Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 105 of 135
Found at i:32307903 original size:15 final size:15
Alignment explanation
Indices: 32307883--32307926 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
32307873 AAAAACATTA
32307883 TGAATTATACAATAT
1 TGAATTATACAATAT
32307898 TGAATTATACTAAT-T
1 TGAATTATAC-AATAT
*
32307913 TGATTTATACAATA
1 TGAATTATACAATA
32307927 AATTGCAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 20 0.77
16 3 0.12
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (15 bp):
TGAATTATACAATAT
Found at i:32319478 original size:3 final size:3
Alignment explanation
Indices: 32319460--32319517 Score: 98
Period size: 3 Copynumber: 18.7 Consensus size: 3
32319450 GGTTTCATTA
32319460 AAT AAT AACT ACAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32319507 AAT AAT AAT AA
1 AAT AAT AAT AA
32319518 GGGATCCGAA
Statistics
Matches: 53, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
3 48 0.91
4 4 0.08
5 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32320634 original size:30 final size:30
Alignment explanation
Indices: 32320541--32321000 Score: 339
Period size: 29 Copynumber: 15.8 Consensus size: 30
32320531 CCCAGAAGGT
* * * *
32320541 CCCT-AAACTATCCAAAAATCAC-GTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
*
32320569 CCCCCAAACTTTCC-AAAATTACA-TTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* * * *
32320597 ACCTCAAACTTTCAAAAAATTATATTTTAA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
32320627 CCCTCAAACTTCCCAAAAATTACATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
32320657 CCCT-AAACTTTTCAAAAATTACATTTTTG
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
32320686 CCC-CTAAA-TTTCTCAAAAATTACATCTTTG
1 CCCTC-AAACTTTC-CAAAAATTACATTTTTA
** *
32320716 CCCTTGAAC-TTCCAAAAATTACATTTTGA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
** * *
32320745 CCCTTGAACTTTCCATAAATTACATTTTTG
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* * *
32320775 CCCTTAAAC-TTCCAAAAATCATATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* * *
32320804 CCCCCGAAC-TTCCAAAAATTACCA-TTTTG
1 CCCTCAAACTTTCCAAAAATTA-CATTTTTA
* *
32320833 CCCCCAAAC-ATCC-AAAATTACCA-TTTTA
1 CCCTCAAACTTTCCAAAAATTA-CATTTTTA
* *
32320861 CCCTTAAACTTT-CAAAAATGACATTTTTA
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* * *
32320890 CCCTCGAAC-TTCTAAAAATTACATTTTTT
1 CCCTCAAACTTTCCAAAAATTACATTTTTA
* *
32320919 CCCTCAAAAC--TCCAAAAATCACATTTTCA
1 CCCTC-AAACTTTCCAAAAATTACATTTTTA
* * *
32320948 ACCTCAAATTTTCCAAAAGTGTA-A-TTTTA
1 CCCTCAAACTTTCCAAAAAT-TACATTTTTA
** *
32320977 ATCTCAAATTTTCCAAAAATTACA
1 CCCTCAAACTTTCCAAAAATTACA
32321001 ATCTTGATTC
Statistics
Matches: 349, Mismatches: 63, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
28 56 0.16
29 194 0.56
30 98 0.28
31 1 0.00
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.34
Consensus pattern (30 bp):
CCCTCAAACTTTCCAAAAATTACATTTTTA
Found at i:32320654 original size:59 final size:57
Alignment explanation
Indices: 32320541--32320945 Score: 322
Period size: 59 Copynumber: 7.0 Consensus size: 57
32320531 CCCAGAAGGT
* * * * *
32320541 CCCT-AAACTATCCAAAAATCAC-GTTTGACCCCCAAACTTTCC-AAAATTACATTTTA
1 CCCTCAAACT-TCCAAAAATTACATTTTTACCCTCAAAC-TTCCAAAAATTACATTTTG
* * * *
32320597 ACCTCAAACTTTCAAAAAATTATATTTTAACCCTCAAACTTCCCAAAAATTACATTTTG
1 CCCTCAAAC-TTCCAAAAATTACATTTTTACCCTCAAACTT-CCAAAAATTACATTTTG
* * *
32320656 ACCCT-AAACTTTTCAAAAATTACATTTTTGCCC-CTAAATTTCTCAAAAATTACATCTTTG
1 -CCCTCAAAC-TTCCAAAAATTACATTTTTACCCTC-AAACTTC-CAAAAATTACAT-TTTG
** * ** *
32320716 CCCTTGAACTTCCAAAAATTACATTTTGACCCTTGAACTTTCCATAAATTACATTTTTG
1 CCCTCAAACTTCCAAAAATTACATTTTTACCCTCAAAC-TTCCAAAAATTACA-TTTTG
* * * * *
32320775 CCCTTAAACTTCCAAAAATCATATTTTTACCCCCGAACTTCCAAAAATTACCATTTTG
1 CCCTCAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTA-CATTTTG
* * * * * *
32320833 CCCCCAAACATCC-AAAATTACCA-TTTTACCCTTAAACTTTCAAAAATGACATTTTTA
1 CCCTCAAACTTCCAAAAATTA-CATTTTTACCCTCAAACTTCCAAAAATTACA-TTTTG
* * * *
32320890 CCCTCGAACTTCTAAAAATTACATTTTTTCCCTCAAAAC-TCCAAAAATCACATTTT
1 CCCTCAAACTTCCAAAAATTACATTTTTACCCTC-AAACTTCCAAAAATTACATTTT
32320946 CAACCTCAAA
Statistics
Matches: 281, Mismatches: 49, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
56 5 0.02
57 61 0.22
58 70 0.25
59 131 0.47
60 14 0.05
ACGTcount: A:0.36, C:0.27, G:0.03, T:0.34
Consensus pattern (57 bp):
CCCTCAAACTTCCAAAAATTACATTTTTACCCTCAAACTTCCAAAAATTACATTTTG
Found at i:32327370 original size:50 final size:49
Alignment explanation
Indices: 32327294--32327664 Score: 388
Period size: 50 Copynumber: 7.5 Consensus size: 49
32327284 AAAGATTAAA
** * * *
32327294 GGGAAAGGTTGAGGATGTAATGGCGAACCCAGTACCTAAAAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCC-GTACCTAAGAAGATGTGAT
* * *
32327344 GGGAAAGGTTAAGGCCGTAACAGCGAACCCAGTACCTAA-AACGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCC-GTACCTAAGAA-GATGTGAT
* * * * * * *
32327394 GGGAAAGGTTGAGACCGTATCGGTGAACCCGATA-CTATGAAGATGTAAA
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCG-TACCTAAGAAGATGTGAT
* *
32327443 GGGAAAGGTTGAGACCGCAACGACGAACCCGATACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCG-TACCTAAGAAGATGTGAT
* *
32327493 GGGAAAGGTTGAGGCCGCAACGACGAACCAAGTACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACC-CGTACCTAAGAAGATGTGAT
* * *
32327543 GGGAAAGGTTGAGGCCGCAACGGCGAACTCGGTACTTAAGAAGATGTTAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAAC-CCGTACCTAAGAAGATGTGAT
* * *
32327593 GGGAAAGGTTGAGGCTGCAACGGAGAACCCGAAACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCGCAACGGCGAACCCG-TACCTAAGAAGATGTGAT
* * * *
32327643 -AGAAAGATTGAGGTCGTAACGG
1 GGGAAAGGTTGAGGCCGCAACGG
32327665 TGGATCCGAT
Statistics
Matches: 277, Mismatches: 37, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
49 61 0.22
50 214 0.77
51 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.32, T:0.17
Consensus pattern (49 bp):
GGGAAAGGTTGAGGCCGCAACGGCGAACCCGTACCTAAGAAGATGTGAT
Found at i:32327520 original size:149 final size:150
Alignment explanation
Indices: 32327259--32327655 Score: 461
Period size: 149 Copynumber: 2.7 Consensus size: 150
32327249 AGGATTGAAG
* * * * * *
32327259 CCGCGACGGTGAATCCGATACCTTAA-AAGAT-TAAAGGGAAAGGTTGAGGA-TGTAATGGCGAA
1 CCGCAACGGCGAACCCGATA-CTTAAGAAGATGTAAAGGGAAAGGTTGA-GACTGCAACGACGAA
* * * *
32327321 CCC-AGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGTAACAGCGAACCCAGTACCTAA-A
64 CCCGA-TACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCAAGTACCTAAGA
32327384 ACGATGTGATGGGAAAGGTTGAGA
128 A-GATGTGATGGGAAAGGTTGAGA
* * * * *
32327408 CCGTATCGGTGAACCCGATAC-TATGAAGATGTAAAGGGAAAGGTTGAGACCGCAACGACGAACC
1 CCGCAACGGCGAACCCGATACTTAAGAAGATGTAAAGGGAAAGGTTGAGACTGCAACGACGAACC
32327472 CGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAAC-GACGAACCAAGTACCTAAGAAG
66 CGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACAG-CGAACCAAGTACCTAAGAAG
*
32327536 ATGTGATGGGAAAGGTTGAGG
130 ATGTGATGGGAAAGGTTGAGA
* * * * *
32327557 CCGCAACGGCGAACTCGGTACTTAAGAAGATGTTATGGGAAAGGTTGAGGCTGCAACGGA-GAAC
1 CCGCAACGGCGAACCCGATACTTAAGAAGATGTAAAGGGAAAGGTTGAGACTGCAAC-GACGAAC
* * *
32327621 CCGAAACCTAAGAAGATGTGAT-AGAAAGATTGAGG
65 CCGATACCTAAGAAGATGTGATGGGAAAGGTTGAGG
32327656 TCGTAACGGT
Statistics
Matches: 213, Mismatches: 27, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
147 2 0.01
148 9 0.04
149 142 0.67
150 58 0.27
151 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.31, T:0.17
Consensus pattern (150 bp):
CCGCAACGGCGAACCCGATACTTAAGAAGATGTAAAGGGAAAGGTTGAGACTGCAACGACGAACC
CGATACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACAGCGAACCAAGTACCTAAGAAGA
TGTGATGGGAAAGGTTGAGA
Found at i:32327676 original size:199 final size:197
Alignment explanation
Indices: 32327246--32327677 Score: 467
Period size: 199 Copynumber: 2.2 Consensus size: 197
32327236 GGTTTGACAG
* * *
32327246 GGAAGGATTGA-AGCCGCGACGGTGAATCCGATACCTTAAAAGATTAAAGGGAAAGGTTGAGGAT
1 GGAAAGATTGAGA-CCGCAACGGTGAATCCGATACCTTAAAAGATTAAAGGGAAAGGTTGAGGAC
* * * * *
32327310 GTAATGGCGAACCCAGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGTAACAGCGAACCCA
65 GCAACGACGAACCAAGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGCAACAGCGAACCCA
* * * * *
32327375 GTACCTAAAACGATGTGATGGGAAAGGTTGAGACCGTATCGGTGAACCCGATACTATGAAGATGT
130 GTACCTAAAACGATGTGATGGGAAAGGTTGAGACCGCAACGGAGAACCCGAAACTAAGAAGATGT
32327440 AAA
195 AAA
* ** * * *
32327443 GGGAAAGGTTGAGACCGCAACGACGAACCCGATACC-TAAGAAGATGTGATGGGAAAGGTTGAGG
1 -GGAAAGATTGAGACCGCAACGGTGAATCCGATACCTTAA-AAGAT-TAAAGGGAAAGGTTGAGG
* * * * *
32327507 CCGCAACGACGAACCAAGTACCTAAGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGCGAACT
63 ACGCAACGACGAACCAAGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGCAACAGCGAACC
* * * * *
32327572 CGGTACTTAAGAA-GATGTTATGGGAAAGGTTGAGGCTGCAACGGAGAACCCGAAACCTAAGAAG
128 CAGTACCTAA-AACGATGTGATGGGAAAGGTTGAGACCGCAACGGAGAACCCGAAA-CTAAGAAG
*
32327636 ATGTGATA
191 ATGT-AAA
** * *
32327644 -GAAAGATTGAGGTCGTAACGGTGGATCCGATACC
1 GGAAAGATTGAGACCGCAACGGTGAATCCGATACC
32327678 ATGAAGACAA
Statistics
Matches: 190, Mismatches: 38, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
197 3 0.02
198 32 0.17
199 140 0.74
200 13 0.07
201 2 0.01
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (197 bp):
GGAAAGATTGAGACCGCAACGGTGAATCCGATACCTTAAAAGATTAAAGGGAAAGGTTGAGGACG
CAACGACGAACCAAGTACCTAAAAAGATGTGATGGGAAAGGTTAAGGCCGCAACAGCGAACCCAG
TACCTAAAACGATGTGATGGGAAAGGTTGAGACCGCAACGGAGAACCCGAAACTAAGAAGATGTA
AA
Found at i:32328075 original size:39 final size:39
Alignment explanation
Indices: 32328032--32328106 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
32328022 CCATCAGCCA
* **
32328032 ATCTTTTACCCCGAGCC-TGGGGCAGATTGCAGCCATTCG
1 ATCTTTTACCCCGA-CCATGAGGCAGATCACAGCCATTCG
32328071 ATCTTTTACCCCGACCATGAGGCAGATCACAGCCAT
1 ATCTTTTACCCCGACCATGAGGCAGATCACAGCCAT
32328107 CCTATAACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 30 0.94
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (39 bp):
ATCTTTTACCCCGACCATGAGGCAGATCACAGCCATTCG
Found at i:32328465 original size:13 final size:13
Alignment explanation
Indices: 32328447--32328476 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
32328437 AGAAAAATCT
32328447 AAAGAAATGAAGA
1 AAAGAAATGAAGA
*
32328460 AAAGAAATGATGA
1 AAAGAAATGAAGA
32328473 AAAG
1 AAAG
32328477 GATATAAAAG
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:0.67, C:0.00, G:0.23, T:0.10
Consensus pattern (13 bp):
AAAGAAATGAAGA
Found at i:32329998 original size:6 final size:6
Alignment explanation
Indices: 32329987--32330025 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
32329977 TGATCAAAAT
* * *
32329987 TGAAAG TGAAAG TGAAAG TGAAAT TGGAAT TGAAAG TGA
1 TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGAAAG TGA
32330026 TATGAATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.31, T:0.23
Consensus pattern (6 bp):
TGAAAG
Found at i:32331457 original size:208 final size:208
Alignment explanation
Indices: 32331073--32332182 Score: 1180
Period size: 208 Copynumber: 5.3 Consensus size: 208
32331063 GTCTCGATTT
* * ** ** * * * *
32331073 TGATGAGATACAGAGAAGCGAATTGAAACAGTGATGTGGTCATCTTTCTAATGAGATA-TAGAGA
1 TGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATCTTCCTGATGAGATACT-GAGA
* * * * * ** * * * *
32331137 AGAAGACCACATCAATGAAGCAAAGCTCAGTGTGAGTGAAA-CTTC-AAACCTATCTTCCTGATG
65 AGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAG-CAAATCTTCGAACCCCAGCTTCCTGATG
** * * * *
32331200 AGATACTGAGAAGTGGGTTGAAGTAATAAAG-TGTTCATCTTCCTGATGAGATGCAGAGAAGTGA
129 AGATACTGAGAAGCAGGTAGAAGCAATAAAGCGGTT-ATCTTCCTGATGAGATACAGAGAAGTGA
*
32331264 ACCAAATCCATCTTCC
193 ACCAAATCCGTCTTCC
* * * *
32331280 TAATGAGATACAGAGAAGTGGATCAAAATAACGAGGCGGTTATCTTCCTGATTAGATACTGAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATCTTCCTGATGAGATACTGAGAA
* *
32331345 GTAGACCAAATCAATGAAACCAGGTTCAAAGTGAGCAAATCTCCGAACCCCAGCTTCCTGATGAG
66 GTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAG
* * * *
32331410 ATACTAATAAGCAGGTAGAAGCAATAAAGCGGTTACCTTCCTGATGAGACACAGAGAAGTGAA-C
131 ATACTGAGAAGCAGGTAGAAGCAATAAAGCGGTTATCTTCCTGATGAGATACAGAGAAGTGAACC
32331474 AAGATCCGTCTTCC
196 AA-ATCCGTCTTCC
* * * *
32331488 TGATGAGATATAGAGAAGTGGATCAAAACAACGAGGCGATCATCTTCTTGATGAGATACTAAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATCTTCCTGATGAGATACTGAGAA
* ** *
32331553 GTAGACCAAATCAAT-AAAACAGGAGCAAAGTGAGCATATCTTCGAACCCCAGCTTCCTGATGAG
66 GTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAG
* * * * **
32331617 ATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTACCTTTCAAATGAGATAC-GAAGAAGTGAAC
131 ATACTGAGAAGCAGGTAGAAGCAATAAAGCGGTTATCTTCCTGATGAGATACAG-AGAAGTGAAC
* *
32331681 CAGATCCGTCTTCT
195 CAAATCCGTCTTCC
* *
32331695 TGATGAGATACAGAGAATTGGATCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATCTTCCTGATGAGATACTGAGAA
* * * * * *
32331760 GTGGACCAAATTAATGAAACCAGGCTCAAAGTGAGCAAATCTTTGAACTCCAGCATCCTAATGAG
66 GTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAG
* * * * * *
32331825 ATACTGAGAAGCAGGTCA-AAGCAATAAAGTGGTTGTCTTTCTGATGAGATACAAAAAAGTGGAC
131 ATACTGAGAAGCAGGT-AGAAGCAATAAAGCGGTTATCTTCCTGATGAGATACAGAGAAGTGAAC
32331889 CAAATCCGTCTTCC
195 CAAATCCGTCTTCC
* * ** ** * * *
32331903 TGATGAGATACAAAGAAGCGGATTGAAACAGTGATGCGGCCATCTTCCTGATGAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATCTTCCTGATGAGATACTGAGAA
* * * *
32331968 GTATG-CCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA-CTTCGAATCCCAGCTTCCTGATG
66 GTA-GACCAAATCAATGAAACCAGGCTCAAAGTGAGC-AAATCTTCGAACCCCAGCTTCCTGATG
* * * * * * *
32332031 AGATACTAAGAAGCAGGTTGAAGCAATAAAGTGGTTGTCTTCCTGATGAGATACTGAGAGGTGGA
129 AGATACTGAGAAGCAGGTAGAAGCAATAAAGCGGTTATCTTCCTGATGAGATACAGAGAAGTGAA
**
32332096 CCAAATCTATCTTCC
194 CCAAATCCGTCTTCC
** * * * * *
32332111 TGATGAGATACAGAGAAGCAGATTAAAACAAGTGATGTGGTTATCTTCCTGATGAGATA-TAGAG
1 TGATGAGATACAGAGAAGTGGATCAAAACAA-CGAGGCGGTCATCTTCCTGATGAGATACT-GAG
32332175 AAGTAGAC
64 AAGTAGAC
32332183 TGAGAGATGA
Statistics
Matches: 762, Mismatches: 125, Indels: 30
0.83 0.14 0.03
Matches are distributed among these distances:
206 4 0.01
207 263 0.35
208 455 0.60
209 40 0.05
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (208 bp):
TGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGGTCATCTTCCTGATGAGATACTGAGAA
GTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAG
ATACTGAGAAGCAGGTAGAAGCAATAAAGCGGTTATCTTCCTGATGAGATACAGAGAAGTGAACC
AAATCCGTCTTCC
Found at i:32331849 original size:415 final size:415
Alignment explanation
Indices: 32331113--32332182 Score: 1165
Period size: 415 Copynumber: 2.6 Consensus size: 415
32331103 GTGATGTGGT
* * * * * * * ** *
32331113 CATCTTTCTAATGAGATATAGAGAAG-AAGACCACATCAATGAAGCAAAGCTCAGTGTGAGTGAA
1 CATCTTCCTGATGAGATACAGAGAAGTATG-CCAAATCAATAAAACAAAGC-CAAAGTGAGCGAA
* * * ** * * *
32331177 ACTTC-AAACCTATCTTCCTGATGAGATACTGAGAAGTGGGTTGAAGTAATAAAGTGTTCATCTT
64 ACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAGCGTTCACCTT
** *
32331241 CCTGATGAGATGCAGAGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATCAA
129 CCAAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATCAA
* * * * *
32331306 AATAACGAGGCGGTTATCTTCCTGATTAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGTT
194 AACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCT
* * *
32331371 CAAAGTGAGCAAATCTCCGAACCCCAGCTTCCTGATGAGATACTAATAAGCAGGTAGAAGCAATA
259 CAAAGTGAGCAAATCTCCGAACCCCAGCATCCTAATGAGATACTAAGAAGCAGGTAGAAGCAATA
* * *
32331436 AAGCGGTTACCTTCCTGATGAGACACAGAGAAGT-GAACAAGATCCGTCTTCCTGATGAGATATA
324 AAGCGGTTACCTTCCTGATGAGACACAAAAAAGTGGAACAA-ATCCGTCTTCCTGATGAGATACA
* * *
32331500 GAGAAGTGGATCAAAACAACGAGGCGAT
388 AAGAAGCGGATCAAAACAACGAGGCGAC
* *
32331528 CATCTTCTTGATGAGATACTA-AGAAGTA-GACCAAATCAATAAAACAGGAG-CAAAGTGAGC-A
1 CATCTTCCTGATGAGATAC-AGAGAAGTATG-CCAAATCAATAAAACA-AAGCCAAAGTGAGCGA
* *
32331589 TATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATT-AC
63 -AACTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAGCG-TTCAC
* * * * * *
32331653 CTTTCAAATGAGATAC-GAAGAAGTGAACCAGATCCGTCTTCTTGATGAGATACAGAGAATTGGA
126 CTTCCAAATGAGATACAG-AGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGA
* *
32331717 TCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTGGACCAAATTAATGAAACCA
190 TCAAAACAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCA
** * *
32331782 GGCTCAAAGTGAGCAAATCTTTGAACTCCAGCATCCTAATGAGATACTGAGAAGCAGGTCA-AAG
255 GGCTCAAAGTGAGCAAATCTCCGAACCCCAGCATCCTAATGAGATACTAAGAAGCAGGT-AGAAG
* ** * * *
32331846 CAATAAAGTGGTTGTCTTTCTGATGAGATACAAAAAAGTGGACCAAATCCGTCTTCCTGATGAGA
319 CAATAAAGCGGTTACCTTCCTGATGAGACACAAAAAAGTGGAACAAATCCGTCTTCCTGATGAGA
** ** * *
32331911 TACAAAGAAGCGGATTGAAACAGTGATGCGGC
384 TACAAAGAAGCGGATCAAAACAACGAGGCGAC
* *
32331943 CATCTTCCTGATGAGATACAGAGAAGTATGCCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA
1 CATCTTCCTGATGAGATACAGAGAAGTATGCCAAATCAATAAAACAAAGC-CAAAGTGAGCGAAA
* * * **
32332008 CTTCGAATCCCAGCTTCCTGATGAGATACTAAGAAGCAGGTTGAAGCAATAAAGTGGTT-GTCTT
65 CTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAG-CGTTCACCTT
** * * * * * ** *
32332072 CCTGATGAGATACTGAGAGGTGGACCAAATCTATCTTCCTGATGAGATACAGAGAAGCAGATTAA
129 CCAAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATCAA
* * * * *
32332137 AACAAGTGATGTGGTTATCTTCCTGATGAGATA-TAGAGAAGTAGAC
194 AACAA-CGAGGCGATCATCTTCCTGATGAGATACT-GAGAAGTAGAC
32332183 TGAGAGATGA
Statistics
Matches: 545, Mismatches: 92, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
413 1 0.00
414 16 0.03
415 358 0.66
416 135 0.25
417 35 0.06
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (415 bp):
CATCTTCCTGATGAGATACAGAGAAGTATGCCAAATCAATAAAACAAAGCCAAAGTGAGCGAAAC
TTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTTGAAGCAATAAAGCGTTCACCTTCC
AAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTAATGAGATACAGAGAAGTGGATCAAAA
CAACGAGGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCAATGAAACCAGGCTCA
AAGTGAGCAAATCTCCGAACCCCAGCATCCTAATGAGATACTAAGAAGCAGGTAGAAGCAATAAA
GCGGTTACCTTCCTGATGAGACACAAAAAAGTGGAACAAATCCGTCTTCCTGATGAGATACAAAG
AAGCGGATCAAAACAACGAGGCGAC
Found at i:32333000 original size:24 final size:25
Alignment explanation
Indices: 32332951--32333002 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
32332941 GATCCAAAAT
32332951 CAATACAAAAAATAGGCATTCAAAG
1 CAATACAAAAAATAGGCATTCAAAG
* * *
32332976 CAATACAACATATA-GCATTCGAAG
1 CAATACAAAAAATAGGCATTCAAAG
32333000 CAA
1 CAA
32333003 AGTAGAGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (25 bp):
CAATACAAAAAATAGGCATTCAAAG
Found at i:32333206 original size:3 final size:3
Alignment explanation
Indices: 32333188--32333239 Score: 70
Period size: 3 Copynumber: 16.7 Consensus size: 3
32333178 GGTTTCATTA
32333188 AAT AAT AACT ACAT AAT AAT AA- ATAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AA-T A-AT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
32333235 AAT AA
1 AAT AA
32333240 GAGACTCGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 1 0.02
3 38 0.84
4 5 0.11
5 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:32334312 original size:28 final size:29
Alignment explanation
Indices: 32334265--32334394 Score: 79
Period size: 29 Copynumber: 4.4 Consensus size: 29
32334255 AAGGTCCCTG
* **
32334265 AACTGTCCAAAAATCCCATTTTGTCACC-A
1 AACT-TCCAAAAATCACATTTTAACACCTA
* * *
32334294 AACTTCCAAAAATGACATTTTAACCCCTT
1 AACTTCCAAAAATCACATTTTAACACCTA
* **
32334323 AACTTCCAAAAATTACATTTTTGC-CCTTAA
1 AACTTCCAAAAATCACATTTTAACACC-T-A
* *
32334353 AAC-TCCAAAAATCATATTTTCA-ACCTCA
1 AACTTCCAAAAATCACATTTTAACACCT-A
*
32334381 AATTTTCCAAAAAT
1 AA-CTTCCAAAAAT
32334395 TTAATTTTAA
Statistics
Matches: 79, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
28 24 0.30
29 43 0.54
30 12 0.15
ACGTcount: A:0.39, C:0.26, G:0.03, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATCACATTTTAACACCTA
Found at i:32334359 original size:29 final size:30
Alignment explanation
Indices: 32334293--32334364 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 30
32334283 TTTTGTCACC
32334293 AAACTTCCAAAAATGACATTTTAACCCCTT
1 AAACTTCCAAAAATGACATTTTAACCCCTT
* **
32334323 -AACTTCCAAAAATTACATTTT-TGCCCTT
1 AAACTTCCAAAAATGACATTTTAACCCCTT
32334351 AAAAC-TCCAAAAAT
1 -AAACTTCCAAAAAT
32334365 CATATTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.14
29 29 0.78
30 3 0.08
ACGTcount: A:0.42, C:0.25, G:0.03, T:0.31
Consensus pattern (30 bp):
AAACTTCCAAAAATGACATTTTAACCCCTT
Found at i:32334392 original size:30 final size:29
Alignment explanation
Indices: 32334356--32334444 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
32334346 CCCTTAAAAC
32334356 TCCAAAAATCAT-ATTTTCAA-CCTCAAATTT
1 TCCAAAAAT-ATAATTTT-AATCC-CAAATTT
*
32334386 TCCAAAAATTTAATTTTAATCCCAAATTT
1 TCCAAAAATATAATTTTAATCCCAAATTT
* *
32334415 TCCAAAAATTACAATTTTGATCCCCAAATT
1 TCCAAAAA-TATAATTTTAAT-CCCAAATT
32334445 CCTCGAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
29 18 0.35
30 25 0.49
31 8 0.16
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.37
Consensus pattern (29 bp):
TCCAAAAATATAATTTTAATCCCAAATTT
Found at i:32337854 original size:11 final size:12
Alignment explanation
Indices: 32337830--32337859 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
32337820 CAATCCAAAT
32337830 TTTATTATTTTA
1 TTTATTATTTTA
32337842 TTTATTA-TTTA
1 TTTATTATTTTA
32337853 TTTATTA
1 TTTATTA
32337860 AATAAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:32339145 original size:29 final size:30
Alignment explanation
Indices: 32339097--32339186 Score: 103
Period size: 29 Copynumber: 3.1 Consensus size: 30
32339087 AATCAATTTC
* *
32339097 TTAACGCC-AAAGTTTTCAAAAATTCAAAT
1 TTAACACCTAAAGTTTCCAAAAATTCAAAT
*
32339126 TTGACACCTAAA-TTTCCAAAAATTCAAAT
1 TTAACACCTAAAGTTTCCAAAAATTCAAAT
* ** *
32339155 TTAACCCCTAAAGTTTTTAAAAATTAAAAT
1 TTAACACCTAAAGTTTCCAAAAATTCAAAT
32339185 TT
1 TT
32339187 CACCACGTTT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
29 32 0.63
30 19 0.37
ACGTcount: A:0.44, C:0.17, G:0.04, T:0.34
Consensus pattern (30 bp):
TTAACACCTAAAGTTTCCAAAAATTCAAAT
Found at i:32350908 original size:50 final size:50
Alignment explanation
Indices: 32350824--32350951 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 50
32350814 ACCTTTTACT
* * * *
32350824 CCTAAAGCTCTGGAGGAGCA-AATTAAAGCCGCAATGGCTAATCTCATACA
1 CCTAAAGCTCTAGAGGGGCAGAA-TGAAGCCGCAATGGCGAATCTCATACA
* * * *
32350874 CCTAAAGCTGTAGAGGGGCAGAATGAAGCTGCAATGGCGAATCTTATTCA
1 CCTAAAGCTCTAGAGGGGCAGAATGAAGCCGCAATGGCGAATCTCATACA
* * *
32350924 CCTAAAGCTCTATAGGGGTAGATTGAAG
1 CCTAAAGCTCTAGAGGGGCAGAATGAAG
32350952 TCACAAAGAC
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 63 0.97
51 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (50 bp):
CCTAAAGCTCTAGAGGGGCAGAATGAAGCCGCAATGGCGAATCTCATACA
Found at i:32351104 original size:40 final size:40
Alignment explanation
Indices: 32351009--32351136 Score: 154
Period size: 39 Copynumber: 3.2 Consensus size: 40
32350999 ACAACTTCAA
* * *
32351009 ATCTTTTACCCCGACCATGGGGCAGATTGAAGCCAT-CAG
1 ATCTCTTACCCCAACCATGGGGCAGATTGAAGCAATCCAG
* ** *
32351048 ATCTTTTACCTTAACCA-GAGGGCAGATTGAAGTAATCCAG
1 ATCTCTTACCCCAACCATG-GGGCAGATTGAAGCAATCCAG
*
32351088 ATCTCTTACCCCAACCATGGGGCAGATTGAAGCAGTCCA-
1 ATCTCTTACCCCAACCATGGGGCAGATTGAAGCAATCCAG
32351127 ATCTCTTACC
1 ATCTCTTACC
32351137 TCTAAAGTTA
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
38 1 0.01
39 39 0.51
40 35 0.46
41 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
ATCTCTTACCCCAACCATGGGGCAGATTGAAGCAATCCAG
Found at i:32351307 original size:50 final size:49
Alignment explanation
Indices: 32351187--32351308 Score: 149
Period size: 50 Copynumber: 2.4 Consensus size: 49
32351177 ATCCTATACC
* *
32351187 CCTAAAGCTGTAGAGGAACAGATTGATACCGCAATGGAAAATCTCATATA
1 CCTAAAGCTGTAGAGG-GCAGAATGATACCGCAATGGAAAATCTCATATA
* *
32351237 CCTAAAGCTGTAGAGAGGCAGAATGA-AGCCGCAATGGCAAATCTTAT-TCA
1 CCTAAAGCTGTAGAG-GGCAGAATGATA-CCGCAATGGAAAATCTCATAT-A
32351287 CCTAAAGCTGTAGAAGGGCAGA
1 CCTAAAGCTGTAG-AGGGCAGA
32351309 TTAAAGTCAC
Statistics
Matches: 64, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
49 2 0.03
50 59 0.92
51 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.20
Consensus pattern (49 bp):
CCTAAAGCTGTAGAGGGCAGAATGATACCGCAATGGAAAATCTCATATA
Found at i:32351330 original size:50 final size:50
Alignment explanation
Indices: 32351236--32351333 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 50
32351226 AATCTCATAT
* * * *
32351236 ACCTAAAGCTGTAGAGAGGCAGAATGAAGCCGCAATGGCAAATCTTATTC
1 ACCTAAAGCTGTAGAGAGGCAGAATAAAGCCACAAAGCCAAATCTTATTC
* * *
32351286 ACCTAAAGCTGTAGA-AGGGCAGATTAAAGTCACAAAGCCGAATCTTAT
1 ACCTAAAGCTGTAGAGA-GGCAGAATAAAGCCACAAAGCCAAATCTTAT
32351334 ACTCCTGAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.20
Consensus pattern (50 bp):
ACCTAAAGCTGTAGAGAGGCAGAATAAAGCCACAAAGCCAAATCTTATTC
Found at i:32351832 original size:11 final size:12
Alignment explanation
Indices: 32351808--32351837 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
32351798 CAATCCAAAT
32351808 TTTATTATTTTA
1 TTTATTATTTTA
32351820 TTTATTA-TTTA
1 TTTATTATTTTA
32351831 TTTATTA
1 TTTATTA
32351838 AATAAATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTATTATTTTA
Found at i:32351860 original size:16 final size:16
Alignment explanation
Indices: 32351834--32351883 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
32351824 TTATTTATTT
32351834 ATTAAATAAATAAACAA
1 ATTAAA-AAATAAACAA
32351851 A-TAAAGAAATAATA-AA
1 ATTAAA-AAATAA-ACAA
*
32351867 ATTAAAAAATATACAA
1 ATTAAAAAATAAACAA
32351883 A
1 A
32351884 CCCAATTTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 1 0.04
16 21 0.75
17 6 0.21
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.22
Consensus pattern (16 bp):
ATTAAAAAATAAACAA
Found at i:32353162 original size:30 final size:30
Alignment explanation
Indices: 32353076--32353162 Score: 115
Period size: 30 Copynumber: 2.9 Consensus size: 30
32353066 TTGACCCTCG
**
32353076 AAGTTTTT-AAAATTCAAATTTGACTACTA
1 AAGTTTTTAAAAATTCAAATTTGACCCCTA
*
32353105 AA-TTTTCTAAAAATTCAAATTTAACCCCTA
1 AAGTTTT-TAAAAATTCAAATTTGACCCCTA
*
32353135 AAGTTTTTAAAAATTAAAATTTGACCCC
1 AAGTTTTTAAAAATTCAAATTTGACCCC
32353163 ATTTTAATGT
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 4 0.08
29 3 0.06
30 39 0.78
31 4 0.08
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.38
Consensus pattern (30 bp):
AAGTTTTTAAAAATTCAAATTTGACCCCTA
Found at i:32355509 original size:72 final size:72
Alignment explanation
Indices: 32355387--32355543 Score: 296
Period size: 72 Copynumber: 2.2 Consensus size: 72
32355377 ACTTCTTGTC
* *
32355387 TACAGTTTTTGCTCTCAAGTGCCAAGTACCTTAGTTCAAATGGAAACATATAACGATTCAAGGAT
1 TACACTTTTTCCTCTCAAGTGCCAAGTACCTTAGTTCAAATGGAAACATATAACGATTCAAGGAT
32355452 TTAACCA
66 TTAACCA
32355459 TACACTTTTTCCTCTCAAGTGCCAAGTACCTTAGTTCAAATGGAAACATATAACGATTCAAGGAT
1 TACACTTTTTCCTCTCAAGTGCCAAGTACCTTAGTTCAAATGGAAACATATAACGATTCAAGGAT
32355524 TTAACCA
66 TTAACCA
32355531 TACACTTTTTCCT
1 TACACTTTTTCCT
32355544 TTGCCTTTGA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 83 1.00
ACGTcount: A:0.33, C:0.22, G:0.13, T:0.32
Consensus pattern (72 bp):
TACACTTTTTCCTCTCAAGTGCCAAGTACCTTAGTTCAAATGGAAACATATAACGATTCAAGGAT
TTAACCA
Found at i:32356076 original size:13 final size:13
Alignment explanation
Indices: 32356055--32356088 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
32356045 CTAATTTAGT
32356055 AATGCTTTTT-AA
1 AATGCTTTTTAAA
32356067 AATGCTTTTTAAA
1 AATGCTTTTTAAA
*
32356080 AATACTTTT
1 AATGCTTTT
32356089 GAACCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 10 0.50
13 10 0.50
ACGTcount: A:0.35, C:0.09, G:0.06, T:0.50
Consensus pattern (13 bp):
AATGCTTTTTAAA
Found at i:32357708 original size:20 final size:21
Alignment explanation
Indices: 32357671--32357711 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
32357661 TAATTCTTGA
32357671 TAAAATATTAAGAATATTATT
1 TAAAATATTAAGAATATTATT
32357692 TAAAAT-TTAA-AATTATTATT
1 TAAAATATTAAGAA-TATTATT
32357712 AAGGTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 11 0.58
21 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TAAAATATTAAGAATATTATT
Found at i:32358275 original size:13 final size:14
Alignment explanation
Indices: 32358247--32358283 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
32358237 TAAATATGAG
*
32358247 ATTTATTAATATTT
1 ATTTATTAATAGTT
32358261 ATTTA-TAATAGTT
1 ATTTATTAATAGTT
32358274 A-TTATTAATA
1 ATTTATTAATA
32358284 TTTGATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
12 3 0.14
13 13 0.62
14 5 0.24
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.57
Consensus pattern (14 bp):
ATTTATTAATAGTT
Found at i:32371761 original size:40 final size:40
Alignment explanation
Indices: 32371704--32371779 Score: 134
Period size: 40 Copynumber: 1.9 Consensus size: 40
32371694 GAAAGTTAAC
32371704 TTCATGTTCTTCCATAGAATTAGAGTGCACATAAAATGTT
1 TTCATGTTCTTCCATAGAATTAGAGTGCACATAAAATGTT
**
32371744 TTCATGTTCTTTTATAGAATTAGAGTGCACATAAAA
1 TTCATGTTCTTCCATAGAATTAGAGTGCACATAAAA
32371780 ACCCCACATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.38
Consensus pattern (40 bp):
TTCATGTTCTTCCATAGAATTAGAGTGCACATAAAATGTT
Found at i:32371790 original size:40 final size:40
Alignment explanation
Indices: 32371706--32371790 Score: 98
Period size: 40 Copynumber: 2.1 Consensus size: 40
32371696 AAGTTAACTT
******
32371706 CATGTTCTTCCATAGAATTAGAGTGCACATAAAATGTTTT
1 CATGTTCTTCCATAGAATTAGAGTGCACATAAAAACCCCA
**
32371746 CATGTTCTTTTATAGAATTAGAGTGCACATAAAAACCCCA
1 CATGTTCTTCCATAGAATTAGAGTGCACATAAAAACCCCA
32371786 CATGT
1 CATGT
32371791 ACACACTCAA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (40 bp):
CATGTTCTTCCATAGAATTAGAGTGCACATAAAAACCCCA
Found at i:32391250 original size:30 final size:30
Alignment explanation
Indices: 32391216--32391273 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
32391206 AAAAAATTAA
* * *
32391216 ATTTTTAAATAAAATTTTGATTTTTTAACT
1 ATTTTAAAATAAAAGTTTGAATTTTTAACT
32391246 ATTTTAAAATAAAAGTTTGAATTTTTAA
1 ATTTTAAAATAAAAGTTTGAATTTTTAA
32391274 GTAAAGTAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (30 bp):
ATTTTAAAATAAAAGTTTGAATTTTTAACT
Found at i:32391333 original size:143 final size:141
Alignment explanation
Indices: 32391174--32391432 Score: 380
Period size: 143 Copynumber: 1.8 Consensus size: 141
32391164 GTTTAGATTT
* * *
32391174 AAAAAAAATCTTTTTTTTAGTCATTTTGAAGAAAAAA-ATTAAATTTTTAAATAAAATTTTGA-T
1 AAAAAAAATCTGTTTTTTAGTCATTTTAAAGAAAAAACATTAAATTTTTAAACAAAATTTTGATT
*
32391237 TTTTTAACTATTTTAAAATAAAAG-TTTGAATTTTTAAGTAAAGTAGTGATTTTTATTAAAAAAA
66 TTTTTAACTA-TTTAAAA-AAAAGTTTTG-ATTTTGAAGTAAAGTAGTGATTTTTATTAAAAAAA
32391301 ATTAGATTTTTTAG
128 ATTAGATTTTTTAG
* * *
32391315 AAAATAAAACTCTGTTTTTTAGTGATTTTAAAGAAAAAACATTAAATTTTTAACCAAAGTTTTGA
1 AAAA-AAAA-TCTGTTTTTTAGTCATTTTAAAGAAAAAACATTAAATTTTTAAACAAAATTTTGA
*
32391380 TTTTTTTAATTATTTAAAAAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTT
64 TTTTTTTAACTATTTAAAAAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTT
32391433 AATTTAATCA
Statistics
Matches: 105, Mismatches: 8, Indels: 8
0.87 0.07 0.07
Matches are distributed among these distances:
141 4 0.04
142 4 0.04
143 54 0.51
144 33 0.31
145 10 0.10
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (141 bp):
AAAAAAAATCTGTTTTTTAGTCATTTTAAAGAAAAAACATTAAATTTTTAAACAAAATTTTGATT
TTTTTAACTATTTAAAAAAAAGTTTTGATTTTGAAGTAAAGTAGTGATTTTTATTAAAAAAAATT
AGATTTTTTAG
Found at i:32391880 original size:10 final size:11
Alignment explanation
Indices: 32391866--32391903 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
32391856 AAAATATATA
32391866 TATTTTAAAA-
1 TATTTTAAAAT
32391876 TATTTTAAAAT
1 TATTTTAAAAT
*
32391887 TAATTTAAAAT
1 TATTTTAAAAT
32391898 TATTTT
1 TATTTT
32391904 TTAAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTTTAAAAT
Found at i:32391976 original size:6 final size:6
Alignment explanation
Indices: 32391965--32392025 Score: 61
Period size: 6 Copynumber: 10.0 Consensus size: 6
32391955 TCTGCTCTTT
* * * *
32391965 TTCTCC TTCTCC TTCTCT TTCCCCC TTC-CC TTTCTCC TTCCCC TTCCCC
1 TTCTCC TTCTCC TTCTCC TT-CTCC TTCTCC -TTCTCC TTCTCC TTCTCC
32392014 TTCTCC TTCTCC
1 TTCTCC TTCTCC
32392026 ATTTTCCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
5 2 0.04
6 39 0.83
7 6 0.13
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (6 bp):
TTCTCC
Found at i:32391999 original size:19 final size:18
Alignment explanation
Indices: 32391969--32392022 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
32391959 CTCTTTTTCT
* *
32391969 CCTTCTCCTTCTCTTTCCC
1 CCTTCCCCTTCTCCTT-CC
*
32391988 CCTTCCCTTTCTCCTTCC
1 CCTTCCCCTTCTCCTTCC
32392006 CCTTCCCCTTCTCCTTC
1 CCTTCCCCTTCTCCTTC
32392023 TCCATTTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 18 0.58
19 13 0.42
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (18 bp):
CCTTCCCCTTCTCCTTCC
Found at i:32392840 original size:11 final size:11
Alignment explanation
Indices: 32392804--32392839 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
32392794 TTATATTTAA
32392804 AAAATAATTTT
1 AAAATAATTTT
*
32392815 AAATTAATTTT
1 AAAATAATTTT
32392826 AAAAT-ATTTT
1 AAAATAATTTT
32392836 AAAA
1 AAAA
32392840 AATAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAATAATTTT
Found at i:32393697 original size:12 final size:12
Alignment explanation
Indices: 32393680--32393731 Score: 61
Period size: 12 Copynumber: 4.2 Consensus size: 12
32393670 GCTAAATGCT
*
32393680 TTCTCTTTCTCC
1 TTCTCTTTCCCC
32393692 TTCTCTTTCCCC
1 TTCTCTTTCCCC
32393704 TTC-CTCTTCCCC
1 TTCTCT-TTCCCC
*
32393716 TTCCCCTTTCCCC
1 TT-CTCTTTCCCC
32393729 TTC
1 TTC
32393732 ATTGCGTCCC
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 2 0.06
12 23 0.64
13 9 0.25
14 2 0.06
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (12 bp):
TTCTCTTTCCCC
Found at i:32393707 original size:6 final size:6
Alignment explanation
Indices: 32393698--32393731 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
32393688 CTCCTTCTCT
*
32393698 TTCCCC TTCCTC TTCCCC TTCCCC TTTCCCC TTC
1 TTCCCC TTCCCC TTCCCC TTCCCC -TTCCCC TTC
32393732 ATTGCGTCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TTCCCC
Found at i:32395759 original size:31 final size:31
Alignment explanation
Indices: 32395707--32395818 Score: 108
Period size: 30 Copynumber: 3.7 Consensus size: 31
32395697 ATACAGCTCA
* *
32395707 TAAATGCATCTCATGC-GACTGCAACCCGTG
1 TAAATGCAGCTCGTGCAGACTGCAACCCGTG
* * *
32395737 TAAAT-CAAAGTTCGTG-AGACTGCAATCCATG
1 TAAATGC--AGCTCGTGCAGACTGCAACCCGTG
*
32395768 TAAATGCAGCTCGTGCA-ATTGCAACCCGTG
1 TAAATGCAGCTCGTGCAGACTGCAACCCGTG
*
32395798 TAAATACAGCTCGTGC-GACTG
1 TAAATGCAGCTCGTGCAGACTG
32395819 TAGTTTGTGT
Statistics
Matches: 65, Mismatches: 11, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
29 1 0.02
30 40 0.62
31 23 0.35
32 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (31 bp):
TAAATGCAGCTCGTGCAGACTGCAACCCGTG
Found at i:32395902 original size:33 final size:33
Alignment explanation
Indices: 32395826--32395903 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
32395816 CTGTAGTTTG
* *
32395826 TGTAAATGCAACAGTTTATGTGACTGCAGTCCA
1 TGTAAATGCAGCAGTTTATGCGACTGCAGTCCA
*
32395859 TGTAAATGCAGCAGTTTATGCGACTGCAG-CTCT
1 TGTAAATGCAGCAGTTTATGCGACTGCAGTC-CA
32395892 TGTAAATGCAGC
1 TGTAAATGCAGC
32395904 TTGTGTGACT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.02
33 40 0.98
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.29
Consensus pattern (33 bp):
TGTAAATGCAGCAGTTTATGCGACTGCAGTCCA
Found at i:32399193 original size:19 final size:19
Alignment explanation
Indices: 32399137--32399196 Score: 111
Period size: 19 Copynumber: 3.2 Consensus size: 19
32399127 TGATATCCAA
*
32399137 TATTGCTCTTACGAGCCAA
1 TATTGCTCTTACGAGCCAG
32399156 TATTGCTCTTACGAGCCAG
1 TATTGCTCTTACGAGCCAG
32399175 TATTGCTCTTACGAGCCAG
1 TATTGCTCTTACGAGCCAG
32399194 TAT
1 TAT
32399197 GCCATTACCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.33
Consensus pattern (19 bp):
TATTGCTCTTACGAGCCAG
Found at i:32401053 original size:15 final size:15
Alignment explanation
Indices: 32401033--32401062 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32401023 ATGTTATTTT
32401033 GGTAATAATAAGAGC
1 GGTAATAATAAGAGC
32401048 GGTAATAATAAGAGC
1 GGTAATAATAAGAGC
32401063 ACGAGAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.27, T:0.20
Consensus pattern (15 bp):
GGTAATAATAAGAGC
Found at i:32401616 original size:16 final size:15
Alignment explanation
Indices: 32401595--32401653 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 15
32401585 TCTTATTTTC
*
32401595 AAATTAAATGTTAAA
1 AAATTAAATATTAAA
*
32401610 TAAATTAGATATTAAA
1 -AAATTAAATATTAAA
* *
32401626 AAA-TAAGTATTGAA
1 AAATTAAATATTAAA
*
32401640 AATTTAAAT-TTAAA
1 AAATTAAATATTAAA
32401654 TTATAAAATT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 14 0.41
15 7 0.21
16 13 0.38
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.36
Consensus pattern (15 bp):
AAATTAAATATTAAA
Found at i:32405432 original size:3 final size:3
Alignment explanation
Indices: 32405424--32405472 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
32405414 ATACCAAAAG
32405424 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
32405472 T
1 T
32405473 GTTGCTAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:32410285 original size:99 final size:99
Alignment explanation
Indices: 32410161--32410354 Score: 298
Period size: 99 Copynumber: 2.0 Consensus size: 99
32410151 TTTTGAACCA
* *
32410161 AACCAAGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGATTTCTTCTTCTTCCATCGCTCT
1 AACCAAGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGACTTCTTCTTCTTCCATCACTCT
*
32410226 CCCAACCCTTCAAGGTTCTCTATTTTAATCTCAT
66 CCCAACCCTTCAAGGTTCTCTATTTCAATCTCAT
* * * * *
32410260 AACCATGGTTACTTCTCCACTTGGATTTTGAATCAAACCATGGCTTCTTCTTCTTCCATCACTCT
1 AACCAAGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGACTTCTTCTTCTTCCATCACTCT
**
32410325 CTTAACCCTTCAAGGTTCTCTATTTCAATC
66 CCCAACCCTTCAAGGTTCTCTATTTCAATC
32410355 CCATTTCTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
99 85 1.00
ACGTcount: A:0.23, C:0.31, G:0.09, T:0.37
Consensus pattern (99 bp):
AACCAAGGCTACTTCTCCACTTGGATTCTGAACCAAACCATGACTTCTTCTTCTTCCATCACTCT
CCCAACCCTTCAAGGTTCTCTATTTCAATCTCAT
Found at i:32410983 original size:20 final size:22
Alignment explanation
Indices: 32410958--32410999 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
32410948 AAATAATTTT
32410958 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
32410978 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
32411000 TCATTTGCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:32411000 original size:20 final size:20
Alignment explanation
Indices: 32410949--32411005 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
32410939 AAAATATTAA
32410949 AATAATTTT--AATAATTTT
1 AATAATTTTAAAATAATTTT
32410967 -AT-ATTTTAAAAAATAATTTT
1 AATAATTTT--AAAATAATTTT
*
32410987 AATAATTTTAAAATCATTT
1 AATAATTTTAAAATAATTT
32411006 GCTGACGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
20 18 0.56
21 2 0.06
22 5 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:32411300 original size:21 final size:21
Alignment explanation
Indices: 32411276--32411316 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
32411266 TTAATTATAA
*
32411276 AAATAATTTATTTTATTTTTG
1 AAATAATTTAATTTATTTTTG
*
32411297 AAATTATTTAATTTATTTTT
1 AAATAATTTAATTTATTTTT
32411317 AATGATATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATAATTTAATTTATTTTTG
Found at i:32420643 original size:24 final size:25
Alignment explanation
Indices: 32420591--32420648 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 25
32420581 TATTTATTTA
*
32420591 TTTATTTATTTATAGGGGTTTAGGG
1 TTTATTTATTTAGAGGGGTTTAGGG
** *
32420616 TTTATTTATTTAGA-GTTTTTAGGT
1 TTTATTTATTTAGAGGGGTTTAGGG
32420640 TTTATTTAT
1 TTTATTTAT
32420649 AAAATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 16 0.55
25 13 0.45
ACGTcount: A:0.21, C:0.00, G:0.19, T:0.60
Consensus pattern (25 bp):
TTTATTTATTTAGAGGGGTTTAGGG
Found at i:32421391 original size:15 final size:15
Alignment explanation
Indices: 32421371--32421402 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32421361 TTAAGTATTT
32421371 GAATGGGAATAAGTG
1 GAATGGGAATAAGTG
32421386 GAATGGGAATAAGTG
1 GAATGGGAATAAGTG
32421401 GA
1 GA
32421403 GGGAATTGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (15 bp):
GAATGGGAATAAGTG
Found at i:32439407 original size:14 final size:15
Alignment explanation
Indices: 32439380--32439417 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
32439370 TTATTAAAAC
32439380 ATATATTTAGATATAA
1 ATATATTTA-ATATAA
*
32439396 ATATATTT-ATATAG
1 ATATATTTAATATAA
32439410 ATATATTT
1 ATATATTT
32439418 GTATGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.62
16 8 0.38
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
ATATATTTAATATAA
Found at i:32442858 original size:33 final size:33
Alignment explanation
Indices: 32442811--32442875 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
32442801 TTTCAAATCA
*
32442811 ATATTAGTTTATTGATTGTCTAAGTTGAAACTG
1 ATATTAGTTCATTGATTGTCTAAGTTGAAACTG
32442844 ATATTAGTTCATTGATTGTCTAAGTTGAAACT
1 ATATTAGTTCATTGATTGTCTAAGTTGAAACT
32442876 AATGATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.45
Consensus pattern (33 bp):
ATATTAGTTCATTGATTGTCTAAGTTGAAACTG
Found at i:32446424 original size:16 final size:18
Alignment explanation
Indices: 32446384--32446427 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
32446374 TTTTTGTATA
32446384 ATATAAAATAAATTTTAT
1 ATATAAAATAAATTTTAT
* **
32446402 TTATAAAATAGTTTTTAT
1 ATATAAAATAAATTTTAT
32446420 ATA-AAAAT
1 ATATAAAAT
32446428 TCTACTCGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (18 bp):
ATATAAAATAAATTTTAT
Found at i:32447107 original size:3 final size:3
Alignment explanation
Indices: 32447101--32447147 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
32447091 CCATCTTCTT
32447101 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
32447148 TATTCTTGCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:32449166 original size:5 final size:5
Alignment explanation
Indices: 32449156--32449183 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32449146 TCTCTATCGC
32449156 CCCCT CCCCT CCCCT CCCCT CCCCT CCC
1 CCCCT CCCCT CCCCT CCCCT CCCCT CCC
32449184 ATAGCTCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.82, G:0.00, T:0.18
Consensus pattern (5 bp):
CCCCT
Found at i:32451801 original size:14 final size:13
Alignment explanation
Indices: 32451782--32451814 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
32451772 TGTTGGATCA
32451782 CTCCCCCCCTCCCC
1 CTCCCCCCC-CCCC
32451796 CTCCCCCCCCCCC
1 CTCCCCCCCCCCC
32451809 C-CCCCC
1 CTCCCCC
32451815 AAGGAATAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 5 0.26
13 5 0.26
14 9 0.47
ACGTcount: A:0.00, C:0.91, G:0.00, T:0.09
Consensus pattern (13 bp):
CTCCCCCCCCCCC
Found at i:32453543 original size:26 final size:28
Alignment explanation
Indices: 32453471--32453543 Score: 71
Period size: 26 Copynumber: 2.6 Consensus size: 28
32453461 TACACATTTT
* *
32453471 TATATTTTATAATATATAAGTTGGTTAAA
1 TATATTTTATAATACATTAGTT-GTTAAA
* *
32453500 TATA-TTTATATTTTCATTAG-T-TTAAA
1 TATATTTTATA-ATACATTAGTTGTTAAA
32453526 TATATTTTATAATACATT
1 TATATTTTATAATACATT
32453544 TATTGAAGTC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
26 14 0.39
27 6 0.17
28 7 0.19
29 9 0.25
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (28 bp):
TATATTTTATAATACATTAGTTGTTAAA
Found at i:32457612 original size:17 final size:17
Alignment explanation
Indices: 32457590--32457623 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
32457580 CTCTGTACAA
32457590 GAGAGAGAGAGAGAGAG
1 GAGAGAGAGAGAGAGAG
32457607 GAGAGAGAGAGAGAGAG
1 GAGAGAGAGAGAGAGAG
32457624 AGACTTGATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (17 bp):
GAGAGAGAGAGAGAGAG
Found at i:32457643 original size:2 final size:2
Alignment explanation
Indices: 32457589--32457626 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
32457579 ACTCTGTACA
32457589 AG AG AG AG AG AG AG AG AG -G AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32457627 CTTGATGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:32458182 original size:19 final size:20
Alignment explanation
Indices: 32458153--32458190 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
32458143 CAGTTTTTAA
32458153 TAATAAAAATAAATAATTTT
1 TAATAAAAATAAATAATTTT
*
32458173 TAAT-AAAATAATTAATTT
1 TAATAAAAATAAATAATTT
32458191 ATTCTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAAAAATAAATAATTTT
Found at i:32458938 original size:21 final size:20
Alignment explanation
Indices: 32458900--32458938 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
32458890 AATTAATTAT
* *
32458900 AAATATATTATAGTCCTCTC
1 AAATATATAATAGCCCTCTC
32458920 AAATATATAAATAGCCCTC
1 AAATATAT-AATAGCCCTC
32458939 CAAGATTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATATATAATAGCCCTCTC
Found at i:32464103 original size:26 final size:26
Alignment explanation
Indices: 32464035--32464128 Score: 89
Period size: 26 Copynumber: 3.6 Consensus size: 26
32464025 CCTGAATATC
* * *
32464035 AGGCTTTGTGCCGGTGTTAATCTAGT
1 AGGCTTTGAGCCGGTGTTAACCTAGA
* *
32464061 AGACTTTGAGCCAGTGTTAACCTAGA
1 AGGCTTTGAGCCGGTGTTAACCTAGA
* * ** **
32464087 AGGCTTTGAGTCGGTGTTTATTTATC
1 AGGCTTTGAGCCGGTGTTAACCTAGA
32464113 AGGCTTTGAGCCGGTG
1 AGGCTTTGAGCCGGTG
32464129 ATATAGACCA
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.19, C:0.16, G:0.30, T:0.35
Consensus pattern (26 bp):
AGGCTTTGAGCCGGTGTTAACCTAGA
Found at i:32464322 original size:110 final size:110
Alignment explanation
Indices: 32464123--32464383 Score: 306
Period size: 110 Copynumber: 2.4 Consensus size: 110
32464113 AGGCTTTGAG
* * * *
32464123 CCGGTGATATAGACCATAGCGATGACTTGAGATCCTGCATGTGTTGCGGGTTCTCTACAACTTGT
1 CCGGTGATATAGACCATAGCGATGGCTTGAGATTCTGCATGTCTTGCGGATTCTCTACAACTTGT
* *
32464188 GTGAGCAGCATCGTGAGCCAGTGATTATTTAGTAGGTAAAATACA
66 GTGAGCAACATCGTGAGCCAGTGATTATTTAGCAGGTAAAATACA
* * * * * * * * *
32464233 CCGGTCATACAGACCGTAGCAATGGCTTGAGATTTTGCTTGTCTTGCGGATTCTTTGCAGCTTGT
1 CCGGTGATATAGACCATAGCGATGGCTTGAGATTCTGCATGTCTTGCGGATTCTCTACAACTTGT
* * ** * **
32464298 GTGAGCAATATCGTGATCTGGTGATTATTTAGCAGGTACAATGTA
66 GTGAGCAACATCGTGAGCCAGTGATTATTTAGCAGGTAAAATACA
* *
32464343 CCAGTGAAATAGACCATAGCGATGGCTTGAGATTCTGCATG
1 CCGGTGATATAGACCATAGCGATGGCTTGAGATTCTGCATG
32464384 CGTTGTAGAT
Statistics
Matches: 121, Mismatches: 30, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
110 121 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (110 bp):
CCGGTGATATAGACCATAGCGATGGCTTGAGATTCTGCATGTCTTGCGGATTCTCTACAACTTGT
GTGAGCAACATCGTGAGCCAGTGATTATTTAGCAGGTAAAATACA
Found at i:32466495 original size:15 final size:15
Alignment explanation
Indices: 32466447--32466476 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32466437 TCAATAATCC
*
32466447 AATGATTATAAAAGA
1 AATGAATATAAAAGA
32466462 AATGAATATAAAAGA
1 AATGAATATAAAAGA
32466477 TATAAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.23
Consensus pattern (15 bp):
AATGAATATAAAAGA
Found at i:32467272 original size:22 final size:22
Alignment explanation
Indices: 32467246--32467294 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
32467236 TAACCGATCT
32467246 CCGATCAAATTAAATCG-ATT-AA
1 CCGATC-AATT-AATCGAATTAAA
*
32467268 CCGATCGATTAATCGAATTAAA
1 CCGATCAATTAATCGAATTAAA
32467290 CCGAT
1 CCGAT
32467295 TTAATCGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (22 bp):
CCGATCAATTAATCGAATTAAA
Found at i:32472005 original size:268 final size:272
Alignment explanation
Indices: 32471509--32472047 Score: 942
Period size: 268 Copynumber: 2.0 Consensus size: 272
32471499 TTTTCCTTGC
32471509 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
1 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
* *
32471574 AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTTACTGGAAAAAGCATGGCTCATCC
66 AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCGAAAAAGCATGGCTCATCC
* *
32471639 TTGTTTTAAGCAAATATAGTTTAGCGTGCTTGCTTGGCATGTTCTATTGGGAAACCTTGATCTGC
131 TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACA-GTTCTATTGGGAAACCTTGATCTGC
* *
32471704 CCAGTGTTGTCAAAGGCACAAGGTGCTAGAACCCTTATATTGCCTCAGGTGCAAGGCACATAAAA
195 CCAGTGTTGTCAAAGACACAAGGTGCTAGAACCCTTATATTGCCTCAGGTGCAAGGCACACAAAA
32471769 AGTGTTAGCTTAG
260 AGTGTTAGCTTAG
*
32471782 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTG-TTTTCAGTTTGATGTGTGCTTC
1 TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
* *
32471846 AAATGCATTCTGCAATCAATGTCATGG-TTTGAATATAAGTGACTCG-AAAAGCATGGCTCATCG
66 AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCGAAAAAGCATGGCTCATCC
*
32471909 TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACA-TTCTATTGGGAAACCTTGATCTTCC
131 TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACAGTTCTATTGGGAAACCTTGATCTGCC
*
32471973 CATTGTTGTCAAAGACACAAGGTGCTAGAACCCTTATATTGCCTCAGGTGCAAGGCACACAAAAA
196 CAGTGTTGTCAAAGACACAAGGTGCTAGAACCCTTATATTGCCTCAGGTGCAAGGCACACAAAAA
32472038 GTGTTAGCTT
261 GTGTTAGCTT
32472048 GCGTGAAGTA
Statistics
Matches: 255, Mismatches: 11, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
268 96 0.38
270 53 0.21
271 17 0.07
272 47 0.18
273 42 0.16
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.35
Consensus pattern (272 bp):
TTAACTGACTTATCTATTTAGCTTGGTAGAATTTCTTAGCTGTTTTTCAGTTTGACGTGTGCTTC
AAATGCATGCTGCAATCAATGTCATGGTTTTGAATATAAGTGACTCGAAAAAGCATGGCTCATCC
TTGTTTTAAGCAAATATACTTTAGCGTGCTTGCTTGACAGTTCTATTGGGAAACCTTGATCTGCC
CAGTGTTGTCAAAGACACAAGGTGCTAGAACCCTTATATTGCCTCAGGTGCAAGGCACACAAAAA
GTGTTAGCTTAG
Found at i:32479967 original size:15 final size:15
Alignment explanation
Indices: 32479947--32480013 Score: 54
Period size: 15 Copynumber: 4.8 Consensus size: 15
32479937 TCCGGTCCCA
*
32479947 AATAAATTAAAACCC
1 AATAAATTAAAATCC
32479962 AATAAA-T-AAA--C
1 AATAAATTAAAATCC
* *
32479973 AA-AAAATAAAGTCC
1 AATAAATTAAAATCC
*
32479987 AATAAATTAAAATTC
1 AATAAATTAAAATCC
*
32480002 ATTAAATTAAAA
1 AATAAATTAAAA
32480014 AGTCCAATTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
10 3 0.07
11 4 0.10
12 2 0.05
13 3 0.07
14 4 0.10
15 26 0.62
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.24
Consensus pattern (15 bp):
AATAAATTAAAATCC
Found at i:32480503 original size:21 final size:22
Alignment explanation
Indices: 32480479--32480541 Score: 58
Period size: 21 Copynumber: 2.8 Consensus size: 22
32480469 CAATATAAGC
32480479 ATACAAACTACCGATACAT-CA
1 ATACAAACTACCGATACATGCA
*
32480500 ATACTAACAACTACCGATACTTGCA
1 ATAC--A-AACTACCGATACATGCA
* *
32480525 ATTC-AACTACTGATACA
1 ATACAAACTACCGATACA
32480542 ACTCAAGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
21 15 0.44
23 1 0.03
24 13 0.38
25 5 0.15
ACGTcount: A:0.43, C:0.27, G:0.06, T:0.24
Consensus pattern (22 bp):
ATACAAACTACCGATACATGCA
Found at i:32484932 original size:22 final size:22
Alignment explanation
Indices: 32484907--32484949 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32484897 TTCATGCTAC
**
32484907 GTCAGCAGGCCACTCCTACCAT
1 GTCAGCACACCACTCCTACCAT
*
32484929 GTCAGTACACCACTCCTACCA
1 GTCAGCACACCACTCCTACCA
32484950 CGTGAACCGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.42, G:0.14, T:0.19
Consensus pattern (22 bp):
GTCAGCACACCACTCCTACCAT
Found at i:32485976 original size:30 final size:29
Alignment explanation
Indices: 32485902--32485985 Score: 77
Period size: 26 Copynumber: 3.0 Consensus size: 29
32485892 ATTTTTATAT
* *
32485902 TGTTTTAATTTAATTCTTTATTTTG-TT-
1 TGTTTTAATTTAATCCTTTAATTTGTTTA
* **
32485929 T-TTTAAATTTAGGCCTTTAATTTGTTTA
1 TGTTTTAATTTAATCCTTTAATTTGTTTA
*
32485957 TAGTTTTAATTTAATCCTTT-ATTTATTTA
1 T-GTTTTAATTTAATCCTTTAATTTGTTTA
32485986 ATTCAGCCCA
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
26 18 0.41
27 3 0.07
28 1 0.02
29 8 0.18
30 14 0.32
ACGTcount: A:0.24, C:0.06, G:0.07, T:0.63
Consensus pattern (29 bp):
TGTTTTAATTTAATCCTTTAATTTGTTTA
Found at i:32487065 original size:58 final size:57
Alignment explanation
Indices: 32486995--32487368 Score: 348
Period size: 59 Copynumber: 6.4 Consensus size: 57
32486985 TTTTGGATAC
* * * * *
32486995 TCGAGGGCAAAATGGTAA-TTTTGGTTGAAATTGGATCAAAAATGGGATTTTTGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGG-TAAAATTGGGT-AAAAATGGAATTTTGGAAAGT
* * * *
32487053 TCGAGGGTAAAATAGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAAT-TGGG-TAAAAATGGAATTTTGGAAAGT
* * * * *
32487112 T-TAGGGGTAAAATTGTAATTTTTGGTAAAATCAGGGTCAAAATGGAATTTTGGGAAAAT
1 TCGA-GGGTAAAATGGTAATTTTTGGTAAAAT-TGGGTAAAAATGGAATTTT-GGAAAGT
* * * *
32487171 TCGAAGGTAAAATGGTAA-TTTTGATAAAATTGGGGTTAAAATGGAATTTTAG-AAGAT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATT-GGGTAAAAATGGAATTTTGGAAAG-T
* * *
32487228 TCAAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTAGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATTG-GG-TAAAAATGGAATTTTGGAAAGT
* * *
32487287 TCGAGGGCAAAATGGTAA-TTTTGGTGAAATTGGGGTAAAAATGGAATTTTGGAAAACT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATT-GGGTAAAAATGGAATTTTGG-AAAGT
*
32487345 TAG-GGGTAAAAAT-GTAATTTTTGG
1 TCGAGGGT-AAAATGGTAATTTTTGG
32487369 AAAGTGTTGG
Statistics
Matches: 263, Mismatches: 37, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
56 2 0.01
57 42 0.16
58 106 0.40
59 108 0.41
60 5 0.02
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (57 bp):
TCGAGGGTAAAATGGTAATTTTTGGTAAAATTGGGTAAAAATGGAATTTTGGAAAGT
Found at i:32487073 original size:29 final size:29
Alignment explanation
Indices: 32487041--32487547 Score: 111
Period size: 29 Copynumber: 17.3 Consensus size: 29
32487031 CAAAAATGGG
32487041 ATTTTTGAAAGTTCGAGGGTAAAATAGTA
1 ATTTTTGAAAGTTCGAGGGTAAAATAGTA
* *
32487070 ATTTTTGGTAAA-ATCG-GGGTTAAAA-ATGAA
1 ATTTTT-G-AAAGTTCGAGGG-TAAAATA-GTA
* * * *
32487100 ATTTTGGGAAGTT-TAGGGGTAAAATTGTA
1 ATTTTTGAAAGTTCGA-GGGTAAAATAGTA
* *
32487129 ATTTTTGGTAAA-ATC-AGGGTCAAAAT-GGA
1 ATTTTT-G-AAAGTTCGAGGGT-AAAATAGTA
* * * *
32487158 ATTTTGGGAAAATTCGAAGGTAAAATGGTA
1 ATTTT-TGAAAGTTCGAGGGTAAAATAGTA
* *
32487188 A-TTTTGATAAAATT-G-GGGTTAAAAT-GGA
1 ATTTTTG--AAAGTTCGAGGG-TAAAATAGTA
* * *
32487216 ATTTTAG-AAGATTCAAGGGTAAAATGGTA
1 ATTTTTGAAAG-TTCGAGGGTAAAATAGTA
* * *
32487245 ATTTTTGGTAAA-ATCGAGGTTAAAA-ATGGA
1 ATTTTT-G-AAAGTTCGAGGGTAAAATA-GTA
* * *
32487275 ATTTTAGAAAGTTCGAGGGCAAAATGGTA
1 ATTTTTGAAAGTTCGAGGGTAAAATAGTA
*
32487304 ATTTTGGTGAAA-TT-G-GGGTAAAA-ATGGA
1 ATTTT--TGAAAGTTCGAGGGTAAAATA-GTA
* * *
32487332 ATTTTGGAAAACTTAG-GGGTAAAA-ATGTA
1 ATTTTTG-AAAGTTCGAGGGTAAAATA-GTA
*
32487361 ATTTTTGGAAAGTGTTG-GGGTCAAAATA-TA
1 ATTTTT-GAAAGT-TCGAGGGT-AAAATAGTA
* * **
32487391 ATTTTAGAAAGTT-TAGGGGTAAAAGGGTA
1 ATTTTTGAAAGTTCGA-GGGTAAAATAGTA
* **
32487420 ATTTGTAGAAAGTTTTAGGGTTAAAAT-GTA
1 ATTT-TTGAAAGTTCGAGGG-TAAAATAGTA
* *
32487450 ATTTTGGAAAGTTTTG-GGGTTAAAATA-TA
1 ATTTTTGAAAG-TTCGAGGG-TAAAATAGTA
* * *
32487479 GTTTTAGGAAAGTT-TAGGGGTTAAAAT-GTA
1 ATTTT-TGAAAGTTCGA-GGG-TAAAATAGTA
** *
32487509 ATTTTTAGAAAGTTTTAGTGTGAAAATA-TA
1 ATTTTT-GAAAGTTCGAGGGT-AAAATAGTA
32487539 A-TTTTGAAA
1 ATTTTTGAAA
32487548 AAGTTTAGGG
Statistics
Matches: 366, Mismatches: 56, Indels: 113
0.68 0.10 0.21
Matches are distributed among these distances:
26 3 0.01
27 5 0.01
28 45 0.12
29 153 0.42
30 135 0.37
31 22 0.06
32 3 0.01
ACGTcount: A:0.38, C:0.02, G:0.25, T:0.35
Consensus pattern (29 bp):
ATTTTTGAAAGTTCGAGGGTAAAATAGTA
Found at i:32487112 original size:59 final size:59
Alignment explanation
Indices: 32486995--32487368 Score: 356
Period size: 58 Copynumber: 6.4 Consensus size: 59
32486985 TTTTGGATAC
* * * * * * * *
32486995 TCGAGGGCAAAATGGTAA-TTTTGGTTGAAAT-TGGATCAAAAATGGGATTTTTGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGG-TAAAATCGGGGTTAAAAATGGAATTTTGGGAAGT
* *
32487053 TCGAGGGTAAAATAGTAATTTTTGGTAAAATCGGGGTTAAAAATGAAATTTTGGGAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGGAAGT
* * * * *
32487112 T-TAGGGGTAAAATTGTAATTTTTGGTAAAATCAGGG-TCAAAATGGAATTTTGGGAAAAT
1 TCGA-GGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGG-AAGT
* * * *
32487171 TCGAAGGTAAAATGGTAA-TTTTGATAAAATTGGGGTT-AAAATGGAATTTT-AGAAGAT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGGAAG-T
* * * *
32487228 TCAAGGGTAAAATGGTAATTTTTGGTAAAATCGAGGTTAAAAATGGAATTTTAGAAAGT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGGAAGT
* * * * *
32487287 TCGAGGGCAAAATGGTAA-TTTTGGTGAAATTGGGG-TAAAAATGGAATTTTGGAAAACT
1 TCGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGG-GAAGT
*
32487345 TAG-GGGTAAAAAT-GTAATTTTTGG
1 TCGAGGGT-AAAATGGTAATTTTTGG
32487369 AAAGTGTTGG
Statistics
Matches: 263, Mismatches: 40, Indels: 26
0.80 0.12 0.08
Matches are distributed among these distances:
56 2 0.01
57 41 0.16
58 112 0.43
59 104 0.40
60 4 0.02
ACGTcount: A:0.37, C:0.03, G:0.26, T:0.33
Consensus pattern (59 bp):
TCGAGGGTAAAATGGTAATTTTTGGTAAAATCGGGGTTAAAAATGGAATTTTGGGAAGT
Found at i:32487387 original size:116 final size:117
Alignment explanation
Indices: 32487033--32487522 Score: 426
Period size: 116 Copynumber: 4.2 Consensus size: 117
32487023 AATTGGATCA
* * * *
32487033 AAAATGGGATTTTTGAAAGTTCGAGGGTAAAATAGTAATTTTTGGTAAAATCGGGGTTAAAAATG
1 AAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGGTAA-TTTTGGTAAAATTGGGG-TAAAAATG
* * * * * *
32487098 AAATTTTGGGAAGTTTAGGGGTAAAATTGTAATTTTTGGTAAA--ATCAGGGTC
64 GAATTTTGGAAAATTTAGGGGTAAAAATGTAATTTTTGGTAAAGTGTTAGGGTC
* * * * *
32487150 AAAATGGAATTTTGGGAAAATTCGAAGGTAAAATGGTAATTTTGATAAAATTGGGGTTAAAATGG
1 AAAATGGAATTTT-AGAAAGTTCGAGGGTAAAATGGTAATTTTGGTAAAATTGGGGTAAAAATGG
* * * * * * *
32487215 AATTTTAGAAGATTCAAGGGT-AAAATGGTAATTTTTGGTAAAATCG--AGGTTA
65 AATTTTGGAAAATTTAGGGGTAAAAAT-GTAATTTTTGGTAAAGT-GTTAGGGTC
* *
32487267 AAAATGGAATTTTAGAAAGTTCGAGGGCAAAATGGTAATTTTGGTGAAATTGGGGTAAAAATGGA
1 AAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGGTAATTTTGGTAAAATTGGGGTAAAAATGGA
* *
32487332 ATTTTGGAAAACTTAGGGGTAAAAATGTAATTTTTGG-AAAGTGTTGGGGTC
66 ATTTTGGAAAATTTAGGGGTAAAAATGTAATTTTTGGTAAAGTGTTAGGGTC
** * * * *
32487383 AAAATATAATTTTAGAAAGTT-TAGGGGTAAAAGGGTAA-TTT-GTAGAAAGTTTTAGGGTTAAA
1 AAAATGGAATTTTAGAAAGTTCGA-GGGTAAAATGGTAATTTTGGTA-AAA---TTGGGGTAAAA
* * * * * * * *
32487445 ATGTAATTTTGGAAAGTTTTGGGGTTAAAATATAGTTTTAGG-AAAGT-TTAGGGGTT
61 ATGGAATTTTGGAAAATTTAGGGGTAAAAATGTAATTTTTGGTAAAGTGTTA-GGGTC
*
32487501 AAAATGTAATTTTTAGAAAGTT
1 AAAATGGAA-TTTTAGAAAGTT
32487523 TTAGTGTGAA
Statistics
Matches: 304, Mismatches: 54, Indels: 28
0.79 0.14 0.07
Matches are distributed among these distances:
114 3 0.01
115 15 0.05
116 142 0.47
117 51 0.17
118 81 0.27
119 12 0.04
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (117 bp):
AAAATGGAATTTTAGAAAGTTCGAGGGTAAAATGGTAATTTTGGTAAAATTGGGGTAAAAATGGA
ATTTTGGAAAATTTAGGGGTAAAAATGTAATTTTTGGTAAAGTGTTAGGGTC
Found at i:32487394 original size:59 final size:58
Alignment explanation
Indices: 32487057--32487523 Score: 260
Period size: 59 Copynumber: 8.0 Consensus size: 58
32487047 GAAAGTTCGA
* * * *
32487057 GGGT-AAAATAGTAATTTTTGGTAAA-ATCGGGGTTAAAAATGAAATTTTGGGAAGTTTAG
1 GGGTAAAAAT-GTAATTTTTGG-AAAGTTTGGGGTT-AAAATGTAATTTTGGAAAGTTTAG
* * ** * * * *
32487116 GGGTAAAATTGTAATTTTTGGTAAA-ATCAGGGTCAAAATGGAATTTTGGGAAA-ATTCG
1 GGGTAAAAATGTAATTTTTGG-AAAGTTTGGGGTTAAAATGTAATTTT-GGAAAGTTTAG
* ** * * * *
32487174 AAGGT-AAAATGGTAA-TTTT-GATAAAATTGGGGTTAAAATGGAATTTTAG-AAGATTCAA
1 -GGGTAAAAAT-GTAATTTTTGGA-AAGTTTGGGGTTAAAATGTAATTTTGGAAAG-TTTAG
* * * * * *
32487232 GGGT-AAAATGGTAATTTTTGGTAAA-ATCGAGGTTAAAAATGGAATTTTAGAAAG-TTCG
1 GGGTAAAAAT-GTAATTTTTGG-AAAGTTTGGGGTT-AAAATGTAATTTTGGAAAGTTTAG
* * * * **
32487290 AGGG-CAAAATGGTAATTTTGGTGAAA--TTGGGGTAAAAATGGAATTTTGGAAAACTTAG
1 -GGGTAAAAAT-GTAATTTTTG-GAAAGTTTGGGGTTAAAATGTAATTTTGGAAAGTTTAG
* * *
32487348 GGGTAAAAATGTAATTTTTGGAAAGTGTTGGGGTCAAAATATAATTTTAGAAAGTTTAG
1 GGGTAAAAATGTAATTTTTGGAAAGT-TTGGGGTTAAAATGTAATTTTGGAAAGTTTAG
** * * * *
32487407 GGGTAAAAGGGTAATTTGTAGAAAGTTTTAGGGTTAAAATGTAATTTTGGAAAGTTTTG
1 GGGTAAAAATGTAATTTTTGGAAAG-TTTGGGGTTAAAATGTAATTTTGGAAAGTTTAG
* * * * *
32487466 GGGTTAAAATATAGTTTTAGGAAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTT
1 GGGTAAAAATGTAATTTTTGGAAAGTTT-GGGGTTAAAATGTAA-TTTTGGAAAGTTT
32487524 TAGTGTGAAA
Statistics
Matches: 327, Mismatches: 57, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
56 7 0.02
57 46 0.14
58 71 0.22
59 181 0.55
60 22 0.07
ACGTcount: A:0.37, C:0.02, G:0.26, T:0.34
Consensus pattern (58 bp):
GGGTAAAAATGTAATTTTTGGAAAGTTTGGGGTTAAAATGTAATTTTGGAAAGTTTAG
Found at i:32487511 original size:89 final size:88
Alignment explanation
Indices: 32487348--32487562 Score: 288
Period size: 89 Copynumber: 2.4 Consensus size: 88
32487338 GAAAACTTAG
*
32487348 GGGTAAAAATGTAATTTTTGGAAAGTGTTGGGGTCAAAATATAATTTTAGAAAGTTTAGGGGTAA
1 GGGTAAAAATGTAA-TTTTGGAAAGTTTTGGGGTCAAAATATAATTTTAGAAAGTTTAGGGGTAA
32487413 AAGGGTAATTTGTAGAAAGTTTTA
65 AAGGGTAATTTGTAGAAAGTTTTA
* * *
32487437 GGGTTAAAATGTAATTTTGGAAAGTTTTGGGGTTAAAATATAGTTTTAGGAAAGTTTAGGGGTTA
1 GGGTAAAAATGTAATTTTGGAAAGTTTTGGGGTCAAAATATAATTTTA-GAAAGTTTAGGGG-TA
* *
32487502 AAA-TGTAATTTTTAGAAAGTTTTA
64 AAAGGGTAATTTGTAGAAAGTTTTA
* * * * *
32487526 GTGTGAAAATATAATTTTGAAAAAGTTTAGGGGTCAA
1 GGGTAAAAATGTAATTTTG-GAAAGTTTTGGGGTCAA
32487563 TTTAATTTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
88 31 0.28
89 61 0.55
90 19 0.17
ACGTcount: A:0.37, C:0.01, G:0.26, T:0.37
Consensus pattern (88 bp):
GGGTAAAAATGTAATTTTGGAAAGTTTTGGGGTCAAAATATAATTTTAGAAAGTTTAGGGGTAAA
AGGGTAATTTGTAGAAAGTTTTA
Found at i:32487520 original size:30 final size:30
Alignment explanation
Indices: 32487318--32487585 Score: 207
Period size: 30 Copynumber: 9.1 Consensus size: 30
32487308 TGGTGAAATT
* * * **
32487318 GGGGTAAAAATGGAA-TTTTGGAAAACTTA
1 GGGGTTAAAATGTAATTTTTAGAAAGTTTA
* *
32487347 GGGGTAAAAATGTAATTTTTGGAAAGTGTT-
1 GGGGTTAAAATGTAATTTTTAGAAAGT-TTA
* *
32487377 GGGGTCAAAATATAA-TTTTAGAAAGTTTA
1 GGGGTTAAAATGTAATTTTTAGAAAGTTTA
* *
32487406 GGGG-TAAAAGGGTAATTTGTAGAAAGTTTTA
1 GGGGTTAAAA-TGTAATTTTTAGAAAG-TTTA
* *
32487437 -GGGTTAAAATGTAA-TTTTGGAAAGTTTT
1 GGGGTTAAAATGTAATTTTTAGAAAGTTTA
* *
32487465 GGGGTTAAAATAT-AGTTTTAGGAAAGTTTA
1 GGGGTTAAAATGTAATTTTTA-GAAAGTTTA
32487495 GGGGTTAAAATGTAATTTTTAGAAAGTTTTA
1 GGGGTTAAAATGTAATTTTTAGAAAG-TTTA
* * * * *
32487526 -GTGTGAAAATATAATTTTGAAAAAGTTTA
1 GGGGTTAAAATGTAATTTTTAGAAAGTTTA
* *
32487555 GGGG-T-CAATTTAATTTTTAGACAA-TTTA
1 GGGGTTAAAATGTAATTTTTAGA-AAGTTTA
32487583 GGG
1 GGG
32487586 ACCTCTAGGG
Statistics
Matches: 195, Mismatches: 30, Indels: 29
0.77 0.12 0.11
Matches are distributed among these distances:
28 29 0.15
29 60 0.31
30 85 0.44
31 21 0.11
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (30 bp):
GGGGTTAAAATGTAATTTTTAGAAAGTTTA
Found at i:32487551 original size:60 final size:60
Alignment explanation
Indices: 32487348--32487575 Score: 188
Period size: 59 Copynumber: 3.9 Consensus size: 60
32487338 GAAAACTTAG
* * * * * *
32487348 GGGTAAAAATGTAATTTTTGGAAAGTGTT-GGGGTCAAAATATAA-TTTTAGAAAG-TTTA
1 GGGTGAAAATATAATTTTAGAAAAGT-TTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTA
** * *
32487406 GGG-GTAAAAGGGTAATTTGTAG-AAAGTTTTA-GGGTTAAAATGTAA-TTTTGGAAAGTTTTG
1 GGGTG-AAAA-TATAATTT-TAGAAAAG-TTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTA
* * *
32487466 GGGTTAAAATATAGTTTTAGGAAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTA
1 GGGTGAAAATATAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTA
* * *
32487526 GTGTGAAAATATAATTTT-GAAAAAGTTTAGGGG-T-CAATTTAATTTTTAGA
1 GGGTGAAAATATAATTTTAG-AAAAGTTTAGGGGTTAAAATGTAATTTTTAGA
32487576 CAATTTAGGG
Statistics
Matches: 140, Mismatches: 19, Indels: 22
0.77 0.10 0.12
Matches are distributed among these distances:
58 28 0.20
59 59 0.42
60 53 0.38
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (60 bp):
GGGTGAAAATATAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTTAGAAAGTTTTA
Found at i:32489392 original size:6 final size:6
Alignment explanation
Indices: 32489383--32489472 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
32489373 AATTTGATTG
** **
32489383 AATTTA AATTTA AATTTA AA-ACA AATTTA AATTTAAA AAGATA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTT--A AATTTA AATTTA
* * * *
32489432 AATTTA AA-ATA AATTTG AA-TT- AATTTA AATCTA ATTTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
32489473 ATTCAAGATT
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
4 2 0.03
5 11 0.17
6 46 0.73
8 4 0.06
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:32489410 original size:17 final size:17
Alignment explanation
Indices: 32489387--32489474 Score: 88
Period size: 17 Copynumber: 5.1 Consensus size: 17
32489377 TGATTGAATT
32489387 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
*
32489404 CAAATTTAAATTTAAAAAGA
1 TAAATTTAAATTT--AAA-A
32489424 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* **
32489441 TAAATTTGAA-TTAATT
1 TAAATTTAAATTTAAAA
* *
32489457 TAAATCTAATTTTAAAA
1 TAAATTTAAATTTAAAA
32489474 T
1 T
32489475 TCAAGATTTG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
16 11 0.19
17 27 0.47
18 3 0.05
19 3 0.05
20 13 0.23
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:32493338 original size:38 final size:37
Alignment explanation
Indices: 32493289--32493372 Score: 93
Period size: 38 Copynumber: 2.2 Consensus size: 37
32493279 TTTAAAATTT
32493289 TATATAT-TATTT-TTTTCAATAATTAT-TTATTTATATA
1 TATATATATATTTATTTT--ATAATTATATTATTTA-ATA
* *
32493326 TATATATATATTTAATTTTATTATTATATTTTTTAATA
1 TATATATATATTT-ATTTTATAATTATATTATTTAATA
32493364 TATATATAT
1 TATATATAT
32493373 GTATATCTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
37 7 0.17
38 24 0.59
39 6 0.15
40 4 0.10
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (37 bp):
TATATATATATTTATTTTATAATTATATTATTTAATA
Found at i:32493378 original size:54 final size:53
Alignment explanation
Indices: 32493214--32493384 Score: 140
Period size: 54 Copynumber: 3.2 Consensus size: 53
32493204 TTTAATATTA
* * * *
32493214 ATATTA-ATATAAAATTTAAATTTATTATTATATATTTTTGAATAAGT-TTTTGT
1 ATATTATATAT-ATATTTAATTTTATTATTATAT-TTTTTCAATAAGTATTATGT
* * *
32493267 AT-TTTTATATAT-TTTAAAATTTTATATATTAT-TTTTTTCAATAATTATTTATTT
1 ATATTATATATATATTT--AATTTTAT-TATTATATTTTTTCAATAAGTA-TTATGT
32493321 ATATATATATATATATTTAATTTTATTATTATATTTTTT-AATATA-TATATATGT
1 ATAT-TATATATATATTTAATTTTATTATTATATTTTTTCAATA-AGTAT-TATGT
32493375 ATATCTATAT
1 ATAT-TATAT
32493385 GTGTGTGTGT
Statistics
Matches: 96, Mismatches: 10, Indels: 23
0.74 0.08 0.18
Matches are distributed among these distances:
51 3 0.03
52 14 0.15
53 15 0.16
54 37 0.39
55 16 0.17
56 8 0.08
57 3 0.03
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (53 bp):
ATATTATATATATATTTAATTTTATTATTATATTTTTTCAATAAGTATTATGT
Found at i:32502784 original size:19 final size:19
Alignment explanation
Indices: 32502756--32502805 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
32502746 AACGGAATCT
* * *
32502756 AAAATTTCTAATAGATACC
1 AAAATCTCTAACAGATAAC
* *
32502775 AAAATCTCTAGCGGATAAC
1 AAAATCTCTAACAGATAAC
32502794 AAAATCTCTAAC
1 AAAATCTCTAAC
32502806 CAAATATCAA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.46, C:0.20, G:0.08, T:0.26
Consensus pattern (19 bp):
AAAATCTCTAACAGATAAC
Found at i:32503191 original size:39 final size:38
Alignment explanation
Indices: 32503148--32503269 Score: 134
Period size: 39 Copynumber: 3.4 Consensus size: 38
32503138 TTATCAATAC
32503148 CAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTT
1 CAAAATTT-CTAACAAAATTCAAAATCTCTAATGGATTT
** **
32503187 CAAAATTTCTAAC-AAA-TC----TCT-T-ATCAATAC
1 CAAAATTTCTAACAAAATTCAAAATCTCTAATGGATTT
32503217 CAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTT
1 CAAAATTT-CTAACAAAATTCAAAATCTCTAATGGATTT
32503256 CAAAATTTCTAACA
1 CAAAATTTCTAACA
32503270 GATCCCAACA
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
30 12 0.18
31 6 0.09
32 6 0.09
33 2 0.03
36 2 0.03
37 6 0.09
38 12 0.18
39 20 0.30
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (38 bp):
CAAAATTTCTAACAAAATTCAAAATCTCTAATGGATTT
Found at i:32503210 original size:69 final size:69
Alignment explanation
Indices: 32503131--32503269 Score: 278
Period size: 69 Copynumber: 2.0 Consensus size: 69
32503121 CACAATACTA
32503131 AAATCTCTTATCAATACCAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTTCAAAATTTC
1 AAATCTCTTATCAATACCAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTTCAAAATTTC
32503196 TAAC
66 TAAC
32503200 AAATCTCTTATCAATACCAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTTCAAAATTTC
1 AAATCTCTTATCAATACCAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTTCAAAATTTC
32503265 TAAC
66 TAAC
32503269 A
1 A
32503270 GATCCCAACA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.44, C:0.20, G:0.03, T:0.33
Consensus pattern (69 bp):
AAATCTCTTATCAATACCAAAATTTCCTAACAAAATTCAAAATCTCTAATGGATTTCAAAATTTC
TAAC
Found at i:32503584 original size:19 final size:18
Alignment explanation
Indices: 32503554--32503604 Score: 57
Period size: 19 Copynumber: 2.8 Consensus size: 18
32503544 TCTTCCATTA
*
32503554 AAAATTTGGGTATCCCTT
1 AAAATTTTGGTATCCCTT
* *
32503572 ACAGATTTTGGTACCCCTT
1 A-AAATTTTGGTATCCCTT
*
32503591 AAAAGTTTGGTATC
1 AAAATTTTGGTATC
32503605 TATTTGAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
18 11 0.42
19 15 0.58
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (18 bp):
AAAATTTTGGTATCCCTT
Found at i:32504151 original size:20 final size:19
Alignment explanation
Indices: 32504113--32504151 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
32504103 TGCATTATAG
*
32504113 ATTTTAGTATTAGTTAAAA
1 ATTTTAGTATTAATTAAAA
*
32504132 ATTTTGGTATTTAATTAAAA
1 ATTTTAGTA-TTAATTAAAA
32504152 TATTAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATTTTAGTATTAATTAAAA
Found at i:32505999 original size:31 final size:31
Alignment explanation
Indices: 32505964--32506025 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
32505954 TAATAATTAA
* *
32505964 ATTCGAATTGATTAATTTTAA-TCATTGTACT
1 ATTCGAATTGATCAATTTCAATTC-TTGTACT
32505995 ATTCGAATTGATCAATTTCAATTCTTGTACT
1 ATTCGAATTGATCAATTTCAATTCTTGTACT
32506026 TTTCAAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 26 0.93
32 2 0.07
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.47
Consensus pattern (31 bp):
ATTCGAATTGATCAATTTCAATTCTTGTACT
Found at i:32506424 original size:43 final size:43
Alignment explanation
Indices: 32506363--32506754 Score: 400
Period size: 43 Copynumber: 9.2 Consensus size: 43
32506353 TTATGTGGGA
* *
32506363 AAACGCCACTATAGAACATAATCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
* * * *
32506406 AAACGCCGCTATAAAACATGATCTTTAGCGACGCTTTTCCAAC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
* * **
32506449 AAACGCCGCTATAGAGCAT-AGTCTTTAACGGC-TCTTTTCCCGT
1 AAACGCCGCTATAGAACATGA-TCTTTAGCGGCGT-TTTTCCCAC
* * ** * *
32506492 AAACGCCTCTATAGAACATGGTCTTTAGCGATGCTTTTCCCGC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
* * *
32506535 AAACGCCTCTATAGAACATGATCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
* * *
32506578 AAACGCCACCATAGAACATG-TCTTTAGCGACGCTTTTT-CCAC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCG-TTTTTCCCAC
* *
32506620 AAACGCCGCTATAGAACATGTTCTTTAGCGGTGTTTTTCCCAC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
* ** * * *
32506663 AAACGCCG-TAATAGAAGATGATCTTTAATGACATTTTTACCAC
1 AAACGCCGCT-ATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
* * * *
32506706 AAATGCCGCTATAGAACATGTTTTTTAGTGGCG-TTTTCCCAC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
32506748 AAACGCC
1 AAACGCC
32506755 ACTAACATTG
Statistics
Matches: 287, Mismatches: 53, Indels: 19
0.80 0.15 0.05
Matches are distributed among these distances:
42 53 0.18
43 233 0.81
44 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCAC
Found at i:32506461 original size:86 final size:85
Alignment explanation
Indices: 32506363--32506754 Score: 443
Period size: 86 Copynumber: 4.6 Consensus size: 85
32506353 TTATGTGGGA
* * *
32506363 AAACGCCACTATAGAACATAATCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAAAACATGAT
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAACATGAT
32506428 CTTTAGCGACGCTTTTCCAAC
66 CTTTAGCGACGCTTTTCC-AC
* * ** *
32506449 AAACGCCGCTATAGAGCAT-AGTCTTTAACGGC-TCTTTTCCCGTAAACGCCTCTATAGAACATG
1 AAACGCCGCTATAGAACATGA-TCTTTAGCGGCGT-TTTTCCCACAAACGCCGCTATAGAACATG
* * *
32506512 GTCTTTAGCGATGCTTTTCCCGC
64 ATCTTTAGCGACGCTTTT-CCAC
* * * * *
32506535 AAACGCCTCTATAGAACATGATCTTTAGCGGCGCTTTTCTCACAAACGCCACCATAGAACATG-T
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAACATGAT
32506599 CTTTAGCGACGCTTTTTCCAC
66 CTTTAGCGACGC-TTTTCCAC
* * *
32506620 AAACGCCGCTATAGAACATGTTCTTTAGCGGTGTTTTTCCCACAAACGCCG-TAATAGAAGATGA
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCACAAACGCCGCT-ATAGAACATGA
** **
32506684 TCTTTAATGACATTTTTACCAC
65 TCTTTAGCGACGCTTTT-CCAC
* * * *
32506706 AAATGCCGCTATAGAACATGTTTTTTAGTGGCG-TTTTCCCACAAACGCC
1 AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCACAAACGCC
32506755 ACTAACATTG
Statistics
Matches: 260, Mismatches: 37, Indels: 19
0.82 0.12 0.06
Matches are distributed among these distances:
85 91 0.35
86 166 0.64
87 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (85 bp):
AAACGCCGCTATAGAACATGATCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAGAACATGAT
CTTTAGCGACGCTTTTCCAC
Found at i:32506707 original size:128 final size:126
Alignment explanation
Indices: 32506363--32506758 Score: 452
Period size: 128 Copynumber: 3.1 Consensus size: 126
32506353 TTATGTGGGA
* * *
32506363 AAACGCCACTATAGAACATAATCTTTAGCGGCGTTTTTCCCACAAACGCCGCTATAAAACATGAT
1 AAACGCCACTATAGAACATGATCTTTAGCGGTGTTTTTCCCACAAACGCCG-TATAGAACATGAT
* * * **
32506428 CTTTAGCGACGCTTTTCCAACAAACGCCGCTATAGAGCATAGTCTTTAACGGCTCTTTTCCCGT
65 CTTTAGCGACGCTTTTCC-ACAAACGCCGCTATAGAACAT-GTCTTTAGCGGCGCTTTTCCCAC
* * * * * *
32506492 AAACGCCTCTATAGAACATGGTCTTTAGCGATGCTTTTCCCGCAAACGCCTCTATAGAACATGAT
1 AAACGCCACTATAGAACATGATCTTTAGCGGTGTTTTTCCCACAAACGCC-GTATAGAACATGAT
* * * * *
32506557 CTTTAGCGGCGCTTTTCTCACAAACGCCACCATAGAACATGTCTTTAGCGACGCTTTTTCCAC
65 CTTTAGCGACGCTTTTC-CACAAACGCCGCTATAGAACATGTCTTTAGCGGCGCTTTTCCCAC
* * *
32506620 AAACGCCGCTATAGAACATGTTCTTTAGCGGTGTTTTTCCCACAAACGCCGTAATAGAAGATGAT
1 AAACGCCACTATAGAACATGATCTTTAGCGGTGTTTTTCCCACAAACGCCGT-ATAGAACATGAT
** ** * * *
32506685 CTTTAATGACATTTTTACCACAAATGCCGCTATAGAACATGTTTTTTAGTGGCG-TTTTCCCAC
65 CTTTAGCGACGCTTTT-CCACAAACGCCGCTATAGAACATG-TCTTTAGCGGCGCTTTTCCCAC
32506748 AAACGCCACTA
1 AAACGCCACTA
32506759 ACATTGACAG
Statistics
Matches: 223, Mismatches: 39, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
127 1 0.00
128 122 0.55
129 99 0.44
130 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (126 bp):
AAACGCCACTATAGAACATGATCTTTAGCGGTGTTTTTCCCACAAACGCCGTATAGAACATGATC
TTTAGCGACGCTTTTCCACAAACGCCGCTATAGAACATGTCTTTAGCGGCGCTTTTCCCAC
Found at i:32507161 original size:66 final size:66
Alignment explanation
Indices: 32507029--32507161 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
32507019 ATTTTGAAGC
* * **
32507029 TGTAGCTGCAGTTCGTCATACTTTTTTTGAGACTCTGCTTCCCTCACTGCTGCCTTGGCTTCAAG
1 TGTAGCTGAAGTTCATCATACTTTTTTTGAGACTCTGCTTCCCTCACTGCTGCCTCCGCTTCAAG
32507094 T
66 T
* * * *
32507095 TGTAGTTGAAGTTCATCATA-TTTTCTTTGAG-CGTCTGCTTCTCTCGCTGCTGCCTCCGCTTTA
1 TGTAGCTGAAGTTCATCATACTTTT-TTTGAGAC-TCTGCTTCCCTCACTGCTGCCTCCGCTTCA
32507158 AGT
64 AGT
32507161 T
1 T
32507162 AAGCAAATTG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
65 5 0.09
66 52 0.91
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.41
Consensus pattern (66 bp):
TGTAGCTGAAGTTCATCATACTTTTTTTGAGACTCTGCTTCCCTCACTGCTGCCTCCGCTTCAAG
T
Found at i:32514984 original size:41 final size:40
Alignment explanation
Indices: 32514933--32515023 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
32514923 ATATACCTAT
* *
32514933 TTTACTTTTTGTGGCATTTTTCCCATAAATGCCGCTATTGC
1 TTTACCTTTTGTGGCATTTATCCCA-AAATGCCGCTATTGC
* *** *
32514974 TTTACCTTTTGTGGCGTTTATGGGAAAATGCCGCTATTGT
1 TTTACCTTTTGTGGCATTTATCCCAAAATGCCGCTATTGC
*
32515014 TTTATCTTTT
1 TTTACCTTTT
32515024 ACGACGTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
40 23 0.55
41 19 0.45
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.48
Consensus pattern (40 bp):
TTTACCTTTTGTGGCATTTATCCCAAAATGCCGCTATTGC
Found at i:32515012 original size:40 final size:40
Alignment explanation
Indices: 32514959--32515072 Score: 147
Period size: 40 Copynumber: 2.9 Consensus size: 40
32514949 TTTTTCCCAT
* *
32514959 AAATGCCGCTATTGCTTTACCTTTTGTGGCGTTTATGGGA
1 AAATGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGAA
* * * *
32514999 AAATGCCGCTATTGTTTTATCTTTTACGACGTTTATGGAA
1 AAATGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGAA
** *
32515039 AAACACAGCTATTGCTTTACCTTTTGCGGCGTTT
1 AAATGCCGCTATTGCTTTACCTTTTGCGGCGTTT
32515073 TCTGTCCAAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.21, C:0.18, G:0.20, T:0.40
Consensus pattern (40 bp):
AAATGCCGCTATTGCTTTACCTTTTGCGGCGTTTATGGAA
Found at i:32519418 original size:18 final size:18
Alignment explanation
Indices: 32519395--32519437 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
32519385 GAATAAAATT
32519395 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
*
32519413 TTAATTAAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
32519431 TTAATTA
1 TTAATTA
32519438 CAATTGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.22
18 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:32519765 original size:21 final size:20
Alignment explanation
Indices: 32519716--32519765 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
32519706 ATTTTAGGGG
* *
32519716 TTTAGGTTTTTTTATATATT
1 TTTATGTTTTTTAATATATT
*
32519736 TTAAT-TTTTTTAATATATT
1 TTTATGTTTTTTAATATATT
32519755 CTTTATGTTTT
1 -TTTATGTTTT
32519766 GAATATCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 13 0.54
20 7 0.29
21 4 0.17
ACGTcount: A:0.22, C:0.02, G:0.06, T:0.70
Consensus pattern (20 bp):
TTTATGTTTTTTAATATATT
Found at i:32523989 original size:15 final size:15
Alignment explanation
Indices: 32523965--32523994 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
32523955 AATTTGATAC
32523965 TTACAACAATCGTAT
1 TTACAACAATCGTAT
*
32523980 TTACACCAATCGTAT
1 TTACAACAATCGTAT
32523995 ATTTGAATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (15 bp):
TTACAACAATCGTAT
Found at i:32531845 original size:37 final size:37
Alignment explanation
Indices: 32531795--32531866 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
32531785 ACGTATCGGA
32531795 ATGCAAACTCAACGAACTCTCAAAGGCCACTTAGAGG
1 ATGCAAACTCAACGAACTCTCAAAGGCCACTTAGAGG
32531832 ATGCAAACTCAACGAACTCTCAAAGGCCACTTAGA
1 ATGCAAACTCAACGAACTCTCAAAGGCCACTTAGA
32531867 ACATCAAATC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.17
Consensus pattern (37 bp):
ATGCAAACTCAACGAACTCTCAAAGGCCACTTAGAGG
Found at i:32533710 original size:20 final size:20
Alignment explanation
Indices: 32533685--32533723 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
32533675 CTGAGGAAAA
32533685 ATAAAAAAACAGAATTAAAG
1 ATAAAAAAACAGAATTAAAG
*
32533705 ATAAAAAAATAGAATTAAA
1 ATAAAAAAACAGAATTAAA
32533724 AGAAATAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.03, G:0.08, T:0.18
Consensus pattern (20 bp):
ATAAAAAAACAGAATTAAAG
Found at i:32549943 original size:31 final size:31
Alignment explanation
Indices: 32549878--32549944 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
32549868 TTTATTTTAT
*
32549878 TTTAAAATATTATTTTTATTAGGATTTAATA
1 TTTAAAATATTATTTTTATTAGAATTTAATA
*
32549909 TTTAAGATATTATTTATTATTTA-AATTTAA-A
1 TTTAAAATATTATTT-TTA-TTAGAATTTAATA
32549940 TTTAA
1 TTTAA
32549945 TTTATGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 20 0.62
32 9 0.28
33 3 0.09
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (31 bp):
TTTAAAATATTATTTTTATTAGAATTTAATA
Found at i:32550791 original size:21 final size:22
Alignment explanation
Indices: 32550755--32550801 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
32550745 TTTCAATTTC
32550755 TTTTAATCCTGTTTTCTTTTAT
1 TTTTAATCCTGTTTTCTTTTAT
*
32550777 TTTTAATTCTG-TTTCTTTTAT
1 TTTTAATCCTGTTTTCTTTTAT
32550798 TTTT
1 TTTT
32550802 CCTCAGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTAATCCTGTTTTCTTTTAT
Found at i:32552914 original size:21 final size:21
Alignment explanation
Indices: 32552875--32552914 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
32552865 GCAATTTATA
*
32552875 GATTTTCAAAAGCAAACTGTG
1 GATTTTCAAAAGAAAACTGTG
32552896 GATTTTCAAAAGAAAACTG
1 GATTTTCAAAAGAAAACTG
32552915 AGGCATCTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.28
Consensus pattern (21 bp):
GATTTTCAAAAGAAAACTGTG
Found at i:32553906 original size:12 final size:12
Alignment explanation
Indices: 32553889--32553918 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
32553879 CGAAACACTG
32553889 TTTGATGATGAT
1 TTTGATGATGAT
32553901 TTTGATGATGAT
1 TTTGATGATGAT
32553913 TTTGAT
1 TTTGAT
32553919 TCTTATCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.53
Consensus pattern (12 bp):
TTTGATGATGAT
Found at i:32560134 original size:14 final size:14
Alignment explanation
Indices: 32560111--32560140 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
32560101 TTGTATTTAA
*
32560111 TTTATGTTTATCTT
1 TTTATATTTATCTT
32560125 TTTATATTTATCTT
1 TTTATATTTATCTT
32560139 TT
1 TT
32560141 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (14 bp):
TTTATATTTATCTT
Found at i:32560937 original size:22 final size:22
Alignment explanation
Indices: 32560910--32560967 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
32560900 GACGCCTCTA
32560910 TTTTCTATTT-CTTTTAATCCTG
1 TTTTCT-TTTACTTTTAATCCTG
* *
32560932 TTTTCTTTTATTTTTAATTCTG
1 TTTTCTTTTACTTTTAATCCTG
*
32560954 -TTTCTTTTATTTTT
1 TTTTCTTTTACTTTT
32560968 CCTCAGATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.72
Consensus pattern (22 bp):
TTTTCTTTTACTTTTAATCCTG
Found at i:32560957 original size:21 final size:22
Alignment explanation
Indices: 32560921--32560967 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
32560911 TTTCTATTTC
32560921 TTTTAATCCTGTTTTCTTTTAT
1 TTTTAATCCTGTTTTCTTTTAT
*
32560943 TTTTAATTCTG-TTTCTTTTAT
1 TTTTAATCCTGTTTTCTTTTAT
32560964 TTTT
1 TTTT
32560968 CCTCAGATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (22 bp):
TTTTAATCCTGTTTTCTTTTAT
Found at i:32566557 original size:22 final size:21
Alignment explanation
Indices: 32566525--32566581 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
32566515 AATAAAAACA
32566525 TAAAAATAAAAAATATTTTTT
1 TAAAAATAAAAAATATTTTTT
32566546 TAAAAATAAAAAATATTTTTT
1 TAAAAATAAAAAATATTTTTT
*
32566567 AAAAAATTAAAAAAT
1 TAAAAA-TAAAAAAT
32566582 TAATTGAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 26 0.76
22 8 0.24
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAAAATAAAAAATATTTTTT
Found at i:32569615 original size:21 final size:21
Alignment explanation
Indices: 32569589--32569636 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
32569579 ATTTAAGATC
32569589 TTTTTAATAAT-TTT-CATAGTT
1 TTTTTAATAATGTTTACA-A-TT
32569610 TTTTTAATAATGTTTACAATT
1 TTTTTAATAATGTTTACAATT
32569631 TTTTTA
1 TTTTTA
32569637 TTATTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 19 0.76
22 4 0.16
23 2 0.08
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.62
Consensus pattern (21 bp):
TTTTTAATAATGTTTACAATT
Found at i:32572955 original size:27 final size:27
Alignment explanation
Indices: 32572925--32572996 Score: 69
Period size: 27 Copynumber: 2.7 Consensus size: 27
32572915 ACCTGTGAGC
32572925 AAAGAGAGAGGAGAGAGAAAG-GAGGAA-
1 AAAGAGAGAGGAGAGAGAAAGTGA--AAG
* * *
32572952 AAAGA-ACTATGACAGAGAAAGTGAAAG
1 AAAGAGA-GAGGAGAGAGAAAGTGAAAG
32572979 AAAGAGAGAGGAGAGAGA
1 AAAGAGAGAGGAGAGAGA
32572997 GAAAAGAAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
26 3 0.09
27 29 0.83
28 3 0.09
ACGTcount: A:0.56, C:0.03, G:0.38, T:0.04
Consensus pattern (27 bp):
AAAGAGAGAGGAGAGAGAAAGTGAAAG
Found at i:32574200 original size:42 final size:40
Alignment explanation
Indices: 32574140--32574243 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 40
32574130 AATCAATAAA
* * *
32574140 ATTGCAAATAATTATTAAAAATTTGTACATGATTATTAAAATT
1 ATTG-AAATATTTATTAAAAATTTGTAAAT-A-GATTAAAATT
* * *
32574183 TTTTAAATATTTCTTAAAAA-TTGTAAATAGATTAAAATT
1 ATTGAAATATTTATTAAAAATTTGTAAATAGATTAAAATT
* *
32574222 ATTGAAATTTTTTTTAAAAATT
1 ATTGAAATATTTATTAAAAATT
32574244 ATTTAAAGTT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
39 25 0.50
40 2 0.04
41 7 0.14
42 14 0.28
43 2 0.04
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (40 bp):
ATTGAAATATTTATTAAAAATTTGTAAATAGATTAAAATT
Found at i:32574211 original size:20 final size:19
Alignment explanation
Indices: 32574137--32574211 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 19
32574127 AAAAATCAAT
*
32574137 AAAATTGCAAATAATTATTA
1 AAAATTGTAAAT-ATTATTA
*
32574157 AAAATTTGTACATGATTATTA
1 AAAA-TTGTAAAT-ATTATTA
* * *
32574178 AAATTTTTTAAATATTTCTTA
1 AAA-ATTGTAAATA-TTATTA
32574199 AAAATTGTAAATA
1 AAAATTGTAAATA
32574212 GATTAAAATT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
20 13 0.30
21 30 0.70
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (19 bp):
AAAATTGTAAATATTATTA
Found at i:32574271 original size:24 final size:24
Alignment explanation
Indices: 32574245--32574292 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
32574235 TTAAAAATTA
*
32574245 TTTAAAGTTATAAAAAATAAATAAT
1 TTTAAA-TAATAAAAAATAAATAAT
*
32574270 TTTAAATAATAAAAAATTAATAA
1 TTTAAATAATAAAAAATAAATAA
32574293 AAATTACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TTTAAATAATAAAAAATAAATAAT
Found at i:32574322 original size:29 final size:29
Alignment explanation
Indices: 32574281--32574354 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
32574271 TTAAATAATA
32574281 AAAAATTAATAAAAATTACAAA-AAGAATT
1 AAAAATTAAT-AAAATTACAAATAAGAATT
** * **
32574310 AAAAATTGTTAAAATTATAAATAATTATT
1 AAAAATTAATAAAATTACAAATAAGAATT
32574339 AAAAATTACA-AAAATT
1 AAAAATTA-ATAAAATT
32574355 GACCCCTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
28 10 0.28
29 26 0.72
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (29 bp):
AAAAATTAATAAAATTACAAATAAGAATT
Found at i:32574335 original size:19 final size:19
Alignment explanation
Indices: 32574309--32574355 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
32574299 CAAAAAGAAT
32574309 TAAAAATTGTT-AAAATTA
1 TAAAAATTGTTAAAAATTA
*
32574327 TAAATAATTATTAAAAATTA
1 TAAA-AATTGTTAAAAATTA
*
32574347 CAAAAATTG
1 TAAAAATTG
32574356 ACCCCTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 10 0.42
20 10 0.42
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TAAAAATTGTTAAAAATTA
Found at i:32574603 original size:18 final size:17
Alignment explanation
Indices: 32574580--32574623 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
32574570 AATTAAATTG
32574580 ATAAAAAATA-AATTAAAA
1 ATAAAAAATATAA--AAAA
32574598 ATAAAAATATATAAAAAA
1 ATAAAAA-ATATAAAAAA
32574616 ATAAAAAA
1 ATAAAAAA
32574624 AATATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 1 0.04
18 18 0.75
19 3 0.12
20 2 0.08
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
ATAAAAAATATAAAAAA
Found at i:32574605 original size:17 final size:18
Alignment explanation
Indices: 32574583--32574627 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
32574573 TAAATTGATA
*
32574583 AAAAATAAAT-TAAAAAT
1 AAAAATAAATAAAAAAAT
*
32574600 AAAAATATATAAAAAAAT
1 AAAAATAAATAAAAAAAT
32574618 AAAAA-AAATA
1 AAAAATAAATA
32574628 TAATTTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (18 bp):
AAAAATAAATAAAAAAAT
Found at i:32574611 original size:10 final size:10
Alignment explanation
Indices: 32574594--32574630 Score: 51
Period size: 9 Copynumber: 3.9 Consensus size: 10
32574584 AAAATAAATT
32574594 AAAA-ATAAA
1 AAAATATAAA
*
32574603 AATATATAAA
1 AAAATATAAA
32574613 AAAATA-AAA
1 AAAATATAAA
32574622 AAAATATAA
1 AAAATATAA
32574631 TTTCATTGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 12 0.50
10 12 0.50
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATATAAA
Found at i:32574623 original size:19 final size:19
Alignment explanation
Indices: 32574580--32574630 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 19
32574570 AATTAAATTG
* *
32574580 ATAAAAAATAAAT-TAAAA
1 ATAAAAAATATATAAAAAA
32574598 AT-AAAAATATATAAAAAA
1 ATAAAAAATATATAAAAAA
*
32574616 ATAAAAAAAATATAA
1 ATAAAAAATATATAA
32574631 TTTCATTGAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 9 0.32
18 8 0.29
19 11 0.39
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (19 bp):
ATAAAAAATATATAAAAAA
Done.