Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 150 of 199
Found at i:44380383 original size:21 final size:21
Alignment explanation
Indices: 44380357--44380408 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
44380347 TGCATCTATG
*
44380357 GGCCTTAAAATGGGCTTACAA
1 GGCCTTAAAATGGGATTACAA
* **
44380378 GGCCTTACAATGGGATTATGA
1 GGCCTTAAAATGGGATTACAA
44380399 GGCCTTAAAA
1 GGCCTTAAAA
44380409 ATAGTTAGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (21 bp):
GGCCTTAAAATGGGATTACAA
Found at i:44381760 original size:20 final size:18
Alignment explanation
Indices: 44381734--44381794 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 18
44381724 ATAGATGTAT
44381734 AACAGAGGCACCAAAGTGC
1 AACAGAGGCA-CAAAGTGC
44381753 AGACAGAGGCACAAATGTGC
1 A-ACAGAGGCACAAA-GTGC
44381773 AAGCAGAGGCACAGAAGTGC
1 AA-CAGAGGCACA-AAGTGC
44381793 AA
1 AA
44381795 ACAAAGCACG
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
19 6 0.16
20 30 0.79
21 2 0.05
ACGTcount: A:0.43, C:0.21, G:0.30, T:0.07
Consensus pattern (18 bp):
AACAGAGGCACAAAGTGC
Found at i:44388625 original size:13 final size:13
Alignment explanation
Indices: 44388604--44388633 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44388594 CAAAGTGAAC
*
44388604 TTCTTTCCTTATT
1 TTCTATCCTTATT
44388617 TTCTATCCTTATT
1 TTCTATCCTTATT
44388630 TTCT
1 TTCT
44388634 TAAAGTGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (13 bp):
TTCTATCCTTATT
Found at i:44392323 original size:48 final size:48
Alignment explanation
Indices: 44392256--44392417 Score: 207
Period size: 48 Copynumber: 3.4 Consensus size: 48
44392246 GTGTGGCATG
*
44392256 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACG
1 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
*
44392304 GACTGTGTGCAGGCTACCAATATTCTGTTAAGATACAAGGGTGGCACA
1 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
* * * * * ** * * *
44392352 GATTATGTGTAGGCCACCAAGAGTCTGTTATTACACAAAGGTGGTACA
1 GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
*
44392400 GACTGTGTGTAGGCCACC
1 GACTGTGTGCAGGCCACC
44392418 GAGAAATCTA
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 99 1.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (48 bp):
GACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTGGCACA
Found at i:44399298 original size:47 final size:48
Alignment explanation
Indices: 44399229--44399346 Score: 175
Period size: 48 Copynumber: 2.5 Consensus size: 48
44399219 CGCATATGCA
44399229 GCACGGACTGTGTGCAGGCCACC-ATATTCTATTAACATACAAGGGTG
1 GCACGGACTGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
* * *
44399276 GCACGGATTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGGGTG
1 GCACGGACTGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
* **
44399324 GCACGGACTATGTGTTGGCCACC
1 GCACGGACTGTGTGCAGGCCACC
44399347 GAGAGTCTGT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 22 0.35
48 41 0.65
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (48 bp):
GCACGGACTGTGTGCAGGCCACCAATATTCTATTAACATACAAGGGTG
Found at i:44409049 original size:80 final size:79
Alignment explanation
Indices: 44408912--44409136 Score: 236
Period size: 80 Copynumber: 2.8 Consensus size: 79
44408902 TTGAATGCTG
* * * * * * *
44408912 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
44408976 TGTGCGAGATACTAAA
64 TGTGCCAGATACTAAA
* * *
44408992 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTT
* **
44409057 GTGCCAGTTGTTAAA
65 GTGCCAGATACTAAA
* * * * * *
44409072 TCCGGGTTATGTCCCGAAGGCATTATGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
44409137 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
79 35 0.29
80 82 0.68
81 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCCAGATACTAAA
Found at i:44409126 original size:39 final size:38
Alignment explanation
Indices: 44408912--44409136 Score: 184
Period size: 40 Copynumber: 5.7 Consensus size: 38
44408902 TTGAATGCTG
* * * *
44408912 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTG---AGTTACTAAA
** * *
44408952 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGT--GAGTTACTAAA
* *
44408992 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT--TGTGAGTTACTAAA
* **
44409032 TCCGGGTTAAGTCCCGAAGGCATTCGTGCCAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTG--AGTTACTAAA
*
44409072 TCCGGGTTATGTCCCGAAGGCATTATGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-TGTGAGTTACTAAA
* * *
44409111 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
44409137 AACGAGGAGC
Statistics
Matches: 155, Mismatches: 20, Indels: 22
0.79 0.10 0.11
Matches are distributed among these distances:
38 4 0.03
39 31 0.20
40 108 0.70
41 9 0.06
42 2 0.01
43 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (38 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGAGTTACTAAA
Found at i:44409154 original size:79 final size:80
Alignment explanation
Indices: 44408987--44409169 Score: 208
Period size: 79 Copynumber: 2.3 Consensus size: 80
44408977 GTGCGAGATA
* * * *
44408987 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
44409052 CATTCGTGCCAGTTG
66 CATTCGAACCAGGAG
* * * *
44409067 TTAAATCCGGGTTATGTCCCGAAGGCATT-ATGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
* *
44409131 CATTTGAACGAGGAG
66 CATTCGAACCAGGAG
* *
44409146 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
44409170 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:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACCAGGAG
Found at i:44416876 original size:40 final size:40
Alignment explanation
Indices: 44416832--44416989 Score: 219
Period size: 40 Copynumber: 4.0 Consensus size: 40
44416822 GGAGGCCTTT
*
44416832 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
44416872 GTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGGCATTC
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
** *
44416912 GTGCGAGTTGTTAAATCCGGGTTACGTCCCGAAGGCATT-
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* * * *
44416951 GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
44416990 TGAACGAGGA
Statistics
Matches: 106, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 33 0.31
40 73 0.69
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
Found at i:44417009 original size:79 final size:80
Alignment explanation
Indices: 44416842--44417024 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
44416832 GTGCGAGATA
* * *
44416842 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAGCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
44416907 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
44416922 TTAAATCCGGGTTACGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
44416986 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
44417001 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
44417025 TACGTGATTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 14 0.16
79 46 0.53
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:44446686 original size:20 final size:20
Alignment explanation
Indices: 44446663--44446717 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
44446653 AAGTGCAGAA
* *
44446663 AAAGGCACAAATTTGCAAGC
1 AAAGGCACAAATGTGCAAAC
44446683 AAAGGCACCAAA-GTGCAAAC
1 AAAGGCA-CAAATGTGCAAAC
*
44446703 AAATGCACAAATGTG
1 AAAGGCACAAATGTG
44446718 GGATCAGAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 4 0.13
20 22 0.73
21 4 0.13
ACGTcount: A:0.47, C:0.20, G:0.20, T:0.13
Consensus pattern (20 bp):
AAAGGCACAAATGTGCAAAC
Found at i:44452677 original size:201 final size:201
Alignment explanation
Indices: 44452329--44452730 Score: 732
Period size: 201 Copynumber: 2.0 Consensus size: 201
44452319 TATACAACTC
44452329 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
1 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
* * * *
44452394 GTTGTGACTATTACATAATAATCCAAGAAACATACTCATAGTGAGTCTGTCCAATATGTTGTTCT
66 GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
*
44452459 TTAACACATATTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
131 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
44452524 ACTATA
196 ACTATA
* *
44452530 ACGATGTTGGGACAATGATGATCTTAAGTCTGAGGATCATATACATAGTTATCACTTTGAGTAAT
1 ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
44452595 GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
66 GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
*
44452660 TTAACACATACTCATGTATTGATTTTTACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
131 TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
44452725 ACTATA
196 ACTATA
44452731 CATTAGTCTT
Statistics
Matches: 193, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
201 193 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (201 bp):
ACGATGTTGGGACAATGATGATCTCAAGTCTGAGAATCATATACATAGTTATCACTTTGAGTAAT
GTTGTAACTATTACATAATAATACAAGAAACATACTCATAGCGAGTCAGTCCAATATGTTGTTCT
TTAACACATACTCATGTATTGATTTTGACATCTCTATGTCAATGACAACACTTTGTCATCAATCA
ACTATA
Found at i:44455177 original size:17 final size:18
Alignment explanation
Indices: 44455138--44455178 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
44455128 TGAATGAATG
44455138 AATAAATAGATTATAAAA
1 AATAAATAGATTATAAAA
*
44455156 CATAAATA-ATTA-AAACA
1 AATAAATAGATTATAAA-A
44455173 AATAAA
1 AATAAA
44455179 ACTTAGTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 3 0.15
17 10 0.50
18 7 0.35
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (18 bp):
AATAAATAGATTATAAAA
Found at i:44457096 original size:23 final size:22
Alignment explanation
Indices: 44457060--44457113 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
44457050 AAAAAATTGT
*
44457060 AAAAATAATAAAACTAAAATTAAC
1 AAAAAAAATAAAAC-AAAATT-AC
* *
44457084 AAAAAAAAT-AAACCAAATTGC
1 AAAAAAAATAAAACAAAATTAC
44457105 AAAAAAAAT
1 AAAAAAAAT
44457114 TGTCTTCACA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.37
22 5 0.19
23 4 0.15
24 8 0.30
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (22 bp):
AAAAAAAATAAAACAAAATTAC
Found at i:44461754 original size:17 final size:17
Alignment explanation
Indices: 44461725--44461757 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
44461715 TATCGTTTGT
44461725 TTATCTTTCTTATTTAG
1 TTATCTTTCTTATTTAG
44461742 TTAT-TTTCGTTATTTA
1 TTATCTTTC-TTATTTA
44461758 TTTTTATCGC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.09, G:0.06, T:0.67
Consensus pattern (17 bp):
TTATCTTTCTTATTTAG
Found at i:44463179 original size:61 final size:58
Alignment explanation
Indices: 44463108--44463221 Score: 174
Period size: 61 Copynumber: 1.9 Consensus size: 58
44463098 AGTGATTATC
* *
44463108 TTAATGTTAAATTTAATTTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAGAT
1 TTAATATTAAATTTAATATAATATTTATC-T-T-GATAAATATTATATTAATTTAATAGAT
*
44463169 TTAATATTAAATTTAATATAATATTTATCTTGATAAGTATTATATTAATTTAA
1 TTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAATTTAA
44463222 CATCAAAGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
58 21 0.42
59 1 0.02
60 1 0.02
61 27 0.54
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (58 bp):
TTAATATTAAATTTAATATAATATTTATCTTGATAAATATTATATTAATTTAATAGAT
Found at i:44463236 original size:58 final size:61
Alignment explanation
Indices: 44463114--44463243 Score: 153
Period size: 58 Copynumber: 2.2 Consensus size: 61
44463104 TATCTTAATG
* * **
44463114 TTAAATTTAATTTAATATTTATCTTGTAGATAAATATTATATTAATTTAATAGATTTAATA
1 TTAAATTTAATATAATATTTATCTTGTAGATAAATATTATATTAATTTAATACATCAAATA
*
44463175 TTAAATTTAATATAATATTTATC-T-T-GATAAGTATTATATTAATTT-A-ACATCAAAGTGA
1 TTAAATTTAATATAATATTTATCTTGTAGATAAATATTATATTAATTTAATACATCAAA-T-A
*
44463233 TTAAGTTTAAT
1 TTAAATTTAAT
44463244 TATAGTTGAA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
56 5 0.08
57 2 0.03
58 30 0.49
59 1 0.02
60 1 0.02
61 22 0.36
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (61 bp):
TTAAATTTAATATAATATTTATCTTGTAGATAAATATTATATTAATTTAATACATCAAATA
Found at i:44466822 original size:259 final size:259
Alignment explanation
Indices: 44466363--44467660 Score: 2245
Period size: 259 Copynumber: 5.0 Consensus size: 259
44466353 ATTTGGTATA
* * * * * * *
44466363 GATACCTCGGCTCGAGTATCAATACTCGGGGAAGAAAAATTGATACTTTATCCGATGCTATCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
44466428 ATTTTTTTATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTTTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
44466493 GTATCGAAACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
* *
44466558 TATGAAATTTTGCTAATTAGCCTTTATGCATGATGCTGGCAGTATGTATGATCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
*
44466622 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCAAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* * * * *
44466687 ATTTTTTGATAGTTGGGTTTTTAATTGACAAACAGTATGCTCATTTGGTATTGTTTTTCCAAATG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
44466752 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTACGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
* *
44466817 TATGAAATTTTGCTAATTAGCCCTTAAGCATGATGCTGGCAGTATGTATGATCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
* *
44466881 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTACTCGGTGGTACCAAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
44466946 ATTTCTTGATAGTTGGGTTTTTAATCGAGAAATAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
* *
44467011 GTATCGATACCACTTAAGGAAAATATCGATAACTGGATATCAATATCAATACCTATGGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
* * *
44467076 TATGAAATTTTGCTAATTAGCCTTTATGCATGATGTTGGCAGTATGTATGACCGATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
*
44467140 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATAATTTATTCGGTGGTACCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
*
44467205 ATTTTTTTATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
* **
44467270 GTATCGATACCACTTAAGGAAAATGTCGATAACTAGATATCAATATCAATACCTACAAACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
*
44467335 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCGATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
44467399 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
1 GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
* *
44467464 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAATAATATGCTCATTTGGTATCGTGTTTCCAAGTG
66 ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
*
44467529 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACAGACATTTT
131 GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
44467594 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
196 TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
44467658 GAT
1 GAT
44467661 TTGCATGTAA
Statistics
Matches: 988, Mismatches: 51, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
259 988 1.00
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (259 bp):
GATACCTTGGCTCGAGTATCAATACTCGGGGAAGAAATATCGATACTTTATTCGGTGGTACCGAT
ATTTTTTGATAGTTGGGTTTTTAATCGAGAAACAGTATGCTCATTTGGTATCGTGTTTCCAAGTG
GTATCGATACCACTTAAGGAAAATATCGATAACTAGATATCAATATCAATACCTACGGACATTTT
TATGAAATTTTGCTAATTAGCCCTTATGCATGATGCTGGCAGTATGTATGACCAATTAACAAAT
Found at i:44467944 original size:5 final size:5
Alignment explanation
Indices: 44467925--44468053 Score: 224
Period size: 5 Copynumber: 26.0 Consensus size: 5
44467915 TTATACTTGT
*
44467925 TTATA ATAT- TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
* *
44467974 GTATA GTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
44468024 TTATA TTATA TTATA TTATA TTATA TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA
44468054 ATTTTGATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
4 3 0.03
5 116 0.97
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (5 bp):
TTATA
Found at i:44470716 original size:41 final size:42
Alignment explanation
Indices: 44470667--44470809 Score: 148
Period size: 41 Copynumber: 3.4 Consensus size: 42
44470657 TACTCGGTGA
* *
44470667 AATCAGCACTTAGCAACCACC-TTATATTCAATGATACGGGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
* * * *
44470708 AATTAGCACATAGCAACC-CCTTTCACAATAAAGGATACGGTGG
1 AATCAGCACTTAGCAACCACCTTT-ACAATCAATGATACGG-GG
* * * * *
44470751 AATCCGCACTTAGCAACCACCTTTAGAATCAATAATTC-AGG
1 AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
44470792 AATCAGCACTTAGCAACC
1 AATCAGCACTTAGCAACC
44470810 CCTCGGAGAA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 2 0.02
41 37 0.45
42 12 0.15
43 26 0.32
44 5 0.06
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (42 bp):
AATCAGCACTTAGCAACCACCTTTACAATCAATGATACGGGG
Found at i:44470882 original size:41 final size:41
Alignment explanation
Indices: 44470837--44470921 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 41
44470827 TTAGCAATCT
* *
44470837 CTTTTTGATCAGTGATTCGGGGAATCTACACTTAACAACCC
1 CTTTTCGATCAATGATTCGGGGAATCTACACTTAACAACCC
* * *
44470878 CTTTTCGATTAATGATTCGGGGAATCTGCACTTAGCAACCC
1 CTTTTCGATCAATGATTCGGGGAATCTACACTTAACAACCC
44470919 CTT
1 CTT
44470922 ACATTCAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (41 bp):
CTTTTCGATCAATGATTCGGGGAATCTACACTTAACAACCC
Found at i:44473979 original size:18 final size:16
Alignment explanation
Indices: 44473945--44474012 Score: 68
Period size: 15 Copynumber: 4.2 Consensus size: 16
44473935 TAATAATAAT
44473945 AAAGAAAGAAAAAGAA
1 AAAGAAAGAAAAAGAA
*
44473961 ATAGAAAGAACAAATGAA
1 AAAGAAAGAA-AAA-GAA
* *
44473979 AAAGAAAGAAACA-TA
1 AAAGAAAGAAAAAGAA
*
44473994 AAGGAAAG-AAAAGAA
1 AAAGAAAGAAAAAGAA
44474009 AAAG
1 AAAG
44474013 GGAAGGAAAG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
14 3 0.07
15 12 0.29
16 9 0.22
17 5 0.12
18 12 0.29
ACGTcount: A:0.74, C:0.03, G:0.19, T:0.04
Consensus pattern (16 bp):
AAAGAAAGAAAAAGAA
Found at i:44474022 original size:16 final size:16
Alignment explanation
Indices: 44473948--44474024 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
44473938 TAATAATAAA
*
44473948 GAAAGAAAAAGAAATA-
1 GAAAG-AAAAGAAAAAG
44473964 GAAAGAACAAATGAAAAA-
1 GAAAG-A-AAA-GAAAAAG
* *
44473982 GAAAG-AAACATAAAG
1 GAAAGAAAAGAAAAAG
44473997 GAAAGAAAAGAAAAAG
1 GAAAGAAAAGAAAAAG
* *
44474013 GGAAGGAAAGAA
1 GAAAGAAAAGAA
44474025 GGAGAAAGCA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
14 4 0.08
15 8 0.16
16 25 0.50
17 3 0.06
18 10 0.20
ACGTcount: A:0.70, C:0.03, G:0.23, T:0.04
Consensus pattern (16 bp):
GAAAGAAAAGAAAAAG
Found at i:44474706 original size:2 final size:2
Alignment explanation
Indices: 44474701--44474738 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
44474691 TATATATATA
44474701 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
44474739 ATTATATGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:44492319 original size:13 final size:13
Alignment explanation
Indices: 44492282--44492330 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
44492272 TTTGGCAATA
44492282 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
44492295 CTGTGGAAAAGTG
1 CTTTTGAAAAGTG
*
44492308 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
44492321 CTTTTGAAAA
1 CTTTTGAAAA
44492331 ATTTGAGTGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:44496427 original size:16 final size:16
Alignment explanation
Indices: 44496406--44496462 Score: 78
Period size: 16 Copynumber: 3.6 Consensus size: 16
44496396 TTTGGTTCGC
*
44496406 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
44496422 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
* *
44496438 TGTAATGGAATAAAGG
1 TGTAATGGATTAGAGG
44496454 TGTAATGGA
1 TGTAATGGA
44496463 AAAGCTGTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:44496729 original size:18 final size:17
Alignment explanation
Indices: 44496708--44496742 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44496698 TTATTATTAA
*
44496708 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44496726 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44496743 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44496879 original size:16 final size:16
Alignment explanation
Indices: 44496842--44496883 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
44496832 TTAATCATAT
*
44496842 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
44496858 TT-AAATATATTATAA
1 TTAAAATATATTATAA
44496873 TTAAAATATAT
1 TTAAAATATAT
44496884 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:44496881 original size:154 final size:156
Alignment explanation
Indices: 44496595--44496908 Score: 569
Period size: 154 Copynumber: 2.0 Consensus size: 156
44496585 TAGAATACCC
44496595 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
44496660 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
44496725 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAAAAA
* *
44496752 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
44496815 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
44496880 ATATAATTTAATAAAATTCTTAAAAA
131 ATATAATTTAATAAAATTCTTAAAAA
44496906 TTA
1 TTA
44496909 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 4, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
154 92 0.60
155 1 0.01
157 60 0.39
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAAA
Found at i:44496890 original size:14 final size:15
Alignment explanation
Indices: 44496851--44496892 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
44496841 TTTAAACATA
*
44496851 ATTATTATTAAATAT
1 ATTATAATTAAATAT
44496866 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
44496880 A-TATAATTTAATA
1 ATTATAATTAAATA
44496893 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:44496979 original size:120 final size:121
Alignment explanation
Indices: 44496840--44497136 Score: 462
Period size: 120 Copynumber: 2.5 Consensus size: 121
44496830 ATTTAATCAT
*
44496840 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* * *
44496904 AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 AA-TAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
44496962 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
44497025 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
44497081 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAATT
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATT
44497137 TAAAATTATT
Statistics
Matches: 165, Mismatches: 6, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
119 24 0.15
120 130 0.79
121 10 0.06
122 1 0.01
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (121 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
AATAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:44497010 original size:14 final size:15
Alignment explanation
Indices: 44496961--44497012 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
44496951 GTAAAATATA
44496961 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
44496976 TATTAAATATATTAT
1 AATTAAATATATTAT
44496991 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
44497004 AATTTAATA
1 AATTAAATA
44497013 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:44497027 original size:44 final size:43
Alignment explanation
Indices: 44496938--44497028 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
44496928 CTCAAATCAT
* * *
44496938 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
44496981 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
44497025 AATA
1 AATA
44497029 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:44497063 original size:59 final size:59
Alignment explanation
Indices: 44496880--44497063 Score: 148
Period size: 59 Copynumber: 3.1 Consensus size: 59
44496870 TAATTAAAAT
44496880 ATATAATTTAATAAAATTCTTAA-AAATTAATATTCTTATATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAA-TAATATTCTTATATGAATTTACTCAAATCATA
* * * * * * * *
44496939 ATAT-ATGATACTGTAAAA-TATAAATTAACATAATTATTATTAAAT-ATATTATAATTAAA--A
1 ATATAAT-TTA--ATAAAATTCTTAA-TAA-ATAA-TATTCTTATATGA-ATT-TACTCAAATCA
44496999 T-
58 TA
* *
44497000 ATATAATTTAATAAAATTCTTAATAAATAAAATTCTTCTATGAATTTACTCAAATCATA
1 ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
44497059 ATATA
1 ATATA
44497064 TGATACTATA
Statistics
Matches: 92, Mismatches: 18, Indels: 30
0.66 0.13 0.21
Matches are distributed among these distances:
56 6 0.07
57 10 0.11
58 9 0.10
59 19 0.21
60 8 0.09
61 11 0.12
62 10 0.11
63 13 0.14
64 6 0.07
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (59 bp):
ATATAATTTAATAAAATTCTTAATAAATAATATTCTTATATGAATTTACTCAAATCATA
Found at i:44497117 original size:15 final size:15
Alignment explanation
Indices: 44497097--44497135 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
44497087 AATAATTAAT
44497097 ATTAAATATGATTTA
1 ATTAAATATGATTTA
44497112 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
44497129 ATAAAAT
1 ATTAAAT
44497136 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:44497122 original size:17 final size:17
Alignment explanation
Indices: 44497102--44497135 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44497092 TTAATATTAA
*
44497102 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
44497119 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
44497136 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:44497278 original size:93 final size:92
Alignment explanation
Indices: 44497168--44497362 Score: 270
Period size: 93 Copynumber: 2.1 Consensus size: 92
44497158 GATTATAGTT
* * * *
44497168 TATGAATTTGTATAATTTGAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
*
44497231 ATAAAATTCTTGATAATAAAAAT-TTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTT-TTA
* *
44497261 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
44497326 AAAATTCTTAATAATAAAATGTTTTTA
66 AAAATTCTTAATAATAAAATGTTTTTA
44497353 TATGAATTTA
1 TATGAATTTA
44497363 CTAAAATCAA
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
92 18 0.20
93 70 0.76
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.05, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTTTTA
Found at i:44502548 original size:46 final size:46
Alignment explanation
Indices: 44502497--44502618 Score: 136
Period size: 46 Copynumber: 2.6 Consensus size: 46
44502487 TGAGCTCATT
*
44502497 CATATGTTGCAGACTCGAGAATATAGAATTAGGTTCCAAGCTCCTG
1 CATATGTTGCAGACTCGAGAATACAGAATTAGGTTCCAAGCTCCTG
* * * * ** *
44502543 CATATGTTGCGGACTTGAGAATACGGAATTAGGTTTCGTGTTCCTG
1 CATATGTTGCAGACTCGAGAATACAGAATTAGGTTCCAAGCTCCTG
* * *
44502589 TATCTATTGCAGACTCGAGAATACAAGAAT
1 CATATGTTGCAGACTCGAGAATAC-AGAAT
44502619 ATTAAGCCTT
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
46 57 0.93
47 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (46 bp):
CATATGTTGCAGACTCGAGAATACAGAATTAGGTTCCAAGCTCCTG
Found at i:44505393 original size:47 final size:47
Alignment explanation
Indices: 44505315--44505916 Score: 927
Period size: 47 Copynumber: 12.6 Consensus size: 47
44505305 CCCTTCGGGA
* * * * * *
44505315 CTTATCACATTTATACACTTTCACGTCCATCAC-GCTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTAGGC
* * *
44505362 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505409 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44505456 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44505505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44505552 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
44505601 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505648 CTTATCACATATATACACTTTCAAATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505695 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
44505744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505791 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505840 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
44505887 CTTATCACATATATATATACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
44505917 CACATATACT
Statistics
Matches: 513, Mismatches: 31, Indels: 20
0.91 0.05 0.04
Matches are distributed among these distances:
47 312 0.61
48 1 0.00
49 200 0.39
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:44505512 original size:96 final size:94
Alignment explanation
Indices: 44505315--44505916 Score: 927
Period size: 96 Copynumber: 6.3 Consensus size: 94
44505305 CCCTTCGGGA
* * * * * * * *
44505315 CTTATCACATTTATACACTTTCACGTCCATCAC-GCTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTAGGCCTTATCACATATATACA
*
44505379 CTTTCACATTCATCACATCGGCTATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
*
44505409 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
44505474 ACTTTCACATTCATCACATTGGCCATTCGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
44505505 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
44505570 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
44505601 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
44505666 TTTCAAATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
44505695 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
44505760 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44505791 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
44505856 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
44505887 CTTATCACATATATATATACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
44505917 CACATATACT
Statistics
Matches: 479, Mismatches: 24, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
94 90 0.19
95 1 0.00
96 388 0.81
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:44505613 original size:143 final size:141
Alignment explanation
Indices: 44505315--44505916 Score: 945
Period size: 143 Copynumber: 4.2 Consensus size: 141
44505305 CCCTTCGGGA
* * * * * * *
44505315 CTTATCACATTTATACACTTTCACGTCCATCAC-GCTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATC-GGCCATTCGGCCTTATCACATATATACA
*
44505379 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACAT
44505444 CGGCCATTAGGC
130 CGGCCATTAGGC
*
44505456 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
*
44505521 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACCTTCACATTCATCA
44505586 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
*
44505601 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
* *
44505666 TTTCAAATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACCTTCACATTCATCACA
*
44505731 TCGGCTATTAGGC
129 TCGGCCATTAGGC
*
44505744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCAC--ATATATAC
*
44505809 ACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACA
44505874 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
44505887 CTTATCACATATATATATACTTTCACATTC
1 CTTATCAC--ATATATACACTTTCACATTC
44505917 CACATATACT
Statistics
Matches: 431, Mismatches: 21, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
141 8 0.02
143 313 0.73
145 110 0.26
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACCTTCACATTCATCACATC
GGCCATTAGGC
Found at i:44509176 original size:103 final size:103
Alignment explanation
Indices: 44509039--44509242 Score: 338
Period size: 103 Copynumber: 2.0 Consensus size: 103
44509029 TTGCATATAA
** * *
44509039 AGGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCATCGTATTT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
*
44509104 TAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCG
66 TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
*
44509142 AGGGGTTGCTAAGTGTTGATTCCCCTAC-CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AGGGGTTGCTAAGTGCTGATTCCCCTACTC-ATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
44509206 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
65 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCC
44509243 GACCCATTTG
Statistics
Matches: 94, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 93 0.99
ACGTcount: A:0.18, C:0.19, G:0.29, T:0.34
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCTACTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTT
TAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:44509296 original size:76 final size:76
Alignment explanation
Indices: 44509143--44509318 Score: 282
Period size: 76 Copynumber: 2.3 Consensus size: 76
44509133 ATTCCCCCGA
* * * * * *
44509143 GGGGTTGCTAAGTGTTGATTCCCCTACCTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTG
44509208 AAATGTGAAAG
66 AAATGTGAAAG
44509219 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
44509284 GAAATGTG-AAG
65 GAAATGTGAAAG
44509295 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
44509319 CAAGGGGTTG
Statistics
Matches: 93, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
76 54 0.58
77 39 0.42
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (76 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTG
AAATGTGAAAG
Found at i:44509343 original size:179 final size:178
Alignment explanation
Indices: 44509040--44509378 Score: 475
Period size: 179 Copynumber: 1.9 Consensus size: 178
44509030 TGCATATAAA
** * ** * * * *
44509040 GGGGTTGCTGTGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCATCGTATTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTG
* * *
44509105 AAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCGAGGGGTTGCTAAGTGTTGATTCCCCTAC
66 AAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAC
* *
44509170 -CTATTGGTGGTTGCTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAG
131 TC-ATTGGTGG-TGCTAAGTGCGGAATCCACCGTATTTTAAATGTGAAAG
44509219 GGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
1 GGGGTTGCTAAGTGCTGATTCCCCGACCCA-TTGGTGGTTGCTAAGTGCTGATTCCACCGCATCT
** *
44509284 GAAATGT-GAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCTCGA
65 GAAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGA
*
44509348 TTCATTGGTGGTGCTAAGTGCGGAATCCACC
130 CTCATTGGTGGTGCTAAGTGCGGAATCCACC
44509379 AACAACGGTT
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
178 18 0.13
179 84 0.60
180 38 0.27
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.32
Consensus pattern (178 bp):
GGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATCTG
AAATGTGGAAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGAC
TCATTGGTGGTGCTAAGTGCGGAATCCACCGTATTTTAAATGTGAAAG
Found at i:44519821 original size:75 final size:75
Alignment explanation
Indices: 44519683--44519823 Score: 219
Period size: 75 Copynumber: 1.9 Consensus size: 75
44519673 GACTTACTAG
* * *
44519683 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATATAGATTCATAT
1 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
44519748 TACTCTTTAC
66 TACTCTTTAC
* ** *
44519758 TTAACATTCAACCTTTCTTTTCTATCAGTAGATTTACATATCAAACAACCTATACAAAGTCATAT
1 TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
44519823 T
66 T
44519824 TGCTTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
75 59 1.00
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (75 bp):
TTAACATTCAACCTTTCTTTTCTACCAACAAATTTACATATCAAACAACCTATACAAAGTCATAT
TACTCTTTAC
Found at i:44530103 original size:25 final size:25
Alignment explanation
Indices: 44530073--44530121 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
44530063 AGATTTAGAG
44530073 TTTATTTTTGTTCGTCAAGATCTAA
1 TTTATTTTTGTTCGTCAAGATCTAA
44530098 TTTATTTTTGTTCGTCAAGATCTA
1 TTTATTTTTGTTCGTCAAGATCTA
44530122 CTCCTATGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (25 bp):
TTTATTTTTGTTCGTCAAGATCTAA
Found at i:44531159 original size:18 final size:18
Alignment explanation
Indices: 44531133--44531176 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
44531123 GACATTGTTA
* * *
44531133 AAGACGAAGTTTTTGTTG
1 AAGAAGAAGTTGTTGCTG
*
44531151 AAGCAGAAGTTGTTGCTG
1 AAGAAGAAGTTGTTGCTG
44531169 AAGAAGAA
1 AAGAAGAA
44531177 AAAGTTGTTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.30, T:0.27
Consensus pattern (18 bp):
AAGAAGAAGTTGTTGCTG
Found at i:44532508 original size:20 final size:20
Alignment explanation
Indices: 44532472--44532521 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
44532462 ATCATGGTCT
* *
44532472 TTGCTTTCTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
44532492 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
44532512 TTGCTTACTT
1 TTGCTTACTT
44532522 AAATAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 24 0.92
21 1 0.04
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.58
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:44532824 original size:50 final size:49
Alignment explanation
Indices: 44532697--44532881 Score: 151
Period size: 50 Copynumber: 3.7 Consensus size: 49
44532687 ATAATAACAG
* * * *
44532697 GCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTGTA-C-T
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-G-TTCTTATATCGT
* * * * *
44532746 GCCAATCCCATATCCTAGATATGATCTTACATGGGAGTTCTTATATCAGT
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATC-GT
* * ** * * *
44532796 GCCCATGCCATGTCCTAGACATGGTCTTACGA-GGGACCTCTCATCTTGGT
1 GCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGAGTTCTTAT-ATCGT
*
44532846 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
44532882 TCTCATTCCT
Statistics
Matches: 108, Mismatches: 22, Indels: 11
0.77 0.16 0.08
Matches are distributed among these distances:
47 6 0.06
48 2 0.02
49 30 0.28
50 68 0.63
51 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (49 bp):
GCCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTTATATCGT
Found at i:44533914 original size:47 final size:47
Alignment explanation
Indices: 44533844--44534066 Score: 299
Period size: 47 Copynumber: 4.7 Consensus size: 47
44533834 ATTCATCAAT
* * * *
44533844 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGT--AACAAATTGGGCAGCATTTAAGCATCAAAA
*
44533893 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
* *
44533940 TTGAACAACATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
*
44533987 TTGGACAGCAT-TATCTAACAAATTGGGCAGCATTT-AGACATCAAAA
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAG-CATCAAAA
* * *
44534033 TTGGACAACAT-TATGTATCAAATTGGGTAGCATT
1 TTGGACAGCATATATGTAACAAATTGGGCAGCATT
44534067 ATGTAACAAA
Statistics
Matches: 158, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 61 0.39
47 80 0.51
49 15 0.09
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (47 bp):
TTGGACAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAA
Found at i:44534104 original size:113 final size:114
Alignment explanation
Indices: 44533952--44534172 Score: 383
Period size: 113 Copynumber: 1.9 Consensus size: 114
44533942 GAACAACATA
44533952 TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAG
1 TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAG
*
44534017 CATTT-AGACATCAAAATTGGACAACATTATGTATCAAATTGGGTAGCAT
66 CATTTAAG-CATCAAAATTGGACAACATTATGTAACAAATTGGGTAGCAT
* *
44534066 TATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAG
1 TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAG
*
44534130 CATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGG
66 CATTTAAGCATCAAAATTGGACAACATTATGTAACAAATTGGG
44534173 CGGCATTTAG
Statistics
Matches: 102, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
113 81 0.79
114 21 0.21
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (114 bp):
TATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAG
CATTTAAGCATCAAAATTGGACAACATTATGTAACAAATTGGGTAGCAT
Found at i:44534139 original size:159 final size:161
Alignment explanation
Indices: 44533890--44534225 Score: 568
Period size: 159 Copynumber: 2.1 Consensus size: 161
44533880 TTAAGCATCA
*
44533890 AAATTGGACAGCATATATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATAT
1 AAATTGGGCAGCAT-TATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATAT
44533955 GTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCAT
65 GTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCAT
*
44534020 TTAGACATCAAAATTGGACAACATTATGTATC
130 TTAGACATCAAAATTGGACAACATTATGTAAC
* * *
44534052 AAATTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATG
1 AAATTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATATG
* *
44534115 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCGGCATT
66 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATT
* *
44534180 TAGGCATCAAAATTGGACAGCATTATGTAAC
131 TAGACATCAAAATTGGACAACATTATGTAAC
44534211 AAATTGGGCAGCATT
1 AAATTGGGCAGCATT
44534226 TAAGCATCAA
Statistics
Matches: 164, Mismatches: 10, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
159 109 0.66
160 24 0.15
161 19 0.12
162 12 0.07
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (161 bp):
AAATTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATATG
TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATT
TAGACATCAAAATTGGACAACATTATGTAAC
Found at i:44534152 original size:46 final size:46
Alignment explanation
Indices: 44534052--44534328 Score: 484
Period size: 46 Copynumber: 6.0 Consensus size: 46
44534042 ATTATGTATC
**
44534052 AAATTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
*
44534097 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
*
44534143 AAATTGGACAGCATTATGTAACAAATTGGGCGGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
*
44534189 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
44534235 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
* *
44534281 AAATTGGACAGCATTATGCAACAAATTGGGCAGCATTTATGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
44534327 AA
1 AA
44534329 TCAATCCATC
Statistics
Matches: 221, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
45 31 0.14
46 190 0.86
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (46 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
Found at i:44534238 original size:205 final size:208
Alignment explanation
Indices: 44533844--44534271 Score: 675
Period size: 205 Copynumber: 2.1 Consensus size: 208
44533834 ATTCATCAAT
* * *
44533844 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAATTGGACAGCATATATG
1 TTGGGCAGCAT-TATGT--AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATG
*
44533909 TAACAAATTGGGCAGCATTTAGGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCAT
63 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCAT
44533974 TTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGAC
128 TTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGAC
*
44534039 AACATTATGTATCAAA
193 AACATTATGTAACAAA
* *
44534055 TTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATGTAA
1 TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
* * *
44534118 CAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGTAACAAATTGGGCGGCATTTA
66 CAAATTGGGCAGCATTTAAGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCATTTA
* * *
44534182 GGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTA-AGCATCAAAATTGGACAG
131 AGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGA-CATCAAAATTGGACAA
44534246 CATTATGTAACAAA
195 CATTATGTAACAAA
44534260 TTGGGCAGCATT
1 TTGGGCAGCATT
44534272 TAGGCATCAA
Statistics
Matches: 202, Mismatches: 14, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
204 1 0.00
205 107 0.53
206 43 0.21
207 25 0.12
208 12 0.06
210 4 0.02
211 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (208 bp):
TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
CAAATTGGGCAGCATTTAAGCATCAAAATTGAACAACATATATGTAACAAATTGGGCAGCATTTA
AGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAAC
ATTATGTAACAAA
Found at i:44535202 original size:43 final size:43
Alignment explanation
Indices: 44535146--44535269 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
44535136 AACTCATACA
* * *
44535146 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACA-AGCCG
* * * *
44535189 ATGCTACTGTCCCAGACAG-GGTCTTACACGTAAACAGAAGTCG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACGTAAACACAAGCCG
44535232 ATGCCAATGTCCCAGACGTGGTCTTACACG-ATAACACA
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTA-AACACA
44535270 TATCGAAAAT
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.04
43 63 0.94
44 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACACAAGCCG
Found at i:44542215 original size:46 final size:46
Alignment explanation
Indices: 44542144--44542346 Score: 284
Period size: 46 Copynumber: 4.4 Consensus size: 46
44542134 ATATATATAC
* *
44542144 AACAATTTGGGTAGCATTTAAGCATCAAAATTGGACAGCATATATGT
1 AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGT
* * *
44542191 AA-AAATTGAGCAGCATTTAGGCATCAAAATTGAACAGCATATATGT
1 AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCAT-TATGT
*
44542237 AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCT
1 AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGT
*
44542283 AACAAATTGGGCAGCATTT-AGACATCAAAATTGGACAACATTATGT
1 AACAAATTGGGCAGCATTTAAG-CATCAAAATTGGACAGCATTATGT
* *
44542329 ATCAAATTGGGTAGCATT
1 AACAAATTGGGCAGCATT
44542347 ATGTAACAAA
Statistics
Matches: 141, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 102 0.72
47 37 0.26
ACGTcount: A:0.40, C:0.14, G:0.18, T:0.28
Consensus pattern (46 bp):
AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATGT
Found at i:44542241 original size:93 final size:93
Alignment explanation
Indices: 44542130--44542346 Score: 312
Period size: 93 Copynumber: 2.3 Consensus size: 93
44542120 TCAATTTGGG
* * *
44542130 CAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA-A
1 CAGCATATATGT--AACAAATTGGGTAGCATTTAAGCATCAAAATTGGACAGCAT-TATCTAACA
*
44542194 AATTGAGCAGCATTTAGGCATCAAAATTGAA
63 AATTGAGCAGCATTTAGACATCAAAATTGAA
*
44542225 CAGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAAT
1 CAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAAT
* *
44542290 TGGGCAGCATTTAGACATCAAAATTGGA
66 TGAGCAGCATTTAGACATCAAAATTGAA
* *
44542318 CAACAT-TATGTATCAAATTGGGTAGCATT
1 CAGCATATATGTAACAAATTGGGTAGCATT
44542347 ATGTAACAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
92 27 0.24
93 73 0.66
95 11 0.10
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.28
Consensus pattern (93 bp):
CAGCATATATGTAACAAATTGGGTAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAAT
TGAGCAGCATTTAGACATCAAAATTGAA
Found at i:44542389 original size:113 final size:115
Alignment explanation
Indices: 44542226--44542452 Score: 379
Period size: 113 Copynumber: 2.0 Consensus size: 115
44542216 AAAATTGAAC
44542226 AGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATT
1 AGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATT
*
44542291 GGGCAGCATTT-AGACATCAAAATTGGACAACATTATGTATCAAATTGGGT
66 GGGCAGCATTTAAG-CATCAAAATTGGACAACATTATGTAACAAATTGGGT
* *
44542341 AGCAT-TATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCATTATGTAACAAATT
1 AGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATT
* *
44542404 GGGCAGCATTTAAGCATCAAAATTGGATAGCATTATGTAACAAATTGGG
66 GGGCAGCATTTAAGCATCAAAATTGGACAACATTATGTAACAAATTGGG
44542453 CAGTATTTAA
Statistics
Matches: 106, Mismatches: 5, Indels: 4
0.92 0.04 0.03
Matches are distributed among these distances:
113 80 0.75
114 21 0.20
115 5 0.05
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.28
Consensus pattern (115 bp):
AGCATATATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATT
GGGCAGCATTTAAGCATCAAAATTGGACAACATTATGTAACAAATTGGGT
Found at i:44542422 original size:159 final size:160
Alignment explanation
Indices: 44542171--44542505 Score: 541
Period size: 159 Copynumber: 2.1 Consensus size: 160
44542161 TTAAGCATCA
*
44542171 AAATTGGACAGCATATATGTAAAAATTGAGCAGCATTTAGGCATCAAAATTGAACAGCATATATG
1 AAATTGGGCAGCAT-TATGTAAAAATTGAGCAGCATTTAGGCATCAAAATTGAACAGCATATATG
44542236 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATT
65 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATT
*
44542301 T-AGACATCAAAATTGGACAACATTATGTATC
130 TAAG-CATCAAAATTGGACAACATTATGTAAC
* * *
44542332 AAATTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATG
1 AAATTGGGCAGCATTATGTAA-AAATTGAGCAGCATTTAGGCATCAAAATTGAACAGCATATATG
* * *
44542395 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGATAGCATTATGTAACAAATTGGGCAGTATT
65 TAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATT
*
44542460 TAAGCATCAAAATTGGACAGCATTATGTAAC
130 TAAGCATCAAAATTGGACAACATTATGTAAC
44542491 AAATTGGGCAGCATT
1 AAATTGGGCAGCATT
44542506 TAGGCATCAA
Statistics
Matches: 162, Mismatches: 10, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
159 106 0.65
160 34 0.21
161 22 0.14
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (160 bp):
AAATTGGGCAGCATTATGTAAAAATTGAGCAGCATTTAGGCATCAAAATTGAACAGCATATATGT
AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTT
AAGCATCAAAATTGGACAACATTATGTAAC
Found at i:44542436 original size:46 final size:46
Alignment explanation
Indices: 44542332--44542562 Score: 374
Period size: 46 Copynumber: 5.0 Consensus size: 46
44542322 ATTATGTATC
** *
44542332 AAATTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
44542377 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
* *
44542423 AAATTGGATAGCATTATGTAACAAATTGGGCAGTATTTAAGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
*
44542469 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
* * *
44542515 AAATTGGACAGCATTATGCAACAAATTTGGCAGCATTTATGCATCA
1 AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
44542561 AA
1 AA
44542563 TCAATCCATC
Statistics
Matches: 174, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
45 31 0.18
46 143 0.82
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.28
Consensus pattern (46 bp):
AAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCA
Found at i:44542518 original size:205 final size:207
Alignment explanation
Indices: 44542125--44542551 Score: 653
Period size: 205 Copynumber: 2.1 Consensus size: 207
44542115 ATTCATCAAT
* * *
44542125 TTGGGCAGCATATATATACAACAATTTGGGTAGCATTTAAGCATCAAAATTGGACAGCATATATG
1 TTGGGCAGCAT-TATGT--AACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATG
*
44542190 TAAAAATTGAGCAGCATTTAGGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCATT
63 TAAAAATTGAGCAGCATTTAAGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCATT
44542255 TAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACA
128 TAAGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACA
* *
44542320 ACATTATGTATCAAA
193 ACATTATGCAACAAA
* *
44542335 TTGGGTAGCATTATGTAACAAATTGGGCAG-ATTTAGGCATCAAAATTGGACAGCAT-TATGTAA
1 TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
* * * *
44542398 CAAATTGGGCAGCATTTAAGCATCAAAATTGGATAGCAT-TATGTAACAAATTGGGCAGTATTTA
66 -AAATTGAGCAGCATTTAAGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCATTTA
* * *
44542462 AGCATCAAAATTGGACAGCATTATGTAACAAATTGGGCAGCATTTAGGCATCAAAATTGGACAGC
130 AGCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAAC
44542527 ATTATGCAACAAA
195 ATTATGCAACAAA
*
44542540 TTTGGCAGCATT
1 TTGGGCAGCATT
44542552 TATGCATCAA
Statistics
Matches: 199, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
205 114 0.57
206 59 0.30
207 12 0.06
209 4 0.02
210 10 0.05
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (207 bp):
TTGGGCAGCATTATGTAACAAATTGGGCAGCATTTAAGCATCAAAATTGGACAGCATATATGTAA
AAATTGAGCAGCATTTAAGCATCAAAATTGAACAGCATATATGTAACAAATTGGGCAGCATTTAA
GCATCAAAATTGGACAGCATTATCTAACAAATTGGGCAGCATTTAGACATCAAAATTGGACAACA
TTATGCAACAAA
Found at i:44543449 original size:43 final size:43
Alignment explanation
Indices: 44543383--44543508 Score: 152
Period size: 43 Copynumber: 2.9 Consensus size: 43
44543373 AACTCGTACA
44543383 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATACT-G
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAA-CACATACTCG
* * *
44543426 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAAGACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGT-AACACATACTCG
44543469 ATGCCAACGTCCCAGACGTGGTCTTACATGATAACACATA
1 ATGCCAACGTCCCAGACGTGGTCTTACATG-TAACACATA
44543509 TCGGAAATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 15
0.78 0.06 0.17
Matches are distributed among these distances:
42 5 0.07
43 58 0.83
44 7 0.10
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAACACATACTCG
Found at i:44548681 original size:25 final size:25
Alignment explanation
Indices: 44548591--44548732 Score: 144
Period size: 25 Copynumber: 5.7 Consensus size: 25
44548581 TCATGTACAT
* *
44548591 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTATAAATTG
* * * * *
44548616 GTATGCTCACTCGAGCCATAGATTA
1 GTATGCTCTCACGAGCTATAAATTG
* *
44548641 GTATGCTCTTAGGAGCTAT-AATTCG
1 GTATGCTCTCACGAGCTATAAATT-G
44548666 GTATGCTCTCACGAGCTATAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
* * *
44548691 GCATGCTCTCATGAGATATAAATTG
1 GTATGCTCTCACGAGCTATAAATTG
44548716 GTATGCTCTCACGAGCT
1 GTATGCTCTCACGAGCT
44548733 GTGGGTTATC
Statistics
Matches: 92, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
24 3 0.03
25 85 0.92
26 4 0.04
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTATAAATTG
Found at i:44556332 original size:18 final size:18
Alignment explanation
Indices: 44556305--44556347 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
44556295 CATTTGGTAT
44556305 CGATACTTCTATGAGTAC
1 CGATACTTCTATGAGTAC
* *
44556323 CGATATTTCTATGAGTAT
1 CGATACTTCTATGAGTAC
44556341 CGATACT
1 CGATACT
44556348 ATTCAATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (18 bp):
CGATACTTCTATGAGTAC
Found at i:44559506 original size:18 final size:19
Alignment explanation
Indices: 44559483--44559523 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
44559473 AATATTACAC
44559483 ATTTCAATTTT-ACATTAA
1 ATTTCAATTTTCACATTAA
*
44559501 ATTTCAATTTTCACATTAT
1 ATTTCAATTTTCACATTAA
44559520 ATTT
1 ATTT
44559524 TGCTTATCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTCAATTTTCACATTAA
Found at i:44564689 original size:25 final size:24
Alignment explanation
Indices: 44564658--44564708 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
44564648 ATGGTTTTAA
44564658 TTAATTTTTAAATTTTTTATAAATT
1 TTAA-TTTTAAATTTTTTATAAATT
** *
44564683 TTAATTTTATGTTTTTTATATATT
1 TTAATTTTAAATTTTTTATAAATT
44564707 TT
1 TT
44564709 TAAAATAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (24 bp):
TTAATTTTAAATTTTTTATAAATT
Found at i:44571448 original size:94 final size:94
Alignment explanation
Indices: 44571129--44571449 Score: 308
Period size: 94 Copynumber: 3.4 Consensus size: 94
44571119 CCTCAAAAGA
* * ***** *
44571129 GGTTACATGTGTAAGACTTTA-TCTTGGCTATGAC-ACATGGGGAGTTTGCCGAGACAGTAAACA
1 GGTTACATGTGTAAGACCTTAGT-TTGGCTATGACAACATGAGGAGCCCATCAAGACAGTAAACA
* *
44571192 CGGGGTAGTCCGCCATGACGTTAAACATGG
65 CGGGGTAGTCCGCCAGGACATTAAACATGG
*** * * * * *
44571222 GGTTACATGTGTAAGACCTTA-TCTCAACTATGGCAATATAAGGAGTCCATCAAGACAGCAAACA
1 GGTTACATGTGTAAGACCTTAGT-TTGGCTATGACAACATGAGGAGCCCATCAAGACAGTAAACA
* * *
44571286 CGGGGTAGTCTGTCAGGATATTAAACATGG
65 CGGGGTAGTCCGCCAGGACATTAAACATGG
* * ** *
44571316 GGTTACATGTGTAAGACCTTAGCTTGGCTATGGA-AACATGGGGAGCCCATCGGGATAGTAAACA
1 GGTTACATGTGTAAGACCTTAGTTTGGCTAT-GACAACATGAGGAGCCCATCAAGACAGTAAACA
* * *
44571380 TGGGGTAGTCCACCAGGACATTTAACATGG
65 CGGGGTAGTCCGCCAGGACATTAAACATGG
* *
44571410 GGTTACATGTGTAAGACCATAGTTTGGCTGTGACAACATG
1 GGTTACATGTGTAAGACCTTAGTTTGGCTATGACAACATG
44571450 TGAAGTCCAT
Statistics
Matches: 183, Mismatches: 41, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
93 31 0.17
94 151 0.83
95 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (94 bp):
GGTTACATGTGTAAGACCTTAGTTTGGCTATGACAACATGAGGAGCCCATCAAGACAGTAAACAC
GGGGTAGTCCGCCAGGACATTAAACATGG
Found at i:44582552 original size:20 final size:21
Alignment explanation
Indices: 44582527--44582565 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44582517 ATAATGTTAT
*
44582527 AAAATTT-TAACAATATAATG
1 AAAATTTATAACAAAATAATG
44582547 AAAATTTATAACAAAATAA
1 AAAATTTATAACAAAATAA
44582566 CATAAATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAATTTATAACAAAATAATG
Found at i:44587878 original size:23 final size:23
Alignment explanation
Indices: 44587848--44587891 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44587838 CTAGAAGTAA
*
44587848 TGATTACTTATATAACAATTTCT
1 TGATTACTTATAAAACAATTTCT
44587871 TGATTACTTATAAAACAATTT
1 TGATTACTTATAAAACAATTT
44587892 GGCGTATACG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.45
Consensus pattern (23 bp):
TGATTACTTATAAAACAATTTCT
Found at i:44588976 original size:39 final size:38
Alignment explanation
Indices: 44588918--44588991 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
44588908 CTAACACTCA
**
44588918 CACCAACTGGTTAGTAACTAACATAG-CCTACCAGTGGC
1 CACCAACTGGTTAACAACTAACAT-GTCCTACCAGTGGC
44588956 CACCAAACTGGTTAACAACTAACATGTCCTACCAGT
1 CACC-AACTGGTTAACAACTAACATGTCCTACCAGT
44588992 TGCCTATCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.34, C:0.30, G:0.15, T:0.22
Consensus pattern (38 bp):
CACCAACTGGTTAACAACTAACATGTCCTACCAGTGGC
Found at i:44593651 original size:20 final size:20
Alignment explanation
Indices: 44593625--44593742 Score: 96
Period size: 20 Copynumber: 5.9 Consensus size: 20
44593615 TAGAAATGCT
44593625 AACAAAGGCACCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
44593645 TACAAAGGTACCGAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
44593665 AACAGAGGCA-CTACAGTGCA
1 AACAAAGGCACCGA-AGTGCA
* * * **
44593685 TACAGAGGTACTAAAGTGCA
1 AACAAAGGCACCGAAGTGCA
* *
44593705 AACATAGGCACCAAAGTGCA
1 AACAAAGGCACCGAAGTGCA
*
44593725 AA-AAGAGGCATCGAAGTG
1 AACAA-AGGCACCGAAGTG
44593743 TAAATCCCGT
Statistics
Matches: 78, Mismatches: 17, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
19 3 0.04
20 74 0.95
21 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.12
Consensus pattern (20 bp):
AACAAAGGCACCGAAGTGCA
Found at i:44593685 original size:40 final size:40
Alignment explanation
Indices: 44593625--44593724 Score: 128
Period size: 40 Copynumber: 2.5 Consensus size: 40
44593615 TAGAAATGCT
* * *
44593625 AACAAAGGCACCGAAGTGCATACAAAGGTACCGAAGTGCA
1 AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
* * * *
44593665 AACAGAGGCACTACAGTGCATACAGAGGTACTAAAGTGCA
1 AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
*
44593705 AACATAGGCACCAAAGTGCA
1 AACAGAGGCACCAAAGTGCA
44593725 AAAAGAGGCA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (40 bp):
AACAGAGGCACCAAAGTGCATACAAAGGTACCAAAGTGCA
Found at i:44593742 original size:40 final size:40
Alignment explanation
Indices: 44593607--44593742 Score: 96
Period size: 40 Copynumber: 3.4 Consensus size: 40
44593597 CAATCGCACC
* * * * *
44593607 AGAGAGCATAGAAATGCTAACAAAGGCACCGAAGTGCATACA
1 AGAG-GCATCGAAGTGCAAACAAAGGCACCAAAGTGCA-AAA
* * * * * * *
44593649 A-AGGTACCGAAGTGCAAACAGAGGCACTACAGTGCATAC
1 AGAGGCATCGAAGTGCAAACAAAGGCACCAAAGTGCAAAA
* * *
44593688 AGAGGTA-CTAAAGTGCAAACATAGGCACCAAAGTGCAAAA
1 AGAGGCATC-GAAGTGCAAACAAAGGCACCAAAGTGCAAAA
44593728 AGAGGCATCGAAGTG
1 AGAGGCATCGAAGTG
44593743 TAAATCCCGT
Statistics
Matches: 71, Mismatches: 20, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
39 2 0.03
40 65 0.92
41 3 0.04
42 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.26, T:0.12
Consensus pattern (40 bp):
AGAGGCATCGAAGTGCAAACAAAGGCACCAAAGTGCAAAA
Found at i:44594791 original size:69 final size:70
Alignment explanation
Indices: 44594696--44594830 Score: 227
Period size: 69 Copynumber: 1.9 Consensus size: 70
44594686 TGGAAGAAAG
* *
44594696 AATTTTTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAATTAACAAATACATT
1 AATTTGTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATT
44594761 ACTTT
66 ACTTT
* *
44594766 AATTTGTTTT-ATGTTTTTATGTTTTAACTCATGTTTATAATTTTAGTTAACTAACAAATACATT
1 AATTTGTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATT
44594830 A
66 A
44594831 TTTTCATTAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
69 52 0.85
70 9 0.15
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (70 bp):
AATTTGTTTTAATGTTTTTATGTTTTAACTAATGTTTATAATTTTAATTAACTAACAAATACATT
ACTTT
Found at i:44600497 original size:16 final size:17
Alignment explanation
Indices: 44600469--44600500 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
44600459 TACTTAATGA
44600469 TTAAAATATATAATATT
1 TTAAAATATATAATATT
44600486 TTAAAATA-ATAATAT
1 TTAAAATATATAATAT
44600501 CATCAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTAAAATATATAATATT
Found at i:44604342 original size:57 final size:57
Alignment explanation
Indices: 44604203--44604381 Score: 256
Period size: 56 Copynumber: 3.1 Consensus size: 57
44604193 TTTTCCAAAT
* *
44604203 CATTTTCATTTTCATTTAGGAGAAAACCGTATTCATTTCCAAATGTTTTCA-TTCTC
1 CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCCATTTCTC
44604259 CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCCATTTCTC
1 CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCCATTTCTC
* * * *
44604316 CATTTTCAATTTCCTTTTA-GAGAAAACCATA-ACAATTTTCAAATGTTTCTCATTTCTC
1 CATTTTC-ATTTTCATTTAGGAGAAAACCATATTC-ATTTCCAAATGTTTC-CATTTCTC
44604374 CATTTTCA
1 CATTTTCA
44604382 CAATTTCTAT
Statistics
Matches: 113, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
56 50 0.44
57 39 0.35
58 24 0.21
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (57 bp):
CATTTTCATTTTCATTTAGGAGAAAACCATATTCATTTCCAAATGTTTCCATTTCTC
Found at i:44606453 original size:80 final size:80
Alignment explanation
Indices: 44606320--44606469 Score: 219
Period size: 80 Copynumber: 1.9 Consensus size: 80
44606310 ATTATGTCCG
* * ** *
44606320 TTTGAGCCATACCTAGTGAATCTACTAAAACGTATGTTCTTTCGAGCCATACCTACTGAATCTAC
1 TTTGAGCCATACCTACTGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
44606385 TGAAATGAATGCGCT
66 TGAAATGAATGCGCT
* * * *
44606400 TTTGAGCCATACCTACTGATTCCACTGAAACGTATGCGCTATCGAGCCTTACCTACTGATTCTAC
1 TTTGAGCCATACCTACTGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
44606465 TGAAA
66 TGAAA
44606470 GTATGCTTTA
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 61 1.00
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.31
Consensus pattern (80 bp):
TTTGAGCCATACCTACTGAATCCACTAAAACGTATGCGCTATCGAGCCATACCTACTGAATCTAC
TGAAATGAATGCGCT
Found at i:44606492 original size:39 final size:40
Alignment explanation
Indices: 44606323--44606502 Score: 179
Period size: 40 Copynumber: 4.5 Consensus size: 40
44606313 ATGTCCGTTT
* * * *
44606323 GAGCCATACCTAGTGAATCTACTAAAACGTATG-TTCTTTC
1 GAGCCATACCTACTGATTCTACTGAAACGTATGCTT-TATC
* * *
44606363 GAGCCATACCTACTGAATCTACTGAAATGAATGCGCTTT-T-
1 GAGCCATACCTACTGATTCTACTGAAACGTAT--GCTTTATC
* **
44606403 GAGCCATACCTACTGATTCCACTGAAACGTATGCGCTATC
1 GAGCCATACCTACTGATTCTACTGAAACGTATGCTTTATC
*
44606443 GAGCCTTACCTACTGATTCTACTGAAA-GTATGCTTTATC
1 GAGCCATACCTACTGATTCTACTGAAACGTATGCTTTATC
* * *
44606482 AATCCATACCTAATGATTCTA
1 GAGCCATACCTACTGATTCTA
44606503 GTGGAAGTTG
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
38 3 0.03
39 28 0.24
40 81 0.69
41 1 0.01
42 2 0.02
43 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (40 bp):
GAGCCATACCTACTGATTCTACTGAAACGTATGCTTTATC
Found at i:44611844 original size:27 final size:27
Alignment explanation
Indices: 44611814--44611991 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
44611804 ATATTGAGCC
* *
44611814 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
44611841 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
44611868 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
44611896 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
44611923 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
44611950 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
44611977 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
44611992 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:44611953 original size:82 final size:81
Alignment explanation
Indices: 44611835--44611990 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
44611825 TGCTATATAA
* * *
44611835 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
44611900 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44611917 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
44611981 CCCTTAGTGC
65 CACTTAGTGC
44611991 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44615523 original size:74 final size:74
Alignment explanation
Indices: 44615439--44615588 Score: 228
Period size: 74 Copynumber: 2.0 Consensus size: 74
44615429 AGTGGGCCAT
* *
44615439 GGCCCCCCAAGGTTTAAAATTTTTTCAATTTAGCCCTTTGTAGATATACTATGGCCCTCCCAAAA
1 GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
*
44615504 ATATAAGTA
66 ATACAAGTA
** ** *
44615513 GGCCCCCCAAGGTTTAAGCTTTTTGCAATTTTTCCCTTTGTATATATACTATAGCCCTCCCAAAA
1 GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
44615578 ATACAAGTA
66 ATACAAGTA
44615587 GG
1 GG
44615589 GCCTTCCAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (74 bp):
GGCCCCCCAAGGTTTAAAATTTTTGCAATTTAGCCCTTTGTAGATATACTATAGCCCTCCCAAAA
ATACAAGTA
Found at i:44615992 original size:18 final size:18
Alignment explanation
Indices: 44615965--44616003 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
44615955 TTCTAAATGT
*
44615965 AAAAGAAAAAT-CAAACA
1 AAAAGAAAAATAAAAACA
44615982 AAAATGAAAAATAAAAACA
1 AAAA-GAAAAATAAAAACA
44616001 AAA
1 AAA
44616004 GCAACCCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 7 0.37
19 8 0.42
ACGTcount: A:0.79, C:0.08, G:0.05, T:0.08
Consensus pattern (18 bp):
AAAAGAAAAATAAAAACA
Found at i:44623332 original size:27 final size:28
Alignment explanation
Indices: 44623292--44623360 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 28
44623282 TTAATTGAAT
*
44623292 TCTT-TTCTCCTTCTTGTTACGTTTTTTC
1 TCTTCTTCT-CTTCTTCTTACGTTTTTTC
**
44623320 -CTTCTTCTCTTCTTCTTATTTTTTTTC
1 TCTTCTTCTCTTCTTCTTACGTTTTTTC
*
44623347 TTTTCTTC-CTTCTT
1 TCTTCTTCTCTTCTT
44623361 TTCCTTTCCT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
27 25 0.71
28 10 0.29
ACGTcount: A:0.03, C:0.26, G:0.03, T:0.68
Consensus pattern (28 bp):
TCTTCTTCTCTTCTTCTTACGTTTTTTC
Found at i:44626740 original size:18 final size:18
Alignment explanation
Indices: 44626717--44626752 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44626707 TGTATAATAT
* *
44626717 TATATCATGTTATTTTTA
1 TATATCAAGTAATTTTTA
44626735 TATATCAAGTAATTTTTA
1 TATATCAAGTAATTTTTA
44626753 ACACATAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
TATATCAAGTAATTTTTA
Found at i:44631796 original size:30 final size:30
Alignment explanation
Indices: 44631752--44631809 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44631742 CTAGGCCTTC
* * *
44631752 CCACACGGGTTGGACACACGGCCATGTGAG
1 CCACACAGGATGGACACACAGCCATGTGAG
*
44631782 CCACACAGGATGGACACACAGTCATGTG
1 CCACACAGGATGGACACACAGCCATGTG
44631810 CCAGACCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.29, G:0.29, T:0.14
Consensus pattern (30 bp):
CCACACAGGATGGACACACAGCCATGTGAG
Found at i:44644264 original size:22 final size:22
Alignment explanation
Indices: 44644237--44644284 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
44644227 CAATCTTTGG
*
44644237 AGAATTTGAAAGA-ACTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
* *
44644258 AGAAATTGAGAGAGAGTGAAAA
1 AGAAATTGAAAGAGACTGAAAA
44644280 AGAAA
1 AGAAA
44644285 AGAAAAATGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 11 0.48
22 12 0.52
ACGTcount: A:0.58, C:0.02, G:0.25, T:0.15
Consensus pattern (22 bp):
AGAAATTGAAAGAGACTGAAAA
Found at i:44644333 original size:20 final size:20
Alignment explanation
Indices: 44644308--44644356 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
44644298 AAAAGAAAAG
44644308 AAAGAAGAGAGATTGAGAGA
1 AAAGAAGAGAGATTGAGAGA
** *
44644328 AAAGAATCGAGATTGTGAGA
1 AAAGAAGAGAGATTGAGAGA
*
44644348 AAACAAGAG
1 AAAGAAGAG
44644357 CAATGAAAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.53, C:0.04, G:0.31, T:0.12
Consensus pattern (20 bp):
AAAGAAGAGAGATTGAGAGA
Found at i:44646440 original size:22 final size:22
Alignment explanation
Indices: 44646415--44646456 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
44646405 CTTACCATTT
**
44646415 CGTACCAATTCCAAATACCAAA
1 CGTACCAAAACCAAATACCAAA
44646437 CGTACCAAAACCAAATACCA
1 CGTACCAAAACCAAATACCA
44646457 TTTCTTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.33, G:0.05, T:0.14
Consensus pattern (22 bp):
CGTACCAAAACCAAATACCAAA
Found at i:44648763 original size:16 final size:16
Alignment explanation
Indices: 44648744--44648774 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44648734 TGAAATAAGG
44648744 TTGTAATGGAATAGAA
1 TTGTAATGGAATAGAA
*
44648760 TTGTAATGTAATAGA
1 TTGTAATGGAATAGA
44648775 GCTGTAATCA
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:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTGTAATGGAATAGAA
Found at i:44648852 original size:44 final size:46
Alignment explanation
Indices: 44648764--44648856 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
44648754 ATAGAATTGT
* *
44648764 AATGTAATAGAGCTGTAATCAGTAATTCAGTTGTTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGATTGAATGG
* *
44648810 AATGGAATAGAGTTGTAAT-AGT-ATTC-TTGTGTTTGATTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAGT-TGTTTGATTGAATGG
44648854 AAT
1 AAT
44648857 AGATATTGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.50
45 3 0.07
46 17 0.40
ACGTcount: A:0.31, C:0.04, G:0.26, T:0.39
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAGTTGTTTGATTGAATGG
Found at i:44649037 original size:21 final size:21
Alignment explanation
Indices: 44649008--44649077 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
44648998 TAATCATATT
*
44649008 TAATATAATAATTATTAAATA
1 TAATTTAATAATTATTAAATA
* *
44649029 TAATTTAATAA-AAATAATATA
1 TAATTTAATAATTATTAA-ATA
*
44649050 TAATTTAATAACATTCTT-AATA
1 TAATTTAAT-A-ATTATTAAATA
44649072 TAATTT
1 TAATTT
44649078 GGTTCATCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 7
0.75 0.12 0.13
Matches are distributed among these distances:
20 4 0.10
21 22 0.56
22 10 0.26
23 2 0.05
24 1 0.03
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (21 bp):
TAATTTAATAATTATTAAATA
Found at i:44649054 original size:57 final size:55
Alignment explanation
Indices: 44648964--44649075 Score: 131
Period size: 57 Copynumber: 2.0 Consensus size: 55
44648954 TAATAGGATT
*
44648964 ATTATTAAACATAATTTTATAATAATAACTAATTTAAT-CATAT-TTAATATAATA
1 ATTATTAAACATAATTTTAAAATAATAACTAATTTAATACAT-TCTTAATATAATA
*
44649018 ATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAACATTCTTAATATAAT
1 ATTATTAAACATAATTT--T-AAAATAATA-ACTAATTTAAT-ACATTCTTAATATAAT
44649076 TTGGTTCATC
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
54 16 0.33
56 1 0.02
57 17 0.35
58 2 0.04
59 13 0.27
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (55 bp):
ATTATTAAACATAATTTTAAAATAATAACTAATTTAATACATTCTTAATATAATA
Found at i:44664324 original size:16 final size:16
Alignment explanation
Indices: 44664303--44664342 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
44664293 GTTGAACTGG
*
44664303 TTTTTATTTTTA-AAT
1 TTTTTAATTTTATAAT
44664318 ATTTTTAATTTTATAAT
1 -TTTTTAATTTTATAAT
44664335 TTTTTAAT
1 TTTTTAAT
44664343 AATTTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTAATTTTATAAT
Found at i:44672562 original size:3 final size:3
Alignment explanation
Indices: 44672554--44672579 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44672544 AATATGGTTC
44672554 TGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TG
44672580 CCCCTTATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.35, T:0.65
Consensus pattern (3 bp):
TGT
Found at i:44675736 original size:29 final size:29
Alignment explanation
Indices: 44675704--44675762 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
44675694 TTGCGAATTC
*
44675704 TTGGACTGCCCACCATTTTGGCTTGCACT
1 TTGGACTGCCCACCAATTTGGCTTGCACT
*
44675733 TTGGACTGTCCACCAATTTGGCTTGCACT
1 TTGGACTGCCCACCAATTTGGCTTGCACT
44675762 T
1 T
44675763 GGATTGTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.15, C:0.29, G:0.20, T:0.36
Consensus pattern (29 bp):
TTGGACTGCCCACCAATTTGGCTTGCACT
Found at i:44675784 original size:28 final size:29
Alignment explanation
Indices: 44675704--44675785 Score: 85
Period size: 29 Copynumber: 2.9 Consensus size: 29
44675694 TTGCGAATTC
* * *
44675704 TTGGACTGCCCACCATTTTGGCTTGCACT
1 TTGGACTGTCCACCAATTTAGCTTGCACT
*
44675733 TTGGACTGTCCACCAATTTGGCTTGCAC-
1 TTGGACTGTCCACCAATTTAGCTTGCACT
* ** *
44675761 TTGGATTGTCTGCCACTTTAGCTTG
1 TTGGACTGTCCACCAATTTAGCTTG
44675786 TAGTGTCCAT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 20 0.43
29 26 0.57
ACGTcount: A:0.15, C:0.27, G:0.22, T:0.37
Consensus pattern (29 bp):
TTGGACTGTCCACCAATTTAGCTTGCACT
Found at i:44675837 original size:29 final size:29
Alignment explanation
Indices: 44675795--44675868 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
44675785 GTAGTGTCCA
*
44675795 TCATTTTGGCTTGCACTTTGGACTATCCG
1 TCATTTTGGCTTGCACTTTGGACTACCCG
44675824 TCATTTTGGCTTGCAC-TTGGACTACCCG
1 TCATTTTGGCTTGCACTTTGGACTACCCG
* *
44675852 TCACTTTGGCTTTCACT
1 TCATTTTGGCTTGCACT
44675869 GTCTACCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 25 0.61
29 16 0.39
ACGTcount: A:0.14, C:0.27, G:0.19, T:0.41
Consensus pattern (29 bp):
TCATTTTGGCTTGCACTTTGGACTACCCG
Found at i:44675857 original size:79 final size:79
Alignment explanation
Indices: 44675708--44675892 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 79
44675698 GAATTCTTGG
* * * ** *
44675708 ACTGCCCACCATTTTGGCTTGCACTTTGGACTGTCCACCAATTTGGCTTGCACTTGGATTGTCTG
1 ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
44675773 CCACTTTAGCTTGT-
66 CCACTTTAGCTT-TC
* * ** *
44675787 AGTGTCCATCATTTTGGCTTGCACTTTGGACTATCCGTCATTTTGGCTTGCACTTGGACTACCCG
1 ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
* *
44675852 TCACTTTGGCTTTC
66 CCACTTTAGCTTTC
*
44675866 ACTGTCTACCATTTTGGCTTGCACTTT
1 ACTGTCCACCATTTTGGCTTGCACTTT
44675893 TTCATCTCGT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 88 0.99
ACGTcount: A:0.15, C:0.27, G:0.19, T:0.39
Consensus pattern (79 bp):
ACTGTCCACCATTTTGGCTTGCACTTTGGACTATCCACCAATTTGGCTTGCACTTGGACTACCCG
CCACTTTAGCTTTC
Found at i:44678401 original size:3 final size:3
Alignment explanation
Indices: 44678393--44678417 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44678383 TGAATGCTTA
44678393 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
44678418 GATTTTTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:44681447 original size:3 final size:3
Alignment explanation
Indices: 44681439--44681467 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
44681429 GTTTAAGGTA
44681439 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
44681468 ATAGAAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:44687652 original size:251 final size:251
Alignment explanation
Indices: 44687307--44687771 Score: 702
Period size: 251 Copynumber: 1.9 Consensus size: 251
44687297 GTGGTGTTTT
* * *
44687307 AACGCCACTGAAGGTATGCTATAGTGGCGTTTTATATTGAAACGCCGCAAATCCATAAATGTTTG
1 AACGCCACTGAAGGTATACTATAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTTTG
* * * *
44687372 TCTGTACGAAAACGGCGTCGTTTTCTTAAATGATTTGAACTCCTTACTGGCGTTTTTATTTAAAA
66 TCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAAAA
* * * *
44687437 CGCCGCAAACTGTGATATTTAGCGGCGTTTGGTATGGAAACGCCACAAATGTGCATTACAAAATG
131 CGCCGC-AACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAATG
44687502 TTCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
195 TTCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
* *
44687559 AACGCCACAT-AAGGTATAC-AGTAGTGGCGTTTT-TATAGAAACACCGCAAATTCATACATGTT
1 AACGCCAC-TGAAGGTATACTA-TAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTT
* * *
44687621 TTTGTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTAGTGGCGTTTGTATTTAA
64 TGTCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAA
* *
44687686 AACGCCGCAACTGTAAGCTTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGTATTACAAAAT
129 AACGCCGCAACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAAT
**
44687751 GTTCAGAACGTTGCCGTTTCG
194 GTTCAGAACGTCACCGTTTCG
44687772 GTTGAGGAAC
Statistics
Matches: 191, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
250 70 0.37
251 92 0.48
252 28 0.15
253 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (251 bp):
AACGCCACTGAAGGTATACTATAGTGGCGTTTTATATAGAAACACCGCAAATCCATAAATGTTTG
TCTGAACGAAAACGGCATCGTTTTCTTAAATGATTTGAACTCATTACTGGCGTTTGTATTTAAAA
CGCCGCAACTGTAAGATTTAGCGGCGTTTAGTATGAAAACGCCACAAATGTGCATTACAAAATGT
TCAGAACGTCACCGTTTCGTTACATGAATTTGAATTTTAGTGGCGTTTGTATGAAA
Found at i:44705616 original size:81 final size:80
Alignment explanation
Indices: 44705505--44705740 Score: 307
Period size: 81 Copynumber: 2.9 Consensus size: 80
44705495 AGTCTTCTCA
* * *
44705505 TTTGGAAATAAAATCAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAATCTAGAAACAGTTT
1 TTTGGAAACAAAATTAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAATCT-GAAACAGATT
44705570 TTCAATTTAATTCTAT
65 TTCAATTTAATTCTAT
* * *
44705586 TTTGGAAACAAAATTAAAATCGAATAAAATTTGTT-AAACGACAGGAATAAATCCTGAAAAAGAT
1 TTTGGAAACAAAATTAAAATCGAATAAAATTTGTTAAAAGGA-GGGAATAAAT-CTGAAACAGAT
*
44705650 TTTCAATTTAATTTTAT
64 TTTCAATTTAATTCTAT
* * * * *
44705667 CTTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATT
1 TTTGGAAACAAAATTAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAAT-CTGAAACAGATT
44705732 TT--ATTTAAT
65 TTCAATTTAAT
44705741 GTTAATTTCT
Statistics
Matches: 137, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 7 0.05
80 5 0.04
81 119 0.87
82 6 0.04
ACGTcount: A:0.47, C:0.09, G:0.13, T:0.31
Consensus pattern (80 bp):
TTTGGAAACAAAATTAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAATCTGAAACAGATTT
TCAATTTAATTCTAT
Found at i:44705704 original size:162 final size:166
Alignment explanation
Indices: 44705506--44705832 Score: 405
Period size: 162 Copynumber: 2.0 Consensus size: 166
44705496 GTCTTCTCAT
* * * *
44705506 TTGGAAATAAAATCAAAATCGAATAAAATTTGTTAAAAGGAGGGAATAAATCTAGAAACAG-TTT
1 TTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAAAGGAGAGAATAAATCCAGAAACAGATTT
* * * * *
44705570 -TTCAAT-TTAA-TTCT-ATTTTGGAAACAAAAT-TAAAATCGAATAAAATTTGTTAAACGACAG
66 ATTCAATGTTAATTTCTCATTTTAGAAACAAAATAGAAAATCGAATAAAATCTATTAAACGACAA
*
44705630 GAATAAATCCTGAAAAAGATTTTCAATTTAATTTTATC
131 GAATAAATCCTGAAAAAGATATT--ATTTAATTTTATC
* * *
44705668 TTGGAAACAAAATTAAAATCGAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTT
1 TTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAAAGGAGAGAATAAATCCAGAAACAGA-TT
* * * * *
44705733 TATTTAATGTTAATTTCTCGTTTTAGCAACAAAATAGAAAATGGAATAAAATCTATTAAATGACA
65 TATTCAATGTTAATTTCTCATTTTAGAAACAAAATAGAAAATCGAATAAAATCTATTAAACGACA
* *
44705798 AGAATAAATCTTGAAACAGATATTATTTAATTTTA
130 AGAATAAATCCTGAAAAAGATATTATTTAATTTTA
44705833 ATACTCGTTT
Statistics
Matches: 138, Mismatches: 20, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
162 54 0.39
164 3 0.02
165 5 0.04
166 4 0.03
167 15 0.11
168 13 0.09
169 44 0.32
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.32
Consensus pattern (166 bp):
TTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAAAGGAGAGAATAAATCCAGAAACAGATTT
ATTCAATGTTAATTTCTCATTTTAGAAACAAAATAGAAAATCGAATAAAATCTATTAAACGACAA
GAATAAATCCTGAAAAAGATATTATTTAATTTTATC
Found at i:44705882 original size:78 final size:79
Alignment explanation
Indices: 44705688--44705996 Score: 255
Period size: 87 Copynumber: 3.7 Consensus size: 79
44705678 AATTAAAATC
* * * * * * *
44705688 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATGTTAATTTCTCG
1 GAATAAAATCTGTTGAATGGCG-GAATAAATCCTGAAACAGATATTATTTAATTTTAA-TACTCG
* *
44705753 TTTTAGCAACAAAATAGAAAATG
64 -TTT-G-GA-AAGA-A-AAAA-G
* * * * *
44705776 GAATAAAATCTATTAAATGACAAGAATAAATCTTGAAACAGATATTATTTAATTTTAATACTCGT
1 GAATAAAATCTGTTGAATGGC-GGAATAAATCCTGAAACAGATATTATTTAATTTTAATACTCGT
44705841 TTGG-AA-AAAAAAG
65 TTGGAAAGAAAAAAG
* * *
44705854 GAATAAAATCTGTTGAATGGCTGGAATAAATCCTGGAACAGATTTTATTTAAATTTTAATACTTG
1 GAATAAAATCTGTTGAATGGC-GGAATAAATCCTGAAACAGATATTATTT-AATTTTAATACTCG
44705919 TTTGGAAACAAAGTAAAAAATG
64 TTTGG----AAAG-AAAAAA-G
*
44705941 GAATAAAATCTGTTGAATGGCGAGAATAAATCCCGAAACAGA-ATTTATTTAATTTT
1 GAATAAAATCTGTTGAATGGCG-GAATAAATCCTGAAACAGATA-TTATTTAATTTT
44705997 TATTTTCAAA
Statistics
Matches: 186, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
78 43 0.23
79 22 0.12
80 1 0.01
81 1 0.01
82 2 0.01
84 2 0.01
85 1 0.01
86 16 0.09
87 50 0.27
88 48 0.26
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (79 bp):
GAATAAAATCTGTTGAATGGCGGAATAAATCCTGAAACAGATATTATTTAATTTTAATACTCGTT
TGGAAAGAAAAAAG
Found at i:44705991 original size:165 final size:166
Alignment explanation
Indices: 44705526--44705996 Score: 401
Period size: 165 Copynumber: 2.9 Consensus size: 166
44705516 AATCAAAATC
* * * ** * *
44705526 GAATAAAATTTGTTAAAAGGAGGGAATAAATCTAGAAACAG--TTT-TTCAAT-TTAATT-CT-A
1 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATGTTAATTACTCG
* * * * * * * * *
44705585 TTTTGGAAACAAAAT-TAAAATCGAATAAAATTTGTTAAACGACAGGAATAAATCCTGAAAAAGA
66 TTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCCGAAACAGA
* * ***** *
44705649 TTTTCAATTTAATTTT-AT-CTTGGAAACAAAATTAAAATC
131 TATT--ATTTAATTTTAATACTCGTTTGGAAAA--AAAA-G
*
44705688 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATGTTAATTTCTCG
1 GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATGTTAATTACTCG
* * **
44705753 TTTTAGCAACAAAATAGAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCTTGAAACAGA
66 TTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCCGAAACAGA
44705818 TATTATTTAATTTTAATACTCGTTTGGAAAAAAAAG
131 TATTATTTAATTTTAATACTCGTTTGGAAAAAAAAG
* * * * * *
44705854 GAATAAAATCTGTTGAATGGCTG-GAATAAATCCTGGAACAGATTTTATTTAAATTTTAA-TACT
1 GAATAAAATCTGTTAAACGG-AGAGAATAAATCCCGAAACAGATTTTATTT-AATGTTAATTACT
* * * * * * *
44705917 TG-TTTGGAAACAAAGTAAAAAATGGAATAAAATCTGTTGAATGGCGAGAATAAATCCCGAAACA
64 CGTTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCCGAAACA
44705981 GA-ATTTATTTAATTTT
129 GATA-TTATTTAATTTT
44705997 TATTTTCAAA
Statistics
Matches: 254, Mismatches: 43, Indels: 21
0.80 0.14 0.07
Matches are distributed among these distances:
162 36 0.14
164 4 0.02
165 71 0.28
166 53 0.21
167 24 0.09
168 15 0.06
169 51 0.20
ACGTcount: A:0.45, C:0.09, G:0.14, T:0.32
Consensus pattern (166 bp):
GAATAAAATCTGTTAAACGGAGAGAATAAATCCCGAAACAGATTTTATTTAATGTTAATTACTCG
TTTTAGAAACAAAATAAAAAATGGAATAAAATCTATTAAATGACAAGAATAAATCCCGAAACAGA
TATTATTTAATTTTAATACTCGTTTGGAAAAAAAAG
Found at i:44706147 original size:23 final size:22
Alignment explanation
Indices: 44706110--44706157 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 22
44706100 GTTAGCAAAC
44706110 AAAAATATATAAATAT-AAATA
1 AAAAATATATAAATATAAAATA
44706131 AAAAATATTTATAAATATAAAATA
1 AAAAATA--TATAAATATAAAATA
44706155 AAA
1 AAA
44706158 TAAATTGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 7 0.29
23 9 0.38
24 8 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAATATATAAATATAAAATA
Found at i:44706763 original size:11 final size:11
Alignment explanation
Indices: 44706749--44706785 Score: 74
Period size: 11 Copynumber: 3.4 Consensus size: 11
44706739 TATTTTTTTA
44706749 TTTTAAAATAC
1 TTTTAAAATAC
44706760 TTTTAAAATAC
1 TTTTAAAATAC
44706771 TTTTAAAATAC
1 TTTTAAAATAC
44706782 TTTT
1 TTTT
44706786 TTTAATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:44707059 original size:20 final size:20
Alignment explanation
Indices: 44707034--44707083 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
44707024 ATGGGCAATT
* *
44707034 AAATCAATTTGATTAAAATC
1 AAATCAAATTGACTAAAATC
44707054 AAATCAAATTGACTAAAATC
1 AAATCAAATTGACTAAAATC
*
44707074 AAATAAAATT
1 AAATCAAATT
44707084 AGGATATATG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATCAAATTGACTAAAATC
Found at i:44712014 original size:21 final size:22
Alignment explanation
Indices: 44711990--44712056 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 22
44711980 AACTGAAACC
44711990 CATAAGGGTTGAAC-GAAAGCT
1 CATAAGGGTTGAACAGAAAGCT
* *
44712011 CAT-AGGAGCTGAACAAAAAGC-
1 CATAAGG-GTTGAACAGAAAGCT
* *
44712032 CATAAGGGTTAAACGGAAA-CT
1 CATAAGGGTTGAACAGAAAGCT
44712053 CATA
1 CATA
44712057 TAAGTTAATA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
20 4 0.11
21 24 0.67
22 8 0.22
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (22 bp):
CATAAGGGTTGAACAGAAAGCT
Found at i:44716880 original size:57 final size:58
Alignment explanation
Indices: 44716770--44716912 Score: 191
Period size: 57 Copynumber: 2.4 Consensus size: 58
44716760 AATTGACGGT
*
44716770 AAAAAGGATCTAGCCCGGACTGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGA--CTAT-CTGATATAGCCCTCCCGAAGAATATGTG-G
44716833 AAAAAGATCTAGCCCGGACGGGTGA-TAT-TGATATAGCCCTCCCGAAGAATATGTGG
1 AAAAAGATCTAGCCCGGACGGGTGACTATCTGATATAGCCCTCCCGAAGAATATGTGG
* *
44716889 AAAATGGATTTAGCCCGGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
44716913 AATCCGAATT
Statistics
Matches: 76, Mismatches: 3, Indels: 8
0.87 0.03 0.09
Matches are distributed among these distances:
56 5 0.07
57 44 0.58
59 3 0.04
62 19 0.25
63 5 0.07
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (58 bp):
AAAAAGATCTAGCCCGGACGGGTGACTATCTGATATAGCCCTCCCGAAGAATATGTGG
Found at i:44717147 original size:67 final size:67
Alignment explanation
Indices: 44717039--44717170 Score: 237
Period size: 67 Copynumber: 2.0 Consensus size: 67
44717029 GTTTATATTA
* *
44717039 CAGGGGATTTAGCCTGGACTGGTAATCCCGTTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
44717104 TG
66 TG
*
44717106 CAGGGGATTTAGCCTGGACTAGTAATCCCGCTGTAGGAAATGAGGTTCGTGGGAGTGTGCTCTCT
1 CAGGGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
44717171 GAATTGGAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (67 bp):
CAGGGGATTTAGCCTGGACTAGTAATCCCGCTGTAAGAAATGAGGTTCGTGGGAGTGTGCTCTCT
TG
Found at i:44718816 original size:49 final size:51
Alignment explanation
Indices: 44718741--44718838 Score: 155
Period size: 49 Copynumber: 2.0 Consensus size: 51
44718731 ACATGTGAAA
* *
44718741 ATGTGATTATGTGATTTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATTATGTGATTTACGTGTAAGACCATAGCTGGACTATGGCATCGGT
*
44718792 ATGTGA-TATGTGA-TTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 ATGTGATTATGTGATTTACGTGTAAGACCATAGCTGGACTATGGCATCG
44718839 AGAAAATGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
49 31 0.70
50 7 0.16
51 6 0.14
ACGTcount: A:0.24, C:0.14, G:0.29, T:0.33
Consensus pattern (51 bp):
ATGTGATTATGTGATTTACGTGTAAGACCATAGCTGGACTATGGCATCGGT
Found at i:44726040 original size:13 final size:13
Alignment explanation
Indices: 44726022--44726046 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44726012 TGATTTATAT
44726022 GTGTGAAAATTTC
1 GTGTGAAAATTTC
44726035 GTGTGAAAATTT
1 GTGTGAAAATTT
44726047 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:44728207 original size:13 final size:13
Alignment explanation
Indices: 44728189--44728218 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44728179 TCTATGAGGT
*
44728189 TTTTGGTTGATTG
1 TTTTGGTTGATTA
44728202 TTTTGGTTGATTA
1 TTTTGGTTGATTA
44728215 TTTT
1 TTTT
44728219 TAGAGGTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.10, C:0.00, G:0.23, T:0.67
Consensus pattern (13 bp):
TTTTGGTTGATTA
Found at i:44730360 original size:21 final size:21
Alignment explanation
Indices: 44730331--44730402 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
44730321 TGCTAAACTA
*
44730331 AAACCCATAAGGGTTGAACGG
1 AAACTCATAAGGGTTGAACGG
* *
44730352 AAGCTCAT-AGGAGCTGAACGG
1 AAACTCATAAGG-GTTGAACGG
* *
44730373 AAACCCATAAGGGTTAAACGG
1 AAACTCATAAGGGTTGAACGG
44730394 AAACTCATA
1 AAACTCATA
44730403 TGAGTTAACA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 3 0.07
21 35 0.85
22 3 0.07
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (21 bp):
AAACTCATAAGGGTTGAACGG
Found at i:44731634 original size:52 final size:52
Alignment explanation
Indices: 44731572--44731674 Score: 206
Period size: 52 Copynumber: 2.0 Consensus size: 52
44731562 ATTAACTATC
44731572 AAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCCA
1 AAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCCA
44731624 AAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
1 AAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCC
44731675 GTAAATATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.44, C:0.17, G:0.06, T:0.33
Consensus pattern (52 bp):
AAAATGTTAAAATTTTCTAACGAAACTTTAATAATACCTTAATGACACTCCA
Found at i:44737825 original size:22 final size:23
Alignment explanation
Indices: 44737778--44737826 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
44737768 AAAAAAAGAT
44737778 AATTTAAAAATAAATAATTGTAAA
1 AATTTAAAAATAAATAA-TGTAAA
44737802 AATTATAAAAATAAAT-A-GTAAA
1 AATT-TAAAAATAAATAATGTAAA
44737824 AAT
1 AAT
44737827 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.33
24 5 0.21
25 11 0.46
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
AATTTAAAAATAAATAATGTAAA
Found at i:44737892 original size:29 final size:27
Alignment explanation
Indices: 44737842--44737900 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
44737832 AAATATATAT
*
44737842 AAAATATTTAAAAGTATTAAAATGTTGTA
1 AAAATATTTAAAAGTATAAAAAT-TT-TA
*
44737871 AAAATCTTTAAAATGTA-AAAAATTTTA
1 AAAATATTTAAAA-GTATAAAAATTTTA
44737898 AAA
1 AAA
44737901 TTGATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 2 0.07
29 17 0.63
30 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (27 bp):
AAAATATTTAAAAGTATAAAAATTTTA
Found at i:44738004 original size:30 final size:28
Alignment explanation
Indices: 44737965--44738040 Score: 73
Period size: 30 Copynumber: 2.6 Consensus size: 28
44737955 AGAATTGTAA
* * *
44737965 AAAATATTTTCACATTTTTTTACATTTTAT
1 AAAA-ATTTTAACATTTTTTAACA-ATTAT
*
44737995 ACAAAATTTTAATATTTTTTAACAATTAT
1 A-AAAATTTTAACATTTTTTAACAATTAT
*
44738024 AAAAATTGTAA-ATTTTT
1 AAAAATTTTAACATTTTT
44738041 AAAATGTAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
27 6 0.15
28 9 0.22
29 5 0.12
30 17 0.43
31 3 0.08
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (28 bp):
AAAAATTTTAACATTTTTTAACAATTAT
Found at i:44738445 original size:18 final size:20
Alignment explanation
Indices: 44738424--44738468 Score: 69
Period size: 18 Copynumber: 2.4 Consensus size: 20
44738414 AAAAAAAATT
44738424 ATAATTTTTA-AAA-TTTTA
1 ATAATTTTTACAAATTTTTA
44738442 ATAATTTTTACAAATTTTTA
1 ATAATTTTTACAAATTTTTA
44738462 AT-ATTTT
1 ATAATTTT
44738469 AAATTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.40
19 8 0.32
20 7 0.28
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATAATTTTTACAAATTTTTA
Done.