genome.fa.s3.2.7.7.80.10.50.1000.108.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  108  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)
34638108--34638186	41	1.9	41	84	0	104	20	12	21	45	1.84
34640746--34640817	19	3.8	19	70	23	53	31	0	4	63	1.13
34640745--34640819	28	2.6	30	74	21	79	32	0	4	64	1.12
34646225--34646310	42	2.0	42	90	0	136	29	17	25	27	1.97
34646766--34646892	61	2.1	61	93	0	218	31	18	22	27	1.97
34647932--34648114	26	7.3	26	71	7	108	19	24	19	37	1.94
34647930--34648114	50	3.7	50	92	0	298	19	24	18	37	1.94
34647970--34648099	24	5.2	24	72	7	116	18	26	19	36	1.94
34656636--34656872	51	4.6	51	87	1	314	32	13	23	29	1.93
34663945--34664195	102	2.5	101	86	2	324	33	13	21	31	1.92
34663970--34664195	51	4.4	51	88	3	294	34	13	22	30	1.92
34666466--34666965	250	2.0	250	98	0	955	27	26	11	34	1.90
34668126--34668185	20	3.1	20	79	13	63	21	15	8	55	1.66
34668146--34668195	20	2.5	20	83	3	66	18	12	8	62	1.53
34668112--34668222	38	2.8	39	78	11	111	22	15	8	54	1.67
34668168--34668252	19	4.2	19	73	16	64	18	11	5	63	1.47
34669979--34670101	18	6.7	18	64	18	56	19	17	8	54	1.68
34676378--34676429	20	2.4	23	81	12	65	38	11	7	42	1.70
34676766--34676938	57	2.9	60	82	9	201	24	18	11	45	1.82
34677096--34677248	59	2.6	58	83	5	182	48	11	16	24	1.78
34677579--34677625	21	2.4	21	79	10	55	48	10	19	21	1.78
34678107--34678168	17	3.6	17	81	16	74	33	1	9	54	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34678833--34678918	6	14.3	6	76	4	84	59	1	3	36	1.22
34678833--34678918	9	9.6	9	77	5	84	59	1	3	36	1.22
34678835--34678918	15	5.8	15	75	13	68	58	1	3	36	1.23
34679595--34679690	29	3.4	30	72	15	87	32	28	1	38	1.64
34686617--34686659	18	2.3	19	80	4	52	58	2	34	4	1.32
34691494--34692151	49	13.4	47	71	12	288	37	19	25	16	1.93
34691381--34692170	98	8.0	98	86	2	933	38	19	25	17	1.93
34692787--34692871	17	4.8	17	81	9	91	36	1	8	54	1.38
34692825--34692873	11	4.4	11	76	5	53	44	0	6	48	1.27
34693527--34693606	3	26.7	3	79	5	90	61	1	3	33	1.22
34694680--34694954	29	9.4	28	68	15	121	31	24	3	40	1.72
34694661--34694954	58	5.1	58	78	6	265	30	25	3	40	1.73
34694661--34694901	116	2.1	116	83	6	301	31	24	2	41	1.70
34699202--34699256	27	2.0	27	92	0	92	32	3	34	29	1.75
34705813--34706028	108	2.0	108	96	0	396	37	15	19	26	1.92
34706423--34707073	330	2.0	329	89	2	993	41	11	10	37	1.75
34713677--34713718	17	2.4	17	88	4	57	23	28	0	47	1.52
34713937--34713982	24	2.0	23	86	4	65	65	0	0	34	0.93
34714893--34715194	28	10.6	28	78	9	236	21	14	12	51	1.75
34715141--34715190	9	5.7	9	77	11	50	22	12	14	52	1.74
34715697--34715866	36	4.7	36	91	0	259	34	7	15	42	1.74
34715697--34715993	72	3.9	72	76	14	263	35	6	15	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34715829--34716206	45	8.6	45	85	5	477	35	6	15	43	1.72
34719141--34719191	25	2.0	25	96	0	93	35	13	27	23	1.93
34721897--34722024	45	2.8	45	85	4	177	32	5	17	43	1.72
34721947--34722098	74	2.1	74	87	2	216	32	4	18	44	1.70
34721903--34722143	119	2.0	119	86	1	340	32	5	17	43	1.72
34722022--34722196	45	3.9	45	90	0	251	33	6	17	42	1.74
34724193--34724219	11	2.5	11	100	0	54	77	0	7	14	0.97
34746675--34746705	16	1.9	16	93	0	53	70	12	9	6	1.31
34763118--34763213	9	9.8	9	69	18	50	39	2	2	56	1.23
34763112--34763180	19	3.8	18	76	14	70	36	2	1	59	1.21
34763161--34763207	23	2.0	24	87	4	69	42	0	2	55	1.12
34763124--34763216	19	5.3	19	70	25	64	39	2	1	56	1.18
34764984--34765114	64	2.1	63	98	1	253	22	30	16	29	1.96
34765408--34765454	25	1.9	24	86	4	67	23	12	2	61	1.42
34768418--34768496	36	2.2	37	83	2	97	36	25	12	25	1.91
34768908--34768941	16	2.1	17	88	5	52	50	20	0	29	1.49
34777797--34777826	14	2.1	14	93	0	51	70	3	6	20	1.25
34779350--34779402	6	8.2	6	84	12	61	81	0	0	18	0.70
34779362--34779406	4	11.8	4	80	17	51	80	0	0	20	0.72
34779356--34779410	16	3.7	15	77	20	62	80	0	0	20	0.72
34780261--34780995	367	2.0	367	99	0	1454	20	19	18	41	1.90
34792123--34792162	17	2.4	17	83	8	55	20	12	10	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34795096--34795125	14	2.1	14	93	0	51	70	0	6	23	1.11
34796256--34796301	5	8.8	5	86	9	65	17	0	4	78	0.91
34796257--34796301	16	2.9	15	90	3	63	17	0	4	77	0.92
34796256--34796301	11	4.4	10	86	8	65	17	0	4	78	0.91
34796561--34796596	13	2.7	14	87	12	58	16	0	5	77	0.94
34796560--34796607	18	2.8	17	84	6	62	20	0	4	75	0.97
34800557--34801295	97	7.5	98	83	2	794	36	19	19	25	1.95
34803390--34803434	21	2.1	21	83	0	54	15	0	8	75	1.03
34805318--34805364	23	2.0	24	87	4	69	36	12	12	38	1.82
34806548--34806603	28	2.0	28	86	3	78	10	19	28	41	1.85
34812876--34812909	17	2.0	17	94	0	59	11	14	17	55	1.68
34819422--34819446	13	1.9	13	100	0	50	8	8	0	84	0.79
34820347--34820389	22	2.0	22	85	0	59	20	18	11	48	1.79
34822043--34822084	9	4.8	9	80	13	52	66	0	0	33	0.92
34828542--34828579	3	12.7	3	94	0	67	31	2	0	65	1.06
34828854--34829364	153	3.4	152	88	3	719	42	4	9	44	1.56
34828926--34829348	52	8.3	51	68	14	162	43	4	8	43	1.53
34831551--34831866	155	2.0	155	96	0	587	34	11	23	30	1.90
34833323--34833558	51	4.6	51	88	1	339	28	22	15	33	1.94
34840533--34840580	17	2.6	19	87	9	64	10	20	8	60	1.55
34853791--34853829	17	2.2	18	90	4	62	84	0	15	0	0.62
34853792--34853829	8	4.4	9	87	9	53	84	0	15	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34860711--34860754	23	1.9	23	100	0	88	29	4	11	54	1.56
34861350--34861394	3	15.0	3	100	0	90	0	33	33	33	1.58
34875946--34875989	23	1.9	23	86	9	63	36	0	20	43	1.52
34876530--34876633	55	1.9	55	86	4	147	32	25	16	25	1.96
34877623--34877767	62	2.3	63	82	6	172	21	18	35	24	1.96
34885275--34885337	31	2.0	31	96	0	117	26	22	7	42	1.81
34888292--34888338	19	2.3	21	85	7	62	36	8	14	40	1.77
34888292--34888382	20	4.6	20	78	14	80	31	8	13	46	1.73
34891384--34891855	242	2.0	242	88	4	702	22	9	16	52	1.71
34916544--34916669	27	4.7	27	80	3	139	33	13	25	27	1.93
34916698--34916775	27	2.9	27	88	3	113	42	5	24	28	1.76
34916698--34916791	27	3.5	27	81	5	100	41	5	24	28	1.77
34918823--34918959	36	3.8	36	94	0	229	35	14	25	24	1.94
34920448--34920493	23	2.0	23	95	0	83	56	2	21	19	1.52
34920969--34921148	51	3.5	51	87	0	261	30	15	22	32	1.94
34928097--34928292	51	3.8	50	84	3	248	31	13	20	34	1.92
34928094--34928292	102	1.9	103	87	1	292	30	13	21	34	1.92
34930721--34930778	26	2.2	26	78	6	64	29	22	18	29	1.98
34933228--34933287	21	2.9	21	87	0	84	45	28	13	13	1.81
34939932--34940068	36	3.8	36	85	7	188	35	16	26	21	1.95
34945198--34945228	16	1.9	16	93	0	53	22	16	0	61	1.34
34956176--34956216	17	2.4	18	80	19	52	14	14	17	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34959115--34959203	7	13.0	7	73	16	71	42	24	13	19	1.87
34959117--34959155	20	1.9	21	94	5	71	46	25	12	15	1.81
34959116--34959161	20	2.2	20	85	14	67	43	23	15	17	1.87
34959138--34959202	27	2.4	27	87	5	96	41	24	12	21	1.87
34959117--34959203	20	3.9	20	71	21	57	42	25	12	19	1.86
34985128--34985170	20	2.1	21	86	4	61	44	20	18	16	1.87
34985180--34985237	20	2.9	20	81	0	71	13	18	43	24	1.87
35009693--35009731	19	2.2	18	86	9	53	15	5	7	71	1.26
35012339--35012372	15	2.3	15	89	0	50	8	8	8	73	1.25
35014688--35014739	19	2.9	17	78	10	59	15	15	13	55	1.69

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