genome.fa.s1.2.7.7.80.10.50.1000.27.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: 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  27  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)
11298819--11298902	25	3.3	25	80	3	96	41	13	3	41	1.61
11305850--11305882	16	2.0	17	88	5	50	24	0	12	63	1.28
11307979--11308043	24	2.7	24	73	0	58	13	36	12	36	1.83
11310009--11310058	26	1.9	26	95	0	91	22	14	6	58	1.58
11311087--11311149	22	3.0	21	72	4	63	26	22	19	31	1.97
11311085--11311182	43	2.3	43	90	0	151	29	21	19	29	1.97
11311109--11311175	22	3.1	22	71	4	73	26	22	20	29	1.99
11311443--11311638	43	4.7	42	82	9	174	27	35	14	23	1.93
11311475--11311649	43	4.1	43	88	5	196	25	34	15	24	1.94
11311475--11311654	86	2.1	84	84	8	238	26	34	15	24	1.94
11313140--11313236	23	4.2	23	67	7	61	31	10	27	29	1.90
11313201--11313343	46	3.1	46	67	4	117	27	9	25	36	1.88
11321193--11321237	22	2.0	22	91	0	72	46	22	11	20	1.81
11330293--11330341	5	9.6	5	78	12	55	26	0	2	71	0.97
11330358--11330448	22	5.0	18	68	24	50	39	1	1	58	1.13
11330333--11330389	26	2.1	28	90	6	91	42	0	3	54	1.17
11330325--11330447	25	5.0	24	69	20	83	39	0	1	57	1.14
11330212--11330439	108	2.1	103	79	12	221	39	1	2	56	1.20
11330401--11330529	65	2.0	64	80	17	142	38	0	3	56	1.23
11330523--11330605	33	2.5	33	78	1	96	36	0	1	62	1.03
11330793--11330842	25	2.0	26	96	4	93	42	0	0	58	0.98
11330795--11330849	25	2.2	26	90	3	85	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11334632--11334705	33	2.2	33	90	0	112	62	1	8	28	1.32
11334689--11334721	15	2.1	16	88	5	50	54	6	9	30	1.56
11337910--11337961	23	2.4	22	87	6	70	61	3	25	9	1.44
11338202--11338282	40	2.0	40	95	0	144	22	9	11	56	1.63
11343306--11343333	11	2.5	11	100	0	56	92	0	7	0	0.37
11345784--11345899	46	2.5	47	92	2	198	33	4	15	46	1.65
11351607--11351676	21	3.3	21	67	21	65	41	0	7	51	1.29
11357142--11357182	22	1.9	21	85	5	55	24	12	4	58	1.53
11365719--11365756	11	3.5	11	89	10	60	81	0	18	0	0.69
11365723--11365755	10	3.2	10	91	8	57	84	0	15	0	0.61
11369536--11369573	20	1.9	20	100	0	76	50	0	0	50	1.00
11369551--11369622	37	2.1	32	82	15	81	62	1	0	36	1.04
11369474--11369787	148	2.1	152	83	5	397	51	3	3	42	1.33
11369675--11369730	27	2.1	27	82	0	67	48	1	3	46	1.30
11369701--11369855	67	2.3	67	80	11	176	58	3	1	36	1.25
11369708--11369804	31	3.1	31	69	20	85	60	3	1	35	1.19
11369828--11369933	42	2.5	42	96	0	203	47	1	5	45	1.37
11370171--11370225	26	2.1	27	83	10	69	63	0	1	34	1.05
11372500--11372526	2	13.5	2	100	0	54	48	0	0	51	1.00
11372727--11372755	2	14.5	2	100	0	58	48	0	0	51	1.00
11375879--11375916	18	2.0	18	90	10	58	68	0	0	31	0.90
11377683--11377744	21	3.0	21	90	0	88	27	20	17	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11388353--11388821	250	1.9	250	91	0	778	38	14	17	29	1.89
11391778--11391838	24	2.5	24	94	0	104	13	19	26	40	1.88
11392685--11393108	235	1.8	234	84	1	580	32	13	15	38	1.86
11394652--11394730	39	2.0	39	92	0	131	48	12	13	25	1.78
11398839--11398880	17	2.5	17	88	0	66	40	2	35	21	1.66
11402066--11402116	27	1.9	26	84	4	66	15	1	7	74	1.13
11402177--11402237	21	2.7	22	73	14	54	14	6	9	68	1.36
11406182--11406219	3	12.7	3	100	0	76	31	0	0	68	0.90
11407883--11407925	16	2.7	16	82	10	52	62	11	0	25	1.29
11409167--11409200	10	3.4	10	83	0	50	70	2	2	23	1.15
11409686--11409730	21	2.2	20	84	4	54	31	13	8	46	1.74
11416655--11416681	14	1.9	14	100	0	54	59	11	0	29	1.32
11417772--11417812	20	2.0	20	86	9	57	68	4	2	24	1.22
11417781--11417855	27	2.6	29	77	10	82	62	5	2	29	1.31
11443624--11444068	223	2.0	222	99	0	863	23	24	10	40	1.86
11450738--11450777	20	2.1	20	90	9	66	42	10	12	35	1.76
11462553--11462626	24	3.1	24	68	3	69	21	10	36	31	1.88
11462552--11462644	47	2.0	47	91	0	150	22	10	38	27	1.87
11462644--11462883	47	5.1	47	82	1	250	27	20	28	22	1.99
11462716--11462796	23	3.5	23	66	21	60	28	23	29	18	1.98
11462739--11462820	24	3.5	24	71	15	71	26	21	29	21	1.99
11463576--11463837	31	8.5	31	82	11	201	24	19	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11463576--11463837	62	4.3	60	82	9	298	24	19	20	36	1.95
11463599--11463837	90	2.6	91	83	7	322	24	19	20	35	1.95
11463615--11463835	121	1.8	121	86	3	320	24	20	19	35	1.96
11475819--11475937	31	3.8	31	84	0	148	34	16	20	28	1.94
11476370--11476411	18	2.3	19	84	15	54	38	4	38	19	1.73
11476520--11476565	20	2.3	20	92	0	74	15	19	10	54	1.70
11482513--11482550	18	2.1	18	85	9	51	63	2	2	31	1.22
11484293--11484338	21	2.2	20	88	3	65	63	10	2	23	1.38
11484650--11484782	63	2.1	63	84	1	169	36	7	5	50	1.53
11488588--11488613	5	5.2	5	100	0	52	80	0	19	0	0.71
11492537--11492685	65	2.3	65	83	2	174	20	12	20	46	1.82
11492843--11492967	56	2.2	56	84	8	173	24	15	16	43	1.87
11516640--11516829	42	4.5	42	88	0	290	22	23	31	23	1.98
11516640--11516829	84	2.3	84	94	0	326	22	23	31	23	1.98
11516800--11516872	30	2.4	30	93	0	128	20	31	24	23	1.98
11516879--11516940	26	2.4	26	97	0	115	22	3	41	32	1.70
11529680--11529712	17	1.9	17	93	0	57	33	3	15	48	1.60
11529678--11529716	17	2.4	16	84	12	53	35	2	12	48	1.55
11530652--11530704	21	2.6	21	84	3	72	43	13	20	22	1.86
11536572--11536609	18	2.1	18	85	9	51	34	0	2	63	1.09
11538266--11538332	31	2.2	30	86	5	98	32	10	11	44	1.75
11540719--11540751	3	11.0	3	93	0	57	36	0	63	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11543087--11543153	32	2.1	32	97	0	125	17	7	23	50	1.71
11547889--11547936	25	1.9	25	87	8	71	58	8	22	10	1.58
11556706--11556745	20	2.0	20	85	4	55	37	5	5	52	1.45
11561238--11561306	20	3.5	20	67	15	61	66	10	0	23	1.21
11569131--11569308	60	3.0	58	81	4	212	24	31	17	26	1.97
11570124--11570167	22	2.0	22	82	13	54	61	6	18	13	1.54
11572785--11572822	12	3.2	12	88	3	51	0	26	0	73	0.83
11572789--11572825	6	6.2	6	96	0	56	0	21	0	78	0.75
11572983--11573027	23	2.0	22	87	12	65	4	24	0	71	1.05
11573025--11573167	26	5.2	29	67	20	85	2	32	8	57	1.40
11573007--11573179	55	3.2	55	95	1	305	2	32	6	58	1.37
11572958--11573135	6	29.8	6	66	23	56	3	32	4	59	1.34
11572905--11573122	72	3.1	71	70	19	168	3	31	5	60	1.36
11573155--11573194	16	2.6	16	88	4	55	0	27	0	72	0.85
11576137--11576164	2	14.0	2	100	0	56	50	0	0	50	1.00
11577765--11577795	15	2.1	15	100	0	62	25	22	25	25	2.00
11580081--11580476	47	8.4	47	80	3	422	28	16	32	21	1.96
11580056--11580476	94	4.5	94	83	2	506	27	17	33	21	1.96
11580345--11580473	24	5.5	23	66	20	79	25	20	34	20	1.96
11580466--11580575	53	2.1	52	83	5	132	28	19	26	26	1.99
11581054--11581191	31	4.5	31	84	0	150	26	14	20	39	1.91
11581062--11581252	62	3.1	61	81	7	192	27	16	19	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11581168--11581252	31	2.7	31	96	0	152	28	20	20	31	1.97
11582885--11583381	156	3.2	154	86	2	645	33	19	18	28	1.96
11583736--11584034	31	9.6	31	74	9	252	20	18	19	41	1.91
11583750--11584023	93	3.0	93	85	0	343	19	17	20	41	1.90
11583736--11584034	62	4.8	62	77	7	293	20	18	19	41	1.91
11585484--11585565	16	5.3	15	73	17	62	34	10	2	52	1.50
11585511--11585571	14	4.1	14	75	19	61	32	13	1	52	1.50
11585498--11585565	31	2.2	30	84	2	91	35	11	1	51	1.48
11586668--11586990	31	10.4	31	81	5	298	26	14	21	37	1.92
11586665--11586993	62	5.3	62	84	3	351	26	14	21	36	1.93

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