genome.fa.s6.2.7.7.80.10.50.1000.97.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  97  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)
30953850--30953891	17	2.4	17	88	4	57	69	9	4	16	1.33
30954629--30954675	21	2.2	21	77	7	51	36	29	10	23	1.89
30956149--30956184	10	3.3	11	92	7	56	91	2	5	0	0.49
30956153--30956186	1	34.0	1	87	0	50	94	2	2	0	0.38
30978954--30979006	20	2.7	20	85	8	65	49	1	0	49	1.12
30979501--30979542	7	6.0	7	86	10	59	57	0	0	42	0.99
30979621--30979810	94	2.0	94	97	0	362	37	5	9	47	1.59
30981439--30981961	223	2.3	224	92	3	878	33	16	14	35	1.90
30981439--30981942	115	4.5	111	89	5	777	34	16	15	33	1.90
30998094--30998146	23	2.3	23	87	9	81	32	20	15	32	1.93
30999567--30999594	2	14.0	2	100	0	56	50	0	0	50	1.00
31001858--31001919	28	2.2	28	82	5	81	45	19	3	32	1.66
31004679--31004708	9	3.3	9	90	0	51	0	23	0	76	0.78
31004711--31004745	3	11.7	3	87	0	52	0	31	31	37	1.58
31005260--31005287	6	4.7	6	100	0	56	0	28	0	71	0.86
31006048--31006099	27	1.9	27	92	0	86	19	21	48	11	1.80
31006053--31006109	27	2.1	27	87	6	80	21	21	47	10	1.80
31006764--31006816	25	2.1	24	100	0	88	37	0	11	50	1.38
31013737--31013788	19	2.8	19	94	5	90	38	0	11	50	1.39
31013971--31014004	16	2.1	16	94	0	59	50	0	0	50	1.00
31020663--31020815	80	1.9	80	97	0	288	30	9	13	47	1.73
31021809--31022028	103	2.2	99	85	5	282	25	16	14	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31026344--31026381	7	5.4	7	84	12	51	26	18	15	39	1.91
31026626--31026697	28	2.4	29	82	15	94	55	0	0	44	0.99
31027302--31027749	111	4.2	110	78	9	458	39	13	15	32	1.86
31027378--31027589	100	2.1	102	86	5	304	35	14	16	33	1.89
31027480--31027749	108	2.5	107	86	5	364	40	12	13	33	1.83
31027858--31028051	105	1.9	101	87	8	286	23	15	15	44	1.85
31028220--31028287	28	2.4	28	73	4	75	60	0	1	38	1.06
31033346--31033405	31	2.0	31	86	3	86	40	6	16	36	1.75
31038486--31038518	11	2.9	12	86	13	52	66	0	0	33	0.92
31043739--31043779	11	3.7	11	84	12	57	78	0	21	0	0.76
31044721--31044773	24	2.2	24	86	0	79	30	7	30	32	1.85
31045090--31045556	45	10.4	45	82	4	523	27	16	25	30	1.97
31045739--31045782	21	2.1	21	86	0	61	38	4	36	20	1.73
31045975--31046092	44	2.7	44	93	0	191	24	20	25	29	1.99
31045975--31046131	44	3.6	44	85	1	154	26	19	24	29	1.98
31046172--31046353	46	4.0	45	77	7	170	33	19	19	28	1.96
31046616--31047001	50	7.7	50	73	5	323	31	19	19	28	1.97
31046595--31046999	100	4.1	100	87	0	576	31	20	20	27	1.97
31046607--31046999	150	2.6	150	79	2	414	32	20	19	27	1.97
31047119--31047214	44	2.2	44	84	0	120	32	18	18	30	1.95
31047356--31047462	44	2.4	44	78	4	117	30	20	22	26	1.98
31048241--31048282	17	2.4	18	80	4	50	35	4	0	59	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31055676--31055728	27	2.0	27	84	0	70	26	3	24	45	1.70
31056177--31056201	4	6.2	4	100	0	50	52	0	0	48	1.00
31060140--31060207	25	2.8	25	81	2	75	51	0	1	47	1.09
31060174--31060207	15	2.1	17	89	10	54	64	0	0	35	0.94
31074827--31074864	6	6.3	6	93	0	58	13	68	2	15	1.32
31082210--31082264	26	2.1	27	82	3	67	61	21	7	9	1.50
31084109--31084140	2	16.0	2	93	0	55	46	0	3	50	1.17
31084114--31084262	74	2.0	75	98	1	291	38	13	10	36	1.80
31088950--31089022	31	2.3	31	88	2	101	28	9	4	57	1.49
31091139--31091176	16	2.4	16	90	0	58	31	0	34	34	1.58
31091155--31091249	45	2.1	44	88	1	136	32	6	27	33	1.82
31096530--31096573	17	2.7	16	82	13	54	34	4	0	61	1.16
31096534--31096573	15	2.5	16	88	8	55	35	5	0	60	1.19
31096531--31096582	19	2.8	18	75	19	54	32	3	1	61	1.25
31096684--31096750	29	2.4	28	82	5	80	32	7	1	58	1.35
31096720--31096792	18	3.9	19	76	15	64	35	1	1	61	1.13
31098308--31098348	19	2.2	18	86	4	55	46	9	2	41	1.50
31100712--31100748	15	2.5	15	95	0	65	27	29	32	10	1.90
31104466--31105076	302	2.0	303	99	0	1215	42	9	11	36	1.74
31110133--31110162	2	15.0	2	100	0	60	50	0	0	50	1.00
31126749--31126797	3	16.7	3	91	4	82	67	0	2	30	1.02
31127972--31128037	27	2.4	27	85	5	80	46	1	1	50	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31133913--31134204	153	1.9	153	93	0	503	22	27	14	36	1.92
31136948--31136986	14	2.8	14	85	11	53	61	0	0	38	0.96
31136937--31136982	22	2.1	21	84	4	56	56	0	0	43	0.99
31137599--31137643	19	2.3	20	78	17	51	37	0	17	44	1.49
31139502--31139534	2	16.5	2	100	0	66	51	0	0	48	1.00
31142432--31142595	81	2.0	81	88	2	240	40	12	20	26	1.87
31146880--31147095	99	2.1	103	87	9	311	28	19	14	36	1.92
31150526--31150630	52	2.0	55	90	5	171	41	0	29	28	1.56
31150533--31150661	52	2.4	52	84	8	163	40	0	31	27	1.57
31155530--31155555	13	2.0	13	100	0	52	30	7	0	61	1.24
31155523--31155567	18	2.5	19	75	17	51	40	4	0	55	1.20
31164486--31164545	16	3.5	17	74	12	52	75	10	13	1	1.13
31164557--31164587	13	2.3	14	94	5	55	80	0	19	0	0.71
31164552--31164593	17	2.5	17	76	0	57	69	0	30	0	0.89
31164795--31164930	67	2.0	67	92	0	227	43	4	19	32	1.71
31165292--31165322	6	5.2	6	96	0	53	35	0	12	51	1.40
31165473--31165536	27	2.5	27	80	12	73	39	0	26	34	1.57
31168066--31168091	12	2.2	12	100	0	52	30	15	0	53	1.42
31172148--31172195	25	2.0	24	83	4	60	37	22	25	14	1.92
31179036--31179281	125	2.0	126	87	0	359	26	14	17	42	1.87
31182312--31182401	34	2.6	34	85	0	126	44	17	0	37	1.49
31185597--31185635	20	2.0	20	90	10	62	5	7	0	87	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31185596--31185641	20	2.2	21	80	3	58	4	8	4	82	0.93
31188441--31188654	71	3.0	71	86	2	288	28	5	20	46	1.71
31190289--31190401	56	2.0	56	100	0	226	27	15	14	42	1.86
31192142--31192497	177	2.0	178	98	0	687	42	22	11	24	1.86
31195526--31195560	18	1.9	18	94	0	61	28	45	8	17	1.77
31197077--31197232	45	3.7	44	76	16	184	16	21	10	51	1.75
31197064--31197233	82	2.1	82	97	1	324	16	21	11	50	1.76
31197159--31197244	45	1.9	45	85	0	118	16	20	15	47	1.82
31197646--31197854	68	3.1	68	100	0	418	43	22	13	21	1.87
31202951--31203108	37	4.3	37	99	0	307	48	18	12	20	1.81
31204576--31204695	59	2.0	59	100	0	240	39	11	21	27	1.88
31216657--31216693	18	2.1	18	94	0	65	24	27	8	40	1.83
31218903--31218942	15	2.7	15	96	0	71	42	10	17	30	1.82
31220251--31220770	125	4.2	126	88	2	735	29	16	17	37	1.91
31220827--31220960	34	4.0	32	76	10	117	41	12	1	44	1.52
31220829--31220967	68	2.1	66	82	7	167	39	12	1	46	1.50
31222805--31222970	82	2.0	83	83	3	210	39	10	16	33	1.83
31227925--31227955	16	1.9	16	93	0	53	41	0	16	41	1.48
31231135--31231303	86	2.0	88	81	10	206	32	4	13	49	1.62
31242798--31242862	34	1.9	34	83	0	85	29	23	15	32	1.95
31257227--31257274	3	16.0	3	86	0	69	31	4	2	62	1.26
31257912--31257968	3	19.0	3	100	0	114	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31258598--31258645	3	16.0	3	86	0	69	31	4	2	62	1.26
31257056--31259092	676	3.0	670	83	8	2520	28	13	9	47	1.75
31261347--31261377	13	2.5	13	94	5	55	32	0	0	67	0.91
31266534--31266576	22	2.0	22	90	0	68	25	9	4	60	1.47
31276214--31276285	36	2.0	36	100	0	144	38	19	19	22	1.93
31276939--31277086	73	2.0	72	80	7	165	33	20	10	35	1.88
31278212--31278269	26	2.2	27	84	9	75	63	5	29	1	1.25
31279644--31279692	17	2.9	17	72	27	50	44	2	16	36	1.59
31280016--31280101	30	2.9	29	75	3	91	31	17	8	43	1.78
31279990--31280118	59	2.2	59	83	6	154	34	17	6	41	1.76

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