genome.fa.s4.2.7.7.80.10.50.1000.81.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  81  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)
31007769--31007793	3	8.3	3	100	0	50	68	0	0	32	0.90
31018801--31018940	75	1.9	75	81	3	174	31	17	25	25	1.97
31025072--31025109	18	2.1	18	100	0	76	23	34	5	36	1.78
31030149--31030185	18	2.1	18	100	0	74	5	37	16	40	1.71
31033701--31033756	28	2.0	28	96	0	103	28	44	10	16	1.80
31034000--31034498	270	1.8	270	79	4	576	26	27	16	29	1.97
31042734--31042765	13	2.5	13	94	0	55	62	0	0	37	0.95
31052164--31052226	32	2.0	32	100	0	126	19	44	9	26	1.81
31053171--31053222	26	2.0	26	96	0	95	36	7	19	36	1.80
31069461--31069494	2	17.0	2	93	0	59	47	0	2	50	1.16
31071685--31071802	30	4.0	31	81	11	149	36	7	3	52	1.47
31071685--31071805	60	2.0	60	88	3	181	35	8	3	52	1.48
31072027--31072076	14	3.5	14	72	5	55	58	0	2	40	1.10
31072053--31072107	28	1.9	29	85	3	76	63	1	0	34	1.05
31087907--31088189	38	7.8	38	74	13	222	39	16	5	39	1.71
31087908--31088156	109	2.3	109	88	4	360	40	16	4	39	1.67
31087908--31088153	71	3.4	70	76	12	214	39	16	4	39	1.67
31088126--31088192	33	2.0	33	88	0	98	35	17	8	37	1.82
31087983--31088186	71	2.8	71	78	8	205	39	16	5	38	1.72
31103291--31103321	2	15.5	2	93	0	53	48	0	48	3	1.17
31110482--31110529	24	2.0	24	91	0	78	12	12	29	45	1.78
31113873--31113904	2	16.0	2	100	0	64	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31116221--31116265	24	1.9	23	95	4	81	22	31	11	35	1.89
31118482--31118531	20	2.3	21	83	10	57	50	4	0	46	1.20
31119606--31119644	21	1.9	20	89	5	60	35	23	28	12	1.91
31129425--31129515	39	2.3	39	96	1	164	41	18	7	31	1.79
31183080--31183177	50	2.0	50	100	0	196	31	12	14	41	1.82
31203621--31203645	2	12.5	2	100	0	50	52	48	0	0	1.00
31223161--31223230	35	2.0	35	97	0	131	37	15	24	22	1.93
31223518--31223772	127	2.0	127	96	0	465	33	25	15	25	1.95
31235000--31235029	15	2.0	15	93	0	51	50	0	10	40	1.36
31246652--31246735	41	2.0	41	90	0	132	36	8	20	34	1.83
31259989--31260024	14	2.6	14	100	0	72	25	13	22	38	1.91
31260220--31260273	24	2.2	24	83	0	63	22	1	55	20	1.53
31260269--31260352	24	3.8	24	68	18	72	9	8	60	21	1.54
31260253--31260434	42	4.3	42	75	4	161	12	5	59	22	1.54
31260306--31260459	30	5.3	30	66	9	86	12	5	57	24	1.56
31260307--31260488	84	2.2	84	96	0	337	14	4	57	23	1.56
31260190--31260455	126	2.1	126	85	1	363	13	4	57	24	1.55
31260274--31260447	42	4.1	42	73	2	170	12	6	58	22	1.56
31260449--31260508	30	2.0	30	83	0	75	18	3	55	23	1.58
31260496--31260638	30	5.0	29	68	17	84	15	3	55	25	1.56
31260307--31260513	84	2.5	84	91	1	263	14	4	57	23	1.57
31260421--31260767	24	15.0	24	64	16	70	13	6	55	24	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31260583--31260653	30	2.4	30	85	0	88	12	7	56	23	1.61
31260721--31260803	12	6.9	12	74	10	64	4	8	55	31	1.51
31266084--31266153	15	4.9	15	73	16	67	45	1	1	51	1.18
31266085--31266154	21	3.3	21	77	0	86	47	1	1	50	1.19
31270284--31270325	19	2.3	19	83	4	50	57	4	0	38	1.20
31291193--31291229	16	2.3	16	100	0	74	35	21	10	32	1.88
31301047--31301107	14	4.4	14	75	18	56	68	8	0	22	1.15
31312491--31312611	60	2.0	60	96	0	224	43	19	6	29	1.76
31314815--31314999	93	2.0	92	100	0	361	34	5	7	51	1.53
31337657--31337695	21	1.9	21	89	5	62	7	10	0	82	0.86
31337662--31337695	10	3.3	10	84	8	50	2	11	0	85	0.71
31340224--31340280	2	30.0	2	83	16	77	50	0	1	47	1.11
31340501--31340563	2	32.0	2	81	9	76	49	1	3	46	1.27
31340011--31340544	275	1.9	275	96	1	993	28	13	11	46	1.78
31340501--31340555	19	2.8	19	86	2	74	49	1	1	47	1.23
31351886--31351916	2	15.5	2	100	0	62	51	0	0	48	1.00
31355360--31355426	2	33.0	2	90	3	62	44	0	1	43	1.13
31381833--31381885	23	2.3	23	83	6	63	35	0	18	45	1.50
31394349--31394376	3	9.3	3	100	0	56	67	0	32	0	0.91
31396593--31396622	16	1.9	15	93	6	51	36	13	13	36	1.84
31404093--31404137	18	2.5	18	96	0	81	33	20	8	37	1.83
31409205--31409250	24	1.9	24	86	0	65	34	15	41	8	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31409202--31409248	21	2.2	21	84	0	58	36	14	40	8	1.77
31409202--31409245	18	2.4	18	80	0	52	36	13	40	9	1.76
31425991--31426086	36	2.7	36	85	0	138	38	19	18	22	1.93
31454627--31454668	3	14.0	3	94	0	75	35	0	0	64	0.94
31457449--31457510	8	7.8	8	75	13	56	35	1	11	51	1.47
31457451--31457493	14	3.1	14	86	0	59	37	2	6	53	1.41
31457448--31457491	2	22.0	2	80	0	52	40	2	4	52	1.34
31458480--31458519	21	1.9	21	100	0	80	20	25	15	40	1.90
31463556--31463599	11	3.9	11	82	14	54	11	6	0	81	0.86
31463977--31464023	19	2.6	18	80	6	58	17	4	4	74	1.14
31468675--31468709	5	7.0	5	100	0	70	20	60	0	20	1.37
31476741--31476772	2	16.5	2	93	6	57	50	0	0	50	1.00
31486269--31486295	2	13.5	2	100	0	54	0	48	0	51	1.00
31487042--31487076	3	11.7	3	100	0	70	65	0	0	34	0.93
31509646--31509750	30	3.6	30	77	2	106	59	1	2	36	1.23
31510663--31510705	20	2.2	20	82	0	50	2	6	23	67	1.27
31518995--31519030	2	18.0	2	100	0	72	50	0	0	50	1.00
31528927--31528968	18	2.3	18	80	11	50	9	19	14	57	1.64
31531395--31531436	21	1.9	23	90	9	70	54	0	0	45	0.99
31531394--31531443	21	2.3	23	82	6	68	60	0	0	40	0.97
31531758--31531857	45	2.2	45	83	0	128	50	5	1	44	1.30
31531826--31531871	18	2.4	19	85	7	58	47	0	2	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31540103--31540286	90	2.0	90	94	0	323	28	18	19	34	1.95
31545439--31545508	2	35.0	2	94	0	122	47	0	2	50	1.16
31568875--31568931	29	2.0	29	82	6	71	38	17	12	31	1.87
31576109--31576172	26	2.5	25	89	2	92	40	7	17	34	1.78
31583840--31583864	2	12.5	2	100	0	50	52	0	0	48	1.00
31589366--31589474	53	2.1	53	91	0	173	36	11	14	37	1.82
31623770--31623860	30	3.0	30	85	3	103	17	30	32	18	1.94
31623796--31623868	30	2.4	30	93	0	119	16	31	32	19	1.94
31624201--31624289	33	2.7	33	80	0	106	28	50	7	13	1.69
31636142--31636248	2	52.5	2	84	7	135	44	1	4	47	1.34
31641170--31641220	25	2.1	25	85	3	68	76	1	0	21	0.88
31649040--31649081	22	1.9	22	90	0	66	42	11	14	30	1.81
31649442--31649491	26	1.9	26	88	8	75	48	0	0	52	1.00
31649494--31649564	17	3.9	17	68	12	52	56	1	2	39	1.23
31681011--31681069	24	2.5	25	86	8	79	37	0	0	62	0.95
31681022--31681078	25	2.3	26	78	9	73	45	0	0	54	0.99
31681147--31681217	22	3.0	23	78	19	74	47	0	0	52	1.00
31682738--31682766	3	9.7	3	100	0	58	65	0	0	34	0.93
31683693--31683732	18	2.3	18	87	12	57	32	2	5	60	1.32
31717987--31718021	5	7.0	5	100	0	70	40	20	0	40	1.52
31722083--31722119	12	3.1	12	100	0	74	32	8	16	43	1.77
31746873--31746905	16	2.1	16	88	11	50	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31746880--31746976	48	2.0	49	84	9	128	39	1	0	59	1.04
31749964--31749988	5	5.0	5	100	0	50	20	0	40	40	1.52
31760607--31760634	5	5.6	5	100	0	56	21	0	57	21	1.41
31770414--31770442	2	14.5	2	100	0	58	51	0	0	48	1.00
31770575--31770603	2	14.5	2	100	0	58	51	0	0	48	1.00
31771557--31771581	3	8.3	3	100	0	50	32	0	0	68	0.90
31774495--31774565	30	2.3	32	78	9	76	36	1	2	59	1.21
31782348--31782377	4	7.5	4	100	0	60	26	50	0	23	1.50
31786074--31786098	2	12.5	2	100	0	50	48	0	52	0	1.00
31786959--31786991	5	6.6	5	96	0	57	0	15	60	24	1.35

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