genome.fa.s4.2.7.7.80.10.50.1000.54.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  54  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)
19762218--19762283	21	3.2	20	72	23	57	24	10	1	63	1.35
19762348--19762400	14	4.1	12	75	15	52	26	0	0	73	0.83
19762343--19762426	8	11.5	8	79	17	87	26	1	0	72	0.92
19762346--19762405	20	3.0	20	90	7	88	28	0	0	71	0.86
19762343--19762418	18	4.1	19	79	17	79	26	1	0	72	0.93
19762343--19762418	28	2.7	27	88	9	109	26	1	0	72	0.93
19762343--19762426	17	5.2	16	77	19	79	26	1	0	72	0.92
19762682--19762728	11	4.2	11	89	10	69	27	2	0	70	0.99
19762697--19762735	17	2.3	17	91	8	62	23	0	0	76	0.78
19762676--19762728	23	2.3	23	84	15	74	28	1	0	69	0.99
19763693--19763814	36	3.3	35	82	6	136	13	43	11	31	1.80
19763711--19763814	36	2.8	37	84	11	140	13	45	7	33	1.72
19781150--19781357	102	2.0	102	94	0	362	30	18	15	35	1.92
19783162--19783230	35	1.9	36	88	2	104	26	14	15	43	1.85
19783174--19783247	35	2.1	35	82	0	85	28	18	13	39	1.89
19788386--19788418	15	2.2	15	89	10	50	36	0	27	36	1.57
19788803--19789102	158	1.9	158	92	1	503	27	9	26	36	1.87
19789120--19789290	48	3.8	46	83	12	219	22	9	26	40	1.86
19789165--19789313	40	3.5	40	80	13	172	25	11	26	36	1.90
19789120--19789313	88	2.2	88	91	0	316	24	10	25	39	1.87
19789206--19789291	26	3.5	26	68	12	81	22	12	26	38	1.90
19790160--19790562	213	1.9	213	92	1	682	33	17	22	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19791916--19792058	46	3.1	46	71	7	135	33	27	10	27	1.90
19795591--19795640	26	1.9	26	95	0	91	58	6	14	22	1.58
19795582--19795638	26	2.3	24	87	6	60	57	5	14	22	1.56
19797212--19797281	24	2.9	24	91	0	113	22	27	18	31	1.97
19797409--19797458	24	2.1	24	84	0	64	32	14	48	6	1.67
19828361--19828407	24	2.0	24	82	0	58	34	10	12	42	1.78
19836547--19836753	108	1.9	105	90	4	326	42	4	16	36	1.68
19839305--19839559	43	5.9	43	82	9	290	24	15	35	24	1.94
19839321--19839559	129	1.9	129	85	5	340	23	15	36	24	1.93
19839305--19839559	86	3.0	85	89	5	363	24	15	35	24	1.94
19846486--19846570	43	2.0	43	88	0	125	28	17	29	24	1.97
19849013--19849161	66	2.3	66	83	2	174	26	15	26	32	1.95
19852358--19852419	26	2.4	26	94	0	106	24	3	40	32	1.71
19853393--19853431	13	3.0	13	88	0	60	43	7	30	17	1.77
19855209--19855280	36	2.0	37	86	2	101	26	13	9	50	1.73
19857311--19857430	44	2.7	44	94	0	204	46	25	4	23	1.70
19859913--19859944	2	16.0	2	93	0	55	46	3	0	50	1.17
19860042--19860091	20	2.5	20	83	6	57	74	0	4	22	0.99
19860537--19860561	2	12.5	2	100	0	50	48	0	0	52	1.00
19860993--19861040	20	2.5	19	83	10	53	60	2	6	31	1.33
19861369--19861411	19	2.3	19	84	8	52	67	2	4	25	1.22
19865327--19865475	36	4.2	36	85	4	198	43	15	6	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19874034--19874184	34	4.4	34	80	5	169	23	15	15	45	1.85
19874034--19874185	69	2.2	69	90	1	234	23	16	15	44	1.85
19877140--19877188	17	2.7	18	82	17	66	73	4	0	22	1.00
19877134--19877207	36	2.1	36	85	10	98	72	2	1	22	1.04
19877312--19877560	51	4.9	52	85	3	292	44	20	7	27	1.79
19877596--19877716	44	2.8	42	79	7	127	30	11	28	29	1.92
19877588--19877710	22	5.7	21	74	12	88	27	13	29	30	1.94
19877881--19877959	21	3.7	21	81	6	97	27	13	26	31	1.94
19877909--19878336	144	3.0	143	85	1	552	37	14	17	31	1.89
19878196--19878270	21	3.7	20	80	8	89	32	10	26	30	1.90
19882998--19883034	19	2.0	19	89	5	58	0	8	2	89	0.58
19883469--19883516	16	2.9	17	79	17	64	2	16	2	79	0.93
19891707--19891731	13	1.9	13	100	0	50	52	0	0	48	1.00
19893617--19893654	16	2.2	18	90	9	62	26	0	0	73	0.83
19893620--19893661	10	4.3	10	77	17	52	30	0	0	69	0.89
19894023--19894069	3	15.7	3	93	0	76	27	2	2	68	1.13
19894029--19894086	15	3.8	16	86	6	59	24	3	1	70	1.12
19895511--19895545	16	2.1	17	89	5	54	5	2	8	82	0.91
19896836--19896873	19	2.0	19	90	10	60	36	7	26	28	1.84
19902477--19902534	25	2.4	23	77	11	62	55	0	3	41	1.17
19903952--19904005	28	1.9	28	85	7	74	62	1	5	29	1.28
19909020--19909176	83	1.9	84	86	4	228	38	9	11	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19910259--19910318	30	2.0	30	90	0	93	33	5	16	45	1.69
19911531--19911587	25	2.3	25	87	0	78	42	8	17	31	1.80
19912054--19912141	33	2.7	33	96	0	158	39	14	4	40	1.67
19912852--19912930	33	2.4	33	82	0	95	40	18	5	35	1.73
19912988--19913053	31	2.2	31	89	8	100	56	9	3	31	1.46
19913138--19913192	28	2.0	28	85	7	76	34	10	9	45	1.71
19914739--19914763	2	12.5	2	100	0	50	48	0	0	52	1.00
19914955--19915536	297	1.9	300	95	3	1059	45	12	5	36	1.66
19926682--19926897	108	2.0	109	88	4	321	45	2	15	36	1.61
19927323--19927380	31	1.9	31	89	3	91	22	32	22	22	1.98
19934341--19934381	1	41.0	1	95	0	73	0	97	0	0	0.03
19934330--19934381	19	2.8	19	88	2	70	5	92	0	0	0.34
19948221--19948260	9	4.3	9	83	3	53	55	0	0	45	0.99
19949389--19949422	2	17.0	2	100	0	68	50	0	0	50	1.00
19951823--19951939	31	3.8	31	88	0	153	37	18	18	24	1.94
19957368--19957457	44	2.0	44	86	0	126	25	5	16	52	1.65
19957449--19957498	22	2.2	22	85	3	64	34	12	16	38	1.85
19957988--19958129	70	2.0	70	90	1	223	38	9	19	33	1.84
19960168--19960201	18	1.9	18	88	5	52	23	20	0	55	1.43
19961752--19961804	18	2.9	19	81	16	67	47	1	0	50	1.12
19961778--19961849	32	2.3	32	84	13	89	51	1	2	44	1.24
19961819--19961944	47	2.8	44	78	9	128	46	3	3	46	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19976924--19976958	2	17.5	2	93	0	61	48	2	0	48	1.16
19980316--19980357	20	2.0	20	86	4	57	52	2	0	45	1.13
19980809--19980935	42	3.0	42	79	2	139	44	11	12	31	1.77
19983775--19983820	22	2.0	24	83	8	60	76	0	15	8	1.02
19995253--19995506	127	2.0	127	100	0	508	31	11	14	42	1.81
19995539--19995593	26	2.2	25	90	6	85	49	0	43	7	1.30
19996658--19996696	2	19.5	2	94	0	69	51	0	2	46	1.14
20004635--20004679	20	2.1	22	88	8	67	22	26	33	17	1.96
20004990--20005019	14	2.1	14	93	0	51	53	3	0	43	1.17
20004996--20005054	22	2.8	21	80	10	66	54	0	1	44	1.10
20004891--20005172	135	2.1	136	83	6	349	57	2	5	33	1.37
20006020--20006064	22	2.0	23	83	12	58	46	8	26	17	1.78
20010818--20010886	34	2.0	34	100	0	138	34	14	5	44	1.69
20011334--20011376	3	14.7	3	80	4	52	27	4	0	67	1.10
20012321--20012409	14	6.6	13	71	16	58	28	1	0	70	0.94
20012321--20012409	26	3.3	27	71	17	78	28	1	0	70	0.94
20012304--20012398	36	2.8	33	80	13	97	27	2	0	70	0.98
20012367--20012407	20	2.0	21	85	4	57	26	0	0	73	0.84
20012295--20012409	22	5.4	21	68	18	69	25	1	0	73	0.93
20014821--20014850	15	2.0	15	100	0	60	40	20	13	26	1.89
20016551--20016576	2	13.0	2	100	0	52	50	0	0	50	1.00
20022198--20022253	27	2.1	28	83	9	73	41	1	8	48	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20027966--20028050	38	2.3	37	82	10	102	27	36	15	21	1.93
20028002--20028138	35	3.9	35	85	4	170	21	37	11	28	1.89
20028037--20028146	35	3.1	35	93	0	175	23	36	10	30	1.88
20053058--20053146	29	3.1	28	86	4	106	26	15	24	32	1.96
20077935--20077968	16	2.2	16	89	5	52	38	0	0	61	0.96
20086102--20086148	21	2.3	20	82	7	58	59	0	38	2	1.09
20087173--20087257	23	3.7	23	78	6	93	32	24	14	28	1.94
20087275--20087322	21	2.3	20	86	10	69	33	27	18	20	1.96
20091810--20091853	2	22.0	2	100	0	88	50	0	0	50	1.00
20094718--20094868	39	3.9	39	90	0	212	23	17	19	38	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