genome.fa.s4.2.7.7.80.10.50.1000.169.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  169  of  193  ( 23090 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)
52624931--52625057	46	2.7	46	85	7	184	44	21	21	13	1.86
52634120--52634236	60	2.0	60	81	6	139	37	12	8	41	1.74
52635967--52636040	24	3.1	24	92	0	121	28	27	29	14	1.95
52636278--52636318	19	2.2	19	86	0	55	26	14	12	46	1.80
52642177--52642770	241	2.5	239	83	3	679	39	11	13	35	1.81
52643277--52643331	21	2.5	22	80	11	60	47	18	1	32	1.59
52650558--52650585	2	14.0	2	100	0	56	50	0	0	50	1.00
52650799--52651234	180	2.4	180	83	3	554	35	15	15	34	1.89
52651727--52651754	2	14.0	2	100	0	56	50	0	0	50	1.00
52654640--52654702	21	3.0	21	88	0	90	49	3	6	41	1.44
52654819--52654872	28	1.9	28	96	0	99	27	27	12	31	1.93
52654821--52654881	28	2.2	28	88	5	88	32	27	11	27	1.91
52660487--52660521	18	1.9	18	88	0	52	37	14	8	40	1.76
52665069--52665116	23	2.1	23	84	7	62	45	6	0	47	1.27
52666574--52666990	230	1.8	226	86	7	599	31	17	14	37	1.89
52668623--52668664	17	2.4	18	80	11	52	38	0	4	57	1.20
52672769--52672865	40	2.5	38	77	8	99	26	29	22	20	1.99
52673698--52673732	17	2.1	17	88	0	52	0	11	5	82	0.82
52674834--52674862	13	2.2	13	100	0	58	6	13	0	79	0.93
52686731--52686788	15	3.5	17	73	15	50	36	1	0	62	1.06
52686732--52686786	16	3.3	16	80	12	58	34	1	0	63	1.05
52686815--52686951	72	2.0	67	84	7	175	59	0	1	37	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52689546--52689570	9	2.8	9	100	0	50	84	0	0	16	0.63
52689537--52689586	20	2.5	20	75	15	59	78	0	10	12	0.98
52689697--52689740	6	7.3	6	94	0	61	61	22	15	0	1.34
52691573--52691630	29	2.0	29	83	12	75	46	15	10	27	1.78
52693238--52693283	24	2.0	24	83	8	60	34	4	2	58	1.30
52696192--52696412	111	2.0	111	100	0	442	30	5	11	52	1.60
52699616--52699663	24	2.0	24	95	0	87	60	0	2	37	1.09
52706745--52706785	17	2.3	18	80	20	50	46	4	4	43	1.46
52722450--52722517	28	2.4	29	71	11	70	45	26	1	26	1.62
52725924--52726082	82	2.0	80	89	2	246	40	8	9	40	1.69
52734078--52734139	17	3.6	17	74	10	54	37	4	4	53	1.44
52734078--52734120	18	2.4	18	84	7	52	34	2	6	55	1.39
52745585--52745618	17	2.0	17	100	0	68	47	5	29	17	1.71
52746438--52746487	19	2.4	21	87	9	68	62	0	4	34	1.14
52747369--52747394	13	2.0	13	100	0	52	23	23	15	38	1.92
52748440--52748490	19	2.7	19	79	11	52	35	1	1	60	1.19
52754825--52755521	345	2.0	351	88	7	1056	47	3	6	42	1.46
52755351--52755402	19	2.9	17	83	13	61	61	0	0	38	0.96
52755360--52755402	19	2.3	19	88	11	63	65	0	0	34	0.93
52767128--52767171	20	2.2	20	83	0	52	22	2	25	50	1.61
52767537--52767568	17	1.9	17	93	6	57	31	0	0	68	0.90
52772893--52772950	25	2.3	24	77	11	62	37	3	0	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52773084--52773118	13	2.7	13	86	0	52	42	5	0	51	1.25
52783724--52783882	58	2.7	57	78	12	164	33	3	27	35	1.73
52783894--52784050	30	5.3	30	69	20	107	34	1	29	35	1.66
52783790--52783981	98	2.0	98	91	2	314	35	3	28	33	1.73
52783928--52784089	29	5.5	29	68	20	104	35	0	27	36	1.62
52783895--52784092	59	3.4	58	92	1	306	33	1	29	35	1.65
52784854--52784897	17	2.7	15	80	19	52	50	2	4	43	1.35
52785244--52786006	200	3.8	200	92	0	1208	20	23	19	36	1.95
52798160--52798328	29	5.9	27	73	19	114	34	1	30	33	1.68
52798161--52798355	58	3.4	58	86	5	270	33	1	30	34	1.67
52798220--52798352	28	4.7	27	72	22	112	35	0	28	35	1.63
52799116--52799159	17	2.7	15	80	19	52	50	2	4	43	1.35
52802791--52802825	18	2.0	17	88	5	52	28	5	5	60	1.43
52804016--52804044	15	1.9	15	100	0	58	6	27	10	55	1.59
52806121--52806170	19	2.4	21	87	9	68	34	4	0	62	1.14
52805859--52806514	322	2.0	326	93	2	1115	34	12	9	43	1.75
52811461--52811635	45	4.0	45	68	11	157	22	46	12	18	1.82
52811495--52811539	21	2.1	21	100	0	90	24	62	8	4	1.43
52834695--52834777	38	2.2	38	86	0	121	42	1	8	48	1.41
52840625--52840666	13	3.3	12	81	18	50	78	0	11	9	0.96
52841243--52841288	19	2.3	21	75	14	53	71	4	0	23	1.03
52841822--52841864	20	2.0	20	86	8	59	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52846171--52846216	22	2.1	22	100	0	92	36	23	4	34	1.75
52847085--52847164	11	6.9	11	72	10	52	30	1	3	65	1.18
52847074--52847143	36	1.9	36	85	0	95	28	2	4	64	1.27
52850038--52850127	30	3.1	28	74	13	83	52	2	1	44	1.20
52850776--52851035	61	4.4	58	79	12	253	30	15	15	39	1.87
52850776--52851002	117	1.9	119	85	6	320	29	14	15	40	1.87
52850742--52851034	117	2.4	116	76	15	292	29	15	15	38	1.89
52853125--52853174	18	2.8	18	84	6	66	40	10	40	10	1.72
52859002--52859070	32	2.2	32	89	0	102	27	27	11	33	1.91
52860093--52860136	17	2.5	17	82	14	54	63	2	2	31	1.19
52864004--52864038	4	8.8	4	93	0	61	48	22	2	25	1.64
52869630--52869676	22	2.1	22	84	0	58	51	2	2	44	1.25
52883180--52883208	2	14.5	2	100	0	58	48	0	0	51	1.00
52885538--52885571	17	2.0	17	88	11	52	23	0	5	70	1.09
52887167--52887225	24	2.3	24	80	11	64	52	5	0	42	1.23
52895257--52895377	23	5.3	23	87	2	154	12	22	22	42	1.86
52895279--52895426	69	2.2	66	85	9	190	12	22	20	43	1.86
52895257--52895426	23	7.4	23	80	8	150	12	22	21	43	1.86
52898728--52898823	41	2.4	39	80	14	99	28	4	4	63	1.31
52898754--52898817	19	3.2	20	69	22	53	34	3	3	59	1.29
52898871--52898916	24	1.9	24	86	8	67	34	2	0	63	1.07
52898718--52898954	9	25.7	9	64	21	66	32	2	3	61	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52903243--52903277	17	2.1	17	89	10	54	65	0	0	34	0.93
52903275--52903457	62	2.9	62	77	16	187	45	1	2	50	1.23
52905129--52905323	39	5.0	39	79	7	191	23	36	5	34	1.78
52905129--52905308	78	2.3	78	81	1	218	23	36	5	35	1.78
52905996--52906552	189	2.9	188	88	3	812	19	34	12	34	1.88
52915218--52915258	19	2.2	19	83	12	50	26	0	0	73	0.84
52923153--52923215	24	2.6	24	87	0	90	23	14	12	49	1.78
52924588--52924650	24	2.6	24	89	0	99	23	14	11	50	1.74
52928064--52928114	22	2.3	21	81	15	59	39	5	0	54	1.24
52929164--52929221	13	4.6	13	73	14	50	50	0	3	46	1.18
52929734--52929768	18	2.1	16	89	10	52	42	0	22	34	1.54
52932415--52932460	23	2.0	22	83	4	56	45	13	4	36	1.63
52938880--52938919	17	2.4	17	87	8	55	42	0	20	37	1.52
52938930--52938955	10	2.6	10	100	0	52	69	0	7	23	1.14
52939441--52939480	21	1.9	21	84	0	53	40	30	7	22	1.81
52948657--52948694	17	2.2	17	86	9	51	76	5	2	15	1.08
52949014--52949080	31	2.3	27	76	18	64	40	10	11	37	1.77
52956745--52956778	17	2.0	17	88	0	50	50	0	2	47	1.16
52957061--52957090	16	1.9	16	93	6	53	43	0	0	56	0.99
52957167--52957389	111	2.0	113	91	1	369	30	17	8	43	1.78
52963936--52963976	19	2.2	19	86	4	57	31	7	0	60	1.24
52963987--52964029	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52964086--52964138	19	2.8	18	76	23	56	32	0	0	67	0.91
52965714--52966036	160	2.0	160	93	0	547	39	10	15	35	1.81
52966318--52966358	21	1.9	22	90	5	66	43	2	0	53	1.13
52966310--52966359	23	2.1	24	85	3	66	48	2	0	50	1.12
52973320--52973376	27	2.1	28	83	3	71	43	5	7	43	1.54
52982081--52982137	29	2.0	29	89	0	87	29	12	14	43	1.81
52995842--52995885	23	2.0	23	86	4	63	59	6	9	25	1.53
53002113--53002156	21	2.1	21	82	0	52	45	15	6	31	1.73
53003228--53003274	22	2.2	20	85	7	58	29	2	6	61	1.32
53008821--53008858	16	2.3	16	86	13	51	39	0	5	55	1.23

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   183   184   185   186   187   188   189   190   191   192   
          193