genome.fa.s6.2.7.7.80.10.50.1000.68.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   

This is table  68  of  109  ( 13028 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)
21887948--21888044	30	3.2	29	79	5	104	35	22	5	37	1.77
21888757--21888805	12	4.2	12	80	20	50	75	0	24	0	0.80
21888768--21888805	12	3.5	11	85	7	51	78	0	21	0	0.74
21888751--21888806	21	2.8	20	84	7	69	75	0	25	0	0.81
21889239--21889276	20	1.9	20	88	0	58	36	13	7	42	1.73
21889501--21889571	17	4.2	17	77	7	74	38	14	11	36	1.81
21889499--21889587	35	2.5	35	83	3	99	32	13	11	42	1.80
21889539--21889631	44	2.1	43	82	7	107	22	13	13	49	1.78
21889765--21889841	19	4.2	19	83	9	97	35	14	9	41	1.77
21889583--21889843	17	14.1	18	70	16	108	31	12	10	45	1.76
21889774--21889859	36	2.3	38	83	13	108	32	11	10	45	1.75
21889775--21889842	18	3.7	18	84	9	84	33	13	10	42	1.78
21893136--21893274	25	5.7	25	74	13	119	17	28	20	33	1.96
21892987--21893175	105	1.8	105	82	0	243	20	27	21	31	1.98
21893143--21893297	49	3.2	46	78	8	139	18	28	21	31	1.97
21893154--21893310	74	2.1	73	83	9	203	17	26	21	34	1.96
21893214--21893310	25	3.9	25	67	10	65	18	26	21	32	1.97
21897912--21897966	28	2.0	28	82	3	67	3	18	16	61	1.48
21899767--21899817	24	2.1	24	85	0	66	23	35	11	29	1.90
21899839--21899879	15	2.7	15	84	0	55	17	24	17	41	1.89
21902854--21902878	13	1.9	13	100	0	50	64	0	0	36	0.94
21903335--21903398	33	2.0	32	87	3	92	26	15	26	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21907483--21907528	22	2.0	23	87	4	67	58	0	2	39	1.10
21910340--21910373	11	2.8	13	91	8	54	44	11	8	35	1.72
21917088--21917133	23	2.0	23	83	8	58	21	6	19	52	1.69
21937717--21937748	15	2.2	15	94	5	57	65	0	3	31	1.08
21958941--21958978	16	2.6	16	84	16	55	42	0	2	55	1.14
21959083--21959115	17	1.9	17	100	0	66	30	3	6	60	1.36
21963081--21964411	44	29.5	48	68	16	370	32	18	20	29	1.96
21963218--21963472	41	5.8	41	72	13	161	30	17	21	30	1.96
21963081--21964383	92	14.4	91	72	12	730	32	18	20	28	1.96
21963081--21964411	181	7.4	181	82	2	1468	32	18	20	29	1.96
21964910--21964945	6	5.7	6	87	12	54	80	0	0	19	0.71
21966656--21966696	18	2.3	19	83	12	59	21	4	2	70	1.18
21966665--21966702	18	2.1	18	90	0	58	23	5	2	68	1.23
21966714--21966761	3	15.7	3	79	12	53	35	4	0	60	1.16
21966714--21966761	12	4.2	11	87	10	62	35	4	0	60	1.16
21969596--21969653	29	2.0	30	89	3	91	15	6	20	56	1.62
21969611--21969728	38	3.1	38	89	3	168	14	5	23	55	1.61
21972497--21972544	25	1.9	25	100	0	96	39	4	8	47	1.53
21974063--21974128	31	2.1	31	86	5	89	36	15	13	34	1.87
21974262--21974327	31	2.1	32	86	5	91	37	19	9	33	1.84
21975596--21975624	12	2.5	12	94	5	51	24	20	6	48	1.74
21991353--21991378	13	2.0	13	100	0	52	46	38	7	7	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21991650--21991674	5	5.0	5	100	0	50	40	0	60	0	0.97
21992017--21992120	50	2.1	50	82	10	126	22	0	13	63	1.35
21993917--21993968	24	2.2	24	82	0	59	28	34	30	5	1.81
21994467--21994699	62	3.7	62	91	5	346	46	11	7	34	1.69
21996797--21996831	15	2.3	15	90	0	52	25	25	11	37	1.90
21998409--21998482	26	2.8	26	89	4	114	18	24	22	33	1.97
22008112--22008148	9	4.1	9	92	0	65	29	10	13	45	1.77
22009479--22009656	88	2.0	89	96	3	333	44	5	10	39	1.62
22009684--22009732	24	2.0	24	84	7	64	46	16	6	30	1.71
22016187--22016225	20	2.0	20	89	0	60	53	15	15	15	1.73
22018426--22018468	21	2.0	21	95	0	77	25	18	23	32	1.97
22018431--22018481	18	2.6	19	81	9	59	31	23	19	25	1.98
22018829--22018902	34	2.2	34	85	4	96	35	13	12	39	1.82
22018841--22018911	34	2.1	34	82	10	83	33	14	14	38	1.86
22022145--22022206	31	2.1	31	84	6	83	40	4	9	45	1.58
22024974--22025102	49	2.6	48	82	8	129	20	27	15	37	1.92
22025003--22025102	48	2.0	49	85	11	134	23	26	15	36	1.93
22027474--22027534	33	1.9	31	90	6	95	26	1	11	60	1.40
22027487--22027550	19	3.1	20	75	11	58	28	1	6	64	1.27
22027472--22027540	33	2.2	32	80	12	90	26	1	10	62	1.35
22035251--22035379	49	2.6	48	82	8	129	20	27	15	37	1.92
22035280--22035379	48	2.0	49	85	11	134	23	26	15	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22037751--22037811	33	1.9	31	90	6	95	26	1	11	60	1.40
22037764--22037827	19	3.1	20	75	11	58	28	1	6	64	1.27
22037749--22037817	33	2.2	32	80	12	90	26	1	10	62	1.35
22040389--22040583	97	2.0	97	98	0	381	48	6	8	35	1.60
22046244--22046274	16	1.9	16	93	0	53	35	16	12	35	1.87
22059061--22059099	20	2.0	20	94	0	69	15	15	17	51	1.77
22065966--22066021	14	3.9	14	77	13	60	51	0	1	46	1.11
22068440--22068540	50	2.0	50	88	3	150	37	10	18	32	1.86
22081043--22081068	3	8.7	3	100	0	52	69	30	0	0	0.89
22086930--22087018	44	2.0	46	89	8	139	37	24	4	33	1.76
22088252--22088282	16	2.0	16	93	6	55	77	0	16	6	0.97
22090670--22090770	27	3.7	27	79	7	107	25	24	32	16	1.96
22096937--22096970	16	2.0	18	88	11	54	2	0	82	14	0.79
22096938--22096985	25	1.9	25	83	8	62	8	0	81	10	0.88
22098621--22098778	33	4.7	33	75	17	139	0	31	0	67	0.95
22098662--22098732	27	2.6	29	80	10	87	1	30	0	67	0.99
22098627--22098785	66	2.5	65	84	12	188	0	32	0	67	0.96
22098691--22098840	37	3.8	40	74	20	120	0	34	0	64	0.98
22098791--22098817	12	2.2	12	100	0	54	0	40	0	59	0.98
22105582--22105611	2	15.0	2	92	0	51	50	3	0	46	1.18
22110249--22110286	13	2.8	13	96	4	67	71	0	15	13	1.16
22110249--22110295	13	3.4	14	85	11	62	68	0	17	14	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22111515--22111700	88	2.1	88	83	4	232	26	20	24	27	1.99
22111719--22112045	167	2.0	167	91	1	539	24	20	28	27	1.99
22111713--22112081	167	2.2	167	87	0	533	25	20	28	26	1.99
22112047--22112364	50	6.4	50	69	0	195	28	20	26	24	1.99
22112057--22112364	100	3.1	100	86	0	364	28	20	25	25	1.99
22116960--22117008	14	2.8	19	68	31	54	63	0	0	36	0.95
22125151--22125180	15	1.9	16	93	6	53	46	0	0	53	1.00
22132083--22132207	13	10.1	13	70	21	65	24	14	9	52	1.71
22132114--22132169	22	2.6	23	88	8	82	23	14	10	51	1.73
22132094--22132198	12	8.9	12	70	15	76	24	15	9	50	1.73
22132147--22132219	27	2.9	25	80	10	78	28	16	8	46	1.76
22132566--22132690	13	10.1	13	70	21	65	24	14	9	52	1.71
22132597--22132652	22	2.6	23	88	8	82	23	14	10	51	1.73
22132577--22132681	12	8.9	12	70	15	76	24	15	9	50	1.73
22131761--22132727	483	2.0	484	99	0	1927	30	12	15	41	1.84
22132630--22132702	27	2.9	25	80	10	78	28	16	8	46	1.76
22139523--22139551	7	4.3	7	91	8	51	24	0	0	75	0.80
22139804--22139856	22	2.5	20	87	9	70	28	35	0	35	1.58
22142952--22143013	22	2.8	23	80	9	76	22	14	8	54	1.66
22142937--22143042	12	8.9	12	67	13	58	25	16	7	50	1.70
22142991--22143063	27	2.9	25	80	10	78	28	16	8	46	1.76
22150201--22150242	20	2.1	20	95	0	75	42	26	21	9	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
22153225--22153264	16	2.5	16	91	0	62	0	30	0	70	0.88
22163166--22163788	339	1.8	339	100	0	1246	39	8	15	35	1.79
22164387--22164503	56	2.1	56	84	10	152	52	18	2	25	1.58
22164573--22164651	37	2.1	37	81	13	90	68	5	2	24	1.22
22164613--22164660	18	2.8	16	78	12	51	68	6	2	22	1.23
22164946--22165112	89	1.9	89	82	6	214	39	7	14	38	1.73
22193134--22193381	132	1.9	132	88	3	383	29	24	20	26	1.99
22193406--22193869	89	5.2	89	89	1	646	23	25	25	25	2.00
22193406--22193865	177	2.6	177	88	1	607	23	25	25	25	2.00
22195481--22195601	1	121.0	1	66	0	62	0	6	9	83	0.81

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