genome.fa.s5.2.7.7.80.10.50.1000.27.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: chr5
Parameters: 2 7 7 80 10 50 1000
Length:  39371879

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   94   95   96   
          97   98   99   100   101   102   103   

This is table  27  of  103  ( 12320 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)
10068689--10068745	23	2.5	23	88	0	78	33	38	1	26	1.67
10068758--10068876	43	2.8	43	85	5	152	21	34	19	25	1.96
10072497--10072667	31	5.5	31	95	0	288	37	20	18	23	1.94
10074145--10074213	3	24.7	3	74	14	58	24	1	1	72	1.01
10074139--10074257	22	5.4	21	68	22	66	23	4	0	71	1.09
10074142--10074256	30	3.9	29	76	17	96	23	4	0	71	1.09
10089562--10089635	3	26.3	3	73	13	59	24	1	1	72	1.00
10089565--10089644	37	2.2	36	82	8	92	23	2	1	72	1.04
10103757--10103803	21	2.4	19	80	13	58	34	36	6	23	1.80
10103762--10103805	21	2.1	21	91	0	70	38	34	6	20	1.79
10105146--10105205	30	2.0	31	86	3	86	66	1	3	28	1.17
10115173--10115259	33	2.6	33	81	5	104	28	5	0	65	1.15
10124883--10125105	99	2.3	99	82	1	268	30	16	40	12	1.85
10126053--10126137	15	5.7	15	71	18	61	69	1	3	25	1.12
10132875--10132914	19	2.0	20	95	4	73	42	27	0	30	1.56
10141024--10141627	38	15.7	38	81	8	630	23	15	19	41	1.89
10141038--10141550	75	6.7	76	82	6	610	22	15	19	41	1.90
10141038--10141550	113	4.5	111	82	7	609	22	15	19	41	1.90
10141640--10141717	1	78.0	1	74	0	66	87	11	0	1	0.61
10141483--10141653	83	2.0	84	79	3	184	30	14	16	38	1.89
10141640--10141718	12	6.9	12	79	16	80	86	12	0	1	0.64
10141640--10141718	18	4.6	17	82	16	85	86	12	0	1	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10141640--10141718	30	2.8	27	82	16	97	86	12	0	1	0.64
10142397--10142601	99	2.1	100	85	2	270	29	17	40	12	1.86
10143593--10143667	15	4.9	15	75	13	73	69	0	4	26	1.06
10143600--10143662	4	16.0	4	75	15	60	69	0	3	26	1.03
10143592--10143662	12	6.1	12	69	21	53	70	0	2	26	1.01
10143593--10143668	28	2.9	27	84	13	104	69	0	3	26	1.05
10143898--10143938	15	2.7	15	88	0	64	80	0	2	17	0.82
10143904--10143940	7	5.1	7	87	6	56	81	0	2	16	0.81
10152636--10153045	206	2.0	206	91	0	660	45	11	9	32	1.73
10153264--10153297	2	17.0	2	100	0	68	50	0	0	50	1.00
10154161--10154232	28	2.6	28	100	0	144	44	11	16	27	1.82
10154413--10154463	25	2.0	24	85	7	66	54	11	5	27	1.59
10156406--10156438	16	2.1	17	88	11	52	9	18	0	72	1.10
10157847--10157872	5	5.2	5	100	0	52	38	0	0	61	0.96
10158406--10158442	18	2.1	18	89	0	56	18	10	32	37	1.86
10164901--10164942	2	21.0	2	100	0	84	0	50	0	50	1.00
10164942--10164976	2	17.5	2	93	0	61	45	0	2	51	1.16
10167673--10167700	12	2.3	12	100	0	56	10	0	14	75	1.06
10169645--10169721	37	2.1	36	87	2	109	33	16	12	36	1.88
10172475--10172798	38	8.6	38	86	5	362	42	20	16	21	1.89
10173677--10173707	12	2.5	12	94	5	53	12	0	9	77	0.99
10173676--10173709	13	2.6	13	86	13	52	14	0	8	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10184785--10184886	17	6.1	16	71	18	66	22	3	0	72	1.07
10184791--10184849	12	5.2	11	76	13	57	23	1	1	72	1.02
10184817--10184868	24	2.2	24	83	6	63	21	7	0	71	1.11
10184839--10184879	16	2.5	16	88	4	55	19	7	0	73	1.07
10186343--10186373	16	1.9	16	100	0	62	22	0	0	77	0.77
10188978--10189069	36	2.5	37	85	5	116	36	14	8	40	1.76
10194637--10194668	2	16.0	2	100	0	64	50	0	0	50	1.00
10199505--10199529	2	12.5	2	100	0	50	0	0	48	52	1.00
10203766--10203809	15	2.9	15	100	0	88	34	20	31	13	1.92
10213355--10213419	31	2.1	31	82	5	78	56	6	6	30	1.48
10218161--10218325	54	3.1	54	99	0	321	41	20	12	24	1.87
10220411--10220510	21	4.7	22	75	6	98	26	8	20	46	1.78
10220412--10220515	43	2.4	43	82	1	129	26	8	18	46	1.78
10220411--10220531	22	5.6	22	71	10	72	25	9	19	45	1.80
10220566--10220754	26	7.4	26	86	4	260	37	23	12	26	1.91
10220543--10220738	26	7.9	23	83	7	144	36	24	12	26	1.91
10220543--10220754	74	2.8	75	86	5	257	37	24	12	26	1.90
10220744--10220813	21	3.3	21	85	0	95	37	24	14	24	1.92
10220937--10221062	60	2.1	60	82	5	148	39	19	8	32	1.82
10221350--10221424	36	2.1	36	100	0	150	29	2	33	34	1.72
10221459--10221509	24	2.2	23	86	6	68	56	1	5	35	1.35
10222302--10222443	53	2.6	55	82	4	171	40	14	15	28	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10222579--10222722	51	2.9	50	82	6	175	40	15	12	31	1.84
10222579--10222728	25	5.9	26	71	10	114	40	14	13	31	1.85
10222797--10222872	28	2.7	27	74	9	64	42	19	14	23	1.88
10233919--10233968	2	25.0	2	95	0	91	50	2	0	48	1.12
10235983--10236028	15	3.1	14	87	6	65	26	4	15	54	1.59
10238847--10238896	18	2.7	19	78	6	59	22	0	2	76	0.89
10241620--10241662	15	3.1	14	80	9	52	48	2	4	44	1.36
10243599--10243629	15	2.1	15	93	0	53	22	0	0	77	0.77
10243790--10243823	17	1.9	17	88	5	50	35	5	0	58	1.22
10244358--10244409	22	2.4	22	75	15	54	65	5	7	21	1.40
10261330--10261379	24	2.1	24	100	0	100	26	0	24	50	1.50
10276116--10276160	14	3.1	14	83	3	63	28	2	13	55	1.50
10284686--10284741	20	2.8	20	79	10	62	44	1	7	46	1.41
10286604--10286638	15	2.4	15	90	4	54	45	5	0	48	1.26
10286663--10286705	15	2.7	16	82	17	54	53	4	0	41	1.21
10287417--10287568	44	3.5	44	78	1	162	9	38	8	42	1.69
10287422--10287584	88	1.8	88	83	6	213	12	39	8	39	1.73
10290747--10290873	41	3.0	43	86	3	186	17	0	21	60	1.41
10290747--10290900	43	3.7	43	84	4	183	20	0	20	59	1.43
10290921--10291006	36	2.4	34	80	7	82	26	1	5	66	1.22
10304198--10304259	29	2.2	28	78	10	74	41	0	0	58	0.98
10304203--10304256	29	1.9	29	85	7	76	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10306913--10306962	2	26.0	2	92	8	86	52	0	0	48	1.00
10306913--10306962	17	3.0	17	97	2	93	52	0	0	48	1.00
10314228--10314288	2	30.5	2	86	0	86	44	6	0	49	1.28
10314228--10314287	22	2.7	22	97	0	111	43	6	0	50	1.28
10403119--10403162	23	1.9	23	100	0	88	52	9	13	25	1.70
10403027--10403256	119	1.9	119	91	0	379	48	4	25	21	1.70
10404402--10404436	2	17.5	2	88	11	54	48	2	0	48	1.16
10405624--10405683	30	2.1	29	81	6	68	31	8	21	38	1.83
10421519--10421563	18	2.5	18	92	0	72	48	6	15	28	1.70
10421537--10423864	252	9.3	251	87	3	3159	47	7	12	32	1.69
10421537--10423864	751	3.1	754	88	3	3165	47	7	12	32	1.69
10423955--10424010	27	2.1	27	83	6	69	60	5	3	30	1.36
10432537--10432569	4	8.2	4	100	0	66	0	48	0	51	1.00
10433820--10433860	20	2.0	20	90	0	64	51	7	26	14	1.69
10435288--10435322	18	1.9	18	88	0	52	48	20	14	17	1.81
10444074--10444113	18	2.3	18	91	4	64	82	2	10	5	0.91
10447712--10447761	20	2.5	20	90	0	73	46	14	18	22	1.84
10447641--10447816	93	1.9	93	81	4	212	43	17	18	21	1.88
10447647--10447836	93	2.0	93	80	6	206	43	15	18	22	1.88
10453016--10453040	13	1.9	13	100	0	50	48	8	0	44	1.32
10457449--10457489	21	2.1	19	86	9	55	29	0	9	60	1.28
10460125--10460163	2	20.0	2	89	5	62	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10460497--10460538	12	3.5	12	75	12	50	21	16	0	61	1.34
10461876--10461926	25	2.0	25	92	0	84	35	15	19	29	1.93
10463606--10463680	39	1.9	39	88	0	114	29	28	24	18	1.98
10468182--10468254	30	2.3	32	83	6	96	34	19	10	35	1.87
10468314--10468384	30	2.4	30	87	0	97	42	8	16	32	1.79
10470351--10470442	36	2.5	37	79	8	100	38	22	25	14	1.92
10481155--10481225	36	2.0	36	88	5	108	32	28	8	30	1.87
10488883--10489019	60	2.3	60	89	3	204	24	34	12	28	1.92
10490132--10490194	30	2.1	30	100	0	126	19	36	12	31	1.89
10490239--10490272	18	1.9	17	88	5	50	2	20	0	76	0.92

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   94   95   96   
          97   98   99   100   101   102   103