genome.fa.s9.2.7.7.80.10.50.1000.9.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  9  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)
3500429--3500475	24	2.0	24	87	8	69	21	10	10	57	1.62
3500441--3500491	24	2.1	24	85	7	68	21	9	9	58	1.58
3504305--3504405	34	3.0	34	86	1	132	38	14	7	38	1.76
3505315--3505395	30	2.6	34	74	21	88	49	2	0	48	1.14
3505800--3505882	30	2.7	31	80	12	93	36	1	3	59	1.23
3509200--3509229	2	15.0	2	100	0	60	50	0	0	50	1.00
3522000--3522029	3	10.0	3	100	0	60	66	0	33	0	0.92
3540247--3540298	18	3.0	18	81	10	56	46	1	0	51	1.12
3544347--3544374	2	14.0	2	100	0	56	50	0	0	50	1.00
3546828--3546858	13	2.4	13	94	0	53	32	0	12	54	1.38
3547168--3547257	27	3.2	26	69	22	65	54	10	15	20	1.69
3547167--3547338	58	2.9	59	84	5	206	51	9	15	23	1.72
3547168--3547338	31	5.8	28	70	16	105	52	9	15	22	1.72
3547184--3547338	59	2.6	57	85	5	195	50	9	15	23	1.73
3552967--3553037	35	2.0	35	94	0	124	42	8	11	38	1.71
3553537--3553595	29	2.0	29	81	12	68	42	10	1	45	1.48
3559000--3559332	162	2.1	162	100	0	666	36	13	18	30	1.90
3560658--3560686	3	9.7	3	100	0	58	34	0	0	65	0.93
3561851--3561884	18	1.9	18	88	5	52	35	14	0	50	1.44
3565039--3565085	22	2.1	23	84	11	62	63	8	0	27	1.23
3565467--3565531	29	2.2	29	86	10	89	53	3	0	43	1.16
3565467--3565543	28	2.7	27	82	15	77	55	3	0	40	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3576828--3576869	21	2.0	21	86	9	59	42	4	0	52	1.22
3577819--3577876	26	2.2	26	84	3	71	53	8	3	34	1.49
3577898--3577931	16	2.1	17	88	5	52	52	5	5	35	1.50
3578537--3578599	30	2.2	30	80	5	76	42	0	1	55	1.09
3585368--3585571	37	5.5	37	86	0	255	38	29	19	12	1.88
3589957--3590016	29	2.1	29	96	0	111	43	18	16	21	1.88
3594004--3594079	37	2.1	37	85	9	102	28	27	14	28	1.95
3603559--3603654	47	2.0	48	80	9	108	36	3	1	59	1.20
3610238--3610291	2	27.5	2	84	3	74	48	5	0	46	1.25
3612842--3612913	20	3.4	21	80	16	87	4	6	20	68	1.31
3612842--3612914	21	3.5	21	83	12	89	4	6	20	68	1.30
3612856--3612922	20	3.3	19	81	10	71	7	5	14	71	1.28
3612907--3612957	23	2.2	24	82	3	59	7	1	17	72	1.18
3612916--3612958	12	3.7	12	90	3	61	6	2	16	74	1.14
3612912--3612965	26	2.0	28	82	13	69	9	3	16	70	1.28
3612886--3613004	57	2.1	55	81	10	134	10	3	15	70	1.28
3612971--3613027	23	2.4	24	85	2	71	17	3	14	64	1.41
3613142--3613210	27	2.6	27	83	4	77	28	0	5	65	1.16
3614354--3614484	56	2.3	55	89	3	199	31	24	13	30	1.94
3614451--3614569	62	2.0	60	90	6	186	31	20	14	33	1.92
3614387--3614569	56	3.1	60	81	12	191	32	19	14	34	1.91
3617734--3617779	20	2.3	20	88	0	65	34	17	30	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3617772--3617805	10	3.4	10	83	0	50	23	26	35	14	1.94
3617966--3618409	165	2.6	164	86	6	579	52	3	6	38	1.45
3617966--3618409	83	5.3	85	87	6	590	52	3	6	38	1.45
3618538--3618585	12	3.7	12	77	20	51	41	10	0	47	1.37
3618548--3618582	17	2.1	16	89	5	52	48	8	0	42	1.33
3618538--3618595	28	2.1	28	83	0	71	43	12	0	44	1.41
3622319--3622627	61	5.1	61	85	6	391	31	16	22	29	1.96
3622319--3622627	120	2.6	119	82	10	396	31	16	22	29	1.96
3639434--3639473	21	1.9	21	89	0	62	60	17	0	22	1.37
3644321--3644355	6	5.8	6	89	0	52	71	11	14	2	1.25
3644318--3644369	6	8.7	6	86	0	50	69	7	13	9	1.37
3644325--3644369	18	2.5	18	88	0	63	71	8	11	8	1.32
3667113--3667153	19	2.2	19	100	0	82	39	4	29	26	1.77
3683371--3683424	18	3.2	16	80	12	63	72	1	1	24	1.05
3683345--3683417	35	2.1	35	84	5	94	64	2	2	30	1.21
3683359--3683424	8	7.9	8	77	9	60	69	1	3	25	1.11
3684158--3684387	113	2.0	113	100	0	460	49	11	7	31	1.68
3687451--3687551	46	2.2	45	91	1	157	11	22	20	44	1.84
3687450--3687526	23	3.3	23	79	0	100	11	22	23	42	1.86
3688608--3688649	17	2.5	17	84	3	59	38	0	2	59	1.10
3688590--3688690	45	2.3	45	82	5	116	38	0	4	55	1.28
3688608--3688677	11	6.1	12	75	12	51	38	0	4	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3688608--3688674	28	2.4	28	82	0	80	38	0	4	56	1.19
3690163--3690191	12	2.4	12	100	0	58	37	20	20	20	1.94
3690294--3690452	29	5.6	28	77	8	108	39	22	3	35	1.70
3690345--3690538	29	6.8	29	78	9	166	38	25	1	34	1.66
3690404--3690586	29	6.4	29	79	5	160	35	27	4	32	1.77
3690430--3690545	59	2.0	59	91	1	189	35	27	2	34	1.71
3690353--3690540	30	6.6	28	78	7	148	38	26	2	33	1.68
3690462--3690712	29	8.6	29	71	12	131	31	25	5	37	1.78
3690434--3690614	57	3.2	55	78	9	168	33	27	4	34	1.77
3694834--3694871	2	19.0	2	100	0	76	0	50	0	50	1.00
3694871--3694938	2	34.0	2	100	0	136	50	0	0	50	1.00
3696050--3696208	58	2.8	58	82	4	180	35	11	9	42	1.74
3700798--3700843	4	11.8	4	82	13	60	76	0	23	0	0.79
3700798--3700843	11	4.3	11	81	15	60	76	0	23	0	0.79
3700798--3700838	21	2.0	20	90	4	64	75	0	24	0	0.80
3700798--3700846	7	7.4	7	75	13	50	75	0	24	0	0.80
3700840--3700870	9	3.4	9	90	0	53	54	0	45	0	0.99
3701215--3701257	21	2.1	21	91	4	70	23	2	13	60	1.45
3701222--3701491	98	2.8	98	89	6	396	37	2	12	48	1.53
3702992--3703076	43	2.0	43	81	4	100	30	14	10	44	1.78
3703697--3703743	21	2.2	21	92	0	76	21	36	17	25	1.94
3707019--3707059	15	2.6	15	88	7	55	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3707026--3707064	21	1.9	20	94	5	69	0	35	0	64	0.94
3713244--3713278	7	5.0	7	92	0	61	42	14	17	25	1.86
3714388--3714472	31	2.5	33	79	9	84	41	0	3	55	1.17
3727344--3727376	16	2.1	16	100	0	66	42	9	6	42	1.61
3728572--3728630	29	2.0	30	83	9	77	50	13	3	32	1.58
3731624--3731665	7	6.0	7	83	10	50	52	4	0	42	1.22
3731625--3731668	23	1.9	23	86	9	63	52	4	0	43	1.22
3734221--3734263	19	2.3	19	79	0	50	44	4	0	51	1.22
3747012--3747151	70	2.0	70	98	0	271	47	5	13	32	1.66
3750493--3750542	13	3.8	13	80	15	50	42	0	16	42	1.47
3750503--3750554	26	2.0	26	85	7	70	40	0	19	40	1.51
3750506--3750554	13	3.8	12	82	12	53	40	0	18	40	1.50
3760613--3760648	2	18.0	2	100	0	72	50	0	0	50	1.00
3762576--3762615	21	1.9	21	89	0	62	35	7	27	30	1.84
3762593--3762731	29	4.8	29	71	19	92	30	6	27	35	1.82
3762631--3762753	29	4.2	30	72	15	80	32	7	26	33	1.84
3764591--3764672	6	14.2	6	72	7	62	54	3	0	41	1.18
3764591--3764697	17	6.2	17	80	4	117	53	4	0	41	1.28
3764594--3764649	29	1.9	29	88	0	85	55	1	0	42	1.10
3764614--3764681	23	3.0	22	71	10	57	54	5	1	38	1.34
3764593--3764655	29	2.2	29	82	0	81	53	3	0	42	1.16
3764629--3764689	23	2.7	23	73	19	56	52	8	1	37	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3765938--3765987	6	8.3	6	93	0	82	52	16	14	18	1.76
3772247--3772290	19	2.3	21	74	22	51	61	4	2	31	1.28
3772446--3772500	22	2.5	22	87	0	83	50	5	5	38	1.48
3772512--3772551	18	2.2	19	90	4	64	22	7	12	57	1.60
3783927--3783985	31	1.9	31	89	6	93	38	8	13	38	1.75
3790991--3791027	6	6.2	6	100	0	74	32	0	0	67	0.91
3821667--3821865	59	3.5	55	76	13	154	32	16	16	34	1.92
3821711--3822066	61	5.9	60	78	8	314	27	15	16	40	1.89
3822153--3822187	17	2.0	18	88	5	54	57	5	5	31	1.46
3827964--3827991	2	14.0	2	100	0	56	50	0	0	50	1.00

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