Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 148 of 255
Found at i:47904136 original size:46 final size:46
Alignment explanation
Indices: 47904080--47904258 Score: 211
Period size: 46 Copynumber: 3.9 Consensus size: 46
47904070 GGATATTTCG
47904080 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * *
47904126 GCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA
*
47904172 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 -GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* * * * *
47904219 ACACCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47904259 GCGGGTTACA
Statistics
Matches: 113, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 69 0.61
47 32 0.28
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.28
Consensus pattern (46 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:47904238 original size:93 final size:93
Alignment explanation
Indices: 47904079--47904251 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
47904069 GGGATATTTC
* **
47904079 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
47904144 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
47904172 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
47904237 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
47904252 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:47910748 original size:49 final size:49
Alignment explanation
Indices: 47910690--47910820 Score: 158
Period size: 49 Copynumber: 2.7 Consensus size: 49
47910680 TGTTGAGTGT
* * *
47910690 CAGTGTAAGACCTATTTGGGACATGGCATCGGCAC-CTATAGATGAGAGC
1 CAGTGTAAGACCTATTTGGGACATGGCATCGGC-CTCGATAGAAGAAAGC
* * *
47910739 CAGTGTAAGACCTATTTGGGACATGGCATTGGCCTCGATATAAGAAAGT
1 CAGTGTAAGACCTATTTGGGACATGGCATCGGCCTCGATAGAAGAAAGC
* *
47910788 CAGTGTAAGACCTGTCTGGGACACT-GCATCGGC
1 CAGTGTAAGACCTATTTGGGACA-TGGCATCGGC
47910821 TGTAAGACCT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
48 1 0.01
49 69 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTATTTGGGACATGGCATCGGCCTCGATAGAAGAAAGC
Found at i:47910827 original size:30 final size:30
Alignment explanation
Indices: 47910791--47910851 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
47910781 AGAAAGTCAG
47910791 TGTAAGACCTGTCTGGGACACTGCATCGGC
1 TGTAAGACCTGTCTGGGACACTGCATCGGC
47910821 TGTAAGACCTGTCTGGGACACTGCATCGGC
1 TGTAAGACCTGTCTGGGACACTGCATCGGC
47910851 T
1 T
47910852 TTGATGTGCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.25
Consensus pattern (30 bp):
TGTAAGACCTGTCTGGGACACTGCATCGGC
Found at i:47913451 original size:39 final size:39
Alignment explanation
Indices: 47913367--47913567 Score: 246
Period size: 39 Copynumber: 5.1 Consensus size: 39
47913357 CAAATCCAAT
* * *
47913367 CACCACCAC-AAAGCATGCGGGACTTTAAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TT-AGCCCGGATATAA
* * *
47913407 TACCAGCAC-AAAGCCTGCGGGACTTTAGCCCAGATATAA
1 CACCAGCACGAAAGCCTTCGGGAC-TTAGCCCGGATATAA
* *
47913446 CACCAGCACGAATGCCTTCGGGGCTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
*
47913485 CACCAGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
* *
47913524 CACCAACACGAATA-CCTTCAGGACTTAGCCCGGATATAA
1 CACCAGCACGAA-AGCCTTCGGGACTTAGCCCGGATATAA
47913563 CACCA
1 CACCA
47913568 TTATAAAGTC
Statistics
Matches: 146, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 112 0.77
40 34 0.23
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (39 bp):
CACCAGCACGAAAGCCTTCGGGACTTAGCCCGGATATAA
Found at i:47913673 original size:28 final size:28
Alignment explanation
Indices: 47913640--47913704 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
47913630 ATTTAATCAT
* *
47913640 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTGGCACACTAAGTGCCATTC
* *
47913668 TCAATATCTGGCACATTAAGTGCCATTC
1 TCAATATTTGGCACACTAAGTGCCATTC
47913696 TCAATATTT
1 TCAATATTT
47913705 CGTACACTGA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (28 bp):
TCAATATTTGGCACACTAAGTGCCATTC
Found at i:47913721 original size:28 final size:28
Alignment explanation
Indices: 47913640--47913721 Score: 92
Period size: 28 Copynumber: 2.9 Consensus size: 28
47913630 ATTTAATCAT
* *
47913640 TCAATATTTTGCACACTAAGTGTCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
47913668 TCAATATCTGGCACATTAAGTGCCATTC
1 TCAATATTTCGCACACTAAGTGCCATTC
* * *
47913696 TCAATATTTCGTACACTGAGTACCAT
1 TCAATATTTCGCACACTAAGTGCCAT
47913722 ATTTGATTGC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.29, C:0.23, G:0.12, T:0.35
Consensus pattern (28 bp):
TCAATATTTCGCACACTAAGTGCCATTC
Found at i:47919663 original size:27 final size:26
Alignment explanation
Indices: 47919626--47919736 Score: 141
Period size: 27 Copynumber: 4.1 Consensus size: 26
47919616 AGCATGGCTG
* * *
47919626 CCAGAACAGATAATGTGACCGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
47919652 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
47919680 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
47919707 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
47919734 CCA
1 CCA
47919737 AGACGCTTCC
Statistics
Matches: 76, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
26 6 0.08
27 54 0.71
28 16 0.21
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47919690 original size:54 final size:54
Alignment explanation
Indices: 47919626--47919736 Score: 161
Period size: 54 Copynumber: 2.1 Consensus size: 54
47919616 AGCATGGCTG
* *
47919626 CCAGAACAGATA-ATGTGACCGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * *
47919680 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
47919734 CCA
1 CCA
47919737 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:47927525 original size:54 final size:54
Alignment explanation
Indices: 47927467--47927575 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
47927457 AGCATGGTTG
* *
47927467 CCAGAACAGATA-ATGTGATAGAGTCACCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAAATAATCGTGGCAGAGCCA
* * * * *
47927521 CCAGAACAGATATATGTGGCAGAGCCACCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
47927575 C
1 C
47927576 TAGGACGCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
54 30 0.64
55 17 0.36
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAGCCA
Found at i:47927545 original size:27 final size:26
Alignment explanation
Indices: 47927467--47927575 Score: 119
Period size: 27 Copynumber: 4.0 Consensus size: 26
47927457 AGCATGGTTG
** *
47927467 CCAGAACAGATAATGTGATAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
47927493 CCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
47927521 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
** *
47927548 CCAGATTAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
47927575 C
1 C
47927576 TAGGACGCTT
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.38, C:0.21, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47931909 original size:5 final size:5
Alignment explanation
Indices: 47931899--47931955 Score: 114
Period size: 5 Copynumber: 11.4 Consensus size: 5
47931889 TTTGATATGG
47931899 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
47931949 ATGAT AT
1 ATGAT AT
47931956 AAGGCAATGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 52 1.00
ACGTcount: A:0.40, C:0.00, G:0.19, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:47935607 original size:13 final size:13
Alignment explanation
Indices: 47935589--47935633 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
47935579 AATTAGAATT
47935589 AGAATCAGGTGAC
1 AGAATCAGGTGAC
47935602 AGAATCA-GT-ATC
1 AGAATCAGGTGA-C
*
47935614 AGAATTAGGTGAC
1 AGAATCAGGTGAC
47935627 AGAATCA
1 AGAATCA
47935634 AAATCAGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
11 1 0.04
12 9 0.33
13 16 0.59
14 1 0.04
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (13 bp):
AGAATCAGGTGAC
Found at i:47935617 original size:25 final size:25
Alignment explanation
Indices: 47935577--47935667 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 25
47935567 AATCAAAATG
* *
47935577 AGAATTAGAATTAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
47935602 AGAATCAGTATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
47935627 AGAATCAAAATCAGTATCAGGT-AA
1 AGAATCAGAATCAGAATCAGGTGAC
*
47935651 AAAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
47935668 GTGAATGCAA
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
24 15 0.28
25 39 0.72
ACGTcount: A:0.47, C:0.11, G:0.20, T:0.22
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:47935913 original size:20 final size:20
Alignment explanation
Indices: 47935888--47935942 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
47935878 TATAATTGGC
47935888 ACGAAGCCCACAATATCGAT
1 ACGAAGCCCACAATATCGAT
47935908 ACGAAGCCCACAATATCGAT
1 ACGAAGCCCACAATATCGAT
47935928 ACGAAGCCCACAATA
1 ACGAAGCCCACAATA
47935943 AAGGCACGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.42, C:0.31, G:0.15, T:0.13
Consensus pattern (20 bp):
ACGAAGCCCACAATATCGAT
Found at i:47935980 original size:22 final size:22
Alignment explanation
Indices: 47935952--47936007 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
47935942 AAAGGCACGC
*
47935952 AGCCATAATCAGGTTGGTACAA
1 AGCCATAATCAGGTTGGCACAA
* *
47935974 AGCCAT-ATGTAGGTTGGCGCAA
1 AGCCATAAT-CAGGTTGGCACAA
*
47935996 AGCCAAAATCAG
1 AGCCATAATCAG
47936008 AATAATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.36, C:0.20, G:0.25, T:0.20
Consensus pattern (22 bp):
AGCCATAATCAGGTTGGCACAA
Found at i:47936593 original size:54 final size:54
Alignment explanation
Indices: 47936523--47936689 Score: 208
Period size: 54 Copynumber: 3.1 Consensus size: 54
47936513 GGCAAAATGG
* * * * **
47936523 TAATTTTATCCCACAAGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
* * * *
47936577 TATTTCTACCCTACAAGGGTATTTCGGTAATCCTACCCTATAGGGGTATTTCAA
1 TAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
* * * *
47936631 TAATTCTACCCCACAAGTGTATTTCAGTAATTCTACTCTACAGGGGTATTTTAA
1 TAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
47936685 TAATT
1 TAATT
47936690 TTGTAAATCG
Statistics
Matches: 95, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCCACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAA
Found at i:47936689 original size:27 final size:27
Alignment explanation
Indices: 47936522--47936681 Score: 178
Period size: 27 Copynumber: 5.9 Consensus size: 27
47936512 GGGCAAAATG
* * *
47936522 GTAATTTTATCCC-ACAAGGGTATCTCG
1 GTAATTCTA-CCCTACAAGGGTATTTCA
*
47936549 GTAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
47936576 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
47936603 GTAATCCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* * *
47936630 ATAATTCTACCCCACAAGTGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTTCA
* *
47936657 GTAATTCTACTCTACAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTT
47936682 TAATAATTTT
Statistics
Matches: 113, Mismatches: 19, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
26 3 0.03
27 110 0.97
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGTATTTCA
Found at i:47938758 original size:6 final size:6
Alignment explanation
Indices: 47938720--47938832 Score: 63
Period size: 6 Copynumber: 18.3 Consensus size: 6
47938710 AAGAAACATT
* * * *
47938720 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAGA ATCA-A GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
47938769 ATCAGA ATCATA ATTAG- GTGACAGA ATCAGA ATCAGT ATCAGGTA AT-AGA
1 ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
47938819 ATCAGA ATCAGA AT
1 ATCAGA ATCAGA AT
47938833 GTGAATGCAA
Statistics
Matches: 80, Mismatches: 16, Indels: 22
0.68 0.14 0.19
Matches are distributed among these distances:
5 7 0.09
6 61 0.76
7 7 0.09
8 5 0.06
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:47938777 original size:25 final size:25
Alignment explanation
Indices: 47938741--47938832 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
47938731 AATCAAAATG
* *
47938741 AGAATCAAAATCAGAATCAAGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* *
47938766 AGAATCAGAATCATAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGGTGAC
* * *
47938791 AGAATCAGAATCAGTATCAGGTAAT
1 AGAATCAGAATCAGAATCAGGTGAC
47938816 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
47938833 GTGAATGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.48, C:0.13, G:0.18, T:0.21
Consensus pattern (25 bp):
AGAATCAGAATCAGAATCAGGTGAC
Found at i:47939085 original size:22 final size:22
Alignment explanation
Indices: 47939055--47939115 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
47939045 ACAATAATGG
*
47939055 CACAGAGCCATAATCAGGTTGC
1 CACAAAGCCATAATCAGGTTGC
* *
47939077 CACAAAGCCATACGT-AGGTTGG
1 CACAAAGCCATA-ATCAGGTTGC
* *
47939099 CGCAAAGCCAAAATCAG
1 CACAAAGCCATAATCAG
47939116 AATAATTGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGC
Found at i:47939791 original size:27 final size:27
Alignment explanation
Indices: 47939632--47939797 Score: 197
Period size: 27 Copynumber: 6.1 Consensus size: 27
47939622 ACAAAATGGA
* * * * *
47939632 AATTTTACCCTGCAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
47939659 AATTCTACCCTACAGTGGCATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
47939686 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
47939713 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
47939740 TATTCTACCCTACAGGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
47939767 AATTCTACCCTATAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCAGT
47939794 AATT
1 AATT
47939798 TTGTAAACTA
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 120 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:47941807 original size:6 final size:6
Alignment explanation
Indices: 47941798--47941901 Score: 70
Period size: 6 Copynumber: 16.8 Consensus size: 6
47941788 AATTAAAATG
* * *
47941798 AGAATC AGAATC AGAATC AG-GTGAC AGAATC GGAATC AGAATC AGAATT
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * *
47941847 AGAATT AG-GTGAC AGAATC AAAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
47941897 AGAAT
1 AGAAT
47941902 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
5 4 0.05
6 62 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:47941839 original size:37 final size:37
Alignment explanation
Indices: 47941786--47941892 Score: 126
Period size: 37 Copynumber: 2.9 Consensus size: 37
47941776 TATCAGAACT
* *
47941786 AGAATTAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
** * *
47941823 AGAATCGGAATCAGAATCAGAATTAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
47941860 AGAATCAAAATCAGTATCAGGTAA-CAGAATCAG
1 AGAATCAAAATCAGAATCA-G-AATCAGAATCAG
47941893 AATCAGAATG
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
37 47 0.82
38 8 0.14
39 2 0.04
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:47941862 original size:25 final size:25
Alignment explanation
Indices: 47941834--47941901 Score: 91
Period size: 25 Copynumber: 2.7 Consensus size: 25
47941824 GAATCGGAAT
* * *
47941834 CAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
47941859 CAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
47941884 CAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
47941902 GTGAATGCAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:47942279 original size:16 final size:16
Alignment explanation
Indices: 47942254--47942284 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47942244 ATCTCAACCC
47942254 ATGCAAAATGTCATGT
1 ATGCAAAATGTCATGT
*
47942270 ATGCAGAATGTCATG
1 ATGCAAAATGTCATG
47942285 CCCATAGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:47942456 original size:27 final size:27
Alignment explanation
Indices: 47942426--47942567 Score: 135
Period size: 27 Copynumber: 5.3 Consensus size: 27
47942416 GGGGCAAAAT
* * *
47942426 GGTAATTTTACCCCACAAGAGTATCTC
1 GGTAATTCTACCCTACAAGAGTATTTC
* *
47942453 GGTAATTCTACCCTACAGGGGTACTTT-
1 GGTAATTCTACCCTACAAGAGTA-TTTC
* * *
47942480 GGTATTTCTACCCTGCAAGGGTATTTC
1 GGTAATTCTACCCTACAAGAGTATTTC
*
47942507 GGTAATTCTAGCCTAC-AGAAGTATTTC
1 GGTAATTCTACCCTACAAG-AGTATTTC
** *
47942534 AATAATTCTACCCCACAAGAGTATTTC
1 GGTAATTCTACCCTACAAGAGTATTTC
*
47942561 AGTAATT
1 GGTAATT
47942568 TTGTAAATCA
Statistics
Matches: 94, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 5 0.05
27 85 0.90
28 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGAGTATTTC
Found at i:47942483 original size:54 final size:53
Alignment explanation
Indices: 47942425--47942567 Score: 153
Period size: 54 Copynumber: 2.7 Consensus size: 53
47942415 TGGGGCAAAA
* **
47942425 TGGTAATTTTACCCCACAAGAGTATCTCGGTAATTCTACCCTACAGGGGTACTT
1 TGGTAATTTTACCCCACAAGAGTATTTCGGTAATTCTACCCTACAGAAGTA-TT
** * *
47942479 TGGT-ATTTCTACCCTGCAAGGGTATTTCGGTAATTCTAGCCTACAGAAGTATT
1 TGGTAATTT-TACCCCACAAGAGTATTTCGGTAATTCTACCCTACAGAAGTATT
** * *
47942532 TCAATAATTCTACCCCACAAGAGTATTTCAGTAATT
1 T-GGTAATTTTACCCCACAAGAGTATTTCGGTAATT
47942568 TTGTAAATCA
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
53 7 0.10
54 62 0.86
55 3 0.04
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.34
Consensus pattern (53 bp):
TGGTAATTTTACCCCACAAGAGTATTTCGGTAATTCTACCCTACAGAAGTATT
Found at i:47944664 original size:25 final size:25
Alignment explanation
Indices: 47944635--47944724 Score: 117
Period size: 25 Copynumber: 3.6 Consensus size: 25
47944625 TCAGAACTAA
* *
47944635 AATCAAAATGAGAATCAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAG
* *
47944660 AATCAGAATCGGAATAAGGTGACAG
1 AATCAGAATCAGAATCAGGTGACAG
* * *
47944685 AATCAGAATCAGTATCAGGTAATAG
1 AATCAGAATCAGAATCAGGTGACAG
47944710 AATCAGAATCAGAAT
1 AATCAGAATCAGAAT
47944725 GTGAATGCAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 55 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.19
Consensus pattern (25 bp):
AATCAGAATCAGAATCAGGTGACAG
Found at i:47944691 original size:6 final size:6
Alignment explanation
Indices: 47944682--47944724 Score: 52
Period size: 6 Copynumber: 7.0 Consensus size: 6
47944672 AATAAGGTGA
*
47944682 CAGAAT CAGAAT CAGTAT CAGGTAAT -AGAAT CAGAAT CAGAAT
1 CAGAAT CAGAAT CAGAAT CA-G-AAT CAGAAT CAGAAT CAGAAT
47944725 GTGAATGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 3 0.09
6 25 0.78
7 2 0.06
8 2 0.06
ACGTcount: A:0.47, C:0.14, G:0.19, T:0.21
Consensus pattern (6 bp):
CAGAAT
Found at i:47944976 original size:22 final size:22
Alignment explanation
Indices: 47944951--47945006 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
47944941 AACGGTACAC
47944951 AGCCATAATCAGGTTGCCACAA
1 AGCCATAATCAGGTTGCCACAA
* * *
47944973 AGCCAT-ATGTAGGTTGGCGCAA
1 AGCCATAAT-CAGGTTGCCACAA
*
47944995 AGCCAAAATCAG
1 AGCCATAATCAG
47945007 AATAATTGGC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (22 bp):
AGCCATAATCAGGTTGCCACAA
Found at i:47945622 original size:27 final size:27
Alignment explanation
Indices: 47945534--47945656 Score: 115
Period size: 27 Copynumber: 4.6 Consensus size: 27
47945524 ATTTTACCTC
* **
47945534 ACAAGGGTATCTCGGTAATTCTACCCT
1 ACAAGGGTATTTCAATAATTCTACCCT
* * *
47945561 AC-AGGGACATTTCGATATTTCTACCCT
1 ACAAGGG-TATTTCAATAATTCTACCCT
*
47945588 ACAGGGGTATTTCAATAATTCTACCCT
1 ACAAGGGTATTTCAATAATTCTACCCT
* * **
47945615 ACAAGGGTATTTTATTAATTCTACATT
1 ACAAGGGTATTTCAATAATTCTACCCT
47945642 AC-AGGAGTATTTCAA
1 ACAAGG-GTATTTCAA
47945657 CAAATTTTTT
Statistics
Matches: 78, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
26 7 0.09
27 68 0.87
28 3 0.04
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.34
Consensus pattern (27 bp):
ACAAGGGTATTTCAATAATTCTACCCT
Found at i:47945637 original size:54 final size:54
Alignment explanation
Indices: 47945549--47945656 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
47945539 GGTATCTCGG
* * *
47945549 TAATTCTACCCTACAGGGACATTTCGATATTTCTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGACATTTCGATAATTCTACACTACAGGAGTATTTCAA
* * *
47945603 TAATTCTACCCTACAAGGG-TATTT-TATTAATTCTACATTACAGGAGTATTTCAA
1 TAATTCTACCCTAC-AGGGACATTTCGA-TAATTCTACACTACAGGAGTATTTCAA
47945657 CAAATTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
53 1 0.02
54 41 0.89
55 4 0.09
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAGGGACATTTCGATAATTCTACACTACAGGAGTATTTCAA
Found at i:47947691 original size:19 final size:19
Alignment explanation
Indices: 47947667--47947734 Score: 77
Period size: 19 Copynumber: 3.6 Consensus size: 19
47947657 TGAGAATCAA
*
47947667 AATCAAAATCAGGTGACAG
1 AATCAAAATCAGGTAACAG
47947686 AATCAAAATCA-G-AATCAG
1 AATCAAAATCAGGTAA-CAG
* *
47947704 AATCAGAATTAGGTAACAG
1 AATCAAAATCAGGTAACAG
*
47947723 AATCAGAATCAG
1 AATCAAAATCAG
47947735 AATGTGAATG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
17 1 0.02
18 13 0.31
19 26 0.62
20 2 0.05
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (19 bp):
AATCAAAATCAGGTAACAG
Found at i:47947693 original size:37 final size:37
Alignment explanation
Indices: 47947647--47947737 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 37
47947637 TATCAGAACT
* *
47947647 AGAATCAAAATGAGAATCAAAATCAAAATCAGGTGAC
1 AGAATCAAAATCAGAATCAAAATCAAAATCAGGTAAC
* * *
47947684 AGAATCAAAATCAGAATCAGAATCAGAATTAGGTAAC
1 AGAATCAAAATCAGAATCAAAATCAAAATCAGGTAAC
*
47947721 AGAATCAGAATCAGAAT
1 AGAATCAAAATCAGAAT
47947738 GTGAATGCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.53, C:0.13, G:0.16, T:0.18
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAAAATCAAAATCAGGTAAC
Found at i:47947701 original size:6 final size:6
Alignment explanation
Indices: 47947638--47947737 Score: 71
Period size: 6 Copynumber: 16.3 Consensus size: 6
47947628 AAGAAACATT
* * * * *
47947638 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAAA ATCAAA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* *
47947687 ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA
47947736 AT
1 AT
47947738 GTGAATGCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 61 0.82
7 6 0.08
8 3 0.04
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:47948030 original size:22 final size:22
Alignment explanation
Indices: 47948004--47948057 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
47947994 TGGTACACAA
47948004 CCATAATCAGGTTGGCACAAAG
1 CCATAATCAGGTTGGCACAAAG
* *
47948026 CCAT-ATGTAGGTTGGCGCAAAG
1 CCATAAT-CAGGTTGGCACAAAG
*
47948048 CCAAAATCAG
1 CCATAATCAG
47948058 AATAATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 22 0.85
23 2 0.08
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (22 bp):
CCATAATCAGGTTGGCACAAAG
Found at i:47949160 original size:40 final size:40
Alignment explanation
Indices: 47949101--47949312 Score: 277
Period size: 40 Copynumber: 5.3 Consensus size: 40
47949091 CATTTGAATG
* *
47949101 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
*
47949141 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* *
47949181 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* *
47949221 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * * * *
47949261 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
47949301 ATATCC-GGCTAA
1 ATATCCGGGCTAA
47949313 ATTCCGAAGA
Statistics
Matches: 156, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 7 0.04
40 146 0.94
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:47956403 original size:40 final size:40
Alignment explanation
Indices: 47956344--47956655 Score: 448
Period size: 40 Copynumber: 7.8 Consensus size: 40
47956334 CATTTGAATG
* * * *
47956344 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
47956384 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
47956424 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
47956464 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * * *
47956504 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
47956544 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
47956584 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
47956624 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
47956656 TTGTGGTTAT
Statistics
Matches: 245, Mismatches: 24, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 237 0.97
41 6 0.02
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:47956557 original size:120 final size:120
Alignment explanation
Indices: 47956344--47956675 Score: 499
Period size: 120 Copynumber: 2.8 Consensus size: 120
47956334 CATTTGAATG
* * * * * * * *
47956344 ATATCCGGGCTAAGTCCCGAAGGAATTTATGCTAG-TGATTTTATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
* *
47956408 ATTTGTGCGAGTTGA-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
65 AATTGTGCTAG-TGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
47956464 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
*
47956529 ATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
66 ATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
47956584 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
* *
47956649 ATTGTGCTTGTGGTTATATCC-GGCTAA
66 ATTGTGCTAGTGATTATATCCGGGCTAA
47956676 ATTCCGAAGA
Statistics
Matches: 195, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
119 9 0.05
120 184 0.94
121 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (120 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
ATTGTGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:47958402 original size:27 final size:27
Alignment explanation
Indices: 47958372--47958552 Score: 173
Period size: 27 Copynumber: 7.0 Consensus size: 27
47958362 GGGGCAAAAT
* * *
47958372 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
47958399 GGTAATTCTACCCTAC-A-GG------
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47958418 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47958445 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
47958472 GATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** *
47958499 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47958526 TGTAATTCTACCCTACACA-GGTATTTC
1 GGTAATTCTACCCTACA-AGGGTATTTC
47958553 AATAATTTTG
Statistics
Matches: 129, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
19 16 0.12
21 2 0.02
25 2 0.02
26 1 0.01
27 108 0.84
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47958423 original size:19 final size:19
Alignment explanation
Indices: 47958399--47958440 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
47958389 AGGGTATCTC
47958399 GGTAATTCTACCCTACAGG
1 GGTAATTCTACCCTACAGG
47958418 GGTAATTCTACCCTACAGG
1 GGTAATTCTACCCTACAGG
47958437 GGTA
1 GGTA
47958441 TTTCAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (19 bp):
GGTAATTCTACCCTACAGG
Found at i:47958558 original size:27 final size:27
Alignment explanation
Indices: 47958420--47958559 Score: 199
Period size: 27 Copynumber: 5.2 Consensus size: 27
47958410 CCTACAGGGG
*
47958420 TAATTCTACCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAA
* * *
47958447 TATTTCTACCCTACAAGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCAA
*
47958474 TAATTTTACCCTACAGGGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
**
47958501 TAATTCTACCCTACAGGGGTATTTCTG
1 TAATTCTACCCTACAGGGGTATTTCAA
**
47958528 TAATTCTACCCTACACAGGTATTTCAA
1 TAATTCTACCCTACAGGGGTATTTCAA
47958555 TAATT
1 TAATT
47958560 TTGTAAATCG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 98 1.00
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAA
Found at i:47958586 original size:81 final size:81
Alignment explanation
Indices: 47958418--47958588 Score: 188
Period size: 81 Copynumber: 2.1 Consensus size: 81
47958408 ACCCTACAGG
* *
47958418 GGTAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGATAATTTTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTTAC
** ***
47958483 CCTACAGGGGTATTTC
66 AATACAGGGGTAAAAC
** *
47958499 AATAATTCTACCCTACAGGGGTATTTCTGTAATTCTACCCTACACA-GGTATTTCAATAATTTTG
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACA-AGGGTATTTCAATAA-TTT-
47958563 TA-AAT-C-GAGGGTAAAAC
63 TACAATACAG-GGGTAAAAC
47958580 GGTAATTCT
1 GGTAATTCT
47958589 GTAAATCAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 8
0.79 0.13 0.09
Matches are distributed among these distances:
80 1 0.01
81 66 0.89
82 5 0.07
83 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAATAATTTTAC
AATACAGGGGTAAAAC
Found at i:47963127 original size:25 final size:25
Alignment explanation
Indices: 47963084--47963158 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
47963074 TCAGGAGGAC
*
47963084 CATTTCACAACTCATGTGAGCATTTA
1 CATTT-ACAACTCGTGTGAGCATTTA
* *
47963110 CATTTACAGCTCGTGTGAACATTTA
1 CATTTACAACTCGTGTGAGCATTTA
**
47963135 CAGATACAACTCGTGTGAGCATTT
1 CATTTACAACTCGTGTGAGCATTT
47963159 TCTCGCGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 37 0.88
26 5 0.12
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.33
Consensus pattern (25 bp):
CATTTACAACTCGTGTGAGCATTTA
Found at i:47963239 original size:13 final size:13
Alignment explanation
Indices: 47963221--47963281 Score: 52
Period size: 13 Copynumber: 4.5 Consensus size: 13
47963211 ACGAATGAGT
47963221 TATATGAAATGGC
1 TATATGAAATGGC
*
47963234 TATATGTAAATTGAC
1 TATATG-AAA-TGGC
47963249 T-TATGAAATGGAC
1 TATATGAAATGG-C
* *
47963262 ATTTATGAAATTGC
1 -TATATGAAATGGC
47963276 TATATG
1 TATATG
47963282 GTATTAGTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
12 2 0.05
13 15 0.38
14 9 0.23
15 13 0.33
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (13 bp):
TATATGAAATGGC
Found at i:47966582 original size:46 final size:45
Alignment explanation
Indices: 47966444--47966663 Score: 205
Period size: 46 Copynumber: 4.8 Consensus size: 45
47966434 AGGTTATTGT
** *
47966444 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TAAGACGA
* * * * *
47966490 GAGCCAGTGTAAGACCATGTCTTGGATATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTAAGACGA
*
47966538 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-AAGACG-A
* * *
47966585 -AGCTAGTGTAAGACATGTCTGGAACATGCATC-GACTACGA-GA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAAGACGA
*
47966627 G-GTGTCAGTGTAAGACCATGTCTGGGACAATGCATCG
1 GAG-CT-AGTGTAAGA-CATGTCTGGGAC-ATGCATCG
47966664 ACATAGATAT
Statistics
Matches: 143, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.01
43 2 0.01
44 12 0.08
45 15 0.10
46 63 0.44
47 25 0.17
48 24 0.17
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTAAGACGA
Found at i:47978021 original size:20 final size:20
Alignment explanation
Indices: 47977996--47978038 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47977986 TGCGTCAGTA
47977996 TTGATTTGTTATTCTAGAAC
1 TTGATTTGTTATTCTAGAAC
47978016 TTGATTTGTTATTCTAGAAC
1 TTGATTTGTTATTCTAGAAC
47978036 TTG
1 TTG
47978039 CTTGATTATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.16, T:0.51
Consensus pattern (20 bp):
TTGATTTGTTATTCTAGAAC
Found at i:47978047 original size:20 final size:20
Alignment explanation
Indices: 47977996--47978047 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
47977986 TGCGTCAGTA
*
47977996 TTGATTTGTTATTCTAGAAC
1 TTGACTTGTTATTCTAGAAC
*
47978016 TTGATTTGTTATTCTAGAAC
1 TTGACTTGTTATTCTAGAAC
47978036 TTG-CTTGATTAT
1 TTGACTTG-TTAT
47978048 GCATGTCAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.23, C:0.10, G:0.15, T:0.52
Consensus pattern (20 bp):
TTGACTTGTTATTCTAGAAC
Found at i:47981975 original size:46 final size:48
Alignment explanation
Indices: 47981873--47982044 Score: 182
Period size: 46 Copynumber: 3.7 Consensus size: 48
47981863 ACATTATGAG
*
47981873 AGCCAGTGTAAGACCATGTCTGGGATATGGCATCGGCACT-GAGACG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGACGTA
* * * *
47981920 GTGCTAGTGTAAGA-CATGTCTGGGATAT-GCATCGGCCTCGAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTA
*
47981967 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTACGAGAGGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGACGTA
**
47982012 -GTTAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
47982045 AGCACCTGCA
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
44 10 0.09
45 18 0.16
46 56 0.51
47 15 0.14
48 11 0.10
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGACGTA
Found at i:47985691 original size:195 final size:195
Alignment explanation
Indices: 47985359--47985760 Score: 705
Period size: 195 Copynumber: 2.1 Consensus size: 195
47985349 TCCCGAGCAT
* *
47985359 AGCCTAGACACACGGGCGTGTCTGGTGGCTGTGTGAGGCACACAGCCTTGGTACATGGGTGTGTG
1 AGCCTAGATACACAGGCGTGTCTGGTGGCTGTGTGAGGCACACAGCCTTGGTACATGGGTGTGTG
* *
47985424 TGGGCATTTCTAAGGGTACACGGGCGTGTGGTCGATCGTGTGACCCAAGTCAGTTTTGACCAAGG
66 TGGCCATTTCTAAGGGTACACGGGCGTGTGGTCGACCGTGTGACCCAAGTCAGTTTTGACCAAGG
* * * * *
47985489 GCAAGACACACGGGCATGTCTTGTGGCCGTGTGGTGAAGTTAGTATGTATGTCCTGTTTTGCCAC
131 CCAAGACACACGGGCATGTCTTGTGGCCATGTGGTGAAGTCAGTATGTATGCCCTATTTTGCCAC
47985554 AGCCTAGATACACAGGCGTGTCTGGTGGCTGTGTGAGGCACACAGCCTTGGTACATGGGTGTGTG
1 AGCCTAGATACACAGGCGTGTCTGGTGGCTGTGTGAGGCACACAGCCTTGGTACATGGGTGTGTG
*
47985619 TGGCCATTTCTAAGGGTACACGGGCGTGTGGTCGACCGTGTGACCCAAGTCAGTTTTGACCATGG
66 TGGCCATTTCTAAGGGTACACGGGCGTGTGGTCGACCGTGTGACCCAAGTCAGTTTTGACCAAGG
*
47985684 CCAAGACACACGGGCATGTCTTGTGGCTATGTGGTGAAGTCAGTATGTATGCCCTATTTTGCCAC
131 CCAAGACACACGGGCATGTCTTGTGGCCATGTGGTGAAGTCAGTATGTATGCCCTATTTTGCCAC
47985749 AGCCTAGATACA
1 AGCCTAGATACA
47985761 TGGGTGTGTC
Statistics
Matches: 196, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
195 196 1.00
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.26
Consensus pattern (195 bp):
AGCCTAGATACACAGGCGTGTCTGGTGGCTGTGTGAGGCACACAGCCTTGGTACATGGGTGTGTG
TGGCCATTTCTAAGGGTACACGGGCGTGTGGTCGACCGTGTGACCCAAGTCAGTTTTGACCAAGG
CCAAGACACACGGGCATGTCTTGTGGCCATGTGGTGAAGTCAGTATGTATGCCCTATTTTGCCAC
Found at i:47987643 original size:17 final size:16
Alignment explanation
Indices: 47987611--47987641 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47987601 GTTTAGGGGC
*
47987611 AAAAATTTAATTTTTG
1 AAAAATATAATTTTTG
47987627 AAAAATATAATTTTT
1 AAAAATATAATTTTT
47987642 TGGTTGAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (16 bp):
AAAAATATAATTTTTG
Found at i:47995149 original size:47 final size:47
Alignment explanation
Indices: 47995038--47995164 Score: 166
Period size: 47 Copynumber: 2.7 Consensus size: 47
47995028 GATGTATCAA
* * * *
47995038 TGTAAGACTATGTCTGGGACATGGCGTCAGTCTCGATTTCGATAGTCAG
1 TGTAAGACCATGTCTGGGACATGGCGTC-GACTCGA-TTAGATAGCCAG
*
47995087 TGTAAGACCATGTCTGGGACATGGCGTCGACTTGA-TAGATAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCGTCGACTCGATTAGAT-AGCCAG
*
47995134 TGTAAGACCATGTCTGGGACATGGCATCGAC
1 TGTAAGACCATGTCTGGGACATGGCGTCGAC
47995165 ATTATACCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 4 0.06
47 35 0.49
48 5 0.07
49 27 0.38
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCGTCGACTCGATTAGATAGCCAG
Found at i:48012005 original size:39 final size:40
Alignment explanation
Indices: 48011801--48012023 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
48011791 TTGAATGCTG
* * * * * *
48011801 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
48011841 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
48011881 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
48011921 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48011961 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48012000 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48012024 TGAACGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 35 0.22
40 118 0.73
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48019973 original size:39 final size:40
Alignment explanation
Indices: 48019759--48019981 Score: 218
Period size: 40 Copynumber: 5.6 Consensus size: 40
48019749 TTGAATGCTG
* * * * * *
48019759 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
48019799 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48019839 TCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* **
48019879 TCCGGGTTAAGTCCCGAAGGCATTCGTGCAAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
48019919 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
48019958 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
48019982 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 8 0.05
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:48020001 original size:79 final size:80
Alignment explanation
Indices: 48019834--48020016 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
48019824 GTGCGAGATA
* * *
48019834 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
48019899 CATTCGTGCAAGTTG
66 CATTCGAACAAGGAG
* * * * *
48019914 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
48019978 CATTTGAACGAGGAG
66 CATTCGAACAAGGAG
* *
48019993 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
48020017 TACGTGATTT
Statistics
Matches: 85, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.16
79 44 0.52
80 27 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACAAGGAG
Found at i:48022664 original size:19 final size:19
Alignment explanation
Indices: 48022637--48022679 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
48022627 TGAAACGTTT
*
48022637 GAACTTGTAGCCAGAGTGG
1 GAACCTGTAGCCAGAGTGG
48022656 GAACCTGTAGCCAGAGTGG
1 GAACCTGTAGCCAGAGTGG
*
48022675 TAACC
1 GAACC
48022680 CATGGTGAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.33, T:0.19
Consensus pattern (19 bp):
GAACCTGTAGCCAGAGTGG
Found at i:48024265 original size:32 final size:32
Alignment explanation
Indices: 48024229--48024294 Score: 96
Period size: 32 Copynumber: 2.1 Consensus size: 32
48024219 TATGAAAGAA
* * *
48024229 AACATCTCAAAAGAATAAAGATAACAAAATAT
1 AACATCTCAAAAAAATAAAAATAACAAAACAT
*
48024261 AACATCTCAAAAAAATAAAAATAATAAAACAT
1 AACATCTCAAAAAAATAAAAATAACAAAACAT
48024293 AA
1 AA
48024295 AGAAAACCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.67, C:0.12, G:0.03, T:0.18
Consensus pattern (32 bp):
AACATCTCAAAAAAATAAAAATAACAAAACAT
Found at i:48040368 original size:68 final size:68
Alignment explanation
Indices: 48040259--48040394 Score: 263
Period size: 68 Copynumber: 2.0 Consensus size: 68
48040249 TGACCGAGTA
48040259 TGAGCGCTGTGTTCAATTTGAGGATGGTCTCAGGGATAGTTTGCGAGTCTTGATAGCTTTGTAGA
1 TGAGCGCTGTGTTCAATTTGAGGATGGTCTCAGGGATAGTTTGCGAGTCTTGATAGCTTTGTAGA
48040324 GAG
66 GAG
*
48040327 TGAGCGCTGTGTTCAATTTGAGGATGGTCTTAGGGATAGTTTGCGAGTCTTGATAGCTTTGTAGA
1 TGAGCGCTGTGTTCAATTTGAGGATGGTCTCAGGGATAGTTTGCGAGTCTTGATAGCTTTGTAGA
48040392 GAG
66 GAG
48040395 AGCATGACTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 67 1.00
ACGTcount: A:0.21, C:0.11, G:0.34, T:0.35
Consensus pattern (68 bp):
TGAGCGCTGTGTTCAATTTGAGGATGGTCTCAGGGATAGTTTGCGAGTCTTGATAGCTTTGTAGA
GAG
Found at i:48041504 original size:29 final size:29
Alignment explanation
Indices: 48041467--48041544 Score: 120
Period size: 29 Copynumber: 2.7 Consensus size: 29
48041457 ACACAAATAT
* *
48041467 CGCAACAAAGCTACCAGTAATAATGATAA
1 CGCAGCAAAGCTGCCAGTAATAATGATAA
48041496 CGCAGCAAAGCTGCCAGTAATAATGATAA
1 CGCAGCAAAGCTGCCAGTAATAATGATAA
**
48041525 CGCAGCGTAGCTGCCAGTAA
1 CGCAGCAAAGCTGCCAGTAA
48041545 CAGTAAGTGT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (29 bp):
CGCAGCAAAGCTGCCAGTAATAATGATAA
Found at i:48067116 original size:48 final size:48
Alignment explanation
Indices: 48067061--48067696 Score: 954
Period size: 48 Copynumber: 13.0 Consensus size: 48
48067051 ACACATCGCC
*
48067061 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48067109 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A
* *
48067161 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
48067209 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
*
48067259 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
48067309 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48067357 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
48067405 TACATATTTCATATTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
48067453 TACATATTTCACATTAGCCATTCGGCTTTACCAC--ATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
48067499 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC------A
* * *
48067553 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
48067603 TATATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
48067651 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48067697 TATGCATCAA
Statistics
Matches: 551, Mismatches: 21, Indels: 32
0.91 0.03 0.05
Matches are distributed among these distances:
46 46 0.08
48 272 0.49
49 1 0.00
50 143 0.26
51 1 0.00
52 43 0.08
54 45 0.08
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:48067182 original size:100 final size:96
Alignment explanation
Indices: 48067061--48067696 Score: 954
Period size: 100 Copynumber: 6.5 Consensus size: 96
48067051 ACACATCGCC
* *
48067061 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
48067126 CCATTCGGCTTTACCACATATACATATCTCATATA
66 CCATTCGGCTTTACCACATATACATATCTC----A
* *
48067161 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTA
48067225 GCCATTCGGCTTTACCACATATACATATCTCATA
65 GCCATTCGGCTTTACCACATATACATATCTC--A
* * *
48067259 TATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCGCATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
48067324 AGCCATTCGGCTTTACCACATATACATATCTCA
64 AGCCATTCGGCTTTACCACATATACATATCTCA
* *
48067357 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCATATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
*
48067422 CCATTCGGCTTTACCACATATGCATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
*
48067453 TACATATTTCACATTAGCCATTCGGCTTTACCAC--ATGCATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
48067516 CCATTCGGCTTTACCACATATACATATCTCATATATA
66 CCATTCGGCTTTACCACATATACATATCTC------A
* * * * *
48067553 TATATATTTCACATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATT
48067618 AGCCATTCGGCTTTACCACATATACATATCTCA
64 AGCCATTCGGCTTTACCACATATACATATCTCA
48067651 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48067697 TATGCATCAA
Statistics
Matches: 498, Mismatches: 24, Indels: 30
0.90 0.04 0.05
Matches are distributed among these distances:
94 57 0.11
96 79 0.16
98 137 0.28
99 2 0.00
100 167 0.34
102 10 0.02
104 46 0.09
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:48067238 original size:148 final size:147
Alignment explanation
Indices: 48067061--48067696 Score: 1016
Period size: 148 Copynumber: 4.3 Consensus size: 147
48067051 ACACATCGCC
* *
48067061 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACACTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTA
48067125 GCCATTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATT-GACCATTCGGCTT
66 GCCATTCGGCTTTACCACATATACATATCTC--ATATATATATTTCACATTAG-CCATTCGGCTT
*
48067189 TACCACATATGCATATCTCA
128 TACCACATATACATATCTCA
*
48067209 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
*
48067274 AGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGCTTTA
65 AGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTA
48067339 CCACATATACATATCTCA
130 CCACATATACATATCTCA
* *
48067357 TACATATTTCACATTAGCCATTCGGCTTTACCACATATGCATATCTC-ATACATATTTCATATTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTA
* *
48067421 GCCATTCGGCTTTACCACATATGCATATCTC--ATACATATTTCACATTAGCCATTCGGCTTTAC
66 GCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTAC
*
48067484 CAC--ATGCATATCTCA
131 CACATATACATATCTCA
*
48067499 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATATATTTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----A-ATACATATTTCA
* * *
48067564 CATTAACCATTCAGCTTTACCACATATACATATCTCATATATATATTTCGCATTAGCCATTCGGC
61 CATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGC
48067629 TTTACCACATATACATATCTCA
126 TTTACCACATATACATATCTCA
48067651 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCT
48067697 TATGCATCAA
Statistics
Matches: 454, Mismatches: 21, Indels: 22
0.91 0.04 0.04
Matches are distributed among these distances:
142 57 0.13
144 33 0.07
146 45 0.10
148 182 0.40
149 1 0.00
150 79 0.17
152 57 0.13
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (147 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTA
GCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTAC
CACATATACATATCTCA
Found at i:48076859 original size:13 final size:13
Alignment explanation
Indices: 48076841--48076868 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48076831 GAAGCACGAT
48076841 TCACACGGGCATG
1 TCACACGGGCATG
48076854 TCACACGGGCATG
1 TCACACGGGCATG
48076867 TC
1 TC
48076869 CCTACCGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (13 bp):
TCACACGGGCATG
Found at i:48079062 original size:40 final size:40
Alignment explanation
Indices: 48079018--48079279 Score: 328
Period size: 39 Copynumber: 6.7 Consensus size: 40
48079008 GCTCCTCGTT
* *
48079018 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48079058 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48079098 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
48079137 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
48079176 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
48079215 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
48079256 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48079280 CATCATTCAA
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 126 0.62
40 64 0.32
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:48079675 original size:13 final size:13
Alignment explanation
Indices: 48079657--48079681 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48079647 GGATGAGCAT
48079657 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
48079670 TTTTTTTTCTTT
1 TTTTTTTTCTTT
48079682 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:48086464 original size:39 final size:39
Alignment explanation
Indices: 48086347--48086608 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
48086337 GCTCCTCGTT
* *
48086347 CAAATGCCTTCGGGACATAGCCC-GATTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
48086387 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
48086427 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
*
48086466 CAAATGCCTTCGGGCTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
48086505 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * *
48086544 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
48086585 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
48086609 CATCATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 59 0.29
41 13 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:48088333 original size:16 final size:16
Alignment explanation
Indices: 48088302--48088331 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
48088292 TGAATGCCTC
48088302 TTTTTTAAAATATTTA
1 TTTTTTAAAATATTTA
48088318 TTTTTT-AAATATTT
1 TTTTTTAAAATATTT
48088332 TACTTTGCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTTTAAAATATTTA
Found at i:48088613 original size:3 final size:3
Alignment explanation
Indices: 48088605--48088652 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
48088595 ATCATTGTCA
*
48088605 CAT CAT CAT CAT TAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
48088653 AATTACTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
CAT
Found at i:48098707 original size:21 final size:20
Alignment explanation
Indices: 48098683--48098721 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
48098673 AGGTTAGAAT
*
48098683 TTTTCAGATCACAAACTATGC
1 TTTTCAAAT-ACAAACTATGC
*
48098704 TTTTGAAATACAAACTAT
1 TTTTCAAATACAAACTAT
48098722 CATCGAAACC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (20 bp):
TTTTCAAATACAAACTATGC
Found at i:48104119 original size:46 final size:48
Alignment explanation
Indices: 48104062--48104193 Score: 135
Period size: 46 Copynumber: 2.8 Consensus size: 48
48104052 GGTGGCATGT
* * *
48104062 GAGCCAGTGTAAGACATGTCTAGGACATGCATCGACATTGAGA-CGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGAC
* * * * *
48104108 GAGCTAGTGTAAGACATGTATGGGACGTGCATC-AGCCTTGGGATATAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGA-CATTGAGATAGAC
* *
48104156 AAGCTAGTGTAAGACCTGTCTGGGACATGGCATCGACA
1 GAGCTAGTGTAAGACATGTCTGGGACAT-GCATCGACA
48104194 CCGATAGATG
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
45 1 0.01
46 35 0.51
47 1 0.01
48 24 0.35
49 6 0.09
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGATAGAC
Found at i:48104241 original size:97 final size:95
Alignment explanation
Indices: 48104066--48104289 Score: 238
Period size: 97 Copynumber: 2.3 Consensus size: 95
48104056 GCATGTGAGC
* * ** * * *
48104066 CAGTGTAAGACATGTCTAGGACAT-GCATCGACATTGAGACGAGAGCTAGTGTAAGACATGTATG
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGAGACGAGAGCCAGCGTAAGACATGTACG
* * * *
48104130 GGACGTGCATCAGCCTTGGGATATACAAG-
66 GGACATGCATCAGCCTCGAGATATAAAAGT
* *
48104159 CTAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGCGTAAGACCTGT
1 C-AGTGTAAGACCTGTCTGGGACATGGCATCGACACCG--AGACGAGAGCCAGCGTAAGACATGT
*
48104224 -CGGGACATGGCATCAGCCTCGATATATAAAAGT
63 ACGGGACAT-GCATCAGCCTCGAGATATAAAAGT
* * *
48104257 CAATGTAAGACCTGTCTGGGACACGACATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC
48104290 TTTAATGTGC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
93 1 0.01
94 21 0.19
95 10 0.09
96 6 0.06
97 69 0.64
98 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (95 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACCGAGACGAGAGCCAGCGTAAGACATGTACG
GGACATGCATCAGCCTCGAGATATAAAAGT
Found at i:48104247 original size:48 final size:49
Alignment explanation
Indices: 48104164--48104289 Score: 141
Period size: 48 Copynumber: 2.6 Consensus size: 49
48104154 ACAAGCTAGT
* * *
48104164 GTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGC
1 GTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAAAAGCCAAC
* * *
48104213 GTAAGACCTGTC-GGGACATGGCATC-AGC-CTCGATATATAAAAGTCAAT
1 GTAAGACCTGTCTGGGACATGGCATCGA-CAC-CGATAGATAAAAGCCAAC
* *
48104261 GTAAGACCTGTCTGGGACACGACATCGAC
1 GTAAGACCTGTCTGGGACATGGCATCGAC
48104290 TTTAATGTGC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
47 2 0.03
48 38 0.58
49 24 0.37
50 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.27, T:0.19
Consensus pattern (49 bp):
GTAAGACCTGTCTGGGACATGGCATCGACACCGATAGATAAAAGCCAAC
Found at i:48110815 original size:43 final size:43
Alignment explanation
Indices: 48110768--48110872 Score: 120
Period size: 43 Copynumber: 2.4 Consensus size: 43
48110758 ATGCAACTAT
* * ** * *
48110768 AGAACATAACCTTTAGCGGAACTTTTCCCACAAATTCTGTTAA
1 AGAACATGACCTTTAGCGGAACTTTTCACACAAACGCCGCTAA
* **
48110811 AGAACATGACCTCTAGCGGTGCTTTTCACACAAACGCCGCTAA
1 AGAACATGACCTTTAGCGGAACTTTTCACACAAACGCCGCTAA
*
48110854 AGAACATGATCTTTAGCGG
1 AGAACATGACCTTTAGCGG
48110873 CGTTTTTAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
AGAACATGACCTTTAGCGGAACTTTTCACACAAACGCCGCTAA
Found at i:48121157 original size:29 final size:29
Alignment explanation
Indices: 48121118--48121332 Score: 204
Period size: 29 Copynumber: 7.6 Consensus size: 29
48121108 CCGTAACCGA
48121118 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ****
48121147 GCACTGTGTGTGCGAGTTCCGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
48121175 GCACTGTGTGTGCGAGATTGATTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ****
48121204 GCACTGTGTGTGCGAGTTC-CTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
48121231 GCACTGTGTGTGCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* * ** *
48121260 GCACTGTGTGTGCGAGTTCCGTAATCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
48121288 GCATTGTGTGTACGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
*
48121317 GCACTATGTGTGCGAG
1 GCACTGTGTGTGCGAG
48121333 TTCCATAACC
Statistics
Matches: 140, Mismatches: 42, Indels: 8
0.74 0.22 0.04
Matches are distributed among these distances:
27 18 0.13
28 47 0.34
29 75 0.54
ACGTcount: A:0.17, C:0.17, G:0.36, T:0.30
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:48121157 original size:57 final size:57
Alignment explanation
Indices: 48121088--48121387 Score: 476
Period size: 57 Copynumber: 5.2 Consensus size: 57
48121078 AAGTGAACAT
*
48121088 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
48121145 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATTGATTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
48121202 AGGCACTGTGTGTGCGAGTTCC-TAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * *
48121258 AGGCACTGTGTGTGCGAGTTCCGTAATCGAGCATTGTGTGTACGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* * * *
48121315 AGGCACTATGTGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
48121372 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
48121388 AAATGAGATC
Statistics
Matches: 223, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
56 54 0.24
57 163 0.73
59 6 0.03
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:48121289 original size:113 final size:114
Alignment explanation
Indices: 48121088--48121387 Score: 476
Period size: 113 Copynumber: 2.6 Consensus size: 114
48121078 AAGTGAACAT
* *
48121088 AGGCACTGTGTGTGTGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
1 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
* *
48121153 TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTGCGAGATTGATTGTTG
66 TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTACGAGATCGATTGTTG
48121202 AGGCACTGTGTGTGCGAGTTCC-TAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
1 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
* * *
48121266 TGTGTGCGAGTTCCGTAATCGAGCATTGTGTGTACGAGATCGGTTGTTG
66 TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTACGAGATCGATTGTTG
* * * *
48121315 AGGCACTATGTGTGCGAGTTCCATAACCAAGCACTGTGTGTGCAAGATCGGTTGTTGGGGCACTA
1 AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACT-
48121380 AGTGTGTG
65 -GTGTGTG
48121388 AAATGAGATC
Statistics
Matches: 173, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
113 107 0.62
114 59 0.34
116 7 0.04
ACGTcount: A:0.18, C:0.18, G:0.35, T:0.29
Consensus pattern (114 bp):
AGGCACTGTGTGTGCGAGTTCCATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTGAGGCACTG
TGTGTGCGAGTTCCGTAACCGAGCACTGTGTGTACGAGATCGATTGTTG
Found at i:48125163 original size:48 final size:47
Alignment explanation
Indices: 48125090--48125234 Score: 159
Period size: 48 Copynumber: 3.0 Consensus size: 47
48125080 AAGAGGGTGA
* * * *
48125090 ATTGTCGATGTCATGTTCCAAACATGGTCTTACACTGGCTCTCGTCA-C
1 ATTGTCGATGCCATG-TCCAGACATGGTCTTACACTAGCTCTCAT-ATC
*
48125138 ATTGTCGATGCCATGTCCTAGACATGGTTTTACACTAGCTCTCATATC
1 ATTGTCGATGCCATGTCC-AGACATGGTCTTACACTAGCTCTCATATC
* * *
48125186 A-TGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATC
1 ATTGTC-GATGCCATGT-CCAGACATGGTCTTACACTAGCTCTCATATC
48125234 A
1 A
48125235 CCCAAATATC
Statistics
Matches: 84, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
47 7 0.08
48 75 0.89
49 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (47 bp):
ATTGTCGATGCCATGTCCAGACATGGTCTTACACTAGCTCTCATATC
Found at i:48137057 original size:14 final size:14
Alignment explanation
Indices: 48137035--48137064 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
48137025 GATAAATATT
*
48137035 TTATTTGTTCTTAA
1 TTATGTGTTCTTAA
48137049 TTATGTGTTCTTAA
1 TTATGTGTTCTTAA
48137063 TT
1 TT
48137065 CTTGTTTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.10, T:0.63
Consensus pattern (14 bp):
TTATGTGTTCTTAA
Found at i:48141575 original size:47 final size:47
Alignment explanation
Indices: 48141521--48141992 Score: 687
Period size: 47 Copynumber: 10.0 Consensus size: 47
48141511 GATTTTATGA
** * * *
48141521 GATGAATGTGAATGTGTATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
**
48141568 GATGAATGTGAACATGCATATGCGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
48141615 GATGAATGTGAACATGCATATCTGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
*
48141662 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
48141709 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
48141756 GATGAATGTGAACATGCATATATGAGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
48141803 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
48141850 GATGAATGTGAACATGCATATGTGTGATAAGGCCGAACGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* ** *
48141897 GATGAATGTGAACATGCATATGTGTGATAAGGTAGAATGGCTAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * * ** *
48141944 GATAAACGTGGAA-ATGTATATATGTGGCGAA-GCCGAATGGCTAATGT
1 GATGAATGT-GAACATGCATATATGT-GATAAGGCCGAATGGCCAATGT
48141991 GA
1 GA
48141993 GATATGTATG
Statistics
Matches: 390, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
47 384 0.98
48 6 0.02
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:48141711 original size:22 final size:22
Alignment explanation
Indices: 48141684--48141758 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
48141674 CATGCATATG
48141684 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
48141706 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
48141731 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
48141753 TGTGAT
1 TGTGAT
48141759 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:48146646 original size:48 final size:48
Alignment explanation
Indices: 48146531--48146704 Score: 154
Period size: 48 Copynumber: 3.6 Consensus size: 48
48146521 GTGACTTGCT
* * * * * * *
48146531 GATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCGTCTTAAT-GTC
1 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCAT-ATCATGGAC
* *** * * * *
48146579 GATCCCATATTCCAAACATGGTCCTACATTGGCTCTCAT-TACATTGAC
1 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAT-CATGGAC
* *
48146627 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATATCGTGGTC
1 GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATATCATGGAC
*
48146675 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGCCCCAGACATGGTCTTACACT
48146705 AGCACACATC
Statistics
Matches: 101, Mismatches: 22, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
46 1 0.01
47 2 0.02
48 97 0.96
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (48 bp):
GATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATATCATGGAC
Found at i:48149440 original size:32 final size:33
Alignment explanation
Indices: 48149370--48149443 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 33
48149360 TTTTATATTT
*
48149370 TTTAAATGTTTATGTAAGTTATGATAATCATAAAC
1 TTTAAATGTTTATGTAAGTTATAATAATCAT--AC
*
48149405 TTTAAATGTTTATGTAAGTTATAATTATCAT-C
1 TTTAAATGTTTATGTAAGTTATAATAATCATAC
48149437 TTTAAAT
1 TTTAAAT
48149444 ATTGACTCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 8 0.22
35 29 0.78
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (33 bp):
TTTAAATGTTTATGTAAGTTATAATAATCATAC
Found at i:48151578 original size:43 final size:42
Alignment explanation
Indices: 48151455--48151578 Score: 126
Period size: 41 Copynumber: 3.0 Consensus size: 42
48151445 TCTAGCATGT
*
48151455 TGGCATCGATATGCGATTACGTGTAAGACCATGTCTGGGACA
1 TGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACA
* * * * ** *
48151497 TCGACATTG-TATTTGATT-TGTGTAAGACTTTGTGTGGGACA
1 T-GGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACA
* *
48151538 GTGGCATCGATATGTGATTACATGTAAGACCACGTCTGGGA
1 -TGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGA
48151579 TGTTCGCATT
Statistics
Matches: 61, Mismatches: 17, Indels: 7
0.72 0.20 0.08
Matches are distributed among these distances:
41 24 0.39
42 17 0.28
43 20 0.33
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.31
Consensus pattern (42 bp):
TGGCATCGATATGTGATTACGTGTAAGACCATGTCTGGGACA
Found at i:48159560 original size:49 final size:49
Alignment explanation
Indices: 48159469--48159565 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
48159459 ATGTATTTAT
* * ** * *
48159469 AGGTTAAAAAACATTATTCTAATCAATGTCAAATGGATGAAGTGTAGTA
1 AGGTTAAAAAACATTATTCTAACCAATGTAAAATAAAAGAAGTATAGTA
*
48159518 AGGTTGAAAAATC-TTATTCTAACCAATGTAAAATAAAAGAAGTATAGT
1 AGGTT-AAAAAACATTATTCTAACCAATGTAAAATAAAAGAAGTATAGT
48159566 TCTGTATGGA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 34 0.85
50 6 0.15
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.30
Consensus pattern (49 bp):
AGGTTAAAAAACATTATTCTAACCAATGTAAAATAAAAGAAGTATAGTA
Found at i:48179419 original size:27 final size:27
Alignment explanation
Indices: 48179341--48179422 Score: 119
Period size: 27 Copynumber: 3.0 Consensus size: 27
48179331 TTATATTAAT
*
48179341 ATAATTTTAATGTGTCTAGTTTAGAAC
1 ATAATTTTAATGTGTCTAGTTTAGGAC
* *
48179368 ATAATTTTAATATGTCTAATTTAGGAC
1 ATAATTTTAATGTGTCTAGTTTAGGAC
* *
48179395 ATAATTTTAATGTGTCTGGTGTAGGAC
1 ATAATTTTAATGTGTCTAGTTTAGGAC
48179422 A
1 A
48179423 AACTTATTAG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 48 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.43
Consensus pattern (27 bp):
ATAATTTTAATGTGTCTAGTTTAGGAC
Found at i:48183425 original size:20 final size:22
Alignment explanation
Indices: 48183392--48183432 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
48183382 TTTTCAACTT
*
48183392 TTTTTTAGCATTAT-TAGAAGG
1 TTTTTTAACATTATCTAGAAGG
48183413 TTTTTTAAC-TTATCTAGAAG
1 TTTTTTAACATTATCTAGAAG
48183433 TTTCGTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.29, C:0.07, G:0.15, T:0.49
Consensus pattern (22 bp):
TTTTTTAACATTATCTAGAAGG
Found at i:48183986 original size:14 final size:15
Alignment explanation
Indices: 48183969--48183997 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48183959 ATAATATGAA
48183969 TGATATGT-GATATG
1 TGATATGTGGATATG
48183983 TGATATGTGGATATG
1 TGATATGTGGATATG
48183998 GTGCTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.00, G:0.31, T:0.41
Consensus pattern (15 bp):
TGATATGTGGATATG
Found at i:48186968 original size:15 final size:16
Alignment explanation
Indices: 48186950--48186987 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
48186940 CTACCGTTAG
*
48186950 TATTATTTTCATTAC-
1 TATTATTTTCAATACA
*
48186965 TATTATTTTTAATACA
1 TATTATTTTCAATACA
48186981 TATTATT
1 TATTATT
48186988 ACTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
TATTATTTTCAATACA
Found at i:48188854 original size:40 final size:40
Alignment explanation
Indices: 48188749--48188932 Score: 302
Period size: 40 Copynumber: 4.6 Consensus size: 40
48188739 CGGATGATAA
* *
48188749 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
48188789 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48188828 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
48188868 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
48188909 -CGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
48188933 AACAAGTAGC
Statistics
Matches: 137, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
39 35 0.26
40 101 0.74
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48188963 original size:119 final size:119
Alignment explanation
Indices: 48188745--48188965 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 119
48188735 TATTCGGATG
* *
48188745 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGCCCGAAGGCAT
** * *
48188810 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
66 TTGAACAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
*
48188864 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAT-CGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-AATCCGGGCTAAG-CCCGAAGGC
* *
48188928 ATTTGAACAAG-TAGCTATATTC-GGCTAAATTCCGAAGG
64 ATTTGAACAAGTTA-CTATATCCGGGCTAAATCCCGAAGG
48188966 TACTTAGTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
119 64 0.71
120 26 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAATCCGGGCTAAGCCCGAAGGCAT
TTGAACAAGTTACTATATCCGGGCTAAATCCCGAAGGCATTTGTGCGAGTTACT
Found at i:48188965 original size:39 final size:40
Alignment explanation
Indices: 48188745--48188965 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 40
48188735 TATTCGGATG
* ** * *
48188745 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACT
* ** *
48188785 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAAT-CGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACT
** *
48188824 AT-ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAAT-CGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACT
* ** *
48188864 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACT
48188904 ATAATCGGGCTAAGTCCCGAAGGCATTTGAACAAG-TAGCT
1 ATAATCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTA-CT
* * *
48188944 ATATTC-GGCTAAATTCCGAAGG
1 ATAATCGGGCTAAGTCCCGAAGG
48188966 TACTTAGTTT
Statistics
Matches: 163, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 52 0.32
40 110 0.67
41 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATAATCGGGCTAAGTCCCGAAGGCATTTGAACAAGTTACT
Found at i:48196899 original size:40 final size:40
Alignment explanation
Indices: 48196794--48197000 Score: 278
Period size: 40 Copynumber: 5.2 Consensus size: 40
48196784 CGGATGATAA
* * *
48196794 CCGGGCTAAGTCCCGAAGGAATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
48196834 CCGGGCTAA-ACCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
48196873 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
48196913 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
48196953 CCGGGCTAAGTCCTGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
48196993 CC-GGCTAA
1 CCGGGCTAA
48197001 ATTCTGAAGG
Statistics
Matches: 152, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 41 0.27
40 111 0.73
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:48207537 original size:75 final size:75
Alignment explanation
Indices: 48207414--48207563 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 75
48207404 CCCTATAAAA
* * * *
48207414 CAATTAATTATTCATATATCCACTCCTTAATCCCTCACAGGAGGATTAGTTCCTTATAGATCTAG
1 CAATTAATTATTCATACATCCACTCCTTAATCCCGCACAGGAGGATTAGTTCCTCATAAATCTAG
48207479 TAAAAAATAT
66 TAAAAAATAT
* *
48207489 CAATTAATTATTCATACCTCCACTCGTTAATCCCGCACAGGAGGATTAGTTCCTCATAAATCTAG
1 CAATTAATTATTCATACATCCACTCCTTAATCCCGCACAGGAGGATTAGTTCCTCATAAATCTAG
48207554 TAAAAAATAT
66 TAAAAAATAT
48207564 AAACTTGAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (75 bp):
CAATTAATTATTCATACATCCACTCCTTAATCCCGCACAGGAGGATTAGTTCCTCATAAATCTAG
TAAAAAATAT
Found at i:48219522 original size:19 final size:19
Alignment explanation
Indices: 48219494--48219532 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
48219484 AGAGCGAAAG
48219494 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
48219512 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
48219532 A
1 A
48219533 GTACAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:48221947 original size:19 final size:20
Alignment explanation
Indices: 48221910--48221948 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48221900 GTGCTTTGGG
48221910 ACACGCTCATGTCCCCTAGC
1 ACACGCTCATGTCCCCTAGC
48221930 ACACGCTCATGT-CCCTAGC
1 ACACGCTCATGTCCCCTAGC
48221949 CCGTGCCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.21, C:0.44, G:0.15, T:0.21
Consensus pattern (20 bp):
ACACGCTCATGTCCCCTAGC
Found at i:48228312 original size:27 final size:27
Alignment explanation
Indices: 48228282--48228459 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
48228272 ATATTGAGTC
* * * *
48228282 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48228309 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48228336 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
* ** * *
48228364 TGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48228391 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48228418 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48228445 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48228460 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48228421 original size:82 final size:81
Alignment explanation
Indices: 48228303--48228458 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
48228293 TGCTATATAA
* * *
48228303 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTTGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48228368 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48228385 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48228449 CACTTAGTGC
65 CACTTAGTGC
48228459 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 51 0.77
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48235094 original size:1 final size:1
Alignment explanation
Indices: 48235088--48235172 Score: 170
Period size: 1 Copynumber: 85.0 Consensus size: 1
48235078 ATTATTTTCA
48235088 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
48235153 TTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
48235173 GACACTGCCA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:48236056 original size:27 final size:27
Alignment explanation
Indices: 48236025--48236202 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
48236015 TATATTAGTC
* * * *
48236025 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
48236052 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48236079 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
48236107 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
48236134 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
48236161 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
48236188 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
48236203 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:48236164 original size:82 final size:81
Alignment explanation
Indices: 48236046--48236201 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
48236036 TGCTATATAA
* *
48236046 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
48236111 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
48236128 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
48236192 CACTTAGTGC
65 CACTTAGTGC
48236202 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:48239422 original size:14 final size:14
Alignment explanation
Indices: 48239403--48239429 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48239393 ATATTTGATT
48239403 TGTTCTTAATTATG
1 TGTTCTTAATTATG
48239417 TGTTCTTAATTAT
1 TGTTCTTAATTAT
48239430 TGCTTTGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATG
Found at i:48242786 original size:34 final size:34
Alignment explanation
Indices: 48242748--48242817 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
48242738 TATTGCATCT
48242748 AACTTGCAACCCAAGGAGAAAGAAG-AATTACTCC
1 AACTTGCAACCCAAGGAGAAA-AAGAAATTACTCC
48242782 AACTTGCAACCCAAGGAGAAAAAGAAATTACTCC
1 AACTTGCAACCCAAGGAGAAAAAGAAATTACTCC
48242816 AA
1 AA
48242818 GTATTAAGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 3 0.09
34 32 0.91
ACGTcount: A:0.47, C:0.23, G:0.16, T:0.14
Consensus pattern (34 bp):
AACTTGCAACCCAAGGAGAAAAAGAAATTACTCC
Found at i:48244759 original size:40 final size:40
Alignment explanation
Indices: 48244669--48244853 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
48244659 TCGAATGATG
* *
48244669 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATA
**
48244709 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-A
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA
* *
48244748 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
*
48244788 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
* *
48244828 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
48244854 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
39 35 0.28
40 83 0.66
41 8 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
Found at i:48244805 original size:79 final size:81
Alignment explanation
Indices: 48244669--48244851 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
48244659 TCGAATGATG
* *
48244669 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGAACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGAACTAAGATCCGAAGGCATT
48244733 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * ***
48244748 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGAACTAAGAT-CCGAAGGCA
48244810 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
48244828 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48244852 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGAACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:48264811 original size:77 final size:79
Alignment explanation
Indices: 48264665--48264925 Score: 320
Period size: 77 Copynumber: 3.3 Consensus size: 79
48264655 GCTCCTCGTT
* * *
48264665 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
48264730 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
48264745 CAAATGCCTTCGGGACTTA-ACCGGATTAGTAACTCGCACAAATG-CTTCGGGACTTAACGCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
48264808 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* * ** *
48264822 CAAATGGCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
48264885 GATATT-GTCACTTAGCA
64 GAT-TTAGTAAC-TCGCA
48264902 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
48264926 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
76 4 0.03
77 49 0.31
78 48 0.30
79 33 0.21
80 25 0.16
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:48264824 original size:39 final size:40
Alignment explanation
Indices: 48264665--48264873 Score: 302
Period size: 40 Copynumber: 5.3 Consensus size: 40
48264655 GCTCCTCGTT
* * *
48264665 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
48264705 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48264745 CAAATGCCTTCGGGACTTAA-CCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
48264783 CAAATG-CTTCGGGACTTAACGCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
48264822 CAAATGGCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
48264861 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48264874 ATCTTAGTCT
Statistics
Matches: 156, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
37 13 0.08
38 23 0.15
39 57 0.37
40 61 0.39
41 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:48272552 original size:27 final size:27
Alignment explanation
Indices: 48272514--48272567 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
48272504 TCAAGGATGT
48272514 CCACTAACACCCTGATATCCTCATTAA
1 CCACTAACACCCTGATATCCTCATTAA
48272541 CCACTAACACCCTGATATCCTCATTAA
1 CCACTAACACCCTGATATCCTCATTAA
48272568 GTCTATCTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.37, G:0.04, T:0.26
Consensus pattern (27 bp):
CCACTAACACCCTGATATCCTCATTAA
Found at i:48279156 original size:28 final size:28
Alignment explanation
Indices: 48279123--48279180 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
48279113 TGGCCCATCG
48279123 TATGGCCCATCAGGCCCAATCACTTTCA
1 TATGGCCCATCAGGCCCAATCACTTTCA
48279151 TATGGCCCATCAGGCCCAATCACTTTCA
1 TATGGCCCATCAGGCCCAATCACTTTCA
48279179 TA
1 TA
48279181 GTCATGCAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
TATGGCCCATCAGGCCCAATCACTTTCA
Found at i:48279430 original size:16 final size:16
Alignment explanation
Indices: 48279397--48279431 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
48279387 GCCAAACTTA
* *
48279397 TGGCTTTTCGGCATTT
1 TGGCTTTTCGACAATT
48279413 TGGCTTTTCGACAATT
1 TGGCTTTTCGACAATT
48279429 TGG
1 TGG
48279432 GATTTGCCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.46
Consensus pattern (16 bp):
TGGCTTTTCGACAATT
Found at i:48291855 original size:40 final size:40
Alignment explanation
Indices: 48291754--48291974 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
48291744 TATTCGAATG
* * *
48291754 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGACT
* * *
48291795 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
48291835 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* * * *
48291875 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
* **
48291915 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
48291954 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGA-CCCGAAG
48291975 ATACTTGGGT
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.08
39 15 0.10
40 96 0.63
41 28 0.18
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGACT
Found at i:48294934 original size:47 final size:47
Alignment explanation
Indices: 48294875--48295106 Score: 365
Period size: 47 Copynumber: 4.9 Consensus size: 47
48294865 TAGTACGGCG
*
48294875 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
48294922 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
48294969 TAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
48295016 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
48295063 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
48295107 TCCCGAAGGG
Statistics
Matches: 170, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 170 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:48296534 original size:40 final size:40
Alignment explanation
Indices: 48296479--48296744 Score: 399
Period size: 40 Copynumber: 6.7 Consensus size: 40
48296469 GAGAATTGAG
48296479 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48296519 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48296559 AGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
*
48296599 AGTGATATATCCGGGCTAAGTCCCAAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * *
48296639 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
* * * *
48296679 AGTAATATATCCGTGCTAA-ACCTCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCC-CGAGGAGCATTCGTGCT
* * *
48296719 GGTGTTATATCCGGGCTAGGTCCCGA
1 AGTGATATATCCGGGCTAAGTCCCGA
48296745 AGAGTAATCA
Statistics
Matches: 206, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 1 0.00
40 203 0.99
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
Found at i:48314827 original size:20 final size:20
Alignment explanation
Indices: 48314790--48314826 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48314780 TGTTCATAGC
*
48314790 AAAAATTTTCTAAATTTTGT
1 AAAAATTTCCTAAATTTTGT
48314810 AAAAATTTCCT-AATTTT
1 AAAAATTTCCTAAATTTT
48314827 TTGTTTTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
AAAAATTTCCTAAATTTTGT
Found at i:48322825 original size:46 final size:45
Alignment explanation
Indices: 48322772--48322947 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 45
48322762 TAGGTATCCA
*
48322772 AACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-TCCG
* ** * * *
48322818 AACTCGTTGAGTTGAGTCTGAGTTCGTGAAATAT-AACTAGCTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGA-AC-TCCG
*
48322869 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCC-G
* *
48322915 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48322948 GCGGGTTACG
Statistics
Matches: 105, Mismatches: 17, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
45 2 0.02
46 56 0.53
47 3 0.03
48 6 0.06
49 6 0.06
50 3 0.03
51 29 0.28
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACTCCG
Found at i:48322882 original size:97 final size:97
Alignment explanation
Indices: 48322762--48322940 Score: 288
Period size: 97 Copynumber: 1.8 Consensus size: 97
48322752 TTCAGATATT
* * *
48322762 TAGGTATCCAAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTT
1 TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-ACCGGAACTCGTT
*
48322826 GAGTTGAGTCTGAGTTCGTGAAATATAACTAGC
65 GAGTTGAGTCCGAGTTCGTGAAATATAACTAGC
* *
48322859 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCGGAGCTCGTTG
1 TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCGGAACTCGTTG
48322924 AGTTGAGTCCGAGTTCG
66 AGTTGAGTCCGAGTTCG
48322941 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
96 2 0.03
97 73 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (97 bp):
TAGGCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCGGAACTCGTTG
AGTTGAGTCCGAGTTCGTGAAATATAACTAGC
Found at i:48329350 original size:27 final size:27
Alignment explanation
Indices: 48329320--48329426 Score: 151
Period size: 27 Copynumber: 4.0 Consensus size: 27
48329310 AATCTCATAT
* * *
48329320 CTGTAGGCTAGTATTACTGAAATACCC
1 CTGTAGGGTAGAATTACTAAAATACCC
*
48329347 CTGTAGGGTAGAATTACTAAAATGCCC
1 CTGTAGGGTAGAATTACTAAAATACCC
* * *
48329374 CTATAGGATAGAATTACTAAAATGCCC
1 CTGTAGGGTAGAATTACTAAAATACCC
48329401 CTGTAGGGTAGAATTACTAAAATACC
1 CTGTAGGGTAGAATTACTAAAATACC
48329427 TTTGGTTTAC
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.27
Consensus pattern (27 bp):
CTGTAGGGTAGAATTACTAAAATACCC
Found at i:48329442 original size:27 final size:27
Alignment explanation
Indices: 48329412--48329832 Score: 286
Period size: 27 Copynumber: 15.7 Consensus size: 27
48329402 TGTAGGGTAG
* * * *
48329412 AATTACTAAAATACCTTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGCAA
*** *
48329439 AATTATTGA-ATACCCTTGGTTTGCAA
1 AATTACCAAAATACCCTTGATTTGCAA
* * *
48329465 AATTACCAAAAAACCCTCGATTAGCAA
1 AATTACCAAAATACCCTTGATTTGCAA
* * *
48329492 AATTACCAAAACACCCCT-AGTTT-TAA
1 AATTACCAAAATACCCTTGA-TTTGCAA
*
48329518 AATTACCAAAATACCCTT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGCAA
* **
48329545 AATTACCAAAATA-CCTTAATTTGTGA
1 AATTACCAAAATACCCTTGATTTGCAA
** * ** *
48329571 AATTACTGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGCAA
** * *
48329598 AATTACCAAAATACCCTCAACTTG-TA
1 AATTACCAAAATACCCTTGATTTGCAA
** * *
48329624 AATTATTAAAATACCTTTGATTTGTAA
1 AATTACCAAAATACCCTTGATTTGCAA
* *
48329651 AATTACCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGCAA
* *
48329678 AATTATCGAAATACCCTTGATTTTG-AA
1 AATTACCAAAATACCCTTGA-TTTGCAA
* * *
48329705 AATTACAAAAATACCCTTAATTTACAA
1 AATTACCAAAATACCCTTGATTTGCAA
*
48329732 AATTA-CAGAAATACCTTTGACTTT-CAAA
1 AATTACCA-AAATACCCTTGA-TTTGC-AA
* *
48329760 AATTA-CAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGATTTGCAA
* * *
48329787 AATTACCAAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGCAA
* *
48329814 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
48329833 GAGGGTGAAA
Statistics
Matches: 320, Mismatches: 61, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
26 89 0.28
27 201 0.63
28 30 0.09
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGCAA
Found at i:48329547 original size:53 final size:54
Alignment explanation
Indices: 48329447--48329829 Score: 230
Period size: 53 Copynumber: 7.1 Consensus size: 54
48329437 AAAATTATTG
* * * * * * *
48329447 AATACCCTTGGTTTGCAAAATTACCAAAAAACCC-TCGATTAGCAAAATTACCAA
1 AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAG-TTTGTAAAATTACCAA
*
48329501 AACACCCCTAGTTT-TAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
1 AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
* * * ** * **
48329554 AATA-CCTTAATTTGTGAAATTACTGAAATACCC-TCGACCTGTAAAATTACCAA
1 AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAG-TTTGTAAAATTACCAA
** ** *
48329607 AATA-CCCTCAACTTGT-AAATTATTAAAATA-CCTTTGATTTGTAAAATTACCAA
1 AATACCCCT-AGTTTGTAAAATTACCAAAATACCCTTAG-TTTGTAAAATTACCAA
* * * * *
48329660 AATACCCCT-GATTTGGAAAATTATCGAAATACCCTTGATTTTG-AAAATTACAAA
1 AATACCCCTAG-TTTGTAAAATTACCAAAATACCCTT-AGTTTGTAAAATTACCAA
* * ** * * **
48329714 AATACCCTTAATTTACAAAATTA-CAGAAATACCTTTGACTTTCAAAAATTA-CAGA
1 AATACCCCTAGTTTGTAAAATTACCA-AAATACCCTT-AGTTTGTAAAATTACCA-A
** * * * * *
48329769 AATACCATTGGTTTGCAAAATTACCAAAATACCCTTGGTTTGTAGATTTACCAA
1 AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
*
48329823 AACACCC
1 AATACCC
48329830 TTGGAGGGTG
Statistics
Matches: 259, Mismatches: 54, Indels: 32
0.75 0.16 0.09
Matches are distributed among these distances:
52 11 0.04
53 108 0.42
54 92 0.36
55 46 0.18
56 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (54 bp):
AATACCCCTAGTTTGTAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAA
Found at i:48330591 original size:22 final size:22
Alignment explanation
Indices: 48330547--48330594 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
48330537 GTTGCTGCGA
48330547 TGTTTACGGCTATGTGCTATCC
1 TGTTTACGGCTATGTGCTATCC
* *
48330569 TGTTTACGGCTATGTGTTGTCC
1 TGTTTACGGCTATGTGCTATCC
48330591 TGTT
1 TGTT
48330595 CATATCCTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.10, C:0.19, G:0.25, T:0.46
Consensus pattern (22 bp):
TGTTTACGGCTATGTGCTATCC
Done.