Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 289 of 433
Found at i:90174562 original size:80 final size:78
Alignment explanation
Indices: 90174428--90174577 Score: 187
Period size: 80 Copynumber: 1.9 Consensus size: 78
90174418 ATAAGCATGT
*
90174428 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGG--TTAGCC
90174493 CGGATATAGCCACTA
64 CGGATATAGCCACTA
* * ** * *
90174508 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTTAGCC
90174571 CGGATAT
64 CGGATAT
90174578 CATTCAATTT
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
78 13 0.21
79 3 0.05
80 45 0.74
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAATGCCTTCGGGTTAGCCCG
GATATAGCCACTA
Found at i:90182533 original size:40 final size:40
Alignment explanation
Indices: 90182405--90182555 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
90182395 ATAAGCATGT
* * *
90182405 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
90182445 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
90182485 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
90182525 GCATAATTGTCTTCGGG-GTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
90182556 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 14 0.15
40 77 0.83
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:90186332 original size:28 final size:27
Alignment explanation
Indices: 90186269--90186338 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
90186259 ATAGTGAGTC
90186269 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
90186296 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
90186324 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
90186339 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:90190632 original size:31 final size:31
Alignment explanation
Indices: 90190597--90190660 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
90190587 CCTTTTCATG
*
90190597 TTTCATATTCCATAACATTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
* **
90190628 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTCCATAACACTGGGCCGAAGCCT
90190659 TT
1 TT
90190661 ACTGTAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTCCATAACACTGGGCCGAAGCCT
Found at i:90190916 original size:24 final size:24
Alignment explanation
Indices: 90190852--90191017 Score: 248
Period size: 24 Copynumber: 7.0 Consensus size: 24
90190842 GCTTTATCAT
* *
90190852 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
**
90190877 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
90190900 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
*
90190923 ATAACTGGGACATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
90190947 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
90190971 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
90190995 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
90191018 TCACTTCCTC
Statistics
Matches: 133, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
23 39 0.29
24 86 0.65
25 8 0.06
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:90191093 original size:20 final size:20
Alignment explanation
Indices: 90191068--90191127 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
90191058 TATGATTACC
90191068 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
90191088 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
90191108 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
90191128 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:90191202 original size:25 final size:25
Alignment explanation
Indices: 90191170--90191217 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
90191160 ATACATAAAC
* * *
90191170 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
90191195 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
90191218 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:90195719 original size:30 final size:31
Alignment explanation
Indices: 90195685--90195747 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
90195675 CCTTTTCATG
90195685 TTTCATA-TTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
90195715 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
90195746 TT
1 TT
90195748 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.37
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:90196003 original size:24 final size:24
Alignment explanation
Indices: 90195939--90196080 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
90195929 GCTTTATCAT
*
90195939 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
90195964 ATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
90195987 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
90196010 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
90196034 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
90196058 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
90196081 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 3, Indels: 7
0.92 0.02 0.06
Matches are distributed among these distances:
23 40 0.36
24 63 0.57
25 8 0.07
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:90196028 original size:47 final size:48
Alignment explanation
Indices: 90195939--90196079 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
90195929 GCTTTATCAT
*
90195939 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
90195987 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
90196034 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
90196080 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 12 0.14
47 41 0.47
48 34 0.39
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:90196054 original size:71 final size:71
Alignment explanation
Indices: 90195938--90196080 Score: 218
Period size: 71 Copynumber: 2.0 Consensus size: 71
90195928 TGCTTTATCA
*
90195938 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
90196003 CCCTTT
66 CCCTTT
* **
90196009 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCA-AAGCCCTTTCAATAACTGGGGCATA
90196072 AGCCCTTT
64 AGCCCTTT
90196080 T
1 T
90196081 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
70 21 0.32
71 45 0.68
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:90196161 original size:11 final size:11
Alignment explanation
Indices: 90196131--90196184 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
90196121 TATGATTACC
90196131 TCATGTGCATA
1 TCATGTGCATA
*
90196142 TCA--TACATA
1 TCATGTGCATA
90196151 TCATGTGCATA
1 TCATGTGCATA
*
90196162 TCA--TACAT-
1 TCATGTGCATA
90196170 TCATGTGCATA
1 TCATGTGCATA
90196181 TCAT
1 TCAT
90196185 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:90196175 original size:19 final size:20
Alignment explanation
Indices: 90196131--90196189 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
90196121 TATGATTACC
90196131 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
90196151 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
90196170 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
90196190 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:90200579 original size:43 final size:43
Alignment explanation
Indices: 90200531--90200618 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
90200521 TATCCTTATA
*
90200531 CATTCTTCAACAAGCTTATGCTCGCCTTGAGAAGTGATAGTAG
1 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
90200574 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
1 CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
90200617 CA
1 CA
90200619 GGGAAAGTAG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
CATTCTTCAACAAGCTTATGCTCACCTTGAGAAGTGATAGTAG
Found at i:90202535 original size:54 final size:54
Alignment explanation
Indices: 90202467--90202656 Score: 166
Period size: 54 Copynumber: 3.5 Consensus size: 54
90202457 ATTGTCATGT
* * *
90202467 CTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCATTTGCAATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCA-ATGCAATGC
* * * * * ** * *
90202521 CTTGGCATGGTCTTACATGGGATCTTTACCTTATCGTAGTTTATCAATGCCATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATAG-AACTTACCAATGCAATGC
* * * * **
90202576 CTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAATGTTATGC
1 CTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCAATGC
* * *
90202630 TTTGGCATGGTCTTACCTGGTATCCTT
1 CTTGACATGGTCTTACATGGTATCCTT
90202657 AAACCCTAAT
Statistics
Matches: 104, Mismatches: 30, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
54 64 0.62
55 35 0.34
56 5 0.05
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.38
Consensus pattern (54 bp):
CTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTTACCAATGCAATGC
Found at i:90206618 original size:40 final size:39
Alignment explanation
Indices: 90206574--90206688 Score: 149
Period size: 39 Copynumber: 2.9 Consensus size: 39
90206564 AAGTGACTAT
* *
90206574 ATCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAA
1 ATCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAA
* * *
90206614 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
* *
90206653 ACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA
1 ATCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGTTA
90206689 CTATAACCAG
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
39 33 0.51
40 32 0.49
ACGTcount: A:0.26, C:0.23, G:0.29, T:0.23
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
Found at i:90206643 original size:39 final size:40
Alignment explanation
Indices: 90206535--90206691 Score: 165
Period size: 40 Copynumber: 4.0 Consensus size: 40
90206525 TTGAATGATG
** * * * *
90206535 TCCGGGCTAATTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGACCCGAAGGCATTCGTGC-GAGTTACTAAA
* * * *
90206575 TCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAATAAA
1 TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTAAA
*
90206615 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
90206654 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTA
1 TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTA
90206692 TAACCAGGCT
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
39 33 0.34
40 59 0.60
41 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:90206674 original size:79 final size:80
Alignment explanation
Indices: 90206535--90206688 Score: 197
Period size: 79 Copynumber: 1.9 Consensus size: 80
90206525 TTGAATGATG
* * * *
90206535 TCCGGGCTAATTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTTC
1 TCCGGGCTAATGCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
90206600 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* * **
90206615 TCCGGGCTAA-GCCCGAAGGCATTTGTGC-GAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAATGCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
90206677 TCGTGCGAGTTA
64 TCGTGCGAGTTA
90206689 CTATAACCAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 1 0.02
79 46 0.72
80 17 0.27
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAATGCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:90206689 original size:40 final size:39
Alignment explanation
Indices: 90206588--90206696 Score: 155
Period size: 39 Copynumber: 2.7 Consensus size: 39
90206578 GGACTAAGAT
* * *
90206588 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGCTAAGC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGC
* *
90206627 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAG-C
90206667 CCGAAGGCATTCGTGCGAGTTACTATAACC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACC
90206697 AGGCTTTGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
39 33 0.53
40 25 0.40
41 4 0.06
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCCGGGCTAAGC
Found at i:90206713 original size:40 final size:39
Alignment explanation
Indices: 90206588--90206726 Score: 145
Period size: 40 Copynumber: 3.5 Consensus size: 39
90206578 GGACTAAGAT
* * * *
90206588 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTACTAAA-CCAGGCTTAGTC
* * *
90206627 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTACTAAACCAGGCTT-AGTC
*
90206667 CCGAAGGCATTCGTGCGAGTTACTATAACCAGGCTTTGTC
1 CCGAAGGCATTCGTGCGAGTTACTA-AACCAGGCTTAGTC
* * *
90206707 CGGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
90206727 CGTTATATCC
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
38 5 0.06
39 26 0.31
40 45 0.54
41 8 0.10
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGTTACTAAACCAGGCTTAGTC
Found at i:90206741 original size:79 final size:77
Alignment explanation
Indices: 90206547--90206752 Score: 173
Period size: 79 Copynumber: 2.6 Consensus size: 77
90206537 CGGGCTAATT
* * * * *
90206547 CCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCGTTCGTGCGAGTTAA
1 CCCGAAGGCATTTGAGC-GAGTCACTATATCCGG-TTAAG-TCCGAAGGCATTCGTGCGAGTTAA
*
90206611 TAAATCCGGGCTAAG
63 TAAATCCAGGCTAAG
* * * * *
90206626 CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACT
1 CCCGAAGGCATTTGAGCGAGTCACTATATCC-GGTTAAGT-CCGAAGGCATTCGTGCGAGTTAAT
**
90206691 ATAA-CCAGGCTTTG
64 A-AATCCAGGCTAAG
* ** *
90206705 TCCGGAAGGCATTTGAGCGAGTCGTTATATCCGGTTAAATTCCGAAGG
1 -CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTT-AAGTCCGAAGG
90206753 TACGTGATTC
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
78 1 0.01
79 64 0.62
80 38 0.37
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (77 bp):
CCCGAAGGCATTTGAGCGAGTCACTATATCCGGTTAAGTCCGAAGGCATTCGTGCGAGTTAATAA
ATCCAGGCTAAG
Found at i:90207863 original size:29 final size:29
Alignment explanation
Indices: 90207830--90207961 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
90207820 GTGACGAGAT
*
90207830 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
90207859 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
90207888 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
90207917 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
90207946 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
90207962 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:90215068 original size:29 final size:29
Alignment explanation
Indices: 90215035--90215136 Score: 159
Period size: 29 Copynumber: 3.5 Consensus size: 29
90215025 GTGACGAGAT
90215035 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
90215064 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
90215093 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* *
90215122 TGACACTATGTGTGC
1 TGGCACTAAGTGTGC
90215137 AAGCTGGCAC
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 67 1.00
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:90216688 original size:80 final size:80
Alignment explanation
Indices: 90216604--90216752 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90216594 TATGGTAACC
* * * *
90216604 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90216668 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90216684 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90216749 CCGG
66 CCGG
90216753 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90216694 original size:40 final size:38
Alignment explanation
Indices: 90216645--90216752 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90216635 ATCACGATTT
*
90216645 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90216685 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90216725 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90216753 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90224775 original size:80 final size:80
Alignment explanation
Indices: 90224691--90224839 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90224681 TATGGTAACC
* * * *
90224691 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90224755 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90224771 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90224836 CCGG
66 CCGG
90224840 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90224781 original size:40 final size:38
Alignment explanation
Indices: 90224732--90224839 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90224722 ATCACGATTT
*
90224732 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90224772 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90224812 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90224840 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90239338 original size:40 final size:40
Alignment explanation
Indices: 90239230--90239338 Score: 139
Period size: 39 Copynumber: 2.8 Consensus size: 40
90239220 ATTGAATGAT
* * * * *
90239230 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
90239270 ATCCGGGTTAAGA-CCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
90239309 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
90239339 AAATTGTGAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.55
40 26 0.45
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:90246616 original size:29 final size:29
Alignment explanation
Indices: 90246556--90246644 Score: 119
Period size: 29 Copynumber: 3.1 Consensus size: 29
90246546 ACATACCAGC
*
90246556 ATATGGCCCA-CGAGGT-CTAATCACATTT
1 ATATGGCCCATC-AGGTCCAAATCACATTT
*
90246584 ATATGGCCCATTAGGTCCAAATCACATTT
1 ATATGGCCCATCAGGTCCAAATCACATTT
* *
90246613 ATATGGCCCATCAGGCCCAATTCACATTT
1 ATATGGCCCATCAGGTCCAAATCACATTT
90246642 ATA
1 ATA
90246645 GTCATGCTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
28 14 0.26
29 40 0.74
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (29 bp):
ATATGGCCCATCAGGTCCAAATCACATTT
Found at i:90246881 original size:16 final size:16
Alignment explanation
Indices: 90246860--90246898 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
90246850 TCAAACTTTG
*
90246860 GGCTTTTCGGCATTTT
1 GGCTTTTCGGCATTTC
*
90246876 GGCTTTTCGTCATTTC
1 GGCTTTTCGGCATTTC
90246892 GGCTTTT
1 GGCTTTT
90246899 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.05, C:0.21, G:0.23, T:0.51
Consensus pattern (16 bp):
GGCTTTTCGGCATTTC
Found at i:90247661 original size:4 final size:4
Alignment explanation
Indices: 90247652--90247681 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
90247642 TATTTATACT
90247652 AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AA
90247682 ATACACTTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:90250684 original size:40 final size:40
Alignment explanation
Indices: 90250625--90250832 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
90250615 CAATTGAATG
* * * *
90250625 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
90250665 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
90250705 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
90250745 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
90250785 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
90250825 ATATCCGG
1 ATATCCGG
90250833 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:90250763 original size:80 final size:80
Alignment explanation
Indices: 90250627--90250832 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
90250617 ATTGAATGAT
* * ** * * *
90250627 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
90250691 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
90250707 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
90250772 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
90250787 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
90250833 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:90258735 original size:40 final size:40
Alignment explanation
Indices: 90258676--90258883 Score: 202
Period size: 40 Copynumber: 5.2 Consensus size: 40
90258666 CAATTGAATG
* * * *
90258676 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
90258716 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
90258756 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
90258796 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
90258836 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
90258876 ATATCCGG
1 ATATCCGG
90258884 TTGTATTCCG
Statistics
Matches: 140, Mismatches: 26, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:90258814 original size:80 final size:80
Alignment explanation
Indices: 90258678--90258883 Score: 236
Period size: 80 Copynumber: 2.6 Consensus size: 80
90258668 ATTGAATGAT
* * ** * * *
90258678 ATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA-
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CAT
*
90258742 TTGTGCTAGT-GACCAC
65 TTGTGCAAGTCGACC-C
* * *
90258758 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGCATT
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
** *
90258823 TGTGCAAGTCGTTCT
66 TGTGCAAGTCGACCC
* *
90258838 ATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
90258884 TTGTATTCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (80 bp):
ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCATT
TGTGCAAGTCGACCC
Found at i:90260677 original size:19 final size:19
Alignment explanation
Indices: 90260653--90260689 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
90260643 CTTGTCAGAC
90260653 GAAAATAAGAA-AAAAATTA
1 GAAAATAA-AATAAAAATTA
90260672 GAAAATAAAATAAAAATT
1 GAAAATAAAATAAAAATT
90260690 TAAATTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (19 bp):
GAAAATAAAATAAAAATTA
Found at i:90265793 original size:49 final size:46
Alignment explanation
Indices: 90265658--90265882 Score: 145
Period size: 49 Copynumber: 4.7 Consensus size: 46
90265648 ATGTCGACGC
* ** *
90265658 CATGTCCCAAACATGGTCTTACACTAGCTAGTAC-AT-TAAAGTCAATG
1 CATGTCCCAAACA-GGTCTTACACTAGCT-CT-CTATATCGAGGCAATG
* ** *
90265705 CTGTGTCCCAGGCAGGTCTTACACT-GACTTTCGTATATCGAGGCCAATG
1 C-ATGTCCCAAACAGGTCTTACACTAG-CTCTC-TATATCGAGG-CAATG
* *
90265754 TCATGTCCCAAACAGGTCTTACACTAGCTCTCATCTATCG-GTGTAGATG
1 -CATGTCCCAAACAGGTCTTACACTAGCTCTC-TATATCGAG-GCA-ATG
*
90265803 CCATGTCCCAAACAGGTCTTACACTAGCT-TCTATATCCCGAGGTCGATG
1 -CATGTCCCAAACAGGTCTTACACTAGCTCTCTATAT--CGAGG-CAATG
* * * *
90265852 CATGTCCTAGACATGTTTTACACTAGCTCTC
1 CATGTCCCAAACAGGTCTTACACTAGCTCTC
90265883 GTCTCAATGC
Statistics
Matches: 141, Mismatches: 22, Indels: 28
0.74 0.12 0.15
Matches are distributed among these distances:
45 1 0.01
46 2 0.01
47 20 0.14
48 40 0.28
49 75 0.53
50 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (46 bp):
CATGTCCCAAACAGGTCTTACACTAGCTCTCTATATCGAGGCAATG
Found at i:90265908 original size:46 final size:46
Alignment explanation
Indices: 90265847--90265977 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 46
90265837 ATCCCGAGGT
* * *
90265847 CGATGCATGTCCTAGACATGTTTTACACTAGCTCTCGT-CTCAAT-GC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAAT--ATGGC
* * *
90265893 CGATACATGTCCTAGACATGTCTTCCACTGGCTCTCATAATATGGC
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAATATGGC
* * *
90265939 TGATGCATGTCCCAGACATGTCTTACACTAGCTCACATA
1 CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATA
90265978 CCACCCAATG
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
45 2 0.03
46 68 0.96
47 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (46 bp):
CGATGCATGTCCTAGACATGTCTTACACTAGCTCTCATAATATGGC
Found at i:90275529 original size:80 final size:80
Alignment explanation
Indices: 90275445--90275593 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90275435 TATGGTAACC
* * * *
90275445 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90275509 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90275525 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90275590 CCGG
66 CCGG
90275594 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90275535 original size:40 final size:38
Alignment explanation
Indices: 90275486--90275593 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90275476 ATCACGATTT
*
90275486 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90275526 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90275566 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90275594 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90283645 original size:80 final size:80
Alignment explanation
Indices: 90283561--90283709 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
90283551 TATGGTAACC
* * * *
90283561 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
90283625 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
90283641 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
90283706 CCGG
66 CCGG
90283710 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:90283651 original size:40 final size:38
Alignment explanation
Indices: 90283602--90283709 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
90283592 ATCACGATTT
*
90283602 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
90283642 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
90283682 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
90283710 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:90288371 original size:42 final size:42
Alignment explanation
Indices: 90288312--90288397 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
90288302 TTCAATATCG
*
90288312 TTCCAAAATCATTTTCATTGCTAGAACTTACTCATGTCATTC
1 TTCCAAAATCATTTTCATTGCTAGAACTTAATCATGTCATTC
*
90288354 TTCCAAGATCATTTTCATTGCTAGAACTTAATCATGTCATTC
1 TTCCAAAATCATTTTCATTGCTAGAACTTAATCATGTCATTC
90288396 TT
1 TT
90288398 ACCATCAAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.22, G:0.08, T:0.42
Consensus pattern (42 bp):
TTCCAAAATCATTTTCATTGCTAGAACTTAATCATGTCATTC
Found at i:90292518 original size:50 final size:50
Alignment explanation
Indices: 90292459--90292693 Score: 208
Period size: 50 Copynumber: 4.7 Consensus size: 50
90292449 ATCATGTGTT
* * *
90292459 TAGTACTAAGTACAGGCTACTACGTGTACCAGATATTTAGGTCGCTTGTA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCACTTGTG
* * * * * * * *
90292509 TAGTACTAAGTGCAGGCAACTATGCGTACCTGACAACTTCA-ATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TA-TTTAGGTCACTTGTG
* * * **
90292560 TAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAGGTCACTTGTG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCACTTGTG
* * * *
90292610 TAGTACTAAGTGCAGGCCACTACATGTACC-GA-ATTGTTGGTCGCATT-TG
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATATT-TAGGTCAC-TTGTG
* *
90292659 TAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
90292694 GCTTCGGTTA
Statistics
Matches: 143, Mismatches: 35, Indels: 13
0.75 0.18 0.07
Matches are distributed among these distances:
48 1 0.01
49 38 0.27
50 67 0.47
51 34 0.24
52 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (50 bp):
TAGTACTAAGTGCAGGCTACTACGTGTACCAGATATTTAGGTCACTTGTG
Found at i:90292593 original size:101 final size:101
Alignment explanation
Indices: 90292449--90292631 Score: 267
Period size: 101 Copynumber: 1.8 Consensus size: 101
90292439 ATGGTTTTAG
* * * * * *
90292449 ATCATGTGTTTAGTACTAAGTACAGGCTACTACGTGTACCAGATATTTAGGTCGCTTGTATAGTA
1 ATCACGTGTGTAGTACTAAGTACAAGCTACTACATGTACCAGATAGTTAGGTCACTTGTATAGTA
90292514 CTAAGTGCAGGCAACTATGCGTACCTGACAACTTCA
66 CTAAGTGCAGGCAACTATGCGTACCTGACAACTTCA
* * * *
90292550 ATCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAGGTCACTTGTGTAGTA
1 ATCACGTGTGTAGTACTAAGTACAAGCTACTACATGTACCAGATAGTTAGGTCACTTGTATAGTA
*
90292615 CTAAGTGCAGGCCACTA
66 CTAAGTGCAGGCAACTA
90292632 CATGTACCGA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.30
Consensus pattern (101 bp):
ATCACGTGTGTAGTACTAAGTACAAGCTACTACATGTACCAGATAGTTAGGTCACTTGTATAGTA
CTAAGTGCAGGCAACTATGCGTACCTGACAACTTCA
Found at i:90292673 original size:49 final size:50
Alignment explanation
Indices: 90292403--90292680 Score: 192
Period size: 50 Copynumber: 5.5 Consensus size: 50
90292393 TGAGAACACA
* * * *
90292403 TGTGTAGTACTATGTGCAGGCTACTATATGCTTA--ATATGGTTTTAGATCA-T
1 TGTGTAGTACTAAGTGCAGGCTACTACATG--TACCAGATGG--TTAGGTCACT
* * * ** *
90292454 GTGTTTAGTACTAAGTACAGGCTACTACGTGTACCAGATATTTAGGTCGCT
1 -TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACT
* * *** * *** * *
90292505 TGTATAGTACTAAGTGCAGGCAACTATGCGTACCTGACAACTTCA-ATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGA-TGGTT-AGGTCACT
* *
90292556 TGTGTAGTACTAAGTGCAAGCTACTACATGTATCAGATGGTTAGGTCACT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACT
* * *
90292606 TGTGTAGTACTAAGTGCAGGCCACTACATGTACC-GAATTGTT-GGTCGCAT
1 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAG-ATGGTTAGGTCAC-T
90292656 T-TGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
90292681 TGCGTACCAG
Statistics
Matches: 178, Mismatches: 40, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
49 30 0.17
50 83 0.47
51 36 0.20
52 29 0.16
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACT
Found at i:90294970 original size:28 final size:29
Alignment explanation
Indices: 90294903--90295003 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
90294893 ATAGTGAATC
*
90294903 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
90294932 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
90294960 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
90294990 CGCACACTTAGTGC
1 CGCACACTTAGTGC
90295004 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:90296904 original size:20 final size:20
Alignment explanation
Indices: 90296879--90296935 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
90296869 TTATGAATAC
90296879 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
90296899 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
90296919 ATCATGTGCATATCATA
1 ATCATGTGCATATCATA
90296936 TCATTATTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:90296910 original size:11 final size:11
Alignment explanation
Indices: 90296879--90296934 Score: 66
Period size: 11 Copynumber: 5.5 Consensus size: 11
90296869 TTATGAATAC
90296879 ATCATGTGCAT
1 ATCATGTGCAT
*
90296890 ATCA--TACAT
1 ATCATGTGCAT
90296899 ATCATGTGCAT
1 ATCATGTGCAT
*
90296910 ATC--GTACAT
1 ATCATGTGCAT
90296919 ATCATGTGCAT
1 ATCATGTGCAT
90296930 ATCAT
1 ATCAT
90296935 ATCATTATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 16 0.43
11 21 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:90300731 original size:17 final size:17
Alignment explanation
Indices: 90300711--90300745 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
90300701 TCCCAAAAGC
90300711 ACAAAAATTATCAAGAA
1 ACAAAAATTATCAAGAA
90300728 ACAAAAATTATCAAGAA
1 ACAAAAATTATCAAGAA
90300745 A
1 A
90300746 AGTCATCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.11, G:0.06, T:0.17
Consensus pattern (17 bp):
ACAAAAATTATCAAGAA
Found at i:90301692 original size:23 final size:24
Alignment explanation
Indices: 90301654--90301701 Score: 80
Period size: 23 Copynumber: 2.0 Consensus size: 24
90301644 CTAATTTGTG
*
90301654 AGTAAAATTTTTTAGTACTAAAGT
1 AGTAAAATTTTTTAGTACAAAAGT
90301678 AGTAAAA-TTTTTAGTACAAAAGT
1 AGTAAAATTTTTTAGTACAAAAGT
90301701 A
1 A
90301702 TTCTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (24 bp):
AGTAAAATTTTTTAGTACAAAAGT
Found at i:90301753 original size:21 final size:21
Alignment explanation
Indices: 90301714--90301766 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
90301704 CTTTCTTTTT
*
90301714 TATGATATATATTTAATTTGAGA
1 TATGATAT-TATTTAATTT-AAA
90301737 TATGATATTATTT-ATTTAAA
1 TATGATATTATTTAATTTAAA
90301757 TCATGATATT
1 T-ATGATATT
90301767 GGTAATCAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 12 0.43
22 5 0.18
23 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (21 bp):
TATGATATTATTTAATTTAAA
Found at i:90305156 original size:24 final size:24
Alignment explanation
Indices: 90305129--90305219 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
90305119 GCTGGAAATA
90305129 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
90305153 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
90305177 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
90305201 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
90305220 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:90305233 original size:48 final size:48
Alignment explanation
Indices: 90305128--90305241 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
90305118 TGCTGGAAAT
* * **
90305128 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
90305176 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
90305225 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
90305242 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:90313013 original size:24 final size:24
Alignment explanation
Indices: 90312986--90313076 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
90312976 GCTGGAAATA
90312986 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
90313010 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
90313034 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
90313058 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
90313077 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:90313090 original size:48 final size:48
Alignment explanation
Indices: 90312985--90313098 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
90312975 TGCTGGAAAT
* * **
90312985 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
90313033 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
90313082 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
90313099 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:90320870 original size:24 final size:24
Alignment explanation
Indices: 90320843--90320933 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
90320833 GCTGGAAATA
90320843 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
90320867 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
90320891 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
90320915 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
90320934 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:90320947 original size:48 final size:48
Alignment explanation
Indices: 90320842--90320955 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
90320832 TGCTGGAAAT
* * **
90320842 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
90320890 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
90320939 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
90320956 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:90328726 original size:24 final size:24
Alignment explanation
Indices: 90328699--90328789 Score: 164
Period size: 24 Copynumber: 3.8 Consensus size: 24
90328689 GCTGGAAATA
90328699 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
90328723 TATGGCACTATGTGTGCGATTTAC
1 TATGGCACTATGTGTGCGATTTAC
**
90328747 TATGGCACTATGTGTGCGATTCGC
1 TATGGCACTATGTGTGCGATTTAC
90328771 TATGGCACTATGTGTGCGA
1 TATGGCACTATGTGTGCGA
90328790 ACATAATAAG
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (24 bp):
TATGGCACTATGTGTGCGATTTAC
Found at i:90328803 original size:48 final size:48
Alignment explanation
Indices: 90328698--90328811 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
90328688 TGCTGGAAAT
* * **
90328698 ATATGGCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGATTTA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
* * *
90328746 CTATGGCACTATGTGTGCGATTCGCTATGGCACTATGTGTGCGAACATA
1 ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCG-ACATA
90328795 ATA-AGCACTATGTGTGC
1 ATATAGCACTATGTGTGC
90328812 CACATTCGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
48 53 0.91
49 5 0.09
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (48 bp):
ATATAGCACTATGTGTGCGATTCACTATGGCACTATGTGTGCGACATA
Found at i:90332704 original size:23 final size:22
Alignment explanation
Indices: 90332658--90332704 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
90332648 TCATAGTGAC
* *
90332658 AAGTTATGTCTCTTATTACCAA
1 AAGTTATGTCACTTATTAACAA
*
90332680 AAGTTATGTCACTTAATTAATAA
1 AAGTTATGTCACTT-ATTAACAA
90332703 AA
1 AA
90332705 AAGGGTCATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (22 bp):
AAGTTATGTCACTTATTAACAA
Found at i:90336715 original size:40 final size:40
Alignment explanation
Indices: 90336658--90336843 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
90336648 TCGAATGATG
* * * *
90336658 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
90336698 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
90336738 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
90336778 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
90336819 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
90336844 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90336850 original size:80 final size:79
Alignment explanation
Indices: 90336711--90336866 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
90336701 GGACTAAGAT
* **
90336711 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
90336775 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
90336791 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
90336854 TATATCCGGTTAA
64 TAAATCCGGTTAA
90336867 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:90344775 original size:40 final size:40
Alignment explanation
Indices: 90344718--90344903 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
90344708 TCGAATGATG
* * * *
90344718 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
90344758 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
90344798 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
90344838 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
90344879 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
90344904 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 121 0.92
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:90350176 original size:25 final size:25
Alignment explanation
Indices: 90350148--90350196 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
90350138 CCAGAGGACC
* *
90350148 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
90350173 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
90350197 AATAATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:90352808 original size:24 final size:24
Alignment explanation
Indices: 90352775--90352833 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
90352765 AAGTGAAAGT
*
90352775 CTGATAAGGGATTGGATTTAGGAG
1 CTGATAAGGGATAGGATTTAGGAG
*
90352799 TTGATAAGGGATAGGATTTAGGAG
1 CTGATAAGGGATAGGATTTAGGAG
*
90352823 CAGATAAGGGA
1 CTGATAAGGGA
90352834 GGAAATCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.37, T:0.25
Consensus pattern (24 bp):
CTGATAAGGGATAGGATTTAGGAG
Found at i:90354293 original size:27 final size:26
Alignment explanation
Indices: 90354229--90354339 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
90354219 AGGAAGCGTC
* *
90354229 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
90354256 -TGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
90354282 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
90354310 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
90354336 CTGG
1 CTGG
90354340 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
25 2 0.03
26 25 0.34
27 30 0.41
28 17 0.23
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:90355393 original size:11 final size:10
Alignment explanation
Indices: 90355365--90355398 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
90355355 AGCCTGTAAG
90355365 TATTCTGAAT
1 TATTCTGAAT
*
90355375 TTTTCTGAAT
1 TATTCTGAAT
90355385 ATATTCTGAAT
1 -TATTCTGAAT
90355396 TAT
1 TAT
90355399 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:90360638 original size:24 final size:24
Alignment explanation
Indices: 90360561--90360631 Score: 124
Period size: 24 Copynumber: 3.0 Consensus size: 24
90360551 AGTGAAAGTC
*
90360561 TGATAAGGGATAGGACTTAGGAGT
1 TGATAAGGGATAGGATTTAGGAGT
90360585 TGATAAGGGATAGGATTTAGGAGT
1 TGATAAGGGATAGGATTTAGGAGT
*
90360609 TGATAAAGGATAGGATTTAGGAG
1 TGATAAGGGATAGGATTTAGGAG
90360632 CAAATAAGGG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.35, C:0.01, G:0.37, T:0.27
Consensus pattern (24 bp):
TGATAAGGGATAGGATTTAGGAGT
Found at i:90362097 original size:27 final size:27
Alignment explanation
Indices: 90362057--90362140 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
90362047 AGGAAGCGTC
*
90362057 CTGGTGGCTATGCCACAATTATCTGATT
1 CTGGTGGCTCTGCCACAATTATCTG-TT
90362085 -TGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGTT
* *
90362111 CTGGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGTT
90362137 CTGG
1 CTGG
90362141 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 3 0.06
26 12 0.24
27 32 0.64
28 3 0.06
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGTT
Found at i:90365740 original size:14 final size:14
Alignment explanation
Indices: 90365721--90365759 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
90365711 TTGTTTCACT
90365721 GAAAATGATTTTCG
1 GAAAATGATTTTCG
*
90365735 GAAAATGATTTTTG
1 GAAAATGATTTTCG
90365749 GAAAATGATTT
1 GAAAATGATTT
90365760 ACTTTTCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (14 bp):
GAAAATGATTTTCG
Found at i:90366232 original size:15 final size:15
Alignment explanation
Indices: 90366212--90366263 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
90366202 ACTACAAAAC
90366212 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
90366227 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
90366246 ATTTATTATTAACAT
1 ATTTATTATTAATAT
90366261 ATT
1 ATT
90366264 CAATATTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:90366328 original size:16 final size:16
Alignment explanation
Indices: 90366297--90366333 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
90366287 ATGTCAACAA
90366297 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
90366313 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
90366329 TATTA
1 TATTA
90366334 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:90366391 original size:20 final size:20
Alignment explanation
Indices: 90366345--90366399 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
90366335 AATAAAATTG
* *
90366345 AAATATTAAATAATTTATTA
1 AAATAATAAATTATTTATTA
90366365 AAATAATAAATTATTTATTA
1 AAATAATAAATTATTTATTA
* * *
90366385 TATTAATAATTTATT
1 AAATAATAAATTATT
90366400 ATAAGACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAATAATAAATTATTTATTA
Found at i:90367954 original size:46 final size:44
Alignment explanation
Indices: 90367884--90368014 Score: 156
Period size: 46 Copynumber: 2.9 Consensus size: 44
90367874 ATCCCGAGGC
* *
90367884 CGATGTATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTG
* *
90367930 CGATGCATGTCCCAGACATTTCTTACACTGGCTCTCATAATGTGG
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGT-G
* *
90367975 CCGACGCATGTCCCAGACATGTCTTACACTAGCTCACATA
1 -CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATA
90368015 CCACCTAATT
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
43 5 0.07
44 1 0.01
46 68 0.92
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
Found at i:90368697 original size:20 final size:18
Alignment explanation
Indices: 90368660--90368710 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
90368650 CTATAGCAAC
90368660 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
90368677 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
90368697 TTACAACTTTACAA
1 TCACAA-TTTACAA
90368711 AATAGCCCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 4 0.14
20 16 0.55
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:90371088 original size:35 final size:35
Alignment explanation
Indices: 90370982--90371144 Score: 157
Period size: 35 Copynumber: 4.6 Consensus size: 35
90370972 CACATCGTAG
* * *
90370982 GTCCAACC-ATAACACATCAGATGCTCATACGAGCAA
1 GTCCAACCGA-AACACACCA-ATGCTCATAAGAGCTA
* ** * * * *
90371018 ATCCTTCCAAAACACATCAAATGCTCACAAAAGCTA
1 GTCCAACCGAAACACA-CCAATGCTCATAAGAGCTA
*
90371054 GTCCAACCGTAACACACCAATGCTCATAAGAGCTA
1 GTCCAACCGAAACACACCAATGCTCATAAGAGCTA
** *
90371089 GTCCAATTGAAACACGCCAATGCTCATAAGAGCTA
1 GTCCAACCGAAACACACCAATGCTCATAAGAGCTA
*
90371124 GTCCAACTGAAACACACCAAT
1 GTCCAACCGAAACACACCAAT
90371145 AGAGAGTATA
Statistics
Matches: 102, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
35 66 0.65
36 34 0.33
37 2 0.02
ACGTcount: A:0.40, C:0.30, G:0.12, T:0.18
Consensus pattern (35 bp):
GTCCAACCGAAACACACCAATGCTCATAAGAGCTA
Found at i:90373473 original size:12 final size:13
Alignment explanation
Indices: 90373452--90373486 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
90373442 GCATTTTGTG
90373452 AAAAAT-AAAAT-
1 AAAAATAAAAATA
90373463 AAAAATAAAAATA
1 AAAAATAAAAATA
90373476 AAAAATAAAAA
1 AAAAATAAAAA
90373487 AACACACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.27
12 5 0.23
13 11 0.50
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:90373487 original size:7 final size:6
Alignment explanation
Indices: 90373452--90373486 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
90373442 GCATTTTGTG
90373452 AAAAAT -AAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
90373487 AACACACAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:90383033 original size:63 final size:62
Alignment explanation
Indices: 90382934--90383051 Score: 218
Period size: 63 Copynumber: 1.9 Consensus size: 62
90382924 TCAGGTGTCT
90382934 CAACTCCAGTGGGGGTACTGAAGTCAAAAAGGAAAAAATTAGTCATCAATAAAATAATTGATA
1 CAACTCCAGTGGGGGTACTGAAGTCAAAAAGG-AAAAATTAGTCATCAATAAAATAATTGATA
*
90382997 CAACTCCAGTGGGGGTACTGAAGTCAAAAGGGAAAAATTAGTCATCAATAAAATA
1 CAACTCCAGTGGGGGTACTGAAGTCAAAAAGGAAAAATTAGTCATCAATAAAATA
90383052 GTTAATACTC
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
62 23 0.43
63 31 0.57
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.21
Consensus pattern (62 bp):
CAACTCCAGTGGGGGTACTGAAGTCAAAAAGGAAAAATTAGTCATCAATAAAATAATTGATA
Found at i:90383259 original size:6 final size:6
Alignment explanation
Indices: 90383248--90383295 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
90383238 CTTCAATCTG
* *
90383248 CTCTTC CTCTTC CTCTTC TTCTTCTTC CTCCTC CTCCTC CTCTTC CTC
1 CTCTTC CTCTTC CTCTTC --C-TCTTC CTCTTC CTCTTC CTCTTC CTC
90383296 CAAATCACCC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
6 30 0.81
7 1 0.03
8 1 0.03
9 5 0.14
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (6 bp):
CTCTTC
Found at i:90389592 original size:17 final size:17
Alignment explanation
Indices: 90389572--90389606 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
90389562 CATAAAATTA
90389572 AATTAAAA-ATAATTAAT
1 AATTAAAATATAA-TAAT
90389589 AATTAAAATATAATAAT
1 AATTAAAATATAATAAT
90389606 A
1 A
90389607 TCTAACAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AATTAAAATATAATAAT
Found at i:90391338 original size:16 final size:16
Alignment explanation
Indices: 90391301--90391353 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
90391291 AGATGAATAT
*
90391301 AATAAATTAAATAACTAA
1 AATAAA-TAAACAAC-AA
90391319 AATAAATAAACAACAA
1 AATAAATAAACAACAA
* *
90391335 AATAAACAAACAACTA
1 AATAAATAAACAACAA
90391351 AAT
1 AAT
90391354 CGATTAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
16 19 0.59
17 7 0.22
18 6 0.19
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (16 bp):
AATAAATAAACAACAA
Found at i:90393053 original size:68 final size:68
Alignment explanation
Indices: 90392981--90393156 Score: 175
Period size: 68 Copynumber: 2.6 Consensus size: 68
90392971 CATCATGTGT
** * * *
90392981 ACAAGAGAGCTACGAGACACTATGTAGTAGCTAGGTCACATGTGTGA-T-ACGGGATGTATC-CC
1 ACAAGAGAGCTACGAGACA-TAAAT-GTAGCTAGGTCACATGTGTGATTCAAGGGAAGGA-CACC
90393043 ATGTAG
63 ATGTAG
* * *
90393049 ACAAGAGAGCTACGGGAGAGATAAATGTAGCTAGGTCGCATGTGTGATTCCAAGTGAAGGACACC
1 ACAAGAGAGCTAC--GAGACATAAATGTAGCTAGGTCACATGTGTGATT-CAAGGGAAGGACACC
90393114 ATGTAG
63 ATGTAG
*
90393120 ACAAGAGAGCTACGAG--ATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGAGACATAAATGTAGCTAGGTCACATG
90393157 GGTGGTACTA
Statistics
Matches: 92, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
66 13 0.14
67 6 0.07
68 33 0.36
69 7 0.08
70 6 0.07
71 27 0.29
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.21
Consensus pattern (68 bp):
ACAAGAGAGCTACGAGACATAAATGTAGCTAGGTCACATGTGTGATTCAAGGGAAGGACACCATG
TAG
Found at i:90401812 original size:30 final size:28
Alignment explanation
Indices: 90401772--90401872 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
90401762 GACAAGATTG
* * *
90401772 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
90401802 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
90401830 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
90401859 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90401873 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:90401836 original size:28 final size:29
Alignment explanation
Indices: 90401801--90401872 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
90401791 AAAATTGTAC
*
90401801 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
90401829 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
90401858 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
90401873 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:90409804 original size:30 final size:28
Alignment explanation
Indices: 90409764--90409864 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
90409754 GACAAGATTG
* * *
90409764 GCACTGAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--AATTATACA
* *
90409794 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAATTATACA
* * *
90409822 GCACTAAGTGTGCGAGCTGAATATATATA
1 GCACTAAGTGTGCGAGTTTAAT-TATACA
90409851 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
90409865 GATTCACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 25 0.40
29 20 0.32
30 17 0.27
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTAATTATACA
Found at i:90409828 original size:28 final size:29
Alignment explanation
Indices: 90409793--90409864 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
90409783 AAAATTGTAC
*
90409793 AGCACTAAGTGTGCGAGTTTG-AT-TATAT
1 AGCACTAAGTGTGCGAG-CTGAATATATAT
90409821 AGCACTAAGTGTGCGAGCTGAATATATAT
1 AGCACTAAGTGTGCGAGCTGAATATATAT
90409850 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
90409865 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAATATATAT
Found at i:90411770 original size:28 final size:28
Alignment explanation
Indices: 90411709--90411806 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
90411699 TCACAAATTG
** * *
90411709 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
90411738 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
90411766 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
90411794 GCACTAAGTGTGC
1 GCACTAAGTGTGC
90411807 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:90420645 original size:25 final size:25
Alignment explanation
Indices: 90420608--90420656 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
90420598 ATAACACTTC
90420608 ACATACTTATGTTGTTACAAGAATT
1 ACATACTTATGTTGTTACAAGAATT
*
90420633 ACATACTTGTGTTGTTACAAGAAT
1 ACATACTTATGTTGTTACAAGAAT
90420657 AATGGTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (25 bp):
ACATACTTATGTTGTTACAAGAATT
Found at i:90422250 original size:40 final size:40
Alignment explanation
Indices: 90422213--90422355 Score: 223
Period size: 40 Copynumber: 3.6 Consensus size: 40
90422203 CAAGCACAAT
* *** * *
90422213 TGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
*
90422253 TGCCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
90422293 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
90422333 TGCCTTCGGGTCTTAGCCCGGAT
1 TGCCTTCGGGTCTTAGCCCGGAT
90422356 ATAATCACTA
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 95 1.00
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAA
Found at i:90422375 original size:40 final size:39
Alignment explanation
Indices: 90422190--90422393 Score: 212
Period size: 40 Copynumber: 5.1 Consensus size: 39
90422180 CGGAATCTAA
* * *
90422190 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
90422230 CCGGATTTGGTA-ACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAT--AACACTAGCACAAATGCCTTCGGGTCTTAGC
* *
90422270 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
90422310 CCGGATTTAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
90422350 CCGGATATAATCACTAGTATAAATGCCTTCAGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
90422390 CCGG
1 CCGG
90422394 GTTTCATTCA
Statistics
Matches: 141, Mismatches: 18, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.01
40 138 0.98
41 1 0.01
42 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:90422375 original size:80 final size:79
Alignment explanation
Indices: 90422190--90422393 Score: 255
Period size: 80 Copynumber: 2.5 Consensus size: 79
90422180 CGGAATCTAA
* * * *** *
90422190 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTTGCACAAATG
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACAAATG
90422255 CCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAGC
* * *
90422270 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACGAATG
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACAAATG
90422335 CCTTCGGGTCTTAGC
65 CCTTCGGGTCTTAGC
* * * *
90422350 CCGGATATAATCACTAGTATAAATGCCTTCAGGACTTAGCCCGG
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
90422394 GTTTCATTCA
Statistics
Matches: 106, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 1 0.01
80 104 0.98
81 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (79 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTCGCACAAATGC
CTTCGGGTCTTAGC
Found at i:90428050 original size:97 final size:94
Alignment explanation
Indices: 90427879--90428056 Score: 250
Period size: 97 Copynumber: 1.9 Consensus size: 94
90427869 CATTTGTGCG
* * *
90427879 CTAGTGTAAGACATGTCTGGGACATGCATCGGCTATATTATGAGAGCCAATGTAAGACCATGTCT
1 CTAGTGCAAGACATGTCTGGGACATGCATCGGCCAGATTATGAGAGCCAATGTAAGACCATGTCT
90427944 AGGACATGGCGTCGACATTGAAAAGAGAA
66 AGGACATGGCGTCGACATTGAAAAGAGAA
* * *
90427973 CTAGTGCAAGACATGTCTGGGACATGGCATCGGCACAGATATGTGAGAGCTAGTGTAAGACCATG
1 CTAGTGCAAGACATGTCTGGGACAT-GCATCGGC-CAGAT-TATGAGAGCCAATGTAAGACCATG
*
90428038 TCT-GAGATATGGCGTCGAC
63 TCTAG-GACATGGCGTCGAC
90428057 CTCGATTTCG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 24 0.33
95 8 0.11
96 4 0.05
97 37 0.51
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (94 bp):
CTAGTGCAAGACATGTCTGGGACATGCATCGGCCAGATTATGAGAGCCAATGTAAGACCATGTCT
AGGACATGGCGTCGACATTGAAAAGAGAA
Found at i:90431830 original size:27 final size:27
Alignment explanation
Indices: 90431789--90431866 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
90431779 GAGATATTTT
* *
90431789 GATATTTTATAATTATTTAATTAGATAA
1 GATATTTTTTTATTATTT-ATTAGATAA
90431817 -ATATTTTTTTATTAATATT-TTA-ATAA
1 GATATTTTTTTATT-AT-TTATTAGATAA
*
90431843 GATATTTTTTTGTTATTTTATTAG
1 GATATTTTTTTATTA-TTTATTAG
90431867 TATATAAAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
26 7 0.17
27 30 0.73
28 2 0.05
29 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (27 bp):
GATATTTTTTTATTATTTATTAGATAA
Found at i:90433669 original size:46 final size:45
Alignment explanation
Indices: 90433617--90433921 Score: 373
Period size: 46 Copynumber: 6.6 Consensus size: 45
90433607 GCTATCTGAA
* ** *
90433617 ATGAAATATGTAAGACCATGGTTGAATGATACCATTACAACATGAT
1 ATGAAATA-GTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
90433663 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
90433709 ATGAAA-AGAATAAGGCCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * *
90433755 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
90433801 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGTAACATGAC
1 ATGAAAT-AGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
90433847 ATGAAA-AGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATAG--TAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
90433893 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAAT-AGTAAGACCATGGTTGAAAGA
90433922 CACTATGACA
Statistics
Matches: 228, Mismatches: 21, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
44 2 0.01
45 1 0.00
46 222 0.97
48 3 0.01
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (45 bp):
ATGAAATAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:90433774 original size:92 final size:92
Alignment explanation
Indices: 90433627--90433921 Score: 430
Period size: 92 Copynumber: 3.2 Consensus size: 92
90433617 ATGAAATATG
* ** * **
90433627 TAAGACCATGGTTGAATGATACCATTACAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
90433692 TACCATGGCAACATGACATGAAAAGAA
66 TACCATGGCAACATGACATGAAAAGAA
* **
90433719 TAAGGCCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* * *
90433784 TACCATGGCAGCGTGACATGAAATGAA
66 TACCATGGCAACATGACATGAAAAGAA
* *
90433811 TAAGACCATGGTTGAAAGATACCATGGTAACATGACATGAAAAGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
90433876 TACCATGGCAACATGACA-GAAAATGAG
66 TACCATGGCAACATGACATGAAAA-GAA
*
90433903 TAAGACCATAGTTGAAAGA
1 TAAGACCATGGTTGAAAGA
90433922 CACTATGACA
Statistics
Matches: 180, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
91 4 0.02
92 176 0.98
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.20
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAA
Found at i:90433867 original size:138 final size:138
Alignment explanation
Indices: 90433627--90433936 Score: 467
Period size: 138 Copynumber: 2.2 Consensus size: 138
90433617 ATGAAATATG
* * * **
90433627 TAAGACCATGGTTGAATGATACCATTACAACATGATATGAAATGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
* *
90433692 TACCATGGCAACATGACATGAAAAGAATAAGGCCATGGTTGAAAGATACCATGGCAACATGACGG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
90433757 GAAATGAA
131 AAAATGAA
* * *
90433765 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
*
90433830 TACCATGGTAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
*
90433895 AAAATGAG
131 AAAATGAA
* * * *
90433903 TAAGACCATAGTTGAAAGACACTATGACATCATG
1 TAAGACCATGGTTGAAAGATACCATGACAACATG
90433937 TCAAAGATAA
Statistics
Matches: 153, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
138 153 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (138 bp):
TAAGACCATGGTTGAAAGATACCATGACAACATGACATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATGAA
Found at i:90438083 original size:40 final size:39
Alignment explanation
Indices: 90438026--90438229 Score: 198
Period size: 40 Copynumber: 5.1 Consensus size: 39
90438016 TCGAATGATG
*
90438026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTGACTATA
* * * *
90438066 TCCGGGCTAAGATCCGAAGTCATTTGTGAGTGTTACTA-A
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTGACTATA
* * *
90438105 TTCCGGGCTAAGTCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTATA
* *
90438145 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTGACTATA
* * **
90438185 ACCGGGCTATGTCTCGAAGGCATTTGAACGAGT-AGCTATA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTGA-CTATA
90438225 TCCGG
1 TCCGG
90438230 TTAAATTCCG
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
39 36 0.26
40 96 0.69
41 7 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTGACTATA
Found at i:90438162 original size:79 final size:80
Alignment explanation
Indices: 90438026--90438208 Score: 212
Period size: 79 Copynumber: 2.3 Consensus size: 80
90438016 TCGAATGATG
* * *
90438026 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGGCTAAGATCCGAAGTCATT
1 TCCGGGCTAAGT-CCGAAGGCATTGGTGCTAAGTGACTAAATCCGGGCTAAGATCCGAAGGCATT
*
90438090 TGTGAGTGTTACTA-A
65 TGTGAGAGTTACTATA
* * *
90438105 TTCCGGGCTAAGTCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 -TCCGGGCTAAGTCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGGCTAAGAT-CCGAAGGCAT
*
90438168 TTGTGCGAGTTACTATA
64 TTGTGAGAGTTACTATA
* *
90438185 ACCGGGCTATGTCTCGAAGGCATT
1 TCCGGGCTAAGTC-CGAAGGCATT
90438209 TGAACGAGTA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 29 0.33
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGGCTAAGATCCGAAGGCATTT
GTGAGAGTTACTATA
Found at i:90438232 original size:79 final size:78
Alignment explanation
Indices: 90438060--90438243 Score: 194
Period size: 79 Copynumber: 2.3 Consensus size: 78
90438050 GTGCTAAGTG
* * * *
90438060 ACTATATCCGGGCTAAGATCCGAAGTCATTTGTGAGTGTTACTAATTCCGGGCTAAGTCCGAAGG
1 ACTATATCCGGGTTAAG-TCCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGTCCGAAGG
**
90438125 CATTGGTGCGAGTT
65 CATTGGAACGAGTT
* * *
90438139 ACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCTCGAA
1 ACTATATCCGGGTTAAGT-CCGAAGGCATTTGTGAGAGTTACTAAT-ACCGGGCTAAGTC-CGAA
*
90438203 GGCATTTGAACGAG-T
63 GGCATTGGAACGAGTT
*
90438218 AGCTATATCC-GGTTAAATTCCGAAGG
1 A-CTATATCCGGGTT-AAGTCCGAAGG
90438244 TACGTGATTC
Statistics
Matches: 88, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.03
79 60 0.68
80 25 0.28
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (78 bp):
ACTATATCCGGGTTAAGTCCGAAGGCATTTGTGAGAGTTACTAATACCGGGCTAAGTCCGAAGGC
ATTGGAACGAGTT
Found at i:90441171 original size:20 final size:21
Alignment explanation
Indices: 90441123--90441177 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
90441113 TTAAAAAGCC
90441123 AATAAGTATTGATACTTTTTA
1 AATAAGTATTGATACTTTTTA
*
90441144 AATGAGTATTGATA-TTTTCTA
1 AATAAGTATTGATACTTTT-TA
*
90441165 AA-AAGTATCGATA
1 AATAAGTATTGATA
90441178 AAATAGTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.43
21 17 0.57
ACGTcount: A:0.40, C:0.05, G:0.13, T:0.42
Consensus pattern (21 bp):
AATAAGTATTGATACTTTTTA
Found at i:90441443 original size:20 final size:20
Alignment explanation
Indices: 90441399--90441443 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
90441389 AGGCATTCAA
90441399 CAAAAATTAGACAAAATAAG
1 CAAAAATTAGACAAAATAAG
* *
90441419 TAAAAATTAGAC-TAATAATG
1 CAAAAATTAGACAAAATAA-G
90441439 CAAAA
1 CAAAA
90441444 TCAACTGCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.62, C:0.09, G:0.09, T:0.20
Consensus pattern (20 bp):
CAAAAATTAGACAAAATAAG
Found at i:90443734 original size:12 final size:12
Alignment explanation
Indices: 90443713--90443742 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90443703 GAATGTTTGA
*
90443713 ATTGAAATGAAT
1 ATTGATATGAAT
90443725 ATTGATATGAAT
1 ATTGATATGAAT
90443737 ATTGAT
1 ATTGAT
90443743 GTGGAAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.40
Consensus pattern (12 bp):
ATTGATATGAAT
Found at i:90444061 original size:6 final size:6
Alignment explanation
Indices: 90444041--90444074 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
90444031 ATGTGCCGAA
*
90444041 TACTGT TACTGGT TACTGT TACCGT TACTGT TAC
1 TACTGT TACT-GT TACTGT TACTGT TACTGT TAC
90444075 CGATTCGGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:90444320 original size:19 final size:19
Alignment explanation
Indices: 90444298--90444348 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
90444288 AAAGATCGAC
90444298 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAATTTAAT
* * *
90444317 TGTTACTGTAT-ATCTGAT
1 TGTTACTGAATAATTTAAT
90444335 T-TTACTGAATAATT
1 TGTTACTGAATAATT
90444349 GACTGCTACT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (19 bp):
TGTTACTGAATAATTTAAT
Found at i:90444589 original size:2 final size:2
Alignment explanation
Indices: 90444582--90444610 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
90444572 GAATAGTTCA
90444582 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
90444611 AATTAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:90449076 original size:17 final size:17
Alignment explanation
Indices: 90449022--90449080 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
90449012 TTATGCTAAA
*
90449022 AGAAAGTTAAAGACAAT
1 AGAAAGCTAAAGACAAT
* * * * *
90449039 AGAAAACCATAGAAAAA
1 AGAAAGCTAAAGACAAT
90449056 AGAAAGCTAAAGACAAT
1 AGAAAGCTAAAGACAAT
90449073 AG-AAGCTA
1 AGAAAGCTA
90449081 CAGAAAACTA
Statistics
Matches: 31, Mismatches: 11, Indels: 1
0.72 0.26 0.02
Matches are distributed among these distances:
16 6 0.19
17 25 0.81
ACGTcount: A:0.61, C:0.10, G:0.17, T:0.12
Consensus pattern (17 bp):
AGAAAGCTAAAGACAAT
Found at i:90449312 original size:13 final size:13
Alignment explanation
Indices: 90449294--90449318 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90449284 ATTTATAAGA
90449294 TTACATAATCAAT
1 TTACATAATCAAT
90449307 TTACATAATCAA
1 TTACATAATCAA
90449319 ATCCAATCTA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
TTACATAATCAAT
Found at i:90449867 original size:16 final size:17
Alignment explanation
Indices: 90449829--90449869 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
90449819 AGAGTAAACC
*
90449829 CTCTCTTTATTTATTTT
1 CTCTTTTTATTTATTTT
*
90449846 AT-TTTTTATTT-TTTT
1 CTCTTTTTATTTATTTT
90449861 CTCTTTTTA
1 CTCTTTTTA
90449870 AAATAAGCAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
15 5 0.25
16 14 0.70
17 1 0.05
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (17 bp):
CTCTTTTTATTTATTTT
Found at i:90449940 original size:34 final size:34
Alignment explanation
Indices: 90449902--90449971 Score: 140
Period size: 34 Copynumber: 2.1 Consensus size: 34
90449892 AATGTGTCTA
90449902 TTATAATGTAGTAAAAGACAAAATTTGCTTATCT
1 TTATAATGTAGTAAAAGACAAAATTTGCTTATCT
90449936 TTATAATGTAGTAAAAGACAAAATTTGCTTATCT
1 TTATAATGTAGTAAAAGACAAAATTTGCTTATCT
90449970 TT
1 TT
90449972 CCTCTTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (34 bp):
TTATAATGTAGTAAAAGACAAAATTTGCTTATCT
Found at i:90457535 original size:9 final size:10
Alignment explanation
Indices: 90457518--90457549 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
90457508 TTTTTTAATA
90457518 AATTTTTTTC
1 AATTTTTTTC
*
90457528 ACTTTTTTTC
1 AATTTTTTTC
90457538 AATTTTTTTC
1 AATTTTTTTC
90457548 AA
1 AA
90457550 ACACTTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (10 bp):
AATTTTTTTC
Found at i:90460512 original size:53 final size:53
Alignment explanation
Indices: 90460429--90460536 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
90460419 GGGATGTTTA
*
90460429 TATGAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAATGC
1 TATGAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGC
*
90460482 TATGAAAACTCATTGTCATACATGATCGAGTTTTGCATTTGCTGATTAAACGC
1 TATGAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGC
90460535 TA
1 TA
90460537 CTTCAACTTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (53 bp):
TATGAAAACTCATTGTCATACATGACCGAGTTTTGCATTTGCTGATTAAACGC
Found at i:90461123 original size:21 final size:21
Alignment explanation
Indices: 90461071--90461116 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
90461061 TTTCTTTGTA
*
90461071 CTCACTCTCTTTTTGCTCACT
1 CTCAATCTCTTTTTGCTCACT
* *
90461092 CTCAATCTCTTTTTTCTCTCT
1 CTCAATCTCTTTTTGCTCACT
90461113 CTCA
1 CTCA
90461117 TTTTCTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.11, C:0.37, G:0.02, T:0.50
Consensus pattern (21 bp):
CTCAATCTCTTTTTGCTCACT
Found at i:90463570 original size:45 final size:45
Alignment explanation
Indices: 90463519--90463626 Score: 128
Period size: 45 Copynumber: 2.4 Consensus size: 45
90463509 TTTGATCTCA
* *
90463519 TTGAGTTGGTCCGAGTTCGTGGTATATGTG-AGAAAACAAAACTTG
1 TTGAGTTGGTCCGAGTTCGTGATATATGTGAAG-AAACAAAACTCG
* * * * * *
90463564 TTGAGTTGGACCAAGTTCGTGATATATGTGAAGCATCCAAGCTCG
1 TTGAGTTGGTCCGAGTTCGTGATATATGTGAAGAAACAAAACTCG
90463609 TTGAGTTGGTCCGAGTTC
1 TTGAGTTGGTCCGAGTTC
90463627 ATTATGGATG
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
45 50 0.96
46 2 0.04
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (45 bp):
TTGAGTTGGTCCGAGTTCGTGATATATGTGAAGAAACAAAACTCG
Found at i:90465702 original size:26 final size:26
Alignment explanation
Indices: 90465673--90465754 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
90465663 TGATAAAAAT
*
90465673 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90465699 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90465725 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
90465751 TGAT
1 TGAT
90465755 GGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90467413 original size:27 final size:26
Alignment explanation
Indices: 90467312--90467423 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
90467302 AGGAAGCGTC
* * *
90467312 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
90467339 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
90467366 ATGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
** *
90467394 CTGGTAACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
90467420 CTGG
1 CTGG
90467424 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.72
28 15 0.20
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:90467416 original size:54 final size:54
Alignment explanation
Indices: 90467313--90467419 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
90467303 GGAAGCGTCC
**
90467313 TGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTTA
1 TGGTGGCTATGCCACAAATATCTGATCTGGTAACTCTGCCACATATATCTGTTA
* * * *
90467367 TGGTGGCTCTGCCACGATTATCTGTATCTGGTAACTCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAAATATCTG-ATCTGGTAACTCTGCCACATATATCTGTT
90467420 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (54 bp):
TGGTGGCTATGCCACAAATATCTGATCTGGTAACTCTGCCACATATATCTGTTA
Found at i:90471639 original size:5 final size:5
Alignment explanation
Indices: 90471629--90471662 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
90471619 AATCTGTGTT
90471629 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
90471663 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:90473211 original size:22 final size:22
Alignment explanation
Indices: 90473183--90473227 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
90473173 CATGAAGGGA
90473183 ACGTTGGAGTATATTCATTCTG
1 ACGTTGGAGTATATTCATTCTG
90473205 ACGTTGGAGTATATTCATTCTG
1 ACGTTGGAGTATATTCATTCTG
90473227 A
1 A
90473228 TCTGTGAGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.40
Consensus pattern (22 bp):
ACGTTGGAGTATATTCATTCTG
Done.