genome.fa.s3.2.7.7.80.10.50.1000.24.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  24  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)
11146423--11146459	15	2.5	15	100	0	74	43	0	0	56	0.99
11146405--11146459	15	4.1	14	80	20	64	45	0	0	54	0.99
11149434--11149470	16	2.4	16	90	4	58	40	2	0	56	1.13
11168238--11168610	198	1.9	197	82	6	475	49	17	5	27	1.68
11181288--11181355	31	2.3	30	82	5	84	32	10	13	44	1.77
11181514--11181595	31	2.7	31	75	3	78	37	14	10	36	1.82
11186986--11187012	3	9.0	3	100	0	54	66	0	33	0	0.92
11189029--11189089	3	20.3	3	100	0	122	32	0	0	67	0.91
11189684--11189741	29	2.0	28	83	3	71	32	0	3	63	1.11
11191540--11191667	63	2.0	63	100	0	256	32	18	10	37	1.86
11196451--11196583	70	1.9	67	84	4	176	34	12	9	43	1.75
11201187--11201221	18	1.9	18	88	11	54	40	0	0	60	0.97
11210104--11210133	15	1.9	15	93	6	51	40	0	0	60	0.97
11211271--11211341	24	3.0	24	89	0	106	26	11	8	53	1.65
11211279--11211357	24	3.3	24	85	3	79	29	12	8	49	1.71
11212331--11212357	3	9.0	3	100	0	54	33	0	0	66	0.92
11215652--11215678	3	9.0	3	100	0	54	0	33	33	33	1.58
11231541--11231567	14	1.9	14	100	0	54	29	22	11	37	1.89
11259990--11260022	3	11.0	3	100	0	66	33	0	0	66	0.92
11266661--11266799	59	2.3	60	79	9	149	48	0	5	45	1.29
11266714--11266798	30	2.7	31	76	3	91	49	1	4	44	1.30
11271652--11271715	22	2.9	22	77	15	60	37	0	4	57	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11272434--11272552	3	38.0	3	73	8	85	57	4	2	35	1.31
11273636--11273849	29	7.4	29	68	27	127	35	31	0	33	1.58
11273638--11273905	29	9.3	30	67	27	106	35	30	1	32	1.65
11273638--11273877	59	4.1	59	93	4	400	35	31	0	33	1.62
11273663--11273874	30	7.3	30	67	26	143	35	30	0	33	1.62
11273638--11273900	115	2.3	117	89	5	347	35	30	1	33	1.65
11275180--11275204	2	12.5	2	100	0	50	48	0	0	52	1.00
11278114--11278185	22	3.3	22	87	12	105	6	6	20	65	1.41
11278126--11278194	22	3.2	22	91	4	113	5	5	20	68	1.32
11278218--11278309	12	7.9	12	83	7	127	7	1	17	73	1.11
11278198--11278308	36	3.1	35	86	7	111	9	2	14	72	1.21
11278229--11278362	45	3.0	44	83	5	157	8	2	18	70	1.22
11278220--11278331	36	3.2	36	84	7	131	8	2	16	72	1.20
11279876--11279960	30	3.0	28	78	16	95	57	2	1	38	1.19
11280639--11280677	19	2.1	19	85	9	53	43	0	0	56	0.99
11280633--11280681	25	2.0	24	92	4	80	42	0	0	57	0.99
11290857--11290914	25	2.4	25	97	2	109	46	17	5	31	1.70
11292230--11292276	21	2.2	21	80	0	58	40	19	8	31	1.81
11295977--11296237	29	8.8	31	73	13	106	34	3	25	37	1.72
11296049--11296240	29	6.6	28	77	9	136	32	2	27	37	1.71
11296049--11296240	88	2.2	87	80	7	201	32	2	27	37	1.71
11296049--11296237	59	3.2	57	74	12	168	31	2	27	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11297161--11297198	4	9.5	4	83	11	51	28	0	0	71	0.87
11331232--11331293	15	4.0	15	72	12	54	54	0	3	41	1.16
11331234--11331296	32	2.0	32	87	0	90	57	0	3	39	1.15
11332101--11332198	30	3.2	30	71	11	92	41	4	18	35	1.69
11332080--11332202	59	2.0	62	85	4	171	39	4	19	37	1.71
11332261--11332318	29	2.0	29	83	10	73	50	8	12	29	1.69
11336758--11336786	6	4.8	6	100	0	58	17	13	0	68	1.20
11356955--11356995	2	20.5	2	100	0	82	48	0	0	51	1.00
11358955--11358983	3	9.7	3	100	0	58	0	34	0	65	0.93
11369077--11369104	13	2.2	13	100	0	56	42	21	21	14	1.88
11369196--11369225	15	2.0	15	93	0	51	20	3	33	43	1.68
11369213--11369275	21	3.0	21	88	2	90	25	0	28	46	1.53
11369647--11369721	11	6.5	11	73	14	62	69	0	25	5	1.09
11369647--11369719	23	3.1	23	75	11	67	69	0	24	5	1.09
11370769--11370803	4	8.8	4	93	0	61	25	0	0	74	0.82
11371418--11371471	15	3.3	15	74	18	54	42	0	3	53	1.18
11373093--11373261	29	5.8	29	79	7	173	34	3	24	36	1.73
11372950--11373135	57	3.2	56	76	11	180	38	6	23	31	1.80
11373089--11373291	59	3.5	58	82	7	216	33	2	25	38	1.71
11373100--11373291	29	6.6	29	77	7	156	32	3	23	40	1.71
11373117--11373291	88	2.0	90	86	2	246	33	2	25	38	1.71
11374337--11374372	3	12.0	3	100	0	72	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11375096--11375189	17	5.7	17	75	8	61	51	6	1	41	1.34
11380861--11380923	15	4.1	15	76	15	74	44	0	1	53	1.10
11382358--11382448	9	10.6	9	70	25	63	51	0	1	47	1.07
11382359--11382436	29	2.6	30	86	9	124	50	0	1	48	1.09
11383314--11383412	40	2.5	40	88	3	157	46	1	0	52	1.07
11383314--11383413	10	10.1	10	70	22	61	47	1	0	52	1.07
11386007--11386362	80	4.4	80	84	2	405	33	24	17	24	1.96
11385984--11386362	160	2.4	160	81	6	453	33	24	17	24	1.96
11386779--11386863	24	3.2	24	67	20	71	32	20	4	42	1.72
11386751--11386879	55	2.4	55	94	1	224	33	20	4	41	1.73
11390511--11390564	19	2.9	19	84	13	60	55	5	0	38	1.23
11390696--11390730	3	11.7	3	100	0	70	31	0	0	68	0.90
11398187--11398283	52	1.9	50	83	12	126	49	6	1	43	1.34
11405028--11405057	6	4.8	6	92	8	51	20	16	46	16	1.84
11406442--11406483	22	2.0	22	81	13	52	19	7	4	69	1.31
11413193--11413253	14	4.2	14	72	15	52	47	6	0	45	1.28
11415780--11415804	13	1.9	13	100	0	50	8	24	8	60	1.52
11418784--11418836	23	2.3	21	82	17	70	37	24	22	15	1.92
11422079--11422137	30	2.0	30	83	6	75	50	1	3	44	1.28
11424401--11424511	56	2.0	56	100	0	222	31	16	23	28	1.96
11430488--11430562	29	2.6	28	87	6	105	24	34	1	40	1.64
11435425--11435453	6	4.8	6	100	0	58	51	0	34	13	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11441761--11441794	17	1.9	18	88	5	52	26	2	5	64	1.30
11446118--11446169	15	3.2	15	73	19	50	44	0	1	53	1.11
11446131--11446182	19	2.6	20	81	6	52	46	0	1	51	1.12
11446258--11446288	16	1.9	16	93	0	53	48	0	0	51	1.00
11446237--11446306	26	2.5	27	78	13	70	52	1	1	44	1.18
11447595--11447637	18	2.5	17	80	3	50	46	4	0	48	1.22
11452801--11452832	8	3.8	9	88	12	50	46	6	0	46	1.27
11467598--11467643	19	2.4	18	82	10	56	71	0	2	26	0.97
11467598--11467638	21	2.1	19	90	9	64	73	0	0	26	0.84
11467598--11467680	19	4.6	17	71	15	51	67	1	1	30	1.06
11467603--11467652	26	2.0	26	84	4	66	74	2	2	22	1.03
11471608--11471679	16	4.5	16	84	3	92	40	6	27	25	1.81
11477745--11477926	81	2.3	77	91	5	287	57	7	8	26	1.55
11478287--11478332	15	3.1	15	72	15	51	28	6	4	60	1.40
11479103--11479157	2	27.5	2	100	0	110	50	0	0	49	1.00
11484897--11484940	22	2.0	22	100	0	88	40	18	9	31	1.81
11501341--11501446	54	2.0	53	84	1	140	40	8	20	30	1.82
11508411--11508462	2	26.0	2	100	0	104	50	0	0	50	1.00
11508534--11508582	20	2.4	22	76	16	59	53	4	0	42	1.20
11508840--11508915	38	2.0	38	100	0	152	42	13	21	23	1.88
11509650--11509717	21	3.1	21	79	8	66	13	22	8	55	1.65
11511456--11511710	132	1.9	132	99	0	501	38	10	18	33	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11512345--11512381	18	2.1	18	100	0	74	54	10	24	10	1.67
11520890--11520930	17	2.4	18	80	19	52	21	7	2	68	1.26
11523608--11523632	2	12.5	2	100	0	50	0	48	0	52	1.00
11527873--11527909	7	5.3	7	100	0	74	40	0	43	16	1.48
11532788--11532823	17	2.1	17	89	0	54	11	16	8	63	1.49
11538104--11538386	141	2.0	141	98	0	548	25	17	28	28	1.98
11541051--11541084	18	1.9	17	88	5	50	35	2	5	55	1.39
11542024--11542076	27	2.0	27	82	14	65	39	1	3	54	1.29
11549215--11549310	2	49.5	2	93	6	171	48	0	51	0	1.00
11552778--11552850	31	2.3	32	81	11	87	27	19	8	45	1.78

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