Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 124 of 373
Found at i:40621076 original size:48 final size:48
Alignment explanation
Indices: 40621014--40621436 Score: 724
Period size: 48 Copynumber: 8.9 Consensus size: 48
40621004 TATATATGTG
*
40621014 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
40621062 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
40621110 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
*
40621158 TGTGGTAAAGTCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
40621206 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
40621254 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
40621302 TGTGGTAAAACCGAATGGCTAGTGTGAAATATGAATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* * *
40621350 TGTGGTAAAGCCGAATGGCTAGTGTGAAATATATGTGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
* *
40621398 TGTGGTAAAGCCGAATGGCT-A-GTGGAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
40621437 GTGTGTATAT
Statistics
Matches: 358, Mismatches: 17, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
46 14 0.04
48 344 0.96
ACGTcount: A:0.35, C:0.06, G:0.28, T:0.31
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATA
Found at i:40621627 original size:37 final size:37
Alignment explanation
Indices: 40621577--40621679 Score: 161
Period size: 37 Copynumber: 2.8 Consensus size: 37
40621567 GGAAATATAT
40621577 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
40621614 TCCGGGTAAGACCCGATGACTATGTGTGGAGGTTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
40621651 TCCAGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
40621680 GGACTATTCG
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:40626269 original size:39 final size:39
Alignment explanation
Indices: 40626225--40626383 Score: 255
Period size: 39 Copynumber: 4.1 Consensus size: 39
40626215 ATGCAAGACA
*
40626225 CTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
40626264 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGGG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
40626303 CTGGAAATATATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
40626342 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
40626381 CTG
1 CTG
40626384 ATAATATAAT
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:40631876 original size:39 final size:39
Alignment explanation
Indices: 40631832--40632029 Score: 306
Period size: 39 Copynumber: 5.1 Consensus size: 39
40631822 ATGCCAGACA
* *
40631832 CTGGAAATGTATCCGGGCAAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* * *
40631871 CTGGAAATTTATCCGGGCTAAAGTCCCGCAGGCTTCGGG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
40631910 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
40631949 CTGGAAATGTATCCGGGCCAAAGTCCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
** *
40631988 CTGGAAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
40632027 CTG
1 CTG
40632030 ATAATATGAT
Statistics
Matches: 146, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:40634329 original size:32 final size:32
Alignment explanation
Indices: 40634288--40634353 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
40634278 ATAGTATATG
40634288 AATGTGTTTGGTTTAATATATTAGATGCAATT
1 AATGTGTTTGGTTTAATATATTAGATGCAATT
40634320 AATGTGTTTGGTTTAATATATTAGATGCAATT
1 AATGTGTTTGGTTTAATATATTAGATGCAATT
40634352 AA
1 AA
40634354 GTTTGGGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.33, C:0.03, G:0.18, T:0.45
Consensus pattern (32 bp):
AATGTGTTTGGTTTAATATATTAGATGCAATT
Found at i:40634368 original size:29 final size:30
Alignment explanation
Indices: 40634292--40634369 Score: 97
Period size: 32 Copynumber: 2.6 Consensus size: 30
40634282 TATATGAATG
*
40634292 TGTTTGGTTTAATATATTAGATGCAATTAA
1 TGTTTGGTGTAATATATTAGATGCAATTAA
*
40634322 TGTGTTTGGTTTAATATATTAGATGCAATTAA
1 --TGTTTGGTGTAATATATTAGATGCAATTAA
40634354 -GTTTGG-GTAAGTATAT
1 TGTTTGGTGTAA-TATAT
40634370 AATTTTAATG
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
28 3 0.07
29 11 0.25
32 30 0.68
ACGTcount: A:0.31, C:0.03, G:0.21, T:0.46
Consensus pattern (30 bp):
TGTTTGGTGTAATATATTAGATGCAATTAA
Found at i:40637528 original size:40 final size:40
Alignment explanation
Indices: 40637473--40637689 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
40637463 TGGATGATAA
* * *
40637473 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
40637513 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40637553 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40637593 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
40637633 CCAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
40637672 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
40637690 TACTTGGCTT
Statistics
Matches: 160, Mismatches: 15, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
38 15 0.09
39 16 0.10
40 129 0.81
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40645427 original size:38 final size:40
Alignment explanation
Indices: 40645231--40645445 Score: 269
Period size: 40 Copynumber: 5.5 Consensus size: 40
40645221 GGATGATAAT
* * *
40645231 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATC
* *
40645271 CGGGCTAAGTCCCGAATGCATTTGTGCGAGCTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
40645311 CGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
40645351 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* * *
40645391 C-GGATATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
40645429 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
40645446 TACTTGGCTT
Statistics
Matches: 156, Mismatches: 17, Indels: 6
0.87 0.09 0.03
Matches are distributed among these distances:
37 2 0.01
38 28 0.18
39 17 0.11
40 109 0.70
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:40649698 original size:46 final size:43
Alignment explanation
Indices: 40649644--40649762 Score: 157
Period size: 46 Copynumber: 2.7 Consensus size: 43
40649634 ATTGAGACGA
*
40649644 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGAC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCG-GAC
* *
40649688 GTAAGCTAGTGTAAGAAATGTCTGGGACATGCATCAGCCTCGGAT
1 GT--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGAC
* *
40649733 GTGCCAGTGTAAGACCGTGTCTGGGACATG
1 GTGCTAGTGTAAGA-CATGTCTGGGACATG
40649763 GCATTCGTAC
Statistics
Matches: 66, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
43 11 0.17
44 15 0.23
45 4 0.06
46 36 0.55
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (43 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGGAC
Found at i:40651728 original size:15 final size:15
Alignment explanation
Indices: 40651682--40651716 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
40651672 AATTAAGTAT
*
40651682 ATGAAACTAAATGCA
1 ATGATACTAAATGCA
40651697 ATGATACTAAATGCA
1 ATGATACTAAATGCA
40651712 ATGAT
1 ATGAT
40651717 CCCTAATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (15 bp):
ATGATACTAAATGCA
Found at i:40690811 original size:46 final size:45
Alignment explanation
Indices: 40690629--40690842 Score: 195
Period size: 46 Copynumber: 4.6 Consensus size: 45
40690619 TCACTTGTGT
* * * *
40690629 TAGCTAGTGTAAGACATGTCTGGGACATGTATCGGCCAC-ATTATGA
1 TAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GAT-A
* * *
40690675 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATCAG-TATTGAGATGA
1 TAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCTA-CGAGAT-A
* *
40690723 GT-GCTAGTGTAAGACATGTCTAGGACATGCATCGACCT-CGAGATA
1 -TAGCTAGTGTAAGACATGTCTGGGACATGCATC-AGCTACGAGATA
*
40690768 TAAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATG
1 T-AGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATA
* *
40690814 T-GCCAGTGTAAGACTGTGTCTGGGACATG
1 TAGCTAGTGTAAGAC-ATGTCTGGGACATG
40690843 GCATTGGCAC
Statistics
Matches: 140, Mismatches: 17, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
44 13 0.09
45 17 0.12
46 60 0.43
47 27 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (45 bp):
TAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATA
Found at i:40693455 original size:23 final size:22
Alignment explanation
Indices: 40693425--40693469 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
40693415 GATACGTCAT
* *
40693425 GTTAAATGGTAGAGTTAGTTTG
1 GTTAAATGCTAGAATTAGTTTG
*
40693447 GTTATAATGCTTGAATTAGTTTG
1 GTTA-AATGCTAGAATTAGTTTG
40693470 TATATGATTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (22 bp):
GTTAAATGCTAGAATTAGTTTG
Found at i:40706401 original size:47 final size:47
Alignment explanation
Indices: 40706339--40706468 Score: 188
Period size: 47 Copynumber: 2.8 Consensus size: 47
40706329 GTATGAATGA
* * * *
40706339 TACATTGATTTGGCTACGGGCTATGGTATAGATACTCCGGGATAAGT
1 TACACTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGT
*
40706386 TACCCTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGT
1 TACACTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGT
* * *
40706433 TACATTGATTTGGTTACGAGCCATGGTATAGGTACT
1 TACACTGATTTGGCTACGGGCCATGGTATAGGTACT
40706469 TATCGAATGA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (47 bp):
TACACTGATTTGGCTACGGGCCATGGTATAGGTACTCCAGGATAAGT
Found at i:40712573 original size:47 final size:47
Alignment explanation
Indices: 40712520--40712656 Score: 197
Period size: 47 Copynumber: 3.0 Consensus size: 47
40712510 TTAGGATTTT
*
40712520 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
*
40712567 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
40712614 ATGTGGTGAATATGAACATGC--ATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGC
40712657 TAGTGTGAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 19 0.23
47 63 0.77
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:40712927 original size:37 final size:37
Alignment explanation
Indices: 40712819--40712927 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
40712809 GGAAATATAT
*
40712819 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
40712856 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
40712893 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
40712928 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:40737220 original size:49 final size:49
Alignment explanation
Indices: 40737127--40737235 Score: 125
Period size: 49 Copynumber: 2.2 Consensus size: 49
40737117 TTTAATTTAG
* *
40737127 TCATGCATTAAAGTATCTCACATGTTAATAAAGTTTGAGTTTTAATTATT
1 TCATGCATTTAAGTAACTCACATGTTAATAAAGTTTGAG-TTTAATTATT
* *
40737177 TCATGCATTTAA-TAACTCATATGTTAATGAAGTTCATGA-TTTAATTATT
1 TCATGCATTTAAGTAACTCACATGTTAATAAAGTT--TGAGTTTAATTATT
*
40737226 GCATGC-TTTA
1 TCATGCATTTA
40737236 TGAAACTTTC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
48 4 0.08
49 34 0.65
50 11 0.21
51 3 0.06
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (49 bp):
TCATGCATTTAAGTAACTCACATGTTAATAAAGTTTGAGTTTAATTATT
Found at i:40739991 original size:37 final size:37
Alignment explanation
Indices: 40739941--40740055 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
40739931 ACCTTTAGCT
* * *
40739941 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
40739978 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
40740015 CGGACATAATCTCCACACGTAGTCATCGGGTCTTACC
1 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
40740052 CAGA
1 CAGA
40740056 ATATATTTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.22
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:40740259 original size:48 final size:48
Alignment explanation
Indices: 40740201--40740335 Score: 252
Period size: 48 Copynumber: 2.8 Consensus size: 48
40740191 GCACATCGCC
* *
40740201 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
40740249 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
40740297 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
40740336 TGCATGTTCA
Statistics
Matches: 85, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 85 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:40740384 original size:47 final size:47
Alignment explanation
Indices: 40740305--40740498 Score: 271
Period size: 47 Copynumber: 4.1 Consensus size: 47
40740295 CATACATATT
* * * *
40740305 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
40740352 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
40740399 TCACATTGGCCATTCGGCCTTATCACATAAATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
40740446 TCACATGGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
40740493 TCACAT
1 TCACAT
40740499 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 130 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:40744562 original size:40 final size:40
Alignment explanation
Indices: 40744530--40744880 Score: 560
Period size: 40 Copynumber: 8.8 Consensus size: 40
40744520 CCAGCATGAT
* * * *
40744530 TGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * **
40744570 TGCTCTTTGGAACTTAGCCCGGATGCATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
40744610 TGCTCTTC-GGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
40744649 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
40744689 TGCTCTTCGGGACTTAGCCTGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40744729 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
40744769 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
40744809 TACTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
40744849 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
40744881 CTCAATTCTC
Statistics
Matches: 288, Mismatches: 22, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 36 0.12
40 252 0.88
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:40746213 original size:37 final size:37
Alignment explanation
Indices: 40746150--40746258 Score: 148
Period size: 37 Copynumber: 2.9 Consensus size: 37
40746140 AGCTCAGACG
* * *
40746150 AAATCTCCACATGA-AGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACA-CATAGTCATCGGGTCTTACCCGGACA
40746187 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
* * *
40746224 TAATCTCTACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACATAGTCATCGGGTCTTACCCGGA
40746259 ATATATTTCC
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
36 1 0.02
37 64 0.98
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACATAGTCATCGGGTCTTACCCGGACA
Found at i:40746462 original size:48 final size:48
Alignment explanation
Indices: 40746404--40746538 Score: 243
Period size: 48 Copynumber: 2.8 Consensus size: 48
40746394 GCACATCGCC
* * *
40746404 TACATATTTCACACTAGCCATTCGGCTTTACCACATATGCATATCTTA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
40746452 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
40746500 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
40746539 TGCATGTTCA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 84 1.00
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:40746587 original size:47 final size:47
Alignment explanation
Indices: 40746508--40746701 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
40746498 CATACATATT
* * * *
40746508 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
40746555 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
40746602 TCACATTGGCCATTCGGCCTTATCACATAAATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
40746649 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
40746696 TCACAT
1 TCACAT
40746702 AAAATCCTAA
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.32
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:40746636 original size:94 final size:94
Alignment explanation
Indices: 40746461--40746701 Score: 281
Period size: 94 Copynumber: 2.6 Consensus size: 94
40746451 ATACATATTT
* * * *
40746461 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* * *
40746523 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GGCCTTACCACATAAATGCATGTTCACATTCAC
* ** *
40746556 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
40746621 TTATCACATAAATGCATGTTCACATTCAT
66 TTACCACATAAATGCATGTTCACATTCAC
* * *
40746650 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
40746702 AAAATCCTAA
Statistics
Matches: 126, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 92 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATAAATGCATGTTCACATTCAC
Found at i:40752896 original size:29 final size:29
Alignment explanation
Indices: 40752864--40752944 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
40752854 CATATTCTTT
* *
40752864 TGGCCCATTTGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACATATATA
* *
40752893 TGGCCCATTAGGCCCAAATCATATTTATA
1 TGGCCCATTAGGCCCAAATCACATATATA
* *
40752922 TGGCCCGTTAGGCCC-GATCACAT
1 TGGCCCATTAGGCCCAAATCACAT
40752945 TCATATTCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
28 6 0.13
29 39 0.87
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATATATA
Found at i:40756258 original size:11 final size:11
Alignment explanation
Indices: 40756244--40756269 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
40756234 ATTATATGAA
40756244 TATGTGAAATG
1 TATGTGAAATG
40756255 TATGTGAAATG
1 TATGTGAAATG
40756266 TATG
1 TATG
40756270 ATTATTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.27, T:0.38
Consensus pattern (11 bp):
TATGTGAAATG
Found at i:40759501 original size:27 final size:27
Alignment explanation
Indices: 40759445--40759516 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 27
40759435 GGGCAATCTC
* * * *
40759445 TGTAATGGGAGCCTTTGTGGCTATCTA
1 TGTAAAGGAAGCCTTTGTGGCTAACCA
*
40759472 TGTAAAGGAAGCCTTTGTGTCTAACCA
1 TGTAAAGGAAGCCTTTGTGGCTAACCA
*
40759499 TGTAAAGGAAGCCCTTGT
1 TGTAAAGGAAGCCTTTGT
40759517 AACAATCTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (27 bp):
TGTAAAGGAAGCCTTTGTGGCTAACCA
Found at i:40760067 original size:43 final size:44
Alignment explanation
Indices: 40759975--40760084 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
40759965 ATAATTTCAA
* * *
40759975 AAGAAGATAATATTCGGTTGTTGAAAAAATGAATGTAAAAAGAG
1 AAGAAGAAAATATTGGGTTGTTGAAAAAATGAATGTAAAAAAAG
*
40760019 AAGAAGAAAATATTGGGTTGTTGAAAAAA-GAATTTAAAAATAAG
1 AAGAAGAAAATATTGGGTTGTTGAAAAAATGAATGTAAAAA-AAG
*
40760063 -AGAAGATAAACA-TGGGTTGTTG
1 AAGAAGA-AAATATTGGGTTGTTG
40760085 GATTTACCTT
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
43 26 0.44
44 33 0.56
ACGTcount: A:0.49, C:0.02, G:0.24, T:0.25
Consensus pattern (44 bp):
AAGAAGAAAATATTGGGTTGTTGAAAAAATGAATGTAAAAAAAG
Found at i:40767153 original size:43 final size:43
Alignment explanation
Indices: 40767080--40767164 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 43
40767070 ATGTGATTCT
*
40767080 GATATGTGTTTACGAGTAAGACCCTATCTGGGACAG-TGGCATC
1 GATATGTGGTTACGAGTAAGACCCTATCTGGGAC-GTTGGCATC
*
40767123 GATATGTGGTTAC-ATGTAAGACCAC-GTCTGGGACGTTGGCAT
1 GATATGTGGTTACGA-GTAAGACC-CTATCTGGGACGTTGGCAT
40767165 TGTACGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
42 2 0.05
43 34 0.92
44 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (43 bp):
GATATGTGGTTACGAGTAAGACCCTATCTGGGACGTTGGCATC
Found at i:40785617 original size:21 final size:21
Alignment explanation
Indices: 40785576--40785617 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
40785566 AATCCCCACA
* *
40785576 TGGTGTGTTGGTTGGTATGGG
1 TGGTGTATTGGTTGATATGGG
40785597 TGGTGTATTGGTTAGAT-TGGG
1 TGGTGTATTGGTT-GATATGGG
40785618 GTGGGTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.10, C:0.00, G:0.48, T:0.43
Consensus pattern (21 bp):
TGGTGTATTGGTTGATATGGG
Found at i:40791186 original size:12 final size:12
Alignment explanation
Indices: 40791169--40791195 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
40791159 GCTATGTTTC
40791169 TGTGAGAGAGTT
1 TGTGAGAGAGTT
40791181 TGTGAGAGAGTT
1 TGTGAGAGAGTT
40791193 TGT
1 TGT
40791196 ATACCGAGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.41, T:0.37
Consensus pattern (12 bp):
TGTGAGAGAGTT
Found at i:40794728 original size:28 final size:28
Alignment explanation
Indices: 40794688--40794748 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
40794678 ACTGGACTGT
* *
40794688 ACTGATACTATATTGGGCTTAA-GCCCAC
1 ACTGTTACTATATAGGGC-TAAGGCCCAC
*
40794716 ACTGTTACTATATAGGGCTAAGGCCCAG
1 ACTGTTACTATATAGGGCTAAGGCCCAC
40794744 ACTGT
1 ACTGT
40794749 ACTGATACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (28 bp):
ACTGTTACTATATAGGGCTAAGGCCCAC
Found at i:40795729 original size:17 final size:17
Alignment explanation
Indices: 40795686--40795730 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
40795676 TATTATTTAT
*
40795686 TTATTATATTGTTGGAA
1 TTATAATATTGTTGGAA
*
40795703 TTGA-ATTATTGTTGGAA
1 TT-ATAATATTGTTGGAA
40795720 TTATAATATTG
1 TTATAATATTG
40795731 AATTGGGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (17 bp):
TTATAATATTGTTGGAA
Found at i:40795976 original size:40 final size:41
Alignment explanation
Indices: 40795879--40795987 Score: 132
Period size: 40 Copynumber: 2.7 Consensus size: 41
40795869 TTCTATTCTC
* *
40795879 CTCTTATGAGCTTCTGTTCAACTCTTATGATTTTCTGTTTAA
1 CTCTTATGAGCTTCTGTTCAACTCTTA-GAATTTCTGTTCAA
* * *
40795921 CTCTTACGAGCTTCTGTTCAACT-TTCA-AATTTGTGTTCAG
1 CTCTTATGAGCTTCTGTTCAACTCTT-AGAATTTCTGTTCAA
*
40795961 CTCTTATGAGCTTCTGTTCAGCTCTTA
1 CTCTTATGAGCTTCTGTTCAACTCTTA
40795988 CGAGCTTCTG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 31 0.53
41 4 0.07
42 23 0.40
ACGTcount: A:0.18, C:0.22, G:0.14, T:0.46
Consensus pattern (41 bp):
CTCTTATGAGCTTCTGTTCAACTCTTAGAATTTCTGTTCAA
Found at i:40795997 original size:21 final size:21
Alignment explanation
Indices: 40795879--40795999 Score: 120
Period size: 21 Copynumber: 5.9 Consensus size: 21
40795869 TTCTATTCTC
*
40795879 CTCTTATGAGCTTCTGTTCAA
1 CTCTTACGAGCTTCTGTTCAA
* ** *
40795900 CTCTTATGATTTTCTGTTTAA
1 CTCTTACGAGCTTCTGTTCAA
40795921 CTCTTACGAGCTTCTGTTCAA
1 CTCTTACGAGCTTCTGTTCAA
* ** * *
40795942 CT-TT-CAAATTTGTGTTCAG
1 CTCTTACGAGCTTCTGTTCAA
* *
40795961 CTCTTATGAGCTTCTGTTCAG
1 CTCTTACGAGCTTCTGTTCAA
40795982 CTCTTACGAGCTTCTGTT
1 CTCTTACGAGCTTCTGTT
40796000 GGCGTATTCA
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
19 12 0.15
20 4 0.05
21 64 0.80
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.45
Consensus pattern (21 bp):
CTCTTACGAGCTTCTGTTCAA
Found at i:40796219 original size:20 final size:20
Alignment explanation
Indices: 40796174--40796240 Score: 100
Period size: 20 Copynumber: 3.3 Consensus size: 20
40796164 TAGAAGTTAC
*
40796174 GAATGAC-AGGAAATTGTCAGT
1 GAATGACAAGG-AATTGACA-T
40796195 GAATGACAAGGAATTGACAT
1 GAATGACAAGGAATTGACAT
40796215 GAATGACAAGGAATTGACAT
1 GAATGACAAGGAATTGACAT
40796235 GAATGA
1 GAATGA
40796241 TTTTATTTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 27 0.61
21 14 0.32
22 3 0.07
ACGTcount: A:0.43, C:0.09, G:0.27, T:0.21
Consensus pattern (20 bp):
GAATGACAAGGAATTGACAT
Found at i:40801123 original size:144 final size:144
Alignment explanation
Indices: 40800846--40801128 Score: 413
Period size: 144 Copynumber: 2.0 Consensus size: 144
40800836 GACAATTGGG
* * * *
40800846 TGATTTGTGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
***** * * * * * *
40800911 TAAGACCATGTCTAGGACATGGCATTGGTGTTGATATGTGTGCTAGTGTAAGACCAAGTCTGGGA
66 TAAGACCATGTCTAGGACATGGCATCAACCTCGACATGTGAGCCAGTGTAAGACCAAGTCTAGAA
40800976 CATGGCATCGGCGT
131 CATGGCATCGGCGT
40800990 TGATATGTGTGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
1 TGATATGTGTGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
* *
40801055 TAAGACCATGTCTGGGACATGGCATCAACCTCGACATGTGAGCCAGTGTAAGACCATGTCTAGAA
66 TAAGACCATGTCTAGGACATGGCATCAACCTCGACATGTGAGCCAGTGTAAGACCAAGTCTAGAA
40801120 CATGGCATC
131 CATGGCATC
40801129 AGCAATCTAC
Statistics
Matches: 122, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
144 122 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (144 bp):
TGATATGTGTGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCACATTATGAGAGCCAGTG
TAAGACCATGTCTAGGACATGGCATCAACCTCGACATGTGAGCCAGTGTAAGACCAAGTCTAGAA
CATGGCATCGGCGT
Found at i:40801129 original size:48 final size:48
Alignment explanation
Indices: 40800859--40801128 Score: 292
Period size: 48 Copynumber: 5.6 Consensus size: 48
40800849 TTTGTGTGCT
* * * *
40800859 AGTGTAAGACCATGTTTGGGACATGGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA-TATGTGAGCC
* ** * * *
40800907 AGTGTAAGACCATGTCTAGGACATGGCATTGGTGTTGATATGTGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCC
* * * * * *
40800955 AGTGTAAGACCAAGTCTGGGACATGGCATCGGCGTTGATATGTGTGCT
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCC
* * *
40801003 AGTGTAAAACCATGTCTAGGACATGGCATCGGCCAC-ATTATGAGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGA-TATGTGAGCC
* ** *
40801051 AGTGTAAGACCATGTCTGGGACATGGCATCAACCTCGACATGTGAGCC
1 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCC
*
40801099 AGTGTAAGACCATGTCTAGAACATGGCATC
1 AGTGTAAGACCATGTCTAGGACATGGCATC
40801129 AGCAATCTAC
Statistics
Matches: 187, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.01
48 184 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATATGTGAGCC
Found at i:40804125 original size:15 final size:17
Alignment explanation
Indices: 40804091--40804127 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
40804081 TCAAATCATA
40804091 ATAATTAACCAAATATT
1 ATAATTAACCAAATATT
*
40804108 ATAATT-ACCATA-ATT
1 ATAATTAACCAAATATT
40804123 ATAAT
1 ATAAT
40804128 CATGTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
16 5 0.26
17 6 0.32
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTAACCAAATATT
Found at i:40806552 original size:19 final size:19
Alignment explanation
Indices: 40806528--40806582 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 19
40806518 CTATTCGGCC
40806528 AAAGCATGCACCATCTATA
1 AAAGCATGCACCATCTATA
* ** * *
40806547 AAAGCATGAACCAAATTTT
1 AAAGCATGCACCATCTATA
40806566 AAAGCATGCACCATCTA
1 AAAGCATGCACCATCTA
40806583 ACATGTTTAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.44, C:0.24, G:0.11, T:0.22
Consensus pattern (19 bp):
AAAGCATGCACCATCTATA
Found at i:40809231 original size:24 final size:23
Alignment explanation
Indices: 40809202--40809315 Score: 97
Period size: 23 Copynumber: 4.9 Consensus size: 23
40809192 TAGCTCTTCA
40809202 TGAGCTGATAACAGTAAGCTCTAT
1 TGAGCTGA-AACAGTAAGCTCTAT
* * *
40809226 TGAGCTAAAAACTGTAAGCTCTGT
1 TGAGCT-GAAACAGTAAGCTCTAT
* *
40809250 TAAGCTG-AACAATAAGCTCT-T
1 TGAGCTGAAACAGTAAGCTCTAT
* * * * *
40809271 TCAAGATGAACCAGTAAGCTCCAA
1 T-GAGCTGAAACAGTAAGCTCTAT
40809295 TGAGCTGAAACAGTAAGCTCT
1 TGAGCTGAAACAGTAAGCTCT
40809316 TACAAGCTAT
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
21 2 0.03
22 16 0.23
23 26 0.37
24 25 0.36
25 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTAT
Found at i:40809268 original size:22 final size:23
Alignment explanation
Indices: 40809240--40809291 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
40809230 CTAAAAACTG
*
40809240 TAAGCTCTGTT-AAGCTGAA-CAA
1 TAAGCTCT-TTCAAGATGAACCAA
*
40809262 TAAGCTCTTTCAAGATGAACCAG
1 TAAGCTCTTTCAAGATGAACCAA
40809285 TAAGCTC
1 TAAGCTC
40809292 CAATGAGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 2 0.08
22 15 0.58
23 9 0.35
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (23 bp):
TAAGCTCTTTCAAGATGAACCAA
Found at i:40816831 original size:24 final size:23
Alignment explanation
Indices: 40816777--40816866 Score: 87
Period size: 24 Copynumber: 3.8 Consensus size: 23
40816767 AAAACATGGT
40816777 CAGTAAGCTCTTCA-TGAGCTAATAA
1 CAGTAAGCT-TT-ATTGAGCTAA-AA
40816802 CAGTAAGCTTTATTGAGCTGAAAA
1 CAGTAAGCTTTATTGAGCT-AAAA
* *
40816826 CGGTAAGCTCTATTGAGCT-AAA
1 CAGTAAGCTTTATTGAGCTAAAA
*
40816848 CAGTCAGCTCTT-TTGAGCT
1 CAGTAAGCT-TTATTGAGCT
40816867 GAATTAGTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
22 17 0.30
23 2 0.04
24 27 0.47
25 11 0.19
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (23 bp):
CAGTAAGCTTTATTGAGCTAAAA
Found at i:40816912 original size:23 final size:23
Alignment explanation
Indices: 40816777--40816912 Score: 107
Period size: 23 Copynumber: 5.8 Consensus size: 23
40816767 AAAACATGGT
*
40816777 CAGTAAGCTCTTCATGAGCTAATAA
1 CAGTAAGCTCTT-ATGAGCTGA-AA
40816802 CAGTAAGCT-TTATTGAGCTGAAAA
1 CAGTAAGCTCTTA-TGAGCTG-AAA
*
40816826 CGGTAAGCTC-TATTGAGCT-AAA
1 CAGTAAGCTCTTA-TGAGCTGAAA
* * *
40816848 CAGTCAGCTCTTTTGAGCTGAAT
1 CAGTAAGCTCTTATGAGCTGAAA
* ** *
40816871 TAGTAAGCTCCAATAAGCTGAAA
1 CAGTAAGCTCTTATGAGCTGAAA
* *
40816894 TAGTAAGCTCTTACGAGCT
1 CAGTAAGCTCTTATGAGCT
40816913 ATGGTGAGTC
Statistics
Matches: 89, Mismatches: 17, Indels: 12
0.75 0.14 0.10
Matches are distributed among these distances:
22 17 0.19
23 35 0.39
24 27 0.30
25 10 0.11
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (23 bp):
CAGTAAGCTCTTATGAGCTGAAA
Found at i:40825435 original size:28 final size:28
Alignment explanation
Indices: 40825402--40825456 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
40825392 CTAAAGAGAT
40825402 TGGAAGACGTCAGAAAAATAGAAAGGTA
1 TGGAAGACGTCAGAAAAATAGAAAGGTA
40825430 TGGAAGACGTCAGAAAAATAGAAAGGT
1 TGGAAGACGTCAGAAAAATAGAAAGGT
40825457 CACCAAAGTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.49, C:0.07, G:0.29, T:0.15
Consensus pattern (28 bp):
TGGAAGACGTCAGAAAAATAGAAAGGTA
Found at i:40829080 original size:80 final size:79
Alignment explanation
Indices: 40828996--40829167 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
40828986 GGACTAAGAT
*
40828996 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
40829060 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
40829076 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
40829141 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
40829155 CCGAAGGCATTTG
1 CCGAAGGCATTTG
40829168 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:40829147 original size:39 final size:39
Alignment explanation
Indices: 40828943--40829165 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
40828933 TTGAATGCTG
* * * * *
40828943 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
40828983 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
40829022 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
40829063 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
40829103 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
40829142 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40829166 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:40829185 original size:79 final size:80
Alignment explanation
Indices: 40829023--40829200 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
40829013 AGATACAAAT
* * * *
40829023 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
40829088 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
40829103 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
40829167 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
40829182 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
40829201 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:40836417 original size:80 final size:79
Alignment explanation
Indices: 40836333--40836504 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
40836323 GGACTAAGAT
*
40836333 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
40836397 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
40836413 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
40836478 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
40836492 CCGAAGGCATTTG
1 CCGAAGGCATTTG
40836505 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:40836484 original size:39 final size:39
Alignment explanation
Indices: 40836280--40836502 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
40836270 TTGAATGCTG
* * * * *
40836280 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
40836320 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
40836359 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
40836400 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
40836440 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
40836479 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40836503 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:40836522 original size:79 final size:79
Alignment explanation
Indices: 40836360--40836539 Score: 193
Period size: 79 Copynumber: 2.3 Consensus size: 79
40836350 AGATACAAAT
* * * *
40836360 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
40836425 GTGCGAGTTATTAAA
65 GAACGAGTGACTAAA
* * * * *
40836440 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
*
40836505 AACGAG-GAGCTATA
66 AACGAGTGA-CTAAA
*
40836519 TCC-GGTTAAATCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCA
40836540 CGTGATTTGG
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
78 17 0.20
79 48 0.58
80 18 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:40843931 original size:110 final size:110
Alignment explanation
Indices: 40843734--40844140 Score: 462
Period size: 110 Copynumber: 3.7 Consensus size: 110
40843724 TGAGTCGGTA
* * * * * * * *
40843734 ATACAAACCGTAGCACTGGCTTGAGATCCTGCATGTGTTGCGGATTCTTTGCAGCTTGTGTGAGT
1 ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
* *
40843799 AGCATCGTGAGCCCGTGATTATTTAGCAAGTACTATGTACTAGTG
66 AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATGTACTAGTG
* * * * * *
40843844 ATATAAACCGTAGCAATGGCTTAAGATCTTGCATGTGTTGCAGAATCTCTACAGCTTGTGTGAGT
1 ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
*
40843909 AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATATACTAGTG
66 AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATGTACTAGTG
* * *
40843954 ATACAAACTGTAG-AGATAGCTTGAGATCCTACATGTGTTGCGGATTCTCTACAGCTTGTGTGAG
1 ATACAAACCGTAGCA-ATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAG
* * * * *
40844018 CAGCA-CTGTGAACCAATGATTATTTAG-TAGCTACTATGTA-TCGCTG
65 CAGCATC-ATGAGCCAGTGATTATTTAGCAAG-TACTATGTACTAG-TG
*** ** *
40844064 ATACAAACCGTAATGATAGCTTAAGATCCTACACATGTTGCAGATTCTCTGCAGCTTGTGTGAGC
1 ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
*
40844129 AACATCATGAGC
66 AGCATCATGAGC
40844141 AAGTTAGAAA
Statistics
Matches: 254, Mismatches: 37, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
109 6 0.02
110 247 0.97
111 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (110 bp):
ATACAAACCGTAGCAATAGCTTAAGATCCTACATGTGTTGCAGATTCTCTACAGCTTGTGTGAGC
AGCATCATGAGCCAGTGATTATTTAGCAAGTACTATGTACTAGTG
Found at i:40845169 original size:27 final size:27
Alignment explanation
Indices: 40845095--40845174 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
40845085 GTGTTACAGA
*
40845095 CATACTCTGTATATATAGCCTGTGTGG
1 CATACTCTGTATATATAGCCTTTGTGG
* *
40845122 CATACTCTGTATTTATGGCCTTTGTGG
1 CATACTCTGTATATATAGCCTTTGTGG
** *
40845149 CATACTCTGTATGGATCGCCTTTGTG
1 CATACTCTGTATATATAGCCTTTGTG
40845175 ATGTATTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.17, C:0.20, G:0.23, T:0.40
Consensus pattern (27 bp):
CATACTCTGTATATATAGCCTTTGTGG
Found at i:40848328 original size:123 final size:123
Alignment explanation
Indices: 40848108--40848355 Score: 424
Period size: 123 Copynumber: 2.0 Consensus size: 123
40848098 CGAAATCTCA
*
40848108 CTTGAATAAAACATGTAAAGAACACGATTGAATTGGAAGAGAAAAGAGATTAGAATAATCTTGAT
1 CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
* * *
40848173 TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCTCAAACTCGGTCTAGACGTTATGG
66 TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCCCAAACCCAGTCTAGACGTTATGG
40848231 CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
1 CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
** * *
40848296 TTTGATGTTGAGTAGAGCCCAGAGTTGTAACCTCCCAAACCCAGTCTAGACGTTATGG
66 TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCCCAAACCCAGTCTAGACGTTATGG
40848354 CT
1 CT
40848356 AGATTGAGAA
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 117 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (123 bp):
CTTGAATAAAACATGTAAAGAACACGATTGAATTGAAAGAGAAAAGAGATTAGAATAATCTTGAT
TTTGATGGCGAGTAGAGCCCAGACTTGGAACCTCCCAAACCCAGTCTAGACGTTATGG
Found at i:40850827 original size:40 final size:40
Alignment explanation
Indices: 40850722--40850897 Score: 275
Period size: 40 Copynumber: 4.4 Consensus size: 40
40850712 TGGATGATAA
* *
40850722 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
40850762 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
40850801 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
40850841 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
40850881 CCGGGCTAAGTCCCGAA
1 CCGGGCTAAGTCCCGAA
40850898 TGTAACACCC
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 34 0.27
40 92 0.73
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:40850889 original size:80 final size:79
Alignment explanation
Indices: 40850718--40850897 Score: 281
Period size: 79 Copynumber: 2.3 Consensus size: 79
40850708 TATTTGGATG
* *
40850718 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATGCCGGGCTAAGCCCGAAGGCAT
40850783 TTGTGCGAGCTACT
66 TTGTGCGAGCTACT
* * *
40850797 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAGCTGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-GCCGGGCTAAG-CCCGAAGGC
*
40850861 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGCTACT
40850877 ATAACCGGGCTAAGTCCCGAA
1 ATAACCGGGCTAAGTCCCGAA
40850898 TGTAACACCC
Statistics
Matches: 92, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
78 2 0.02
79 46 0.50
80 44 0.48
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATGCCGGGCTAAGCCCGAAGGCAT
TTGTGCGAGCTACT
Found at i:40852334 original size:80 final size:78
Alignment explanation
Indices: 40852234--40852455 Score: 248
Period size: 80 Copynumber: 2.8 Consensus size: 78
40852224 CTCGTTCAAG
* * * *
40852234 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCATACAATGCCTTCGGGACTTAACCCGGATTTT
1 TGCCTTCGGGACTTAGCCCGG-TATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGA-ATT
* *
40852299 AGTAACTCGCACGAA
64 AATAACTCGCACAAA
* * * *
40852314 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCACACAAA-GCCTTCGGGACTTAACCCGGAATT
40852379 AATAACTCGCACAAA
64 AATAACTCGCACAAA
* * * *
40852394 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CTTAGCCCGG-TATAGTAACTCA-CACAAAGCCTTCGGGACTTAACCCGGA
40852456 CAGCATTCAA
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
79 4 0.03
80 87 0.73
81 28 0.24
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
TGCCTTCGGGACTTAGCCCGGTATAGTAACTCACACAAAGCCTTCGGGACTTAACCCGGAATTAA
TAACTCGCACAAA
Found at i:40852341 original size:40 final size:39
Alignment explanation
Indices: 40852234--40852455 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
40852224 CTCGTTCAAG
* * * **
40852234 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATACAA
1 TGCCTTCGGGACTTAACCCGGAAT-TAGTAACTCGCACAA
*
40852273 TGCCTTCGGGACTTAACCCGGATTTTAGTAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGA-ATTAGTAACTCGCAC-AA
*
40852314 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCAC-AA
* *
40852354 GGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCAC-AA
** * *
40852394 TGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAA
1 TGCCTTCGGGA-CTTAACCCGGAAT-TAGTAAC-TCGCACAA
* *
40852434 AGCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGACTTAACCCGGA
40852456 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 18, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
39 24 0.15
40 99 0.63
41 34 0.22
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGACTTAACCCGGAATTAGTAACTCGCACAA
Found at i:40859694 original size:40 final size:40
Alignment explanation
Indices: 40859611--40859913 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
40859601 TTGAATGCTG
* * * * * *
40859611 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
40859651 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40859691 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40859731 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40859771 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40859811 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40859851 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40859890 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40859914 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.15
40 196 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:40879603 original size:40 final size:40
Alignment explanation
Indices: 40879520--40879822 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
40879510 TTGAATGCTG
* * * * * *
40879520 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
40879560 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40879600 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
40879640 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40879680 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
40879720 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40879760 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
40879799 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
40879823 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.15
40 196 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:40885046 original size:27 final size:27
Alignment explanation
Indices: 40885016--40885069 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
40885006 TCATACAACC
* *
40885016 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
40885043 CATGTAACAATAATTTTCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
40885070 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.41
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:40888701 original size:27 final size:27
Alignment explanation
Indices: 40888671--40888726 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
40888661 TATTAAATAT
40888671 ATTTTAAATATTATTAATTAATTTCTA
1 ATTTTAAATATTATTAATTAATTTCTA
40888698 ATTTTAAATATTATTAATTAATTTCTA
1 ATTTTAAATATTATTAATTAATTTCTA
40888725 AT
1 AT
40888727 CATATATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (27 bp):
ATTTTAAATATTATTAATTAATTTCTA
Found at i:40892774 original size:19 final size:19
Alignment explanation
Indices: 40892750--40892789 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
40892740 GATGTTGAGA
40892750 GAAAGATGATAATTCTATT
1 GAAAGATGATAATTCTATT
40892769 GAAAGATGATAATTCTATT
1 GAAAGATGATAATTCTATT
40892788 GA
1 GA
40892790 TTTGTGTGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.17, T:0.35
Consensus pattern (19 bp):
GAAAGATGATAATTCTATT
Found at i:40897270 original size:490 final size:491
Alignment explanation
Indices: 40896313--40897294 Score: 1795
Period size: 490 Copynumber: 2.0 Consensus size: 491
40896303 TTGCTGGATA
* * *
40896313 TGGGAATATGCTTTGCTCGAGAGAAGGAAAAAAGGGTTTTTTCCAAGAACTTGTATCTTGATCTA
1 TGGGAATATGCTTTGCTCAAGAGAAGGAAAAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
40896378 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
66 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
40896443 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
131 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
* * *
40896508 GAAATTGTCATCACCTTGCTTTGTGCTATGGACTTTATCCCAAAATTCGAAGATGTAAACTTCAT
196 GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
*
40896573 TCTCGTTCGTGAGTTGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
261 TCTCGTTCGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
40896638 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
326 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
* *
40896703 AGGTGGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATTCTCTAGTC
391 AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTCTAGTC
*
40896768 AAAATGATCAATAAGAAAGAAAGTGACAATGCAAGG
456 AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
* * *
40896804 TGGGAATATGCTTTGGTCAAGTGAAGG-AGAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
1 TGGGAATATGCTTTGCTCAAGAGAAGGAAAAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
**
40896868 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCGTTCCTTTTCAACCAAAATTTGAA
66 ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
40896933 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
131 ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
40896998 GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
196 GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
* *
40897063 TCTCGTTTGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCGTATGCTCAGGAAAT
261 TCTCGTTCGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
40897128 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
326 TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
*
40897193 AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTTTAGTC
391 AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTCTAGTC
40897258 AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
456 AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
40897294 T
1 T
40897295 ATTTGTTCCC
Statistics
Matches: 473, Mismatches: 18, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
490 449 0.95
491 24 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (491 bp):
TGGGAATATGCTTTGCTCAAGAGAAGGAAAAAAGGGGTTTTTCCAAGAACTTGAATCTTGATCTA
ATTATACTCATTGTTCAACTTGATTAGAAAATCATAAACCCAATCCTTTTCAACCAAAATTTGAA
ATTTGATTGCATTTGGTAATAATCAAGTTCCTGTCATAAGCCACTCAATTCAAGAAAAGTAATGA
GAAATTGTCATCACCTTGCTTTGTGCTATGGACCTTATCCCAAAATTCAAAGATCTAAACTTCAT
TCTCGTTCGTGAGTAGGTAAGATTGCATTTCATGTTTTTTCTGCAATGTCATATGCTCAGGAAAT
TTGGGGCTGCATAGAGTTGATAAGCCGTGCCATAACAAGTGAGTTCTCTAAGTCTCACTGATTAA
AGGTAGGATCTTTTATCAATGGTTTCCACTTATCACCATTAATATAACCTTGCAATCCTCTAGTC
AAAATGATCAATAAAAAAGAAAGTGACAATGCAAGG
Found at i:40899092 original size:63 final size:63
Alignment explanation
Indices: 40898993--40899118 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
40898983 CTGTCTGCTG
* *
40898993 GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCTTGAAGAGCGTAGCAAAACTA
1 GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
* **
40899056 GCACTGATATTGAGGTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
1 GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
40899119 TGGTAGAAAG
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.24
Consensus pattern (63 bp):
GCACTGACATTGAACTAGAAGAAAAAATGGATAATTTGTCTCCTGAAGAGCATAGCAAAACTA
Found at i:40899831 original size:25 final size:25
Alignment explanation
Indices: 40899803--40899854 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
40899793 GATACACCCT
*
40899803 TTTTATTTGGGTATATAGAAAGGAA
1 TTTTATTTGGGTATATAGAAAGAAA
40899828 TTTTATTTGGGTATATAGAAAGAAA
1 TTTTATTTGGGTATATAGAAAGAAA
40899853 TT
1 TT
40899855 CAATGGGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (25 bp):
TTTTATTTGGGTATATAGAAAGAAA
Found at i:40899861 original size:23 final size:25
Alignment explanation
Indices: 40899810--40899861 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
40899800 CCTTTTTATT
* * *
40899810 TGGGTATATAGAAAGGAATTTTATT
1 TGGGTATATAGAAAGGAAATTCATA
40899835 TGGGTATATAGAAA-GAAATTCA-A
1 TGGGTATATAGAAAGGAAATTCATA
40899858 TGGG
1 TGGG
40899862 GAATGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 4 0.17
24 6 0.25
25 14 0.58
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (25 bp):
TGGGTATATAGAAAGGAAATTCATA
Found at i:40900692 original size:8 final size:8
Alignment explanation
Indices: 40900675--40900713 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
40900665 CTAGAAAGGG
40900675 TTTTTA-T
1 TTTTTATT
40900682 TTTTTATT
1 TTTTTATT
*
40900690 TTTTATTTT
1 TTTT-TATT
40900699 TTTTTATT
1 TTTTTATT
40900707 TTTTTAT
1 TTTTTAT
40900714 GGTGGTTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.21
8 15 0.54
9 7 0.25
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTATT
Found at i:40900710 original size:7 final size:7
Alignment explanation
Indices: 40900675--40900700 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
40900665 CTAGAAAGGG
40900675 TTTTTAT
1 TTTTTAT
40900682 TTTTTAT
1 TTTTTAT
40900689 TTTTTAT
1 TTTTTAT
40900696 TTTTT
1 TTTTT
40900701 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:40901100 original size:17 final size:17
Alignment explanation
Indices: 40901078--40901114 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
40901068 TCAAATTAGT
40901078 TGGCTTGTGAATCAATA
1 TGGCTTGTGAATCAATA
40901095 TGGCTTGTGAATCAATA
1 TGGCTTGTGAATCAATA
40901112 TGG
1 TGG
40901115 ACCAATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.35
Consensus pattern (17 bp):
TGGCTTGTGAATCAATA
Found at i:40902460 original size:64 final size:64
Alignment explanation
Indices: 40902382--40902509 Score: 256
Period size: 64 Copynumber: 2.0 Consensus size: 64
40902372 TACTGATTTG
40902382 TTATATGATTTGTTTGCCATGATGCATTACATGGGGTTGGAACATGTGCAAGGAAGAAGATGTT
1 TTATATGATTTGTTTGCCATGATGCATTACATGGGGTTGGAACATGTGCAAGGAAGAAGATGTT
40902446 TTATATGATTTGTTTGCCATGATGCATTACATGGGGTTGGAACATGTGCAAGGAAGAAGATGTT
1 TTATATGATTTGTTTGCCATGATGCATTACATGGGGTTGGAACATGTGCAAGGAAGAAGATGTT
40902510 GGTAGTAATA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.28, C:0.09, G:0.28, T:0.34
Consensus pattern (64 bp):
TTATATGATTTGTTTGCCATGATGCATTACATGGGGTTGGAACATGTGCAAGGAAGAAGATGTT
Found at i:40902625 original size:46 final size:46
Alignment explanation
Indices: 40902521--40902648 Score: 125
Period size: 46 Copynumber: 2.7 Consensus size: 46
40902511 GTAGTAATAA
* * * * *
40902521 TCTGCAAATTTGGTGGTTTATCCACAACCTACATGTTTTGGCAGCTTG
1 TCTGCAAATTTGGTGG-CTGTCCACAA-CTATATGTATTAGCAGCTTG
* ** *
40902569 TTTGTGAATTTGGTGGCTGTCCACAACTATATGTATTAGTAGCTTG
1 TCTGCAAATTTGGTGGCTGTCCACAACTATATGTATTAGCAGCTTG
40902615 TCTGCAAATTTGGTGGCTTCGTCCAC-A-TATATGT
1 TCTGCAAATTTGGTGGC-T-GTCCACAACTATATGT
40902649 TGGTGTGTTT
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 37 0.56
47 10 0.15
48 19 0.29
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (46 bp):
TCTGCAAATTTGGTGGCTGTCCACAACTATATGTATTAGCAGCTTG
Found at i:40905479 original size:22 final size:22
Alignment explanation
Indices: 40905451--40905500 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
40905441 AAACCGAAAT
* *
40905451 ACCACCCAACAACCATCATATC
1 ACCACCCAAAAACCAACATATC
*
40905473 ACCACCCAAAAACTAACATATC
1 ACCACCCAAAAACCAACATATC
40905495 ACCACC
1 ACCACC
40905501 ATTAAACCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.12
Consensus pattern (22 bp):
ACCACCCAAAAACCAACATATC
Found at i:40907595 original size:47 final size:47
Alignment explanation
Indices: 40907523--40907652 Score: 176
Period size: 47 Copynumber: 2.8 Consensus size: 47
40907513 ACAATCGATA
*
40907523 AGTACCTATACCAT-AGCCCGTAGCCAAATCAAGGTAACTTATC-CTAG
1 AGTACCTATACCATGA-CCCGTAGCCAAATCAAGGTAACTCATCTCT-G
40907570 AGTACCTATACCATGACCCAG-AGCCAAATCAAGGTAACTCATCTCTG
1 AGTACCTATACCATGACCC-GTAGCCAAATCAAGGTAACTCATCTCTG
* * *
40907617 AATACCTATACAATGGCCCGTAGCCAAATCAAGGTA
1 AGTACCTATACCATGACCCGTAGCCAAATCAAGGTA
40907653 TTATTCACAC
Statistics
Matches: 75, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
46 1 0.01
47 70 0.93
48 4 0.05
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (47 bp):
AGTACCTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCTCTG
Found at i:40915915 original size:19 final size:19
Alignment explanation
Indices: 40915891--40915931 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
40915881 AACATTAAAA
*
40915891 TCTATTAATAATTATTCAT
1 TCTATTAACAATTATTCAT
40915910 TCTATTAACAATTATTCAT
1 TCTATTAACAATTATTCAT
40915929 TCT
1 TCT
40915932 CCATCATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (19 bp):
TCTATTAACAATTATTCAT
Found at i:40924334 original size:40 final size:41
Alignment explanation
Indices: 40924273--40924424 Score: 193
Period size: 40 Copynumber: 3.8 Consensus size: 41
40924263 CATTTGAATG
*** * *
40924273 ATATCCGGGCTAAGTTTCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
40924313 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
*
40924353 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
* * *
40924393 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
40924425 TTGTGGTTAT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
40 97 0.97
41 3 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (41 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATT
Found at i:40924436 original size:80 final size:80
Alignment explanation
Indices: 40924273--40924444 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
40924263 CATTTGAATG
*** * * * *
40924273 ATATCCGGGCTAAGTTTCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
* *
40924338 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
40924353 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATACCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATACCCGGGCTAAGACCCGAAGGC
** *
40924417 AATTGTGCTTGTGGTT
65 AATTGTGCGAGTGGAT
40924433 ATATCC-GGCTAA
1 ATATCCGGGCTAA
40924445 ATTCCGAAGA
Statistics
Matches: 77, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
79 6 0.08
80 69 0.90
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATACCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:40925943 original size:27 final size:27
Alignment explanation
Indices: 40925913--40926020 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
40925903 TTTTAGACTT
* *
40925913 TGCCATAAAGGCTAGTCTTTTGTAATA
1 TGCCACAAAGGCTATTCTTTTGTAATA
* * *
40925940 TGCCACAAAGGGTATTCTTTT-AAACTT
1 TGCCACAAAGGCTATTCTTTTGTAA-TA
*
40925967 TTCCACAAAGGCTATTCTTTTGTAATA
1 TGCCACAAAGGCTATTCTTTTGTAATA
*** *
40925994 CATCACAAAGGCTATTCTTTTGCAATA
1 TGCCACAAAGGCTATTCTTTTGTAATA
40926021 CATCATAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
26 2 0.03
27 62 0.94
28 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.37
Consensus pattern (27 bp):
TGCCACAAAGGCTATTCTTTTGTAATA
Found at i:40925986 original size:54 final size:54
Alignment explanation
Indices: 40925901--40926014 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
40925891 TACAACTCAA
* * ** *
40925901 TCTTTTAGACTTTGCCATAAAGGCTAGTCTTTTGTAATATGCCACAAAGGGTAT
1 TCTTTTAAACTTTGCCACAAAGGCTAGTCTTTTGTAATACACCACAAAGGCTAT
* * *
40925955 TCTTTTAAACTTTTCCACAAAGGCTATTCTTTTGTAATACATCACAAAGGCTAT
1 TCTTTTAAACTTTGCCACAAAGGCTAGTCTTTTGTAATACACCACAAAGGCTAT
40926009 TCTTTT
1 TCTTTT
40926015 GCAATACATC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.40
Consensus pattern (54 bp):
TCTTTTAAACTTTGCCACAAAGGCTAGTCTTTTGTAATACACCACAAAGGCTAT
Found at i:40926021 original size:27 final size:27
Alignment explanation
Indices: 40925970--40926041 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
40925960 TAAACTTTTC
*
40925970 CACAAAGGCTATTCTTTTGTAATACAT
1 CACAAAGGCTATTCTTTTGCAATACAT
40925997 CACAAAGGCTATTCTTTTGCAATACAT
1 CACAAAGGCTATTCTTTTGCAATACAT
* *
40926024 CATAAAGGCCATTCTTTT
1 CACAAAGGCTATTCTTTT
40926042 TTGACATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (27 bp):
CACAAAGGCTATTCTTTTGCAATACAT
Found at i:40926031 original size:54 final size:53
Alignment explanation
Indices: 40925901--40926041 Score: 133
Period size: 54 Copynumber: 2.6 Consensus size: 53
40925891 TACAACTCAA
* * * ** *
40925901 TCTTTTAGACTTTGCCATAAAGGCTAGTCTTTTGTAATATGCCACAAAGGGTAT
1 TCTTTTAAACTAT-CCATAAAGGCTATTCTTTTGTAATACACCACAAAGGCTAT
* * *
40925955 TCTTTTAAACTTTTCCACAAAGGCTATTCTTTTGTAATACATCACAAAGGCTAT
1 TCTTTTAAAC-TATCCATAAAGGCTATTCTTTTGTAATACACCACAAAGGCTAT
*
40926009 TCTTTTGCAATAC-AT-CATAAAGGCCATTCTTTT
1 TCTTTT--AA-ACTATCCATAAAGGCTATTCTTTT
40926042 TTGACATTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
54 65 0.89
55 4 0.05
56 2 0.03
57 2 0.03
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (53 bp):
TCTTTTAAACTATCCATAAAGGCTATTCTTTTGTAATACACCACAAAGGCTAT
Found at i:40929894 original size:40 final size:40
Alignment explanation
Indices: 40929839--40930053 Score: 337
Period size: 40 Copynumber: 5.4 Consensus size: 40
40929829 GATGACATCT
40929839 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
40929879 GGGCTAAGTCTCGAAGGCA-TTGTGCTAGTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
* *
40929918 GGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
* *
40929958 GGGCTAAGTCCCGAAGGCATTTTTGCTATTGACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
*
40929998 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTATATCC
*
40930038 -GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
40930054 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 52 0.32
40 109 0.67
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCC
Found at i:40929973 original size:79 final size:80
Alignment explanation
Indices: 40929839--40930053 Score: 337
Period size: 79 Copynumber: 2.7 Consensus size: 80
40929829 GATGACATCT
* *
40929839 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCA-TTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
40929903 CTAGTGACTATATCC
66 CTAGTGACTATATCC
* *
40929918 GGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTTTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
*
40929983 CTATTGACTATATCC
66 CTAGTGACTATATCC
* *
40929998 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTATATCCGGGCTAAGTCCCGAAGG
40930054 TACTTGGGTT
Statistics
Matches: 126, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
79 71 0.56
80 52 0.41
81 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (80 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
CTAGTGACTATATCC
Found at i:40930050 original size:119 final size:119
Alignment explanation
Indices: 40929839--40930053 Score: 344
Period size: 119 Copynumber: 1.8 Consensus size: 119
40929829 GATGACATCT
*
40929839 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCATTGTGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGTGC
* *
40929904 TAGTGACTATATCCGGGCTAAGCCCCGAAGGCATTTGTGCTATTGACTATATCC
66 GAGTGACTATATCCGGGCTAAACCCCGAAGGCATTTGTGCTATTGACTATATCC
* *
40929958 GGGCTAAGTCCCGAAGGCATTTTTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-TTGTG
*
40930023 CGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
65 CGAG-TGACTATATCCGGGCTAAACCCCGAAGG
40930054 TACTTGGGTT
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
119 70 0.80
120 16 0.18
121 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGTGC
GAGTGACTATATCCGGGCTAAACCCCGAAGGCATTTGTGCTATTGACTATATCC
Found at i:40933347 original size:48 final size:48
Alignment explanation
Indices: 40933252--40933353 Score: 123
Period size: 48 Copynumber: 2.1 Consensus size: 48
40933242 AGCTCAATAC
* * *
40933252 CAGTCAATATTTTTCAATATCAATCAATTTATCAAAATCATTCAGTAA
1 CAGTCAATATTTTTCAATAGCAATCAATTGATCAAAATCATTAAGTAA
* * *** *
40933300 CAGTCAATATTTTTCAGTAGCGATCAATTGATCTTTATTATTAAGTAA
1 CAGTCAATATTTTTCAATAGCAATCAATTGATCAAAATCATTAAGTAA
40933348 CAGTCA
1 CAGTCA
40933354 GCCATTAGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (48 bp):
CAGTCAATATTTTTCAATAGCAATCAATTGATCAAAATCATTAAGTAA
Found at i:40933830 original size:24 final size:23
Alignment explanation
Indices: 40933792--40933836 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
40933782 CTTACATTTT
*
40933792 CAATAACATATATTCAAATTTCA
1 CAATAACACATATTCAAATTTCA
*
40933815 CAATAATCACATATTCATATTT
1 CAATAA-CACATATTCAAATTT
40933837 ATTTCATCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (23 bp):
CAATAACACATATTCAAATTTCA
Found at i:40935826 original size:51 final size:51
Alignment explanation
Indices: 40935766--40935869 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
40935756 GAAGTTAAAC
*
40935766 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTTGGAAAATTAGTTGCCT
1 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
40935817 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
1 TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
40935868 TA
1 TA
40935870 TTGATTTCTT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.33
Consensus pattern (51 bp):
TAATGCAGCGGAAAAACCATTTTTCAAGTCATTTGGGAAAATTAGTTGCCT
Found at i:40938346 original size:35 final size:35
Alignment explanation
Indices: 40938291--40938411 Score: 145
Period size: 35 Copynumber: 3.5 Consensus size: 35
40938281 CAAGGTTCAT
*
40938291 TATATCATCACATATGGCCAAATATACAAGTTAGA
1 TATAACATCACATATGGCCAAATATACAAGTTAGA
* * * * *
40938326 TAGAACATCACATGTAGCCAAATTTACAAATTCA-A
1 TATAACATCACATATGGCCAAATATACAAGTT-AGA
* * *
40938361 TATATCATCACATATGGTCGAATATACAAGTTAGA
1 TATAACATCACATATGGCCAAATATACAAGTTAGA
40938396 TATAACATCACATATG
1 TATAACATCACATATG
40938412 TACATACCTG
Statistics
Matches: 69, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
34 1 0.01
35 67 0.97
36 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.29
Consensus pattern (35 bp):
TATAACATCACATATGGCCAAATATACAAGTTAGA
Found at i:40940016 original size:27 final size:27
Alignment explanation
Indices: 40939932--40940584 Score: 843
Period size: 27 Copynumber: 24.3 Consensus size: 27
40939922 TAGTTTACCA
* ** *
40939932 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
40939959 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* *
40939986 AATTATCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940013 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40940040 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40940067 AATTACCGCAATACCCCTGTAAGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40940094 AATTACCGCAATACCTCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940121 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940148 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
40940175 AATTACC-AGAATACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
* *
40940202 AATTATCGAAAGACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940229 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40940256 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
40940283 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940310 AATTACC-AGAATA-CCTTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
40940336 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940363 AATTACC-ATATTACCCCTGTAGGGTAG
1 AATTACCGA-AATACCCCTGTAGGGTAG
40940390 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940417 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940444 AATTACCGAAATACCCATGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
40940471 AATTATCGCAATAACCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40940498 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
40940525 AATTACTAAAATACCCCTGTAGGGCAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
40940552 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
40940578 AATTACC
1 AATTACC
40940585 CTTTTGCCCC
Statistics
Matches: 565, Mismatches: 53, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
26 44 0.08
27 519 0.92
28 2 0.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:40941063 original size:22 final size:22
Alignment explanation
Indices: 40941011--40941075 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
40941001 TTAAAGCCTT
* *
40941011 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40941033 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
40941055 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
40941076 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:40941270 original size:26 final size:27
Alignment explanation
Indices: 40941234--40941307 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
40941224 ATTCTGTTAA
* *
40941234 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
40941260 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* * *
40941287 GTGACTCTGTCACAATTTCTG
1 GTGGCTCTGCCACAATATCTG
40941308 ATAACTGAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 20 0.48
27 22 0.52
ACGTcount: A:0.16, C:0.24, G:0.22, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:40941482 original size:6 final size:6
Alignment explanation
Indices: 40941467--40941557 Score: 62
Period size: 6 Copynumber: 14.8 Consensus size: 6
40941457 ATTCTGTTAC
* * *
40941467 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * *
40941516 CTAATT CTG-TCAC CTGATT CTGATT CTGGTT CT-AGTT CTGAT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGA-TT CTGAT
40941558 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
5 3 0.05
6 54 0.82
7 7 0.11
8 2 0.03
ACGTcount: A:0.19, C:0.19, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:40941495 original size:31 final size:31
Alignment explanation
Indices: 40941444--40941543 Score: 146
Period size: 31 Copynumber: 3.2 Consensus size: 31
40941434 TTGCATTCAC
*
40941444 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTAATTCTGTTACCTGATACTG
*
40941476 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTAATTCTGTTACCTGATACTG
* * *
40941507 ATTCTGATTCTAATTCTGTCACCTGATTCTG
1 ATTCTGATTTTAATTCTGTTACCTGATACTG
40941538 ATTCTG
1 ATTCTG
40941544 GTTCTAGTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
31 56 0.89
32 7 0.11
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTAATTCTGTTACCTGATACTG
Found at i:40941549 original size:31 final size:31
Alignment explanation
Indices: 40941457--40941555 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
40941447 CTGATTTTTT
* *
40941457 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTA
40941488 ATTCTGTTACCTGATACTGATTCTGATTCTA
1 ATTCTGTTACCTGATACTGATTCTGATTCTA
* * *
40941519 ATTCTGTCACCTGATTCTGATTCTGGTTCTA
1 ATTCTGTTACCTGATACTGATTCTGATTCTA
*
40941550 GTTCTG
1 ATTCTG
40941556 ATAATGTTTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.46
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTA
Found at i:40943528 original size:27 final size:27
Alignment explanation
Indices: 40943498--40943579 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
40943488 TAGAATAGTT
*
40943498 TAGTTTACCAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
**
40943525 TAGTTTGTAAAATTACCAAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
* ** * *
40943552 TGGTTTGTAAAATTATCGAAATACCCC
1 TAGTTTACAAAATTACCAAAATACCCC
40943579 T
1 T
40943580 GTAGGGTAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.38, C:0.23, G:0.09, T:0.30
Consensus pattern (27 bp):
TAGTTTACAAAATTACCAAAATACCCC
Found at i:40943592 original size:27 final size:27
Alignment explanation
Indices: 40943508--40944107 Score: 738
Period size: 27 Copynumber: 22.3 Consensus size: 27
40943498 TAGTTTACCA
* ** *
40943508 AATTACCAAAATACCCCTAGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
* ** *
40943535 AATTACCAAAATACCCCTGGT-TTGTAA
1 AATTACCGAAATACCCCT-GTAGGGTAG
*
40943562 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40943589 AATTACCGCAATACTCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
40943616 AATTACCGGAATACCCTTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40943643 AATTACCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
40943670 AATTATCGCAATAACCCTGTACGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
40943697 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40943724 AATTACTGGAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
40943751 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
40943778 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * *
40943805 AATTATCGCAATACCCATATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40943832 AATTACCGAAATACCCTTGTAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
40943859 AATTACCGGAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40943886 AATTATCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
40943913 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
40943940 AATTACCGCAATACCCCTATAGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40943967 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
40943994 AATTATCGCAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
40944021 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * *
40944048 AATTACTAAAATACCCCTATAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
40944075 AATTATCGAGATA-CCTTGTGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
40944101 AATTACC
1 AATTACC
40944108 ATTTTGCCCC
Statistics
Matches: 502, Mismatches: 70, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
26 16 0.03
27 486 0.97
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:40944586 original size:22 final size:22
Alignment explanation
Indices: 40944534--40944598 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
40944524 TTAAAGCCTT
* *
40944534 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
40944556 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
40944578 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
40944599 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:40944777 original size:25 final size:26
Alignment explanation
Indices: 40944749--40944827 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
40944739 TGCCACGTAT
* *
40944749 TCTGTT-AAGTGGCTTTGCCACATTA
1 TCTGTTCAAGTGGCTCTGCCACAATA
**
40944774 TCTGTTCTGGTGGCTCTGCCACAATA
1 TCTGTTCAAGTGGCTCTGCCACAATA
** * *
40944800 TCTGTATCTGGTGACTCTGTCACAATA
1 TCTGT-TCAAGTGGCTCTGCCACAATA
40944827 T
1 T
40944828 TGATAACTGA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.13
26 20 0.43
27 20 0.43
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (26 bp):
TCTGTTCAAGTGGCTCTGCCACAATA
Found at i:40944793 original size:26 final size:27
Alignment explanation
Indices: 40944757--40944827 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 27
40944747 ATTCTGTTAA
* *
40944757 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
40944783 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
40944810 GTGACTCTGTCACAATAT
1 GTGGCTCTGCCACAATAT
40944828 TGATAACTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
26 20 0.50
27 20 0.50
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.37
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:40944817 original size:27 final size:26
Alignment explanation
Indices: 40944764--40944827 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 26
40944754 TAAGTGGCTT
* *
40944764 TGCCACATTATCTGTTCTGGTGGCTC
1 TGCCACAATATCTGTTCTGGTGACTC
40944790 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
40944817 TGTCACAATAT
1 TGCCACAATAT
40944828 TGATAACTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 14 0.41
27 20 0.59
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.36
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:40945004 original size:6 final size:6
Alignment explanation
Indices: 40944989--40945076 Score: 90
Period size: 6 Copynumber: 14.3 Consensus size: 6
40944979 ATTCTGTTAC
* * *
40944989 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
*
40945038 CTGATT CTG-TCAC CTGATT CTGATT CTGATT CTGATT CT
1 CTGATT CTGAT--T CTGATT CTGATT CTGATT CTGATT CT
40945077 AGTTCTAATA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
5 3 0.04
6 58 0.84
7 6 0.09
8 2 0.03
ACGTcount: A:0.18, C:0.19, G:0.16, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:40945017 original size:31 final size:31
Alignment explanation
Indices: 40944979--40945076 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
40944969 CTGATTTTTT
*
40944979 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
40945010 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* *
40945041 ATTCTGTCACCTGATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
40945072 ATTCT
1 ATTCT
40945077 AGTTCTAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:40949698 original size:50 final size:50
Alignment explanation
Indices: 40949640--40949741 Score: 123
Period size: 50 Copynumber: 2.0 Consensus size: 50
40949630 TAACACCACG
* * * *
40949640 TAAATACTTACCTATATAACTGAATATACAAGGTCCAATATATCATCTCA
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
* ** * *
40949690 TAAATACTTACATGTATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
40949740 TA
1 TA
40949742 TGGCCGAATA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (50 bp):
TAAATACTTACATATATAACCGAATACACAAGGTCCAATATATCATCACA
Found at i:40949772 original size:35 final size:34
Alignment explanation
Indices: 40949704--40949847 Score: 144
Period size: 35 Copynumber: 4.1 Consensus size: 34
40949694 TACTTACATG
* * *
40949704 TATGGCCGAATACACAAGGTTCATTATATCATCACA
1 TATGGCCGAATATACAA-GTT-AATATAACATCACA
* *
40949740 TATGGCCGAATATACAGGTTAGATAGAACATCACA
1 TATGGCCGAATATACAAGTTA-ATATAACATCACA
* * * * *
40949775 TGTAGCCGAATTTACAAATTCAATATATCATCACA
1 TATGGCCGAATATACAAGTT-AATATAACATCACA
*
40949810 TATGGCCAAATATACAAGTTATATATAACATCACA
1 TATGGCCGAATATACAAGTTA-ATATAACATCACA
40949845 TAT
1 TAT
40949848 ATACATACCT
Statistics
Matches: 87, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
34 2 0.02
35 69 0.79
36 16 0.18
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.28
Consensus pattern (34 bp):
TATGGCCGAATATACAAGTTAATATAACATCACA
Found at i:40963473 original size:40 final size:40
Alignment explanation
Indices: 40963426--40963507 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
40963416 AGCTACAATC
*
40963426 TAGTCGATTCTAGGACTAAGGAAGTGAATGTGAATCTAGT
1 TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
40963466 TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
1 TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
40963506 TA
1 TA
40963508 TACATGCCAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.11, G:0.27, T:0.29
Consensus pattern (40 bp):
TAGTCGATTCTAGGACTAAGGAAGCGAATGTGAATCTAGT
Found at i:40980639 original size:27 final size:27
Alignment explanation
Indices: 40980609--40980796 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 27
40980599 CTCATAAAAC
* *
40980609 GTAAAATGACTATTTTTCCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATGTG
* *
40980636 GTAAAATGATTGTTTTG-CCTTATATG
1 GTAAAATGACTGTTTTGCCCTTATGTG
*
40980662 GTAAAATGACTGTTTTTCCCTTATGTG
1 GTAAAATGACTGTTTTGCCCTTATGTG
* * *
40980689 GCAAAATGACTATTTTGCCCTTATGAG
1 GTAAAATGACTGTTTTGCCCTTATGTG
*
40980716 GTAAAATGACTGTTTTGCCCTTATATG
1 GTAAAATGACTGTTTTGCCCTTATGTG
40980743 GTAAAATGGA-TGTTTTGCCCTTATGTG
1 GTAAAAT-GACTGTTTTGCCCTTATGTG
* *
40980770 GTAAAATGACTGTGTTGCCCCTATGTG
1 GTAAAATGACTGTTTTGCCCTTATGTG
40980797 ATGTTTATAT
Statistics
Matches: 140, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
26 25 0.18
27 113 0.81
28 2 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.40
Consensus pattern (27 bp):
GTAAAATGACTGTTTTGCCCTTATGTG
Found at i:40983368 original size:10 final size:10
Alignment explanation
Indices: 40983335--40983416 Score: 51
Period size: 10 Copynumber: 8.0 Consensus size: 10
40983325 GAAAGTAGAT
40983335 GAAGAGAAAA
1 GAAGAGAAAA
*
40983345 GAAAAGAAAA
1 GAAGAGAAAA
* **
40983355 GAAAAGAAGG
1 GAAGAGAAAA
40983365 GAA-AGAAGAA
1 GAAGAGAA-AA
40983375 GAAG-GAAGGAA
1 GAAGAGAA--AA
* *
40983386 GTAGATGAAGA
1 GAAGA-GAAAA
40983397 GAAGAGAAAA
1 GAAGAGAAAA
*
40983407 GAAAAGAAAA
1 GAAGAGAAAA
40983417 TAGAAGAAGA
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
9 4 0.07
10 39 0.68
11 11 0.19
13 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (10 bp):
GAAGAGAAAA
Found at i:40984529 original size:19 final size:18
Alignment explanation
Indices: 40984492--40984535 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
40984482 ATACATACAG
40984492 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
40984509 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
40984528 TACTAATT
1 TAATAATT
40984536 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:40991897 original size:27 final size:26
Alignment explanation
Indices: 40991841--40991897 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
40991831 CAACCTTAAC
* * *
40991841 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
**
40991867 CCTAGGGGTAAATTTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTCCA
40991894 CCTA
1 CCTA
40991898 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:40996900 original size:19 final size:18
Alignment explanation
Indices: 40996863--40996906 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
40996853 ATACATACAG
40996863 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
40996880 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
40996899 TACTAATT
1 TAATAATT
40996907 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:41002597 original size:29 final size:31
Alignment explanation
Indices: 41002548--41002606 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
41002538 AATGTGTATC
* *
41002548 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATATGGAGATAG
41002577 TATTTATTATAATAGAT-AAATATGGAGATA
1 TATTTATT-TAATAGATGAAATATGGAGATA
41002607 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATATGGAGATAG
Found at i:41012285 original size:49 final size:49
Alignment explanation
Indices: 41012232--41012404 Score: 215
Period size: 49 Copynumber: 3.5 Consensus size: 49
41012222 CTGGTACGCA
* * *
41012232 TAGTATCCTGCACTTAATACTACACATGCAACCAATTATCAGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACACG
* * * * *
41012281 TAGTAGCCTGCACTTAGTACTACACACGTG-ATCAAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACA--TGCAACCAA-TTATCAGGTACACG
* *
41012332 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACACG
41012381 TAGTAGCCTGCACTTAGTAC-ACAC
1 TAGTAGCCTGCACTTAGTACTACAC
41012405 GTGACCTCAC
Statistics
Matches: 106, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
48 4 0.04
49 57 0.54
50 7 0.07
51 38 0.36
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCAGGTACACG
Found at i:41012359 original size:100 final size:99
Alignment explanation
Indices: 41012219--41012404 Score: 309
Period size: 100 Copynumber: 1.9 Consensus size: 99
41012209 TAAAAAAGGC
* * *
41012219 TATCTGGTACGCATAGTATCCTGCACTTAATACTACACATGCAACCAATTATCAGGTACATGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCAGGTACACGTAG
41012284 TAGCCTGCACTTAGTACTACACACGTGATCAAAGT
66 TAGCCTGCACTTAGTAC-ACACACGTGATCAAAGT
* * *
41012319 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCAGGTACACGTAG
41012384 TAGCCTGCACTTAGTACACAC
66 TAGCCTGCACTTAGTACACAC
41012405 GTGACCTCAC
Statistics
Matches: 80, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 4 0.05
100 76 0.95
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (99 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACATGCAACCAATTATCAGGTACACGTAG
TAGCCTGCACTTAGTACACACACGTGATCAAAGT
Found at i:41012677 original size:27 final size:27
Alignment explanation
Indices: 41012637--41012690 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
41012627 AGGTACAACC
* *
41012637 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
41012664 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
41012691 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:41015012 original size:28 final size:28
Alignment explanation
Indices: 41014979--41015178 Score: 258
Period size: 28 Copynumber: 7.2 Consensus size: 28
41014969 CAAAAGCTAA
* *
41014979 TCTTTCATAGTTCGCCACAAAGGATTAT
1 TCTTTCATAATTCGCCACAAAGGCTTAT
* ** *
41015007 TCTTTCGTAATTTTCCACAAAGGATTAT
1 TCTTTCATAATTCGCCACAAAGGCTTAT
* * * *
41015035 TATTTTATAATTCGCCACAAACGTTTAT
1 TCTTTCATAATTCGCCACAAAGGCTTAT
41015063 TCTTTCATAATTCGCCACAAAGGCTTAT
1 TCTTTCATAATTCGCCACAAAGGCTTAT
*
41015091 TCTTTAATAATTCGCCACAAAGGCTTAT
1 TCTTTCATAATTCGCCACAAAGGCTTAT
* * *
41015119 TCTTTCATAATTCACCA-TAAGGCTTAC
1 TCTTTCATAATTCGCCACAAAGGCTTAT
*
41015146 TCTTTCATAATTCGCCATAAAGGCTTAT
1 TCTTTCATAATTCGCCACAAAGGCTTAT
41015174 TCTTT
1 TCTTT
41015179 ATTATCATGT
Statistics
Matches: 148, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
27 24 0.16
28 124 0.84
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (28 bp):
TCTTTCATAATTCGCCACAAAGGCTTAT
Found at i:41018561 original size:27 final size:27
Alignment explanation
Indices: 41018531--41018622 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
41018521 ATTACCAAAG
*
41018531 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
41018558 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
41018585 TACCCTTGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
41018612 TACCCTCGATT
1 TACCCTCGATT
41018623 GTGAAATTAC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
26 1 0.02
27 59 0.98
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:41018693 original size:54 final size:53
Alignment explanation
Indices: 41018612--41018752 Score: 121
Period size: 54 Copynumber: 2.7 Consensus size: 53
41018602 ATTATCGTTT
* * **
41018612 TACCCTCGA-TTGTGAAATTACTGAAATACACCTATAGGGT-AGAATTACCAAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACACCTAT-GGGTGA-AATTACCAAAA
* * ** *
41018665 TACCC-CTAGTTTGTAAAATTACCAAAATAGCA-CTGGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATA-CACCT-ATGGGTGAAATTACCAAAA
41018719 TACCCTCAATTTGTAAAATTACCAAAATAC-CCTA
1 TACCCTCAATTTGTAAAATTACCAAAATACACCTA
41018753 ATTTACAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
52 1 0.01
53 8 0.11
54 56 0.80
55 5 0.07
ACGTcount: A:0.39, C:0.21, G:0.12, T:0.28
Consensus pattern (53 bp):
TACCCTCAATTTGTAAAATTACCAAAATACACCTATGGGTGAAATTACCAAAA
Found at i:41018762 original size:26 final size:26
Alignment explanation
Indices: 41018654--41018777 Score: 140
Period size: 27 Copynumber: 4.7 Consensus size: 26
41018644 TATAGGGTAG
*
41018654 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATA-CCCTAATTTGTAA
* ** *
41018681 AATTACCAAAATAGCACTGGTTTGTGA
1 AATTACCAAAATA-CCCTAATTTGTAA
*
41018708 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCT-AATTTGTAA
**
41018735 AATTACCAAAATACCCTAATTTACAA
1 AATTACCAAAATACCCTAATTTGTAA
*
41018761 AATTACAAAAATACCCT
1 AATTACCAAAATACCCT
41018778 TGACTTTCTA
Statistics
Matches: 83, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 26 0.31
27 57 0.69
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (26 bp):
AATTACCAAAATACCCTAATTTGTAA
Found at i:41018801 original size:29 final size:27
Alignment explanation
Indices: 41018754--41018839 Score: 93
Period size: 27 Copynumber: 3.1 Consensus size: 27
41018744 AATACCCTAA
* * *
41018754 TTTACAAAATTACAAAAATACCCTTGAC
1 TTTACAAAATTATAGAAATACCCTTG-G
*
41018782 TTT-CTAAAAATTATAGAAATACCATTGG
1 TTTAC--AAAATTATAGAAATACCCTTGG
*
41018810 TTTACAAAATTATTGAAATACCCTTGG
1 TTTACAAAATTATAGAAATACCCTTGG
41018837 TTT
1 TTT
41018840 GTAGATTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
27 24 0.49
28 6 0.12
29 19 0.39
ACGTcount: A:0.41, C:0.15, G:0.08, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTATAGAAATACCCTTGG
Found at i:41018923 original size:27 final size:27
Alignment explanation
Indices: 41018880--41018945 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
41018870 AAATGACTAA
*
41018880 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
41018907 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
41018934 AATACCCCTGTA
1 AATACCCCTGTA
41018946 TGGTTAAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 3 0.09
27 29 0.88
28 1 0.03
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Done.