Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 262 of 378
Found at i:78699374 original size:29 final size:28
Alignment explanation
Indices: 78699340--78699442 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 28
78699330 TAATCGATCA
*
78699340 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
* * **
78699369 CGCACACATAGTGCCGTATAATTTAAATT
1 CGCACACTTAGTGCCATAT-ATTTAAGCT
78699398 CGCACACTTAGTGCCATACT-TTTCAAGCT
1 CGCACACTTAGTGCCATA-TATTT-AAGCT
*
78699427 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
78699443 ATCTTGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 3 0.05
29 57 0.93
30 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTTAAGCT
Found at i:78704637 original size:50 final size:48
Alignment explanation
Indices: 78704571--78704737 Score: 157
Period size: 48 Copynumber: 3.5 Consensus size: 48
78704561 AGGCTGACGT
* * * * *
78704571 CATGTCCTAGACATGGTCTTACACT-AGCTCTCACATATTCGTGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGA-CAC-CAC-TATACATGCAGATGC
* *
78704621 CATGTCCCAGATATGGTCTTACACTGACACCTCTATACATGCAGATGC
1 CATGTCCCAGACATGGTCTTACACTGACACCACTATACATGCAGATGC
* * *
78704669 CATGTCCCAGACATGGTCTTACTCTGACA-CA-T-TTCATAGCTGATG-
1 CATGTCCCAGACATGGTCTTACACTGACACCACTATACAT-GCAGATGC
*
78704714 CATGTCCCAAACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
78704738 AGCTTGCATC
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
44 9 0.09
45 17 0.17
46 7 0.07
47 1 0.01
48 39 0.39
49 2 0.02
50 25 0.25
51 1 0.01
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGACACCACTATACATGCAGATGC
Found at i:78706977 original size:44 final size:44
Alignment explanation
Indices: 78706913--78707003 Score: 128
Period size: 44 Copynumber: 2.1 Consensus size: 44
78706903 GTGGGTCAAA
* * * *
78706913 TAATATTAAAATAACTTACACTAATTAGAGTTTAAATAGGAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATAGAAAAC
* *
78706957 TAATATTAAAGTAACCTACACTAATCAAAGTTTAAGTAGAAAAC
1 TAATATTAAAATAACCTACACTAATCAAAGTTTAAATAGAAAAC
78707001 TAA
1 TAA
78707004 AAACAGAGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.30
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAAAGTTTAAATAGAAAAC
Found at i:78709125 original size:21 final size:18
Alignment explanation
Indices: 78709101--78709144 Score: 54
Period size: 17 Copynumber: 2.3 Consensus size: 18
78709091 AAAAATTTAG
78709101 ATAAAATTATAGATTCAAAAA
1 ATAAAATT-TAGA--CAAAAA
78709122 AT-AAATTTAGACAAAAA
1 ATAAAATTTAGACAAAAA
78709139 ATAAAA
1 ATAAAA
78709145 CTCACTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 8 0.36
18 3 0.14
19 4 0.18
20 5 0.23
21 2 0.09
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (18 bp):
ATAAAATTTAGACAAAAA
Found at i:78711503 original size:25 final size:25
Alignment explanation
Indices: 78711475--78711553 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
78711465 ACTCTGCCCT
78711475 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
78711500 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
78711522 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
78711547 ATCACAT
1 ATCACAT
78711554 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:78711646 original size:49 final size:47
Alignment explanation
Indices: 78711428--78711699 Score: 427
Period size: 47 Copynumber: 5.7 Consensus size: 47
78711418 TTCGGGACTC
* * * * ** *
78711428 ATCACATTTATACACTTTCACATCCATCACGTCGGCCACTCTGCCCT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
* *
78711475 ATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
78711522 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
78711569 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
78711616 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
78711665 ATCACATATATATACACTTTCACATTCATCACATC
1 ATCAC--ATATATACACTTTCACATTCATCACATC
78711700 AAATCCTAAA
Statistics
Matches: 214, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
47 137 0.64
49 77 0.36
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTT
Found at i:78716590 original size:28 final size:28
Alignment explanation
Indices: 78716529--78716626 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
78716519 TCACAAATTG
** * *
78716529 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
78716558 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
78716586 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
78716614 GCACTAAGTGTGC
1 GCACTAAGTGTGC
78716627 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:78724268 original size:28 final size:28
Alignment explanation
Indices: 78724207--78724304 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
78724197 TCACAAATTG
** * *
78724207 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
78724236 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
78724264 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
78724292 GCACTAAGTGTGC
1 GCACTAAGTGTGC
78724305 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:78725947 original size:42 final size:42
Alignment explanation
Indices: 78725859--78725947 Score: 97
Period size: 42 Copynumber: 2.1 Consensus size: 42
78725849 ATGTCAATGT
* * *** *
78725859 CAATGCCATGTCCCAAACATGGTCTTACATGAGATTTCAAAT
1 CAATGCCATATCCCAAACATGGTCTTACATGACAACACAAAC
* * *
78725901 CAATGCCATATCCCATATATGGTCTTACATGACAACACATAC
1 CAATGCCATATCCCAAACATGGTCTTACATGACAACACAAAC
78725943 CAATG
1 CAATG
78725948 GTGGTACCAT
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (42 bp):
CAATGCCATATCCCAAACATGGTCTTACATGACAACACAAAC
Found at i:78729475 original size:48 final size:48
Alignment explanation
Indices: 78729410--78729605 Score: 329
Period size: 48 Copynumber: 4.0 Consensus size: 48
78729400 GCTGAAATTG
*
78729410 ATGTATAAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78729458 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG-AA-AT
* *
78729508 ATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
* *
78729556 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTAAAAT
1 ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
78729604 AT
1 AT
78729606 ATAGGCGATG
Statistics
Matches: 141, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
48 93 0.66
49 4 0.03
50 44 0.31
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.32
Consensus pattern (48 bp):
ATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:78729571 original size:98 final size:98
Alignment explanation
Indices: 78729417--78729608 Score: 357
Period size: 98 Copynumber: 2.0 Consensus size: 98
78729407 TTGATGTATA
78729417 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
78729482 AAAGCCGAATGGCTAATGTGAAATATATATATG
66 AAAGCCGAATGGCTAATGTAAAATATATATATG
*
78729515 AGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGT
1 AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
*
78729580 AAAGCCGAATGGCTAGTGTAAAATATATA
66 AAAGCCGAATGGCTAATGTAAAATATATA
78729609 GGCGATGTGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.36, C:0.06, G:0.26, T:0.31
Consensus pattern (98 bp):
AGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATGTGGT
AAAGCCGAATGGCTAATGTAAAATATATATATG
Found at i:78729809 original size:37 final size:37
Alignment explanation
Indices: 78729759--78729862 Score: 120
Period size: 37 Copynumber: 2.8 Consensus size: 37
78729749 ATATATTCCG
*
78729759 GGTAAGTCCCGATGACTATGTGTGGAGATTATGTCCA
1 GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
* * **
78729796 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCTG
1 GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
* * *
78729833 GGTAAAACCCGATAACT-TCGTATGGAGATT
1 GGTAAGACCCGATGACTAT-GTGTGGAGATT
78729863 TCATCTGAGC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (37 bp):
GGTAAGACCCGATGACTATGTGTGGAGATTATGTCCA
Found at i:78731177 original size:40 final size:40
Alignment explanation
Indices: 78731122--78731563 Score: 659
Period size: 40 Copynumber: 11.1 Consensus size: 40
78731112 AGAGTTATAT
78731122 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
78731162 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
78731202 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
78731242 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTACTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
78731282 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
78731322 ATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * * * *
78731362 TTATATTCGGGCTAAGTCTCAAAGAGCATTTGTGCTAGAG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * *
78731402 TTATATCAGGGTTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
78731442 ATATATCCGGGCTAAGTCTCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * *
78731482 ATGTATCCGGGCTAAGCCCCGAAGAGCATTTGTGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* * * * * *
78731522 TTATATCCGGGCTAGGTGCCGAAGAGCAATCATGCTGGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
78731562 AT
1 AT
78731564 GTGTATTCGG
Statistics
Matches: 363, Mismatches: 39, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 363 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:78732769 original size:20 final size:18
Alignment explanation
Indices: 78732725--78732769 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
78732715 TCCATTGTTT
*
78732725 CTTTTTGTTTTTTTCTTC
1 CTTTTTCTTTTTTTCTTC
78732743 CTATTTTCTTTCTTTTCTTTC
1 CT-TTTTCTTT-TTTTC-TTC
78732764 CTTTTT
1 CTTTTT
78732770 GCTTGTTTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 2 0.09
19 7 0.30
20 9 0.39
21 5 0.22
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (18 bp):
CTTTTTCTTTTTTTCTTC
Found at i:78734775 original size:46 final size:47
Alignment explanation
Indices: 78734659--78734781 Score: 142
Period size: 47 Copynumber: 2.6 Consensus size: 47
78734649 TGATATGTGT
* * * * **
78734659 GCTAGTGTAAGACATGTCTGGGTCATACATCGGCCTCGAGATTATAA
1 GCTAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGATAA
* * *
78734706 GCCAGTGTAAGACATGTCA-GGGACATGCATCGGCATTGAGACGA-GA
1 GCTAGTGTAAGACATGT-ATGGGACATGCATCGGCATCGAGACGATAA
78734752 GCTAGTGTAAGACATGTATGGGACATGCAT
1 GCTAGTGTAAGACATGTATGGGACATGCAT
78734782 TGGCCTTAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.02
46 28 0.44
47 35 0.55
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTATGGGACATGCATCGGCATCGAGACGATAA
Found at i:78734875 original size:49 final size:49
Alignment explanation
Indices: 78734818--78734990 Score: 190
Period size: 49 Copynumber: 3.6 Consensus size: 49
78734808 TGTTGTGTGT
*
78734818 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGC
* * * * *
78734867 CAGTGTAAGACCTGTTTGGGACACGGCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* * * **
78734916 TAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
* *
78734963 CAGTGTAAAACCATGTCTAGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
78734991 GTTAGCATCT
Statistics
Matches: 103, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
47 14 0.14
48 15 0.15
49 74 0.72
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGC
Found at i:78744251 original size:40 final size:40
Alignment explanation
Indices: 78744205--78744281 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
78744195 ACAAACCATG
* *
78744205 TGGGGATAGT-ATCGACCCACCCAACCCTACACACCAAGTA
1 TGGGGATA-TAATCAACCCACCCAACCCGACACACCAAGTA
*
78744245 TGGGGATATAATCAACCCATCCAACCCGACACACCAA
1 TGGGGATATAATCAACCCACCCAACCCGACACACCAA
78744282 AAGCTACTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.03
40 32 0.97
ACGTcount: A:0.35, C:0.35, G:0.16, T:0.14
Consensus pattern (40 bp):
TGGGGATATAATCAACCCACCCAACCCGACACACCAAGTA
Found at i:78749114 original size:49 final size:49
Alignment explanation
Indices: 78749061--78749234 Score: 231
Period size: 49 Copynumber: 3.5 Consensus size: 49
78749051 CTGGTACGCA
* *
78749061 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
* *** **
78749110 TAGTAACCTGCACTTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGATACACG
* * * *
78749160 TAGGAGCCTGCACTTAGTACTACACATGCGGCCAATTATCTAATACACA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
78749209 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
78749235 CGTGACCTCA
Statistics
Matches: 105, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
49 66 0.63
50 39 0.37
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
Found at i:78758396 original size:14 final size:14
Alignment explanation
Indices: 78758377--78758415 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
78758367 TGTAATGTAC
78758377 TTTTATTTATTATT
1 TTTTATTTATTATT
*
78758391 TTTTATTT-TAATT
1 TTTTATTTATTATT
78758404 TATTTATTTATT
1 T-TTTATTTATT
78758416 TTTGAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 15 0.71
15 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTTATTATT
Found at i:78758429 original size:24 final size:24
Alignment explanation
Indices: 78758377--78758430 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
78758367 TGTAATGTAC
* *
78758377 TTTTATTTATTATTTTTTATTTTAA
1 TTTTATTTATTATTTTTGA-TATAA
78758402 -TTTATTTATTTATTTTTGA-ATAA
1 TTTTATTTA-TTATTTTTGATATAA
78758425 TTTTAT
1 TTTTAT
78758431 AGGCCCGGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
23 3 0.12
24 13 0.52
25 9 0.36
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (24 bp):
TTTTATTTATTATTTTTGATATAA
Found at i:78758814 original size:85 final size:85
Alignment explanation
Indices: 78758687--78759005 Score: 273
Period size: 88 Copynumber: 3.7 Consensus size: 85
78758677 GGCTTCAATC
* * * * *
78758687 TGCTCCCCTACTACCT-TGGGAAGATAATATTCGCCATGTTCGATCTGCTCCACTACTTAGAGAA
1 TGCTCCCCTGCTACCTCT-GGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTTAGAGAG
78758751 ATAAGGCTGGTAGCTAAAATT
65 ATAAGGCTGGTAGCTAAAATT
*
78758772 TGCTCCCCTGCTACCTCTGGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTGCCTAGGG
1 TGCTCCCCTGCTACCTCTGGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACT---TAGAG
** *** * ** *
78758837 AGATAAGATATACAATCTTCAGTT
63 AGATAAG-GCTGGTAGCTAAAATT
* * * * * * * * * *
78758861 TACTTCCTTGCTACCTCAGGAAGATAAGA-CTACAATTTTCAACCTGCTCTCTTGCTACTTCAGA
1 TGCTCCCCTGCTACCTCTGGAAGATAAGATTTGCCATTTTCGATCTGCTC-C--ACTACTT-AGA
* *
78758925 GAGATAAGGCTGGTGGCTAAAATC
62 GAGATAAGGCTGGTAGCTAAAATT
* * *
78758949 TGCTCCCTTGCTACCTCGGGAAGATAAGATTTGCCATTTTCGATCTACTCCACTACT
1 TGCTCCCCTGCTACCTCTGGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACT
78759006 GTTTAGGGAG
Statistics
Matches: 177, Mismatches: 47, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
85 51 0.29
86 6 0.03
88 58 0.33
89 57 0.32
91 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (85 bp):
TGCTCCCCTGCTACCTCTGGAAGATAAGATTTGCCATTTTCGATCTGCTCCACTACTTAGAGAGA
TAAGGCTGGTAGCTAAAATT
Found at i:78759047 original size:177 final size:177
Alignment explanation
Indices: 78758739--78759564 Score: 1162
Period size: 177 Copynumber: 4.7 Consensus size: 177
78758729 ATCTGCTCCA
* * * *
78758739 CTACTT-AGAGAAATAAGGCTGGTAGCTAAAATTTGCTCCCCTGCTACCTCTGGAAGATAAGATT
1 CTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
* * *
78758803 TGCCATTTTCGATCTGCTCCACTACTGCCTAGGGAGATAAGATATACAATCTTCAGTTTACTTCC
66 TGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTACTTCC
* *
78758868 TTGCTACCTCAGGAAGATAAGACTACAATTTTCAACCTGCTCTCTTG
131 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTG
*
78758915 CTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGATT
1 CTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
* * *
78758980 TGCCATTTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTACAGT-TTCCAGTCTACTTC
66 TGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTT-CAGTCTACTTC
* *
78759044 CTTGCTACCTCAGAAAGATAAGACTATAATCTTCAACCTACTCTCTTG
130 CTTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTG
* * *
78759092 CTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCT-CCCTGCTCCCTCCGGAAGATAAGATT
1 CTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
* * *
78759156 TTCCATTTTCGATCTGCTCCACTATTGCTTAAGGAGATAAGATCTACAATCTTCAGTCTACTTCC
66 TGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTACTTCC
* *
78759221 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTATTCCCTTG
131 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTG
* * *
78759268 CTACCTCAGAGAGAAAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGTGAAGATAAGATT
1 CTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
* * * * * * *
78759333 CGCCATCTTCAATCTACTCCACTACTGCTTAGGGAGATAAAATCTGCAATCTTCAGTCTATTTCC
66 TGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTACTTCC
* * *
78759398 TTGATACCTTAGGAAGATAAGACTACAATCTTCAACCTACTCTTTTG
131 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTG
* * * *
78759445 CTACCTT-AGAGAGATAAGGATGGTGGCAAAAATCTTCTCCCCTACTACCTCGGGAAGATAAGAT
1 CTA-CTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGAT
** * *
78759509 TCACCATTTTCGATCTGCTCCATTGCTACTTCTT--GGAGATAAGATCTGCAA-CTTCA
65 TTGCCATTTTCGATCTGCTCCA---CTACTGCTTAGGGAGATAAGATCTACAATCTTCA
78759565 CCGATGTTGC
Statistics
Matches: 581, Mismatches: 61, Indels: 15
0.88 0.09 0.02
Matches are distributed among these distances:
176 167 0.29
177 388 0.67
178 18 0.03
180 8 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (177 bp):
CTACTTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATT
TGCCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGTCTACTTCC
TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTACTCTCTTG
Found at i:78759250 original size:44 final size:45
Alignment explanation
Indices: 78759190--78759276 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 45
78759180 TTGCTTAAGG
**
78759190 AGATAAGATCTACAATCTTCAGTCTACTT-CCTTGCTACCTCAGGA
1 AGATAAGATCTACAATCTTCAACCTA-TTCCCTTGCTACCTCAGGA
78759235 AGATAAGA-CTACAATCTTCAACCTATTCCCTTGCTACCTCAG
1 AGATAAGATCTACAATCTTCAACCTATTCCCTTGCTACCTCAG
78759277 AGAGAAAAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
43 2 0.05
44 29 0.74
45 8 0.21
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (45 bp):
AGATAAGATCTACAATCTTCAACCTATTCCCTTGCTACCTCAGGA
Found at i:78759430 original size:353 final size:354
Alignment explanation
Indices: 78758745--78759530 Score: 1189
Period size: 353 Copynumber: 2.2 Consensus size: 354
78758735 TCCACTACTT
* * * * *
78758745 AGAGAAATAAGGCTGGTAGCTAAAATTTGCTCCCCTGCTACCTCTGGAAGATAAGATTTGCCATT
1 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCCGGAAGATAAGATTTACCATT
* *
78758810 TTCGATCTGCTCCACTACTGCCTAGGGAGATAAGATATACAATCTTCAGTTTACTTCCTTGCTAC
66 TTCGATCTGCTCCACTACTGCCTAAGGAGATAAGATATACAATCTTCAGTCTACTTCCTTGCTAC
* * * * *
78758875 CTCAGGAAGATAAGACTACAATTTTCAACCTGCTCTCTTGCTACTTCAGAGAGATAAGGCTGGTG
131 CTCAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAGAGAGAAAAGGCTGGTG
* * * *
78758940 GCTAAAATCTGCTCCCTTGCTACCTCGGGAAGATAAGATTTGCCATTTTCGATCTACTCCACTAC
196 GCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
* * * *
78759005 TGTTTAGGGAGATAAGATCTACAGTTTCCAGTCTACTTCCTTGCTACCTCAGAAAGATAAGACTA
261 TGCTTAGGGAGATAAAATCTACAATTTCCAGTCTACTTCCTTGATACCTCAGAAAGATAAGACTA
*
78759070 TAATCTTCAACCTACTCTCTTGCTACCTC
326 CAATCTTCAACCTACTCTCTTGCTACCTC
* *
78759099 AGAGAGATAAGGCTGGTGGCTAAAATCTGCT-CCCTGCTCCCTCCGGAAGATAAGATTTTCCATT
1 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCCGGAAGATAAGATTTACCATT
* * *
78759163 TTCGATCTGCTCCACTATTGCTTAAGGAGATAAGATCTACAATCTTCAGTCTACTTCCTTGCTAC
66 TTCGATCTGCTCCACTACTGCCTAAGGAGATAAGATATACAATCTTCAGTCTACTTCCTTGCTAC
*
78759228 CTCAGGAAGATAAGACTACAATCTTCAACCTATTCCCTTGCTACCTCAGAGAGAAAAGGCTGGTG
131 CTCAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAGAGAGAAAAGGCTGGTG
*
78759293 GCTAAAATCTGCTCCCCTGCTACCTCGTGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
196 GCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
* * * *
78759358 TGCTTAGGGAGATAAAATCTGCAATCTT-CAGTCTATTTCCTTGATACCTTAGGAAGATAAGACT
261 TGCTTAGGGAGATAAAATCTACAAT-TTCCAGTCTACTTCCTTGATACCTCAGAAAGATAAGACT
* *
78759422 ACAATCTTCAACCTACTCTTTTGCTACCTT
325 ACAATCTTCAACCTACTCTCTTGCTACCTC
* * * * * *
78759452 AGAGAGATAAGGATGGTGGCAAAAATCTTCTCCCCTACTACCTCGGGAAGATAAGATTCACCATT
1 AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCCGGAAGATAAGATTTACCATT
78759517 TTCGATCTGCTCCA
66 TTCGATCTGCTCCA
78759531 TTGCTACTTC
Statistics
Matches: 389, Mismatches: 41, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
353 317 0.81
354 72 0.19
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (354 bp):
AGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCCCTGCTACCTCCGGAAGATAAGATTTACCATT
TTCGATCTGCTCCACTACTGCCTAAGGAGATAAGATATACAATCTTCAGTCTACTTCCTTGCTAC
CTCAGGAAGATAAGACTACAATCTTCAACCTACTCCCTTGCTACCTCAGAGAGAAAAGGCTGGTG
GCTAAAATCTGCTCCCCTGCTACCTCGGGAAGATAAGATTCGCCATCTTCAATCTACTCCACTAC
TGCTTAGGGAGATAAAATCTACAATTTCCAGTCTACTTCCTTGATACCTCAGAAAGATAAGACTA
CAATCTTCAACCTACTCTCTTGCTACCTC
Found at i:78760989 original size:41 final size:42
Alignment explanation
Indices: 78760942--78761025 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
78760932 ATTCACAGGA
*
78760942 TTGTGC-AGGTTTTTCCCATCCATTTTAGCCAGAATTAATAC
1 TTGTGCAAGGTTTTTCCCATCCATTTCAGCCAGAATTAATAC
*
78760983 TTGTGCAAGTTTTTTCCCATCCATTTCAGCCAGAATTAATAC
1 TTGTGCAAGGTTTTTCCCATCCATTTCAGCCAGAATTAATAC
78761025 T
1 T
78761026 CCTCTGGAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 6 0.15
42 34 0.85
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (42 bp):
TTGTGCAAGGTTTTTCCCATCCATTTCAGCCAGAATTAATAC
Found at i:78768188 original size:19 final size:20
Alignment explanation
Indices: 78768166--78768212 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
78768156 TGATGGACTT
* *
78768166 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
78768185 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
78768205 -AATGCAAA
1 TAATGCAAA
78768213 AAAGGTGTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:78774309 original size:50 final size:51
Alignment explanation
Indices: 78774231--78774359 Score: 179
Period size: 50 Copynumber: 2.5 Consensus size: 51
78774221 GACCATGGCA
* *
78774231 ACAAGTGATAAGTGATAGCTTCGCCTACACTTACCTAATCAAAGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTACCTAATCAAAGACAAATG
* * *
78774282 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTACCTAATCAAAGACAAATG
* * *
78774332 ACAAGTGAAAAGTGGTAGCTTTGGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
78774360 CTGATCAGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 45 0.65
51 24 0.35
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTACCTAATCAAAGACAAATG
Found at i:78774373 original size:31 final size:31
Alignment explanation
Indices: 78774335--78774421 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
78774325 ACAAATGACA
*
78774335 AGTGAAAAGTGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
78774366 AGTGAAAAGTAGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
78774397 AGTGAATAGTGGTAGCTTCTGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
78774422 AAGTGACAAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 49 1.00
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:78774509 original size:47 final size:47
Alignment explanation
Indices: 78774440--78774652 Score: 188
Period size: 47 Copynumber: 4.6 Consensus size: 47
78774430 AGTGATTTCC
* * *
78774440 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
** * * *
78774487 GTATAAGACCATATTTGGGATATGGCATCAGTGAGATATGTGAT-TT
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* * *
78774533 GTGTAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-
1 GTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TACT
* * * * *
78774582 GTGTAAGACCATAGTTGGGCTATGGCATC-G-AT-ATATG-AATA-T
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
* *
78774624 GTGTAAGACCATAGCTGGGCTATGGCATC
1 GTATAAGACCATAGCTGGGATATGGCATC
78774653 ATTATGTGAA
Statistics
Matches: 142, Mismatches: 19, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
42 30 0.21
43 1 0.01
44 5 0.04
45 1 0.01
46 26 0.18
47 39 0.27
48 11 0.08
49 29 0.20
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (47 bp):
GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATACT
Found at i:78774592 original size:49 final size:48
Alignment explanation
Indices: 78774443--78774696 Score: 200
Period size: 42 Copynumber: 5.6 Consensus size: 48
78774433 GATTTCCGTA
* * * * * * *
78774443 TAAGACCATATCTGGGATATGGCATCG--GTGTGATATATGCTACTGTA
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTC-GTG
** * * * *
78774490 TAAGACCATATTTGGGATATGGCATC-A-GTGAGATATGTGATTTGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
78774536 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
* *
78774585 TAAGACCATAGTTGGGCTATGGCATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
78774627 TAAGACCATAGCTGGGCTATGGCATC-ATTATGTGA-A---GA-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGATATGTGATTCGTG
* **
78774669 TAAGACCATAGATGAACTATGGCATCGA
1 TAAGACCATAGCTGGGCTATGGCATCGA
78774697 GAAAATAAAG
Statistics
Matches: 180, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
41 1 0.01
42 63 0.35
43 1 0.01
44 1 0.01
45 1 0.01
46 26 0.14
47 37 0.21
48 14 0.08
49 36 0.20
ACGTcount: A:0.30, C:0.13, G:0.27, T:0.30
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:78774659 original size:91 final size:92
Alignment explanation
Indices: 78774443--78774661 Score: 257
Period size: 91 Copynumber: 2.4 Consensus size: 92
78774433 GATTTCCGTA
* * ** *
78774443 TAAGACCATATCTGGGATATGGCATC-GGTGTGATATATGCTACTGTATAAGACCATATTTGGGA
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGCTACTGTATAAGACCATAGTTGGGA
* *
78774507 TATGGCATCAGTGAGATATGTGATTTGTG
66 TATGGCATCA--GAGATATGTAATATGTG
* * *
78774536 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTAC-GTGTAAGACCATAGTTGG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATATG-CTACTGTATAAGACCATAGTTGG
* *
78774600 GCTATGGCATC-GATATATG-AATATGTG
64 GATATGGCATCAGAGATATGTAATATGTG
78774627 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
78774662 AGATGTGTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
90 1 0.01
91 39 0.35
92 7 0.06
93 24 0.22
95 36 0.33
96 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (92 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATATGCTACTGTATAAGACCATAGTTGGGA
TATGGCATCAGAGATATGTAATATGTG
Found at i:78777629 original size:286 final size:284
Alignment explanation
Indices: 78777110--78777686 Score: 1064
Period size: 286 Copynumber: 2.0 Consensus size: 284
78777100 CAGTCAGTGA
* *
78777110 TAATACTAGTGTGATATGAGATAAAATGGCTATAGATTTCGAATTGGGATTGTCATTAACATCAG
1 TAATTCTAGTGTAATATGAGATAAAATGGCTATAGATTTCGAATTGGGATTGTCATTAACATCAG
78777175 AAAGGAAAAAGTTATTTAGTTTATGGTTAATCATCTGACAAAGAAAGATCTGTATGATCATTTCA
66 AAAGGAAAAAGTTATTTAGTTTATGGTTAATCATCTGACAAAGAAAGATCTGTATGATCATTTCA
78777240 ATAGGTACAGAATTTTTATTTGATAGATCAGCTAAGTATATGTGTTCCTAATAGGGTAATTTAGA
131 ATAGGTACAGAATTTTTATTTGATAGATCAGCTAAGTATATGTGTTCCTAATAGGGTAATTTAGA
*
78777305 ATTTTAACAATAAGTTTCAACATTTATTCTAAAGTTCAAAGGTGACTGGAAAAAAAAAATAATAA
196 ATTTTAACAATAAGTTCCAACATTTATTCTAAAGTTCAAAGGTGACT--AAAAAAAAAATAATAA
78777370 ATAATATCCGAGGTTAAACTGAATTG
259 ATAATATCCGAGGTTAAACTGAATTG
78777396 TAATTCTAGTGTAATATGAGATAAAATGGCTATAGATTTCGAATTGGGATTGTCATTAACATCAG
1 TAATTCTAGTGTAATATGAGATAAAATGGCTATAGATTTCGAATTGGGATTGTCATTAACATCAG
* *
78777461 AAAGGAAAATGTTATTTAGTTTATGGTTAATCATTTGACAAAGAAAGATCTGTATGATCATTTCA
66 AAAGGAAAAAGTTATTTAGTTTATGGTTAATCATCTGACAAAGAAAGATCTGTATGATCATTTCA
78777526 ATAGGTACAGAATTTTTATTTGATAGATCAGCTAAGTATATGTGTTCCTAATAGGGTAATTTAGA
131 ATAGGTACAGAATTTTTATTTGATAGATCAGCTAAGTATATGTGTTCCTAATAGGGTAATTTAGA
* *
78777591 ATTTTAACAATAAGTTCCAACATTTATTCTAGAGTTCAAAGGTGACTAGAAAAAAAATAATAAAT
196 ATTTTAACAATAAGTTCCAACATTTATTCTAAAGTTCAAAGGTGACTAAAAAAAAAATAATAAAT
*
78777656 AATATTCGAGGTTAAACTGAATTG
261 AATATCCGAGGTTAAACTGAATTG
78777680 TAATTCT
1 TAATTCT
78777687 GAGAAGTTAG
Statistics
Matches: 283, Mismatches: 8, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
284 47 0.17
286 236 0.83
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (284 bp):
TAATTCTAGTGTAATATGAGATAAAATGGCTATAGATTTCGAATTGGGATTGTCATTAACATCAG
AAAGGAAAAAGTTATTTAGTTTATGGTTAATCATCTGACAAAGAAAGATCTGTATGATCATTTCA
ATAGGTACAGAATTTTTATTTGATAGATCAGCTAAGTATATGTGTTCCTAATAGGGTAATTTAGA
ATTTTAACAATAAGTTCCAACATTTATTCTAAAGTTCAAAGGTGACTAAAAAAAAAATAATAAAT
AATATCCGAGGTTAAACTGAATTG
Found at i:78779853 original size:50 final size:50
Alignment explanation
Indices: 78779776--78779904 Score: 197
Period size: 50 Copynumber: 2.5 Consensus size: 50
78779766 GACCATGGCA
*
78779776 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAGTG
1 ACAAGTGA-AAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
78779827 A-AAGTGACAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGA-AAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
*
78779877 ACAAGTGAAATGTGGTAGCTTCGGCTAC
1 ACAAGTGAAA-GTGATAGCTTCGGCTAC
78779905 CTGATCAGTG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 49 0.68
51 23 0.32
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (50 bp):
ACAAGTGAAAGTGATAGCTTCGGCTACACTTATCTGATCAAAGACAAATG
Found at i:78779923 original size:31 final size:31
Alignment explanation
Indices: 78779880--78779966 Score: 129
Period size: 31 Copynumber: 2.8 Consensus size: 31
78779870 ACAAATGACA
*
78779880 AGTGAAATGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
78779911 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
78779942 AATGAATAGTGGTAGCTTCTGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
78779967 AAGTGACAAG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.28
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:78780136 original size:49 final size:47
Alignment explanation
Indices: 78780035--78780206 Score: 196
Period size: 49 Copynumber: 3.7 Consensus size: 47
78780025 TGCTACTCGA
* * * * *
78780035 TAAGACCATATCTAGGATATGGCATCA-GTGAGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
78780081 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTACGTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATT-CGTG
* *
78780130 TAAGACCATAGCTGGGCTATGACATCGATATATGA-A--T-A-T-GTG
1 TAAGACCATAGCTGGGCTATGGCATC-ATATGTGATATGTGATTCGTG
78780172 TAAGACCATAGCTGGGCTATGGCATCATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCA-TATGTGA
78780207 AGATGTGTAA
Statistics
Matches: 113, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
41 1 0.01
42 34 0.30
44 1 0.01
45 1 0.01
46 24 0.21
47 1 0.01
48 14 0.12
49 37 0.33
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (47 bp):
TAAGACCATAGCTGGGCTATGGCATCATATGTGATATGTGATTCGTG
Found at i:78780173 original size:42 final size:42
Alignment explanation
Indices: 78780127--78780219 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 42
78780117 ATGTGATTAC
*
78780127 GTGTAAGACCATAGCTGGGCTATGACATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGACATC-ATTATATGAAGAT
* *
78780169 GTGTAAGACCATAGCTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
78780211 GTGTAAGAC
1 GTGTAAGAC
78780220 GTTCACTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (42 bp):
GTGTAAGACCATAGCTGGGCTATGACATCATTATATGAAGAT
Found at i:78786587 original size:47 final size:48
Alignment explanation
Indices: 78786510--78786628 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 48
78786500 GCTTTATCAT
*
78786510 ATAACTAGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACT-GAGGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* * **
78786559 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
78786606 ATAACTGAGGCATAAGCCCTTTT
1 ATAACTGAGGCATAAGCCCTTTT
78786629 TCACTTCCTC
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
47 43 0.68
48 10 0.16
49 10 0.16
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (48 bp):
ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:78786589 original size:23 final size:24
Alignment explanation
Indices: 78786524--78786628 Score: 158
Period size: 24 Copynumber: 4.4 Consensus size: 24
78786514 CTAGAGGCCT
*
78786524 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
78786549 AGCCCTTTCAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
78786573 AGCCCTTTT-ATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
78786596 AGCCCTTTTGATAACTGAGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
78786620 AGCCCTTTT
1 AGCCCTTTT
78786629 TCACTTCCTC
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 23 0.31
24 48 0.64
25 4 0.05
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:78786703 original size:20 final size:20
Alignment explanation
Indices: 78786678--78786738 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
78786668 TTATGATTAC
78786678 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
78786698 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
78786718 GTCATGTGCATCTCATACAT
1 ATCATGTGCATATCATACAT
78786738 A
1 A
78786739 CCATATTTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:78786813 original size:25 final size:25
Alignment explanation
Indices: 78786781--78786828 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
78786771 ATACATAAAC
* *
78786781 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAATGGTCATTTTTA
78786806 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
78786829 CATGGTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAATGGTCATTTTTA
Found at i:78788036 original size:27 final size:27
Alignment explanation
Indices: 78788006--78788091 Score: 82
Period size: 27 Copynumber: 3.2 Consensus size: 27
78787996 TACCATACAG
*
78788006 GGGTATTTTGGTAGTTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
** * ***
78788033 GGGTATTGCGGTAATTTCACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATTGA
* **
78788060 GGGTATTTTAGTAATTTTGTAAATTGA
1 GGGTATTTTGGTAATTTTACAAATTGA
78788087 GGGTA
1 GGGTA
78788092 AAACAGTAAT
Statistics
Matches: 43, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.29, C:0.07, G:0.26, T:0.38
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATTGA
Found at i:78788099 original size:27 final size:27
Alignment explanation
Indices: 78788070--78788468 Score: 514
Period size: 27 Copynumber: 14.8 Consensus size: 27
78788060 GGGTATTTTA
* * *
78788070 GTAATTTTGTAAATTGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
78788097 GTAATTTTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78788124 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78788151 GTAATTCTGTAAATCGAGGGTGAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
78788178 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * * *
78788205 ATAATTATGTAAATCGGGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78788232 GTAATTCTGTAAATCGAGGGTGAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
78788259 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78788286 ATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
78788312 GTAATTATGTAAATTAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
78788339 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
78788366 GTAATTCTGTAAA-CTAAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
78788393 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* **
78788420 GTAATTTTACAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
78788447 ATAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
78788469 CTTTGGTAAT
Statistics
Matches: 324, Mismatches: 45, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
26 24 0.07
27 299 0.92
28 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:78788490 original size:27 final size:27
Alignment explanation
Indices: 78788419--78788669 Score: 213
Period size: 27 Copynumber: 9.3 Consensus size: 27
78788409 AGGGTAAAAC
****
78788419 GGTAATTTTACAAATCGAGGGTAAAAC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * * *
78788446 GATAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
78788473 GGTAATTTTACAAGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
** ** *
78788500 AATAATTTTACAGGTCGAGGGTATTTC
1 GGTAATTTTACAAATCGAGGGTATTTT
* * *
78788527 AGTAATTTCACAAAT-TAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
*
78788554 GGTAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* *
78788581 GATAATTTTACAAA-CTAGGGGTATTTT
1 GGTAATTTTACAAATCGA-GGGTATTTT
* * *
78788608 GGTAATTTTATAAACCAAGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
* *
78788635 AGTAATTTTACAAAGC-AGGGTATTTT
1 GGTAATTTTACAAATCGAGGGTATTTT
78788661 GGTAATTTT
1 GGTAATTTT
78788670 GTAGACCAAA
Statistics
Matches: 189, Mismatches: 32, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
26 19 0.10
27 168 0.89
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGTATTTT
Found at i:78788518 original size:54 final size:54
Alignment explanation
Indices: 78788097--78788541 Score: 157
Period size: 54 Copynumber: 8.3 Consensus size: 54
78788087 GGGTAAAACA
** * * * **
78788097 GTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAAT-G
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGT-ATTTCG
* ** * * ** ***
78788151 GTAATTCTGTAAATCGAGGGTGAAACAGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
* * ** * *** ** **
78788205 ATAATTATGTAAATCGGGGGTAAAATGGTAATTCTGTAAATCGAGGGTGA-AACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGT-ATTTCG
* ** * * ** ***
78788259 GTAATTCTGTAAATCGAGGGTAAAACGATAATTATGTAAATCG-GGGTAAAACG
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
* ** ** ** * ** *
78788312 GTAATTATGTAAATTAAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAT-A
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGT-ATTTCG
* * ** ** ***
78788366 GTAATTCTGTA-AACT-AAGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATT-T-TACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
* *
78788420 GTAATTTTACAAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTA-TTTCG
* *** * ** *
78788474 GTAATTTTACAAGTCGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
*
78788528 GTAATTTCACAAAT
1 GTAATTTTACAAAT
78788542 TAGGGGTATT
Statistics
Matches: 329, Mismatches: 50, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
52 3 0.01
53 58 0.18
54 260 0.79
55 7 0.02
56 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.29
Consensus pattern (54 bp):
GTAATTTTACAAATCGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCG
Found at i:78788683 original size:26 final size:26
Alignment explanation
Indices: 78788546--78788686 Score: 129
Period size: 27 Copynumber: 5.3 Consensus size: 26
78788536 ACAAATTAGG
* * *
78788546 GGTATTTTGGTAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
* * * *
78788573 GGTATTTTGATAATTTTACAAACTAGG
1 GGTATTTTGGTAATTTTATAAACCA-A
78788600 GGTATTTTGGTAATTTTATAAACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
* * * *
78788626 GGGTATTTTAGTAATTTTACAAAGCAG
1 -GGTATTTTGGTAATTTTATAAACCAA
* *
78788653 GGTATTTTGGTAATTTTGTAGACCAA
1 GGTATTTTGGTAATTTTATAAACCAA
*
78788679 AGTATTTT
1 GGTATTTT
78788687 AAATAGGGAT
Statistics
Matches: 97, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
26 27 0.28
27 70 0.72
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTATAAACCAA
Found at i:78790697 original size:17 final size:18
Alignment explanation
Indices: 78790675--78790716 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
78790665 TGTCATACAC
78790675 TAATATAATATAT-GTTT
1 TAATATAATATATAGTTT
*
78790692 TAATAT-ATCTATAGTTT
1 TAATATAATATATAGTTT
*
78790709 TCATATAA
1 TAATATAA
78790717 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 5 0.24
17 15 0.71
18 1 0.05
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (18 bp):
TAATATAATATATAGTTT
Found at i:78795292 original size:6 final size:6
Alignment explanation
Indices: 78795281--78795308 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
78795271 CCCGTAATTT
78795281 TATAAA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATA
78795309 GGAATAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:78806375 original size:23 final size:21
Alignment explanation
Indices: 78806333--78806376 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 21
78806323 TTGTTATTGG
**
78806333 AAATTAAAAATGAATGAACAA
1 AAATTAAAAATGAAACAACAA
78806354 AAATATAAAAGATGAAACAACAA
1 AAAT-TAAAA-ATGAAACAACAA
78806377 TCACACTACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 5 0.26
23 10 0.53
ACGTcount: A:0.68, C:0.07, G:0.09, T:0.16
Consensus pattern (21 bp):
AAATTAAAAATGAAACAACAA
Found at i:78816802 original size:17 final size:18
Alignment explanation
Indices: 78816780--78816813 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78816770 CACATTGAAG
78816780 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
78816797 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
78816814 CTTCAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:78821410 original size:16 final size:16
Alignment explanation
Indices: 78821391--78821429 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
78821381 AGAGAGCAGG
* *
78821391 GGAAAGAAAGAAGGAA
1 GGAAAAAAAGAAAGAA
78821407 GGAAAAAAAGAAAGAA
1 GGAAAAAAAGAAAGAA
78821423 GGAAAAA
1 GGAAAAA
78821430 GGGGAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (16 bp):
GGAAAAAAAGAAAGAA
Found at i:78823551 original size:46 final size:46
Alignment explanation
Indices: 78823495--78823768 Score: 435
Period size: 46 Copynumber: 6.0 Consensus size: 46
78823485 AGTGTGCTCT
**
78823495 CTGA-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
**
78823540 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
78823586 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
78823632 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATA-CATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
78823677 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
78823723 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
78823769 ATGACAGAAA
Statistics
Matches: 216, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
45 46 0.21
46 170 0.79
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:78823723 original size:91 final size:92
Alignment explanation
Indices: 78823495--78823768 Score: 462
Period size: 91 Copynumber: 3.0 Consensus size: 92
78823485 AGTGTGCTCT
** * * * **
78823495 CTGA-ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
78823559 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
78823586 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
78823651 ACCATGGTTGAAAGATA-CATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
78823677 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
78823742 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
78823769 ATGACAGAAA
Statistics
Matches: 172, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
91 93 0.54
92 79 0.46
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.21
Consensus pattern (92 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:78823746 original size:137 final size:140
Alignment explanation
Indices: 78823508--78823816 Score: 491
Period size: 137 Copynumber: 2.2 Consensus size: 140
78823498 AATGAAATGT
**
78823508 GTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 GTAAGACCATGGTTGAAAGATA-CATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAG
* * *
78823573 ATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGACA
65 ATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA
78823638 TGAAAA-G-A-A
130 -GAAAATGAAGA
78823647 -TAAGACCATGGTTGAAAGATACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 GTAAGACCATGGTTGAAAGATACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
78823711 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
66 TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
78823776 AAAATGAATGA
131 AAAATGAA-GA
* *
78823787 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATAC-ATGGCA
78823817 TCATGTCAAA
Statistics
Matches: 157, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
136 5 0.03
137 103 0.66
138 22 0.14
140 1 0.01
141 20 0.13
142 6 0.04
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.20
Consensus pattern (140 bp):
GTAAGACCATGGTTGAAAGATACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACAG
AAAATGAAGA
Found at i:78823774 original size:46 final size:46
Alignment explanation
Indices: 78823509--78823816 Score: 431
Period size: 46 Copynumber: 6.6 Consensus size: 46
78823499 ATGAAATGTG
* * * **
78823509 TAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* *
78823555 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
78823601 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
* * *
78823647 TAAGACCATGGTTGAAAGATA-CATGGCAACCTGATATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
78823692 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
*
78823738 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAA-G-A--A
* * *
78823787 GTAAGACCATAGTTGAAAGACACTATGGCA
1 -TAAGACCATGGTTGAAAGATACCATGGCA
78823817 TCATGTCAAA
Statistics
Matches: 241, Mismatches: 15, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
45 47 0.20
46 166 0.69
47 1 0.00
49 1 0.00
50 26 0.11
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAA
Found at i:78827083 original size:2 final size:2
Alignment explanation
Indices: 78827072--78827110 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
78827062 ATTAAGTTAT
78827072 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78827111 AAGAAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:78827202 original size:23 final size:23
Alignment explanation
Indices: 78827176--78827223 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
78827166 AGAGCAGGGG
*
78827176 AAAGAAAGAAGGAAGAAGGAAAA
1 AAAGAAAGAAGGAAAAAGGAAAA
*
78827199 AAAGAAAGAAGGAAAAAGGGAAA
1 AAAGAAAGAAGGAAAAAGGAAAA
78827222 AA
1 AA
78827224 TTGGGATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (23 bp):
AAAGAAAGAAGGAAAAAGGAAAA
Found at i:78829342 original size:46 final size:46
Alignment explanation
Indices: 78829290--78829611 Score: 493
Period size: 46 Copynumber: 7.0 Consensus size: 46
78829280 AGTGTGCTCT
** *
78829290 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
78829336 CTGATATGAAAT-ATGTAAGACCGTGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGA-ATAAGACCATGGTTGAAAGATACCATGGCAAC
**
78829382 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
*
78829428 GTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * * *
78829474 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATAACATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
78829520 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
78829566 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
78829612 ATGACAGAAA
Statistics
Matches: 256, Mismatches: 18, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
46 256 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:78829671 original size:92 final size:90
Alignment explanation
Indices: 78829305--78829659 Score: 453
Period size: 92 Copynumber: 3.8 Consensus size: 90
78829295 ATGAAATGTG
* * * *
78829305 TAAGACCATGGTTGAAAGATACCATGGAAACCTGATATGAAAT-ATGTAAGACCGTGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGA-ATAAGACCATGGTTGAAAG
* * **
78829369 ATACCATGGCAACCTGATATGAAATGTG
65 ATACCATGGCAA-CT-ACATGAAAAGAA
*
78829397 TAAGACCATGGTTGAAAGATACCATGGCAACGTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
78829462 TACCATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAAC-T-ACATGAAAAGAA
* *
78829489 TAAGACCATGGTTGAAAGATAACATGGCAACCTGATATGAAATGAATAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
78829554 TACCATGGCAACGTGACATGAAAAGAA
66 TACCATGGCAAC-T-ACATGAAAAGAA
* *
78829581 TAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGAATGAGTAAGACCATAGTTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATG-AAATG-A--A-TAAGACCATGGTTG
* *
78829645 AAAGACACTATGGCA
61 AAAGATACCATGGCA
78829660 TCATGTCAAA
Statistics
Matches: 240, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
91 2 0.01
92 209 0.87
93 2 0.01
95 1 0.00
96 26 0.11
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (90 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGAATAAGACCATGGTTGAAAGA
TACCATGGCAACTACATGAAAAGAA
Found at i:78833280 original size:15 final size:15
Alignment explanation
Indices: 78833240--78833283 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
78833230 CTATTTTCTT
* *
78833240 CTAGCATCCACATAA
1 CTAGCACCCATATAA
78833255 CTAGCACCCATATAA
1 CTAGCACCCATATAA
*
78833270 CTCGCACCCATATA
1 CTAGCACCCATATA
78833284 CTTCTCTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.36, C:0.36, G:0.07, T:0.20
Consensus pattern (15 bp):
CTAGCACCCATATAA
Found at i:78834236 original size:17 final size:18
Alignment explanation
Indices: 78834214--78834247 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78834204 CACATTGAAG
78834214 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
78834231 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
78834248 CTTCAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:78835297 original size:28 final size:28
Alignment explanation
Indices: 78835255--78835324 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
78835245 CCTTTAGGAT
*
78835255 CAATCTCATTCATATGGCCTATC-GGCCC
1 CAATCTCATTCATATGGCCCATCAGG-CC
* *
78835283 CAATCACATTTATATGGCCCATCAGGCC
1 CAATCTCATTCATATGGCCCATCAGGCC
78835311 CAATCTCATTCATA
1 CAATCTCATTCATA
78835325 GTCATGCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (28 bp):
CAATCTCATTCATATGGCCCATCAGGCC
Found at i:78849706 original size:79 final size:81
Alignment explanation
Indices: 78849566--78849757 Score: 223
Period size: 79 Copynumber: 2.4 Consensus size: 81
78849556 TTGAATGATG
* * *
78849566 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
78849630 CGTGCAAGTTAATA-AA
65 CGTGCAAGTTAATATAA
* **
78849646 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGAT-CCGAAGGCATT
* *
78849709 CGTGCGAGTTACTATAA
65 CGTGCAAGTTAATATAA
** * *
78849726 -CCGGGCTTTGTCCCGAAGGCATTCGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
78849758 CGTTATATCC
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.58
80 39 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCAAGTTAATATAA
Found at i:78849749 original size:40 final size:40
Alignment explanation
Indices: 78849567--78849757 Score: 176
Period size: 40 Copynumber: 4.8 Consensus size: 40
78849557 TGAATGATGT
* * * * * *
78849567 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGCTTAGTCCCGAAGGCATTCGTGC-GAGTTACTAAAC
* * * * *
78849607 CCGGACTAAGAT-CCGAAGGCATTCGTGCAAGTTAATAAAT
1 CCGGGCTTAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAC
* *
78849647 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAAC
1 CCGGGCTTAGTCCCGAAGGCATTCGTGCGAGTTACTAAAC
78849686 CCGGG-TTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAA-
1 CCGGGCTT-AGTCCCGAAGGCATTCGTGCGAGTTACTA-AAC
* *
78849726 CCGGGCTTTGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTTAGTCCCGAAGGCATTCGTGCGAGT
78849758 CGTTATATCC
Statistics
Matches: 130, Mismatches: 14, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 1 0.01
39 31 0.24
40 87 0.67
41 11 0.08
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTTAGTCCCGAAGGCATTCGTGCGAGTTACTAAAC
Found at i:78851974 original size:33 final size:33
Alignment explanation
Indices: 78851935--78852050 Score: 146
Period size: 33 Copynumber: 3.5 Consensus size: 33
78851925 TAAAGTTTTA
78851935 ATTTGTTATAATTTCACAAAATGAAAAGCTGAT
1 ATTTGTTATAATTTCACAAAATGAAAAGCTGAT
* * * *
78851968 ATTTGTTATCATTTTACAAAAT-TAAAGTTG-T
1 ATTTGTTATAATTTCACAAAATGAAAAGCTGAT
* *
78851999 ATTTTGTTATAATTTTACAAAATGAAAAGCTAAT
1 A-TTTGTTATAATTTCACAAAATGAAAAGCTGAT
*
78852033 ATTTGTTATCATTTCACA
1 ATTTGTTATAATTTCACA
78852051 GAACTGCTTG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
31 2 0.03
32 26 0.37
33 40 0.57
34 2 0.03
ACGTcount: A:0.39, C:0.09, G:0.09, T:0.43
Consensus pattern (33 bp):
ATTTGTTATAATTTCACAAAATGAAAAGCTGAT
Found at i:78852009 original size:65 final size:65
Alignment explanation
Indices: 78851901--78852046 Score: 231
Period size: 65 Copynumber: 2.3 Consensus size: 65
78851891 TTTTTAGTGG
* *
78851901 AATA-TTGTTATCATTTAACTAAATTAAAGTTTTAATTTGTTATAATTTCACAAAATGAAAAGCT
1 AATATTTGTTATCATTTAACAAAATTAAAGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCT
* * * *
78851965 GATATTTGTTATCATTTTACAAAATTAAAGTTGTATTTTGTTATAATTTTACAAAATGAAAAGCT
1 AATATTTGTTATCATTTAACAAAATTAAAGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCT
78852030 AATATTTGTTATCATTT
1 AATATTTGTTATCATTT
78852047 CACAGAACTG
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 3 0.04
65 71 0.96
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (65 bp):
AATATTTGTTATCATTTAACAAAATTAAAGTTGTAATTTGTTATAATTTCACAAAATGAAAAGCT
Found at i:78852014 original size:32 final size:32
Alignment explanation
Indices: 78851905--78852021 Score: 128
Period size: 32 Copynumber: 3.6 Consensus size: 32
78851895 TAGTGGAATA
* * * * *
78851905 TTGTTATCATTTAACTAAATTAAAGTTTTAAT
1 TTGTTATAATTTTACAAAATTAAAGTTGTATT
* * *
78851937 TTGTTATAATTTCACAAAATGAAAAGCTG-ATAT
1 TTGTTATAATTTTACAAAAT-TAAAGTTGTAT-T
*
78851970 TTGTTATCATTTTACAAAATTAAAGTTGTATT
1 TTGTTATAATTTTACAAAATTAAAGTTGTATT
78852002 TTGTTATAATTTTACAAAAT
1 TTGTTATAATTTTACAAAAT
78852022 GAAAAGCTAA
Statistics
Matches: 70, Mismatches: 12, Indels: 6
0.80 0.14 0.07
Matches are distributed among these distances:
32 44 0.63
33 26 0.37
ACGTcount: A:0.38, C:0.07, G:0.09, T:0.46
Consensus pattern (32 bp):
TTGTTATAATTTTACAAAATTAAAGTTGTATT
Found at i:78854405 original size:14 final size:14
Alignment explanation
Indices: 78854396--78854424 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
78854386 CTATTTTATC
78854396 TAAATAATTTAAAA
1 TAAATAATTTAAAA
78854410 TAAATAATTTAAAA
1 TAAATAATTTAAAA
78854424 T
1 T
78854425 TAAACTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAAATAATTTAAAA
Found at i:78855063 original size:9 final size:9
Alignment explanation
Indices: 78855033--78855157 Score: 60
Period size: 10 Copynumber: 13.4 Consensus size: 9
78855023 CATATGACAA
78855033 AAAAATTAT
1 AAAAATTAT
*
78855042 AAAAAATCAAT
1 -AAAAAT-TAT
*
78855053 AAAAGTTAT
1 AAAAATTAT
78855062 AAAAATTA-
1 AAAAATTAT
*
78855070 AAAATTTAAT
1 AAAAATT-AT
78855080 AAAAA-TAT
1 AAAAATTAT
*
78855088 AAAAATATTT
1 AAAAAT-TAT
*
78855098 AAAATTTAAT
1 AAAAATT-AT
* *
78855108 AAAAAATAG
1 AAAAATTAT
*
78855117 AAATATATAT
1 AAAAAT-TAT
**
78855127 AAAACGTA-
1 AAAAATTAT
78855135 AAAGAA-TAT
1 AAA-AATTAT
78855144 AAAAAATTAT
1 -AAAAATTAT
78855154 AAAA
1 AAAA
78855158 TTCTTCAGAT
Statistics
Matches: 85, Mismatches: 19, Indels: 23
0.67 0.15 0.18
Matches are distributed among these distances:
8 18 0.21
9 26 0.31
10 39 0.46
11 2 0.02
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:78855084 original size:28 final size:28
Alignment explanation
Indices: 78855062--78855159 Score: 96
Period size: 28 Copynumber: 3.5 Consensus size: 28
78855052 TAAAAGTTAT
78855062 AAAA-ATTAAAAATTTAATAAAAATATA
1 AAAATATTAAAAATTTAATAAAAATATA
*
78855089 AAAATATTTAAAATTTAATAAAAA-ATA
1 AAAATATTAAAAATTTAATAAAAATATA
* ** *
78855116 GAAATATATATAAAACGTAA-AAGAATATA
1 AAAATAT-TA-AAAATTTAATAAAAATATA
78855145 AAAA-ATTATAAAATT
1 AAAATATTA-AAAATT
78855160 CTTCAGATAA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
27 20 0.34
28 25 0.43
29 13 0.22
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAATATTAAAAATTTAATAAAAATATA
Found at i:78855100 original size:18 final size:17
Alignment explanation
Indices: 78855053--78855106 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
78855043 AAAAATCAAT
*
78855053 AAAAGTTATAAAAATTA
1 AAAATTTATAAAAATTA
78855070 AAAATTTAATAAAAATATA
1 AAAATTT-ATAAAAAT-TA
*
78855089 AAAATATT-TAAAATTTA
1 AAAAT-TTATAAAAATTA
78855106 A
1 A
78855107 TAAAAAATAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 9 0.28
18 14 0.44
19 7 0.22
20 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTTATAAAAATTA
Found at i:78855112 original size:29 final size:28
Alignment explanation
Indices: 78855062--78855159 Score: 85
Period size: 27 Copynumber: 3.5 Consensus size: 28
78855052 TAAAAGTTAT
*
78855062 AAAAATTAAAAATTTAAT-AAAAATATA
1 AAAAATTTAAAATTTAATAAAAAATATA
*
78855089 AAAATATTTAAAATTTAATAAAAAATAGA
1 AAAA-ATTTAAAATTTAATAAAAAATATA
* * ** *
78855118 AATATATATAAAACGT-A-AAAGAATATA
1 AA-AAATTTAAAATTTAATAAAAAATATA
78855145 AAAAATTATAAAATT
1 AAAAATT-TAAAATT
78855160 CTTCAGATAA
Statistics
Matches: 55, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
26 3 0.05
27 19 0.35
28 14 0.25
29 18 0.33
30 1 0.02
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (28 bp):
AAAAATTTAAAATTTAATAAAAAATATA
Found at i:78855417 original size:20 final size:20
Alignment explanation
Indices: 78855342--78855421 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
78855332 CTTTATAAAA
*
78855342 TTATATATTTTTCTATATTT
1 TTATATATTTTTCTACATTT
* *
78855362 CTATATA-TTTTATA-ATTT
1 TTATATATTTTTCTACATTT
78855380 TT-T-TATTTTT-TACGATTT
1 TTATATATTTTTCTAC-ATTT
78855398 TTATAATATTTTTCTA-ATTT
1 TTAT-ATATTTTTCTACATTT
78855418 TTAT
1 TTAT
78855422 TGTTTGTCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.08
17 5 0.10
18 11 0.22
19 7 0.14
20 14 0.28
21 7 0.14
22 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (20 bp):
TTATATATTTTTCTACATTT
Found at i:78855697 original size:89 final size:90
Alignment explanation
Indices: 78855552--78855753 Score: 241
Period size: 90 Copynumber: 2.2 Consensus size: 90
78855542 TGCATTTTGG
* *
78855552 CAATTGAGTGCAAAAAAAAAAACAATGGCTTAATTGCTTTTTTGAAAAAATTTTGAGGGTC-TTT
1 CAATTGAGTGCAAAAAAAAAAACAATGGCTTAACTGCTTTTTTGAAAAAAGTTTGAGGG-CATTT
* * **
78855616 TTGATGTATTTTGGTAGTTCAAG-TA
65 TTGATGCATGTTGAAAGTTCAAGATA
* * **
78855641 CCAATTGAATGCAAAAAAAAAAAGAA-GGCTTAACTGCCTTTTTT-TTAAAAGTTTGAGGGCATT
1 -CAATTGAGTGCAAAAAAAAAAACAATGGCTTAACTG-CTTTTTTGAAAAAAGTTTGAGGGCATT
*
78855704 TTTTATGCATGTTGAAAGTTCAAGAATA
64 TTTGATGCATGTTGAAAGTTCAAG-ATA
78855732 CAATTGAGTGCAAAAAAAAAAA
1 CAATTGAGTGCAAAAAAAAAAA
78855754 AAATAGAGGC
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
88 1 0.01
89 42 0.44
90 51 0.53
91 2 0.02
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (90 bp):
CAATTGAGTGCAAAAAAAAAAACAATGGCTTAACTGCTTTTTTGAAAAAAGTTTGAGGGCATTTT
TGATGCATGTTGAAAGTTCAAGATA
Found at i:78855773 original size:90 final size:88
Alignment explanation
Indices: 78855552--78855788 Score: 209
Period size: 89 Copynumber: 2.6 Consensus size: 88
78855542 TGCATTTTGG
* * *
78855552 CAATTGAGTGCAAAAAAAAAAACAAT--GGCTTAATTGCTTTTTTGAAAAAATTTTGAGGGTCTT
1 CAATTGAGTGCAAAAAAAAAAAAAATAAGGCTTAATT--TTTTTT--TAAAAGTTTGAGGGTCTT
* * **
78855615 TTTGATGTATTTTGGTAGTTCAAGTAC
62 TTTGATGCATGTTGAAAGTTCAAGTAC
* *
78855642 CAATTGAATGC---AAAAAAAAAAAGAAGGCTTAACTGCCTTTTTTTTAAAAGTTTGAGGG-CAT
1 CAATTGAGTGCAAAAAAAAAAAAAATAAGGCTTAA-T---TTTTTTTTAAAAGTTTGAGGGTC-T
*
78855703 TTTTTATGCATGTTGAAAGTTCAAGAATA-
61 TTTTGATGCATGTTGAAAGTTCAAG--TAC
**
78855732 CAATTGAGTGCAAAAAAAAAAAAAATAGAGGCTTAATTTTTTTTTTTAAGTTTGAGG
1 CAATTGAGTGCAAAAAAAAAAAAAATA-AGGCTTAATTTTTTTTTAAAAGTTTGAGG
78855789 ATTTTTACAC
Statistics
Matches: 120, Mismatches: 14, Indels: 26
0.75 0.09 0.16
Matches are distributed among these distances:
87 10 0.08
88 1 0.01
89 40 0.33
90 39 0.32
91 8 0.07
93 14 0.12
94 8 0.07
ACGTcount: A:0.38, C:0.08, G:0.18, T:0.35
Consensus pattern (88 bp):
CAATTGAGTGCAAAAAAAAAAAAAATAAGGCTTAATTTTTTTTTAAAAGTTTGAGGGTCTTTTTG
ATGCATGTTGAAAGTTCAAGTAC
Found at i:78856058 original size:56 final size:57
Alignment explanation
Indices: 78855998--78856105 Score: 132
Period size: 56 Copynumber: 1.9 Consensus size: 57
78855988 GGTGTCGTTA
*
78855998 GTATGTCAGGCGACAC-CAAT-AAATATTTTTAAAAAATTATATTTTTT-GGTGTTGTC
1 GTATGTCAGGCAACACTCAATAAAATA-TTTTAAAAAA-TATATTTTTTAGGTGTTGTC
* * **
78856054 GTATGTTAGGCAATACTCGTTAAAATATTTTAAAAAATATATTTTTTAGGTG
1 GTATGTCAGGCAACACTCAATAAAATATTTTAAAAAATATATTTTTTAGGTG
78856106 CTACTGTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
56 23 0.52
57 16 0.36
58 5 0.11
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (57 bp):
GTATGTCAGGCAACACTCAATAAAATATTTTAAAAAATATATTTTTTAGGTGTTGTC
Found at i:78856583 original size:26 final size:23
Alignment explanation
Indices: 78856547--78856598 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
78856537 TATGGAAAAT
78856547 AGAGAATCAAATATGAGAAAAGAA
1 AGAGAATCAAATATGA-AAAAGAA
* *
78856571 AGAGAATAACAAATTTGAAAAATAA
1 AGAGAAT--CAAATATGAAAAAGAA
78856596 AGA
1 AGA
78856599 TATGAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 9 0.38
26 8 0.33
ACGTcount: A:0.63, C:0.04, G:0.17, T:0.15
Consensus pattern (23 bp):
AGAGAATCAAATATGAAAAAGAA
Found at i:78856621 original size:2 final size:2
Alignment explanation
Indices: 78856614--78856645 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
78856604 AAGAGAATAA
78856614 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
78856646 ACTTCATCTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:78860613 original size:16 final size:15
Alignment explanation
Indices: 78860580--78860627 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
78860570 AACCATCGCC
* *
78860580 TTGCATTTCATTTTAT
1 TTGCATTT-AGTTAAT
78860596 TTGCATTTAGATTAAT
1 TTGCATTTAG-TTAAT
78860612 TTGCATTTAGTTAAT
1 TTGCATTTAGTTAAT
78860627 T
1 T
78860628 AATTTAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 22 0.76
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.56
Consensus pattern (15 bp):
TTGCATTTAGTTAAT
Found at i:78860632 original size:19 final size:16
Alignment explanation
Indices: 78860594--78860627 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
78860584 ATTTCATTTT
78860594 ATTTGCATTTAGATTA
1 ATTTGCATTTAGATTA
78860610 ATTTGCATTTAG-TTA
1 ATTTGCATTTAGATTA
78860625 ATT
1 ATT
78860628 AATTTAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.29, C:0.06, G:0.12, T:0.53
Consensus pattern (16 bp):
ATTTGCATTTAGATTA
Found at i:78867923 original size:45 final size:45
Alignment explanation
Indices: 78867862--78868106 Score: 218
Period size: 45 Copynumber: 5.4 Consensus size: 45
78867852 GATTCTATGA
* * * *
78867862 TATCTTTTAACCATGGTCTTATACATTCACGAAGTGATGCCATAG
1 TATCTTTCAACTATGGTCTTATTCATTCACGAAGTAATGCCATAG
* * * * * *
78867907 TATCTTTCCACTATGGTCTTGTTCGTT-ATTGATGTAATGCTATAG
1 TATCTTTCAACTATGGTCTTATTCATTCA-CGAAGTAATGCCATAG
* * *
78867952 TATCTTTCAACTATGGTCTTATTCGTTTCA--AATTTAATGTCATAG
1 TATCTTTCAACTATGGTCTTATTC-ATTCACGAA-GTAATGCCATAG
* *
78867997 TATCTTTCAACTATAGTCTTATTCGTTTC-CG--GTATAGTGCCATAG
1 TATCTTTCAACTATGGTCTTATTC-ATTCACGAAGTA-A-TGCCATAG
*
78868042 TATCTTTCAACTATAGTCTTATTCATCTC-CAGAA-TAATGCCATAG
1 TATCTTTCAACTATGGTCTTATTCAT-TCAC-GAAGTAATGCCATAG
78868087 TATCTTTCAACTATGGTCTT
1 TATCTTTCAACTATGGTCTT
78868107 TCTAGTTCCG
Statistics
Matches: 166, Mismatches: 22, Indels: 24
0.78 0.10 0.11
Matches are distributed among these distances:
43 2 0.01
44 4 0.02
45 153 0.92
46 4 0.02
47 3 0.02
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (45 bp):
TATCTTTCAACTATGGTCTTATTCATTCACGAAGTAATGCCATAG
Found at i:78867982 original size:21 final size:20
Alignment explanation
Indices: 78867956--78868025 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 20
78867946 CTATAGTATC
78867956 TTTCAACTATGGTCTTATTCG
1 TTTCAACTAT-GTCTTATTCG
* *
78867977 TTTCAAATTTAATGTCATAGTATC-
1 TTTC-AA-CT-ATGTCTTA-T-TCG
78868001 TTTCAACTATAGTCTTATTCG
1 TTTCAACTAT-GTCTTATTCG
78868022 TTTC
1 TTTC
78868026 CGGTATAGTG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 2 0.05
21 11 0.29
22 8 0.21
23 8 0.21
24 7 0.18
25 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTCAACTATGTCTTATTCG
Found at i:78868124 original size:45 final size:44
Alignment explanation
Indices: 78867898--78868151 Score: 249
Period size: 45 Copynumber: 5.7 Consensus size: 44
78867888 TCACGAAGTG
* * ** * *
78867898 ATGCCATAGTATCTTTCCACTATGGTCTTGTTCGTTATTGATGTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCGTT-CCGGTATA
* *** *
78867943 ATGCTATAGTATCTTTCAACTATGGTCTTATTCGTTTCAAATTTA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCG-TTCCGGTATA
* *
78867988 ATGTCATAGTATCTTTCAACTATAGTCTTATTCGTTTCCGGTATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCG-TTCCGGTATA
* * * * *
78868033 GTGCCATAGTATCTTTCAACTATAGTCTTATTCATCTCCAGAATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTATTCGT-TCCGGTATA
*
78868078 ATGCCATAGTATCTTTCAACTATGGTCTT-TCTAGTTCCGGGTATA
1 ATGCCATAGTATCTTTCAACTATGGTCTTAT-TCGTTCC-GGTATA
* * *
78868123 ATGCCGTGGTATCTTTCAACCATGGTCTT
1 ATGCCATAGTATCTTTCAACTATGGTCTT
78868152 TCTCGTTTCT
Statistics
Matches: 177, Mismatches: 28, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
44 5 0.03
45 170 0.96
46 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (44 bp):
ATGCCATAGTATCTTTCAACTATGGTCTTATTCGTTCCGGTATA
Found at i:78872877 original size:43 final size:44
Alignment explanation
Indices: 78872830--78872996 Score: 123
Period size: 43 Copynumber: 3.9 Consensus size: 44
78872820 GGAATGTTGA
* *
78872830 CTTCGATCTGAAATAT-CGTGTAAGACCGTGTCTGGGACACAGG
1 CTTCGATCTGAAATATACATGTAAGACCATGTCTGGGACACAGG
* * * *
78872873 CTTCGATTTGAGATTTACATGTAAGACCATGTCTGGGACATC-GA
1 CTTCGATCTGAAATATACATGTAAGACCATGTCTGGGACA-CAGG
* * * * *
78872917 CATCATATCTG--AT-TTCATGTAAGACCCTGTCTGGGACAGAGG
1 CTTC-GATCTGAAATATACATGTAAGACCATGTCTGGGACACAGG
* * * *
78872959 CATCGATATTG-AAT-TACATGTAAGACCACGTCTAGGAC
1 CTTCGAT-CTGAAATATACATGTAAGACCATGTCTGGGAC
78872997 GTTGGCATTG
Statistics
Matches: 99, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 2 0.02
42 30 0.30
43 37 0.37
44 25 0.25
45 5 0.05
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
CTTCGATCTGAAATATACATGTAAGACCATGTCTGGGACACAGG
Found at i:78872948 original size:42 final size:42
Alignment explanation
Indices: 78872848--78872996 Score: 140
Period size: 43 Copynumber: 3.5 Consensus size: 42
78872838 TGAAATATCG
* * * *
78872848 TGTAAGACCGTGTCTGGGACACAGGCTTCGAT-TTGAGATTTACA
1 TGTAAGACCATGTCTGGGACAGAGACATCGATATT--GATTT-CA
**
78872892 TGTAAGACCATGTCTGGGACATCGACATC-ATATCTGATTTCA
1 TGTAAGACCATGTCTGGGACAGAGACATCGATAT-TGATTTCA
* * *
78872934 TGTAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTCTGGGACAGAGACATCGATATTG-ATTTCA
* *
78872977 TGTAAGACCACGTCTAGGAC
1 TGTAAGACCATGTCTGGGAC
78872997 GTTGGCATTG
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
42 29 0.33
43 33 0.38
44 25 0.28
45 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACAGAGACATCGATATTGATTTCA
Found at i:78877504 original size:43 final size:43
Alignment explanation
Indices: 78877457--78877603 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 43
78877447 ATCAATATGT
*
78877457 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
** * * *
78877500 GATTATGTGTAAGACCATGTCTGGGATATTGGCATCGT-TAGTC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTG-A
* * * *
78877543 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-TGA
*
78877586 GATAACATGTAAGACCAT
1 GATTACATGTAAGACCAT
78877604 ACCTATGATA
Statistics
Matches: 84, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
42 2 0.02
43 81 0.96
44 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATTGA
Found at i:78877614 original size:86 final size:85
Alignment explanation
Indices: 78877457--78877619 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 85
78877447 ATCAATATGT
* * * ** **
78877457 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGAGATTATGTGTAAGACCATGTCT
1 GATTACATGTAAGACCATGTCTGGGACAGTGGCATCGTATTGAGATAACATGTAAGACCATACCT
*
78877522 GGGATATTGGCATCGTTAGTC
66 AGGATA-TGGCATCGTTAGTC
* * *
78877543 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGTGATAACATGTAAGACCATACC
1 GATTACATGTAAGACCATGTCTGGGACAGTGGCATCGTAT-TGAGATAACATGTAAGACCATACC
*
78877607 TATGATATGGCAT
65 TAGGATATGGCAT
78877620 TGTATGAGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
85 8 0.12
86 56 0.88
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (85 bp):
GATTACATGTAAGACCATGTCTGGGACAGTGGCATCGTATTGAGATAACATGTAAGACCATACCT
AGGATATGGCATCGTTAGTC
Found at i:78884775 original size:21 final size:21
Alignment explanation
Indices: 78884749--78884795 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
78884739 AATATGATCT
78884749 AAAAATCCAACTTCCTGAAGC
1 AAAAATCCAACTTCCTGAAGC
78884770 AAAAATCCAACTTCCTGAAGC
1 AAAAATCCAACTTCCTGAAGC
*
78884791 CAAAA
1 AAAAA
78884796 CTCATTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.28, G:0.09, T:0.17
Consensus pattern (21 bp):
AAAAATCCAACTTCCTGAAGC
Found at i:78891436 original size:28 final size:28
Alignment explanation
Indices: 78891405--78891474 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
78891395 TGGTTATACA
* *
78891405 TATATTATATATATGCATGACTTTATCT
1 TATATAATATATATGCAAGACTTTATCT
* *
78891433 TATATAATATATATGCAAGGCTTTATTT
1 TATATAATATATATGCAAGACTTTATCT
* *
78891461 TACATAGTATATAT
1 TATATAATATATAT
78891475 TAATGGATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.47
Consensus pattern (28 bp):
TATATAATATATATGCAAGACTTTATCT
Found at i:78892589 original size:17 final size:18
Alignment explanation
Indices: 78892555--78892601 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
78892545 ATTATACTAA
*
78892555 ATGAACTGTTA-AATTGT
1 ATGAACTGTTATTATTGT
78892572 ATGAACTGTTATTA-TGT
1 ATGAACTGTTATTATTGT
*
78892589 ATAAACTGTTATT
1 ATGAACTGTTATT
78892602 TCTTATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 26 0.96
18 1 0.04
ACGTcount: A:0.34, C:0.06, G:0.15, T:0.45
Consensus pattern (18 bp):
ATGAACTGTTATTATTGT
Found at i:78896050 original size:16 final size:17
Alignment explanation
Indices: 78896014--78896052 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
78896004 CATAAATAAT
*
78896014 TATAAAGCAACACAAAA
1 TATAAAACAACACAAAA
*
78896031 TATAAAACAA-ACACAA
1 TATAAAACAACACAAAA
78896047 TATAAA
1 TATAAA
78896053 TAAAATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.67, C:0.15, G:0.03, T:0.15
Consensus pattern (17 bp):
TATAAAACAACACAAAA
Found at i:78896192 original size:61 final size:61
Alignment explanation
Indices: 78896088--78896260 Score: 200
Period size: 59 Copynumber: 2.9 Consensus size: 61
78896078 TTTTGGGGTT
* ** * *
78896088 TGAACTTGACAATGGTTCTCACATGGAGGGCTAAACTTTTTTTTTTCATCCAAGTTAGTTCC
1 TGAACTTGACAATTGTTCTCACATTAAGGGTTGAACTTTTTTTTTT-ATCCAAGTTAGTTCC
*
78896150 TGAACTTG-CAATTGTTCTCACATTAAGGGTTGAA--TTTCTTTTTA-CCTAAGTTAGTTCC
1 TGAACTTGACAATTGTTCTCACATTAAGGGTTGAACTTTTTTTTTTATCC-AAGTTAGTTCC
*
78896208 TGAAGTTGACAATTGTTC-C-CA-TAAGGGCTTGAACTTTTTTTTTT-TCCAAGTTA
1 TGAACTTGACAATTGTTCTCACATTAAGGG-TTGAACTTTTTTTTTTATCCAAGTTA
78896261 ATCTTTGAAC
Statistics
Matches: 97, Mismatches: 8, Indels: 16
0.80 0.07 0.13
Matches are distributed among these distances:
56 6 0.06
57 9 0.09
58 26 0.27
59 27 0.28
61 21 0.22
62 8 0.08
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (61 bp):
TGAACTTGACAATTGTTCTCACATTAAGGGTTGAACTTTTTTTTTTATCCAAGTTAGTTCC
Found at i:78896211 original size:58 final size:58
Alignment explanation
Indices: 78896139--78896250 Score: 158
Period size: 58 Copynumber: 1.9 Consensus size: 58
78896129 TTTTTCATCC
78896139 AAGTTAGTTCCTGAACTTG-CAATTGTTCTCACATTAAGGG-TTGAA-TTTCTTTTTACCT
1 AAGTTAGTTCCTGAACTTGACAATTGTTC-C-CA-TAAGGGCTTGAACTTTCTTTTTACCT
* *
78896197 AAGTTAGTTCCTGAAGTTGACAATTGTTCCCATAAGGGCTTGAACTTTTTTTTT
1 AAGTTAGTTCCTGAACTTGACAATTGTTCCCATAAGGGCTTGAACTTTCTTTTT
78896251 TTCCAAGTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
56 6 0.12
57 7 0.14
58 27 0.55
59 9 0.18
ACGTcount: A:0.24, C:0.16, G:0.17, T:0.43
Consensus pattern (58 bp):
AAGTTAGTTCCTGAACTTGACAATTGTTCCCATAAGGGCTTGAACTTTCTTTTTACCT
Found at i:78900773 original size:19 final size:19
Alignment explanation
Indices: 78900727--78900774 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
78900717 GTATATATTT
78900727 TAAA-TTTATTTAGATACA
1 TAAATTTTATTTAGATACA
* * *
78900745 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGATACA
*
78900764 TAAGTTTTATT
1 TAAATTTTATT
78900775 CATATTATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGATACA
Found at i:78900849 original size:43 final size:43
Alignment explanation
Indices: 78900797--78900881 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
78900787 ATATTTTATT
* *
78900797 TTATCTTTTAGTAGTTTCTTAGAATAAGAGAATTATTTTCCCC
1 TTATCTTTTAGTAGCTTATTAGAATAAGAGAATTATTTTCCCC
* *
78900840 TTATGTTTTAGTAGCTTATTAGAATAAGGGAATTATTTTCCC
1 TTATCTTTTAGTAGCTTATTAGAATAAGAGAATTATTTTCCC
78900882 AATTAGGATT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (43 bp):
TTATCTTTTAGTAGCTTATTAGAATAAGAGAATTATTTTCCCC
Found at i:78904642 original size:19 final size:19
Alignment explanation
Indices: 78904596--78904643 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
78904586 GTATATATTT
78904596 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
78904614 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
78904633 TAAGTTTTATT
1 TAAATTTTATT
78904644 CATATTCTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:78908718 original size:21 final size:22
Alignment explanation
Indices: 78908678--78908721 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
78908668 TTTTTTTAAA
78908678 AATATTTATATCATTTTATTTT
1 AATATTTATATCATTTTATTTT
78908700 AATATTTA-AT-ATATTTATTTT
1 AATATTTATATCAT-TTTATTTT
78908721 A
1 A
78908722 TTTTATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 11 0.52
22 8 0.38
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
AATATTTATATCATTTTATTTT
Found at i:78908742 original size:26 final size:26
Alignment explanation
Indices: 78908690--78908743 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
78908680 TATTTATATC
*
78908690 ATTTTATTTTAATATTTAATATATTT
1 ATTTTATTTTAATATTGAATATATTT
* *
78908716 ATTTTATTTTATTTATTGAA-ATTTTT
1 ATTTTATTTTA-ATATTGAATATATTT
78908742 AT
1 AT
78908744 ATAGTCATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
ATTTTATTTTAATATTGAATATATTT
Found at i:78910544 original size:55 final size:55
Alignment explanation
Indices: 78910457--78910566 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
78910447 AAATTATAGA
* *
78910457 TTGCAAATTAATTATTCACGAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCACAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
*
78910512 TTGCAAATTAATTATTCATAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
1 TTGCAAATTAATTATTCACAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
78910567 CAATGAATAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (55 bp):
TTGCAAATTAATTATTCACAAGCACTAATCAAATTAAAAGTGATGATTTATCATC
Found at i:78921711 original size:30 final size:30
Alignment explanation
Indices: 78921677--78921736 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
78921667 ACTTAACAAG
*
78921677 CAAAT-ACTTCTAAAATAATAATAAAATTAA
1 CAAATGACTT-TAAAATAATAACAAAATTAA
*
78921707 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGACTTTAAAATAATAACAAAATTAA
78921737 TAAAAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 24 0.89
31 3 0.11
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.28
Consensus pattern (30 bp):
CAAATGACTTTAAAATAATAACAAAATTAA
Found at i:78927043 original size:56 final size:54
Alignment explanation
Indices: 78926949--78927075 Score: 182
Period size: 56 Copynumber: 2.3 Consensus size: 54
78926939 TTTGATGGCA
* *
78926949 TGATACATGCTAGGTCCGGGAGCTTGTGTAGCCCCGTTGAGAGGCATGTAATTATG
1 TGATACATGCTAGGTCCGGAAGCTTATGTAGCCCCGTTGAGAGG--TGTAATTATG
* * *
78927005 TGGTACACGCTAGGTCCGGAAGCTTATGTAGCCCCGTTGAGAGGTGTGATTATG
1 TGATACATGCTAGGTCCGGAAGCTTATGTAGCCCCGTTGAGAGGTGTAATTATG
*
78927059 TGATGCATGCTAGGTCC
1 TGATACATGCTAGGTCC
78927076 AGGTGCTTTC
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
54 23 0.37
56 40 0.63
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.28
Consensus pattern (54 bp):
TGATACATGCTAGGTCCGGAAGCTTATGTAGCCCCGTTGAGAGGTGTAATTATG
Found at i:78928144 original size:13 final size:13
Alignment explanation
Indices: 78928126--78928162 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
78928116 GCCGTTAGGG
*
78928126 AGGACATGGGCCA
1 AGGACACGGGCCA
*
78928139 AGGACACGAGCCA
1 AGGACACGGGCCA
78928152 AGGACACGGGC
1 AGGACACGGGC
78928163 GTGCACCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.27, G:0.38, T:0.03
Consensus pattern (13 bp):
AGGACACGGGCCA
Found at i:78934504 original size:4 final size:4
Alignment explanation
Indices: 78934497--78934548 Score: 68
Period size: 4 Copynumber: 13.0 Consensus size: 4
78934487 TAACACACAC
* * * *
78934497 ATAT ATAT CTAT ATAT CTAT CTAT ATAT ATAT ATAT ATAT ATAT ATAG
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
78934545 ATAT
1 ATAT
78934549 TCAAAGAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (4 bp):
ATAT
Found at i:78935216 original size:26 final size:26
Alignment explanation
Indices: 78935187--78935259 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
78935177 AGCTTTATCT
78935187 TTTAATACGTTATTTATTTTAAACTG
1 TTTAATACGTTATTTATTTTAAACTG
* * **
78935213 TTTATTATGTTATTTATTTTAATTTG
1 TTTAATACGTTATTTATTTTAAACTG
* *
78935239 TTTCATAC--TATATATTTTAAA
1 TTTAATACGTTATTTATTTTAAA
78935260 ATGTCTCACA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 11 0.29
26 27 0.71
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (26 bp):
TTTAATACGTTATTTATTTTAAACTG
Found at i:78935594 original size:26 final size:26
Alignment explanation
Indices: 78935534--78935622 Score: 115
Period size: 26 Copynumber: 3.4 Consensus size: 26
78935524 TATATGTTAC
* * *
78935534 TTTAAATTATCTTATATATTATTTAT
1 TTTAAATTGTTTTGTATATTATTTAT
*
78935560 TTTAAATTGTTTTGTATATTATTTGT
1 TTTAAATTGTTTTGTATATTATTTAT
* * *
78935586 TTTAAATTGTTTTGCACAATATTTAT
1 TTTAAATTGTTTTGTATATTATTTAT
78935612 TTTAAATTGTT
1 TTTAAATTGTT
78935623 CTATACTGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.29, C:0.03, G:0.07, T:0.61
Consensus pattern (26 bp):
TTTAAATTGTTTTGTATATTATTTAT
Found at i:78939664 original size:12 final size:12
Alignment explanation
Indices: 78939649--78939682 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
78939639 ATGCAGAAGG
78939649 AGATGCAAGAAC
1 AGATGCAAGAAC
*
78939661 AGATGCAAGCAC
1 AGATGCAAGAAC
*
78939673 AAATGCAAGA
1 AGATGCAAGA
78939683 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:78941713 original size:40 final size:40
Alignment explanation
Indices: 78941654--78941840 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
78941644 CATTGGAATG
* * * *
78941654 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
78941694 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
78941734 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
78941774 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
78941814 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
78941841 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:78941756 original size:80 final size:80
Alignment explanation
Indices: 78941654--78941807 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
78941644 CATTGGAATG
* * ** *
78941654 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
78941719 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
78941734 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
78941799 ATCGTGCGA
66 ATCGTGCGA
78941808 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:78941822 original size:80 final size:80
Alignment explanation
Indices: 78941658--78941840 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
78941648 GGAATGATAT
* ** * *
78941658 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
78941723 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
78941738 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
78941803 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
78941818 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
78941841 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:78941860 original size:80 final size:80
Alignment explanation
Indices: 78941658--78941875 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
78941648 GGAATGATAT
* * * * * * * *
78941658 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
78941722 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
78941738 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
78941803 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
78941818 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
78941876 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:78949758 original size:40 final size:40
Alignment explanation
Indices: 78949699--78949885 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
78949689 CATTGGAATG
* * * *
78949699 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
78949739 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
78949779 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
78949819 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
78949859 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
78949886 CGAGCGAGTC
Statistics
Matches: 122, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 115 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:78949801 original size:80 final size:80
Alignment explanation
Indices: 78949699--78949852 Score: 218
Period size: 80 Copynumber: 1.9 Consensus size: 80
78949689 CATTGGAATG
* * ** *
78949699 ATATCCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
78949764 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
78949779 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
78949844 ATCGTGCGA
66 ATCGTGCGA
78949853 ATCACTATAA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
80 64 1.00
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:78949867 original size:80 final size:80
Alignment explanation
Indices: 78949703--78949885 Score: 213
Period size: 80 Copynumber: 2.3 Consensus size: 80
78949693 GGAATGATAT
* ** * *
78949703 CCGGGCTAAGTCCCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
* *** *
78949768 TGCGAGTTGTTATAT
66 TGCGAATCACTATAA
* * * * *
78949783 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
78949848 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* *
78949863 CCGGGCTAGGTCCCGAAGACAAT
1 CCGGGCTAAGTCCCGAAGGCAAT
78949886 CGAGCGAGTC
Statistics
Matches: 84, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
80 84 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:78949905 original size:80 final size:80
Alignment explanation
Indices: 78949703--78949920 Score: 181
Period size: 80 Copynumber: 2.7 Consensus size: 80
78949693 GGAATGATAT
* * * * * * * *
78949703 CCGGGCTAAGTCCCGAAGGCAAT-TATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCATTC
1 CCGGGCTAAGACCCGAAGACAATCGA-GCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATC
* *** *
78949767 GTGCGAGTTGTTATAT
65 GTGCGAATCACTATAA
* * * * * * *
78949783 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATCG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
78949848 TGCGAATCACTATAA
66 TGCGAATCACTATAA
* * * *
78949863 CCGGGCTAGGTCCCGAAGACAATCGAGCGAGTCGCTATATCC-GGTTAA-ATCCCGAAGG
1 CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGA-CCCGAAGG
78949921 TACGTGATTC
Statistics
Matches: 109, Mismatches: 27, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
78 1 0.01
79 14 0.13
80 94 0.86
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGACAATCGAGCAAGTCACTATATCCGGGTTAAGACCCGAAGGCAATCG
TGCGAATCACTATAA
Found at i:78954127 original size:24 final size:24
Alignment explanation
Indices: 78954100--78954282 Score: 303
Period size: 24 Copynumber: 7.6 Consensus size: 24
78954090 CTTATTATGT
* * *
78954100 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
78954124 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
78954148 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
78954172 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
78954196 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
78954220 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
78954244 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
78954268 TCGCACACATAGTGC
1 TCGCACACATAGTGC
78954283 ATTTGAGATA
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 154 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:78954134 original size:48 final size:47
Alignment explanation
Indices: 78954078--78954282 Score: 275
Period size: 48 Copynumber: 4.3 Consensus size: 47
78954068 ACCGAATGTG
* ** * * *
78954078 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTAGTA-AATCGCACACATAGTGCCATAGTAAATC
* *
78954126 GCACACATAGTGCTATAGCAAATCGCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATCGCACACATAGTGCCATAGTAAATC
*
78954174 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
* *
78954222 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
78954270 GCACACATAGTGC
1 GCACACATAGTGC
78954283 ATTTGAGATA
Statistics
Matches: 145, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 140 0.97
49 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:78954197 original size:72 final size:72
Alignment explanation
Indices: 78954078--78954282 Score: 304
Period size: 72 Copynumber: 2.8 Consensus size: 72
78954068 ACCGAATGTG
* ** * * * *
78954078 GCACACATAGTGCT-TATTATGTTCGCACACATAGAGCTATAGCAAATCGCACACATAGTGCTAT
1 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCAT
78954142 AGCAAATC
65 AGCAAATC
78954150 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
*
78954215 GTAAATC
66 GCAAATC
* *
78954222 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
78954283 ATTTGAGATA
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
72 118 0.97
73 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (72 bp):
GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
GCAAATC
Found at i:78961846 original size:24 final size:24
Alignment explanation
Indices: 78961819--78962001 Score: 303
Period size: 24 Copynumber: 7.6 Consensus size: 24
78961809 CTTATTATGT
* * *
78961819 TCGCACACATAGAGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
* *
78961843 TCGCACACATAGTGCTATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
*
78961867 TCGCACACATAGTGCTATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
78961891 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
78961915 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
78961939 TCGCACACATAGTGCCATAGTGAA
1 TCGCACACATAGTGCCATAGTAAA
78961963 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
78961987 TCGCACACATAGTGC
1 TCGCACACATAGTGC
78962002 ATTTGAGATA
Statistics
Matches: 154, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 154 1.00
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:78961853 original size:48 final size:47
Alignment explanation
Indices: 78961797--78962001 Score: 275
Period size: 48 Copynumber: 4.3 Consensus size: 47
78961787 ACCGAATGTG
* ** * * *
78961797 GCACACATAGTGCTTATTATGTTCGCACACATAGAGCTATAGCAAATC
1 GCACACATAGTGCTTAGTA-AATCGCACACATAGTGCCATAGTAAATC
* *
78961845 GCACACATAGTGCTATAGCAAATCGCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATCGCACACATAGTGCCATAGTAAATC
*
78961893 GCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
* *
78961941 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATCGCACACATAGTGCCATAGTAAATC
78961989 GCACACATAGTGC
1 GCACACATAGTGC
78962002 ATTTGAGATA
Statistics
Matches: 145, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
47 1 0.01
48 140 0.97
49 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (47 bp):
GCACACATAGTGCTTAGTAAATCGCACACATAGTGCCATAGTAAATC
Found at i:78961916 original size:72 final size:72
Alignment explanation
Indices: 78961797--78962001 Score: 304
Period size: 72 Copynumber: 2.8 Consensus size: 72
78961787 ACCGAATGTG
* ** * * * *
78961797 GCACACATAGTGCT-TATTATGTTCGCACACATAGAGCTATAGCAAATCGCACACATAGTGCTAT
1 GCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCAT
78961861 AGCAAATC
65 AGCAAATC
78961869 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
*
78961934 GTAAATC
66 GCAAATC
* *
78961941 GCACACATAGTGCCATAGTGAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
1 GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGC
78962002 ATTTGAGATA
Statistics
Matches: 122, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
72 118 0.97
73 4 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (72 bp):
GCACACATAGTGCTATAGTAAATCGCACACATAGTGCCATAGTAAATCGCACACATAGTGCCATA
GCAAATC
Found at i:78966776 original size:47 final size:47
Alignment explanation
Indices: 78966691--78966879 Score: 319
Period size: 47 Copynumber: 4.1 Consensus size: 47
78966681 TTAGGATTTT
78966691 ATGTGATGAATGTGAACA--TGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
78966736 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
*
78966783 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
* * * *
78966830 ATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
78966877 ATG
1 ATG
78966880 CGAAATGTGT
Statistics
Matches: 136, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
45 18 0.13
47 118 0.87
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCA
Done.