Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168004.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_26, whole genome shotgun sequence
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: 16099665
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 30 of 77
Found at i:6007219 original size:6 final size:6
Alignment explanation
Indices: 6007208--6007232 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
6007198 AAAAATGATT
6007208 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
6007233 TAAATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:6007294 original size:12 final size:12
Alignment explanation
Indices: 6007273--6007346 Score: 64
Period size: 12 Copynumber: 6.2 Consensus size: 12
6007263 ATGTGCATAA
6007273 TTAA-AAATTTT
1 TTAATAAATTTT
6007284 TTAATAAA--TT
1 TTAATAAATTTT
*
6007294 TTAATATATTTT
1 TTAATAAATTTT
6007306 TTAGATAAATATTT
1 TTA-ATAAAT-TTT
** *
6007320 TTAATAAAAATA
1 TTAATAAATTTT
*
6007332 TTAATAAAATTT
1 TTAATAAATTTT
6007344 TTA
1 TTA
6007347 TGATTGAATA
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
10 9 0.18
11 4 0.08
12 22 0.43
13 10 0.20
14 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (12 bp):
TTAATAAATTTT
Found at i:6007345 original size:38 final size:35
Alignment explanation
Indices: 6007277--6007346 Score: 86
Period size: 38 Copynumber: 1.9 Consensus size: 35
6007267 GCATAATTAA
* * *
6007277 AAATTTTTTAATAAATTTTAATATATTTTTTAGAT
1 AAATTTTTTAATAAATATTAATAAAATTTTTAGAT
6007312 AAATATTTTTAATAAAAATATTAATAAAATTTTTA
1 AAAT-TTTTTAAT--AAATATTAATAAAATTTTTA
6007347 TGATTGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 4 0.14
36 8 0.28
38 17 0.59
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (35 bp):
AAATTTTTTAATAAATATTAATAAAATTTTTAGAT
Found at i:6008443 original size:105 final size:105
Alignment explanation
Indices: 6008311--6010420 Score: 2505
Period size: 105 Copynumber: 20.0 Consensus size: 105
6008301 TACTTCACTT
* * *
6008311 CCTCATTCAA-GAAAAGCTGGT-AGTGGTTTGAATTTTGAGGTACTTCCAAAGGAAGGGCCTGTT
1 CCTCATTCAACG-AAAGCTGGTCA-TGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTT
* * *
6008374 CCACCTTCTGCTCCTGGCAATGGTGGAAATCGTATCCCTTCA
64 CCACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* ** * *
6008416 CCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGGGGTACTTCCTAAGGGCGGGCCTGTTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
*
6008481 ACCGTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * *
6008521 CCTCATTCAACCG-AAGCTGGTCGTGTTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
6008585 CACCTTCTG-GTCCTGGTAATGGTGGAAATCGTATTCCTTCA
65 CACCTTCTGCG-CCTGGTAATGGTGGAAATCGTATTCCTTCA
* ** * *
6008626 CCTCCTTCAACGAAAGCAACGAAAGCTGGTCATGGTTTGAGTTTTGGGGTACTTCCTAAGGGCGG
1 CCTCATT---------CAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGG
* *
6008691 GCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTTCA
57 GCCTGTTCCACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * *
6008740 CCTCATTCAACCG-AAGCTGGTCGTGGTTTGAACCTTGGGGTGCTTCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
*
6008804 CACCTTCTG-GTCCTGGTAATGGTGGAAATCGCATTCCTTCA
65 CACCTTCTGCG-CCTGGTAATGGTGGAAATCGTATTCCTTCA
* * ** * * *
6008845 CCTCCTTCAACGAAAGCTGGTCATGGTTCGAGTTTTGGGATACTTCCTAAGGGCGGGCCTGTTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
* *
6008910 ACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * * * * *
6008950 TCTTATTCAACCG-AAGCTGCTCGTGGTTTGAACTTTGGGGTGCTCCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
* * * * *
6009014 CACCTTTTGCACCTGGTAATGATGGAAATCCTTTTCCTTCA
65 CACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* ** * *
6009055 CCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGGGGTACTTCCTAAGGGCGGGCCTGTTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
*
6009120 ACCGTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * * *
6009160 CCTCATTCAACCG-AAGCTGGTCGTGTTTTGAACTTTGGGTTGCTTCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
6009224 CACCTTCTG-GTCCTGGTAATGGTGGAAATCGTATTCCTTCA
65 CACCTTCTGCG-CCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * * *
6009265 CCTCCTTCAACGAAAGCTGGTCATGGTTTG-AGTTTGGGGTACTTCCTAAGGGCGGGCCTGCTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
* * *
6009329 A-CGTCTGAGCCTGGTAAATGGCGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGT-AATGGTGGAAATCGTATTCCTTCA
* * * *
6009369 CCTCATTCAACCG-AAGCTGGTCGTGTTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
*
6009433 CACCTTCTG-GTCCTGGTAATGGTGGAAATCGCATTCCTTCA
65 CACCTTCTGCG-CCTGGTAATGGTGGAAATCGTATTCCTTCA
* * *
6009474 CCTCCTTCAACGAAAGCTGGTCATGGTTTGAGA-TTTGGGGTACTTCCTAAGGGCGGGCCTGTTC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGA-ACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
* *
6009538 CACCGTCTGCGCCTGGTAATGGAGGAAATCGTATTCCTTCA
65 CACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * * *
6009579 CCTCATTCAACCG-AAGCTGCTCGTGTTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
6009643 CACCTTCTG-GTCCTGGTAATGGTGGAAATCGTATTCCTTCA
65 CACCTTCTGCG-CCTGGTAATGGTGGAAATCGTATTCCTTCA
* ** * * *
6009684 CCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGGGGTACTTCCTAAGGGCGGGCCTGCTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
* *
6009749 ACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * *
6009789 CCTCATTCAACCG-AAGCTGGTCGTGGTTTGAACCTTGGGGTGCTTCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
*
6009853 CACCTTCTG-GTCCTGGTAATGGTGGAAATCGCATTCCTTCA
65 CACCTTCTGCG-CCTGGTAATGGTGGAAATCGTATTCCTTCA
* ** * * *
6009894 CCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGGGGTACTTCCTAAGGGCGGGCCTGTTCT
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
* * * *
6009959 AACGTCTGGGCCTGGTAATGGAGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * * * *
6009999 TCTCATTCAACCG-AAGCTGCTCGTGGTTTGAACTTTGGGGTGCTCCCAAAGGGAGGTCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
* * * * *
6010063 CACCTTTTGCACCTGGTAATGATGGAAATCCTTTTCCTTCA
65 CACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* ** ** * * *
6010104 CCTCATTCTACCCAAGCTGGTGGTGGTTTAAACTTTGGGGTACTACCAAAGGGAGGTCCTGTTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
* * *
6010169 ACCATCAGCGCCTGGTAATGGTGGAAATCATATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * * *
6010209 CCTCATTCAACCG-AAGCAGGTCGTGGTTTAAACTTTGGGGTACTACCAAAAGGAGGGCCTGTTC
1 CCTCATTCAA-CGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTC
* *
6010273 CACCATCTGCGCCTGGTAATGGCGGAAATCGTATTCCTTCA
65 CACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
* * * ** * ** * *
6010314 CCTCATTCAACCAAAGCTGGCCATGGTTTGAACTTCGGAATGCTAGCAAAGGGAGGACTTGTTCC
1 CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
* *
6010379 ACCATCTGCGCCTGGCAATGGTGGAAATCGTATTCCTTCA
66 ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
6010419 CC
1 CC
6010421 GTCCCATGCA
Statistics
Matches: 1708, Mismatches: 251, Indels: 92
0.83 0.12 0.04
Matches are distributed among these distances:
103 11 0.01
104 96 0.06
105 1476 0.86
106 33 0.02
113 2 0.00
114 89 0.05
115 1 0.00
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (105 bp):
CCTCATTCAACGAAAGCTGGTCATGGTTTGAACTTTGGGGTACTTCCAAAGGGAGGGCCTGTTCC
ACCTTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTTCA
Found at i:6008990 original size:210 final size:210
Alignment explanation
Indices: 6008324--6010420 Score: 3187
Period size: 210 Copynumber: 9.9 Consensus size: 210
6008314 CATTCAAGAA
* * * * * * *
6008324 AAGCTGGTAGTGGTTTGAATTTTGAGGTACTTCCAAAGGAAGGGCCTGTTCCACCTTCTGCTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
* * *
6008389 GGCAATGGTGGAAATCGTATCCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
*
6008454 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGTGGAAATCGTATTCCTT
131 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
6008519 CACCTCATTCAACCG
196 CACCTCATTCAACCG
*
6008534 AAGCTGGTCGTGTTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
*
6008599 GGTAATGGTGGAAATCGTATTCCTTCACCTCCTTCAACGAAAGCAACGAAAGCTGGTCATGGTTT
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTT---------CAACGAAAGCTGGTCATGGTTT
6008664 GAGTTTTGGGGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATC
122 GAGTTTTGGGGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATC
6008729 GTATTCCTTCACCTCATTCAACCG
187 GTATTCCTTCACCTCATTCAACCG
*
6008753 AAGCTGGTCGTGGTTTGAACCTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
*
6008818 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTCGAGTTTTGG
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
*
6008883 GATACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
131 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
* *
6008948 CATCTTATTCAACCG
196 CACCTCATTCAACCG
* * * **
6008963 AAGCTGCTCGTGGTTTGAACTTTGGGGTGCTCCCAAAGGGAGGTCCTGTTCCACCTTTTGCACCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
* *
6009028 GGTAATGATGGAAATC-CTTTTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTG
66 GGTAATGGTGGAAATCGC-ATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTG
*
6009092 GGGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGTGGAAATCGTATTCCT
130 GGGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCT
6009157 TCACCTCATTCAACCG
195 TCACCTCATTCAACCG
* *
6009173 AAGCTGGTCGTGTTTTGAACTTTGGGTTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
*
6009238 GGTAATGGTGGAAATCGTATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAG-TTTGG
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
* *
6009302 GGTACTTCCTAAGGGCGGGCCTGCTCCA-CGTCTGAGCCTGGTAAATGGCGGAAATCGTATTCCT
131 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGT-AATGGCGGAAATCGTATTCCT
6009366 TCACCTCATTCAACCG
195 TCACCTCATTCAACCG
*
6009382 AAGCTGGTCGTGTTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
*
6009447 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGATTTGG
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
*
6009512 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGAGGAAATCGTATTCCTT
131 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
6009577 CACCTCATTCAACCG
196 CACCTCATTCAACCG
* *
6009592 AAGCTGCTCGTGTTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
*
6009657 GGTAATGGTGGAAATCGTATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
*
6009722 GGTACTTCCTAAGGGCGGGCCTGCTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
131 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
6009787 CACCTCATTCAACCG
196 CACCTCATTCAACCG
*
6009802 AAGCTGGTCGTGGTTTGAACCTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
6009867 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
66 GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
* * * *
6009932 GGTACTTCCTAAGGGCGGGCCTGTTCTAACGTCTGGGCCTGGTAATGGAGGAAATCGTATTCCTT
131 GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
*
6009997 CATCTCATTCAACCG
196 CACCTCATTCAACCG
* * * **
6010012 AAGCTGCTCGTGGTTTGAACTTTGGGGTGCTCCCAAAGGGAGGTCCTGTTCCACCTTTTGCACCT
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
* * * * ** ** * **
6010077 GGTAATGATGGAAATC-CTTTTCCTTCACCTCATTCTACCCAAGCTGGTGGTGGTTTAAACTTTG
66 GGTAATGGTGGAAATCGC-ATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTG
* * * * * * * *
6010141 GGGTACTACCAAAGGGAGGTCCTGTTCCACCATCAGCGCCTGGTAATGGTGGAAATCATATTCCT
130 GGGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCT
6010206 TCACCTCATTCAACCG
195 TCACCTCATTCAACCG
* * * * * * *
6010222 AAGCAGGTCGTGGTTTAAACTTTGGGGTACTACCAAAAGGAGGGCCTGTTCCACCATCTGCG-CC
1 AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTG-GTCC
* * * * * ** *
6010286 TGGTAATGGCGGAAATCGTATTCCTTCACCTCATTCAACCAAAGCTGGCCATGGTTTGAACTTCG
65 TGGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTG
** * ** * * * * * * *
6010351 GAATGCTAGCAAAGGGAGGACTTGTTCCACCATCTGCGCCTGGCAATGGTGGAAATCGTATTCCT
130 GGGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCT
6010416 TCACC
195 TCACC
6010421 GTCCCATGCA
Statistics
Matches: 1747, Mismatches: 123, Indels: 34
0.92 0.06 0.02
Matches are distributed among these distances:
208 13 0.01
209 192 0.11
210 1323 0.76
211 13 0.01
219 206 0.12
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (210 bp):
AAGCTGGTCGTGGTTTGAACTTTGGGGTGCTTCCAAAGGGAGGTCCTGTTCCACCTTCTGGTCCT
GGTAATGGTGGAAATCGCATTCCTTCACCTCCTTCAACGAAAGCTGGTCATGGTTTGAGTTTTGG
GGTACTTCCTAAGGGCGGGCCTGTTCCACCGTCTGCGCCTGGTAATGGCGGAAATCGTATTCCTT
CACCTCATTCAACCG
Found at i:6015579 original size:129 final size:129
Alignment explanation
Indices: 6015387--6015644 Score: 320
Period size: 129 Copynumber: 2.0 Consensus size: 129
6015377 TGATTATGTC
* * *
6015387 AACAAAGTAAATGTCCATGTTATTAAGATTAAAGGCCACATCAATATTTTTAACAACAAAAAATT
1 AACAAAGTAAATGTCCACGTCATTAAGATCAAAGGCCACATCAATATTTTTAACAACAAAAAATT
* **
6015452 TGATAACTA-ATTTTATCCGTCAAAGTTATCATATCAACAAAGTTAATGACTATGTCAACAAAGT
66 TGATAAC-AGATTTTATCCATCAAAGTTATCATATCAACAAAGTTAATGACTACATCAACAAAGT
* * * * **** *
6015516 AACAAAGTCAATGTCCACGTCATTAAGATCAATGGTCATATCAATATTTTTAATTGTACAAAATT
1 AACAAAGTAAATGTCCACGTCATTAAGATCAAAGGCCACATCAATATTTTTAACAACAAAAAATT
* * * * *
6015581 TGATAACAGATTTTATCTATCCAAGTTGTCATCTCAACAAAGTTAATGATTACATCAACAAAGT
66 TGATAACAGATTTTATCCATCAAAGTTATCATATCAACAAAGTTAATGACTACATCAACAAAGT
6015645 CAATGTCTAC
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
128 1 0.01
129 107 0.99
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (129 bp):
AACAAAGTAAATGTCCACGTCATTAAGATCAAAGGCCACATCAATATTTTTAACAACAAAAAATT
TGATAACAGATTTTATCCATCAAAGTTATCATATCAACAAAGTTAATGACTACATCAACAAAGT
Found at i:6015638 original size:21 final size:21
Alignment explanation
Indices: 6015614--6015681 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
6015604 AGTTGTCATC
*
6015614 TCAACAAAGTTAATGAT-TACA
1 TCAACAAAGTCAATG-TCTACA
6015635 TCAACAAAGTCAATGTCTACA
1 TCAACAAAGTCAATGTCTACA
** * *
6015656 TC-ATTAAGTCAATGGCCACA
1 TCAACAAAGTCAATGTCTACA
6015676 TCAACA
1 TCAACA
6015682 TTTTTAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 17 0.45
21 21 0.55
ACGTcount: A:0.43, C:0.22, G:0.10, T:0.25
Consensus pattern (21 bp):
TCAACAAAGTCAATGTCTACA
Found at i:6015676 original size:20 final size:20
Alignment explanation
Indices: 6015641--6015678 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6015631 TACATCAACA
* *
6015641 AAGTCAATGTCTACATCATT
1 AAGTCAATGGCCACATCATT
6015661 AAGTCAATGGCCACATCA
1 AAGTCAATGGCCACATCA
6015679 ACATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (20 bp):
AAGTCAATGGCCACATCATT
Found at i:6017689 original size:81 final size:82
Alignment explanation
Indices: 6017589--6017747 Score: 239
Period size: 82 Copynumber: 2.0 Consensus size: 82
6017579 TTATAGTAGT
* *
6017589 TAGCATAAGGCTTTGATTAACAAATTATAAT-ATTAACAATGATCACGATGATGAAATCGTCGAT
1 TAGCATAAGGCTTTAATTAACAAATTATAATAATTAACAATGATCACGAGGATGAAATCGTCGAT
*
6017653 ACGATAATTGTCATAAC
66 ACGACAATTGTCATAAC
** * *
6017670 TAGCATAAGGCTTTAATTAACAAATTATAATAATTAGTAATGATCATGAGGATGAAATTGTCGAT
1 TAGCATAAGGCTTTAATTAACAAATTATAATAATTAACAATGATCACGAGGATGAAATCGTCGAT
*
6017735 ACGACCATTGTCA
66 ACGACAATTGTCA
6017748 CAGGATATAG
Statistics
Matches: 69, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
81 30 0.43
82 39 0.57
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (82 bp):
TAGCATAAGGCTTTAATTAACAAATTATAATAATTAACAATGATCACGAGGATGAAATCGTCGAT
ACGACAATTGTCATAAC
Found at i:6018372 original size:27 final size:27
Alignment explanation
Indices: 6018342--6018420 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
6018332 CTCGATTTTG
* *
6018342 AAACGTAACATATAATACGATAATTCA
1 AAACGTAACACATAATACAATAATTCA
* *
6018369 AAACGTAACACATAATGCAATAATTCG
1 AAACGTAACACATAATACAATAATTCA
* *
6018396 AAACGTAACACGTAATAGAATAATT
1 AAACGTAACACATAATACAATAATT
6018421 ATAGATGACA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (27 bp):
AAACGTAACACATAATACAATAATTCA
Found at i:6021176 original size:16 final size:16
Alignment explanation
Indices: 6021139--6021183 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 16
6021129 AAATTATTAA
6021139 TAAACAAA-AAAAAA-
1 TAAACAAACAAAAAAG
*
6021153 TCAA-AAACAAAAAAG
1 TAAACAAACAAAAAAG
6021168 TAAACAAACAAAAAAG
1 TAAACAAACAAAAAAG
6021184 ACAGAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 3 0.12
14 9 0.35
15 3 0.12
16 11 0.42
ACGTcount: A:0.78, C:0.11, G:0.04, T:0.07
Consensus pattern (16 bp):
TAAACAAACAAAAAAG
Found at i:6021421 original size:23 final size:23
Alignment explanation
Indices: 6021365--6021428 Score: 101
Period size: 24 Copynumber: 2.7 Consensus size: 23
6021355 AAGAAGCTAG
*
6021365 CTGGAACCCCCTTCAATCTCCCT
1 CTGGAATCCCCTTCAATCTCCCT
6021388 CTCGGAATCCCCTTCAATCTCCCT
1 CT-GGAATCCCCTTCAATCTCCCT
6021412 CTGGAATCCCCATTCAA
1 CTGGAATCCCC-TTCAA
6021429 CCCCAGACAG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
23 11 0.29
24 27 0.71
ACGTcount: A:0.20, C:0.44, G:0.09, T:0.27
Consensus pattern (23 bp):
CTGGAATCCCCTTCAATCTCCCT
Found at i:6022118 original size:21 final size:22
Alignment explanation
Indices: 6022089--6022130 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
6022079 CTTAATCGAA
6022089 TCGGTACTGAACCGCCGAACCG
1 TCGGTACTGAACCGCCGAACCG
6022111 TCGG-ACTGAACCGCCGAACC
1 TCGGTACTGAACCGCCGAACC
6022131 AAATCGAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.24, C:0.38, G:0.26, T:0.12
Consensus pattern (22 bp):
TCGGTACTGAACCGCCGAACCG
Found at i:6022233 original size:18 final size:18
Alignment explanation
Indices: 6022200--6022234 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6022190 TTATTTTATT
*
6022200 AATATTTATGTATGTTAA
1 AATATTTATATATGTTAA
*
6022218 AATATTTATATTTGTTA
1 AATATTTATATATGTTA
6022235 GATTAATTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (18 bp):
AATATTTATATATGTTAA
Found at i:6022756 original size:11 final size:12
Alignment explanation
Indices: 6022736--6022766 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
6022726 TTCAATTAAA
6022736 AATAAAAAAATT
1 AATAAAAAAATT
6022748 AATAAAAAAATT
1 AATAAAAAAATT
6022760 AATAAAA
1 AATAAAA
6022767 TTTCTAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAAAAAAATT
Found at i:6026427 original size:18 final size:19
Alignment explanation
Indices: 6026377--6026421 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
6026367 TTTCGAAAAC
6026377 TTTATTTGAAAAGATTTTT
1 TTTATTTGAAAAGATTTTT
6026396 TTTATTTGAAAAGATTTTT
1 TTTATTTGAAAAGATTTTT
6026415 TTTATTT
1 TTTATTT
6026422 ATAAGAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (19 bp):
TTTATTTGAAAAGATTTTT
Found at i:6026520 original size:12 final size:14
Alignment explanation
Indices: 6026490--6026525 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
6026480 AATAAAGCCA
6026490 AAAAAATAATATAT
1 AAAAAATAATATAT
*
6026504 AAAAAATAATA-AC
1 AAAAAATAATATAT
6026517 AAAAAATAA
1 AAAAAATAA
6026526 AATGGGTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAAATAATATAT
Found at i:6027453 original size:13 final size:14
Alignment explanation
Indices: 6027435--6027529 Score: 76
Period size: 13 Copynumber: 6.9 Consensus size: 14
6027425 AGAAAAGAAA
6027435 AAAATATA-AATAT
1 AAAATATATAATAT
6027448 AAAATATA-AATAT
1 AAAATATATAATAT
*
6027461 AAAAAATATAATAT
1 AAAATATATAATAT
*
6027475 AATATAATATAATAT
1 AAAAT-ATATAATAT
*
6027490 AATAACA-AT-ATAAT
1 AA-AATATATAAT-AT
6027504 AAAATA-ATAATA-
1 AAAATATATAATAT
*
6027516 ATAAATAAATAATA
1 A-AAATATATAATA
6027530 GTATACTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
12 1 0.01
13 33 0.48
14 22 0.32
15 12 0.17
16 1 0.01
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATATATAATAT
Found at i:6027475 original size:5 final size:5
Alignment explanation
Indices: 6027437--6027559 Score: 89
Period size: 5 Copynumber: 24.8 Consensus size: 5
6027427 AAAAGAAAAA
* *
6027437 AATAT AA-AT -ATAA AATAT AAATAT AA-AA AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT -AATAT AATAT AATAT AATAT AATAT AATAT
*
6027485 AATAT AATAAC AATAT AATA- AA-AT AATAAT AATA- AATA- AATAAT
1 AATAT AAT-AT AATAT AATAT AATAT AAT-AT AATAT AATAT AAT-AT
* * *
6027529 AGTAT ACTAT ATTAT AATAT ATACTAT AATA
1 AATAT AATAT AATAT AATAT A-A-TAT AATA
6027560 ACAAAATATA
Statistics
Matches: 96, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
3 2 0.02
4 17 0.18
5 55 0.57
6 18 0.19
7 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (5 bp):
AATAT
Found at i:6027489 original size:48 final size:43
Alignment explanation
Indices: 6027437--6027526 Score: 101
Period size: 44 Copynumber: 2.0 Consensus size: 43
6027427 AAAAGAAAAA
6027437 AATATAAATATAAAATATAAATATAAAAAAT-ATAATATAATATAATAT
1 AATAT-AATA-AAAATAT-AATA-AAAAAATAATAATA-AATA-AATAT
* *
6027485 AATATAATAACAATATAATAAAATAATAATAATAAATAAATA
1 AATATAATAAAAATATAATAAAAAAATAATAATAAATAAATA
6027527 ATAGTATACT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
43 4 0.10
44 10 0.26
45 10 0.26
46 6 0.15
47 4 0.10
48 5 0.13
ACGTcount: A:0.68, C:0.01, G:0.00, T:0.31
Consensus pattern (43 bp):
AATATAATAAAAATATAATAAAAAAATAATAATAAATAAATAT
Found at i:6027505 original size:3 final size:3
Alignment explanation
Indices: 6027468--6027529 Score: 55
Period size: 3 Copynumber: 22.0 Consensus size: 3
6027458 TATAAAAAAT
*
6027468 ATA AT- ATA AT- ATA AT- ATA AT- ATA ATA ACA AT- ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6027510 ATA ATA ATAA ATAA ATA ATA
1 ATA ATA AT-A AT-A ATA ATA
6027530 GTATACTATA
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 12 0.24
3 31 0.62
4 7 0.14
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6027608 original size:26 final size:26
Alignment explanation
Indices: 6027579--6027658 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
6027569 AAAAAAGACT
*
6027579 GGCCTAATTAGGCTTGGATATAAATG
1 GGCCTAATTAGGCTTGGACATAAATG
* **
6027605 GGCCTAATTGGGCCTT-GACACCAATG
1 GGCCTAATTAGG-CTTGGACATAAATG
* *
6027631 GGCCTAATTAGGCTCGAACATAAATG
1 GGCCTAATTAGGCTTGGACATAAATG
6027657 GG
1 GG
6027659 TGTTTACAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 2 0.05
26 38 0.88
27 3 0.07
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (26 bp):
GGCCTAATTAGGCTTGGACATAAATG
Found at i:6028246 original size:118 final size:118
Alignment explanation
Indices: 6027879--6028388 Score: 467
Period size: 119 Copynumber: 4.3 Consensus size: 118
6027869 ATCATAAATT
* * * * * *
6027879 ATAAAAAATGATCTGAACTGAGCCAA-ATTAGGTGA-CAAAGACGAAACCATGAGTCATAAAT-G
1 ATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATC-AAGATGAAA-CATGAGTCA-AAATAA
* * * * * * *
6027941 AGCGA-TCAGGACTGAGTCGATG-TTAAAAGTAAATGATCGAGATGAAACCATGAATC
63 AGTGACT-AGGACCGAGTCGA-GATCAAAAATAAATGATCGGGATAAAACCACGAATC
* * *
6027997 ATAAGAAATGATCTGGACTGAGCCAAGATTAAGTGACCAAGATGAAACCATGAGTCAAAATAAAA
1 ATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCAAGATGAAA-CATGAGTCAAAATAAAG
** * * * * * *
6028062 TGACTAGGACTAAGTCGAGATTAAAAATAAACGATCAGGACAAAGCCATGAATC
65 TGACTAGGACCGAGTCGAGATCAAAAATAAATGATCGGGATAAAACCACGAATC
** * *
6028116 ATAAGAAATGATCTGGACTGAGTTAAGATCAAGTGATCAAGATGAAACACGAATCAAAATAAAGT
1 ATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCAAGATGAAACATGAGTCAAAATAAAGT
* * * *
6028181 GACTAGGACCGAGTGGAGGTCAAAAATAAATGATCGGGATGAAGCCACGAATC
66 GACTAGGACCGAGTCGAGATCAAAAATAAATGATCGGGATAAAACCACGAATC
* * ** *
6028234 ATAAGAAATGATCTAGACTGAGCTAAGATCAAGTGATCGGGACGAAACTATGAGT-AAAA-AATG
1 ATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCAAGATGAAAC-ATGAGTCAAAATAA--
* ** * * * *
6028297 AGCGGTTAGGATCGAGTTGAGATCGAAAATAAATGATCGGGATAAAACCACAAATC
63 AGTGACTAGGACCGAGTCGAGATCAAAAATAAATGATCGGGATAAAACCACGAATC
* * *
6028353 ATAAGAAATGATTTGAACTGAGCCAAAATCAAGTGA
1 ATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGA
6028389 CCAAATAGTG
Statistics
Matches: 330, Mismatches: 54, Indels: 15
0.83 0.14 0.04
Matches are distributed among these distances:
117 2 0.01
118 134 0.41
119 192 0.58
120 2 0.01
ACGTcount: A:0.44, C:0.14, G:0.23, T:0.20
Consensus pattern (118 bp):
ATAAGAAATGATCTGGACTGAGCCAAGATCAAGTGATCAAGATGAAACATGAGTCAAAATAAAGT
GACTAGGACCGAGTCGAGATCAAAAATAAATGATCGGGATAAAACCACGAATC
Found at i:6029131 original size:45 final size:46
Alignment explanation
Indices: 6029046--6029151 Score: 135
Period size: 45 Copynumber: 2.3 Consensus size: 46
6029036 TACTTTTCAA
* *
6029046 GGTTTTCAACTTGAACCCTTTTTTTTTTATCCAAACTACCCTTTCG
1 GGTTTTCAACTTGAACCCTCTTTTTTTAATCCAAACTACCCTTTCG
* **
6029092 GGTTTTCAACTTGAA-CCTCTTTTTTTAAGT-TAAGTTACCCTTTCG
1 GGTTTTCAACTTGAACCCTCTTTTTTTAA-TCCAAACTACCCTTTCG
*
6029137 AGTTTTCAACTTGAA
1 GGTTTTCAACTTGAA
6029152 AACTTTATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 37 0.70
46 16 0.30
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.45
Consensus pattern (46 bp):
GGTTTTCAACTTGAACCCTCTTTTTTTAATCCAAACTACCCTTTCG
Found at i:6037617 original size:37 final size:37
Alignment explanation
Indices: 6037567--6037638 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
6037557 GTGCCCTAAG
*
6037567 ACCTTGGAAAAAATGACTAACCCATACATGGTTAGTC
1 ACCTTGGAAAAAATAACTAACCCATACATGGTTAGTC
* *
6037604 ACCTTGGGAAAAATAACTAACCCATATATGGTTAG
1 ACCTTGGAAAAAATAACTAACCCATACATGGTTAG
6037639 AGCAAATGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (37 bp):
ACCTTGGAAAAAATAACTAACCCATACATGGTTAGTC
Found at i:6039439 original size:19 final size:19
Alignment explanation
Indices: 6039410--6039463 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
6039400 GATAAAAATT
6039410 ATTTTTGTTTATTTGAAA-AG
1 ATTTTT-TTTATTT-AAAGAG
*
6039430 ATTTTTTTTATATTAAAGGG
1 ATTTTTTTTAT-TTAAAGAG
6039450 ATTTTTTATTATTT
1 ATTTTTT-TTATTT
6039464 TTTATTTCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
19 8 0.27
20 18 0.60
21 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTTTTTTATTTAAAGAG
Found at i:6039666 original size:25 final size:23
Alignment explanation
Indices: 6039622--6039673 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 23
6039612 GGTTAAAAAT
6039622 AAAATAAAATAAAATAAAATCAA
1 AAAATAAAATAAAATAAAATCAA
*
6039645 AAAATAAAAATAAAAATAAAATGAA
1 AAAAT-AAAAT-AAAATAAAATCAA
6039670 AAAA
1 AAAA
6039674 AAACCTATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 5 0.19
25 16 0.62
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (23 bp):
AAAATAAAATAAAATAAAATCAA
Found at i:6039671 original size:6 final size:5
Alignment explanation
Indices: 6039617--6039675 Score: 61
Period size: 5 Copynumber: 11.8 Consensus size: 5
6039607 AAATGGGTTA
*
6039617 AAAAT AAAAT AAAAT AAAAT AAAAT -CAA- AAAAT AAAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT
6039667 GAAAA- AAAA
1 -AAAAT AAAA
6039676 ACCTATGATC
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
4 8 0.17
5 25 0.52
6 15 0.31
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:6040630 original size:15 final size:16
Alignment explanation
Indices: 6040593--6040630 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 16
6040583 AATATAGTTA
6040593 AATAATAGTATACTAT
1 AATAATAGTATACTAT
6040609 ATTATAATA-TATACTAT
1 A--ATAATAGTATACTAT
6040626 AATAA
1 AATAA
6040631 CAAAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.20
16 1 0.05
17 9 0.45
18 6 0.30
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (16 bp):
AATAATAGTATACTAT
Found at i:6040726 original size:26 final size:26
Alignment explanation
Indices: 6040666--6040726 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
6040656 TTAAGCCCTG
* ***
6040666 ACACAAATGGGCCTAATTGGGTTTGA
1 ACACAAATGAGCCTAATTGGGCCCGA
6040692 ACATC-AATGAGCCTAATTGGGCCCGA
1 ACA-CAAATGAGCCTAATTGGGCCCGA
6040718 ACACAAATG
1 ACACAAATG
6040727 TGTTCTACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 27 0.93
27 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.21
Consensus pattern (26 bp):
ACACAAATGAGCCTAATTGGGCCCGA
Found at i:6044306 original size:24 final size:25
Alignment explanation
Indices: 6044279--6044325 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
6044269 TTTTTATTAA
*
6044279 ATTAAGATATTAAATA-ATAATTTT
1 ATTAAGATAATAAATATATAATTTT
* *
6044303 ATTAATATAATATATATATAATT
1 ATTAAGATAATAAATATATAATT
6044326 AAATATAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTAAGATAATAAATATATAATTTT
Found at i:6045145 original size:22 final size:22
Alignment explanation
Indices: 6045111--6045162 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
6045101 AATATTAAAT
*
6045111 ATAACAAAATTAA-AAAAGACAA
1 ATAA-AAAATTAAGAAAAAACAA
6045133 ATAAAAAATTTAAGAAAAAACAA
1 ATAAAAAA-TTAAGAAAAAACAA
*
6045156 AGAAAAA
1 ATAAAAA
6045163 GTGAGTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 4 0.15
22 8 0.31
23 14 0.54
ACGTcount: A:0.75, C:0.06, G:0.06, T:0.13
Consensus pattern (22 bp):
ATAAAAAATTAAGAAAAAACAA
Found at i:6052238 original size:70 final size:71
Alignment explanation
Indices: 6052123--6052262 Score: 246
Period size: 70 Copynumber: 2.0 Consensus size: 71
6052113 GATTAGGTGC
6052123 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAG-TTA
1 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAGTTTA
6052187 TAATAT
66 TAATAT
* * *
6052193 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTGATGAATTTATTTAAGTGAAGTTTA
1 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAGTTTA
6052258 TAATA
66 TAATA
6052263 CTACCATGCA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
70 58 0.88
71 8 0.12
ACGTcount: A:0.28, C:0.04, G:0.18, T:0.50
Consensus pattern (71 bp):
TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAGTTTA
TAATAT
Found at i:6056254 original size:17 final size:18
Alignment explanation
Indices: 6056226--6056259 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6056216 AAATATAAAT
6056226 TCGATCGAATTGTGAGTA
1 TCGATCGAATTGTGAGTA
6056244 TCGAT-GAATTGTGAGT
1 TCGATCGAATTGTGAGT
6056260 CGATCTTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.26, C:0.09, G:0.29, T:0.35
Consensus pattern (18 bp):
TCGATCGAATTGTGAGTA
Found at i:6061129 original size:13 final size:14
Alignment explanation
Indices: 6061096--6061123 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6061086 AAAATGTTAA
6061096 AAATTTTTAAAAAT
1 AAATTTTTAAAAAT
6061110 AAATTTTTAAAAAT
1 AAATTTTTAAAAAT
6061124 TTTTTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTTTTAAAAAT
Found at i:6062610 original size:22 final size:22
Alignment explanation
Indices: 6062569--6062610 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
6062559 TGTGAAGTCA
*
6062569 TTTAATTTTTTTTGCTTTTACT
1 TTTAATTTTTTTTCCTTTTACT
6062591 TTTAA-TTTTTTTCCTATTTA
1 TTTAATTTTTTTTCCT-TTTA
6062611 TAATTTTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTAATTTTTTTTCCTTTTACT
Found at i:6063219 original size:18 final size:19
Alignment explanation
Indices: 6063192--6063240 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 19
6063182 TTGCCTTGAT
6063192 TATA-TATATTAAATTATA
1 TATATTATATTAAATTATA
* *
6063210 T-TTTTATATTTAATTATA
1 TATATTATATTAAATTATA
6063228 TATATTATATTAA
1 TATATTATATTAA
6063241 TAAAATTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 1 0.04
18 15 0.60
19 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATATTATATTAAATTATA
Found at i:6063254 original size:34 final size:32
Alignment explanation
Indices: 6063190--6063257 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
6063180 TGTTGCCTTG
***
6063190 ATTATATATATTAAATTATATTTTTATATTTA
1 ATTATATATATTAAATTATAAAATTATATTTA
*
6063222 ATTATATATATTATATTAATAAAATTATTATTTA
1 ATTATATATATTAAATT-ATAAAATTA-TATTTA
6063256 AT
1 AT
6063258 ATCTTAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
32 16 0.53
33 6 0.20
34 8 0.27
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
ATTATATATATTAAATTATAAAATTATATTTA
Found at i:6063294 original size:29 final size:29
Alignment explanation
Indices: 6063237--6063294 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
6063227 ATATATTATA
* *
6063237 TTAATAAAATTATTATTTAATATCTTAAT
1 TTAATAAAAATATTATTTAATATCATAAT
6063266 TTAATAAAAATACTATATTT-ATA-CATAAT
1 TTAATAAAAATA-T-TATTTAATATCATAAT
6063295 GAAGATGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 16 0.64
30 4 0.16
31 5 0.20
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAATAAAAATATTATTTAATATCATAAT
Found at i:6064438 original size:21 final size:21
Alignment explanation
Indices: 6064412--6064454 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
6064402 ATCTTTTTCT
*
6064412 CTCTAAGGCTTAAGATAGAAA
1 CTCTAAGACTTAAGATAGAAA
6064433 CTCTAAGACTTAAGATAGAAA
1 CTCTAAGACTTAAGATAGAAA
6064454 C
1 C
6064455 CTTACACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.23
Consensus pattern (21 bp):
CTCTAAGACTTAAGATAGAAA
Found at i:6067964 original size:70 final size:71
Alignment explanation
Indices: 6067849--6067990 Score: 241
Period size: 70 Copynumber: 2.0 Consensus size: 71
6067839 GATTAGGTGC
*
6067849 TTAGTATCTTAAGGTTTGCTTTCTTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAG-TTA
1 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAGTTTA
6067913 TAATAT
66 TAATAT
* * *
6067919 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTGATGAATTTATTTAAGTGAAGTTTA
1 TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAGTTTA
6067984 TAATAT
66 TAATAT
6067990 T
1 T
6067991 ACCATGCATT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
70 57 0.85
71 10 0.15
ACGTcount: A:0.27, C:0.05, G:0.18, T:0.51
Consensus pattern (71 bp):
TTAGTATCTTAAGGTTTGCTTTATTTTGTGTTTAATGTGTAATGAACTTATCTAAGTGAAGTTTA
TAATAT
Found at i:6068925 original size:2 final size:2
Alignment explanation
Indices: 6068906--6068948 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
6068896 GAATCCAATG
* *
6068906 AT AT AA AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6068948 A
1 A
6068949 ACTTGTGAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6080927 original size:13 final size:14
Alignment explanation
Indices: 6080894--6080921 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6080884 AAAATGTTAA
6080894 AAATTTTTAAAAAT
1 AAATTTTTAAAAAT
6080908 AAATTTTTAAAAAT
1 AAATTTTTAAAAAT
6080922 TTTTTTAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTTTTAAAAAT
Found at i:6088123 original size:23 final size:23
Alignment explanation
Indices: 6088093--6088143 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
6088083 AATAAATTAT
6088093 TTTTTTTTATGTTTTTCATTTGA
1 TTTTTTTTATGTTTTTCATTTGA
6088116 TTTTTTTTATGTTTTTCATTTGA
1 TTTTTTTTATGTTTTTCATTTGA
6088139 TTTTT
1 TTTTT
6088144 ATATTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.76
Consensus pattern (23 bp):
TTTTTTTTATGTTTTTCATTTGA
Found at i:6088567 original size:469 final size:472
Alignment explanation
Indices: 6087679--6088589 Score: 1580
Period size: 469 Copynumber: 1.9 Consensus size: 472
6087669 CGCAAAAAAA
* *
6087679 AAAAAAACGAAAAAAGAAAAGCAAAGTCGGTTTGGGAGACAGAAATTAAACTTAGCGAATTGGGT
1 AAAAAAACGAAAAAAGAAAAGCAAAGTCGATTTGGGAGACAGAAATTAAACTTAGCGAATTAGGT
6087744 GACGCTCATGTTTGAATTTTTTTTTTTTTTTTAAATTTGTGACAAACGGAATCAGAAATTTAAGG
66 GACGCTCATGTTTGAA---TTTTTTTTTTTTTAAATTTGTGACAAACGGAATCAGAAATTTAAGG
* *
6087809 GCGGAAGAGAGATGATACAGAGAAAATTGTTCAAAAATCCGCGAGAGTAAATTTTTTTTTTAAAG
128 GCGAAAGAGAGATGATACAGAGAAAATTGTTCAAAAATCCGCGAGAGCAAATTTTTTTTTTAAAG
*
6087874 TAGTGTTATTTATACCCCTACTTTCTCTCTTCACAACCATTATTATTGATTTTTTTTTTAACATT
193 TAGTGTTATTTATACCCCTACTTTCTCTCTTCACAACCATTATTATTGATTTTTTTTTTAACACT
* *
6087939 TCAAATTAAAATATTAATTTATTATAAAACTCGAACATCCTCAACAGCCTCTTTTTTTTTCACCA
258 TCAAATTAAAATATTAATTTATTAAAAAACTCGAACATCCTCAACAGCCTCTTTCTTTTTCACCA
* *
6088004 AAAGCCCTAGATCTTTTAGAGATTAAGGCCTAAATCAAACTTTAATCATTAATGTGATGTTAAAT
323 AAAGCCCTAGATCTTTTAAAGATTAAGGCCTAAATCAAACTTTAATCATTAATGCGATGTTAAAT
*
6088069 AAATTAAAATTATAAATAAATTATTTTTTTTTATGTTTTTCATTTGATTTTTTTTATGTTTTTCA
388 AAATTAAAATTATAAATAAATTATTTTTTTTTATGTTTTTCATTTGAGTTTTTTTATGTTTTTCA
6088134 TTTGATTTTTATATTTAATT
453 TTTGATTTTTATATTTAATT
* *
6088154 AAAAAAACGAAAAAAGAAAAGCAAAGTCGATTTGGGAGACAGAAGTTAACCTTAGCGAATTAGGT
1 AAAAAAACGAAAAAAGAAAAGCAAAGTCGATTTGGGAGACAGAAATTAAACTTAGCGAATTAGGT
*
6088219 GACGCTCATGTTT-AA-TTTTTTTTTTTT-AATTTGTGACAAACGGGATCAGAAATTTAAGGGCG
66 GACGCTCATGTTTGAATTTTTTTTTTTTTAAATTTGTGACAAACGGAATCAGAAATTTAAGGGCG
* *
6088281 AAAGAGAGATGATACAGAGAAAATTGTTCAAAAATTCGCGAGAGCAAATTTTTTTTTTTGAAGTA
131 AAAGAGAGATGATACAGAGAAAATTGTTCAAAAATCCGCGAGAGCAAA-TTTTTTTTTTAAAGTA
6088346 GTGTTATTTATACCCCTACTTTCTCTCTTCACAACCATTATTATTGA-TTTTTTTTTAACACTTC
195 GTGTTATTTATACCCCTACTTTCTCTCTTCACAACCATTATTATTGATTTTTTTTTTAACACTTC
6088410 AAATTAAAATATTAATTTATTAAAAAACTCGAACATCCTCAACAGCCTCTTTCTTTTTCACCAAA
260 AAATTAAAATATTAATTTATTAAAAAACTCGAACATCCTCAACAGCCTCTTTCTTTTTCACCAAA
* *
6088475 AGCCCTAGATCTTTTAAAGATTAAGGCCTAAATCACACTTTAATCATTCATGCGATGTTAAATAA
325 AGCCCTAGATCTTTTAAAGATTAAGGCCTAAATCAAACTTTAATCATTAATGCGATGTTAAATAA
*
6088540 ATTAAAATTATAAATAAA-TAGTTTTTTTTTATGTTTTTCGTTTGAGTTTT
390 ATTAAAATTATAAATAAATTA-TTTTTTTTTATGTTTTTCATTTGAGTTTT
6088590 GTATTTAATT
Statistics
Matches: 416, Mismatches: 18, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
468 2 0.00
469 264 0.63
470 74 0.18
474 2 0.00
475 74 0.18
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (472 bp):
AAAAAAACGAAAAAAGAAAAGCAAAGTCGATTTGGGAGACAGAAATTAAACTTAGCGAATTAGGT
GACGCTCATGTTTGAATTTTTTTTTTTTTAAATTTGTGACAAACGGAATCAGAAATTTAAGGGCG
AAAGAGAGATGATACAGAGAAAATTGTTCAAAAATCCGCGAGAGCAAATTTTTTTTTTAAAGTAG
TGTTATTTATACCCCTACTTTCTCTCTTCACAACCATTATTATTGATTTTTTTTTTAACACTTCA
AATTAAAATATTAATTTATTAAAAAACTCGAACATCCTCAACAGCCTCTTTCTTTTTCACCAAAA
GCCCTAGATCTTTTAAAGATTAAGGCCTAAATCAAACTTTAATCATTAATGCGATGTTAAATAAA
TTAAAATTATAAATAAATTATTTTTTTTTATGTTTTTCATTTGAGTTTTTTTATGTTTTTCATTT
GATTTTTATATTTAATT
Found at i:6088813 original size:13 final size:13
Alignment explanation
Indices: 6088795--6088820 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6088785 AAATGTTAAA
6088795 AAATTTTTAAAAT
1 AAATTTTTAAAAT
6088808 AAATTTTTAAAAT
1 AAATTTTTAAAAT
6088821 TTTTTTTAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTTTTAAAAT
Found at i:6088872 original size:131 final size:129
Alignment explanation
Indices: 6088626--6088879 Score: 395
Period size: 131 Copynumber: 1.9 Consensus size: 129
6088616 TTTTAAGATG
*
6088626 ACAATTCGAGCATTAATACATTTTTTAAAAATGTTAAAAACTTTTAAAAATAAATTTTTAAATTT
1 ACAATTCGAGCATTAATACATTTTTTAAAAATGTTAAAAAATTTTAAAAATAAATTTTTAAATTT
* *
6088691 TTTTTAACATATCAAAAATTCATTAATACATTTCAAGCATTAATACATTTTTTAAAAATTTTTTT
66 TTTTTAACATATCAAAAATTCATTAATA-ATTTAAAGAATTAATACA-TTTTTAAAAATTTTTTT
6088756 A
129 A
*
6088757 ACAATTCGAGCATTAATACATTTTTTAAAAATGTTAAAAAATTTTTAAAATAAATTTTTAAAATT
1 ACAATTCGAGCATTAATACATTTTTTAAAAATGTTAAAAAATTTTAAAAATAAATTTTT-AAATT
* *
6088822 TTTTTTAACATATCAAAAATTCATTAAT-TTTTAAATAACTATAATA-ATTTTTAAAAAT
65 TTTTTTAACATATCAAAAATTCATTAATAATTTAAAGAA-T-TAATACATTTTTAAAAAT
6088880 GAATTTTTAT
Statistics
Matches: 114, Mismatches: 6, Indels: 7
0.90 0.05 0.06
Matches are distributed among these distances:
130 17 0.15
131 59 0.52
132 38 0.33
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.44
Consensus pattern (129 bp):
ACAATTCGAGCATTAATACATTTTTTAAAAATGTTAAAAAATTTTAAAAATAAATTTTTAAATTT
TTTTTAACATATCAAAAATTCATTAATAATTTAAAGAATTAATACATTTTTAAAAATTTTTTTA
Found at i:6095456 original size:27 final size:25
Alignment explanation
Indices: 6095420--6095470 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
6095410 AAATTTAGAT
6095420 AAATTCATCACTTAGAGAATTTTTAAA
1 AAATTCATCA-TTAGA-AATTTTTAAA
* *
6095447 AAATTTATCATTTGAAATTTTTAA
1 AAATTCATCATTAGAAATTTTTAA
6095471 GAATCTAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.41
26 4 0.18
27 9 0.41
ACGTcount: A:0.43, C:0.08, G:0.06, T:0.43
Consensus pattern (25 bp):
AAATTCATCATTAGAAATTTTTAAA
Found at i:6096300 original size:19 final size:21
Alignment explanation
Indices: 6096258--6096306 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
6096248 CATTTTTTAA
* *
6096258 AAAAAATATCTAGATACATTT
1 AAAAAATATCTAGATAAATAT
6096279 AAAAAAT-T-TAGATAAATAT
1 AAAAAATATCTAGATAAATAT
6096298 AAAGAAATA
1 AAA-AAATA
6096307 CAATTAAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 12 0.50
20 5 0.21
21 7 0.29
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (21 bp):
AAAAAATATCTAGATAAATAT
Found at i:6096527 original size:2 final size:2
Alignment explanation
Indices: 6096520--6096554 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6096510 ACACTTATTA
6096520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6096555 CACACACACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6099502 original size:23 final size:25
Alignment explanation
Indices: 6099467--6099512 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
6099457 TATTCATATA
6099467 TAAAATATCAATTTTA-TCTTTTAG
1 TAAAATATCAATTTTACTCTTTTAG
*
6099491 TAAATTAT-AATTTTACTCTTTT
1 TAAAATATCAATTTTACTCTTTT
6099513 TACACCTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (25 bp):
TAAAATATCAATTTTACTCTTTTAG
Found at i:6100234 original size:16 final size:15
Alignment explanation
Indices: 6100203--6100244 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6100193 TTATCCTATC
6100203 TTTGTTTTTCATTTT
1 TTTGTTTTTCATTTT
*
6100218 TTTGTTATTTTATTTT
1 TTTGTT-TTTCATTTT
6100234 TTTAGTTTTTC
1 TTT-GTTTTTC
6100245 TACATGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 6 0.26
16 14 0.61
17 3 0.13
ACGTcount: A:0.10, C:0.05, G:0.07, T:0.79
Consensus pattern (15 bp):
TTTGTTTTTCATTTT
Found at i:6100566 original size:26 final size:26
Alignment explanation
Indices: 6100518--6100567 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6100508 TTCAAATATA
* *
6100518 TATTTTAATAATATTTTTAACTTTAT
1 TATTATAATAATAATTTTAACTTTAT
6100544 TATTATAATAATTAATTTT-ACTTT
1 TATTATAATAA-TAATTTTAACTTT
6100568 TATCCAATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (26 bp):
TATTATAATAATAATTTTAACTTTAT
Found at i:6101147 original size:5 final size:6
Alignment explanation
Indices: 6101130--6101156 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
6101120 ATTTCAGTTA
6101130 TATTTT TATTTT TATTTT TATTTT TAT
1 TATTTT TATTTT TATTTT TATTTT TAT
6101157 AATTTGGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:6119448 original size:22 final size:22
Alignment explanation
Indices: 6119404--6119470 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
6119394 TCTAAAATTA
*
6119404 ATAAAATATTTTT-TTA-AAAT
1 ATAAAATATTTTTAATATAAAT
6119424 ATAAAATATTTTTAATATAAAT
1 ATAAAATATTTTTAATATAAAT
* *
6119446 ATAAAAT-TATATATATATAAAT
1 ATAAAATATTTTTA-ATATAAAT
6119468 ATA
1 ATA
6119471 TATAATTAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 13 0.32
21 6 0.15
22 22 0.54
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
ATAAAATATTTTTAATATAAAT
Found at i:6119457 original size:16 final size:16
Alignment explanation
Indices: 6119438--6119475 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
6119428 AATATTTTTA
6119438 ATATAAATATAAA-ATT
1 ATATAAATATAAATA-T
*
6119454 ATATATATATAAATAT
1 ATATAAATATAAATAT
6119470 ATATAA
1 ATATAA
6119476 TTAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATAAATATAAATAT
Found at i:6119461 original size:14 final size:14
Alignment explanation
Indices: 6119437--6119474 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
6119427 AAATATTTTT
*
6119437 AATATAAATATA-A
1 AATATATATATATA
6119450 AATTATATATATATA
1 AA-TATATATATATA
6119465 AATATATATA
1 AATATATATA
6119475 ATTAAAATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 2 0.09
14 17 0.77
15 3 0.14
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATATATATATA
Found at i:6120957 original size:15 final size:12
Alignment explanation
Indices: 6120932--6120971 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
6120922 TATTGCAAAA
6120932 TAATAAATAAAT
1 TAATAAATAAAT
6120944 TATCATATAATAAAT
1 TA--ATA-AATAAAT
6120959 TAATAAATAAAT
1 TAATAAATAAAT
6120971 T
1 T
6120972 TTAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 3 0.12
15 9 0.36
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (12 bp):
TAATAAATAAAT
Found at i:6121391 original size:12 final size:12
Alignment explanation
Indices: 6121362--6121391 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
6121352 ATCTAAACTT
*
6121362 ATAAAATAATAA
1 ATAAATTAATAA
6121374 ATAAATTAATAA
1 ATAAATTAATAA
6121386 ATAAAT
1 ATAAAT
6121392 AGATTTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATAAATTAATAA
Found at i:6121463 original size:18 final size:18
Alignment explanation
Indices: 6121440--6121496 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 18
6121430 ATATACTTTT
6121440 TTAATTTTTAATTATTTA
1 TTAATTTTTAATTATTTA
* *
6121458 TTAATTTTATAAATATTAA
1 TTAATTTT-TAATTATTTA
* **
6121477 ATAATTTAAAATT-TTTA
1 TTAATTTTTAATTATTTA
6121494 TTA
1 TTA
6121497 TATATATTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
17 5 0.17
18 11 0.37
19 14 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTTTTAATTATTTA
Found at i:6123079 original size:2 final size:2
Alignment explanation
Indices: 6123072--6123121 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
6123062 AAGTGTGCAA
*
6123072 AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6123114 AT AT AT AT
1 AT AT AT AT
6123122 CTGATCGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:6138527 original size:99 final size:101
Alignment explanation
Indices: 6138350--6138551 Score: 336
Period size: 99 Copynumber: 2.0 Consensus size: 101
6138340 CGAGTCTTAG
6138350 GTATATATTTGGTTTTAATGTTGATAATAACTAATAACGCAGACTGGAACCACATAGTTCTTTAT
1 GTATATATTTGGTTTTAATGTTGATAATAAC--ATAA--CAGACTGGAACCACATAGTTCTTTAT
6138415 AGTTTGATTGTTTCAGGAGTTGATTGATGTTGCTAATACC
62 AGTTTGATTGTTTCAGGAGTTGATTGATGTTGCTAATACC
* *
6138455 GTATATATTTGGTTTTAATGTTGGTAATAAC-TAA-AGACTGGAACCACGTAGTTCTTTATAGTT
1 GTATATATTTGGTTTTAATGTTGATAATAACATAACAGACTGGAACCACATAGTTCTTTATAGTT
6138518 TGATTGTTTCAGGAGTTGATTGATGTTGCTAATA
66 TGATTGTTTCAGGAGTTGATTGATGTTGCTAATA
6138552 ACGGGTGACC
Statistics
Matches: 95, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
99 62 0.65
102 3 0.03
105 30 0.32
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (101 bp):
GTATATATTTGGTTTTAATGTTGATAATAACATAACAGACTGGAACCACATAGTTCTTTATAGTT
TGATTGTTTCAGGAGTTGATTGATGTTGCTAATACC
Found at i:6146620 original size:74 final size:73
Alignment explanation
Indices: 6146529--6146670 Score: 225
Period size: 74 Copynumber: 1.9 Consensus size: 73
6146519 TGATGAGATA
6146529 AAAATATAATTATAATAGAT-ATAATAATATTAGAAATAAAAATATTAAATATTA-AAAAATGTA
1 AAAATATAATTATAATAGATAATAATAATATTAG--A-AAAAATATTAAATATTATAAAAATGTA
6146592 ATATATGTGTC
63 ATATATGTGTC
*
6146603 AAAATATAATTATAATAGATAAATAATAATATTAGAAAAAATATTAAATATTATAAATATGTAAT
1 AAAATATAATTATAATAGAT-AATAATAATATTAGAAAAAATATTAAATATTATAAAAATGTAAT
6146668 ATA
65 ATA
6146671 GATGTTATTA
Statistics
Matches: 64, Mismatches: 1, Indels: 6
0.90 0.01 0.08
Matches are distributed among these distances:
73 17 0.27
74 34 0.53
76 13 0.20
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (73 bp):
AAAATATAATTATAATAGATAATAATAATATTAGAAAAAATATTAAATATTATAAAAATGTAATA
TATGTGTC
Found at i:6150327 original size:21 final size:21
Alignment explanation
Indices: 6150312--6150365 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 21
6150302 GAAATATATA
6150312 TTTTAATAAATTAAATATTAAT
1 TTTTAAT-AATTAAATATTAAT
6150334 TTTTAATAATTAAA-ATTCAAT
1 TTTTAATAATTAAATATT-AAT
*
6150355 CTTTAATAATT
1 TTTTAATAATT
6150366 TGGTCCGTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 3 0.10
21 20 0.67
22 7 0.23
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTAATAATTAAATATTAAT
Found at i:6151621 original size:12 final size:12
Alignment explanation
Indices: 6151604--6151645 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
6151594 ACCTAACAAT
6151604 TCATATTACATA
1 TCATATTACATA
*
6151616 TCATATAACATA
1 TCATATTACATA
*
6151628 TTATATTA-ATA
1 TCATATTACATA
6151639 TCATATT
1 TCATATT
6151646 TTACACAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.43, C:0.12, G:0.00, T:0.45
Consensus pattern (12 bp):
TCATATTACATA
Found at i:6151624 original size:24 final size:23
Alignment explanation
Indices: 6151597--6151644 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 23
6151587 TAAATAAACC
6151597 TAACA-ATTCATATTACATATCATA
1 TAACATATT-ATATTA-ATATCATA
6151621 TAACATATTATATTAATATCATA
1 TAACATATTATATTAATATCATA
6151644 T
1 T
6151645 TTTACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.39
24 11 0.48
25 3 0.13
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.42
Consensus pattern (23 bp):
TAACATATTATATTAATATCATA
Found at i:6156097 original size:136 final size:136
Alignment explanation
Indices: 6155934--6156251 Score: 419
Period size: 136 Copynumber: 2.3 Consensus size: 136
6155924 AATAACTCTT
* * * *
6155934 AATAACATTATTTACACTTCTTTCTTTAATGTCTCCAATAAAAAATTTTTATG-ATGAGCCAAAA
1 AATAACATTATTTACACTTTTTTCTTTAATGTCTTCAATAAAAAA-ATTCATGCATGAGCCAAAA
* *
6155998 AAATGTAAAAATTAATAAAAATAGAAATAAAAATTCATTATAACTTTTGACAAA-AAA-TTA-TT
65 AAATGTAAAAAATAATAAAAATAGAAATAAAAACTCATT-T--CTTTTGACAAACAAAGTTATTT
6156060 TTAAAAGTTA
127 TTAAAAGTTA
*
6156070 AATAACATTATTTACACTTTTTTCTTTAATGTCTTCAATAAAAAAATTCATGCATGAGCCAAACA
1 AATAACATTATTTACACTTTTTTCTTTAATGTCTTCAATAAAAAAATTCATGCATGAGCCAAAAA
* * * *
6156135 AATGTAAAAAATAATAAAAATAGAAGTAAAAACTCATTTTTTTTTATAAACAAATGTTATTTTTA
66 AATGTAAAAAATAATAAAAATAGAAATAAAAACTCATTTCTTTTGACAAACAAA-GTTATTTTTA
6156200 AAAGTTA
130 AAAGTTA
* * * * *
6156207 AATAAAATTATTTATAATTTTTTCTTTAATGACTTAAATAAAAAA
1 AATAACATTATTTACACTTTTTTCTTTAATGTCTTCAATAAAAAA
6156252 GTTGTCGAAC
Statistics
Matches: 161, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
133 8 0.05
134 3 0.02
135 6 0.04
136 92 0.57
137 52 0.32
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.38
Consensus pattern (136 bp):
AATAACATTATTTACACTTTTTTCTTTAATGTCTTCAATAAAAAAATTCATGCATGAGCCAAAAA
AATGTAAAAAATAATAAAAATAGAAATAAAAACTCATTTCTTTTGACAAACAAAGTTATTTTTAA
AAGTTA
Found at i:6159380 original size:18 final size:18
Alignment explanation
Indices: 6159346--6159380 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6159336 TGAATATTCA
* *
6159346 TTTATTATTTGTGAAATT
1 TTTATTATTAGTAAAATT
6159364 TTTATTATTAGTAAAAT
1 TTTATTATTAGTAAAAT
6159381 AATCCCTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTATTATTAGTAAAATT
Found at i:6162513 original size:17 final size:17
Alignment explanation
Indices: 6162491--6162526 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6162481 TCATCAAAAC
*
6162491 ATCAAATTTTTTTTCAA
1 ATCAAATTTTTTTTAAA
6162508 ATCAAATTTTTTTTAAA
1 ATCAAATTTTTTTTAAA
6162525 AT
1 AT
6162527 TTCATACCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
ATCAAATTTTTTTTAAA
Found at i:6165164 original size:22 final size:24
Alignment explanation
Indices: 6165127--6165170 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
6165117 TTAAAATTTA
*
6165127 TTTATGAAAAATATTTTTTATTAT
1 TTTATGAAAAATATTTATTATTAT
6165151 TTTAT-AAAAA-ATTTATTATT
1 TTTATGAAAAATATTTATTATT
6165171 TTCACATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 5 0.26
24 5 0.26
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTATGAAAAATATTTATTATTAT
Found at i:6165803 original size:18 final size:18
Alignment explanation
Indices: 6165769--6165803 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6165759 TTTTTATTCA
* *
6165769 TTTATTATTTGTGAAATT
1 TTTATTATTAGTAAAATT
6165787 TTTATTATTAGTAAAAT
1 TTTATTATTAGTAAAAT
6165804 AATCCCTTGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (18 bp):
TTTATTATTAGTAAAATT
Found at i:6166499 original size:15 final size:16
Alignment explanation
Indices: 6166463--6166502 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6166453 ATAGATCAAA
6166463 TTTTTTATTTTTGAAT
1 TTTTTTATTTTTGAAT
* *
6166479 TTTTTTGTTTTTGATT
1 TTTTTTATTTTTGAAT
6166495 TTTTTTAT
1 TTTTTTAT
6166503 AAAAAGCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.12, C:0.00, G:0.07, T:0.80
Consensus pattern (16 bp):
TTTTTTATTTTTGAAT
Found at i:6167545 original size:33 final size:32
Alignment explanation
Indices: 6167494--6167589 Score: 111
Period size: 33 Copynumber: 2.9 Consensus size: 32
6167484 AAAGTAATTT
* * * *
6167494 CTCTAACCAGAGGCTATGAAACTTTGAAAACTC
1 CTCTAACTAAAGGATATGACACTTT-AAAACTC
*
6167527 TTCTAACTAAAGGATATGACACTTTAAATACTC
1 CTCTAACTAAAGGATATGACACTTTAAA-ACTC
*
6167560 CTCTAACTAAAGGTTATGACACTTTTAAAA
1 CTCTAACTAAAGGATATGACAC-TTTAAAA
6167590 TTAAATCCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.06
33 45 0.83
34 6 0.11
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (32 bp):
CTCTAACTAAAGGATATGACACTTTAAAACTC
Found at i:6167726 original size:34 final size:33
Alignment explanation
Indices: 6167686--6167945 Score: 126
Period size: 34 Copynumber: 7.8 Consensus size: 33
6167676 TAAATTTTAA
* *
6167686 GAAAAACTTCTTTAACCATAGGTTATGATACTTT
1 GAAAAAC-TCTTTAACCAGAGGCTATGATACTTT
* * * *
6167720 GAAAAACTCTTTTATCTAGAGGCTATAAAACTTT
1 GAAAAACTC-TTTAACCAGAGGCTATGATACTTT
6167754 -AAATAACTCTTCTAACCAGAGGCTATGATAC-TT
1 GAAA-AACTCTT-TAACCAGAGGCTATGATACTTT
* * * * *
6167787 G-AAAACTCCTATAATCAGTGGTTATGAAACTTT
1 GAAAAACT-CTTTAACCAGAGGCTATGATACTTT
* *
6167820 -AAATAACTCATCTAACCAAAGGCTACT-ATAC-TT
1 GAAA-AACTC-TTTAACCAGAGGCTA-TGATACTTT
* * * *
6167853 G-GAAACTCCTTTAACTAGAGGCAATGAGACTTT
1 GAAAAACT-CTTTAACCAGAGGCTATGATACTTT
* * * **
6167886 -AAATAACTTTTCTAACCAAAGGATACAATA-TTT
1 GAAA-AACTCTT-TAACCAGAGGCTATGATACTTT
* *
6167919 G-AAAACTCCTCTAACCAGAGGATATGA
1 GAAAAACT-CTTTAACCAGAGGCTATGA
6167946 GACCTTAAAG
Statistics
Matches: 166, Mismatches: 41, Indels: 40
0.67 0.17 0.16
Matches are distributed among these distances:
31 1 0.01
32 54 0.33
33 33 0.20
34 77 0.46
35 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (33 bp):
GAAAAACTCTTTAACCAGAGGCTATGATACTTT
Found at i:6167821 original size:66 final size:67
Alignment explanation
Indices: 6167694--6167954 Score: 255
Period size: 66 Copynumber: 3.9 Consensus size: 67
6167684 AAGAAAAACT
* * * *
6167694 TCTT-TAACCATAGGTTATGATACTTTGAAAAACT-CTTTTATCTAGAGGCTATAAAACTTTAAA
1 TCTTCTAACCAAAGGCTATGATAC-TTG-AAAACTCCTTTAATCTAGAGGCTATGAAACTTTAAA
6167757 TAAC
64 TAAC
* * * *
6167761 TCTTCTAACCAGAGGCTATGATACTTGAAAACTCCTATAATC-AGTGGTTATGAAACTTTAAATA
1 TCTTCTAACCAAAGGCTATGATACTTGAAAACTCCTTTAATCTAGAGGCTATGAAACTTTAAATA
6167825 AC
66 AC
* * * *
6167827 TCATCTAACCAAAGGCTACT-ATACTTGGAAACTCCTTTAA-CTAGAGGCAATGAGACTTTAAAT
1 TCTTCTAACCAAAGGCTA-TGATACTTGAAAACTCCTTTAATCTAGAGGCTATGAAACTTTAAAT
6167890 AAC
65 AAC
* * ** * * * * * *
6167893 TTTTCTAACCAAAGGATACAATATTTGAAAACTCCTCTAA-CCAGAGGATATGAGACCTTAAA
1 TCTTCTAACCAAAGGCTATGATACTTGAAAACTCCTTTAATCTAGAGGCTATGAAACTTTAAA
6167955 GATTCCTCTT
Statistics
Matches: 163, Mismatches: 26, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
65 1 0.01
66 131 0.80
67 14 0.09
68 17 0.10
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (67 bp):
TCTTCTAACCAAAGGCTATGATACTTGAAAACTCCTTTAATCTAGAGGCTATGAAACTTTAAATA
AC
Found at i:6168081 original size:33 final size:33
Alignment explanation
Indices: 6168034--6168130 Score: 104
Period size: 33 Copynumber: 2.9 Consensus size: 33
6168024 TTTAACCAAC
* * *
6168034 AGTGATGATTTTTGAAGGATTCCTATAACTAGA
1 AGTGATAATATTTGAAAGATTCCTATAACTAGA
*
6168067 AGTGATAATATTTGAAAGATTCCTCTAACTAGA
1 AGTGATAATATTTGAAAGATTCCTATAACTAGA
* * * * * *
6168100 GGTGATGATTTTTTAAAGATTTCTCTAACTA
1 AGTGATAATATTTGAAAGATTCCTATAACTA
6168131 AAGGCCTTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (33 bp):
AGTGATAATATTTGAAAGATTCCTATAACTAGA
Found at i:6168106 original size:66 final size:65
Alignment explanation
Indices: 6168035--6168223 Score: 175
Period size: 66 Copynumber: 2.9 Consensus size: 65
6168025 TTAACCAACA
* * * *
6168035 GTGATGATTTTTGAAGGATTCCTATAACTAGAAGTG-ATAATATTT-GAAAGATTCCTCTAACTA
1 GTGATGATTTTTGAAAGATTCCTCTAACTA-AAG-GCATAAGATTTAG-AAGATTCCTCCAACTA
6168098 GAG
63 GAG
* * * * *
6168101 GTGATGATTTTTTAAAGATTTCTCTAACTAAAGGCCTTAAGATTTAGAATATTCTTCCAACTAGA
1 GTGATGATTTTTGAAAGATTCCTCTAACTAAAGG-CATAAGATTTAGAAGATTCCTCCAACTAGA
6168166 G
65 G
* * * * * * *
6168167 ATGATGATTTTTGAATGATTCCTCTAACCAAAGCCCTTGAGATTTAGAATATTCCTC
1 GTGATGATTTTTGAAAGATTCCTCTAACTAAAG-GCATAAGATTTAGAAGATTCCTC
6168224 TAGCCAAAGG
Statistics
Matches: 102, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
64 1 0.01
65 3 0.03
66 97 0.95
67 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (65 bp):
GTGATGATTTTTGAAAGATTCCTCTAACTAAAGGCATAAGATTTAGAAGATTCCTCCAACTAGAG
Found at i:6168677 original size:33 final size:32
Alignment explanation
Indices: 6168640--6168713 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
6168630 AAATTTTCAT
* *
6168640 ATATCACCACTAAGAAGAATG-AAAAATTCTTGG
1 ATATCACCAC-AAAAAAAATGTAAAAA-TCTTGG
*
6168673 ATATCATCACAAAAAAAATGTAAAAATCTTGG
1 ATATCACCACAAAAAAAATGTAAAAATCTTGG
*
6168705 ATGTCACCA
1 ATATCACCA
6168714 TTGAAGGATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 21 0.60
33 14 0.40
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (32 bp):
ATATCACCACAAAAAAAATGTAAAAATCTTGG
Found at i:6168885 original size:83 final size:82
Alignment explanation
Indices: 6168745--6168899 Score: 215
Period size: 83 Copynumber: 1.9 Consensus size: 82
6168735 CCATCGAGAG
* * *
6168745 AGTTTTAATGAAAGTTCTATCTTGAATACTTAGATATCACCATCAAGTGTATTTGATTAAAGTTT
1 AGTTTTAATGAAAGTTCTATCTTGAATACTCAGATATCACCATCAAGTGAATGTGATTAAAG-TT
*
6168810 GAATATTACTACCGAAAA
65 AAATATTACTACCGAAAA
* *
6168828 AGTTTTAATGAAAGTT-TAATCTTGAATACTCAGATATCATCA-CTGAGTGAATGTGATTAAAGT
1 AGTTTTAATGAAAGTTCT-ATCTTGAATACTCAGATATCACCATC-AAGTGAATGTGATTAAAGT
6168891 TAAATATTA
64 TAAATATTA
6168900 ACATTGAGAG
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
82 11 0.17
83 53 0.83
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.37
Consensus pattern (82 bp):
AGTTTTAATGAAAGTTCTATCTTGAATACTCAGATATCACCATCAAGTGAATGTGATTAAAGTTA
AATATTACTACCGAAAA
Found at i:6169243 original size:29 final size:29
Alignment explanation
Indices: 6169195--6169277 Score: 89
Period size: 29 Copynumber: 2.9 Consensus size: 29
6169185 AAATTTTATT
*** *
6169195 GGTGCCAACTAAACAAAGTTTAAACTAT-
1 GGTGCCAACTAAATTGAGTTTAAAATATA
6169223 GAGTGCCAACTAAATTGAGTTTAAAATATA
1 G-GTGCCAACTAAATTGAGTTTAAAATATA
*
6169253 GGTGCTAACTAAACTTG-GTTTAAAA
1 GGTGCCAACTAAA-TTGAGTTTAAAA
6169278 ACTTAGTGCC
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 1 0.02
29 42 0.89
30 4 0.09
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.29
Consensus pattern (29 bp):
GGTGCCAACTAAATTGAGTTTAAAATATA
Found at i:6169286 original size:29 final size:29
Alignment explanation
Indices: 6169196--6169306 Score: 86
Period size: 29 Copynumber: 3.8 Consensus size: 29
6169186 AATTTTATTG
*** *
6169196 GTGCCAACTAAACAAAGTTT-AAACTATGA
1 GTGCCAACTAAACTTGGTTTAAAAATAT-A
6169225 GTGCCAACTAAA-TTGAGTTT-AAAATATA
1 GTGCCAACTAAACTTG-GTTTAAAAATATA
*
6169253 GGTGCTAACTAAACTTGGTTTAAAAACT-TA
1 -GTGCCAACTAAACTTGGTTTAAAAA-TATA
* * *
6169283 GTGCCATCTAAACTGGGCTTAAAA
1 GTGCCAACTAAACTTGGTTTAAAA
6169307 TATGGATACC
Statistics
Matches: 68, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
28 1 0.01
29 57 0.84
30 9 0.13
31 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (29 bp):
GTGCCAACTAAACTTGGTTTAAAAATATA
Found at i:6174652 original size:15 final size:16
Alignment explanation
Indices: 6174632--6174667 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
6174622 GTAGATCAAA
6174632 TTTTTTATTTTT-AAT
1 TTTTTTATTTTTGAAT
*
6174647 TTTTTTGTTTTTGAAT
1 TTTTTTATTTTTGAAT
6174663 TTTTT
1 TTTTT
6174668 ATAAAAGGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (16 bp):
TTTTTTATTTTTGAAT
Found at i:6175507 original size:6 final size:6
Alignment explanation
Indices: 6175486--6175530 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
6175476 TATTTTTTGC
* *
6175486 TTTGAT TTGGATT TTTTAT TTT-AT TTTGAT TTTGAT TTTGAT TTT
1 TTTGAT TTTGA-T TTTGAT TTTGAT TTTGAT TTTGAT TTTGAT TTT
6175531 AATATTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
5 5 0.15
6 25 0.74
7 4 0.12
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (6 bp):
TTTGAT
Found at i:6175763 original size:14 final size:13
Alignment explanation
Indices: 6175744--6175787 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
6175734 TTATATTTTA
6175744 TTGTATGATATTAT
1 TTGTATGATATT-T
6175758 TTGTATGATAATTT
1 TTGTATGAT-ATTT
*
6175772 TTGCATGATAATTT
1 TTGTATGAT-ATTT
6175786 TT
1 TT
6175788 ATTTATTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 25 0.89
15 3 0.11
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (13 bp):
TTGTATGATATTT
Found at i:6180469 original size:3 final size:3
Alignment explanation
Indices: 6180456--6180495 Score: 71
Period size: 3 Copynumber: 13.0 Consensus size: 3
6180446 ATTATGCAAA
6180456 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
6180496 GCAAAAATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6181901 original size:37 final size:37
Alignment explanation
Indices: 6181854--6181926 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
6181844 TTAGTCATAT
* *
6181854 TTGTTTACAATGTTACTAAATAAATACTCATATAAAC
1 TTGTTCACAATGTTACTAAACAAATACTCATATAAAC
6181891 TTGTTCACAATGTTACTAAACAAATACTCATATAAA
1 TTGTTCACAATGTTACTAAACAAATACTCATATAAA
6181927 TAACAAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.36
Consensus pattern (37 bp):
TTGTTCACAATGTTACTAAACAAATACTCATATAAAC
Found at i:6182874 original size:21 final size:22
Alignment explanation
Indices: 6182845--6182886 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
6182835 AGAAACGAAG
*
6182845 GAAACAAAAAATATAACAAAAA
1 GAAACAAAAAACATAACAAAAA
*
6182867 GAAA-AAAAAACATAGCAAAA
1 GAAACAAAAAACATAACAAAA
6182887 GTTTTGTCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (22 bp):
GAAACAAAAAACATAACAAAAA
Found at i:6183335 original size:21 final size:22
Alignment explanation
Indices: 6183311--6183355 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
6183301 ATCCACTATG
*
6183311 TTTTCTTTAAAAAAT-GTAATT
1 TTTTCTTAAAAAAATAGTAATT
*
6183332 TTTTCTTAAAAAAATATTAATT
1 TTTTCTTAAAAAAATAGTAATT
6183354 TT
1 TT
6183356 CAATGATCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTTCTTAAAAAAATAGTAATT
Found at i:6184622 original size:21 final size:21
Alignment explanation
Indices: 6184598--6184639 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6184588 TTCTATAAAA
*
6184598 AATTAT-TTTCATTAATTTTTT
1 AATTATATTTC-TAAATTTTTT
*
6184619 AATTTTATTTCTAAATTTTTT
1 AATTATATTTCTAAATTTTTT
6184640 TATAGAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.67
Consensus pattern (21 bp):
AATTATATTTCTAAATTTTTT
Found at i:6185158 original size:42 final size:41
Alignment explanation
Indices: 6185086--6185185 Score: 105
Period size: 41 Copynumber: 2.4 Consensus size: 41
6185076 AATTCATCCA
** *
6185086 ATTTTCATTAAATAAAATTGATTTTATTAAATAGGTAA-ATTTG
1 ATTTT-ATTAAATAAAATTGATAATATTAAA-AGGTAACA-TCG
* *
6185129 ATTTTATTAAATTAAATTGATCAAT-TTAAAAGTTAACATCG
1 ATTTTATTAAATAAAATTGAT-AATATTAAAAGGTAACATCG
6185170 ATTTTATTAAATAAAA
1 ATTTTATTAAATAAAA
6185186 AAATTCAATT
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 22 0.45
42 21 0.43
43 6 0.12
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (41 bp):
ATTTTATTAAATAAAATTGATAATATTAAAAGGTAACATCG
Found at i:6185613 original size:21 final size:21
Alignment explanation
Indices: 6185588--6185627 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6185578 AAATTGTAAA
6185588 ACAAAATTTATAA-AATTTTAT
1 ACAAAATTTA-AATAATTTTAT
6185609 ACAAAATTTAAATAATTTT
1 ACAAAATTTAAATAATTTT
6185628 CACTTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (21 bp):
ACAAAATTTAAATAATTTTAT
Found at i:6188482 original size:223 final size:221
Alignment explanation
Indices: 6188183--6188658 Score: 536
Period size: 223 Copynumber: 2.1 Consensus size: 221
6188173 TAAATAAAAT
* * * * ** * *
6188183 AAAAGCAAAAACAAGTGTACAAAAA-ATATTATTTAACATAAATAATATTTTTGACACTGTAAAA
1 AAAAGTAACAACAAATGTAAAAAAATATATTATTTAACATAAATAATAAGTTTGACAATATAAAA
* * * * *
6188247 GAATTATTATTACAAA-TAATTAATAATTTTAACCCAAAAA-ATAAGTATT-A-GTATAAA-AAA
66 GAACTATTATTACAAACAAAATAATAATTTTAA-ACAAAAAGATAAGAATTAACGTA-AAATAAA
* * * *
6188307 GCGATAGTAATTGTAAAATTTG-TATTATTTGATGTAAAATAGTAAGAAGTGTCATTACACTTTT
129 GC-A-AATAATTGTAAAA-TTGATATTATTTAATGTAAAATAGTAAGAAGTATCATTACAC-CTT
** * *
6188371 TCAAAAAAATTGTAATACTTTTAAACGTAATG
190 AAAAAAAAATTGTAATAATTCTAAACGTAATG
*
6188403 AAAAGTAACAACAAATGTAAAAAATATATATTATTATAGCATAAATAATTAAGTTTG-CAATATA
1 AAAAGTAACAACAAATGTAAAAAA-ATATATTATT-TAACATAAATAA-TAAGTTTGACAATATA
* * *
6188467 AAAGAACTATTATTACAAACAAAATAATAATTTTAAATAAAAAGTTAAGAATTAACGTAAAATGA
63 AAAGAACTATTATTACAAACAAAATAATAATTTTAAACAAAAAGATAAGAATTAACGTAAAATAA
* * * *
6188532 TGCAAATAATTGTAAAATTGATATTATTTAATGTACAATAGTTAGAAGTATCGTTACACCTTAAA
128 AGCAAATAATTGTAAAATTGATATTATTTAATGTAAAATAGTAAGAAGTATCATTACACCTTAAA
*
6188597 AAAAAATTGTTATAATTCTAAACGTAATG
193 AAAAAATTGTAATAATTCTAAACGTAATG
6188626 AAAAGTAACAACAAATGTAAAAAAATATTATTA
1 AAAAGTAACAACAAATGTAAAAAAATA-TATTA
6188659 AAAGGTAATA
Statistics
Matches: 215, Mismatches: 30, Indels: 19
0.81 0.11 0.07
Matches are distributed among these distances:
220 20 0.09
221 1 0.00
222 11 0.05
223 100 0.47
224 72 0.33
225 5 0.02
226 6 0.03
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (221 bp):
AAAAGTAACAACAAATGTAAAAAAATATATTATTTAACATAAATAATAAGTTTGACAATATAAAA
GAACTATTATTACAAACAAAATAATAATTTTAAACAAAAAGATAAGAATTAACGTAAAATAAAGC
AAATAATTGTAAAATTGATATTATTTAATGTAAAATAGTAAGAAGTATCATTACACCTTAAAAAA
AAATTGTAATAATTCTAAACGTAATG
Found at i:6188742 original size:19 final size:16
Alignment explanation
Indices: 6188699--6188743 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
6188689 TTAGTATTAC
6188699 AAATAAAAAATAATTT
1 AAATAAAAAATAATTT
*
6188715 AAGTAAAAAATAAGTGTT
1 AAATAAAAAATAA-T-TT
6188733 AACATAAAAAA
1 AA-ATAAAAAA
6188744 GTGAGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 12 0.50
17 1 0.04
18 4 0.17
19 7 0.29
ACGTcount: A:0.67, C:0.02, G:0.07, T:0.24
Consensus pattern (16 bp):
AAATAAAAAATAATTT
Found at i:6189418 original size:934 final size:917
Alignment explanation
Indices: 6187339--6189694 Score: 2296
Period size: 938 Copynumber: 2.5 Consensus size: 917
6187329 ACACCCAAAG
* * * * * * * *
6187339 AATAATTCTAAACCAACAAATAAATGTTAATGTACAAAAGTGAGAACAATAGTAAAATT-AGTGT
1 AATAATTCTAAACCAAAAAATAAGTATTAATATAAAAAAGTGAGAATAATTGTAAAATTGA-TAT
* * * * ** * *
6187403 CATTTAACATAAAACAAGTTAAAAGTA-TCTAACA-TCCTAACAAAAAGTTGTGATAGTTATAAA
65 AATTTAACATAAAATAA-TTAGAAGTATTATAACATTTTTAA-AAAAAATTGTGATACTT-TAAA
** * * * * * *
6187466 TATAATGAAAGATAACAATATA-CATAAAAAGATATTATTGA-AATAAAAATAATTAAGTTGGTA
127 CGTAATGAAAGGTAACAA-A-AGTATAAAAATATATTATT-ATAACATAAATAATTAAGTTGGCA
* **
6187529 ATGTAAAAGAAATATTATTATAAATAAAAAATAATTTTTTACAAAAAATAA-AAGTTAATGTCAA
189 ATGTAAAA-AAATATTATTACAAATAAAAAATAATTTTAAAC-AAAAATAAGAA-TTAATGT-AA
* * * *
6187593 AAAATGAAAATAATCGTAAAATTAATAGTATTTTGATGTAAAATGATTACAAGTATCGTTACACC
250 AAGATG-AAATAATCGTAAAATTAATATTA-TTTAATGTAAAATG-TTAAAAGTATCGTTACACC
* * * * * * *
6187658 TTAATAAAATATTGTGATAATTCTAAACATAATGAAAAGTAATAACTAGTGTAAAAAAATATTAT
312 TTAAAAAAAAATTGTAATAATTCTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTAT
* * * * *
6187723 TAAACCATAAATAATTAAATTGATAATG--AAAAAATTAGTATGATAAATAAAAAA-AATCCTAC
377 TAAAACGT-AATAA--AAA-TGGTAATGTAAAAAAATTAGTATTATAAATAAAAAATAAT-TTA-
* * * * * *
6187785 ACAAAAAATGTGTTAACATAAAAAAATAAGAATAATCATAAAATTGATGTATTTTAGTATAAAAT
436 ATAAAAAATGTGTTAACATAAAAAAATAAGAATAATAAAAAAATTGATATATTTGAGCATAAAAT
* * * * ** * *
6187850 GTGTTAGAAATGTCATAATACCTTAAAAAATTATAATAATTTTAAACGTATTAAAAGATCAAAAC
501 ATATTAGAAATATCATAATACCTTAAAAAATTATAATAATTCTAAACAAAATAAAAGATAAAAAC
*
6187915 AAGCGTAAAAGATATTATTATAAAGTACTAATTAAGTTGACAATATAAAAAATTTTATTATAAAT
566 AAGCGTAAAAGATATTATTATAAAGTAC-AATTAAGTTGACAACATAAAAAATTTTATTATAAAT
* * * *
6187980 GAAAAATAATTCTAAACAAAAACAAAGTATTAATGCAAAAAAGTGAGAGTAAGTGTAAAACTGGA
630 AAAAAATAATTCTAAACAAAAACAAACTATTAATGCAAAAAAGTGAGAATAAGTGTAAAACTGAA
* * * * * * * *
6188045 ATCATTAGGCATAAAGTATGTTAGAGGTGTCCTAACGTAAAAGGGAAAAAATAGTTGTAAATTGG
695 ATCATTAGACATAAAATATGTTACAGATGTCATAACGTAAAAGAGAAAAAATAGTTATAAACTGG
* * *
6188110 TGTCACTTAGCATAAATCGGATTAAAATTATTGTAACACTCTAACAAAAAATTGTGATAAATTTA
760 TGTCACTTAGCATAAATCAGATTAAAAGTATCGTAACACTCTAACAAAAAATTGTGATAAATTTA
* * *
6188175 AATAAAATAAAAGCAAAAACAAGTGTACAAAAAATATTATTTAACATAAATAATATTTTTGACAC
825 AATAAAATAAAAGCAAAAACAAGTATACAAAAAATATTATTTAACAGAAATAATATTTTTGACAA
** *
6188240 TGTAAAAGAATTATTATTACAAATAATT
890 TACAAAAGAATTATTATTACAAATAAAT
* * * * * *
6188268 AATAATTTTAACCCAAAAAATAAGTATTAGTATAAAAAAGCGATAGTAATTGTAAAATTTG-TAT
1 AATAATTCTAAACCAAAAAATAAGTATTAATATAAAAAAGTGAGAATAATTGTAAAA-TTGATAT
* * ** * * * * * * *
6188332 TATTTGATGTAAAATAGTAAGAAGTGTCATTACACTTTTTCAAAAAAATTGTAATACTTTTAAAC
65 AATTTAACATAAAATAATTAGAAGTATTATAACA-TTTTTAAAAAAAATTGTGATAC-TTTAAAC
* * * *
6188397 GTAATGAAAAGTAACAACAAATGTAAAAAATATATATTATTATAGCATAAATAATTAAGTTTGCA
128 GTAATGAAAGGTAAC-A-AAA-GTATAAAA-ATATATTATTATAACATAAATAATTAAGTTGGCA
* * * * *
6188462 ATATAAAAGAACTATTATTACAAACAAAATAATAATTTTAAATAAAAAGTTAAGAATTAACGTAA
189 ATGTAAAA-AAATATTATTACAAATAAAA-AATAATTTTAAACAAAAA--TAAGAATTAATGTAA
* * * *
6188527 AATGATGCAAATAATTGTAAAATTGATATTATTTAATGTACAATAGTTAGAAGTATCGTTACACC
250 AA-GATG-AAATAATCGTAAAATTAATATTATTTAATGTAAAAT-GTTAAAAGTATCGTTACACC
*
6188592 TTAAAAAAAAATTGTTATAATTCTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTAT
312 TTAAAAAAAAATTGTAATAATTCTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTAT
* *
6188657 TAAAAGGTAATAAAAATGGTAATGTAAAAAAATTAGTATTACAAATAAAAAATAATTTAAGTAAA
377 TAAAACGTAATAAAAATGGTAATGTAAAAAAATTAGTATTATAAATAAAAAATAATTTAA-TAAA
* * * *
6188722 AAATAAGTGTTAACATAAAAAAGTGAGAATAATAAAAAAATTGGTATCATTTGA-CATAAGATAT
441 AAAT--GTGTTAACATAAAAAAATAAGAATAATAAAAAAATTGATAT-ATTTGAGCATAAAATAT
* * *
6188786 ATTAGAAGTATCGTAATACCTTAAGAAAAATTTATGATAATTCTAAACAAAATAAAAGATAAAAA
503 ATTAGAAATATCATAATACCTT-A-AAAAA-TTATAATAATTCTAAACAAAATAAAAGATAAAAA
* * *
6188851 CAAGCGTAAAAGATTTTATTATAATGTA-AATATAAGTTGATAACATAAAAAAATTATTATTATA
565 CAAGCGTAAAAGATATTATTATAAAGTACAAT-TAAGTTGACAACAT-AAAAAATT-TTATTATA
* * * *
6188915 AATAAAAAATAATTTTAAACAAAAA-AATACT-TCTAA-GCGTAAAAAGTTTAGAATAATTAG-A
627 AATAAAAAATAATTCTAAACAAAAACAA-ACTAT-TAATGC-AAAAAAG-TGAGAATAAGT-GTA
* * ** *
6188976 AAATTGAAATCATTTGATGTAAAATATGTTACA-ATGTCAT-ATGTAAAA-AGATAAAAATAGTT
687 AAACTGAAATCATTAGACATAAAATATGTTACAGATGTCATAACGTAAAAGAGA-AAAAATAGTT
* * * * * * * *
6189038 ATAAAACTGGTGTTATTTAGCGTAAATTAGATTAGAAGTATCGTAATACTTTAACAAAAAGTTGT
751 AT-AAACTGGTGTCACTTAGCATAAATCAGATTAAAAGTATCGTAACACTCTAACAAAAAATTGT
* * ** *
6189103 GAT-AATTTAAACT-TAATAAAAAGTACGAATAAGTATA-AAAAAATATTATTATAACAGAAATA
815 GATAAATTTAAA-TAAAAT-AAAAGCAAAAACAAGTATACAAAAAATATTATT-TAACAGAAATA
*
6189165 ATATTTTTTTG-CAATACAAAA-AATTATTATTATAAATAAAT
877 ATA--TTTTTGACAATACAAAAGAATTATTATTACAAATAAAT
* *
6189206 AATTATTCTAAACCAAAAAATAAGTTTTAATATAAAAAAGTGAGAATAATTGTAAAATTGATATA
1 AATAATTCTAAACCAAAAAATAAGTATTAATATAAAAAAGTGAGAATAATTGTAAAATTGATATA
* *
6189271 ATTTAACATAAAATAATTAGAAGTATTGTAACATTTTTAAGAAAAAATTATGATACTCTTAAACG
66 ATTTAACATAAAATAATTAGAAGTATTATAACATTTTTAA-AAAAAATTGTGATACT-TTAAACG
*
6189336 TAATGAAAGGTAACAAAAGTATAAAAATATATTATTATAACGTAAATAATTAAGTTGGCAATGTA
129 TAATGAAAGGTAACAAAAGTATAAAAATATATTATTATAACATAAATAATTAAGTTGGCAATGTA
* *
6189401 AAAAAATTATTATTACAAATAAAAAATAA-TTTAAACAAAAA-AAG--TTAATATAAAACGGTGA
194 AAAAAA-TATTATTACAAATAAAAAATAATTTTAAACAAAAATAAGAATTAATGTAAAA-GATGA
* * * * * **
6189462 GAATAATCATAAAATTAATATTATTTTATGTAAAATGGTTAAAAGAAAT-TTTATATTTTTAACA
257 -AATAATCGTAAAATTAATATTATTTAATGTAAAAT-GTTAAAAG-TATCGTTACA-CCTTAA-A
* * * * * *
6189526 AAAAAATTATAATAATTTTAAATGTAATCAAAAGTAACAACAAATGTAAAATAATATTATTGAAA
317 AAAAAATTGTAATAATTCTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTATTAAAA
* * *
6189591 TGTAAT-AAATTTGTAATGTAAAAAAATTAGTATTATAAAT-AAAAATAATTCTAAATAAAAAA-
382 CGTAATAAAAATGGTAATGTAAAAAAATTAGTATTATAAATAAAAAATAATT-T-AATAAAAAAT
* * * *
6189653 GTGTTAA-ATTAAAAAGATGAA-AATAATCATAAAATTAATATA
445 GTGTTAACA-TAAAAAAAT-AAGAATAATAAAAAAATTGATATA
6189695 AATTGGTGGA
Statistics
Matches: 1165, Mismatches: 207, Indels: 115
0.78 0.14 0.08
Matches are distributed among these distances:
924 2 0.00
925 30 0.03
926 2 0.00
927 63 0.05
928 51 0.04
929 130 0.11
930 38 0.03
931 11 0.01
932 51 0.04
933 71 0.06
934 220 0.19
935 49 0.04
936 24 0.02
937 120 0.10
938 255 0.22
939 41 0.04
940 7 0.01
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (917 bp):
AATAATTCTAAACCAAAAAATAAGTATTAATATAAAAAAGTGAGAATAATTGTAAAATTGATATA
ATTTAACATAAAATAATTAGAAGTATTATAACATTTTTAAAAAAAATTGTGATACTTTAAACGTA
ATGAAAGGTAACAAAAGTATAAAAATATATTATTATAACATAAATAATTAAGTTGGCAATGTAAA
AAAATATTATTACAAATAAAAAATAATTTTAAACAAAAATAAGAATTAATGTAAAAGATGAAATA
ATCGTAAAATTAATATTATTTAATGTAAAATGTTAAAAGTATCGTTACACCTTAAAAAAAAATTG
TAATAATTCTAAACGTAATGAAAAGTAACAACAAATGTAAAAAAATATTATTAAAACGTAATAAA
AATGGTAATGTAAAAAAATTAGTATTATAAATAAAAAATAATTTAATAAAAAATGTGTTAACATA
AAAAAATAAGAATAATAAAAAAATTGATATATTTGAGCATAAAATATATTAGAAATATCATAATA
CCTTAAAAAATTATAATAATTCTAAACAAAATAAAAGATAAAAACAAGCGTAAAAGATATTATTA
TAAAGTACAATTAAGTTGACAACATAAAAAATTTTATTATAAATAAAAAATAATTCTAAACAAAA
ACAAACTATTAATGCAAAAAAGTGAGAATAAGTGTAAAACTGAAATCATTAGACATAAAATATGT
TACAGATGTCATAACGTAAAAGAGAAAAAATAGTTATAAACTGGTGTCACTTAGCATAAATCAGA
TTAAAAGTATCGTAACACTCTAACAAAAAATTGTGATAAATTTAAATAAAATAAAAGCAAAAACA
AGTATACAAAAAATATTATTTAACAGAAATAATATTTTTGACAATACAAAAGAATTATTATTACA
AATAAAT
Found at i:6189741 original size:210 final size:211
Alignment explanation
Indices: 6189525--6189909 Score: 480
Period size: 210 Copynumber: 1.8 Consensus size: 211
6189515 TATTTTTAAC
*
6189525 AAAAAAATTATAATAATTTTAAATGTAATCAAAA-GTAACAACAAATGTAAAATA-ATATTATTG
1 AAAAAAATTATAATAATTTTAAATGTAAT-AAAATGAAACAACAAATGT--AATAGATATTATTG
* **
6189588 AAATGT-AATAAATT-TGTAATGTA-A-AA-AAATTAGTATTATAAATAAAAATAATTCTAAA-T
63 AAACGTAAAT-AATTAT-TAA-CAACATAAGAAATTAGTATTATAAATAAAAATAATTCTAAACT
* *
6189647 AAAAAAGTGTTAAATTAAAAAGATGAAAATAATCATAAAATTAATATAAATTGGTGGAAAATATG
125 AAAAAAATGTT-AATAAAAAAGATGAAAATAATCATAAAATTAATATAAATTGGTGGAAAATATG
6189712 TTTAGAGTGTCATAATACTTACG
189 TTTAGAGTGTCATAATACTTACG
* * * * * *
6189735 AAAAAAATTGTAATAATTTTGAATGTAATAAAATGAAAGAACAAATGTAGTAGATTTTATTGTAA
1 AAAAAAATTATAATAATTTTAAATGTAATAAAATGAAACAACAAATGTAATAGATATTATTGAAA
* *
6189800 CGTAAATAATTAAATTAACAACATAAGAAATTATTATTATAAATAAAAATAATTTTAAATCTAAA
66 CGTAAATAATT--ATTAACAACATAAGAAATTAGTATTATAAATAAAAATAATTCTAAA-CTAAA
* *
6189865 AAAATGTTAATAAAAAATATGAAAATAATCATAAAATTAGTATAA
128 AAAATGTTAATAAAAAAGATGAAAATAATCATAAAATTAATATAA
6189910 TTTAACGTAA
Statistics
Matches: 148, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
208 3 0.02
209 20 0.14
210 43 0.29
211 4 0.03
212 3 0.02
213 30 0.20
214 34 0.23
215 11 0.07
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (211 bp):
AAAAAAATTATAATAATTTTAAATGTAATAAAATGAAACAACAAATGTAATAGATATTATTGAAA
CGTAAATAATTATTAACAACATAAGAAATTAGTATTATAAATAAAAATAATTCTAAACTAAAAAA
ATGTTAATAAAAAAGATGAAAATAATCATAAAATTAATATAAATTGGTGGAAAATATGTTTAGAG
TGTCATAATACTTACG
Found at i:6189959 original size:67 final size:67
Alignment explanation
Indices: 6189877--6190003 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 67
6189867 AATGTTAATA
* *
6189877 AAAAATATGAAAATAATCATAAAATTAGTATAATTTAACGTAAAAT-GTATTAAAAGTATCGTAA
1 AAAAATATGAAAATAATCATAAAATTAATATAATTTAACGTAAAATAG-ATTAAAACTATCGTAA
6189941 CGT
65 CGT
* * * *
6189944 AAAAATATGAGAATAATCATAAAATTAATATCATTTGATGTAAAATAGATTAAAACTATC
1 AAAAATATGAAAATAATCATAAAATTAATATAATTTAACGTAAAATAGATTAAAACTATC
6190004 CCGATACCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 52 0.98
68 1 0.02
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.31
Consensus pattern (67 bp):
AAAAATATGAAAATAATCATAAAATTAATATAATTTAACGTAAAATAGATTAAAACTATCGTAAC
GT
Found at i:6205603 original size:9 final size:9
Alignment explanation
Indices: 6205589--6205615 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
6205579 TTTAAAATAC
6205589 AATCCAAAA
1 AATCCAAAA
6205598 AATCCAAAA
1 AATCCAAAA
6205607 AATCCAAAA
1 AATCCAAAA
6205616 TTCCCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.67, C:0.22, G:0.00, T:0.11
Consensus pattern (9 bp):
AATCCAAAA
Found at i:6206694 original size:33 final size:33
Alignment explanation
Indices: 6206652--6206717 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
6206642 TCATTATTGT
*
6206652 TATAAGTAATTTTAATAATTATTGCTATTTCAA
1 TATAAGTAATTTTAATAATTATTACTATTTCAA
6206685 TATAAGTAATTTTAATAATTATTACTATTTCAA
1 TATAAGTAATTTTAATAATTATTACTATTTCAA
6206718 CAAATAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (33 bp):
TATAAGTAATTTTAATAATTATTACTATTTCAA
Found at i:6206977 original size:49 final size:49
Alignment explanation
Indices: 6206900--6206999 Score: 182
Period size: 49 Copynumber: 2.0 Consensus size: 49
6206890 TATTTTGCTT
6206900 TGAATTTGTTAATGTAAGCTTATAGTAATGTTTCAATTAGATTCATTTA
1 TGAATTTGTTAATGTAAGCTTATAGTAATGTTTCAATTAGATTCATTTA
* *
6206949 TGAATTTGTTATTGTAAGCTTATGGTAATGTTTCAATTAGATTCATTTA
1 TGAATTTGTTAATGTAAGCTTATAGTAATGTTTCAATTAGATTCATTTA
6206998 TG
1 TG
6207000 GTTCATTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (49 bp):
TGAATTTGTTAATGTAAGCTTATAGTAATGTTTCAATTAGATTCATTTA
Found at i:6207975 original size:2 final size:2
Alignment explanation
Indices: 6207968--6208011 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6207958 TTTGTTTCTA
6207968 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6208010 AT
1 AT
6208012 TATTGATTTC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6210005 original size:37 final size:37
Alignment explanation
Indices: 6209941--6210013 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
6209931 AGAATGTCCC
*
6209941 TATGTAATAATAGTAAGTAAATGTATTTTAGATTTTA
1 TATGTAATAATAGTAAATAAATGTATTTTAGATTTTA
* *
6209978 TATGTAATAATATTAAATAAA-GATATTTTATATTTT
1 TATGTAATAATAGTAAATAAATG-TATTTTAGATTTT
6210014 TATTTTTATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (37 bp):
TATGTAATAATAGTAAATAAATGTATTTTAGATTTTA
Found at i:6210295 original size:73 final size:70
Alignment explanation
Indices: 6210051--6210483 Score: 288
Period size: 73 Copynumber: 6.0 Consensus size: 70
6210041 AATTACTACA
* ** *
6210051 TTTTATCTTAAAAATATTTTTTTTGTTAAAATTTC-AAATTTCAAAAATGAAGTTTCAATATCTA
1 TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAATTTCAAAAAT-AA-TTTCAATATCTA
6210115 -TAATGTTT
64 CT-AT-TTT
* * * * *
6210123 TTTTATCTTAAAAATATGGTTTTTGTTAAAATTTCATAATTTTAAAAATATAGTTTCAACAT-TA
1 TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAATTTCAAAAATA-A-TTTCAATATCTA
*
6210187 CTA-TGT
64 CTATTTT
*** * *
6210193 TTTTATCTTAAAAACACAATCTTTGTTAAAATTCCAAAATTTCAAAATATAATTTTAATATCTAC
1 TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAATTTCAAAA-ATAATTTCAATATCTAC
6210258 TATTTTTT
65 TA--TTTT
* * * * * * *
6210266 TTTTATCTTAAAAACATGGTTTCTATTAAAATTCTAGAATTTCAAAAATAAAAGTGTCAACATCA
1 TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAATTTCAAAAAT--AA-TTTCAATATCT
* **
6210331 ATTACGTT
63 ACTATTTT
* *** ** * *
6210339 TTTTATCTTTAAAACAAAATTTTTGTTAAAATTTTAGAATTTCGAAAATAAAATTTTCACAT-TC
1 TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAATTTC-AAAA-ATAA-TTTCA-ATATC
6210403 -ACTA-TTT
62 TACTATTTT
** * * * *
6210410 TTTTATCTTAAAAATGTGATTTTTATTAAAATTCTAAAATTTTGAAAACATAATTTCAATAT-TC
1 TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAA-TTTCAAAA-ATAATTTCAATATCT-
6210474 ACTATTTT
63 ACTATTTT
6210482 TT
1 TT
6210484 AAAATGAAAA
Statistics
Matches: 286, Mismatches: 56, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
69 9 0.03
70 53 0.19
71 47 0.16
72 50 0.17
73 109 0.38
74 7 0.02
75 11 0.04
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (70 bp):
TTTTATCTTAAAAACATGGTTTTTGTTAAAATTCCAAAATTTCAAAAATAATTTCAATATCTACT
ATTTT
Found at i:6210505 original size:15 final size:16
Alignment explanation
Indices: 6210480--6210511 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
6210470 ATTCACTATT
6210480 TTTTAAAATGAAAATA
1 TTTTAAAATGAAAATA
6210496 TTTT-AAATGAAAATA
1 TTTTAAAATGAAAATA
6210511 T
1 T
6210512 AATCTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (16 bp):
TTTTAAAATGAAAATA
Found at i:6210542 original size:21 final size:21
Alignment explanation
Indices: 6210518--6210576 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
6210508 ATATAATCTC
* *
6210518 AAAAAATTTTTAAATTTTTTT
1 AAAAAATTTTTAAAATATTTT
* *
6210539 AAAAAAATTCTAAAATATTTT
1 AAAAAATTTTTAAAATATTTT
*
6210560 -AAAAATTTTAAAAATAT
1 AAAAAATTTTTAAAATAT
6210577 GAAATATTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
AAAAAATTTTTAAAATATTTT
Found at i:6210572 original size:8 final size:9
Alignment explanation
Indices: 6210541--6210574 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
6210531 ATTTTTTTAA
*
6210541 AAAAATTCT
1 AAAAATTTT
6210550 AAAATATTTT
1 AAAA-ATTTT
6210560 AAAAATTTT
1 AAAAATTTT
6210569 AAAAAT
1 AAAAAT
6210575 ATGAAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (9 bp):
AAAAATTTT
Found at i:6218096 original size:13 final size:13
Alignment explanation
Indices: 6218059--6218103 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
6218049 TTCTATAAAA
*
6218059 AAAAT-ATTATTT
1 AAAATAATTAATT
6218071 AAAATAA--AATT
1 AAAATAATTAATT
6218082 AAAATAATTAATT
1 AAAATAATTAATT
6218095 AAAATAATT
1 AAAATAATT
6218104 TTTTATAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 10 0.34
12 5 0.17
13 14 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AAAATAATTAATT
Found at i:6218291 original size:26 final size:26
Alignment explanation
Indices: 6218245--6218294 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6218235 TATATTTACG
* *
6218245 AATTTTAGAAAAATAGGTTAAGTACA
1 AATTTTAGAAAAAAAGATTAAGTACA
6218271 AATTTTA-AAAACAAAGATTAAGTA
1 AATTTTAGAAAA-AAAGATTAAGTA
6218295 TGTGTGGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.30
Consensus pattern (26 bp):
AATTTTAGAAAAAAAGATTAAGTACA
Found at i:6219091 original size:13 final size:12
Alignment explanation
Indices: 6219066--6219101 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
6219056 GAGTGATAAT
6219066 TTTTTTTTATTCC
1 TTTTTTTT-TTCC
6219079 TTTCTTTTTTTCC
1 TTT-TTTTTTTCC
6219092 TTTTTTTTTT
1 TTTTTTTTTT
6219102 AATTTTCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 10 0.45
14 5 0.23
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTTTCC
Found at i:6220820 original size:10 final size:10
Alignment explanation
Indices: 6220796--6220825 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
6220786 TATTTTATCA
6220796 ATTAAAATA-
1 ATTAAAATAT
6220805 ATTAAAATAT
1 ATTAAAATAT
6220815 ATTAAAATAT
1 ATTAAAATAT
6220825 A
1 A
6220826 AAAGCTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:6223798 original size:21 final size:20
Alignment explanation
Indices: 6223757--6223806 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
6223747 CCCGAAATTA
6223757 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTTAAT
6223777 ATAAAATATTATTTTTTAA-
1 ATAAAATATTATTTTTTAAT
6223796 ATATAAATATT
1 ATA-AAATATT
6223807 TAAAAATATC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATAAAATATTATTTTTTAAT
Found at i:6226401 original size:334 final size:334
Alignment explanation
Indices: 6225781--6226404 Score: 867
Period size: 334 Copynumber: 1.9 Consensus size: 334
6225771 TAAATAATGA
* * *
6225781 TGTTGGATCATGGGGTCCAGCGATCTCTCTTAAGCACTCGGTATGTCGGTTCATCTGGGTTAGAT
1 TGTTGGATCATGGGGTCCAGCGATCTCTCTTAAGCACTCAGTATATCGGTTCATCTAGGTTAGAT
* * *
6225846 ATCTCATGACGGATCAAATTTTAATGTATGACAACCCAACCTGTCGAGACCCAATAGGTGAGATA
66 ATCCCATGACGGATCAAATTTTAATCTATGACAACCCAACCTGTCGAGACCCAAGAGGTGAGATA
* * * * * * *
6225911 TCTCATGAAGGCTTTGCGAAGCTCCTTATGTTTACCTATCGCTTAGTATGGGGCTCTACGCTACT
131 TCCCATGAAAGCTTTACGAAACTCCTTATGTTCACCTATCGCTTAGTACGAGGCTCTACGCTACT
*
6225976 AAAGAAAAGAATAAAAAAATAGAGTTACGCCTTCACCATTAGCTATAGCTTTTGGTACAATGGTA
196 AAAGAAAAGAATAAAAAAATAGAGTTACACCTTCACCATTAGCTATAGCTTTTGGTACAATGGTA
* *
6226041 AATCTTGATCTTAAAAATTGGTATCAGAGCGAGGTTGCAGATTTCAGTCCCTCAAGTGTCGTTAG
261 AATCTTGATCTTAAAAACTAGTATCAGAGCGAGGTTGCAGATTTCAGTCCCTCAAGTGTCGTTAG
6226106 GGGGGAGAT
326 GGGGGAGAT
* * * * *
6226115 TGTTGGATTATGGGGTTCAGCGATCT-TCCTTAAGGACTCAGTATATCGGTTTATCTAGGTTAGG
1 TGTTGGATCATGGGGTCCAGCGATCTCT-CTTAAGCACTCAGTATATCGGTTCATCTAGGTTAGA
** * * * * * *
6226179 TATCCCATGGTGGATCAGATTTTGATCTATGGCAACCTAACCTGTCGAGGCCCAACGA-GTGAGG
65 TATCCCATGACGGATCAAATTTTAATCTATGACAACCCAACCTGTCGAGACCCAA-GAGGTGAGA
*
6226243 TATCCCATGAAAGCTTTACGAAACTCCTTATGTTCACCTGTCGCTTAGTACGAGGCTCTACGCTA
129 TATCCCATGAAAGCTTTACGAAACTCCTTATGTTCACCTATCGCTTAGTACGAGGCTCTACGCTA
* * * *
6226308 CTAAA-AAAAGAATAAGAAAATAGAGTTGCACCTTCACCATTAGCTATAGCTTTTGGTGCAGTGG
194 CTAAAGAAAAGAATAAAAAAATAGAGTTACACCTTCACCATTAGCTATAGCTTTTGGTACAATGG
* * *
6226372 TAAGTGTTTGATCTTGAAAACTAGTATCAGAGC
259 TAAAT-CTTGATCTTAAAAACTAGTATCAGAGC
6226405 TTTGGTCTCT
Statistics
Matches: 250, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
333 59 0.24
334 190 0.76
335 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (334 bp):
TGTTGGATCATGGGGTCCAGCGATCTCTCTTAAGCACTCAGTATATCGGTTCATCTAGGTTAGAT
ATCCCATGACGGATCAAATTTTAATCTATGACAACCCAACCTGTCGAGACCCAAGAGGTGAGATA
TCCCATGAAAGCTTTACGAAACTCCTTATGTTCACCTATCGCTTAGTACGAGGCTCTACGCTACT
AAAGAAAAGAATAAAAAAATAGAGTTACACCTTCACCATTAGCTATAGCTTTTGGTACAATGGTA
AATCTTGATCTTAAAAACTAGTATCAGAGCGAGGTTGCAGATTTCAGTCCCTCAAGTGTCGTTAG
GGGGGAGAT
Found at i:6232785 original size:30 final size:32
Alignment explanation
Indices: 6232709--6232786 Score: 81
Period size: 33 Copynumber: 2.5 Consensus size: 32
6232699 TTGAATTTTC
* * *
6232709 TATTTTGAATCAATTGAATCCGTAAACATTATT
1 TATTTTCACTCAATTGAACCCGTAAACATTA-T
*
6232742 TATTTTCACTCAATTGAACCCTTAAACA-TA-
1 TATTTTCACTCAATTGAACCCGTAAACATTAT
6232772 TATCTTT-ACTCAATT
1 TAT-TTTCACTCAATT
6232787 AAGCTCCCGA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 11 0.28
31 3 0.08
32 2 0.05
33 24 0.60
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (32 bp):
TATTTTCACTCAATTGAACCCGTAAACATTAT
Found at i:6233594 original size:62 final size:62
Alignment explanation
Indices: 6233493--6233630 Score: 145
Period size: 62 Copynumber: 2.2 Consensus size: 62
6233483 ACCACTTATA
* * *
6233493 GTATTTTTGTAATTATAGTAGGAAAGGTATTATAATAATTTTGAAAAATTATGCTAGGAGGG
1 GTATTTTTATAATTATAGTAGGAAAGGTATCATAATAATTTTGAAAAATTATACTAGGAGGG
* * ** *
6233555 GTATTTTTATAATTATAGTAGTG-AGGGCT-TCATAGTAATTTTGCCAAATTATACTATGAGGG
1 GTATTTTTATAATTATAGTAG-GAAAGG-TATCATAATAATTTTGAAAAATTATACTAGGAGGG
* * *
6233617 ATATTATCATAATT
1 GTATTTTTATAATT
6233631 TAACCAATTT
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
62 61 0.97
63 2 0.03
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.41
Consensus pattern (62 bp):
GTATTTTTATAATTATAGTAGGAAAGGTATCATAATAATTTTGAAAAATTATACTAGGAGGG
Found at i:6234228 original size:24 final size:24
Alignment explanation
Indices: 6234180--6234228 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
6234170 TTTAGTTGAT
**
6234180 TATAATATAAAAGATATTTTCTAA
1 TATAATATAAAAGATATTTAATAA
6234204 TATAATATAAAAG-TATTATAATAA
1 TATAATATAAAAGATATT-TAATAA
6234228 T
1 T
6234229 TCATTATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (24 bp):
TATAATATAAAAGATATTTAATAA
Found at i:6238049 original size:18 final size:16
Alignment explanation
Indices: 6238026--6238078 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 16
6238016 TAAGATATAC
6238026 TAAAAACTAAATATTTAT
1 TAAAAA-TAAA-ATTTAT
6238044 TAAAAATAAAATTTATT
1 TAAAAATAAAATTTA-T
*
6238061 TAAATAAAAAAATTTAT
1 TAAA-AATAAAATTTAT
6238078 T
1 T
6238079 CTCATATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
16 5 0.16
17 11 0.34
18 16 0.50
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAAATAAAATTTAT
Found at i:6239510 original size:40 final size:42
Alignment explanation
Indices: 6239449--6239578 Score: 180
Period size: 38 Copynumber: 3.1 Consensus size: 42
6239439 TCTTCAATTC
*
6239449 TTTCTATTTATTCATATATATATATATATATATAGGT-TTTT
1 TTTCTGTTTATTCATATATATATATATATATATAGGTATTTT
6239490 TTT-TGTTTATTC--ATATATATA-ATATATATAGGTATTTT
1 TTTCTGTTTATTCATATATATATATATATATATAGGTATTTT
6239528 TTTCTGTTTATTCATATAATATATAATATATATATATGGGTATTTT
1 TTTCTGTTTATTCATAT-ATATAT-ATATATATATA--GGTATTTT
6239574 TTTCT
1 TTTCT
6239579 ATGAGCTTCA
Statistics
Matches: 79, Mismatches: 1, Indels: 13
0.85 0.01 0.14
Matches are distributed among these distances:
37 12 0.15
38 16 0.20
39 9 0.11
40 8 0.10
41 5 0.06
42 6 0.08
43 1 0.01
44 9 0.11
46 13 0.16
ACGTcount: A:0.31, C:0.05, G:0.07, T:0.58
Consensus pattern (42 bp):
TTTCTGTTTATTCATATATATATATATATATATAGGTATTTT
Found at i:6241239 original size:22 final size:20
Alignment explanation
Indices: 6241214--6241257 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
6241204 TTAAATAAAA
6241214 TAAAACTCTTATTCATTATAAT
1 TAAAACTCTT-TT-ATTATAAT
* *
6241236 TAAAATTCTTTTATTTTAAT
1 TAAAACTCTTTTATTATAAT
6241256 TA
1 TA
6241258 CATTTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (20 bp):
TAAAACTCTTTTATTATAAT
Found at i:6241292 original size:30 final size:30
Alignment explanation
Indices: 6241250--6241317 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 30
6241240 ATTCTTTTAT
*
6241250 TTTAATTACATTTATTAATCAAAAACTTTG
1 TTTAATTACATTTATTAAACAAAAACTTTG
*
6241280 TTTACATT-CATTTATTAAACAAAACCTTTG
1 TTTA-ATTACATTTATTAAACAAAAACTTTG
6241310 TTTTAATT
1 -TTTAATT
6241318 GATCATCTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 27 0.79
31 7 0.21
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.49
Consensus pattern (30 bp):
TTTAATTACATTTATTAAACAAAAACTTTG
Found at i:6243355 original size:18 final size:18
Alignment explanation
Indices: 6243332--6243374 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6243322 TGTAATGAGC
*
6243332 ATATCACAAAGCTTGGTA
1 ATATCACAAAGCTTGATA
*
6243350 ATATCAGAAAGCTTGATA
1 ATATCACAAAGCTTGATA
6243368 ATATCAC
1 ATATCAC
6243375 CAGATAGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (18 bp):
ATATCACAAAGCTTGATA
Found at i:6246265 original size:2 final size:2
Alignment explanation
Indices: 6246258--6246283 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6246248 ATAGTCACAA
6246258 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6246284 TGAAAAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.