genome.fa.s4.2.7.7.80.10.50.1000.34.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  34  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)
12393410--12393458	4	12.2	4	80	0	53	42	2	6	48	1.39
12393410--12393458	6	8.2	6	83	0	53	42	2	6	48	1.39
12393410--12393458	10	4.9	10	82	0	53	42	2	6	48	1.39
12393331--12393640	161	1.9	160	87	7	450	29	12	15	42	1.84
12393594--12394437	119	6.9	119	72	14	526	33	11	14	40	1.82
12393445--12394265	384	2.1	382	93	2	1407	32	11	15	41	1.83
12393975--12394420	119	3.8	119	93	2	711	34	10	14	40	1.80
12401068--12401258	2	94.5	2	79	3	168	43	5	5	45	1.50
12408811--12408858	18	2.7	17	80	6	51	77	6	2	14	1.06
12414071--12414112	19	2.2	19	86	0	57	16	33	9	40	1.81
12423754--12423870	61	1.9	61	82	3	146	39	14	11	34	1.83
12428668--12428728	26	2.3	26	94	0	104	34	39	1	24	1.65
12436951--12436981	3	10.3	3	92	0	53	3	32	0	64	1.09
12453677--12453740	32	2.0	32	96	0	119	45	21	10	21	1.83
12456197--12456302	35	3.0	35	86	6	144	33	17	16	33	1.92
12457899--12457951	25	2.1	25	100	0	106	37	18	3	39	1.69
12463154--12463227	20	3.5	22	78	10	68	29	13	17	39	1.88
12474159--12474314	37	4.2	37	85	3	208	25	35	10	28	1.89
12475164--12475188	13	1.9	13	100	0	50	40	40	8	12	1.72
12487150--12487214	30	2.2	29	83	5	78	30	9	15	44	1.78
12491032--12491175	76	1.9	73	86	9	202	38	8	2	51	1.44
12498869--12498915	24	2.0	24	83	4	60	34	17	10	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12502391--12502471	42	1.9	42	94	0	144	20	22	34	22	1.97
12502706--12502767	26	2.4	26	94	0	106	24	3	40	32	1.71
12508136--12508254	42	2.8	42	89	0	184	21	32	21	23	1.98
12511398--12511475	27	3.0	26	88	5	122	12	24	14	48	1.78
12515478--12515565	40	2.2	40	100	0	176	35	18	21	25	1.95
12537710--12537753	22	2.1	20	87	8	61	36	11	25	27	1.90
12540386--12540504	38	3.1	38	86	4	159	26	34	16	22	1.95
12542793--12542885	31	3.0	31	88	3	134	41	16	18	23	1.89
12548543--12548643	36	2.8	36	82	5	116	21	28	21	27	1.99
12548543--12548659	36	3.3	34	76	7	99	21	26	23	29	1.99
12549713--12549799	40	2.3	38	84	6	104	24	11	28	35	1.90
12549779--12549900	40	3.0	40	81	2	156	19	14	30	35	1.92
12557680--12557784	35	3.0	35	87	5	133	25	37	13	23	1.92
12559972--12560021	21	2.4	20	83	9	64	38	24	12	26	1.90
12578210--12578253	20	2.2	20	84	4	54	6	18	9	65	1.42
12590876--12590937	19	3.3	19	80	13	74	22	27	3	46	1.67
12590902--12590945	23	1.9	23	86	9	63	20	22	2	54	1.56
12600237--12600274	20	1.9	20	84	10	51	2	34	2	60	1.24
12602624--12602659	2	18.0	2	94	0	63	47	0	2	50	1.15
12610304--12610330	14	1.9	14	100	0	54	0	22	3	74	0.98
12610294--12610340	19	2.3	20	82	7	60	2	21	2	74	1.03
12611104--12611166	31	2.1	31	87	3	92	14	11	46	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12615581--12615655	4	18.8	4	77	16	68	1	26	0	72	0.93
12615581--12615655	22	3.5	21	77	18	84	1	26	0	72	0.93
12615586--12615656	18	3.7	17	76	23	70	1	26	0	71	0.94
12620807--12620853	19	2.5	19	96	0	85	21	23	4	51	1.65
12626515--12626557	20	2.2	20	95	4	79	27	39	4	27	1.76
12626556--12626708	43	3.6	43	88	3	211	19	33	20	26	1.96
12628931--12629081	40	3.8	40	78	6	162	25	11	26	36	1.90
12629663--12629754	45	2.1	42	81	15	100	45	4	1	48	1.29
12629676--12629768	45	2.1	45	86	9	129	47	4	1	47	1.29
12629759--12629796	18	2.1	18	90	9	60	55	2	0	42	1.14
12639584--12639730	34	4.3	34	80	6	147	31	19	16	32	1.94
12641650--12641773	63	2.0	63	88	0	185	47	18	10	23	1.79
12644437--12644495	22	2.7	21	70	15	57	47	1	5	45	1.34
12664026--12664071	18	2.6	17	83	12	58	13	2	2	82	0.85
12665459--12665501	18	2.4	18	84	0	59	18	23	0	58	1.40
12669651--12669680	2	15.0	2	100	0	60	50	0	0	50	1.00
12671293--12671336	16	2.6	17	82	3	54	31	4	11	52	1.57
12679422--12679446	4	6.2	4	100	0	50	76	0	0	24	0.80
12685590--12685742	74	2.1	74	94	0	270	28	12	15	43	1.82
12687289--12687351	29	2.2	29	82	5	74	41	11	9	38	1.73
12688723--12688779	26	2.2	26	87	6	80	49	8	10	31	1.68
12688758--12688898	30	4.7	31	75	11	114	43	14	12	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12688758--12688891	31	4.4	31	74	14	118	41	14	12	31	1.83
12688747--12688870	57	2.1	58	86	7	171	48	12	10	28	1.74
12688919--12688977	29	2.0	31	86	6	86	47	11	10	30	1.73
12689060--12689141	29	2.8	29	88	1	110	37	12	14	35	1.84
12689089--12689150	29	2.2	28	82	5	72	40	11	11	37	1.77
12690797--12691107	41	7.6	41	68	22	158	54	1	2	40	1.25
12690820--12690951	48	2.9	44	73	20	112	56	3	1	38	1.24
12690933--12690978	13	3.3	14	77	17	51	47	0	4	47	1.21
12690851--12691081	114	2.0	115	88	3	347	54	2	3	40	1.28
12691103--12691178	27	2.9	27	81	15	95	47	5	2	44	1.39
12691052--12691177	23	5.3	23	73	18	73	49	3	2	45	1.31
12691168--12691242	26	2.8	26	80	9	80	57	0	4	38	1.18
12691226--12691283	27	2.4	22	75	24	71	46	3	0	50	1.18
12699130--12699212	45	2.0	41	86	13	116	30	16	9	43	1.80
12701866--12701918	21	2.5	21	84	3	70	1	15	1	81	0.87
12701885--12701927	21	2.1	21	86	4	61	0	25	2	72	0.97
12702138--12702184	13	3.8	13	76	18	55	78	0	21	0	0.75
12702134--12702184	26	2.0	26	85	14	70	76	0	23	0	0.79
12705320--12705372	5	10.2	5	86	8	61	81	1	15	1	0.87
12705319--12705372	21	2.6	21	85	5	65	81	1	14	1	0.86
12708007--12708037	3	10.3	3	92	0	53	29	0	3	67	1.06
12708986--12709160	90	1.9	90	83	8	223	28	12	17	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12711581--12711637	27	2.1	27	96	0	105	7	26	19	47	1.74
12712379--12712423	22	2.0	22	83	8	56	24	8	0	66	1.20
12716158--12716194	10	3.7	10	85	0	56	27	16	13	43	1.85
12719858--12720201	171	2.0	170	95	0	616	29	14	13	41	1.84
12724908--12724948	19	2.1	20	82	13	50	60	2	9	26	1.40
12730400--12730499	25	4.0	26	75	5	98	36	14	19	31	1.91
12736302--12736341	19	2.1	19	85	4	53	42	7	35	15	1.75
12743327--12743353	9	3.0	9	100	0	54	55	33	0	11	1.35
12747057--12747094	19	2.0	19	100	0	76	26	0	31	42	1.56
12755245--12755469	43	5.2	43	86	2	263	21	31	19	27	1.97
12755245--12755470	86	2.6	85	86	6	292	21	31	19	27	1.97
12759577--12759618	22	2.0	22	85	4	59	26	16	4	52	1.63
12769819--12769848	15	2.0	15	93	0	51	56	0	13	30	1.37
12778118--12778152	11	3.3	11	88	8	54	0	22	11	65	1.24
12791240--12791281	20	2.0	22	86	9	61	7	21	0	71	1.09
12794206--12794285	27	3.0	27	96	0	142	7	27	17	47	1.74
12794612--12794712	34	3.0	34	73	2	96	42	30	4	21	1.74
12797948--12797981	16	2.1	16	88	5	50	38	2	0	58	1.13
12801359--12801477	43	2.8	43	89	2	177	21	21	37	19	1.94
12801369--12801490	43	2.8	43	88	2	174	22	18	39	18	1.92
12801476--12801538	20	3.2	20	86	2	92	26	3	39	30	1.72
12801543--12801577	2	17.5	2	93	0	61	48	2	0	48	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12804812--12804841	4	7.5	4	92	0	51	20	0	26	53	1.46
12807075--12807157	35	2.4	34	84	8	96	38	22	26	12	1.89
12810442--12810480	20	2.0	20	94	0	69	15	25	10	48	1.76
12814703--12814787	42	2.0	43	88	2	127	22	35	18	23	1.96
12818828--12818867	20	2.0	20	95	0	71	15	32	10	42	1.79
12824771--12824808	19	2.0	19	100	0	76	42	31	0	26	1.56
12825970--12826124	52	3.0	52	89	0	238	30	30	15	23	1.95
12827357--12827387	2	15.5	2	100	0	62	51	0	0	48	1.00
12827613--12827719	35	3.1	35	81	0	133	21	8	28	41	1.82
12827737--12827818	34	2.4	35	80	10	98	28	14	24	32	1.94

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