genome.fa.s3.2.7.7.80.10.50.1000.123.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  123  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)
39131342--39131408	25	2.6	25	85	2	89	82	0	17	0	0.68
39131720--39131929	112	1.9	113	85	1	296	31	20	9	38	1.85
39132360--39132940	49	11.8	50	73	8	357	35	15	30	18	1.92
39132364--39132937	99	5.8	99	84	2	654	35	15	31	18	1.92
39132364--39132937	297	1.9	296	84	4	764	35	15	31	18	1.92
39133175--39133392	46	5.0	43	81	9	171	30	26	18	24	1.98
39133201--39133399	85	2.2	92	81	7	232	30	25	20	24	1.99
39133200--39133399	46	4.5	46	79	6	198	30	25	20	24	1.99
39138860--39138994	61	2.2	61	89	0	198	29	25	28	16	1.97
39141980--39142107	28	4.6	28	79	3	125	32	21	14	31	1.93
39179521--39179548	7	4.0	7	100	0	56	14	0	42	42	1.45
39181793--39181835	17	2.5	17	88	0	59	16	11	16	55	1.68
39182425--39182474	18	2.9	17	72	21	50	76	4	20	0	0.95
39192464--39192512	17	2.8	17	79	11	55	12	16	14	57	1.66
39196850--39196895	14	2.9	16	87	9	60	41	8	0	50	1.33
39196847--39196895	16	3.1	16	82	11	57	40	8	0	51	1.32
39199870--39199904	6	5.7	6	93	6	61	65	0	0	34	0.93
39201218--39201321	23	4.7	23	76	9	99	21	0	33	44	1.59
39207120--39207148	12	2.3	13	94	5	51	65	0	0	34	0.93
39208335--39208382	21	2.3	21	88	0	78	33	25	18	22	1.97
39208442--39208543	23	4.6	22	72	10	82	23	0	30	45	1.60
39208441--39208488	22	2.2	21	78	10	53	20	0	33	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39221194--39221262	29	2.3	31	82	5	88	47	10	8	33	1.68
39222675--39222794	50	2.4	48	80	12	125	38	0	9	52	1.33
39222976--39223259	83	3.4	81	74	11	232	32	12	11	44	1.78
39226988--39227019	6	5.3	6	100	0	64	0	68	0	31	0.90
39232457--39232676	101	2.2	101	89	0	332	38	18	18	24	1.93
39232486--39232674	51	3.7	51	73	4	166	40	17	17	23	1.91
39242310--39242496	93	2.0	93	97	0	356	46	13	21	18	1.83
39248243--39248296	12	4.4	12	80	2	54	62	0	35	1	1.06
39248264--39248292	14	2.0	15	93	6	51	62	0	34	3	1.12
39263237--39263265	6	4.8	6	100	0	58	51	17	0	31	1.45
39263841--39263915	11	6.5	11	72	11	53	5	26	0	68	1.11
39264286--39264332	21	2.2	22	96	3	87	44	27	0	27	1.55
39264443--39264499	7	8.4	7	80	7	73	15	24	24	35	1.95
39264444--39264505	20	3.1	20	92	0	106	17	24	20	37	1.94
39264447--39264502	27	2.1	27	86	6	78	19	26	21	32	1.97
39265550--39265579	3	10.3	3	92	7	53	30	0	0	70	0.88
39270326--39270369	20	2.2	20	100	0	88	29	4	36	29	1.77
39270594--39270661	21	3.2	21	89	2	109	44	30	0	25	1.54
39270645--39270674	15	2.0	15	93	0	51	43	33	3	20	1.68
39270711--39270758	10	4.7	10	78	2	51	16	25	31	27	1.97
39270729--39270778	21	2.4	21	86	0	64	18	26	28	28	1.98
39270766--39270831	7	9.7	7	83	6	73	16	25	22	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39270773--39270834	20	3.1	20	90	0	97	14	24	22	38	1.91
39270766--39270831	27	2.4	27	82	5	71	16	25	22	34	1.95
39272976--39273169	76	2.6	76	85	2	257	32	21	23	22	1.98
39273050--39273176	40	3.3	39	74	8	134	31	20	23	24	1.98
39272992--39273251	76	3.4	75	82	4	256	33	21	21	23	1.97
39276940--39277053	27	4.2	27	89	0	156	24	16	21	37	1.93
39277062--39277124	28	2.2	28	88	0	90	25	14	22	38	1.92
39277303--39277344	18	2.3	18	100	0	84	30	19	14	35	1.91
39280765--39280808	9	4.9	9	80	8	54	2	15	0	81	0.78
39280762--39280808	18	2.6	18	86	0	67	2	14	0	82	0.75
39280761--39280811	21	2.4	21	87	6	68	1	13	0	84	0.71
39280761--39280811	27	1.9	26	88	11	77	1	13	0	84	0.71
39281387--39281427	19	2.2	18	95	4	73	65	12	9	12	1.46
39287601--39288171	282	2.0	283	95	2	1040	39	22	9	29	1.85
39295485--39295515	15	2.1	15	93	0	53	25	25	0	48	1.52
39296235--39296298	21	3.0	22	77	13	62	34	25	15	25	1.95
39298863--39298901	3	13.3	3	94	5	71	69	0	0	30	0.89
39299951--39299982	13	2.4	14	94	5	57	37	21	25	15	1.93
39299993--39300037	10	4.4	10	80	2	54	26	31	24	17	1.97
39300090--39300144	21	2.6	21	94	0	92	25	0	27	47	1.52
39300525--39300599	11	6.5	11	73	14	62	69	0	25	5	1.09
39300525--39300597	23	3.1	23	75	11	67	69	0	24	5	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39301177--39301267	42	2.2	42	81	0	110	30	26	14	28	1.95
39301625--39301765	53	2.6	53	90	1	228	34	21	15	27	1.94
39305734--39305811	29	2.7	29	76	9	86	41	2	15	41	1.61
39309620--39309663	3	14.7	3	100	0	88	68	0	0	31	0.90
39312298--39312348	14	3.8	14	74	10	52	29	21	27	21	1.99
39312299--39312367	26	2.7	26	86	2	86	31	20	26	21	1.98
39314311--39314380	31	2.3	29	79	13	79	35	5	11	47	1.64
39314512--39314547	18	2.1	18	89	5	56	72	2	0	25	0.98
39316790--39317121	163	2.0	163	94	0	592	31	20	16	31	1.95
39319973--39320018	18	2.6	18	89	3	67	43	2	4	50	1.34
39320653--39320705	20	2.7	19	77	8	61	52	1	0	45	1.11
39322425--39322470	14	3.4	14	75	6	58	6	10	6	76	1.16
39336237--39336438	79	2.5	81	80	4	214	22	21	22	32	1.98
39338600--39338818	109	2.0	109	100	0	438	36	12	20	31	1.90
39339225--39339318	22	4.1	23	86	9	122	11	26	24	37	1.90
39343397--39343544	80	1.9	80	94	2	262	24	22	25	27	2.00
39344262--39344455	93	2.1	93	100	0	388	23	8	26	41	1.83
39348540--39348588	22	2.2	22	92	0	80	20	16	36	26	1.93
39356289--39356475	52	3.6	52	87	2	259	26	13	25	34	1.93
39357430--39357458	14	2.0	15	93	6	51	48	10	20	20	1.79
39359047--39359140	47	2.0	47	93	0	161	22	14	26	36	1.93
39369909--39370135	11	19.4	11	66	15	82	36	13	1	48	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39369909--39370108	6	35.5	6	72	15	54	37	13	1	48	1.51
39369909--39370063	60	2.6	60	94	4	285	38	12	1	47	1.49
39370119--39370258	41	3.7	41	74	20	149	30	8	5	55	1.54
39381181--39381206	12	2.2	12	100	0	52	30	15	7	46	1.74
39382032--39382108	31	2.5	30	78	6	82	42	1	5	50	1.32
39385384--39385425	20	2.0	21	90	4	68	11	11	23	52	1.71
39389667--39389717	19	2.8	18	77	13	52	19	3	5	70	1.24
39391824--39391902	29	2.7	29	79	13	81	34	6	12	46	1.67
39396137--39396186	22	2.4	21	81	15	59	28	10	6	56	1.56
39396222--39396254	16	2.0	17	88	5	50	30	3	18	48	1.63
39398172--39398236	22	3.0	21	81	16	80	72	6	4	16	1.22
39398324--39398370	25	1.9	25	86	4	69	63	4	8	23	1.40
39398891--39398971	32	2.6	31	76	9	83	28	14	12	44	1.82
39399196--39399365	59	2.9	60	81	2	175	50	12	12	24	1.74
39399521--39399559	19	2.2	17	86	13	53	33	5	7	53	1.51
39405555--39405589	11	3.1	12	88	12	56	34	0	0	65	0.93
39405705--39405769	30	2.2	30	91	0	103	60	13	1	24	1.43
39409359--39409391	17	1.9	17	100	0	66	51	12	18	18	1.76
39410919--39410961	21	2.0	22	86	4	61	2	18	2	76	1.00
39411546--39411584	18	2.2	18	85	0	51	58	10	12	17	1.61
39425271--39425300	13	2.3	13	94	0	51	80	0	20	0	0.72
39425246--39425303	20	3.0	19	80	9	64	81	0	13	5	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39433673--39433705	13	2.5	13	90	9	50	72	0	3	24	0.98
39443307--39443426	42	2.9	42	81	6	127	54	14	10	20	1.70
39453573--39453618	7	6.7	7	82	5	58	36	26	21	15	1.93
39453570--39453611	20	2.1	20	95	0	75	40	23	21	14	1.90
39453699--39453728	15	2.0	15	93	0	51	20	3	33	43	1.68
39454128--39454202	11	6.5	11	73	14	62	69	0	25	5	1.09
39454128--39454200	23	3.1	23	75	11	67	69	0	24	5	1.09
39456248--39456345	48	2.0	48	98	0	187	29	34	12	23	1.91
39460705--39460746	20	2.1	20	100	0	84	42	23	19	14	1.87
39460834--39460863	15	2.0	15	93	0	51	20	3	33	43	1.68

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