genome.fa.s10.2.7.7.80.10.50.1000.3.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: chr10
Parameters: 2 7 7 80 10 50 1000
Length:  21822658

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   

This is table  3  of  59  ( 7025 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)
135152--135198	25	2.0	24	84	16	62	25	19	10	44	1.82
138495--138532	2	19.0	2	100	0	76	50	0	50	0	1.00
140318--140378	2	31.5	2	83	6	81	45	3	1	49	1.28
152487--152530	2	22.0	2	95	0	70	45	0	4	50	1.22
154179--154247	2	34.5	2	97	0	111	44	0	4	50	1.21
155035--155063	2	14.5	2	100	0	58	0	48	0	51	1.00
163363--163395	2	16.5	2	93	0	57	51	3	0	45	1.16
199061--199089	2	14.5	2	100	0	58	48	0	51	0	1.00
211131--211156	9	2.9	9	100	0	52	19	23	11	46	1.82
234923--234968	18	2.6	18	89	0	65	50	19	10	19	1.77
243727--243764	17	2.2	17	86	9	51	63	7	0	28	1.23
246087--246142	29	1.9	30	85	10	80	21	3	7	67	1.30
246450--246528	40	2.0	40	92	0	131	18	22	24	34	1.97
249120--249198	40	2.0	40	92	0	131	18	22	24	34	1.97
249308--249374	33	2.0	33	88	5	100	41	22	13	22	1.88
251061--251089	15	2.0	15	93	6	51	31	0	0	68	0.89
258999--259060	28	2.2	29	94	5	117	17	12	16	53	1.73
260439--260490	2	26.0	2	76	7	52	48	7	0	44	1.31
260439--260487	18	2.5	20	83	9	66	48	8	0	42	1.32
260568--260618	18	2.7	18	84	9	57	60	5	3	29	1.38
260789--260815	4	6.8	4	100	0	54	25	0	0	74	0.83
270673--270729	24	2.4	24	100	0	114	35	12	10	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
275570--275594	5	5.0	5	100	0	50	20	0	20	60	1.37
284716--284764	2	24.5	2	95	0	89	48	2	0	48	1.12
285842--285873	5	6.4	5	100	0	64	40	18	0	40	1.51
299079--299110	15	2.1	15	100	0	64	34	0	12	53	1.39
301981--302007	2	13.5	2	100	0	54	51	0	0	48	1.00
303659--303725	33	2.0	33	100	0	134	35	11	11	40	1.79
335330--335363	18	1.9	17	88	5	50	61	0	0	38	0.96
338898--338967	35	2.0	34	86	2	95	28	17	27	27	1.97
339048--339097	19	2.5	19	93	6	82	64	4	30	2	1.23
339061--339201	48	3.0	48	83	7	148	56	3	32	7	1.45
339093--339171	24	3.3	24	68	7	79	60	2	30	6	1.35
339090--339201	45	2.4	46	89	4	163	55	2	33	8	1.45
339463--339722	140	1.9	140	91	1	432	38	11	33	16	1.84
340349--340424	38	2.0	38	100	0	152	42	13	23	21	1.88
340619--340661	20	2.1	21	91	4	70	39	6	23	30	1.81
358407--358507	52	2.0	51	83	11	127	34	22	12	29	1.92
377820--377863	21	2.1	21	86	0	61	18	34	4	43	1.70
382106--382197	37	2.5	37	87	5	123	21	17	18	42	1.89
390279--390311	8	4.1	8	92	0	57	36	3	0	60	1.12
390297--390344	20	2.4	20	79	10	62	37	0	2	60	1.09
392510--392879	205	1.8	205	91	0	614	39	8	5	46	1.58
413158--413298	74	1.9	74	83	2	185	44	9	6	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
416415--416448	2	17.0	2	100	0	68	50	0	0	50	1.00
423403--423441	14	2.8	14	88	0	51	46	5	46	2	1.38
427507--427660	77	2.0	77	94	0	272	22	14	12	50	1.76
435215--435266	2	26.5	2	79	11	54	46	0	48	3	1.20
438333--438414	15	5.5	15	77	0	92	26	6	31	35	1.81
438336--438429	30	3.1	30	87	4	127	29	5	27	37	1.79
465304--465359	24	2.3	24	81	0	67	39	17	25	17	1.92
471447--471483	12	3.1	13	81	18	53	40	0	0	59	0.97
486874--486927	25	2.1	26	96	3	101	35	7	3	53	1.47
491930--491993	27	2.3	26	82	15	67	28	1	9	60	1.36
491983--492036	24	2.2	25	83	12	67	22	0	5	72	1.05
494966--495004	2	20.0	2	84	5	53	46	5	0	48	1.24
494966--495004	16	2.5	16	95	4	71	46	5	0	48	1.24
500533--500574	22	2.0	22	85	4	59	7	9	9	73	1.24
508419--508505	45	2.0	42	95	4	147	29	12	6	49	1.67
518599--518684	29	3.1	29	74	17	92	32	8	13	45	1.74
519246--519323	20	4.0	20	76	15	65	43	0	1	55	1.08
519975--520013	15	2.7	15	84	11	55	51	0	0	48	1.00
520369--520502	27	5.2	26	69	16	75	53	1	2	41	1.22
520396--520454	27	2.2	27	87	6	84	54	1	3	40	1.27
536623--536674	27	1.9	27	92	0	86	15	44	21	19	1.87
536701--536740	21	1.9	21	100	0	80	45	12	32	10	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542643--542684	21	2.0	21	95	0	75	59	4	26	9	1.48
545250--545289	20	2.0	20	100	0	80	35	10	5	50	1.58
546939--546964	13	2.0	13	100	0	52	30	7	15	46	1.74
549921--550002	2	41.5	2	92	7	141	50	0	0	48	1.01
555384--555431	15	3.2	15	75	0	51	37	0	4	58	1.18
556122--556153	2	16.0	2	100	0	64	0	50	0	50	1.00
564654--564678	6	4.2	6	100	0	50	16	32	36	16	1.90
566193--566218	2	13.0	2	100	0	52	0	50	0	50	1.00
568850--568889	21	1.9	21	84	0	53	65	2	7	25	1.32
573133--573554	227	1.9	222	84	3	558	34	10	12	42	1.78
577170--577235	33	2.0	33	96	0	123	45	7	12	34	1.70
579636--580906	80	15.9	80	82	4	1539	44	4	3	47	1.40
579878--579912	17	2.1	17	88	0	52	60	0	0	40	0.97
579867--579916	22	2.2	23	85	7	66	54	0	2	44	1.11
580014--580071	27	2.2	26	78	6	62	44	5	3	46	1.42
579624--580869	239	5.2	239	96	0	2201	45	4	3	46	1.40
580117--580151	17	2.1	17	88	0	52	60	0	0	40	0.97
580106--580155	22	2.2	23	85	7	66	54	0	2	44	1.11
580253--580310	27	2.2	26	78	6	62	44	5	3	46	1.42
580356--580390	17	2.1	17	88	0	52	60	0	0	40	0.97
580345--580394	22	2.2	23	85	7	66	54	0	2	44	1.11
580492--580549	27	2.2	26	78	6	62	44	5	3	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580595--580629	17	2.1	17	88	0	52	60	0	0	40	0.97
580584--580633	22	2.2	23	85	7	66	54	0	2	44	1.11
580882--580945	21	3.2	21	78	13	80	35	0	1	62	1.05
580878--580950	18	3.9	18	76	13	67	38	0	2	58	1.12
580901--581111	73	2.8	75	82	7	248	43	1	5	48	1.37
580784--581023	119	2.0	119	86	3	340	41	2	3	51	1.34
581260--581316	26	2.2	26	93	0	96	33	3	1	61	1.23
581689--581737	21	2.3	22	78	3	55	48	2	4	44	1.33
589347--589375	14	2.0	15	93	6	51	44	0	0	55	0.99
595947--595989	17	2.5	17	77	7	52	2	18	0	79	0.85
603900--603956	28	2.0	30	80	16	68	43	8	1	45	1.45
613134--613184	26	2.0	26	92	0	84	39	11	19	29	1.87
613864--613907	2	22.0	2	80	0	52	43	2	2	52	1.26
614584--614658	36	2.1	37	87	2	107	32	28	26	13	1.94
630691--630943	125	2.0	127	88	3	377	32	10	25	31	1.89
635032--635065	14	2.4	14	90	0	50	26	5	26	41	1.78
642576--642608	2	17.0	2	87	6	50	48	3	0	48	1.17
642574--642618	14	3.3	14	82	14	58	48	4	0	46	1.22
644117--644156	18	2.1	20	86	9	57	15	5	2	77	1.04
649681--649732	21	2.5	21	93	3	88	38	9	21	30	1.85
651827--652027	85	2.4	83	76	9	192	31	15	10	41	1.82
652587--652636	7	7.1	7	88	0	64	0	28	46	26	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
666897--666926	2	15.0	2	100	0	60	50	0	0	50	1.00
682645--682678	12	2.8	12	90	4	50	38	0	0	61	0.96
683420--683490	2	36.0	2	91	2	108	47	0	2	47	1.16
688214--688367	39	3.9	39	86	5	209	23	27	21	27	1.99
688214--688367	81	1.9	81	90	0	245	23	27	21	27	1.99
688748--688788	20	2.0	20	100	0	82	24	29	14	31	1.95
697784--697817	17	2.0	17	100	0	68	35	5	23	35	1.79
698299--698344	4	11.5	4	90	0	74	26	4	23	45	1.71
715310--715348	14	2.9	15	85	14	50	7	35	0	56	1.28
719220--719244	2	12.5	2	100	0	50	48	0	0	52	1.00

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