genome.fa.s4.2.7.7.80.10.50.1000.72.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:  31929104

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   

This is table  72  of  82  ( 9773 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)
26440425--26440479	25	2.3	23	85	11	76	49	1	0	49	1.11
26442432--26442514	43	1.9	43	95	0	148	31	12	28	27	1.92
26443534--26443565	16	2.1	16	94	5	57	62	0	0	37	0.95
26468743--26468797	28	2.0	28	88	0	83	41	29	12	16	1.85
26470136--26470170	12	2.9	12	91	0	52	60	0	40	0	0.97
26470923--26470983	28	2.1	29	82	8	72	45	8	4	40	1.55
26472680--26472732	13	4.0	13	79	11	63	43	0	0	56	0.99
26472684--26472727	12	3.0	16	68	25	51	43	0	0	56	0.99
26472678--26472734	14	4.1	14	77	18	57	43	0	0	56	0.99
26474237--26474273	15	2.5	14	87	12	56	43	0	2	54	1.14
26473524--26474662	338	3.3	340	80	9	1270	45	6	6	41	1.56
26476770--26476824	22	2.4	22	87	9	74	63	0	0	36	0.95
26477004--26477049	2	23.0	2	100	0	92	50	0	0	50	1.00
26495587--26495635	21	2.4	22	83	13	68	53	4	0	42	1.20
26501837--26501881	18	2.5	18	88	0	63	15	0	57	26	1.38
26501848--26501890	18	2.4	17	81	11	50	18	0	55	25	1.42
26501897--26501959	15	4.4	15	70	11	51	4	3	58	33	1.35
26501908--26501942	18	1.9	18	88	0	52	2	5	57	34	1.37
26501909--26501986	24	3.2	24	81	3	77	6	3	61	28	1.38
26501849--26501966	42	2.8	42	85	0	146	9	3	57	29	1.46
26501897--26502031	42	3.2	41	85	6	157	8	4	60	27	1.45
26501961--26502004	18	2.4	18	88	0	61	11	4	61	22	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26501937--26502130	42	4.5	42	83	3	190	9	7	58	25	1.55
26502000--26502046	18	2.6	18	82	0	58	8	6	61	23	1.48
26502035--26502100	21	3.3	18	71	28	62	10	9	57	22	1.60
26502042--26502111	21	3.3	20	71	28	65	11	8	55	24	1.63
26501973--26502214	42	5.7	42	79	4	198	12	9	55	22	1.65
26502177--26502211	18	1.9	18	88	0	52	14	8	60	17	1.58
26502120--26502334	102	2.1	102	82	3	254	15	10	52	21	1.72
26502135--26502271	60	2.3	59	84	5	175	16	10	52	20	1.72
26502221--26502301	42	1.9	42	87	5	119	14	4	56	23	1.58
26502294--26502372	18	4.4	18	69	6	61	10	10	54	25	1.65
26502393--26502430	15	2.5	15	86	0	58	7	5	65	21	1.38
26502403--26502465	33	1.9	33	83	0	81	9	4	60	25	1.47
26516419--26516497	33	2.4	33	86	0	113	41	3	12	41	1.61
26524184--26524246	21	3.0	21	83	4	65	25	25	36	12	1.91
26548900--26549118	109	2.0	109	98	0	420	42	9	13	34	1.77
26550782--26550834	27	2.0	27	82	7	65	32	7	1	58	1.37
26550819--26550849	13	2.4	13	94	0	53	19	0	0	80	0.71
26551364--26551389	2	13.0	2	100	0	52	50	0	0	50	1.00
26560046--26560349	27	11.1	27	77	6	227	39	8	10	40	1.71
26560046--26560354	82	3.8	83	78	8	263	39	9	10	40	1.71
26560046--26560354	55	5.6	54	79	6	230	39	9	10	40	1.71
26560152--26560349	109	1.8	109	82	2	254	38	10	10	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26560273--26560384	55	2.0	55	79	6	120	36	9	14	39	1.79
26564249--26564300	27	2.0	26	84	3	68	69	3	11	15	1.32
26575574--26575676	45	2.3	45	86	0	152	33	19	17	30	1.95
26575697--26575792	45	2.1	45	84	3	122	35	15	15	33	1.90
26575588--26575879	121	2.4	120	80	3	322	37	15	15	31	1.89
26575823--26575975	75	2.0	77	83	10	195	41	13	14	30	1.85
26575936--26576005	30	2.3	31	95	2	124	38	10	14	37	1.79
26575956--26576025	30	2.3	30	82	0	77	45	11	8	34	1.71
26575997--26576110	45	2.5	45	79	10	133	38	15	13	32	1.86
26576124--26576219	44	2.2	45	86	1	131	36	17	15	30	1.91
26576247--26576411	76	2.1	78	85	8	219	38	10	16	34	1.84
26575574--26576446	427	2.0	425	91	2	1421	38	14	14	32	1.86
26576364--26576432	29	2.3	30	85	7	95	36	7	15	40	1.76
26589920--26589951	2	16.0	2	93	0	55	46	0	0	53	1.00
26616350--26616387	16	2.4	16	95	0	67	44	2	0	52	1.14
26616441--26616505	25	2.6	24	83	9	76	53	0	3	43	1.16
26616437--26616490	18	3.0	18	77	17	58	61	0	0	38	0.96
26617669--26617707	19	2.1	19	85	4	53	56	0	0	43	0.99
26627802--26627834	17	1.9	17	93	0	57	18	27	6	48	1.71
26631324--26631418	50	1.9	50	86	0	136	31	12	7	48	1.69
26636311--26636363	23	2.2	24	77	12	56	54	3	13	28	1.56
26643917--26643946	2	15.5	2	93	6	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26656168--26656200	17	1.9	17	93	0	57	18	27	6	48	1.71
26659670--26659764	50	1.9	50	91	0	154	31	14	6	47	1.69
26683912--26683953	21	2.0	21	100	0	84	23	9	14	52	1.71
26685098--26685178	42	1.9	42	97	0	153	29	18	14	37	1.91
26701089--26701131	21	2.1	21	82	4	52	53	2	2	41	1.26
26701227--26701255	2	14.5	2	100	0	58	51	0	0	48	1.00
26705986--26706037	20	2.5	20	82	14	54	57	3	36	1	1.28
26717565--26717591	14	1.9	14	100	0	54	29	3	0	66	1.09
26725722--26725775	18	2.9	18	75	5	63	22	16	9	51	1.72
26733617--26733647	7	4.6	7	92	8	55	16	0	0	83	0.64
26733617--26733647	13	2.3	13	94	5	53	16	0	0	83	0.64
26733762--26733788	13	2.1	13	100	0	54	22	14	33	29	1.94
26742336--26742364	2	14.5	2	100	0	58	48	0	51	0	1.00
26746161--26746198	18	2.1	19	85	14	53	39	0	0	60	0.97
26756860--26756959	9	10.1	10	70	23	54	77	3	2	18	1.00
26760771--26761444	355	1.9	355	82	4	840	38	10	9	41	1.72
26761320--26761554	118	2.0	118	83	4	296	37	12	8	40	1.75
26762084--26762305	117	1.9	116	86	6	315	38	10	8	42	1.69
26762842--26763067	117	1.9	117	83	0	290	38	11	8	41	1.72
26763367--26764729	726	1.9	724	82	5	1705	35	12	12	39	1.81
26764761--26764851	45	2.0	45	82	4	112	31	16	7	43	1.76
26766261--26766311	18	2.7	18	77	16	50	27	1	1	68	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26766294--26766323	12	2.4	13	94	5	53	30	3	0	66	1.07
26766277--26766357	16	5.2	16	73	11	53	25	6	0	67	1.13
26766451--26766519	14	4.9	14	70	19	63	26	2	1	69	1.11
26766451--26766519	26	2.5	27	81	15	79	26	2	1	69	1.11
26767639--26767920	92	3.1	91	89	4	417	12	34	29	24	1.91
26767659--26767935	90	3.1	90	90	2	412	13	35	29	22	1.92
26768923--26769044	30	4.3	29	72	16	94	37	12	13	36	1.83
26768955--26769000	24	1.9	24	90	0	74	41	17	10	30	1.84
26770570--26770667	50	2.0	50	88	5	148	36	8	6	48	1.58
26774860--26775042	91	2.0	91	94	2	323	40	13	11	34	1.81
26779073--26779172	33	3.0	33	82	1	119	26	12	24	38	1.90
26781267--26781344	29	2.7	29	82	9	95	55	1	14	29	1.47
26781272--26781340	29	2.4	29	88	4	97	55	1	15	27	1.50
26790002--26790085	20	4.4	18	75	18	73	53	2	1	42	1.21
26790218--26790400	64	2.9	64	87	3	246	39	6	10	42	1.66
26792918--26792959	8	5.4	8	82	5	59	2	23	2	71	1.10
26792906--26792959	23	2.3	23	87	0	72	1	22	1	74	1.02
26792906--26792959	15	3.5	15	76	14	56	1	22	1	74	1.02
26793407--26793469	33	1.9	33	86	0	90	39	15	19	25	1.91
26797305--26797336	2	16.0	2	100	0	64	50	0	0	50	1.00
26798048--26798072	2	12.5	2	100	0	50	52	0	0	48	1.00
26798500--26798541	20	2.2	18	87	8	57	78	0	2	19	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26799427--26799481	25	2.2	25	87	9	78	45	3	0	50	1.19
26800060--26800090	12	2.6	12	89	0	53	6	41	32	19	1.77
26809284--26809323	21	1.9	21	84	0	53	82	5	0	12	0.82
26819214--26819267	19	2.9	19	76	20	60	22	5	0	72	1.05
26819225--26819282	16	3.6	16	86	4	80	18	5	0	75	0.98
26819700--26819727	3	9.3	3	100	0	56	32	0	0	67	0.91
26820325--26820369	18	2.5	18	96	0	81	20	35	13	31	1.91
26826988--26827040	2	27.0	2	92	3	90	47	1	0	50	1.12
26831384--26831408	13	1.9	13	100	0	50	80	0	0	20	0.72
26837325--26837362	19	2.1	19	85	9	53	2	36	7	52	1.45

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