genome.fa.s4.2.7.7.80.10.50.1000.35.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:  31929104

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   

This is table  35  of  82  ( 9773 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)
12834556--12834619	13	4.7	13	81	9	74	23	4	0	71	1.04
12834566--12834651	43	2.0	41	82	8	102	23	9	1	66	1.28
12840480--12840514	18	1.9	18	88	11	54	74	2	20	2	1.08
12845578--12845769	55	3.6	51	81	10	192	21	15	36	26	1.93
12845616--12845769	55	2.8	56	93	2	249	22	14	35	27	1.93
12853685--12853732	19	2.6	19	90	3	71	58	0	4	37	1.18
12860235--12860338	36	2.9	35	81	11	122	38	11	18	31	1.86
12861549--12861666	31	3.8	31	80	12	127	55	3	18	22	1.57
12862486--12862576	30	3.0	30	85	3	128	23	18	9	48	1.78
12862509--12862682	31	5.6	31	74	4	127	29	19	12	38	1.88
12866527--12866702	40	4.4	40	87	2	257	23	18	37	20	1.94
12866527--12866706	80	2.3	80	93	0	299	23	18	37	20	1.94
12868360--12868466	40	2.7	38	78	5	115	19	16	41	22	1.90
12871179--12871220	12	3.4	12	78	15	50	71	0	26	2	0.98
12871179--12871222	16	2.7	16	80	13	54	70	0	27	2	0.99
12871413--12871447	15	2.2	16	90	5	54	80	0	20	0	0.72
12871495--12871529	18	1.9	18	88	11	54	74	0	25	0	0.82
12871500--12871528	12	2.3	13	94	5	51	75	0	24	0	0.80
12872764--12872875	43	2.6	43	83	6	138	25	18	34	20	1.96
12874869--12875336	60	7.8	60	88	3	651	25	18	30	25	1.98
12874869--12875344	180	2.7	180	89	1	742	25	18	31	25	1.97
12876692--12876820	59	2.2	59	91	1	206	25	10	26	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12880861--12880885	12	2.1	12	100	0	50	36	0	32	32	1.58
12886538--12886694	29	5.4	28	81	7	179	38	9	12	40	1.75
12886538--12886694	59	2.7	58	85	4	201	38	9	12	40	1.75
12886845--12886877	17	1.9	17	88	11	50	39	3	15	42	1.62
12893852--12893897	15	2.8	17	74	12	51	45	10	0	43	1.39
12902648--12902711	32	2.0	32	81	9	76	51	3	1	43	1.26
12913095--12913179	2	42.5	2	92	0	143	49	2	0	48	1.14
12913191--12913308	61	1.9	61	91	3	193	24	18	31	25	1.98
12916955--12917011	28	2.0	28	100	0	114	29	7	24	38	1.82
12924219--12924337	44	2.7	44	90	0	184	25	35	14	25	1.93
12926200--12926237	2	19.0	2	100	0	76	50	0	0	50	1.00
12926281--12926314	2	17.0	2	100	0	68	50	0	0	50	1.00
12926200--12926364	81	2.0	80	97	1	312	40	10	5	42	1.63
12931195--12931317	44	2.8	44	91	0	192	25	36	13	25	1.92
12932131--12932170	20	2.0	20	90	0	62	40	10	35	15	1.80
12935955--12936090	67	2.0	67	86	0	191	23	13	27	36	1.92
12935978--12936097	35	3.5	35	73	8	104	29	14	25	30	1.95
12936980--12937038	21	2.9	21	95	5	104	25	10	20	44	1.83
12941072--12941114	21	2.0	22	86	4	61	16	18	27	37	1.92
12941420--12941552	43	3.1	42	77	7	133	21	32	20	26	1.97
12941434--12941554	43	2.8	43	81	2	136	20	33	19	25	1.97
12948161--12948279	35	3.5	35	73	6	127	31	10	25	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12949980--12950062	29	2.8	28	79	12	78	39	13	12	34	1.81
12949976--12950053	31	2.7	28	82	7	86	39	12	11	35	1.80
12953416--12953492	37	2.1	37	97	0	145	36	11	33	18	1.87
12959733--12959786	2	27.5	2	84	3	56	50	3	44	0	1.20
12961889--12961938	20	2.5	20	93	0	82	42	14	10	34	1.78
12970638--12970667	11	2.7	11	89	0	51	56	0	0	43	0.99
12971230--12971275	19	2.4	20	82	10	60	54	0	2	43	1.12
12973089--12973113	13	1.9	13	100	0	50	44	0	8	48	1.32
12974509--12974546	15	2.5	15	91	0	58	28	2	15	52	1.56
12974592--12974631	5	8.0	5	91	0	62	40	0	22	37	1.54
12980162--12980186	13	1.9	13	100	0	50	44	0	8	48	1.32
12982282--12982451	61	2.8	61	83	1	205	24	17	32	26	1.96
12985140--12985174	11	3.3	11	88	8	54	0	22	11	65	1.24
12996209--12996496	86	3.3	85	69	18	255	47	5	6	39	1.55
12996017--12996538	178	2.9	178	84	8	623	48	4	6	40	1.50
12996337--12996425	37	2.4	38	83	9	128	49	4	7	38	1.52
12999294--12999352	25	2.4	25	82	0	73	32	30	15	22	1.94
13014856--13014909	28	2.0	28	88	3	83	29	24	16	29	1.97
13015425--13015776	175	2.0	176	91	1	564	15	41	8	34	1.77
13015890--13015955	20	3.2	20	76	6	69	25	0	1	72	0.93
13015892--13015990	20	4.9	20	74	18	64	25	1	3	70	1.07
13015936--13015993	20	2.7	22	81	13	75	25	1	3	68	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13017022--13017142	30	4.0	30	83	2	118	30	17	16	35	1.92
13031596--13031736	73	1.9	73	91	2	230	36	17	9	36	1.83
13031740--13032004	55	4.9	52	78	7	217	38	18	9	33	1.83
13031740--13032004	27	9.7	26	78	7	235	38	18	9	33	1.83
13031741--13032004	82	3.2	81	84	4	309	39	18	9	33	1.83
13032412--13032471	24	2.5	24	86	7	79	41	0	0	58	0.98
13032435--13032473	12	3.2	12	79	13	53	43	0	0	56	0.99
13033912--13033958	19	2.5	19	82	0	58	38	10	19	31	1.86
13038222--13038259	20	1.9	20	94	0	67	44	18	5	31	1.72
13038662--13038713	19	2.7	19	100	0	104	44	0	0	55	0.99
13042509--13042549	15	2.7	16	92	7	68	48	19	4	26	1.69
13048525--13048570	24	2.0	23	86	4	65	47	0	0	52	1.00
13053985--13054031	17	2.4	18	80	20	51	27	27	17	27	1.97
13078323--13078387	16	4.0	16	74	9	51	63	1	0	35	1.04
13081965--13082011	2	23.5	2	95	0	85	48	0	51	0	1.00
13084083--13084126	2	22.0	2	100	0	88	50	0	0	50	1.00
13087454--13087483	2	15.0	2	100	0	60	50	0	0	50	1.00
13091965--13092000	17	2.1	18	89	5	56	16	2	11	69	1.29
13092064--13092090	2	13.5	2	100	0	54	51	0	0	48	1.00
13096701--13096745	11	4.0	11	88	2	63	86	2	11	0	0.65
13100332--13100508	71	2.5	70	79	8	178	25	15	19	38	1.92
13106844--13106872	14	2.1	14	100	0	58	51	41	0	6	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13106870--13106907	2	19.0	2	100	0	76	50	0	0	50	1.00
13106928--13107017	43	2.1	42	93	2	153	23	34	17	24	1.96
13115218--13115313	35	2.6	39	80	6	110	25	10	35	29	1.89
13115345--13115369	2	12.5	2	100	0	50	48	0	0	52	1.00
13116743--13116780	20	2.0	20	94	5	69	21	26	15	36	1.93
13124068--13124109	2	21.0	2	90	0	66	47	0	4	47	1.23
13125660--13125698	19	2.2	19	86	9	55	53	0	2	43	1.14
13126119--13126156	20	1.9	20	100	0	76	21	44	10	23	1.83
13126797--13126888	37	2.5	37	87	6	127	25	6	38	30	1.81
13126808--13126917	35	3.1	36	84	7	127	26	8	33	31	1.86
13126821--13126917	37	2.8	33	83	10	97	24	9	35	30	1.87
13129519--13129662	29	5.0	28	85	7	180	38	9	13	38	1.77
13129519--13129684	59	2.8	58	84	4	208	38	8	12	40	1.73
13129836--13129868	17	1.9	17	88	11	50	39	3	15	42	1.62
13144587--13144708	42	2.9	42	92	0	199	20	22	35	22	1.96
13146790--13147080	74	4.1	74	76	12	284	30	21	19	27	1.98
13146887--13147006	62	1.9	62	91	0	195	28	20	20	30	1.97
13146811--13147076	136	2.0	136	87	0	388	30	21	19	28	1.97
13147361--13147492	36	3.6	35	74	14	117	25	37	16	20	1.93
13152705--13152741	4	9.2	4	87	0	56	48	21	2	27	1.63
13153986--13154020	15	2.3	15	85	0	52	42	5	2	48	1.41
13154219--13154289	35	2.2	33	85	10	92	25	0	15	59	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13157367--13157415	16	2.9	16	80	11	53	51	10	2	36	1.48
13163663--13163806	36	4.0	36	76	12	143	27	26	22	23	2.00
13163667--13163806	71	2.0	71	84	7	185	27	26	23	22	2.00
13166478--13166617	42	3.3	42	97	0	262	31	17	15	35	1.92
13166514--13166581	21	3.2	21	62	22	52	29	19	16	35	1.93
13166535--13166602	21	3.2	21	62	22	52	30	19	13	36	1.90
13170342--13170455	43	2.7	43	80	2	131	24	17	37	20	1.93
13172070--13172113	3	14.7	3	90	0	70	68	4	0	27	1.09
13178689--13178877	34	5.5	35	88	3	249	33	22	19	24	1.97
13181479--13181535	28	2.0	28	90	6	89	35	24	19	21	1.96

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