genome.fa.s12.2.7.7.80.10.50.1000.20.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  20  of  120  ( 14336 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)
6133641--6133769	29	4.6	29	69	13	83	57	23	0	19	1.41
6133585--6133714	7	18.7	7	72	16	58	55	23	1	19	1.52
6133547--6133739	14	13.9	13	71	16	54	53	24	1	20	1.52
6133607--6133896	41	6.9	40	70	16	162	53	25	0	20	1.48
6133816--6133885	7	10.1	7	81	3	52	51	30	0	18	1.47
6133832--6133896	14	4.8	13	78	10	60	56	26	0	16	1.40
6133818--6133896	21	3.9	20	79	12	72	55	26	0	17	1.42
6133936--6134145	7	31.7	7	69	20	55	53	21	0	25	1.46
6133984--6134131	13	11.2	13	77	14	108	51	24	0	24	1.49
6133922--6134086	33	5.0	32	77	8	125	52	23	0	23	1.47
6133581--6134151	20	28.1	20	68	16	124	52	23	0	22	1.50
6134334--6134375	21	2.0	21	85	0	57	52	11	4	30	1.59
6134523--6134589	20	3.3	20	81	4	64	47	29	0	22	1.51
6134357--6134610	122	2.1	121	84	3	323	50	25	1	23	1.56
6134566--6134673	28	3.9	27	68	15	69	53	23	0	23	1.46
6134736--6134760	7	3.6	7	100	0	50	60	0	0	40	0.97
6134722--6134782	14	4.3	15	76	19	60	49	16	0	34	1.46
6134905--6134976	7	10.0	7	73	16	58	50	23	0	26	1.50
6134936--6134989	20	2.7	19	71	20	56	53	22	0	24	1.46
6134905--6135085	14	12.5	14	67	19	52	52	22	0	24	1.51
6134979--6135092	21	5.5	20	75	9	86	55	21	0	21	1.49
6134932--6135085	41	3.8	41	76	7	100	53	22	0	23	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6134985--6135085	20	4.9	20	77	10	80	54	20	0	23	1.51
6135013--6135093	14	5.9	14	73	9	60	53	23	0	23	1.47
6135109--6135169	21	3.0	20	74	11	61	54	26	0	19	1.45
6135208--6135237	13	2.3	13	94	0	51	60	23	3	13	1.48
6135261--6135481	80	2.8	80	78	6	193	52	22	0	24	1.51
6135305--6135481	40	4.4	40	88	3	234	53	20	0	25	1.46
6135341--6135443	13	7.8	13	69	20	61	52	19	0	28	1.46
6135306--6135500	20	9.8	20	70	11	96	52	21	0	25	1.50
6135664--6135705	21	2.0	21	85	0	57	52	11	4	30	1.59
6135741--6135772	7	4.6	7	96	0	55	59	9	3	28	1.44
6135686--6135840	21	7.6	20	70	9	91	52	21	1	25	1.55
6135788--6135879	48	1.9	48	88	4	141	56	25	0	18	1.42
6135913--6135962	14	3.6	14	76	12	50	56	18	0	26	1.42
6136013--6136064	20	2.6	19	75	19	52	55	23	0	21	1.43
6136005--6136070	14	4.9	14	73	17	50	54	25	0	19	1.44
6136209--6136277	15	4.7	15	75	20	56	49	24	0	26	1.51
6136342--6136421	20	4.0	20	76	12	74	53	23	0	22	1.46
6136331--6136433	14	7.5	14	66	12	52	53	25	0	21	1.46
6136362--6136433	28	2.6	27	78	10	83	54	25	0	20	1.45
6136577--6136693	27	4.4	27	70	14	71	48	29	1	19	1.59
6136621--6136671	7	7.4	7	88	4	77	47	39	0	13	1.43
6136621--6136667	20	2.3	21	96	3	87	48	38	0	12	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6136656--6136783	40	3.3	40	82	3	145	50	24	1	24	1.58
6136635--6136802	20	8.6	20	69	11	71	50	26	1	21	1.56
6136825--6136892	28	2.4	28	80	4	75	55	25	0	19	1.43
6136940--6136999	21	2.9	21	75	7	61	53	13	3	30	1.56
6137251--6137327	14	5.6	14	73	11	61	53	25	0	20	1.46
6136210--6138205	989	2.0	984	88	5	2948	51	25	1	21	1.54
6137256--6137293	20	1.9	20	88	0	58	52	21	0	26	1.47
6137255--6137327	27	2.7	26	77	8	74	53	24	0	21	1.46
6137337--6137410	20	3.7	20	72	13	62	55	24	0	20	1.43
6137337--6137496	20	7.6	20	65	22	60	56	25	0	18	1.42
6137566--6137781	7	31.3	7	71	7	120	50	31	0	17	1.52
6137592--6137886	27	10.4	27	68	18	127	51	29	0	18	1.51
6137729--6137806	21	3.8	22	79	14	87	56	26	0	16	1.41
6137841--6137886	14	3.3	14	79	11	58	50	23	0	26	1.50
6137971--6138020	21	2.4	21	75	0	55	54	18	4	24	1.61
6138286--6138336	20	2.5	21	76	17	63	54	27	0	17	1.43
6138284--6138342	13	4.4	14	72	21	54	54	27	0	18	1.44
6138359--6138383	7	3.6	7	100	0	50	60	0	0	40	0.97
6138373--6138450	27	2.9	28	74	16	74	52	25	0	21	1.47
6138604--6138659	20	2.8	20	83	2	67	53	23	1	21	1.55
6138614--6138697	13	6.1	13	72	20	55	54	22	0	22	1.45
6138784--6138837	7	7.6	7	81	8	56	46	35	0	18	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6138841--6138875	13	2.6	14	86	13	56	65	20	0	14	1.26
6139352--6139386	7	5.0	7	100	0	70	42	42	0	14	1.45
6139353--6139425	14	5.4	14	78	18	64	52	31	0	16	1.44
6139352--6139431	21	3.9	19	74	22	56	51	31	0	17	1.46
6139442--6139473	7	4.6	7	96	0	55	59	3	0	37	1.13
6139415--6139493	21	3.8	22	75	9	78	54	16	0	29	1.42
6139376--6139508	20	6.6	20	74	12	71	54	20	0	24	1.50
6139539--6139647	40	2.7	40	88	0	146	51	18	0	29	1.52
6139667--6139717	20	2.7	20	84	6	61	54	21	1	21	1.54
6140061--6140094	14	2.4	14	90	0	50	55	20	0	23	1.43
6140147--6140223	20	3.8	20	68	21	54	53	23	0	23	1.46
6140611--6140778	20	8.5	20	65	18	68	55	26	0	17	1.47
6140735--6140778	7	6.6	7	87	7	56	54	29	0	15	1.42
6140761--6140897	20	6.8	20	65	21	81	51	21	0	25	1.53
6140789--6140892	40	2.6	40	92	0	172	51	21	0	25	1.53
6140867--6140891	13	1.9	13	100	0	50	56	24	0	20	1.43
6140977--6141022	14	3.3	14	84	0	65	47	23	0	28	1.52
6140939--6141048	35	3.3	33	79	9	93	49	26	0	24	1.51
6141111--6141208	40	2.4	40	74	15	103	57	20	1	21	1.47
6141223--6141274	7	7.6	7	91	4	88	46	40	0	13	1.43
6141198--6141269	27	2.7	27	89	2	101	47	36	1	15	1.54
6141197--6141312	13	8.3	14	71	13	51	51	31	1	15	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6141282--6141323	20	2.1	20	90	0	66	52	28	2	16	1.56
6141375--6141474	41	2.4	42	75	12	98	52	26	0	22	1.48
6141568--6141610	20	2.1	21	86	4	61	53	23	0	23	1.46
6141668--6141694	7	3.9	7	100	0	54	44	40	0	14	1.46
6141771--6141814	14	3.1	14	90	0	61	52	27	0	20	1.47
6141770--6141809	7	5.7	7	90	0	62	47	30	0	22	1.52
6141923--6141986	7	9.0	7	75	10	58	45	25	0	29	1.54
6141933--6141985	27	2.0	27	84	0	70	49	22	0	28	1.50
6141968--6142060	48	1.9	48	84	0	123	53	22	2	21	1.56
6141968--6142076	48	2.3	48	80	3	112	52	24	1	21	1.57
6142436--6142483	13	3.6	13	77	5	51	50	33	2	14	1.55
6142432--6142485	27	2.0	26	85	3	72	50	29	1	18	1.58
6142664--6142742	14	5.9	14	71	22	53	50	25	1	22	1.56
6142964--6143078	48	2.4	48	80	2	133	53	23	1	21	1.56
6143012--6143078	21	3.2	21	75	8	66	53	23	0	22	1.46
6143448--6143487	7	5.9	7	82	5	55	55	32	0	12	1.38
6143452--6143487	13	2.6	14	86	8	56	52	33	0	13	1.41
6143671--6143736	14	4.9	14	67	20	50	53	28	1	16	1.52
6143925--6144107	83	2.2	83	97	0	341	53	23	2	21	1.57
6143932--6144058	27	4.6	27	72	11	123	53	22	1	22	1.54
6143932--6144107	27	6.4	27	69	12	117	53	23	2	21	1.57
6144041--6144155	48	2.4	48	82	5	135	53	22	1	21	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6144082--6144133	27	1.9	27	88	7	79	55	17	1	25	1.52
6144355--6144414	21	2.9	21	74	18	54	53	28	1	16	1.53
6144527--6144566	7	5.9	7	82	5	55	52	35	0	12	1.39
6144531--6144566	13	2.6	14	91	8	65	50	36	0	13	1.43
6144517--6144565	13	3.7	13	83	5	62	48	36	2	12	1.52
6144513--6144566	27	2.0	26	85	3	72	50	33	1	14	1.54
6144976--6145035	21	2.9	21	74	18	54	53	28	1	16	1.53
6145372--6145457	13	6.4	14	68	17	56	51	27	1	19	1.55
6145659--6145751	48	1.9	48	82	0	114	55	20	2	21	1.53
6145708--6145778	28	2.5	28	78	13	74	56	21	0	22	1.42

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