genome.fa.s2.2.7.7.80.10.50.1000.11.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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  11  of  135  ( 16151 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)
3063087--3063133	20	2.5	18	77	16	51	46	0	0	53	1.00
3064922--3064972	25	2.0	25	88	0	75	64	1	0	33	1.05
3064961--3065005	17	2.6	18	79	10	58	57	0	2	40	1.11
3078596--3078629	2	17.0	2	100	0	68	50	0	0	50	1.00
3084766--3084796	13	2.4	13	100	0	62	16	0	0	83	0.64
3091059--3091125	29	2.3	30	85	7	86	44	1	5	47	1.36
3091324--3091371	2	24.0	2	95	0	87	47	0	2	50	1.12
3091542--3091597	2	28.0	2	100	0	112	50	0	0	50	1.00
3107475--3107577	51	2.0	51	90	0	161	38	26	17	17	1.92
3111094--3111188	9	11.2	9	71	20	80	68	2	1	28	1.08
3112475--3112521	3	15.7	3	100	0	94	68	0	31	0	0.90
3113483--3113507	12	2.1	12	100	0	50	60	16	8	16	1.58
3113674--3113721	21	2.3	21	88	0	78	14	20	27	37	1.92
3113686--3113732	21	2.2	21	84	0	58	12	27	27	31	1.93
3118317--3118383	24	2.8	23	80	8	73	70	0	0	29	0.88
3118321--3118375	22	2.6	21	82	8	67	67	0	0	32	0.91
3120165--3120306	47	3.0	47	94	2	250	46	18	5	29	1.72
3126192--3126252	24	2.6	24	97	2	115	62	0	0	37	0.96
3129196--3129226	12	2.6	12	89	0	53	64	0	29	6	1.18
3137251--3137275	13	1.9	13	100	0	50	0	16	4	80	0.87
3142437--3142548	45	2.5	45	92	2	181	51	8	21	18	1.71
3156329--3156511	91	2.0	91	100	0	366	20	18	38	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3158953--3158996	9	4.6	9	86	11	52	45	2	20	31	1.64
3158989--3159021	16	1.9	18	88	11	52	48	0	18	33	1.48
3159020--3159045	2	13.0	2	100	0	52	50	0	0	50	1.00
3163392--3163437	2	23.0	2	100	0	92	50	0	0	50	1.00
3165318--3165392	24	3.1	24	90	0	123	25	13	6	54	1.63
3167318--3167368	24	2.1	24	85	0	66	25	7	7	58	1.53
3168106--3168132	11	2.5	11	100	0	54	66	7	0	25	1.17
3176007--3176059	20	2.5	20	82	11	54	49	0	0	50	1.00
3179808--3179852	15	3.1	14	87	9	63	26	0	2	71	0.98
3189778--3189823	6	7.2	6	86	13	65	34	0	2	63	1.07
3189775--3189835	27	2.2	28	80	8	90	42	0	1	55	1.09
3190638--3190674	6	6.2	6	100	0	74	0	18	0	81	0.70
3198506--3198570	23	2.9	22	72	4	67	49	0	1	49	1.10
3200258--3200301	23	1.9	24	86	9	65	27	0	9	63	1.24
3200465--3200532	21	3.1	21	77	8	66	54	10	23	11	1.67
3204800--3204857	16	3.6	17	75	11	59	51	0	0	48	1.00
3204856--3204893	20	1.9	20	89	10	60	26	0	13	60	1.33
3206065--3206102	20	2.0	20	89	5	60	34	7	7	50	1.61
3213310--3213565	125	2.0	125	95	0	458	39	17	17	25	1.91
3215631--3215663	14	2.3	15	89	5	50	15	15	12	57	1.65
3216061--3216094	14	2.4	14	85	0	50	67	5	2	23	1.26
3218906--3218984	38	2.1	38	97	0	149	27	27	18	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3228049--3228123	26	2.9	25	76	9	71	49	1	0	49	1.09
3228420--3228455	14	2.7	13	87	8	54	36	0	11	52	1.37
3230889--3230929	17	2.4	16	88	8	55	39	0	0	60	0.96
3230887--3230954	26	2.6	27	77	15	70	39	0	0	60	0.97
3230887--3230953	27	2.5	26	79	13	66	38	0	0	61	0.96
3232885--3232920	17	2.1	18	89	5	56	52	2	27	16	1.57
3238295--3238352	29	2.0	29	96	0	107	31	15	27	25	1.96
3251330--3251729	107	3.8	107	89	3	637	29	27	13	30	1.94
3251330--3251730	211	1.9	214	92	1	673	28	26	13	30	1.94
3263360--3263385	8	3.2	8	100	0	52	15	34	0	50	1.45
3266001--3266025	11	2.3	11	100	0	50	60	0	8	32	1.26
3272625--3272682	31	1.9	31	86	10	84	51	10	15	22	1.73
3273358--3273391	8	4.4	8	85	7	52	64	0	0	35	0.94
3273358--3273391	15	2.2	16	89	5	52	64	0	0	35	0.94
3273395--3273462	19	3.6	18	71	13	55	61	4	4	29	1.35
3273403--3273462	19	3.0	21	76	13	65	63	3	3	30	1.27
3273562--3273602	20	2.0	21	85	4	57	31	4	4	58	1.40
3278085--3278163	29	2.7	29	98	0	149	45	16	11	26	1.81
3280204--3280261	31	1.9	31	89	6	93	44	1	0	53	1.10
3282827--3282851	6	4.2	6	100	0	50	20	0	16	64	1.30
3284673--3284725	27	1.9	28	85	11	74	45	26	5	22	1.74
3286364--3286390	14	1.9	14	100	0	54	51	11	0	37	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3289847--3290239	125	3.2	125	87	4	573	26	18	13	40	1.89
3290148--3290338	99	1.9	99	91	1	312	26	21	10	40	1.86
3289907--3290970	350	3.0	350	82	8	1069	26	18	13	41	1.87
3290254--3290995	125	5.9	125	81	5	814	26	17	14	41	1.87
3290246--3290995	253	3.0	251	82	6	836	26	17	14	41	1.88
3295938--3295986	19	2.6	19	76	0	53	18	10	4	67	1.36
3299593--3299644	25	2.0	26	82	10	63	61	1	0	36	1.07
3309796--3309825	14	2.1	14	93	0	51	63	0	0	36	0.95
3309661--3310388	374	2.0	362	88	5	901	45	8	10	35	1.69
3313569--3313618	16	2.8	18	79	14	50	48	0	2	50	1.12
3320210--3320242	3	11.0	3	93	0	57	36	0	30	33	1.58
3324959--3325017	29	2.0	31	83	12	79	37	3	8	50	1.49
3325523--3325556	17	2.0	17	88	0	50	41	2	0	55	1.15
3328282--3328312	6	5.2	6	100	0	62	83	0	16	0	0.64
3332269--3332321	22	2.4	22	80	0	61	60	16	9	13	1.58
3338146--3338489	58	5.9	57	78	12	208	29	21	15	33	1.94
3338194--3338489	58	5.1	58	80	8	298	29	22	14	32	1.94
3338154--3338489	174	1.9	174	84	4	446	29	21	15	33	1.94
3338208--3338489	60	4.8	57	82	5	300	30	21	14	32	1.94
3339187--3339226	20	2.0	20	86	13	57	60	5	0	35	1.19
3341006--3341054	23	2.1	23	88	3	71	73	4	8	14	1.21
3341867--3341909	19	2.3	19	84	8	52	58	4	0	37	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3341930--3341957	9	3.1	9	100	0	56	89	0	0	10	0.49
3342487--3342782	105	2.8	105	94	2	506	23	26	13	35	1.92
3343472--3343526	4	13.8	4	78	21	62	78	0	3	18	0.90
3343470--3343531	13	4.6	13	72	20	56	79	0	3	17	0.87
3343470--3343528	7	7.6	7	85	14	64	79	0	3	16	0.86
3347664--3347755	30	3.1	30	84	6	98	26	6	5	61	1.42
3348577--3348798	60	3.7	60	82	3	275	32	16	20	29	1.95
3353082--3353120	14	2.8	14	84	7	53	56	5	7	30	1.49
3354249--3354312	31	2.1	30	82	5	76	35	9	12	42	1.75
3354468--3354540	31	2.4	30	82	8	94	46	15	6	31	1.71
3356981--3357023	22	2.0	22	86	9	61	39	2	0	58	1.11
3358494--3358532	10	3.7	10	80	12	51	41	0	0	58	0.98
3358494--3358532	11	3.6	11	89	3	62	41	0	0	58	0.98
3358589--3358618	6	5.0	6	100	0	60	0	66	0	33	0.92
3360435--3360501	31	2.2	31	88	0	98	32	1	19	46	1.59
3362482--3362528	24	1.9	25	87	12	71	57	6	4	31	1.43
3362599--3362632	13	2.6	13	85	0	50	58	11	0	29	1.33
3370209--3370237	13	2.1	14	93	6	51	41	10	6	41	1.66
3374891--3374974	22	4.0	22	70	17	70	38	2	4	54	1.34
3374916--3374987	22	3.2	23	76	11	78	40	2	4	52	1.35
3375929--3375996	27	2.5	28	79	11	77	39	2	0	57	1.14
3379619--3379670	15	3.5	15	72	15	54	57	3	5	32	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3381554--3381591	15	2.5	16	87	8	53	34	0	7	57	1.28
3383204--3383266	32	2.0	32	93	0	108	25	20	3	50	1.63
3391460--3391497	15	2.4	16	87	12	53	44	0	0	55	0.99
3392380--3392460	24	3.4	24	81	10	94	64	3	6	25	1.34
3393371--3393405	18	1.9	18	88	0	52	48	2	0	48	1.16
3394900--3394930	2	16.0	2	93	6	55	48	0	0	51	1.00
3395659--3395683	3	8.3	3	100	0	50	68	0	32	0	0.90
3404090--3404128	17	2.3	17	86	8	53	28	15	0	56	1.40
3404298--3404325	14	2.0	14	100	0	56	28	7	28	35	1.84
3413533--3413559	14	1.9	14	100	0	54	11	22	22	44	1.84

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