genome.fa.s12.2.7.7.80.10.50.1000.25.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  25  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)
6546421--6546475	20	2.8	19	86	5	83	30	7	10	50	1.64
6547600--6547633	17	2.1	17	88	5	52	35	2	11	50	1.54
6551230--6551261	2	16.0	2	100	0	64	50	0	0	50	1.00
6551872--6551956	31	2.8	30	77	5	82	40	12	11	35	1.80
6555290--6555397	57	1.9	57	90	0	171	22	25	14	37	1.92
6558381--6558409	2	14.5	2	100	0	58	51	0	0	48	1.00
6560672--6560712	2	20.5	2	100	0	82	51	0	0	48	1.00
6561734--6561786	21	2.5	21	84	0	61	32	33	9	24	1.87
6562069--6562112	22	2.0	23	86	4	63	54	4	6	34	1.47
6566079--6566495	227	1.8	225	84	3	568	46	18	8	26	1.76
6569097--6569146	16	2.8	18	73	14	50	46	0	2	52	1.12
6575967--6576006	20	2.0	21	85	9	57	40	0	2	57	1.12
6581248--6581292	21	2.1	21	84	8	56	55	0	2	42	1.12
6581247--6581294	22	2.2	22	78	14	55	56	0	2	41	1.11
6581341--6581401	27	2.3	26	83	13	79	50	1	1	45	1.21
6581753--6581810	30	2.0	29	93	3	98	58	8	3	29	1.44
6584228--6584260	13	2.4	14	85	10	50	42	24	9	24	1.83
6592949--6592979	15	2.0	16	93	6	55	29	6	6	58	1.48
6600486--6600512	2	13.5	2	100	0	54	48	0	0	51	1.00
6604646--6604684	20	2.0	20	90	5	62	5	25	0	69	1.09
6608269--6608459	98	1.9	98	95	2	348	36	24	10	28	1.89
6609132--6609182	27	2.0	26	92	7	86	58	3	5	31	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6611246--6611824	44	13.2	44	64	14	210	25	24	20	29	1.99
6611378--6611923	132	4.1	132	96	0	977	24	25	19	30	1.99
6613266--6613294	6	5.0	6	91	8	51	0	0	13	86	0.58
6618324--6618348	2	12.5	2	100	0	50	52	0	0	48	1.00
6618994--6619100	19	5.7	19	84	4	137	39	14	11	34	1.82
6618994--6619100	56	1.9	56	88	0	160	39	14	11	34	1.82
6632295--6632344	23	2.3	21	90	10	82	40	18	6	36	1.75
6632708--6632824	51	2.3	51	96	0	216	28	24	13	33	1.93
6635527--6635598	32	2.2	33	82	7	85	44	1	2	51	1.24
6640897--6640954	3	19.3	3	100	0	116	67	0	0	32	0.91
6641248--6641298	26	1.9	27	88	4	77	50	11	0	37	1.39
6653083--6653115	16	2.0	17	88	5	50	45	9	0	45	1.35
6654099--6654167	25	2.7	25	80	13	70	52	2	2	42	1.31
6658857--6658907	18	2.8	18	88	5	68	50	0	0	49	1.00
6666984--6667030	24	2.0	24	91	0	76	31	17	31	19	1.94
6667081--6667149	26	2.7	25	82	10	70	34	20	26	18	1.96
6690411--6690512	21	4.9	21	70	10	66	19	20	15	44	1.87
6690385--6690540	42	3.8	41	72	10	120	17	21	16	45	1.85
6690511--6690555	21	2.2	21	88	7	67	8	20	22	48	1.76
6696238--6696294	3	19.0	3	100	0	114	66	0	0	33	0.92
6699461--6699496	18	2.0	18	89	10	56	11	13	0	75	1.06
6704967--6705018	19	2.8	18	80	19	54	46	1	1	50	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6705091--6705174	32	2.5	33	82	5	107	38	7	3	51	1.47
6705101--6705190	32	2.8	32	85	8	105	37	4	5	52	1.45
6708548--6708646	23	4.1	24	86	10	132	86	0	13	0	0.56
6708548--6708648	33	3.0	33	83	9	125	86	0	13	0	0.58
6708548--6708648	45	2.2	45	87	6	143	86	0	13	0	0.58
6708548--6708624	1	77.0	1	78	0	82	89	0	10	0	0.48
6709534--6710285	44	16.8	44	73	11	385	31	19	19	29	1.97
6709534--6709746	86	2.4	89	82	3	272	31	19	19	29	1.96
6709820--6709913	46	2.0	46	100	0	188	34	23	11	30	1.91
6709708--6710268	273	2.1	269	86	4	779	30	20	19	29	1.97
6709708--6710187	138	3.5	137	73	15	450	31	20	19	29	1.97
6709937--6710268	182	1.8	182	81	3	418	29	20	20	30	1.97
6709866--6710379	226	2.3	227	91	1	834	30	19	20	28	1.97
6710126--6710373	88	2.7	89	76	12	220	28	19	22	29	1.98
6711945--6711985	20	2.0	20	85	0	55	34	2	2	60	1.23
6713993--6714265	134	2.0	134	97	0	519	35	11	19	33	1.87
6715648--6716090	219	2.0	219	98	0	850	39	11	20	27	1.87
6716177--6716613	216	2.0	216	98	0	838	31	14	21	31	1.94
6723245--6723299	3	18.3	3	80	14	60	61	1	5	30	1.29
6727130--6727190	21	2.9	21	95	0	113	45	18	26	9	1.80
6733731--6733809	20	3.5	22	70	25	67	46	6	17	29	1.73
6733751--6733809	27	2.2	27	82	11	68	49	6	16	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6735454--6735491	16	2.3	17	90	4	60	34	2	0	63	1.09
6735664--6735740	3	25.7	3	100	0	154	67	0	0	32	0.91
6736577--6736631	28	1.9	29	81	3	67	41	5	1	50	1.36
6736575--6736638	29	2.2	29	77	5	67	43	4	1	50	1.32
6744315--6744394	42	1.9	42	81	0	97	16	5	38	40	1.70
6746504--6746549	20	2.3	21	82	14	62	28	2	4	65	1.23
6752062--6752096	18	1.9	18	94	0	61	40	0	2	57	1.14
6752067--6752108	18	2.3	19	84	8	52	45	0	0	54	0.99
6753588--6753618	15	2.1	15	93	0	53	83	6	9	0	0.79
6754240--6754301	30	2.1	29	87	3	88	59	3	8	29	1.42
6754240--6754325	15	5.6	14	72	15	55	59	4	6	29	1.44
6754771--6754907	41	3.4	41	77	8	145	43	15	24	16	1.87
6756465--6756609	43	3.4	43	68	11	116	29	20	19	31	1.97
6756662--6756722	32	1.9	32	100	0	122	36	18	9	36	1.84
6758443--6758564	37	3.1	40	74	9	126	28	17	20	33	1.95
6760516--6760587	30	2.3	31	75	17	78	38	5	5	50	1.49
6762557--6762584	2	14.0	2	100	0	56	50	0	0	50	1.00
6762803--6762851	6	8.7	6	80	13	50	59	2	0	38	1.09
6762805--6762848	2	22.5	2	81	4	54	56	2	0	40	1.11
6762805--6762846	16	2.6	16	92	3	66	57	2	0	40	1.12
6762983--6763091	3	36.3	3	83	3	130	60	1	5	32	1.30
6764263--6764295	13	2.6	13	90	4	50	15	0	36	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6764271--6764314	13	3.3	13	83	3	52	13	2	36	47	1.56
6764638--6764741	51	2.0	51	84	0	136	44	17	8	29	1.78
6765387--6765437	18	2.8	18	84	0	75	45	21	7	25	1.79
6765387--6765467	36	2.2	36	82	4	92	45	22	7	24	1.77
6769360--6769391	2	16.0	2	100	0	64	50	0	0	50	1.00
6770386--6770431	24	1.9	24	100	0	92	13	47	4	34	1.62
6773752--6773794	18	2.4	18	80	7	52	55	0	2	41	1.12
6774193--6774251	29	2.0	30	86	3	84	33	8	15	42	1.77
6774181--6774372	90	2.1	90	83	2	242	33	10	12	43	1.77
6782078--6782231	41	3.8	41	88	1	229	19	22	32	25	1.97
6782482--6782512	14	2.2	14	94	0	53	29	0	22	48	1.51
6782562--6782594	14	2.3	15	94	5	59	30	0	33	36	1.58
6782614--6782657	14	3.1	14	76	0	52	25	0	36	38	1.56
6782854--6782927	29	2.6	29	100	0	148	28	0	35	36	1.58
6782854--6782970	14	8.1	14	69	8	74	26	0	36	35	1.63
6783272--6783345	15	4.5	15	76	23	78	55	0	1	43	1.08
6783265--6783363	16	5.8	16	73	24	62	54	0	3	42	1.15
6783270--6783345	35	2.3	35	84	13	90	55	0	2	42	1.14
6783275--6783373	51	1.9	51	97	0	189	54	0	3	42	1.15
6783232--6783388	35	4.4	36	68	19	87	53	0	3	42	1.23
6787566--6787648	43	1.9	43	87	0	121	32	8	12	46	1.71
6787917--6788139	43	5.3	42	82	3	286	26	15	28	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6787931--6788169	43	5.6	43	81	4	277	25	16	29	28	1.97
6787922--6788155	86	2.7	86	86	2	337	27	16	28	27	1.97
6791545--6791586	9	4.7	9	90	0	66	30	11	21	35	1.90
6791640--6791676	9	4.1	9	92	0	65	45	13	10	29	1.77
6791889--6791947	29	2.0	31	83	6	77	20	38	0	40	1.53
6796604--6796668	29	2.2	29	89	5	96	44	6	9	40	1.61
6797368--6797403	18	1.9	19	88	5	56	52	0	0	47	1.00
6797625--6797670	23	2.0	24	86	4	67	39	13	0	47	1.42
6799310--6799350	6	6.7	6	88	5	55	78	0	19	2	0.87
6802341--6802403	27	2.3	27	94	0	108	23	25	14	36	1.93

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