genome.fa.s1.2.7.7.80.10.50.1000.88.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:  37323695

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   

This is table  88  of  93  ( 11113 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)
34440318--34440346	3	9.7	3	100	0	58	0	0	34	65	0.93
34443116--34443144	3	9.7	3	100	0	58	0	31	34	34	1.58
34443678--34443724	2	23.0	2	95	4	85	2	48	0	48	1.13
34444586--34444635	22	2.3	22	89	3	75	50	10	0	40	1.36
34444771--34444801	8	3.8	8	95	4	53	70	0	0	29	0.87
34445200--34445230	12	2.6	12	94	0	53	35	3	0	61	1.12
34445303--34445337	15	2.2	16	90	10	54	5	31	0	62	1.18
34446521--34446726	102	2.0	106	85	8	289	37	10	10	41	1.74
34446537--34446726	104	1.8	100	85	7	229	36	11	10	41	1.75
34455981--34456047	33	2.0	33	88	0	98	34	10	5	49	1.62
34456081--34456153	29	2.4	30	82	11	87	63	0	1	35	1.04
34463077--34463116	20	2.1	20	90	9	66	57	0	5	37	1.21
34471344--34471374	2	16.0	2	93	6	55	51	0	0	48	1.00
34488198--34488256	30	2.0	30	100	0	118	20	30	25	23	1.98
34495636--34495671	17	2.1	17	94	0	63	47	8	5	38	1.57
34506507--34506546	15	2.7	15	84	0	53	82	0	12	5	0.82
34521619--34521670	19	2.7	19	93	0	86	50	1	28	19	1.58
34526695--34526896	100	2.0	100	97	1	379	38	20	13	27	1.90
34531884--34531929	23	2.0	24	82	4	58	39	4	0	56	1.19
34536090--34536143	24	2.2	24	83	9	65	33	5	7	53	1.52
34536636--34536685	24	2.1	24	84	0	64	38	2	0	60	1.09
34547710--34547753	20	2.2	20	87	0	61	40	0	2	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34557660--34557850	90	2.1	91	92	2	314	23	11	23	41	1.86
34564388--34564427	16	2.5	16	87	0	53	50	0	2	47	1.14
34565672--34565714	11	3.9	11	75	0	50	51	4	11	32	1.59
34590193--34590238	21	2.2	21	84	0	56	13	56	10	19	1.66
34604849--34604917	30	2.4	30	82	4	79	31	4	7	56	1.46
34605335--34605375	2	21.0	2	95	5	75	51	0	0	48	1.00
34623804--34623837	17	2.1	15	89	10	50	38	11	0	50	1.39
34624320--34624470	59	2.6	59	88	0	212	33	15	5	45	1.69
34632554--34632597	23	2.0	22	83	12	56	65	4	0	29	1.12
34639527--34639556	2	15.5	2	93	6	53	53	0	46	0	1.00
34650331--34650397	26	2.6	25	86	9	66	28	10	28	32	1.90
34650348--34650397	26	1.9	26	100	0	100	30	8	32	30	1.86
34654707--34654762	20	2.8	20	79	15	62	41	0	1	57	1.09
34655350--34655434	42	2.0	42	88	4	127	32	9	3	54	1.50
34655499--34655559	29	2.1	29	87	6	88	31	6	4	57	1.46
34656041--34656076	18	2.0	18	89	10	56	30	19	0	50	1.48
34656329--34656378	24	2.1	24	85	14	68	46	18	32	4	1.67
34658813--34658871	21	2.7	21	84	12	66	55	0	1	42	1.09
34667361--34667436	5	15.0	5	84	10	52	75	0	0	25	0.81
34667351--34667428	5	13.8	6	76	21	64	73	0	0	26	0.84
34697047--34697270	82	2.8	83	81	5	255	42	11	12	33	1.78
34697161--34697232	25	2.9	24	78	13	74	47	9	9	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34697183--34697233	27	1.9	27	92	4	86	49	9	9	31	1.69
34697049--34697292	80	3.0	80	80	6	287	43	11	11	33	1.76
34703939--34704035	4	24.0	4	78	17	103	27	0	0	72	0.85
34703965--34704022	6	10.2	6	80	17	70	31	0	0	68	0.89
34703949--34704043	34	2.9	34	95	3	167	29	0	0	70	0.87
34720325--34720376	20	2.6	20	90	6	79	59	0	11	28	1.32
34722080--34722120	2	20.5	2	100	0	82	51	0	0	48	1.00
34726889--34727020	64	2.1	64	100	0	264	37	15	17	28	1.91
34729018--34729046	5	6.0	5	96	4	51	20	0	79	0	0.74
34735761--34735817	9	6.7	9	80	11	66	5	10	35	49	1.60
34735761--34735826	18	3.8	18	80	11	66	6	9	36	48	1.60
34735795--34735840	18	2.6	18	82	0	56	13	8	36	41	1.75
34754127--34754235	57	1.9	57	84	0	146	36	7	23	32	1.83
34754228--34754291	27	2.4	26	73	21	60	48	6	15	29	1.70
34755266--34755309	19	2.3	19	84	7	54	29	6	4	59	1.44
34787981--34788102	41	3.0	40	84	5	156	41	2	13	41	1.58
34799415--34799444	1	30.0	1	93	0	51	0	0	3	96	0.21
34806103--34806132	3	10.0	3	100	0	60	33	0	0	66	0.92
34854200--34854263	23	3.0	20	77	18	58	45	1	3	50	1.27
34860060--34860147	30	3.0	29	80	4	90	36	18	25	20	1.95
34869213--34869252	19	2.1	19	85	0	53	40	17	22	20	1.92
34880718--34880744	14	1.9	14	100	0	54	40	0	7	51	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34883283--34883313	2	15.5	2	93	0	53	45	51	0	3	1.17
34883425--34883454	16	1.9	16	93	6	53	73	0	26	0	0.84
34906552--34906592	17	2.4	17	83	0	55	56	4	0	39	1.21
34906550--34906601	15	3.3	15	79	10	59	55	3	0	40	1.18
34907063--34907125	30	2.1	30	90	0	99	57	0	7	34	1.28
34914982--34915038	12	4.9	12	74	25	52	28	3	0	68	1.06
34931174--34931325	79	2.0	76	90	3	241	38	14	15	30	1.88
34932745--34932813	22	2.9	22	78	16	75	50	0	0	49	1.00
34932748--34932809	8	7.6	8	72	16	56	53	0	0	46	1.00
34935546--34935591	20	2.2	22	88	7	69	60	6	0	32	1.22
34935995--34936044	26	2.0	25	84	4	64	74	0	2	24	0.93
34936005--34936054	15	3.4	15	78	10	50	74	0	0	26	0.83
34943612--34943651	20	2.0	20	85	0	53	12	12	22	52	1.72
34965968--34965996	3	9.7	3	100	0	58	68	0	31	0	0.89
34981996--34982436	224	2.0	220	97	1	828	32	17	28	21	1.96
34985635--34985676	17	2.5	17	76	7	50	42	4	2	50	1.36
34989127--34989169	21	2.0	22	90	4	70	34	11	4	48	1.60
34992521--34992587	28	2.4	28	89	0	98	61	4	2	31	1.31
34994025--34994076	26	2.0	26	96	0	95	32	1	0	65	1.04
34994039--34994085	19	2.4	20	82	3	51	31	6	0	61	1.21
34994376--34994400	7	3.6	7	100	0	50	16	0	0	84	0.63
34994395--34994433	16	2.4	17	86	4	53	33	5	0	61	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34994462--34994507	21	2.1	23	88	11	71	23	2	13	60	1.43
34995395--34995440	18	2.4	20	82	7	60	36	0	2	60	1.09
34995395--34995442	17	2.5	20	80	12	57	39	0	2	58	1.10
35003725--35003791	35	1.9	35	87	0	98	31	14	17	35	1.91
35005747--35005778	16	2.0	16	93	0	55	37	40	12	9	1.75
35043205--35043247	2	22.0	2	95	4	79	51	0	0	48	1.00
35043263--35043303	2	20.5	2	100	0	82	51	0	0	48	1.00
35051387--35051526	57	2.5	57	87	0	208	28	10	32	28	1.89
35056247--35056293	2	24.5	2	87	8	71	55	0	0	44	0.99
35084612--35084636	2	12.5	2	100	0	50	48	0	0	52	1.00
35084816--35084860	18	2.3	21	85	11	60	44	0	0	55	0.99
35088768--35088797	6	5.0	6	100	0	60	16	16	33	33	1.92
35097589--35097618	2	15.0	2	100	0	60	50	0	0	50	1.00
35097779--35097849	34	2.1	33	80	17	76	57	2	4	35	1.33
35099471--35099519	23	2.1	23	92	3	80	81	0	18	0	0.69
35099471--35099519	12	4.2	12	82	10	57	81	0	18	0	0.69
35105168--35105210	19	2.2	20	87	4	61	16	30	20	32	1.95
35116100--35116184	45	1.9	44	92	2	143	42	7	7	43	1.59
35122411--35122435	12	2.1	12	100	0	50	0	40	0	60	0.97
35146402--35146579	86	2.1	86	94	0	311	33	14	19	33	1.92
35151725--35151749	3	8.3	3	100	0	50	32	0	32	36	1.58
35155108--35155140	15	2.2	15	94	0	57	51	27	12	9	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35159586--35159616	6	5.2	6	96	0	53	0	12	35	51	1.40
35160377--35160442	29	2.3	29	82	10	82	39	4	0	56	1.20
35164132--35164232	30	3.2	30	70	21	91	37	4	0	57	1.20
35164132--35164260	63	2.0	65	84	13	169	38	6	0	54	1.28
35164525--35164581	13	4.8	12	74	21	57	26	0	0	73	0.83
35164530--35164580	9	5.6	9	73	13	50	25	0	0	74	0.82
35164525--35164577	24	2.2	22	78	18	61	24	0	0	75	0.80
35164560--35164609	24	2.1	24	85	7	66	38	0	0	62	0.96
35164574--35164644	24	3.0	23	76	17	56	46	0	0	53	1.00
35164601--35164670	24	3.0	23	79	10	61	45	0	1	52	1.09

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