Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 26 of 186
Found at i:7689971 original size:19 final size:18
Alignment explanation
Indices: 7689944--7690018 Score: 75
Period size: 19 Copynumber: 4.3 Consensus size: 18
7689934 TTAAACTCTT
*
7689944 TATAAATTATTTATTTTCA
1 TATATATTATTTATTTT-A
*
7689963 TATATATTATTTATATTA
1 TATATATTATTTATTTTA
*
7689981 -AAATATT-TTTATTTTA
1 TATATATTATTTATTTTA
* *
7689997 TGTATATTATTTACTTTA
1 TATATATTATTTATTTTA
7690015 -ATAT
1 TATAT
7690019 TTTTTCTATA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
16 8 0.17
17 14 0.30
18 9 0.20
19 15 0.33
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (18 bp):
TATATATTATTTATTTTA
Found at i:7690028 original size:26 final size:26
Alignment explanation
Indices: 7689990--7690040 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
7689980 AAAATATTTT
*
7689990 TATTTTATGTATATTATTTACTTTAA
1 TATTTTATCTATATTATTTACTTTAA
* *
7690016 TATTTTTTCTATATTATTTATTTTA
1 TATTTTATCTATATTATTTACTTTA
7690041 GACCTTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTATCTATATTATTTACTTTAA
Found at i:7690211 original size:22 final size:20
Alignment explanation
Indices: 7690186--7690228 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
7690176 TACTTAGTCA
7690186 AAATTGTTTCATTATTTATTTC
1 AAATTGTTTCA-TA-TTATTTC
*
7690208 AAATTGTTTTATATTATTTC
1 AAATTGTTTCATATTATTTC
7690228 A
1 A
7690229 TTCTTTTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 8 0.40
21 2 0.10
22 10 0.50
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (20 bp):
AAATTGTTTCATATTATTTC
Found at i:7692189 original size:16 final size:16
Alignment explanation
Indices: 7692168--7692199 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7692158 TGAGAAGTAT
7692168 CAATATTCAAGTTTCA
1 CAATATTCAAGTTTCA
*
7692184 CAATATTCAATTTTCA
1 CAATATTCAAGTTTCA
7692200 AGTGAAGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.41
Consensus pattern (16 bp):
CAATATTCAAGTTTCA
Found at i:7694038 original size:29 final size:29
Alignment explanation
Indices: 7693996--7694053 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
7693986 CCGATGATAC
7693996 GACAAAAAACAATCAATGATTATTTATTA
1 GACAAAAAACAATCAATGATTATTTATTA
7694025 GACAAAAAACAATCAATGATTATTTATTA
1 GACAAAAAACAATCAATGATTATTTATTA
7694054 ATCTCTTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (29 bp):
GACAAAAAACAATCAATGATTATTTATTA
Found at i:7698356 original size:19 final size:19
Alignment explanation
Indices: 7698328--7698381 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
7698318 AAATAAAAAG
7698328 AAAGTGTTAAAATATATTTA
1 AAAGT-TTAAAATATATTTA
*
7698348 ACAA-TTTAAAAACATATTTA
1 A-AAGTTT-AAAATATATTTA
*
7698368 AAAGTTTAAGATAT
1 AAAGTTTAAAATAT
7698382 TGTTAATAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.32
20 17 0.61
21 2 0.07
ACGTcount: A:0.52, C:0.04, G:0.07, T:0.37
Consensus pattern (19 bp):
AAAGTTTAAAATATATTTA
Found at i:7699293 original size:21 final size:22
Alignment explanation
Indices: 7699264--7699304 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
7699254 CAAAAAATAT
7699264 TAATAATTAAAT-TAAAAAAACC
1 TAATAATT-AATCTAAAAAAACC
7699286 TAAT-ATTAATCTAAAAAAA
1 TAATAATTAATCTAAAAAAA
7699305 ATGAAGAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (22 bp):
TAATAATTAATCTAAAAAAACC
Found at i:7699553 original size:14 final size:14
Alignment explanation
Indices: 7699534--7699560 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7699524 ATTTCATTAT
7699534 TTTTATAATTTTAA
1 TTTTATAATTTTAA
7699548 TTTTATAATTTTA
1 TTTTATAATTTTA
7699561 TTATTCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATAATTTTAA
Found at i:7700611 original size:16 final size:16
Alignment explanation
Indices: 7700592--7700622 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7700582 TAAGCATTTT
7700592 TAATATATATATATAA
1 TAATATATATATATAA
*
7700608 TAATATATATTTATA
1 TAATATATATATATA
7700623 TTGATTCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TAATATATATATATAA
Found at i:7702787 original size:29 final size:29
Alignment explanation
Indices: 7702754--7702812 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
7702744 TTACTCCCCA
*
7702754 TCTATGTTTTTAGTAACGGTCTTTAAGAT
1 TCTATATTTTTAGTAACGGTCTTTAAGAT
7702783 TCTATATTTTTAGTAACGGTCTTTAAGAT
1 TCTATATTTTTAGTAACGGTCTTTAAGAT
7702812 T
1 T
7702813 TGAATGTACA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.15, T:0.49
Consensus pattern (29 bp):
TCTATATTTTTAGTAACGGTCTTTAAGAT
Found at i:7703096 original size:9 final size:9
Alignment explanation
Indices: 7703082--7703121 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
7703072 GGAAATAGAA
7703082 AAGAATAAG
1 AAGAATAAG
7703091 AAGAATAAG
1 AAGAATAAG
*
7703100 AGGAA-AAG
1 AAGAATAAG
*
7703108 AAGAAAAAG
1 AAGAATAAG
7703117 AAGAA
1 AAGAA
7703122 GAGAAGCAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (9 bp):
AAGAATAAG
Found at i:7703109 original size:23 final size:23
Alignment explanation
Indices: 7703079--7703124 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7703069 TTAGGAAATA
* * *
7703079 GAAAAGAATAAGAAGAATAAGAG
1 GAAAAGAAGAAAAAGAAGAAGAG
7703102 GAAAAGAAGAAAAAGAAGAAGAG
1 GAAAAGAAGAAAAAGAAGAAGAG
7703125 AAGCAATGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (23 bp):
GAAAAGAAGAAAAAGAAGAAGAG
Found at i:7703110 original size:17 final size:17
Alignment explanation
Indices: 7703082--7703127 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
7703072 GGAAATAGAA
*
7703082 AAGAATAAGAAGAATAAG
1 AAGAA-AAGAAGAAAAAG
*
7703100 AGGAAAAGAAGAAAAAG
1 AAGAAAAGAAGAAAAAG
*
7703117 AAGAAGAGAAG
1 AAGAAAAGAAG
7703128 CAATGGACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 20 0.83
18 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.04
Consensus pattern (17 bp):
AAGAAAAGAAGAAAAAG
Found at i:7707421 original size:19 final size:19
Alignment explanation
Indices: 7707397--7707433 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7707387 TAGTTACGGG
7707397 TAATTAGCAATTTAATTGC
1 TAATTAGCAATTTAATTGC
**
7707416 TAATTAGGGATTTAATTG
1 TAATTAGCAATTTAATTG
7707434 ATCATAGGCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (19 bp):
TAATTAGCAATTTAATTGC
Found at i:7709066 original size:24 final size:24
Alignment explanation
Indices: 7709038--7709090 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
7709028 TTTCTAGAGG
*
7709038 ATTTAGTATTTATGAGTAAAATAT
1 ATTTAGTATTTATGAGCAAAATAT
* *
7709062 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATGAGCAAAATAT
7709086 ATTTA
1 ATTTA
7709091 ACTTTGATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.40, C:0.02, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCAAAATAT
Found at i:7714119 original size:22 final size:21
Alignment explanation
Indices: 7714094--7714153 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
7714084 ATTGATAATT
7714094 ATAAAATATAAATATAGAACTA
1 ATAAAATATAAATATA-AACTA
* *
7714116 ATAAAATATAATATATACATTA
1 ATAAAATATAA-ATATAAACTA
7714138 A-AAAATATAAA-ATAAA
1 ATAAAATATAAATATAAA
7714154 ATTTTAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 9 0.26
22 15 0.44
23 5 0.15
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.28
Consensus pattern (21 bp):
ATAAAATATAAATATAAACTA
Found at i:7714130 original size:21 final size:22
Alignment explanation
Indices: 7714094--7714147 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
7714084 ATTGATAATT
7714094 ATAAAATATAAATATAGA-ACTA
1 ATAAAATAT-AATATAGACACTA
* *
7714116 ATAAAATATAATATATACATTA
1 ATAAAATATAATATAGACACTA
7714138 A-AAAATATAA
1 ATAAAATATAA
7714148 AATAAAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 16 0.55
22 13 0.45
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.30
Consensus pattern (22 bp):
ATAAAATATAATATAGACACTA
Found at i:7724503 original size:103 final size:104
Alignment explanation
Indices: 7724259--7724524 Score: 419
Period size: 103 Copynumber: 2.6 Consensus size: 104
7724249 GTTGTACATA
** *
7724259 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
7724324 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
7724363 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
7724427 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
7724466 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
7724525 AATAACGGTT
Statistics
Matches: 149, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:7726086 original size:27 final size:27
Alignment explanation
Indices: 7726047--7726113 Score: 118
Period size: 27 Copynumber: 2.5 Consensus size: 27
7726037 ATAGTTGAAT
7726047 TATGGCAAAGTGATAAAGTGTGCCAAAC
1 TATGGCAAAGTGATAAAGTGTGCC-AAC
7726075 -ATGGCAAAGTGATAAAGTGTGCCAAC
1 TATGGCAAAGTGATAAAGTGTGCCAAC
7726101 TATGGCAAAGTGA
1 TATGGCAAAGTGA
7726114 AATGTGACAA
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
26 3 0.08
27 35 0.92
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.21
Consensus pattern (27 bp):
TATGGCAAAGTGATAAAGTGTGCCAAC
Found at i:7732179 original size:15 final size:14
Alignment explanation
Indices: 7732159--7732197 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
7732149 TATACTTACT
7732159 TATTATTTAAAAATA
1 TATTA-TTAAAAATA
*
7732174 TATTATT-AAATTA
1 TATTATTAAAAATA
7732187 TATTATTAAAA
1 TATTATTAAAA
7732198 TAATAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 12 0.55
14 5 0.23
15 5 0.23
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATTATTAAAAATA
Found at i:7732231 original size:19 final size:20
Alignment explanation
Indices: 7732209--7732246 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7732199 AATAGTTAAA
*
7732209 AGAAATAATA-AAACAAAAT
1 AGAAATAAAAGAAACAAAAT
7732228 AGAAATAAAAGAAACAAAA
1 AGAAATAAAAGAAACAAAA
7732247 GATAGAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.76, C:0.05, G:0.08, T:0.11
Consensus pattern (20 bp):
AGAAATAAAAGAAACAAAAT
Found at i:7732269 original size:18 final size:18
Alignment explanation
Indices: 7732234--7732284 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
7732224 AAATAGAAAT
*
7732234 AAAAGAAACA-AAAGATAG
1 AAAAGAAACAGAGA-ATAG
*
7732252 AAAAGAAATAGAGAATAG
1 AAAAGAAACAGAGAATAG
* *
7732270 GAACGAAACAGAGAA
1 AAAAGAAACAGAGAA
7732285 GGAGCAAGGA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.67, C:0.06, G:0.22, T:0.06
Consensus pattern (18 bp):
AAAAGAAACAGAGAATAG
Found at i:7734404 original size:19 final size:20
Alignment explanation
Indices: 7734372--7734410 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
7734362 TAAAGGGACA
7734372 TTATGATTAAATTATGATAT
1 TTATGATTAAATTATGATAT
* *
7734392 TTAT-ATTATATTATTATAT
1 TTATGATTAAATTATGATAT
7734411 GATTATTCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
TTATGATTAAATTATGATAT
Found at i:7735862 original size:33 final size:34
Alignment explanation
Indices: 7735790--7735865 Score: 88
Period size: 33 Copynumber: 2.3 Consensus size: 34
7735780 AGTGTTAAAT
*
7735790 GTAAGACCATAGCTAGGCTATGGCATTTCAGTGAA
1 GTAAGACCATAACTAGGCTATGGCA-TTCAGTGAA
*
7735825 --AAGACCATAACTAGGTTATGGCA-TC-GTGAA
1 GTAAGACCATAACTAGGCTATGGCATTCAGTGAA
7735855 CGTAAGACCAT
1 -GTAAGACCAT
7735866 GGTTGGACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
30 5 0.14
31 2 0.06
33 29 0.81
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (34 bp):
GTAAGACCATAACTAGGCTATGGCATTCAGTGAA
Found at i:7743311 original size:3 final size:3
Alignment explanation
Indices: 7743303--7743329 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
7743293 TTAATGTGTG
7743303 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
7743330 AACTTTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7745694 original size:19 final size:19
Alignment explanation
Indices: 7745658--7745694 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7745648 AGATTAACAA
* *
7745658 AAAATAAATTAGATATAAT
1 AAAATAAATTACAAATAAT
7745677 AAAATAAATTACAAATAA
1 AAAATAAATTACAAATAA
7745695 AACGATGCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAATAAATTACAAATAAT
Found at i:7751362 original size:18 final size:16
Alignment explanation
Indices: 7751335--7751381 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
7751325 ATGAAATAAT
7751335 TAAACATATAAAAAATTA
1 TAAA-ATATAAAAAA-TA
*
7751353 TAAAATTATAAAAAATC
1 TAAAA-TATAAAAAATA
7751370 TAAAATATAAAA
1 TAAAATATAAAA
7751382 CTTTCCTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 7 0.26
17 7 0.26
18 13 0.48
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (16 bp):
TAAAATATAAAAAATA
Found at i:7752369 original size:21 final size:20
Alignment explanation
Indices: 7752325--7752370 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
7752315 ATTTCTATTT
7752325 TTCTT-TAAAAATTGTAAAA
1 TTCTTATAAAAATTGTAAAA
*
7752344 -T-TTATAATAAATTTTAAAA
1 TTCTTATAA-AAATTGTAAAA
7752363 TTCTTATA
1 TTCTTATA
7752371 TTCTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
17 2 0.09
18 4 0.18
19 10 0.45
20 1 0.05
21 5 0.23
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (20 bp):
TTCTTATAAAAATTGTAAAA
Found at i:7752431 original size:20 final size:18
Alignment explanation
Indices: 7752406--7752480 Score: 62
Period size: 18 Copynumber: 3.9 Consensus size: 18
7752396 TTAACCATTT
7752406 AAATTTTTAATGATTTTAAC
1 AAATTTTTAAT-ATTTT-AC
*
7752426 AAATTTTTAAT-TTTTTC
1 AAATTTTTAATATTTTAC
*
7752443 AAGTTTTTTAAATAGATTTTAC
1 AA-ATTTTT-AAT--ATTTTAC
*
7752465 AACTTTTTAATATTTT
1 AAATTTTTAATATTTT
7752481 TAATAAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
17 3 0.07
18 14 0.30
19 3 0.07
20 14 0.30
21 5 0.11
22 7 0.15
ACGTcount: A:0.35, C:0.05, G:0.04, T:0.56
Consensus pattern (18 bp):
AAATTTTTAATATTTTAC
Found at i:7752491 original size:20 final size:20
Alignment explanation
Indices: 7752406--7752491 Score: 65
Period size: 20 Copynumber: 4.3 Consensus size: 20
7752396 TTAACCATTT
7752406 AAATTTTTAATGA-TTTTAAC
1 AAATTTTTAAT-ATTTTTAAC
7752426 AAATTTTTAAT-TTTTT--C
1 AAATTTTTAATATTTTTAAC
* *
7752443 AAGTTTTTTAAATAGATTTT-AC
1 AA-ATTTTT-AATA-TTTTTAAC
* *
7752465 AACTTTTTAATATTTTTAAT
1 AAATTTTTAATATTTTTAAC
7752485 AAATTTT
1 AAATTTT
7752492 AAAATTTTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
17 3 0.06
18 5 0.09
19 11 0.21
20 22 0.42
21 9 0.17
22 3 0.06
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (20 bp):
AAATTTTTAATATTTTTAAC
Found at i:7752645 original size:14 final size:15
Alignment explanation
Indices: 7752619--7752648 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
7752609 TTTCTAGTTA
7752619 TATATATTTTAAATT
1 TATATATTTTAAATT
7752634 TATATA-TTTAAATT
1 TATATATTTTAAATT
7752648 T
1 T
7752649 TTTAATATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATATTTTAAATT
Found at i:7755469 original size:27 final size:27
Alignment explanation
Indices: 7755423--7755474 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
7755413 ATTTTTTATG
7755423 AAATGAGCTATTTGGGCTAAATTGTAA
1 AAATGAGCTATTTGGGCTAAATTGTAA
7755450 AAATGAG-T-TTTGGGGACTAAATTGT
1 AAATGAGCTATTT-GGG-CTAAATTGT
7755475 GAATTAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 3 0.13
26 4 0.17
27 16 0.70
ACGTcount: A:0.35, C:0.06, G:0.25, T:0.35
Consensus pattern (27 bp):
AAATGAGCTATTTGGGCTAAATTGTAA
Found at i:7755497 original size:30 final size:27
Alignment explanation
Indices: 7755423--7755497 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
7755413 ATTTTTTATG
* *
7755423 AAATGAGCTATTTGGGCTAAATTGTAA
1 AAATGAGTTATTTGGACTAAATTGTAA
*
7755450 AAATGAGTT-TTGGGGACTAAATTGTGAA
1 AAATGAGTTATT-TGGACTAAATTGT-AA
*
7755478 TTAAATGTGTTATTTGGACT
1 --AAATGAGTTATTTGGACT
7755498 TTTATGGAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.05
27 19 0.50
28 2 0.05
30 13 0.34
31 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.37
Consensus pattern (27 bp):
AAATGAGTTATTTGGACTAAATTGTAA
Found at i:7757360 original size:22 final size:21
Alignment explanation
Indices: 7757334--7757375 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
7757324 TTAGTGATTA
7757334 TTATT-TTTTACAATATATTTAT
1 TTATTCTTTTA-AATA-ATTTAT
7757356 TTATTCTTTTAAATAATTTA
1 TTATTCTTTTAAATAATTTA
7757376 GTAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 9 0.47
23 5 0.26
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTCTTTTAAATAATTTAT
Found at i:7760813 original size:3 final size:3
Alignment explanation
Indices: 7760805--7760926 Score: 72
Period size: 3 Copynumber: 40.3 Consensus size: 3
7760795 AGTCTTATAT
*
7760805 TTA TTA TTA TTA TGT- TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA
* * * * * * * *
7760850 TTA TTG CTA TTA CTA TTG TTT TTA TT- TGTA TTA TTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* *
7760895 TCA TTA CTA TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA T
7760927 GTTTAAACTT
Statistics
Matches: 89, Mismatches: 21, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
2 5 0.06
3 77 0.87
4 7 0.08
ACGTcount: A:0.26, C:0.06, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:7760822 original size:15 final size:15
Alignment explanation
Indices: 7760799--7760845 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
7760789 AATTTGAGTC
*
7760799 TTATATTTATTATTA
1 TTATGTTTATTATTA
7760814 TTATGTTTATTATTA
1 TTATGTTTATTATTA
* **
7760829 TTTTGAGTATTATTA
1 TTATGTTTATTATTA
7760844 TT
1 TT
7760846 TCTATTATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTTTATTATTA
Found at i:7761005 original size:30 final size:29
Alignment explanation
Indices: 7760971--7761035 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 29
7760961 TTTATATATG
7760971 TATATACATTACTTATTCTAGATTTTGTCA
1 TATATA-ATTACTTATTCTAGATTTTGTCA
*
7761001 TATATTATTTACTTATTCTAGATTTTGTCA
1 TATA-TAATTACTTATTCTAGATTTTGTCA
7761031 TATAT
1 TATAT
7761036 TATTTTTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
29 1 0.03
30 30 0.91
31 2 0.06
ACGTcount: A:0.29, C:0.11, G:0.06, T:0.54
Consensus pattern (29 bp):
TATATAATTACTTATTCTAGATTTTGTCA
Found at i:7761036 original size:30 final size:30
Alignment explanation
Indices: 7760979--7761040 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
7760969 TGTATATACA
7760979 TTACTTATTCTAGATTTTGTCATATATTAT
1 TTACTTATTCTAGATTTTGTCATATATTAT
7761009 TTACTTATTCTAGATTTTGTCATATATTAT
1 TTACTTATTCTAGATTTTGTCATATATTAT
7761039 TT
1 TT
7761041 TTTTAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.26, C:0.10, G:0.06, T:0.58
Consensus pattern (30 bp):
TTACTTATTCTAGATTTTGTCATATATTAT
Found at i:7765425 original size:51 final size:51
Alignment explanation
Indices: 7765347--7765507 Score: 261
Period size: 51 Copynumber: 3.2 Consensus size: 51
7765337 ACTTCTGATC
* *
7765347 AGTGACAAGTGATAAGTGGTAGTTTTAGCTATACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
** *
7765398 AGTGAT-AGATGATAAGTGGTACCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAG-TGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
7765449 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
7765500 AGTGATAA
1 AGTGATAA
7765508 ATGTGATCAG
Statistics
Matches: 100, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
50 2 0.02
51 96 0.96
52 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:7773415 original size:22 final size:23
Alignment explanation
Indices: 7773390--7773448 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
7773380 CAACCTAATC
7773390 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7773412 AATTCATGCATATTTATAAGAT-
1 AATTCATACATATTTATAAGATA
7773434 AATGTCATCACATAT
1 AAT-TCAT-ACATAT
7773449 CTAAAACCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
22 9 0.29
23 16 0.52
24 6 0.19
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7774111 original size:16 final size:16
Alignment explanation
Indices: 7774090--7774124 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
7774080 TCTGAATTAC
7774090 CAGTCCAAACTAAATT
1 CAGTCCAAACTAAATT
**
7774106 CAGTCCAGGCTAAATT
1 CAGTCCAAACTAAATT
7774122 CAG
1 CAG
7774125 ACCCTAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (16 bp):
CAGTCCAAACTAAATT
Found at i:7775510 original size:94 final size:94
Alignment explanation
Indices: 7775338--7775522 Score: 325
Period size: 94 Copynumber: 2.0 Consensus size: 94
7775328 TTGAGATAGA
7775338 CACTCCATGTAGCCTGACAATCTCAGATATGTACAGTTCAGCTAGTTTATCTAAAGAATAATCCA
1 CACTCCATGTAGCCTGACAATCTCAGATATGTACAGTTCAGCTAGTTTATCTAAAGAATAATCCA
* * *
7775403 TACGTACCGGAATAAAGTGCGCTGACAGG
66 TACGGACCAGAATAAAGTGAGCTGACAGG
7775432 CACTCCATGTAGCCTGACAATCTCAGATATGTACAGTTCAGCTAGTTTATCTAAAGAATAATCCA
1 CACTCCATGTAGCCTGACAATCTCAGATATGTACAGTTCAGCTAGTTTATCTAAAGAATAATCCA
* *
7775497 TATGGACCAGAATAGAGTGAGCTGAC
66 TACGGACCAGAATAAAGTGAGCTGAC
7775523 TTTGTCAATA
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.26
Consensus pattern (94 bp):
CACTCCATGTAGCCTGACAATCTCAGATATGTACAGTTCAGCTAGTTTATCTAAAGAATAATCCA
TACGGACCAGAATAAAGTGAGCTGACAGG
Found at i:7777484 original size:91 final size:91
Alignment explanation
Indices: 7777354--7777533 Score: 333
Period size: 91 Copynumber: 2.0 Consensus size: 91
7777344 ACCAACATAG
* *
7777354 ACTGACCTTGGGGGTTCGAGACTTTAACCACAAATTCAGTAGGTTCAACAGGTAAATTTTTAATA
1 ACTGACCTAGGGGGTTCGAGACTTTAACCACAAATTCAGTAGGTTCAACAGGTAAATTTTTAACA
7777419 ATTACAAGTTTAACACATATATATAT
66 ATTACAAGTTTAACACATATATATAT
7777445 ACTGACCTAGGGGGTTCGAGACTTTAACCACAAATTCAGTAGGTTCAACAGGTAAATTTTTAACA
1 ACTGACCTAGGGGGTTCGAGACTTTAACCACAAATTCAGTAGGTTCAACAGGTAAATTTTTAACA
*
7777510 ATTGCAAGTTTAACACATATATAT
66 ATTACAAGTTTAACACATATATAT
7777534 GAATGCGTAG
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 86 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (91 bp):
ACTGACCTAGGGGGTTCGAGACTTTAACCACAAATTCAGTAGGTTCAACAGGTAAATTTTTAACA
ATTACAAGTTTAACACATATATATAT
Found at i:7788212 original size:21 final size:21
Alignment explanation
Indices: 7788183--7788226 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7788173 GCCATTACAC
*
7788183 TTATTCTGAGCAAATATTCTT
1 TTATCCTGAGCAAATATTCTT
*
7788204 TTATCCTGAGCAAATGTTCTT
1 TTATCCTGAGCAAATATTCTT
7788225 TT
1 TT
7788227 TTTGTATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (21 bp):
TTATCCTGAGCAAATATTCTT
Found at i:7793033 original size:44 final size:44
Alignment explanation
Indices: 7792982--7793208 Score: 119
Period size: 44 Copynumber: 5.2 Consensus size: 44
7792972 AAGTTGTAAC
7792982 GGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCAGTAGT
1 GGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCAGTAGT
* * * * *
7793026 GGAGCAGA-TCG-AAGATTGCAAATCCTATCT-CTATGTAGCGGTAAT
1 GGAGCAGACT-GAAAG-TTGCAGATCTTATCTCCT-T-AAGCAGTAGT
** *** * ** *
7793071 GGAGCAGA-TTTAAGCCACCAGA-CTTATCTCCCTGAAGTTGCAGT
1 GGAGCAGACTGAAAG-TTGCAGATCTTATCT-CCTTAAGCAGTAGT
* * * * * * **
7793115 AGAGCAGGCT-CAAGATACA-AGTCTTATC-CCTGAAGTTGTAGT
1 GGAGCAGACTGAAAGTTGCAGA-TCTTATCTCCTTAAGCAGTAGT
* *
7793157 GGAGCAGACTGAAAATTGCAGATCTTATCTCCCTAAGCAGTAGT
1 GGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCAGTAGT
7793201 GGAGCAGA
1 GGAGCAGA
7793209 TCGAAGACGG
Statistics
Matches: 135, Mismatches: 35, Indels: 26
0.69 0.18 0.13
Matches are distributed among these distances:
42 22 0.16
43 20 0.15
44 68 0.50
45 23 0.17
46 2 0.01
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (44 bp):
GGAGCAGACTGAAAGTTGCAGATCTTATCTCCTTAAGCAGTAGT
Found at i:7793204 original size:175 final size:175
Alignment explanation
Indices: 7792824--7793275 Score: 584
Period size: 175 Copynumber: 2.6 Consensus size: 175
7792814 GGTGAATTCA
** * * * * *
7792824 CAGATCTTATCTCCATAAGCAGTAGTAAAGCAGGTCAAAGACGCCGAATCTTATCTCCATGTAGT
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGCCAAATCCTATCTCCATGTAGC
* * * *
7792889 GGCAATGGAGCAGATTTAAGCCACTAGCCTTATCTCCCTGAGGTTGCAGTGGAGCAGGCTCAAGA
66 GGCAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA
*
7792954 TACAGTATTATCTCCCTGAAGTTGTAACGGAGCAGACTGAAAGTTG
131 TACAGTATTA-CTCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
* * *
7793000 CAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATTG-CAAATCCTATCTCTATGTAG
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGA-CGCCAAATCCTATCTCCATGTAG
*
7793064 CGGTAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAG
65 CGGCAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAG
* **
7793129 ATACAAGTCTTA-TCCCTGAAGTTGTAGTGGAGCAGACTGAAAATTG
130 ATAC-AGTATTACTCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
* **** *
7793175 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGTGGATCTTATCTCCATGTAGC
1 CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGCCAAATCCTATCTCCATGTAGC
* * * * * *
7793240 GACAATGAAGCAGATCTAAGCTACAAGTCTTATCTC
66 GGCAATGGAGCAGATTTAAGCCACCAGACTTATCTC
7793276 TCTAAAAGTT
Statistics
Matches: 240, Mismatches: 33, Indels: 7
0.86 0.12 0.03
Matches are distributed among these distances:
174 1 0.00
175 116 0.48
176 116 0.48
177 7 0.03
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (175 bp):
CAGATCTTATCTCCATAAGCAGTAGTGGAGCAGATCGAAGACGCCAAATCCTATCTCCATGTAGC
GGCAATGGAGCAGATTTAAGCCACCAGACTTATCTCCCTGAAGTTGCAGTAGAGCAGGCTCAAGA
TACAGTATTACTCCCTGAAGTTGTAACGGAGCAGACTGAAAATTG
Found at i:7794923 original size:3 final size:3
Alignment explanation
Indices: 7794915--7795030 Score: 94
Period size: 3 Copynumber: 38.3 Consensus size: 3
7794905 AGTCTTATAT
*
7794915 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTGA GTA TTA TTA TT- TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA T-TA
* * * * * * *
7794960 TTA TTG CTA TTA TTA TTG TTT TTA TT- TGTA TTA TTA CTG TCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
*
7795005 TCA TTA TTA TTA TTA TTTA TTA TTA T
1 TTA TTA TTA TTA TTA -TTA TTA TTA T
7795031 GTTTAAACTT
Statistics
Matches: 89, Mismatches: 17, Indels: 14
0.74 0.14 0.12
Matches are distributed among these distances:
2 4 0.04
3 79 0.89
4 6 0.07
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:7794944 original size:39 final size:39
Alignment explanation
Indices: 7794896--7795022 Score: 105
Period size: 39 Copynumber: 3.2 Consensus size: 39
7794886 TATACAATTA
* * * *
7794896 ATTAATTTGAGTCTTA-TATTTATTATTATTATTATTATT
1 ATTATTTTGAGTATTATTATTT-CTATTATTACTATTATT
*
7794935 ATTATTTTGAGTATTATTATTTCTATTATTGCTATTATT
1 ATTATTTTGAGTATTATTATTTCTATTATTACTATTATT
* * * * *
7794974 ATTGTTTTTATTTGTATTATTACTGTC-ATTATCATTATTATT
1 ATTATTTTGA---GTATTATTA-TTTCTATTATTACTATTATT
7795016 ATTATTT
1 ATTATTT
7795023 ATTATTATGT
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 36 0.51
40 5 0.07
42 27 0.38
43 3 0.04
ACGTcount: A:0.27, C:0.05, G:0.06, T:0.62
Consensus pattern (39 bp):
ATTATTTTGAGTATTATTATTTCTATTATTACTATTATT
Found at i:7797265 original size:14 final size:14
Alignment explanation
Indices: 7797246--7797276 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7797236 CTAAGAGCCT
7797246 TTATGTTCTTAAAA
1 TTATGTTCTTAAAA
7797260 TTATGTTCTTAAAA
1 TTATGTTCTTAAAA
7797274 TTA
1 TTA
7797277 CTAAACCTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (14 bp):
TTATGTTCTTAAAA
Found at i:7799257 original size:2 final size:2
Alignment explanation
Indices: 7799252--7799282 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7799242 TTTTTTCTTT
7799252 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
7799283 TTTTCTTGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7812051 original size:18 final size:17
Alignment explanation
Indices: 7812012--7812053 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
7812002 CGACAAACTT
*
7812012 TAAAAAAAATTGACAAG
1 TAAAAAAAATTGAAAAG
7812029 -AAAAAAAAGTTGAAAAAG
1 TAAAAAAAA-TTG-AAAAG
7812047 TAAAAAA
1 TAAAAAA
7812054 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 8 0.38
17 3 0.14
18 4 0.19
19 6 0.29
ACGTcount: A:0.71, C:0.02, G:0.12, T:0.14
Consensus pattern (17 bp):
TAAAAAAAATTGAAAAG
Found at i:7815471 original size:23 final size:25
Alignment explanation
Indices: 7815422--7815482 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
7815412 TTAAATATAA
7815422 ATTCACTTTTTTTTACAAAAATGATT
1 ATTCACTTTTTTTTACAAAAA-GATT
*
7815448 ATTCACTTTTTTTT-CAAAGA-ATT
1 ATTCACTTTTTTTTACAAAAAGATT
* *
7815471 ATTTACTCTTTT
1 ATTCACTTTTTT
7815483 AATAAAAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 13 0.41
25 5 0.16
26 14 0.44
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.54
Consensus pattern (25 bp):
ATTCACTTTTTTTTACAAAAAGATT
Found at i:7818455 original size:6 final size:6
Alignment explanation
Indices: 7818444--7818468 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7818434 AGTGAAACTT
7818444 AAATAA AAATAA AAATAA AAATAA A
1 AAATAA AAATAA AAATAA AAATAA A
7818469 TATGAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:7821926 original size:3 final size:3
Alignment explanation
Indices: 7821918--7821942 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7821908 ATTATGCCAA
7821918 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
7821943 GATTATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:7834131 original size:15 final size:15
Alignment explanation
Indices: 7834111--7834140 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7834101 CGGATTTAAC
7834111 TTATGTTGTAACTCA
1 TTATGTTGTAACTCA
7834126 TTATGTTGTAACTCA
1 TTATGTTGTAACTCA
7834141 CTCATTGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TTATGTTGTAACTCA
Found at i:7842890 original size:45 final size:46
Alignment explanation
Indices: 7842823--7842946 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
7842813 CATATGACCT
*
7842823 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
7842866 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
*
7842912 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7842947 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCA
Found at i:7842950 original size:37 final size:37
Alignment explanation
Indices: 7842908--7843121 Score: 392
Period size: 37 Copynumber: 5.8 Consensus size: 37
7842898 AGCTAAAGCT
* **
7842908 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
7842945 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7842982 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7843019 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7843056 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7843093 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
7843122 AGTACTCAAA
Statistics
Matches: 172, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:7845696 original size:26 final size:26
Alignment explanation
Indices: 7845647--7845696 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7845637 TAAATCAAAT
* **
7845647 ATATATTATAAAATTTTATAAAAACA
1 ATATATTATAAAAATACATAAAAACA
*
7845673 ATATATTATAAAAATACATGAAAA
1 ATATATTATAAAAATACATAAAAA
7845697 TTTTTAAGAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (26 bp):
ATATATTATAAAAATACATAAAAACA
Found at i:7852333 original size:45 final size:46
Alignment explanation
Indices: 7852266--7852389 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
7852256 CATATGACCT
*
7852266 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCT-AGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7852309 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
*
7852355 CTTATCACTTTATCACTTGATCAGATAAGTGTAGC
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
7852390 CACTTATCAC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 8 0.11
44 4 0.05
45 21 0.28
46 41 0.55
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
Found at i:7852372 original size:46 final size:45
Alignment explanation
Indices: 7852266--7852572 Score: 212
Period size: 37 Copynumber: 7.7 Consensus size: 45
7852256 CATATGACCT
*
7852266 CTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7852309 CTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTGAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTACCA
*
7852355 CTTATCACTTTATCACTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7852392 CTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7852429 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7852466 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-A---ACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
**
7852503 CTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T-AG---CCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
*
7852540 CTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGTA
7852573 ACCACTTATC
Statistics
Matches: 248, Mismatches: 8, Indels: 19
0.90 0.03 0.07
Matches are distributed among these distances:
37 173 0.70
39 2 0.01
40 2 0.01
42 1 0.00
43 9 0.04
44 6 0.02
45 21 0.08
46 34 0.14
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (45 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTACCA
Found at i:7852393 original size:37 final size:37
Alignment explanation
Indices: 7852351--7852601 Score: 439
Period size: 37 Copynumber: 6.8 Consensus size: 37
7852341 AGCTGAAGCT
* **
7852351 ACCACTTATCACTTTATCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
7852388 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7852425 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7852462 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7852499 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
* *
7852536 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
7852573 ACCACTTATCACTTTGTTTCTTGATCAGA
1 ACCACTTATCACTTTGTTTCTTGATCAGA
7852602 AGTACTCAAA
Statistics
Matches: 205, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 205 1.00
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:7862260 original size:20 final size:21
Alignment explanation
Indices: 7862221--7862264 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
7862211 TCTAAAATAA
*
7862221 TAAATATTAGTTAGATTTATT
1 TAAATATTAGTAAGATTTATT
*
7862242 TAAATATTAG-AATATTTATT
1 TAAATATTAGTAAGATTTATT
7862262 TAA
1 TAA
7862265 GCTCAAACCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (21 bp):
TAAATATTAGTAAGATTTATT
Found at i:7864810 original size:19 final size:21
Alignment explanation
Indices: 7864786--7864824 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
7864776 ATTCGCGTGA
7864786 CTTATTGTA-AAAT-TTTTTG
1 CTTATTGTATAAATGTTTTTG
*
7864805 CTTATTTTATAAATGTTTTT
1 CTTATTGTATAAATGTTTTT
7864825 CTTTACAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (21 bp):
CTTATTGTATAAATGTTTTTG
Found at i:7870870 original size:19 final size:19
Alignment explanation
Indices: 7870848--7870887 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7870838 ATAACAAAAT
* *
7870848 AATTGCAACATAATTGTGA
1 AATTGCAACAAAATAGTGA
*
7870867 AATTGTAACAAAATAGTGA
1 AATTGCAACAAAATAGTGA
7870886 AA
1 AA
7870888 AAAAAACAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (19 bp):
AATTGCAACAAAATAGTGA
Found at i:7871649 original size:129 final size:127
Alignment explanation
Indices: 7871471--7871785 Score: 350
Period size: 130 Copynumber: 2.4 Consensus size: 127
7871461 GTCGTTCGGT
* * * * * * *
7871471 CAAACGATAAATCGAAACCCAGCACG-TAGGGCACAATTTCTCGAAATTTCCAAACACGAAATAT
1 CAAACGAGAAATTGCAA-CCAGCACGATAGGGCACGATTCCTCG-AATTTCTAAACACG-AACAT
* *
7871535 TACCTT-ATTTT-AGAATTTAGAAAAAAACATGAGTGAAATTCTAAAGGAATATTCGATTA-TTT
63 TACCTTCATTTTAAGAATTT---AAAAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTT
7871597 GAA
125 GAA
* * * *
7871600 CAAACGGGAAATTGCAAACCAGCACGATAGGGCACGATTCCCCGAATTTCTAAACTTCGAACGTT
1 CAAACGAGAAATTGC-AACCAGCACGATAGGGCACGATTCCTCGAATTTCTAAAC-ACGAACATT
* * **
7871665 GCCTTCGTTTTAAAGAATTTTTAAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTTGAA
64 ACCTTCATTTT-AAGAATTTAAAAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTTGAA
*
7871730 CAAACGAGAAATTGCAACTCAGCACAATAGGGCACGATTCCTCGAATTTCTAAACA
1 CAAACGAGAAATTGCAAC-CAGCACGATAGGGCACGATTCCTCGAATTTCTAAACA
7871786 TCAAACATCG
Statistics
Matches: 157, Mismatches: 21, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
129 74 0.47
130 76 0.48
132 7 0.04
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.26
Consensus pattern (127 bp):
CAAACGAGAAATTGCAACCAGCACGATAGGGCACGATTCCTCGAATTTCTAAACACGAACATTAC
CTTCATTTTAAGAATTTAAAAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTTGAA
Found at i:7871805 original size:130 final size:129
Alignment explanation
Indices: 7871558--7871807 Score: 376
Period size: 130 Copynumber: 1.9 Consensus size: 129
7871548 AATTTAGAAA
* * *
7871558 AAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTGAACAAACGGGAAATTGCAAACCAGC
1 AAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTGAACAAACGAGAAATTGCAAACCAGC
* * * * *
7871623 ACGATAGGGCACGATTCCCCGAATTTCTAAACTTCGAACGTTGCCTTCGTTTTAAAGAATTTTT
66 ACAATAGGGCACGATTCCCCGAATTTCTAAACATCAAACATCGCCTTCGTTTTAAAGAATTTTT
7871687 AAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTTGAACAAACGAGAAATTGC-AACTCA
1 AAAACATGAGTGAAATTCCAAAGAAATATTCGATTA-TTTGAACAAACGAGAAATTGCAAAC-CA
* * *
7871751 GCACAATAGGGCACGATTCCTCGAATTTCTAAACATCAAACATCGCTTTTGTTTTAA
64 GCACAATAGGGCACGATTCCCCGAATTTCTAAACATCAAACATCGCCTTCGTTTTAA
7871808 GGTTTAGAAA
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
129 37 0.34
130 71 0.66
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (129 bp):
AAAACATGAGTGAAATTCCAAAGAAATATTCGATTATTTGAACAAACGAGAAATTGCAAACCAGC
ACAATAGGGCACGATTCCCCGAATTTCTAAACATCAAACATCGCCTTCGTTTTAAAGAATTTTT
Found at i:7872813 original size:17 final size:16
Alignment explanation
Indices: 7872791--7872829 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
7872781 ATAACTATGT
7872791 AAATAATAATATATAAA
1 AAATAATAATA-ATAAA
*
7872808 AAATAATAATAATAAC
1 AAATAATAATAATAAA
7872824 AAATAA
1 AAATAA
7872830 ATGAATGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 10 0.48
17 11 0.52
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATAATAATAATAAA
Found at i:7872831 original size:20 final size:20
Alignment explanation
Indices: 7872792--7872831 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7872782 TAACTATGTA
*
7872792 AATAATAATATATAAAAAAT
1 AATAATAATATACAAAAAAT
7872812 AATAATAATA-ACAAATAAAT
1 AATAATAATATACAAA-AAAT
7872832 GAATGAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
AATAATAATATACAAAAAAT
Found at i:7881317 original size:19 final size:18
Alignment explanation
Indices: 7881282--7881329 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
7881272 AATTCACATC
*
7881282 TCATTTCATCATTTCATATT
1 TCATTTC-TCATCTCATA-T
7881302 TCATTTCTCATCTCATAT
1 TCATTTCTCATCTCATAT
7881320 TCATTTCTCA
1 TCATTTCTCA
7881330 ACTTTGTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 11 0.41
19 9 0.33
20 7 0.26
ACGTcount: A:0.23, C:0.25, G:0.00, T:0.52
Consensus pattern (18 bp):
TCATTTCTCATCTCATAT
Found at i:7884097 original size:27 final size:27
Alignment explanation
Indices: 7884056--7884111 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
7884046 AAAATATTAA
*
7884056 ATTAAATCTTGTTAAGTCTGGTTTCTT
1 ATTAAATCTTGTTAAGTCTAGTTTCTT
*
7884083 ATTAAATCTTTTTAAGTCTAGTTTCTT
1 ATTAAATCTTGTTAAGTCTAGTTTCTT
7884110 AT
1 AT
7884112 AAAAGAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.25, C:0.11, G:0.11, T:0.54
Consensus pattern (27 bp):
ATTAAATCTTGTTAAGTCTAGTTTCTT
Found at i:7887298 original size:20 final size:21
Alignment explanation
Indices: 7887254--7887299 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
7887244 AGATTTCAAG
* *
7887254 ATATACTCGTACAAGACTTTT
1 ATATTCTCGTACAAGAATTTT
7887275 -TATTCTCGTACAA-AATTTT
1 ATATTCTCGTACAAGAATTTT
7887294 ATATTC
1 ATATTC
7887300 GGGTCATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (21 bp):
ATATTCTCGTACAAGAATTTT
Found at i:7888328 original size:25 final size:23
Alignment explanation
Indices: 7888276--7888330 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
7888266 TATAAATAGT
7888276 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
7888299 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
7888324 AATAGTG
1 AATAGTG
7888331 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:7888401 original size:25 final size:25
Alignment explanation
Indices: 7888371--7888424 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
7888361 TAATATATAC
7888371 ATATGT-ATAAAATAGATATAAAAAA
1 ATATGTAATAAAATAG-TATAAAAAA
* *
7888396 ATATGTACATAATATAGTGTAAAAAA
1 ATATGTA-ATAAAATAGTATAAAAAA
7888422 ATA
1 ATA
7888425 CATACATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 6 0.24
26 11 0.44
27 8 0.32
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.30
Consensus pattern (25 bp):
ATATGTAATAAAATAGTATAAAAAA
Found at i:7888430 original size:26 final size:25
Alignment explanation
Indices: 7888389--7888454 Score: 78
Period size: 26 Copynumber: 2.6 Consensus size: 25
7888379 AAAATAGATA
** *
7888389 TAAAAAAATATGTACATAATATAGT
1 TAAAAAAATACATACATAATATAAT
7888414 GTAAAAAAATACATACATAATATAAT
1 -TAAAAAAATACATACATAATATAAT
*
7888440 TAAAATATATACATA
1 TAAAA-AAATACATA
7888455 AGATAACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 5 0.14
26 30 0.86
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (25 bp):
TAAAAAAATACATACATAATATAAT
Found at i:7888444 original size:22 final size:22
Alignment explanation
Indices: 7888419--7888460 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
7888409 ATAGTGTAAA
*
7888419 AAAATACATACATAATATAATT
1 AAAATACATACATAAGATAATT
*
7888441 AAAATATATACATAAGATAA
1 AAAATACATACATAAGATAA
7888461 CATGTAGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (22 bp):
AAAATACATACATAAGATAATT
Found at i:7889935 original size:13 final size:14
Alignment explanation
Indices: 7889903--7889935 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
7889893 GATTTTTTTG
7889903 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
7889917 GAAAAACAGAATTT
1 GAAAAACAAAATTT
7889931 GAAAA
1 GAAAA
7889936 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:7890011 original size:92 final size:88
Alignment explanation
Indices: 7889863--7890100 Score: 309
Period size: 92 Copynumber: 2.7 Consensus size: 88
7889853 GCGTGTCCTG
* * *
7889863 AGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGAAA-TTGAAAAACAGA
* * * *
7889927 ATTTGAAAATACCTCAGCGTGTGAGTCA
65 AATGGAAAACACCTCAGCGTCT---T-A
* * *
7889955 AGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTTGAAACACAGAAATTGAAGAACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGAAATTGAAAAACAGAA
*
7890020 ATGGAAAACACCTCAGCGTCTTG
66 ATGGAAAACACCTCAGCGTCTTA
*
7890043 AGGTTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAAAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGAAATTGAAAA
7890101 TACCTCAACG
Statistics
Matches: 130, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
87 24 0.18
88 30 0.23
89 1 0.01
92 72 0.55
93 3 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (88 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTTGAAAAACAGAAATTGAAAAACAGAA
ATGGAAAACACCTCAGCGTCTTA
Found at i:7890137 original size:75 final size:75
Alignment explanation
Indices: 7890007--7890396 Score: 479
Period size: 73 Copynumber: 5.3 Consensus size: 75
7889997 AACACAGAAA
* * * * *
7890007 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
7890070 GCTGATTTTT
66 GTTGATTTTT
7890080 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
7890145 GTTGA--GTT
66 GTTGATTTTT
* * * * * *
7890153 TTGACAAACAAAAATT-AAAATTACCTCAGCGTTTCCTGAGGCTCAACTCACCTATCGCAATATG
1 TTGAAAAACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
7890217 AGTTGATTTTT
65 AGTTGATTTTT
7890228 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
7890293 GTTGA--GTT
66 GTTGATTTTT
* * * * * * * **
7890301 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGACTCAACTCACTTCTCATAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
7890366 GTTGATTTTT
66 GTTGATTTTT
* * * *
7890376 TTTAGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
7890397 AACGAAAATT
Statistics
Matches: 273, Mismatches: 36, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
72 4 0.01
73 148 0.54
74 1 0.00
75 116 0.42
76 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTT
Found at i:7890227 original size:148 final size:147
Alignment explanation
Indices: 7890029--7890396 Score: 594
Period size: 148 Copynumber: 2.5 Consensus size: 147
7890019 AATGGAAAAC
* * *
7890029 ACCTCAGCG-TCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
1 ACCTCAGCGTTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
7890093 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAC
66 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAC
7890158 AAACAAAAATTAAAATT
131 AAACAAAAATTAAAATT
*
7890175 ACCTCAGCGTTTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAAAACAGA
1 ACCTCAGCG-TTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
7890240 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGA
65 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGA
*
7890305 CAAACAAAAATTGAAATT
130 CAAACAAAAATTAAAATT
* * ** * * *
7890323 ACCTCAGCGTGTCCTGAGACTCAACTCACTTCTCATAATATGAGTTGATTTTTTTTAGAAACATA
1 ACCTCAGCGT-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
*
7890388 AATTAAAAA
65 AATTGAAAA
7890397 AACGAAAATT
Statistics
Matches: 205, Mismatches: 14, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
146 9 0.04
147 1 0.00
148 195 0.95
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (147 bp):
ACCTCAGCGTTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAA
ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAGTTTTGAC
AAACAAAAATTAAAATT
Found at i:7890602 original size:14 final size:13
Alignment explanation
Indices: 7890566--7890610 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
7890556 TTGATTTTTG
7890566 AAAAACAGAAATT
1 AAAAACAGAAATT
**
7890579 AAAAGTAGAAATT
1 AAAAACAGAAATT
7890592 GAAAAACAGAAATT
1 -AAAAACAGAAATT
7890606 AAAAA
1 AAAAA
7890611 TACCTCGGCG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.59
14 11 0.41
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:7890623 original size:100 final size:101
Alignment explanation
Indices: 7890394--7890754 Score: 396
Period size: 100 Copynumber: 3.7 Consensus size: 101
7890384 CATAAATTAA
* *
7890394 AAAAAC-GAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTGAACTCACCTCTCGCAATATGAGT
1 AAAAACAG-AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
* * *
7890458 TGA--TTTGAAAAGCAGAATTTGTAAGGCAAAAATTG
65 TGATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * * *
7890493 AAAAACAGAAATTGAAAATACCTCAACGTGCCCTAAGGCTCAACTCACTTTTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
* * *
7890558 GATTTTTGAAAAACAGAAATT-AAAAGTAGAAATTG
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * * *
7890593 AAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTT
1 AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
*
7890658 GATTTTTGAAAAGCATAAATT-----G-----A---
66 GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
* * *
7890681 AAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAG
7890746 TTGATTTTT
64 TTGATTTTT
7890755 TTGAAAGATA
Statistics
Matches: 228, Mismatches: 29, Indels: 19
0.83 0.11 0.07
Matches are distributed among these distances:
88 24 0.11
90 41 0.18
91 1 0.00
96 1 0.00
99 59 0.26
100 87 0.38
101 15 0.07
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (101 bp):
AAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTTTGAAAAGCAGAAATTGAAAAGCAAAAATTG
Found at i:7890747 original size:90 final size:87
Alignment explanation
Indices: 7890587--7890754 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 87
7890577 TTAAAAGTAG
* * *
7890587 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATA
1 AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATA
7890652 TGAGTTGATTTTTGAAAAGCAT
66 TGAGTTGATTTTTGAAAAGCAT
* * * *
7890674 AAATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCACCTCTCGCA
1 AAATTG-AAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCACCTCTCGCA
7890739 ATATGAGTTGATTTTT
63 ATATGAGTTGATTTTT
7890755 TTGAAAGATA
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
87 6 0.08
88 22 0.31
89 1 0.01
90 42 0.59
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.25
Consensus pattern (87 bp):
AAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAGCAT
Found at i:7890774 original size:90 final size:87
Alignment explanation
Indices: 7890579--7890774 Score: 227
Period size: 90 Copynumber: 2.2 Consensus size: 87
7890569 AACAGAAATT
* * * *
7890579 AAAAG-TAGAAATTGAAAAACAGAAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCT
1 AAAAGATAGAAA-TAAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCT
7890643 CTCGCAATATGAGTTGATTTTTG
65 CTCGCAATATGAGTTGATTTTTG
* * * * *
7890666 AAAAGCATA-AATTGAAAAAACGGAAATTGAAAATACCTCAGCGTGTGACCTGAGGCCCAACTCA
1 AAAAG-ATAGAAAT-AAAAAACAGAAATTAAAAATACCTC-G-GCGTGACCCGAGGCCCAACTCA
7890730 CCTCTCGCAATATGAGTTGATTTTTTTG
62 CCTCTCGCAATATGAGTTGA--TTTTTG
7890758 -AAAGATAGAAATAAAAA
1 AAAAGATAGAAATAAAAA
7890775 CATCAAAATA
Statistics
Matches: 91, Mismatches: 10, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
87 6 0.07
88 24 0.26
89 3 0.03
90 45 0.49
91 7 0.08
92 6 0.07
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (87 bp):
AAAAGATAGAAATAAAAAACAGAAATTAAAAATACCTCGGCGTGACCCGAGGCCCAACTCACCTC
TCGCAATATGAGTTGATTTTTG
Found at i:7891474 original size:106 final size:106
Alignment explanation
Indices: 7891258--7891474 Score: 391
Period size: 106 Copynumber: 2.0 Consensus size: 106
7891248 TCAGGTAGGG
7891258 ACAAAAGGATACCTCACATTTATTCATTTCAAATGTAGCAAACAAAGAAAGTTAATCAATGATAG
1 ACAAAAGGATACCTCACATTTATTCATTTCAAATGTAGCAAACAAAGAAAGTTAATCAATGATAG
**
7891323 TAAAAAAAAGTGTCATAAAGAGAAAGGGGATCGCATTTGGG
66 TAAAAAAAAGTGTCATAAAGAGAAAGGGGATCGCATTTGCA
*
7891364 ACAAAAGGATACCTCACATTTATTCATTTTAAATGTAGCAAACAAAGAAAGTTAATCAATGATAG
1 ACAAAAGGATACCTCACATTTATTCATTTCAAATGTAGCAAACAAAGAAAGTTAATCAATGATAG
7891429 TAAAAAAAAAGTGTCATAAAGAGAAAGGGGATCGCATTT-CA
66 T-AAAAAAAAGTGTCATAAAGAGAAAGGGGATCGCATTTGCA
7891470 ACAAA
1 ACAAA
7891475 TACAAATGCT
Statistics
Matches: 107, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
106 70 0.65
107 37 0.35
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.24
Consensus pattern (106 bp):
ACAAAAGGATACCTCACATTTATTCATTTCAAATGTAGCAAACAAAGAAAGTTAATCAATGATAG
TAAAAAAAAGTGTCATAAAGAGAAAGGGGATCGCATTTGCA
Found at i:7892917 original size:26 final size:26
Alignment explanation
Indices: 7892881--7892931 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
7892871 TTTCTGGCTT
7892881 CAACAGCATCTACGCATCTCAAGAGC
1 CAACAGCATCTACGCATCTCAAGAGC
*
7892907 CAACATCATCTACGCATCTCAAGAG
1 CAACAGCATCTACGCATCTCAAGAG
7892932 TACATGATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (26 bp):
CAACAGCATCTACGCATCTCAAGAGC
Found at i:7894994 original size:21 final size:21
Alignment explanation
Indices: 7894968--7895008 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
7894958 CCAATCCTGG
7894968 CATATCCTGATATGACCATGA
1 CATATCCTGATATGACCATGA
*
7894989 CATATCCTGATATGCCCATG
1 CATATCCTGATATGACCATG
7895009 CAAATACATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
CATATCCTGATATGACCATGA
Found at i:7902329 original size:229 final size:228
Alignment explanation
Indices: 7901921--7902377 Score: 826
Period size: 229 Copynumber: 2.0 Consensus size: 228
7901911 TGCGATATGC
7901921 AAAGATACCTCAAAGAATTAAACCACTTAAAGCAAGCATATTATGAAGAGAGTCGCGAAAATAAC
1 AAAGATACCTCAAAGAATTAAACCACTTAAAGCAAGCATATTATGAAGAGAGTCGCGAAAATAAC
** *
7901986 AGACAACATGCAATGCAGTAAATTTAAAATCGATTTTTGATTTTTGAAAAAAGATAAAAAAATAA
66 AGACAACATGCAATGCAGTAAATTTAAAATCGATTTTCAATTTTTGAAAAAAGACAAAAAAATAA
* *
7902051 TCAATTTAAGGCTCGACTCTCGAATTCCCCAGTGGAGTCGCTCAGCTGTCGAAACCATTCTTTTG
131 TCAATTTAAGGCTCGACTCTCGAACTCCCCAGTGGAGTCACTCAGCTGTCGAAACCATTCTTTTG
7902116 AAAACGGGGATCGACTTTGTTTGAAAGTGAAAAT
196 -AAACGGGGATCGACTTTGTTTGAAAGTGAAAAT
*
7902150 AAAGATACCTCAAAGAATTAAACCATTTAAAGCAAGCATATTATGAAGAGAGTCGCGAAAATAAC
1 AAAGATACCTCAAAGAATTAAACCACTTAAAGCAAGCATATTATGAAGAGAGTCGCGAAAATAAC
*
7902215 AGACAACATGCAATGCAGTAAATTTAAAATCGATTTTCAATTTTTGACAAAAGACAAAAAAATAA
66 AGACAACATGCAATGCAGTAAATTTAAAATCGATTTTCAATTTTTGAAAAAAGACAAAAAAATAA
7902280 TCAATTTAAGGCTCGACTCTCGAACTCCCCAGTGGAGTCAC-CAAGCTGTCGAAACCATTCTTTT
131 TCAATTTAAGGCTCGACTCTCGAACTCCCCAGTGGAGTCACTC-AGCTGTCGAAACCATTCTTTT
7902344 GAAACGGGGATCGACTTTGTTTGAAAGTGAAAAT
195 GAAACGGGGATCGACTTTGTTTGAAAGTGAAAAT
7902378 TAAAACGGGA
Statistics
Matches: 220, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
228 34 0.15
229 186 0.85
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (228 bp):
AAAGATACCTCAAAGAATTAAACCACTTAAAGCAAGCATATTATGAAGAGAGTCGCGAAAATAAC
AGACAACATGCAATGCAGTAAATTTAAAATCGATTTTCAATTTTTGAAAAAAGACAAAAAAATAA
TCAATTTAAGGCTCGACTCTCGAACTCCCCAGTGGAGTCACTCAGCTGTCGAAACCATTCTTTTG
AAACGGGGATCGACTTTGTTTGAAAGTGAAAAT
Found at i:7903336 original size:30 final size:30
Alignment explanation
Indices: 7903259--7903343 Score: 134
Period size: 30 Copynumber: 2.8 Consensus size: 30
7903249 GTGGTGGTGG
* * *
7903259 AGTGTGGCTAGTGGAGTAGGTAGTGGAGTA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
7903289 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
*
7903319 AGTGGGGCTAGTGGAGTTGGTGGTG
1 AGTGTGGCTAGTGGAGTTGGTGGTG
7903344 ACAAAGGCTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 51 1.00
ACGTcount: A:0.18, C:0.05, G:0.51, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTGGTGGAGCA
Found at i:7907007 original size:16 final size:16
Alignment explanation
Indices: 7906986--7907021 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
7906976 TTTGGTTCGC
*
7906986 TGTATTGGATTAGCGG
1 TGTATTGGATTAGAGG
7907002 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
7907018 TGTA
1 TGTA
7907022 ATAGCAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.22, C:0.03, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:7907277 original size:16 final size:16
Alignment explanation
Indices: 7907237--7907291 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
7907227 TTAATCATAT
*
7907237 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
7907253 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
7907268 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
7907286 -TAAAAT
1 TTAAAAT
7907292 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:7907284 original size:18 final size:17
Alignment explanation
Indices: 7907257--7907291 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7907247 TTTTTATTAA
*
7907257 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7907275 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7907292 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7911891 original size:24 final size:25
Alignment explanation
Indices: 7911864--7911920 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
7911854 GAAGGATGAC
*
7911864 AAGGCTGAGACAAA-A-AAGGAAGTG
1 AAGGCTGAGA-AAAGAGAAGGAAGCG
7911888 AAGGCTGA-AAAAGAGAAGGAAGCG
1 AAGGCTGAGAAAAGAGAAGGAAGCG
7911912 AAGGCTGAG
1 AAGGCTGAG
7911921 TGAAAATGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.10
23 2 0.07
24 24 0.83
ACGTcount: A:0.47, C:0.09, G:0.37, T:0.07
Consensus pattern (25 bp):
AAGGCTGAGAAAAGAGAAGGAAGCG
Found at i:7917504 original size:16 final size:15
Alignment explanation
Indices: 7917478--7917509 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
7917468 ATTAATTGAT
7917478 TAATATAAAATAATA
1 TAATATAAAATAATA
7917493 TAATACTAAAATAATA
1 TAATA-TAAAATAATA
7917509 T
1 T
7917510 TATTTATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATATAAAATAATA
Found at i:7937326 original size:131 final size:131
Alignment explanation
Indices: 7937093--7937483 Score: 658
Period size: 131 Copynumber: 3.0 Consensus size: 131
7937083 TAATTATTCA
* * * * *
7937093 TTTAAAAATTCTTTAAAACGAAGGCAATACTCAATGTTTGGCAATT-AGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGAAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
7937157 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
7937222 C
131 C
* * *
7937223 TTTAAAAGCTCTTCAAAATGAAGGTAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGAAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
7937288 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
7937353 C
131 C
*
7937354 TTTAAAAACTCTTCAAAACGAAGGAAATACTCGATGTTTAGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAACTCTTCAAAACGAAGGAAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
* * * *
7937419 GTGCTGGGTTGCGATTTCCTGTTTGTTCGAAATAACCGAATATTCCTTTAGAATTTCACTCATGT
66 GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
7937484 TCTCTAAATT
Statistics
Matches: 245, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
130 40 0.16
131 205 0.84
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
TTTAAAAACTCTTCAAAACGAAGGAAATACTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
GTGCTGGGTTGCGATTTCCCGTTTGTTCAAAATAATCGAATATTCCTTTGGAATTTCACTCATGT
C
Found at i:7938547 original size:22 final size:22
Alignment explanation
Indices: 7938519--7938561 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7938509 TCATCATTCG
7938519 AAAAAATTA-AAAAATCTAAAAT
1 AAAAAATTATAAAAA-CTAAAAT
7938541 AAAAAATTATAAAAACTAAAA
1 AAAAAATTATAAAAACTAAAA
7938562 AATATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (22 bp):
AAAAAATTATAAAAACTAAAAT
Found at i:7938555 original size:16 final size:18
Alignment explanation
Indices: 7938536--7938572 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
7938526 TAAAAAATCT
7938536 AAAA-TAAAAAAT-TATA
1 AAAACTAAAAAATATATA
7938552 AAAACTAAAAAATATATA
1 AAAACTAAAAAATATATA
7938570 AAA
1 AAA
7938573 GTATAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 8 0.42
18 7 0.37
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAACTAAAAAATATATA
Found at i:7938645 original size:29 final size:27
Alignment explanation
Indices: 7938591--7938658 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 27
7938581 ATGTATTTTA
7938591 AAAAATAA-AAATATGTTAAAATTTGT
1 AAAAATAATAAATATGTTAAAATTTGT
7938617 AAAAATAATAAATAT-TATAAAATAATTGT
1 AAAAATAATAAATATGT-TAAAAT--TTGT
*
7938646 -AAAATAATTAATA
1 AAAAATAATAAATA
7938659 AAAATTGAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 12 0.32
29 4 0.11
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (27 bp):
AAAAATAATAAATATGTTAAAATTTGT
Found at i:7947972 original size:18 final size:18
Alignment explanation
Indices: 7947949--7948005 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
7947939 CCCAACTACT
*
7947949 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
7947967 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
7947985 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
7948003 GTA
1 GTA
7948006 AACGGTCGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:7948765 original size:21 final size:22
Alignment explanation
Indices: 7948729--7948769 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7948719 ATCCCTATAT
7948729 TTTTTATATATTTAATATTTATC
1 TTTTTATATATTTAAT-TTTATC
7948752 TTTTTAT-T-TTTAATTTTA
1 TTTTTATATATTTAATTTTA
7948770 AGAATTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 6 0.33
22 1 0.06
23 7 0.39
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTATATATTTAATTTTATC
Found at i:7951052 original size:9 final size:9
Alignment explanation
Indices: 7951038--7951062 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7951028 AGTTGATCGT
7951038 TAATATACA
1 TAATATACA
7951047 TAATATACA
1 TAATATACA
7951056 TAATATA
1 TAATATA
7951063 TTAAAGCAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (9 bp):
TAATATACA
Found at i:7951192 original size:30 final size:30
Alignment explanation
Indices: 7951156--7951227 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
7951146 GTTTCATTTT
* *
7951156 AGTCACTTAACTTTTGAAAAA-TAACAAAAC
1 AGTCAC-TAACTTATAAAAAAGTAACAAAAC
* *
7951186 AGTCACTAACGTTATAAAAAAGTGACAACAC
1 AGTCACTAAC-TTATAAAAAAGTAACAAAAC
7951217 AGTCACTAACT
1 AGTCACTAACT
7951228 AACGGTTTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 15 0.42
31 17 0.47
ACGTcount: A:0.47, C:0.19, G:0.10, T:0.24
Consensus pattern (30 bp):
AGTCACTAACTTATAAAAAAGTAACAAAAC
Found at i:7951283 original size:21 final size:21
Alignment explanation
Indices: 7951257--7951298 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7951247 TTAACAGAAC
*
7951257 AGCTGATGTGGCAAGTTAACT
1 AGCTGACGTGGCAAGTTAACT
*
7951278 AGCTGACGTGGCCAGTTAACT
1 AGCTGACGTGGCAAGTTAACT
7951299 TGCCATGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (21 bp):
AGCTGACGTGGCAAGTTAACT
Found at i:7952290 original size:21 final size:21
Alignment explanation
Indices: 7952264--7952304 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7952254 TCATGTGGCA
*
7952264 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
7952285 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
7952305 GGTTCTGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:7952404 original size:30 final size:31
Alignment explanation
Indices: 7952339--7952407 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
7952329 ACTGTTAGTC
* *
7952339 AGTGACTGTTTTGTCACTTTTTTATAACGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
*
7952370 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCACTTTTTCATAAAGTT
7952399 GAGTGACTG
1 -AGTGACTG
7952408 AAATAAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 14 0.41
31 15 0.44
ACGTcount: A:0.22, C:0.10, G:0.20, T:0.48
Consensus pattern (31 bp):
AGTGACTGTTTTGTCACTTTTTCATAAAGTT
Found at i:7953311 original size:90 final size:90
Alignment explanation
Indices: 7953158--7953333 Score: 352
Period size: 90 Copynumber: 2.0 Consensus size: 90
7953148 TGCATGATGA
7953158 TATCAAGAAGTTGGTGTCAATTCTTGTTGACGAGGAAAGTGCTTGCAAGGTTGTTTCCATATGCG
1 TATCAAGAAGTTGGTGTCAATTCTTGTTGACGAGGAAAGTGCTTGCAAGGTTGTTTCCATATGCG
7953223 GAATGGGTGGTCTTGGCAAGATTGG
66 GAATGGGTGGTCTTGGCAAGATTGG
7953248 TATCAAGAAGTTGGTGTCAATTCTTGTTGACGAGGAAAGTGCTTGCAAGGTTGTTTCCATATGCG
1 TATCAAGAAGTTGGTGTCAATTCTTGTTGACGAGGAAAGTGCTTGCAAGGTTGTTTCCATATGCG
7953313 GAATGGGTGGTCTTGGCAAGA
66 GAATGGGTGGTCTTGGCAAGA
7953334 CCAATCTTGC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.24, C:0.12, G:0.32, T:0.32
Consensus pattern (90 bp):
TATCAAGAAGTTGGTGTCAATTCTTGTTGACGAGGAAAGTGCTTGCAAGGTTGTTTCCATATGCG
GAATGGGTGGTCTTGGCAAGATTGG
Found at i:7961603 original size:17 final size:17
Alignment explanation
Indices: 7961583--7961615 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7961573 TTGAATTTTT
7961583 AAATATTAAA-AATTTAA
1 AAATA-TAAATAATTTAA
7961600 AAATATAAATAATTTA
1 AAATATAAATAATTTA
7961616 TTTCTTTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAATATAAATAATTTAA
Found at i:7961635 original size:101 final size:99
Alignment explanation
Indices: 7961487--7961715 Score: 261
Period size: 100 Copynumber: 2.3 Consensus size: 99
7961477 TAAGAAAGAA
* * *
7961487 TAAAAATTTTAAAAACATAAATTTATTTTTATTTTTTATGTTTTATGTTTTTCAA-TTGTTTTTA
1 TAAAAA-TTTAAAAATATAAA-TAATTTTTATCTTTTATGTTTTATG----TCAATTTGTTTTTA
* *
7961551 AAATTTTTAA-TTT-AAATTTTTATTGAATTTTTAAATAT
60 AAATTTTTAATTTTGAAATGTTTATTAAATTTTTAAATAT
* * * *
7961589 TAAAAATTTAAAAATATAAATAATTTATT-TCTTTTGTTTTTCTATGTCAATTTTTTTTTCAAAT
1 TAAAAATTTAAAAATATAAATAATTT-TTATCTTTTATGTTT-TATGTCAATTTGTTTTTAAAAT
7961653 TTTTAATTTTGAAATGTTTATTAAATTTTTAAATAT
64 TTTTAATTTTGAAATGTTTATTAAATTTTTAAATAT
7961689 TAAAAATTTCAAAAATATAAAT-ATTTT
1 TAAAAATTT-AAAAATATAAATAATTTT
7961716 CAGTTCCATA
Statistics
Matches: 112, Mismatches: 9, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
97 4 0.04
98 17 0.15
99 4 0.04
100 50 0.45
101 31 0.28
102 6 0.05
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (99 bp):
TAAAAATTTAAAAATATAAATAATTTTTATCTTTTATGTTTTATGTCAATTTGTTTTTAAAATTT
TTAATTTTGAAATGTTTATTAAATTTTTAAATAT
Found at i:7962063 original size:14 final size:15
Alignment explanation
Indices: 7962044--7962072 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7962034 AATTCTAGTA
7962044 TATTTT-TTAAAATT
1 TATTTTATTAAAATT
7962058 TATTTTATTAAAATT
1 TATTTTATTAAAATT
7962073 ATTGTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTTATTAAAATT
Found at i:7963153 original size:6 final size:7
Alignment explanation
Indices: 7963136--7963167 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
7963126 TTTGGCCCTT
7963136 TTTTTTC
1 TTTTTTC
7963143 TTTTTTC
1 TTTTTTC
7963150 TTTTTTC
1 TTTTTTC
7963157 -TTTTTC
1 TTTTTTC
7963163 TTTTT
1 TTTTT
7963168 GGATTTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:7963155 original size:14 final size:13
Alignment explanation
Indices: 7963136--7963167 Score: 55
Period size: 13 Copynumber: 2.4 Consensus size: 13
7963126 TTTGGCCCTT
7963136 TTTTTTCTTTTTTC
1 TTTTTTC-TTTTTC
7963150 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
7963163 TTTTT
1 TTTTT
7963168 GGATTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:7968717 original size:21 final size:21
Alignment explanation
Indices: 7968691--7968731 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7968681 AGACGAGCAA
* *
7968691 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
7968712 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
7968732 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:7974794 original size:26 final size:26
Alignment explanation
Indices: 7974738--7974787 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
7974728 AATTGTTTTG
* * *
7974738 AAAATTTTTAATTTTTAAATATTTAT
1 AAAATTTTTAAATATTAAAAATTTAT
*
7974764 TAAATTTTTAAATATTAAAAATTT
1 AAAATTTTTAAATATTAAAAATTT
7974788 CAAAAATATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
AAAATTTTTAAATATTAAAAATTTAT
Found at i:7995398 original size:15 final size:14
Alignment explanation
Indices: 7995366--7995414 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
7995356 TTAGATATTC
*
7995366 TTTTACTTTTATGAT
1 TTTTAC-TTTAAGAT
*
7995381 TTTTAGTTTAAGAGT
1 TTTTACTTTAAGA-T
7995396 TTTTACTTTAAGAT
1 TTTTACTTTAAGAT
7995410 TTTTA
1 TTTTA
7995415 TTATTTTTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.24, C:0.04, G:0.10, T:0.61
Consensus pattern (14 bp):
TTTTACTTTAAGAT
Found at i:8003035 original size:17 final size:19
Alignment explanation
Indices: 8003015--8003063 Score: 68
Period size: 17 Copynumber: 2.7 Consensus size: 19
8003005 AAACTTTTTT
8003015 AAAAAATTATAAAATTAA-
1 AAAAAATTATAAAATTAAC
*
8003033 AAAAAACTA-AAAATT-AC
1 AAAAAATTATAAAATTAAC
8003050 AAAAAATTATAAAA
1 AAAAAATTATAAAA
8003064 CTCTAAGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 1 0.04
17 14 0.52
18 12 0.44
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAAATTATAAAATTAAC
Found at i:8003443 original size:15 final size:16
Alignment explanation
Indices: 8003406--8003438 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8003396 ATTTTTTATC
*
8003406 TTTCT-TAATTTAAAT
1 TTTCTATAATTCAAAT
8003421 TTTCTATAATTCAAAT
1 TTTCTATAATTCAAAT
8003437 TT
1 TT
8003439 GTATATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTCTATAATTCAAAT
Found at i:8009961 original size:49 final size:49
Alignment explanation
Indices: 8009899--8009999 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
8009889 GTATGAATTA
8009899 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
1 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
8009948 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
1 AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
8009997 AGA
1 AGA
8010000 AAATCAACAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.30
Consensus pattern (49 bp):
AGATAGAAAAGTAAGTGAATTTAGTTAGGATTAAATTGAAATTAAAAGT
Found at i:8014058 original size:22 final size:22
Alignment explanation
Indices: 8014033--8014076 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
8014023 TAGTCATATA
8014033 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
8014055 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
8014077 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:8014112 original size:13 final size:14
Alignment explanation
Indices: 8014096--8014137 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
8014086 TTTCAATTTT
8014096 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
8014109 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
8014124 ATTTTAAATAATAT
1 ATTTT-AATAATAT
8014138 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:8014122 original size:16 final size:16
Alignment explanation
Indices: 8014100--8014136 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
8014090 AATTTTATTT
8014100 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
8014117 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
8014132 TAATA
1 TAATA
8014137 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:8014198 original size:19 final size:19
Alignment explanation
Indices: 8014171--8014207 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
8014161 TCAATATTAA
*
8014171 TATTTCAATAATAAATATT
1 TATTACAATAATAAATATT
*
8014190 TATTACAATTATAAATAT
1 TATTACAATAATAAATAT
8014208 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (19 bp):
TATTACAATAATAAATATT
Done.