Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 244 of 292
Found at i:70884007 original size:51 final size:50
Alignment explanation
Indices: 70883907--70884011 Score: 176
Period size: 51 Copynumber: 2.1 Consensus size: 50
70883897 TGAAATGCCC
70883907 ATCATGGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCATT
*
70883957 ATCATGGAA-TTTTACCTAATCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAA-CCATTATCAT-GAACATTTACCTAACCCATT
70884008 ATCA
1 ATCA
70884012 ATTTGTATCA
Statistics
Matches: 52, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
49 9 0.17
50 19 0.37
51 24 0.46
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (50 bp):
ATCATGGAACATTTACCTAACCATTATCATGAACATTTACCTAACCCATT
Found at i:70884360 original size:6 final size:6
Alignment explanation
Indices: 70884344--70884537 Score: 114
Period size: 6 Copynumber: 33.5 Consensus size: 6
70884334 GGGCGTTACA
* * * * * *
70884344 CTCTCT GTCTCT CTCTCT CTCTCT CCCTCT CCCTCC CTCCCT CTCCCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * ** * * *
70884392 CTCCCT CTCCCT CTCTCT AGCTCT CCCTCT CTC-CC CTCTCT CCCTCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * * * *
70884439 CTCTCT CCCT-T C-CTCC CCCT-T CCCTCT CTTTCT CTCACT CTCCCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
* * * * *
70884484 CTC-CT C-CTCT CTCCCT CTCTCT CTTTCT CTCTCC CCCTCT CTATCT
1 CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT CTCTCT
70884530 C-CTCT CTC
1 CTCTCT CTC
70884538 CAGTTTTACT
Statistics
Matches: 146, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
4 3 0.02
5 21 0.14
6 122 0.84
ACGTcount: A:0.02, C:0.58, G:0.01, T:0.40
Consensus pattern (6 bp):
CTCTCT
Found at i:70884366 original size:8 final size:8
Alignment explanation
Indices: 70884344--70884537 Score: 114
Period size: 8 Copynumber: 25.1 Consensus size: 8
70884334 GGGCGTTACA
*
70884344 CTCTCTGT
1 CTCTCTCT
70884352 CTCTCTCT
1 CTCTCTCT
70884360 CTCTCTCT
1 CTCTCTCT
* *
70884368 CCCTCTCC
1 CTCTCTCT
* *
70884376 CTCCCTCC
1 CTCTCTCT
*
70884384 CTCTCCCT
1 CTCTCTCT
*
70884392 CTCCCTCT
1 CTCTCTCT
*
70884400 CCCTCTCT
1 CTCTCTCT
**
70884408 CTAGCTCT
1 CTCTCTCT
*
70884416 CCCTCTCT
1 CTCTCTCT
*
70884424 C-CCCTCT
1 CTCTCTCT
*
70884431 CTCCCTCT
1 CTCTCTCT
*
70884439 CTCTCTCC
1 CTCTCTCT
70884447 CT-TC-CT
1 CTCTCTCT
* *
70884453 CCCCCT-T
1 CTCTCTCT
*
70884460 CCCTCTCT
1 CTCTCTCT
* *
70884468 TTCTCTCA
1 CTCTCTCT
*
70884476 CTCTCCCT
1 CTCTCTCT
70884484 CTC-CTC-
1 CTCTCTCT
*
70884490 CTCTCTCC
1 CTCTCTCT
70884498 CTCTCTCT
1 CTCTCTCT
*
70884506 CTTTCTCT
1 CTCTCTCT
* *
70884514 CTCCCCCT
1 CTCTCTCT
*
70884522 CTCTATCT
1 CTCTCTCT
70884530 C-CTCTCT
1 CTCTCTCT
70884537 C
1 C
70884538 CAGTTTTACT
Statistics
Matches: 139, Mismatches: 41, Indels: 13
0.72 0.21 0.07
Matches are distributed among these distances:
6 5 0.04
7 26 0.19
8 108 0.78
ACGTcount: A:0.02, C:0.58, G:0.01, T:0.40
Consensus pattern (8 bp):
CTCTCTCT
Found at i:70884373 original size:10 final size:10
Alignment explanation
Indices: 70884351--70884537 Score: 130
Period size: 10 Copynumber: 19.6 Consensus size: 10
70884341 ACACTCTCTG
*
70884351 TCTCTCTCTC
1 TCTCTCTCCC
70884361 TCTCTCTCCC
1 TCTCTCTCCC
*
70884371 TCTCCCTCCC
1 TCTCTCTCCC
*
70884381 TCCCTCTCCC
1 TCTCTCTCCC
*
70884391 TCTCCCTCTCC
1 TCTCTCTC-CC
70884402 -CTCTCT--C
1 TCTCTCTCCC
**
70884409 TAGCTCTCCC
1 TCTCTCTCCC
70884419 TCTCTC-CCC
1 TCTCTCTCCC
70884428 TCTCTC-CCTC
1 TCTCTCTCC-C
70884438 TCTCTCTCCC
1 TCTCTCTCCC
70884448 T-TC-CTCCC
1 TCTCTCTCCC
70884456 -C-CT-TCCC
1 TCTCTCTCCC
* *
70884463 TCTCTTTCTC
1 TCTCTCTCCC
*
70884473 TCACTCTCCC
1 TCTCTCTCCC
70884483 TCTC-CT-CC
1 TCTCTCTCCC
70884491 TCTCTC-CCTC
1 TCTCTCTCC-C
**
70884501 TCTCTCTTTC
1 TCTCTCTCCC
*
70884511 TCTCTCCCCC
1 TCTCTCTCCC
*
70884521 TCTCTATCTCC
1 TCTCTCTC-CC
70884532 TCTCTC
1 TCTCTC
70884538 CAGTTTTACT
Statistics
Matches: 137, Mismatches: 24, Indels: 31
0.71 0.12 0.16
Matches are distributed among these distances:
7 6 0.04
8 16 0.12
9 19 0.14
10 85 0.62
11 11 0.08
ACGTcount: A:0.02, C:0.58, G:0.01, T:0.40
Consensus pattern (10 bp):
TCTCTCTCCC
Found at i:70892642 original size:26 final size:26
Alignment explanation
Indices: 70892606--70892715 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
70892596 CATGATATTC
70892606 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
70892632 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
70892658 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
70892684 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
70892710 TTATCA
1 TTATCA
70892716 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:70893627 original size:85 final size:87
Alignment explanation
Indices: 70893538--70893695 Score: 198
Period size: 87 Copynumber: 1.8 Consensus size: 87
70893528 TGAATTATAA
* ** *
70893538 ATTTTTTAG-ATGTCAAAATATAAACTTTATCAT-T-TATTAATTTATGATTTCATTAT-TTTTG
1 ATTTTTTAGAAAGTCAAAATAT-AACTTTATCATATATATTAATTTACAATTTAATTATCTTTT-
*
70893599 AAGGGACTAAATAATTTTATTTTT
64 AAGAGACTAAATAATTTTATTTTT
* * *
70893623 ATTTTTTAGAAAGTTAAAGTATAATTTTATCATATATATTAATTTACAATTTAATTATCTTTTAA
1 ATTTTTTAGAAAGTCAAAATATAACTTTATCATATATATTAATTTACAATTTAATTATCTTTTAA
70893688 GAGACTAA
66 GAGACTAA
70893696 GGCTTCCTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
85 19 0.31
86 10 0.16
87 28 0.46
88 4 0.07
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (87 bp):
ATTTTTTAGAAAGTCAAAATATAACTTTATCATATATATTAATTTACAATTTAATTATCTTTTAA
GAGACTAAATAATTTTATTTTT
Found at i:70894936 original size:21 final size:21
Alignment explanation
Indices: 70894895--70894936 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
70894885 CAATACCACA
*
70894895 TAAAAATATTTATTATTTTTT
1 TAAAAATATTTATTATGTTTT
70894916 TAAAAATATTT-TTAGTGTTTT
1 TAAAAATATTTATTA-TGTTTT
70894937 CTCTTATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (21 bp):
TAAAAATATTTATTATGTTTT
Found at i:70898508 original size:21 final size:23
Alignment explanation
Indices: 70898484--70898527 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
70898474 GAATTGAATT
70898484 TTATTTTT-ATTTAAT-ATATAA
1 TTATTTTTAATTTAATGATATAA
*
70898505 TTATTTTTAATTTTATGATATAA
1 TTATTTTTAATTTAATGATATAA
70898528 AAATAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 8 0.40
22 6 0.30
23 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATTTTTAATTTAATGATATAA
Found at i:70898519 original size:23 final size:21
Alignment explanation
Indices: 70898484--70898527 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
70898474 GAATTGAATT
70898484 TTATTTTTATTTAAT-ATATAA
1 TTATTTTTATTT-ATGATATAA
70898505 TTATTTTTAATTTTATGATATAA
1 TTATTTTT-A-TTTATGATATAA
70898528 AAATAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 8 0.40
22 3 0.15
23 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTTATTTATGATATAA
Found at i:70900388 original size:26 final size:26
Alignment explanation
Indices: 70900359--70900416 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
70900349 TGGTACAAAT
70900359 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
70900385 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
70900411 TGATAA
1 TGATAA
70900417 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:70901927 original size:26 final size:26
Alignment explanation
Indices: 70901898--70901947 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
70901888 TACAGTTTTA
70901898 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
70901924 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
70901948 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:70906138 original size:26 final size:26
Alignment explanation
Indices: 70906101--70906184 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
70906091 TGATACAAAT
* *
70906101 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
70906127 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
70906153 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
70906179 TGATAA
1 TGATAA
70906185 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:70907694 original size:26 final size:26
Alignment explanation
Indices: 70907665--70907717 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
70907655 TTTACAGTTT
70907665 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
70907691 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
70907717 T
1 T
70907718 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:70909512 original size:19 final size:20
Alignment explanation
Indices: 70909467--70909513 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
70909457 TATCAGTTTA
*
70909467 AAATGAAAT-AACACATAAT
1 AAATGAAATAAACAAATAAT
*
70909486 AAAT-AAATAAATAAATAAT
1 AAATGAAATAAACAAATAAT
70909505 -AATGAAATA
1 AAATGAAATA
70909514 TGTATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (20 bp):
AAATGAAATAAACAAATAAT
Found at i:70909620 original size:16 final size:16
Alignment explanation
Indices: 70909573--70909620 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
70909563 TTTTAAAATT
70909573 ATAAATAATATAAT-G
1 ATAAATAATATAATAG
* *
70909588 ---AATAATATAAAAC
1 ATAAATAATATAATAG
70909601 ATAAATAATATAATAG
1 ATAAATAATATAATAG
70909617 ATAA
1 ATAA
70909621 TATACGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 7
0.69 0.11 0.19
Matches are distributed among these distances:
12 10 0.40
16 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (16 bp):
ATAAATAATATAATAG
Found at i:70909636 original size:28 final size:28
Alignment explanation
Indices: 70909566--70909688 Score: 92
Period size: 28 Copynumber: 4.4 Consensus size: 28
70909556 TTACAAATTT
70909566 TAAAATTATAAATAATATAAT-GAATAATA
1 TAAAA-TATAAATAATATAATAG-ATAATA
*
70909595 TAAAACATAAATAATATAATAGATAATA
1 TAAAATATAAATAATATAATAGATAATA
** * *
70909623 TACGATATATATAATA-AA-AAATAATA
1 TAAAATATAAATAATATAATAGATAATA
* * *
70909649 TAATAAGTAATATATAATAAAATA-AAAATA
1 TAA-AA-T-ATAAATAATATAATAGATAATA
*
70909679 AAAAATATAA
1 TAAAATATAA
70909689 TAAATGTTAT
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
26 9 0.12
27 6 0.08
28 34 0.44
29 18 0.23
30 9 0.12
31 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (28 bp):
TAAAATATAAATAATATAATAGATAATA
Found at i:70909672 original size:12 final size:12
Alignment explanation
Indices: 70909629--70909711 Score: 69
Period size: 14 Copynumber: 6.4 Consensus size: 12
70909619 AATATACGAT
70909629 ATATATAATAAAAA
1 ATATATAAT--AAA
70909643 ATAATATAATAAGTA
1 AT-ATATAATAA--A
70909658 ATATATAATAAA
1 ATATATAATAAA
*
70909670 ATA-AAAATAAA
1 ATATATAATAAA
*
70909681 AAATATAATAAA
1 ATATATAATAAA
*
70909693 TGTTATATAATAAA
1 --ATATATAATAAA
70909707 ATATA
1 ATATA
70909712 ATATAAATAC
Statistics
Matches: 57, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
11 9 0.16
12 15 0.26
13 2 0.04
14 21 0.37
15 10 0.18
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.31
Consensus pattern (12 bp):
ATATATAATAAA
Found at i:70909700 original size:37 final size:39
Alignment explanation
Indices: 70909573--70909744 Score: 135
Period size: 38 Copynumber: 4.5 Consensus size: 39
70909563 TTTTAAAATT
*
70909573 ATAAAT-A-ATATAATGAATAATATAAAACATAAATAATATA
1 ATAAATAATATATAAT-AA-AATATAAAATA-AAATAATATA
* ** *
70909613 ATAGATAATATACGAT-ATATATAATAA-AAAATAATATA
1 ATAAATAATATATAATAAAATATAA-AATAAAATAATATA
*
70909651 ATAAGTAATATATAATAAAATA-AAAATAAAA-AATATA
1 ATAAATAATATATAATAAAATATAAAATAAAATAATATA
** * **
70909688 ATAAATGTTATATAATAAAATATAATAT-AAATACATAGG
1 ATAAATAATATATAATAAAATATAAAATAAAATA-ATATA
*
70909727 A-AAATAATATATGATAAA
1 ATAAATAATATATAATAAA
70909745 TAAATTTTTT
Statistics
Matches: 106, Mismatches: 18, Indels: 18
0.75 0.13 0.13
Matches are distributed among these distances:
37 30 0.28
38 47 0.44
39 15 0.14
40 8 0.08
41 1 0.01
42 5 0.05
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (39 bp):
ATAAATAATATATAATAAAATATAAAATAAAATAATATA
Found at i:70909780 original size:24 final size:23
Alignment explanation
Indices: 70909752--70909814 Score: 56
Period size: 26 Copynumber: 2.6 Consensus size: 23
70909742 AAATAAATTT
70909752 TTTTTATATAAATATATAAATAG
1 TTTTTATATAAATATATAAATAG
**
70909775 TATTTT-TAATAATAATATATGTATAG
1 T-TTTTAT-AT-A-AATATATAAATAG
*
70909801 TTTTTAAATAAATA
1 TTTTTATATAAATA
70909815 AATTATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
23 6 0.19
24 7 0.22
25 7 0.22
26 12 0.38
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (23 bp):
TTTTTATATAAATATATAAATAG
Found at i:70909823 original size:24 final size:24
Alignment explanation
Indices: 70909752--70909823 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
70909742 AAATAAATTT
* * *
70909752 TTTTTATATAAATATA-TAAATAG
1 TTTTTAAATAAATAAATTATATAG
* *
70909775 TATTTTTAAT-AATAATATATGTATAG
1 T-TTTTAAATAAATAA-AT-TATATAG
70909801 TTTTTAAATAAATAAATTATATA
1 TTTTTAAATAAATAAATTATATA
70909824 TAAAAAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
23 5 0.14
24 12 0.32
25 9 0.24
26 11 0.30
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTTTAAATAAATAAATTATATAG
Found at i:70909825 original size:26 final size:27
Alignment explanation
Indices: 70909759--70909825 Score: 77
Period size: 26 Copynumber: 2.6 Consensus size: 27
70909749 TTTTTTTTAT
* *
70909759 ATAAATATATAAATAGTATTTTTAATA
1 ATAAATATATATATAGTATTTTAAATA
*
70909786 AT-AATATATGTATAGT-TTTTAAATAA
1 ATAAATATATATATAGTATTTTAAAT-A
70909812 ATAAAT-TATATATA
1 ATAAATATATATATA
70909826 AAAAATAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
25 7 0.21
26 22 0.65
27 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
ATAAATATATATATAGTATTTTAAATA
Found at i:70917526 original size:33 final size:33
Alignment explanation
Indices: 70917489--70917553 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
70917479 AAATTTAATA
*
70917489 ATACGATAATTAATATTATACTTATCACAAATC
1 ATACGATAACTAATATTATACTTATCACAAATC
* *
70917522 ATACGATAACTAATATTATATTTATCATAAAT
1 ATACGATAACTAATATTATACTTATCACAAAT
70917554 TATTACATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.38
Consensus pattern (33 bp):
ATACGATAACTAATATTATACTTATCACAAATC
Found at i:70920428 original size:19 final size:19
Alignment explanation
Indices: 70920404--70920443 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
70920394 CATACAAAGA
70920404 TATACAAAAAGATGTAAAC
1 TATACAAAAAGATGTAAAC
*
70920423 TATACAAAAGGATGTAAAC
1 TATACAAAAAGATGTAAAC
70920442 TA
1 TA
70920444 CTTTAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.10, G:0.12, T:0.23
Consensus pattern (19 bp):
TATACAAAAAGATGTAAAC
Found at i:70920540 original size:17 final size:17
Alignment explanation
Indices: 70920513--70920576 Score: 58
Period size: 17 Copynumber: 3.5 Consensus size: 17
70920503 CTATTAATAC
70920513 ATATATATAAATATTATT
1 ATAT-TATAAATATTATT
70920531 ATATTATAAAT-TATATT
1 ATATTATAAATAT-TATT
* *
70920548 AAAATATACAATATTATAT
1 ATATTATA-AATATTAT-T
70920567 AATATTATAA
1 -ATATTATAA
70920577 TATAATGACA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
16 1 0.03
17 17 0.46
18 10 0.27
19 3 0.08
20 6 0.16
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (17 bp):
ATATTATAAATATTATT
Found at i:70920575 original size:20 final size:19
Alignment explanation
Indices: 70920504--70920576 Score: 59
Period size: 20 Copynumber: 3.9 Consensus size: 19
70920494 TTACCAAAAC
70920504 TATTA-ATACATATATATAAA
1 TATTATATA-ATAT-TATAAA
70920524 TATTAT-T-ATATTAT-AA
1 TATTATATAATATTATAAA
*
70920540 -ATTATATTAA-AATATACAA
1 TATTATA-TAATATTATA-AA
70920559 TATTATATAATATTATAA
1 TATTATATAATATTATAA
70920577 TATAATGACA
Statistics
Matches: 43, Mismatches: 2, Indels: 17
0.69 0.03 0.27
Matches are distributed among these distances:
15 5 0.12
16 2 0.05
17 8 0.19
18 5 0.12
19 6 0.14
20 17 0.40
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (19 bp):
TATTATATAATATTATAAA
Found at i:70927487 original size:21 final size:21
Alignment explanation
Indices: 70927461--70927502 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
70927451 CACACTCACC
*
70927461 AACAAA-ATCAAAACAAGAAAA
1 AACAAACACCAAAA-AAGAAAA
70927482 AACAAACACCAAAAAAGAAAA
1 AACAAACACCAAAAAAGAAAA
70927503 GATTCGCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.76, C:0.17, G:0.05, T:0.02
Consensus pattern (21 bp):
AACAAACACCAAAAAAGAAAA
Found at i:70930242 original size:14 final size:14
Alignment explanation
Indices: 70930216--70930256 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
70930206 TTAAAAATTA
70930216 TTATAA-TATTTAAT
1 TTATAATTA-TTAAT
70930230 TTATAATTATTAA-
1 TTATAATTATTAAT
*
70930243 TTAAAATTATTAAT
1 TTATAATTATTAAT
70930257 ATAAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 10 0.42
15 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATTATTAAT
Found at i:70930252 original size:13 final size:14
Alignment explanation
Indices: 70930234--70930263 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
70930224 TTTAATTTAT
70930234 AATTATTAAT-TAA
1 AATTATTAATATAA
70930247 AATTATTAATATAA
1 AATTATTAATATAA
70930261 AAT
1 AAT
70930264 AAAATTTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.62
14 6 0.38
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATTAATATAA
Found at i:70932999 original size:17 final size:15
Alignment explanation
Indices: 70932951--70932999 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 15
70932941 TTTTAACTTT
*
70932951 TTTTACTTTTTAA-A
1 TTTTAATTTTTAAGA
*
70932965 TTTTCATTTTTAAGA
1 TTTTAATTTTTAAGA
70932980 TTTTAATTTCTTATAGA
1 TTTTAATTT-TTA-AGA
70932997 TTT
1 TTT
70933000 AACCCTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 11 0.38
15 9 0.31
16 3 0.10
17 6 0.21
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (15 bp):
TTTTAATTTTTAAGA
Found at i:70934932 original size:2 final size:2
Alignment explanation
Indices: 70934925--70934964 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
70934915 TCACGTTTAC
*
70934925 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
70934965 TATGGGTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:70937048 original size:19 final size:19
Alignment explanation
Indices: 70937026--70937091 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
70937016 ATGTGGTTTT
70937026 GATATAATTGATATATATA
1 GATATAATTGATATATATA
** * *
70937045 GATATAATTTTTTTAATATTTT
1 GATATAA--TTGAT-ATATATA
*
70937067 GATATAATTGGTATATATA
1 GATATAATTGATATATATA
70937086 GATATA
1 GATATA
70937092 TTTTTTAATA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 18 0.50
20 3 0.08
21 3 0.08
22 12 0.33
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (19 bp):
GATATAATTGATATATATA
Found at i:70937096 original size:39 final size:41
Alignment explanation
Indices: 70937022--70937105 Score: 145
Period size: 41 Copynumber: 2.1 Consensus size: 41
70937012 ATTTATGTGG
70937022 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
1 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
*
70937063 TTTTGATATAATTGGTATATATAGATAT-A-TTTTTTAATA
1 TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
70937102 TTTT
1 TTTT
70937106 AGTAGTTTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 14 0.33
40 1 0.02
41 27 0.64
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (41 bp):
TTTTGATATAATTGATATATATAGATATAATTTTTTTAATA
Found at i:70938496 original size:56 final size:56
Alignment explanation
Indices: 70938410--70938545 Score: 218
Period size: 56 Copynumber: 2.4 Consensus size: 56
70938400 ACCATGGCAT
** *
70938410 CGATATATGTGTGCGAGTAAGACTGCGTTTTATACGTTGACATTGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
* *
70938466 CGATATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
*
70938522 CGATATATGTGTGAGAGTAAGACC
1 CGATATATGTGTGCGAGTAAGACC
70938546 CTGTCTGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 73 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTTTATACGTTGACATCGATATGTGACTC
Found at i:70938563 original size:56 final size:56
Alignment explanation
Indices: 70938410--70938574 Score: 163
Period size: 56 Copynumber: 2.9 Consensus size: 56
70938400 ACCATGGCAT
* * ** * * * * *
70938410 CGATATATGTGTGCGAGTAAGACTGCGTTTTATACGTTGACATTGATATGTGACTC
1 CGATATATATGTGAGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
* * * *
70938466 CGATATATATGTGCGAGTAAGACCACGTTTTATACGTTGGCATCGATATGTGACTC
1 CGATATATATGTGAGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
* *
70938522 CGATATATGTGTGAGAGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATGTGA
1 CGATATATATGTGAGAGTAAGACCAC-GTCTGAGAC-GTTGGCATCGATATGTGA
70938575 TTACATGTAA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
55 1 0.01
56 94 0.98
57 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (56 bp):
CGATATATATGTGAGAGTAAGACCACGTCTGAGACGTTGGCATCGATATGTGACTC
Found at i:70941953 original size:21 final size:21
Alignment explanation
Indices: 70941927--70941968 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
70941917 GTTTATCATT
70941927 TGTCTCGAGACATCAAGAACA
1 TGTCTCGAGACATCAAGAACA
*
70941948 TGTCTCGAGACCTCAAGAACA
1 TGTCTCGAGACATCAAGAACA
70941969 AATTTAAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (21 bp):
TGTCTCGAGACATCAAGAACA
Found at i:70942712 original size:28 final size:29
Alignment explanation
Indices: 70942677--70942769 Score: 68
Period size: 28 Copynumber: 3.3 Consensus size: 29
70942667 AAATTCAAAT
* *
70942677 ATTA-AAAATTTATTAAAGATTAGAAAAA
1 ATTATAAAATTTATAAAAGAATAGAAAAA
* * *
70942705 A-TATAAAAATCATAAAAGAATATAAAAA
1 ATTATAAAATTTATAAAAGAATAGAAAAA
* * *
70942733 ATTGTAAAATTT-T-ACAGAAATTGTAAAAA
1 ATTATAAAATTTATAAAAG-AATAG-AAAAA
70942762 ATTATAAA
1 ATTATAAA
70942770 TATAAAAATA
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
27 5 0.10
28 25 0.51
29 19 0.39
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
ATTATAAAATTTATAAAAGAATAGAAAAA
Found at i:70943077 original size:18 final size:18
Alignment explanation
Indices: 70943056--70943110 Score: 58
Period size: 18 Copynumber: 3.0 Consensus size: 18
70943046 AAAAAAATAT
*
70943056 AATTTTTAATAAATTTTA
1 AATTTTTAATAAAATTTA
*
70943074 AATTTTTATTAAAATTTAA
1 AATTTTTAATAAAATTT-A
*
70943093 TAATTTTT-CTAAAATTTA
1 -AATTTTTAATAAAATTTA
70943111 TTATTTATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 16 0.50
19 9 0.28
20 7 0.22
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AATTTTTAATAAAATTTA
Found at i:70943088 original size:19 final size:20
Alignment explanation
Indices: 70943054--70943110 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
70943044 ATAAAAAAAT
*
70943054 ATAATTTTTAAT-AAATTTT
1 ATAATTTTTAATAAAATTTA
*
70943073 A-AATTTTTATTAAAATTTA
1 ATAATTTTTAATAAAATTTA
*
70943092 ATAATTTTT-CTAAAATTTA
1 ATAATTTTTAATAAAATTTA
70943111 TTATTTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 9 0.27
19 17 0.52
20 7 0.21
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAATTTTTAATAAAATTTA
Found at i:70953154 original size:26 final size:26
Alignment explanation
Indices: 70953122--70953178 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
70953112 GTTAGAAAGC
70953122 ATTATTGTTCAATTTGGCGAAGCATG
1 ATTATTGTTCAATTTGGCGAAGCATG
* *
70953148 ATTATTGTTTAATTTTGCGAAGCATG
1 ATTATTGTTCAATTTGGCGAAGCATG
*
70953174 CTTAT
1 ATTAT
70953179 AAATAAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.44
Consensus pattern (26 bp):
ATTATTGTTCAATTTGGCGAAGCATG
Found at i:70959906 original size:6 final size:6
Alignment explanation
Indices: 70959895--70959929 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
70959885 GGTTTTCTCC
70959895 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
70959930 TCATTTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:70959954 original size:63 final size:62
Alignment explanation
Indices: 70959833--70959962 Score: 156
Period size: 63 Copynumber: 2.1 Consensus size: 62
70959823 ATATTGAATC
* * *
70959833 AAATGAAAATTAAATAAAAATAGAGAAATAGGAAACATTTGGAAATTATGAAGGTTTTCTCCA
1 AAATGAAAATAAAATAAAAATAGAGAAATA-GAAACATTTGGAAATAATGAAGATTTTCTCCA
* * *
70959896 AAATGAAAATGAAAATGAAAATGGAGAAAT-GAAATCATTTGGAAATGAATG-TGATTTTCTCCA
1 AAATGAAAAT-AAAATAAAAATAGAGAAATAGAAA-CATTTGGAAAT-AATGAAGATTTTCTCCA
70959959 AAAT
1 AAAT
70959963 ATGAAATGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
62 4 0.07
63 35 0.60
64 19 0.33
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (62 bp):
AAATGAAAATAAAATAAAAATAGAGAAATAGAAACATTTGGAAATAATGAAGATTTTCTCCA
Found at i:70959986 original size:16 final size:16
Alignment explanation
Indices: 70959965--70960005 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
70959955 TCCAAAATAT
*
70959965 GAAATGAATTCATTTA
1 GAAATGAACTCATTTA
70959981 GAAATGAACTCATTTA
1 GAAATGAACTCATTTA
70959997 GAAATGAAC
1 GAAATGAAC
70960006 AAGGATTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (16 bp):
GAAATGAACTCATTTA
Found at i:70966509 original size:58 final size:56
Alignment explanation
Indices: 70966399--70966522 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 56
70966389 TATCATTTTA
* * *
70966399 AATTTAATACTTATCTTGATAGTATTTTATTAATTTAATAGATTTAATATTAAATTT
1 AATTTAATACTTATCTTAATAGTATTATATTAATTTAATA-ATTAAATATTAAATTT
* *
70966456 AATTTAATATTTATCTTAATAAGTATTATATTAATTTAAT-ATTAAAGTGATTAAGTTT
1 AATTTAATACTTATCTTAAT-AGTATTATATTAATTTAATAATTAAA-T-ATTAAATTT
70966514 AATTATAAT
1 AATT-TAAT
70966523 TAACATTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
56 5 0.09
57 19 0.33
58 30 0.52
59 4 0.07
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (56 bp):
AATTTAATACTTATCTTAATAGTATTATATTAATTTAATAATTAAATATTAAATTT
Found at i:70966583 original size:15 final size:16
Alignment explanation
Indices: 70966563--70966592 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
70966553 ATTATATTGA
70966563 TTTC-TTTTCCCAAAT
1 TTTCTTTTTCCCAAAT
70966578 TTTCTTTTTCCCAAA
1 TTTCTTTTTCCCAAA
70966593 AACAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.53
Consensus pattern (16 bp):
TTTCTTTTTCCCAAAT
Found at i:70990100 original size:31 final size:31
Alignment explanation
Indices: 70990064--70990126 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
70990054 TTAAAGATAA
70990064 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
1 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
70990095 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
1 AATTATTAACAAAAAAAGAGAGAAAAGTTGT
70990126 A
1 A
70990127 CTTTGAGGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.59, C:0.03, G:0.16, T:0.22
Consensus pattern (31 bp):
AATTATTAACAAAAAAAGAGAGAAAAGTTGT
Found at i:70993601 original size:39 final size:39
Alignment explanation
Indices: 70993547--70993623 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
70993537 ACTACAAAGG
*
70993547 GAGGATAATATATATATGTATGTTTGTATACACACACAT
1 GAGGATAATATATATATGTATGTATGTATACACACACAT
70993586 GAGGATAATATATATATGTATGTATGTATACACACACA
1 GAGGATAATATATATATGTATGTATGTATACACACACA
70993624 CACATATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (39 bp):
GAGGATAATATATATATGTATGTATGTATACACACACAT
Found at i:70997623 original size:25 final size:26
Alignment explanation
Indices: 70997561--70997629 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
70997551 ATTAGATCCT
*
70997561 TTTTTTACT-TTATTATTAAAATTAA
1 TTTTTTACTATTATCATTAAAATTAA
* **
70997586 TTATTTTAGTATTATCATTACTATT-A
1 TT-TTTTACTATTATCATTAAAATTAA
70997612 TTTTTTACTATTATCATT
1 TTTTTTACTATTATCATT
70997630 TTTTTCAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 17 0.46
26 9 0.24
27 11 0.30
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.61
Consensus pattern (26 bp):
TTTTTTACTATTATCATTAAAATTAA
Found at i:70997784 original size:13 final size:13
Alignment explanation
Indices: 70997735--70997785 Score: 50
Period size: 13 Copynumber: 3.9 Consensus size: 13
70997725 TTCTAACATG
* *
70997735 TATATATTATGTA
1 TATATTTTATATA
*
70997748 AATATTTTA-ATA
1 TATATTTTATATA
*
70997760 TTATATTATATATA
1 -TATATTTTATATA
70997774 TATATTTTATAT
1 TATATTTTATAT
70997786 GAGTTATGTA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
12 2 0.07
13 25 0.83
14 3 0.10
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (13 bp):
TATATTTTATATA
Found at i:70997858 original size:24 final size:24
Alignment explanation
Indices: 70997809--70997860 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
70997799 AGGTTTTTTA
70997809 ATATCTTTAATATATTATTATGTAT
1 ATATCTTTAATATATTATTA-GTAT
70997834 ATAT-TTT-A-ATATTATTAGTTAT
1 ATATCTTTAATATATTATTAG-TAT
70997856 ATATC
1 ATATC
70997861 CTCTAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 1 0.04
22 16 0.64
23 1 0.04
24 3 0.12
25 4 0.16
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (24 bp):
ATATCTTTAATATATTATTAGTAT
Found at i:70997867 original size:24 final size:22
Alignment explanation
Indices: 70997820--70997890 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
70997810 TATCTTTAAT
*
70997820 ATATTATTATGTATATATTTTA
1 ATATTATTATGTATATATTCTA
70997842 ATATTATTA-GTTATATATCCTCTA
1 ATATTATTATG-TATATAT--TCTA
70997866 ATACTATATGT-TGTATAT-TTCTA
1 ATA-T-TAT-TATGTATATATTCTA
70997889 AT
1 AT
70997891 TACTCTTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 13
0.75 0.02 0.24
Matches are distributed among these distances:
21 1 0.02
22 16 0.39
23 6 0.15
24 6 0.15
25 2 0.05
26 8 0.20
27 2 0.05
ACGTcount: A:0.34, C:0.07, G:0.06, T:0.54
Consensus pattern (22 bp):
ATATTATTATGTATATATTCTA
Found at i:70998084 original size:3 final size:3
Alignment explanation
Indices: 70998076--70998126 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
70998066 ATTTTCATCC
70998076 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
70998124 TAT
1 TAT
70998127 ATCATTAAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:71006209 original size:3 final size:3
Alignment explanation
Indices: 71006201--71006239 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
71006191 AACTCATTTG
71006201 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
71006240 GTTTTAGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:71008879 original size:12 final size:13
Alignment explanation
Indices: 71008864--71008893 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
71008854 ATTTTCATTA
71008864 ATATAAA-ATGAT
1 ATATAAACATGAT
71008876 ATATAAACATGAT
1 ATATAAACATGAT
71008889 ATATA
1 ATATA
71008894 GTACAAACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.57, C:0.03, G:0.07, T:0.33
Consensus pattern (13 bp):
ATATAAACATGAT
Found at i:71010158 original size:2 final size:2
Alignment explanation
Indices: 71010153--71010177 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
71010143 TGACATTATT
71010153 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
71010178 GGACTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:71014473 original size:22 final size:21
Alignment explanation
Indices: 71014431--71014473 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
71014421 TGGGCCAGCC
* *
71014431 TTTTATTTATTTGTTTGTTTT
1 TTTTATTTATTTGCTTATTTT
*
71014452 TTTTTTTTCATTTGCTTATTTT
1 TTTTATTT-ATTTGCTTATTTT
71014474 ACTTATGCTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.09, C:0.05, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTTATTTATTTGCTTATTTT
Found at i:71015989 original size:29 final size:29
Alignment explanation
Indices: 71015956--71016025 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
71015946 TAATAAATTA
**
71015956 AGGTACCAAATTGAACTTAAAAAAAGCTT
1 AGGTACCAAATTGAACCCAAAAAAAGCTT
** * *
71015985 AGGTACCAAATTGGGCCCCAAAAAAGTTT
1 AGGTACCAAATTGAACCCAAAAAAAGCTT
71016014 AGGTACCAAATT
1 AGGTACCAAATT
71016026 AGGAAAAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (29 bp):
AGGTACCAAATTGAACCCAAAAAAAGCTT
Found at i:71016524 original size:10 final size:9
Alignment explanation
Indices: 71016498--71016535 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
71016488 AAGTATAATT
71016498 TATTAAAAA
1 TATTAAAAA
71016507 TATTAAAATA
1 TATTAAAA-A
*
71016517 TGTTAAAAA
1 TATTAAAAA
71016526 TATTAAAAA
1 TATTAAAAA
71016535 T
1 T
71016536 TTTGTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (9 bp):
TATTAAAAA
Found at i:71016529 original size:28 final size:28
Alignment explanation
Indices: 71016464--71016535 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
71016454 ATAATAATTC
*
71016464 TAAAAA-ATTAAAAATCTTAGAAATAAG
1 TAAAAATATTAAAAATATTAGAAATAAG
** *
71016491 TATAATTTATTAAAAATATTA-AAATATG
1 TA-AAAATATTAAAAATATTAGAAATAAG
71016519 TTAAAAATATTAAAAAT
1 -TAAAAATATTAAAAAT
71016536 TTTGTTAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
27 2 0.06
28 20 0.56
29 14 0.39
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.35
Consensus pattern (28 bp):
TAAAAATATTAAAAATATTAGAAATAAG
Found at i:71019143 original size:13 final size:13
Alignment explanation
Indices: 71019127--71019177 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
71019117 TTTAAATCAA
71019127 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
*
71019140 ACTTCTT-AAAAGT
1 ACTT-TTCAAAAGC
71019153 ACTTTTCAATAA-C
1 ACTTTTCAA-AAGC
71019166 ACTTTTCAAAAG
1 ACTTTTCAAAAG
71019178 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
12 4 0.12
13 24 0.75
14 4 0.12
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:71019157 original size:26 final size:26
Alignment explanation
Indices: 71019127--71019190 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
71019117 TTTAAATCAA
71019127 ACTTTTCAAAAGCACTTCTT-AAAAGT
1 ACTTTTCAAAAGCACTT-TTCAAAAGT
71019153 ACTTTTCAATAA-CACTTTTCAAAAGT
1 ACTTTTCAA-AAGCACTTTTCAAAAGT
* *
71019179 ATTTTTTAAAAG
1 ACTTTTCAAAAG
71019191 TATTGCCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
25 4 0.12
26 27 0.82
27 2 0.06
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (26 bp):
ACTTTTCAAAAGCACTTTTCAAAAGT
Found at i:71019208 original size:24 final size:24
Alignment explanation
Indices: 71019182--71019226 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
71019172 CAAAAGTATT
71019182 TTTTAAAAGTA-TTG-CCATAATCA
1 TTTTAAAA-TATTTGACCATAATCA
71019205 TTTTAAAATATTTGACCATAAT
1 TTTTAAAATATTTGACCATAAT
71019227 TATAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 2 0.10
23 11 0.55
24 7 0.35
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (24 bp):
TTTTAAAATATTTGACCATAATCA
Found at i:71021441 original size:6 final size:6
Alignment explanation
Indices: 71021430--71021468 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
71021420 AGTCTAAATA
71021430 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTAT AAT
71021469 AAAATTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:71023720 original size:35 final size:35
Alignment explanation
Indices: 71023681--71023847 Score: 174
Period size: 35 Copynumber: 4.6 Consensus size: 35
71023671 CATGGAAAAG
71023681 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
* *
71023716 TGTGAAATGTAGGTATGGTATTATCCATACTGAGC
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
71023751 TGTGAAATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
*** * * *
71023791 TAAAAAAATGTAGGTATGGCAT-TTCCCATACCGAGT
1 T-GTGAAATGTAGGTATGGTATCAT-CCATACTGAGT
**
71023827 TGAAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
71023848 TTCAATAGGG
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
35 70 0.62
36 11 0.10
38 5 0.04
40 13 0.12
41 14 0.12
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:71023835 original size:76 final size:75
Alignment explanation
Indices: 71023685--71023852 Score: 197
Period size: 76 Copynumber: 2.3 Consensus size: 75
71023675 GAAAAGTGTG
*** *
71023685 AAATGTAGGTATGG---TATC--ATCCATACTGAGTTGTGAAATGTAGGTATGGTATTATCCATA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTATCCATA
* **
71023745 CTGAGCTGTG
66 CCGAGCTGAA
71023755 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAAATGTAGGTATGGCATT-TCCCA
1 AAATGTAGGTATGGTATTATCAAATCCATACTGAGTT-AAAAAATGTAGGTATGGCATTAT-CCA
*
71023819 TACCGAGTTGAA
64 TACCGAGCTGAA
71023831 AAATGTAGGTATGGTATT-TCAA
1 AAATGTAGGTATGGTATTATCAA
71023853 TAGGGAAAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
70 14 0.17
73 4 0.05
75 19 0.23
76 46 0.55
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (75 bp):
AAATGTAGGTATGGTATTATCAAATCCATACTGAGTTAAAAAATGTAGGTATGGCATTATCCATA
CCGAGCTGAA
Found at i:71029191 original size:2 final size:2
Alignment explanation
Indices: 71029184--71029214 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
71029174 AAATATAAAA
*
71029184 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71029215 CGTACTTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:71029241 original size:3 final size:3
Alignment explanation
Indices: 71029233--71029271 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
71029223 AAAAAGTATT
*
71029233 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA GAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
71029272 AAAAAACATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:71035192 original size:2 final size:2
Alignment explanation
Indices: 71035179--71035220 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
71035169 AGGTGTAATC
*
71035179 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
71035221 TTTAAAAGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71035668 original size:20 final size:20
Alignment explanation
Indices: 71035633--71035681 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
71035623 TAATGTTATT
* * *
71035633 ACTATTTATGATTTGATTCC
1 ACTATTCATGACTTGACTCC
*
71035653 ACTGTTCATGACTTGACTCC
1 ACTATTCATGACTTGACTCC
71035673 ACTATTCAT
1 ACTATTCAT
71035682 AAGACTGACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.10, T:0.43
Consensus pattern (20 bp):
ACTATTCATGACTTGACTCC
Found at i:71040112 original size:9 final size:9
Alignment explanation
Indices: 71040098--71040142 Score: 54
Period size: 9 Copynumber: 4.8 Consensus size: 9
71040088 CAAAAATGGT
71040098 TTAAAAAAA
1 TTAAAAAAA
71040107 TTAAAAAATA
1 TTAAAAAA-A
**
71040117 TTTTTAAAAA
1 -TTAAAAAAA
71040127 TTAAAAAAA
1 TTAAAAAAA
71040136 TTAAAAA
1 TTAAAAA
71040143 TTTTAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 22 0.73
10 2 0.07
11 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TTAAAAAAA
Found at i:71040114 original size:21 final size:20
Alignment explanation
Indices: 71040097--71040142 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
71040087 CCAAAAATGG
71040097 TTTAAAAAAATTAAAAAATA
1 TTTAAAAAAATTAAAAAATA
**
71040117 TTTTTAAAAATTAAAAAA-A
1 TTTAAAAAAATTAAAAAATA
71040136 -TTAAAAA
1 TTTAAAAA
71040143 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 5 0.23
19 1 0.05
20 16 0.73
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
TTTAAAAAAATTAAAAAATA
Found at i:71042950 original size:17 final size:16
Alignment explanation
Indices: 71042927--71042969 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
71042917 TAATTTTTTA
71042927 AAAATTATAAAAAAAT
1 AAAATTATAAAAAAAT
*
71042943 ATAAATTATTAAAATAAT
1 A-AAATTA-TAAAAAAAT
71042961 AAAATTATA
1 AAAATTATA
71042970 TTTTTATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.12
17 12 0.50
18 9 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATTATAAAAAAAT
Found at i:71043799 original size:26 final size:26
Alignment explanation
Indices: 71043770--71043877 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
71043760 TGGTACAAAT
71043770 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
71043796 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71043822 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
71043848 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
71043874 TGAT
1 TGAT
71043878 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:71048802 original size:13 final size:13
Alignment explanation
Indices: 71048784--71048808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71048774 CATAAAATTA
71048784 TATTTTTAATTTG
1 TATTTTTAATTTG
71048797 TATTTTTAATTT
1 TATTTTTAATTT
71048809 AATTATAGCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
TATTTTTAATTTG
Found at i:71049972 original size:43 final size:43
Alignment explanation
Indices: 71049911--71049998 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
71049901 CAACCTTAGC
71049911 TTGACAGTTTAAGAAATGTTCTAGCTATCTCCCATTTGGGTTT
1 TTGACAGTTTAAGAAATGTTCTAGCTATCTCCCATTTGGGTTT
71049954 TTGACAGTTTAAGAAATGTTCTAGCTATCTCCCATTTGGGTTT
1 TTGACAGTTTAAGAAATGTTCTAGCTATCTCCCATTTGGGTTT
71049997 TT
1 TT
71049999 TTTTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.23, C:0.16, G:0.18, T:0.43
Consensus pattern (43 bp):
TTGACAGTTTAAGAAATGTTCTAGCTATCTCCCATTTGGGTTT
Found at i:71068439 original size:19 final size:19
Alignment explanation
Indices: 71068415--71068462 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
71068405 TATTGTGTTA
*
71068415 TTTTGAAATCAATTACTGT
1 TTTTGAAAACAATTACTGT
*
71068434 TTTTGAAAACAATTATTGT
1 TTTTGAAAACAATTACTGT
71068453 TTTTGAAAAC
1 TTTTGAAAAC
71068463 GCGCCCTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.35, C:0.08, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTTGAAAACAATTACTGT
Found at i:71069018 original size:27 final size:27
Alignment explanation
Indices: 71068980--71069091 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
71068970 AGCATGGCTG
* *
71068980 CCAGA-ACAGATAATGTGACAGAGTCA
1 CCAGATACAGATAATGTGGCAGAGCCA
*
71069006 CCAGATAGAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAAT-GTGGCAGAGCCA
71069034 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
* *
71069061 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATA-ATGTGGCAGAGCCA
71069088 CCAG
1 CCAG
71069092 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.71
28 17 0.22
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CCAGATACAGATAATGTGGCAGAGCCA
Found at i:71069044 original size:54 final size:54
Alignment explanation
Indices: 71068980--71069091 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
71068970 AGCATGGCTG
* *
71068980 CCAGAACAGATA-ATGTGACAGAGTCACCAGATAGAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
71069034 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
71069088 CCAG
1 CCAG
71069092 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.65
55 18 0.35
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:71074947 original size:12 final size:13
Alignment explanation
Indices: 71074926--71074957 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
71074916 AAAATACAAC
71074926 TTAA-TTTTTTTA
1 TTAATTTTTTTTA
71074938 -TAATTTTTTTTA
1 TTAATTTTTTTTA
71074950 TTAATTTT
1 TTAATTTT
71074958 CCAACATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 8 0.44
13 7 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TTAATTTTTTTTA
Found at i:71079680 original size:7 final size:7
Alignment explanation
Indices: 71079668--71079699 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
71079658 ATTACATAGC
71079668 ATATAAT
1 ATATAAT
71079675 ATATAAT
1 ATATAAT
71079682 ATATAAT
1 ATATAAT
71079689 ATATAAT
1 ATATAAT
71079696 ATAT
1 ATAT
71079700 TATTAGTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
ATATAAT
Found at i:71081737 original size:21 final size:21
Alignment explanation
Indices: 71081713--71081781 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
71081703 CATAGGTGAC
71081713 CAAAATGTAAATTGAGGTAAA
1 CAAAATGTAAATTGAGGTAAA
* *
71081734 CAAAA-GTAGCTACTT-AGGT-GA
1 CAAAATGTA---AATTGAGGTAAA
*
71081755 CTAAAATGTAAACTGAGGTAAA
1 C-AAAATGTAAATTGAGGTAAA
71081777 CAAAA
1 CAAAA
71081782 GTGACTACTT
Statistics
Matches: 36, Mismatches: 5, Indels: 14
0.65 0.09 0.25
Matches are distributed among these distances:
20 5 0.14
21 15 0.42
22 10 0.28
23 6 0.17
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.22
Consensus pattern (21 bp):
CAAAATGTAAATTGAGGTAAA
Found at i:71081766 original size:43 final size:43
Alignment explanation
Indices: 71081705--71081791 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
71081695 ATTTCGAACA
*
71081705 TAGGTGACCAAAATGTAAATTGAGGTAAACAAAAGT-AGCTACT
1 TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGA-CTACT
*
71081748 TAGGTGACTAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
1 TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
71081791 T
1 T
71081792 TAGTATTTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.24
Consensus pattern (43 bp):
TAGGTGACCAAAATGTAAACTGAGGTAAACAAAAGTGACTACT
Found at i:71081924 original size:20 final size:20
Alignment explanation
Indices: 71081899--71081937 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
71081889 ACATTATTGA
71081899 TCTCCTAACTAATA-CAGATT
1 TCTCCTAAC-AATATCAGATT
*
71081919 TCTCCTGACAATATCAGAT
1 TCTCCTAACAATATCAGAT
71081938 GAGATGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (20 bp):
TCTCCTAACAATATCAGATT
Found at i:71087339 original size:39 final size:39
Alignment explanation
Indices: 71087285--71087410 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
71087275 TTCAGTGATG
71087285 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
71087324 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * *
71087363 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
71087402 TATGTCCGG
1 TATATCCGG
71087411 GCTAAAGTCC
Statistics
Matches: 81, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:71087424 original size:39 final size:39
Alignment explanation
Indices: 71087285--71087448 Score: 197
Period size: 39 Copynumber: 4.2 Consensus size: 39
71087275 TTCAGTGATG
* *
71087285 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * *
71087324 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTAGAAT
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
*
71087363 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
* * * * * *
71087402 TATGTCCGGGC-TAAAGTCCCGCAGGCTTCGAGCTGGTAT
1 TATATCCGGACTTAAGGT-CCGCAGGCTACGTGCTGGAAT
71087441 TATA-CCGG
1 TATATCCGG
71087449 GTTTAAATTC
Statistics
Matches: 111, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
38 9 0.08
39 102 0.92
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
TATATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAT
Found at i:71088435 original size:23 final size:23
Alignment explanation
Indices: 71088404--71088447 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
71088394 ATTGAGTATT
* *
71088404 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
71088427 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
71088448 TATTGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:71088572 original size:23 final size:23
Alignment explanation
Indices: 71088529--71088596 Score: 68
Period size: 23 Copynumber: 2.9 Consensus size: 23
71088519 TACATATTAG
*
71088529 AAATAATAATAATAATGTTACA-
1 AAATAATAATAATAATATTACAT
*
71088551 AAATAATTATTAATAATATTACAT
1 AAATAA-TAATAATAATATTACAT
71088575 AAATATATACAT-ATATATATTA
1 AAATA-ATA-ATAATA-ATATTA
71088597 AAGATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.16
23 14 0.37
24 10 0.26
25 8 0.21
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (23 bp):
AAATAATAATAATAATATTACAT
Found at i:71089657 original size:275 final size:274
Alignment explanation
Indices: 71089166--71089719 Score: 1081
Period size: 275 Copynumber: 2.0 Consensus size: 274
71089156 AAGGACCGAA
71089166 TCGAAATTAAATGAGGTTAAAGGGGATAAATCGTGAAAAATAAAAAAAAGGGCTAACATTGAACG
1 TCGAAATTAAATGAGGTTAAAGGGGATAAATCGTGAAAAATAAAAAAAAGGGCTAACATTGAACG
*
71089231 CGCAAACAAAGTGGAAGGACCAAAGGGAAAATATCTCTGCCTTTCAAAACGTTGCACCTCATGTA
66 CGCAAACAAAGTGGAAGGACCAAAGGGAAAATATCTCTGCCTTTCAAAACGTTGCACCTCATGCA
71089296 GGATTAAAATGGAATAAAAATGAAATCATCGAGCCAAATTAAAAATAAAGAAAAGTGAATTGTGG
131 GGATTAAAATGGAATAAAAATGAAATCATCGAGCCAAATTAAAAATAAAGAAAAGTGAATTGTGG
*
71089361 AGTAATTAAAAGGCGGAAGGACCAAATGGGAAAATAGGCCCTTTAAACGAAAACACACGGATCCA
196 AGTAATTAAAAGGCAGAAGGACCAAATGGGAAAATAGGCCCTTTAAACGAAAACACACGGATCCA
71089426 AGGCCTGGGGCGAG
261 AGGCCTGGGGCGAG
71089440 TCGAAATTAAATGAGGTTAAAGGGGATAAATCGTGAAAAATAAAAAAAAAGGGCTAACATTGAAC
1 TCGAAATTAAATGAGGTTAAAGGGGATAAATCGTGAAAAAT-AAAAAAAAGGGCTAACATTGAAC
71089505 GCGCAAACAAAGTGGAAGGACCAAAGGGAAAATATCTCTGCCTTTCAAAACGTTGCACCTCATGC
65 GCGCAAACAAAGTGGAAGGACCAAAGGGAAAATATCTCTGCCTTTCAAAACGTTGCACCTCATGC
71089570 AGGATTAAAATGGAATAAAAATGAAATCATCGAGCCAAATTAAAAATAAAGAAAAGTGAATTGTG
130 AGGATTAAAATGGAATAAAAATGAAATCATCGAGCCAAATTAAAAATAAAGAAAAGTGAATTGTG
71089635 GAGTAATTAAAAGGCAGAAGGACCAAATGGGAAAATAGGCCCTTTAAACGAAAACACACGGATCC
195 GAGTAATTAAAAGGCAGAAGGACCAAATGGGAAAATAGGCCCTTTAAACGAAAACACACGGATCC
71089700 AAGGCCTGGGGCGAG
260 AAGGCCTGGGGCGAG
71089715 TCGAA
1 TCGAA
71089720 TTCGGGTCAG
Statistics
Matches: 277, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
274 41 0.15
275 236 0.85
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.18
Consensus pattern (274 bp):
TCGAAATTAAATGAGGTTAAAGGGGATAAATCGTGAAAAATAAAAAAAAGGGCTAACATTGAACG
CGCAAACAAAGTGGAAGGACCAAAGGGAAAATATCTCTGCCTTTCAAAACGTTGCACCTCATGCA
GGATTAAAATGGAATAAAAATGAAATCATCGAGCCAAATTAAAAATAAAGAAAAGTGAATTGTGG
AGTAATTAAAAGGCAGAAGGACCAAATGGGAAAATAGGCCCTTTAAACGAAAACACACGGATCCA
AGGCCTGGGGCGAG
Found at i:71095019 original size:20 final size:20
Alignment explanation
Indices: 71094994--71095035 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
71094984 TAGAAATAGT
*
71094994 AATTAAAATAATTTTTTTAA
1 AATTAAAATAATATTTTTAA
* *
71095014 AATTAAACTGATATTTTTAA
1 AATTAAAATAATATTTTTAA
71095034 AA
1 AA
71095036 AAATATAGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTAAAATAATATTTTTAA
Found at i:71098374 original size:2 final size:2
Alignment explanation
Indices: 71098367--71098392 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
71098357 AGTTTCATAC
71098367 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
71098393 GTGTGTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:71098641 original size:30 final size:30
Alignment explanation
Indices: 71098585--71098641 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
71098575 TTTTAAAATT
* * *
71098585 ATATTATTATATTATGTAATATTATATCAC
1 ATATTATTATAGTATATAATAATATATCAC
71098615 ATATTATTATAGTA-ATACATAATATAT
1 ATATTATTATAGTATATA-ATAATATAT
71098642 TAATTATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 2 0.09
30 21 0.91
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (30 bp):
ATATTATTATAGTATATAATAATATATCAC
Found at i:71098806 original size:21 final size:21
Alignment explanation
Indices: 71098761--71098812 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
71098751 ATCACATATC
* * * *
71098761 ATATATGTATTCATAGTTTAT
1 ATATATGTATTAATAATTAAA
71098782 ATATATGTATTAATAATTAAA
1 ATATATGTATTAATAATTAAA
71098803 ATATTATGTA
1 ATA-TATGTA
71098813 ATATTATATC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 20 0.77
22 6 0.23
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (21 bp):
ATATATGTATTAATAATTAAA
Found at i:71099360 original size:17 final size:17
Alignment explanation
Indices: 71099335--71099370 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
71099325 TAGGATTTTT
71099335 TTTAAAAAAAT-TATAA
1 TTTAAAAAAATATATAA
71099351 TTTAAAAAAATATATAA
1 TTTAAAAAAATATATAA
71099368 TTT
1 TTT
71099371 TGAAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAAAATATATAA
Found at i:71110075 original size:26 final size:26
Alignment explanation
Indices: 71110039--71110094 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
71110029 TTAATTGAAT
* *
71110039 ATAATTAAAATATATTAATTTATTTA
1 ATAATTAAAATATATTAATATATTCA
* *
71110065 ATAATTTAAATATTTTAATATATTCA
1 ATAATTAAAATATATTAATATATTCA
71110091 ATAA
1 ATAA
71110095 ACAATATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (26 bp):
ATAATTAAAATATATTAATATATTCA
Found at i:71111510 original size:2 final size:2
Alignment explanation
Indices: 71111503--71111531 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
71111493 TTCAAAATGA
71111503 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71111532 AATTAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:71114006 original size:20 final size:20
Alignment explanation
Indices: 71113950--71114012 Score: 63
Period size: 22 Copynumber: 3.0 Consensus size: 20
71113940 AAAAAAAATC
*
71113950 ATACTTTATTTTTTATAAAA
1 ATACTTTATTTTTAATAAAA
* * *
71113970 AGAATTTATATTATTAATAAGA
1 ATACTTTAT-TT-TTAATAAAA
71113992 ATACTTTATTTTTAAATAAAA
1 ATACTTTATTTTT-AATAAAA
71114013 CCATAATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
20 9 0.27
21 10 0.30
22 14 0.42
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (20 bp):
ATACTTTATTTTTAATAAAA
Found at i:71126921 original size:29 final size:27
Alignment explanation
Indices: 71126886--71126939 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
71126876 CCATAACAGA
*
71126886 GAATCCCGTGAAAAAATTTCGAAACATGG
1 GAATCCCGAG-AAAAATTTC-AAACATGG
*
71126915 GAATCCCGAGATAAATTTCAAACAT
1 GAATCCCGAGAAAAATTTCAAACAT
71126940 CCCATCTTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 8 0.35
29 9 0.39
ACGTcount: A:0.43, C:0.19, G:0.17, T:0.22
Consensus pattern (27 bp):
GAATCCCGAGAAAAATTTCAAACATGG
Found at i:71128898 original size:46 final size:44
Alignment explanation
Indices: 71128794--71128901 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
71128784 TGTCTTTGAC
** * * *
71128794 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
71128838 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
71128884 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
71128902 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:71134095 original size:330 final size:329
Alignment explanation
Indices: 71133481--71134139 Score: 1275
Period size: 330 Copynumber: 2.0 Consensus size: 329
71133471 CTCTGATACC
71133481 AATAAATGTAACGCCCCACGCCCGAAACCATCACCGGAGTCAAGCTTGAGGTGTTACTAAACTTA
1 AATAAATGTAACGCCCCACGCCCGAAACCATCACCGGAGTCAAGCTTGAGGTGTTACTAAACTTA
*
71133546 TCTTACCTTTTAAACAACTCTAAATCACTTATTTTAATTTTCGGAATAAACTGTTTTTCTGCGTC
66 TCTTACCTTTTAAACAACTCTAAATCACTTATTTTAATTTTCAGAATAAACTGTTTTTCTGCGTC
71133611 ATGGTTACTTAAAAATTCATTTCTCGAGTTTCAAAACTCGAAATTAAGATCCGTAATTTTTCATG
131 ATGGTTACTTAAAAATTCATTTCTCGAGTTTCAAAACTCGAAATTAAGATCCGTAATTTTTCATG
71133676 AAACTAGACTCATATATATATCTACTAATTTTTTTCTAGAATTTTTGACTTATCCAATTAGTACA
196 AAACTAGACTCATATATATATCTACTAATTTTTTTCTAGAATTTTTGACTTATCCAATTAGTACA
71133741 GTTTATTAGTTAAAGTTTCCCCTGTTTCAAAACTCGACTGCACTGACCTCTTCTTACTACGAACC
261 GTTTATTAGTTAAAGTTTCCCCTGTTTCAAAACTCGACTGCACTGACCTCTTCTTACTACGAACC
71133806 ATTT
326 ATTT
71133810 AATAAATGTAACGCCCCCACGCCCGAAACCATCACCGGAGTCAAGCTTGAGGTGTTACTAAACTT
1 AATAAATGTAACG-CCCCACGCCCGAAACCATCACCGGAGTCAAGCTTGAGGTGTTACTAAACTT
*
71133875 ATCTTACCTTTTAAACAACTCTAAATCACTTATTTTAATTTTCAGAATAAACTGTTTTTCTGTGT
65 ATCTTACCTTTTAAACAACTCTAAATCACTTATTTTAATTTTCAGAATAAACTGTTTTTCTGCGT
71133940 CATGGTTACTTAAAAATTCATTTCTCGAGTTTCAAAACTCGAAATTAAGATCCGTAAATTTTTCA
130 CATGGTTACTTAAAAATTCATTTCTCGAGTTTCAAAACTCGAAATTAAGATCCGT-AATTTTTCA
71134005 TGAAACTAGACTCATATATATATCTACTAATTTTTTT-TAGAATTTTTGACTTATCCAATTAGTA
194 TGAAACTAGACTCATATATATATCTACTAATTTTTTTCTAGAATTTTTGACTTATCCAATTAGTA
71134069 CAGTTTATTAGTTAAAGTTTCCCCTGTTTCAAAACTCGACTGCACTGACCTCTTCTTACTACGAA
259 CAGTTTATTAGTTAAAGTTTCCCCTGTTTCAAAACTCGACTGCACTGACCTCTTCTTACTACGAA
71134134 CCATTT
324 CCATTT
71134140 TTCTTCCTGT
Statistics
Matches: 326, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
329 13 0.04
330 267 0.82
331 46 0.14
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (329 bp):
AATAAATGTAACGCCCCACGCCCGAAACCATCACCGGAGTCAAGCTTGAGGTGTTACTAAACTTA
TCTTACCTTTTAAACAACTCTAAATCACTTATTTTAATTTTCAGAATAAACTGTTTTTCTGCGTC
ATGGTTACTTAAAAATTCATTTCTCGAGTTTCAAAACTCGAAATTAAGATCCGTAATTTTTCATG
AAACTAGACTCATATATATATCTACTAATTTTTTTCTAGAATTTTTGACTTATCCAATTAGTACA
GTTTATTAGTTAAAGTTTCCCCTGTTTCAAAACTCGACTGCACTGACCTCTTCTTACTACGAACC
ATTT
Found at i:71135170 original size:46 final size:44
Alignment explanation
Indices: 71135066--71135173 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
71135056 TGTCTTTGAC
** * * *
71135066 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
71135110 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
71135156 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
71135174 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:71145252 original size:49 final size:49
Alignment explanation
Indices: 71145165--71145278 Score: 122
Period size: 49 Copynumber: 2.3 Consensus size: 49
71145155 AACTTGAACT
* * * *
71145165 CGTGATTGCATAATCACCATTAATTAGGCTCCTGAGTTATACTCCAACC
1 CGTGACTGCATAACCACCATCAATTAGGCGCCTGAGTTATACTCCAACC
* * * *
71145214 CGTGACTGCATAACCACCATCAATTGAGG-GCCTTAGTTATATTTCAACT
1 CGTGACTGCATAACCACCATCAATT-AGGCGCCTGAGTTATACTCCAACC
* *
71145263 TGTGACTGTATAACCA
1 CGTGACTGCATAACCA
71145279 TTGTGAACTG
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 51 0.94
50 3 0.06
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (49 bp):
CGTGACTGCATAACCACCATCAATTAGGCGCCTGAGTTATACTCCAACC
Found at i:71146128 original size:14 final size:14
Alignment explanation
Indices: 71146106--71146136 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
71146096 AAACCTTCGA
71146106 TTTAATAACTTGAT
1 TTTAATAACTTGAT
*
71146120 TTTATTAACTTGAT
1 TTTAATAACTTGAT
71146134 TTT
1 TTT
71146137 CGAGATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTAATAACTTGAT
Found at i:71149405 original size:22 final size:22
Alignment explanation
Indices: 71149380--71149424 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
71149370 TTTAATAAAA
71149380 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
71149402 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
71149424 A
1 A
71149425 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:71154005 original size:22 final size:22
Alignment explanation
Indices: 71153980--71154024 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
71153970 TTTAATAAAA
71153980 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
71154002 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
71154024 A
1 A
71154025 CATTTGTTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:71158133 original size:24 final size:23
Alignment explanation
Indices: 71158096--71158140 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
71158086 TTTAATCCAA
* *
71158096 AAAATAAAATGACTATATTTCTC
1 AAAATAAAAGGACTAAATTTCTC
71158119 AAAATAAAAGGGACTAAATTTC
1 AAAATAAAA-GGACTAAATTTC
71158141 AAATGTACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (23 bp):
AAAATAAAAGGACTAAATTTCTC
Found at i:71160458 original size:29 final size:28
Alignment explanation
Indices: 71160404--71160463 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
71160394 ATAATTTATA
71160404 TTTTTATAATTTTTAAAGAATTAAATTAAT
1 TTTTTATAATTTTTAAAGAA-TAAA-TAAT
* *
71160434 TTTTTATTATTTTTAAGAGGA-AAATAAT
1 TTTTTATAATTTTTAA-AGAATAAATAAT
71160462 TT
1 TT
71160464 CACCTGAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 6 0.22
29 3 0.11
30 15 0.56
31 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (28 bp):
TTTTTATAATTTTTAAAGAATAAATAAT
Found at i:71163481 original size:11 final size:11
Alignment explanation
Indices: 71163467--71163516 Score: 68
Period size: 11 Copynumber: 4.7 Consensus size: 11
71163457 TTTCAATATT
71163467 CTCTCAAATTC
1 CTCTCAAATTC
71163478 CTCTCAAA-T-
1 CTCTCAAATTC
*
71163487 CTCTCAAATTT
1 CTCTCAAATTC
*
71163498 CTCTTAAATTC
1 CTCTCAAATTC
71163509 CTCTCAAA
1 CTCTCAAA
71163517 ACTCTCGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 8 0.24
10 2 0.06
11 24 0.71
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.38
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:71163491 original size:20 final size:21
Alignment explanation
Indices: 71163459--71163516 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 21
71163449 CTTCAATCTT
71163459 TCAATATTCTCTCAAATTCCTC
1 TCAA-ATTCTCTCAAATTCCTC
*
71163481 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTCCTC
*
71163501 TTAAATTCCTCTCAAA
1 TCAAATT-CTCTCAAA
71163517 ACTCTCGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 18 0.56
21 2 0.06
22 12 0.38
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTCCTC
Found at i:71165213 original size:30 final size:30
Alignment explanation
Indices: 71165172--71165237 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
71165162 CGACGACGCA
*
71165172 GGCCCATCAACAGCG-CCCACACAATCACCC
1 GGCCCAGCAACAG-GACCCACACAATCACCC
* * *
71165202 GGCCCAGCAACAGGACCTACACAGTCACCG
1 GGCCCAGCAACAGGACCCACACAATCACCC
71165232 GGCCCA
1 GGCCCA
71165238 ACAGTTCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 1 0.03
30 30 0.97
ACGTcount: A:0.29, C:0.45, G:0.20, T:0.06
Consensus pattern (30 bp):
GGCCCAGCAACAGGACCCACACAATCACCC
Found at i:71165783 original size:58 final size:58
Alignment explanation
Indices: 71165721--71165899 Score: 183
Period size: 58 Copynumber: 3.1 Consensus size: 58
71165711 CTTTTTATAT
*
71165721 TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGTAATTTACTTTTA
1 TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
* * * * * *
71165779 TATTT--T-TAATAAAATAGAAA--TTATTTTAAATAAGGCAACATTTTGAATATT--TTTATA
1 TATTTCATGTAATTAGATA-AAAGGTTGTTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA
71165836 TTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
1 -TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
71165895 TATTT
1 TATTT
71165900 TTAATAAAAT
Statistics
Matches: 95, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
54 13 0.14
55 9 0.09
56 11 0.12
57 5 0.05
58 19 0.20
59 5 0.05
60 11 0.12
61 9 0.09
62 13 0.14
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.47
Consensus pattern (58 bp):
TATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTATAATTTACTTTTA
Found at i:71165903 original size:116 final size:116
Alignment explanation
Indices: 71165699--71165965 Score: 491
Period size: 116 Copynumber: 2.3 Consensus size: 116
71165689 TATTTGTACA
*
71165699 AACATTTTGAATCTTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
* *
71165764 TGTAATTTACTTTTATATTTTTAATAAAAT-AGAAATTATTTTAAATAAGGC
66 TATAATTTACTTTTATATTTTTAATAAAATGA-AAATTATTTTAAATAAAGC
71165815 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
71165880 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
66 TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
71165931 AACATTTTGAATATTTTTATATTATTTCATGTAAT
1 AACATTTTGAATATTTTTATATTATTTCATGTAAT
71165966 AAAATATAAA
Statistics
Matches: 147, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
116 146 0.99
117 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (116 bp):
AACATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAAT
TATAATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGC
Found at i:71165928 original size:54 final size:53
Alignment explanation
Indices: 71165748--71165929 Score: 170
Period size: 54 Copynumber: 3.2 Consensus size: 53
71165738 TAAAAGGTTG
*
71165748 TTTTAAATAAAGTAATTGTAATTTACTTTTATATTTTTAATAAAATAGAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATA-AAATTA
* * * * * *
71165802 TTTTAAATAAGGCAACATTTTGAATATT--TTTATATTATTTCATGTAATTAGATAAAAGGTTG
1 TTTTAAATAAAG-TA-ATTAT-AAT-TTACTTT-TA-TATTT--T-TAATAAAATAAAA--TTA
71165864 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATGAAAATTA
1 TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAAT-AAAATTA
71165918 TTTTAAATAAAG
1 TTTTAAATAAAG
71165930 CAACATTTTG
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
54 25 0.25
55 8 0.08
56 12 0.12
57 5 0.05
58 14 0.14
59 5 0.05
60 11 0.11
61 9 0.09
62 13 0.13
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.47
Consensus pattern (53 bp):
TTTTAAATAAAGTAATTATAATTTACTTTTATATTTTTAATAAAATAAAATTA
Found at i:71169145 original size:126 final size:126
Alignment explanation
Indices: 71168998--71169521 Score: 798
Period size: 126 Copynumber: 4.2 Consensus size: 126
71168988 GAAACCACTA
* *
71168998 TAGCAAAAGAGCGTCCACGTGGTAGCTTCTTTCAGTTCTTTTGCTGAAAATGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
** * *
71169063 GCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACCACTA
66 GCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTG
* * * *
71169124 TAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGTTGAAAATGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
* *
71169189 GCGTTTTT-ACCACTATTTGCGCAGACATGTCTTCTCAAAATTATTTTTTCAGAGACTATTG
66 GCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTG
* *
71169250 TAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAATGCATCCTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
* * * * *
71169315 GCGTTTTTTACACTATTTGCACAGACATGTCTTCTCAAAATTATTTTTTAAGATACTACTG
66 GCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTG
* * * *
71169376 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAATACTTTTACTGACAATGCATCTTGCTTGAA
1 TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
* * *
71169441 GTGTTTTTGACACTATTTGCGCAAACACGTCTTCTCAAATTTATTTTTTCAGAGACTACTG
66 GCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTG
71169502 TAGCAAAAGAGCGTCCACGT
1 TAGCAAAAGAGCGTCCACGT
71169522 AGAAGCTTTT
Statistics
Matches: 362, Mismatches: 34, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
125 1 0.00
126 360 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.35
Consensus pattern (126 bp):
TAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAATGCATCCTGCTTGAA
GCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTTTTTCAGAGACTACTG
Found at i:71169825 original size:16 final size:17
Alignment explanation
Indices: 71169804--71169845 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
71169794 TTTTTTCCTT
71169804 AAAACCCTAAAA-TTTA
1 AAAACCCTAAAATTTTA
*
71169820 AAAACCC-AAAATTTTC
1 AAAACCCTAAAATTTTA
71169836 AAAACCCTAA
1 AAAACCCTAA
71169846 CCCTAATTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 17 0.74
17 2 0.09
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAACCCTAAAATTTTA
Found at i:71176748 original size:25 final size:26
Alignment explanation
Indices: 71176714--71176762 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
71176704 CTGGGAAGCC
71176714 TTTGTGGCTAATATTGT-GAAAAGTT
1 TTTGTGGCTAATATTGTGGAAAAGTT
*
71176739 TTTGTGGCTAATCTTGTGGAAAAG
1 TTTGTGGCTAATATTGTGGAAAAG
71176763 CCTTTATGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.27, C:0.06, G:0.27, T:0.41
Consensus pattern (26 bp):
TTTGTGGCTAATATTGTGGAAAAGTT
Found at i:71178850 original size:18 final size:18
Alignment explanation
Indices: 71178827--71178868 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
71178817 GTTCAAAGTG
71178827 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
71178845 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
71178863 TAATTA
1 TAATTA
71178869 GAAACCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:71183385 original size:29 final size:30
Alignment explanation
Indices: 71183289--71183418 Score: 162
Period size: 29 Copynumber: 4.5 Consensus size: 30
71183279 GACAAGATTG
* * * * *
71183289 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
71183319 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
71183347 GCACTAAGTGTGCGAGCTGAAAATT-TATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71183376 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71183405 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71183419 GATTCACTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.02
28 23 0.26
29 45 0.50
30 18 0.20
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:71191104 original size:30 final size:30
Alignment explanation
Indices: 71191068--71191198 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
71191058 GACAAGATTG
* * * * *
71191068 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
71191098 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
71191126 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71191156 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
71191185 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71191199 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:71191159 original size:58 final size:58
Alignment explanation
Indices: 71191068--71191198 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
71191058 GACAAGATTG
* * * * * *
71191068 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
71191126 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
71191185 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
71191199 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:71210041 original size:18 final size:18
Alignment explanation
Indices: 71210013--71210084 Score: 58
Period size: 18 Copynumber: 3.8 Consensus size: 18
71210003 AAAGTTAAAA
71210013 AAAAAACTTGTAAAATTAT
1 AAAAAA-TTGTAAAATTAT
71210032 AAAAAATTGTAAAAATGGTA-
1 AAAAAATTGT-AAAAT--TAT
*
71210052 AAAAAATTATTAAAA-TAT
1 AAAAAATT-GTAAAATTAT
*
71210070 TAAAAATATGTAAAA
1 AAAAAAT-TGTAAAA
71210085 AAAAAGTATT
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
17 2 0.05
18 15 0.34
19 12 0.27
20 12 0.27
21 3 0.07
ACGTcount: A:0.62, C:0.01, G:0.07, T:0.29
Consensus pattern (18 bp):
AAAAAATTGTAAAATTAT
Found at i:71210058 original size:30 final size:30
Alignment explanation
Indices: 71210024--71210087 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
71210014 AAAAACTTGT
71210024 AAAATTATAAAAA-ATTGTAAAAAT-GGTAAA
1 AAAATTATAAAAATA-T-TAAAAATAGGTAAA
* *
71210054 AAAATTATTAAAATATTAAAAATATGTAAA
1 AAAATTATAAAAATATTAAAAATAGGTAAA
71210084 AAAA
1 AAAA
71210088 AAGTATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 7 0.23
30 22 0.73
31 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (30 bp):
AAAATTATAAAAATATTAAAAATAGGTAAA
Done.