genome.fa.s9.2.7.7.80.10.50.1000.152.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  152  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)
46837645--46837719	24	3.1	24	88	0	114	56	6	10	26	1.58
46839641--46839714	24	3.1	24	78	1	78	51	6	13	28	1.66
46846396--46846543	23	6.4	23	82	6	140	12	24	20	43	1.86
46856463--46856508	15	2.9	16	81	9	51	63	0	0	36	0.95
46856826--46856850	2	12.5	2	100	0	50	48	0	0	52	1.00
46859090--46859254	89	1.9	89	89	2	260	26	28	9	35	1.88
46861808--46861868	27	2.2	28	80	11	65	40	13	6	39	1.70
46861827--46861865	20	2.0	19	85	5	51	43	15	5	35	1.69
46866487--46866543	22	2.5	23	81	13	73	47	1	3	47	1.29
46867424--46867456	7	4.9	7	92	3	50	57	0	27	15	1.38
46877293--46877317	6	4.2	6	100	0	50	48	20	0	32	1.50
46879105--46879133	15	2.0	15	93	6	51	55	3	0	41	1.17
46885314--46885343	8	3.6	8	95	4	51	0	3	10	86	0.67
46890892--46890979	41	2.3	39	86	7	117	46	13	7	31	1.72
46894267--46894317	26	2.0	26	84	0	66	35	9	5	49	1.60
46898507--46898564	30	1.9	31	86	10	84	55	3	1	39	1.27
46905750--46905791	14	3.0	14	82	6	50	28	0	0	71	0.86
46914205--46914283	38	2.1	38	100	0	158	37	7	31	22	1.82
46914224--46914287	19	3.4	19	64	23	53	34	6	35	23	1.80
46931154--46931179	3	8.7	3	100	0	52	0	30	0	69	0.89
46933234--46933901	228	3.0	224	84	4	826	33	17	13	35	1.89
46943435--46943482	6	8.0	6	80	0	51	20	27	47	4	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46943445--46943482	12	3.2	12	88	0	58	15	28	50	5	1.66
46951636--46951665	7	4.3	7	91	0	51	43	13	16	26	1.85
46952407--46952445	18	2.2	17	86	4	51	33	0	5	61	1.18
46961103--46961127	13	1.9	13	100	0	50	48	16	8	28	1.74
46970360--46970478	63	1.9	63	85	0	166	20	26	21	31	1.97
46972132--46972170	19	2.1	19	95	0	69	23	12	48	15	1.79
46972858--46972961	47	2.2	47	96	1	192	49	7	2	40	1.46
46977564--46977628	30	2.2	30	83	5	78	36	3	0	60	1.13
46986130--46986196	31	2.2	31	83	5	82	40	4	7	47	1.52
46986456--46986514	30	1.9	31	86	3	84	37	3	8	50	1.49
46987364--46987409	20	2.3	20	88	3	67	54	4	0	41	1.20
46987403--46987442	20	2.0	20	90	4	64	32	0	0	67	0.91
46988294--46988327	2	17.0	2	100	0	68	50	0	0	50	1.00
46994138--46994177	18	2.3	17	95	4	71	15	20	25	40	1.90
47001698--47001724	6	4.5	6	100	0	54	18	29	0	51	1.46
47004951--47005035	41	2.1	41	93	0	143	32	14	34	18	1.91
47005416--47005489	32	2.3	33	79	9	89	27	4	5	63	1.34
47007266--47007300	18	1.9	17	88	11	52	54	5	0	40	1.24
47007994--47008044	26	2.0	26	88	0	75	45	11	17	25	1.83
47012119--47012149	15	2.1	15	100	0	62	12	19	0	67	1.22
47018046--47018120	30	2.4	32	82	15	102	25	1	12	61	1.38
47023214--47023307	46	2.0	46	100	0	188	32	2	25	39	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47027873--47027927	23	2.3	24	81	12	69	40	0	7	52	1.29
47029940--47029983	20	2.2	20	95	0	79	72	11	4	11	1.25
47030259--47030317	32	1.9	32	86	6	86	52	1	1	44	1.21
47040496--47040570	35	2.3	31	84	11	98	48	1	0	50	1.09
47041112--47041144	15	2.2	15	89	10	50	15	6	15	63	1.49
47047734--47047813	40	2.0	40	97	0	151	46	22	13	17	1.83
47052555--47052624	27	2.6	27	75	6	72	67	4	0	28	1.10
47053836--47053861	13	2.0	13	100	0	52	38	7	0	53	1.30
47057542--47057843	165	1.8	164	81	4	376	29	13	22	34	1.93
47059696--47059736	21	2.0	21	90	0	64	63	2	0	34	1.08
47066677--47066806	31	4.3	31	72	20	103	26	12	13	47	1.78
47066622--47066806	90	2.1	90	88	6	277	25	12	13	48	1.78
47066927--47067057	60	2.2	60	83	5	158	22	14	13	48	1.79
47066927--47067023	31	3.2	30	72	11	90	21	14	15	48	1.80
47067284--47067372	29	3.1	28	84	6	108	51	10	13	24	1.71
47067985--47068101	6	20.0	6	75	20	115	46	2	0	51	1.14
47067985--47068080	17	5.6	17	90	8	142	42	2	0	55	1.11
47067966--47068087	33	3.6	33	86	4	118	44	1	2	51	1.24
47067966--47068087	27	4.5	27	73	24	96	44	1	2	51	1.24
47067997--47068101	33	3.3	29	81	15	95	47	2	0	49	1.16
47068765--47068824	25	2.6	22	75	14	57	53	5	3	38	1.39
47069861--47070054	67	3.0	67	81	14	271	32	31	1	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47069929--47070202	59	4.7	59	88	1	347	33	28	2	35	1.71
47077239--47077512	38	7.3	38	65	20	166	35	12	19	32	1.89
47077225--47077575	76	4.7	76	90	3	527	33	14	18	32	1.92
47077856--47077957	31	3.6	27	85	7	78	42	2	2	51	1.32
47077874--47077980	6	18.0	6	75	19	100	46	3	0	49	1.19
47077874--47077964	17	5.6	16	80	15	107	43	3	0	52	1.17
47077864--47077980	11	10.5	11	75	12	87	46	3	0	49	1.24
47077902--47077980	37	2.1	37	84	13	101	49	3	0	46	1.19
47077876--47077978	48	2.2	47	83	11	122	46	3	0	49	1.20
47079727--47080249	59	8.9	59	87	3	736	33	28	2	35	1.72
47084752--47084979	90	2.6	88	80	9	241	39	8	17	34	1.80
47086151--47086209	16	3.8	16	81	14	63	49	1	0	49	1.11
47113666--47113728	31	2.0	31	84	0	81	34	14	9	41	1.78
47123161--47123196	13	2.6	14	91	8	56	36	0	0	63	0.94
47130460--47130496	3	12.7	3	88	5	58	0	64	0	35	0.94
47130462--47130489	14	2.0	14	100	0	56	0	71	0	28	0.86
47137368--47137420	21	2.5	21	90	0	79	28	15	5	50	1.66
47137864--47137924	23	2.7	23	80	10	70	8	26	19	45	1.78
47138440--47138472	16	2.0	17	88	5	50	60	3	3	33	1.27
47148409--47148448	3	13.0	3	94	5	71	67	0	0	32	0.91
47148738--47148788	21	2.5	21	83	3	59	37	0	3	58	1.16
47149542--47149583	20	2.0	21	90	4	68	50	0	2	47	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47163338--47163370	16	2.2	16	89	10	52	66	3	0	30	1.06
47167099--47167162	31	2.1	31	82	5	76	54	4	14	26	1.59
47171432--47171470	16	2.4	16	82	0	51	71	2	2	23	1.10
47172926--47172967	18	2.2	20	87	12	61	0	19	0	80	0.70
47174591--47174629	7	5.6	7	96	0	69	53	12	2	30	1.52
47176225--47176260	18	2.1	18	89	5	56	58	0	5	36	1.22
47176427--47176469	18	2.3	19	84	4	52	60	0	2	37	1.10
47179009--47179071	29	2.1	28	83	11	81	30	4	6	58	1.43
47185784--47185817	1	34.0	1	87	0	50	0	5	0	94	0.32
47185784--47185816	9	3.7	9	91	0	57	0	6	0	93	0.33
47207700--47207855	77	2.0	78	93	3	271	32	11	12	42	1.79
47228678--47228745	29	2.3	29	85	7	84	44	2	5	47	1.42
47233033--47233071	18	2.1	19	85	4	53	25	12	20	41	1.88
47234052--47234117	34	1.9	34	82	11	82	46	25	9	18	1.78
47237933--47237984	20	2.6	20	82	11	70	28	38	0	32	1.57
47237948--47238117	91	1.9	90	87	3	252	27	26	0	46	1.53
47238544--47238865	174	1.9	174	85	2	450	42	15	10	31	1.82
47240811--47240855	21	2.0	24	83	12	60	26	6	6	60	1.47
47245773--47245812	13	2.9	14	82	17	57	52	0	2	45	1.14
47249881--47249946	29	2.2	29	83	5	78	48	12	12	27	1.76
47252816--47252845	6	5.0	6	100	0	60	33	0	33	33	1.58
47259590--47259664	38	2.0	38	91	0	123	34	18	21	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47266243--47266285	21	2.1	21	86	4	61	30	0	4	65	1.13
47272957--47272998	22	1.9	22	85	0	57	73	7	2	16	1.15
47278397--47278438	2	21.0	2	85	9	59	47	2	0	50	1.14
47285879--47285918	18	2.2	18	86	4	53	62	0	5	32	1.17
47288665--47288706	22	1.9	23	90	9	70	16	2	19	61	1.44
47294286--47294317	14	2.3	14	94	0	55	53	9	0	37	1.34
47296016--47296393	41	9.3	41	89	2	514	30	23	30	16	1.96
47299475--47299700	43	5.3	42	90	3	335	23	20	28	27	1.99
47308032--47308078	11	4.6	10	76	12	51	42	0	8	48	1.33
47308045--47308101	21	2.7	21	86	5	71	43	0	7	49	1.29

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