Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 142 of 318
Found at i:44141991 original size:86 final size:86
Alignment explanation
Indices: 44141822--44142000 Score: 229
Period size: 86 Copynumber: 2.1 Consensus size: 86
44141812 ATATTTTGTA
* * * *
44141822 CAATGCCAACGTCCCTGACGTGGTCTTACATGTAATCTCATACCGATGCCACTGTCCCAGACAGA
1 CAATGCCAACGTCCCAGACGTGGTCTTAAACGTAATCACATACCGATGCCACTGTCCCAGACAGA
***
44141887 GTCTTACTTTTAAACACATAT
66 GTCTTACTACGAAACACATAT
* *
44141908 CGATGCCAACGTCCCAGACGTGGTCTTAAACGTAATCACATATCGATGCCAAC-GTCCCAGACAT
1 CAATGCCAACGTCCCAGACGTGGTCTTAAACGTAATCACATACCGATGCC-ACTGTCCCAGACA-
44141972 G-GTCTTAC-ACGAAATCACATAT
64 GAGTCTTACTACGAAA-CACATAT
44141994 CAATGCC
1 CAATGCC
44142001 TCATATACAT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
85 3 0.04
86 74 0.93
87 3 0.04
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (86 bp):
CAATGCCAACGTCCCAGACGTGGTCTTAAACGTAATCACATACCGATGCCACTGTCCCAGACAGA
GTCTTACTACGAAACACATAT
Found at i:44142774 original size:15 final size:15
Alignment explanation
Indices: 44142751--44142781 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
44142741 TCAAAAATTC
44142751 CAATACAAAACATAT
1 CAATACAAAACATAT
*
44142766 CAATCCAAAACATAT
1 CAATACAAAACATAT
44142781 C
1 C
44142782 TTTCATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:44147456 original size:48 final size:50
Alignment explanation
Indices: 44147340--44147470 Score: 185
Period size: 48 Copynumber: 2.7 Consensus size: 50
44147330 CGAAATCGAG
* * * * *
44147340 GCCGACGCCATGTCCCAGACATGGTCTTATACTAGCTCTCACATATTCGT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCACATATGCGT
* *
44147390 GCCGATGCTATGTCCCAAACATGGTCTTACACTAGCAC-CTC-TATGCGT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCACATATGCGT
44147438 GCCGATGCCATGTCCCAAACATGGTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
44147471 GACACATCTC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
48 38 0.52
49 2 0.03
50 33 0.45
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTAGCACTCACATATGCGT
Found at i:44147538 original size:46 final size:46
Alignment explanation
Indices: 44147438--44147652 Score: 172
Period size: 46 Copynumber: 4.7 Consensus size: 46
44147428 CTCTATGCGT
* * * *
44147438 GCCGATGCCATGTCCCAAACATGGTCTTACACT-G-ACACATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATCTC-AAG
* *
44147484 GCCAATGCATGTCCTAGACATGTCTTACACTGGCT-TACATCTCAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CATCTCAAG
* * * * *
44147530 GCCGATGCATGTCCCAAAAATGTCTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
* * * * * *
44147576 GCCGA-CCATGTCCAAGACATGGTCTTGCATTGGCTCTCATAAT-ATG
1 GCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-CTCAAG
*
44147622 GTCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
44147653 AGCGCACAAA
Statistics
Matches: 132, Mismatches: 29, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
44 10 0.08
45 25 0.19
46 82 0.62
47 15 0.11
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATCTCAAG
Found at i:44153292 original size:9 final size:9
Alignment explanation
Indices: 44153280--44153314 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
44153270 AGGAATCAGA
44153280 GGAGGTGGG
1 GGAGGTGGG
44153289 GGAGGTGGG
1 GGAGGTGGG
44153298 GGAGGTGGG
1 GGAGGTGGG
44153307 GGAGGTGG
1 GGAGGTGG
44153315 AGTGTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.11, C:0.00, G:0.77, T:0.11
Consensus pattern (9 bp):
GGAGGTGGG
Found at i:44155103 original size:49 final size:51
Alignment explanation
Indices: 44155031--44155161 Score: 171
Period size: 49 Copynumber: 2.6 Consensus size: 51
44155021 AGGGTGTAAT
*
44155031 GCCGATGCCATGTCCCAAACATGGTCTTACACTGA-CTATCA-AAATCGAG
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGAGCTATCACAAATCCAG
* * * *
44155080 GCCGATGCCATGTCCCAAACATGGTCTTACA-TTAGCTCTCACAGATCCAT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACTGAGCTATCACAAATCCAG
* *
44155130 GCCGATGGCAT-TCCCAAACAGGGTCTTACACT
1 GCCGATGCCATGTCCCAAACATGGTCTTACACT
44155162 AGAATCTCTA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 2 0.03
49 54 0.75
50 16 0.22
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (51 bp):
GCCGATGCCATGTCCCAAACATGGTCTTACACTGAGCTATCACAAATCCAG
Found at i:44155264 original size:46 final size:46
Alignment explanation
Indices: 44155194--44155351 Score: 182
Period size: 46 Copynumber: 3.4 Consensus size: 46
44155184 CCTTGTCCCT
*
44155194 GACATGGTCTTACACTGAC--ACATCTCGTAGCCGATGCATGTCCTA
1 GACATGGTCTTACACTGGCTTACATCTCG-AGCCGATGCATGTCCTA
* *
44155239 GACAT-GTCTTACACTGGCTTACATCTCGAGTCCGATACATGTCCAA
1 GACATGGTCTTACACTGGCTTACATCTCGAG-CCGATGCATGTCCTA
* * *
44155285 GACAT-GTCTTACACTAGCTCT-CATCTCAATGCCGATGCCATGTCGTA
1 GACATGGTCTTACACTGGCT-TACATCTCGA-GCCGATG-CATGTCCTA
44155332 GACATGGTCTTACACTGGCT
1 GACATGGTCTTACACTGGCT
44155352 CTCATAATTT
Statistics
Matches: 97, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
44 12 0.12
45 7 0.07
46 51 0.53
47 14 0.14
48 13 0.13
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (46 bp):
GACATGGTCTTACACTGGCTTACATCTCGAGCCGATGCATGTCCTA
Found at i:44155353 original size:48 final size:45
Alignment explanation
Indices: 44155214--44155393 Score: 168
Period size: 46 Copynumber: 3.9 Consensus size: 45
44155204 TACACTGACA
*
44155214 CATCTCGTAGCCGATGCATGTCCTAGACATGTCTTACACTGGCT-T
1 CATCTCAT-GCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT
* * *
44155259 ACATCTCGA-GTCCGATACATGTCCAAGACATGTCTTACACTAGCTCT
1 -CATCTC-ATG-CCGATGCATGTCCTAGACATGTCTTACACTGGCTCT
*
44155306 CATCTCAATGCCGATGCCATGTCGTAGACATGGTCTTACACTGGCTCT
1 CATCTC-ATGCCGATG-CATGTCCTAGACAT-GTCTTACACTGGCTCT
* * * * *
44155354 CATAAT-TTGGTCGGTGCATGTCCCAGACATGTCTTACACT
1 CAT-CTCAT-GCCGATGCATGTCCTAGACATGTCTTACACT
44155394 AGCGCACAAA
Statistics
Matches: 111, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 59 0.53
47 27 0.24
48 23 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (45 bp):
CATCTCATGCCGATGCATGTCCTAGACATGTCTTACACTGGCTCT
Found at i:44157853 original size:5 final size:5
Alignment explanation
Indices: 44157843--44157958 Score: 164
Period size: 5 Copynumber: 23.2 Consensus size: 5
44157833 AAGTATAACT
* * * *
44157843 TATCA TATCA TAACA TAT-A GTATCA TACCA TA-CAA TACCA TATCA TACCA
1 TATCA TATCA TATCA TATCA -TATCA TATCA TATC-A TATCA TATCA TATCA
44157893 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
1 TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA TATCA
44157943 TATCA TATCA TATCA T
1 TATCA TATCA TATCA T
44157959 GTCCTAGCCC
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
4 2 0.02
5 97 0.96
6 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.01, T:0.36
Consensus pattern (5 bp):
TATCA
Found at i:44158530 original size:20 final size:19
Alignment explanation
Indices: 44158501--44158538 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44158491 GTATAGAAAA
44158501 AGAAAAGGGAACAAAAGAG
1 AGAAAAGGGAACAAAAGAG
*
44158520 AGAACAAGGGAATAAAAGA
1 AGAA-AAGGGAACAAAAGA
44158539 TATGTGGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.63, C:0.05, G:0.29, T:0.03
Consensus pattern (19 bp):
AGAAAAGGGAACAAAAGAG
Found at i:44165207 original size:29 final size:28
Alignment explanation
Indices: 44165166--44165220 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
44165156 ATCCGACATA
**
44165166 CTGATATCATGGCCTGAAGCCAAATCAG
1 CTGATATCATGGCCCAAAGCCAAATCAG
44165194 CTGATATTCATGGCCCAAAGCCAAATC
1 CTGATA-TCATGGCCCAAAGCCAAATC
44165221 GCTATAACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (28 bp):
CTGATATCATGGCCCAAAGCCAAATCAG
Found at i:44165262 original size:77 final size:77
Alignment explanation
Indices: 44165169--44165342 Score: 260
Period size: 77 Copynumber: 2.3 Consensus size: 77
44165159 CGACATACTG
*
44165169 ATATCATGGCCTGAAGCCAAATCAG-CTGATATTCATGGCCCAAAGCCAAATCGCTATAACTCGC
1 ATATCATGGCCCGAAGCCAAATCAGCCT-ATATTCATGGCCCAAAGCCAAATCGCTATAACTCGC
* **
44165233 ATCTGAATTGCTA
65 ACCTGAAGAGCTA
* * * *
44165246 ATATTATGTCCCGAAGCCAAATCAGCCTATATTCATGGCCCAAAGCCAAATCGGTATAACTTGCA
1 ATATCATGGCCCGAAGCCAAATCAGCCTATATTCATGGCCCAAAGCCAAATCGCTATAACTCGCA
44165311 CCTGAAGAGCTA
66 CCTGAAGAGCTA
44165323 ATATCATGGCCCGAAGCCAA
1 ATATCATGGCCCGAAGCCAA
44165343 CTCAATGTAT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
77 84 0.98
78 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.23
Consensus pattern (77 bp):
ATATCATGGCCCGAAGCCAAATCAGCCTATATTCATGGCCCAAAGCCAAATCGCTATAACTCGCA
CCTGAAGAGCTA
Found at i:44171877 original size:17 final size:17
Alignment explanation
Indices: 44171855--44171888 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
44171845 TACAAAATGA
44171855 GAGATTTATCCCAAGCC
1 GAGATTTATCCCAAGCC
44171872 GAGATTTATCCCAAGCC
1 GAGATTTATCCCAAGCC
44171889 AACACATTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (17 bp):
GAGATTTATCCCAAGCC
Found at i:44172473 original size:47 final size:45
Alignment explanation
Indices: 44172408--44172532 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 45
44172398 TCTCGTAGCC
*
44172408 GATGCATGTCCCAGACATGTCTTACACTAGCACTCGTC-TCAATGCT-
1 GATGCATGTCCCAAACATGTCTTACACTAGCACTC-TCAT-AATG-TG
*
44172454 GATGCCATGTCCCAAACATGGTCTTACACT-G-GCTCTCATAATGTG
1 GATG-CATGTCCCAAACAT-GTCTTACACTAGCACTCTCATAATGTG
44172499 GCCTATGCATGTCCCAAACATGTCTTACACTAGC
1 G---ATGCATGTCCCAAACATGTCTTACACTAGC
44172533 TCACACAAGT
Statistics
Matches: 68, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
44 1 0.01
45 7 0.10
46 18 0.26
47 29 0.43
48 13 0.19
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.28
Consensus pattern (45 bp):
GATGCATGTCCCAAACATGTCTTACACTAGCACTCTCATAATGTG
Found at i:44192492 original size:79 final size:80
Alignment explanation
Indices: 44192333--44192557 Score: 255
Period size: 79 Copynumber: 2.8 Consensus size: 80
44192323 TTGAATGATG
* * * * * * *
44192333 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
44192396 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
*
44192413 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
44192474 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
44192492 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
44192557 G
66 G
44192558 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
78 2 0.02
79 68 0.54
80 45 0.36
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:44192521 original size:40 final size:40
Alignment explanation
Indices: 44192333--44192557 Score: 262
Period size: 40 Copynumber: 5.7 Consensus size: 40
44192323 TTGAATGATG
* * * * *
44192333 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
44192373 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
44192413 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
44192453 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44192492 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44192533 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44192558 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44192549 original size:119 final size:120
Alignment explanation
Indices: 44192333--44192557 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
44192323 TTGAATGATG
* *
44192333 TCCGGGCTAAGTCTCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
44192398 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
44192453 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
44192515 TTGTGCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
44192558 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 3 0.03
119 68 0.75
120 20 0.22
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:44192579 original size:79 final size:79
Alignment explanation
Indices: 44192386--44192590 Score: 206
Period size: 79 Copynumber: 2.6 Consensus size: 79
44192376 GGACTAAGAT
** **
44192386 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
*
44192449 TAATTCCGGGCTAAGC
64 TAATACCGGGCTAAGC
** * *
44192465 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
44192529 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* *
44192545 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
44192591 TACGTGATTT
Statistics
Matches: 109, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
78 5 0.05
79 79 0.72
80 25 0.23
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.24
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:44200440 original size:79 final size:80
Alignment explanation
Indices: 44200284--44200508 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
44200274 TTGAATGATG
* * * * * * *
44200284 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAA-TTACTATAACCGGGCTAAG-TCCCGAAGGCAT
44200347 TTGTGCGAGATACTAAA
64 TTGTGCGAGATACTAAA
**
44200364 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTA-ATTTCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
44200425 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
44200443 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
44200508 G
66 G
44200509 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
78 2 0.02
79 67 0.54
80 44 0.36
81 9 0.07
82 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:44200472 original size:40 final size:40
Alignment explanation
Indices: 44200284--44200508 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
44200274 TTGAATGATG
* * * * *
44200284 TCCGGGCTAAGTCTCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
44200324 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
44200364 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
44200404 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44200443 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
44200484 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44200509 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44200530 original size:79 final size:79
Alignment explanation
Indices: 44200337--44200541 Score: 197
Period size: 79 Copynumber: 2.6 Consensus size: 79
44200327 GGACTAAGAT
** **
44200337 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGATAC
**
44200400 TAATTTCGGGCTAAGC
64 TAATACCGGGCTAAGC
** * *
44200416 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGA-TACT
*
44200480 -ATAACCGGGCTATGTC
65 AAT-ACCGGGCTAAG-C
* *
44200496 CCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAAATCCCGAAGG
44200542 TACGTGATTT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
78 5 0.05
79 78 0.72
80 25 0.23
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:44204052 original size:18 final size:18
Alignment explanation
Indices: 44204025--44204059 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44204015 AAGTCTGTTC
44204025 TGACTCAGGCTCCTATTT
1 TGACTCAGGCTCCTATTT
*
44204043 TGACTTAGGCTCCTATT
1 TGACTCAGGCTCCTATT
44204060 CTGATACAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TGACTCAGGCTCCTATTT
Found at i:44208233 original size:44 final size:44
Alignment explanation
Indices: 44208168--44208256 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
44208158 AAGTAACAGA
*
44208168 AACAGTACGACACACGAAGTGCCTCATCGACACAAAGTCGAAGT
1 AACAGTACGACACACGAAGTGCCTCATCAACACAAAGTCGAAGT
** * * *
44208212 AACAGTACGACACTA-TTAGTGCCTCATTAACTCAAGGTCGAAGT
1 AACAGTACGACAC-ACGAAGTGCCTCATCAACACAAAGTCGAAGT
44208256 A
1 A
44208257 TCCCTGTACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 37 0.97
45 1 0.03
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (44 bp):
AACAGTACGACACACGAAGTGCCTCATCAACACAAAGTCGAAGT
Found at i:44209142 original size:5 final size:5
Alignment explanation
Indices: 44209140--44209214 Score: 150
Period size: 5 Copynumber: 15.0 Consensus size: 5
44209130 TGTTTTATAT
44209140 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
44209190 TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA
44209215 ATTTCTTAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 70 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:44209862 original size:18 final size:17
Alignment explanation
Indices: 44209811--44209863 Score: 79
Period size: 17 Copynumber: 3.1 Consensus size: 17
44209801 ACGCCAAATT
**
44209811 GGGCGTGTGGATCACAC
1 GGGCGTGTGGGCCACAC
44209828 GGGCGTGTGGGCCACAC
1 GGGCGTGTGGGCCACAC
44209845 GGGCGTGTGGGCCCACAC
1 GGGCGTGTGGG-CCACAC
44209863 G
1 G
44209864 AACACGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
17 26 0.79
18 7 0.21
ACGTcount: A:0.13, C:0.28, G:0.45, T:0.13
Consensus pattern (17 bp):
GGGCGTGTGGGCCACAC
Found at i:44219898 original size:25 final size:25
Alignment explanation
Indices: 44219850--44219899 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
44219840 CAATTGAAAT
* *
44219850 AAAAATATAAAAAAATATACATTAG
1 AAAAATATAAAAAAATAGAAATTAG
44219875 AAAAATA-AATAAAAATAGAAATTAG
1 AAAAATATAA-AAAAATAGAAATTAG
44219900 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 2 0.09
25 20 0.91
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (25 bp):
AAAAATATAAAAAAATAGAAATTAG
Found at i:44220315 original size:18 final size:18
Alignment explanation
Indices: 44220292--44220341 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
44220282 TTACAACTTA
44220292 TTAAT-ATTTTTATATTTT
1 TTAATAATTTTTA-ATTTT
44220310 TTAATAATTTTTAATTTT
1 TTAATAATTTTTAATTTT
*
44220328 TCT-ATAAATTTTAA
1 T-TAATAATTTTTAA
44220342 AAGTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 21 0.72
19 8 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTAATAATTTTTAATTTT
Found at i:44220317 original size:38 final size:36
Alignment explanation
Indices: 44220221--44220320 Score: 96
Period size: 37 Copynumber: 2.6 Consensus size: 36
44220211 ATATTTTACA
*
44220221 ATTTTTAATTTTATTTAATGATTTTCACAATCTTTTAAT
1 ATTTTTAA-TTT-TTTAATAATTTT-ACAATCTTTTAAT
* *
44220260 -TTGTTAAATTTTTTGATAATCTTTACAA-CTTATTAAT
1 ATT-TTTAATTTTTTAATAAT-TTTACAATCTT-TTAAT
44220297 ATTTTTATATTTTTTAATAATTTT
1 ATTTTTA-ATTTTTTAATAATTTT
44220321 TAATTTTTCT
Statistics
Matches: 51, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
36 3 0.06
37 22 0.43
38 22 0.43
39 4 0.08
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (36 bp):
ATTTTTAATTTTTTAATAATTTTACAATCTTTTAAT
Found at i:44220339 original size:19 final size:19
Alignment explanation
Indices: 44220292--44220328 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
44220282 TTACAACTTA
44220292 TTAAT-ATTTTTATATTTT
1 TTAATAATTTTTATATTTT
44220310 TTAATAATTTTTA-ATTTT
1 TTAATAATTTTTATATTTT
44220328 T
1 T
44220329 CTATAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
TTAATAATTTTTATATTTT
Found at i:44221003 original size:17 final size:17
Alignment explanation
Indices: 44220965--44221004 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
44220955 CTCGAATTCA
44220965 TAATAAATTAAAATCAT
1 TAATAAATTAAAATCAT
* *
44220982 AAATAAATTAAAATTAT
1 TAATAAATTAAAATCAT
44220999 TAATAA
1 TAATAA
44221005 CCCAGCCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TAATAAATTAAAATCAT
Found at i:44221518 original size:3 final size:3
Alignment explanation
Indices: 44221474--44221499 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44221464 TATTGAAAAT
44221474 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
44221500 GAAACATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:44224447 original size:17 final size:17
Alignment explanation
Indices: 44224425--44224460 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
44224415 TTGAAATAAT
44224425 AAATGGATAT-GAAATGG
1 AAATGGA-ATGGAAATGG
44224442 AAATGGAATGGAAATGG
1 AAATGGAATGGAAATGG
44224459 AA
1 AA
44224461 TTGTGAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.50, C:0.00, G:0.31, T:0.19
Consensus pattern (17 bp):
AAATGGAATGGAAATGG
Found at i:44224458 original size:11 final size:11
Alignment explanation
Indices: 44224426--44224461 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
44224416 TGAAATAATA
* *
44224426 AATGGATATGA
1 AATGGAAATGG
44224437 AATGGAAATGG
1 AATGGAAATGG
44224448 AATGGAAATGG
1 AATGGAAATGG
44224459 AAT
1 AAT
44224462 TGTGAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.31, T:0.22
Consensus pattern (11 bp):
AATGGAAATGG
Found at i:44224481 original size:12 final size:12
Alignment explanation
Indices: 44224464--44224488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44224454 AATGGAATTG
44224464 TGAAATATGAAA
1 TGAAATATGAAA
44224476 TGAAATATGAAA
1 TGAAATATGAAA
44224488 T
1 T
44224489 TGTGGAATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (12 bp):
TGAAATATGAAA
Found at i:44231260 original size:12 final size:13
Alignment explanation
Indices: 44231224--44231261 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
44231214 AAATATTTGA
44231224 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
44231237 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
44231251 CTTG-TCTTAAT
1 CTTGTTCTTAAT
44231262 ATTCCAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:44234751 original size:36 final size:36
Alignment explanation
Indices: 44234682--44234757 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
44234672 TGTTATCGGG
**
44234682 TGGACTAGCTCTTATAAGCATCTGGTATGTTTTGGA
1 TGGACTAGCTCTTATAAGCATCTGGTACATTTTGGA
* * * * *
44234718 TGGATTAGCTCTTATGAGCATCTTGTGCATTTTGGT
1 TGGACTAGCTCTTATAAGCATCTGGTACATTTTGGA
44234754 TGGA
1 TGGA
44234758 ATATCGATGT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.20, C:0.13, G:0.26, T:0.41
Consensus pattern (36 bp):
TGGACTAGCTCTTATAAGCATCTGGTACATTTTGGA
Found at i:44237094 original size:46 final size:46
Alignment explanation
Indices: 44237027--44237202 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
44237017 TATTTGGGCA
* *
44237027 TCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
44237073 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* **
44237118 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
44237166 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44237203 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 63 0.58
47 28 0.26
48 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:44237182 original size:93 final size:93
Alignment explanation
Indices: 44237023--44237194 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
44237013 AGGATATTTG
* * **
44237023 GGCATCCGAACTTGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
44237088 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * *
44237116 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATACCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
44237181 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44237195 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44239534 original size:46 final size:48
Alignment explanation
Indices: 44239429--44239550 Score: 149
Period size: 46 Copynumber: 2.5 Consensus size: 48
44239419 TGTCTTCGAC
** * *
44239429 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATCTAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--ATATATATCTAAT
* *
44239479 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAG-C-TATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATCTAAT
*
44239525 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
44239551 CTGTCCTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
46 35 0.55
49 1 0.02
50 28 0.44
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATCTAAT
Found at i:44242801 original size:29 final size:29
Alignment explanation
Indices: 44242767--44242822 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
44242757 ATAGTATCGT
*
44242767 ATCTTGGGTTTC-TTATTCTGGGTTTCTCA
1 ATCTTGGATTTCTTTATTC-GGGTTTCTCA
*
44242796 ATCTTGGATTTCTTTATTCGGTTTTCT
1 ATCTTGGATTTCTTTATTCGGGTTTCT
44242823 TGTTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.11, C:0.16, G:0.18, T:0.55
Consensus pattern (29 bp):
ATCTTGGATTTCTTTATTCGGGTTTCTCA
Found at i:44245607 original size:46 final size:46
Alignment explanation
Indices: 44245554--44245731 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
44245544 GATATTTGGG
* *
44245554 CATCCGAACTTGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
* * * *
44245600 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-A
*
44245647 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
*** * *
44245693 TGCCCGAGCTCTTTGAGTTGAGTCCGAGTTCACTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
44245732 GTGGGTTACA
Statistics
Matches: 110, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 66 0.60
47 32 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
Found at i:44245711 original size:93 final size:93
Alignment explanation
Indices: 44245552--44245723 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
44245542 AGGATATTTG
* *
44245552 GGCATCCGAACTTGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACATCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
44245617 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * ** * *
44245645 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCTTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
44245710 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
44245724 ACTTATGGGT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:44247706 original size:20 final size:20
Alignment explanation
Indices: 44247674--44247711 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44247664 GCCATTTCAC
*
44247674 AATTATAAGGAATGAAATAA
1 AATTATAAGGAATAAAATAA
44247694 AATTA-AAGAGAATAAAAT
1 AATTATAAG-GAATAAAAT
44247712 TCAGAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.63, C:0.00, G:0.13, T:0.24
Consensus pattern (20 bp):
AATTATAAGGAATAAAATAA
Found at i:44247971 original size:7 final size:7
Alignment explanation
Indices: 44247959--44248049 Score: 51
Period size: 7 Copynumber: 13.0 Consensus size: 7
44247949 AAAAGAATAT
44247959 AATTGAG
1 AATTGAG
44247966 AATTGAG
1 AATTGAG
*
44247973 GATTGA-
1 AATTGAG
44247979 AGATTGAG
1 A-ATTGAG
*
44247987 GATCT-AG
1 AAT-TGAG
* *
44247994 AAATAAG
1 AATTGAG
* *
44248001 AAATGAA
1 AATTGAG
44248008 AATTGAG
1 AATTGAG
*
44248015 GATTGAG
1 AATTGAG
*
44248022 GATTGAG
1 AATTGAG
*
44248029 TATTGAG
1 AATTGAG
*
44248036 TATTGAG
1 AATTGAG
*
44248043 TATTGAG
1 AATTGAG
44248050 TTGAAAAGAA
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
6 1 0.01
7 67 0.97
8 1 0.01
ACGTcount: A:0.40, C:0.01, G:0.30, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:44248050 original size:7 final size:7
Alignment explanation
Indices: 44248009--44248050 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
44247999 AGAAATGAAA
*
44248009 ATTGAGG
1 ATTGAGT
*
44248016 ATTGAGG
1 ATTGAGT
44248023 ATTGAGT
1 ATTGAGT
44248030 ATTGAGT
1 ATTGAGT
44248037 ATTGAGT
1 ATTGAGT
44248044 ATTGAGT
1 ATTGAGT
44248051 TGAAAAGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.29, C:0.00, G:0.33, T:0.38
Consensus pattern (7 bp):
ATTGAGT
Found at i:44257773 original size:21 final size:21
Alignment explanation
Indices: 44257749--44257789 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44257739 AAATCCTAAA
*
44257749 CCCTAAACCCATAACCCATAT
1 CCCTAAACCCATAAACCATAT
* *
44257770 CCCTTAACCCTTAAACCATA
1 CCCTAAACCCATAAACCATA
44257790 AATACTTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCTAAACCCATAAACCATAT
Found at i:44257785 original size:36 final size:36
Alignment explanation
Indices: 44257745--44257833 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 36
44257735 TCTTAAATCC
* * * * *
44257745 TAAACCCTAAACCCATAACCCATATCCCTTAACCCT
1 TAAACCCTAAACACATAACACATAACCCCTAAACCT
* * *
44257781 TAAACCATAAATACTTAACACATAACCCCTAAACCT
1 TAAACCCTAAACACATAACACATAACCCCTAAACCT
44257817 TAAACCCT-AACACATAA
1 TAAACCCTAAACACATAA
44257834 TCCCTAAACA
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
35 7 0.17
36 35 0.83
ACGTcount: A:0.44, C:0.35, G:0.00, T:0.21
Consensus pattern (36 bp):
TAAACCCTAAACACATAACACATAACCCCTAAACCT
Found at i:44257826 original size:14 final size:14
Alignment explanation
Indices: 44257745--44257862 Score: 53
Period size: 14 Copynumber: 8.3 Consensus size: 14
44257735 TCTTAAATCC
44257745 TAAACCCTAAACCCA
1 TAAACCCTAAA-CCA
* *
44257760 T-AACCC-ATATCCC
1 TAAACCCTA-AACCA
*
44257773 TTAACCCTTAAACCA
1 TAAACCC-TAAACCA
** *
44257788 TAAATACTTAACACA
1 TAAACCCTAAAC-CA
* *
44257803 TAACCCCTAAACCT
1 TAAACCCTAAACCA
44257817 TAAACCCT-AACACA
1 TAAACCCTAAAC-CA
* *
44257831 TAATCCCTAAACAA
1 TAAACCCTAAACCA
* * *
44257845 TAATCCATAAACCT
1 TAAACCCTAAACCA
44257859 TAAA
1 TAAA
44257863 AATTAATTCA
Statistics
Matches: 75, Mismatches: 21, Indels: 15
0.68 0.19 0.14
Matches are distributed among these distances:
13 7 0.09
14 46 0.61
15 21 0.28
16 1 0.01
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:44257862 original size:21 final size:21
Alignment explanation
Indices: 44257810--44257884 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
44257800 ACATAACCCC
**
44257810 TAAACCTTAAACCCTAA-CACA
1 TAAACCTTAAACAATAATC-CA
* *
44257831 TAATCCCTAAACAATAATCCA
1 TAAACCTTAAACAATAATCCA
*
44257852 TAAACCTTAAA-AATTAATTCA
1 TAAACCTTAAACAA-TAATCCA
*
44257873 TAAACCATAAAC
1 TAAACCTTAAAC
44257885 CCCTAACCCC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 2 0.05
21 40 0.93
22 1 0.02
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACCTTAAACAATAATCCA
Found at i:44257892 original size:7 final size:7
Alignment explanation
Indices: 44257882--44257978 Score: 79
Period size: 7 Copynumber: 13.7 Consensus size: 7
44257872 ATAAACCATA
44257882 AACCCCT
1 AACCCCT
44257889 AACCCCT
1 AACCCCT
*
44257896 ATCCCCTT
1 AACCCC-T
*
44257904 AACGCCT
1 AACCCCT
44257911 AACCCCT
1 AACCCCT
*
44257918 ATCCCCT
1 AACCCCT
*
44257925 ATCCCCT
1 AACCCCT
*
44257932 ATCCCCTT
1 AACCCC-T
* *
44257940 AACACTT
1 AACCCCT
44257947 AACCCCT
1 AACCCCT
*
44257954 AATCCCT
1 AACCCCT
**
44257961 AACCATT
1 AACCCCT
44257968 AACCCC-
1 AACCCCT
44257974 AACCC
1 AACCC
44257979 TTAAACCACC
Statistics
Matches: 72, Mismatches: 16, Indels: 5
0.77 0.17 0.05
Matches are distributed among these distances:
6 5 0.07
7 58 0.81
8 9 0.12
ACGTcount: A:0.27, C:0.51, G:0.01, T:0.22
Consensus pattern (7 bp):
AACCCCT
Found at i:44257931 original size:36 final size:37
Alignment explanation
Indices: 44257884--44257964 Score: 121
Period size: 36 Copynumber: 2.2 Consensus size: 37
44257874 AAACCATAAA
*
44257884 CCCCTAACCCCTATCCCCTTAACGCCTAACCCCT-AT
1 CCCCTAACCCCTATCCCCTTAACACCTAACCCCTAAT
* *
44257920 CCCCTATCCCCTATCCCCTTAACACTTAACCCCTAAT
1 CCCCTAACCCCTATCCCCTTAACACCTAACCCCTAAT
44257957 -CCCTAACC
1 CCCCTAACC
44257965 ATTAACCCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 38 0.95
37 2 0.05
ACGTcount: A:0.23, C:0.52, G:0.01, T:0.23
Consensus pattern (37 bp):
CCCCTAACCCCTATCCCCTTAACACCTAACCCCTAAT
Found at i:44257942 original size:29 final size:29
Alignment explanation
Indices: 44257882--44257959 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
44257872 ATAAACCATA
*
44257882 AACCCCTAACCCCTATCCCCTTAACGCCT
1 AACCCCTAACCCCTATCCCCTTAACCCCT
* *
44257911 AACCCCTATCCCCTATCCCC-TATCCCCTT
1 AACCCCTAACCCCTATCCCCTTAACCCC-T
* *
44257940 AACACTTAACCCCTAATCCC
1 AACCCCTAACCCCT-ATCCC
44257960 TAACCATTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.12
29 31 0.76
30 5 0.12
ACGTcount: A:0.24, C:0.51, G:0.01, T:0.23
Consensus pattern (29 bp):
AACCCCTAACCCCTATCCCCTTAACCCCT
Found at i:44257986 original size:21 final size:21
Alignment explanation
Indices: 44257875--44257973 Score: 58
Period size: 22 Copynumber: 4.6 Consensus size: 21
44257865 TTAATTCATA
* *
44257875 AACCATAAACCCCTAACCCCT
1 AACCATTAACCCCTAATCCCT
* * * *
44257896 ATCCCCTTAACGCCTAACCCCT
1 A-ACCATTAACCCCTAATCCCT
* ** *
44257918 ATCCCCTATCCCCT-ATCCCCTT
1 AACCATTAACCCCTAAT-CCC-T
44257940 AA-CACTTAACCCCTAATCCCT
1 AACCA-TTAACCCCTAATCCCT
44257961 AACCATTAACCCC
1 AACCATTAACCCC
44257974 AACCCTTAAA
Statistics
Matches: 59, Mismatches: 13, Indels: 12
0.70 0.15 0.14
Matches are distributed among these distances:
20 1 0.02
21 25 0.42
22 31 0.53
23 2 0.03
ACGTcount: A:0.28, C:0.48, G:0.01, T:0.22
Consensus pattern (21 bp):
AACCATTAACCCCTAATCCCT
Found at i:44258859 original size:15 final size:15
Alignment explanation
Indices: 44258835--44258869 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
44258825 AAACCACCTT
*
44258835 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
44258849 TAAACCCATAATCCA
1 TAAACCCATAATCCA
44258864 TAAACC
1 TAAACC
44258870 TTAAGATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:44259493 original size:115 final size:114
Alignment explanation
Indices: 44259357--44259650 Score: 390
Period size: 115 Copynumber: 2.5 Consensus size: 114
44259347 CATTAGCGGT
* * *
44259357 GTTTTTAAAAAAGCGCTGCTAAAGGTGTACTTATAGCGGCGTTTTTGAAAAGCGCCGCTAAAGCT
1 GTTTTTAAAAAAACGCCGCTAAAGGTGTACTT-TAGCGGCGTTTTTGAAAAGCGCCGCTAAAGCC
*
44259422 ACTAAAAGCTTAATACAAAACGACGTCATTTTGCAAAATTCTTTTACGGC
65 ACTAAAAGCTTAATACAAAACGACGTCATTTTGCAAAATTCTTTTACGAC
* *
44259472 GTTTTTAAAAAAACGCCGCTAAAGGTGTACTTCTGGCGGTGTTTTTGAAAAGCGCCGCTAAAGCC
1 GTTTTTAAAAAAACGCCGCTAAAGGTGTACTT-TAGCGGCGTTTTTGAAAAGCGCCGCTAAAGCC
* * *
44259537 ACTAAAAGCTTAATACAGAACGACGTCATTTTGCAAAATTCTTTTGCTAC
65 ACTAAAAGCTTAATACAAAACGACGTCATTTTGCAAAATTCTTTTACGAC
** * * ** * * *
44259587 GTTTTTTGAAAAACGCCACTAAAGATCAAGCATTAGCGGCGTTTTTTAAAAAGCGACGCTAAAG
1 GTTTTTAAAAAAACGCCGCTAAAGGTGTA-CTTTAGCGGCG-TTTTTGAAAAGCGCCGCTAAAG
44259651 GTGTACTTAT
Statistics
Matches: 156, Mismatches: 21, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
115 134 0.86
116 22 0.14
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (114 bp):
GTTTTTAAAAAAACGCCGCTAAAGGTGTACTTTAGCGGCGTTTTTGAAAAGCGCCGCTAAAGCCA
CTAAAAGCTTAATACAAAACGACGTCATTTTGCAAAATTCTTTTACGAC
Found at i:44259516 original size:155 final size:155
Alignment explanation
Indices: 44259083--44259535 Score: 564
Period size: 155 Copynumber: 2.9 Consensus size: 155
44259073 CATTTCTTGT
* *
44259083 GGCGTTTTTCAAAAAGCGCCGCTAAAGCCACTAAAAGCTCAATACAAAACGACGTCATTTTGCAA
1 GGCGTTTTT-GAAAAGCGCCGCTAAAGCTACTAAAAGCTCAATACAAAACGACGTCATTTTGCAA
* * *
44259148 AATTCTTTTGCGGCGTTTTTTAAAAAGCACCGCTAAAGGTGTACTTATAGCGGTGTTTCTTAAAA
65 AATTCTTTTGCGGCGTTTTTTAAAAAACGCCGCTAAAGGTGTACTTCTAGCGGTGTTT-TTAAAA
*
44259213 AAACGCCT-CTAATA-CTCGATCTTTAGC
129 AAGCG-CTGCTAA-AGCTCGATCTTTAGC
* * *
44259240 -GCGTTTTTGAAAAGTGCCGCTAAAG-TCACTAAAAGCTCAATACAAAACGACGTCGTTTTGAAA
1 GGCGTTTTTGAAAAGCGCCGCTAAAGCT-ACTAAAAGCTCAATACAAAACGACGTCATTTTGCAA
* * * * * *
44259303 AATTATTTTGCGGCATTTTTTGAAAAACGCCACTAAAGAT-TA-TGCATTAGCGGTGTTTTTAAA
65 AATTCTTTTGCGGCGTTTTTTAAAAAACGCCGCTAAAGGTGTACTTC--TAGCGGTGTTTTTAAA
*
44259366 AAAGCGCTGCTAAAGGT-G-TACTTATAGC
128 AAAGCGCTGCTAAAGCTCGAT-CTT-TAGC
*
44259394 GGCGTTTTTGAAAAGCGCCGCTAAAGCTACTAAAAGCTTAATACAAAACGACGTCATTTTGCAAA
1 GGCGTTTTTGAAAAGCGCCGCTAAAGCTACTAAAAGCTCAATACAAAACGACGTCATTTTGCAAA
* * * *
44259459 ATTCTTTTACGGCGTTTTTAAAAAAACGCCGCTAAAGGTGTACTTCTGGCGGTGTTTTT-GAAAA
66 ATTCTTTTGCGGCGTTTTTTAAAAAACGCCGCTAAAGGTGTACTTCTAGCGGTGTTTTTAAAAAA
*
44259523 GCGCCGCTAAAGC
131 GCGCTGCTAAAGC
44259536 CACTAAAAGC
Statistics
Matches: 253, Mismatches: 32, Indels: 25
0.82 0.10 0.08
Matches are distributed among these distances:
152 1 0.00
153 8 0.03
154 36 0.14
155 195 0.77
156 11 0.04
157 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (155 bp):
GGCGTTTTTGAAAAGCGCCGCTAAAGCTACTAAAAGCTCAATACAAAACGACGTCATTTTGCAAA
ATTCTTTTGCGGCGTTTTTTAAAAAACGCCGCTAAAGGTGTACTTCTAGCGGTGTTTTTAAAAAA
GCGCTGCTAAAGCTCGATCTTTAGC
Found at i:44259752 original size:39 final size:39
Alignment explanation
Indices: 44259675--44259752 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
44259665 GCGTTTCTTA
* * **
44259675 AAAAAGTGCCGCTAATACTCGATCTTTAGTTGTGTTTTT
1 AAAAAGCGCCGCTAATACTCGATCTTTAGTGGCATTTTT
*
44259714 AAAAAGCGCCGCTAATGCTC-ATTCTTTAGTGGCATTTTT
1 AAAAAGCGCCGCTAATACTCGA-TCTTTAGTGGCATTTTT
44259753 CATTCAAACG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (39 bp):
AAAAAGCGCCGCTAATACTCGATCTTTAGTGGCATTTTT
Found at i:44263234 original size:13 final size:13
Alignment explanation
Indices: 44263210--44263253 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
44263200 TTTATATCTT
*
44263210 TAAAACAATTATA
1 TAAAAAAATTATA
*
44263223 TAACAAAATTATA
1 TAAAAAAATTATA
*
44263236 -AAAAAAATTACA
1 TAAAAAAATTATA
44263248 TAAAAA
1 TAAAAA
44263254 TTAAATATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.68, C:0.07, G:0.00, T:0.25
Consensus pattern (13 bp):
TAAAAAAATTATA
Found at i:44264688 original size:10 final size:10
Alignment explanation
Indices: 44264663--44264751 Score: 52
Period size: 9 Copynumber: 9.4 Consensus size: 10
44264653 TAATTTTTAT
*
44264663 TATTTTAGAA
1 TATTTTATAA
*
44264673 AATTTTCATAA
1 TATTTT-ATAA
44264684 T-TTTTATAA
1 TATTTTATAA
44264693 TATTTT-TAGA
1 TATTTTATA-A
*
44264703 -ATTTTAGAA
1 TATTTTATAA
44264712 -ATTTT-TAA
1 TATTTTATAA
44264720 TTACTTTTATAA
1 -TA-TTTTATAA
44264732 -A-TTTAT-A
1 TATTTTATAA
44264739 TATTTTA-AA
1 TATTTTATAA
44264748 TATT
1 TATT
44264752 ATTTTTTATT
Statistics
Matches: 63, Mismatches: 5, Indels: 23
0.69 0.05 0.25
Matches are distributed among these distances:
7 1 0.02
8 8 0.13
9 27 0.43
10 17 0.27
11 7 0.11
12 3 0.05
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.56
Consensus pattern (10 bp):
TATTTTATAA
Found at i:44264699 original size:39 final size:37
Alignment explanation
Indices: 44264638--44264745 Score: 112
Period size: 39 Copynumber: 2.9 Consensus size: 37
44264628 TTTAATAATG
*
44264638 ATTTTATTAACTTTT-T-AATTTTTATTATTTTAGAAA
1 ATTTTAATAACTTTTATAAATTTTTA-TATTTTAGAAA
* * *
44264674 ATTTTCATAATTTTTATAATATTTTTAGAATTTTAGAAA
1 ATTTTAATAACTTTTATAA-ATTTTTA-TATTTTAGAAA
* * *
44264713 TTTTTAATTACTTTTATAAATTTATATATTTTA
1 ATTTTAATAACTTTTATAAATTTTTATATTTTA
44264746 AATATTATTT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
36 12 0.21
37 7 0.12
38 7 0.12
39 32 0.55
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (37 bp):
ATTTTAATAACTTTTATAAATTTTTATATTTTAGAAA
Found at i:44264716 original size:28 final size:28
Alignment explanation
Indices: 44264685--44264751 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
44264675 TTTTCATAAT
*
44264685 TTTTATAATATTTTTAGAATTTTAGAAA
1 TTTTATAATATTTTTAGAAATTTAGAAA
* * * *
44264713 TTTT-TAATTACTTTTATAAATTTATATA
1 TTTTATAA-TATTTTTAGAAATTTAGAAA
44264741 TTTTA-AATATT
1 TTTTATAATATT
44264752 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
27 6 0.19
28 25 0.81
ACGTcount: A:0.37, C:0.01, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTATAATATTTTTAGAAATTTAGAAA
Found at i:44264733 original size:20 final size:19
Alignment explanation
Indices: 44264654--44264735 Score: 62
Period size: 20 Copynumber: 4.3 Consensus size: 19
44264644 TTAACTTTTT
44264654 AATTTTT-ATTATTTTAGA
1 AATTTTTAATTATTTTAGA
* * * *
44264672 AAATTTTCATAATTTTTATA
1 AATTTTTAATTA-TTTTAGA
44264692 ATATTTTTAGA--ATTTTAGA
1 A-ATTTTTA-ATTATTTTAGA
*
44264711 AATTTTTAATTACTTTTATA
1 AATTTTTAATTA-TTTTAGA
44264731 AATTT
1 AATTT
44264736 ATATATTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
17 1 0.02
18 13 0.26
19 11 0.22
20 19 0.38
21 5 0.10
22 1 0.02
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (19 bp):
AATTTTTAATTATTTTAGA
Found at i:44265713 original size:19 final size:18
Alignment explanation
Indices: 44265648--44265718 Score: 78
Period size: 19 Copynumber: 4.0 Consensus size: 18
44265638 TTTTTTAAAA
44265648 TTATAAAAAA-TAT-ATT
1 TTATAAAAAATTATAATT
44265664 TTA-AAAAAATTTATAAATT
1 TTATAAAAAA-TTAT-AATT
44265683 TT-TAAAAAATTATACATT
1 TTATAAAAAATTATA-ATT
*
44265701 TTATAAAAAATTAAAATT
1 TTATAAAAAATTATAATT
44265719 AAAATTAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
15 6 0.13
16 3 0.06
17 4 0.09
18 12 0.26
19 22 0.47
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (18 bp):
TTATAAAAAATTATAATT
Found at i:44266191 original size:20 final size:21
Alignment explanation
Indices: 44266157--44266203 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
44266147 AAATTTATTT
44266157 ATATTTAA-TCATTTTATAAA
1 ATATTTAATTCATTTTATAAA
** *
44266177 ATATTTAATTTTTTTTATGAA
1 ATATTTAATTCATTTTATAAA
44266198 ATATTT
1 ATATTT
44266204 TTTATAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (21 bp):
ATATTTAATTCATTTTATAAA
Found at i:44267863 original size:27 final size:27
Alignment explanation
Indices: 44267805--44267905 Score: 71
Period size: 27 Copynumber: 3.7 Consensus size: 27
44267795 CTGTCCCGGT
* *
44267805 GGACTATCCTATGTTTGCTGACCCAGC
1 GGACTATCCCATGTTTACTGACCCAGC
* *
44267832 AGACTATCCCATGTTTACTG-CCCCGTC
1 GGACTATCCCATGTTTACTGACCCAG-C
** * *
44267859 GGACTA-CCTTGTGTTTACTGTCCCAAC
1 GGACTATCC-CATGTTTACTGACCCAGC
* * *
44267886 AGACTACCCCGTGTTTACTG
1 GGACTATCCCATGTTTACTG
44267906 TTGCAGACTA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
26 6 0.10
27 48 0.81
28 5 0.08
ACGTcount: A:0.19, C:0.32, G:0.19, T:0.31
Consensus pattern (27 bp):
GGACTATCCCATGTTTACTGACCCAGC
Found at i:44267906 original size:27 final size:27
Alignment explanation
Indices: 44267816--44267906 Score: 83
Period size: 27 Copynumber: 3.4 Consensus size: 27
44267806 GACTATCCTA
* * * * *
44267816 TGTTTGCTGACCCAGCAGACTATCCCA
1 TGTTTACTGTCCCAACAGACTACCCCG
* ** * **
44267843 TGTTTACTGCCCCGTCGGACTACCTTG
1 TGTTTACTGTCCCAACAGACTACCCCG
44267870 TGTTTACTGTCCCAACAGACTACCCCG
1 TGTTTACTGTCCCAACAGACTACCCCG
44267897 TGTTTACTGT
1 TGTTTACTGT
44267907 TGCAGACTAT
Statistics
Matches: 49, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.32
Consensus pattern (27 bp):
TGTTTACTGTCCCAACAGACTACCCCG
Found at i:44271281 original size:34 final size:34
Alignment explanation
Indices: 44271243--44271321 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 34
44271233 ACCTTGAGAT
* *
44271243 AATATATATATCATACCAACACATCATGTGTATA
1 AATATATATATCATACCAACACATCATGTGCACA
44271277 AATATATATATCATACCAACACATCATGTGCACA
1 AATATATATATCATACCAACACATCATGTGCACA
44271311 AATATATATAT
1 AATATATATAT
44271322 GTACAAGTAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.46, C:0.18, G:0.05, T:0.32
Consensus pattern (34 bp):
AATATATATATCATACCAACACATCATGTGCACA
Found at i:44272362 original size:43 final size:43
Alignment explanation
Indices: 44272250--44272466 Score: 267
Period size: 43 Copynumber: 5.0 Consensus size: 43
44272240 ATATCATACA
* * * * * * *
44272250 ATGCCAACATCCTAGATGTGGTCTTACATGTAACCTCATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
44272293 ATGCC-ACTATCCCAGACAG-GGCCTTACTCGTAAACACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGTAATCACATATCG
* *
44272336 ATGCCAACGTCCTAGACGTGGTCTTACACGTAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
44272379 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
44272422 ATTCCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
44272465 AT
1 AT
44272467 ATCACATATA
Statistics
Matches: 152, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
42 3 0.02
43 146 0.96
44 3 0.02
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:44276738 original size:38 final size:38
Alignment explanation
Indices: 44276684--44276769 Score: 154
Period size: 38 Copynumber: 2.2 Consensus size: 38
44276674 TATCATTATG
*
44276684 TTTCAAATCCGCATATGATTTCTGTCGATCTGAAGCTGC
1 TTTCAAA-CTGCATATGATTTCTGTCGATCTGAAGCTGC
44276723 TTTCAAACTGCATATGATTTCTGTCGATCTGAAGCTGC
1 TTTCAAACTGCATATGATTTCTGTCGATCTGAAGCTGC
44276761 TTTCAAACT
1 TTTCAAACT
44276770 ATCACAAATT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
38 39 0.85
39 7 0.15
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.37
Consensus pattern (38 bp):
TTTCAAACTGCATATGATTTCTGTCGATCTGAAGCTGC
Found at i:44279890 original size:47 final size:47
Alignment explanation
Indices: 44279838--44280012 Score: 323
Period size: 47 Copynumber: 3.7 Consensus size: 47
44279828 GATAATTGTG
* *
44279838 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44279885 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
44279932 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
44279979 ATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATG
44280013 ATGATGAAGT
Statistics
Matches: 124, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:44280108 original size:47 final size:47
Alignment explanation
Indices: 44280019--44280366 Score: 531
Period size: 47 Copynumber: 7.4 Consensus size: 47
44280009 AATGATGATG
*
44280019 AAGTGTATATATGTGATAAGG---AATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
44280063 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
44280110 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
44280157 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
44280206 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* *
44280253 AAGTGTATATATGTGATGAGACCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * * * * * *
44280300 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
44280347 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
44280367 TCCCGAAGGG
Statistics
Matches: 278, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
44 21 0.08
47 212 0.76
49 45 0.16
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:44280201 original size:143 final size:140
Alignment explanation
Indices: 44280019--44280366 Score: 538
Period size: 143 Copynumber: 2.5 Consensus size: 140
44280009 AATGATGATG
44280019 AAGTGTATATATGTGATAAGG--AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AAGTGTATATATGTGATAAGGCCAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
44280082 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
66 GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTG
44280147 ATGAATGTGA
131 ATGAATGTGA
*
44280157 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 AAGTG--TATATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
44280222 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGACCTAATGGCCGAT
63 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAAT
44280287 GTGATGAATGTGA
128 GTGATGAATGTGA
* * * * * *
44280300 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 AAGTGTATATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATA
44280365 AG
65 AG
44280367 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
138 5 0.03
140 16 0.08
141 54 0.28
143 116 0.61
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (140 bp):
AAGTGTATATATGTGATAAGGCCAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCGAATGGCCAATGTG
ATGAATGTGA
Found at i:44285218 original size:12 final size:12
Alignment explanation
Indices: 44285201--44285229 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
44285191 CTACTCAAAG
44285201 CATTCGCGACTA
1 CATTCGCGACTA
44285213 CATTCGCGACTA
1 CATTCGCGACTA
44285225 CATTC
1 CATTC
44285230 CCTTTCCCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (12 bp):
CATTCGCGACTA
Found at i:44286028 original size:5 final size:5
Alignment explanation
Indices: 44286018--44286042 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44286008 TTGATTAAAA
44286018 TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT
44286043 ATAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:44287185 original size:12 final size:12
Alignment explanation
Indices: 44287165--44287195 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44287155 GTGTGTCGAA
44287165 TACTGTTACCGT
1 TACTGTTACCGT
*
44287177 TATTGTTACCGT
1 TACTGTTACCGT
44287189 TACTGTT
1 TACTGTT
44287196 TTGGATTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.16, C:0.19, G:0.16, T:0.48
Consensus pattern (12 bp):
TACTGTTACCGT
Found at i:44295831 original size:94 final size:94
Alignment explanation
Indices: 44295585--44295948 Score: 370
Period size: 94 Copynumber: 3.9 Consensus size: 94
44295575 TGGGATATAT
* * *
44295585 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAAGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATAA-TG-GCCGATGCATGTCC
* * * *
44295650 CGGACATGTCTTACACT--AACACAACTCT-
64 CAGACATGTCTTACACTGGCACTCATCTCTG
* * * * *
44295678 TAGCCAATG-CGTGTCCCAGACA-CGTCTTACACTGGCTATCTCTATCAA-GACCGATGCATGTC
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATC-ATAT-AATGGCCGATGCATGTC
*
44295740 CTAGACATGTCTTACACTGGCACTCATCTCTG
63 CCAGACATGTCTTACACTGGCACTCATCTCTG
* * *
44295772 TGCCGATGTCATGTCCCAGACATGTTCTTACACTGGCTATCATAGT-ATGGCTGATGCATGTCCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-TAATGGCCGATGCATGTCCC
* * *
44295836 AGACATGTCTTACACTAGCCCTCGT-T-TGG
65 AGACATGTCTTACACTGGCACTCATCTCT-G
* * * *
44295865 ATGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATA-ATGTGGCCGAAGCATGTCC
1 -TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATA-ATGGCCGATGCATGTCC
44295929 CAGACATGTCTTACACTGGC
64 CAGACATGTCTTACACTGGC
44295949 GCACAAATCA
Statistics
Matches: 226, Mismatches: 31, Indels: 27
0.80 0.11 0.10
Matches are distributed among these distances:
91 27 0.12
92 18 0.08
93 33 0.15
94 131 0.58
95 17 0.08
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (94 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATATAATGGCCGATGCATGTCCCA
GACATGTCTTACACTGGCACTCATCTCTG
Found at i:44295850 original size:141 final size:140
Alignment explanation
Indices: 44295586--44295948 Score: 346
Period size: 141 Copynumber: 2.6 Consensus size: 140
44295576 GGGATATATT
* * * * * *
44295586 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAAGCGTGCTGATGCATGTCCC
1 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTCATA-ATGTG-GCCGAAGCATGTCCC
* ** * * * ** * *
44295651 GGACATGTCTTACACTAAC-A-CA-ACTCTTAGCCAATGCGTGTCCCAGACACGTCTTACACTGG
64 AGACATGTCTTACACTGGCTATCATAGT-ATGGCTGATGCATGTCCCAGACACGTCTTACACTAG
*
44295713 CTATCTC-TAT-CAA
128 C--CCTCGTATGCAA
* * * * *
44295726 GACCGATG-CATGTCCTAGACAT-GTCTTACACTGGCACTCAT-CTCTGTGCCGATGTCATGTCC
1 G-CCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTCATAATGTG-GCCGAAG-CATGTCC
*
44295788 CAGACATGTTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACATGTCTTACACTA
63 CAGACATG-TCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACACGTCTTACACTA
* * *
44295853 GCCCTCGTTTGGAT
127 GCCCTCGTATGCAA
*
44295867 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAGCATGTCCCAG
1 GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAG
44295932 ACATGTCTTACACTGGC
66 ACATGTCTTACACTGGC
44295949 GCACAAATCA
Statistics
Matches: 184, Mismatches: 28, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
137 8 0.04
138 14 0.08
139 31 0.17
140 35 0.19
141 67 0.36
142 26 0.14
143 3 0.02
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (140 bp):
GCCGATGCCATGCCCCAGACATGGTCTTACACTGGCACTCATAATGTGGCCGAAGCATGTCCCAG
ACATGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCAGACACGTCTTACACTAGCCC
TCGTATGCAA
Found at i:44295919 original size:48 final size:46
Alignment explanation
Indices: 44295585--44295948 Score: 287
Period size: 47 Copynumber: 7.8 Consensus size: 46
44295575 TGGGATATAT
*
44295585 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAAGCG
1 TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAT--GTG
* * ** * *
44295635 TGCTGATGCATGTCCCGGACATGTCTTACACT--AACACA-ACTCT-
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATA-TGTG
* * * **
44295678 TAGCCAATGCGTGTCCCAGACACGTCTTACACTGGCTATCTC-TATCAAG
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGC--TCTCATAT-GTG
* * * * *
44295727 -ACCGATGCATGTCCTAGACATGTCTTACACTGGCACTCATCTCTG
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTG
* *
44295772 TGCCGATGTCATGTCCCAGACATGTTCTTACACTGGCTATCATA-GTA
1 TGCCGATG-CATGTCCCAGACATG-TCTTACACTGGCTCTCATATGTG
* * * * *
44295819 TGGCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTTTG-G
1 T-GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTG
*
44295865 ATGCCGATGCCATGCCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 -TGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCAT-ATGTG
*
44295915 -GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 TGCCGATGCATGTCCCAGACATGTCTTACACTGGC
44295949 GCACAAATCA
Statistics
Matches: 246, Mismatches: 48, Indels: 44
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.00
44 26 0.11
45 5 0.02
46 45 0.18
47 89 0.36
48 57 0.23
49 15 0.06
50 8 0.03
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
TGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATGTG
Found at i:44315607 original size:29 final size:30
Alignment explanation
Indices: 44315543--44315624 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
44315533 AATATCAAAA
*
44315543 TTATATATAAATTTTGATTTAATGTGTAATG
1 TTATATATGAATTTTGATTT-ATGTGTAATG
* * * *
44315574 CTATACATGAATTTTGATTT-TGTGTTATT
1 TTATATATGAATTTTGATTTATGTGTAATG
*
44315603 TTATATATGAAAATTTGATTTA
1 TTATATATG-AATTTTGATTTA
44315625 ATTTAATTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
29 14 0.34
30 10 0.24
31 17 0.41
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (30 bp):
TTATATATGAATTTTGATTTATGTGTAATG
Found at i:44320028 original size:22 final size:23
Alignment explanation
Indices: 44320003--44320048 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44319993 CAACCAAACC
44320003 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
44320025 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
44320048 A
1 A
44320049 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:44320054 original size:23 final size:23
Alignment explanation
Indices: 44320010--44320054 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
44320000 ACCAATTCAA
*
44320010 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
44320033 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
44320055 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:44326378 original size:22 final size:22
Alignment explanation
Indices: 44326350--44326393 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
44326340 AAATAAAAAG
44326350 CCATGTCCATGTTTTTCATTCT
1 CCATGTCCATGTTTTTCATTCT
44326372 CCATGTCCATGTTTTTCATTCT
1 CCATGTCCATGTTTTTCATTCT
44326394 TTCTTGCACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.14, C:0.27, G:0.09, T:0.50
Consensus pattern (22 bp):
CCATGTCCATGTTTTTCATTCT
Found at i:44338840 original size:22 final size:23
Alignment explanation
Indices: 44338815--44338860 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
44338805 CAACCAAACC
44338815 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
44338837 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
44338860 A
1 A
44338861 CGTCATCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:44338866 original size:23 final size:22
Alignment explanation
Indices: 44338822--44338871 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
44338812 ACCAATTCAA
*
44338822 CATATTTTCAAGATAAATTCAT
1 CATATTTTCAAGATAAAGTCAT
*
44338844 GCATATTTAT-AAGATAACGTCAT
1 -CATATTT-TCAAGATAAAGTCAT
44338867 CATAT
1 CATAT
44338872 ACCCAAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.21
23 18 0.75
24 1 0.04
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (22 bp):
CATATTTTCAAGATAAAGTCAT
Found at i:44341956 original size:20 final size:20
Alignment explanation
Indices: 44341931--44341974 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
44341921 AACATACATC
*
44341931 CTCTATTTTGTTCTGTTCTG
1 CTCTATTTTATTCTGTTCTG
*
44341951 CTCTATTTTATTTTGTTCTG
1 CTCTATTTTATTCTGTTCTG
44341971 CTCT
1 CTCT
44341975 GTTCAGTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.07, C:0.20, G:0.11, T:0.61
Consensus pattern (20 bp):
CTCTATTTTATTCTGTTCTG
Found at i:44342028 original size:20 final size:20
Alignment explanation
Indices: 44341977--44342028 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
44341967 TCTGCTCTGT
44341977 TCAGTTCAGTTCAACACTGC
1 TCAGTTCAGTTCAACACTGC
* *
44341997 TCTA-TTCTGTTCATTC-CTGC
1 TC-AGTTCAGTTCA-ACACTGC
44342017 TCAGTTCAGTTC
1 TCAGTTCAGTTC
44342029 TGTTATGTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.04
20 23 0.88
21 2 0.08
ACGTcount: A:0.17, C:0.29, G:0.13, T:0.40
Consensus pattern (20 bp):
TCAGTTCAGTTCAACACTGC
Found at i:44345504 original size:49 final size:49
Alignment explanation
Indices: 44345447--44345629 Score: 267
Period size: 49 Copynumber: 3.7 Consensus size: 49
44345437 CTGGTACCTA
*
44345447 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * * *
44345496 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
*
44345547 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
44345596 TAGTAGCCTACACTTAGTACTACACAGGTGACCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCA
44345630 CACAATAGAT
Statistics
Matches: 118, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 72 0.61
50 6 0.05
51 40 0.34
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:44345574 original size:100 final size:100
Alignment explanation
Indices: 44345446--44345626 Score: 326
Period size: 100 Copynumber: 1.8 Consensus size: 100
44345436 TCTGGTACCT
* *
44345446 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGATACACGTAGTAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACGTAGTAGCCTACACTT
44345511 AGTACTACACACGTGATCGAAGTTATCGGGTACGC
66 AGTACTACACACGTGATCGAAGTTATCGGGTACGC
*
44345546 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGGTACACGTAGTAGCCTACACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACGTAGTAGCCTACACTT
*
44345611 AGTACTACACAGGTGA
66 AGTACTACACACGTGA
44345627 CCACACAATA
Statistics
Matches: 77, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (100 bp):
ATAGTAGCCTGCACTTAGTACTACACATGTGACCAATAATCCGATACACGTAGTAGCCTACACTT
AGTACTACACACGTGATCGAAGTTATCGGGTACGC
Found at i:44351576 original size:33 final size:34
Alignment explanation
Indices: 44351539--44351602 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
44351529 CTTAAAGTTT
*
44351539 TAGTATGTGAA-CCCCATATTATATAGTATGACG
1 TAGTATGCGAACCCCCATATTATATAGTATGACG
*
44351572 TAGTATGCGAACCCCCATGTTATATAGTATG
1 TAGTATGCGAACCCCCATATTATATAGTATG
44351603 TGATTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 10 0.36
34 18 0.64
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (34 bp):
TAGTATGCGAACCCCCATATTATATAGTATGACG
Found at i:44351630 original size:15 final size:15
Alignment explanation
Indices: 44351610--44351749 Score: 63
Period size: 15 Copynumber: 9.5 Consensus size: 15
44351600 ATGTGATTTA
44351610 ATATGTGTGAACCCT
1 ATATGTGTGAACCCT
* *
44351625 ATATGTGCGAACCTT
1 ATATGTGTGAACCCT
** * *
44351640 GCATGTG-CAGATCCT
1 ATATGTGTGA-ACCCT
*
44351655 ATATGTGCGAACCCT
1 ATATGTGTGAACCCT
**
44351670 ATA-GATGTGAACTAT
1 ATATG-TGTGAACCCT
* ** * *
44351685 AGATACGTAAACCTT
1 ATATGTGTGAACCCT
* *
44351700 AGATGTG-CAA-CCT
1 ATATGTGTGAACCCT
*
44351713 ATATGTGTGAACCTT
1 ATATGTGTGAACCCT
*
44351728 ATATGTGTGAACGCT
1 ATATGTGTGAACCCT
*
44351743 ACATGTG
1 ATATGTG
44351750 AACATGTCAT
Statistics
Matches: 89, Mismatches: 30, Indels: 12
0.68 0.23 0.09
Matches are distributed among these distances:
13 8 0.09
14 6 0.07
15 74 0.83
16 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (15 bp):
ATATGTGTGAACCCT
Found at i:44351725 original size:28 final size:28
Alignment explanation
Indices: 44351622--44351734 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 28
44351612 ATGTGTGAAC
44351622 CCTATATGTGCGAACCTT-GCATGTGCAGA
1 CCTATATGTGCGAACCTTAG-ATGTGCA-A
44351651 TCCTATATGTGCGAACCCTATAGATGTG-AA
1 -CCTATATGTGCGAA-CCT-TAGATGTGCAA
*
44351681 -CTATA-GATACGTAAACCTTAGATGTGCAA
1 CCTATATG-TGCG--AACCTTAGATGTGCAA
* *
44351710 CCTATATGTGTGAACCTTATATGTG
1 CCTATATGTGCGAACCTTAGATGTG
44351735 TGAACGCTAC
Statistics
Matches: 70, Mismatches: 4, Indels: 20
0.74 0.04 0.21
Matches are distributed among these distances:
27 1 0.01
28 28 0.40
29 5 0.07
30 24 0.34
31 5 0.07
32 6 0.09
33 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.31
Consensus pattern (28 bp):
CCTATATGTGCGAACCTTAGATGTGCAA
Found at i:44353367 original size:43 final size:43
Alignment explanation
Indices: 44353319--44353490 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
44353309 GTTATCGAGA
*
44353319 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
* * *
44353362 TGTGATTACGTGTAAGACCATGT-TTGGAACATTGGC-TTCATTAT
1 TGTGATTACATGTAAGACCATGTCTAGG-ACATTGGCATT--GTAT
* * * * *
44353406 T-TGATTTCATGTAAGACCCTGTTTAGGACAGTGGCATCG-AT
1 TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
* * *
44353447 ATGTGATAACATGTAAGACCATATCTAGGATA-TGGCATTGTAT
1 -TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
44353490 T
1 T
44353491 AGATATATGT
Statistics
Matches: 104, Mismatches: 17, Indels: 17
0.75 0.12 0.12
Matches are distributed among these distances:
41 2 0.02
42 14 0.13
43 80 0.77
44 8 0.08
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTAT
Found at i:44362534 original size:26 final size:27
Alignment explanation
Indices: 44362470--44362541 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
44362460 TTAGGGTGAG
*
44362470 AAATTACTATTTTACCCCTAAGTATGA
1 AAATTACTATTATACCCCTAAGTATGA
* *
44362497 AAATTACCATTATACCCCT-AG-GTGCA
1 AAATTACTATTATACCCCTAAGTATG-A
*
44362523 AAATGACTATTATACCCCT
1 AAATTACTATTATACCCCT
44362542 TGGGTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
25 2 0.05
26 20 0.51
27 17 0.44
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACTATTATACCCCTAAGTATGA
Found at i:44362676 original size:27 final size:26
Alignment explanation
Indices: 44362646--44362759 Score: 156
Period size: 27 Copynumber: 4.3 Consensus size: 26
44362636 TGGAGGAAGC
44362646 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
44362673 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
44362700 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
44362726 GTATCTGGTGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
44362753 GTTCTGG
1 GTTCTGG
44362760 CAGCTCTGCT
Statistics
Matches: 82, Mismatches: 4, Indels: 3
0.92 0.04 0.03
Matches are distributed among these distances:
26 14 0.17
27 68 0.83
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:44364102 original size:49 final size:47
Alignment explanation
Indices: 44363965--44364139 Score: 154
Period size: 49 Copynumber: 3.6 Consensus size: 47
44363955 AGATGCCGAC
* * *
44363965 GCCATGTCCCAGACATGGTCTTATACTGGCTAGCAC-ATCAAAGTCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTATCACTATCGAA-TCGAT
* * * * * *
44364013 GTCATGTCCCACACAGGTCTTACACTGACTTTCAAATATCGAATCCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATC-ACTATCGAAT-CGAT
* * * * *
44364062 CCCATGTCCCAGACAGGTCTTATACTGGCTCTCATCTATCGATGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTATCA-CTATCGA-ATCGAT
*
44364111 GCCATGTCCCAGACATGTCTTACACTGGC
1 GCCATGTCCCAGACAGGTCTTACACTGGC
44364140 ACGCAACAAG
Statistics
Matches: 100, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
47 14 0.14
48 16 0.16
49 69 0.69
50 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTATCACTATCGAATCGAT
Found at i:44365968 original size:22 final size:21
Alignment explanation
Indices: 44365942--44365984 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
44365932 TTACTGTTAT
44365942 TGATTGTTTGATACTGAATAAC
1 TGATTG-TTGATACTGAATAAC
* *
44365964 TGATTGTTGTTATTGAATAAC
1 TGATTGTTGATACTGAATAAC
44365985 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.30, C:0.07, G:0.19, T:0.44
Consensus pattern (21 bp):
TGATTGTTGATACTGAATAAC
Found at i:44373146 original size:21 final size:19
Alignment explanation
Indices: 44373117--44373164 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
44373107 ATAAACCGAA
*
44373117 TTTAATATTTAAATTGTTGTT
1 TTTATTATTTAAA-TG-TGTT
*
44373138 TTTATTA-TTATATGTGTT
1 TTTATTATTTAAATGTGTT
44373156 TTTATTATT
1 TTTATTATT
44373165 ATATATGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 11 0.46
19 3 0.12
20 4 0.17
21 6 0.25
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TTTATTATTTAAATGTGTT
Found at i:44373165 original size:21 final size:20
Alignment explanation
Indices: 44373131--44373172 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 20
44373121 ATATTTAAAT
44373131 TGTTGTTTTTATTATTATATG
1 TGTTGTTTTTATTA-TATATG
44373152 TGTT-TTTATTATTATATATG
1 TGTTGTTT-TTATTATATATG
44373172 T
1 T
44373173 ATGGAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (20 bp):
TGTTGTTTTTATTATATATG
Found at i:44373172 original size:20 final size:18
Alignment explanation
Indices: 44373134--44373168 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
44373124 TTTAAATTGT
44373134 TGTTTTTATTATTATATG
1 TGTTTTTATTATTATATG
44373152 TGTTTTTATTATTATAT
1 TGTTTTTATTATTATAT
44373169 ATGTATGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.69
Consensus pattern (18 bp):
TGTTTTTATTATTATATG
Found at i:44379212 original size:92 final size:94
Alignment explanation
Indices: 44379069--44379253 Score: 230
Period size: 92 Copynumber: 2.0 Consensus size: 94
44379059 TTAGGGTTAT
* * * ** * *
44379069 GTTTCTCAATGGTGACATTGACGATAAGGTTTATGTGGTGCAACTAGAAATGTAACA-CCCTAA-
1 GTTTCTCAATGGTGACATTAACAAGAAGGTTTACATGGTGCAACAAAAAATGTAACACCCCTAAC
*
44379132 CGTATCCATCACCGAAATAGGGTTACGAA
66 CGCATCCATCACCGAAATAGGGTTACGAA
* *
44379161 GTTTCTCAATGGTGACATTAACAAGATGGTTTACATGGTGTAACAAAAAATGTAACACCCCTAAC
1 GTTTCTCAATGGTGACATTAACAAGAAGGTTTACATGGTGCAACAAAAAATGTAACACCCCTAAC
* * *
44379226 TCGCATCCATCGCTGGAATAGGGTTACG
66 -CGCATCCATCACCGAAATAGGGTTACG
44379254 GAGCATTACC
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
92 48 0.62
93 6 0.08
95 23 0.30
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.27
Consensus pattern (94 bp):
GTTTCTCAATGGTGACATTAACAAGAAGGTTTACATGGTGCAACAAAAAATGTAACACCCCTAAC
CGCATCCATCACCGAAATAGGGTTACGAA
Found at i:44380809 original size:89 final size:88
Alignment explanation
Indices: 44380594--44380847 Score: 257
Period size: 90 Copynumber: 2.9 Consensus size: 88
44380584 TGATGGTTGG
* * * ***
44380594 CACCA-CCCTTTTCCATAATTCGATAGCC-AGAGCTATCCCTTTTCATAATTTTGATAGTCGTCA
1 CACCATCCC-TTTACATAATTCGATAGCCGA-AGCTATCCCTTTTCGT-A-TTAGATAG-CCAAA
* * * *
44380657 -CCATCCCTTTTCATTGTTGATGGTCGT
61 GCCATCACTTTTCATAGTCGATGGTCAT
*
44380684 CACCATCCCTTTACATAATTTGATAGCCGAAGCTATCCCTTTTCAAG-ATTAGATAGCCAAAGCC
1 CACCATCCCTTTACATAATTCGATAGCCGAAGCTATCCCTTTTC--GTATTAGATAGCCAAAGCC
*
44380748 ATCTCTTTTCATAGCTCGATGGTCAT
64 ATCACTTTTCATAG-TCGATGGTCAT
* * * *
44380774 CACCATCCCTTTTCATAA-TCGATAGTCGAAGCTATCCCTTTTCGTATTCGATAGCCAAAGCTAT
1 CACCATCCCTTTACATAATTCGATAGCCGAAGCTATCCCTTTTCGTATTAGATAGCCAAAGCCAT
44380838 CACTTTTCAT
66 CACTTTTCAT
44380848 TCGTTAATGA
Statistics
Matches: 140, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
87 1 0.01
88 28 0.20
89 44 0.31
90 63 0.45
91 4 0.03
ACGTcount: A:0.25, C:0.28, G:0.13, T:0.35
Consensus pattern (88 bp):
CACCATCCCTTTACATAATTCGATAGCCGAAGCTATCCCTTTTCGTATTAGATAGCCAAAGCCAT
CACTTTTCATAGTCGATGGTCAT
Found at i:44380810 original size:29 final size:30
Alignment explanation
Indices: 44380599--44380847 Score: 138
Period size: 29 Copynumber: 8.3 Consensus size: 30
44380589 GTTGGCACCA
* *
44380599 CCCTTTTCCATAATTCGATAG-CCAGAGCTAT
1 CCCTTTT-CATAATTCGATAGTCGA-AGCCAT
* *
44380630 CCCTTTTCATAATTTTGATAGTCGTCA-CCAT
1 CCCTTTTCATAA-TTCGATAGTCG-AAGCCAT
** * *
44380661 CCCTTTTCATTGTT-GATGGTCGTCA-CCAT
1 CCCTTTTCATAATTCGATAGTCG-AAGCCAT
* * * *
44380690 CCCTTTACATAATTTGATAGCCGAAGCTAT
1 CCCTTTTCATAATTCGATAGTCGAAGCCAT
* * *
44380720 CCCTTTTCA-AGATTAGATAGCCAAAGCCAT
1 CCCTTTTCATA-ATTCGATAGTCGAAGCCAT
* ** *
44380750 CTCTTTTCATAGCTCGATGGTC-ATCA-CCAT
1 CCCTTTTCATAATTCGATAGTCGA--AGCCAT
*
44380780 CCCTTTTCATAA-TCGATAGTCGAAGCTAT
1 CCCTTTTCATAATTCGATAGTCGAAGCCAT
* * * *
44380809 CCCTTTTCGT-ATTCGATAGCCAAAGCTAT
1 CCCTTTTCATAATTCGATAGTCGAAGCCAT
*
44380838 CACTTTTCAT
1 CCCTTTTCAT
44380848 TCGTTAATGA
Statistics
Matches: 173, Mismatches: 33, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
28 2 0.01
29 71 0.41
30 69 0.40
31 29 0.17
32 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (30 bp):
CCCTTTTCATAATTCGATAGTCGAAGCCAT
Found at i:44381839 original size:20 final size:20
Alignment explanation
Indices: 44381806--44381843 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44381796 TGATATGTAT
44381806 ATATGTATTATATAATAATG
1 ATATGTATTATATAATAATG
44381826 ATAT-TATTATTATAATAA
1 ATATGTATTA-TATAATAA
44381844 AAAAAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (20 bp):
ATATGTATTATATAATAATG
Found at i:44382921 original size:18 final size:18
Alignment explanation
Indices: 44382884--44382921 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
44382874 TGGCATGTGA
*
44382884 AATGGAAATGAGATAGTG
1 AATGGAAATGAAATAGTG
44382902 AATGGAAAATGAAATA-TG
1 AATGG-AAATGAAATAGTG
44382920 AA
1 AA
44382922 ATAGGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.26, T:0.21
Consensus pattern (18 bp):
AATGGAAATGAAATAGTG
Found at i:44390644 original size:40 final size:40
Alignment explanation
Indices: 44390558--44390818 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
44390548 AATGCTGTCT
* *
44390558 GGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCC
* * * *
44390597 GGACTAAGAT-CCGAAGGCATTTGTGTGAGATACTAATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
44390637 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
44390676 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
44390716 AGGTTAAATCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
* * *
44390756 GGGTTAAGTCCCGAAGGCATTTGTGTGAATTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
44390796 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
44390819 AACGAGGAGC
Statistics
Matches: 194, Mismatches: 21, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
39 48 0.25
40 137 0.71
41 9 0.05
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:44405840 original size:11 final size:11
Alignment explanation
Indices: 44405824--44405858 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
44405814 TCCTTCCCCC
44405824 CTCCCTTCTCT
1 CTCCCTTCTCT
44405835 CTCCCTTCTCT
1 CTCCCTTCTCT
44405846 CTTCCC-TCTCT
1 C-TCCCTTCTCT
44405857 CT
1 CT
44405859 TCTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:44406349 original size:3 final size:3
Alignment explanation
Indices: 44406325--44406392 Score: 57
Period size: 3 Copynumber: 22.3 Consensus size: 3
44406315 AATATCCTTG
* * * *
44406325 TTA TTT TTA -TA TTA TTA GTA TTA TTA GTA TTA GTA TTA TTA TTA TGTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
* *
44406373 TTA GTA TATA TTT TTA TTA T
1 TTA TTA T-TA TTA TTA TTA T
44406393 GTACGTGTAT
Statistics
Matches: 50, Mismatches: 12, Indels: 6
0.74 0.18 0.09
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:44406402 original size:23 final size:23
Alignment explanation
Indices: 44406332--44406403 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 23
44406322 TTGTTATTTT
* *
44406332 TATATTATTAGTAT-TATTAGTA
1 TATATTATTATTATGTAGTAGTA
*
44406354 TTAGTATTATTATTATGTATTAGTA
1 -TA-TATTATTATTATGTAGTAGTA
*
44406379 TATATTTTTATTATGTACGT-GTA
1 TATATTATTATTATGTA-GTAGTA
44406402 TA
1 TA
44406404 CATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
23 21 0.49
24 14 0.33
25 8 0.19
ACGTcount: A:0.32, C:0.01, G:0.11, T:0.56
Consensus pattern (23 bp):
TATATTATTATTATGTAGTAGTA
Found at i:44406506 original size:3 final size:3
Alignment explanation
Indices: 44406493--44406570 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
44406483 TATTCCAATG
*
44406493 TTA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
44406541 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
44406571 GTTTATGTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:44406874 original size:19 final size:20
Alignment explanation
Indices: 44406837--44406898 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
44406827 ATTATCATTG
*
44406837 TATATATTTTATTATTATTA
1 TATATATTTTATCATTATTA
44406857 GT-TATATTTTA-CATTATTA
1 -TATATATTTTATCATTATTA
*
44406876 TATATATTTT-TCTAATATTA
1 TATATATTTTATC-ATTATTA
44406896 TAT
1 TAT
44406899 TGTATATACT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
18 1 0.03
19 16 0.44
20 18 0.50
21 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TATATATTTTATCATTATTA
Found at i:44407311 original size:18 final size:19
Alignment explanation
Indices: 44407252--44407347 Score: 58
Period size: 18 Copynumber: 5.1 Consensus size: 19
44407242 ATATACGTAC
*
44407252 TTATACATACTTAAATATAT
1 TTAT-CATACTTACATATAT
* * *
44407272 TTTTCATA-TTTCATAATTT
1 TTATCATACTTACAT-ATAT
44407291 TTAT-ATACTTACATATAT
1 TTATCATACTTACATATAT
*
44407309 TTATGCATATTTTACATCATA-
1 TTAT-CATA-CTTACAT-ATAT
*
44407330 -TA-CATACTTATATATAT
1 TTATCATACTTACATATAT
44407347 T
1 T
44407348 CTTTATATTC
Statistics
Matches: 58, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
16 3 0.05
17 5 0.09
18 18 0.31
19 15 0.26
20 8 0.14
21 6 0.10
22 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.01, T:0.51
Consensus pattern (19 bp):
TTATCATACTTACATATAT
Found at i:44407337 original size:38 final size:36
Alignment explanation
Indices: 44407253--44407347 Score: 93
Period size: 38 Copynumber: 2.6 Consensus size: 36
44407243 TATACGTACT
* *
44407253 TATACATACTTAAATATATTTTTCATATTTCATAATT
1 TATACATACTTAAATATATTTTGCATATTT-ATAATA
* * *
44407290 TTTATATACTTACATATATTTATGCATATTT-TACATCA
1 TATACATACTTAAATATATTT-TGCATATTTATA-AT-A
*
44407328 TATACATACTTATATATATT
1 TATACATACTTAAATATATT
44407348 CTTTATATTC
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
36 2 0.04
37 20 0.43
38 25 0.53
ACGTcount: A:0.37, C:0.12, G:0.01, T:0.51
Consensus pattern (36 bp):
TATACATACTTAAATATATTTTGCATATTTATAATA
Found at i:44419724 original size:44 final size:44
Alignment explanation
Indices: 44419657--44420165 Score: 343
Period size: 44 Copynumber: 11.7 Consensus size: 44
44419647 AAAAAATTTC
* *
44419657 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* ** *
44419701 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * * *
44419745 TA-ATCCTATCTCCTTGAGATTACAATGGAGCGGATT--A-A-A-
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
** * * * *
44419784 AGATCTTATCTCTTTGA-AGTTACAGTAGAGAAGA-TCACA-TCAG
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGA-AGACAG
* * * ** * *
44419827 -G-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGA-ATTCC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---G
* *
44419871 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* *
44419915 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACA-
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
** * * * * * *
44419958 CTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGA-TCAAAATGAT
1 AGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGA-CAG
* ** * *
44420002 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAA-AAATTTC
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACA---G
* *
44420048 AGATCTTATCTCCCTGAGATTACAATGGAGCAGATTGAAGATAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * *
44420092 TA-ATCTTATCTCCCTGAGATTACAGAGGAGTAGATTGAAGATAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
* * *
44420136 TA-ATCCTATCTGCCTGAGATTACAGCGGAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAG
44420166 TGGATTAAAA
Statistics
Matches: 367, Mismatches: 71, Indels: 54
0.75 0.14 0.11
Matches are distributed among these distances:
38 3 0.01
39 24 0.07
40 1 0.00
41 28 0.08
42 7 0.02
43 29 0.08
44 199 0.54
45 6 0.02
46 67 0.18
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGACAG
Found at i:44419939 original size:90 final size:89
Alignment explanation
Indices: 44419657--44420121 Score: 336
Period size: 87 Copynumber: 5.3 Consensus size: 89
44419647 AAAAAATTTC
* ** * * *
44419657 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GAGATCTTATCTCCCTGAGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAG-AATTCAGATCTTATCTCCCTGAGG
* ** *
44419720 TTACAGCGGAGCAGATCAAAGATAG
65 TTACAGTGGAGCAGATTGAAGACAG
* * * ** * ** *
44419745 TA-ATCCTATCTCCTTGAGATTACAATGGAGC-G---GATTAA--AAGATCTTATCTCTTTGAAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTCAGATCTTATCTCCCTGAGG
* * * *
44419803 TTACAGTAGAGAAGA-TCACA-TCAG
65 TTACAGTGGAGCAGATTGA-AGACAG
* * * *
44419827 -G-TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTCCAGATCTTATCTCCCTGAGG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATT-CAGATCTTATCTCCCTGAGG
*
44419890 TTACAGTGGAGCAGATTGAAGCCAG
65 TTACAGTGGAGCAGATTGAAGACAG
* * * * *
44419915 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAG-A--CACTATCCTATCTCCCTGAAG
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTCA-GATCTTATCTCCCTGAGG
* * * * *
44419977 TTACAGTGGAGCGGA-TCAAAATGAT
65 TTACAGTGGAGCAGATTGAAGA-CAG
* * *
44420002 AGATCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGA
1 AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA-TTCAGATCTTATCTCCCTGAGG
* *
44420067 TTACAATGGAGCAGATTGAAGATAG
65 TTACAGTGGAGCAGATTGAAGACAG
*
44420092 TA-ATCTTATCTCCCTGAGATTACAGAGGAG
1 -AGATCTTATCTCCCTGAGATTACAGTGGAG
44420122 TAGATTGAAG
Statistics
Matches: 288, Mismatches: 67, Indels: 41
0.73 0.17 0.10
Matches are distributed among these distances:
80 22 0.08
81 1 0.00
82 3 0.01
83 29 0.10
84 5 0.02
86 5 0.02
87 97 0.34
88 31 0.11
89 3 0.01
90 85 0.30
91 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (89 bp):
AGATCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTCAGATCTTATCTCCCTGAGGT
TACAGTGGAGCAGATTGAAGACAG
Found at i:44420058 original size:177 final size:178
Alignment explanation
Indices: 44419828--44420176 Score: 479
Period size: 177 Copynumber: 2.0 Consensus size: 178
44419818 TCACATCAGG
* * ** * * *
44419828 TCTTATTTCCCTGAGGTTACAGTGGAGTAGACCGGAGAATTCCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTA
* * *
44419893 CAGTGGAGCAGATTGAAGCCAG-AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC
66 CAATGGAGCAGATTGAAGACAGTA-ATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGAC
*
44419957 ACT-ATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATCAAAATGATAGA
130 ACTAATCCTATCTCCCTGAGA-TTACAGCGGAGCGGATCAAAATGATAGA
*
44420005 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTA
* * * *
44420070 CAATGGAGCAGATTGAAGATAGTAATCTTATCTCCCTGAGATTACAGAGGAGTAGATTGAAGATA
66 CAATGGAGCAGATTGAAGACAGTAATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGACA
* * * *
44420135 GTAATCCTATCTGCCTGAGATTACAGCGGAGTGGATTAAAAT
131 CTAATCCTATCTCCCTGAGATTACAGCGGAGCGGATCAAAAT
44420177 AAAGGATCTT
Statistics
Matches: 149, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
177 114 0.77
178 34 0.23
179 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (178 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAAAATTCCAGATCTTATCTCCCTGAGATTA
CAATGGAGCAGATTGAAGACAGTAATCTTATCTCCCTGAGATTACAGAGGAGCAGATCGAAGACA
CTAATCCTATCTCCCTGAGATTACAGCGGAGCGGATCAAAATGATAGA
Found at i:44421134 original size:18 final size:19
Alignment explanation
Indices: 44421083--44421147 Score: 71
Period size: 18 Copynumber: 3.5 Consensus size: 19
44421073 ATATATATAC
*
44421083 TAAAAAAT-ATATAAAAAA
1 TAAAAAATAAAATAAAAAA
* * *
44421101 TAACAATATAATATAAACAA
1 TAA-AAAATAAAATAAAAAA
44421121 -AAAAAATAAAATAAAAAA
1 TAAAAAATAAAATAAAAAA
44421139 TAAAAAATA
1 TAAAAAATA
44421148 TTTTTTTTAC
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
18 16 0.41
19 14 0.36
20 9 0.23
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (19 bp):
TAAAAAATAAAATAAAAAA
Found at i:44421145 original size:20 final size:20
Alignment explanation
Indices: 44421084--44421145 Score: 67
Period size: 19 Copynumber: 3.2 Consensus size: 20
44421074 TATATATACT
44421084 AAAAAAT-ATATAAAAAATA
1 AAAAAATAATATAAAAAATA
* * *
44421103 ACAATATAATAT-AAACA-A
1 AAAAAATAATATAAAAAATA
*
44421121 AAAAAATAAAATAAAAAATA
1 AAAAAATAATATAAAAAATA
44421141 AAAAA
1 AAAAA
44421146 TATTTTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
18 10 0.30
19 13 0.39
20 10 0.30
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAAATAATATAAAAAATA
Found at i:44421268 original size:11 final size:11
Alignment explanation
Indices: 44421254--44421288 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
44421244 TTCCTTCCCC
44421254 CTCCCTTCTCT
1 CTCCCTTCTCT
44421265 CTCCCTTCTCT
1 CTCCCTTCTCT
44421276 CTTCCC-TCTCT
1 C-TCCCTTCTCT
44421287 CT
1 CT
44421289 TCTTTTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.04
11 18 0.78
12 4 0.17
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:44423694 original size:19 final size:18
Alignment explanation
Indices: 44423651--44423703 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
44423641 ATATATATAC
44423651 TAAAAA-AAATATAAAAA
1 TAAAAATAAATATAAAAA
*
44423668 TAACAATATAATATAAACAA
1 TAAAAATA-AATATAAA-AA
44423688 -AAAAATAAATA-AAAAA
1 TAAAAATAAATATAAAAA
44423704 AATATTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
16 2 0.06
17 8 0.26
18 5 0.16
19 14 0.45
20 2 0.06
ACGTcount: A:0.77, C:0.04, G:0.00, T:0.19
Consensus pattern (18 bp):
TAAAAATAAATATAAAAA
Found at i:44423837 original size:11 final size:11
Alignment explanation
Indices: 44423821--44423855 Score: 52
Period size: 11 Copynumber: 3.0 Consensus size: 11
44423811 CCTTCCCCCC
44423821 TCCCTTCTCTT
1 TCCCTTCTCTT
44423832 TCCCTTCTCTCT
1 TCCCTTCTCT-T
44423844 TCCCTCTCTCTT
1 TCCCT-TCTCTT
44423856 CTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.45
12 7 0.32
13 5 0.23
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (11 bp):
TCCCTTCTCTT
Done.