genome.fa.s9.2.7.7.80.10.50.1000.3.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: chr9
Parameters: 2 7 7 80 10 50 1000
Length:  38630433

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   

This is table  3  of  97  ( 11551 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)
868649--868774	22	5.8	22	69	10	80	44	0	2	53	1.13
868641--868697	22	2.8	19	80	14	69	52	0	0	47	1.00
868641--868884	22	12.8	19	66	29	55	43	0	1	54	1.10
868612--868815	113	1.8	112	84	4	284	42	0	1	55	1.08
868745--868906	78	2.1	78	88	3	238	43	0	1	54	1.08
868781--868932	19	8.3	19	68	25	80	41	0	0	57	1.04
868860--868916	16	3.7	15	82	13	62	42	0	0	57	0.98
868742--868998	105	2.5	101	78	13	233	42	0	1	55	1.09
868771--868993	53	4.3	51	75	20	132	41	0	1	56	1.07
868888--868979	22	4.0	22	77	12	69	41	0	2	56	1.11
869058--869126	11	6.0	11	70	26	54	39	0	1	59	1.06
869055--869113	22	2.9	20	82	7	66	37	0	1	61	1.07
869065--869122	15	4.2	14	70	18	50	39	0	1	58	1.08
878399--878507	54	2.1	52	92	3	182	48	11	14	24	1.78
879304--879333	5	6.2	5	92	7	53	0	16	0	83	0.65
879304--879333	14	2.1	15	93	6	53	0	16	0	83	0.65
885322--885351	12	2.5	12	94	0	51	46	0	6	46	1.29
885658--885706	23	2.2	21	77	19	55	42	6	2	48	1.39
885666--885720	22	2.5	22	82	11	67	41	9	1	47	1.46
887021--887068	3	16.3	3	80	4	53	31	0	2	66	1.03
887119--887158	18	2.2	18	90	0	62	30	12	17	40	1.86
887119--887162	9	4.9	9	82	0	52	29	13	18	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
890322--890346	3	8.3	3	100	0	50	64	0	0	36	0.94
896581--896605	2	12.5	2	100	0	50	0	52	0	48	1.00
901283--901314	2	16.0	2	100	0	64	50	0	50	0	1.00
903758--903785	13	2.2	13	100	0	56	71	7	0	21	1.09
908996--909054	30	2.0	30	86	3	84	44	3	1	50	1.28
909860--909941	42	2.0	42	97	2	157	32	12	21	32	1.91
910123--910181	30	2.0	29	83	3	73	35	0	1	62	1.05
911687--911771	44	1.9	44	87	0	125	22	23	7	47	1.76
914253--914291	20	2.0	20	89	0	60	23	15	17	43	1.87
921301--921325	9	2.8	9	100	0	50	56	0	0	44	0.99
921717--921745	2	14.5	2	100	0	58	0	48	0	51	1.00
922683--922734	26	2.0	26	96	0	95	40	11	17	30	1.85
925745--926838	546	2.0	544	90	2	1748	27	15	22	33	1.95
927898--927957	2	30.5	2	93	3	104	0	48	0	50	1.01
927958--928000	2	21.5	2	90	0	68	44	4	0	51	1.22
931939--931963	9	2.8	9	100	0	50	88	0	0	12	0.53
942633--942666	12	2.8	12	86	0	50	47	0	52	0	1.00
958357--958392	17	2.1	17	90	10	56	0	11	5	83	0.80
965163--965188	2	13.0	2	100	0	52	50	0	0	50	1.00
965491--965558	33	2.0	34	82	2	84	42	16	4	36	1.68
976495--976519	10	2.5	10	100	0	50	52	8	0	40	1.31
977586--977630	2	22.0	2	95	4	81	48	0	2	48	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
978094--978133	2	20.0	2	100	0	80	50	0	0	50	1.00
982230--982259	15	2.0	15	100	0	60	33	20	20	26	1.97
1006532--1006598	21	3.2	21	79	8	57	43	0	2	53	1.16
1006546--1006599	20	2.7	20	77	13	56	44	0	1	53	1.11
1006574--1006698	63	2.0	64	87	10	177	40	0	1	56	1.14
1006596--1006684	20	4.3	19	66	21	54	40	1	1	56	1.14
1006670--1006765	26	3.6	26	73	17	72	38	1	2	58	1.17
1006906--1006936	16	1.9	16	93	0	53	48	3	0	48	1.17
1012121--1012289	55	3.1	54	80	4	187	39	9	8	42	1.69
1012169--1012267	27	3.7	27	76	14	98	39	10	7	43	1.66
1012146--1012427	26	10.2	28	70	17	137	38	8	7	45	1.62
1012317--1012391	25	2.9	26	84	2	89	37	6	6	49	1.55
1012335--1012425	25	3.6	25	77	7	94	42	6	3	47	1.46
1012629--1012673	20	2.2	20	84	7	56	48	8	8	33	1.65
1014532--1014592	31	2.0	29	81	12	70	36	8	8	47	1.63
1045828--1045854	3	9.0	3	100	0	54	66	0	0	33	0.92
1051841--1051874	3	11.3	3	90	0	50	26	32	2	38	1.71
1061950--1061977	2	14.0	2	100	0	56	50	0	0	50	1.00
1063437--1063651	114	1.9	111	80	11	249	26	10	6	57	1.56
1072324--1072348	12	2.1	12	100	0	50	16	24	8	52	1.70
1093192--1093227	18	2.0	18	88	0	54	5	55	5	33	1.46
1109923--1110106	91	2.0	91	100	0	368	23	26	12	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1119298--1119376	27	2.9	27	98	0	149	48	3	12	35	1.59
1130857--1132453	573	2.8	570	87	2	2256	34	14	12	37	1.85
1132577--1133483	364	2.5	362	81	2	1017	25	24	17	32	1.97
1133270--1133696	211	2.0	211	83	3	538	25	22	19	32	1.97
1136376--1136417	21	2.0	21	90	0	66	42	14	9	33	1.78
1145140--1145186	21	2.2	21	88	0	76	36	4	38	21	1.73
1145141--1145193	15	3.5	15	86	0	70	33	3	41	20	1.70
1145189--1145218	9	3.3	9	90	0	51	46	0	53	0	1.00
1150149--1150241	47	2.0	47	91	0	150	24	17	15	43	1.87
1155392--1155429	20	1.9	20	88	0	58	68	2	0	28	1.03
1158730--1158767	20	1.9	19	89	5	58	84	13	0	2	0.73
1167131--1167205	30	2.5	30	95	0	132	25	32	13	29	1.93
1167311--1167347	2	18.5	2	94	0	65	2	45	0	51	1.15
1179982--1180031	18	2.7	19	78	15	59	64	0	0	36	0.94
1182185--1182226	23	1.9	21	85	9	57	57	4	0	38	1.20
1182744--1182773	14	2.1	15	93	6	53	0	13	3	83	0.77
1188969--1189006	2	19.0	2	100	0	76	50	0	0	50	1.00
1192737--1192809	26	2.8	26	76	14	69	54	0	1	43	1.08
1199626--1199654	2	14.5	2	100	0	58	0	48	0	51	1.00
1208385--1208416	2	16.0	2	100	0	64	0	50	0	50	1.00
1212776--1212814	4	9.2	4	83	10	51	53	0	0	46	1.00
1212770--1212834	9	7.2	9	75	15	55	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1212776--1212814	13	3.1	13	96	3	71	53	0	0	46	1.00
1212972--1213006	16	2.1	17	94	5	63	57	5	0	37	1.23
1213013--1213144	39	3.3	40	84	3	167	23	0	15	59	1.41
1213002--1213075	22	3.5	22	65	29	52	21	0	13	64	1.27
1225276--1225349	37	2.0	37	94	0	130	27	18	29	24	1.98
1229398--1229437	20	2.0	20	100	0	80	45	0	5	50	1.23
1234391--1234596	77	2.6	78	87	4	308	30	20	13	35	1.91
1240424--1240660	117	2.0	115	84	7	318	46	6	4	42	1.51
1241560--1241606	24	1.9	24	91	4	76	68	4	0	27	1.08
1260661--1260694	2	17.0	2	93	0	59	0	52	0	47	1.00
1264110--1264150	20	2.0	20	100	0	82	43	26	9	19	1.82
1264184--1264229	23	2.0	24	86	4	67	41	4	10	43	1.59
1264466--1264508	2	21.5	2	100	0	86	48	0	0	51	1.00
1296969--1297015	22	2.2	23	81	11	64	38	0	0	61	0.96
1307651--1307675	2	12.5	2	100	0	50	52	0	48	0	1.00
1309751--1309790	21	1.9	21	89	0	62	75	10	2	12	1.15
1309743--1309790	21	2.3	22	79	13	57	68	10	4	16	1.33
1309996--1310031	18	1.9	19	88	5	56	2	19	0	77	0.88
1323594--1323628	17	2.1	17	100	0	70	25	11	28	34	1.91
1332494--1332541	21	2.3	21	92	0	78	16	16	43	22	1.87
1336304--1336337	17	1.9	18	88	5	52	38	32	2	26	1.71
1338947--1339013	33	2.0	33	85	0	89	35	20	14	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1348571--1348596	2	13.0	2	100	0	52	50	0	0	50	1.00
1358638--1358687	23	2.2	22	89	3	73	44	0	4	52	1.20
1365533--1365596	32	2.0	32	84	0	83	20	23	6	50	1.71
1374474--1374653	100	1.8	100	84	4	247	30	15	12	42	1.83
1393518--1393734	97	2.2	97	81	3	258	45	7	11	35	1.69
1394736--1394770	3	11.7	3	100	0	70	31	68	0	0	0.90
1404689--1404727	19	2.1	19	100	0	78	43	0	35	20	1.52
1413422--1413446	2	12.5	2	100	0	50	0	48	0	52	1.00
1431968--1432161	95	2.0	95	85	2	255	50	8	5	36	1.55
1432155--1432202	10	4.7	11	73	17	50	45	0	4	50	1.21

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