Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 186 of 325
Found at i:58777914 original size:206 final size:205
Alignment explanation
Indices: 58777542--58778301 Score: 1109
Period size: 206 Copynumber: 3.7 Consensus size: 205
58777532 AAATCTGCTT
* *
58777542 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
** * * * * *
58777607 ACGAAA-ACAAATCAGCTATGTCTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
* * * ** *
58777671 GGATCTGCTTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTCTGCCTTCCGTCAAATATG
131 GGATCTGCTTCA-TATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCTTCCGTCGAATATG
58777736 GAGACGCCAAA
195 GAGACGCCAAA
* *
58777747 CTTCAATTTGTTCTCTGGCAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
*
58777812 GTGAAAGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATTG-CAAATCATC
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGA-TGCCAAACCATC
*
58777875 TTGGATCTGCTTCGATGTAAACATATGAAGGCCAGATCTGCTATGTGTCTG-CTCTCCGTCGAAT
129 TTGGATCTGCTTC-ATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCT-TCCGTCGAAT
58777939 ATGGAGACGCCAAA
192 ATGGAGACGCCAAA
*
58777953 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
* *
58778018 GTAAAAGCCAAATCAGCTATGAT-TTCGATTTGTTCCTTGTAAACACAAGGATGCCAAATCATCT
66 GTGAAAGCCAAATCAGCTATG-TCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCT
* * * *
58778082 TGGATATGCTTCAATATAAACATATGAAGGCCAGATCTACTATGTGTATGCTCTT-TGTCGAATA
130 TGGATCTGCTTC-ATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGC-CTTCCGTCGAATA
*
58778146 TGGAGAGGCCAAA
193 TGGAGACGCCAAA
* * *
58778159 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTCGATTTGCTTCATCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
* *
58778224 GTGAAAGCCAAATCAGCTATGTCTTTGATTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
58778289 GGATCTTGCTTCA
131 GGATC-TGCTTCA
58778302 GCCAGATCTA
Statistics
Matches: 509, Mismatches: 36, Indels: 19
0.90 0.06 0.03
Matches are distributed among these distances:
205 70 0.14
206 427 0.84
207 10 0.02
208 2 0.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (205 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCATAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
GGATCTGCTTCATATAAACATATGAAGGCCAGATCTGCTATGTGTCTGCCTTCCGTCGAATATGG
AGACGCCAAA
Found at i:58784533 original size:79 final size:78
Alignment explanation
Indices: 58784444--58784613 Score: 202
Period size: 79 Copynumber: 2.1 Consensus size: 78
58784434 ATATCCGGAC
* * *
58784444 TAAGATCCGAAGGCATTTGTGCGAGATACTA-ATTCCGCGGCTAAG-CCCGAAGGCATTTGTGCG
1 TAAG-TCCGAAGGCAATTGTGCGAGATACTATA-ACCG-GGCTAAGTCCCGAAGGCATTTGAGCG
58784507 AGTTA-CTAAATCCGGGT
63 AG-TAGCTAAATCC-GGT
* *
58784524 TAAGTCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TAAGTCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
*
58784589 AGCTATATCCGGT
66 AGCTAAATCCGGT
*
58784602 TAAATTCCGAAG
1 T-AAGTCCGAAG
58784614 TACGTGATTG
Statistics
Matches: 79, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
78 12 0.15
79 62 0.78
80 5 0.06
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
TAAGTCCGAAGGCAATTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGT
AGCTAAATCCGGT
Found at i:58784544 original size:39 final size:39
Alignment explanation
Indices: 58784398--58784588 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
58784388 TTTGAATGTG
* * * *
58784398 TCCGGGCTAAGTCCCGAA-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
58784437 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
58784477 TCCGCGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCG-GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* *
58784517 TCCGGGTTAAGTCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
58784557 -CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGT
58784589 AGCTATATCC
Statistics
Matches: 128, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 54 0.42
40 61 0.48
41 13 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:58792435 original size:79 final size:81
Alignment explanation
Indices: 58792299--58792483 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
58792289 TTGAATGATG
* *
58792299 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
58792363 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
58792378 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
58792440 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
58792458 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
58792484 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:58792497 original size:40 final size:40
Alignment explanation
Indices: 58792300--58792483 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
58792290 TGAATGATGT
* * * *
58792300 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
58792340 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
58792380 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
58792418 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
58792459 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
58792484 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:58792505 original size:79 final size:79
Alignment explanation
Indices: 58792352--58792516 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
58792342 GGACTAAGAT
* * **
58792352 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
58792417 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
58792431 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
58792494 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
58792510 CCGAAGG
1 CCGAAGG
58792517 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:58800186 original size:16 final size:16
Alignment explanation
Indices: 58800165--58800201 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
58800155 TAACGCCCTA
58800165 AAAATCCCAAAA-CTT
1 AAAATCCCAAAATCTT
58800180 GAAAATCCCAAAATCTT
1 -AAAATCCCAAAATCTT
58800197 AAAAT
1 AAAAT
58800202 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.54, C:0.22, G:0.03, T:0.22
Consensus pattern (16 bp):
AAAATCCCAAAATCTT
Found at i:58801552 original size:19 final size:19
Alignment explanation
Indices: 58801528--58801573 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
58801518 ACTTGGGTTG
58801528 TGAATGGGCCAAATGGGCA
1 TGAATGGGCCAAATGGGCA
* *
58801547 TGAATGGGCTAAATGGGCC
1 TGAATGGGCCAAATGGGCA
58801566 TG-ATGGGC
1 TGAATGGGC
58801574 TGTTGGGCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.26, C:0.15, G:0.39, T:0.20
Consensus pattern (19 bp):
TGAATGGGCCAAATGGGCA
Found at i:58801724 original size:29 final size:29
Alignment explanation
Indices: 58801682--58801745 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
58801672 TATAAATTAG
*
58801682 ATTGGGCCTAATGGGT-CATATGAACGTGA
1 ATTGGGCCTAAT-GGTCCACATGAACGTGA
*
58801711 ATTGGGCCTGATGGTCCACATGAACGTGA
1 ATTGGGCCTAATGGTCCACATGAACGTGA
58801740 ATTGGG
1 ATTGGG
58801746 TCGGATAGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.27
Consensus pattern (29 bp):
ATTGGGCCTAATGGTCCACATGAACGTGA
Found at i:58807986 original size:16 final size:16
Alignment explanation
Indices: 58807965--58807995 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58807955 GTTGTAACAC
58807965 CCCAAAAATCACGAAG
1 CCCAAAAATCACGAAG
*
58807981 CCCAAAAATCCCGAA
1 CCCAAAAATCACGAA
58807996 ATCTTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.35, G:0.10, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCACGAAG
Found at i:58809368 original size:9 final size:9
Alignment explanation
Indices: 58809354--58809397 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
58809344 TTGGGTTGTG
58809354 AATGGGCCA
1 AATGGGCCA
*
58809363 AATGGGCCGG
1 AATGGGCC-A
*
58809373 AATGGGCTA
1 AATGGGCCA
*
58809382 AATGGGCCC
1 AATGGGCCA
58809391 AATGGGC
1 AATGGGC
58809398 TGTTGGGCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
9 22 0.76
10 7 0.24
ACGTcount: A:0.27, C:0.20, G:0.39, T:0.14
Consensus pattern (9 bp):
AATGGGCCA
Found at i:58809377 original size:19 final size:19
Alignment explanation
Indices: 58809353--58809389 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
58809343 CTTGGGTTGT
58809353 GAATGGGCCAAATGGGCCG
1 GAATGGGCCAAATGGGCCG
*
58809372 GAATGGGCTAAATGGGCC
1 GAATGGGCCAAATGGGCC
58809390 CAATGGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.19, G:0.41, T:0.14
Consensus pattern (19 bp):
GAATGGGCCAAATGGGCCG
Found at i:58809498 original size:28 final size:28
Alignment explanation
Indices: 58809467--58809552 Score: 95
Period size: 28 Copynumber: 3.0 Consensus size: 28
58809457 GTGAGCATGA
**
58809467 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
*
58809495 ATATAAATGAGATTGGGCCTAATGGG-C
1 ATATAAATGTGATTGGGCCTAATGGGCC
*
58809522 ATTATGAATGTGAATTGGGCCTAATGGGCC
1 A-TATAAATGTG-ATTGGGCCTAATGGGCC
58809552 A
1 A
58809553 CATGAACGTG
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.04
28 24 0.49
29 21 0.43
30 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:58809557 original size:29 final size:29
Alignment explanation
Indices: 58809467--58809566 Score: 107
Period size: 29 Copynumber: 3.5 Consensus size: 29
58809457 GTGAGCATGA
* **
58809467 ATAT-AATGTGATTTGGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTAATGGGCC
* *
58809495 ATATAAATGAG-ATTGGGCCTAATGGG-C
1 ATATGAATGTGAATTGGGCCTAATGGGCC
58809522 ATTATGAATGTGAATTGGGCCTAATGGGCC
1 A-TATGAATGTGAATTGGGCCTAATGGGCC
* *
58809552 ACATGAACGTGAATT
1 ATATGAATGTGAATT
58809567 TGTAATGCCG
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.03
28 24 0.40
29 32 0.53
30 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTAATGGGCC
Found at i:58809701 original size:19 final size:19
Alignment explanation
Indices: 58809677--58809713 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
58809667 CCTGGGTTGT
58809677 GAATGGGCCAAATAGGCCA
1 GAATGGGCCAAATAGGCCA
* *
58809696 GAATGGGCTAAATGGGCC
1 GAATGGGCCAAATAGGCC
58809714 CGATGGGTGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.35, T:0.14
Consensus pattern (19 bp):
GAATGGGCCAAATAGGCCA
Found at i:58809821 original size:28 final size:28
Alignment explanation
Indices: 58809802--58809877 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
58809792 ATAATGCGAT
*
58809802 TTGGGCC-AGATGGGCCATATAAATGAAA
1 TTGGGCCTAGATGGGCCATATAAATG-GA
58809830 TTGGGCCTA-ATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATG-GA
*
58809858 TTAGGCCTAG-TGGGCCATAT
1 TTGGGCCTAGATGGGCCATAT
58809878 GCATGTATGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 43 0.98
29 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAGATGGGCCATATAAATGGA
Found at i:58809890 original size:28 final size:28
Alignment explanation
Indices: 58809811--58809877 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
58809801 TTTGGGCCAG
* *
58809811 ATGGGCCATATAAATGAAATTGGGCCTA
1 ATGGGCCATATAAATGAGATTAGGCCTA
58809839 ATGGGCCATATAAATGAGATTAGGCCTA
1 ATGGGCCATATAAATGAGATTAGGCCTA
*
58809867 GTGGGCCATAT
1 ATGGGCCATAT
58809878 GCATGTATGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (28 bp):
ATGGGCCATATAAATGAGATTAGGCCTA
Found at i:58813752 original size:44 final size:44
Alignment explanation
Indices: 58813689--58813776 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
58813679 ACATTAAGTT
* *
58813689 CATTTCAATAATGCGGAATTGGAATGTTGTAGCGTGGTGTGAAA
1 CATTTCAATAATGCGGAATTGGAATGTTCTAGAGTGGTGTGAAA
* *
58813733 CATTTCAGTAATGTGGAATTGGAATGTTCTAGAGTGGTGTGAAA
1 CATTTCAATAATGCGGAATTGGAATGTTCTAGAGTGGTGTGAAA
58813777 TTGAAACAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.33
Consensus pattern (44 bp):
CATTTCAATAATGCGGAATTGGAATGTTCTAGAGTGGTGTGAAA
Found at i:58818236 original size:46 final size:46
Alignment explanation
Indices: 58818074--58818249 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
58818064 TGTAACCCGC
***
58818074 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
58818120 CCATAAGTGAACTTC-GACTCAACTCAACGAGCTCAGATGCCTAGTT-ACAT
1 CCATAAGTGAAC-TCGGACTCAACTCAACGAGCTC-G--GAC-A-TTCGCAT
* * *
58818170 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
58818213 CCATAAGTGAACTCGGACTCAACTCAACAAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
58818250 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 2 0.02
46 62 0.58
47 25 0.23
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:58818252 original size:93 final size:93
Alignment explanation
Indices: 58818082--58818252 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
58818072 GCCCATAAGT
***
58818082 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTTCGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTCGACTCAACTCAA
*
58818147 CGAGCTCAGATGCCTAGTTACATCTCAC
66 CAAGCTCAGATGCCTAGTTACATCTCAC
*
58818175 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAAC-TCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTC-GACTCAACTCA
* *
58818239 ACAAGTTCGGATGC
65 ACAAGCTCAGATGC
58818253 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTTCGACTCAACTCAA
CAAGCTCAGATGCCTAGTTACATCTCAC
Found at i:58818268 original size:46 final size:45
Alignment explanation
Indices: 58818175--58818260 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
58818165 TACATCTCAC
* * *
58818175 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCGGA-ATGCGCAACCATAAGT
*
58818221 GAACTCGGACTCAACTCAACAAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCAT
58818261 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCGGAATGCGCAACCATAAGT
Found at i:58831893 original size:55 final size:54
Alignment explanation
Indices: 58831767--58831970 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 54
58831757 AGGGTTTAAG
* * *
58831767 GATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
* * * * * * *
58831821 AAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGT-AAGTTCTATAAGGCAAA
* * * * * *
58831876 GATCCCATGTAAGACCATGCCAAGGCATCGCAATGGTGAGTTC-ATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
** * * *
58831929 GATACCACATAAGACCATGTCAAGACATGGAAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT
58831971 TAAAAAGGAA
Statistics
Matches: 118, Mismatches: 31, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
53 43 0.36
54 33 0.28
55 42 0.36
ACGTcount: A:0.39, C:0.19, G:0.22, T:0.20
Consensus pattern (54 bp):
GATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAA
Found at i:58833655 original size:28 final size:27
Alignment explanation
Indices: 58833606--58833693 Score: 115
Period size: 28 Copynumber: 3.2 Consensus size: 27
58833596 AGCATGGCTG
* *
58833606 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
58833632 CCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
58833660 CCAGAATCAGATATTTGTGGCATAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
*
58833688 CTAGAA
1 CCAGAA
58833694 TGCATCCTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
26 5 0.09
27 8 0.15
28 42 0.76
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:58833788 original size:28 final size:27
Alignment explanation
Indices: 58833744--58833859 Score: 153
Period size: 28 Copynumber: 4.2 Consensus size: 27
58833734 AGCATGGCTG
* *
58833744 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
*
58833770 CCAGATACAAATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
58833798 CCAGAATCAGATATTTGTGGCAGAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
* *
58833826 CCAAAATCAGATATTTGTGGCATAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
58833854 CCAGAA
1 CCAGAA
58833860 TGCATCCTCC
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.06
27 7 0.09
28 68 0.85
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:58842110 original size:28 final size:27
Alignment explanation
Indices: 58842061--58842148 Score: 124
Period size: 28 Copynumber: 3.2 Consensus size: 27
58842051 AGCATGGCTG
* *
58842061 CCAGAACAGATA-TTGTGACAGAGTCA
1 CCAGAACAGATATTTGTGGCAGAGCCA
58842087 CCAGATACAGATATTTGTGGCAGAGCCA
1 CCAGA-ACAGATATTTGTGGCAGAGCCA
*
58842115 CCAGAATCAGATATTTGTGGCATAGCCA
1 CCAGAA-CAGATATTTGTGGCAGAGCCA
58842143 CCAGAA
1 CCAGAA
58842149 TGCTTCCTCC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.09
27 8 0.14
28 43 0.77
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGAGCCA
Found at i:58845161 original size:16 final size:18
Alignment explanation
Indices: 58845140--58845176 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
58845130 ATATTACTAC
58845140 ATTATT-ATTT-TTTTAT
1 ATTATTAATTTGTTTTAT
58845156 ATTATTACATTTGTTTTAT
1 ATTATTA-ATTTGTTTTAT
58845175 AT
1 AT
58845177 ATGTATTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.33
18 4 0.22
19 8 0.44
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTATTAATTTGTTTTAT
Found at i:58860370 original size:26 final size:26
Alignment explanation
Indices: 58860310--58860360 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
58860300 CATACTGATG
* *
58860310 AAATGACTGTTATACCCCTAGTGGTA
1 AAATGACTGATATACCCCTAGTGCTA
58860336 AAATGACTGATATACCCCTA-TGCTA
1 AAATGACTGATATACCCCTAGTGCTA
58860361 TATTTGACTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (26 bp):
AAATGACTGATATACCCCTAGTGCTA
Found at i:58869447 original size:43 final size:41
Alignment explanation
Indices: 58869366--58869477 Score: 104
Period size: 43 Copynumber: 2.7 Consensus size: 41
58869356 GAGACATCGT
* *
58869366 GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTA
1 GTAAGACCATGTCTGGGACACAGGCATCGATT-AGATTT-CG-A
58869410 -TAAGACCATGTCTGGGACATC-GGCATCGTATCT-GATTTCGA
1 GTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATTTCGA
* * *
58869451 GTAAAACCTTGTCTGGGACAGAGGCAT
1 GTAAGACCATGTCTGGGACACAGGCAT
58869478 TGATATCGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 29 0.50
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (41 bp):
GTAAGACCATGTCTGGGACACAGGCATCGATTAGATTTCGA
Found at i:58879581 original size:37 final size:37
Alignment explanation
Indices: 58879522--58879665 Score: 252
Period size: 37 Copynumber: 3.9 Consensus size: 37
58879512 AGCTCAGACG
* *
58879522 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58879559 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58879596 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58879633 TAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
58879666 AATATATTTC
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58879938 original size:48 final size:48
Alignment explanation
Indices: 58879812--58879995 Score: 291
Period size: 47 Copynumber: 3.8 Consensus size: 48
58879802 GCACATCGCC
*
58879812 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
58879862 TATATATTTCACATT-GACCATTCAGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
58879910 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT-TCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
58879957 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
58879996 TGCATGTTCA
Statistics
Matches: 125, Mismatches: 7, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
47 44 0.35
48 38 0.30
49 2 0.02
50 41 0.33
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:58880017 original size:47 final size:47
Alignment explanation
Indices: 58879918--58880156 Score: 256
Period size: 47 Copynumber: 5.1 Consensus size: 47
58879908 CATACATATT
* * *
58879918 TCACATTAGCCATTCGGCTTTACCACATATA--CAT-TCTCATACATAT-T
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGT-TC--ACAT-TCA
* * *
58879965 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * *
58880012 CCACATTGGCCATTC-GCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
*
58880058 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * * **
58880105 TCACATT-GGCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58880151 TCACAT
1 TCACAT
58880157 AAAATCCTAA
Statistics
Matches: 170, Mismatches: 17, Indels: 11
0.86 0.09 0.06
Matches are distributed among these distances:
46 81 0.48
47 83 0.49
49 5 0.03
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.34
Consensus pattern (47 bp):
TCACATTAGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58880057 original size:46 final size:47
Alignment explanation
Indices: 58879965--58880156 Score: 271
Period size: 46 Copynumber: 4.1 Consensus size: 47
58879955 CATACATATT
* * * *
58879965 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
58880012 CCACATTGGCCATTC-GCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58880058 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
58880105 TCACATTGG-CATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58880151 TCACAT
1 TCACAT
58880157 AAAATCCTAA
Statistics
Matches: 130, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
46 79 0.61
47 51 0.39
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58880085 original size:93 final size:93
Alignment explanation
Indices: 58879965--58880156 Score: 269
Period size: 93 Copynumber: 2.1 Consensus size: 93
58879955 CATACATATT
* *
58879965 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTC-GC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGG-CATTCGGC
* **
58880029 CTTATCACACATATGCATGCTCACATTCA
65 CTTATCACACATATACACACTCACATTCA
* * *
58880058 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCATTCGGCC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCATTCGGCC
* * *
58880123 TTATCTCATATATACACATTCACATTCA
66 TTATCACACATATACACACTCACATTCA
58880151 TCACAT
1 TCACAT
58880157 AAAATCCTAA
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 5 0.06
93 82 0.94
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.33
Consensus pattern (93 bp):
TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCATTCGGCC
TTATCACACATATACACACTCACATTCA
Found at i:58884167 original size:40 final size:40
Alignment explanation
Indices: 58884119--58884403 Score: 423
Period size: 40 Copynumber: 7.2 Consensus size: 40
58884109 GCCCGAATAC
* * * * *
58884119 ACATCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
* * * * *
58884159 ATAACACCAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
58884199 ACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
58884239 ACATCACTAGCACGAATGTTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
58884279 --ATCACTAGCACGAATGCTCTTCGGGACTTAG-CCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
58884316 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
58884356 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
*
58884396 ATATCACT
1 ACATCACT
58884404 CTCAATTTTC
Statistics
Matches: 224, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
37 6 0.03
38 30 0.13
39 31 0.14
40 157 0.70
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
Found at i:58884333 original size:117 final size:119
Alignment explanation
Indices: 58884119--58884398 Score: 447
Period size: 117 Copynumber: 2.4 Consensus size: 119
58884109 GCCCGAATAC
* * * * *
58884119 ACATCACCAGCATGATTGCTCTTTGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT-ACACCAGCACGAATGCTCTTCG
* *
58884184 GAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGTCCGGAT
65 GAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGAT
* *
58884239 ACATCACTAGCACGAATGTTCTTCGGGACTTAGCCCGGATAT-CACTAGCACGAATGCTCTTCGG
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATACACCAGCACGAATGCTCTTCGG
*
58884303 GACTTAG-CCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGAT
66 AACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGAT
58884356 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
1 ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA
58884399 TCACTCTCAA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
117 85 0.57
118 27 0.18
120 36 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (119 bp):
ACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATACACCAGCACGAATGCTCTTCGG
AACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGACTTAGCCCAGAT
Found at i:58885704 original size:36 final size:37
Alignment explanation
Indices: 58885657--58885828 Score: 236
Period size: 36 Copynumber: 4.9 Consensus size: 37
58885647 AGCTCAGACG
* *
58885657 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGA-A
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
58885693 AAATCTCCACACGTAGTCATCGGGTCTTA-CCGGAC-
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58885728 AAATCTCCACACGTAGTGATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58885765 TAATCTCCACACGTAGTCATC-GGTC-TA-CCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
58885799 TAATCT-CACA--TAGTCATCGGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCG
58885829 AATATATTTC
Statistics
Matches: 125, Mismatches: 5, Indels: 14
0.87 0.03 0.10
Matches are distributed among these distances:
31 8 0.06
32 4 0.03
33 6 0.05
34 16 0.13
35 35 0.28
36 37 0.30
37 19 0.15
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:58885750 original size:71 final size:70
Alignment explanation
Indices: 58885657--58885828 Score: 253
Period size: 71 Copynumber: 2.5 Consensus size: 70
58885647 AGCTCAGACG
* *
58885657 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGA-AAAATCTCCACACGTAGTCATCGGGTCTT
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATC-GGTC-T
58885721 ACCGGAC
64 ACCGGAC
* *
58885728 AAATCTCCACACGTAGTGATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGTCTAC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGTCTAC
58885793 CGGAC
66 CGGAC
58885798 ATAATCT-CACA--TAGTCATCGGGTCTTACCCG
1 A-AATCTCCACACGTAGTCATCGGGTCTTACCCG
58885829 AATATATTTC
Statistics
Matches: 95, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
68 19 0.20
70 13 0.14
71 42 0.44
72 21 0.22
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (70 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGTCTAC
CGGAC
Found at i:58886090 original size:97 final size:94
Alignment explanation
Indices: 58885975--58886155 Score: 285
Period size: 97 Copynumber: 1.9 Consensus size: 94
58885965 GCACATCGCC
*
58885975 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCA-ATATACAT-TCTC--ATACATATTTCACATT
58886040 -GACCATTC-GCTTTACCACATATGCATATCTCA
62 AG-CCATTCGGCTTTACCACATATGCATATCTCA
*
58886072 TACATATTTCACATTAGCCATTCGGCTTTACCAATATACATTCTCATACATATTTCACATTAGCC
1 TACATATTTCACACTAGCCATTCGGCTTTACCAATATACATTCTCATACATATTTCACATTAGCC
58886137 ATTCGGCTTTACCACATAT
66 ATTCGGCTTTACCACATAT
58886156 ATGCATGTTC
Statistics
Matches: 80, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
93 21 0.26
94 15 0.19
95 4 0.05
96 8 0.10
97 32 0.40
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.36
Consensus pattern (94 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCAATATACATTCTCATACATATTTCACATTAGCC
ATTCGGCTTTACCACATATGCATATCTCA
Found at i:58886131 original size:46 final size:48
Alignment explanation
Indices: 58885975--58886156 Score: 282
Period size: 46 Copynumber: 3.8 Consensus size: 48
58885965 GCACATCGCC
*
58885975 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
58886025 TATATATTTCACATT-GACCATTC-GCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
58886072 TACATATTTCACATTAGCCATTCGGCTTTACCA-ATATACAT-TCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
58886118 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
58886157 TGCATGTTCA
Statistics
Matches: 123, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
46 38 0.31
47 33 0.27
48 10 0.08
49 23 0.19
50 19 0.15
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:58886185 original size:47 final size:47
Alignment explanation
Indices: 58886126--58886318 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
58886116 CATACATATT
* * * *
58886126 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
58886173 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58886220 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
58886267 TCACATTGG-CATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
58886313 TCACAT
1 TCACAT
58886319 AAAATCCTAA
Statistics
Matches: 132, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
46 39 0.30
47 93 0.70
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:58891672 original size:29 final size:29
Alignment explanation
Indices: 58891640--58891695 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
58891630 CCACACTTAC
58891640 TATTACTAGCAACTATGCTGAGATATTAT
1 TATTACTAGCAACTATGCTGAGATATTAT
* * * *
58891669 TATTACTGGCAGCTGTGCTGCGATATT
1 TATTACTAGCAACTATGCTGAGATATT
58891696 GGTGTGATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (29 bp):
TATTACTAGCAACTATGCTGAGATATTAT
Found at i:58901577 original size:25 final size:25
Alignment explanation
Indices: 58901539--58901588 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
58901529 ATGAAGGTAG
*
58901539 GCTTTTTATTATAAGTGGGATAAAA
1 GCTTTTTATGATAAGTGGGATAAAA
* *
58901564 GCTTTTTGTGATAAGTGGGTTAAAA
1 GCTTTTTATGATAAGTGGGATAAAA
58901589 CCTAGGTGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (25 bp):
GCTTTTTATGATAAGTGGGATAAAA
Found at i:58905653 original size:28 final size:28
Alignment explanation
Indices: 58905606--58905723 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
58905596 TCCATACTTC
* * * *
58905606 TTCATTTGGCCCCTTTGGCCCAATCCCA
1 TTCATATGGCCCATTAGGCCCAATCACA
*
58905634 TTCATATGGCCCATTGGGCCCAATCACA
1 TTCATATGGCCCATTAGGCCCAATCACA
* *
58905662 TTCATATGGCCCATCAGGCCCAATCACT
1 TTCATATGGCCCATTAGGCCCAATCACA
* * * *
58905690 TTCATATGGCCCGTCAAGCCCAATCATA
1 TTCATATGGCCCATTAGGCCCAATCACA
58905718 TTCATA
1 TTCATA
58905724 GTCATGCAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 79 1.00
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (28 bp):
TTCATATGGCCCATTAGGCCCAATCACA
Found at i:58905958 original size:16 final size:16
Alignment explanation
Indices: 58905937--58905972 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
58905927 ATAGCTAAAC
*
58905937 TTTCGACTTTTCAGCA
1 TTTCGACTTTCCAGCA
*
58905953 TTTCGACTTTCCGGCA
1 TTTCGACTTTCCAGCA
58905969 TTTC
1 TTTC
58905973 AGGATTTGCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.44
Consensus pattern (16 bp):
TTTCGACTTTCCAGCA
Found at i:58908505 original size:43 final size:42
Alignment explanation
Indices: 58908434--58908606 Score: 136
Period size: 43 Copynumber: 4.1 Consensus size: 42
58908424 ACATAAAACT
* * * *
58908434 CATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTTATCA
1 CATATCAATGCCAATGTCCCAGACA-GGTCTTACACGTAATCA
* * * * *
58908475 CATATCGATGCCACTGTCCCAGACGAGGTCTTTCACGAAACCA
1 CATATCAATGCCAATGTCCCAGAC-AGGTCTTACACGTAATCA
* * * * *
58908518 AATAACAATGCCAATGTTCCATACATGGTTTTACACGTAATCA
1 CATATCAATGCCAATGTCCCAGACA-GGTCTTACACGTAATCA
* *
58908561 CA-ATACAATGCCAATGTCCCAGACTTGGTCTTACATGTAATCA
1 CATAT-CAATGCCAATGTCCCAGAC-AGGTCTTACACGTAATCA
58908604 CAT
1 CAT
58908607 CTCGATAACC
Statistics
Matches: 99, Mismatches: 26, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
41 4 0.04
42 8 0.08
43 86 0.87
44 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (42 bp):
CATATCAATGCCAATGTCCCAGACAGGTCTTACACGTAATCA
Found at i:58919708 original size:15 final size:15
Alignment explanation
Indices: 58919688--58919718 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
58919678 ATACATAGAG
58919688 AGTCTCCTATTGAAC
1 AGTCTCCTATTGAAC
58919703 AGTCTCCTATTGAAC
1 AGTCTCCTATTGAAC
58919718 A
1 A
58919719 TTTCGGATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (15 bp):
AGTCTCCTATTGAAC
Found at i:58922445 original size:93 final size:93
Alignment explanation
Indices: 58922286--58922458 Score: 247
Period size: 93 Copynumber: 1.9 Consensus size: 93
58922276 CGCCCATAAG
* * * * * *
58922286 CGAACTCGGACTCAACTTAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCAGACTCGACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
58922351 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * ** *
58922379 CGAACTCGGACTGAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTTGGCCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
58922444 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
58922459 CAAACATCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58924850 original size:15 final size:15
Alignment explanation
Indices: 58924802--58924879 Score: 83
Period size: 14 Copynumber: 5.4 Consensus size: 15
58924792 CAAAGATAAC
*
58924802 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58924816 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
58924831 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
58924846 AAG-AATCCAGAATA
1 AAGAAATCCAGAATA
* *
58924860 AAGAGAT-CAGGATA
1 AAGAAATCCAGAATA
58924874 AAGAAA
1 AAGAAA
58924880 CCCAAGATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
14 34 0.63
15 19 0.35
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.18, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58924852 original size:29 final size:30
Alignment explanation
Indices: 58924802--58924888 Score: 92
Period size: 29 Copynumber: 3.0 Consensus size: 30
58924792 CAAAGATAAC
*
58924802 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
*
58924831 GAGAAATCCAGAATAAAG-AATCC-AGAATA
1 AAGAAATCCAGAATAAAGAAATCCAAG-ATA
* * *
58924860 AAGAGAT-CAGGATAAAGAAACCCAAGATA
1 AAGAAATCCAGAATAAAGAAATCCAAGATA
58924889 CGATACTATG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 11 0.23
29 27 0.56
30 10 0.21
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAATCCAGAATAAAGAAATCCAAGATA
Found at i:58927924 original size:93 final size:93
Alignment explanation
Indices: 58927765--58927937 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
58927755 CGCCCATAGG
* * * *
58927765 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
58927830 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
58927858 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
58927923 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
58927938 CAAACATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:58927933 original size:46 final size:46
Alignment explanation
Indices: 58927766--58927933 Score: 191
Period size: 46 Copynumber: 3.6 Consensus size: 46
58927756 GCCCATAGGC
* * * *
58927766 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
* * *
58927812 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCATAAGT
58927859 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
*
58927905 GAACTCAGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
58927934 TGCCCAAACA
Statistics
Matches: 103, Mismatches: 10, Indels: 18
0.79 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 55 0.53
47 29 0.28
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
Found at i:58929481 original size:6 final size:5
Alignment explanation
Indices: 58929457--58929513 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
58929447 ACGAGAAATC
*
58929457 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAACGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
58929504 AAAGA AAAGA
1 AAAGA AAAGA
58929514 GACGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:58929488 original size:15 final size:14
Alignment explanation
Indices: 58929457--58929513 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
58929447 ACGAGAAATC
58929457 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
58929473 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
58929488 AAAGAAAACGAAATAA
1 AAAGAAAA-G-AAGAA
58929504 AAAGAAAAGA
1 AAAGAAAAGA
58929514 GACGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.04, G:0.18, T:0.02
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:58930959 original size:22 final size:22
Alignment explanation
Indices: 58930931--58930976 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
58930921 GTGTTTAACC
58930931 TTCATCAAGTCACTAATTTGTT
1 TTCATCAAGTCACTAATTTGTT
58930953 TTCATCAAGTCACTAATTTGTT
1 TTCATCAAGTCACTAATTTGTT
58930975 TT
1 TT
58930977 ACTCTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (22 bp):
TTCATCAAGTCACTAATTTGTT
Found at i:58933986 original size:9 final size:10
Alignment explanation
Indices: 58933979--58934041 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
58933969 ACGAGAAAAC
58933979 AAAGAAAAGA
1 AAAGAAAAGA
58933989 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
58934001 AAAGAAGA-A
1 AAAGAAAAGA
58934010 AAAGAAAAAGA
1 AAAG-AAAAGA
58934021 AAACGAAATA-A
1 AAA-GAAA-AGA
58934032 AAAGAAAAGA
1 AAAGAAAAGA
58934042 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
9 6 0.14
10 12 0.27
11 19 0.43
12 7 0.16
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:58934003 original size:6 final size:5
Alignment explanation
Indices: 58933979--58934041 Score: 58
Period size: 5 Copynumber: 12.0 Consensus size: 5
58933969 ACGAGAAAAC
*
58933979 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGAA AAAGA AAACGA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA AAA-GA
58934027 AATA-A AAAGA AAAGA
1 AA-AGA AAAGA AAAGA
58934042 GAGGCAAAAG
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
4 4 0.08
5 25 0.51
6 19 0.39
7 1 0.02
ACGTcount: A:0.78, C:0.03, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:58934012 original size:21 final size:20
Alignment explanation
Indices: 58933979--58934039 Score: 77
Period size: 22 Copynumber: 2.9 Consensus size: 20
58933969 ACGAGAAAAC
58933979 AAAGAAAAGAAAAGAAAAAGCA
1 AAAGAAAA-AAAAGAAAAAG-A
*
58934001 AAAGAAGAAAAAGAAAAAGA
1 AAAGAAAAAAAAGAAAAAGA
58934021 AAACGAAATAAAAAGAAAA
1 AAA-GAAA-AAAAAGAAAA
58934040 GAGAGGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.11
21 14 0.40
22 17 0.49
ACGTcount: A:0.79, C:0.03, G:0.16, T:0.02
Consensus pattern (20 bp):
AAAGAAAAAAAAGAAAAAGA
Found at i:58934120 original size:13 final size:12
Alignment explanation
Indices: 58934089--58934120 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
58934079 TTGAAAGAAC
*
58934089 TTGAAAAGGCCT
1 TTGAAAAAGCCT
58934101 TTGAAAAAGCCT
1 TTGAAAAAGCCT
58934113 TTGAAAAA
1 TTGAAAAA
58934121 CAAAAATAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:58945198 original size:37 final size:37
Alignment explanation
Indices: 58945146--58945228 Score: 148
Period size: 37 Copynumber: 2.2 Consensus size: 37
58945136 CCTTACCAGT
58945146 CAACACACCTATGGGGATATCAATCAACCCACCCAAC
1 CAACACACCTATGGGGATATCAATCAACCCACCCAAC
* *
58945183 CAGCACACCTGTGGGGATATCAATCAACCCACCCAAC
1 CAACACACCTATGGGGATATCAATCAACCCACCCAAC
58945220 CAACACACC
1 CAACACACC
58945229 AATATCGCAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.36, C:0.40, G:0.12, T:0.12
Consensus pattern (37 bp):
CAACACACCTATGGGGATATCAATCAACCCACCCAAC
Found at i:58945265 original size:26 final size:26
Alignment explanation
Indices: 58945229--58945279 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
58945219 CCAACACACC
* * *
58945229 AATATCGCAGCGCAGCTGGCAGTAAT
1 AATATCACAGCACAGCTGCCAGTAAT
*
58945255 AATATCACAGCATAGCTGCCAGTAA
1 AATATCACAGCACAGCTGCCAGTAA
58945280 CAGTAAGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (26 bp):
AATATCACAGCACAGCTGCCAGTAAT
Found at i:58958245 original size:40 final size:40
Alignment explanation
Indices: 58958004--58958233 Score: 347
Period size: 40 Copynumber: 5.8 Consensus size: 40
58957994 GATGATAACA
* * *
58958004 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
* *
58958044 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTAATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
58958084 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
58958124 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
* **
58958164 GGGCTAAGTCCCGAAGGCATTTGTCCGAACTACT-ATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
58958204 GGGCTAAGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
58958234 AGCTATATCC
Statistics
Matches: 175, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
39 2 0.01
40 173 0.99
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:58961266 original size:42 final size:43
Alignment explanation
Indices: 58961213--58961331 Score: 122
Period size: 42 Copynumber: 2.8 Consensus size: 43
58961203 TCAAACATTA
*
58961213 ATGCCACTGTCCCAGACAGT-GTCTTACACGAAATTAGATA-CG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGAAATTAGA-AGCG
* *
58961255 ATGCCGATGTCCCAGACA-TGGTCTTA-ACGTAAAATAGAAGTCG
1 ATGCCAATGTCCCAGACAGTGGTCTTACACG-AAATTAGAAG-CG
** *
58961298 ATGCCAACATCCTAGAC-GTGGTCTTACACGAAAT
1 ATGCCAATGTCCCAGACAGTGGTCTTACACGAAAT
58961332 CACATATCAG
Statistics
Matches: 63, Mismatches: 8, Indels: 11
0.77 0.10 0.13
Matches are distributed among these distances:
41 5 0.08
42 29 0.46
43 26 0.41
44 3 0.05
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGTGGTCTTACACGAAATTAGAAGCG
Found at i:58973068 original size:27 final size:27
Alignment explanation
Indices: 58973038--58973090 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
58973028 CCCTATTTAA
58973038 TAAAATGACTATTTTGCCCCTATATGG
1 TAAAATGACTATTTTGCCCCTATATGG
*
58973065 TAAAATGATTATTTTGCCCCTATATG
1 TAAAATGACTATTTTGCCCCTATATG
58973091 ATGTATGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (27 bp):
TAAAATGACTATTTTGCCCCTATATGG
Found at i:58987958 original size:43 final size:43
Alignment explanation
Indices: 58987659--58987943 Score: 390
Period size: 43 Copynumber: 6.6 Consensus size: 43
58987649 ATATCATACA
* *** * *
58987659 ATGCCAACGTCCTAGATAAGGTCTTACATGTAATCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
58987702 ATGCCAACGTCCCAGACGTGGTTTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * * *
58987745 ATGCCAACATCCTAGATGTGGCCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* *
58987788 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
58987831 ATGCCAACGTCCTAGACGTGGTCTTACACATAATCACACATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
58987874 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATAACATATCA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
*
58987917 ATGCCAACGTCCCAGACGTGGCCTTAC
1 ATGCCAACGTCCCAGACGTGGTCTTAC
58987944 TCGCACACAC
Statistics
Matches: 213, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 213 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:58989493 original size:14 final size:15
Alignment explanation
Indices: 58989474--58989502 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
58989464 AAATGAGATT
58989474 TTCACACAT-ATAAA
1 TTCACACATAATAAA
58989488 TTCACACATAATAAA
1 TTCACACATAATAAA
58989503 CACAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:58991058 original size:28 final size:28
Alignment explanation
Indices: 58991010--58991074 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
58991000 TTATGGCAGC
*
58991010 GCCACTAG-AACAGATATTTGTGGCATA
1 GCCACCAGAAACAGATATTTGTGGCATA
*
58991037 GCCACCAGAAACAGATATTTGTGGCATG
1 GCCACCAGAAACAGATATTTGTGGCATA
58991065 GCCACCAGAA
1 GCCACCAGAA
58991075 CGCTTCCTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
27 7 0.20
28 28 0.80
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (28 bp):
GCCACCAGAAACAGATATTTGTGGCATA
Found at i:58998069 original size:27 final size:27
Alignment explanation
Indices: 58998039--58998096 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
58998029 TTCTACCCTA
* *
58998039 CAAATCAGGGGTGTTTCTG-TAATTTTC
1 CAAATCAAGGGTATTTC-GATAATTTTC
58998066 CAAATCAAGGGTATTTCGATAATTTTC
1 CAAATCAAGGGTATTTCGATAATTTTC
58998093 CAAA
1 CAAA
58998097 ACACCCTTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCGATAATTTTC
Found at i:58998325 original size:41 final size:41
Alignment explanation
Indices: 58998268--58998390 Score: 201
Period size: 41 Copynumber: 3.0 Consensus size: 41
58998258 GGAGAAAGAA
58998268 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
**
58998309 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCA
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
* * *
58998350 ATTAAGGATCGCATGGTTGCTTGATGATCGTGGATCCACTG
1 ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
58998391 GTGGCTTTTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACTG
Found at i:58998584 original size:22 final size:22
Alignment explanation
Indices: 58998532--58998592 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
58998522 GCCAATTATT
**
58998532 CTGATTATGGCTTTGGGCCAAC
1 CTGATTATGGCTTTATGCCAAC
* *
58998554 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTTTATGCCAAC
58998576 CTGATTATGGCTTTATG
1 CTGATTATGGCTTTATG
58998593 GATGACTCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTATGCCAAC
Found at i:58998783 original size:22 final size:22
Alignment explanation
Indices: 58998758--58998807 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
58998748 TGCTGCAATG
* *
58998758 TTTATGGCTATGTGCTATCCTA
1 TTTACGGCTATATGCTATCCTA
* *
58998780 TTTACGGCTATATGCTGTCTTA
1 TTTACGGCTATATGCTATCCTA
58998802 TTTACG
1 TTTACG
58998808 ACCTTGAGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.46
Consensus pattern (22 bp):
TTTACGGCTATATGCTATCCTA
Found at i:59001056 original size:48 final size:48
Alignment explanation
Indices: 59000926--59001200 Score: 242
Period size: 48 Copynumber: 5.8 Consensus size: 48
59000916 GGGTTGATGA
* * * * *** *
59000926 GATCCCATATAAGACCATATTTGGGATATGGCATCATCATCGATATAT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
*
59000974 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
59001022 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGTATTGATATG-
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * * *
59001069 AATACATCGTGTAAGACCATAGT-TGGG-CTATCGGC-TTCG-AT--ATGTGT
1 GAT-C-CCATGTAAGACCAT-GTCTGGGAC-AT-GGCATTGGCATCGATATGT
* *
59001116 GATCCCATGTAAGACCATGTTTGGGACAAGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * * *
59001164 G-GCTCCATGTAAAACCATATCTGGGATATGGCATTGG
1 GATC-CCATGTAAGACCATGTCTGGGACATGGCATTGG
59001201 TACCCTACTA
Statistics
Matches: 185, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
44 5 0.03
45 20 0.11
46 8 0.04
47 5 0.03
48 121 0.65
49 21 0.11
50 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:59005886 original size:47 final size:47
Alignment explanation
Indices: 59005832--59006435 Score: 929
Period size: 47 Copynumber: 12.6 Consensus size: 47
59005822 GTATATTTGA
*
59005832 ATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
59005879 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
59005926 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* *
59005973 ATGAATATGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTG
*
59006022 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
59006069 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTG
*
59006118 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
*
59006165 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCAATGTG
*
59006214 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* *
59006261 ATGAATGTGAAAGTGTATATATATATGTGATAAGGCCTAATGACCGATGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCTAATGGCCAATGTG
* *
59006312 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* * * * *
59006359 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
* *
59006406 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
59006436 TCCCGAAGGG
Statistics
Matches: 513, Mismatches: 34, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
47 335 0.65
49 134 0.26
51 44 0.09
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTG
Found at i:59006021 original size:96 final size:96
Alignment explanation
Indices: 59005832--59006435 Score: 1036
Period size: 96 Copynumber: 6.3 Consensus size: 96
59005822 GTATATTTGA
*
59005832 ATGAATGTGAAAGTGTATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG--T
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59005895 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
*
59005926 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATATGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59005991 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
59006022 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59006087 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
59006118 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59006183 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
59006214 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--T
*
59006279 ATATATATGTGATAAGGCCTAATGACCGATGTG
64 ATATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
59006312 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
* * * * * *
59006375 ATATATGTGACAGGGCCGAGTGGCCAACGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
* *
59006406 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
59006436 TCCCGAAGGG
Statistics
Matches: 490, Mismatches: 16, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
94 113 0.23
96 285 0.58
98 92 0.19
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
ATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:59008264 original size:40 final size:40
Alignment explanation
Indices: 59007861--59008250 Score: 593
Period size: 40 Copynumber: 9.8 Consensus size: 40
59007851 GAGAATTGAG
*
59007861 AGTGATATATCCGGGCTAAGTCCTGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59007901 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59007941 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59007981 AGTGATATATCCGGGCTAAGTCCCGAGGAGGATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59008021 AGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
59008061 AGTGATATATCCAGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
59008101 AGTGATATATCTGGGCTAAGTCCC-AAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAA-GAGCATTCGTGCT
* * *
59008141 AGTGATGTATCCGGGCTAAGTTCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* ** *
59008181 AGTGATATATCCGTGCTAAACCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
59008221 GGTGTTATATCCGGGCTAGGTCCCGAAGAG
1 AGTGATATATCCGGGCTAAGTCCCGAAGAG
59008251 TAATCATGCT
Statistics
Matches: 325, Mismatches: 23, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 1 0.00
40 322 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:59010087 original size:85 final size:85
Alignment explanation
Indices: 59009944--59010122 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
59009934 GGCCGGCCAT
59009944 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59010009 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
59010029 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
1 GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
59010094 GTAAGGATTAATAAAATAAA
66 GTAAGGATTAATAAAATAAA
*
59010114 GGGCATGGG
1 GAGCATGGG
59010123 CAATAAAATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.37, C:0.08, G:0.28, T:0.26
Consensus pattern (85 bp):
GAGCATGGGTGGACAAGATGTTATGGCTAAAAACATGTCATAAACATGTTGGGGTAGTGCATTAT
GTAAGGATTAATAAAATAAA
Found at i:59012364 original size:47 final size:47
Alignment explanation
Indices: 59012310--59012915 Score: 906
Period size: 47 Copynumber: 12.6 Consensus size: 47
59012300 GTATATTTGA
59012310 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
59012357 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
59012406 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
59012453 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
59012502 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
59012549 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
59012598 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
59012645 ATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTG
**
59012694 ATGAATGTGAAAGCATATATATGTGATAAGGCCGAATGGCCAATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
59012741 ATGATTGTGAAAGTGTATATATATATGTGATAAGGCCTAATGGCCGATGTG
1 ATGAATGTGAAAGTG----TATATATGTGATAAGGCCGAATGGCCAATGTG
* * *
59012792 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* * * *
59012839 ATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTG
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
* *
59012886 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
59012916 TCCCGAAGGA
Statistics
Matches: 511, Mismatches: 36, Indels: 24
0.89 0.06 0.04
Matches are distributed among these distances:
47 289 0.57
49 178 0.35
51 44 0.09
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTG
Found at i:59012418 original size:96 final size:96
Alignment explanation
Indices: 59012310--59012915 Score: 1054
Period size: 96 Copynumber: 6.3 Consensus size: 96
59012300 GTATATTTGA
59012310 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59012375 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
59012406 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59012471 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
59012502 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59012567 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
59012598 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
59012663 ATATATGTGATAAGGCCTAATGGCCGATGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
** *
59012694 ATGAATGTGAAAGCATATATATGTGATAAGGCCGAATGGCCAATGTGATGATTGTGAAAGTGTAT
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--T
59012759 ATATATATGTGATAAGGCCTAATGGCCGATGTG
64 ATATATATGTGATAAGGCCTAATGGCCGATGTG
* * *
59012792 ATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--T
1 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
* * * * * *
59012855 ATATATGTGACAGGGCCGAGTGGCCAACGTG
66 ATATATGTGATAAGGCCTAATGGCCGATGTG
* *
59012886 ATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGAATGTGAAAGTGTATATATGTGATAAG
59012916 TCCCGAAGGA
Statistics
Matches: 491, Mismatches: 17, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
94 54 0.11
96 347 0.71
98 90 0.18
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTAT
ATATATGTGATAAGGCCTAATGGCCGATGTG
Found at i:59015701 original size:39 final size:39
Alignment explanation
Indices: 59015647--59015778 Score: 194
Period size: 39 Copynumber: 3.4 Consensus size: 39
59015637 TGCATGGTAT
59015647 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* *
59015686 TGGAAATATATCCGGACTTGAAGTCCGTAGGCTTTATGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
* * * *
59015725 TGGAAATATATCCGAACTTAAAGTCCGCAGGC-TAAGTGC
1 TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTA-TGC
59015764 TGGAAAAATATCCGG
1 TGGAAAAATATCCGG
59015779 GCTAAGTCCC
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
38 2 0.02
39 82 0.98
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (39 bp):
TGGAAAAATATCCGGACTTGAAGTCCGCAGGCTTTATGC
Found at i:59015803 original size:39 final size:39
Alignment explanation
Indices: 59015771--59015974 Score: 345
Period size: 39 Copynumber: 5.2 Consensus size: 39
59015761 TGCTGGAAAA
59015771 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
*
59015810 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
* * **
59015849 ATATCCGGGCTAAGTCCCGAAGACATTCGTGCTAGTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
**
59015888 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
59015927 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
59015966 ATATCCGGG
1 ATATCCGGG
59015975 GTTAAAGTCC
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 153 1.00
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTATT
Found at i:59015804 original size:78 final size:77
Alignment explanation
Indices: 59015654--59015973 Score: 306
Period size: 78 Copynumber: 4.1 Consensus size: 77
59015644 TATTGGAAAA
* * * *
59015654 ATATCCGGACTTGAAGTCCGCAGGCTTTA-TGCTGGAAATATATCCGGACTTGAAGT-CCGTAGG
1 ATATCCGGAC-T-AAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGGC-T-AAGTCCCGAAGG
** *
59015717 C-TTTATGCTGGAAAT
62 CATTCGTGCTGGTAAT
* * * *
59015732 ATATCCGAACTTAAAGTCCGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGAC-T-AAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCA
*
59015796 TTCGTGCTGGTATT
64 TTCGTGCTGGTAAT
* * * * *
59015810 ATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCCGAAGACAT
1 ATATCCGGACTAAGTCC-GAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCAT
* **
59015875 TCGTGCTAGTGCT
65 TCGTGCTGGTAAT
* * ***
59015888 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGACTAAGT-CCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCAT
*
59015953 TCGTGCTGGTATT
65 TCGTGCTGGTAAT
59015966 ATATCCGG
1 ATATCCGG
59015974 GGTTAAAGTC
Statistics
Matches: 208, Mismatches: 28, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
76 10 0.05
77 16 0.08
78 180 0.87
79 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (77 bp):
ATATCCGGACTAAGTCCGAAGGCATTAGTGCTGGAAATATATCCGGGCTAAGTCCCGAAGGCATT
CGTGCTGGTAAT
Found at i:59015853 original size:117 final size:117
Alignment explanation
Indices: 59015722--59015972 Score: 326
Period size: 117 Copynumber: 2.1 Consensus size: 117
59015712 GTAGGCTTTA
* * * * *
59015722 TGCTGGAAATATATCCGAACTTAAAGT-CCGCAGGC-TAAGTGCTGGAAAAATATCCGGGCTAAG
1 TGCTGGTATTATATCCGAAC-T-AAGTCCCGAAGACATAAGTGCTAGAAAAATATCCGGGCTAAG
* *
59015785 TCCCGAAGGCATTCGTGCTGGTATTATATCCGGGCTAAGTCCTGAAGGCATTCG
64 TCCCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCG
** ** ****
59015839 TGCTGGTATTATATCCGGGCTAAGTCCCGAAGACATTCGTGCTAGTGCTATATCCGGGCTAAGTC
1 TGCTGGTATTATATCCGAACTAAGTCCCGAAGACATAAGTGCTAGAAAAATATCCGGGCTAAGTC
*
59015904 CCGAAGGCATTCGTGCTGGCGTTATATCCGGGCTAAGTCCCGAAGGCATTCG
66 CCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCG
59015956 TGCTGGTATTATATCCG
1 TGCTGGTATTATATCCG
59015973 GGGTTAAAGT
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
115 4 0.03
116 7 0.06
117 105 0.91
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (117 bp):
TGCTGGTATTATATCCGAACTAAGTCCCGAAGACATAAGTGCTAGAAAAATATCCGGGCTAAGTC
CCGAAGGCATTCGTGCTGGCATTATATCCGGGCTAAGTCCCGAAGGCATTCG
Found at i:59020198 original size:16 final size:16
Alignment explanation
Indices: 59020177--59020211 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
59020167 AGTAAAGTTG
59020177 CTTGCATCCCACATAA
1 CTTGCATCCCACATAA
59020193 CTTGCATCCCACATAA
1 CTTGCATCCCACATAA
59020209 CTT
1 CTT
59020212 TAAATGGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.29, C:0.37, G:0.06, T:0.29
Consensus pattern (16 bp):
CTTGCATCCCACATAA
Found at i:59028668 original size:47 final size:47
Alignment explanation
Indices: 59028616--59029115 Score: 781
Period size: 47 Copynumber: 10.6 Consensus size: 47
59028606 GATAATTGTG
* *
59028616 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
59028663 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59028710 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59028759 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAA-GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59028807 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59028854 ATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
59028902 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59028951 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCC-ATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59028997 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
59029044 ATGTGAAAGTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
59029090 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
59029116 TCCCGAAGGG
Statistics
Matches: 424, Mismatches: 21, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 83 0.20
47 160 0.38
48 91 0.21
49 88 0.21
50 2 0.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:59028782 original size:144 final size:143
Alignment explanation
Indices: 59028616--59029115 Score: 832
Period size: 144 Copynumber: 3.5 Consensus size: 143
59028606 GATAATTGTG
59028616 ATGTG-AATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
59028680 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
59028745 GGCCGATGTGATGA
130 GGCCGATGTGATGA
59028759 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
59028824 TGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG-CTAAT
66 TGTGATAAGGCCGAATGGCC-ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
59028888 GGCCGATGTGATGA
130 GGCCGATGTGATGA
59028902 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * *
59028967 ATGTGATAAGGCCTAATAGCCATGTGATGAATGTGAAAGTG--TATATATGTGATGAGGCCTAAT
65 ATGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT
59029030 GGCCGATGTGATGA
130 GGCCGATGTGATGA
* * * * * * * *
59029044 ATGTGAAA-GTGTATATATGTGA-CAGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
59029107 TGTGATAAG
66 TGTGATAAG
59029116 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 12, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
139 43 0.13
140 13 0.04
141 15 0.04
142 27 0.08
143 52 0.15
144 192 0.56
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (143 bp):
ATGTGAAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:59028845 original size:95 final size:94
Alignment explanation
Indices: 59028616--59029115 Score: 781
Period size: 95 Copynumber: 5.3 Consensus size: 94
59028606 GATAATTGTG
* *
59028616 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
59028681 GTGATAAGGCCGAATGGCCAATGTGATGA
66 GTGATAAGGCCTAATGGCCAATGTGATGA
*
59028710 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATGTATATA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-GTGTATA
*
59028775 TATGTGATAAGGCCTAATGGCCGATGTGATGA
63 TATGTGATAAGGCCTAATGGCCAATGTGATGA
*
59028807 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATAT
*
59028872 ATGTGATAAGG-CTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCAATGTGATGA
59028902 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
59028967 ATGTGATAAGGCCTAATAGCC-ATGTGATGA
64 ATGTGATAAGGCCTAATGGCCAATGTGATGA
*
59028997 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
59029062 GTGA-CAGGCCGAGTGGCCAACGTGATGG
66 GTGATAAGGCCTAATGGCCAATGTGATGA
*
59029090 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
59029116 TCCCGAAGGG
Statistics
Matches: 379, Mismatches: 18, Indels: 19
0.91 0.04 0.05
Matches are distributed among these distances:
92 10 0.03
93 88 0.23
94 11 0.03
95 109 0.29
96 68 0.18
97 93 0.25
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCAATGTGATGA
Found at i:59037419 original size:30 final size:28
Alignment explanation
Indices: 59037364--59037419 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 28
59037354 CACTAAGCAA
*
59037364 GTTTCATATACATGTATCACCATTTCAT
1 GTTTCATATACATGTATCACAATTTCAT
59037392 GTTTCAATATATCATGTAAT-ACAATTTC
1 GTTTC-ATATA-CATGT-ATCACAATTTC
59037420 CATTTATTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 5 0.21
29 5 0.21
30 12 0.50
31 2 0.08
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (28 bp):
GTTTCATATACATGTATCACAATTTCAT
Found at i:59037940 original size:21 final size:21
Alignment explanation
Indices: 59037915--59037956 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
59037905 AGATCTATAC
59037915 AGATAAATTTAACTCAATTTA
1 AGATAAATTTAACTCAATTTA
* * *
59037936 AGATATATTTCATTCAATTTA
1 AGATAAATTTAACTCAATTTA
59037957 GTCCAACACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.43
Consensus pattern (21 bp):
AGATAAATTTAACTCAATTTA
Found at i:59040679 original size:21 final size:20
Alignment explanation
Indices: 59040653--59040711 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
59040643 AATGATTCTC
59040653 TTCAATCGATTGTTTTGTTGT
1 TTCAATCGATTGTTTTGTT-T
* *
59040674 TTCAATTGATTGTTATGTTT
1 TTCAATCGATTGTTTTGTTT
* *
59040694 TTCAATCAATTATTTTGT
1 TTCAATCGATTGTTTTGT
59040712 AATGCCCCAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.20, C:0.08, G:0.14, T:0.58
Consensus pattern (20 bp):
TTCAATCGATTGTTTTGTTT
Found at i:59048647 original size:12 final size:14
Alignment explanation
Indices: 59048630--59048661 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59048620 TTGAGAACAC
59048630 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
59048642 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
59048656 ATGTGT
1 ATGTGT
59048662 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:59048744 original size:50 final size:50
Alignment explanation
Indices: 59048627--59048855 Score: 192
Period size: 50 Copynumber: 4.7 Consensus size: 50
59048617 TTTTTGAGAA
* * * *** *
59048627 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* *
59048679 CACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * **
59048729 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-GACA---ACTT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATAGTTAGGT
*
59048776 CA-A----T--CACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* *
59048819 CACATGTGTAGTACTAAGTGGAGGCTACTATGTGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
59048856 TCGACAACTT
Statistics
Matches: 138, Mismatches: 27, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
39 1 0.01
40 26 0.19
42 1 0.01
43 4 0.03
44 1 0.01
46 1 0.01
47 3 0.02
48 1 0.01
50 64 0.46
51 1 0.01
52 35 0.25
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:59048802 original size:90 final size:90
Alignment explanation
Indices: 59048691--59048869 Score: 322
Period size: 90 Copynumber: 2.0 Consensus size: 90
59048681 CGTGTGTAGT
*
59048691 ACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTA
1 ACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTA
59048756 CTATGCGTACTCGACAACTTCAATC
66 CTATGCGTACTCGACAACTTCAATC
* *
59048781 ACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGGAGGCTA
1 ACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTA
*
59048846 CTATGTGTACTCGACAACTTCAAT
66 CTATGCGTACTCGACAACTTCAAT
59048870 TACGTGTGTA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (90 bp):
ACTAAGTGCAAGCTACTACGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTA
CTATGCGTACTCGACAACTTCAATC
Found at i:59054890 original size:40 final size:40
Alignment explanation
Indices: 59054830--59055030 Score: 321
Period size: 40 Copynumber: 5.0 Consensus size: 40
59054820 AGAATTGAGA
*
59054830 GTTACATCCGGGCTAAGTCCCGAAGAGCCTTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
*
59054870 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
59054910 GTTACATCCAGGCTAAGTCCTGAAGAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* *
59054950 GTTATATCCGGGCTAAGTCCCGAAAAGCATTCGTGCTGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
59054990 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGCCGGT
1 GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
59055030 G
1 G
59055031 ATGTGTAATC
Statistics
Matches: 147, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 147 1.00
ACGTcount: A:0.20, C:0.24, G:0.30, T:0.26
Consensus pattern (40 bp):
GTTACATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:59058086 original size:46 final size:46
Alignment explanation
Indices: 59058036--59058211 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
59058026 TGGTTGAGCA
59058036 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
59058082 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
59058127 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
59058175 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
59058212 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 62 0.57
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:59058192 original size:93 final size:93
Alignment explanation
Indices: 59058033--59058204 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
59058023 GGATGGTTGA
* *
59058033 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
59058098 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
59058126 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
59058191 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
59058205 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59065356 original size:6 final size:6
Alignment explanation
Indices: 59065345--59065401 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
59065335 ATTATGTTAC
59065345 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
1 ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT ATGTAT
59065393 ATGTAT ATG
1 ATGTAT ATG
59065402 AGAGTTAAGT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (6 bp):
ATGTAT
Found at i:59065995 original size:15 final size:14
Alignment explanation
Indices: 59065976--59066016 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
59065966 ATTTTCTTGT
*
59065976 TTTGGATTTCTTTA
1 TTTGGATTTCTATA
59065990 TGTTGGATTTCTATA
1 T-TTGGATTTCTATA
59066005 TTCTGGATTTCT
1 TT-TGGATTTCT
59066017 CCGTTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 2 0.08
15 22 0.92
ACGTcount: A:0.15, C:0.10, G:0.17, T:0.59
Consensus pattern (14 bp):
TTTGGATTTCTATA
Found at i:59069199 original size:96 final size:96
Alignment explanation
Indices: 59069033--59069226 Score: 293
Period size: 96 Copynumber: 2.0 Consensus size: 96
59069023 TCACTTCTTT
* *
59069033 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAGCCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
* *
59069098 GTCTGCTCCATCGTTCCCT-TCGAT-GACAGAC
66 ATCTGCTCCATCATT-CCTATCGATAG-CAGAC
* *
59069129 TTGCTCCTCTTTGCCCTCTTGGCTTCGGCTTTTCCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
1 TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
*
59069194 ATCTGCTCGATCATTCCTATCGATAGCAGAC
66 ATCTGCTCCATCATTCCTATCGATAGCAGAC
59069225 TT
1 TT
59069227 CCTCGGACAC
Statistics
Matches: 89, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
95 3 0.03
96 85 0.96
97 1 0.01
ACGTcount: A:0.11, C:0.34, G:0.19, T:0.36
Consensus pattern (96 bp):
TTGCTCCTCTTAGCCCTCTTGGCTTCGGCTTTACCCTTGCTCGAACCAAGCTTCTTGGGCTCCGT
ATCTGCTCCATCATTCCTATCGATAGCAGAC
Found at i:59072140 original size:50 final size:50
Alignment explanation
Indices: 59072070--59072190 Score: 197
Period size: 50 Copynumber: 2.4 Consensus size: 50
59072060 TAAGATGGTT
* * * *
59072070 TTAGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACGAAATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
*
59072120 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
1 TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
59072170 TTAGGTCGCATGTGTAGTACT
1 TTAGGTCGCATGTGTAGTACT
59072191 GTAACCCCCC
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 66 1.00
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAG
Found at i:59075202 original size:32 final size:31
Alignment explanation
Indices: 59075100--59075202 Score: 73
Period size: 32 Copynumber: 3.2 Consensus size: 31
59075090 ATATTTACCC
* * *
59075100 AAGGCTGTGTGCCGATTATATTACCGT-CGTTG
1 AAGGCTTTGTGCCAATTATAATACCGTAC--TG
* * ** * *
59075132 ATGGCTATGTGCCAAACATAATACAGTTACCG
1 AAGGCTTTGTGCCAATTATAATACCG-TACTG
*
59075164 ATGGCTTTGTGCCAATTATAATACCGCTACTG
1 AAGGCTTTGTGCCAATTATAATACCG-TACTG
59075196 AAGGCTT
1 AAGGCTT
59075203 AGAGCTGCAT
Statistics
Matches: 54, Mismatches: 15, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
32 52 0.96
33 1 0.02
34 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.31
Consensus pattern (31 bp):
AAGGCTTTGTGCCAATTATAATACCGTACTG
Found at i:59076205 original size:49 final size:50
Alignment explanation
Indices: 59076078--59076207 Score: 136
Period size: 50 Copynumber: 2.6 Consensus size: 50
59076068 ACAACTTCAA
* * * * **
59076078 TCACGTGTGTAGTACTAAGCGTAGGATACTACGTGTATTAGATGGTTAGG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
* * * * *
59076128 TCACGTATGTAGTACCAAGTGCAAGCTACTACGTGTACCAGATTGTT-GG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
* *
59076177 TCGCATGTGTAGTACTAAGTACAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
59076208 TACATACCAG
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
49 27 0.42
50 38 0.58
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGG
Found at i:59080553 original size:21 final size:21
Alignment explanation
Indices: 59080524--59080563 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
59080514 TGAAATGATT
*
59080524 CTTTTCAATCAATTGTTTTCA
1 CTTTACAATCAATTGTTTTCA
**
59080545 CTTTACAATTGATTGTTTT
1 CTTTACAATCAATTGTTTT
59080564 GTTGTTTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.15, G:0.07, T:0.55
Consensus pattern (21 bp):
CTTTACAATCAATTGTTTTCA
Found at i:59080649 original size:24 final size:24
Alignment explanation
Indices: 59080615--59080661 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
59080605 TCCGTCGCCG
59080615 GACTAGAGTTATGAGGCATTACCA
1 GACTAGAGTTATGAGGCATTACCA
*
59080639 GACTAGGGTTATGAGGCATTACC
1 GACTAGAGTTATGAGGCATTACC
59080662 GAACATAACG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (24 bp):
GACTAGAGTTATGAGGCATTACCA
Found at i:59086259 original size:199 final size:198
Alignment explanation
Indices: 59085919--59086315 Score: 785
Period size: 199 Copynumber: 2.0 Consensus size: 198
59085909 TCATACTTAA
59085919 ACATCATACATGTCACCAAGGATTCAAAGACAACAATATCATAATTTTTAAAACCTCTAACCTCA
1 ACATCATACATGTCACCAAGGATTCAAAGACAACAATATCATAATTTTTAAAACCTCTAACCTCA
59085984 TCATAACAATGATTAGAGGCCATTACACATCAAGAACGCTAATATCGTAAGACATCATAAAAGAA
66 TCATAACAATGATTAGAGGCCATTACACATCAAGAACGCTAATATCGTAAGACATCATAAAAGAA
59086049 AGTCTTGAAAGCCATGTTAGTGAGACAAAATAACAAAAACCCAGATAAAAAATCAGCTTTAATTA
131 AGTCTTGAAAGCCATGTTAGTGAGACAAAATAAC-AAAACCCAGATAAAAAATCAGCTTTAATTA
59086114 AAAG
195 AAAG
59086118 ACATCATACATGTCACCAAGGATTCAAAGACAACAATATCATAATTTTTAAAACCTCTAACCTCA
1 ACATCATACATGTCACCAAGGATTCAAAGACAACAATATCATAATTTTTAAAACCTCTAACCTCA
59086183 TCATAACAATGATTAGAGGCCATTACACATCAAGAACGCTAATATCGTAAGACATCATAAAAGAA
66 TCATAACAATGATTAGAGGCCATTACACATCAAGAACGCTAATATCGTAAGACATCATAAAAGAA
59086248 AGTCTTGAAAGCCATGTTAGTGAGACAAAATAACAAAACCCAGATAAAAAATCAGCTTTAATTAA
131 AGTCTTGAAAGCCATGTTAGTGAGACAAAATAACAAAACCCAGATAAAAAATCAGCTTTAATTAA
59086313 AAG
196 AAG
59086316 GAAAAGAAAA
Statistics
Matches: 198, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
198 34 0.17
199 164 0.83
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (198 bp):
ACATCATACATGTCACCAAGGATTCAAAGACAACAATATCATAATTTTTAAAACCTCTAACCTCA
TCATAACAATGATTAGAGGCCATTACACATCAAGAACGCTAATATCGTAAGACATCATAAAAGAA
AGTCTTGAAAGCCATGTTAGTGAGACAAAATAACAAAACCCAGATAAAAAATCAGCTTTAATTAA
AAG
Found at i:59086626 original size:6 final size:6
Alignment explanation
Indices: 59086615--59086646 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
59086605 CTGATTCCCT
59086615 CACTCA CACTCA CACTCA CACTCA CACTCA CA
1 CACTCA CACTCA CACTCA CACTCA CACTCA CA
59086647 GTGGGTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.50, G:0.00, T:0.16
Consensus pattern (6 bp):
CACTCA
Found at i:59092455 original size:22 final size:23
Alignment explanation
Indices: 59092407--59092457 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
59092397 TTGAACTTTA
* *
59092407 TAATAACATACATACTACATGTT
1 TAATAACATAAATACTACATGCT
59092430 TAATACACATAAATA-TA-ATGCT
1 TAATA-ACATAAATACTACATGCT
59092452 TAATAA
1 TAATAA
59092458 TAATTTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 1 0.04
22 9 0.36
23 7 0.28
24 8 0.32
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (23 bp):
TAATAACATAAATACTACATGCT
Found at i:59092496 original size:19 final size:20
Alignment explanation
Indices: 59092473--59092517 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
59092463 TATAAATTTC
*
59092473 ATAATAGTGT-AATA-ATAT
1 ATAATAGTATAAATATATAT
59092491 ATTAATAGTATAAATATATAT
1 A-TAATAGTATAAATATATAT
59092512 ATAATA
1 ATAATA
59092518 AAATAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 1 0.04
19 8 0.35
20 9 0.39
21 5 0.22
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
ATAATAGTATAAATATATAT
Found at i:59092668 original size:7 final size:6
Alignment explanation
Indices: 59092658--59092805 Score: 55
Period size: 6 Copynumber: 24.5 Consensus size: 6
59092648 ATAATATGTA
*
59092658 ATAAGAT ATAAAT ATATGAT A-AAAT ATAAA- AT-AAT AT-AAT AT-AAT
1 ATAA-AT ATAAAT ATA-AAT ATAAAT ATAAAT ATAAAT ATAAAT ATAAAT
* * * *
59092703 AT-AAT ATATAAT GTATAT -TAAAAC ATAAAT AATATAAT ATATAT AT-AAT
1 ATAAAT ATA-AAT ATAAAT AT-AAAT ATAAAT -ATA-AAT ATAAAT ATAAAT
* * *
59092752 A-ATAT AAAAAT ATAAA- ATAATAT ATACTAAT AAATAAT ATAATAT ATAAAT
1 ATAAAT ATAAAT ATAAAT ATAA-AT ATA--AAT ATA-AAT ATAA-AT ATAAAT
59092803 ATA
1 ATA
59092806 CTTGAAAATA
Statistics
Matches: 111, Mismatches: 14, Indels: 33
0.70 0.09 0.21
Matches are distributed among these distances:
4 2 0.02
5 33 0.30
6 34 0.31
7 34 0.31
8 7 0.06
9 1 0.01
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (6 bp):
ATAAAT
Found at i:59092693 original size:10 final size:10
Alignment explanation
Indices: 59092680--59092829 Score: 78
Period size: 10 Copynumber: 14.6 Consensus size: 10
59092670 TATATGATAA
59092680 AATATAAAAT
1 AATATAAAAT
*
59092690 AATATAATAT
1 AATATAAAAT
59092700 AATATAATATAT
1 AATATAA-A-AT
* * *
59092712 AATGTATATT
1 AATATAAAAT
* *
59092722 AAAACATAAAT
1 AATATA-AAAT
*
59092733 AATATAATAT
1 AATATAAAAT
*
59092743 -ATATATAAT
1 AATATAAAAT
59092752 AATAT-AAA-
1 AATATAAAAT
59092760 AATATAAAAT
1 AATATAAAAT
59092770 AATATATACTAAT
1 AATATA-A--AAT
*
59092783 AA-ATAATAT
1 AATATAAAAT
59092792 AATATATAAAT
1 AATATA-AAAT
59092803 -ATACTTGAAAAT
1 AATA--T-AAAAT
*
59092815 AACA-AAAAT
1 AATATAAAAT
59092824 AATATA
1 AATATA
59092830 CAGATAAATA
Statistics
Matches: 104, Mismatches: 20, Indels: 32
0.67 0.13 0.21
Matches are distributed among these distances:
8 5 0.05
9 24 0.23
10 40 0.38
11 12 0.12
12 15 0.14
13 8 0.08
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
AATATAAAAT
Found at i:59092696 original size:5 final size:5
Alignment explanation
Indices: 59092663--59092805 Score: 85
Period size: 5 Copynumber: 30.0 Consensus size: 5
59092653 ATGTAATAAG
* * *
59092663 ATATA A-AT- ATATG ATAAA ATATA AAATA ATATA ATATA ATATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* * * *
59092710 ATA-A TGTATA TTAAA ACATA A-ATA ATATA ATAT- ATAT- ATAATA ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
*
59092758 A-A-A ATATA AAATA ATAT- ATACTA ATAAATA ATATA ATAT- ATA-A
1 ATATA ATATA ATATA ATATA ATA-TA AT--ATA ATATA ATATA ATATA
59092801 ATATA
1 ATATA
59092806 CTTGAAAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
3 3 0.03
4 28 0.26
5 68 0.62
6 5 0.05
7 4 0.04
8 1 0.01
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (5 bp):
ATATA
Found at i:59092823 original size:54 final size:54
Alignment explanation
Indices: 59092727--59092829 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
59092717 ATATTAAAAC
* *
59092727 ATAAATAATATAATATATATATAATAATATAAAAATATAAAATAATATATACTA
1 ATAAATAATATAATATATAAATAATAATATAAAAATAAAAAATAATATATACTA
* *
59092781 ATAAATAATATAATATATAAAT-ATACT-TGAAAATAACAAAAATAATATA
1 ATAAATAATATAATATATAAATAATAATATAAAAAT-A-AAAAATAATATA
59092830 CAGATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
52 6 0.14
53 5 0.12
54 32 0.74
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (54 bp):
ATAAATAATATAATATATAAATAATAATATAAAAATAAAAAATAATATATACTA
Found at i:59092900 original size:15 final size:16
Alignment explanation
Indices: 59092863--59092893 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
59092853 ATAAATAAAT
59092863 AATAAATAATATTTAA
1 AATAAATAATATTTAA
59092879 AATAAATAA-ATTTAA
1 AATAAATAATATTTAA
59092894 GAAAAATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATAAATAATATTTAA
Found at i:59095355 original size:57 final size:57
Alignment explanation
Indices: 59095267--59095381 Score: 212
Period size: 57 Copynumber: 2.0 Consensus size: 57
59095257 AATTTCCTAA
*
59095267 CTCTGCATGCAAAAATTCACTATTAGGAAAATATTTAGCCTTTAAATTTGTAACGCC
1 CTCTGCATGCAAAAATTCACTATTAGGAAAATATTTAGCCTTTAAAGTTGTAACGCC
*
59095324 CTCTGCATGCAAAAATTCACTATTAGGAAAATATTTAGCCTTTAAAGTTGTGACGCC
1 CTCTGCATGCAAAAATTCACTATTAGGAAAATATTTAGCCTTTAAAGTTGTAACGCC
59095381 C
1 C
59095382 CCTTTTGAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (57 bp):
CTCTGCATGCAAAAATTCACTATTAGGAAAATATTTAGCCTTTAAAGTTGTAACGCC
Found at i:59098914 original size:14 final size:16
Alignment explanation
Indices: 59098890--59098926 Score: 53
Period size: 14 Copynumber: 2.5 Consensus size: 16
59098880 ATTTAGAAAA
59098890 TAATATAATATAT-AT
1 TAATATAATATATGAT
59098905 TAAT-TAATATATGAT
1 TAATATAATATATGAT
59098920 T-ATATAA
1 TAATATAA
59098927 AATTTATGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (16 bp):
TAATATAATATATGAT
Found at i:59101071 original size:38 final size:38
Alignment explanation
Indices: 59101020--59101094 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
59101010 ACATTTTACA
59101020 TGCTTATATGATGAATCTTTTTAAGTATTTCACATACG
1 TGCTTATATGATGAATCTTTTTAAGTATTTCACATACG
59101058 TGCTTATATGATGAATCTTTTTAAGTATTTCACATAC
1 TGCTTATATGATGAATCTTTTTAAGTATTTCACATAC
59101095 ATTATCAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.45
Consensus pattern (38 bp):
TGCTTATATGATGAATCTTTTTAAGTATTTCACATACG
Found at i:59101953 original size:44 final size:44
Alignment explanation
Indices: 59101898--59101989 Score: 141
Period size: 44 Copynumber: 2.1 Consensus size: 44
59101888 CCAATGTAAC
* *
59101898 AGTAGCAGTACGACACATATGGTGCCTCATCAACTCGAA-GTCGA
1 AGTAACAGTACGACACATATAGTGCCTCATCAACTC-AAGGTCGA
*
59101942 AGTAACAGTACGACACTTATAGTGCCTCATCAACTCAAGGTCGA
1 AGTAACAGTACGACACATATAGTGCCTCATCAACTCAAGGTCGA
59101986 AGTA
1 AGTA
59101990 TCCTTGAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 2 0.05
44 42 0.95
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.22
Consensus pattern (44 bp):
AGTAACAGTACGACACATATAGTGCCTCATCAACTCAAGGTCGA
Found at i:59104121 original size:68 final size:68
Alignment explanation
Indices: 59103989--59104183 Score: 284
Period size: 68 Copynumber: 2.8 Consensus size: 68
59103979 CGATTTATCT
* * * * *
59103989 CGTAGCTCTCTTGTCTACATGGTG-TCCTTCACTTGGAATCACTCATGCGACCTAGCTACATTTA
1 CGTAGCTCTCTTGTCTACATGG-GATACAT--CTT-GTATCACACATGTGACCTAGCTACATTTA
59104053 TCTCTCA
62 TCTCTCA
59104060 CGTAGCTCTCTTGTCTACATGGGATACATCTTGTATCACACATGTGACCTAGCTACATTTATCTC
1 CGTAGCTCTCTTGTCTACATGGGATACATCTTGTATCACACATGTGACCTAGCTACATTTATCTC
59104125 TCA
66 TCA
**
59104128 CGTAGCTCTCTTGTCTACATGGGATACATCCCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGGATACATCTTGTATCACACATGTGACCTAGCTAC
59104184 TATATAGTAT
Statistics
Matches: 116, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 87 0.75
69 3 0.03
70 1 0.01
71 25 0.22
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.33
Consensus pattern (68 bp):
CGTAGCTCTCTTGTCTACATGGGATACATCTTGTATCACACATGTGACCTAGCTACATTTATCTC
TCA
Found at i:59104200 original size:68 final size:67
Alignment explanation
Indices: 59104026--59104209 Score: 246
Period size: 68 Copynumber: 2.7 Consensus size: 67
59104016 TTCACTTGGA
* * * *
59104026 ATCACTCATGCGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
*
59104091 TGT
65 CGT
*
59104094 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATATCT-ACGTAGCTCTCTTGTCTACATGGGATACATCC
59104159 CGT
65 CGT
*
59104162 ATCACACATGTGACCTAGCTACTATATAGTATCT-CGTAGC-CTTCTTGT
1 ATCACACATGTGACCTAGCTAC-ATTTA-TATCTACGTAGCTC-TCTTGT
59104210 ACACATGATG
Statistics
Matches: 107, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
67 1 0.01
68 98 0.92
69 4 0.04
70 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.15, T:0.34
Consensus pattern (67 bp):
ATCACACATGTGACCTAGCTACATTTATATCTACGTAGCTCTCTTGTCTACATGGGATACATCCC
GT
Found at i:59105761 original size:12 final size:12
Alignment explanation
Indices: 59105744--59105777 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
59105734 AAAACCTTAA
59105744 TTTTTCCTTTTC
1 TTTTTCCTTTTC
59105756 TTTTT-CTTTTC
1 TTTTTCCTTTTC
59105767 TTCTTTCCTTT
1 TT-TTTCCTTT
59105778 CTCCCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 8 0.40
12 8 0.40
13 4 0.20
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCCTTTTC
Found at i:59107244 original size:21 final size:19
Alignment explanation
Indices: 59107201--59107245 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
59107191 ATTAATATGA
*
59107201 AATTATTCAAATCAACATG
1 AATTATTCAAATCAACATC
*
59107220 AATTATTCAATATTCAATATC
1 AATTATTCAA-A-TCAACATC
59107241 AATTA
1 AATTA
59107246 ACATACTCTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 10 0.45
20 1 0.05
21 11 0.50
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.38
Consensus pattern (19 bp):
AATTATTCAAATCAACATC
Found at i:59118444 original size:13 final size:12
Alignment explanation
Indices: 59118421--59118450 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
59118411 CTATTTAATG
59118421 TTATTAGGATAA
1 TTATTAGGATAA
59118433 TTATTAAGGATAA
1 TTATT-AGGATAA
59118446 TTATT
1 TTATT
59118451 TAGATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (12 bp):
TTATTAGGATAA
Done.