genome.fa.s5.2.7.7.80.10.50.1000.2.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: Chr4
Parameters: 2 7 7 80 10 50 1000
Length:  30015117

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   

This is table  2  of  85  ( 10117 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)
429638--429701	32	2.0	32	100	0	128	34	15	15	34	1.90
431393--431427	18	2.0	18	88	5	54	48	14	11	25	1.77
438826--438879	23	2.5	21	75	6	54	38	11	7	42	1.68
442253--442285	15	2.1	16	88	5	50	36	6	6	51	1.51
442292--442316	9	2.8	9	100	0	50	32	0	0	68	0.90
444269--444326	20	3.0	20	73	17	59	50	10	0	39	1.37
450629--450664	12	3.0	12	83	0	54	2	22	30	44	1.67
452189--452235	16	3.0	16	73	17	53	38	0	2	59	1.09
458120--458144	2	12.5	2	100	0	50	48	0	0	52	1.00
460813--461036	111	2.0	111	97	0	421	36	12	16	34	1.87
486892--486948	28	2.0	28	83	6	71	35	1	15	47	1.56
488252--488310	31	1.9	31	82	6	75	32	8	16	42	1.79
490209--490268	27	2.2	27	93	0	102	40	13	0	46	1.43
490404--490485	18	4.4	19	80	4	96	50	0	10	39	1.38
490404--490485	37	2.2	37	97	0	155	50	0	10	39	1.38
490505--490564	27	2.2	27	93	0	102	40	13	0	46	1.43
490183--490781	296	2.0	297	99	0	1191	45	11	10	32	1.73
490716--490779	18	3.5	18	80	4	83	48	0	10	40	1.38
490700--490795	37	2.6	37	98	0	183	50	0	11	38	1.39
490700--490795	19	5.2	19	79	5	124	50	0	11	38	1.39
490971--491034	27	2.3	28	84	7	78	64	1	0	34	1.03
491839--491917	27	2.9	27	94	0	131	13	31	21	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496232--496289	29	2.1	27	87	12	84	39	17	8	34	1.80
510700--510787	31	2.8	31	81	3	97	39	6	2	51	1.41
510879--510915	1	37.0	1	100	0	74	0	0	0	100	0.00
520243--520282	20	2.0	20	100	0	80	35	15	15	35	1.88
520449--520489	18	2.3	18	95	0	73	24	24	26	24	2.00
523805--523905	15	6.7	15	71	8	80	26	39	15	17	1.90
523801--524063	72	3.6	72	84	3	271	25	37	15	21	1.93
523880--524150	87	3.3	85	71	15	253	22	36	15	25	1.93
524132--524256	42	3.0	42	98	0	241	14	36	21	28	1.92
524216--524364	72	2.1	72	92	0	244	22	38	16	21	1.92
524372--524409	15	2.5	15	91	0	58	10	42	15	31	1.81
524208--524652	180	2.5	180	95	0	782	22	41	15	21	1.90
524274--524472	108	1.8	108	93	0	344	22	41	14	21	1.89
524387--524544	72	2.2	72	94	0	280	22	40	15	21	1.90
524529--524571	21	2.0	21	86	0	59	13	44	18	23	1.86
524459--524687	108	2.1	108	90	0	359	20	41	16	21	1.90
524552--524589	15	2.5	15	91	0	58	10	42	15	31	1.81
530725--530763	18	2.2	18	86	9	53	25	0	10	64	1.25
545746--545775	5	6.0	5	100	0	60	0	60	0	40	0.97
548027--548209	91	2.0	92	98	1	359	41	22	8	26	1.83
549422--549468	20	2.3	20	88	0	67	59	0	0	40	0.97
549443--549544	38	2.6	38	90	4	150	60	0	1	37	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549452--549515	11	6.4	11	77	17	68	59	0	1	39	1.07
549496--549552	29	2.0	27	93	6	96	59	0	1	38	1.08
549443--549564	38	3.2	38	83	6	106	61	0	2	36	1.09
549501--549561	29	2.1	29	87	3	88	65	0	3	31	1.09
550240--550284	19	2.3	19	80	3	54	57	0	4	37	1.19
550251--550305	29	2.0	26	86	10	74	60	0	5	34	1.20
550300--550346	17	2.8	17	83	0	58	61	0	0	38	0.96
551173--551203	15	2.1	15	93	0	53	38	0	3	58	1.15
553363--553524	80	2.0	81	98	1	317	40	13	7	38	1.73
555083--555123	3	13.7	3	94	0	73	34	0	29	36	1.58
556659--556690	6	5.5	6	96	3	57	0	12	0	87	0.54
557290--557452	80	2.0	81	98	1	319	43	7	3	45	1.49
558345--558387	13	3.4	13	78	18	54	65	6	2	25	1.30
559723--559784	31	2.0	32	90	3	99	19	4	22	53	1.64
571057--571082	12	2.2	12	100	0	52	50	30	0	19	1.48
581408--581449	21	2.0	21	85	0	57	19	4	7	69	1.31
593778--593840	31	2.0	31	81	0	72	58	1	7	31	1.36
596851--596895	22	2.0	24	83	16	60	53	24	6	15	1.66
601618--601651	17	2.0	17	94	0	59	38	2	11	47	1.55
605986--606366	190	2.0	190	93	2	649	36	13	19	30	1.91
614497--614521	2	12.5	2	100	0	50	48	0	0	52	1.00
630037--630077	13	3.2	13	82	3	57	39	2	0	58	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
639255--639438	98	1.9	97	85	3	253	22	12	15	49	1.78
639545--639602	28	2.0	29	93	3	100	17	8	17	56	1.64
639924--639965	8	5.1	8	82	5	57	69	0	0	30	0.89
639925--639964	17	2.4	17	86	0	53	67	0	0	32	0.91
639924--639971	25	1.9	25	86	0	69	68	2	2	27	1.11
640232--640264	13	2.5	14	90	9	52	39	9	15	36	1.79
640271--640534	88	2.9	88	78	12	241	31	7	16	44	1.74
643668--643692	9	2.8	9	100	0	50	52	0	0	48	1.00
644430--644581	83	1.9	81	86	5	216	22	14	13	49	1.78
644588--644847	82	3.1	82	94	3	434	23	14	10	52	1.72
649547--650572	513	2.0	513	100	0	2052	35	14	13	36	1.86
654122--654165	23	2.0	23	86	13	65	56	4	0	38	1.20
655124--655399	136	2.0	137	97	2	529	45	3	7	43	1.51
655335--655385	22	2.3	22	80	6	59	49	1	0	49	1.12
667284--667415	44	3.0	44	90	0	201	38	15	13	31	1.87
667124--667617	247	2.0	248	90	2	780	40	16	15	27	1.88
667531--667617	44	2.0	44	95	0	156	40	14	13	31	1.86
668592--668633	20	2.0	21	86	13	61	47	0	14	38	1.44
668696--668767	31	2.3	32	83	6	87	26	6	11	55	1.60
669051--669079	8	3.8	8	95	4	51	55	0	0	44	0.99
669077--669107	14	2.1	15	94	5	55	67	0	6	25	1.14
672782--672818	17	2.2	17	95	0	65	35	2	16	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672940--672984	24	1.9	23	90	4	72	35	2	2	60	1.22
673199--673227	2	14.5	2	100	0	58	51	0	0	48	1.00
679750--679778	2	14.5	2	100	0	58	51	0	0	48	1.00
688437--688470	16	2.0	18	88	11	54	47	5	5	41	1.52
697389--697413	7	3.6	7	100	0	50	44	28	12	16	1.83
700654--700693	21	1.9	21	89	0	62	15	7	0	77	0.98
700646--700712	32	2.1	32	83	5	82	11	10	4	73	1.24
705479--705508	7	4.3	7	100	0	60	13	60	13	13	1.60
712707--712748	20	2.2	19	86	4	57	66	2	2	28	1.16
714023--714079	15	3.5	15	69	17	51	45	3	1	49	1.29
719989--720121	71	1.9	71	82	4	169	31	16	20	31	1.95
722891--723266	179	2.1	177	88	4	551	20	16	19	43	1.88
734980--735022	20	2.2	20	87	4	61	51	0	0	48	1.00
734970--735025	28	2.0	28	82	6	69	50	1	0	48	1.11
735380--735471	29	3.1	30	79	7	89	31	8	6	53	1.57
735400--735471	30	2.5	28	81	4	81	33	8	5	52	1.55
737413--737474	27	2.2	28	88	11	92	64	0	1	33	1.03
745057--745092	6	6.0	6	100	0	72	0	16	16	66	1.25
750689--750805	58	2.0	58	100	0	234	37	13	16	32	1.88
758491--758575	32	2.7	33	82	7	97	47	8	10	34	1.68
759745--760356	306	2.0	306	99	0	1197	34	16	18	30	1.93
762119--762143	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
763737--763799	30	2.1	30	87	0	90	25	6	14	53	1.64
763845--768759	63	78.0	63	99	0	9812	26	3	14	55	1.54
768774--768806	11	2.9	12	86	13	52	66	0	0	33	0.92
783067--783103	2	18.5	2	100	0	74	48	0	0	51	1.00
796478--796503	3	8.7	3	100	0	52	30	0	0	69	0.89
797319--797643	118	2.7	121	83	7	385	19	15	23	41	1.89
802293--802328	6	6.0	6	86	0	54	13	55	0	30	1.39
802292--802327	18	2.0	18	94	0	63	11	58	0	30	1.33
804473--804536	32	2.0	32	87	6	94	45	7	21	25	1.78
808692--808754	32	2.1	29	82	14	74	44	9	14	31	1.77

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