genome.fa.s6.2.7.7.80.10.50.1000.98.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  98  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)
31279990--31280144	59	2.6	60	79	10	133	34	17	6	41	1.75
31280512--31280553	20	2.1	20	86	0	57	69	14	16	0	1.20
31280523--31280578	20	2.9	20	86	5	71	62	8	28	0	1.25
31280545--31280573	12	2.3	13	94	5	51	68	0	31	0	0.89
31280647--31280725	4	19.5	4	72	25	60	77	0	21	1	0.84
31280646--31280724	11	7.3	11	74	20	51	75	0	22	1	0.87
31280647--31280725	29	2.6	31	81	16	96	77	0	21	1	0.84
31280661--31280721	20	3.0	20	83	4	79	78	0	19	1	0.83
31280652--31280727	22	3.3	22	84	15	93	77	0	21	1	0.84
31280647--31280725	17	4.3	18	75	15	74	77	0	21	1	0.84
31280761--31280814	19	2.9	18	91	8	90	18	35	24	22	1.96
31281452--31281490	18	2.2	18	86	9	53	25	15	10	48	1.76
31281455--31281497	18	2.5	17	82	14	52	32	18	6	41	1.77
31281624--31281683	19	3.2	19	78	4	68	25	13	8	53	1.67
31281624--31281691	18	3.7	18	82	4	73	27	14	7	50	1.70
31281730--31281841	17	6.5	16	78	17	100	33	10	10	44	1.74
31281797--31281838	20	2.2	19	95	4	75	45	9	9	35	1.69
31281866--31281905	21	1.9	21	89	0	62	40	12	10	37	1.77
31286231--31286349	59	2.0	59	100	0	238	33	6	18	41	1.77
31290153--31290291	21	6.6	21	70	8	95	16	20	17	44	1.87
31290135--31290291	42	3.7	42	80	5	147	15	22	17	44	1.86
31294604--31294640	3	12.3	3	100	0	74	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31294975--31295016	12	3.2	14	74	19	54	40	0	7	52	1.29
31298530--31298596	32	2.1	32	83	2	82	35	8	4	50	1.54
31300911--31300978	29	2.3	30	75	14	70	5	25	1	67	1.21
31304369--31304422	20	2.8	20	76	18	60	27	5	0	66	1.13
31304478--31304536	9	5.9	10	71	15	50	37	3	0	59	1.14
31304936--31304993	25	2.4	23	81	16	64	36	0	8	55	1.31
31304979--31305037	29	2.0	30	87	9	86	52	0	6	40	1.28
31306598--31306671	23	3.2	23	75	11	87	25	18	14	40	1.89
31339998--31340140	71	2.0	72	98	1	279	43	9	5	41	1.61
31345578--31345605	2	14.0	2	100	0	56	50	0	0	50	1.00
31347588--31347622	18	1.9	18	88	0	52	25	20	14	40	1.90
31348741--31348798	28	2.1	28	93	0	98	53	0	8	37	1.32
31351245--31351809	251	2.3	250	90	0	889	29	21	18	30	1.97
31351245--31351812	125	4.5	125	84	3	739	29	21	18	30	1.97
31352320--31352354	16	2.2	16	90	10	54	42	0	0	57	0.99
31353593--31353721	43	3.0	43	100	0	258	30	16	13	39	1.87
31358182--31358333	76	2.0	76	100	0	304	27	14	19	38	1.91
31358899--31358929	3	10.3	3	100	0	62	32	0	32	35	1.58
31375678--31375776	49	2.0	49	92	3	164	25	15	22	37	1.93
31385435--31385776	171	2.0	172	83	6	435	34	19	6	39	1.78
31392502--31392551	26	1.9	26	84	8	66	40	8	0	52	1.31
31397191--31397225	16	2.1	17	89	5	54	48	0	8	42	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31404213--31404272	31	1.9	31	82	0	75	25	26	25	23	2.00
31409819--31409877	24	2.6	22	82	10	73	76	5	3	15	1.10
31410890--31410959	29	2.3	29	83	9	79	47	15	14	22	1.82
31411237--31411263	9	3.0	9	100	0	54	66	11	11	11	1.45
31411361--31411397	9	4.1	9	85	0	56	48	13	8	29	1.71
31412881--31412924	21	2.1	21	86	0	61	36	20	9	34	1.84
31413597--31413640	23	2.0	23	86	4	63	56	2	13	27	1.49
31415920--31416060	21	6.8	21	71	8	90	20	21	14	43	1.88
31415954--31416083	42	3.1	42	82	2	154	18	21	16	43	1.88
31421083--31421133	18	2.8	18	76	8	50	29	0	3	66	1.09
31438722--31438770	25	2.0	26	84	8	66	67	0	12	20	1.22
31445531--31445573	20	2.3	19	88	8	61	48	0	0	51	1.00
31446826--31446855	2	15.0	2	92	0	51	46	0	3	50	1.18
31447565--31447606	15	2.8	16	82	10	52	73	14	7	4	1.21
31451603--31451687	40	2.1	41	97	2	163	29	9	11	49	1.71
31453527--31453656	51	2.5	51	82	2	145	26	16	26	31	1.96
31453580--31453660	26	3.2	26	62	22	62	24	13	28	33	1.93
31453667--31453752	45	1.9	45	90	0	136	26	13	23	36	1.93
31456670--31456772	51	2.0	51	100	0	206	30	27	9	33	1.89
31460258--31460468	105	2.0	105	99	0	413	32	7	14	46	1.71
31477887--31477979	31	3.0	31	83	0	123	41	8	11	37	1.73
31482860--31483036	82	2.2	82	82	6	216	25	27	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31482862--31483011	41	3.7	41	86	3	203	24	28	19	28	1.98
31483441--31483495	2	27.5	2	81	7	58	47	3	3	45	1.38
31485685--31485765	24	3.4	24	91	3	137	38	20	18	22	1.94
31485972--31486039	24	2.8	25	76	14	70	35	22	27	14	1.93
31489151--31489179	12	2.4	12	100	0	58	58	0	6	34	1.25
31489694--31489936	121	2.0	121	100	0	486	24	15	11	48	1.78
31491418--31491785	125	2.9	125	97	0	682	25	19	20	34	1.96
31494253--31494299	6	8.0	6	79	11	53	2	17	0	80	0.80
31494269--31494300	16	1.9	17	93	6	57	0	18	0	81	0.70
31494450--31495008	273	2.0	274	91	0	897	30	20	19	29	1.97
31503483--31503513	16	1.9	16	100	0	62	25	25	41	6	1.79
31504605--31504643	7	5.9	7	90	3	55	2	15	0	82	0.79
31507327--31507352	6	4.3	6	100	0	52	19	0	50	30	1.48
31509496--31509795	24	12.8	24	70	14	171	55	4	6	34	1.44
31509493--31509781	69	4.1	68	75	10	228	55	4	5	34	1.45
31509586--31509790	47	4.4	45	73	12	139	56	4	5	33	1.43
31509573--31509778	70	3.0	69	76	7	209	55	4	5	33	1.45
31510548--31510617	19	3.7	20	79	9	83	11	31	5	51	1.61
31511017--31511060	18	2.4	18	92	0	70	40	40	2	15	1.60
31511255--31511314	28	2.2	28	81	3	68	38	8	16	36	1.79
31521672--31521725	20	2.7	20	75	16	58	40	0	3	55	1.17
31525077--31525121	18	2.5	19	72	20	51	42	2	0	55	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31526734--31526818	43	2.0	43	90	0	134	44	7	20	28	1.77
31529795--31529932	43	3.2	43	62	19	106	40	14	13	31	1.85
31529694--31529938	86	2.9	86	95	0	429	40	13	13	32	1.84
31530048--31530086	4	9.8	4	100	0	78	25	0	23	51	1.49
31530840--31530910	30	2.4	30	95	0	124	45	21	26	7	1.77
31534296--31534526	46	5.0	46	93	1	374	26	20	10	41	1.85
31538588--31538657	31	2.2	33	82	12	83	18	31	15	34	1.92
31546438--31546463	7	3.7	7	100	0	52	15	15	38	30	1.88
31546437--31546470	14	2.4	14	85	0	50	20	17	32	29	1.96
31548581--31548650	31	2.3	31	87	0	104	48	12	5	32	1.65
31550969--31551016	23	2.1	23	100	0	96	29	4	16	50	1.64
31550973--31551024	23	2.5	21	84	12	54	28	1	15	53	1.52
31551375--31551803	212	2.0	212	98	0	824	30	16	9	43	1.79
31553241--31553301	29	2.0	29	87	6	86	34	6	14	44	1.72
31553253--31553309	29	1.9	30	86	10	82	33	8	15	42	1.78
31555338--31555381	20	2.2	20	83	4	52	52	0	6	40	1.28
31558299--31558490	94	2.0	95	98	1	377	38	9	5	46	1.58
31565118--31565173	27	2.0	30	86	10	82	58	7	7	26	1.50
31567892--31567951	31	1.9	31	86	6	86	43	8	11	36	1.71
31569053--31569098	21	2.1	22	88	4	67	34	4	4	56	1.39
31569039--31569099	22	2.7	22	75	12	61	37	3	4	54	1.39
31569965--31570147	41	4.5	41	89	0	249	18	21	25	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31572075--31572155	15	5.4	15	75	11	85	22	1	43	33	1.61
31572060--31572154	15	6.4	14	73	14	57	22	1	43	33	1.60
31572094--31572154	31	2.0	31	90	0	95	22	1	42	32	1.64
31572039--31572156	7	16.0	7	71	18	62	22	0	42	34	1.59
31596740--31596816	29	2.6	29	83	4	91	46	14	14	24	1.81
31597003--31597050	16	2.9	16	78	3	60	52	10	0	37	1.36
31607623--31607670	23	2.0	24	84	11	64	47	2	6	43	1.40
31607956--31608004	25	2.0	25	83	0	62	71	0	0	28	0.86
31608693--31609317	134	4.6	138	86	5	797	25	13	14	46	1.81
31608684--31609560	134	6.6	132	78	10	747	25	14	14	45	1.82

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