genome.fa.s10.2.7.7.80.10.50.1000.8.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: CP032254.1 Gossypioides kirkii chromosome KI_12
Parameters: 2 7 7 80 10 50 1000
Length:  43711324

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   

This is table  8  of  135  ( 16099 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)
3462373--3462468	40	2.4	40	82	0	102	35	23	27	13	1.93
3462633--3463157	83	6.3	83	89	4	756	52	4	5	37	1.45
3462633--3463157	165	3.2	165	90	2	802	52	4	5	37	1.45
3467066--3467338	61	4.6	61	79	9	294	33	18	20	27	1.96
3467066--3467439	56	6.4	59	78	12	291	33	18	21	27	1.96
3467124--3467461	115	3.0	115	83	9	399	33	17	20	28	1.95
3474971--3475021	15	3.5	15	72	5	50	37	7	1	52	1.42
3475149--3475191	18	2.4	18	88	7	61	53	0	0	46	1.00
3477379--3477478	23	4.3	23	87	5	148	11	23	24	42	1.86
3501612--3501701	26	3.5	26	96	0	171	46	20	3	30	1.66
3503986--3504025	20	2.0	20	85	0	53	40	0	2	57	1.12
3504917--3504982	12	5.5	12	69	5	53	63	6	25	4	1.37
3514221--3514276	2	28.0	2	100	0	112	50	0	0	50	1.00
3514508--3514556	7	7.1	7	80	11	57	40	0	2	57	1.10
3514926--3515004	38	2.1	38	100	0	158	48	5	10	36	1.59
3518035--3518072	18	2.1	19	85	14	53	21	23	7	47	1.77
3529212--3529276	30	2.2	30	91	0	103	23	6	15	55	1.62
3532949--3532991	12	3.5	12	87	9	52	37	34	11	16	1.85
3537735--3537794	6	10.0	6	92	0	84	43	16	40	0	1.48
3537735--3537794	24	2.5	24	94	0	102	43	16	40	0	1.48
3549191--3549251	31	2.0	31	83	0	77	42	3	4	49	1.40
3549200--3549273	31	2.4	31	81	6	87	39	5	5	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3550429--3550479	18	2.9	18	71	8	52	47	0	7	45	1.32
3558222--3558270	23	2.1	22	85	14	64	44	2	2	51	1.24
3559995--3560155	23	6.9	23	82	6	157	41	23	24	10	1.86
3560810--3560836	13	2.1	13	100	0	54	22	29	7	40	1.81
3562967--3563084	60	1.9	59	83	8	148	50	5	5	38	1.49
3591360--3591400	18	2.3	19	79	12	50	43	2	7	46	1.44
3591418--3591446	14	2.1	14	93	6	51	44	0	3	51	1.18
3599816--3599841	6	4.3	6	100	0	52	0	0	30	69	0.89
3600462--3600508	25	1.9	24	87	12	69	46	2	0	51	1.13
3600470--3600517	24	2.0	25	84	12	64	50	2	0	47	1.12
3607210--3607251	15	2.9	14	80	13	50	66	0	2	30	1.04
3608048--3608121	16	4.4	15	70	23	58	54	4	4	37	1.39
3611288--3611421	60	2.2	60	82	5	171	48	7	11	32	1.68
3611849--3611930	31	2.7	29	81	11	76	35	4	8	51	1.54
3611873--3611930	31	1.9	31	86	6	84	32	6	8	51	1.59
3616476--3616513	16	2.2	18	90	9	62	21	0	7	71	1.11
3618854--3618887	15	2.1	16	89	10	52	35	5	0	58	1.22
3619244--3619324	35	2.4	34	82	13	103	34	25	7	32	1.84
3624234--3624273	6	6.5	6	94	5	71	55	30	0	15	1.41
3629783--3629821	15	2.5	16	87	4	62	35	2	0	61	1.10
3629809--3629873	30	2.2	31	88	5	98	46	1	0	52	1.10
3635205--3635246	22	2.0	20	82	13	50	26	7	2	64	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635534--3635573	21	1.9	21	84	0	53	42	0	0	57	0.98
3659014--3659067	26	2.1	26	100	0	108	18	22	18	40	1.91
3660002--3660047	23	2.0	21	84	12	56	30	0	4	65	1.12
3660369--3660395	3	9.0	3	100	0	54	66	0	0	33	0.92
3674066--3674107	2	21.0	2	100	0	84	50	0	0	50	1.00
3674320--3674392	29	2.4	30	78	10	87	31	6	15	46	1.71
3678253--3678277	9	2.8	9	100	0	50	88	0	12	0	0.53
3679386--3679417	3	10.7	3	100	0	64	68	0	31	0	0.90
3684093--3684152	32	1.9	31	82	3	75	51	6	8	33	1.58
3693420--3693724	168	1.8	168	95	0	556	39	15	8	36	1.78
3694852--3694898	23	2.0	25	87	8	71	57	4	4	34	1.38
3702588--3702618	15	2.1	15	93	0	53	25	3	6	64	1.33
3703841--3703907	31	2.2	30	86	5	91	43	10	11	34	1.76
3708191--3708216	3	8.7	3	100	0	52	65	0	0	34	0.93
3715509--3715539	7	4.4	7	91	0	53	58	3	0	38	1.15
3715703--3715730	6	4.7	6	100	0	56	50	32	0	17	1.47
3717057--3717090	2	17.0	2	100	0	68	0	0	50	50	1.00
3723035--3723153	58	2.1	57	88	1	175	32	0	19	47	1.56
3741206--3741252	17	2.8	17	96	0	85	46	29	6	17	1.72
3744297--3744457	23	6.9	23	80	6	148	42	23	23	10	1.85
3751167--3751207	18	2.3	18	87	4	57	39	9	0	51	1.35
3773382--3773422	21	2.0	21	85	9	57	4	4	29	60	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3774370--3774401	16	2.0	16	93	0	55	40	6	25	28	1.79
3774750--3774785	7	5.0	7	96	3	63	55	0	0	44	0.99
3784983--3785016	2	16.5	2	93	6	59	47	2	0	50	1.16
3786817--3786845	14	2.1	14	93	6	51	65	6	0	27	1.18
3788585--3788618	18	1.9	17	88	5	50	35	0	2	61	1.11
3788582--3788628	15	2.9	16	75	12	51	40	0	2	57	1.11
3790138--3790396	130	2.0	128	96	1	473	42	11	6	39	1.68
3790817--3790866	20	2.5	19	78	9	55	42	0	2	56	1.11
3795580--3795620	21	2.0	21	85	0	55	41	7	21	29	1.80
3796855--3796933	37	2.1	37	83	4	97	26	10	11	51	1.69
3816048--3816139	46	2.0	46	97	0	175	46	17	5	30	1.70
3818542--3818598	27	2.1	27	86	0	78	35	12	0	52	1.39
3818762--3818795	18	1.9	18	94	5	61	52	0	0	47	1.00
3823128--3823177	25	2.0	25	96	0	91	34	8	10	48	1.66
3826253--3826290	13	2.7	15	84	8	53	44	0	2	52	1.14
3835057--3835184	58	2.2	57	83	9	154	31	11	10	46	1.73
3835096--3835203	56	1.9	58	82	3	139	32	13	8	45	1.74
3835410--3835612	57	3.6	55	76	7	167	48	10	11	29	1.73
3857811--3857847	6	6.2	6	100	0	74	16	16	35	32	1.91
3862699--3862735	3	12.3	3	100	0	74	32	0	0	67	0.91
3866564--3866607	6	7.2	6	89	2	52	59	0	0	40	0.98
3866574--3866607	2	17.0	2	87	0	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3866564--3866607	12	3.6	12	90	3	61	59	0	0	40	0.98
3867647--3867702	29	2.0	28	82	10	69	37	0	3	58	1.15
3870786--3870825	21	1.9	20	85	10	53	40	2	7	50	1.44
3870810--3870859	26	1.9	26	87	0	73	30	0	12	58	1.34
3873366--3873393	13	2.2	13	100	0	56	50	0	0	50	1.00
3873385--3873432	17	2.8	17	87	6	62	58	2	2	37	1.22
3874178--3874210	17	2.0	17	88	5	50	54	9	0	36	1.32
3875454--3875488	11	3.2	11	88	11	54	60	0	0	40	0.97
3876482--3876553	37	1.9	37	83	10	94	38	1	1	58	1.15
3882990--3883036	21	2.4	19	85	7	58	51	6	2	40	1.39
3882990--3883090	18	5.6	17	71	15	62	44	8	1	44	1.46
3887197--3887233	14	2.4	16	86	8	51	70	0	0	29	0.88
3887362--3887433	31	2.3	31	90	0	108	43	4	1	51	1.29
3903795--3903918	57	2.2	56	82	4	142	32	13	9	44	1.77
3914225--3914264	20	2.0	21	90	5	64	32	10	7	50	1.64
3922868--3923546	75	9.1	75	92	0	1034	25	16	30	28	1.96
3923727--3924617	127	7.0	127	87	2	1193	39	8	13	39	1.74
3934688--3935666	75	13.1	75	91	1	1442	25	16	29	28	1.97
3935847--3936737	127	7.0	127	87	2	1195	39	8	13	39	1.74
3959852--3959885	17	2.0	17	88	0	50	29	5	0	64	1.17
3964819--3965262	220	2.0	220	97	0	834	40	7	11	41	1.69
3967219--3967396	87	2.0	89	96	2	333	35	6	14	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3974423--3974472	18	2.8	18	84	0	64	12	8	68	12	1.40
3974432--3974490	15	3.9	15	88	0	82	11	5	69	13	1.34
3980905--3980950	13	3.0	16	72	21	53	45	0	0	54	0.99
3980905--3980962	29	2.0	30	82	3	73	44	0	3	51	1.18
3991420--3991449	3	10.0	3	100	0	60	33	33	0	33	1.58
4004679--4004715	19	1.9	19	100	0	74	10	32	18	37	1.86
4014781--4014857	35	2.1	35	85	7	100	64	3	0	31	1.11
4014809--4014856	22	2.2	21	85	14	62	70	4	0	25	1.04
4016791--4016816	3	8.7	3	100	0	52	34	0	30	34	1.58
4030641--4030688	15	3.3	15	77	16	55	31	16	4	47	1.65

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