genome.fa.s4.2.7.7.80.10.50.1000.19.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  19  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)
6507067--6507316	68	3.7	68	82	3	265	36	11	17	34	1.86
6507796--6507864	20	3.4	19	76	9	57	39	11	14	34	1.82
6510458--6510574	43	2.7	43	82	2	137	22	35	17	24	1.96
6517241--6517485	35	7.0	35	83	3	271	36	7	12	43	1.71
6517241--6517483	71	3.5	71	83	3	280	36	7	12	43	1.71
6517230--6517499	142	1.9	138	86	3	378	38	7	11	42	1.69
6522508--6522569	5	12.2	5	77	16	56	72	0	0	27	0.85
6522510--6522567	19	3.2	19	83	9	68	74	0	0	25	0.82
6522656--6522715	27	2.3	26	88	2	84	71	0	1	26	0.95
6522933--6522976	15	2.9	15	86	0	61	38	25	4	31	1.76
6529066--6529110	21	2.1	23	88	12	69	33	0	4	62	1.15
6537170--6537218	27	1.9	25	84	12	64	65	16	2	16	1.37
6537170--6537225	27	2.2	25	81	12	60	67	14	1	16	1.31
6537792--6538177	175	2.2	175	89	0	576	20	6	25	47	1.73
6538627--6538997	202	1.8	199	81	10	459	42	2	12	43	1.55
6538962--6538991	12	2.5	12	88	0	51	56	0	6	36	1.26
6540712--6540816	55	1.9	55	92	0	174	46	15	12	25	1.80
6550736--6550770	2	17.0	2	94	5	61	48	2	0	48	1.16
6551515--6551877	184	2.0	179	92	3	602	36	14	12	37	1.83
6551871--6552031	77	2.1	77	90	0	250	39	12	8	39	1.74
6560281--6560365	30	2.8	30	83	3	100	38	10	21	29	1.87
6574547--6574576	2	15.0	2	100	0	60	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)
6574599--6574724	42	3.0	42	84	4	164	22	20	32	24	1.98
6574768--6574798	2	15.5	2	100	0	62	48	0	0	51	1.00
6587281--6587315	16	2.1	18	89	10	56	57	0	5	37	1.23
6587290--6587359	20	3.6	19	72	12	61	54	1	7	37	1.37
6588613--6588753	29	4.9	28	82	7	165	38	13	9	39	1.77
6588591--6588755	59	2.8	58	85	4	206	41	12	9	37	1.74
6602012--6602117	38	2.7	40	83	2	135	20	12	40	26	1.88
6610251--6610407	52	3.0	52	94	0	278	25	14	29	31	1.94
6610389--6610464	35	2.1	36	87	2	109	25	13	32	28	1.93
6612229--6612270	21	2.0	21	95	0	75	21	28	21	28	1.99
6612800--6612905	38	2.7	39	86	4	151	23	40	16	19	1.91
6613604--6613696	42	2.2	42	98	0	177	35	2	31	31	1.70
6619636--6619675	21	1.9	21	94	0	71	35	17	15	32	1.91
6626727--6626790	28	2.2	31	83	8	80	31	6	18	43	1.75
6635754--6635853	36	2.7	36	84	10	114	41	8	25	26	1.82
6635754--6635870	36	3.2	35	81	10	112	42	6	27	23	1.79
6636018--6636050	15	2.2	15	89	10	50	87	0	9	3	0.63
6636893--6637036	42	3.4	42	84	3	182	22	18	37	21	1.94
6637090--6637130	2	20.5	2	94	0	73	51	2	0	46	1.14
6640156--6640271	42	2.7	42	89	1	160	27	21	31	19	1.98
6647619--6647794	28	6.0	28	79	10	165	36	11	9	42	1.74
6647619--6647788	60	2.9	58	81	10	177	37	11	8	41	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6647619--6647788	29	5.8	28	80	10	171	37	11	8	41	1.73
6658864--6659150	28	9.9	28	80	7	286	42	9	11	36	1.74
6658867--6659150	59	4.9	59	85	5	307	42	9	11	36	1.74
6661180--6661265	37	2.3	37	90	4	129	32	9	33	24	1.87
6665669--6665705	18	2.0	19	85	15	51	32	24	5	37	1.78
6665925--6665965	21	2.1	19	86	9	55	29	0	9	60	1.28
6667931--6668124	73	2.7	73	82	10	229	39	22	17	20	1.92
6671061--6671085	13	1.9	13	100	0	50	48	8	0	44	1.32
6681931--6681967	17	2.2	17	90	0	56	29	24	35	10	1.89
6682304--6682504	72	2.8	72	76	12	207	40	21	17	20	1.91
6688027--6688061	16	2.2	16	100	0	70	25	11	17	45	1.81
6688911--6689010	42	2.4	42	91	0	164	21	24	33	22	1.98
6693303--6693343	20	2.0	21	85	4	57	36	7	19	36	1.80
6693607--6693677	35	2.1	35	89	2	108	25	14	7	53	1.65
6701905--6701929	13	1.9	13	100	0	50	48	8	0	44	1.32
6705305--6705349	15	3.0	15	84	12	65	57	20	2	20	1.51
6713367--6713405	21	1.9	20	84	5	51	48	5	15	30	1.66
6721554--6721586	17	1.9	17	88	11	50	42	12	3	42	1.57
6721738--6721867	28	4.5	28	75	11	102	43	8	7	40	1.64
6721738--6721864	59	2.2	57	80	6	141	43	7	7	40	1.63
6724994--6725096	38	2.6	39	86	6	138	22	40	16	20	1.91
6724994--6725092	19	5.1	19	66	9	65	21	40	17	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6726944--6727325	87	4.5	86	79	13	382	41	12	8	37	1.74
6726944--6727325	29	13.6	28	78	9	300	41	12	8	37	1.74
6727116--6727152	18	2.0	19	94	5	67	62	5	5	27	1.39
6727087--6727181	47	2.0	48	85	6	131	49	10	7	32	1.65
6726997--6727258	134	2.0	134	89	6	406	42	11	7	37	1.70
6737012--6737061	21	2.3	21	89	3	82	22	24	32	22	1.98
6738466--6738719	59	4.4	58	82	5	282	36	13	9	40	1.77
6738466--6738724	29	8.9	29	81	5	292	36	13	9	40	1.77
6738466--6738719	87	2.9	88	84	3	334	36	13	9	40	1.77
6749183--6749279	50	1.9	50	91	4	160	38	9	12	40	1.75
6749185--6749301	50	2.3	50	82	8	139	39	8	12	39	1.74
6749210--6749356	79	1.9	79	83	8	192	38	7	14	40	1.74
6749236--6749388	79	1.9	78	83	6	193	37	6	16	39	1.74
6749280--6749408	50	2.6	49	80	12	138	37	6	17	39	1.74
6750913--6751023	50	2.2	50	82	6	127	36	21	8	34	1.83
6751031--6751072	21	2.0	21	95	0	75	35	19	9	35	1.84
6750954--6751107	79	1.9	79	85	2	211	33	16	9	40	1.81
6751030--6751129	50	2.0	50	94	0	173	39	14	8	39	1.75
6756857--6756900	20	2.2	21	88	8	65	20	22	15	40	1.90
6757770--6757868	38	2.5	38	85	4	117	18	16	42	23	1.89
6764848--6764929	34	2.4	34	81	4	85	19	17	25	37	1.93
6764922--6765005	36	2.4	34	74	16	91	32	11	16	39	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6771541--6771591	26	2.0	26	84	7	68	27	21	17	33	1.96
6771645--6771682	20	1.9	20	100	0	76	44	21	5	28	1.73
6777000--6777030	16	1.9	16	93	0	53	51	3	3	41	1.34
6778322--6778361	21	1.9	21	94	0	71	10	10	22	57	1.61
6791721--6791867	57	2.6	56	84	3	179	39	12	23	24	1.89
6792857--6792925	32	2.1	33	89	7	106	57	1	4	36	1.27
6800242--6800276	11	3.4	11	84	15	56	65	8	25	0	1.21
6800289--6800329	21	1.9	22	95	5	75	53	7	21	17	1.67
6800288--6800335	21	2.2	21	85	3	69	60	6	18	14	1.55
6805312--6805338	13	2.1	13	100	0	54	40	29	7	22	1.81
6810338--6810401	31	2.1	31	100	0	128	34	3	18	43	1.66
6810983--6811076	35	2.6	36	83	1	109	19	13	40	26	1.89
6810945--6811076	36	3.7	35	75	6	124	19	12	40	26	1.88
6811357--6811537	62	2.9	63	81	2	222	25	24	17	32	1.96
6823618--6824036	60	6.9	60	87	4	513	19	32	21	26	1.97
6823618--6824041	181	2.3	181	83	5	534	19	32	21	26	1.97
6824571--6824688	59	2.0	60	91	1	193	1	34	3	60	1.24
6827145--6827206	30	2.1	30	90	6	99	41	12	30	14	1.83
6827439--6827514	40	1.9	39	81	7	91	31	9	15	43	1.79
6828354--6828581	114	2.0	112	97	2	438	35	19	15	28	1.92
6831737--6831911	67	2.6	67	88	4	257	34	26	13	24	1.93
6831764--6831914	35	4.6	34	74	12	127	37	27	12	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6835323--6835359	17	2.2	17	90	0	56	10	35	21	32	1.88
6835585--6835626	17	2.5	17	100	0	84	47	23	0	28	1.52
6842280--6842351	31	2.2	33	80	12	85	16	23	11	48	1.78
6842315--6842376	25	2.5	25	91	0	97	16	22	12	48	1.80
6842363--6842394	16	2.0	16	93	0	55	15	12	0	71	1.14
6842597--6842708	34	3.3	34	88	2	118	34	25	9	30	1.88
6849446--6849633	67	2.8	66	85	3	243	36	25	13	25	1.93
6857062--6857169	35	3.1	35	90	0	135	27	8	32	31	1.86
6858336--6858382	22	2.1	23	84	11	62	29	6	14	48	1.69
6860642--6860684	21	2.0	21	86	0	59	16	25	9	48	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