genome.fa.s3.2.7.7.80.10.50.1000.105.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  105  of  171  ( 20472 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)
33835327--33835376	23	2.2	22	82	10	57	64	4	10	22	1.41
33839240--33839270	2	15.5	2	100	0	62	48	0	0	51	1.00
33839359--33839391	3	11.0	3	100	0	66	33	0	0	66	0.92
33842106--33842189	17	4.9	17	80	1	78	40	0	8	51	1.32
33842184--33842238	24	2.3	24	100	0	110	56	14	3	25	1.55
33842904--33842955	3	17.3	3	88	7	79	63	0	1	34	1.06
33844034--33844418	29	13.2	28	75	13	141	33	27	7	32	1.84
33844027--33844151	30	4.2	30	80	9	98	37	25	4	32	1.75
33844145--33844413	29	9.3	29	78	12	189	33	27	7	30	1.85
33844145--33844413	87	3.1	88	78	7	264	33	27	7	30	1.85
33844200--33844413	29	7.4	29	87	3	209	34	29	7	28	1.85
33844204--33844413	58	3.6	57	81	6	235	34	29	7	29	1.85
33848543--33848601	13	4.8	12	78	17	59	3	16	0	79	0.86
33848541--33848603	25	2.5	26	85	12	87	4	17	0	77	0.93
33858557--33858601	21	2.2	20	84	15	56	33	24	15	26	1.95
33866199--33866261	21	2.9	21	74	19	56	42	25	6	25	1.78
33872664--33872721	30	1.9	30	82	0	71	46	0	22	31	1.52
33874534--33874572	6	6.5	6	87	0	51	23	30	0	46	1.53
33882601--33882653	25	2.2	24	86	10	72	24	5	13	56	1.58
33890687--33890762	29	2.5	31	85	6	102	52	0	1	46	1.08
33901514--33901546	17	2.0	16	94	5	57	78	3	12	6	1.04
33903661--33903709	25	2.0	25	100	0	98	20	8	18	53	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33903796--33903827	5	6.4	5	92	0	55	0	34	0	65	0.93
33904136--33904188	19	2.8	18	75	16	54	28	1	3	66	1.20
33905447--33905500	23	2.4	22	75	9	56	48	5	3	42	1.44
33905473--33905549	40	1.9	39	82	7	93	48	5	3	42	1.44
33911346--33911402	18	3.1	18	82	7	69	36	3	0	59	1.14
33912624--33912667	12	3.7	12	81	0	52	15	18	18	47	1.83
33912622--33912681	24	2.5	24	86	2	77	18	15	18	48	1.81
33928657--33928710	26	2.1	26	82	0	63	44	1	5	48	1.37
33928873--33928926	17	3.4	17	67	15	51	40	3	9	46	1.54
33928868--33928939	31	2.4	31	85	2	110	37	5	8	48	1.57
33929043--33929114	31	2.4	31	81	6	85	27	11	8	52	1.65
33936765--33936817	17	3.1	17	86	5	72	49	11	18	20	1.78
33936770--33936839	34	2.1	34	86	0	95	47	10	21	21	1.80
33943372--33943411	21	1.9	21	89	0	62	20	7	27	45	1.78
33956796--33956869	21	3.5	22	87	7	109	27	13	27	32	1.94
33957202--33957368	77	2.2	77	84	4	212	27	19	18	34	1.95
33957485--33957528	17	2.6	17	96	0	79	40	2	22	34	1.67
33961450--33961563	34	3.4	33	82	4	129	20	12	28	38	1.89
33962457--33962511	21	2.6	21	94	0	101	16	21	41	20	1.90
33962588--33962630	21	2.1	21	82	4	52	18	13	11	55	1.68
33967406--33967558	34	4.5	34	86	1	209	17	11	32	38	1.86
33973504--33973656	34	4.5	34	90	0	243	16	11	33	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33974628--33974673	21	2.2	21	84	7	58	28	21	30	19	1.98
33977812--33978032	107	2.1	107	94	1	390	43	7	8	41	1.62
33977962--33978399	123	3.6	123	92	1	675	44	6	9	39	1.63
33981898--33982065	24	6.6	25	80	9	162	27	17	23	30	1.97
33981898--33982060	76	2.1	78	86	2	222	27	18	24	29	1.98
33983428--33983574	23	6.5	22	80	3	159	38	25	21	14	1.92
33983474--33983574	45	2.2	45	92	0	166	38	23	21	15	1.92
34001997--34002033	19	2.0	18	89	5	56	16	16	13	54	1.72
34011761--34011799	20	2.0	19	90	5	60	38	2	7	51	1.44
34012000--34012130	25	5.1	25	77	7	120	27	17	22	32	1.96
34014585--34014772	96	2.0	96	91	2	306	36	15	27	21	1.93
34017271--34017308	13	2.9	13	85	11	51	44	0	2	52	1.14
34017298--34017536	123	1.9	123	90	4	381	41	7	10	40	1.69
34028161--34028210	23	2.1	24	85	3	66	26	24	6	44	1.76
34030239--34030891	325	2.0	325	99	0	1279	36	18	15	29	1.92
34032303--34032447	41	3.4	41	79	5	146	36	11	27	24	1.90
34032309--34032498	41	4.4	41	78	6	119	33	11	29	25	1.91
34033181--34033240	21	2.9	21	79	0	66	30	15	21	33	1.94
34034354--34034383	15	1.9	16	93	6	53	43	6	40	10	1.64
34057631--34057673	17	2.6	16	79	20	52	79	4	2	13	1.00
34062660--34062699	2	20.0	2	100	0	80	50	0	0	50	1.00
34071563--34071601	20	1.9	21	94	5	71	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34072101--34072139	20	2.0	20	90	10	62	35	2	5	56	1.35
34072849--34072882	14	2.4	15	90	9	54	38	0	0	61	0.96
34076779--34076899	46	2.6	46	84	0	161	42	19	14	22	1.88
34081447--34081618	60	2.9	59	80	8	172	25	18	8	48	1.75
34081447--34081619	58	2.9	57	81	7	170	25	18	8	47	1.75
34081785--34081927	59	2.4	60	80	8	159	48	14	14	22	1.80
34082444--34082494	22	2.3	22	79	0	66	15	13	13	56	1.67
34093250--34093282	2	16.5	2	100	0	66	51	0	0	48	1.00
34095822--34095852	5	6.2	5	100	0	62	0	19	0	80	0.71
34100366--34100411	20	2.3	20	92	0	74	23	15	15	45	1.84
34103061--34103111	21	2.4	21	83	0	66	21	7	17	52	1.69
34106841--34106889	21	2.3	21	78	0	53	40	4	0	55	1.19
34110108--34110168	30	2.0	31	100	0	108	21	32	6	39	1.79
34122559--34122591	13	2.4	14	85	10	50	9	18	0	72	1.10
34122573--34122614	22	2.0	22	90	4	68	9	11	4	73	1.22
34127858--34127887	11	2.7	11	94	0	51	53	30	6	10	1.60
34132995--34133038	18	2.4	19	81	11	65	72	9	6	11	1.27
34136931--34136958	14	2.0	14	100	0	56	21	14	7	57	1.61
34144915--34145048	24	5.4	24	67	7	88	35	16	29	18	1.93
34144901--34145048	50	3.0	50	87	3	208	35	15	28	20	1.93
34152696--34152738	18	2.4	18	88	0	59	23	41	18	16	1.89
34154316--34154340	2	12.5	2	100	0	50	52	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34154348--34154739	199	2.0	199	91	0	631	28	8	20	41	1.82
34160829--34161176	50	7.0	50	84	4	402	35	16	27	20	1.94
34160836--34161171	24	13.7	24	71	5	224	34	16	28	20	1.94
34160825--34161176	98	3.6	98	86	3	458	35	16	27	20	1.94
34172899--34172934	18	2.0	18	100	0	72	44	16	11	27	1.82
34174307--34174351	19	2.4	19	81	7	56	37	0	4	57	1.19
34177095--34177133	20	1.9	20	84	5	51	25	5	15	53	1.62
34177544--34177740	107	1.9	103	80	4	232	36	13	23	25	1.92
34178273--34178317	19	2.4	19	81	7	56	37	0	4	57	1.19
34179120--34179149	16	1.9	16	93	6	53	16	13	0	70	1.18
34179116--34179173	22	2.7	21	87	10	82	15	10	0	74	1.08
34179509--34179547	15	2.6	15	95	0	69	12	17	38	30	1.88
34194283--34194322	2	20.0	2	100	0	80	50	0	0	50	1.00
34197554--34197614	30	2.1	29	82	14	72	45	6	11	36	1.66
34202642--34202689	25	2.0	24	87	4	69	29	14	8	47	1.73
34206864--34206990	57	2.2	56	83	12	161	57	6	7	28	1.51
34206961--34207004	23	1.9	23	95	0	79	70	6	0	22	1.11
34208479--34208507	11	2.5	12	94	5	51	34	0	6	58	1.25
34211707--34211736	14	2.1	14	93	0	51	36	20	6	36	1.79
34219919--34219968	14	3.2	16	81	13	61	12	6	34	48	1.65
34226880--34226911	17	1.9	16	93	6	55	6	6	37	50	1.53
34226905--34226957	15	3.5	15	75	10	54	9	3	33	52	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34229402--34229451	23	2.2	23	100	0	100	46	8	12	34	1.70
34230594--34230626	6	5.3	6	92	7	57	3	33	0	63	1.10
34237327--34237373	21	2.3	21	96	3	87	63	8	4	23	1.40
34237993--34238042	20	2.6	20	84	6	59	38	4	2	56	1.30
34239657--34239708	17	3.1	17	72	2	52	32	0	1	65	1.04
34239656--34239719	31	2.0	32	81	3	76	35	1	4	57	1.29
34240357--34240419	20	3.2	19	75	24	67	52	1	0	46	1.10
34240373--34240420	23	2.1	23	81	14	55	54	0	0	45	0.99
34241576--34241665	26	3.5	26	77	17	105	72	8	0	18	1.10
34241562--34241665	52	2.0	52	88	0	154	71	11	0	17	1.15

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