genome.fa.s12.2.7.7.80.10.50.1000.35.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  35  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)
9495431--9495475	21	2.1	22	87	4	65	62	2	2	33	1.20
9496319--9496362	22	2.0	22	81	0	52	65	13	9	11	1.46
9511341--9511379	20	2.0	20	85	9	55	33	0	2	64	1.08
9513587--9513612	4	6.5	4	100	0	52	76	0	23	0	0.78
9515129--9515218	15	6.0	15	86	0	126	26	25	33	14	1.94
9518036--9518093	9	6.4	9	93	0	80	41	25	8	24	1.83
9518036--9518093	18	3.2	18	90	0	89	41	25	8	24	1.83
9518206--9518248	18	2.4	18	88	0	59	11	2	44	41	1.53
9519499--9519547	14	3.6	14	76	15	57	28	32	18	20	1.96
9519496--9519607	29	3.9	29	85	2	147	22	27	26	23	1.99
9527358--9527415	30	1.9	30	85	0	80	13	31	32	22	1.93
9529239--9529292	6	8.7	6	76	15	56	77	5	3	12	1.07
9529441--9529512	18	3.7	18	77	16	72	69	1	4	25	1.14
9541111--9541358	48	5.0	48	68	12	158	38	18	18	24	1.93
9542800--9542837	18	2.1	18	95	0	67	23	39	28	7	1.83
9547024--9547060	9	4.1	9	89	0	56	48	13	8	29	1.71
9549500--9549548	23	2.1	23	84	0	62	10	14	14	61	1.57
9554864--9554900	19	1.9	20	88	5	58	40	0	16	43	1.48
9555958--9556067	40	2.8	40	78	1	105	43	24	16	15	1.86
9556049--9556109	21	2.9	21	82	0	77	40	16	22	19	1.90
9558763--9558805	14	2.9	15	89	6	61	51	0	4	44	1.22
9558766--9558805	16	2.5	16	91	0	62	50	0	5	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9558940--9558993	3	17.0	3	84	7	63	61	1	7	29	1.34
9558939--9558990	18	2.9	18	85	5	70	61	1	7	28	1.34
9562878--9562980	23	4.8	21	80	12	111	35	22	21	20	1.96
9562878--9562980	44	2.4	42	81	14	120	35	22	21	20	1.96
9563176--9563272	36	2.6	37	80	11	92	31	23	1	43	1.61
9563325--9563356	16	1.9	17	93	6	57	25	21	0	53	1.46
9569451--9569485	16	2.2	16	90	10	54	28	17	2	51	1.59
9573291--9573423	66	2.0	66	89	0	203	25	21	14	39	1.91
9579054--9579330	93	3.0	93	92	0	437	28	23	20	27	1.99
9580657--9580856	81	2.5	81	80	3	215	37	27	17	18	1.93
9580878--9581000	27	4.6	26	70	11	72	27	26	17	27	1.98
9585154--9585198	16	2.8	16	82	0	54	46	2	24	26	1.64
9585154--9585205	16	3.2	16	80	0	50	46	1	21	30	1.62
9585721--9585856	69	2.0	68	95	1	245	41	13	9	35	1.77
9590315--9590369	9	6.1	9	84	0	74	14	40	10	34	1.81
9592843--9592910	13	5.2	13	79	13	77	57	2	4	35	1.34
9592725--9593388	182	3.6	182	99	0	1292	46	8	8	37	1.64
9593025--9593092	13	5.2	13	79	13	77	57	2	4	35	1.34
9593207--9593274	13	5.2	13	79	13	77	57	2	4	35	1.34
9593930--9593967	11	3.4	11	85	7	58	57	7	10	23	1.58
9596378--9596423	21	2.2	21	92	0	74	30	39	8	21	1.84
9610421--9610491	31	2.2	34	83	14	89	40	0	28	30	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9617729--9617775	20	2.2	21	77	11	51	70	6	2	21	1.20
9620878--9620907	3	10.0	3	100	0	60	0	33	0	66	0.92
9622523--9622633	20	5.6	20	67	8	73	36	18	21	22	1.95
9622521--9622631	40	2.8	40	81	0	141	36	18	21	22	1.95
9625292--9625746	31	14.7	31	86	3	569	29	9	18	43	1.80
9625292--9625746	61	7.4	61	88	2	567	29	9	18	43	1.80
9625292--9625746	92	4.9	93	87	1	612	29	9	18	43	1.80
9630582--9630680	43	2.3	43	87	0	144	20	25	30	24	1.99
9630687--9631065	43	8.8	43	69	14	187	29	27	17	26	1.97
9630687--9631045	129	2.8	129	83	7	424	28	26	17	27	1.98
9633533--9633638	24	4.5	24	67	18	71	50	4	6	37	1.49
9633487--9633654	70	2.4	70	94	2	293	50	5	5	39	1.48
9635071--9635110	12	3.3	12	83	13	55	57	12	7	22	1.60
9635459--9635518	23	2.6	23	89	2	84	20	1	46	31	1.60
9640707--9640807	41	2.4	42	81	3	114	23	18	25	31	1.98
9640650--9640822	43	4.1	43	74	8	147	23	17	26	33	1.96
9659661--9660094	215	2.0	214	95	0	789	36	6	17	38	1.77
9668968--9669228	129	2.0	129	92	0	432	44	16	10	27	1.80
9669245--9669521	138	2.0	138	97	0	518	30	23	20	25	1.99
9673907--9673940	15	2.3	15	94	0	59	38	0	38	23	1.55
9676032--9676076	13	3.5	13	76	11	56	37	2	2	57	1.23
9676031--9676090	26	2.3	26	100	0	120	36	3	3	56	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9676045--9676089	13	3.5	13	76	11	56	33	4	4	57	1.38
9676854--9676887	15	2.3	15	100	0	68	32	0	17	50	1.47
9678491--9678524	17	2.0	18	88	11	54	64	0	2	32	1.08
9689500--9689651	25	6.0	25	68	12	87	26	19	21	32	1.97
9692112--9692168	4	13.8	4	74	7	51	43	0	5	50	1.24
9695252--9695280	6	4.8	6	100	0	58	68	0	13	17	1.20
9697398--9697449	27	1.9	27	85	14	72	63	3	3	28	1.30
9706671--9706712	21	2.0	21	95	0	75	11	19	35	33	1.88
9706675--9706720	21	2.2	21	84	0	56	15	19	32	32	1.93
9708555--9708589	16	2.2	16	89	0	52	28	2	2	65	1.21
9710759--9710804	21	2.2	21	92	0	74	13	17	36	32	1.88
9718323--9718364	20	2.0	21	86	4	59	45	9	16	28	1.79
9721968--9721997	15	1.9	16	93	6	53	40	0	0	60	0.97
9722620--9722669	22	2.3	22	86	6	66	36	6	16	42	1.72
9723109--9723189	40	2.0	40	95	0	144	22	17	20	39	1.92
9723123--9723207	40	2.2	38	81	12	93	24	18	17	38	1.92
9724181--9724238	29	2.0	28	84	15	75	34	0	5	60	1.19
9726360--9726448	35	2.5	35	79	0	97	22	16	30	30	1.96
9727741--9727864	43	2.9	43	81	11	146	21	19	29	29	1.98
9728498--9728524	2	13.5	2	100	0	54	48	0	0	51	1.00
9731248--9731418	67	2.5	68	83	6	181	24	23	15	36	1.94
9731299--9731541	68	3.6	68	82	3	260	25	22	16	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9732970--9733049	30	2.5	33	82	10	85	46	1	1	51	1.17
9735569--9735623	24	2.3	23	84	9	76	34	7	1	56	1.38
9735653--9735686	14	2.3	15	90	5	52	41	8	0	50	1.34
9735756--9735811	29	1.9	29	89	7	87	23	16	19	41	1.90
9736749--9736804	29	1.9	29	89	7	87	41	19	16	23	1.90
9738587--9738712	67	1.9	67	91	0	207	34	21	19	25	1.96
9738947--9738996	25	2.0	26	92	4	84	22	8	6	64	1.43
9757692--9757791	27	3.6	28	86	2	132	29	14	25	32	1.94
9757779--9757803	12	2.1	12	100	0	50	8	8	32	52	1.60
9757751--9757830	39	2.1	39	87	0	115	21	13	28	36	1.92
9757696--9757878	94	2.0	93	83	5	235	27	13	27	31	1.93
9757790--9757889	27	3.7	27	82	5	130	27	14	28	31	1.95
9757733--9757857	66	1.9	66	83	8	164	26	12	28	32	1.93
9757790--9757901	27	4.1	27	80	6	120	26	14	27	31	1.95
9759636--9759712	22	3.5	22	87	0	109	27	15	27	29	1.96
9760902--9760940	16	2.5	15	83	4	51	17	2	5	74	1.12
9762842--9762896	22	2.4	23	81	3	67	30	7	18	43	1.77
9770687--9770728	16	2.4	17	80	15	50	28	40	16	14	1.88
9774162--9774243	24	3.4	24	72	13	78	34	19	25	20	1.96
9791115--9791192	36	2.2	36	92	0	129	52	25	8	12	1.68
9798811--9798861	9	5.7	9	97	0	93	56	0	9	33	1.32
9802364--9802401	11	3.3	12	89	7	53	36	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9805715--9805808	49	1.9	49	82	4	118	47	9	14	27	1.75
9807837--9807932	50	1.9	50	86	0	138	25	26	14	34	1.94
9808673--9808703	15	2.1	15	93	0	53	41	0	0	58	0.98
9808706--9808738	16	2.1	16	94	0	57	45	6	3	45	1.43
9808712--9808772	22	2.8	22	84	0	77	47	1	1	49	1.21
9812243--9812312	23	3.0	23	100	0	140	44	4	4	47	1.42
9817931--9817983	25	2.1	25	100	0	106	49	7	3	39	1.49
9819182--9819245	18	3.8	17	75	18	55	26	0	3	70	1.02
9819181--9819248	17	4.0	17	73	17	61	26	0	4	69	1.07
9830710--9830741	16	2.0	16	100	0	64	37	12	18	31	1.88

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