Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 173 of 325
Found at i:56247646 original size:81 final size:81
Alignment explanation
Indices: 56247511--56247663 Score: 243
Period size: 81 Copynumber: 1.9 Consensus size: 81
56247501 GGATAAGTTG
* *
56247511 TAGAATTACCGAAATACCTTTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCTGTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
56247576 AAATACCCCTGTAGGA
66 AAATACCCCTGTAGGA
* * * *
56247592 TAGAATTACTAAAATACCTGTGTAGGGTAGAAATATCGACATACCCCTGTAGGGTAGAATTACCG
1 TAGAATTACCAAAATACCTGTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
*
56247657 AGATACC
66 AAATACC
56247664 TAGGGTGTTA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 65 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (81 bp):
TAGAATTACCAAAATACCTGTGTAGGGTAGAAATACCAAAATACCCCTGTAGGGTAGAATTACCG
AAATACCCCTGTAGGA
Found at i:56250294 original size:118 final size:117
Alignment explanation
Indices: 56250102--56250368 Score: 418
Period size: 118 Copynumber: 2.3 Consensus size: 117
56250092 ACTTGGAAGT
* *
56250102 ATATGTGACTCCGATATATGTGTGCGAGTAAG-----TCAACGTTTCATACGTTGGCATCGATAT
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACTCAACGGTTCATACGTTGGCATCGATAT
* * *
56250162 GTTACTCTGATATATGTGTGTGAGTAAGTCCACGTTTCATACGTTGGCATCG
66 GTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
*
56250214 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATCCACGGTTCATACGTTGGCATCGATA
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCAC-TCAACGGTTCATACGTTGGCATCGATA
*
56250279 TGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATATGTTGGCATCG
65 TGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
*
56250332 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCAC
1 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCAC
56250369 GTTTTGTACG
Statistics
Matches: 141, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
112 31 0.22
118 110 0.78
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (117 bp):
ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACTCAACGGTTCATACGTTGGCATCGATAT
GTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATACGTTGGCATCG
Found at i:56250416 original size:56 final size:56
Alignment explanation
Indices: 56250102--56250422 Score: 417
Period size: 56 Copynumber: 5.6 Consensus size: 56
56250092 ACTTGGAAGT
* * * *
56250102 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCAACGTTTCATACGTTGGCATCG
1 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCG
* *
56250158 ATATGTTACTCTGATATATGTGTGTGAGTAAGTCCACGTTTCATACGTTGGCATCG
1 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCG
* *
56250214 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACATCCACGGTTCATACGTTGGCATCG
1 ATATGTGACTCTGATATATGTGTGTGAGTAAG-----A-CCACGTTTCATACGTTGGCATCG
* *
56250276 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATATGTTGGCATCG
1 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCG
** *
56250332 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTTGTACGTTGGCATCA
1 ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCG
* * * * * *
56250388 AAATGTGATTCCGATATGTGTTTATGAGTAAGACC
1 ATATGTGACTCTGATATATGTGTGTGAGTAAGACC
56250423 TTGTTTGGGG
Statistics
Matches: 238, Mismatches: 21, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
56 183 0.77
57 1 0.00
62 54 0.23
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (56 bp):
ATATGTGACTCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCG
Found at i:56250419 original size:174 final size:174
Alignment explanation
Indices: 56250102--56250422 Score: 498
Period size: 174 Copynumber: 1.8 Consensus size: 174
56250092 ACTTGGAAGT
* *
56250102 ATATGTGACTCCGATATATGTGTGCGAGTAAGTCAACGTTTCATACGTTGGCATCGATATGTTAC
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACAACGTTTCATACGTTGGCATCGATATGTGAC
* * * *
56250167 TCTGATATATGTGTGTGAGTAAGTCCACGTTTCATACGTTGGCATCGATATGTGACTCTGATATA
66 TCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCAAAATGTGACTCCGATATA
*
56250232 TGTGTGCGAGTAAGACCACATCCACGGTTCATACGTTGGCATCG
131 TGTGTACGAGTAAGACCACATCCACGGTTCATACGTTGGCATCG
* * *
56250276 ATATGTGACTCTGATATATGTGTGCGAGTAAGACCACGTTTCATATGTTGGCATCGATATGTGAC
1 ATATGTGACTCCGATATATGTGTGCGAGTAAGACAACGTTTCATACGTTGGCATCGATATGTGAC
** * *
56250341 TCTGATATATGTGTGTGAGTAAGACCACGTTTTGTACGTTGGCATCAAAATGTGATTCCGATATG
66 TCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCAAAATGTGACTCCGATATA
* *
56250406 TGTTTATGAGTAAGACC
131 TGTGTACGAGTAAGACC
56250423 TTGTTTGGGG
Statistics
Matches: 131, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
174 131 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.34
Consensus pattern (174 bp):
ATATGTGACTCCGATATATGTGTGCGAGTAAGACAACGTTTCATACGTTGGCATCGATATGTGAC
TCTGATATATGTGTGTGAGTAAGACCACGTTTCATACGTTGGCATCAAAATGTGACTCCGATATA
TGTGTACGAGTAAGACCACATCCACGGTTCATACGTTGGCATCG
Found at i:56256886 original size:48 final size:48
Alignment explanation
Indices: 56256830--56257023 Score: 289
Period size: 48 Copynumber: 4.0 Consensus size: 48
56256820 CACGATGTCC
* * * *
56256830 CATATCGATGCCAATGCCATATCACAGATATGGTCTTACATGGGATCC
1 CATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
*
56256878 CATATCGATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
* * *
56256926 CATATCAATGCCAATGCGATGTCCCAGACATGGTCTTATATGGGATCA
1 CATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
* * *
56256974 CATATCGATGCTAATGCCATGTCCTAGTCATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
56257022 CA
1 CA
56257024 CATAATCTTA
Statistics
Matches: 131, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 131 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
Found at i:56261327 original size:20 final size:20
Alignment explanation
Indices: 56261299--56261345 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
56261289 TGACAATGTT
56261299 TAAGTTGTGAAAGACTATGG
1 TAAGTTGTGAAAGACTATGG
* *
56261319 TATGTTGTGAAAGATTATGG
1 TAAGTTGTGAAAGACTATGG
56261339 TAAGTTG
1 TAAGTTG
56261346 CAAGTTGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.30, T:0.36
Consensus pattern (20 bp):
TAAGTTGTGAAAGACTATGG
Found at i:56262773 original size:13 final size:13
Alignment explanation
Indices: 56262755--56262780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56262745 TTTTTTTTAT
56262755 AAAATAATTAAAG
1 AAAATAATTAAAG
56262768 AAAATAATTAAAG
1 AAAATAATTAAAG
56262781 TGCACTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (13 bp):
AAAATAATTAAAG
Found at i:56278234 original size:24 final size:24
Alignment explanation
Indices: 56278201--56278262 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
56278191 AGGAACTATA
* *
56278201 TAACAAGATGCTCGAGAATATTTT
1 TAACAGGATGCTCGAGAAGATTTT
* * *
56278225 TAACAGGATGCTTGATAAGGTTTT
1 TAACAGGATGCTCGAGAAGATTTT
*
56278249 TAATAGGATGCTCG
1 TAACAGGATGCTCG
56278263 TCCGAGCTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (24 bp):
TAACAGGATGCTCGAGAAGATTTT
Found at i:56279232 original size:33 final size:33
Alignment explanation
Indices: 56279190--56279256 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
56279180 TTCAAATTTT
56279190 TCCATGGATGATTCATCAAAAATATCTACTAAC
1 TCCATGGATGATTCATCAAAAATATCTACTAAC
*
56279223 TCCATGGATGATTCATCAAAAATATCTATTAAC
1 TCCATGGATGATTCATCAAAAATATCTACTAAC
56279256 T
1 T
56279257 TTTCTTTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (33 bp):
TCCATGGATGATTCATCAAAAATATCTACTAAC
Found at i:56288623 original size:82 final size:81
Alignment explanation
Indices: 56288507--56288662 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
56288497 AAATTGTACA
* * * *
56288507 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
56288571 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56288588 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
56288653 TGCGAGTTGA
65 TGCGAATTGA
56288663 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56288630 original size:55 final size:52
Alignment explanation
Indices: 56288506--56288659 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
56288496 TAAATTGTAC
* *
56288506 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
56288559 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
56288614 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
56288660 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:56288664 original size:27 final size:27
Alignment explanation
Indices: 56288507--56288662 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
56288497 AAATTGTACA
*
56288507 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
56288534 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
56288561 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
56288588 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
56288616 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
56288643 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
56288663 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:56288673 original size:27 final size:27
Alignment explanation
Indices: 56288499--56288683 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
56288489 GCGGGATTAA
*
56288499 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
56288526 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
56288553 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
56288580 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
56288608 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
56288635 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
56288662 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
56288684 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:56288674 original size:82 final size:81
Alignment explanation
Indices: 56288499--56288683 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
56288489 GCGGGATTAA
* * * *
56288499 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
56288564 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
56288580 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
56288644 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
56288662 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
56288684 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:56296527 original size:82 final size:81
Alignment explanation
Indices: 56296411--56296566 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
56296401 AAATTGTACA
* * * *
56296411 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
56296475 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56296492 GCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
56296557 TGCGAGTTGA
65 TGCGAATTGA
56296567 TTGTATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 18 0.28
82 47 0.72
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56296534 original size:55 final size:52
Alignment explanation
Indices: 56296410--56296563 Score: 175
Period size: 55 Copynumber: 2.9 Consensus size: 52
56296400 TAAATTGTAC
* *
56296410 AGCACTAAGTGTGCG-ATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATG
1 AGCACTAAGTGTGCGAATT-GACTATGTGGCACTAAGTGTGCG-AGTGAATATG
* * *
56296463 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTCTAACTATG
1 A-GCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT-GAA-TATG
* * *
56296518 TAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTGTGCGAGT
1 -AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGT
56296564 TGATTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
53 3 0.03
54 36 0.42
55 46 0.53
56 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (52 bp):
AGCACTAAGTGTGCGAATTGACTATGTGGCACTAAGTGTGCGAGTGAATATG
Found at i:56296568 original size:27 final size:27
Alignment explanation
Indices: 56296411--56296566 Score: 163
Period size: 27 Copynumber: 5.7 Consensus size: 27
56296401 AAATTGTACA
*
56296411 GCACTAAGTGTGCG-ATTCGACTATGTT
1 GCACTAAGTGTGCGAATT-GACTATGTG
* *
56296438 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGAATTGACTATG-TG
* *
56296465 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTG
* * *
56296492 GCACTAAGTGTGCGAGTCTAACTATGTA
1 GCACTAAGTGTGCGAAT-TGACTATGTG
* * *
56296520 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGAATTGACTATGTG
*
56296547 GCACTAAGTGTGCGAGTTGA
1 GCACTAAGTGTGCGAATTGA
56296567 TTGTATAGCA
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
27 83 0.77
28 25 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTG
Found at i:56296577 original size:27 final size:27
Alignment explanation
Indices: 56296403--56296587 Score: 101
Period size: 27 Copynumber: 6.8 Consensus size: 27
56296393 GCGGGATTAA
*
56296403 ATTGTACAGCACTAAGTGTGCG-ATTCG
1 ATTGTATAGCACTAAGTGTGCGAATT-G
*
56296430 ACTATGT-T-GCACTAAGTGTGCGAAATG
1 A-T-TGTATAGCACTAAGTGTGCGAATTG
56296457 AATATG-AT-GCACTAAGTGTGCGAATTG
1 -AT-TGTATAGCACTAAGTGTGCGAATTG
*** *** * *
56296484 ACCATGCGGCACTAAGTGTGCGAGTCTA
1 ATTGTATAGCACTAAGTGTGCGAAT-TG
* * * *
56296512 ACTATGTAGCACTAAGTGTGCGATTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*** * *
56296539 ATTACGTGGCACTAAGTGTGCGAGTTG
1 ATTGTATAGCACTAAGTGTGCGAATTG
*
56296566 ATTGTATAGCACTGAGTGTGCG
1 ATTGTATAGCACTAAGTGTGCG
56296588 GGCTCAATAT
Statistics
Matches: 126, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 1 0.01
27 96 0.76
28 26 0.21
29 3 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
ATTGTATAGCACTAAGTGTGCGAATTG
Found at i:56296578 original size:82 final size:81
Alignment explanation
Indices: 56296403--56296587 Score: 210
Period size: 82 Copynumber: 2.3 Consensus size: 81
56296393 GCGGGATTAA
* * * *
56296403 ATTGTACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCA
1 ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
56296468 CTAAGTGTGCGAATTG
66 CTAAGTGTGCGAATTG
*** * * ** *
56296484 ACCATGCGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGG
1 ATTGTACAGCACTAAGTGTGCGAGTC-AACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-G
*
56296548 CACTAAGTGTGCGAGTTG
64 CACTAAGTGTGCGAATTG
* *
56296566 ATTGTATAGCACTGAGTGTGCG
1 ATTGTACAGCACTAAGTGTGCG
56296588 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
81 21 0.26
82 61 0.74
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
ATTGTACAGCACTAAGTGTGCGAGTCAACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCA
CTAAGTGTGCGAATTG
Found at i:56300382 original size:42 final size:41
Alignment explanation
Indices: 56300323--56300426 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 41
56300313 ATGCTAATAG
* * ** *
56300323 CCCAGCTACGGTCTTACACAAAGTCTCATATGGCTGCCATAT
1 CCCAGATATGGTCTTACACAAA-TCTCATACCGATGCCATAT
* * *
56300365 CCTAGATATGGTCTTACACGGAATCTCATACCGATGTCATAT
1 CCCAGATATGGTCTTACAC-AAATCTCATACCGATGCCATAT
56300407 CCCAGATATGGTCTTACACA
1 CCCAGATATGGTCTTACACA
56300427 TAAACTTAAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
42 49 0.96
43 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (41 bp):
CCCAGATATGGTCTTACACAAATCTCATACCGATGCCATAT
Found at i:56306397 original size:19 final size:19
Alignment explanation
Indices: 56306373--56306418 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
56306363 TACGAGACAT
56306373 GGGCGTGTCCCTTA-CACAC
1 GGGCGTGTCCC-TAGCACAC
56306392 GGGCGTGTCCCTAGCACAC
1 GGGCGTGTCCCTAGCACAC
*
56306411 GGGTGTGT
1 GGGCGTGT
56306419 GCTCTATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.08
19 23 0.92
ACGTcount: A:0.13, C:0.30, G:0.35, T:0.22
Consensus pattern (19 bp):
GGGCGTGTCCCTAGCACAC
Found at i:56307853 original size:46 final size:46
Alignment explanation
Indices: 56307753--56307876 Score: 133
Period size: 46 Copynumber: 2.7 Consensus size: 46
56307743 GATATGTGCG
* * * * *
56307753 CCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGGGATGTAAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGCGATGAAAA
* *
56307799 CCAATGTAAGACATGTCTGGGACATGCATCAGCCACATCG-TGAAAA
1 CCAGTGTAAGACATGTCTGGGACATGCATCAGCCAC-GCGATGAAAA
* *
56307845 CTAGTGTAAGACCATGTCTAGGACATGGCATC
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATC
56307877 GGCTTGATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
46 46 0.71
47 14 0.22
48 5 0.08
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCAGCCACGCGATGAAAA
Found at i:56322076 original size:43 final size:43
Alignment explanation
Indices: 56321992--56322077 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 43
56321982 ATGCTAGAAA
* * *
56321992 AAAAAATAATTTAAAAAGAGGAGAAGATAAGCTTGGTTTGTTG
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAAGATTGGGTTGTTG
56322035 AAAAAAGAATTTAAAAAGAGGAGAAGATAA-ATATGGGTTGTTG
1 AAAAAAGAATTTAAAAAGAGGAGAAGATAAGAT-TGGGTTGTTG
56322078 GATTTACCCT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
42 1 0.03
43 38 0.97
ACGTcount: A:0.49, C:0.01, G:0.24, T:0.26
Consensus pattern (43 bp):
AAAAAAGAATTTAAAAAGAGGAGAAGATAAGATTGGGTTGTTG
Found at i:56327236 original size:93 final size:92
Alignment explanation
Indices: 56327070--56327240 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 92
56327060 CCGCCATAAG
** * * *
56327070 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGTGAACTCGGACTCAACTCAA
1 CGAACTCAAACTCAACTCAACGAGCTCAGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
56327135 CGAGTTCGGATGCCTAGTTACATCTCA
66 CGAGTTCGGATGCCTAGTTACATCTCA
* *
56327162 CGAACTCAAACTCAACTCAACGAGTTCAGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAAACTCAACTCAACGAGCTCAGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCA
56327227 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
56327241 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 36 0.51
93 35 0.49
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (92 bp):
CGAACTCAAACTCAACTCAACGAGCTCAGACATTCGCATCCATAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56329627 original size:15 final size:15
Alignment explanation
Indices: 56329595--56329658 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
56329585 TGGAAATAAC
56329595 AAGAAA-CC-GAATA
1 AAGAAATCCAGAATA
56329608 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
56329623 GAGAAATCCAGAATA
1 AAGAAATCCAGAATA
56329638 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
56329653 AAGAAA
1 AAGAAA
56329659 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
13 6 0.13
14 3 0.07
15 35 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.12, G:0.16, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56332619 original size:46 final size:45
Alignment explanation
Indices: 56332552--56332724 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
56332542 TGTAACCCGC
*
56332552 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTT-GCAT
* *
56332598 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTGCAT
* * *
56332648 -C-TCA-CGAACTC-GACTCAACTCAACGAGTTCGGACATTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
*
56332689 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
56332725 ATGCTCAACC
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
41 5 0.05
42 1 0.01
43 3 0.03
44 6 0.06
45 21 0.19
46 55 0.51
47 6 0.06
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTGCAT
Found at i:56332723 original size:91 final size:93
Alignment explanation
Indices: 56332559--56332728 Score: 299
Period size: 91 Copynumber: 1.8 Consensus size: 93
56332549 CGCCCATAAG
* *
56332559 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56332624 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
56332652 CGAACTC-GACTCAACTCAACGAGTTCGGACATT-GCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
56332715 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
56332729 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 44 0.59
92 23 0.31
93 7 0.09
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:56336762 original size:15 final size:17
Alignment explanation
Indices: 56336732--56336763 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56336722 TCGATACTTG
56336732 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
56336749 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
56336764 AATTAAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:56345710 original size:15 final size:17
Alignment explanation
Indices: 56345680--56345711 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
56345670 TTGATACTTG
56345680 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
56345697 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
56345712 AATTACACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:56347415 original size:40 final size:40
Alignment explanation
Indices: 56347350--56347522 Score: 256
Period size: 40 Copynumber: 4.3 Consensus size: 40
56347340 CAGTTATTTG
** *
56347350 TGGCACTTAGTGTGCGACACAACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* *
56347390 TGGCACTTAGTGTGCAATTCGACATAGTTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
56347430 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
* * * *
56347470 TGGCACTTAGTGTGTGATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
*
56347510 CGGCACTTAGTGT
1 TGGCACTTAGTGT
56347523 ATGAGACATT
Statistics
Matches: 121, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (40 bp):
TGGCACTTAGTGTGCGATTCGACATAGCTTCGGCTATATA
Found at i:56349937 original size:42 final size:41
Alignment explanation
Indices: 56349878--56349999 Score: 154
Period size: 43 Copynumber: 2.9 Consensus size: 41
56349868 TAGGGTTAGT
*
56349878 TGAGATTACGTGTAAGACCATATATGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
56349920 TGAGACTTCGTGTAAGACCATAGCTGGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATA-TGGCATCGATA
* * *
56349963 TGAGATCCCATGTAAGACCATATCTAGGATATGGCAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGATATGGCAT
56350000 TGGTATGGTA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:56351571 original size:89 final size:89
Alignment explanation
Indices: 56351420--56351599 Score: 324
Period size: 89 Copynumber: 2.0 Consensus size: 89
56351410 TATTTGAGTT
*
56351420 TAAGTTCGGTAATGCCTCATACCCTGTTTCGACATCGAATATGAGTAAAGGGTGTTACACTAGAT
1 TAAGTTCGGTAATGCCTCATACCCTGTTTCGACATCGAATACGAGTAAAGGGTGTTACACTAGAT
56351485 ATTTCTAGCATAATTTGGCTAAGG
66 ATTTCTAGCATAATTTGGCTAAGG
** *
56351509 TAAGTTCGGTAATGCCTTGTACCCTGTTTCGACATTGAATACGAGTAAAGGGTGTTACACTAGAT
1 TAAGTTCGGTAATGCCTCATACCCTGTTTCGACATCGAATACGAGTAAAGGGTGTTACACTAGAT
56351574 ATTTCTAGCATAATTTGGCTAAGG
66 ATTTCTAGCATAATTTGGCTAAGG
56351598 TA
1 TA
56351600 TCTTCACCAA
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (89 bp):
TAAGTTCGGTAATGCCTCATACCCTGTTTCGACATCGAATACGAGTAAAGGGTGTTACACTAGAT
ATTTCTAGCATAATTTGGCTAAGG
Found at i:56352968 original size:7 final size:7
Alignment explanation
Indices: 56352956--56352988 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
56352946 ACGCTTCTTC
56352956 TCCCCTT
1 TCCCCTT
56352963 TCCCCTT
1 TCCCCTT
56352970 TCCCC-T
1 TCCCCTT
56352976 TCCCC-T
1 TCCCCTT
56352982 TCCCCTT
1 TCCCCTT
56352989 GGGTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.48
7 13 0.52
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (7 bp):
TCCCCTT
Found at i:56352980 original size:13 final size:14
Alignment explanation
Indices: 56352956--56352988 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
56352946 ACGCTTCTTC
56352956 TCCCCTTTCCCCTT
1 TCCCCTTTCCCCTT
56352970 TCCCC-TTCCCC-T
1 TCCCCTTTCCCCTT
56352982 TCCCCTT
1 TCCCCTT
56352989 GGGTTGCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 7 0.39
14 5 0.28
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (14 bp):
TCCCCTTTCCCCTT
Found at i:56353271 original size:18 final size:18
Alignment explanation
Indices: 56353248--56353287 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
56353238 TGTCGGCTAA
* *
56353248 TTCCTTTGCTTCTTCTTT
1 TTCCTTCGCTTCTTCTTC
*
56353266 TTCCTTCGTTTCTTCTTC
1 TTCCTTCGCTTCTTCTTC
56353284 TTCC
1 TTCC
56353288 AATGCATTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.00, C:0.33, G:0.05, T:0.62
Consensus pattern (18 bp):
TTCCTTCGCTTCTTCTTC
Found at i:56357790 original size:19 final size:20
Alignment explanation
Indices: 56357766--56357811 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
56357756 CATCCAAACA
56357766 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
56357785 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
56357805 CCAGAAA
1 CCAGAAA
56357812 TCATTTTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:56361772 original size:88 final size:88
Alignment explanation
Indices: 56361623--56361792 Score: 277
Period size: 88 Copynumber: 1.9 Consensus size: 88
56361613 CAATGAAGAA
* * *
56361623 CTTTGAAGGGATATAGAGAAGTAATGTGTTAATATTGAAAATATATGCTGAATAAAGATGTGAAC
1 CTTTGAAGGGATATAGAGAAGTAATGGGTTAATATTGAAAATACATGCTAAATAAAGATGTGAAC
*
56361688 TTGGTATGTTTGAAGGATGTGAG
66 TTGGTATGTTCGAAGGATGTGAG
* * *
56361711 CTTTGAAGGGATATAGAGAATTAATGGGTTAATATTGAAAATGCATGCTAAATAAGGATGTGAAC
1 CTTTGAAGGGATATAGAGAAGTAATGGGTTAATATTGAAAATACATGCTAAATAAAGATGTGAAC
56361776 TTGGTATGTTCGAAGGA
66 TTGGTATGTTCGAAGGA
56361793 AGTACCCGTC
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 75 1.00
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (88 bp):
CTTTGAAGGGATATAGAGAAGTAATGGGTTAATATTGAAAATACATGCTAAATAAAGATGTGAAC
TTGGTATGTTCGAAGGATGTGAG
Found at i:56363815 original size:40 final size:40
Alignment explanation
Indices: 56363760--56363909 Score: 234
Period size: 40 Copynumber: 3.8 Consensus size: 40
56363750 CGGATGGTAA
* *
56363760 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
56363800 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
56363839 CC-GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
* *
56363879 -CGGGCCAAGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
56363910 AGCTATATCC
Statistics
Matches: 103, Mismatches: 4, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
38 34 0.33
39 5 0.05
40 64 0.62
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:56363854 original size:38 final size:40
Alignment explanation
Indices: 56363763--56363935 Score: 221
Period size: 40 Copynumber: 4.4 Consensus size: 40
56363753 ATGGTAACCG
* *
56363763 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCC
56363802 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A-TCC
1 -GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCC
*
56363841 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCC
* *
56363881 GGCCAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATA-TCC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATTCC
* * *
56363920 AGCTAAATCCCAAAGG
1 GGCTAAGTCCCGAAGG
56363936 TACTTGGTTT
Statistics
Matches: 120, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
38 34 0.28
39 20 0.17
40 66 0.55
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATTCC
Found at i:56363892 original size:78 final size:79
Alignment explanation
Indices: 56363763--56363935 Score: 244
Period size: 78 Copynumber: 2.2 Consensus size: 79
56363753 ATGGTAACCG
* * *
56363763 GGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCCAAGTCCCGAAGGCATTTGAGC
56363828 GAGTTA-CTA-ATCC
66 GAG-TAGCTATATCC
*
56363841 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATT-CGGGCCAAGTCCCGAAGGCATTTGAG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTA-ATTCCGGGCCAAGTCCCGAAGGCATTTGAG
56363905 CGAGTAGCTATATCC
65 CGAGTAGCTATATCC
* * *
56363920 AGCTAAATCCCAAAGG
1 GGCTAAGTCCCGAAGG
56363936 TACTTGGTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
77 2 0.02
78 63 0.74
79 20 0.24
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCCAAGTCCCGAAGGCATTTGAGC
GAGTAGCTATATCC
Found at i:56372093 original size:103 final size:104
Alignment explanation
Indices: 56371914--56372178 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
56371904 AACCGTTATT
* * * *
56371914 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
56371979 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
56372017 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
56372081 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
56372121 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
56372179 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:56372540 original size:30 final size:29
Alignment explanation
Indices: 56372506--56372570 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
56372496 TAATCCACCA
56372506 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
56372536 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
56372566 CCCAA
1 CCCAA
56372571 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:56372544 original size:31 final size:30
Alignment explanation
Indices: 56372513--56372570 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56372503 CCACCCAACT
56372513 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
56372543 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
56372571 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:56379586 original size:103 final size:103
Alignment explanation
Indices: 56379407--56379670 Score: 404
Period size: 103 Copynumber: 2.6 Consensus size: 103
56379397 AACCGTTATT
* * * *
56379407 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAAT-GGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
56379472 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
56379510 GGTGGATATCGCACTTAGCACCACCAATGAACTGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAA-TGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
56379575 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* * **
56379614 GGTGGATATCGCACATAGCACCACCAATGAATCGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATGGGGAATCAGCACTTAGCAACCCCT
56379671 TTATGTACAA
Statistics
Matches: 148, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
103 105 0.71
104 43 0.29
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (103 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:56380032 original size:30 final size:29
Alignment explanation
Indices: 56379998--56380062 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
56379988 TAATCCACCA
56379998 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
56380028 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
56380058 CCCAA
1 CCCAA
56380063 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:56380036 original size:31 final size:30
Alignment explanation
Indices: 56380005--56380062 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56379995 CCACCCAACT
56380005 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
56380035 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
56380063 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:56382079 original size:40 final size:40
Alignment explanation
Indices: 56381921--56382082 Score: 238
Period size: 40 Copynumber: 4.0 Consensus size: 40
56381911 CGGATGGTAA
* *
56381921 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
56381961 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56382001 CCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56382041 CCGGGCCAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
56382081 CC
1 CC
56382083 AGCTAAATCC
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
39 2 0.02
40 110 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56386922 original size:2 final size:2
Alignment explanation
Indices: 56386917--56386951 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
56386907 TATATATATA
*
56386917 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
56386952 ATTTGGTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.03, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:56387866 original size:6 final size:6
Alignment explanation
Indices: 56387855--56387972 Score: 107
Period size: 6 Copynumber: 19.2 Consensus size: 6
56387845 TATCATAACT
* *
56387855 AGAATC AGAATC AGAATC AGAATC AGAATC AAAATC AG-GTGAC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * * *
56387904 AAAATC AGAACC AGAATC AGAATT AGGTAA-C AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC
56387953 AGGTAA-C AGAATC AGAATC A
1 A-G-AATC AGAATC AGAATC A
56387973 AAATGTGAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
5 5 0.05
6 74 0.81
7 8 0.09
8 4 0.04
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (6 bp):
AGAATC
Found at i:56387867 original size:18 final size:18
Alignment explanation
Indices: 56387855--56387972 Score: 107
Period size: 19 Copynumber: 6.4 Consensus size: 18
56387845 TATCATAACT
56387855 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATC
*
56387873 AGAATCAGAATCAAAATC
1 AGAATCAGAATCAGAATC
* *
56387891 AG-GTGACAGAATCAAAATC
1 AGAAT--CAGAATCAGAATC
* *
56387910 AGAACCAGAATCAGAATT
1 AGAATCAGAATCAGAATC
56387928 AGGTAA-CAGAATCAGAATC
1 A-G-AATCAGAATCAGAATC
*
56387947 AGTATCAGGTAA-CAGAATC
1 AGAATCA-G-AATCAGAATC
56387966 AGAATCA
1 AGAATCA
56387973 AAATGTGAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.02
18 34 0.41
19 43 0.52
20 4 0.05
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.17
Consensus pattern (18 bp):
AGAATCAGAATCAGAATC
Found at i:56387902 original size:31 final size:31
Alignment explanation
Indices: 56387866--56387972 Score: 112
Period size: 31 Copynumber: 3.5 Consensus size: 31
56387856 GAATCAGAAT
* *
56387866 CAGAATCAGAATCAGAATCAAAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
56387897 CAGAATCAAAATCAGAACCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* *
56387926 TTAGGTAA-CAGAATCAGAATCAGTATCAGGTAA
1 -CA-G-AATCAGAATCAGAATCAGAATCAGGTAA
56387959 CAGAATCAGAATCA
1 CAGAATCAGAATCA
56387973 AAATGTGAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
29 1 0.02
30 4 0.07
31 50 0.82
32 4 0.07
33 2 0.03
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.17
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:56387902 original size:37 final size:37
Alignment explanation
Indices: 56387860--56387954 Score: 136
Period size: 37 Copynumber: 2.6 Consensus size: 37
56387850 TAACTAGAAT
*
56387860 CAGAATCAGAATCAGAATCAGAATCAAAATCAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAAAATCAGGTAA
* * * *
56387897 CAGAATCAAAATCAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAAAATCAGGTAA
*
56387934 CAGAATCAGAATCAGTATCAG
1 CAGAATCAGAATCAGAATCAG
56387955 GTAACAGAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.48, C:0.17, G:0.18, T:0.17
Consensus pattern (37 bp):
CAGAATCAGAATCAGAATCAGAATCAAAATCAGGTAA
Found at i:56387943 original size:25 final size:25
Alignment explanation
Indices: 56387860--56387972 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
56387850 TAACTAGAAT
56387860 CAGAATCAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGAATCAGGTAA
* * *
56387883 TCAAAATCAG-GTGACAGAATCA--AAA
1 -CAGAATCAGAAT--CAGAATCAGGTAA
* *
56387908 TCAGAACCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGAATCAGGTAA
*
56387934 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
56387959 CAGAATCAGAATCA
1 CAGAATCAGAATCA
56387973 AAATGTGAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
23 1 0.01
24 15 0.21
25 54 0.74
26 3 0.04
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.17
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:56388199 original size:70 final size:70
Alignment explanation
Indices: 56388086--56388222 Score: 247
Period size: 70 Copynumber: 2.0 Consensus size: 70
56388076 GAAATTGCAA
* *
56388086 CGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACTAGATTGC
1 CGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACGAAATTGC
56388151 AGCGG
66 AGCGG
*
56388156 CGAGGCTGCCAGATATTGTGATGAAGTCACCAGAACAGATATATGTGGCGAAGCCACGAAATTGC
1 CGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACGAAATTGC
56388221 AG
66 AG
56388223 TGAGGCTGCC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 64 1.00
ACGTcount: A:0.31, C:0.20, G:0.29, T:0.19
Consensus pattern (70 bp):
CGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACGAAATTGC
AGCGG
Found at i:56388476 original size:27 final size:27
Alignment explanation
Indices: 56388414--56388476 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
56388404 CAGTCACTTG
*
56388414 CCCACAAGGGCAAAACAGTCATTTAAC
1 CCCACAAGGGCAAAACAGTAATTTAAC
* ** ** *
56388441 ACCTTAAGGGCAAAATGGTAATTTTAC
1 CCCACAAGGGCAAAACAGTAATTTAAC
56388468 CCCACAAGG
1 CCCACAAGG
56388477 TATCTCTGTA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.19
Consensus pattern (27 bp):
CCCACAAGGGCAAAACAGTAATTTAAC
Found at i:56388515 original size:27 final size:27
Alignment explanation
Indices: 56388457--56388867 Score: 443
Period size: 27 Copynumber: 15.3 Consensus size: 27
56388447 AGGGCAAAAT
* * * *
56388457 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
56388483 TGTAATTCCACCCTACAGGGCTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56388510 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56388537 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56388564 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56388591 GGTAATTCTACCCTACAGGGGTATTTTT
1 GGTAATTCTACCCTACAGGGGTA-TTTC
**
56388619 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56388646 GGTAATTCTACACTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
56388673 GGTAATTCTACCCTACAGCAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
56388700 GGTAATCCTGCCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56388727 GGTAATTCTACCTTACAGAGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
56388753 GGTAATTCTACCTTACTA-GGGTATTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
* * * *
56388780 AGTAATTCTACCTTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* ** * *
56388807 GGTAATTTTA-CAAACTAGGGGTGTTTT
1 GGTAATTCTACCCTAC-AGGGGTATTTC
*
56388834 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
56388861 AGTAATT
1 GGTAATT
56388868 TCACAATCGA
Statistics
Matches: 325, Mismatches: 53, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
26 40 0.12
27 259 0.80
28 26 0.08
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:56388729 original size:136 final size:133
Alignment explanation
Indices: 56388457--56388813 Score: 430
Period size: 136 Copynumber: 2.6 Consensus size: 133
56388447 AGGGCAAAAT
* * ** * *
56388457 GGTAATTTTACCCCACA-AGGTATCTCTGTAATTCCACCCTACAGGGCTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGAGGTAT-TCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTA-
* ** * *
56388521 CCTACAGGGGTATTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGT
64 CCTACAGGGGTATTTTGGTAATTCTACCCTACAGCAGTATTTCAGTAATCCTACCCTACAAGGGT
56388586 ATTTC
129 ATTTC
* * **
56388591 GGTAATTCTACCCTACAGGGGTATTTTTAATAATTCTACCCTACAGGGGTATTTCGGTAATTCTA
1 GGTAATTCTACCCTACAGAGGTA--TTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTA
* * *
56388656 CACTACAGGGGTATTTCGGTAATTCTACCCTACAGCAGTATTTCGGTAATCCTGCCCTACAAGGG
64 C-CTACAGGGGTATTTTGGTAATTCTACCCTACAGCAGTATTTCAGTAATCCTACCCTACAAGGG
56388721 TATTTC
128 TATTTC
* ** *
56388727 GGTAATTCTACCTTACAGAGGTATTCGGTAATTCTACCTTACTA-GGGTATTTTAGTAATTCTAC
1 GGTAATTCTACCCTACAGAGGTATTCAATAATTCTACCCTAC-AGGGGTATTTTAGTAATTCTAC
*
56388791 CTTACAAGGGTATTTTGGTAATT
65 C-TACAGGGGTATTTTGGTAATT
56388814 TTACAAACTA
Statistics
Matches: 189, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
133 1 0.01
134 67 0.35
135 6 0.03
136 114 0.60
137 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.36
Consensus pattern (133 bp):
GGTAATTCTACCCTACAGAGGTATTCAATAATTCTACCCTACAGGGGTATTTTAGTAATTCTACC
TACAGGGGTATTTTGGTAATTCTACCCTACAGCAGTATTTCAGTAATCCTACCCTACAAGGGTAT
TTC
Found at i:56388902 original size:27 final size:26
Alignment explanation
Indices: 56388872--56388963 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 26
56388862 GTAATTTCAC
*
56388872 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAAC-ATAATTCTGTA
* *
56388899 AATCAAGGGTAAAATAATAATTCTGTA
1 AATCGAGGGTAAAA-CATAATTCTGTA
*
56388926 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACA-TAATTCTGTA
56388953 AATCGAGGGTA
1 AATCGAGGGTA
56388964 CTTTGGTAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.98
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.27
Consensus pattern (26 bp):
AATCGAGGGTAAAACATAATTCTGTA
Found at i:56388972 original size:27 final size:27
Alignment explanation
Indices: 56388924--56389357 Score: 191
Period size: 27 Copynumber: 16.0 Consensus size: 27
56388914 AATAATTCTG
**** *
56388924 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAATTTGGTAATTTTA
*
56388951 TAAATCGAGGGTACTTTGGTAATTTTGA
1 TAAATCGAGGGTAATTTGGTAATTTT-A
** * *
56388979 CCAGTCGAGGGT-ATTTCAGTAATTTTA
1 TAAATCGAGGGTAATTT-GGTAATTTTA
* * * *
56389006 CAAATCAGGGGGTATTTTAGTAATTTTA
1 TAAATC-GAGGGTAATTTGGTAATTTTA
* * * * *
56389034 CAAA-CCAGGGGTATTTTTGTAATTTTC
1 TAAATCGA-GGGTAATTTGGTAATTTTA
** *
56389061 TAAATCGAGGGTAAAATGGTAATTCTA
1 TAAATCGAGGGTAATTTGGTAATTTTA
* * *
56389088 TAAATCGAGGGTAGA-ATGGTAATTCTG
1 TAAATCGAGGGTA-ATTTGGTAATTTTA
** * * * *
56389115 TAAATCGAGGGTAAAATAGTAACTCTG
1 TAAATCGAGGGTAATTTGGTAATTTTA
** * *
56389142 TAAATCGAGGGTAAAATAGTAATTTTG
1 TAAATCGAGGGTAATTTGGTAATTTTA
**** * *
56389169 TAAATCGAGGGTAAAACAGTAATTCTG
1 TAAATCGAGGGTAATTTGGTAATTTTA
* ** *
56389196 TAAATCGATGGTAAAATGGTAATTTTG
1 TAAATCGAGGGTAATTTGGTAATTTTA
* *
56389223 TAAATCGAGGGTACTTTGATAATTTTA
1 TAAATCGAGGGTAATTTGGTAATTTTA
* ** ** *
56389250 CATGTCGAGGGT-ATTTCAATAATTTTG
1 TAAATCGAGGGTAATTT-GGTAATTTTA
* *
56389277 CAAA-CTGAGGGT-ATTTCGATAATTTTA
1 TAAATC-GAGGGTAATTT-GGTAATTTTA
* *
56389304 CAAATCGAGGAT-ATTTGGGTAATTTTA
1 TAAATCGAGGGTAATTT-GGTAATTTTA
* *
56389331 TAAA-CTGTGGGTACTTTGGTAATTTTA
1 TAAATC-GAGGGTAATTTGGTAATTTTA
56389358 CAACTGAGGA
Statistics
Matches: 333, Mismatches: 61, Indels: 26
0.79 0.15 0.06
Matches are distributed among these distances:
26 6 0.02
27 280 0.84
28 44 0.13
29 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (27 bp):
TAAATCGAGGGTAATTTGGTAATTTTA
Found at i:56389071 original size:28 final size:28
Alignment explanation
Indices: 56388941--56389071 Score: 119
Period size: 28 Copynumber: 4.8 Consensus size: 28
56388931 AGGGTAAAAC
* * *
56388941 AGTAATTCTATAAATCGA-GGGTACTTT
1 AGTAATTTTACAAATCGAGGGGTATTTT
* * * *
56388968 GGTAATTTTGACCAGTCGA-GGGTATTTC
1 AGTAATTTT-ACAAATCGAGGGGTATTTT
56388996 AGTAATTTTACAAATC-AGGGGGTATTTT
1 AGTAATTTTACAAATCGA-GGGGTATTTT
*
56389024 AGTAATTTTACAAA-CCAGGGGTATTTT
1 AGTAATTTTACAAATCGAGGGGTATTTT
*
56389051 TGTAATTTT-CTAAATCGAGGG
1 AGTAATTTTAC-AAATCGAGGG
56389072 TAAAATGGTA
Statistics
Matches: 85, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
26 2 0.02
27 34 0.40
28 49 0.58
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.37
Consensus pattern (28 bp):
AGTAATTTTACAAATCGAGGGGTATTTT
Found at i:56389246 original size:54 final size:55
Alignment explanation
Indices: 56388872--56389235 Score: 280
Period size: 54 Copynumber: 6.7 Consensus size: 55
56388862 GTAATTTCAC
* * * *
56388872 AATCGAGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAAT-AATAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGAGTAATTCTGTA
** * * *** *
56388926 AATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTG-GTAATTTTG-A
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGAGTAATTCTGTA
* ** * ** * ** *
56388979 CCAGTCGAGGGT-ATTTCAGTAATTTTACAAATCAGGGGGT-ATTTTAGTAATT-T-TA
1 --AATCGAGGGTAAAAT-GGTAATTTTGTAAATC-GAGGGTAAAATGAGTAATTCTGTA
* * *** * * *
56389034 CAAACCAGGGGTATTTTTGTAATTTTCTAAATCGAGGGTAAAATG-GTAATTCTATA
1 -AATCGA-GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGAGTAATTCTGTA
* * *
56389090 AATCGAGGGTAGAATGGTAATTCTGTAAATCGAGGGTAAAAT-AGTAACTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGAGTAATTCTGTA
* *
56389144 AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAA-CAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGAGTAATTCTGTA
*
56389198 AATCGATGGTAAAATGGTAATTTTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTA
56389236 CTTTGATAAT
Statistics
Matches: 250, Mismatches: 46, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
53 1 0.00
54 181 0.72
55 52 0.21
56 16 0.06
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.32
Consensus pattern (55 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGAGTAATTCTGTA
Found at i:56389246 original size:81 final size:81
Alignment explanation
Indices: 56388872--56389249 Score: 298
Period size: 81 Copynumber: 4.6 Consensus size: 81
56388862 GTAATTTCAC
* * * * * *
56388872 AATCGAGGGTAAAACGATAATTTTGTAAATCAAGGGTAAAATAATAATTCTGTAAATCGAGGGTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGAGGGTA
*
56388937 AAACAGTAATTCTATA
66 AAACAGTAATTCTGTA
*** * ** * * *
56388953 AATCGAGGGTACTTTGGTAATTTTG-ACCAGTCGAGGGT-ATTTCAGTAATTTTACAAATCAGGG
1 AATCGAGGGTAAAATGGTAATTTTGTA--AATCGAGGGTAAAATGA-TAATTTTATAAATC-GAG
****
56389016 GGTATTTTAGTAATT-T-TA
62 GGTAAAACAGTAATTCTGTA
* * *** * * * *
56389034 CAAACCAGGGGTATTTTTGTAATTTTCTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
1 -AATCGA-GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGAGGG
* **
56389099 TAGAATGGTAATTCTGTA
64 TAAAACAGTAATTCTGTA
* * * *
56389117 AATCGAGGGTAAAATAGTAACTCTGTAAATCGAGGGTAAAAT-AGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGA-TAATTTTATAAATCGAGGGT
56389181 AAAACAGTAATTCTGTA
65 AAAACAGTAATTCTGTA
* ***
56389198 AATCGATGGTAAAATGGTAATTTTGTAAATCGAGGGTACTTTGATAATTTTA
1 AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTA
56389250 CATGTCGAGG
Statistics
Matches: 227, Mismatches: 58, Indels: 24
0.73 0.19 0.08
Matches are distributed among these distances:
80 1 0.00
81 141 0.62
82 51 0.22
83 33 0.15
84 1 0.00
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (81 bp):
AATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATGATAATTTTATAAATCGAGGGTA
AAACAGTAATTCTGTA
Found at i:56389273 original size:54 final size:54
Alignment explanation
Indices: 56389214--56389389 Score: 205
Period size: 54 Copynumber: 3.3 Consensus size: 54
56389204 TGGTAAAATG
** *
56389214 GTAATTTTGTAAA-TCGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCA
1 GTAATTTTGTAAACT-GAGGGTACTTTGATAATTTTACAAATCGAGGATATTTCA
* * **
56389268 ATAATTTTGCAAACTGAGGGTA-TTTCGATAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTGTAAACTGAGGGTACTTT-GATAATTTTACAAATCGAGGATATTTCA
* * * *
56389322 GTAATTTTATAAACTGTGGGTACTTTGGTAATTTTACAACT-GAGGATATTTCA
1 GTAATTTTGTAAACTGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTCA
*
56389375 GTAATTTGGTAAACT
1 GTAATTTTGTAAACT
56389390 AAAGTATTCT
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
53 26 0.25
54 72 0.71
55 4 0.04
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GTAATTTTGTAAACTGAGGGTACTTTGATAATTTTACAAATCGAGGATATTTCA
Found at i:56393699 original size:27 final size:29
Alignment explanation
Indices: 56393668--56393733 Score: 73
Period size: 28 Copynumber: 2.3 Consensus size: 29
56393658 AGAAATTTTA
* *
56393668 AAAAAATTTGCACTTTTCTA-AAAAAAAT
1 AAAAAATTTACACTTTTATACAAAAAAAT
* * *
56393696 AAAAAATTTATATTTTTATACAAAAATAT
1 AAAAAATTTACACTTTTATACAAAAAAAT
56393725 -AAAAATTTA
1 AAAAAATTTA
56393734 TATTTAAAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 25 0.78
29 7 0.22
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAAATTTACACTTTTATACAAAAAAAT
Found at i:56393720 original size:26 final size:25
Alignment explanation
Indices: 56393686--56393759 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
56393676 TGCACTTTTC
56393686 TAAA-AAAAATAAAAAATTTATATTTT
1 TAAACAAAAATAAAAAATTTATA--TT
*
56393712 TATACAAAAATATAAAAATTTATATT
1 TAAACAAAAATA-AAAAATTTATATT
* *
56393738 TAAAGAAATATAAAAAATTTAT
1 TAAACAAAAATAAAAAATTTAT
56393760 TTAAAGAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 10 0.24
26 14 0.33
27 7 0.17
28 11 0.26
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (25 bp):
TAAACAAAAATAAAAAATTTATATT
Found at i:56393775 original size:24 final size:23
Alignment explanation
Indices: 56393719--56393781 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 23
56393709 TTTTATACAA
*
56393719 AAATATAAAAATTTATATTTAAAG
1 AAATATAAAAAATT-TATTTAAAG
56393743 AAATATAAAAAATTTATTTAAAG
1 AAATATAAAAAATTTATTTAAAG
*
56393766 AAATTTTAAAAAATTT
1 AAA-TATAAAAAATTT
56393782 TGCACTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 12 0.33
24 24 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (23 bp):
AAATATAAAAAATTTATTTAAAG
Found at i:56394487 original size:13 final size:14
Alignment explanation
Indices: 56394469--56394497 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
56394459 CAAACAATCC
56394469 AAAAAAAAAA-AGG
1 AAAAAAAAAAGAGG
56394482 AAAAAAAAAAGAGG
1 AAAAAAAAAAGAGG
56394496 AA
1 AA
56394498 TTATGTGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAGAGG
Found at i:56396058 original size:17 final size:16
Alignment explanation
Indices: 56396038--56396077 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
56396028 TTATAAACAC
56396038 ATAAATATATTAAAAA
1 ATAAATATATTAAAAA
* *
56396054 TATAAAAATATTTAAAA
1 -ATAAATATATTAAAAA
56396071 ATAAATA
1 ATAAATA
56396078 AACTGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAATATATTAAAAA
Found at i:56396070 original size:18 final size:18
Alignment explanation
Indices: 56396019--56396073 Score: 67
Period size: 18 Copynumber: 3.0 Consensus size: 18
56396009 TATAAAATTT
*
56396019 TAAAAATATTTATAAACACA
1 TAAAAATATTTA-AAA-ATA
*
56396039 TAAATATA-TTAAAAATA
1 TAAAAATATTTAAAAATA
56396056 TAAAAATATTTAAAAATA
1 TAAAAATATTTAAAAATA
56396074 AATAAACTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 9 0.29
18 12 0.39
19 3 0.10
20 7 0.23
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAAATATTTAAAAATA
Found at i:56396071 original size:10 final size:10
Alignment explanation
Indices: 56396012--56396073 Score: 51
Period size: 10 Copynumber: 6.6 Consensus size: 10
56396002 TCATTATTAT
56396012 AAAAT-TTTA
1 AAAATATTTA
56396021 AAAATATTTA
1 AAAATATTTA
* * **
56396031 TAAACACATA
1 AAAATATTTA
*
56396041 AATATA-TTA
1 AAAATATTTA
56396050 AAAATA--TA
1 AAAATATTTA
56396058 AAAATATTTA
1 AAAATATTTA
56396068 AAAATA
1 AAAATA
56396074 AATAAACTGA
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
8 8 0.20
9 12 0.29
10 21 0.51
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATATTTA
Found at i:56397489 original size:49 final size:49
Alignment explanation
Indices: 56397361--56397525 Score: 136
Period size: 49 Copynumber: 3.4 Consensus size: 49
56397351 ACTATTCGAA
* * *
56397361 GTGGTCCGACAACAATGGCTTTCACTATCT-ACATATTCTACCATCCTGG
1 GTGGCCCGACAACGATGGCTTTCACTATTTGA-ATATTCTACCATCCTGG
** * * * *
56397410 GTGGCTTGGCAACGATGACTTTCACAATTTGAATATTGTACCAT-CTGG
1 GTGGCCCGACAACGATGGCTTTCACTATTTGAATATTCTACCATCCTGG
* * * * * **
56397458 GATGGCCCGACAACGATGGTTTTTACTATTTGTATATTTTAGCATCCTAA
1 G-TGGCCCGACAACGATGGCTTTCACTATTTGAATATTCTACCATCCTGG
* *
56397508 GTGGCCCGCCAGCGATGG
1 GTGGCCCGACAACGATGG
56397526 TTTTAAACCA
Statistics
Matches: 90, Mismatches: 23, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
48 5 0.06
49 81 0.90
50 4 0.04
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (49 bp):
GTGGCCCGACAACGATGGCTTTCACTATTTGAATATTCTACCATCCTGG
Found at i:56397973 original size:21 final size:21
Alignment explanation
Indices: 56397941--56397984 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
56397931 AACCCTTGAA
*
56397941 ATAGAGCACACGCCCGTGTGG
1 ATAGAGCACACGCCCATGTGG
*
56397962 ATAG-GCAGCACGCTCATGTGG
1 ATAGAGCA-CACGCCCATGTGG
56397983 AT
1 AT
56397985 TAAATTCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.25, C:0.25, G:0.32, T:0.18
Consensus pattern (21 bp):
ATAGAGCACACGCCCATGTGG
Found at i:56411439 original size:40 final size:40
Alignment explanation
Indices: 56411384--56411460 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
56411374 TATGACGTTC
*
56411384 ATAGTGTGGCATACATAAATCCT-AAGTAGATAGCAGATTT
1 ATAGTATGGCATACATAAATCCTGAA-TAGATAGCAGATTT
* *
56411424 ATAGTATGTCATACATAGATCCTGAATAGATAGCAGA
1 ATAGTATGGCATACATAAATCCTGAATAGATAGCAGA
56411461 CTATGTATGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 31 0.94
41 2 0.06
ACGTcount: A:0.39, C:0.13, G:0.19, T:0.29
Consensus pattern (40 bp):
ATAGTATGGCATACATAAATCCTGAATAGATAGCAGATTT
Found at i:56412361 original size:26 final size:26
Alignment explanation
Indices: 56412325--56412384 Score: 84
Period size: 26 Copynumber: 2.3 Consensus size: 26
56412315 ATATTTTCTT
**
56412325 AAAATTTTATCATGGGCAAAATCATC
1 AAAATTTTATCAAAGGCAAAATCATC
* *
56412351 AAAATTTTATCAAAGGTAAATTCATC
1 AAAATTTTATCAAAGGCAAAATCATC
56412377 AAAATTTT
1 AAAATTTT
56412385 GCTGGGGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (26 bp):
AAAATTTTATCAAAGGCAAAATCATC
Found at i:56417712 original size:18 final size:17
Alignment explanation
Indices: 56417689--56417723 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
56417679 GATGCTTTGA
56417689 AAATATTTATATATTTTT
1 AAATATTT-TATATTTTT
*
56417707 AAATATTTTTTATTTTT
1 AAATATTTTATATTTTT
56417724 CATATTTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AAATATTTTATATTTTT
Found at i:56418100 original size:22 final size:22
Alignment explanation
Indices: 56418075--56418118 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
56418065 ACATAAAAGA
*
56418075 AATCATAATTTTGCTGAATAAT
1 AATCATAATTTTGCTAAATAAT
56418097 AATCATAATTTTGCTAAATAAT
1 AATCATAATTTTGCTAAATAAT
56418119 TTTAATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (22 bp):
AATCATAATTTTGCTAAATAAT
Found at i:56418617 original size:22 final size:22
Alignment explanation
Indices: 56418589--56418634 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
56418579 TTTTAGTCAC
56418589 TTACATTATCATGTTGTAACAT
1 TTACATTATCATGTTGTAACAT
56418611 TTACATTATCATGTTGTAACAT
1 TTACATTATCATGTTGTAACAT
56418633 TT
1 TT
56418635 TAGTCACTAA
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:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (22 bp):
TTACATTATCATGTTGTAACAT
Found at i:56426206 original size:27 final size:27
Alignment explanation
Indices: 56426104--56426208 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
56426094 AATACTTTAG
* *
56426104 TTTACCAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* ** * * *
56426131 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * **
56426158 TTTATAGAATTATCGT--TTTACCCTCGA
1 TTTACAAAATTA-C-TAAAATACCCTCGA
56426185 TTTACAAAATTACTAAAATACCCT
1 TTTACAAAATTACTAAAATACCCT
56426209 TGTAGGGTAG
Statistics
Matches: 55, Mismatches: 19, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 52 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:56426633 original size:55 final size:55
Alignment explanation
Indices: 56426552--56426663 Score: 215
Period size: 55 Copynumber: 2.0 Consensus size: 55
56426542 ATGATGGGAA
56426552 AAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGCATGGGC
1 AAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGCATGGGC
*
56426607 AAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGCATGGGC
1 AAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGCATGGGC
56426662 AA
1 AA
56426664 TAAACTAATA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.45, C:0.10, G:0.22, T:0.23
Consensus pattern (55 bp):
AAACATGTCATGAAACATGTTCTGTTAATGGAAGAATAAAATAAGAAGCATGGGC
Found at i:56427756 original size:40 final size:40
Alignment explanation
Indices: 56427525--56427749 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
56427515 TCGAATGATG
* * * *
56427525 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
56427565 TCCGGACTAAGAT-CCGCAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56427605 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56427644 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56427684 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
56427725 -CCGGGCTATGTCTCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56427750 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 118 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56434213 original size:55 final size:55
Alignment explanation
Indices: 56434128--56434246 Score: 211
Period size: 55 Copynumber: 2.1 Consensus size: 55
56434118 ACAAGGGATG
* *
56434128 ATGGGCAAAAGATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGC-AAACATGTCATGAAACATGTTGTGCTAATGGAAGAATAAAATAAGAAGC
56434184 ATGGGCAAACATGTCATGAAACATGTTGTGCTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAACATGTCATGAAACATGTTGTGCTAATGGAAGAATAAAATAAGAAGC
56434239 ATGGGCAA
1 ATGGGCAA
56434247 TAAACTAATA
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
55 55 0.90
56 6 0.10
ACGTcount: A:0.44, C:0.09, G:0.25, T:0.22
Consensus pattern (55 bp):
ATGGGCAAACATGTCATGAAACATGTTGTGCTAATGGAAGAATAAAATAAGAAGC
Found at i:56435340 original size:40 final size:40
Alignment explanation
Indices: 56435109--56435333 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
56435099 TCGAATGATG
* * * *
56435109 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
56435149 TTCGGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56435189 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56435228 TCCGGGTTAAGTCCCGAAGGCATCTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56435268 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
56435309 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56435334 AACGAGTAGC
Statistics
Matches: 160, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 34 0.21
40 117 0.73
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56435351 original size:80 final size:79
Alignment explanation
Indices: 56435109--56435366 Score: 249
Period size: 80 Copynumber: 3.3 Consensus size: 79
56435099 TCGAATGATG
* * * * * * * *
56435109 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATTCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
56435172 TTGTACGAGTTACTAA
64 TTGTACGAGTTACTAA
* * *
56435188 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATC
1 -TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATT
*
56435252 TGTGCGAGTTACTAAA
65 TGTACGAGTTACT-AA
* * *
56435268 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CTGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
56435332 TGAACGAG-TAGCTATA
65 TGTACGAGTTA-CTA-A
* *
56435348 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56435367 TACGTGATTT
Statistics
Matches: 151, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
78 1 0.01
79 73 0.48
80 75 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GTACGAGTTACTAA
Found at i:56436765 original size:27 final size:27
Alignment explanation
Indices: 56436702--56436924 Score: 254
Period size: 27 Copynumber: 8.3 Consensus size: 27
56436692 GGGTGTTACA
** *
56436702 AGAATTACTAAAATA-CCCTATAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
56436728 AGAATTACCGAAATACCCTTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
56436755 AGAAATT-CCGAAATACCCCTGTAGGGT
1 AG-AATTACCGAAATACCCCTGTAGGGT
*
56436782 AGAATTACTGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* *
56436809 AGTA-TACTGAAATACCCCTGTAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * *
56436835 AGAATTACCGAAATAACCTTATAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * *
56436862 AGAAATACCAAAATACCCCTATAGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
* * * *
56436889 AGAATTACTGAGATACCCTTGTGGGGT
1 AGAATTACCGAAATACCCCTGTAGGGT
*
56436916 AAAATTACC
1 AGAATTACC
56436925 ATTTTGCCCC
Statistics
Matches: 168, Mismatches: 25, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
26 42 0.25
27 122 0.73
28 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AGAATTACCGAAATACCCCTGTAGGGT
Found at i:56436795 original size:54 final size:54
Alignment explanation
Indices: 56436712--56436920 Score: 280
Period size: 54 Copynumber: 3.9 Consensus size: 54
56436702 AGAATTACTA
*
56436712 AAATA-CCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATTCCG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCG
* * * * *
56436765 AAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG-TATACTG
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCG
* * * *
56436818 AAATACCCCTGTAGGGTAGAATTACCGAAATAACCTTATAGGGTAGAAATACCA
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCG
* * *
56436872 AAATACCCCTATAGGGTAGAATTACTGAGATACCCTTGTGGGGTA-AAAT
1 AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAAT
56436921 TACCATTTTG
Statistics
Matches: 135, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
53 55 0.41
54 80 0.59
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (54 bp):
AAATACCCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCG
Found at i:56436916 original size:107 final size:106
Alignment explanation
Indices: 56436707--56436916 Score: 321
Period size: 107 Copynumber: 2.0 Consensus size: 106
56436697 TTACAAGAAT
* * * *
56436707 TACTAAAATACCCTATAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATTCCGAAATACC
1 TACTAAAATACCCTATAGGGTAGAATTACCGAAATAACCTTATAGGGTAGAAATACCAAAATACC
*
56436772 CCTGTAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGTA
66 CCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGTA
* *
56436813 TACTGAAATACCCCTGTAGGGTAGAATTACCGAAATAACCTTATAGGGTAGAAATACCAAAATAC
1 TACTAAAATA-CCCTATAGGGTAGAATTACCGAAATAACCTTATAGGGTAGAAATACCAAAATAC
* * *
56436878 CCCTATAGGGTAGAATTACTGAGATACCCTTGTGGGGTA
65 CCCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTA
56436917 AAATTACCAT
Statistics
Matches: 93, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
106 9 0.10
107 84 0.90
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (106 bp):
TACTAAAATACCCTATAGGGTAGAATTACCGAAATAACCTTATAGGGTAGAAATACCAAAATACC
CCTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAGTA
Found at i:56437364 original size:22 final size:22
Alignment explanation
Indices: 56437312--56437376 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
56437302 GCCTATTATT
* *
56437312 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
56437334 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
56437356 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
56437377 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:56437603 original size:27 final size:26
Alignment explanation
Indices: 56437535--56437642 Score: 90
Period size: 27 Copynumber: 4.0 Consensus size: 26
56437525 ATTCTGTTAA
* * * *
56437535 GTGGCTTTGCCACATTATCTGTTTCTA
1 GTGGCTCTACCACAATATCTG-TTCTG
* * *
56437562 GTGGCTATGCAACAAATATCTGTTCTG
1 GTGGCTCTACCAC-AATATCTGTTCTG
* *
56437589 GTGGCTCTCCCACAATATTTGTATCTG
1 GTGGCTCTACCACAATATCTGT-TCTG
* *
56437616 GTGACTCTATCACAATATCTGTTCTG
1 GTGGCTCTACCACAATATCTGTTCTG
56437642 G
1 G
56437643 CAGCCATGCT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
26 13 0.19
27 47 0.70
28 7 0.10
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
GTGGCTCTACCACAATATCTGTTCTG
Found at i:56443065 original size:31 final size:31
Alignment explanation
Indices: 56443027--56443090 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56443017 CCTTTTCATA
*
56443027 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
56443058 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
56443089 TT
1 TT
56443091 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:56443337 original size:24 final size:24
Alignment explanation
Indices: 56443284--56443427 Score: 204
Period size: 24 Copynumber: 6.0 Consensus size: 24
56443274 ACTTTATCAT
*
56443284 ATAACTGGAGGCCT-AGCCTCTTTT-
1 ATAACTGG-GGCATAAGCC-CTTTTG
* *
56443308 AGTAACTGGGGCAAAAGCCCTTTTT
1 A-TAACTGGGGCATAAGCCCTTTTG
56443333 ATAACTGGGGCATAAG-CCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
56443356 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
56443380 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
56443404 ATAATTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
56443428 CACTTCCTCC
Statistics
Matches: 111, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
23 22 0.20
24 77 0.69
25 12 0.11
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:56443365 original size:47 final size:47
Alignment explanation
Indices: 56443283--56443426 Score: 200
Period size: 47 Copynumber: 3.0 Consensus size: 47
56443273 TACTTTATCA
* * *
56443283 TATAACTGGAGGCCT-AGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCCT-TTTGA-TAACTGGGGCATAAGCCCTTTT
56443332 TATAACTGGGGCATAAGCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCTTTTGATAACTGGGGCATAAGCCCTTTT
* *
56443379 GATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAG-CCTTTTGATAACTGGGGCATAAGCCCTTTT
56443427 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
47 37 0.42
48 37 0.42
49 14 0.16
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (47 bp):
TATAACTGGGGCATAAGCCTTTTGATAACTGGGGCATAAGCCCTTTT
Found at i:56443385 original size:71 final size:73
Alignment explanation
Indices: 56443284--56443427 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 73
56443274 ACTTTATCAT
* *
56443284 ATAACTGGAGGCCTAGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAG
1 ATAACTGGAGGCATAGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
56443349 -CCTTTTG
66 CCCTTTTG
* *
56443356 ATAACTGG-GGCATAAGCC-CTTTT-GATAACTGGGGCATAAGCCCTTTTGATAATTGGGGCATA
1 ATAACTGGAGGCAT-AGCCTCTTTTAG-TAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATA
56443418 AGCCCTTTTG
64 AGCCCTTTTG
56443428 CACTTCCTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
70 1 0.02
71 45 0.69
72 19 0.29
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (73 bp):
ATAACTGGAGGCATAGCCTCTTTTAGTAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAG
CCCTTTTG
Found at i:56444834 original size:27 final size:27
Alignment explanation
Indices: 56444743--56444826 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
56444733 GGGCATATTC
* * *
56444743 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
56444770 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
56444797 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
56444824 GTC
1 GTC
56444827 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:56444918 original size:27 final size:27
Alignment explanation
Indices: 56444888--56444939 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56444878 GTAAATCTAC
56444888 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
56444915 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
56444940 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:56445001 original size:27 final size:26
Alignment explanation
Indices: 56444975--56445156 Score: 152
Period size: 27 Copynumber: 6.8 Consensus size: 26
56444965 CTTTGTAAAT
56444975 CAGGGGTATTTTGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
** * * *
56445001 TTGAGGGTGTTTCGGTAATTTCACAAA
1 CAG-GGGTATTTTGGTAATTTTACAAA
*
56445028 CTAGTGGTATTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
56445055 CTAGGGGTATTTTGGTAATTTTACAAA
1 C-AGGGGTATTTTGGTAATTTTACAAA
** *
56445082 TTGAGGGTATTTCT-ATAATTTTACAAA
1 CAG-GGGTATTT-TGGTAATTTTACAAA
* *** *
56445109 CCAAGGGTATTTTAACAATTTTACAGA
1 -CAGGGGTATTTTGGTAATTTTACAAA
*
56445136 CTA-GGGTATTTTAGTAATTTT
1 C-AGGGGTATTTTGGTAATTTT
56445157 GTAAATCGAG
Statistics
Matches: 127, Mismatches: 22, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
26 20 0.16
27 105 0.83
28 2 0.02
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (26 bp):
CAGGGGTATTTTGGTAATTTTACAAA
Found at i:56445041 original size:54 final size:54
Alignment explanation
Indices: 56444978--56445156 Score: 168
Period size: 54 Copynumber: 3.3 Consensus size: 54
56444968 TGTAAATCAG
* *
56444978 GGGTATTTTGGTAATTTTACAAA-TTGAGGGTGTTTCGGTAATTTCACAAACT-A
1 GGGTATTTTGGTAATTTTACAAACTAG-GGGTATTTCGGTAATTTCACAAACTGA
* * *
56445031 GTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGA
1 G-GGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACTGA
* * * **** * *
56445086 GGGTATTTCT-ATAATTTTACAAACCAAGGGTATTTTAACAATTTTACAGACT-A
1 GGGTATTT-TGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACTGA
*
56445139 GGGTATTTTAGTAATTTT
1 GGGTATTTTGGTAATTTT
56445157 GTAAATCGAG
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
52 1 0.01
53 17 0.16
54 84 0.79
55 5 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTCGGTAATTTCACAAACTGA
Found at i:56445068 original size:81 final size:81
Alignment explanation
Indices: 56444976--56445170 Score: 250
Period size: 81 Copynumber: 2.4 Consensus size: 81
56444966 TTTGTAAATC
* * *
56444976 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTGTTTCGGTAATTTCACAAA-CTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAAG-GGTATTT
***
56445040 TGGTAATTTTACAAACT
65 TAACAATTTTACAAACT
* *
56445057 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAAGGGTATTTT
*
56445122 AACAATTTTACAGACT
66 AACAATTTTACAAACT
* ** *
56445138 A-GGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTA
56445171 AAACAGTAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
80 28 0.28
81 69 0.69
82 3 0.03
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAAGGGTATTTT
AACAATTTTACAAACT
Found at i:56445178 original size:27 final size:27
Alignment explanation
Indices: 56445148--56445304 Score: 192
Period size: 27 Copynumber: 5.9 Consensus size: 27
56445138 AGGGTATTTT
*
56445148 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56445175 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56445202 AGTAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56445229 GGTACTTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56445256 GGTAATTCTGTAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
56445283 -GATAATTATGT-AATCGGGGGTA
1 AG-TAATTCTGTAAATCGAGGGTA
56445305 CTTTAGTAAT
Statistics
Matches: 117, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
26 10 0.09
27 107 0.91
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:56445194 original size:80 final size:81
Alignment explanation
Indices: 56445044--56445197 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 81
56445034 GTATTTTGGT
* * *** *
56445044 AATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTATAATTTTACAAA
1 AATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACTATAATTCTACAAA
56445109 CCAAGGGTATTTTAAC
66 CCAAGGGTATTTTAAC
* ** *
56445125 AATTTTACAGACTA-GGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAAC-AGTAATTCTATAA
1 AATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACTA-TAATTCTACAA
*
56445188 ATCAAGGGTA
65 ACCAAGGGTA
56445198 AAACAGTAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
79 1 0.02
80 47 0.77
81 13 0.21
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.37
Consensus pattern (81 bp):
AATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACTATAATTCTACAAA
CCAAGGGTATTTTAAC
Found at i:56448104 original size:31 final size:31
Alignment explanation
Indices: 56448066--56448128 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
56448056 CTTTTCATAC
*
56448066 TTCATATTTCATAACACTGGGCCAAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
** *
56448097 TTCATATTTCATATTACTAGGCCGAAGCCTT
1 TTCATATTTCATAACACTAGGCCAAAGCCTT
56448128 T
1 T
56448129 ACTGTAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.37
Consensus pattern (31 bp):
TTCATATTTCATAACACTAGGCCAAAGCCTT
Found at i:56448402 original size:23 final size:23
Alignment explanation
Indices: 56448343--56448505 Score: 249
Period size: 23 Copynumber: 7.1 Consensus size: 23
56448333 CCTAGCCTCT
* *
56448343 TTTAGTAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
56448366 TTTTTATAAGTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
*
56448390 TTTAATAACTGGGGCGTAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56448413 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
56448435 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56448458 TTT-ATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56448480 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
56448503 TTT
1 TTT
56448506 TGCACTTCCT
Statistics
Matches: 129, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
22 43 0.33
23 67 0.52
24 19 0.15
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:56448432 original size:45 final size:45
Alignment explanation
Indices: 56448343--56448505 Score: 263
Period size: 45 Copynumber: 3.6 Consensus size: 45
56448333 CCTAGCCTCT
* * *
56448343 TTTAGTAACTGGGGCAAAAGCCCTTTTTATAAGTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC--TTTATAACTGGGGCATAAGCCC
*
56448390 TTTAATAACTGGGGCGTAAGCCCTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCC
*
56448435 TTTTATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCC
56448480 TTTAATAACTGGGGCATAAGCCCTTT
1 TTTAATAACTGGGGCATAAGCCCTTT
56448506 TGCACTTCCT
Statistics
Matches: 109, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 89 0.82
47 20 0.18
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (45 bp):
TTTAATAACTGGGGCATAAGCCCTTTATAACTGGGGCATAAGCCC
Found at i:56448647 original size:25 final size:24
Alignment explanation
Indices: 56448619--56448666 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
56448609 ATATATAAAC
* *
56448619 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAATGGTCA-TTTTA
56448644 CCTAGGGGCAAAATGGTCATTTT
1 CCTAGGGGCAAAATGGTCATTTT
56448667 CATGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 4 0.19
25 17 0.81
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (24 bp):
CCTAGGGGCAAAATGGTCATTTTA
Found at i:56449835 original size:26 final size:27
Alignment explanation
Indices: 56449802--56449899 Score: 107
Period size: 27 Copynumber: 3.7 Consensus size: 27
56449792 TCATACGGAA
*
56449802 CATA-AGGGCATATT-C-GTCATTTTAC
1 CATACAGGGC-TATTACGGTCACTTTAC
*
56449827 CATACAGGGGTATTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
56449854 CCTACAGGGCT-TTACGGTCACTTTAC
1 CATACAGGGCTATTACGGTCACTTTAC
*
56449880 CCTACAGGGGCT-TTACGGTC
1 CATACA-GGGCTATTACGGTC
56449900 TTTTTACCTA
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
25 8 0.12
26 26 0.40
27 31 0.48
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
CATACAGGGCTATTACGGTCACTTTAC
Found at i:56449916 original size:27 final size:27
Alignment explanation
Indices: 56449817--56449899 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
56449807 GGGCATATTC
* *
56449817 GTCATTTTACCATACAGGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
56449844 GTCACTTTACCCTACA-GGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
56449870 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
56449897 GTC
1 GTC
56449900 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.46
27 28 0.54
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:56449991 original size:27 final size:27
Alignment explanation
Indices: 56449961--56450012 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
56449951 GTAAATCTAC
56449961 AAACCAAAGGTATTTC-AGTAATTTTGT
1 AAACCAAAGGTATTTCTA-TAATTTTGT
*
56449988 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGTATTTCTATAATTTT
56450013 TAGAAAGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (27 bp):
AAACCAAAGGTATTTCTATAATTTTGT
Found at i:56450074 original size:27 final size:27
Alignment explanation
Indices: 56450010--56450228 Score: 164
Period size: 27 Copynumber: 8.1 Consensus size: 27
56450000 TTTCTATAAT
* * *
56450010 TTTTAGAAAGTCAAGGGTATTTTTGTAA
1 TTTTACAAA-TCAGGGGTATTTTGGTAA
* **
56450038 CTTTGTAAATCAGGGGTATTTTGGTAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
56450065 TTTTACAAAT-TGAGGGTATTTCGGTAA
1 TTTTACAAATCAG-GGGTATTTTGGTAA
* * *
56450092 TTTCACAAA-CTAGTGGCATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
56450119 TTTTACAAA-CTAGGGGTATTTTGGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
*
56450146 TTTTACAAAT-TGAGGGTATTTCT-GTAA
1 TTTTACAAATCAG-GGGTATTT-TGGTAA
* * * *
56450173 TTTTACAAACCAAGGGTATTTTAGCAA
1 TTTTACAAATCAGGGGTATTTTGGTAA
* *
56450200 TTTTACAGA-CTA-GGGTATTTTAGTAA
1 TTTTACAAATC-AGGGGTATTTTGGTAA
56450226 TTT
1 TTT
56450229 ATTAAATCGA
Statistics
Matches: 157, Mismatches: 25, Indels: 20
0.78 0.12 0.10
Matches are distributed among these distances:
26 20 0.13
27 129 0.82
28 8 0.05
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
TTTTACAAATCAGGGGTATTTTGGTAA
Found at i:56450146 original size:81 final size:81
Alignment explanation
Indices: 56450049--56450228 Score: 265
Period size: 81 Copynumber: 2.2 Consensus size: 81
56450039 TTTGTAAATC
*
56450049 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CTAGTGGCATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAG-GGCATTT
* *
56450113 TGGTAATTTTACAAACT
65 TAGCAATTTTACAAACT
* * *
56450130 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGCATTTT
*
56450195 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
*
56450211 A-GGGTATTTTAGTAATTT
1 AGGGGTATTTTGGTAATTT
56450229 ATTAAATCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 16 0.18
81 71 0.79
82 3 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGGGCATTTT
AGCAATTTTACAAACT
Found at i:56450243 original size:53 final size:54
Alignment explanation
Indices: 56449958--56450228 Score: 160
Period size: 54 Copynumber: 5.0 Consensus size: 54
56449948 TTGGTAAATC
* * * ** ** * *
56449958 TACAAACCAAAGGTATTTCAGTAATTTTGTAAACCAATGGTATTTCTATAATTTT
1 TACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCTGTAA-TTT
* * * * * *
56450013 TAGAAAGTCAAGGGTATTTTTGTAACTTTGTA-AATCAG-GGGTATTT-TGGTAATTT
1 TACAAA-CCAAGGGTATTTTAGCAA-TTT-TACAAACTGAGGGTATTTCT-GTAATTT
*** ** * * *
56450068 TACAAATTGAGGGTATTTCGGTAATTTCACAAACT-AGTGGCATTT-TGGTAATTT
1 TACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAG-GGTATTTCT-GTAATTT
* * * * *
56450122 TACAAACTAGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTT
1 TACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCTGTAATTT
*
56450176 TACAAACCAAGGGTATTTTAGCAATTTTACAGACT-AGGGTATTT-TAGTAATTT
1 TACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCT-GTAATTT
56450229 ATTAAATCGA
Statistics
Matches: 173, Mismatches: 33, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
52 2 0.01
53 23 0.13
54 100 0.58
55 17 0.10
56 24 0.14
57 6 0.03
58 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TACAAACCAAGGGTATTTTAGCAATTTTACAAACTGAGGGTATTTCTGTAATTT
Found at i:56450267 original size:80 final size:81
Alignment explanation
Indices: 56450049--56450270 Score: 200
Period size: 81 Copynumber: 2.8 Consensus size: 81
56450039 TTTGTAAATC
* * *** * * *
56450049 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATT-TCACAAA-CTAGTGGCATT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCT-ACAAACCAAG-GGTATT
* *
56450112 TTGGTAATTTTACAAACT
64 TTAGCAATTTTACAAACT
* * *** * *
56450130 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCTGTAATTTTACAAACCAAGGGTATTTT
1 AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTATTTT
*
56450195 AGCAATTTTACAGACT
66 AGCAATTTTACAAACT
* * *
56450211 A-GGGTATTTTAGTAA-TTTATTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTA
1 AGGGGTATTTTAGTAATTTTA-CAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTA
56450271 AAACTATAAT
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
79 4 0.03
80 44 0.36
81 70 0.57
82 4 0.03
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (81 bp):
AGGGGTATTTTAGTAATTTTACAAATCGAGGGTAAAACAGTAATTCTACAAACCAAGGGTATTTT
AGCAATTTTACAAACT
Found at i:56450356 original size:27 final size:27
Alignment explanation
Indices: 56450231--56450377 Score: 163
Period size: 27 Copynumber: 5.5 Consensus size: 27
56450221 AGTAATTTAT
* *
56450231 TAAATCGAGGGTAAAACAGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTG
* ** *
56450258 TAAATCAAGGGTAAAACTATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTG
*
56450285 TAAATCAAGGGTAAAACGG-AACTTCTG
1 TAAATCGAGGGTAAAACGGTAA-TTCTG
*
56450312 TAAATTGAGGGTAAAACGGTAATTCTG
1 TAAATCGAGGGTAAAACGGTAATTCTG
* * *
56450339 TAAGTCGAGGGTAAAACGATAATTATG
1 TAAATCGAGGGTAAAACGGTAATTCTG
*
56450366 T-AATCGGGGGTA
1 TAAATCGAGGGTA
56450378 CTTTAGTAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.11
27 91 0.88
28 2 0.02
ACGTcount: A:0.41, C:0.10, G:0.22, T:0.27
Consensus pattern (27 bp):
TAAATCGAGGGTAAAACGGTAATTCTG
Found at i:56453111 original size:39 final size:39
Alignment explanation
Indices: 56452907--56453129 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
56452897 TTGAATGCTG
* * * * * *
56452907 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
56452947 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
56452987 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
56453027 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56453067 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
56453106 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56453130 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56453149 original size:79 final size:80
Alignment explanation
Indices: 56452987--56453164 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
56452977 AGATACAAGT
* * * *
56452987 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56453052 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
56453067 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56453131 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56453146 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56453165 TATGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56461010 original size:39 final size:39
Alignment explanation
Indices: 56460806--56461028 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
56460796 TTGAATGCTG
* * * * * *
56460806 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
56460846 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
56460886 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
*
56460926 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56460966 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
56461005 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56461029 TGAACGAGGA
Statistics
Matches: 154, Mismatches: 22, Indels: 15
0.81 0.12 0.08
Matches are distributed among these distances:
39 38 0.25
40 106 0.69
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56461048 original size:79 final size:80
Alignment explanation
Indices: 56460886--56461063 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
56460876 AGATACAAGT
* * * *
56460886 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56460951 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
56460966 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56461030 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
56461045 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56461064 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:56474247 original size:46 final size:46
Alignment explanation
Indices: 56474075--56474396 Score: 234
Period size: 47 Copynumber: 6.8 Consensus size: 46
56474065 TGGGCTATTG
*
56474075 TGAGCTAGTGTAAGA-CATGTGTGGGACATGGCATCGGC-ATTGAGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGA
* * *
56474120 TGAGAGCTAGTGTAAGA-CGTGTCTAGGACAT-GCATCGGCTTCATAAG-
1 T--GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-T-ATGAGA
* * *
56474167 GGAAGCCAGTATAAGA-CATGT-TAGGGACAT-GCATCGGCTATGAGA
1 TG-AGCTAGTGTAAGACCATGTCT-GGGACATGGCATCGGCTATGAGA
* * *
56474212 TGTGTTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTCGAATATGTGA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG--C---TATGAGA
* * * *
56474263 -GAGCTAGTGTAAGACCATGTTTGGGAAATGGCGTCGGCCTCGATGACAA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--ATGA-GA
* * * *
56474312 T-AG-TCAGTGTAAGACCATGTCTGGGACATGGTATCGACTTTAGACA
1 TGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTAT-GAGA
*
56474358 TGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
56474397 ATCATACCTT
Statistics
Matches: 219, Mismatches: 34, Indels: 46
0.73 0.11 0.15
Matches are distributed among these distances:
44 13 0.06
45 17 0.08
46 49 0.22
47 60 0.27
48 10 0.05
49 32 0.15
50 32 0.15
51 6 0.03
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (46 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGA
Found at i:56481715 original size:40 final size:40
Alignment explanation
Indices: 56481661--56481738 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
56481651 CGGATGTAAC
56481661 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
56481701 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATA
56481739 TTTTTTTTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (40 bp):
AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:56485510 original size:25 final size:25
Alignment explanation
Indices: 56485476--56485526 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
56485466 CAACCTAAGT
56485476 AAGTATACATCACTGTAAATGACAA
1 AAGTATACATCACTGTAAATGACAA
56485501 AAGTATACATCACTGTAAATGACAA
1 AAGTATACATCACTGTAAATGACAA
56485526 A
1 A
56485527 CTCTTTACCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.24
Consensus pattern (25 bp):
AAGTATACATCACTGTAAATGACAA
Found at i:56491635 original size:25 final size:25
Alignment explanation
Indices: 56491607--56491685 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
56491597 CTAATGGCCG
56491607 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
56491632 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
56491654 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
56491679 ATGTGAT
1 ATGTGAT
56491686 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:56491657 original size:47 final size:47
Alignment explanation
Indices: 56491594--56491863 Score: 459
Period size: 47 Copynumber: 5.7 Consensus size: 47
56491584 ATGATAGTAT
56491594 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
56491641 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56491688 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* * *
56491735 GGCCTAATGGCCAATGAGATGAATGTGAAAGTGTATATATGTGACAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
56491782 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAA
*
56491831 GGCCTAATGGCTGATGTGATGAATGTGATAAGT
1 GGCCTAATGGCCGATGTGATGAATGTGA-AAGT
56491864 CCCGAAGGGC
Statistics
Matches: 212, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
47 169 0.80
49 39 0.18
50 4 0.02
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
Done.