genome.fa.s4.2.7.7.80.10.50.1000.65.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  65  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)
23395893--23395980	43	2.0	44	91	6	144	47	17	11	23	1.79
23422933--23422972	18	2.2	18	91	8	64	22	0	0	77	0.77
23422934--23422975	14	2.9	14	82	6	57	19	0	0	80	0.70
23423304--23423337	17	1.9	18	88	5	52	44	2	0	52	1.16
23430777--23430890	58	2.0	56	91	6	185	32	5	27	35	1.79
23431570--23431647	35	2.2	34	84	8	95	23	6	17	52	1.67
23434970--23435078	54	2.0	54	82	7	132	24	21	18	35	1.95
23448034--23448064	4	7.8	4	100	0	62	0	0	22	77	0.77
23449612--23449636	2	12.5	2	100	0	50	52	0	0	48	1.00
23451219--23451313	34	2.8	33	80	6	109	29	15	15	38	1.89
23451221--23451449	123	1.9	123	79	3	264	27	13	18	40	1.88
23451439--23451493	22	2.5	22	90	0	83	27	16	18	38	1.92
23451621--23451680	30	2.0	30	87	3	86	46	6	6	40	1.56
23452607--23452651	22	2.0	24	83	16	60	60	0	37	2	1.09
23459852--23459878	14	1.9	14	100	0	54	66	0	0	33	0.92
23461481--23461544	33	1.9	33	100	0	128	37	12	6	43	1.68
23461518--23461609	46	2.0	46	93	0	157	34	14	11	39	1.82
23463036--23463071	18	1.9	19	88	5	56	25	2	0	72	0.98
23467188--23467237	26	2.0	26	88	4	75	46	2	4	48	1.32
23467184--23467276	29	3.3	29	79	10	95	44	4	4	47	1.42
23467206--23467292	29	3.0	29	81	1	75	41	8	6	43	1.61
23474318--23474361	2	22.0	2	95	0	79	50	2	0	47	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23475467--23475512	17	2.8	17	84	12	53	50	0	0	50	1.00
23475468--23475512	15	2.8	17	84	15	60	48	0	0	51	1.00
23476805--23476904	29	3.4	30	77	14	120	36	3	2	59	1.24
23478671--23478713	15	2.9	15	80	13	52	53	2	6	37	1.41
23481140--23481173	2	17.5	2	93	6	61	50	0	0	50	1.00
23486803--23486828	13	2.0	13	100	0	52	15	15	23	46	1.83
23499505--23499545	9	4.3	10	81	12	50	51	0	0	48	1.00
23499505--23499545	19	2.2	19	90	0	64	51	0	0	48	1.00
23499516--23499561	18	2.6	17	86	3	56	41	0	2	56	1.11
23510451--23510502	26	2.0	27	84	3	70	23	36	13	26	1.92
23513200--23513249	17	2.9	17	82	5	57	56	2	6	36	1.36
23513531--23513585	4	13.8	4	88	0	56	40	0	7	52	1.29
23514090--23516178	696	3.0	696	96	0	3874	34	10	16	38	1.83
23516402--23516461	28	2.1	28	93	0	102	23	10	11	55	1.66
23522202--23522233	15	2.1	15	94	0	55	62	0	3	34	1.11
23522554--23522664	50	2.2	50	93	0	186	57	11	14	16	1.65
23522737--23522797	6	9.5	6	81	11	52	77	3	0	19	0.91
23522726--23522790	28	2.4	27	84	7	87	73	6	1	18	1.11
23529886--23529959	4	18.5	4	88	0	94	50	22	0	27	1.50
23529899--23530035	6	21.5	6	77	11	94	48	13	1	36	1.51
23529887--23529985	20	5.2	20	80	7	116	50	19	0	30	1.48
23529887--23529991	26	4.1	24	82	11	120	50	18	0	31	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23529886--23529983	32	3.0	32	93	3	160	50	20	0	29	1.49
23529961--23530060	2	50.0	2	83	0	128	46	4	4	46	1.40
23529903--23530057	20	7.8	20	82	2	143	47	10	2	38	1.53
23535616--23535739	62	2.0	62	96	0	230	41	25	10	22	1.85
23538957--23538982	4	6.5	4	100	0	52	76	0	23	0	0.78
23540512--23540541	16	1.9	15	93	6	51	30	0	0	70	0.88
23549414--23549482	36	1.9	36	100	0	138	27	27	20	24	1.99
23550494--23550542	24	2.0	24	100	0	98	28	30	8	32	1.86
23550662--23550781	57	2.1	57	96	0	222	29	23	20	26	1.99
23553250--23553537	143	2.0	144	90	4	458	20	14	23	40	1.90
23554813--23554901	44	2.0	44	100	0	178	29	15	8	46	1.77
23555658--23555707	16	3.4	15	73	21	52	60	0	0	40	0.97
23555657--23555732	28	2.6	29	87	4	109	60	1	0	38	1.05
23557652--23557817	79	2.1	80	82	5	194	37	22	9	31	1.85
23560356--23560396	21	2.0	21	85	0	55	65	4	2	26	1.25
23563149--23563197	16	2.8	18	78	12	57	12	2	20	65	1.35
23563181--23563210	12	2.5	12	94	0	51	16	0	16	66	1.25
23566867--23566946	41	2.0	41	92	5	135	40	16	8	35	1.79
23577415--23577461	22	2.1	22	92	7	78	53	2	6	38	1.39
23578325--23578404	21	3.7	21	67	15	63	27	12	21	38	1.89
23578301--23578607	45	6.8	45	75	5	226	34	16	17	31	1.93
23578488--23578539	21	2.5	21	87	0	77	25	19	23	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23578370--23578653	135	2.1	135	89	0	433	35	16	17	30	1.93
23578397--23578711	69	4.5	69	76	8	255	37	17	15	29	1.91
23578721--23578784	32	2.0	32	90	0	101	37	10	15	35	1.83
23578642--23578815	29	6.2	28	72	18	114	39	13	13	33	1.84
23579469--23579501	16	2.0	17	88	5	50	15	9	0	75	1.03
23580378--23580420	13	3.3	13	86	0	50	65	0	2	32	1.06
23593914--23593944	2	15.5	2	100	0	62	51	0	0	48	1.00
23603736--23604191	229	2.0	230	87	1	655	34	14	19	30	1.92
23623270--23623316	23	2.0	23	95	0	85	27	17	36	19	1.93
23625124--23625174	15	3.3	15	69	15	50	60	5	5	27	1.43
23625959--23626169	108	1.9	109	92	0	352	45	3	15	35	1.65
23626792--23626863	29	2.4	29	76	15	76	52	1	2	43	1.24
23627828--23627867	20	2.0	20	90	0	62	62	5	25	7	1.42
23638016--23638044	2	14.5	2	100	0	58	48	0	0	51	1.00
23643582--23643684	54	1.9	53	94	4	172	33	13	31	21	1.92
23672255--23672292	17	2.1	19	90	9	62	52	0	0	47	1.00
23673882--23673951	31	2.3	31	78	11	81	38	0	2	58	1.13
23682112--23682156	24	1.9	24	86	4	65	55	11	6	26	1.59
23692015--23692077	28	2.2	28	81	10	76	65	4	0	30	1.13
23692184--23692229	2	23.0	2	100	0	92	50	0	0	50	1.00
23692257--23692301	2	23.0	2	86	13	67	48	2	0	48	1.13
23721699--23721754	27	2.1	27	89	0	85	53	1	0	44	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23721689--23721767	22	3.4	22	74	16	68	56	1	0	41	1.07
23721699--23721763	27	2.4	27	84	5	69	56	1	0	41	1.08
23722320--23722359	21	1.9	21	90	10	64	67	0	0	32	0.91
23731535--23731622	44	2.0	44	100	0	176	25	15	22	36	1.94
23732544--23732582	20	1.9	19	90	10	60	69	7	17	5	1.32
23736317--23736418	49	2.1	49	94	0	177	37	16	11	34	1.85
23740896--23740935	16	2.6	15	88	4	53	62	0	0	37	0.95
23756170--23756200	4	7.8	4	100	0	62	51	22	0	25	1.48
23760186--23760303	56	2.1	56	84	3	148	22	31	28	17	1.97
23761544--23761578	17	1.9	17	88	11	52	48	0	0	51	1.00
23762016--23762045	13	2.3	13	94	0	51	43	6	20	30	1.77
23763725--23763757	17	1.9	17	88	11	50	54	0	3	42	1.15
23763723--23763766	18	2.4	18	81	7	54	56	2	2	38	1.24
23764022--23764084	31	2.1	30	81	3	72	58	7	6	26	1.50
23764045--23764128	28	2.9	28	77	13	73	57	7	4	30	1.47
23771034--23771083	23	2.2	23	85	0	64	74	0	12	14	1.09
23775899--23776136	45	5.3	45	84	0	287	34	15	20	29	1.94
23776112--23776213	52	2.0	52	94	0	177	36	11	18	33	1.87
23776207--23776267	24	2.4	26	74	23	67	39	16	13	31	1.87
23776257--23776318	29	2.2	29	85	5	83	37	16	11	35	1.84
23776697--23776742	23	2.0	23	86	0	65	54	8	23	13	1.66
23777921--23778185	132	2.0	132	98	1	514	31	9	9	49	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23778728--23778761	17	2.0	17	100	0	68	0	29	0	70	0.87
23779101--23779158	19	2.8	20	74	7	55	27	1	6	63	1.29
23780130--23780170	15	2.7	15	84	3	55	34	0	4	60	1.18
23780149--23780190	14	2.9	14	86	10	50	28	0	4	66	1.12
23784085--23784128	22	2.0	22	90	0	70	52	4	2	40	1.34
23784264--23784312	23	2.2	23	85	3	64	73	0	10	16	1.09
23784380--23784457	27	3.1	27	68	21	69	53	3	0	42	1.19
23791460--23791497	3	12.7	3	94	0	67	31	2	0	65	1.06
23794797--23794839	15	2.9	15	89	0	68	23	18	39	18	1.92
23794875--23794921	15	3.1	15	87	0	67	34	25	31	8	1.86

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