genome.fa.s5.2.7.7.80.10.50.1000.83.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  83  of  85  ( 10117 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)
29162628--29162727	34	2.9	34	93	0	173	24	7	32	37	1.82
29162815--29162884	34	2.1	34	91	0	113	32	7	22	37	1.82
29164526--29164592	34	1.9	35	84	3	91	44	13	8	32	1.75
29165231--29165260	2	15.0	2	100	0	60	50	0	0	50	1.00
29165492--29165520	2	14.5	2	100	0	58	48	0	0	51	1.00
29166684--29166720	3	12.3	3	100	0	74	67	0	0	32	0.91
29168056--29168145	46	2.0	44	91	6	146	32	11	25	31	1.91
29181123--29181466	104	3.3	104	88	2	483	38	26	6	28	1.82
29180974--29181466	208	2.5	194	86	5	637	38	25	6	29	1.81
29186703--29187221	199	2.6	199	97	1	1004	25	19	11	43	1.84
29187236--29187260	13	1.9	13	100	0	50	0	4	0	96	0.24
29187235--29187261	14	1.9	14	100	0	54	0	3	0	96	0.23
29207759--29207809	8	6.2	8	88	4	66	9	3	39	47	1.55
29212470--29212510	19	2.3	17	91	8	64	39	0	2	58	1.11
29217003--29217069	18	3.7	18	80	4	64	7	46	0	46	1.31
29217015--29217067	15	3.5	15	82	7	54	9	43	0	47	1.36
29226091--29226116	8	3.2	8	100	0	52	73	0	0	26	0.84
29228069--29228094	8	3.2	8	100	0	52	73	0	0	26	0.84
29230574--29231070	100	5.0	100	84	3	608	37	23	13	26	1.91
29230595--29231102	200	2.5	200	87	1	700	36	24	13	25	1.92
29230635--29231168	200	2.7	200	85	2	594	38	22	12	26	1.90
29240063--29240145	43	1.9	43	95	0	148	43	8	13	34	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29240741--29240826	43	2.0	43	95	0	154	29	29	12	29	1.93
29253758--29253856	52	1.9	52	83	4	128	24	23	16	36	1.94
29273588--29273742	77	2.0	78	98	1	303	37	7	16	38	1.78
29276327--29276469	49	2.9	49	100	0	286	42	11	6	39	1.67
29287847--29287873	2	13.5	2	100	0	54	0	0	48	51	1.00
29290165--29290199	18	1.9	18	88	0	52	11	5	17	65	1.43
29291745--29291769	13	1.9	13	100	0	50	36	8	0	56	1.29
29292183--29292700	151	3.5	148	84	7	634	27	9	25	38	1.86
29292450--29292700	138	1.8	138	90	0	403	26	7	27	38	1.84
29297349--29297451	30	3.4	30	72	5	89	20	19	29	31	1.97
29297493--29297612	23	5.3	23	73	8	84	36	13	22	27	1.91
29301102--29301132	10	3.1	10	100	0	62	41	9	0	48	1.36
29304978--29305002	2	12.5	2	100	0	50	52	0	0	48	1.00
29305853--29305883	9	3.4	9	90	0	53	38	22	12	25	1.90
29305948--29305973	2	13.0	2	100	0	52	50	0	0	50	1.00
29306666--29306692	12	2.2	12	100	0	54	18	25	33	22	1.97
29307796--29307820	2	12.5	2	100	0	50	48	0	0	52	1.00
29308416--29308450	17	2.1	17	100	0	70	22	34	17	25	1.96
29309080--29309123	3	14.7	3	100	0	88	68	0	0	31	0.90
29311490--29311534	10	4.8	10	86	10	60	40	0	13	46	1.43
29313991--29314042	25	2.1	25	82	3	61	32	21	21	25	1.98
29317042--29317099	28	2.1	28	84	9	75	20	20	5	53	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29333815--29333863	18	2.6	19	84	12	66	36	0	0	63	0.95
29333815--29333864	19	2.7	19	79	14	59	38	0	0	62	0.96
29336012--29336049	19	2.0	19	100	0	76	36	21	10	31	1.87
29339350--29339399	17	3.0	16	79	5	55	62	0	4	34	1.14
29340375--29340456	36	2.2	37	91	4	130	28	12	28	31	1.92
29341404--29341428	2	12.5	2	100	0	50	48	0	0	52	1.00
29342630--29343241	303	2.0	303	99	0	1208	37	14	14	33	1.87
29349989--29350153	78	2.1	77	89	3	251	22	6	25	46	1.75
29350837--29350900	32	2.0	32	96	3	121	28	18	23	29	1.98
29353546--29353570	13	1.9	13	100	0	50	20	8	16	56	1.65
29361864--29361896	16	2.1	16	88	5	50	36	0	0	63	0.95
29363463--29363495	15	2.2	15	100	0	66	12	6	18	63	1.48
29366132--29366170	15	2.6	15	91	0	60	51	7	5	35	1.53
29368092--29368321	120	1.9	118	86	5	329	30	15	13	40	1.86
29368827--29368865	20	2.0	20	94	0	69	35	7	12	43	1.72
29371683--29371727	23	1.9	24	86	4	65	44	0	4	51	1.21
29372218--29372279	31	2.0	31	84	9	81	38	8	4	48	1.54
29373763--29374361	218	2.9	200	85	7	724	29	6	18	45	1.74
29373999--29374416	218	1.9	214	89	6	641	30	5	19	44	1.73
29378156--29378202	4	11.8	4	86	0	58	44	25	6	23	1.77
29379832--29379873	22	1.9	22	85	0	57	57	14	0	28	1.38
29380278--29380302	13	1.9	13	100	0	50	72	4	0	24	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29380596--29380708	55	2.0	56	98	1	219	38	19	8	33	1.83
29389106--29389152	24	1.9	25	86	4	69	53	0	2	44	1.12
29391430--29391727	149	2.0	149	100	0	596	32	20	11	36	1.88
29406305--29406350	16	2.8	16	78	15	58	67	4	0	28	1.10
29408468--29408700	116	2.0	117	99	0	459	43	12	7	36	1.71
29410027--29410055	5	5.8	5	100	0	58	20	17	20	41	1.90
29411114--29411150	19	2.0	19	94	5	67	62	0	0	37	0.96
29413849--29413972	59	2.1	59	90	0	194	38	12	10	37	1.78
29423948--29424024	14	5.0	15	71	20	52	42	14	9	33	1.77
29423964--29424003	20	2.0	20	90	0	62	50	12	10	27	1.72
29423952--29424018	34	1.9	35	90	3	109	46	13	8	31	1.74
29426013--29426045	3	11.0	3	93	0	57	0	63	0	36	0.95
29427142--29427172	3	10.3	3	100	0	62	35	32	0	32	1.58
29429095--29429152	29	2.0	28	83	3	71	34	15	6	43	1.74
29432383--29432415	11	2.7	13	90	9	52	42	3	0	54	1.15
29432410--29432461	26	2.0	26	81	7	61	40	0	3	55	1.18
29432858--29432886	14	2.1	14	100	0	58	34	58	0	6	1.25
29433170--29433248	40	2.0	40	100	0	158	43	31	10	15	1.80
29435477--29435524	24	2.0	24	95	0	87	29	14	29	27	1.95
29435764--29435839	31	2.5	30	85	6	98	30	11	10	47	1.74
29445280--29445313	13	2.6	13	86	13	52	8	2	44	44	1.50
29445360--29445425	30	2.2	30	100	0	132	60	0	6	33	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29445406--29445521	55	2.1	54	82	9	137	43	7	21	27	1.80
29445431--29445536	55	1.9	55	100	0	212	38	9	23	28	1.86
29448926--29449162	115	2.1	116	92	0	395	31	24	12	30	1.93
29452162--29452210	26	1.9	25	87	4	71	65	0	4	30	1.11
29460027--29460240	101	2.1	100	97	0	401	48	6	36	8	1.61
29469768--29469815	25	2.0	25	84	8	64	50	6	2	41	1.39
29471974--29472328	119	2.9	125	82	7	454	45	18	15	21	1.86
29478382--29478453	31	2.3	31	78	9	74	38	5	9	45	1.60
29481112--29481146	18	2.0	17	94	5	61	57	0	0	42	0.99
29487735--29487765	2	15.5	2	93	0	53	48	3	0	48	1.17
29489346--29489391	17	2.8	17	81	12	60	71	6	0	21	1.08
29489342--29489397	27	2.1	26	81	15	62	69	8	0	21	1.15
29490239--29490271	4	8.2	4	93	0	57	48	24	3	24	1.65
29505676--29505773	30	3.2	30	75	13	119	40	0	15	43	1.46
29505641--29505787	61	2.4	61	98	0	285	42	0	18	39	1.50
29510297--29510673	95	4.1	92	85	7	464	49	15	6	28	1.70
29510332--29510673	89	3.7	89	89	5	463	49	15	6	28	1.70
29511761--29511791	3	10.3	3	92	0	53	3	67	0	29	1.06
29515677--29515805	66	2.0	65	89	3	188	34	25	14	25	1.94
29519476--29519548	29	2.4	30	84	6	85	28	8	19	43	1.79
29519504--29519561	29	2.0	29	83	10	73	29	8	13	48	1.73
29520701--29520740	18	2.1	20	86	9	57	72	2	2	22	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29524608--29524653	21	2.2	21	84	7	58	56	4	6	32	1.45
29528223--29528266	23	2.0	22	86	4	61	22	4	11	61	1.48
29537790--29537853	30	2.1	32	82	8	80	31	10	10	46	1.74
29539741--29539798	21	2.8	21	73	21	59	39	5	3	51	1.41
29539755--29539810	23	2.4	23	77	17	62	41	3	1	53	1.29
29540317--29540345	14	2.0	15	93	6	51	75	0	6	17	1.01
29540836--29540877	8	5.1	8	85	5	57	42	2	0	54	1.13
29543235--29543580	173	2.0	173	95	0	629	31	16	21	30	1.95
29553011--29553089	31	2.6	31	86	6	117	26	15	13	44	1.84
29554010--29554209	101	2.0	101	98	0	391	34	16	9	40	1.79

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