genome.fa.s4.2.7.7.80.10.50.1000.52.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  52  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)
19029310--19029368	17	3.5	17	82	13	77	72	0	1	25	0.93
19029310--19029362	10	5.0	10	84	6	61	73	0	1	24	0.93
19034248--19034313	33	2.0	33	100	0	132	18	18	21	42	1.89
19045945--19046019	27	2.7	27	79	2	87	37	8	14	40	1.76
19045945--19046032	28	3.2	28	75	10	83	39	7	14	37	1.76
19049093--19049142	2	25.0	2	100	0	100	50	0	0	50	1.00
19059244--19059627	133	2.9	131	84	9	469	42	14	12	31	1.82
19060317--19060352	2	18.0	2	94	0	63	47	2	0	50	1.15
19064565--19064614	24	2.0	24	85	11	66	64	18	8	10	1.48
19068816--19068854	1	39.0	1	94	0	69	0	2	0	97	0.17
19070878--19070995	59	2.0	59	96	0	218	36	19	17	26	1.94
19071299--19071328	4	7.5	4	100	0	60	53	0	23	23	1.46
19078864--19078903	16	2.5	16	80	11	55	70	0	2	27	1.01
19080213--19080247	2	18.0	2	94	5	63	48	0	0	51	1.00
19084713--19084751	20	2.0	20	100	0	78	30	20	10	38	1.86
19088189--19088223	18	1.9	18	94	0	61	77	0	0	22	0.78
19090460--19090505	20	2.3	20	92	0	74	13	6	17	63	1.50
19097251--19097306	29	1.9	29	85	0	76	46	7	28	17	1.75
19097245--19097314	29	2.4	28	76	9	68	45	8	25	20	1.79
19097458--19097487	14	2.1	14	100	0	60	13	20	16	50	1.78
19097609--19097675	35	1.9	35	90	0	107	23	20	16	38	1.92
19097974--19098107	41	3.3	41	75	10	157	30	6	8	54	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19098064--19098193	65	2.0	64	92	1	215	33	6	6	52	1.55
19098414--19098443	10	2.8	11	90	10	53	16	0	0	83	0.65
19100673--19100744	29	2.5	29	74	17	76	48	9	25	16	1.76
19104843--19104880	19	2.0	19	100	0	76	52	0	42	5	1.24
19111775--19111918	70	2.0	70	85	4	191	38	5	6	49	1.53
19112010--19112044	14	2.4	14	85	4	52	45	0	2	51	1.16
19119255--19119346	29	3.2	29	87	0	121	38	10	10	40	1.75
19119426--19119645	120	1.8	120	80	1	262	30	15	15	37	1.89
19119555--19119659	45	2.3	45	81	3	113	31	18	19	31	1.95
19130509--19130569	32	1.9	32	89	0	95	27	6	6	59	1.48
19151510--19151540	2	15.5	2	100	0	62	0	48	0	51	1.00
19159217--19159258	17	2.6	16	82	14	50	59	0	0	40	0.97
19159226--19159260	17	1.9	19	88	11	56	60	0	0	40	0.97
19172189--19172223	2	17.5	2	100	0	70	48	0	0	51	1.00
19173118--19173159	17	2.4	18	80	8	50	64	7	7	21	1.43
19191465--19191500	16	2.2	16	100	0	72	44	11	0	44	1.39
19194021--19194075	22	2.5	23	77	16	64	58	9	1	30	1.40
19196404--19196464	25	2.4	25	83	10	70	60	14	1	22	1.43
19197298--19197333	12	3.0	12	87	0	54	30	0	13	55	1.39
19198447--19198471	6	4.2	6	100	0	50	0	16	48	36	1.46
19208656--19208690	18	1.9	18	88	0	52	45	17	2	34	1.63
19209352--19209445	2	47.5	2	91	6	156	50	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19224407--19224459	21	2.3	22	84	12	63	41	9	1	47	1.47
19229157--19229255	49	2.0	49	94	0	171	40	18	13	28	1.88
19229279--19229732	98	4.7	97	82	6	551	49	16	18	15	1.80
19231199--19231231	2	16.5	2	100	0	66	51	0	0	48	1.00
19231288--19231319	2	16.0	2	100	0	64	50	0	0	50	1.00
19234016--19234078	27	2.6	22	72	25	56	55	1	3	39	1.25
19235224--19235261	19	2.1	18	85	14	51	39	0	0	60	0.97
19235192--19235263	12	5.9	12	68	20	51	40	0	1	58	1.07
19235194--19235291	46	2.1	49	86	5	139	40	1	1	57	1.12
19236912--19236938	2	13.5	2	100	0	54	48	0	0	51	1.00
19242454--19242513	2	29.5	2	89	3	93	46	0	48	5	1.24
19253286--19253430	75	1.9	74	87	1	209	24	23	16	35	1.95
19258520--19258579	30	2.0	30	100	0	120	36	40	10	13	1.78
19271920--19272010	43	2.1	43	97	2	175	32	18	15	32	1.92
19283197--19283355	31	5.2	31	71	14	141	47	15	7	29	1.73
19283200--19283366	61	2.7	61	98	0	316	46	15	7	29	1.74
19284332--19284561	113	2.0	113	96	1	426	53	1	13	30	1.49
19284510--19284543	14	2.3	15	90	5	52	73	0	5	20	1.04
19285476--19285525	18	2.8	18	84	0	64	54	6	12	28	1.60
19285895--19285936	18	2.3	19	83	4	50	54	0	2	42	1.13
19286124--19286170	10	4.9	10	84	10	71	80	0	19	0	0.70
19286122--19286169	18	2.6	17	87	12	69	81	0	18	0	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19286125--19286182	26	2.1	27	93	6	100	79	0	20	0	0.74
19286107--19286246	75	1.9	76	82	10	180	70	1	17	10	1.22
19286197--19286245	20	2.6	19	73	20	57	81	0	18	0	0.69
19286138--19286269	64	2.2	62	82	11	159	72	1	17	8	1.16
19286202--19286277	20	3.6	21	71	11	66	76	1	17	5	1.04
19287409--19287540	2	68.0	2	83	8	157	45	3	1	49	1.26
19299922--19299962	2	20.5	2	100	0	82	48	0	0	51	1.00
19300764--19300845	42	2.0	41	83	6	105	39	21	14	24	1.91
19300846--19300884	18	2.2	18	90	0	60	43	17	7	30	1.77
19301738--19301865	40	3.2	40	63	22	106	39	10	15	34	1.83
19305123--19305268	28	5.0	28	79	8	141	43	8	9	37	1.69
19305122--19305257	59	2.3	58	83	7	177	41	8	8	40	1.67
19311066--19311135	35	2.0	36	83	8	90	32	34	11	21	1.89
19311146--19311347	52	3.9	52	90	1	318	32	29	14	23	1.94
19318217--19318256	19	2.0	20	95	4	73	30	0	27	42	1.56
19319331--19319355	13	1.9	13	100	0	50	52	0	0	48	1.00
19325765--19325929	83	2.0	82	97	2	314	45	8	6	38	1.61
19327609--19327640	16	2.0	16	93	0	55	12	3	18	65	1.38
19327739--19327771	15	2.2	15	100	0	66	45	6	12	36	1.66
19331173--19331197	13	1.9	13	100	0	50	44	0	8	48	1.32
19339973--19340012	19	2.1	19	90	0	62	17	37	10	35	1.83
19345438--19345590	64	2.4	64	82	0	180	26	16	28	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19361947--19362020	35	2.1	35	85	2	96	22	1	16	59	1.44
19362811--19362851	21	2.0	21	90	0	64	19	31	4	43	1.72
19363673--19363793	46	2.7	45	82	8	133	23	13	34	28	1.92
19365611--19365643	10	3.3	10	95	0	57	51	15	0	33	1.43
19366974--19367194	47	4.7	47	89	3	336	35	4	10	48	1.59
19366972--19367194	95	2.3	95	92	1	358	35	4	10	48	1.58
19372452--19372489	19	2.0	19	89	0	58	44	26	0	28	1.54
19372889--19372928	18	2.2	18	86	0	53	50	0	10	40	1.36
19373337--19373392	21	2.7	21	91	0	85	28	23	17	30	1.97
19373377--19373481	44	2.4	45	91	1	167	33	20	20	26	1.97
19373411--19373495	21	4.0	21	69	11	73	27	18	23	30	1.98
19373569--19373639	32	2.3	30	88	7	99	35	12	15	36	1.86
19373589--19373652	29	2.2	30	85	2	85	43	12	10	32	1.77
19374233--19374270	19	2.0	19	94	0	67	28	0	28	42	1.56
19374817--19375832	509	2.0	510	93	1	1734	31	12	21	33	1.91
19385477--19385523	10	4.7	10	76	10	51	23	0	2	74	0.93
19387145--19387188	22	2.0	22	91	4	72	61	4	2	31	1.28
19387793--19387858	33	2.0	33	87	0	96	51	16	18	13	1.76
19395762--19395839	23	3.4	23	80	0	75	25	8	25	39	1.85
19396204--19396243	21	1.9	21	89	0	62	30	15	22	32	1.94
19409487--19409528	19	2.2	19	86	0	57	19	21	21	38	1.94
19410055--19410160	38	2.7	40	82	2	135	22	39	16	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19416582--19416666	42	2.0	42	81	0	98	32	23	15	28	1.95
19417772--19417824	22	2.4	22	83	0	70	49	24	7	18	1.74
19417806--19417873	22	3.1	22	78	0	73	33	26	11	27	1.91
19424041--19424248	93	2.2	93	88	2	301	35	9	18	37	1.83
19424110--19424312	92	2.2	93	85	6	261	39	7	16	36	1.78
19427914--19427943	13	2.3	13	94	0	51	73	0	0	26	0.84
19432712--19432941	93	2.5	93	84	3	284	36	18	8	36	1.82
19432663--19432941	92	3.0	92	81	2	317	35	17	8	37	1.81
19435500--19435636	69	2.0	69	84	5	179	37	16	16	29	1.91
19435614--19435824	69	3.1	68	84	5	255	36	18	18	26	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