genome.fa.s6.2.7.7.80.10.50.1000.32.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: Chr1
Parameters: 2 7 7 80 10 50 1000
Length:  35726063

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   

This is table  32  of  109  ( 13028 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)
10354860--10355120	51	5.2	51	72	3	206	30	21	23	24	1.99
10354849--10355093	49	4.9	49	73	4	211	31	22	20	24	1.98
10354849--10355169	100	3.2	100	88	0	462	31	21	21	25	1.98
10355489--10355990	129	3.9	129	88	1	756	30	22	21	26	1.98
10355623--10356095	85	5.5	84	71	9	285	31	21	20	26	1.98
10364273--10364344	1	72.0	1	95	0	108	94	4	0	1	0.35
10371638--10371711	25	2.9	25	84	6	87	32	14	9	43	1.78
10393281--10393343	12	5.2	12	72	11	56	47	3	3	46	1.34
10393168--10393468	140	2.2	140	100	0	602	46	3	4	45	1.42
10393421--10393531	37	3.0	34	75	16	98	51	3	2	42	1.33
10393430--10393484	25	2.2	25	81	12	60	49	5	1	43	1.36
10397892--10397920	14	2.1	14	100	0	58	86	6	0	6	0.72
10398793--10398902	51	2.2	51	89	0	175	36	28	8	27	1.85
10399003--10399143	33	4.3	33	75	10	119	22	46	2	27	1.66
10402789--10402836	20	2.4	20	82	0	60	39	22	25	12	1.89
10411649--10411719	24	2.9	24	73	10	63	54	7	5	32	1.50
10421962--10421996	19	1.9	18	88	11	54	45	0	5	48	1.26
10423289--10423463	96	1.8	96	92	0	296	29	22	20	28	1.98
10423694--10423756	31	2.0	32	87	3	92	19	1	41	38	1.61
10423779--10423861	35	2.3	35	77	2	85	26	3	26	43	1.71
10434307--10434399	21	4.3	21	87	4	114	39	19	39	1	1.59
10434339--10434402	12	5.6	12	71	17	64	39	18	40	1	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10435372--10435639	42	6.3	42	89	1	374	25	18	21	34	1.96
10435372--10435639	85	3.2	84	87	2	392	25	18	21	34	1.96
10441250--10441289	16	2.4	16	87	4	53	40	0	17	42	1.49
10446906--10446931	13	2.0	13	100	0	52	38	7	15	38	1.76
10449323--10449361	16	2.4	16	78	0	51	43	2	2	51	1.29
10453075--10453100	13	2.0	13	100	0	52	38	7	15	38	1.76
10455492--10455530	16	2.4	16	78	0	51	43	2	2	51	1.29
10456817--10456862	14	3.3	14	93	0	74	45	2	26	26	1.65
10461411--10461436	13	2.0	13	100	0	52	46	7	7	38	1.61
10464257--10464330	27	2.7	27	82	0	94	21	31	25	21	1.98
10464395--10464430	17	2.1	17	89	0	54	69	0	19	11	1.18
10467290--10467610	49	6.6	49	87	3	427	35	10	10	43	1.73
10470096--10470120	11	2.3	11	100	0	50	52	0	0	48	1.00
10470020--10470218	103	2.0	101	85	4	274	55	13	1	30	1.44
10470137--10470355	95	2.5	89	85	9	290	58	15	1	24	1.45
10470144--10470272	40	3.2	40	63	14	91	58	17	0	24	1.44
10470198--10470405	95	2.2	94	78	11	226	61	11	1	25	1.39
10470412--10470470	26	2.3	26	82	11	68	55	13	1	28	1.48
10470996--10471057	29	2.1	29	93	0	106	50	11	20	17	1.77
10477665--10477718	21	2.6	21	77	16	58	38	25	5	29	1.79
10477748--10477820	21	3.6	20	81	3	76	24	10	31	32	1.90
10478838--10478869	3	11.0	3	93	6	57	0	31	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10479285--10479327	15	2.9	15	73	13	52	60	2	6	30	1.35
10485059--10485126	34	2.0	34	100	0	136	32	17	5	44	1.73
10485800--10485947	43	3.5	43	84	4	183	28	26	16	29	1.97
10489863--10489889	12	2.2	12	100	0	54	7	33	7	51	1.58
10492232--10492303	18	3.8	19	78	17	71	65	1	1	31	1.10
10492266--10492305	20	2.0	21	90	5	64	70	0	0	30	0.88
10493572--10493627	28	2.0	28	100	0	112	46	3	7	42	1.48
10497574--10497629	28	2.0	28	100	0	112	50	0	0	50	1.00
10500347--10500397	23	2.2	23	89	0	75	25	9	23	41	1.85
10504024--10504883	164	5.2	162	75	10	645	40	18	12	28	1.87
10504024--10504737	339	2.2	323	82	6	815	40	17	12	28	1.87
10504024--10504825	339	2.4	335	80	6	794	40	17	12	28	1.86
10505302--10506198	164	5.5	164	86	2	1124	41	15	14	28	1.87
10505302--10506176	324	2.7	326	85	1	1155	41	15	14	28	1.87
10506348--10506741	165	2.4	163	85	5	535	43	15	12	29	1.83
10508176--10508214	18	2.0	20	85	9	55	48	10	12	28	1.74
10511365--10511399	14	2.5	14	80	0	52	51	0	2	45	1.16
10512047--10512129	39	2.1	40	93	2	141	51	4	7	36	1.51
10512321--10512373	26	1.9	29	85	11	76	41	0	1	56	1.10
10512509--10512736	94	2.4	94	87	2	325	32	21	7	37	1.82
10514702--10515928	637	1.9	629	88	3	1732	27	15	12	43	1.83
10519221--10519417	98	2.0	98	90	0	313	36	22	10	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10519972--10520021	16	3.1	16	77	13	57	52	4	6	38	1.45
10520047--10520093	20	2.3	20	88	0	67	53	0	10	36	1.36
10521829--10521873	20	2.3	20	88	11	67	26	48	0	24	1.51
10522109--10522136	2	14.0	2	100	0	56	50	0	50	0	1.00
10524898--10524988	43	2.1	43	87	2	130	34	10	9	45	1.73
10525241--10525508	43	6.3	43	84	0	322	23	17	31	27	1.97
10535341--10535372	17	1.9	17	93	6	57	18	6	12	62	1.50
10543848--10543898	16	2.7	19	74	22	54	45	1	9	43	1.48
10545657--10545688	16	2.0	16	100	0	64	18	31	18	31	1.95
10545849--10545903	26	2.1	25	83	12	67	60	0	7	32	1.24
10545949--10545986	19	2.0	19	94	0	67	50	0	5	44	1.24
10546874--10546918	18	2.5	18	96	0	81	44	28	6	20	1.76
10547288--10547384	47	2.1	47	82	7	117	43	2	9	45	1.47
10547392--10547458	20	3.0	21	80	18	73	32	4	0	62	1.15
10547416--10547456	9	4.7	9	90	6	66	34	7	0	58	1.26
10547410--10547461	9	6.5	8	81	12	54	36	5	0	57	1.23
10547391--10547461	17	4.6	16	80	15	69	32	4	0	63	1.14
10547450--10547504	21	2.7	20	71	23	51	41	9	0	49	1.34
10547553--10547867	83	3.6	83	85	10	339	43	27	1	27	1.65
10548408--10549071	114	5.8	114	92	0	1071	28	26	21	23	1.99
10555610--10555731	57	2.1	57	96	0	226	33	1	16	48	1.56
10555624--10555752	57	2.3	56	84	8	163	36	2	16	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10560978--10561217	119	2.0	119	97	0	453	25	20	25	28	1.99
10565859--10566303	30	14.8	30	87	0	593	42	16	11	30	1.83
10572899--10573262	30	12.1	30	86	0	476	43	15	10	30	1.80
10572885--10573262	90	4.2	90	91	0	589	43	15	10	30	1.80
10576929--10576957	3	9.7	3	100	0	58	34	0	0	65	0.93
10582844--10582974	65	2.0	65	88	5	194	19	18	16	45	1.85
10586828--10587648	132	6.2	132	89	0	1151	30	19	23	26	1.98
10619770--10625479	132	43.5	132	83	5	5822	30	17	24	28	1.97
10620350--10620561	112	1.9	112	86	3	302	30	16	25	26	1.97
10620512--10620972	44	10.5	44	99	0	895	25	15	34	24	1.95
10623925--10624263	44	7.7	44	66	19	179	30	15	25	28	1.96
10624583--10624778	44	4.5	44	64	15	127	29	18	26	26	1.98
10662562--10664685	132	16.1	132	86	1	2879	30	18	24	26	1.98
10665341--10665383	21	2.0	21	86	0	59	30	2	2	65	1.18
10671247--10671313	23	3.0	22	81	18	75	40	20	16	22	1.91
10671276--10671326	23	2.2	23	92	0	84	41	21	15	21	1.90
10676603--10676670	27	2.5	27	78	0	73	22	27	16	33	1.95
10679597--10679639	20	2.2	20	87	8	61	41	4	16	37	1.69
10680384--10680438	24	2.3	24	87	0	74	20	25	18	36	1.94
10683767--10683825	24	2.5	24	86	2	75	33	1	0	64	1.04
10692478--10692503	12	2.2	12	100	0	52	15	0	23	61	1.33
10694063--10694750	238	2.9	238	90	1	1058	35	13	23	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10697042--10697076	17	2.1	17	94	0	61	37	25	8	28	1.85
10697924--10697958	16	2.1	17	89	5	54	48	0	8	42	1.33
10703163--10703201	19	2.1	19	85	0	51	38	28	2	30	1.70
10717796--10717849	4	13.5	4	96	0	99	25	0	25	48	1.52
10723301--10723986	114	6.2	112	85	8	931	41	14	16	27	1.87
10723310--10723982	220	3.0	219	88	6	961	40	14	16	27	1.88
10725067--10725287	109	2.0	109	90	7	347	31	15	14	38	1.88
10726939--10726973	17	2.1	17	94	0	61	14	25	25	34	1.94
10728462--10728487	13	2.0	13	100	0	52	30	7	15	46	1.74
10731778--10731802	13	1.9	13	100	0	50	12	24	8	56	1.62

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   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109