genome.fa.s3.2.7.7.80.10.50.1000.12.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  12  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)
5615370--5615425	27	2.1	26	83	9	69	26	1	1	69	1.08
5627171--5627211	21	2.0	21	85	0	55	14	2	4	78	1.03
5629727--5629844	23	5.4	23	75	15	108	43	22	22	11	1.86
5629733--5629807	39	1.9	39	91	0	123	44	21	22	12	1.85
5632527--5632587	24	2.5	24	82	12	72	49	1	4	44	1.33
5637423--5637449	6	4.5	6	100	0	54	37	18	0	44	1.50
5639936--5639980	22	2.2	20	84	8	54	73	13	4	8	1.23
5657078--5657116	19	2.0	20	85	9	55	10	7	10	71	1.30
5659093--5659134	19	2.3	19	80	8	52	59	2	2	35	1.23
5659240--5659324	41	2.1	41	91	4	136	24	14	42	18	1.88
5667842--5667878	18	2.1	18	100	0	74	24	21	27	27	1.99
5674557--5674594	15	2.5	15	84	12	51	42	0	44	13	1.43
5674587--5674643	3	19.0	3	78	7	62	59	0	36	3	1.14
5674588--5674643	15	3.7	15	79	9	69	58	0	37	3	1.15
5678399--5678446	25	1.9	25	83	8	62	29	14	10	45	1.78
5678963--5679014	24	2.2	24	85	0	68	5	26	9	57	1.53
5681526--5681605	39	2.1	39	97	0	151	61	2	12	23	1.43
5686252--5686297	18	2.5	19	72	13	51	63	4	0	32	1.14
5689728--5689759	12	2.6	13	85	14	50	53	0	3	43	1.16
5690567--5690605	17	2.3	17	86	8	53	82	0	15	2	0.79
5690567--5690605	19	2.1	19	85	9	53	82	0	15	2	0.79
5699494--5699591	43	2.3	43	87	0	133	25	28	20	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5701734--5701769	2	18.0	2	100	0	72	50	0	0	50	1.00
5703301--5703364	30	2.1	30	85	5	85	50	6	0	43	1.27
5705529--5705686	81	2.0	81	89	2	246	37	13	19	28	1.90
5714756--5714794	2	19.5	2	100	0	78	51	0	0	48	1.00
5716690--5716721	14	2.3	14	94	0	55	75	3	0	21	0.95
5729724--5729759	3	12.0	3	93	0	54	72	0	27	0	0.85
5729725--5729763	18	2.1	19	95	4	71	76	0	23	0	0.78
5729724--5729765	21	2.0	21	100	0	84	76	0	23	0	0.79
5731384--5731414	2	15.5	2	100	0	62	0	48	0	51	1.00
5745101--5745148	24	2.0	24	100	0	96	16	16	33	33	1.92
5748054--5748093	18	2.1	18	86	9	53	42	0	0	57	0.98
5749218--5749307	33	2.6	33	82	12	92	47	3	4	44	1.39
5749634--5749675	22	1.9	22	85	0	57	50	11	2	35	1.52
5749679--5749729	11	4.5	11	80	12	50	29	3	0	66	1.09
5755207--5755373	60	2.7	63	81	6	214	28	8	10	53	1.63
5755210--5755422	60	3.6	59	80	9	211	30	7	8	52	1.60
5755338--5755390	18	3.1	18	74	17	58	35	5	7	50	1.54
5755320--5755465	55	2.7	55	83	5	176	34	4	6	54	1.46
5768349--5768373	2	12.5	2	100	0	50	52	0	0	48	1.00
5775110--5775172	31	2.0	31	87	0	90	25	17	11	46	1.81
5775422--5775480	31	1.9	31	86	13	86	45	6	18	28	1.75
5781372--5781428	22	2.7	21	78	10	62	33	7	0	59	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5783092--5783133	22	1.9	22	85	0	57	45	0	4	50	1.23
5784374--5784439	30	2.2	30	81	8	71	40	3	7	48	1.47
5784553--5784681	57	2.2	57	79	4	132	34	13	9	43	1.76
5786509--5786576	16	4.2	16	88	0	100	41	4	26	27	1.75
5786558--5786651	44	2.1	44	86	7	127	30	5	26	37	1.79
5786743--5786891	58	2.6	55	83	13	183	50	0	2	46	1.20
5841574--5841615	18	2.3	18	92	8	68	57	0	7	35	1.26
5841672--5841711	17	2.2	19	82	13	57	50	2	10	37	1.50
5841678--5841713	17	2.1	18	94	5	65	55	0	11	33	1.35
5844926--5844964	20	1.9	21	94	5	71	15	5	5	74	1.17
5845716--5845754	18	2.2	18	90	4	62	71	0	0	28	0.86
5845751--5845794	21	2.1	21	83	8	54	40	6	0	52	1.28
5865875--5865941	34	2.0	34	82	5	82	28	2	2	65	1.22
5865964--5866015	19	2.7	20	76	8	63	36	5	1	55	1.35
5867894--5868046	23	6.6	23	77	9	132	44	21	21	12	1.85
5867942--5868059	46	2.5	47	79	6	132	44	22	21	12	1.85
5867894--5868043	69	2.1	67	87	11	205	44	20	22	12	1.85
5871032--5871167	30	4.6	30	76	9	93	43	9	4	42	1.57
5878817--5878847	16	1.9	16	93	0	53	6	87	3	3	0.75
5883468--5883505	16	2.4	17	82	13	53	34	2	0	63	1.09
5889750--5889797	12	4.2	12	78	10	64	66	8	2	22	1.29
5889746--5889808	22	2.9	22	77	13	67	63	9	1	25	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5890250--5890331	34	2.3	35	89	4	121	18	13	9	58	1.62
5890733--5890942	37	5.7	37	74	19	176	11	21	31	34	1.90
5890752--5890923	58	3.1	57	80	13	214	11	21	32	34	1.89
5890752--5890835	21	4.2	21	70	25	83	8	21	33	36	1.83
5893088--5893133	21	2.1	23	92	8	78	60	6	8	23	1.49
5893641--5893679	19	2.1	19	85	9	53	64	2	0	33	1.08
5895083--5895216	72	1.9	71	82	1	169	33	14	16	35	1.89
5895311--5895354	21	2.1	21	86	0	61	54	6	2	36	1.40
5897779--5898159	87	4.4	87	75	11	358	28	25	15	31	1.95
5898866--5898950	39	2.2	39	87	4	127	12	22	21	43	1.86
5900232--5900414	90	2.0	89	94	1	321	20	13	14	50	1.77
5903994--5904020	5	5.4	5	100	0	54	18	62	0	18	1.32
5912280--5912338	25	2.3	27	80	14	70	20	5	3	71	1.20
5913247--5913288	13	3.2	13	89	0	57	11	14	9	64	1.50
5920975--5921021	24	1.9	25	86	4	69	46	2	4	46	1.34
5922113--5922145	2	16.5	2	100	0	66	48	0	0	51	1.00
5925783--5925822	15	2.5	16	88	8	55	72	2	2	22	1.09
5926818--5926842	13	1.9	13	100	0	50	32	0	8	60	1.26
5927092--5927116	13	1.9	13	100	0	50	32	0	8	60	1.26
5926577--5927295	272	2.6	274	89	4	1098	33	7	7	51	1.58
5928945--5928982	2	19.0	2	100	0	76	50	50	0	0	1.00
5930071--5930133	18	3.6	17	72	12	56	57	4	0	38	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5930331--5930416	44	2.0	42	82	10	104	47	2	2	47	1.27
5944487--5944518	2	16.0	2	100	0	64	50	0	0	50	1.00
5945457--5945494	3	12.7	3	94	0	67	0	31	2	65	1.06
5946373--5946397	2	12.5	2	100	0	50	52	48	0	0	1.00
5946940--5946965	12	2.2	12	100	0	52	42	7	15	34	1.75
5951339--5951430	47	2.0	47	93	0	157	38	10	5	45	1.62
5951339--5951410	21	3.0	25	68	24	73	40	9	5	44	1.61
5951734--5951775	21	2.0	21	100	0	84	28	4	14	52	1.62
5962640--5962706	29	2.3	28	78	14	73	44	0	2	52	1.16
5965047--5965100	14	3.7	14	80	20	58	64	3	0	31	1.11
5966586--5966750	81	2.0	81	100	0	330	36	23	12	27	1.91
5970578--5970611	16	2.1	16	88	5	50	67	8	0	23	1.18
5975147--5975192	18	2.5	19	73	20	53	47	0	0	52	1.00
5982571--5982595	12	2.1	12	100	0	50	32	0	0	68	0.90
5990453--5990526	37	2.0	37	86	5	105	54	6	31	8	1.56
5995144--5995177	3	11.7	3	93	6	61	64	0	35	0	0.94
6015614--6015966	79	4.5	79	82	0	373	24	16	23	35	1.95
6038799--6038838	16	2.5	17	80	19	50	35	5	0	60	1.19
6040683--6040750	27	2.5	27	73	17	68	50	4	1	44	1.31
6042266--6042290	2	12.5	2	100	0	50	48	0	0	52	1.00
6042320--6042378	23	2.6	23	86	0	73	8	23	22	45	1.79
6050449--6050513	21	3.0	21	72	2	67	32	21	10	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6050553--6050630	35	2.2	36	80	13	83	32	23	7	37	1.83
6061171--6061227	21	2.8	19	84	10	60	57	7	1	33	1.36
6071161--6071215	21	2.7	20	83	8	74	65	3	0	30	1.10
6071169--6071226	12	5.1	11	75	21	57	67	3	1	27	1.17
6095864--6095896	6	5.5	6	92	0	57	15	0	84	0	0.61
6098134--6098175	17	2.3	19	84	12	52	42	0	0	57	0.99
6098120--6098179	26	2.3	26	80	13	70	45	0	0	55	0.99
6098119--6098175	20	3.0	20	73	19	59	47	0	0	52	1.00
6098256--6098316	15	3.6	17	74	22	58	54	1	0	44	1.10
6098251--6098304	19	3.1	19	76	15	62	51	1	0	46	1.11

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