genome.fa.s1.2.7.7.80.10.50.1000.87.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  87  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)
33859034--33859104	35	2.0	35	97	0	133	25	28	9	36	1.88
33859244--33859290	22	2.1	22	84	0	58	61	0	0	38	0.96
33859263--33859313	25	2.1	24	85	3	66	64	1	1	31	1.15
33859636--33859683	22	2.2	23	85	7	64	56	2	0	41	1.11
33879992--33880092	34	3.0	34	100	0	202	29	14	11	43	1.82
33885897--33885991	2	51.0	2	74	21	82	48	1	47	2	1.20
33885894--33886002	53	2.0	52	92	5	182	45	1	46	4	1.34
33892752--33892777	2	13.0	2	100	0	52	50	0	0	50	1.00
33903947--33903975	11	2.7	11	94	5	51	51	0	0	48	1.00
33904158--33904210	14	3.6	15	73	21	58	69	0	0	30	0.88
33904169--33904241	28	2.5	28	84	10	85	67	0	1	31	1.00
33914175--33914234	13	4.8	12	74	15	50	40	18	3	38	1.67
33914292--33914348	25	2.3	25	78	6	71	52	0	1	45	1.11
33946766--33946805	21	1.9	21	85	10	55	17	2	5	75	1.10
33947677--33947709	12	2.5	13	90	9	50	81	3	0	15	0.80
33949789--33949834	23	2.0	23	100	0	92	21	8	34	34	1.84
33966623--33966652	10	3.1	10	95	4	53	93	0	6	0	0.35
33972398--33972455	25	2.3	25	84	0	80	60	0	3	36	1.14
33987915--33987981	2	35.0	2	85	14	97	46	0	52	0	1.00
33995300--33995482	85	2.2	85	98	0	357	27	13	25	34	1.93
34009706--34009731	3	8.7	3	100	0	52	69	30	0	0	0.89
34011390--34011418	8	3.6	8	100	0	58	75	10	0	13	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34011801--34011870	32	2.2	32	94	0	122	30	24	8	37	1.85
34014666--34014708	16	2.7	16	89	10	54	32	6	0	60	1.23
34014672--34014708	16	2.2	17	95	4	67	35	8	0	56	1.29
34014672--34014714	17	2.5	17	88	7	52	37	6	2	53	1.41
34014740--34014784	7	6.3	7	82	5	54	33	0	2	64	1.06
34014721--34014779	28	2.1	29	84	9	77	33	1	3	61	1.23
34014738--34014779	15	2.9	15	80	16	52	33	0	2	64	1.07
34038356--34038383	6	4.7	6	100	0	56	14	0	0	85	0.59
34040508--34040548	6	6.7	6	88	5	64	17	0	2	80	0.82
34045811--34045928	60	2.0	60	94	0	209	42	15	12	29	1.84
34071371--34071463	32	2.7	34	83	11	111	44	2	13	39	1.57
34074046--34074131	46	1.9	44	90	4	136	31	25	18	24	1.98
34082784--34082840	23	2.4	24	82	5	71	38	1	5	54	1.33
34083063--34083140	29	2.7	29	76	6	77	51	5	6	37	1.50
34084150--34084243	45	2.1	45	83	0	116	44	5	5	44	1.49
34084237--34084354	23	5.1	22	70	16	80	48	2	2	46	1.29
34085187--34085307	59	2.1	59	90	3	190	22	28	11	38	1.89
34086690--34086746	26	2.1	27	84	9	73	33	17	8	40	1.81
34086689--34086747	27	2.2	28	79	14	70	35	16	8	38	1.80
34094023--34094088	21	3.0	21	80	6	69	16	27	1	54	1.51
34094501--34094571	24	3.0	24	97	0	133	32	16	12	38	1.87
34094771--34094816	22	2.1	22	91	0	74	13	32	26	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34107878--34109169	294	4.4	294	84	4	1575	32	11	18	37	1.86
34109794--34110585	296	2.7	294	83	2	991	32	11	18	37	1.87
34110451--34110685	100	2.3	100	86	1	310	29	9	15	44	1.79
34110701--34112113	294	4.9	286	83	5	1478	32	10	19	37	1.86
34111049--34112113	587	1.8	588	84	2	1458	32	10	18	37	1.86
34122814--34123041	118	1.9	119	85	2	316	22	21	20	36	1.95
34129505--34129540	16	2.2	16	90	5	54	72	0	0	27	0.85
34129485--34129540	18	3.3	17	77	5	60	71	0	0	28	0.86
34153264--34153288	13	1.9	13	100	0	50	48	0	32	20	1.50
34154304--34154435	41	3.2	41	77	6	169	30	6	8	55	1.54
34154290--34154411	40	3.1	39	74	6	136	27	5	9	58	1.51
34154392--34154523	65	2.0	66	94	1	230	37	8	4	50	1.53
34155612--34155894	102	2.8	102	78	5	277	41	12	21	24	1.87
34157175--34157238	29	2.2	29	83	8	85	48	9	23	18	1.77
34157197--34157563	184	2.0	183	95	0	662	41	18	19	20	1.90
34157680--34157867	35	5.4	34	86	2	205	18	19	18	43	1.88
34157664--34157867	70	2.9	70	80	4	232	18	18	18	44	1.88
34163309--34163334	13	2.0	13	100	0	52	53	15	7	23	1.67
34175417--34175469	2	26.5	2	87	11	74	1	50	0	45	1.12
34195969--34196038	35	2.0	35	94	0	122	31	11	0	57	1.34
34196889--34196937	24	2.0	24	100	0	98	40	8	12	38	1.72
34196893--34196967	24	3.0	25	86	7	91	41	9	14	34	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34196897--34196967	26	2.8	25	85	8	83	42	9	14	33	1.78
34196982--34197047	28	2.4	27	87	5	96	37	7	6	48	1.56
34202106--34202196	24	3.8	24	77	2	94	19	14	21	43	1.87
34202176--34202268	45	2.1	45	89	0	141	26	17	20	35	1.94
34202176--34202296	45	2.7	45	84	2	127	28	14	19	37	1.92
34203708--34203738	2	15.5	2	93	0	53	48	3	0	48	1.17
34205557--34205583	2	13.5	2	100	0	54	0	51	0	48	1.00
34208074--34208155	41	2.0	41	97	0	155	36	18	14	30	1.91
34213315--34213433	15	7.5	15	72	10	85	0	29	12	57	1.42
34213356--34213457	18	6.0	17	70	17	70	0	33	12	53	1.39
34213315--34213448	66	2.1	65	84	5	173	0	30	12	55	1.42
34213294--34213444	33	4.7	32	78	8	153	0	32	11	55	1.40
34215788--34215856	25	2.6	27	82	8	72	44	0	0	55	0.99
34219093--34219176	30	2.8	30	85	3	89	40	0	2	57	1.12
34219272--34219312	21	2.0	21	95	0	73	48	9	4	36	1.58
34223574--34223617	21	2.1	21	100	0	88	34	25	9	31	1.87
34228324--34228348	1	25.0	1	100	0	50	0	0	0	100	0.00
34237467--34237511	10	4.5	10	85	0	54	33	0	15	51	1.44
34237467--34237515	14	3.4	14	86	10	71	32	0	16	51	1.45
34237459--34237518	16	3.6	16	88	4	75	30	0	20	50	1.49
34237475--34237518	4	11.5	4	85	9	56	31	0	18	50	1.47
34238187--34238216	16	1.9	16	93	6	53	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34250424--34250469	23	2.0	23	100	0	92	52	17	17	13	1.75
34265180--34265214	17	2.1	17	88	0	52	28	14	11	45	1.79
34273333--34273367	18	1.9	18	88	11	54	31	0	40	28	1.57
34283682--34283711	2	15.0	2	100	0	60	50	0	0	50	1.00
34294600--34294662	4	15.5	4	75	21	60	19	1	3	76	1.01
34294599--34294659	11	5.1	11	81	18	61	18	1	3	77	0.99
34294600--34294653	15	3.7	15	87	7	67	18	0	3	77	0.91
34294599--34294662	24	2.7	23	85	11	76	18	1	3	76	1.00
34294783--34294831	16	3.1	16	82	5	55	36	0	0	63	0.95
34294817--34294876	29	2.0	29	84	9	77	50	0	0	50	1.00
34299893--34300009	29	4.1	27	84	7	85	46	8	5	39	1.59
34299918--34300009	29	3.2	29	90	3	134	43	8	5	42	1.58
34303587--34303648	32	1.9	33	83	9	83	33	3	12	50	1.57
34309498--34309536	2	19.5	2	100	0	78	0	48	0	51	1.00
34317361--34317414	27	2.0	27	100	0	108	22	22	14	40	1.90
34321844--34321884	19	2.2	19	91	8	66	46	0	2	51	1.14
34324429--34324460	17	1.9	16	93	6	55	62	0	0	37	0.95
34324764--34324903	49	2.9	49	73	16	116	52	5	7	33	1.54
34326216--34326243	8	3.5	8	100	0	56	89	10	0	0	0.49
34333363--34333463	27	3.8	28	77	15	90	43	1	1	52	1.23
34334027--34334093	29	2.3	29	92	0	107	34	8	8	47	1.66
34338231--34338309	31	2.5	31	79	6	79	51	1	7	39	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34354734--34354824	47	1.9	47	100	0	182	41	6	4	47	1.49
34354788--34354891	30	3.5	28	79	7	109	39	2	3	53	1.34
34411349--34411389	20	2.0	20	86	9	57	46	4	41	7	1.53
34412484--34412527	13	3.4	13	87	0	61	54	0	2	43	1.12
34413760--34413799	15	2.4	17	84	16	57	57	2	0	40	1.12
34414863--34414962	47	2.1	46	85	10	132	36	14	26	24	1.93
34415889--34415988	2	51.5	2	83	11	111	48	0	3	48	1.17
34419486--34419536	23	2.2	23	79	6	59	17	27	0	54	1.43
34433105--34433268	85	2.0	80	88	5	238	53	7	18	21	1.69
34437742--34437766	4	6.2	4	100	0	50	28	0	0	72	0.86

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