genome.fa.s4.2.7.7.80.10.50.1000.100.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  100  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)
32236105--32236165	3	21.7	3	76	21	53	0	27	1	70	0.97
32240307--32240423	48	2.4	47	84	7	128	39	17	6	35	1.77
32240350--32240423	24	3.0	26	72	20	86	37	20	5	36	1.76
32240396--32240498	10	9.8	10	71	16	75	40	21	1	35	1.64
32240410--32240513	31	3.2	34	76	15	137	40	20	1	37	1.63
32240350--32240612	123	2.2	123	84	6	324	38	19	4	38	1.71
32240350--32240612	59	4.4	60	84	6	318	38	19	4	38	1.71
32240396--32240497	31	3.2	31	76	15	127	41	21	1	35	1.65
32240578--32240624	10	4.8	10	76	12	53	38	19	2	40	1.63
32241042--32241228	36	5.2	36	85	0	248	35	21	10	32	1.87
32242121--32242174	20	2.7	20	91	0	81	29	35	9	25	1.87
32250247--32250315	29	2.3	29	80	2	75	44	7	0	47	1.30
32250272--32250316	15	3.1	15	81	15	58	44	6	0	48	1.29
32255616--32255664	25	2.0	25	87	0	71	22	22	22	32	1.98
32256319--32256367	21	2.3	21	82	6	64	26	14	24	34	1.94
32278371--32278404	18	1.9	18	94	5	61	64	5	11	17	1.45
32292045--32292077	14	2.3	15	94	5	59	54	12	27	6	1.60
32292488--32292531	18	2.5	18	88	3	63	15	11	13	59	1.62
32304302--32304358	30	1.9	30	86	13	82	49	5	0	45	1.24
32305059--32305117	13	4.6	13	91	2	93	30	1	11	55	1.46
32307791--32307832	10	4.3	10	87	3	50	35	33	0	30	1.58
32308003--32308041	15	2.5	16	84	16	55	43	5	2	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32316067--32316096	2	15.0	2	100	0	60	50	0	0	50	1.00
32331275--32331317	2	22.0	2	95	4	79	48	0	0	51	1.00
32340572--32340622	20	2.4	22	77	12	61	37	5	17	39	1.74
32340958--32341021	22	2.9	22	82	13	62	12	10	14	62	1.55
32344999--32345054	29	1.9	29	88	0	85	23	16	10	50	1.76
32345160--32345205	8	5.8	8	87	7	67	10	13	0	76	1.03
32345175--32345224	18	2.8	18	82	17	52	10	16	0	74	1.08
32348075--32348191	28	4.4	28	73	17	104	21	20	14	43	1.87
32348128--32348191	27	2.3	27	84	10	85	21	17	18	42	1.89
32348039--32348230	78	2.5	78	80	0	233	20	21	13	43	1.86
32348971--32348995	12	2.1	12	100	0	50	36	16	0	48	1.46
32349846--32349931	17	5.1	17	83	5	111	39	1	4	54	1.29
32349851--32349917	6	11.7	6	70	20	54	40	1	4	53	1.30
32351336--32351364	10	2.9	10	100	0	58	20	51	20	6	1.70
32351416--32351479	32	2.0	33	90	3	103	18	15	7	57	1.62
32351508--32351873	162	2.3	161	90	4	562	24	18	13	42	1.87
32351943--32352150	29	7.2	30	69	23	115	31	29	4	34	1.78
32351916--32352150	58	4.1	58	88	4	330	31	28	4	34	1.78
32354603--32354734	37	3.6	37	85	3	185	39	30	18	12	1.87
32363668--32363753	20	4.3	19	79	7	82	48	12	4	33	1.62
32363668--32363752	40	2.1	39	83	12	102	48	12	4	34	1.63
32365129--32365167	18	2.0	18	85	14	51	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32369750--32369785	18	1.9	19	88	5	56	58	0	0	41	0.98
32373148--32373225	24	3.6	24	68	26	66	56	3	2	37	1.31
32373157--32373202	17	2.6	18	86	10	60	54	2	2	41	1.25
32373149--32373228	41	2.1	37	84	13	99	56	3	2	37	1.31
32373157--32373229	18	3.9	18	73	25	53	56	4	1	38	1.27
32377039--32377083	22	2.0	22	100	0	90	44	8	17	28	1.79
32378685--32378849	42	4.0	39	79	10	143	40	18	24	16	1.91
32378602--32378772	90	1.9	90	85	2	236	39	20	23	16	1.92
32378685--32378808	40	3.1	39	83	11	142	38	20	25	15	1.92
32378731--32378849	40	2.9	41	77	9	107	42	14	24	18	1.87
32378514--32378844	172	1.9	173	80	3	389	40	17	23	18	1.90
32379095--32379119	12	2.1	12	100	0	50	64	0	8	28	1.22
32383462--32383497	2	18.0	2	100	0	72	50	0	0	50	1.00
32384242--32384335	34	3.0	33	79	14	94	51	8	0	40	1.33
32384246--32384312	26	2.5	26	92	2	107	50	7	0	41	1.30
32386115--32386152	18	2.1	18	100	0	76	28	10	23	36	1.88
32386747--32386881	43	3.2	43	79	6	125	28	17	25	28	1.98
32386823--32386922	39	2.4	41	86	6	132	27	22	21	30	1.98
32422472--32422554	29	2.7	30	78	12	80	34	7	12	45	1.69
32422731--32422791	31	2.0	31	87	6	90	44	11	9	34	1.74
32422731--32422794	29	2.2	28	83	10	76	43	10	9	35	1.72
32424108--32424159	23	2.2	24	74	19	56	32	3	3	59	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32437766--32437879	61	1.9	61	87	5	151	31	10	27	30	1.90
32437766--32437898	31	4.5	30	87	6	173	32	9	27	31	1.88
32437765--32438163	29	13.5	30	79	11	187	34	4	25	35	1.76
32437856--32438171	29	10.7	29	79	9	281	36	1	24	37	1.67
32437880--32438176	59	5.1	57	77	13	261	36	2	25	36	1.68
32440076--32440110	17	2.1	17	94	0	61	57	2	0	40	1.14
32440071--32440117	23	2.0	24	91	4	78	57	2	0	40	1.11
32440071--32440115	6	7.5	6	80	9	56	57	2	0	40	1.11
32440512--32440890	172	2.2	172	87	0	562	23	23	16	35	1.95
32440855--32440928	37	2.0	37	91	0	121	22	24	17	35	1.95
32440694--32441081	209	1.9	209	87	3	575	22	23	17	36	1.95
32443468--32443512	23	2.0	23	100	0	90	20	26	8	44	1.80
32448588--32448633	23	2.0	24	82	4	58	43	10	21	23	1.84
32452578--32452826	29	8.4	28	71	17	148	36	3	23	36	1.71
32452578--32452797	59	3.7	57	81	12	225	35	2	24	37	1.70
32452690--32452858	89	1.9	89	84	9	229	39	3	21	35	1.71
32452635--32452879	30	8.2	29	68	13	70	38	2	22	35	1.69
32457400--32457454	20	2.7	19	81	15	58	43	0	14	41	1.45
32472206--32472563	176	2.0	177	95	2	648	44	2	4	47	1.38
32475777--32475807	3	10.3	3	92	0	53	32	0	3	64	1.09
32478158--32478185	2	14.0	2	100	0	56	50	0	0	50	1.00
32478838--32478870	15	2.2	15	94	0	57	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)
32482378--32482416	21	1.9	20	89	5	60	58	5	17	17	1.56
32482670--32482740	19	3.6	19	71	14	54	54	12	14	18	1.70
32482805--32482862	20	3.0	20	75	14	66	62	3	15	18	1.47
32482805--32482861	19	2.9	19	71	21	55	61	3	15	19	1.48
32483559--32483729	40	4.3	40	72	15	122	56	11	16	15	1.67
32483560--32483689	20	6.6	20	68	15	74	57	10	16	15	1.64
32483582--32483729	78	1.9	78	81	5	183	55	11	16	16	1.69
32494329--32494367	19	2.1	19	85	4	53	41	0	2	56	1.13
32501364--32501391	13	2.2	13	100	0	56	32	7	7	53	1.55
32505129--32505171	17	2.5	16	82	14	50	55	2	20	20	1.54
32522660--32522708	21	2.3	22	85	3	64	42	0	2	55	1.11
32527082--32527265	76	2.4	75	82	8	210	34	23	15	25	1.95
32527082--32527302	25	8.6	25	82	5	183	35	24	15	24	1.94
32527202--32527306	27	4.0	27	84	7	117	36	26	14	22	1.93
32527501--32527592	46	2.0	46	100	0	184	32	19	19	28	1.96
32531183--32531235	21	2.5	21	100	0	106	33	24	9	32	1.87
32531810--32531889	25	3.2	25	85	3	99	32	23	18	25	1.97
32538755--32538853	25	3.9	25	84	10	121	33	27	18	21	1.96
32540621--32541196	291	2.0	291	98	0	1107	38	21	15	25	1.92
32541236--32541291	26	2.2	26	83	6	69	30	26	19	23	1.98
32541279--32541433	27	5.8	27	84	4	190	34	24	16	25	1.95
32543146--32543212	27	2.5	27	78	4	73	17	26	17	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32543166--32543224	27	2.2	27	81	0	64	20	28	18	32	1.96
32546318--32546479	29	5.5	29	66	27	83	35	3	29	32	1.73
32546253--32546490	58	4.1	58	82	7	250	37	3	28	30	1.73
32546344--32546490	29	5.1	29	68	25	105	35	3	31	29	1.74
32547049--32547106	29	2.0	29	86	0	80	17	37	31	13	1.89
32548377--32548492	6	20.0	6	72	13	82	49	2	2	45	1.29
32548377--32548492	17	6.4	17	69	18	81	49	2	2	45	1.29
32548377--32548434	23	2.4	25	80	11	68	46	1	3	48	1.29
32548962--32549001	19	2.1	19	86	9	55	52	0	0	47	1.00
32548968--32549022	13	4.2	13	74	4	56	54	1	0	43	1.10

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