genome.fa.s6.2.7.7.80.10.50.1000.57.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  57  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)
18624702--18624747	2	24.0	2	86	8	69	47	2	0	50	1.13
18624702--18624747	19	2.5	19	89	6	69	47	2	0	50	1.13
18624702--18624747	23	2.0	23	95	0	83	47	2	0	50	1.13
18628912--18629068	51	3.1	51	100	0	314	39	11	29	19	1.86
18635984--18636087	5	20.8	5	78	18	94	80	0	18	0	0.76
18635995--18636080	4	20.8	4	84	14	72	80	0	18	1	0.78
18635984--18636087	35	3.1	34	85	10	142	80	0	18	0	0.76
18637262--18637420	44	3.6	44	91	0	255	33	22	20	22	1.97
18637429--18637748	40	7.6	40	66	14	144	27	22	22	28	1.99
18637350--18637762	127	3.3	127	92	0	691	28	22	22	26	1.99
18639108--18639136	2	15.0	2	92	7	51	48	0	0	51	1.00
18650415--18650484	34	2.1	34	97	0	131	57	8	10	24	1.59
18652129--18652171	21	2.0	21	86	9	59	20	2	4	72	1.14
18652519--18652554	18	2.0	18	88	0	54	52	0	25	22	1.47
18656049--18656080	6	5.3	6	100	0	64	65	0	0	34	0.93
18656720--18656768	24	2.0	24	100	0	98	20	0	38	40	1.53
18657381--18657655	36	6.7	44	83	14	278	29	21	13	35	1.92
18657374--18657655	82	3.5	81	79	18	318	29	20	13	35	1.92
18657424--18657658	118	2.0	118	97	0	443	30	20	12	36	1.90
18660193--18660279	11	8.3	11	67	19	60	44	2	31	21	1.65
18660169--18660268	51	2.0	51	86	4	139	46	2	28	24	1.64
18680691--18680731	21	2.0	21	90	0	64	17	12	21	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18681518--18681622	28	3.9	28	86	3	135	32	22	24	20	1.98
18681839--18682169	32	10.4	32	81	4	312	38	22	18	20	1.93
18681859--18682169	96	3.2	96	81	5	353	38	22	18	20	1.93
18682172--18682223	26	2.0	26	88	0	77	36	26	21	15	1.93
18682314--18682447	24	5.6	24	83	3	153	44	20	7	26	1.78
18682465--18682526	27	2.3	26	80	2	70	29	14	19	37	1.91
18685828--18685889	27	2.3	27	75	13	72	33	9	0	56	1.32
18688174--18688210	9	4.1	9	85	0	56	37	10	5	45	1.62
18688263--18688294	9	3.7	9	91	8	57	31	21	12	34	1.91
18693712--18693740	4	7.2	4	100	0	58	75	0	0	24	0.80
18693696--18693777	16	4.8	16	71	20	51	73	1	6	19	1.11
18693747--18693784	15	2.6	15	83	4	51	73	0	5	21	1.02
18693720--18693790	18	4.1	17	73	12	56	71	0	5	22	1.06
18700903--18700945	20	2.2	20	91	0	68	39	11	23	25	1.88
18703430--18703485	20	2.7	21	84	10	71	42	0	1	55	1.10
18711431--18711488	30	1.9	31	85	3	82	34	17	6	41	1.76
18714007--18714031	13	1.9	13	100	0	50	72	4	16	8	1.24
18720110--18720161	18	2.8	18	75	16	52	46	3	1	48	1.31
18723674--18723748	31	2.4	31	84	0	87	53	13	13	20	1.72
18737495--18737564	23	3.0	23	100	0	140	44	17	8	30	1.78
18741717--18741793	38	2.0	38	94	0	136	32	37	0	29	1.58
18752450--18752510	27	2.2	27	85	5	77	31	11	9	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18752466--18752527	27	2.3	27	82	0	79	29	11	16	43	1.82
18753818--18753857	21	1.9	21	84	0	53	52	22	5	20	1.65
18755856--18755905	4	13.0	4	76	16	52	2	26	0	72	0.96
18755947--18756014	18	4.2	16	75	22	54	35	4	0	60	1.17
18755968--18756020	26	2.0	27	81	7	63	39	1	1	56	1.21
18771741--18771789	20	2.3	21	80	16	57	61	4	0	34	1.15
18772709--18772735	13	2.1	13	100	0	54	37	7	55	0	1.28
18782290--18782364	38	2.0	38	81	5	89	41	5	1	52	1.33
18783110--18783167	24	2.5	22	75	22	55	68	8	1	20	1.25
18783123--18783171	17	2.9	17	78	6	55	67	10	4	18	1.36
18784544--18784609	32	2.1	32	100	0	132	56	9	9	25	1.60
18784544--18784637	32	2.8	32	87	4	98	57	9	7	25	1.57
18784829--18785136	136	2.3	136	95	0	555	40	14	16	28	1.88
18793690--18794049	27	13.4	27	84	4	408	42	23	16	17	1.89
18796573--18796640	33	2.1	33	97	0	127	45	13	23	17	1.84
18799292--18799326	2	17.5	2	100	0	70	48	0	0	51	1.00
18802003--18802045	15	2.7	16	85	7	52	27	6	4	60	1.43
18808318--18808369	24	2.2	24	100	0	104	32	17	30	19	1.95
18819913--18820129	89	2.4	90	80	5	242	25	15	24	34	1.95
18823178--18823322	76	1.9	76	89	0	227	31	4	20	43	1.73
18824328--18824391	3	21.3	3	90	6	103	65	1	0	32	1.02
18830111--18830739	211	3.0	211	90	1	994	22	18	17	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18842411--18842513	49	2.1	49	80	7	120	30	28	17	24	1.97
18857621--18857653	7	4.7	7	92	0	57	42	39	0	18	1.50
18859202--18859263	28	2.2	28	91	0	97	41	6	0	51	1.27
18859947--18860011	19	3.5	19	78	4	87	50	1	10	36	1.47
18860322--18860397	27	2.9	27	94	2	127	19	30	23	26	1.98
18860460--18860520	26	2.2	28	88	5	90	50	0	9	39	1.35
18861260--18861327	27	2.5	27	97	0	127	16	20	41	22	1.90
18861610--18861722	20	5.3	19	71	22	82	54	11	0	33	1.36
18861613--18861669	27	2.1	27	93	0	96	49	14	0	36	1.43
18861610--18861720	22	5.1	21	76	17	102	55	11	0	32	1.36
18861645--18861722	20	3.8	20	81	8	86	55	11	0	33	1.36
18870732--18870800	27	2.5	27	81	11	79	27	4	0	68	1.09
18873789--18873819	16	1.9	16	93	0	53	9	6	9	74	1.23
18873128--18874252	571	2.0	567	84	3	1456	34	13	16	34	1.89
18875431--18875537	37	2.9	35	78	19	96	40	2	3	53	1.33
18876612--18876670	28	2.1	28	93	0	100	35	23	0	40	1.55
18891549--18891582	16	2.2	16	89	5	52	2	5	35	55	1.39
18892227--18892265	14	2.9	14	84	3	53	30	0	10	58	1.31
18898978--18899027	25	2.0	25	84	7	66	64	2	0	34	1.05
18903755--18903814	23	2.6	22	82	15	68	43	0	16	40	1.48
18903862--18904071	28	8.1	23	71	20	116	29	0	23	46	1.56
18903776--18904076	29	11.1	28	77	12	222	31	0	23	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18903772--18904015	109	2.2	109	94	0	418	31	0	23	44	1.59
18903772--18904043	109	2.5	109	89	1	386	30	0	23	45	1.58
18914202--18914255	10	5.6	10	80	8	67	44	0	12	42	1.43
18914209--18914260	4	11.5	4	77	22	50	44	0	11	44	1.40
18914202--18914260	19	3.2	19	95	2	102	44	0	11	44	1.41
18918107--18918160	10	5.6	10	80	8	67	44	0	12	42	1.43
18918114--18918165	4	11.5	4	77	22	50	44	0	11	44	1.40
18918107--18918165	19	3.2	19	95	2	102	44	0	11	44	1.41
18919597--18919738	61	2.4	57	85	5	176	52	3	3	40	1.36
18920061--18920098	19	2.0	19	100	0	76	26	26	10	36	1.89
18925380--18925487	41	2.6	42	85	10	150	29	20	20	29	1.98
18925709--18925823	37	3.1	37	89	2	169	33	8	24	33	1.86
18927790--18927819	5	6.0	5	100	0	60	60	0	0	40	0.97
18928725--18928806	20	4.2	20	71	20	66	52	2	4	40	1.36
18928735--18928806	37	2.0	36	83	8	92	54	1	5	38	1.33
18929770--18929838	16	4.7	15	69	20	56	39	13	8	39	1.75
18938042--18938071	15	2.0	15	93	0	51	26	3	13	56	1.52
18938974--18939015	21	2.0	21	95	0	75	16	14	26	42	1.86
18940171--18940375	102	2.0	103	99	0	403	33	11	13	40	1.81
18947958--18948057	33	3.1	33	86	1	139	37	12	32	19	1.88
18953306--18953387	25	3.4	25	71	19	93	26	13	6	53	1.63
18953307--18953400	46	2.0	46	97	0	179	27	12	8	51	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18959003--18959047	9	5.3	9	79	15	51	55	28	0	15	1.41
18960845--18960945	29	3.5	29	85	6	125	34	16	18	29	1.94
18960861--18960993	29	4.6	29	85	3	169	30	15	21	33	1.94
18960825--18960992	59	3.0	57	80	7	164	28	17	21	32	1.96
18975120--18975270	75	2.0	75	97	0	284	51	3	13	30	1.60
18979358--18979675	159	2.0	159	100	0	636	34	12	14	38	1.84
18982368--18982522	79	2.0	79	90	0	247	43	18	10	27	1.82
18987791--18987854	32	2.0	32	82	14	78	28	25	1	45	1.63
18989052--18989117	35	1.9	34	87	9	98	39	7	1	51	1.40
18997378--18997424	2	23.5	2	100	0	94	48	0	0	51	1.00

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