	77	35	0	3	61	1.12
38666858--38666890	17	2.0	17	88	5	50	36	24	3	36	1.71
38669913--38669983	25	2.8	26	91	2	117	36	4	28	30	1.76
38672034--38672097	26	2.6	25	87	5	94	39	3	26	31	1.72
38682632--38682662	14	2.1	15	94	5	55	25	3	19	51	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38688641--38688680	11	3.5	11	80	12	53	2	12	2	82	0.87
38689594--38689659	6	10.8	6	87	6	80	77	0	6	16	0.96
38693544--38693589	23	2.0	24	83	12	60	58	4	2	34	1.30
38694232--38694259	6	4.7	6	100	0	56	50	0	35	14	1.43
38697067--38697106	21	1.9	21	94	0	71	62	0	5	32	1.17
38697024--38697155	69	1.9	67	84	3	174	46	3	9	40	1.51
38713888--38713921	17	1.9	17	88	5	50	44	0	2	52	1.16
38715227--38716414	643	1.8	645	87	3	1749	25	13	17	43	1.85
38717046--38717243	94	2.1	94	98	0	380	24	15	12	47	1.80
38718792--38718853	2	31.0	2	100	0	124	50	0	0	50	1.00
38733655--38733682	14	2.0	14	100	0	56	35	0	0	64	0.94
38735766--38735807	21	2.0	21	86	9	59	33	4	2	59	1.31
38736876--38736913	20	1.9	20	100	0	76	47	5	10	36	1.61
38740209--38740493	59	4.9	57	78	11	251	35	3	28	33	1.73
38740191--38740313	29	4.3	29	76	12	119	32	6	27	33	1.82
38740205--38740498	29	10.1	30	72	15	185	34	3	29	33	1.73
38740875--38740905	11	2.8	11	100	0	62	6	19	48	25	1.72
38741403--38741508	17	6.2	17	79	5	115	51	5	0	42	1.25
38741403--38741493	6	15.8	6	70	13	66	52	4	0	42	1.21
38742041--38743469	209	6.9	209	85	1	1945	23	23	17	35	1.95
38742048--38743468	415	3.4	414	91	1	2204	23	23	17	35	1.95
38755050--38755270	59	3.7	58	82	7	250	34	4	26	33	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38755050--38755152	29	3.6	28	77	13	93	36	6	25	31	1.82
38755136--38755424	30	9.8	30	65	13	100	39	2	22	34	1.69
38755045--38755209	28	5.7	28	67	16	102	35	6	27	31	1.81
38755058--38755298	118	2.1	117	81	6	281	36	5	24	33	1.79
38755313--38755394	29	2.7	30	75	20	82	43	1	20	34	1.60
38755222--38755436	59	3.6	59	82	3	245	41	2	23	32	1.69
38757063--38757167	17	6.2	17	79	2	113	51	4	0	43	1.22
38757063--38757153	6	15.8	6	70	13	66	52	3	0	43	1.17
38763382--38763442	28	2.2	28	81	0	77	24	11	31	32	1.91
38763635--38763726	29	3.1	30	83	6	100	46	4	18	30	1.68
38763665--38763747	29	3.0	28	84	8	107	40	2	24	32	1.68
38763636--38763747	28	4.0	28	79	8	95	42	3	20	33	1.69
38763747--38763963	29	7.6	29	77	6	138	35	3	20	41	1.68
38763747--38763953	57	3.7	55	78	9	202	35	3	20	40	1.69
38763747--38763963	86	2.5	84	80	10	226	35	3	20	41	1.68
38764253--38764323	32	2.2	33	85	7	92	57	9	11	21	1.62
38765945--38765991	17	2.6	17	90	6	67	59	0	2	38	1.09
38766277--38766970	92	7.5	92	92	0	1129	33	19	15	31	1.93
38766278--38766970	275	2.5	275	93	1	1143	33	19	15	31	1.93
38777834--38777895	29	2.2	29	85	8	83	25	12	30	30	1.93
38777906--38777981	30	2.6	28	72	10	73	48	3	14	32	1.62
38777975--38778068	29	3.2	29	64	5	73	37	5	23	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38777907--38778089	58	3.1	58	85	5	244	46	4	18	30	1.70
38778114--38778493	29	12.9	29	76	8	252	36	4	22	36	1.75
38778125--38778376	59	4.3	57	79	10	215	36	5	22	35	1.78
38778237--38778506	59	4.6	59	81	3	206	36	4	21	37	1.75
38780466--38780537	6	13.0	6	69	16	57	51	2	0	45	1.15
38780466--38780533	28	2.5	27	76	6	75	50	2	0	47	1.16
38782336--38782361	2	13.0	2	100	0	52	50	0	0	50	1.00
38784734--38784894	80	2.0	80	95	0	286	26	17	20	35	1.95
38795236--38795396	80	2.0	80	93	0	277	35	19	17	27	1.94
38797811--38797848	5	7.8	5	88	5	60	84	0	15	0	0.63

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