genome.fa.s12.2.7.7.80.10.50.1000.43.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  43  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)
11601725--11601855	21	6.1	21	70	20	76	16	2	4	76	1.06
11601725--11601763	10	3.9	10	93	6	62	17	0	0	82	0.68
11601725--11601857	11	11.9	10	69	22	70	16	2	4	76	1.05
11601805--11601855	10	5.4	9	79	13	50	9	3	3	82	0.93
11601781--11601857	24	3.1	23	72	18	66	12	2	5	79	1.01
11604132--11604181	21	2.4	21	96	0	91	34	14	14	38	1.85
11605301--11605339	14	2.8	14	88	11	62	43	0	7	48	1.31
11605301--11605339	9	4.2	9	81	18	53	43	0	7	48	1.31
11609720--11609779	3	20.0	3	96	0	111	66	1	0	31	1.01
11609937--11609997	20	2.7	24	71	26	60	63	1	6	27	1.28
11609984--11610064	42	1.9	43	82	7	103	64	4	3	27	1.31
11610929--11610962	13	2.8	13	91	8	54	79	5	8	5	1.05
11613871--11613908	18	2.1	18	85	9	51	21	0	0	78	0.74
11613882--11613908	6	4.5	6	100	0	54	18	0	0	81	0.69
11629130--11629174	21	2.1	21	100	0	90	44	8	6	40	1.62
11629179--11629215	16	2.4	16	86	4	58	86	13	0	0	0.57
11629179--11629215	10	3.5	11	85	10	51	86	13	0	0	0.57
11630408--11630523	46	2.6	44	80	2	115	29	20	19	30	1.97
11630454--11631315	131	6.6	131	79	8	717	29	19	22	28	1.98
11630404--11631217	219	3.7	220	80	7	921	29	18	22	28	1.98
11630578--11631315	175	4.2	175	79	8	831	29	19	22	28	1.98
11630454--11631217	44	17.5	44	68	14	352	29	18	22	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11631019--11631314	87	3.4	86	72	15	266	29	20	21	28	1.98
11633184--11633221	2	19.0	2	88	0	58	47	2	0	50	1.15
11640614--11640651	17	2.2	18	85	4	51	55	0	0	44	0.99
11641219--11641279	29	2.1	28	81	3	68	27	14	14	42	1.85
11641497--11641720	122	1.8	122	94	1	396	29	16	22	31	1.96
11643092--11643118	10	2.7	10	100	0	54	51	0	7	40	1.30
11643102--11643228	56	2.3	55	86	9	170	48	5	8	37	1.57
11643140--11643174	18	1.9	18	94	0	61	51	2	8	37	1.47
11643230--11643342	28	4.0	28	94	4	201	23	0	30	46	1.53
11643320--11643555	18	14.7	18	67	22	152	28	0	24	47	1.53
11643292--11643548	47	5.5	47	91	2	412	28	0	25	46	1.53
11643551--11643614	25	2.5	26	87	2	103	37	12	1	48	1.51
11644022--11644056	18	1.9	18	88	0	52	31	8	34	25	1.86
11644691--11644715	7	3.6	7	100	0	50	60	12	0	28	1.32
11645652--11645714	31	2.0	32	96	3	119	31	9	15	42	1.79
11646016--11646050	4	9.0	4	93	6	63	25	0	0	74	0.82
11646267--11646332	15	4.4	16	70	12	50	77	10	10	1	1.07
11646266--11646332	22	3.1	21	74	19	66	77	10	10	1	1.06
11646276--11646346	30	2.4	30	84	13	85	73	11	14	1	1.17
11650941--11651036	31	3.1	31	92	5	158	32	9	13	44	1.76
11650951--11651037	32	2.8	32	96	1	158	29	10	13	45	1.77
11651338--11651396	29	2.1	27	81	12	66	23	6	1	67	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11663019--11663056	19	1.9	20	89	10	60	28	0	2	68	1.03
11670089--11670317	113	2.0	113	95	0	413	32	15	25	26	1.95
11674433--11674493	31	2.0	32	83	6	81	31	1	1	65	1.12
11675803--11675837	18	1.9	18	88	0	52	40	42	8	8	1.66
11676300--11676466	59	2.8	59	91	1	255	32	6	8	52	1.58
11679586--11680038	156	2.9	156	87	1	651	30	20	14	35	1.92
11679586--11680064	154	3.1	154	85	2	640	30	20	14	35	1.92
11681819--11681869	22	2.3	22	100	0	102	27	33	0	39	1.57
11683713--11683752	18	2.2	18	90	0	62	25	30	5	40	1.77
11684177--11684296	25	5.0	25	75	15	128	40	0	15	45	1.46
11684164--11684317	70	2.2	69	87	8	233	37	0	14	48	1.44
11684365--11684979	23	25.6	23	84	8	780	50	20	4	24	1.65
11684976--11685007	16	1.9	17	93	6	57	43	37	0	18	1.51
11685009--11685224	115	1.9	115	92	4	364	39	10	8	41	1.69
11688269--11688634	124	2.9	125	90	1	581	34	22	15	28	1.94
11689216--11689287	22	3.3	22	94	0	117	25	27	16	30	1.97
11692188--11692269	40	2.0	40	100	0	164	42	9	15	31	1.80
11694588--11694645	22	2.9	20	73	21	59	51	1	5	41	1.34
11694665--11694705	20	2.0	20	85	0	55	46	0	0	53	1.00
11694815--11694852	13	2.7	15	88	12	62	60	0	10	28	1.30
11697593--11697623	9	3.4	9	90	0	53	38	22	12	25	1.90
11697937--11697975	21	1.9	20	89	5	60	25	7	2	64	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11698961--11699182	43	5.2	43	91	0	354	20	29	22	27	1.98
11699688--11699749	25	2.4	26	89	2	90	40	1	14	43	1.55
11699688--11699759	17	4.2	17	72	13	58	40	1	13	44	1.53
11699852--11699911	17	3.5	17	75	8	59	36	1	16	45	1.58
11699855--11700037	38	5.3	36	69	22	115	34	1	17	46	1.55
11699879--11700037	46	3.3	46	70	17	149	34	0	17	47	1.53
11699855--11699911	9	6.8	8	76	7	51	33	1	17	47	1.58
11699885--11699940	17	3.1	17	74	18	58	37	0	14	48	1.44
11700651--11700697	21	2.2	21	84	0	58	46	0	12	40	1.42
11702392--11702451	31	1.9	31	96	0	111	33	23	15	28	1.94
11703607--11703648	17	2.7	15	80	16	50	30	0	2	66	1.04
11703612--11703654	17	2.5	17	92	3	68	25	0	2	72	0.97
11703863--11703918	23	2.5	23	82	2	69	30	41	3	25	1.72
11703938--11703968	15	2.1	15	93	0	53	35	45	0	19	1.51
11704216--11704545	114	2.9	114	92	1	529	25	27	23	24	2.00
11704811--11704849	21	1.9	20	89	5	60	25	7	2	64	1.33
11705268--11705357	33	2.6	35	77	15	89	55	0	0	44	0.99
11706205--11706229	4	6.2	4	100	0	50	24	24	0	52	1.48
11708460--11708511	19	2.7	19	93	0	86	46	1	19	32	1.61
11708460--11708511	10	5.4	10	75	15	56	46	1	19	32	1.61
11714551--11714599	18	3.1	15	78	18	55	26	4	2	67	1.19
11718516--11718653	25	5.6	24	76	4	114	16	26	18	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11718538--11718678	25	5.8	24	72	13	76	15	26	19	38	1.91
11718694--11718753	25	2.4	25	85	0	84	25	23	20	31	1.98
11720938--11720980	22	2.0	22	90	4	70	53	20	0	25	1.46
11737849--11737949	22	4.6	23	70	16	70	16	12	18	51	1.76
11740164--11740546	64	5.9	64	72	14	291	36	14	14	35	1.86
11740163--11740631	64	7.2	64	69	16	246	35	14	14	35	1.87
11740162--11740639	131	3.7	130	84	2	618	35	14	14	35	1.87
11749400--11749433	17	1.9	18	88	5	52	47	11	8	32	1.71
11760869--11760917	20	2.4	20	93	3	80	38	16	0	44	1.48
11762713--11762825	59	1.9	59	94	0	199	61	8	8	20	1.51
11764357--11764488	66	2.0	66	91	2	212	40	20	9	29	1.85
11766003--11766027	13	1.9	13	100	0	50	80	0	4	16	0.87
11766527--11766568	6	7.2	6	78	5	50	2	2	16	78	0.96
11772116--11772162	23	2.0	23	91	0	76	42	4	10	42	1.59
11773187--11773278	22	4.0	22	83	6	121	17	27	18	36	1.93
11773187--11773278	44	2.0	46	89	6	143	17	27	18	36	1.93
11778699--11778753	26	2.1	26	100	0	110	29	7	23	40	1.81
11779535--11779581	23	2.0	23	91	0	76	42	4	10	42	1.59
11779698--11779731	17	2.1	16	88	5	50	67	0	32	0	0.91
11780966--11781017	15	3.2	18	79	15	51	26	9	0	63	1.25
11782284--11782318	16	2.2	16	89	0	52	17	17	22	42	1.88
11784929--11784964	12	3.0	12	87	0	54	75	0	19	5	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11784921--11784961	18	2.4	17	87	4	64	75	0	21	2	0.92
11787190--11788002	45	18.1	45	87	0	1054	28	15	24	30	1.96
11788053--11788265	44	4.8	44	69	6	126	30	17	25	27	1.97
11788010--11788413	132	3.1	132	89	1	587	29	19	24	26	1.98
11788510--11788622	44	2.6	44	80	5	122	25	17	24	31	1.97
11790308--11790442	25	5.6	24	83	7	143	18	24	18	38	1.93
11790320--11790436	22	5.0	22	80	7	117	17	24	18	38	1.93
11791383--11791470	26	3.4	26	73	4	88	27	22	15	34	1.95
11791445--11791681	28	8.5	28	73	6	155	30	18	18	31	1.96
11791511--11791669	84	1.9	84	79	7	180	30	18	20	30	1.97

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