genome.fa.s7.2.7.7.80.10.50.1000.2.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: Chr3
Parameters: 2 7 7 80 10 50 1000
Length:  26558743

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   

This is table  2  of  79  ( 9388 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)
438822--438853	13	2.4	14	94	5	57	37	0	12	50	1.41
440763--440805	15	2.9	15	78	0	50	27	6	25	39	1.81
444226--444289	24	2.7	23	79	13	60	46	6	1	45	1.37
444956--444995	20	1.9	20	90	10	62	52	0	5	42	1.23
448792--448837	23	2.0	23	95	0	83	54	30	6	8	1.56
460994--461680	148	4.6	149	78	7	576	35	12	11	40	1.78
465730--465767	2	19.5	2	94	5	69	50	0	0	50	1.00
472197--472271	29	2.6	29	85	4	98	29	13	18	38	1.89
474714--474751	16	2.4	16	90	0	58	39	7	5	47	1.55
475835--475860	3	8.7	3	100	0	52	30	0	34	34	1.58
478739--478790	25	2.1	23	77	19	59	34	5	0	59	1.21
480937--480972	2	18.0	2	94	0	63	47	0	0	52	1.00
482870--482901	15	2.1	16	94	5	57	62	0	0	37	0.95
485234--485283	23	2.2	23	100	0	100	58	12	0	30	1.34
486553--486592	17	2.4	17	86	0	53	27	7	15	50	1.70
505290--505342	25	2.1	26	92	3	90	60	11	9	18	1.57
506647--506683	12	3.1	12	88	0	56	27	16	45	10	1.80
508292--508410	32	3.8	32	72	5	109	38	1	16	42	1.59
509566--509605	20	2.0	20	95	0	71	45	0	12	42	1.42
529768--529810	6	6.8	6	92	7	68	16	0	0	83	0.64
529768--529810	13	3.4	12	93	6	68	16	0	0	83	0.64
529768--529810	19	2.3	19	92	8	70	16	0	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529863--529913	22	2.4	21	80	6	59	68	7	9	13	1.38
530850--530964	60	1.9	61	82	5	144	34	11	6	47	1.64
531002--531055	26	2.1	26	85	0	72	40	9	1	48	1.46
533230--533275	11	4.4	11	75	10	51	63	0	2	34	1.07
533227--533264	20	1.9	20	100	0	76	71	0	0	28	0.87
533272--533305	14	2.5	13	90	4	50	79	0	0	20	0.73
538857--538899	16	2.6	16	85	3	59	39	16	0	44	1.48
538848--538898	27	1.9	27	84	4	68	37	15	1	45	1.58
542904--542945	22	1.9	22	100	0	84	45	0	9	45	1.36
543569--543616	10	4.8	10	80	10	53	60	12	20	6	1.54
543569--543620	15	3.5	15	71	10	52	59	13	21	5	1.55
544435--544687	104	2.4	104	84	2	339	23	30	22	23	1.99
544630--544782	80	1.9	80	91	2	254	24	28	25	21	1.99
544524--544870	183	1.9	184	83	1	455	22	28	24	24	2.00
544704--545001	103	2.9	103	89	2	445	20	29	25	24	1.99
544437--544988	286	1.9	288	83	3	720	21	30	24	23	1.99
556799--556838	19	2.1	19	85	0	53	55	0	2	42	1.13
566178--566213	16	2.1	18	90	10	58	55	13	0	30	1.39
568694--568745	1	52.0	1	92	0	86	0	3	0	96	0.24
568804--568842	1	39.0	1	100	0	78	0	0	0	100	0.00
573290--573333	14	2.9	15	80	10	54	31	2	4	61	1.28
574482--574578	47	2.1	47	98	0	185	46	23	9	20	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
575010--575059	16	3.2	16	83	13	68	18	2	20	60	1.46
578118--578195	38	2.1	38	97	0	147	33	30	11	24	1.91
603443--603470	14	2.0	14	100	0	56	35	0	0	64	0.94
610859--611273	220	1.9	220	81	3	512	23	28	23	25	2.00
612025--612083	31	1.9	31	89	6	93	32	6	15	45	1.72
612517--612550	8	4.4	8	85	7	52	23	2	0	73	0.97
612638--612715	30	2.6	29	80	9	77	41	8	8	41	1.68
615991--616201	114	1.8	115	86	1	307	18	21	27	31	1.97
616090--616342	136	1.9	135	82	3	321	22	19	25	32	1.97
624821--624847	7	3.9	7	100	0	54	40	14	0	44	1.46
630023--630079	19	2.8	20	78	10	62	17	3	10	68	1.33
630433--630484	18	2.8	19	77	11	54	44	0	0	55	0.99
630427--630489	28	2.2	29	83	11	76	49	0	0	50	1.00
653067--653131	28	2.4	27	80	12	62	46	7	0	46	1.31
654457--654499	22	1.9	23	85	4	61	41	4	0	53	1.21
671709--672157	112	4.0	112	99	0	889	27	8	20	43	1.81
682656--682744	44	2.0	44	88	0	133	37	24	10	28	1.88
682562--682811	134	1.9	134	83	3	324	34	21	12	32	1.91
682536--682838	134	2.3	132	77	9	317	33	22	12	31	1.91
684714--684759	17	2.8	16	84	12	58	56	4	0	39	1.19
687003--687091	29	3.1	29	65	12	74	38	8	7	44	1.65
687146--687301	72	2.2	72	87	1	224	31	19	12	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
691420--691445	2	13.0	2	100	0	52	50	0	0	50	1.00
693622--693652	3	10.3	3	100	0	62	0	32	0	67	0.91
695909--695968	12	5.3	11	74	11	50	28	0	1	70	0.97
695908--695956	12	3.9	13	82	15	59	28	0	2	69	1.00
695922--695968	22	2.1	22	84	0	58	29	0	0	70	0.88
698526--698819	156	1.9	156	92	0	498	27	7	21	44	1.78
703863--703943	42	1.9	42	82	9	103	37	8	12	41	1.73
712233--712269	13	2.9	14	80	19	53	56	0	43	0	0.99
725872--725928	26	2.1	27	93	3	98	38	5	22	33	1.77
734121--734164	21	2.1	21	91	0	70	20	11	13	54	1.69
736832--736877	18	2.6	17	81	15	58	80	4	6	8	1.01
737873--738108	115	2.0	118	82	6	293	38	11	9	40	1.74
738147--738213	31	2.2	31	97	0	125	43	11	14	29	1.82
742216--742262	22	2.2	22	84	3	60	68	6	0	25	1.13
746153--746210	25	2.2	25	81	6	62	44	3	37	13	1.61
750480--750536	5	11.6	5	75	17	57	57	1	0	40	1.09
752062--752146	24	3.5	24	75	10	75	60	4	1	34	1.25
753028--753082	25	2.2	26	83	9	69	67	10	12	9	1.43
761819--761890	31	2.3	30	76	9	74	33	11	9	45	1.72
762444--762479	18	2.1	17	89	5	54	58	0	0	41	0.98
765412--765481	30	2.3	31	85	11	101	44	0	4	51	1.21
766242--766290	17	2.8	17	81	3	62	34	2	2	61	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
766350--766405	17	3.2	17	78	9	58	39	0	3	57	1.16
766328--766405	28	2.8	28	79	12	81	39	1	2	56	1.21
766268--766394	19	6.8	18	69	17	64	36	3	2	58	1.27
766328--766405	36	2.2	36	81	4	86	39	1	2	56	1.21
768518--768566	17	2.8	17	81	3	62	34	2	2	61	1.19
768626--768681	17	3.2	17	78	9	58	39	0	3	57	1.16
768605--768681	28	2.8	28	79	14	81	38	1	2	57	1.21
783494--783519	6	4.3	6	100	0	52	53	0	0	46	1.00
785165--785499	167	2.0	168	99	0	663	39	18	10	31	1.84
790356--790440	38	2.2	37	80	11	100	58	3	2	35	1.28
797696--797897	106	1.9	106	88	0	305	33	17	18	30	1.94
813002--813133	70	1.9	71	92	4	223	25	9	11	53	1.68
813075--813314	99	2.5	97	84	4	295	29	14	13	42	1.84
819874--819967	3	31.3	3	77	8	93	29	3	3	63	1.25
821127--821176	15	3.4	14	79	15	57	40	0	4	56	1.18
821399--821425	6	4.5	6	100	0	54	85	0	14	0	0.61
822088--822168	27	3.0	27	90	0	135	39	1	17	41	1.57
822180--822228	18	2.8	17	75	6	62	53	0	16	30	1.43
822323--822389	19	3.2	21	68	29	61	25	10	20	43	1.84
835824--835901	28	2.8	28	92	0	120	33	14	25	26	1.94
838156--838205	26	1.9	26	91	0	82	38	8	20	34	1.82
853948--853999	14	3.7	14	71	19	54	34	17	1	46	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
856207--856241	15	2.2	16	90	10	54	51	0	5	42	1.25
875605--875675	29	2.4	29	86	4	90	36	14	2	46	1.59
877268--877309	11	3.5	11	82	17	57	19	4	2	73	1.12
899809--899893	43	2.0	43	90	2	136	35	9	21	34	1.85
905472--905510	18	2.2	17	86	13	53	33	0	20	46	1.51
905736--905788	23	2.3	23	93	0	97	20	20	26	32	1.98
910164--910215	26	2.0	24	85	10	68	19	3	1	75	1.06
910231--910288	3	19.0	3	77	22	59	29	1	1	67	1.11
913668--913714	4	11.8	4	86	0	67	44	23	4	27	1.72
913668--913710	16	2.7	16	92	0	77	44	23	4	27	1.73

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