genome.fa.s6.2.7.7.80.10.50.1000.30.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  30  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)
9827567--9827627	27	2.2	28	75	13	65	47	1	1	49	1.21
9835152--9835203	17	3.1	16	72	10	50	50	0	1	48	1.12
9835228--9835266	16	2.5	15	83	8	51	43	0	2	53	1.14
9835850--9835874	13	1.9	13	100	0	50	40	48	0	12	1.40
9835855--9835971	39	3.0	39	89	1	191	49	28	4	17	1.66
9836133--9836172	9	4.4	9	96	0	62	25	10	25	40	1.86
9842060--9842114	16	3.4	16	76	2	65	41	16	7	34	1.76
9846494--9846545	27	1.9	27	88	0	77	42	0	17	40	1.49
9846739--9846772	17	2.0	17	88	11	52	17	0	5	76	0.98
9846941--9846982	17	2.4	18	84	11	61	40	2	4	52	1.35
9846950--9846981	16	1.9	17	93	6	57	43	0	6	50	1.27
9850390--9850436	21	2.2	21	88	0	67	31	2	27	38	1.69
9850759--9850788	5	6.0	5	100	0	60	20	0	40	40	1.52
9851386--9851430	5	8.8	5	85	4	63	0	22	0	77	0.76
9853225--9853257	14	2.4	14	90	10	50	48	3	3	45	1.33
9853600--9853649	19	2.5	21	78	12	61	42	12	0	46	1.41
9869098--9869136	20	2.0	20	85	10	53	43	10	15	30	1.80
9874127--9874173	18	2.7	18	80	9	53	14	29	29	25	1.95
9874151--9874188	17	2.2	17	95	0	67	23	36	21	18	1.95
9874182--9874220	18	2.2	18	90	0	60	20	46	17	15	1.84
9875279--9875320	21	2.0	21	95	0	75	47	2	19	30	1.62
9875285--9875331	21	2.2	21	84	0	58	51	2	23	23	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9875662--9875812	42	3.6	41	79	6	144	29	13	25	31	1.94
9875662--9875822	84	1.9	83	82	6	200	29	13	25	31	1.94
9880481--9880512	15	2.2	15	94	5	57	31	18	0	50	1.48
9880924--9880966	21	2.0	21	81	0	50	41	0	4	53	1.21
9882990--9883090	52	1.9	52	97	0	193	16	5	46	30	1.71
9888796--9888920	38	3.3	38	79	1	142	36	12	17	33	1.88
9888796--9888934	38	3.6	38	79	2	118	35	12	17	33	1.89
9888864--9888942	38	2.1	38	83	4	97	36	15	18	29	1.92
9892052--9892301	129	1.9	129	83	0	320	27	28	19	24	1.98
9892005--9892301	43	6.9	43	81	3	258	26	27	20	25	1.99
9892609--9892721	21	5.4	21	80	0	100	7	41	15	35	1.75
9892609--9892710	42	2.4	42	83	0	132	6	42	15	35	1.74
9892692--9892857	66	2.5	66	86	3	210	13	28	17	40	1.88
9894479--9894568	41	2.2	41	94	4	155	31	26	22	20	1.98
9894621--9894744	40	3.1	39	74	3	113	24	19	18	37	1.94
9897830--9897928	28	3.6	27	77	10	85	48	4	1	46	1.27
9898091--9898122	15	2.1	15	94	0	55	46	21	0	31	1.52
9899895--9900016	25	5.0	24	75	12	113	15	29	21	33	1.94
9899894--9900016	50	2.5	49	77	15	128	16	29	21	33	1.95
9906693--9906734	21	2.0	21	85	0	57	38	0	19	42	1.51
9907084--9907165	25	3.3	25	73	13	71	18	28	20	32	1.96
9907070--9907168	50	2.0	50	84	7	130	18	26	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9907093--9907166	25	2.9	25	80	9	80	17	28	20	33	1.95
9909138--9909187	20	2.5	21	83	6	68	66	4	0	30	1.10
9912217--9912260	21	2.2	20	87	4	61	36	4	0	59	1.18
9931862--9931886	5	5.0	5	100	0	50	0	60	0	40	0.97
9934488--9934568	35	2.3	36	91	2	137	18	11	22	48	1.79
9935909--9935988	40	2.0	40	97	0	151	32	18	12	36	1.89
9939358--9939472	59	2.0	58	94	1	203	46	21	8	23	1.79
9939739--9939792	6	9.0	6	93	0	81	53	16	11	18	1.72
9939592--9939992	201	2.0	201	99	0	784	48	19	8	23	1.76
9939936--9940021	6	14.3	6	93	0	136	61	16	3	18	1.48
9939936--9940033	18	5.4	18	91	0	142	60	15	5	19	1.53
9939940--9940033	6	15.7	6	92	0	89	60	14	5	19	1.53
9940218--9940297	40	2.0	40	85	2	108	31	27	7	33	1.85
9940862--9941115	126	2.0	126	99	0	499	23	20	16	39	1.92
9943181--9943238	27	2.1	27	100	0	116	46	18	3	31	1.66
9945306--9945355	3	16.7	3	95	0	91	64	0	2	34	1.05
9951721--9951770	16	2.8	17	85	11	57	36	8	0	56	1.29
9951782--9951824	13	3.7	13	71	28	51	25	4	0	69	1.07
9951780--9951821	21	2.0	21	100	0	84	28	4	0	66	1.12
9951851--9951887	19	1.9	19	88	0	56	24	5	0	70	1.08
9957118--9957142	12	2.1	12	100	0	50	44	0	8	48	1.32
9960729--9960845	43	2.8	43	84	2	148	27	29	17	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9960966--9961038	31	2.4	31	83	2	94	43	17	6	31	1.75
9964521--9964558	7	5.6	7	93	6	69	73	26	0	0	0.83
9965413--9965518	41	2.6	41	89	5	153	24	41	15	18	1.89
9968289--9968326	18	2.1	18	100	0	76	36	21	5	36	1.76
9971516--9971562	20	2.4	19	82	10	58	51	2	23	23	1.59
9973776--9973860	40	2.1	41	86	6	120	32	1	7	58	1.32
9978652--9978689	17	2.2	18	85	4	51	26	7	15	50	1.72
9978685--9978765	36	2.2	36	84	4	101	28	7	19	44	1.78
9978714--9978765	18	2.9	18	76	0	59	28	9	19	42	1.82
9981222--9981327	49	2.2	49	81	6	126	21	24	17	35	1.95
9990009--9990483	237	2.0	237	98	0	923	26	10	19	42	1.84
9990464--9990501	13	3.0	13	92	3	60	28	2	23	44	1.67
9990698--9990743	22	2.1	22	88	8	67	21	28	19	30	1.98
9992410--9992502	30	3.1	30	93	0	159	23	4	15	56	1.56
9992622--9992656	12	2.8	13	87	12	56	71	0	0	28	0.86
9995119--9995162	18	2.4	18	80	0	52	43	20	11	25	1.85
9997572--9997599	14	2.0	14	100	0	56	42	0	14	42	1.45
10000526--10000706	57	3.1	57	85	3	229	45	6	19	28	1.76
10003671--10003731	27	2.3	27	88	5	88	16	21	19	42	1.89
10003725--10003878	73	2.1	73	83	0	200	27	23	12	36	1.91
10003964--10004135	44	3.9	44	85	0	218	25	25	9	40	1.86
10007569--10007614	23	2.0	24	87	8	69	23	8	28	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10007700--10007745	14	3.4	13	79	8	56	13	0	30	56	1.37
10007702--10007744	13	3.2	13	83	6	59	13	0	30	55	1.39
10007779--10007916	7	18.9	7	68	14	64	22	3	36	36	1.72
10008002--10008064	7	9.1	7	75	3	56	15	0	39	44	1.47
10008087--10008133	21	2.2	22	81	11	62	25	0	17	57	1.40
10010286--10010376	45	2.0	45	93	0	155	35	21	16	26	1.95
10015499--10015557	30	1.9	31	93	3	102	40	11	5	42	1.64
10015682--10016122	18	26.6	18	71	19	250	45	17	1	35	1.58
10015655--10015989	48	7.3	48	77	13	239	46	14	2	36	1.57
10015737--10016122	9	43.2	9	72	12	244	45	18	1	34	1.60
10015682--10015900	66	3.4	66	87	5	313	45	14	2	37	1.57
10015929--10016122	50	3.6	51	74	15	167	44	22	0	31	1.57
10016058--10016122	25	2.6	25	92	0	112	46	23	0	30	1.53
10016068--10016132	20	3.3	19	72	17	60	49	21	0	29	1.50
10020701--10020899	23	8.5	23	75	4	173	41	17	15	26	1.88
10020681--10020899	72	3.1	71	87	1	305	41	18	14	26	1.88
10021617--10021745	28	4.6	28	91	0	197	30	24	13	32	1.93
10024613--10024849	43	5.6	43	83	4	318	27	18	29	25	1.98
10024613--10024837	85	2.7	84	86	6	319	27	17	28	26	1.97
10025154--10025223	36	1.9	36	88	11	108	57	28	4	10	1.50
10027123--10027163	21	2.0	21	90	0	64	31	0	4	63	1.15
10029502--10029559	19	3.4	19	68	26	65	44	5	10	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10031303--10032414	561	2.0	561	100	0	2224	37	17	12	31	1.88
10034369--10034413	16	2.8	17	77	12	51	40	2	0	57	1.11
10034366--10034407	22	1.9	22	85	0	57	40	4	0	54	1.21
10034393--10034426	16	2.1	16	88	0	50	32	2	0	64	1.08
10036488--10036512	2	12.5	2	100	0	50	52	0	0	48	1.00
10037738--10037762	2	12.5	2	100	0	50	52	0	0	48	1.00
10039567--10039617	23	2.2	24	93	6	88	60	0	1	37	1.08
10040450--10040474	2	12.5	2	100	0	50	0	52	0	48	1.00
10043794--10043862	24	3.2	24	61	26	62	33	5	2	57	1.37
10052259--10052350	46	2.0	46	91	4	152	40	29	4	26	1.75

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