Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 141 of 161
Found at i:43945140 original size:21 final size:21
Alignment explanation
Indices: 43945116--43945158 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
43945106 TTTCAGAGTT
*
43945116 ATTAGTATTTATTTATAATTA
1 ATTAGTATTTAATTATAATTA
* *
43945137 ATTATTATTTAATTATATTTA
1 ATTAGTATTTAATTATAATTA
43945158 A
1 A
43945159 ATAAAGTTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTAGTATTTAATTATAATTA
Found at i:43945150 original size:11 final size:10
Alignment explanation
Indices: 43945116--43945158 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
43945106 TTTCAGAGTT
43945116 ATTAGTATTTA
1 ATTA-TATTTA
* *
43945127 TTTATAATTA
1 ATTATATTTA
43945137 ATTATTATTTA
1 ATTA-TATTTA
43945148 ATTATATTTA
1 ATTATATTTA
43945158 A
1 A
43945159 ATAAAGTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTATATTTA
Found at i:43945966 original size:21 final size:21
Alignment explanation
Indices: 43945937--43945980 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
43945927 CCTTTTCTAT
* * *
43945937 TTAACAGTACTGATCCAATTA
1 TTAAAAGTACTAACCCAATTA
43945958 TTAAAAGTACTAACCCAATTA
1 TTAAAAGTACTAACCCAATTA
43945979 TT
1 TT
43945981 TAAGTTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (21 bp):
TTAAAAGTACTAACCCAATTA
Found at i:43950973 original size:15 final size:15
Alignment explanation
Indices: 43950953--43950981 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43950943 GCAATATTAT
43950953 AATTGATGGTTGTGG
1 AATTGATGGTTGTGG
43950968 AATTGATGGTTGTG
1 AATTGATGGTTGTG
43950982 TATGAAAGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
AATTGATGGTTGTGG
Found at i:43951758 original size:23 final size:23
Alignment explanation
Indices: 43951726--43951769 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
43951716 AAAGTTATAC
*
43951726 TCAGCATGCAGTTTTGTTTTCCG
1 TCAGCATGCAATTTTGTTTTCCG
*
43951749 TCAGCGTGCAATTTTGTTTTC
1 TCAGCATGCAATTTTGTTTTC
43951770 AGTGCACAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (23 bp):
TCAGCATGCAATTTTGTTTTCCG
Found at i:43953378 original size:26 final size:23
Alignment explanation
Indices: 43953299--43953380 Score: 85
Period size: 23 Copynumber: 3.4 Consensus size: 23
43953289 CAGTTCGTAT
** *
43953299 GAGCTTACCGTTTCAGCTTTATG
1 GAGCTTACCGTTTCAGCTCGATA
*
43953322 GAGCTTTCCGTTTCAGCTCGATA
1 GAGCTTACCGTTTCAGCTCGATA
43953345 GAGCTTACCGTTTATCAGCTCGGA-A
1 GAGCTTACCG-TT-TCAGCTC-GATA
43953370 TGAGCTTACCG
1 -GAGCTTACCG
43953381 ATCATGGCTC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 28 0.56
24 2 0.04
25 8 0.16
26 12 0.24
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (23 bp):
GAGCTTACCGTTTCAGCTCGATA
Found at i:43953578 original size:20 final size:20
Alignment explanation
Indices: 43953540--43953578 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43953530 TATGGATGAA
* *
43953540 TTACCGTTGATATGTATAAG
1 TTACCGTTGATACGGATAAG
*
43953560 TTACGGTTGATACGGATAA
1 TTACCGTTGATACGGATAA
43953579 ATTTATGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (20 bp):
TTACCGTTGATACGGATAAG
Found at i:43953654 original size:9 final size:9
Alignment explanation
Indices: 43953642--43953687 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
43953632 TAAATGTTAT
43953642 ATGATTTAC
1 ATGATTTAC
43953651 ATGATTTA-
1 ATGATTTAC
*
43953659 A-AATTTAC
1 ATGATTTAC
**
43953667 ATGAGATAC
1 ATGATTTAC
43953676 ATGATTTAC
1 ATGATTTAC
43953685 ATG
1 ATG
43953688 GATTGTTTGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
7 5 0.17
8 2 0.07
9 22 0.76
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (9 bp):
ATGATTTAC
Found at i:43953670 original size:25 final size:26
Alignment explanation
Indices: 43953633--43953683 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
43953623 GAATTGATAT
* **
43953633 AAATGTTATATGATTTACATGATTTA
1 AAATGTTACATGAGATACATGATTTA
43953659 AAAT-TTACATGAGATACATGATTTA
1 AAATGTTACATGAGATACATGATTTA
43953684 CATGGATTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (26 bp):
AAATGTTACATGAGATACATGATTTA
Found at i:43962313 original size:44 final size:45
Alignment explanation
Indices: 43962170--43962330 Score: 177
Period size: 44 Copynumber: 3.6 Consensus size: 45
43962160 TAATCCGCTC
* * * * *
43962170 CACTGCAACTTCA-AGGAGAT-ATGATTAGTAGCTTCAATCTGCTT
1 CACTGCAACTTCAGA-GAGATAAGGTTTGGTATCTTCAACCTGCTT
* * * * *
43962214 CACAGCAACTTCAGGGAGATAAGATTGGGTATCTTTAACCTGCTT
1 CACTGCAACTTCAGAGAGATAAGGTTTGGTATCTTCAACCTGCTT
*
43962259 CACTGCAACTTCAGAGAGATAAGGTTTGTTAT-TTCAACCTGC-T
1 CACTGCAACTTCAGAGAGATAAGGTTTGGTATCTTCAACCTGCTT
43962302 CTACTGCAACTTCAGAGAGATAAGGTTTG
1 C-ACTGCAACTTCAGAGAGATAAGGTTTG
43962331 ATATGATTTG
Statistics
Matches: 98, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.02
44 53 0.54
45 43 0.44
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (45 bp):
CACTGCAACTTCAGAGAGATAAGGTTTGGTATCTTCAACCTGCTT
Found at i:43962355 original size:41 final size:43
Alignment explanation
Indices: 43962218--43962366 Score: 142
Period size: 44 Copynumber: 3.4 Consensus size: 43
43962208 CTGCTTCACA
* * * * *
43962218 GCAACTTCAGGGAGATAAGATTGGGTATCTTTAACCTGCT-TCACT
1 GCAACTTCAGAGAGATAAGGTT-TGTAT-ATCAACCTGCTCT-ACT
*
43962263 GCAACTTCAGAGAGATAAGGTTTGTTATTTCAACCTGCTCTACT
1 GCAACTTCAGAGAGATAAGGTTTG-TATATCAACCTGCTCTACT
* **
43962307 GCAACTTCAGAGAGATAAGGTTTG-ATAT-GATTTGCTCTACT
1 GCAACTTCAGAGAGATAAGGTTTGTATATCAACCTGCTCTACT
* *
43962348 GCAACTTCAAAAAGATAAG
1 GCAACTTCAGAGAGATAAG
43962367 ATCAGTAATT
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
41 27 0.29
42 3 0.03
44 38 0.41
45 24 0.26
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (43 bp):
GCAACTTCAGAGAGATAAGGTTTGTATATCAACCTGCTCTACT
Found at i:43962469 original size:50 final size:50
Alignment explanation
Indices: 43962409--43963439 Score: 280
Period size: 50 Copynumber: 20.9 Consensus size: 50
43962399 GTACCGGCAG
43962409 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
** * * * ** ** ** *
43962459 GGAAACAAGATTCACCGTCGTAGCTTCAATCTATTCCACTATACCG-CCA
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * *
43962508 GGGAAGTAAGATTTG-TCGTAGTAGCTTTAATCTATTTAACTGCAATGTCGG
1 -GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
** * * * ** * * *
43962559 GGAAACAAGATTCG-TCGTCGTAGCTTTAATCTGTTCCACTGTACTG-CCA
1 GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * *
43962608 GGGAAGTAAGATTCACCGTTGTGGCTTC-A---A-TT-A-T--AATGTCGG
1 -GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * ** ** *
43962650 GGAAGCAAGATTTG-TCGTTGTAGTTTCAATCTATTCCACTGCACCGCCTG-
1 GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTC-GA
* * * *
43962700 GGAAGTAAGATTCG-TCGTTGTGGCTTCAATCTTTTTAATTGTAATGTCG-
1 GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * * * *
43962749 GAGAAGTAAGATTTGCTGTTGTAGCTTCAATATGATCT-ACTGCACT-ACCA
1 G-GAAGTAAGATTCGCTGTTGTAGCTTCAATCT-ATTTAACTGCAATGTCGA
* * * * * * *
43962799 GGGAAGTAAGATTCACCGTTGTGGCTTCAACCTTTTTAATTGCAATGTCGG
1 -GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * * *
43962850 GGAAGCAATATTCACCGTTGTAGCTTCAATCTATTCT-ACTG---T-AC-A
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT-TAACTGCAATGTCGA
* *
43962895 GGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACTACAATGTCG-
1 GG-AAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
** * ** ** *** *
43962945 GGAAAACAAGATTAG-TCGTTGTAGCTTCAATCTGCTCCACTGC-ACCACCA
1 GG-AAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * * * * *
43962995 GAAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG
1 G-GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * * ** ** *
43963046 GGAAGCAAGATTC-ATCGTTATAGCTTCAATCTGTTCCACTGCACCG-CCA
1 GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
** * * * * * * *
43963095 GAGAAGTAAGATTTACTATTATAGATTCAATCTTTTTAATTGTAATGTCGG
1 G-GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * ** ** * *** *
43963146 GGAAGTAAGATTAGCCGTTGTAGCTTTAATCTGCTCCACTG-TACCACCA
1 GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * * * *
43963195 GGGAAGTAAGATTCACAGTTGTGGCTTCAATCTTTTTAATTGCAAAGTC-A
1 -GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * ** * ** * * *
43963245 GCAAAGCAAGATTCGCCATTGTAGTTTCAATCTGCTTCACTGCACTG-CCA
1 G-GAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* ** * * * *
43963295 GGGAAGTAAAATTCAATGTTATAGCTTCAATCTTTTTAATTGCAATGTCGG
1 -GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* * * * * * ** * ** *
43963346 GGGAGCAAGATTC-ATAATTGTAGCTTCAATTTGTTCCACTACACCG-CTA
1 GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
* *
43963395 GGGAAGTAAGATTCG-TCGTTGTGGCTTCAATCTTTTTAACTGCAA
1 -GGAAGTAAGATTCGCT-GTTGTAGCTTCAATCTATTTAACTGCAA
43963440 CCTCAGGGGT
Statistics
Matches: 677, Mismatches: 254, Indels: 100
0.66 0.25 0.10
Matches are distributed among these distances:
41 23 0.03
42 2 0.00
43 1 0.00
44 1 0.00
45 5 0.01
46 33 0.05
47 2 0.00
48 1 0.00
49 22 0.03
50 569 0.84
51 18 0.03
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (50 bp):
GGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATTTAACTGCAATGTCGA
Found at i:43962519 original size:100 final size:100
Alignment explanation
Indices: 43962379--43963439 Score: 1017
Period size: 100 Copynumber: 10.7 Consensus size: 100
43962369 CAGTAATTTA
* * * * * * *
43962379 TAGCTTTAATATGTTCCACTGTACCGGCAGGGAAGTAAGATTCGCTGTTGTAGCTTCAATCTATT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
* * * *
43962444 TAACTGCAATGTCGAGGAAACAAGATTCACCGTCG
66 TAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* ** ** * * * *
43962479 TAGCTTCAATCTATTCCACTATACCGCCAGGGAAGTAAGATT-TGTCGTAGTAGCTTTAATCTAT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACT-GTTGTGGCTTCAATCTTT
* * ** *
43962543 TTAACTGCAATGTCGGGGAAACAAGATTCGTCGTCG
65 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * *
43962579 TAGCTTTAATCTGTTCCACTGTACTGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAA-----T
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
***
43962639 T-A-T--AATGTCGGGGAAGCAAGATTTGTCGTTG
66 TAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * *
43962670 TAGTTTCAATCTATTCCACTGCACCGCCTGGGAAGTAAGATTC-GTCGTTGTGGCTTCAATCTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACT-GTTGTGGCTTCAATCTTT
* * * ** *
43962734 TTAATTGTAATGTCGGAGAAGTAAGATTTGCTGTTG
65 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * ** * *
43962770 TAGCTTCAATATGATCTACTGCACTACCAGGGAAGTAAGATTCACCGTTGTGGCTTCAACCTTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
*
43962835 TAATTGCAATGTCGGGGAAGCAATATTCACCGTTG
66 TAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * * * *
43962870 TAGCTTCAATCTATTCTACTGTA----CAGGAAAGTAAGATTCGCTGTTGTAGCTTCAATCTTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
* * * * *
43962931 TAACTACAATGTCGGGAAAACAAGATT-AGTCGTTG
66 TAATTGCAATGTCGGGGAAGCAAGATTCA-CCGTTG
* * ** *
43962966 TAGCTTCAATCTGCTCCACTGCACCACCAGAAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
* *
43963031 TAATTGCAATGTCGGGGAAGCAAGATTCATCGTTA
66 TAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * * * *
43963066 TAGCTTCAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTTACTATTATAGATTCAATCTTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
* *
43963131 TAATTGTAATGTCGGGGAAGTAAGATT-AGCCGTTG
66 TAATTGCAATGTCGGGGAAGCAAGATTCA-CCGTTG
* * * * *
43963166 TAGCTTTAATCTGCTCCACTGTACCACCAGGGAAGTAAGATTCACAGTTGTGGCTTCAATCTTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
* * ** * *
43963231 TAATTGCAAAGTCAGCAAAGCAAGATTCGCCATTG
66 TAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * * * *
43963266 TAGTTTCAATCTGCTT-CACTGCACTGCCAGGGAAGTAAAATTCAATGTTATAGCTTCAATCTTT
1 TAGCTTCAATCTG-TTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTT
* ***
43963330 TTAATTGCAATGTCGGGGGAGCAAGATTCATAATTG
65 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
* * * *
43963366 TAGCTTCAATTTGTTCCACTACACCGCTAGGGAAGTAAGATTC-GTCGTTGTGGCTTCAATCTTT
1 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACT-GTTGTGGCTTCAATCTTT
*
43963430 TTAACTGCAA
65 TTAATTGCAA
43963440 CCTCAGGGGT
Statistics
Matches: 793, Mismatches: 144, Indels: 48
0.81 0.15 0.05
Matches are distributed among these distances:
91 75 0.09
93 1 0.00
94 1 0.00
95 3 0.00
96 81 0.10
97 1 0.00
98 1 0.00
99 5 0.01
100 623 0.79
101 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (100 bp):
TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTT
TAATTGCAATGTCGGGGAAGCAAGATTCACCGTTG
Found at i:43962770 original size:141 final size:141
Alignment explanation
Indices: 43962508--43962779 Score: 305
Period size: 141 Copynumber: 1.9 Consensus size: 141
43962498 TATACCGCCA
* * * *
43962508 GGGAAGTAAGATTTGTCGTAGTAGCTTTAATCTATTTAACTGCAATGTCGGGGAAACAAGATTCG
1 GGGAAGCAAGATTTGTCGTAGTAGCTTTAATCTATTCAACTGCAACGCCGGGGAAACAAGATTCG
* * * *
43962573 TCGTCGTAGCTTTAATCTGTTCCACTGTACTGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAA
66 TCGTCGTAGCTTCAATCTGTTCAACTGTAATGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAA
43962638 TTATAATGTCG
131 TTATAATGTCG
* * * * **
43962649 GGGAAGCAAGATTTGTCGTTGTAG-TTTCAATCTATTCCACTGCACCGCCTGGGAAGTAAGATTC
1 GGGAAGCAAGATTTGTCGTAGTAGCTTT-AATCTATTCAACTGCAACGCCGGGGAAACAAGATTC
* * * * * * ** *
43962713 GTCGTTGTGGCTTCAATCTTTTTAATTGTAATGTC-GGAGAAGTAAGATTTGCTGTTGTAGCTTC
65 GTCGTCGTAGCTTCAATCTGTTCAACTGTAATGCCAGG-GAAGTAAGATTCACCGTTGTAGCTTC
43962777 AAT
129 AAT
43962780 ATGATCTACT
Statistics
Matches: 106, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
140 5 0.05
141 101 0.95
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (141 bp):
GGGAAGCAAGATTTGTCGTAGTAGCTTTAATCTATTCAACTGCAACGCCGGGGAAACAAGATTCG
TCGTCGTAGCTTCAATCTGTTCAACTGTAATGCCAGGGAAGTAAGATTCACCGTTGTAGCTTCAA
TTATAATGTCG
Found at i:43965614 original size:27 final size:27
Alignment explanation
Indices: 43965584--43965761 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
43965574 ATATTGAGCC
* * *
43965584 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
43965611 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
43965638 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
43965666 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
43965693 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
43965720 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
43965747 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43965762 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:43965677 original size:55 final size:55
Alignment explanation
Indices: 43965584--43965761 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
43965574 ATATTGAGCC
* * *
43965584 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
43965638 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
43965693 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
43965747 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43965762 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:43965723 original size:82 final size:81
Alignment explanation
Indices: 43965605--43965760 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
43965595 TGCTATACAA
* * *
43965605 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
43965670 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
43965687 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
43965751 CACTTAGTGC
65 CACTTAGTGC
43965761 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:43967598 original size:8 final size:9
Alignment explanation
Indices: 43967582--43967648 Score: 86
Period size: 9 Copynumber: 7.8 Consensus size: 9
43967572 CTCCTTTCAT
43967582 TTCTTTTTC
1 TTCTTTTTC
43967591 TT-TTTTTC
1 TTCTTTTTC
43967599 TTCTTTTTC
1 TTCTTTTTC
43967608 TTCTTTTTC
1 TTCTTTTTC
*
43967617 TTCTTTTTT
1 TTCTTTTTC
*
43967626 TTATTTTT-
1 TTCTTTTTC
*
43967634 TTATTTTT-
1 TTCTTTTTC
43967642 TTCTTTT
1 TTCTTTT
43967649 CTTTTTGTAG
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
8 22 0.41
9 32 0.59
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:43967604 original size:17 final size:16
Alignment explanation
Indices: 43967582--43967651 Score: 77
Period size: 17 Copynumber: 4.1 Consensus size: 16
43967572 CTCCTTTCAT
43967582 TTCTTTTTCTTTTTTTC
1 TTCTTTTT-TTTTTTTC
43967599 TTCTTTTTCTTCTTTTTC
1 TTCTTTTT-TT-TTTTTC
*
43967617 TTCTTTTTTTTATTTTT
1 TTCTTTTTTTT-TTTTC
* *
43967634 TTATTTTTTTCTTTTC
1 TTCTTTTTTTTTTTTC
43967650 TT
1 TT
43967652 TTTGTAGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
16 7 0.15
17 26 0.55
18 14 0.30
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (16 bp):
TTCTTTTTTTTTTTTC
Found at i:43967653 original size:18 final size:17
Alignment explanation
Indices: 43967585--43967654 Score: 63
Period size: 16 Copynumber: 4.2 Consensus size: 17
43967575 CTTTCATTTC
*
43967585 TTTTTCTTT-TTTTCTT
1 TTTTTTTTTCTTTTCTT
* *
43967601 CTTTTTCTTCTTTTTCTT
1 TTTTTTTTTC-TTTTCTT
* *
43967619 CTTTTTTTTATTTT-TT
1 TTTTTTTTTCTTTTCTT
*
43967635 TATTTTTTTCTTTTCTT
1 TTTTTTTTTCTTTTCTT
43967652 TTT
1 TTT
43967655 GTAGAATATT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
16 19 0.45
17 8 0.19
18 15 0.36
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTCTTTTCTT
Found at i:43975951 original size:23 final size:23
Alignment explanation
Indices: 43975925--43976006 Score: 128
Period size: 23 Copynumber: 3.6 Consensus size: 23
43975915 CAGCTCGTAT
43975925 GAGCTTACCGTTTCAACTCTATG
1 GAGCTTACCGTTTCAACTCTATG
*
43975948 GAGCTTACCGTTTCAGCTCTATG
1 GAGCTTACCGTTTCAACTCTATG
* * *
43975971 GAACTTACCGTTTCAACTCGATA
1 GAGCTTACCGTTTCAACTCTATG
43975994 GAGCTTACCGTTT
1 GAGCTTACCGTTT
43976007 ATCAGCTCGG
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.34
Consensus pattern (23 bp):
GAGCTTACCGTTTCAACTCTATG
Found at i:43975982 original size:46 final size:46
Alignment explanation
Indices: 43975915--43976015 Score: 141
Period size: 46 Copynumber: 2.2 Consensus size: 46
43975905 GGACTCACCA
* * *
43975915 CAGCTCGTATGAGCTTACCGTTTCAACTCTATGGAGCTTACCGTTT
1 CAGCTCGTATGAACTTACCGTTTCAACTCGATAGAGCTTACCGTTT
43975961 CAGCTC-TATGGAACTTACCGTTTCAACTCGATAGAGCTTACCGTTTAT
1 CAGCTCGTAT-GAACTTACCGTTTCAACTCGATAGAGCTTACCG-TT-T
43976009 CAGCTCG
1 CAGCTCG
43976016 GAATAAGCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
45 3 0.06
46 36 0.75
47 2 0.04
48 7 0.15
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (46 bp):
CAGCTCGTATGAACTTACCGTTTCAACTCGATAGAGCTTACCGTTT
Found at i:43976227 original size:20 final size:20
Alignment explanation
Indices: 43976189--43976227 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43976179 TATGGATGAA
* *
43976189 TTACCGTTGATATGTATAAG
1 TTACCGTTGATACGGATAAG
*
43976209 TTACGGTTGATACGGATAA
1 TTACCGTTGATACGGATAA
43976228 ATTTCTGTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (20 bp):
TTACCGTTGATACGGATAAG
Found at i:43980843 original size:28 final size:28
Alignment explanation
Indices: 43980812--43980869 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
43980802 ATTAAATTTA
*
43980812 ATCAATTTAATATTAAATTTAATCTAAT
1 ATCAATTTAATATTAAATTAAATCTAAT
* *
43980840 ATCAATTTAATATTAGATTAAATTTAAT
1 ATCAATTTAATATTAAATTAAATCTAAT
43980868 AT
1 AT
43980870 TAAATCTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (28 bp):
ATCAATTTAATATTAAATTAAATCTAAT
Found at i:43983672 original size:44 final size:42
Alignment explanation
Indices: 43983601--43983714 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 42
43983591 AATGTGACAT
* * * *
43983601 CGTGTAAGACCACATCTAGGACGTTGGCCTCAATTTGA-GATTTA
1 CGTGTAAGACCATATCTGGGACATTGGCCT-AATAT-ATGA-TTA
* *
43983645 CGTGTAAGACCATATCTGGGACATTGGCGTAGTATATGATTA
1 CGTGTAAGACCATATCTGGGACATTGGCCTAATATATGATTA
* * *
43983687 CGTGTAAGACCCTGTCTGGGACAGTGGC
1 CGTGTAAGACCATATCTGGGACATTGGC
43983715 ATCGTTGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 29 0.48
43 5 0.08
44 26 0.43
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGACATTGGCCTAATATATGATTA
Found at i:43983705 original size:42 final size:43
Alignment explanation
Indices: 43983642--43983756 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
43983632 AATTTGAGAT
* *
43983642 TTACGTGTAAGACCATATCTGGGACATTGGCGTAG-TATATGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATAGTTATATGA
* * * * *
43983684 TTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGTTGTTTGA
1 TTACGTGTAAGACCATGTCTGGGACATTGGCATAGTTATATGA
* * *
43983727 TTACATGAAAGACCATGTCTGGGACGTTGG
1 TTACGTGTAAGACCATGTCTGGGACATTGG
43983757 TATTGTATGA
Statistics
Matches: 60, Mismatches: 12, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
42 30 0.50
43 30 0.50
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (43 bp):
TTACGTGTAAGACCATGTCTGGGACATTGGCATAGTTATATGA
Found at i:43984572 original size:22 final size:22
Alignment explanation
Indices: 43984538--43984865 Score: 359
Period size: 22 Copynumber: 14.9 Consensus size: 22
43984528 AAGTAAAAAT
43984538 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * *
43984560 TATTGATTGAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
**
43984582 TGTTGATTAAATACTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* *
43984604 TGTTGATTTAATGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
43984626 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * * * * *
43984648 TATTGATTGAATGCTATCCTAT
1 TGTTGATTAAATGTTGTCCAAA
*
43984670 TTTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * *
43984692 TGTTGATTTAGTGTTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
*
43984714 TGTTGATTAAATGCTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * * * *
43984736 TATTGATTGAATGATGCCCAAT
1 TGTTGATTAAATGTTGTCCAAA
* **
43984758 TGTTGATTAAATGCTGTCCAGT
1 TGTTGATTAAATGTTGTCCAAA
*
43984780 TGTTGATTAAAAGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* * * *
43984802 TATTGATTGAATGCTGTCCAAT
1 TGTTGATTAAATGTTGTCCAAA
43984824 TGTTGATTAAATGTTGTCCAAA
1 TGTTGATTAAATGTTGTCCAAA
* *
43984846 TGTTGTTTAAATGCTGTCCA
1 TGTTGATTAAATGTTGTCCA
43984866 TTTTTTAGCA
Statistics
Matches: 247, Mismatches: 59, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 247 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (22 bp):
TGTTGATTAAATGTTGTCCAAA
Found at i:43984586 original size:44 final size:44
Alignment explanation
Indices: 43984535--43984865 Score: 419
Period size: 44 Copynumber: 7.5 Consensus size: 44
43984525 TTGAAGTAAA
* *
43984535 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* *
43984579 AATTGTTGATTAAATACTGTCCAAATGTTGATTTAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * *
43984623 AATTGTTGATTAAATGTTGTCCAAATATTGATTGAATGCTATCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * * *
43984667 TATTTTTGATTAAATGTTGTCCAAATGTTGATTTAGTGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * *
43984711 AATTGTTGATTAAATGCTGTCCAAATATTGATTGAATGATGCCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
** * *
43984755 AATTGTTGATTAAATGCTGTCCAGTTGTTGATTAAAAGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* * * * *
43984799 AAATATTGATTGAATGCTGTCCAATTGTTGATTAAATGTTGTCC
1 AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
* *
43984843 AAATGTTGTTTAAATGCTGTCCA
1 AATTGTTGATTAAATGCTGTCCA
43984866 TTTTTTAGCA
Statistics
Matches: 247, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 247 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (44 bp):
AATTGTTGATTAAATGCTGTCCAAATGTTGATTGAATGTTGTCC
Found at i:43984895 original size:47 final size:47
Alignment explanation
Indices: 43984833--43984940 Score: 153
Period size: 47 Copynumber: 2.3 Consensus size: 47
43984823 TTGTTGATTA
* *
43984833 AATGTTGTCCAAATGTTGTTTAAATGCTGTCCATTTTTTAGCATACT
1 AATGTTGTCCGAATGTTGGTTAAATGCTGTCCATTTTTTAGCATACT
* * * * *
43984880 GATGTTGTTCGAATGTTGGTTAAATGCTGTTCGTTTTTTAGCATATT
1 AATGTTGTCCGAATGTTGGTTAAATGCTGTCCATTTTTTAGCATACT
43984927 AATGTTGTCCGAAT
1 AATGTTGTCCGAAT
43984941 TAATTCTCAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 52 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.45
Consensus pattern (47 bp):
AATGTTGTCCGAATGTTGGTTAAATGCTGTCCATTTTTTAGCATACT
Found at i:43986766 original size:43 final size:43
Alignment explanation
Indices: 43986693--43986962 Score: 285
Period size: 42 Copynumber: 6.3 Consensus size: 43
43986683 ACGTCGCTAA
* *
43986693 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTTA-GGAAAAAAACGCCGCTAAAGGTCATGTT
* * *
43986737 CTTTAGTGGCGCTTAGGAAAAAAACGCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * * *
43986780 CTTTAGTGGCGCTTAGGAAAAAAACTCCGCTAATGATCATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * * * *
43986823 CTTTAGCGGCGCTTTGG-AAAAAACGCTGCTAAATGACATGAT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * * * *
43986865 CTTTAGCGACGTTTAGG-AAAAAACACCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
* * * * *
43986907 CTATAGCGGCGCTT-GGTAAAAAATGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
*
43986949 CTTTAGCAGCGCTT
1 CTTTAGCGGCGCTT
43986963 CATCTACAAA
Statistics
Matches: 194, Mismatches: 31, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
41 2 0.01
42 97 0.50
43 82 0.42
44 13 0.07
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTAGGAAAAAAACGCCGCTAAAGGTCATGTT
Found at i:43986992 original size:43 final size:42
Alignment explanation
Indices: 43986693--43987005 Score: 170
Period size: 43 Copynumber: 7.3 Consensus size: 42
43986683 ACGTCGCTAA
* * * * *
43986693 CTTTTGCGGCGCTTACAGAAAAAAACGCCGCTAAAGGTCATGTT
1 CTTTAGCGGCGCTT-CA-TAAAAAACACCGCTAAAAGTAATGTT
* * * * *
43986737 CTTTAGTGGCGCTT-AGGAAAAAAACGCCGCT-AATGATCATGTT
1 CTTTAGCGGCGCTTCA--TAAAAAACACCGCTAAAAG-TAATGTT
* * * * *
43986780 CTTTAGTGGCGCTT-AGGAAAAAAACTCCGCT-AATGATCATGTT
1 CTTTAGCGGCGCTTCA--TAAAAAACACCGCTAAAAG-TAATGTT
*** * * * *
43986823 CTTTAGCGGCGCTTTGGAAAAAACGCTGCTAAATG-ACATGAT
1 CTTTAGCGGCGCTTCATAAAAAACACCGCTAAAAGTA-ATGTT
* * *
43986865 CTTTAGCGACG-TTTAGGAAAAAACACCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTCA-TAAAAAACACCGCTAAAAGTAATGTT
* ** **
43986907 CTATAGCGGCGCTTGGTAAAAAATGCCGCTAAAAGTAATGTT
1 CTTTAGCGGCGCTTCATAAAAAACACCGCTAAAAGTAATGTT
* * * *
43986949 CTTTAGCAGCGCTTCATCTACAAACACCGCTAAAAGTAGTGTT
1 CTTTAGCGGCGCTTCAT-AAAAAACACCGCTAAAAGTAATGTT
*
43986992 CTTTCGCGGCGCTT
1 CTTTAGCGGCGCTT
43987006 ATTTCACAAA
Statistics
Matches: 225, Mismatches: 35, Indels: 19
0.81 0.13 0.07
Matches are distributed among these distances:
41 3 0.01
42 94 0.42
43 116 0.52
44 12 0.05
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTCATAAAAAACACCGCTAAAAGTAATGTT
Found at i:43987459 original size:12 final size:12
Alignment explanation
Indices: 43987442--43987469 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
43987432 TTTTGAACCT
43987442 CTGCTTCTCTCG
1 CTGCTTCTCTCG
43987454 CTGCTTCTCTCG
1 CTGCTTCTCTCG
43987466 CTGC
1 CTGC
43987470 GACCTCTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.43, G:0.18, T:0.39
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:43987478 original size:21 final size:21
Alignment explanation
Indices: 43987454--43987519 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 21
43987444 GCTTCTCTCG
43987454 CTGCTTCTCTCGCTGCGACCT
1 CTGCTTCTCTCGCTGCGACCT
*
43987475 CTGCTTCTCTCGTTGC-AGCCT
1 CTGCTTCTCTCGCTGCGA-CCT
*
43987496 CTGCTTCCCTCGCTGCCG-CCT
1 CTGCTTCTCTCGCTG-CGACCT
43987517 CTG
1 CTG
43987520 TTTTAAGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
20 1 0.03
21 37 0.95
22 1 0.03
ACGTcount: A:0.03, C:0.44, G:0.20, T:0.33
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCGACCT
Found at i:43988909 original size:41 final size:41
Alignment explanation
Indices: 43988858--43989044 Score: 182
Period size: 41 Copynumber: 4.6 Consensus size: 41
43988848 TTTAAACAGA
* * ** *
43988858 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTAATTCAG
* *
43988899 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * * *
43988940 TTCACCAGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
* * * *
43988981 CTCACCGGCACTTAGCCTGCT-GGACGTATAGTCC-GATTCAA
1 TTCACCGGCACTTAGCCTGCTAGG-CTTATAG-CCTAATTCAG
*
43989022 TTCACCGACACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
43989045 ACGTATAGTC
Statistics
Matches: 125, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 3 0.02
41 119 0.95
42 3 0.02
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.29
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTAATTCAG
Found at i:43989067 original size:41 final size:41
Alignment explanation
Indices: 43988899--43989057 Score: 187
Period size: 41 Copynumber: 3.9 Consensus size: 41
43988889 TTTAATTCCG
* * * *
43988899 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGACACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* * *
43988940 TTCACC-AGCACTTAGCCTGCTAGGCTTGTAGCCTGATTCAA
1 TTCACCGA-CACTTAGCCTGCTAGACGTATAGCCTGATTCAA
* * *
43988981 CTCACCGGCACTTAGCCTGCTGGACGTATAGTCC-GATTCAA
1 TTCACCGACACTTAGCCTGCTAGACGTATAG-CCTGATTCAA
*
43989022 TTCACCGACACTTAGCCTGCTAGACGTATAGTCTGA
1 TTCACCGACACTTAGCCTGCTAGACGTATAGCCTGA
43989058 ATAATTTCAC
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.01
41 97 0.97
42 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (41 bp):
TTCACCGACACTTAGCCTGCTAGACGTATAGCCTGATTCAA
Found at i:43992046 original size:7 final size:7
Alignment explanation
Indices: 43992034--43992062 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
43992024 NNNNNNNGGG
43992034 GAAGAAA
1 GAAGAAA
43992041 GAAGAAA
1 GAAGAAA
43992048 GAAGAAA
1 GAAGAAA
43992055 GAAGAAA
1 GAAGAAA
43992062 G
1 G
43992063 GATCTTTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (7 bp):
GAAGAAA
Found at i:44001305 original size:20 final size:20
Alignment explanation
Indices: 44001276--44001330 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
44001266 ACTAGGAAGG
*
44001276 GGTATTGATAATTTTTTAAA
1 GGTATTGATACTTTTTTAAA
* * *
44001296 GGTATCGATACTTTGTTAAG
1 GGTATTGATACTTTTTTAAA
44001316 GGTATTGATACTTTT
1 GGTATTGATACTTTT
44001331 GATTTTTGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.47
Consensus pattern (20 bp):
GGTATTGATACTTTTTTAAA
Found at i:44001420 original size:20 final size:20
Alignment explanation
Indices: 44001397--44001443 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
44001387 ATGGGTATCA
44001397 ATACTTTGA-AGAAGGTATTG
1 ATACTTTGATA-AAGGTATTG
* *
44001417 ATACTTTTATAAGGGTATTG
1 ATACTTTGATAAAGGTATTG
44001437 ATACTTT
1 ATACTTT
44001444 TGATTTTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.43
Consensus pattern (20 bp):
ATACTTTGATAAAGGTATTG
Found at i:44001477 original size:114 final size:113
Alignment explanation
Indices: 44001294--44001554 Score: 292
Period size: 114 Copynumber: 2.3 Consensus size: 113
44001284 TAATTTTTTA
* *
44001294 AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGTTCAATTTTCCAAAACATCG
1 AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCAAAACATCA
*
44001359 AAGCTCAAATTGGTATCAATACCAGGTCATGGGTATCAATACTTTGAAG
66 AAGCTCAAATTGGTATCAATACCAAG-CATGGGTATCAATACTTTGAAG
* * * * * *
44001408 AAGGTATTGATACTTT-TATAAGGGTATTGATACTTTTGATTTTTGCTCTATTTT-TATGATCTT
1 AAGGTATCGATACTTTGT-TAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCA-AAACAT
** ** * ***
44001471 CAAAGCTCATTTTGGTATCAATACCAAGCATGGGTATGGATACTTGGTTC
64 CAAAGCTCAAATTGGTATCAATACCAAGCATGGGTATCAATACTTTGAAG
* * * *
44001521 AAGGTATCGATACCTTATTGAGGGTATCGATACT
1 AAGGTATCGATACTTTGTTAAGGGTATTGATACT
44001555 ATGGTCCTTA
Statistics
Matches: 123, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
113 46 0.37
114 77 0.63
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.39
Consensus pattern (113 bp):
AAGGTATCGATACTTTGTTAAGGGTATTGATACTTTTGATTTTTGCTCAATTTTCCAAAACATCA
AAGCTCAAATTGGTATCAATACCAAGCATGGGTATCAATACTTTGAAG
Found at i:44005979 original size:19 final size:21
Alignment explanation
Indices: 44005955--44005996 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44005945 GTTCTAGCCA
*
44005955 TTTCTTCT-AA-AGTTCTATT
1 TTTCTTCTCAACAGCTCTATT
44005974 TTTCTTCTCAACAGCTCTATT
1 TTTCTTCTCAACAGCTCTATT
44005995 TT
1 TT
44005997 GTTGAGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 2 0.10
21 10 0.50
ACGTcount: A:0.19, C:0.21, G:0.05, T:0.55
Consensus pattern (21 bp):
TTTCTTCTCAACAGCTCTATT
Found at i:44008092 original size:40 final size:40
Alignment explanation
Indices: 44008019--44008095 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
44008009 AACACATCAG
* * **
44008019 TTTGGCACCCAGTGCCTCATTGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
* *
44008059 TTTGACACCCAGTGTCTCATCGGTTAAACCGAAGTAA
1 TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAA
44008096 ATTGGCACCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAAACCGAAGTAATAA
Found at i:44008160 original size:42 final size:42
Alignment explanation
Indices: 44008044--44008160 Score: 109
Period size: 42 Copynumber: 2.9 Consensus size: 42
44008034 CTCATTGGAT
* * * *
44008044 AATTCGAAGTAATAATTTGACACCCAGTGTCTCATCG-GTTA
1 AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGAATTA
* * ** *
44008085 AA-CCG--A-AGTAAATTGGCACCCAGTACCTAATCGAATTA
1 AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGAATTA
*
44008123 AATTCGAAATAGTAAATTGACACCCAATGTCTCATCGA
1 AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGA
44008161 CTCGAAGTCG
Statistics
Matches: 56, Mismatches: 15, Indels: 9
0.70 0.19 0.11
Matches are distributed among these distances:
37 21 0.38
38 5 0.09
39 2 0.04
40 2 0.04
41 3 0.05
42 23 0.41
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (42 bp):
AATTCGAAATAGTAAATTGACACCCAGTGTCTCATCGAATTA
Found at i:44008302 original size:13 final size:13
Alignment explanation
Indices: 44008284--44008309 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44008274 TTCATTTCAT
44008284 TTCAATATATATA
1 TTCAATATATATA
44008297 TTCAATATATATA
1 TTCAATATATATA
44008310 CCAATTCAAT
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTCAATATATATA
Found at i:44008316 original size:17 final size:14
Alignment explanation
Indices: 44008284--44008336 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
44008274 TTCATTTCAT
*
44008284 TTCAAT-ATATATA
1 TTCAATAATATAAA
44008297 TTCAATATATATACCAA
1 TTCAATA-ATATA--AA
44008314 TTCAATCAATATAAA
1 TTCAAT-AATATAAA
44008329 TTCAATAA
1 TTCAATAA
44008337 ATTCATCACA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
13 6 0.18
14 2 0.06
15 13 0.38
17 12 0.35
18 1 0.03
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (14 bp):
TTCAATAATATAAA
Found at i:44008332 original size:15 final size:16
Alignment explanation
Indices: 44008285--44008334 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
44008275 TCATTTCATT
*
44008285 TCAATATATATATTCAA
1 TCAATATACA-ATTCAA
44008302 T-ATATATACCAATTCAA
1 TCA-ATATA-CAATTCAA
44008319 TCAATATA-AATTCAA
1 TCAATATACAATTCAA
44008334 T
1 T
44008335 AAATTCATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
15 8 0.28
16 1 0.03
17 18 0.62
18 2 0.07
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (16 bp):
TCAATATACAATTCAA
Found at i:44011965 original size:15 final size:15
Alignment explanation
Indices: 44011941--44011974 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
44011931 AACAATTACG
*
44011941 ATAATGCGAGCAAAA
1 ATAATACGAGCAAAA
44011956 ATAATACGAGCAAAA
1 ATAATACGAGCAAAA
44011971 ATAA
1 ATAA
44011975 CAAAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (15 bp):
ATAATACGAGCAAAA
Found at i:44013370 original size:40 final size:40
Alignment explanation
Indices: 44013326--44013477 Score: 173
Period size: 40 Copynumber: 3.8 Consensus size: 40
44013316 GTGTTTTTAG
*
44013326 TCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
*
44013366 TCTGCTCCACTACTACTTAGGGAGATAAGATCTATGG-TTTCG-
1 TCTGCTCCACTACTACTTAGGGAGATAAGA-C--TGGATGT-GA
* * ** *
44013408 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
* *
44013448 TCTACTCCACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTACTTAGGGAGATAAGA
44013478 TTGTAATCTT
Statistics
Matches: 96, Mismatches: 10, Indels: 12
0.81 0.08 0.10
Matches are distributed among these distances:
39 2 0.02
40 58 0.60
41 2 0.02
42 30 0.31
43 4 0.04
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (40 bp):
TCTGCTCCACTACTACTTAGGGAGATAAGACTGGATGTGA
Found at i:44013428 original size:82 final size:82
Alignment explanation
Indices: 44013325--44013478 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 82
44013315 TGTGTTTTTA
* * * *
44013325 GTCTGCTCCACTACTATTTAGGGAGATAAGACTGGATGTGATCTGCTCCACTACTACTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
44013390 ATAAGATCTATGGTTTC
66 ATAAGATCTATGGTTTC
* * * *
44013407 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTAATGCGATCTACTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
44013472 ATAAGAT
66 ATAAGAT
44013479 TGTAATCTTC
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
82 64 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (82 bp):
GTCTGCTCCACTACTACTTAGGGAGATAAGACTGAATGCGATCTACTCCACTACTACTTAGGGAG
ATAAGATCTATGGTTTC
Found at i:44013775 original size:137 final size:136
Alignment explanation
Indices: 44013603--44013850 Score: 424
Period size: 137 Copynumber: 1.8 Consensus size: 136
44013593 TTAGGGAGAT
* *
44013603 AAGATCTGTAATCCTCAATCTATTCCACTGTCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
1 AAGATCTGCAATCCTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
*
44013668 TACTCCACTGTAGTCACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACA
66 TACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATC-TTTGATCTGCTTCGCTGCCAAATACA
44013733 GGAAGGC
130 GGAAGGC
* * *
44013740 AAGATCTGCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATG
1 AAGATCTGCAATCCTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
*
44013805 TACTCCACTGTAGTCACATGGAGGTAAAATCTGCCATCTTTGATCT
66 TACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTTGATCT
44013851 TCAATCTATT
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
136 8 0.08
137 96 0.92
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.29
Consensus pattern (136 bp):
AAGATCTGCAATCCTCAATCTATTCCACTGCCAAATACAAGGAGATAGAGTTATCAGCTTCAATG
TACTCCACTGTAGTCACAGGGAGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAG
GAAGGC
Found at i:44013814 original size:45 final size:45
Alignment explanation
Indices: 44013752--44014143 Score: 134
Period size: 45 Copynumber: 8.4 Consensus size: 45
44013742 GATCTGCAAT
*
44013752 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * * *
44013797 CTTCAATGTACTCCACTG--TAGTCACATGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAGT-T---ATC---G-G
*
44013849 CTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * ** **
44013894 CTTCAATGTACTCCACTG--TAGTCACAGGGAGGTAAACTCTGCCAT
1 CTTCAATCTACTCCACTGCCAAAT-ACAGGGAGATAGAGT-TATCGG
** * * * * ** * * **
44013939 CTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCA-AGATCTGCAAT
1 C-TTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTAT-C-GG
* *
44013986 CTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
* * * * * * *
44014031 CTTCAATGTACTCCACTG--TAGT-CAGGGAGGTAAAATCTGCCATCTTTGAT
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGT-T---ATC---G-G
* *
44014081 CTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGG
1 CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
*
44014126 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
44014144 TAGTCAGGGA
Statistics
Matches: 242, Mismatches: 75, Indels: 60
0.64 0.20 0.16
Matches are distributed among these distances:
42 11 0.05
43 7 0.03
44 23 0.10
45 69 0.29
46 43 0.18
47 16 0.07
48 5 0.02
49 7 0.03
50 16 0.07
51 1 0.00
52 20 0.08
53 22 0.09
54 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCCAAATACAGGGAGATAGAGTTATCGG
Found at i:44013857 original size:97 final size:98
Alignment explanation
Indices: 44013750--44013948 Score: 373
Period size: 97 Copynumber: 2.0 Consensus size: 98
44013740 AAGATCTGCA
44013750 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
44013815 TAGTCACATGGAGGTAAAATCTGCCATC-TTTG
66 TAGTCACAGGGAGGTAAAATCTGCCATCTTTTG
44013847 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
44013912 TAGTCACAGGGAGGTAAACTCTGCCATCTTTTG
66 TAGTCACAGGGAGGTAAAATCTGCCATCTTTTG
44013945 ATCT
1 ATCT
44013949 GCTTCGCTGC
Statistics
Matches: 99, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 91 0.92
98 8 0.08
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (98 bp):
ATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCACAGGGAGGTAAAATCTGCCATCTTTTG
Found at i:44014026 original size:234 final size:232
Alignment explanation
Indices: 44013617--44014218 Score: 1084
Period size: 234 Copynumber: 2.6 Consensus size: 232
44013607 TCTGTAATCC
* * *
44013617 TCAATCTATTCCACTGTCAAATACAAGGAGATAGAGTTATCAGCTTCAATGTACTCCACTGTAGT
1 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
44013682 CACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 CACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
44013747 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
131 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
*
44013812 CTGTAGTCACATGGAGGTAAAATCTGCCATCTTTGATCT
196 CTGTAGT--CAGGGAGGTAAAATCTGCCATCTTTGATCT
44013851 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
1 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
44013916 CACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 CACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
*
44013981 GCAATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
131 GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
44014046 CTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
196 CTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
*
44014083 TCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
1 TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
* *
44014148 --CAGGGAGGTAAAATCTGTCATC-TTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
66 CACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
*
44014210 GTAATCTTC
131 GCAATCTTC
44014219 GATCCACTTC
Statistics
Matches: 359, Mismatches: 9, Indels: 5
0.96 0.02 0.01
Matches are distributed among these distances:
229 48 0.13
230 20 0.06
232 93 0.26
234 198 0.55
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (232 bp):
TCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTAGT
CACAGGGAGGTAAACTCTGCCATCTTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCT
GCAATCTTCAATCTATTCCACTGCCAAATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCA
CTGTAGTCAGGGAGGTAAAATCTGCCATCTTTGATCT
Found at i:44014089 original size:95 final size:95
Alignment explanation
Indices: 44013984--44014177 Score: 379
Period size: 95 Copynumber: 2.0 Consensus size: 95
44013974 AAGATCTGCA
44013984 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
44014049 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
44014079 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
1 ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
*
44014144 TAGTCAGGGAGGTAAAATCTGTCATCTTTG
66 TAGTCAGGGAGGTAAAATCTGCCATCTTTG
44014174 ATCT
1 ATCT
44014178 GCTTCGCTGC
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 98 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAAATGCAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTG
TAGTCAGGGAGGTAAAATCTGCCATCTTTG
Found at i:44014817 original size:108 final size:108
Alignment explanation
Indices: 44014628--44014823 Score: 320
Period size: 108 Copynumber: 1.8 Consensus size: 108
44014618 GAAAAATGCT
* *
44014628 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
44014693 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
* * * **
44014736 TGAAAAAGATTATCACAATAGATAAGATGAAAATTTGTTGAGAGCAAAGCTCTAAATGAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
*
44014801 TAATCAAGATAGCAAATTTTGCT
66 CAATCAAGATAGCAAATTTTGCT
44014824 AGAATACAAA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 80 1.00
ACGTcount: A:0.47, C:0.11, G:0.17, T:0.25
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATAGACAAAATGAAAATTTGTTGAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGATAGCAAATTTTGCTGAGATACGAGATGAATAAGA
Found at i:44015625 original size:11 final size:11
Alignment explanation
Indices: 44015609--44015665 Score: 60
Period size: 11 Copynumber: 5.0 Consensus size: 11
44015599 TCCTGGTAGA
44015609 GTTTTTTTTTT
1 GTTTTTTTTTT
*
44015620 GTTTTTGCTTTT
1 GTTTTT-TTTTT
*
44015632 GTTTTTTATTT
1 GTTTTTTTTTT
* *
44015643 GGTTTTTATTT
1 GTTTTTTTTTT
44015654 GTTCTTTTTTTT
1 GTT-TTTTTTTT
44015666 TGGCCTCCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
11 21 0.55
12 17 0.45
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.81
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:44017004 original size:62 final size:62
Alignment explanation
Indices: 44016900--44017083 Score: 314
Period size: 62 Copynumber: 3.0 Consensus size: 62
44016890 CTAAACTCGA
* * *
44016900 CGTACTTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTGATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
*
44016962 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATAAAATGTAATGTTAATGCATGAACG
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
* *
44017024 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGATATGTAATGTTAATGAATGAA
1 CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAA
44017084 GAGATACGTG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 115 1.00
ACGTcount: A:0.33, C:0.05, G:0.21, T:0.42
Consensus pattern (62 bp):
CGTATTTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTAATGCATGAACG
Found at i:44021146 original size:3 final size:3
Alignment explanation
Indices: 44021127--44021194 Score: 64
Period size: 3 Copynumber: 22.0 Consensus size: 3
44021117 AAGGAAAATA
* * * *
44021127 AAT AACT AAT AAAT AAT AAT AAT AAT AAT AAT AAC AAC AAC AAT AAA
1 AAT AA-T AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
44021174 AAT AAT AAT AAC AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT
44021195 CCAAAATTTG
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.66, C:0.07, G:0.01, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:44022494 original size:44 final size:44
Alignment explanation
Indices: 44022406--44022552 Score: 179
Period size: 44 Copynumber: 3.3 Consensus size: 44
44022396 TCATCATTTT
* * * * ** *
44022406 AATCCGCTCCACTTCAACTTCAGGGTGAT-AGGATTAATAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAAG-TTGGTATCTTC
44022450 AATCTGCTCCACTGCAACTTCAGGGAGATAAAGTTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAAGTTGGTATCTTC
* * *
44022494 AACCTGTTCCACTGCAACTTCAAGGAGATAAAGTTGGTATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAAGTTGGTATCTTC
*
44022538 AAGCTGCTCCACTGC
1 AATCTGCTCCACTGC
44022553 CGCTCAGGAA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
44 88 0.98
45 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAAGTTGGTATCTTC
Found at i:44022694 original size:44 final size:44
Alignment explanation
Indices: 44022641--44022777 Score: 109
Period size: 44 Copynumber: 3.4 Consensus size: 44
44022631 GCTCCGCTAC
*
44022641 TGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGT
1 TGCTCAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGT
* *****
44022685 TGCTCAGGGAGATAGGA-CTGGTGGCTT-AA---A---T-C---
1 TGCTCAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGT
*
44022717 TGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGT
1 TGCTCAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGT
*
44022761 TGCTCAGGGAGATAGGA
1 TGCTCAGGGAGACAGGA
44022778 CTGGTGGCTT
Statistics
Matches: 65, Mismatches: 16, Indels: 24
0.62 0.15 0.23
Matches are distributed among these distances:
32 15 0.23
33 5 0.08
34 2 0.03
35 1 0.02
36 1 0.02
37 1 0.02
39 1 0.02
40 1 0.02
41 1 0.02
42 2 0.03
43 5 0.08
44 30 0.46
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (44 bp):
TGCTCAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGT
Found at i:44022732 original size:76 final size:76
Alignment explanation
Indices: 44022640--44022797 Score: 316
Period size: 76 Copynumber: 2.1 Consensus size: 76
44022630 TGCTCCGCTA
44022640 CTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGACTG
1 CTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGACTG
44022705 GTGGCTTAAAT
66 GTGGCTTAAAT
44022716 CTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGACTG
1 CTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGACTG
44022781 GTGGCTTAAAT
66 GTGGCTTAAAT
44022792 CTGCTT
1 CTGCTT
44022798 CCCTACTACC
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 82 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (76 bp):
CTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGACTG
GTGGCTTAAAT
Found at i:44022953 original size:132 final size:132
Alignment explanation
Indices: 44022716--44022958 Score: 441
Period size: 132 Copynumber: 1.8 Consensus size: 132
44022706 TGGCTTAAAT
* *
44022716 CTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCTACTGTTGCTCAGGGAGATAGGACTG
1 CTGCTTAGAGAGACAGGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTG
* *
44022781 GTGGCTTAAATCTGCTTCCCTACTACCTTGAGAAGATAAGATTCACCGTCTTTGATTTGCTTCAC
66 GTGGCTTAAATCTACTTCCCTACTACCTTGAGAAAATAAGATTCACCGTCTTTGATTTGCTTCAC
44022846 TA
131 TA
44022848 CTGCTTAGAGAGACAGGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTG
1 CTGCTTAGAGAGACAGGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTG
*
44022913 GTGGCTTAAATCTACTTCCCTACTACCTTGGGAAAATAAGATTCAC
66 GTGGCTTAAATCTACTTCCCTACTACCTTGAGAAAATAAGATTCAC
44022959 TATCTTTAGC
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 106 1.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (132 bp):
CTGCTTAGAGAGACAGGATCTACAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTG
GTGGCTTAAATCTACTTCCCTACTACCTTGAGAAAATAAGATTCACCGTCTTTGATTTGCTTCAC
TA
Found at i:44024710 original size:17 final size:17
Alignment explanation
Indices: 44024688--44024724 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
44024678 TTGGCATCTC
*
44024688 CTTTTTCTTTTCCTTTT
1 CTTTTTCTTCTCCTTTT
*
44024705 CTTTTTCTTCTCTTTTT
1 CTTTTTCTTCTCCTTTT
44024722 CTT
1 CTT
44024725 CATTTTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
CTTTTTCTTCTCCTTTT
Found at i:44024730 original size:9 final size:9
Alignment explanation
Indices: 44024727--44024756 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
44024717 TTTTTCTTCA
44024727 TTTTCATTT
1 TTTTCATTT
44024736 TTTTCATTT
1 TTTTCATTT
44024745 TTTTCATTT
1 TTTTCATTT
44024754 TTT
1 TTT
44024757 GAAATATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTCATTT
Found at i:44024740 original size:18 final size:18
Alignment explanation
Indices: 44024717--44024756 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
44024707 TTTTCTTCTC
44024717 TTTTTC-TTCATTTTCATT
1 TTTTTCATT-ATTTTCATT
*
44024735 TTTTTCATTTTTTTCATT
1 TTTTTCATTATTTTCATT
44024753 TTTT
1 TTTT
44024757 GAAATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCATTATTTTCATT
Found at i:44024765 original size:12 final size:12
Alignment explanation
Indices: 44024750--44024797 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
44024740 CATTTTTTTC
44024750 ATTTTTTGAAAT
1 ATTTTTTGAAAT
**
44024762 ATTTTTTGATTTT
1 ATTTTTTGA-AAT
44024775 GATTTTTTTGAAAT
1 -A-TTTTTTGAAAT
44024789 ATTTTTTGA
1 ATTTTTTGA
44024798 TCGGATCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
12 17 0.59
13 2 0.07
14 2 0.07
15 8 0.28
ACGTcount: A:0.25, C:0.00, G:0.10, T:0.65
Consensus pattern (12 bp):
ATTTTTTGAAAT
Found at i:44024766 original size:27 final size:27
Alignment explanation
Indices: 44024745--44024798 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
44024735 TTTTTCATTT
44024745 TTTTCA-TTTTTTGAAATATTTTTTGA
1 TTTTCATTTTTTTGAAATATTTTTTGA
*
44024771 TTTTGATTTTTTTGAAATATTTTTTGA
1 TTTTCATTTTTTTGAAATATTTTTTGA
44024798 T
1 T
44024799 CGGATCTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.22, C:0.02, G:0.09, T:0.67
Consensus pattern (27 bp):
TTTTCATTTTTTTGAAATATTTTTTGA
Found at i:44029116 original size:3 final size:3
Alignment explanation
Indices: 44029108--44029155 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
44029098 ATAACGAATA
* * * *
44029108 AAT AAT AAT TAT AAT AAT AAT AAT AAC AAT AAT AAT AAC AAT GAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44029156 CCAAAATTTG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:44031008 original size:7 final size:7
Alignment explanation
Indices: 44030996--44031035 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
44030986 TACAATAACA
44030996 ATAAAAT
1 ATAAAAT
44031003 ATAAAAT
1 ATAAAAT
*
44031010 ACAAAAT
1 ATAAAAT
*
44031017 ACAAAAT
1 ATAAAAT
*
44031024 ATAAACT
1 ATAAAAT
44031031 ATAAA
1 ATAAA
44031036 TACCTTACTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (7 bp):
ATAAAAT
Found at i:44031569 original size:25 final size:25
Alignment explanation
Indices: 44031532--44031644 Score: 83
Period size: 25 Copynumber: 4.6 Consensus size: 25
44031522 TAAACAAATA
* *
44031532 AAAAAG-AAGAAAAAAGAAATAATG
1 AAAAAGAAATAAAAAATAAATAATG
44031556 AAAAAGAAATAAAAAATAAAT-A--
1 AAAAAGAAATAAAAAATAAATAATG
** *
44031578 AAGGAGAAATAAATAAATAAA-ACTG
1 AAAAAGAAATAAA-AAATAAATAATG
* * *
44031603 AAAAAGTAAATAAAAAACAAAAAAGG
1 AAAAAG-AAATAAAAAATAAATAATG
* *
44031629 ACAAATAAATAAAAAA
1 AAAAAGAAATAAAAAA
44031645 ATTAGAAAAA
Statistics
Matches: 70, Mismatches: 12, Indels: 13
0.74 0.13 0.14
Matches are distributed among these distances:
22 11 0.16
23 7 0.10
24 7 0.10
25 32 0.46
26 13 0.19
ACGTcount: A:0.75, C:0.03, G:0.11, T:0.12
Consensus pattern (25 bp):
AAAAAGAAATAAAAAATAAATAATG
Found at i:44031586 original size:36 final size:36
Alignment explanation
Indices: 44031546--44031684 Score: 92
Period size: 37 Copynumber: 3.8 Consensus size: 36
44031536 AGAAGAAAAA
44031546 AGAAATAATGAAAAAGAAAT-AAAAAATAAATAAAGG
1 AGAAATAATGAAAAA-AAATAAAAAAATAAATAAAGG
* * * **
44031582 AGAAATAAAT-AAATAAAACTGAAAAAGTAAATAAAAA
1 AGAAAT-AATGAAA-AAAAATAAAAAAATAAATAAAGG
* * * *
44031619 ACAAAAAAGGACAAATAAATAAAAAAATTAGAA-AAAGG
1 AGAAATAATGA-AAAAAAATAAAAAAA-TA-AATAAAGG
44031657 A-AAA-AATGAAAAACAAAT-AAAAAATAAA
1 AGAAATAATGAAAAA-AAATAAAAAAATAAA
44031685 GAAAAGGTTG
Statistics
Matches: 80, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
33 2 0.03
34 2 0.03
35 9 0.11
36 22 0.28
37 35 0.44
38 8 0.10
39 2 0.03
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (36 bp):
AGAAATAATGAAAAAAAATAAAAAAATAAATAAAGG
Found at i:44031605 original size:19 final size:18
Alignment explanation
Indices: 44031566--44031617 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
44031556 AAAAAGAAAT
**
44031566 AAAAAATAAATAAAGGAG
1 AAAAAATAAATAAAACAG
*
44031584 AAATAAATAAATAAAACTG
1 AAA-AAATAAATAAAACAG
*
44031603 AAAAAGTAAATAAAA
1 AAAAAATAAATAAAA
44031618 AACAAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.73, C:0.02, G:0.10, T:0.15
Consensus pattern (18 bp):
AAAAAATAAATAAAACAG
Found at i:44031607 original size:47 final size:46
Alignment explanation
Indices: 44031522--44031655 Score: 152
Period size: 47 Copynumber: 2.9 Consensus size: 46
44031512 AAAATATTAT
* *
44031522 TAAACAAATAAAAAAGAAGAAA-AAAGAAAT--AATGAAAAAG-AAA
1 TAAA-AAATAAAAAAGGAGAAATAAATAAATAAAATGAAAAAGTAAA
44031565 TAAAAAATAAATAAAGGAGAAATAAATAAATAAAACTGAAAAAGTAAA
1 TAAAAAATAAA-AAAGGAGAAATAAATAAATAAAA-TGAAAAAGTAAA
* *
44031613 TAAAAAACAAAAAAGGACAAATAAATAAA-AAAATTAGAAAAAG
1 TAAAAAATAAAAAAGGAGAAATAAATAAATAAAA-T-GAAAAAG
44031656 GAAAAAATGA
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
42 7 0.09
43 13 0.16
44 7 0.09
46 7 0.09
47 32 0.41
48 13 0.16
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (46 bp):
TAAAAAATAAAAAAGGAGAAATAAATAAATAAAATGAAAAAGTAAA
Found at i:44031688 original size:36 final size:36
Alignment explanation
Indices: 44031523--44031689 Score: 135
Period size: 36 Copynumber: 4.6 Consensus size: 36
44031513 AAATATTATT
* *
44031523 AAACAAATAAAAAA-GAAGAAAAAAGAAATAATGAA
1 AAACAAATAAAAAATAAAGAAAAAAGAAAAAATGAA
* * **
44031558 AAAGAAATAAAAAATAAATAAAGGAGAAATAAAT-AA
1 AAACAAATAAAAAATAAAGAAAAAAGAAA-AAATGAA
* * * * * *
44031594 ATAA-AACTGAAAAAGTAAATAAAAAACAAAAAAGGAC
1 A-AACAAAT-AAAAAATAAAGAAAAAAGAAAAAATGAA
* * *
44031631 AAATAAATAAAAAA-ATTAGAAAAAGGAAAAAATGAA
1 AAACAAATAAAAAATA-AAGAAAAAAGAAAAAATGAA
44031667 AAACAAATAAAAAATAAAGAAAA
1 AAACAAATAAAAAATAAAGAAAA
44031690 GGTTGTTGGA
Statistics
Matches: 101, Mismatches: 23, Indels: 15
0.73 0.17 0.11
Matches are distributed among these distances:
35 14 0.14
36 59 0.58
37 28 0.28
ACGTcount: A:0.75, C:0.03, G:0.10, T:0.11
Consensus pattern (36 bp):
AAACAAATAAAAAATAAAGAAAAAAGAAAAAATGAA
Found at i:44038936 original size:20 final size:22
Alignment explanation
Indices: 44038888--44038938 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
44038878 TAAATATGTA
*
44038888 AATATATATATGTTAACTATTG
1 AATATATATATGTTAACTAATG
* *
44038910 TACATATATATGTT-A-TAATG
1 AATATATATATGTTAACTAATG
44038930 AATATATAT
1 AATATATAT
44038939 TATAAAACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 11 0.46
21 1 0.04
22 12 0.50
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.45
Consensus pattern (22 bp):
AATATATATATGTTAACTAATG
Found at i:44042796 original size:19 final size:17
Alignment explanation
Indices: 44042772--44042827 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
44042762 AATTTTCAGA
44042772 AAAAATCAAAGTAATTTAT
1 AAAAATCAAA-T-ATTTAT
*
44042791 AAAAATTCCAATATTTAT
1 AAAAA-TCAAATATTTAT
44042809 AAAAATTCAACA-ATTTAT
1 AAAAA-TCAA-ATATTTAT
44042827 A
1 A
44042828 TTTTTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
18 22 0.67
19 7 0.21
20 4 0.12
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAAATCAAATATTTAT
Found at i:44042824 original size:18 final size:18
Alignment explanation
Indices: 44042784--44042827 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
44042774 AAATCAAAGT
44042784 AATTTATAAAAATTCCAA
1 AATTTATAAAAATTCCAA
*
44042802 TATTTATAAAAATT-CAA
1 AATTTATAAAAATTCCAA
44042819 CAATTTATA
1 -AATTTATA
44042828 TTTTTTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (18 bp):
AATTTATAAAAATTCCAA
Found at i:44044713 original size:22 final size:20
Alignment explanation
Indices: 44044677--44044735 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
44044667 GGCCCGACCC
44044677 ATTT-TTTTAATAAATACCAAAA
1 ATTTATTTTAA-AAATA--AAAA
44044699 ATTTATTTTAAAAATTAAAAA
1 ATTTATTTTAAAAA-TAAAAA
**
44044720 AAGTATTTTAAAAATA
1 ATTTATTTTAAAAATA
44044736 TTTTAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 7 0.21
23 8 0.24
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (20 bp):
ATTTATTTTAAAAATAAAAA
Found at i:44044842 original size:17 final size:16
Alignment explanation
Indices: 44044800--44044842 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
44044790 AAGTATTTTA
* *
44044800 AAAATATTTTAAAATT
1 AAAATATTTAAAAAAT
*
44044816 AAAAAATTTAAAAAAT
1 AAAATATTTAAAAAAT
44044832 AAATATATTTA
1 AAA-ATATTTA
44044843 TTATATCGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 16 0.73
17 6 0.27
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAATATTTAAAAAAT
Found at i:44045241 original size:21 final size:20
Alignment explanation
Indices: 44045215--44045263 Score: 80
Period size: 21 Copynumber: 2.4 Consensus size: 20
44045205 TAACGTGACA
44045215 AGTTAATTGGCCACATCAGCT
1 AGTTAATT-GCCACATCAGCT
44045236 AGTTAACTTGCCACATCAGCT
1 AGTTAA-TTGCCACATCAGCT
44045257 AGTTAAT
1 AGTTAAT
44045264 CAGTGATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.04
21 24 0.89
22 2 0.07
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (20 bp):
AGTTAATTGCCACATCAGCT
Found at i:44051246 original size:2 final size:2
Alignment explanation
Indices: 44051239--44051273 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
44051229 ACAAAAACAG
44051239 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
44051274 AAAAAAAAAG
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:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:44051682 original size:2 final size:2
Alignment explanation
Indices: 44051620--44051662 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
44051610 TTGTGAAGAA
*
44051620 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG CG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
44051662 A
1 A
44051663 ATGAGAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.02, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44051692 original size:29 final size:28
Alignment explanation
Indices: 44051646--44051702 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
44051636 AGAGAGAGAG
* * *
44051646 AGAGAGAGAGCGAGAGAATGAGAGTTTTT
1 AGAGAGAGAACGAAAGAA-GAGAATTTTT
*
44051675 AGAGAGAGAATGAAAGAAGAGAATTTTT
1 AGAGAGAGAACGAAAGAAGAGAATTTTT
44051703 TGGGAGGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.44, C:0.02, G:0.33, T:0.21
Consensus pattern (28 bp):
AGAGAGAGAACGAAAGAAGAGAATTTTT
Found at i:44057578 original size:52 final size:52
Alignment explanation
Indices: 44057517--44057676 Score: 169
Period size: 52 Copynumber: 3.2 Consensus size: 52
44057507 AATCAAATAA
44057517 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAG
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAG
* ** ** * *
44057569 ATTAGGGTTTAGTGTTTA--TGA-T-TTTTAAGGA-AAA----AATCAAA-TAA
1 ATTAGGGTTTAG-GATTACTTGAGTAAATTAATTATAAATTTTAA-AAAATTAG
44057613 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAG
1 ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAG
44057665 ATTAGGGTTTAG
1 ATTAGGGTTTAG
44057677 TGTTTAGGGT
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
43 4 0.05
44 16 0.20
45 6 0.07
46 1 0.01
47 5 0.06
48 6 0.07
49 5 0.06
50 1 0.01
51 6 0.07
52 28 0.34
53 4 0.05
ACGTcount: A:0.41, C:0.02, G:0.17, T:0.40
Consensus pattern (52 bp):
ATTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAG
Found at i:44057588 original size:96 final size:96
Alignment explanation
Indices: 44057423--44058010 Score: 939
Period size: 96 Copynumber: 6.1 Consensus size: 96
44057413 AAATAAGGGT
* * * * *
44057423 TTAGGGTTTAAGGTTTCTTAATTAAATTAATTATAAA-TTTAAGAAATTAGATTAGGGTTTAGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
* *
44057487 TTTATGATTTTTAAGGAAAAAATCAAATAAA
66 TTTAAGGTTTTTAAGGAAAAAATCAAATAAA
*
44057518 TTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
* *
44057583 TTTATGATTTTTAAGGAAAAAATCAAATAAA
66 TTTAAGGTTTTTAAGGAAAAAATCAAATAAA
*
44057614 TTAGGGTTTAGGATTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
*
44057679 TTTAGGGTTTTTAAGGAAAAAATCAAATAAA
66 TTTAAGGTTTTTAAGGAAAAAATCAAATAAA
*
44057710 TTAGGGTTTAGGGTTACTTGAGTGAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
*
44057775 TTTAGGGTTTTTAAGGAAAAAATCAAATAAA
66 TTTAAGGTTTTTAAGGAAAAAATCAAATAAA
* * *
44057806 TTAGGGTTTAGGGTTACTTGAGTGAATTAATTATAAATTTTAAAAAATTAGATTAAGGTTTAGGG
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
* *
44057871 TTTAAGG-TTTTAAGAAAAAAATAAAATAAA
66 TTTAAGGTTTTTAAGGAAAAAATCAAATAAA
*
44057901 TTAGGGTTTGGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTAGT
1 TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTT-AAAAAATTAGATTAGGGTTTAGT
* *
44057966 GTTTAAGGTTTTTAAGG-AAAATTTAAATAAA
65 GTTTAAGGTTTTTAAGGAAAAAATCAAATAAA
*
44057997 TTAGGGTTTGGGGT
1 TTAGGGTTTAGGGT
44058011 CCAGGGTTAC
Statistics
Matches: 468, Mismatches: 22, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
95 92 0.20
96 369 0.79
97 7 0.01
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.39
Consensus pattern (96 bp):
TTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAAATTTTAAAAAATTAGATTAGGGTTTAGTG
TTTAAGGTTTTTAAGGAAAAAATCAAATAAA
Found at i:44058283 original size:126 final size:127
Alignment explanation
Indices: 44058048--44058335 Score: 454
Period size: 126 Copynumber: 2.3 Consensus size: 127
44058038 TAATTTTAAA
*
44058048 AAGCTCCCACGTGAACGCTCTTTTGCTACAGTAG-TTCATGAAAAAATAATTTTGAGAAGACGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCATGAAAAAATAATTTTGAGAAGACGTT
* *
44058112 TCTGAGCAAATAATGTCAAAAACGCTTTAAGCAGAATGCATTGTCAGCAAAAGTACTGAAAG
66 TCTGAGCAAATAATGTCAAAAACGCTTCAAGCAGAATGCAATGTCAGCAAAAGTACTGAAAG
* *
44058174 AAGCTCCCACGTGGACGTTCTTTTGCTACAGTAGTTTC-TGAAAAAATAATTTTGAGAAGATGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCATGAAAAAATAATTTTGAGAAGACGTT
* * * * *
44058238 TCTGAGCAAATAGTGTTAAAAACGCTTCAAGCAGGATGTAATGTCAGCTAAAGTACTGAAAG
66 TCTGAGCAAATAATGTCAAAAACGCTTCAAGCAGAATGCAATGTCAGCAAAAGTACTGAAAG
* *
44058300 AATCTCCCACGTGGACACTCTTTTGCTACAGTAGTT
1 AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTT
44058336 CTTATTTGGC
Statistics
Matches: 148, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
126 145 0.98
127 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (127 bp):
AAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTTCATGAAAAAATAATTTTGAGAAGACGTT
TCTGAGCAAATAATGTCAAAAACGCTTCAAGCAGAATGCAATGTCAGCAAAAGTACTGAAAG
Found at i:44061161 original size:17 final size:16
Alignment explanation
Indices: 44061139--44061172 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44061129 ATGGTAAGAC
44061139 TAAATTTTAATAAATTT
1 TAAATTTT-ATAAATTT
*
44061156 TAAATTTTTTAAATTT
1 TAAATTTTATAAATTT
44061172 T
1 T
44061173 TTTAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAAATTTTATAAATTT
Found at i:44061167 original size:9 final size:9
Alignment explanation
Indices: 44061153--44061185 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
44061143 TTTTAATAAA
44061153 TTTTAAATT
1 TTTTAAATT
44061162 TTTTAAATTT
1 TTTTAAA-TT
44061172 TTTTAAATT
1 TTTTAAATT
44061181 TTTTA
1 TTTTA
44061186 TTTCATAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTAAATT
Found at i:44061173 original size:10 final size:10
Alignment explanation
Indices: 44061153--44061184 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
44061143 TTTTAATAAA
44061153 TTTTAAA-TT
1 TTTTAAATTT
44061162 TTTTAAATTT
1 TTTTAAATTT
44061172 TTTTAAATTT
1 TTTTAAATTT
44061182 TTT
1 TTT
44061185 ATTTCATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 7 0.32
10 15 0.68
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTAAATTT
Found at i:44073492 original size:41 final size:41
Alignment explanation
Indices: 44073383--44073493 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
44073373 TTTAACATAT
* * *
44073383 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCATA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
44073424 TCACCGGCACGTAGCCTGCTAGGTTTATAACCTGATTCCGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
*
44073465 TCACCGGCACTTAGCCTGCTAGATTTATA
1 TCACCGGCACTTAGCCTGCTAGGTTTATA
44073494 GTCTGAAAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:44074118 original size:70 final size:70
Alignment explanation
Indices: 44074043--44074199 Score: 314
Period size: 70 Copynumber: 2.2 Consensus size: 70
44074033 TTGTTCATGT
44074043 ATTTACATATATATATATTCGAATCTAACTTATGCATATATATCTTTCTTACCTAAATTCAATAC
1 ATTTACATATATATATATTCGAATCTAACTTATGCATATATATCTTTCTTACCTAAATTCAATAC
44074108 AAGTG
66 AAGTG
44074113 ATTTACATATATATATATTCGAATCTAACTTATGCATATATATCTTTCTTACCTAAATTCAATAC
1 ATTTACATATATATATATTCGAATCTAACTTATGCATATATATCTTTCTTACCTAAATTCAATAC
44074178 AAGTG
66 AAGTG
44074183 ATTTACATATATATATA
1 ATTTACATATATATATA
44074200 CATGCTTATT
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 87 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (70 bp):
ATTTACATATATATATATTCGAATCTAACTTATGCATATATATCTTTCTTACCTAAATTCAATAC
AAGTG
Found at i:44074631 original size:87 final size:87
Alignment explanation
Indices: 44074529--44074700 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 87
44074519 AAATATATTC
44074529 AAAATAAGATAATTTATTTATTAACACATTCAATTTAATCCAAAAATACATAATTTGACAAATTA
1 AAAATAAGATAATTTATTTATTAACACATTCAATTTAATCCAAAAATACATAATTTGACAAATTA
*
44074594 CTCTTTTGCCCCTAATATTCTT
66 CTATTTTGCCCCTAATATTCTT
*
44074616 AAAATAAGATCATTTATTTATTAACACATTCAATTTAATCCAAAAATACATAATTTGACAAATTA
1 AAAATAAGATAATTTATTTATTAACACATTCAATTTAATCCAAAAATACATAATTTGACAAATTA
44074681 CTATTTTGCCCCTAATATTC
66 CTATTTTGCCCCTAATATTC
44074701 ACACTTTTTT
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.38
Consensus pattern (87 bp):
AAAATAAGATAATTTATTTATTAACACATTCAATTTAATCCAAAAATACATAATTTGACAAATTA
CTATTTTGCCCCTAATATTCTT
Found at i:44084757 original size:6 final size:6
Alignment explanation
Indices: 44084746--44084784 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
44084736 CTTCAGCTAT
** *
44084746 ATCCTC ATCCTC ATCCTC CCCCTC ATCATC ATCCTC ATC
1 ATCCTC ATCCTC ATCCTC ATCCTC ATCCTC ATCCTC ATC
44084785 ATCCTCCCCA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (6 bp):
ATCCTC
Found at i:44084777 original size:24 final size:24
Alignment explanation
Indices: 44084750--44084799 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
44084740 AGCTATATCC
*
44084750 TCATCCTCATCCTCC-CCCTCATCA
1 TCATCCTCATCATCCTCCC-CATCA
44084774 TCATCCTCATCATCCTCCCCATCA
1 TCATCCTCATCATCCTCCCCATCA
44084798 TC
1 TC
44084800 CGCCATGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 21 0.88
25 3 0.12
ACGTcount: A:0.18, C:0.52, G:0.00, T:0.30
Consensus pattern (24 bp):
TCATCCTCATCATCCTCCCCATCA
Found at i:44084785 original size:12 final size:12
Alignment explanation
Indices: 44084750--44084821 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
44084740 AGCTATATCC
*
44084750 TCATCCTCATCC
1 TCATCCTCATCA
**
44084762 TCCCCCTCATCA
1 TCATCCTCATCA
44084774 TCATCCTCATCA
1 TCATCCTCATCA
* *
44084786 TCCTCCCCATCA
1 TCATCCTCATCA
** *
44084798 TCCGCCAT-GTCA
1 TCATCC-TCATCA
44084810 TCATCCTCATCA
1 TCATCCTCATCA
44084822 GCCATATCAT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
11 1 0.02
12 44 0.98
ACGTcount: A:0.19, C:0.49, G:0.03, T:0.29
Consensus pattern (12 bp):
TCATCCTCATCA
Found at i:44084819 original size:21 final size:21
Alignment explanation
Indices: 44084795--44084835 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44084785 ATCCTCCCCA
* *
44084795 TCATCCGCCATGTCATCATCC
1 TCATCAGCCATATCATCATCC
44084816 TCATCAGCCATATCATCATC
1 TCATCAGCCATATCATCATC
44084836 TGCCCTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.07, T:0.29
Consensus pattern (21 bp):
TCATCAGCCATATCATCATCC
Found at i:44093934 original size:17 final size:17
Alignment explanation
Indices: 44093909--44093951 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
44093899 ATAATTCATG
*
44093909 ATATATATATA-TTGTAC
1 ATATTTATATACTT-TAC
44093926 ATATTTATATACTTTAC
1 ATATTTATATACTTTAC
44093943 AT-TTTATAT
1 ATATTTATAT
44093952 GAGGTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 7 0.29
17 15 0.62
18 2 0.08
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (17 bp):
ATATTTATATACTTTAC
Found at i:44095767 original size:24 final size:24
Alignment explanation
Indices: 44095740--44095785 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
44095730 AACCTAATTC
44095740 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
44095764 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
44095786 ACTCATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:44095801 original size:24 final size:24
Alignment explanation
Indices: 44095751--44095802 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
44095741 AATCAAAGTC
** **
44095751 AAATATATTATGTTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
44095775 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
44095799 AAAT
1 AAAT
44095803 CTTCAAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:44104572 original size:8 final size:9
Alignment explanation
Indices: 44104494--44104651 Score: 97
Period size: 10 Copynumber: 16.7 Consensus size: 9
44104484 TAAAAAATTC
44104494 AAAATTATA
1 AAAATTATA
44104503 AAAA-TATTA
1 AAAATTA-TA
* *
44104512 AAAGTTTTA
1 AAAATTATA
*
44104521 TAAACTTATA
1 -AAAATTATA
44104531 AAAATTATGAA
1 AAAATTAT--A
**
44104542 AAAAACATA
1 AAAATTATA
44104551 AAAATTATAA
1 AAAATTAT-A
44104561 AAAATTATAA
1 AAAATTAT-A
* *
44104571 AAAAATCTA
1 AAAATTATA
44104580 AACAATTTATA
1 AA-AA-TTATA
*
44104591 ATAATTATTA
1 AAAATTA-TA
*
44104601 ATAATTATA
1 AAAATTATA
*
44104610 AAACTTATA
1 AAAATTATA
*
44104619 TAAAATT-TT
1 -AAAATTATA
44104628 AAAATTAT-
1 AAAATTATA
44104636 AAAATATATA
1 AAAAT-TATA
44104646 AAAATT
1 AAAATT
44104652 CATTTTTTGG
Statistics
Matches: 118, Mismatches: 18, Indels: 26
0.73 0.11 0.16
Matches are distributed among these distances:
8 13 0.11
9 46 0.39
10 48 0.41
11 11 0.09
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAATTATA
Found at i:44104573 original size:20 final size:19
Alignment explanation
Indices: 44104473--44104651 Score: 109
Period size: 19 Copynumber: 9.5 Consensus size: 19
44104463 ATTTTTTCTC
*
44104473 ATAAAAATAATTAAAAAA-T
1 ATAAAAATTA-TAAAAAATT
*
44104492 -TCAAAATTAT-AAAAA-T
1 ATAAAAATTATAAAAAATT
* * * *
44104508 ATTAAAAGTTTTATAAACTT
1 A-TAAAAATTATAAAAAATT
**
44104528 ATAAAAATTATGAAAAAAAC
1 ATAAAAATTAT-AAAAAATT
44104548 ATAAAAATTATAAAAAATT
1 ATAAAAATTATAAAAAATT
* * *
44104567 ATAAAAAAATCTAAACAATTT
1 AT-AAAAATTATAAA-AAATT
* * *
44104588 ATAATAATTATTAATAATT
1 ATAAAAATTATAAAAAATT
* *
44104607 ATAAAACTTATATAAAATT
1 ATAAAAATTATAAAAAATT
* *
44104626 -TTAAAATTATAAAATA-T
1 ATAAAAATTATAAAAAATT
44104643 ATAAAAATT
1 ATAAAAATT
44104652 CATTTTTTGG
Statistics
Matches: 118, Mismatches: 34, Indels: 17
0.70 0.20 0.10
Matches are distributed among these distances:
16 6 0.05
17 2 0.02
18 33 0.28
19 36 0.31
20 35 0.30
21 6 0.05
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (19 bp):
ATAAAAATTATAAAAAATT
Found at i:44112536 original size:56 final size:55
Alignment explanation
Indices: 44112450--44112559 Score: 193
Period size: 56 Copynumber: 2.0 Consensus size: 55
44112440 TGTTCACTTG
44112450 TAGCAGGGTTTTAACATTATATAAATTTTTCTTCCGATTCTTCTCCACGCTCTNTA
1 TAGCAGGGTTTTAACATTATATAAATTTTTCTTCCGATTCTTCTCCACGCTCT-TA
* *
44112506 TAGCAGGGTTTTAACATTATATAAATTTTTCTTCCGGTTCTTCTCCAGGCTCTT
1 TAGCAGGGTTTTAACATTATATAAATTTTTCTTCCGATTCTTCTCCACGCTCTT
44112560 CCTAGTTACC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
55 1 0.02
56 51 0.98
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.44
Consensus pattern (55 bp):
TAGCAGGGTTTTAACATTATATAAATTTTTCTTCCGATTCTTCTCCACGCTCTTA
Found at i:44117314 original size:20 final size:21
Alignment explanation
Indices: 44117289--44117333 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
44117279 ATGCCAATTT
*
44117289 TATATAA-ATAAAATAATAAA
1 TATATAATATAAAATAAAAAA
44117309 TATATAATTATAAAATAAAAAA
1 TATATAA-TATAAAATAAAAAA
44117331 TAT
1 TAT
44117334 TTTATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
22 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
TATATAATATAAAATAAAAAA
Found at i:44117420 original size:27 final size:27
Alignment explanation
Indices: 44117366--44117421 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
44117356 AAGTATTTTT
* * *
44117366 AATTAATAACTTATTTATTTATATATA
1 AATTAATAACATATGTAATTATATATA
44117393 AATTAATAA-ATATGTAATTATATAATA
1 AATTAATAACATATGTAATTATAT-ATA
44117420 AA
1 AA
44117422 ATTATATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
AATTAATAACATATGTAATTATATATA
Found at i:44121996 original size:119 final size:120
Alignment explanation
Indices: 44121846--44122092 Score: 408
Period size: 119 Copynumber: 2.0 Consensus size: 120
44121836 TAAAATGCTG
**
44121846 ATTCAATTTTTTGTCACTGATTCTGATTCATTGTTCCTTTGTTTTCTAGCTTGATCAACCTTTCT
1 ATTCAATTTTTTGTCACTGATTCTGATTCATTGTTCCCATGTTTTCTAGCTTGATCAACCTTTCT
* *
44121911 GGATGAATAAACTTACCAGAAGGGATTGCAACAAA-A-GTATATACATTGTAAGT
66 AGATCAATAAACTTACCAGAAGGGATTGCAACAAAGAGGTATATACATTGTAAGT
44121964 ATTCAATTTTTTGTCACTGGATTCTGATTCATTGTTCCCATGTTTTCTAGCTTGATCAACCTTTC
1 ATTCAATTTTTTGTCACT-GATTCTGATTCATTGTTCCCATGTTTTCTAGCTTGATCAACCTTTC
*
44122029 TAGATCAATAAACTTACCAGAAGGGATTGCTACAAATGGAGGTATATACATTGTAAGT
65 TAGATCAATAAACTTACCAGAAGGGATTGCAACAAA--GAGGTATATACATTGTAAGT
44122087 ATTCAA
1 ATTCAA
44122093 GCAACAGAAA
Statistics
Matches: 119, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
118 18 0.15
119 77 0.65
122 1 0.01
123 23 0.19
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (120 bp):
ATTCAATTTTTTGTCACTGATTCTGATTCATTGTTCCCATGTTTTCTAGCTTGATCAACCTTTCT
AGATCAATAAACTTACCAGAAGGGATTGCAACAAAGAGGTATATACATTGTAAGT
Found at i:44151569 original size:43 final size:42
Alignment explanation
Indices: 44151469--44151905 Score: 558
Period size: 43 Copynumber: 10.2 Consensus size: 42
44151459 CGCTATTGTC
44151469 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTCTAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTC-AAA
* *
44151511 AACGCCGCTATAGATCAGGATCTTTAGCGGCACTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-CAAA
44151554 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTCTAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTC-AAA
* *
44151596 AACGCCGCTATAGATCAGGATCTTTAGCGGCACTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-CAAA
44151639 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTCTAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTC-AAA
* *
44151681 AACGCCGCTATAGATCAGGATCTTTAGCGGCACTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-CAAA
44151724 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-CAAA
* * * * *
44151767 AACGCCACTATAGATTAGGACCTTTAGCGACGCATCTTTCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTCAAA
* * ** *
44151810 AACGCCACTATAGCTCAATACCTTTAGCGGCGCTTTTTTCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTCAAA
* * * * *
44151853 AACGCCGCTATAGCTCAAGACATTTAGCGACGCTTTGATT-ACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTT--TTCAAA
44151896 AACGCCGCTA
1 AACGCCGCTA
44151906 AAAGTACCAT
Statistics
Matches: 356, Mismatches: 28, Indels: 21
0.88 0.07 0.05
Matches are distributed among these distances:
41 2 0.01
42 110 0.31
43 235 0.66
44 9 0.03
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTCAAA
Found at i:44151571 original size:85 final size:85
Alignment explanation
Indices: 44151469--44151865 Score: 629
Period size: 85 Copynumber: 4.6 Consensus size: 85
44151459 CGCTATTGTC
44151469 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
44151534 TTAGCGGCACTTTTTACAAA
66 TTAGCGGCACTTTTTACAAA
44151554 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
44151619 TTAGCGGCACTTTTTACAAA
66 TTAGCGGCACTTTTTACAAA
44151639 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
44151704 TTAGCGGCACTTTTTACAAA
66 TTAGCGGCACTTTTTACAAA
* * *
44151724 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT-TACAAAAACGCCACTATAGATTAGGAC
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCT--AAAAACGCCGCTATAGATCAGGAT
* *
44151788 CTTTAGCGACGCA-TCTTT-CACA
64 CTTTAGCG--GCACTTTTTACAAA
* * ** * *
44151810 AACGCCACTATAGCTCAATACCTTTAGCGGCGCTTTTTTCACAAACGCCGCTATAG
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCT-AAAAACGCCGCTATAG
44151866 CTCAAGACAT
Statistics
Matches: 296, Mismatches: 11, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
84 1 0.00
85 207 0.70
86 80 0.27
87 5 0.02
88 3 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (85 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCTAAAAACGCCGCTATAGATCAGGATCT
TTAGCGGCACTTTTTACAAA
Found at i:44156260 original size:43 final size:43
Alignment explanation
Indices: 44156162--44156325 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 43
44156152 TAGGGTTATC
* * * * *
44156162 GAGATTACGTGTAAGACCACATCTGGGATATGGA-ATCGATAT
1 GAGATTTCATGTAAGACCATATCTGGGACATTGACATCGATAT
* * *
44156204 GAGACTTCGTGTAAGACCATGTCTGGGACATTGACATCGATAT
1 GAGATTTCATGTAAGACCATATCTGGGACATTGACATCGATAT
* ** * *
44156247 GTGATTTCATGTAAGACCATGGCT-GGACTATTGGCATCGATAC
1 GAGATTTCATGTAAGACCATATCTGGGAC-ATTGACATCGATAT
* * *
44156290 GAGATTACATTTAAGACCATATCTGGGATA-TGACAT
1 GAGATTTCATGTAAGACCATATCTGGGACATTGACAT
44156326 TGTTACGGTA
Statistics
Matches: 100, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 37 0.37
43 60 0.60
44 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (43 bp):
GAGATTTCATGTAAGACCATATCTGGGACATTGACATCGATAT
Found at i:44158192 original size:37 final size:37
Alignment explanation
Indices: 44158123--44158193 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
44158113 TTTAAGTTAC
*
44158123 AAGTATATGGTTATTTGATATGTGAACGAAAATGAAT
1 AAGTATATGGTTATTTGATATGTGAACAAAAATGAAT
**
44158160 AAGTATATGGTTATTTGATATGTGTGCAAAAATG
1 AAGTATATGGTTATTTGATATGTGAACAAAAATG
44158194 TTAAAAAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.37
Consensus pattern (37 bp):
AAGTATATGGTTATTTGATATGTGAACAAAAATGAAT
Found at i:44163849 original size:41 final size:41
Alignment explanation
Indices: 44163804--44163883 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
44163794 CCGAAATGTA
* * *
44163804 TCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGTATTATT
1 TCACCGGCATCAAACCTACTAGACGTAAAGTCTGTATTATT
*
44163845 TCACCGGCATCAAACCTACTAGACGTAAATTCTGTATTA
1 TCACCGGCATCAAACCTACTAGACGTAAAGTCTGTATTA
44163884 CATTCGATCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (41 bp):
TCACCGGCATCAAACCTACTAGACGTAAAGTCTGTATTATT
Found at i:44174373 original size:313 final size:312
Alignment explanation
Indices: 44173804--44174428 Score: 1083
Period size: 313 Copynumber: 2.0 Consensus size: 312
44173794 GATTAGACAA
44173804 AACTAAAAGGACTAAATCCACAACTTATGTATGGTAAAAAGATTAATAAAAAAAGTCAATCGTAT
1 AACTAAAAGGACTAAATCCACAACTTATGTATGGTAAAAAGATTAATAAAAAAAGTCAATCGTAT
* * * * * *
44173869 GAATTAGGGTTTATTTATTAAGTTTACGAGTACAATGACTAAGGTGTGGATAAATATGTAGCCAA
66 GAATTAGGGTTTATTTATTAAGTTCACGAGCACAATAACTAAGGTGTGGATAAAAATATAGCAAA
* *
44173934 TTATTTGCAATTTTTTATTACCTACAAGTTATTGTATAGAAAATATTATTTTCAATTAATTGTCA
131 TTATTTGAAATTTTTTATTACCTACAAGTTATTGTATAGAAAATATTATTTTCAATTAATTATCA
44173999 AAAAAAGGAAAATGTTAATATATGGTAAGTATATCAAAATTAATTGTGCTATTTCTATCTTGCCA
196 AAAAAAGGAAAATGTTAATATATGGTAAGTATATCAAAATTAATTGTGCTATTTCTATCTTGCCA
* *
44174064 TAGGTGACGTATAATGCCTAGTGCAAAAATCTTCTATATGATTTTTCTCTTCC
261 TAGGTGACGTATAAAGCATAGTGC-AAAATCTTCTATATGATTTTTCTCTTCC
44174117 AACTAAAAGGACTAAATCCACAACTTATGTATGGTAAAAAGATTAATAAAAAAAGTCAATCGTAT
1 AACTAAAAGGACTAAATCCACAACTTATGTATGGTAAAAAGATTAATAAAAAAAGTCAATCGTAT
* *
44174182 GAATTAGGGTTTATTTTTTAAGTTCACGAGCATAATAACTAAGGTGTGGATAAAAATAATAGCAA
66 GAATTAGGGTTTATTTATTAAGTTCACGAGCACAATAACTAAGGTGTGGATAAAAAT-ATAGCAA
*
44174247 ATTATTTGAAATTTTTTATTACCTACAAGTTATTGTTTA-AAAATATTATTTTCAATTAATTATC
130 ATTATTTGAAATTTTTTATTACCTACAAGTTATTGTATAGAAAATATTATTTTCAATTAATTATC
*
44174311 AAAAAAAGGAAAATGTTAATATATGGTAAGTATATCTAAATTAATTGTGCTATTAT-TATCTTGC
195 AAAAAAAGGAAAATGTTAATATATGGTAAGTATATCAAAATTAATTGTGCTATT-TCTATCTTGC
44174375 CATAGGTGACGTATAAAGCATAGTGCAAAATCTTCTATATGATTTTTCTCTTCC
259 CATAGGTGACGTATAAAGCATAGTGCAAAATCTTCTATATGATTTTTCTCTTCC
44174429 TACAAAATTC
Statistics
Matches: 296, Mismatches: 14, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
312 28 0.09
313 225 0.76
314 43 0.15
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (312 bp):
AACTAAAAGGACTAAATCCACAACTTATGTATGGTAAAAAGATTAATAAAAAAAGTCAATCGTAT
GAATTAGGGTTTATTTATTAAGTTCACGAGCACAATAACTAAGGTGTGGATAAAAATATAGCAAA
TTATTTGAAATTTTTTATTACCTACAAGTTATTGTATAGAAAATATTATTTTCAATTAATTATCA
AAAAAAGGAAAATGTTAATATATGGTAAGTATATCAAAATTAATTGTGCTATTTCTATCTTGCCA
TAGGTGACGTATAAAGCATAGTGCAAAATCTTCTATATGATTTTTCTCTTCC
Found at i:44182316 original size:136 final size:136
Alignment explanation
Indices: 44182072--44182347 Score: 543
Period size: 136 Copynumber: 2.0 Consensus size: 136
44182062 TCCTTTAATT
44182072 AATGGATTTAATGACTACTGTTATAATATCATGCCAGCTAGTCATTTCCACATAATTCGCACAAA
1 AATGGATTTAATGACTACTGTTATAATATCATGCCAGCTAGTCATTTCCACATAATTCGCACAAA
44182137 AAGAGGCTTGATTTAATTAATGGATTTAACGACTACTGCTTGGGTTAAGATAGAGTTATCAAAAC
66 AAGAGGCTTGATTTAATTAATGGATTTAACGACTACTGCTTGGGTTAAGATAGAGTTATCAAAAC
44182202 TCAAAA
131 TCAAAA
44182208 AATGGATTTAATGACTACTGTTATAATATCATGCCAGCTAGTCATTTCCACATAATTCGCACAAA
1 AATGGATTTAATGACTACTGTTATAATATCATGCCAGCTAGTCATTTCCACATAATTCGCACAAA
*
44182273 AAGAGGCTTGATTTAATTAATGGATTTAACGACTACTGCTTGGGTTAAGATAGAGTTATCAAAAG
66 AAGAGGCTTGATTTAATTAATGGATTTAACGACTACTGCTTGGGTTAAGATAGAGTTATCAAAAC
44182338 TCAAAA
131 TCAAAA
44182344 AATG
1 AATG
44182348 ATCTAATTGG
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 139 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (136 bp):
AATGGATTTAATGACTACTGTTATAATATCATGCCAGCTAGTCATTTCCACATAATTCGCACAAA
AAGAGGCTTGATTTAATTAATGGATTTAACGACTACTGCTTGGGTTAAGATAGAGTTATCAAAAC
TCAAAA
Found at i:44190686 original size:16 final size:16
Alignment explanation
Indices: 44190665--44190716 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
44190655 TTTGGTTCGC
*
44190665 TGTATTGGATTAGATG
1 TGTATTGGATTAGAGG
44190681 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
44190697 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
44190713 TGTA
1 TGTA
44190717 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:44214269 original size:29 final size:29
Alignment explanation
Indices: 44214211--44214271 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
44214201 GTCACCTAAT
*
44214211 TATGAAAAGCTACAAAATGATCATTAAAC
1 TATGAAAAGCTACAAAATGATCATCAAAC
* * *
44214240 TATGAAAAGTTAGAAAAT-AGTCATCCAAC
1 TATGAAAAGCTACAAAATGA-TCATCAAAC
44214269 TAT
1 TAT
44214272 TTAATTTTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.26
Consensus pattern (29 bp):
TATGAAAAGCTACAAAATGATCATCAAAC
Found at i:44216921 original size:23 final size:24
Alignment explanation
Indices: 44216882--44216926 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
44216872 ATAAATTTGA
44216882 AATTTAATTTATGTATT-TTTATG
1 AATTTAATTTATGTATTGTTTATG
* *
44216905 AATTTAATTTTTTTATTGTTTA
1 AATTTAATTTATGTATTGTTTA
44216927 AATTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (24 bp):
AATTTAATTTATGTATTGTTTATG
Found at i:44226506 original size:20 final size:20
Alignment explanation
Indices: 44226455--44226508 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
44226445 GACATTAGAC
* * *
44226455 TTAAATAACTTATATTTATT
1 TTAAATAATTTAAATATATT
*
44226475 TTATAA-ATTTTAAATATATT
1 TTA-AATAATTTAAATATATT
44226495 TTAAATAATTTAAA
1 TTAAATAATTTAAA
44226509 AAATATTAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTAAATAATTTAAATATATT
Found at i:44226514 original size:21 final size:20
Alignment explanation
Indices: 44226471--44226515 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
44226461 AACTTATATT
* * *
44226471 TATTTTATAAATTTTAAATA
1 TATTTTAAAAATTTAAAAAA
44226491 TATTTTAAATAATTTAAAAAA
1 TATTTTAAA-AATTTAAAAAA
44226512 TATT
1 TATT
44226516 AAATTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTTTAAAAATTTAAAAAA
Found at i:44229968 original size:22 final size:20
Alignment explanation
Indices: 44229933--44230006 Score: 75
Period size: 20 Copynumber: 3.8 Consensus size: 20
44229923 ACATTAAAAA
44229933 ATATAAAAATAGAAATAAAT
1 ATATAAAAATAGAAATAAAT
44229953 ATATAAAAAATCAGAAAT--AT
1 ATAT-AAAAAT-AGAAATAAAT
**
44229973 ATAT-AATCTAGAAATAAAT
1 ATATAAAAATAGAAATAAAT
*
44229992 TTATAAAAATA-AAAT
1 ATATAAAAATAGAAAT
44230007 TACAAAAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
17 6 0.14
18 3 0.07
19 9 0.20
20 14 0.32
21 6 0.14
22 6 0.14
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (20 bp):
ATATAAAAATAGAAATAAAT
Found at i:44230934 original size:16 final size:16
Alignment explanation
Indices: 44230915--44230950 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
44230905 GAATAGAGAC
44230915 GTAATGGGA-TAGAGGT
1 GTAAT-GGATTAGAGGT
44230931 GTAATGGATTAGAGGT
1 GTAATGGATTAGAGGT
44230947 GTAA
1 GTAA
44230951 CAGCAAATCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.16
16 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.39, T:0.28
Consensus pattern (16 bp):
GTAATGGATTAGAGGT
Found at i:44231206 original size:18 final size:17
Alignment explanation
Indices: 44231185--44231219 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
44231175 TTATTATTAA
*
44231185 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
44231203 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
44231220 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:44231266 original size:61 final size:61
Alignment explanation
Indices: 44231198--44231372 Score: 171
Period size: 59 Copynumber: 2.9 Consensus size: 61
44231188 TATTTTAATT
44231198 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
1 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
* * * * * * * * * ** *
44231259 ATAATATATGATACT-ATAAAA-TATAAATTAA-C-ATATTTATTAT-TAAATATATTGTAATT
1 AAAATATATAAT-TTAATAAAATTCTTAA-TAATCAATA-TTCTTATATGAATTTACTCAAATC
*
44231318 AAAATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACT
1 AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT
44231373 GAACTTGACA
Statistics
Matches: 84, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
58 1 0.01
59 32 0.38
60 21 0.25
61 29 0.35
62 1 0.01
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AAAATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATC
Done.