genome.fa.s3.2.7.7.80.10.50.1000.69.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  69  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)
25238791--25238833	22	2.0	22	85	0	59	23	41	20	13	1.88
25238791--25238833	11	3.9	11	78	0	50	23	41	20	13	1.88
25252354--25252721	49	7.6	49	69	11	220	39	20	23	16	1.92
25252299--25252803	98	5.2	97	77	5	403	38	20	24	15	1.92
25252354--25252803	49	9.2	48	68	13	215	38	21	24	15	1.92
25253247--25253292	23	2.0	23	87	12	67	52	8	2	36	1.45
25253378--25253420	16	2.7	16	85	0	59	23	34	20	20	1.96
25257531--25257582	17	3.1	17	94	0	86	42	0	0	57	0.98
25257533--25257583	6	8.8	6	77	16	54	43	0	0	56	0.99
25259150--25259568	29	14.3	29	73	11	220	35	24	5	34	1.79
25259145--25259309	59	2.8	60	80	4	156	36	22	6	34	1.79
25259295--25259361	33	2.1	31	83	8	82	49	19	2	28	1.63
25259150--25259568	57	7.2	56	74	13	267	35	24	5	34	1.79
25259209--25259568	29	12.4	28	74	11	246	36	25	4	33	1.77
25260036--25260070	15	2.4	14	85	4	52	45	0	0	54	0.99
25260012--25260075	23	2.8	22	81	11	67	42	1	1	54	1.19
25260036--25260066	15	2.1	15	93	0	53	41	0	0	58	0.98
25266014--25266058	12	3.3	15	73	20	53	62	6	24	6	1.44
25266687--25266721	15	2.4	14	85	4	52	45	0	0	54	0.99
25266663--25266726	23	2.8	22	81	11	67	42	1	1	54	1.19
25266687--25266717	15	2.1	15	93	0	53	41	0	0	58	0.98
25269623--25269674	17	3.1	17	94	0	86	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25269625--25269675	6	8.8	6	77	16	54	43	0	0	56	0.99
25271249--25271385	30	4.7	29	76	7	114	35	24	6	33	1.82
25271249--25271825	29	19.9	28	74	12	133	35	26	4	33	1.78
25271246--25271414	59	2.8	59	79	4	162	36	24	6	33	1.81
25271428--25271806	29	13.1	28	77	10	286	34	27	3	33	1.76
25271318--25271791	29	16.3	28	76	12	275	34	28	4	33	1.76
25271318--25271755	57	7.5	56	75	12	291	34	27	4	33	1.77
25271310--25271763	86	5.2	87	77	8	338	34	27	4	32	1.77
25272098--25272291	97	2.0	97	86	6	268	27	19	16	36	1.93
25272813--25272844	16	2.0	16	100	0	64	68	0	0	31	0.90
25276648--25276695	17	2.9	16	84	9	53	33	4	2	60	1.27
25276802--25276827	3	8.7	3	100	0	52	69	0	0	30	0.89
25277650--25277685	14	2.6	14	90	0	54	27	25	8	38	1.84
25284270--25284308	20	2.0	20	85	10	53	20	12	5	61	1.50
25284552--25284596	17	2.6	17	80	16	56	15	6	4	73	1.21
25286410--25286564	81	1.9	81	93	0	265	25	31	9	32	1.88
25287870--25287915	6	8.0	6	78	9	51	41	2	2	54	1.25
25287870--25287913	17	2.6	17	92	0	70	38	2	2	56	1.24
25287859--25287890	11	2.9	11	95	0	55	37	0	3	59	1.13
25288787--25288832	22	2.1	22	88	8	67	58	2	0	39	1.10
25288799--25288824	13	2.0	13	100	0	52	53	0	0	46	1.00
25289834--25290009	29	6.0	28	68	20	83	33	26	2	38	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25289887--25289984	29	3.3	30	69	19	89	33	24	2	39	1.67
25289848--25290089	59	4.1	59	84	3	292	34	26	2	35	1.72
25292306--25292371	29	2.3	29	81	5	80	46	4	6	42	1.48
25292922--25292968	23	2.1	22	84	4	58	78	4	2	14	0.99
25309433--25309494	4	15.2	4	77	9	54	66	0	33	0	0.92
25309433--25309489	25	2.3	25	87	3	89	64	0	35	0	0.93
25309432--25309494	13	4.7	15	77	18	59	65	0	34	0	0.93
25312870--25312903	12	2.8	12	95	0	59	0	50	0	50	1.00
25312865--25312895	9	3.4	9	95	0	53	0	54	0	45	0.99
25315952--25316072	23	5.2	23	81	11	147	11	24	23	40	1.88
25315976--25316061	25	3.6	24	73	17	74	12	27	20	38	1.90
25315952--25316072	48	2.6	46	85	7	163	11	24	23	40	1.88
25316037--25316111	39	1.9	39	91	0	123	12	22	21	44	1.85
25316071--25316164	23	4.0	23	75	16	86	11	25	19	43	1.84
25320742--25320771	14	2.1	14	100	0	60	13	53	20	13	1.72
25321443--25321993	99	5.8	94	86	8	742	48	11	1	38	1.48
25321443--25321993	193	2.9	187	86	6	754	48	11	1	38	1.48
25321965--25322006	21	2.0	20	90	4	66	61	11	0	26	1.30
25322095--25322141	22	2.2	21	84	3	58	72	4	0	23	1.02
25322359--25322399	4	10.5	4	80	15	50	0	24	0	75	0.80
25322363--25322395	17	1.9	17	93	0	57	0	24	0	75	0.80
25322358--25322399	21	2.0	20	90	4	66	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25322359--25322399	11	3.8	11	78	18	50	0	24	0	75	0.80
25327703--25327731	3	10.0	3	92	7	51	34	0	0	65	0.93
25329338--25329380	22	2.0	22	86	9	61	58	0	2	39	1.11
25331485--25332173	324	2.1	323	82	3	812	29	16	12	42	1.85
25336915--25336942	3	9.3	3	100	0	56	35	0	0	64	0.94
25337136--25337169	3	11.3	3	100	0	68	32	0	0	67	0.91
25343882--25343910	14	2.0	15	93	6	51	82	3	13	0	0.79
25347090--25347140	25	2.0	25	96	0	93	35	11	25	27	1.91
25351508--25351583	31	2.5	30	82	6	82	35	11	13	39	1.81
25351784--25351860	29	2.5	30	83	6	84	42	15	10	31	1.81
25352227--25352274	24	2.0	24	100	0	96	54	8	4	33	1.50
25354500--25354537	19	2.0	19	85	10	51	34	0	13	52	1.40
25354534--25354589	29	1.9	29	85	7	78	28	0	7	64	1.20
25354541--25354581	15	2.7	15	80	20	50	26	0	7	65	1.18
25354813--25354995	47	3.9	46	70	9	143	32	6	7	53	1.55
25354813--25354988	96	1.8	95	90	1	280	32	6	6	53	1.54
25357453--25357493	11	3.4	12	86	10	57	68	2	0	29	1.03
25357719--25357781	4	15.8	4	73	18	51	0	28	0	71	0.86
25357719--25357779	13	4.4	14	81	12	72	0	29	0	70	0.88
25358747--25358847	45	2.2	45	91	0	157	40	10	18	29	1.85
25359647--25360010	171	2.2	170	82	8	453	42	8	23	25	1.83
25361298--25361358	26	2.3	26	88	0	95	62	9	3	24	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25366022--25366131	48	2.3	47	89	6	161	11	24	23	40	1.88
25366022--25366131	23	4.7	22	81	12	130	11	24	23	40	1.88
25366096--25366170	39	1.9	39	91	0	123	12	22	21	44	1.85
25367226--25367268	6	6.8	6	80	19	52	18	0	13	67	1.23
25370057--25370124	27	2.5	27	100	0	136	16	23	26	33	1.95
25370117--25370168	27	1.9	27	84	0	68	21	26	30	21	1.98
25373143--25373175	16	2.0	17	88	5	50	57	0	0	42	0.98
25375944--25376135	100	1.9	99	86	7	273	42	13	16	27	1.86
25378903--25378943	6	6.8	6	88	0	64	14	46	0	39	1.45
25379047--25379163	39	3.0	39	91	2	173	39	17	15	28	1.90
25380384--25380439	20	2.9	19	80	19	71	58	3	0	37	1.15
25380863--25380902	3	13.3	3	100	0	80	35	0	0	65	0.93
25381515--25381575	32	1.9	32	86	6	88	27	14	9	47	1.76
25381515--25381593	32	2.6	32	78	13	85	29	13	10	46	1.76
25381940--25382010	29	2.4	30	92	2	117	54	15	0	29	1.41
25384886--25384915	15	2.0	15	93	0	51	10	30	0	60	1.30
25388314--25388347	18	1.9	17	88	5	50	55	0	0	44	0.99
25388310--25388351	21	2.0	20	90	4	66	52	0	0	47	1.00
25391682--25391717	18	2.0	18	88	0	54	16	16	38	27	1.90
25395381--25395424	21	2.2	20	95	4	79	54	0	0	45	0.99
25403494--25403685	100	1.9	99	86	7	273	42	13	16	27	1.86
25407893--25407949	20	2.8	19	80	19	71	59	3	0	36	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25408399--25408445	21	2.3	20	75	17	51	31	0	2	65	1.04
25409382--25409466	45	1.9	44	88	7	127	41	4	8	45	1.55
25410059--25410130	32	2.2	33	85	7	94	23	16	8	51	1.71
25410070--25410148	32	2.6	32	78	13	85	29	15	8	46	1.75
25410082--25410194	32	3.8	31	67	21	71	24	15	11	47	1.79
25410420--25410455	3	12.3	3	94	5	65	69	0	0	30	0.89
25411504--25411560	7	8.4	7	80	7	73	33	26	24	15	1.95
25411504--25411560	27	2.1	27	87	6	80	33	26	24	15	1.95
25411501--25411555	13	4.2	13	75	13	58	40	23	21	14	1.90
25411501--25411560	20	3.0	20	97	0	111	36	25	23	15	1.93

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