genome.fa.s1.2.7.7.80.10.50.1000.24.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:  37323695

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   

This is table  24  of  93  ( 11113 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)
10439171--10439244	22	3.5	22	74	20	77	29	21	27	21	1.99
10439193--10439251	22	3.0	19	75	15	57	32	23	22	22	1.98
10440779--10440809	14	2.2	14	94	0	53	35	0	3	61	1.12
10443972--10444002	15	2.1	15	93	0	53	58	0	6	35	1.24
10447297--10447328	16	2.0	16	93	0	55	59	0	21	18	1.38
10447698--10447739	20	2.1	20	100	0	84	33	9	4	52	1.55
10453922--10453970	24	2.0	24	92	0	80	36	6	53	4	1.45
10453934--10453986	24	2.2	24	83	3	63	45	3	49	1	1.31
10460342--10460432	47	1.9	47	88	0	137	25	16	34	24	1.95
10460356--10460460	47	2.2	47	87	0	147	26	15	33	24	1.95
10460350--10460560	114	1.9	114	85	0	296	28	17	29	24	1.97
10460401--10460527	67	1.9	67	81	3	157	28	17	29	24	1.97
10460461--10460688	47	4.8	46	79	6	197	28	17	30	24	1.97
10460464--10460688	94	2.4	94	79	8	251	28	16	30	24	1.97
10460674--10460717	23	1.9	23	90	0	70	27	18	29	25	1.98
10461316--10461486	31	5.5	31	95	1	290	29	18	21	30	1.96
10462901--10463245	144	2.4	145	80	5	389	30	21	16	31	1.96
10463859--10464012	75	2.1	75	89	0	236	28	18	25	27	1.98
10465474--10465592	62	1.9	62	87	0	175	26	30	15	26	1.96
10465524--10465765	86	2.8	86	85	0	331	27	30	18	24	1.98
10465681--10465878	106	1.9	107	86	5	285	27	26	22	24	2.00
10466166--10466209	22	2.0	23	95	4	81	50	0	9	40	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10467083--10467137	28	2.0	28	96	0	101	45	7	10	36	1.67
10469825--10469938	35	3.4	34	67	9	90	33	26	14	26	1.94
10469825--10469950	67	1.9	66	81	4	155	34	25	12	27	1.92
10479292--10479431	31	4.5	31	89	1	210	31	20	17	30	1.96
10486265--10487688	775	1.8	777	90	3	2295	35	11	17	35	1.86
10490633--10490679	21	2.2	21	84	3	58	36	14	21	27	1.93
10490910--10490944	12	2.9	12	82	0	52	60	0	20	20	1.37
10491788--10491885	49	2.0	49	97	0	187	24	27	11	36	1.89
10497605--10497649	19	2.4	19	88	7	65	20	2	0	77	0.87
10497620--10497649	15	2.0	15	93	0	51	23	0	0	76	0.78
10498273--10498310	19	2.0	19	100	0	76	26	0	31	42	1.56
10498714--10499564	427	2.0	422	93	2	1445	30	10	23	35	1.88
10508116--10508161	19	2.4	20	82	10	60	54	0	2	43	1.12
10508565--10508622	20	2.9	20	100	0	116	29	5	20	44	1.73
10512855--10512879	13	1.9	13	100	0	50	44	0	8	48	1.32
10516574--10516600	12	2.2	12	100	0	54	51	14	0	33	1.43
10522488--10522513	12	2.2	12	100	0	52	42	7	7	42	1.62
10523995--10524100	50	2.1	50	96	0	194	44	8	7	38	1.63
10525755--10525800	23	2.0	23	95	0	83	36	10	13	39	1.79
10529258--10529303	23	2.0	23	95	0	83	36	10	13	39	1.79
10530184--10530257	21	3.3	21	71	20	69	66	9	1	22	1.29
10530179--10530258	18	4.9	17	67	21	55	66	10	1	22	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10530145--10530265	46	2.6	48	85	6	162	65	14	1	19	1.35
10530279--10530316	15	2.6	15	88	12	53	63	18	2	15	1.43
10534171--10534195	6	4.2	6	100	0	50	48	16	0	36	1.46
10543786--10543897	56	2.0	56	94	0	197	50	16	7	25	1.71
10546362--10546924	280	2.0	280	96	0	1047	38	9	15	36	1.80
10548526--10548550	13	1.9	13	100	0	50	52	0	0	48	1.00
10558383--10558431	17	2.9	17	80	11	57	57	2	2	38	1.22
10559424--10559448	13	1.9	13	100	0	50	48	0	0	52	1.00
10560599--10560664	28	2.3	29	84	2	80	45	19	6	28	1.74
10563525--10563665	51	2.6	52	86	8	178	65	15	1	17	1.35
10563687--10563795	14	8.1	14	73	8	100	59	22	3	14	1.51
10563675--10563824	40	3.8	40	88	9	218	58	22	6	13	1.56
10571590--10571715	50	2.5	50	80	12	134	52	5	38	3	1.44
10571641--10571790	63	2.4	63	82	6	173	55	4	37	3	1.35
10571767--10571820	12	4.3	13	75	15	60	74	0	24	1	0.92
10571767--10571820	25	2.2	25	83	6	65	74	0	24	1	0.92
10571914--10571947	2	17.0	2	100	0	68	50	0	0	50	1.00
10573336--10573490	61	2.5	60	81	7	170	5	37	4	52	1.44
10573329--10573628	134	2.2	134	80	7	329	4	36	4	54	1.41
10573462--10573496	16	2.4	14	86	13	52	0	22	0	77	0.78
10573467--10573503	13	2.8	13	87	0	56	0	29	0	70	0.88
10573396--10573563	74	2.3	74	87	5	234	2	34	5	57	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10573470--10573637	60	2.7	62	77	6	162	4	36	5	54	1.43
10573648--10573687	14	3.0	14	82	17	50	0	30	0	70	0.88
10573842--10573914	24	3.2	23	76	5	76	23	0	0	76	0.78
10573864--10573914	8	6.4	8	77	8	59	19	0	0	80	0.71
10573837--10573912	32	2.5	31	82	6	84	22	1	0	76	0.86
10573868--10573917	11	4.4	12	80	14	54	22	0	0	78	0.76
10573867--10573917	9	6.2	9	73	26	51	21	0	0	78	0.75
10581043--10581193	74	2.1	72	86	6	207	3	34	4	57	1.36
10581075--10581219	74	1.9	75	81	4	177	4	37	4	53	1.41
10581237--10581275	12	3.1	12	88	7	51	0	33	0	66	0.92
10581237--10581281	21	2.2	21	84	4	56	0	33	0	66	0.92
10583274--10583318	22	2.1	21	84	12	56	24	2	0	73	0.95
10584406--10584436	14	2.2	14	94	0	53	38	16	0	45	1.47
10587289--10587352	2	33.0	2	90	6	105	48	0	0	51	1.00
10587288--10587358	23	3.2	23	90	6	110	46	1	0	52	1.09
10588573--10588603	14	2.2	14	100	0	62	32	16	25	25	1.96
10592570--10592604	17	2.1	17	94	0	61	31	0	14	54	1.40
10594697--10594755	26	2.2	27	87	6	93	13	22	6	57	1.59
10594805--10594843	17	2.3	17	86	8	53	46	7	10	35	1.67
10598653--10598726	34	2.2	34	95	0	130	39	10	4	45	1.58
10598551--10598828	136	2.0	136	90	0	430	31	18	6	43	1.74
10598985--10599388	202	2.0	203	88	2	605	33	13	12	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10599866--10599908	22	1.9	23	90	4	70	16	34	9	39	1.80
10600716--10600807	42	2.2	43	88	3	134	21	16	36	25	1.94
10607896--10607951	21	2.7	21	75	8	53	42	5	1	50	1.35
10608287--10608326	21	1.9	21	89	0	62	45	5	0	50	1.23
10624187--10624230	15	2.9	15	82	0	61	34	22	9	34	1.86
10627083--10627139	25	2.3	26	82	14	75	45	1	0	52	1.11
10627559--10627648	30	3.0	29	75	6	90	43	1	0	55	1.07
10627563--10627651	29	3.0	29	77	6	81	42	1	0	56	1.06
10629156--10629190	3	11.7	3	100	0	70	34	0	0	65	0.93
10659621--10659669	15	3.4	15	83	16	68	73	0	0	26	0.83
10659625--10659666	9	5.0	9	83	16	63	76	0	0	23	0.79
10659625--10659680	24	2.3	24	90	6	87	75	1	0	23	0.90
10664714--10664778	29	2.4	28	84	7	80	55	4	4	35	1.41
10674088--10674116	3	9.7	3	100	0	58	68	0	0	31	0.89
10682126--10682219	45	2.1	45	82	4	109	46	6	4	42	1.48
10690703--10690741	2	21.5	2	80	19	50	51	0	0	48	1.00
10690703--10690741	9	4.3	9	87	12	62	51	0	0	48	1.00
10690703--10690741	19	2.2	19	90	9	64	51	0	0	48	1.00
10690954--10690994	21	2.0	21	90	9	68	80	0	14	4	0.87
10699743--10699797	20	2.8	20	94	0	92	45	0	21	32	1.52
10701235--10701272	2	19.0	2	100	0	76	50	0	0	50	1.00
10704986--10705033	2	24.0	2	95	0	87	47	0	2	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10712249--10712300	16	3.3	16	81	13	63	44	0	1	53	1.11
10713047--10713082	2	18.0	2	100	0	72	50	0	0	50	1.00
10713230--10713259	15	2.0	15	93	0	51	36	6	6	50	1.55
10717117--10717169	15	3.5	15	72	10	54	45	0	1	50	1.12
10717147--10717604	215	2.1	215	82	7	561	41	7	5	46	1.54
10725099--10725131	17	1.9	17	93	0	57	21	15	6	57	1.59
10729183--10729209	6	4.5	6	100	0	54	0	85	14	0	0.61
10732217--10732308	48	1.9	48	97	0	175	33	16	19	30	1.94
10732451--10732481	2	15.5	2	100	0	62	0	0	48	51	1.00
10735450--10735536	34	2.6	34	96	0	156	29	10	13	45	1.77

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