Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 184 of 425
Found at i:55765894 original size:27 final size:28
Alignment explanation
Indices: 55765782--55765894 Score: 79
Period size: 28 Copynumber: 3.9 Consensus size: 28
55765772 ACTTGTAATA
* * *
55765782 GGGCTACGGCCCAGATTGATACTGATAT
1 GGGCTAAGGCCCAGATTAACACTGATAT
* *
55765810 GGGCT-AGGCCCA-ATAAACTCTGATACTGT
1 GGGCTAAGGCCCAGATTAACACTGATA---T
* *
55765839 AAGGGGCTATGGCCCAGATTAACATTGATAT
1 ---GGGCTAAGGCCCAGATTAACACTGATAT
*
55765870 GGGCTAAGGCCTAG-TTAACACTGAT
1 GGGCTAAGGCCCAGATTAACACTGAT
55765895 TTCTGAATAG
Statistics
Matches: 65, Mismatches: 12, Indels: 17
0.69 0.13 0.18
Matches are distributed among these distances:
26 9 0.14
27 16 0.25
28 17 0.26
29 1 0.02
31 1 0.02
32 5 0.08
33 6 0.09
34 10 0.15
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACACTGATAT
Found at i:55771613 original size:2 final size:2
Alignment explanation
Indices: 55771606--55771630 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
55771596 TAGATAGAAA
55771606 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
55771631 AAAGTATTGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:55774310 original size:60 final size:59
Alignment explanation
Indices: 55774231--55774367 Score: 152
Period size: 60 Copynumber: 2.3 Consensus size: 59
55774221 AACTGTGTTA
* * *
55774231 ATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAACACTG
* * * *
55774291 ATATGGGCTAGGCCTAATATACTCTGATAATGTAAGGGGCTATGGCCCAGATTAACATTG
1 ATATGGGCTAGGCCCAATATACTCTGAT-ATGTAAAGGGCTACGGCCCAGATTAACACTG
55774351 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
55774368 GTTAACACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 50 0.77
61 14 0.22
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAACACTG
Found at i:55774367 original size:28 final size:27
Alignment explanation
Indices: 55774327--55774379 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
55774317 ATAATGTAAG
* *
55774327 GGGCTATGGCCCAGATTAACATTGATAT
1 GGGCTAAGGCCCAG-TTAACACTGATAT
55774355 GGGCTAAGGCCCAGTTAACACTGAT
1 GGGCTAAGGCCCAGTTAACACTGAT
55774380 TTCTGAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (27 bp):
GGGCTAAGGCCCAGTTAACACTGATAT
Found at i:55784438 original size:37 final size:37
Alignment explanation
Indices: 55784396--55784466 Score: 124
Period size: 37 Copynumber: 1.9 Consensus size: 37
55784386 GGCCGAAAGA
*
55784396 AACATTGAATTAGTACCTGTTGTGTACAAGTACCCAG
1 AACATTGAATCAGTACCTGTTGTGTACAAGTACCCAG
*
55784433 AACATTGAATCAGTACCTGTTGTGTGCAAGTACC
1 AACATTGAATCAGTACCTGTTGTGTACAAGTACC
55784467 TAGATGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (37 bp):
AACATTGAATCAGTACCTGTTGTGTACAAGTACCCAG
Found at i:55786763 original size:28 final size:28
Alignment explanation
Indices: 55786731--55786795 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
55786721 ATTTACTAGA
*
55786731 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
55786759 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
55786787 ATACCCCTA
1 ATACCCCTA
55786796 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.28, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:55786989 original size:29 final size:28
Alignment explanation
Indices: 55786901--55786991 Score: 114
Period size: 28 Copynumber: 3.2 Consensus size: 28
55786891 AGGAAGCGTC
*
55786901 CTGGTGGCTA-TGCCACAAGTTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
55786929 CTAGTGGC-CTTGCCACAAATTATCTGTT
1 CTGGTGGCAC-TGCCACAAATTATCTGTT
*
55786957 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
55786986 CTGGTG
1 CTGGTG
55786992 ACTCTATCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
28 47 0.85
29 8 0.15
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:55787002 original size:29 final size:28
Alignment explanation
Indices: 55786941--55787002 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
55786931 AGTGGCCTTG
* * *
55786941 CCACAAATTATCTGTTCTGGTGGCACTG
1 CCACAAAATATCTGTTCTGGTGACACTA
*
55786969 CCACAAAATATCTGTATCTGGTGACTCTA
1 CCACAAAATATCTGT-TCTGGTGACACTA
*
55786998 TCACA
1 CCACA
55787003 TTTTCTGTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 14 0.50
29 14 0.50
ACGTcount: A:0.27, C:0.26, G:0.16, T:0.31
Consensus pattern (28 bp):
CCACAAAATATCTGTTCTGGTGACACTA
Found at i:55787484 original size:18 final size:18
Alignment explanation
Indices: 55787444--55787485 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
55787434 GTAATAAGGC
*
55787444 ATTTTAATTATTTTTATG
1 ATTTTAATTACTTTTATG
* *
55787462 GTTTTAATTACTTTTATT
1 ATTTTAATTACTTTTATG
55787480 ATTTTA
1 ATTTTA
55787486 TTTTACTACG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (18 bp):
ATTTTAATTACTTTTATG
Found at i:55801484 original size:44 final size:42
Alignment explanation
Indices: 55801428--55801530 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
55801418 TTCTGATATG
*
55801428 TGATTTCGTGTAAGACCACGTCTAGGACATTGGCATCG-ATT
1 TGATTTCATGTAAGACCACGTCTAGGACATTGGCATCGTATT
* * *
55801469 TCAGATTTACATGTAAGACCATGTTTGGGACATTGGCATCGTATT
1 T--GATTT-CATGTAAGACCACGTCTAGGACATTGGCATCGTATT
*
55801514 TGATTTCGTGTAAGACC
1 TGATTTCATGTAAGACC
55801531 CTGTCTGCGG
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
41 1 0.02
42 10 0.19
43 10 0.19
44 28 0.53
45 4 0.08
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.34
Consensus pattern (42 bp):
TGATTTCATGTAAGACCACGTCTAGGACATTGGCATCGTATT
Found at i:55801790 original size:19 final size:19
Alignment explanation
Indices: 55801768--55801807 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
55801758 TGATATTGTA
55801768 AGTGAATTATGGTCAAAAG
1 AGTGAATTATGGTCAAAAG
55801787 AGTGAATTATGGTCAAAAG
1 AGTGAATTATGGTCAAAAG
55801806 AG
1 AG
55801808 CTATATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (19 bp):
AGTGAATTATGGTCAAAAG
Found at i:55806091 original size:27 final size:28
Alignment explanation
Indices: 55806035--55806104 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
55806025 AAACTTGTAC
55806035 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
55806063 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
55806090 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55806105 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:55806115 original size:27 final size:27
Alignment explanation
Indices: 55806035--55806116 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
55806025 AAACTTGTAC
* *
55806035 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
55806063 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
55806090 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
55806117 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:55813291 original size:2 final size:2
Alignment explanation
Indices: 55813284--55813313 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
55813274 TTATTTGATG
55813284 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
55813314 GTATTCGGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55813681 original size:2 final size:2
Alignment explanation
Indices: 55813676--55813702 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
55813666 CATATATAGG
55813676 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
55813703 GTATGCCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:55815695 original size:2 final size:2
Alignment explanation
Indices: 55815688--55815715 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
55815678 TATTCGAAGG
55815688 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55815716 AGAAAGCCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55817264 original size:43 final size:43
Alignment explanation
Indices: 55817049--55817257 Score: 391
Period size: 43 Copynumber: 4.9 Consensus size: 43
55817039 CAGTTATGCT
55817049 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
55817092 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
55817135 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
*
55817178 GGTGATATGTATTCGGGCCTTCGAGCCTAGCAGGCTTTGTGCC
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
* *
55817221 GGTGATATGTATTCGGGTCTTCATGCCTAGCAGGCTT
1 GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTT
55817258 AATGCCGATG
Statistics
Matches: 162, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 162 1.00
ACGTcount: A:0.13, C:0.22, G:0.32, T:0.33
Consensus pattern (43 bp):
GGTGATATGTATTCGGGCCTTCGTGCCTAGCAGGCTTTGTGCC
Found at i:55817359 original size:29 final size:29
Alignment explanation
Indices: 55817317--55817477 Score: 123
Period size: 29 Copynumber: 5.6 Consensus size: 29
55817307 CTTTAACCGA
*
55817317 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTGTGTGTGCGAGATCAGTAATTGAG
* ** **
55817346 GCACTGTATGTGCGA-ATTCCTTTAACCGA-
1 GCACTGTGTGTGCGAGA-T-CAGTAATTGAG
*
55817375 GCACTATGTGTGCGAGATCAGTAATTGAG
1 GCACTGTGTGTGCGAGATCAGTAATTGAG
** **
55817404 GCACTGTGTGTGCGA-ATTCCTTTAACCGA-
1 GCACTGTGTGTGCGAGA-T-CAGTAATTGAG
* * * *
55817433 GCACTATGTGAGCGAGATCGGTAAATGAG
1 GCACTGTGTGTGCGAGATCAGTAATTGAG
55817462 GCACTGTGTGTGCGAG
1 GCACTGTGTGTGCGAG
55817478 TTCTCCAACC
Statistics
Matches: 99, Mismatches: 25, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
28 14 0.14
29 71 0.72
30 14 0.14
ACGTcount: A:0.25, C:0.18, G:0.30, T:0.27
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCAGTAATTGAG
Found at i:55817391 original size:58 final size:58
Alignment explanation
Indices: 55817301--55817508 Score: 346
Period size: 58 Copynumber: 3.6 Consensus size: 58
55817291 ATTACCGTAT
*
55817301 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTATGTGC
1 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
55817359 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
1 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
* * *
55817417 GAATTCCTTTAACCGAGCACTATGTGAGCGAGATCGGTAAATGAGGCACTGTGTGTGC
1 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
* **
55817475 GAGTT-CTCCAACCGAGCACTATGTGTGCGAGATC
1 GAATTCCTTTAACCGAGCACTATGTGTGCGAGATC
55817509 GGTCAGTGGG
Statistics
Matches: 142, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
57 26 0.18
58 116 0.82
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (58 bp):
GAATTCCTTTAACCGAGCACTATGTGTGCGAGATCAGTAATTGAGGCACTGTGTGTGC
Found at i:55817521 original size:28 final size:28
Alignment explanation
Indices: 55817375--55817528 Score: 82
Period size: 29 Copynumber: 5.4 Consensus size: 28
55817365 CTTTAACCGA
*
55817375 GCACTATGTGTGCGAGATCAGT-AATTGAG
1 GCACTATGTGTGCGAGATCGGTCAA-TG-G
* ** * * *
55817404 GCACTGTGTGTGCGA-ATTCCTTTAACCGA
1 GCACTATGTGTGCGAGA-TCGGTCAA-TGG
* *
55817433 GCACTATGTGAGCGAGATCGGTAAATGAG
1 GCACTATGTGTGCGAGATCGGTCAATG-G
* * * *
55817462 GCACTGTGTGTGCGAGTTC--TCCAACCGA
1 GCACTATGTGTGCGAGATCGGT-CAA-TGG
*
55817490 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAATGG
*
55817518 GCACTAAGTGT
1 GCACTATGTGT
55817529 ATGAAATGAG
Statistics
Matches: 92, Mismatches: 25, Indels: 17
0.69 0.19 0.13
Matches are distributed among these distances:
27 1 0.01
28 32 0.35
29 54 0.59
30 5 0.05
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCAATGG
Found at i:55821531 original size:2 final size:2
Alignment explanation
Indices: 55821524--55821565 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
55821514 TATTCGAAGG
55821524 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
55821566 AGACAGCCAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:55827530 original size:47 final size:46
Alignment explanation
Indices: 55827469--55827595 Score: 150
Period size: 47 Copynumber: 2.7 Consensus size: 46
55827459 TGTGGGCTAG
** *
55827469 TGTAAGACATGTCTGGGACATGCATCGGCCAC-A-TTATGAGAGCCTA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACGAGACAT-A-AGCCAA
* *
55827515 TGTAAGACCATGTCTGAGACATGCATCGGCCTCGAGACATAAGCCAA
1 TGTAAGA-CATGTCTGGGACATGCATCGGCCACGAGACATAAGCCAA
* *
55827562 TATAAGACATGTCTGGGACATGCATCGGCTACGA
1 TGTAAGACATGTCTGGGACATGCATCGGCCACGA
55827596 AATGATAGTC
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
46 31 0.45
47 34 0.49
48 2 0.03
49 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (46 bp):
TGTAAGACATGTCTGGGACATGCATCGGCCACGAGACATAAGCCAA
Found at i:55828802 original size:20 final size:19
Alignment explanation
Indices: 55828777--55828814 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
55828767 GTCAAATTGG
55828777 TCACACGGGCGTGTTGCCCA
1 TCACACGGGCGTG-TGCCCA
55828797 TCACACGGGCGTGTGCCC
1 TCACACGGGCGTGTGCCC
55828815 CTGTGTCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.13, C:0.37, G:0.32, T:0.18
Consensus pattern (19 bp):
TCACACGGGCGTGTGCCCA
Found at i:55832463 original size:27 final size:26
Alignment explanation
Indices: 55832433--55832524 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 26
55832423 ATTACCAAAG
*
55832433 TACCCTCGATTTACAAAATTACAGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
*
55832460 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTAC-GTTT
* *
55832487 TACCATTGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTA-CGTTT
55832514 TACCCTCGATT
1 TACCCTCGATT
55832525 ATGAAATTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 55 0.98
28 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (26 bp):
TACCCTCGATTTACAGAATTACGTTT
Found at i:55832626 original size:27 final size:27
Alignment explanation
Indices: 55832551--55832654 Score: 120
Period size: 27 Copynumber: 3.9 Consensus size: 27
55832541 ACCTCTGTAG
* * *
55832551 GGTAGAATTACCAAAATACCCCTAGTT
1 GGTAAAATTACCAAAATACCCTTAATT
*
55832578 TGTAAAATTACCAAAATACCCTTAATT
1 GGTAAAATTACCAAAATACCCTTAATT
*
55832605 GGTAAAATTACCAAAATACCCTTGATT
1 GGTAAAATTACCAAAATACCCTTAATT
***
55832632 TACAAAATTA-CAGAAATACCCTT
1 GGTAAAATTACCA-AAATACCCTT
55832655 GACTTTCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
26 2 0.03
27 65 0.97
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (27 bp):
GGTAAAATTACCAAAATACCCTTAATT
Found at i:55832639 original size:54 final size:55
Alignment explanation
Indices: 55832551--55832711 Score: 150
Period size: 54 Copynumber: 2.9 Consensus size: 55
55832541 ACCTCTGTAG
* * **
55832551 GGTAGAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCTT-AATT
1 GGTAAAATTACCAAAATACCCTTGA-TTTACAAAATTACCAAAATACCCTTGAATT
*
55832605 GGTAAAATTACCAAAATACCCTTGATTTACAAAATTA-CAGAAATACCCTTGACTT
1 GGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCA-AAATACCCTTGAATT
** * * * **
55832660 TCTAAAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACCCTTG
1 GGT-AAAATTACCA-AAATACCCTTGATTTACAAAATTACCAAAATACCCTTG
55832712 GTTTATAGAT
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
53 2 0.02
54 41 0.46
55 6 0.07
56 40 0.45
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (55 bp):
GGTAAAATTACCAAAATACCCTTGATTTACAAAATTACCAAAATACCCTTGAATT
Found at i:55832676 original size:29 final size:27
Alignment explanation
Indices: 55832581--55832716 Score: 125
Period size: 27 Copynumber: 5.0 Consensus size: 27
55832571 CCTAGTTTGT
* ***
55832581 AAAATTACCA-AAATACCCTTAATTGGT
1 AAAATTA-CAGAAATACCCTTGATTTAC
55832608 AAAATTACCA-AAATACCCTTGATTTAC
1 AAAATTA-CAGAAATACCCTTGATTTAC
55832635 AAAATTACAGAAATACCCTTGACTTT-C
1 AAAATTACAGAAATACCCTTGA-TTTAC
* * *
55832662 TAAAAATTATAGAAATACCATTGGTTTAC
1 --AAAATTACAGAAATACCCTTGATTTAC
* *
55832691 AAAATTACTGAAATACCCTTGGTTTA
1 AAAATTACAGAAATACCCTTGATTTA
55832717 TAGATTTACC
Statistics
Matches: 94, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.02
27 66 0.70
28 6 0.06
29 20 0.21
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTGATTTAC
Found at i:55832800 original size:27 final size:26
Alignment explanation
Indices: 55832770--55832858 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 26
55832760 CCCCTAATAC
*
55832770 GTAAAAAGACCATAAAGCCTCTGTAGG
1 GTAAAATGACCATAAAGCC-CTGTAGG
* * *
55832797 GTAAAGTGAACGTAAAGCCCTTGTAGG
1 GTAAAATGACCATAAAGCCC-TGTAGG
* * *
55832824 GTAAAGTGACCATAATAACCCTGTATG
1 GTAAAATGACCATAA-AGCCCTGTAGG
55832851 GTAAAATG
1 GTAAAATG
55832859 TCGAATATGC
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 1 0.02
27 46 0.90
28 4 0.08
ACGTcount: A:0.38, C:0.16, G:0.24, T:0.22
Consensus pattern (26 bp):
GTAAAATGACCATAAAGCCCTGTAGG
Found at i:55833536 original size:25 final size:26
Alignment explanation
Indices: 55833492--55833541 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
55833482 TTATAATATG
**
55833492 AAAAATGACTATT-TTGCCCCTAGGT
1 AAAAATGACTATTATACCCCCTAGGT
55833517 AAAAATGACTATTATACCCCCTAGG
1 AAAAATGACTATTATACCCCCTAGG
55833542 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (26 bp):
AAAAATGACTATTATACCCCCTAGGT
Found at i:55833593 original size:10 final size:10
Alignment explanation
Indices: 55833578--55833638 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
55833568 ATATTGTTAT
55833578 ACATGATATG
1 ACATGATATG
55833588 ACATGATATG
1 ACATGATATG
55833598 CACATGATATG
1 -ACATGATATG
** *
55833609 TTATGAGATG
1 ACATGATATG
55833619 CACATGATATG
1 -ACATGATATG
55833630 -CTATGATAT
1 AC-ATGATAT
55833639 ACTCATTATA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (10 bp):
ACATGATATG
Found at i:55833603 original size:21 final size:20
Alignment explanation
Indices: 55833578--55833654 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
55833568 ATATTGTTAT
55833578 ACATGATATGACATGATATGC
1 ACATGATATG-CATGATATGC
* *
55833599 ACATGATATGTTATGAGATGC
1 ACATGATATG-CATGATATGC
*
55833620 ACATGATATGCTATGATATAC
1 ACATGATATGC-ATGATATGC
* *
55833641 TCATTATATGCATG
1 ACATGATATGCATG
55833655 GGTTGGGTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
20 3 0.06
21 44 0.94
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (20 bp):
ACATGATATGCATGATATGC
Found at i:55833743 original size:24 final size:25
Alignment explanation
Indices: 55833686--55833743 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
55833676 AAGAAGTGCG
55833686 AAAAG-GGCTTTGCCCTAGTTTACC
1 AAAAGAGGCTTTGCCCTAGTTTACC
**
55833710 AAAA-AGGGCTTTGCCCTAG-TTATT
1 AAAAGA-GGCTTTGCCCTAGTTTACC
55833734 AAAAGAGGCT
1 AAAAGAGGCT
55833744 AGGCCTCCAG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 15 0.52
25 14 0.48
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGAGGCTTTGCCCTAGTTTACC
Found at i:55839646 original size:17 final size:17
Alignment explanation
Indices: 55839607--55839650 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
55839597 AATATCATTT
*
55839607 ATTAAATTAATTTTTTTA
1 ATTAAA-TAATTTTTTCA
55839625 A--AAATAATTTTTTCA
1 ATTAAATAATTTTTTCA
55839640 ATTAAATAATT
1 ATTAAATAATT
55839651 CTCTCAGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 8 0.35
18 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTAAATAATTTTTTCA
Found at i:55841711 original size:22 final size:22
Alignment explanation
Indices: 55841686--55841727 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
55841676 TAACACATAG
55841686 ACTTTCTAGCCTATACATGCAA
1 ACTTTCTAGCCTATACATGCAA
55841708 ACTTTCTAGCCTATACATGC
1 ACTTTCTAGCCTATACATGC
55841728 CATACTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (22 bp):
ACTTTCTAGCCTATACATGCAA
Found at i:55844396 original size:40 final size:40
Alignment explanation
Indices: 55844348--55844513 Score: 282
Period size: 40 Copynumber: 4.2 Consensus size: 40
55844338 GGACTAAGAT
55844348 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
55844388 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
55844428 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGAC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
55844468 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
55844507 CCGAAGG
1 CCGAAGG
55844514 TACTTGGGTT
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 14 0.12
40 105 0.87
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:55845995 original size:8 final size:8
Alignment explanation
Indices: 55845982--55846020 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
55845972 TACAATACAA
*
55845982 ATTCAACC
1 ATTCAATC
55845990 ATTCAATC
1 ATTCAATC
55845998 ATTCAATC
1 ATTCAATC
*
55846006 ATTCATTTC
1 ATTCA-ATC
55846015 ATTCAA
1 ATTCAA
55846021 AATAATCCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (8 bp):
ATTCAATC
Found at i:55857369 original size:55 final size:55
Alignment explanation
Indices: 55857304--55857410 Score: 169
Period size: 55 Copynumber: 1.9 Consensus size: 55
55857294 GCCCTTAGCC
* * *
55857304 CATGTGCAACACTGACTTTAAAACATGATCATGACACACGCCCGTGTGGCCTGCT
1 CATGTACAACACTGACTTTAAAACATGACCATGACACACGCCCGTATGGCCTGCT
* *
55857359 CATGTACAACATTGACTTTAAAACATGACCATGACACATGCCCGTATGGCCT
1 CATGTACAACACTGACTTTAAAACATGACCATGACACACGCCCGTATGGCCT
55857411 ACCTGTGTAC
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (55 bp):
CATGTACAACACTGACTTTAAAACATGACCATGACACACGCCCGTATGGCCTGCT
Found at i:55857420 original size:55 final size:55
Alignment explanation
Indices: 55857304--55857435 Score: 162
Period size: 55 Copynumber: 2.4 Consensus size: 55
55857294 GCCCTTAGCC
* * * * *
55857304 CATGTGCAACACTGACTTTAAAACATGATCATGACACACGCCCGTGTGGCCTGCT
1 CATGTACAACATTGACTTTAAAACATGACCATGACACACGCCCGTATGGCCTCCT
*
55857359 CATGTACAACATTGACTTTAAAACATGACCATGACACATGCCCGTATGGCCTACCT
1 CATGTACAACATTGACTTTAAAACATGACCATGACACACGCCCGTATGGCCT-CCT
*
55857415 -GTGTACTAA-ATTGAC-TTAAAA
1 CATGTAC-AACATTGACTTTAAAA
55857436 TTTTTAGTGC
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
54 6 0.09
55 58 0.85
56 4 0.06
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (55 bp):
CATGTACAACATTGACTTTAAAACATGACCATGACACACGCCCGTATGGCCTCCT
Found at i:55858336 original size:44 final size:45
Alignment explanation
Indices: 55858187--55858409 Score: 150
Period size: 44 Copynumber: 4.8 Consensus size: 45
55858177 TTGCCTATGC
* * *
55858187 CATGTCCCAGACATGGTATCACACAGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGC-A-CATCATCGAGGCCGATG
* * * * * * *
55858235 CCATGTCCCAAACATGGTCTTATACTAGCTCTCATATATACG-TGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACT-G-GCACAT-CAT-CGAGGCCGATG
* *
55858285 CATGTCCCAGACATGTCTTACACTAGCACGA-C-TCTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCAC-ATCATC-GAGGCCGATG
* * *
55858329 CATGTCCCAGACACGTTTTACACTGGCTATCATCATCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGC-A-CATCATCGAGGCCGATG
*
55858376 CATGTCCCAGACATGCCTTACACTGGCAC-TCATC
1 CATGTCCCAGACATGTCTTACACTGGCACATCATC
55858410 TATATGCCGA
Statistics
Matches: 136, Mismatches: 26, Indels: 29
0.71 0.14 0.15
Matches are distributed among these distances:
43 1 0.01
44 36 0.26
45 3 0.02
46 6 0.04
47 33 0.24
48 9 0.07
49 36 0.26
50 9 0.07
51 3 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCACATCATCGAGGCCGATG
Found at i:55858428 original size:47 final size:46
Alignment explanation
Indices: 55858228--55858428 Score: 169
Period size: 47 Copynumber: 4.3 Consensus size: 46
55858218 CATCATCGAG
* * * *
55858228 GCCGATGCCATGTCCCAAACATGGTCTTATACTAGCTCTCATATATACGT
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTATA--T
* *
55858278 GCTGATGCATGTCCCAGACATGTCTTACACTAGCAC-GACTCT-TA-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCA-TCTATAT
* * * *
55858322 GCCGATGCATGTCCCAGACACGTTTTACACTGGCTA-TCATC-ATCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC-ACTCATCTAT--AT
* * *
55858369 GCCAATGCATGTCCCAGACATGCCTTACACTGGCACTCATCTATAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTATAT
55858415 GCCGATGCGATGTC
1 GCCGATGC-ATGTC
55858429 TGTGACATCC
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
44 33 0.27
45 2 0.02
46 10 0.08
47 43 0.35
48 17 0.14
49 13 0.10
50 6 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCATCTATAT
Found at i:55860154 original size:27 final size:28
Alignment explanation
Indices: 55860097--55860166 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55860087 AAATTTGTAC
**
55860097 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55860125 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55860152 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55860167 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55860175 original size:27 final size:27
Alignment explanation
Indices: 55860097--55860178 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55860087 AAATTTGTAC
* *
55860097 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55860125 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55860152 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55860179 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55868061 original size:27 final size:28
Alignment explanation
Indices: 55868004--55868073 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
55867994 AAATTTGTAC
**
55868004 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
55868032 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
55868059 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
55868074 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:55868082 original size:27 final size:27
Alignment explanation
Indices: 55868004--55868085 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
55867994 AAATTTGTAC
* *
55868004 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
55868032 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
55868059 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
55868086 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:55872829 original size:20 final size:20
Alignment explanation
Indices: 55872804--55872873 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
55872794 ATTGCTTTGA
55872804 TTTGTTTTGACTTTTCAAAG
1 TTTGTTTTGACTTTTCAAAG
** **
55872824 TTTGTTTT-AGGTACCAAATAG
1 TTTGTTTTGACTTTTC-AA-AG
55872845 ATTTGTTTTGACTTTTCAAAG
1 -TTTGTTTTGACTTTTCAAAG
*
55872866 TTCGTTTT
1 TTTGTTTT
55872874 AGGTACCAAA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
19 3 0.08
20 17 0.46
21 4 0.11
22 10 0.27
23 3 0.08
ACGTcount: A:0.21, C:0.10, G:0.16, T:0.53
Consensus pattern (20 bp):
TTTGTTTTGACTTTTCAAAG
Found at i:55872861 original size:42 final size:42
Alignment explanation
Indices: 55872802--55872885 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
55872792 GCATTGCTTT
*
55872802 GATTTGTTTTGACTTTTCAAAGTTTGTTTTAGGTACCAAATA
1 GATTTGTTTTGACTTTTCAAAGTTCGTTTTAGGTACCAAATA
55872844 GATTTGTTTTGACTTTTCAAAGTTCGTTTTAGGTACCAAATA
1 GATTTGTTTTGACTTTTCAAAGTTCGTTTTAGGTACCAAATA
55872886 ACTTTATAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.46
Consensus pattern (42 bp):
GATTTGTTTTGACTTTTCAAAGTTCGTTTTAGGTACCAAATA
Found at i:55876608 original size:21 final size:23
Alignment explanation
Indices: 55876584--55876631 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
55876574 AATATTGGTG
* *
55876584 TTTTTTAA-ATTTTTTA-ATATA
1 TTTTTTAATATTCTTCATATATA
55876605 TTTTTTAATATTCTTCATATATA
1 TTTTTTAATATTCTTCATATATA
55876628 TTTT
1 TTTT
55876632 GCTAAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 6 0.26
23 9 0.39
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTTTTAATATTCTTCATATATA
Found at i:55876772 original size:5 final size:5
Alignment explanation
Indices: 55876764--55876800 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
55876754 TTTTCTTTTC
55876764 TTTAT TTTAT TTTAT TTTAT TTT-T TCTT-T TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT T-TTAT TTTAT TTT
55876801 GAAAGCAAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTAT
Found at i:55876776 original size:14 final size:13
Alignment explanation
Indices: 55876749--55876800 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
55876739 AAATCACTTC
*
55876749 TTTTCTTTTCTTTT
1 TTTTATTTT-TTTT
*
55876763 CTTTATTTTATTTT
1 TTTTATTTT-TTTT
55876777 ATTTTATTTTTTCTT
1 -TTTTATTTTTT-TT
55876792 TTTTATTTT
1 TTTTATTTT
55876801 GAAAGCAAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 22 0.69
15 10 0.31
ACGTcount: A:0.10, C:0.08, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTTT
Found at i:55879710 original size:94 final size:93
Alignment explanation
Indices: 55879541--55879721 Score: 272
Period size: 94 Copynumber: 1.9 Consensus size: 93
55879531 GTAGATACAC
* * * *
55879541 TAGTGGCATTTTATATAAAACGCCGCAATATATCAGCATTAGTGGCGTTTGTCTTAAAATGCCGC
1 TAGTGGCATTTTATATAAAACGCCGCAATATATCAGAATTAGCGGCATTTGTCTTAAAACGCCGC
55879606 AAAATTGTTGAGGAAAATGGCGTGGAAT
66 AAAATTGTTGAGGAAAATGGCGTGGAAT
* * * * *
55879634 TAGTGGCGTTTTTATGTAAAACGTCGTAATATATCATAATTAGCGGCATTTGTCTTAAAACGCCG
1 TAGTGGC-ATTTTATATAAAACGCCGCAATATATCAGAATTAGCGGCATTTGTCTTAAAACGCCG
55879699 CAAAATTGTTGAGGAAAATGGCG
65 CAAAATTGTTGAGGAAAATGGCG
55879722 CCGTTATATA
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 7 0.09
94 71 0.91
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (93 bp):
TAGTGGCATTTTATATAAAACGCCGCAATATATCAGAATTAGCGGCATTTGTCTTAAAACGCCGC
AAAATTGTTGAGGAAAATGGCGTGGAAT
Found at i:55880560 original size:14 final size:14
Alignment explanation
Indices: 55880541--55880572 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
55880531 GGTTTAATTA
55880541 GTTTGGGGTTTGAG
1 GTTTGGGGTTTGAG
*
55880555 GTTTGGTGTTTGAG
1 GTTTGGGGTTTGAG
55880569 GTTT
1 GTTT
55880573 AGTCAGTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.44, T:0.50
Consensus pattern (14 bp):
GTTTGGGGTTTGAG
Found at i:55882753 original size:40 final size:40
Alignment explanation
Indices: 55882670--55882925 Score: 317
Period size: 40 Copynumber: 6.5 Consensus size: 40
55882660 CAACCAAGTA
** *
55882670 CCTTCGGGGTTTAG-CCGGATATAGCT-ACT-GCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
55882708 CCTTCGGGACTTAGCCCAGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55882748 CCTTCGGGACTTGGCCCGGATATAGT-ACTTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAAC-TCGCACAAATG
* *
55882788 CCTTTGGGACTTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55882828 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
55882868 CCTTCGGGACTT-GCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
55882907 CCTTCAGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55882926 TTATCATCCA
Statistics
Matches: 190, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
38 16 0.08
39 43 0.23
40 128 0.67
41 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55884935 original size:25 final size:25
Alignment explanation
Indices: 55884907--55884974 Score: 109
Period size: 25 Copynumber: 2.7 Consensus size: 25
55884897 GTTTGCCCCG
*
55884907 ATTCTGACATCCCCAATTTCCATAA
1 ATTCTGAAATCCCCAATTTCCATAA
* *
55884932 ATTCTGAAATCCCCAAATTCCCTAA
1 ATTCTGAAATCCCCAATTTCCATAA
55884957 ATTCTGAAATCCCCAATT
1 ATTCTGAAATCCCCAATT
55884975 CCCCATCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (25 bp):
ATTCTGAAATCCCCAATTTCCATAA
Found at i:55887880 original size:18 final size:19
Alignment explanation
Indices: 55887857--55887896 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
55887847 ACGAAAAATA
*
55887857 ATTTT-AATATTTTATTTT
1 ATTTTAAATATTTCATTTT
55887875 ATTTTAAATATTTCATTTT
1 ATTTTAAATATTTCATTTT
55887894 ATT
1 ATT
55887897 ATAACATTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTAAATATTTCATTTT
Found at i:55887997 original size:62 final size:60
Alignment explanation
Indices: 55887821--55888004 Score: 177
Period size: 62 Copynumber: 3.1 Consensus size: 60
55887811 TTAAAGTTTG
*
55887821 ATTTTAAATATTT--TTTTTTTTGAATCACGAAAAATAATTT--TA--ATATTTTATTTT
1 ATTTTAAATATTTCATTTTATTTGAATCACGAAAAATAATTTAATATTATATTTTATTTT
* * ** * * *
55887875 ATTTTAAATATTTCATTTTATTATAACATTAC-CTAATTAAATTAA-ATTATATTTAAATTTTT
1 ATTTTAAATATTTCATTTTATT-TGA-ATCACGAAAAATAATTTAATATTATATTT-TA-TTTT
* *
55887937 ATTTTAAATATTTCATTTAATTTGAATCACGAAAAATAATTTCAATATTTTATTTTATTTT
1 ATTTTAAATATTTCATTTTATTTGAATCACGAAAAATAATTT-AATATTATATTTTATTTT
55887998 ATTTTAA
1 ATTTTAA
55888005 CATTACCTAA
Statistics
Matches: 100, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
54 13 0.13
56 6 0.06
57 9 0.09
58 5 0.05
60 10 0.10
61 21 0.21
62 28 0.28
63 8 0.08
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (60 bp):
ATTTTAAATATTTCATTTTATTTGAATCACGAAAAATAATTTAATATTATATTTTATTTT
Found at i:55888014 original size:104 final size:104
Alignment explanation
Indices: 55887883--55888151 Score: 440
Period size: 104 Copynumber: 2.6 Consensus size: 104
55887873 TTATTTTAAA
* * * *
55887883 TATTTCATTTTATTATAACATTACCTAATTAAATTAAATTATATTTAAATTTTTATTTTAAATAT
1 TATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATAT
*
55887948 TTCATTTAATTTGAATCACGAAAAATAATTTCAATATTT
66 TTCATTTAATTTGAATCAAGAAAAATAATTTCAATATTT
55887987 TATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATAT
1 TATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATAT
**
55888052 TTCATTTTTTTTGAATCAAGAAAAATAATTTCAATATTT
66 TTCATTTAATTTGAATCAAGAAAAATAATTTCAATATTT
55888091 TA--TTA---TATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATAT
1 TATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATAT
55888151 T
66 T
55888152 CTATTTTATT
Statistics
Matches: 158, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
99 56 0.35
102 3 0.02
104 99 0.63
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.52
Consensus pattern (104 bp):
TATTTTATTTTATTTTAACATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATAT
TTCATTTAATTTGAATCAAGAAAAATAATTTCAATATTT
Found at i:55888275 original size:9 final size:9
Alignment explanation
Indices: 55888261--55888384 Score: 91
Period size: 9 Copynumber: 14.1 Consensus size: 9
55888251 CCAGCAACTC
55888261 ACATAATTT
1 ACATAATTT
55888270 ACATAATTT
1 ACATAATTT
55888279 ACATAA--T
1 ACATAATTT
*
55888286 ACATAACTT
1 ACATAATTT
55888295 ACATAATTT
1 ACATAATTT
*
55888304 AAAGTTTGAATTT
1 ACA---T-AATTT
*
55888317 -CATAACTT
1 ACATAATTT
55888325 ACATAATTT
1 ACATAATTT
*
55888334 ACATAACTT
1 ACATAATTT
55888343 ACATAA--T
1 ACATAATTT
* *
55888350 ACTTAACTT
1 ACATAATTT
55888359 ACATAA--T
1 ACATAATTT
* *
55888366 ACATGACTT
1 ACATAATTT
55888375 ACATAATTT
1 ACATAATTT
55888384 A
1 A
55888385 AAGATCAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 22
0.74 0.09 0.17
Matches are distributed among these distances:
7 19 0.20
8 4 0.04
9 63 0.68
12 2 0.02
13 5 0.05
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.39
Consensus pattern (9 bp):
ACATAATTT
Found at i:55888290 original size:16 final size:16
Alignment explanation
Indices: 55888269--55888381 Score: 104
Period size: 16 Copynumber: 7.1 Consensus size: 16
55888259 TCACATAATT
*
55888269 TACATAATTTACATAA
1 TACATAACTTACATAA
55888285 TACATAACTTACATAA
1 TACATAACTTACATAA
** * ** *
55888301 TTTA-AAGTTTGA-AT
1 TACATAACTTACATAA
*
55888315 TTCATAACTTACATAA
1 TACATAACTTACATAA
55888331 TTTACATAACTTACATAA
1 --TACATAACTTACATAA
*
55888349 TACTTAACTTACATAA
1 TACATAACTTACATAA
*
55888365 TACATGACTTACATAA
1 TACATAACTTACATAA
55888381 T
1 T
55888382 TTAAAGATCA
Statistics
Matches: 77, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
14 4 0.05
15 10 0.13
16 48 0.62
18 15 0.19
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (16 bp):
TACATAACTTACATAA
Found at i:55888443 original size:9 final size:9
Alignment explanation
Indices: 55888419--55888482 Score: 69
Period size: 9 Copynumber: 7.2 Consensus size: 9
55888409 TCGTACATAA
55888419 TACATAACT
1 TACATAACT
* *
55888428 TAAATAAAT
1 TACATAACT
55888437 TACATAACT
1 TACATAACT
55888446 TACATAA--
1 TACATAACT
* *
55888453 TACATATCA
1 TACATAACT
55888462 TATCATAACT
1 TA-CATAACT
55888472 TACATAACT
1 TACATAACT
55888481 TA
1 TA
55888483 ATTATACTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
7 6 0.13
9 32 0.71
10 7 0.16
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.34
Consensus pattern (9 bp):
TACATAACT
Found at i:55902180 original size:40 final size:40
Alignment explanation
Indices: 55902110--55902367 Score: 324
Period size: 40 Copynumber: 6.5 Consensus size: 40
55902100 AAGCCAAGTA
* * * *
55902110 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* ** *
55902149 CCTTCGGGACATAGCCCAAATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55902189 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
55902229 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
55902269 CCTTCGGGACTTAGCCCGGATATAGTTACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
55902309 CCTTCGGGACTTAGCCC-GAAACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
55902349 CCTTCGGAACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55902368 TTATCATCCA
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
39 15 0.08
40 178 0.92
41 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55905521 original size:30 final size:30
Alignment explanation
Indices: 55905485--55905615 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
55905475 GACAAGATTG
* * * * *
55905485 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
55905515 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
55905543 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55905573 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55905602 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55905616 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55905576 original size:58 final size:58
Alignment explanation
Indices: 55905485--55905615 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
55905475 GACAAGATTG
* * * * * *
55905485 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
55905543 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
55905602 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55905616 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:55913542 original size:29 final size:30
Alignment explanation
Indices: 55913441--55913570 Score: 162
Period size: 29 Copynumber: 4.5 Consensus size: 30
55913431 GACAAGATTG
* * * * *
55913441 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
55913471 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
55913499 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55913529 -CACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
55913557 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
55913571 GATTCACTAT
Statistics
Matches: 90, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.02
28 28 0.31
29 35 0.39
30 23 0.26
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:55915412 original size:15 final size:15
Alignment explanation
Indices: 55915394--55915429 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
55915384 TTCTCCAAGC
55915394 TCTTTCCCTTCTTTT
1 TCTTTCCCTTCTTTT
55915409 TCTTTCCCTTCTTTT
1 TCTTTCCCTTCTTTT
55915424 TCTTTC
1 TCTTTC
55915430 TTCTATTCGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TCTTTCCCTTCTTTT
Found at i:55924203 original size:37 final size:38
Alignment explanation
Indices: 55924161--55924368 Score: 148
Period size: 48 Copynumber: 5.0 Consensus size: 38
55924151 TTTCAAATTA
*
55924161 ACATGTATAACTGTGGCATATCCACTTAGCACCA-GTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
55924198 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
55924239 GAATCGATATATGTAACCTTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
55924283 ACATGTATCAATATGTGTAATCGTGGTATATCCACTTAGCACCATGTT
1 ACATG------TA----TAACCGTGGCATATCCACTTAGCACCACGTT
* *
55924331 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
55924369 TTTCCATTCC
Statistics
Matches: 138, Mismatches: 15, Indels: 35
0.73 0.08 0.19
Matches are distributed among these distances:
37 31 0.22
38 30 0.22
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 27 0.20
48 33 0.24
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:55924321 original size:48 final size:48
Alignment explanation
Indices: 55924200--55924338 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
55924190 CACCAGTTAC
* * *
55924200 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
55924247 ATATGTAACCTTGGCATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * *
55924295 ATGTGTAATCGTGGTATATCCACTTAGCACCATGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
55924339 AACCGTGGTA
Statistics
Matches: 79, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 33 0.42
48 46 0.58
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:55928485 original size:16 final size:15
Alignment explanation
Indices: 55928460--55928495 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
55928450 TTTTCTTAAT
55928460 TTATTAATTATTATA
1 TTATTAATTATTATA
*
55928475 TTATATAATTATTATT
1 TTAT-TAATTATTATA
55928491 TTATT
1 TTATT
55928496 TAAATTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATTAATTATTATA
Found at i:55928916 original size:7 final size:7
Alignment explanation
Indices: 55928891--55928929 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
55928881 ACAGAGAAAG
55928891 GAAAGGA
1 GAAAGGA
*
55928898 GAAAAGA
1 GAAAGGA
*
55928905 AAAAGGA
1 GAAAGGA
*
55928912 TAAAGGA
1 GAAAGGA
55928919 GAAAGGA
1 GAAAGGA
55928926 GAAA
1 GAAA
55928930 CTAGGGCTTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.03
Consensus pattern (7 bp):
GAAAGGA
Found at i:55937280 original size:50 final size:47
Alignment explanation
Indices: 55937166--55937292 Score: 122
Period size: 50 Copynumber: 2.7 Consensus size: 47
55937156 AGTAAGCTAC
55937166 TGTAAGA-CATGTCTGGGACAT-GCATCAGCTACAAGATATGTCAGTG
1 TGTAAGACCATGTCTGGGACATGGCATCAGC-ACAAGATATGTCAGTG
* * *
55937212 -G-AAGATCC-TGTCTAGGACATGGCATCAGCA-GAGATATGCTAGAGCTTG
1 TGTAAGA-CCATGTCTGGGACATGGCATCAGCACAAGATATG-T-CAG--TG
*
55937260 TGTAAGACCATGTCTGGGACATGGCATTAGCAC
1 TGTAAGACCATGTCTGGGACATGGCATCAGCAC
55937293 CTGCACCTGT
Statistics
Matches: 65, Mismatches: 5, Indels: 17
0.75 0.06 0.20
Matches are distributed among these distances:
44 11 0.17
45 14 0.22
46 11 0.17
48 2 0.03
49 3 0.05
50 24 0.37
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCACAAGATATGTCAGTG
Found at i:55938706 original size:40 final size:39
Alignment explanation
Indices: 55938661--55938787 Score: 130
Period size: 40 Copynumber: 3.2 Consensus size: 39
55938651 CGGAACATAA
55938661 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
55938701 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
55938741 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
55938781 CCGGATA
1 CCGGATA
55938788 AAATTTCCAG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.01
40 67 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:55938805 original size:40 final size:40
Alignment explanation
Indices: 55938677--55938827 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
55938667 ATAACCATGT
* * *
55938677 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CA
** ** * *
55938717 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
55938757 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
* *
55938797 GCATAATTGTCTTCGGGAT-TTAGCCCGGATA
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATA
55938828 TCATTCAATT
Statistics
Matches: 89, Mismatches: 18, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATAAAATCTCCA
Found at i:55938811 original size:80 final size:80
Alignment explanation
Indices: 55938677--55938826 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
55938667 ATAACCATGT
* *
55938677 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
55938741 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * *
55938757 GCACAATTGCCTTCGGGTCTTAACCCGGATAAAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
55938820 CCCGGAT
64 CCCGGAT
55938827 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAAAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:55945167 original size:38 final size:38
Alignment explanation
Indices: 55945125--55945197 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
55945115 ACTAGATACC
*
55945125 ACTTTACTTC-AGCTAGGCCGATGAGACACTGGGTGTCA
1 ACTTTACTTCGAACTA-GCCGATGAGACACTGGGTGTCA
* * *
55945163 ACTTTCCTTCGAACTATCCGATGAGGCACTGGGTG
1 ACTTTACTTCGAACTAGCCGATGAGACACTGGGTG
55945198 CCAAACTAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
38 26 0.87
39 4 0.13
ACGTcount: A:0.22, C:0.25, G:0.26, T:0.27
Consensus pattern (38 bp):
ACTTTACTTCGAACTAGCCGATGAGACACTGGGTGTCA
Found at i:55945461 original size:11 final size:11
Alignment explanation
Indices: 55945447--55945474 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
55945437 TTTATATAAG
55945447 AATTATTTGTA
1 AATTATTTGTA
55945458 AATTATTTGTA
1 AATTATTTGTA
55945469 AATTAT
1 AATTAT
55945475 GAAAGGAGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (11 bp):
AATTATTTGTA
Found at i:55953909 original size:24 final size:24
Alignment explanation
Indices: 55953848--55953910 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
55953838 TATTTTACAA
55953848 CTCGTGTGAGCATTTACATTCATAG
1 CTCGTGTGAGCA-TTACATTCATAG
** * * *
55953873 CTCAAGAGTGCATTATATTCATAG
1 CTCGTGTGAGCATTACATTCATAG
55953897 CTCGTGTGAGCATT
1 CTCGTGTGAGCATT
55953911 GTTATCCTGC
Statistics
Matches: 29, Mismatches: 9, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (24 bp):
CTCGTGTGAGCATTACATTCATAG
Found at i:55957219 original size:18 final size:18
Alignment explanation
Indices: 55957196--55957231 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
55957186 CTGATCGAGC
55957196 CAGAGTTT-AGAATATGAG
1 CAGAGTTTAAG-ATATGAG
55957214 CAGAGTTTAAGATATGAG
1 CAGAGTTTAAGATATGAG
55957232 ATCGAAGGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.39, C:0.06, G:0.28, T:0.28
Consensus pattern (18 bp):
CAGAGTTTAAGATATGAG
Found at i:55960607 original size:40 final size:39
Alignment explanation
Indices: 55960562--55960767 Score: 232
Period size: 40 Copynumber: 5.2 Consensus size: 39
55960552 GATTACAACT
*
55960562 GGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCCC
* *
55960602 GGATATAACGACTTGCACAAATGCCTTCGGGTATTAGCCC
1 GGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCCC
* * *
55960642 GGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCC
1 GGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGCCC
* ** * *
55960682 GGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAACCC
1 GGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGCCC
** * *
55960722 GGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCC
1 GGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGCCC
55960762 GGATAT
1 GGATAT
55960768 CATTCAATTG
Statistics
Matches: 143, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 1 0.01
40 142 0.99
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
GGATATAACCACTGCACAAATGCCTTCGGGTCTTAGCCC
Found at i:55960708 original size:80 final size:80
Alignment explanation
Indices: 55960562--55960767 Score: 261
Period size: 80 Copynumber: 2.6 Consensus size: 80
55960552 GATTACAACT
* * *
55960562 GGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTTGCACAAATGCC
1 GGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCC
*
55960627 TTCGGGTATTAGCCC
66 TTCGGGTATTAACCC
* * * *
55960642 GGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTC-ACTAGCACAATTGC
1 GGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATA-ACGACTAGCACAAATGC
*
55960706 CTTCGGGTCTTAACCC
65 CTTCGGGTATTAACCC
** * * * *
55960722 GGATATAATTACTAGCACAAATGTCTTCGGGACTTAGCCCGGATAT
1 GGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAT
55960768 CATTCAATTG
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
80 107 0.99
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
GGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACGACTAGCACAAATGCC
TTCGGGTATTAACCC
Found at i:55965453 original size:39 final size:39
Alignment explanation
Indices: 55965399--55965542 Score: 243
Period size: 39 Copynumber: 3.7 Consensus size: 39
55965389 GAATGTTCGA
55965399 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
55965438 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55965477 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55965516 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
55965543 CTTTGTGCGG
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.91
40 9 0.09
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:55965489 original size:78 final size:79
Alignment explanation
Indices: 55965400--55965582 Score: 278
Period size: 78 Copynumber: 2.3 Consensus size: 79
55965390 AATGTTCGAG
55965400 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAG-CCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
55965464 AATTGTGCGAGTTA
66 AATTGTGCGAGTTA
*
55965478 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGTTAAGTCCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
** *
55965543 CTTTGTGCGGGTTA
66 AATTGTGCGAGTTA
** * *
55965557 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
55965583 GTTTGAACGA
Statistics
Matches: 95, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
78 54 0.57
79 32 0.34
80 9 0.09
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (79 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGTCCCGAAGGC
AATTGTGCGAGTTA
Found at i:55973445 original size:39 final size:39
Alignment explanation
Indices: 55973391--55973544 Score: 274
Period size: 39 Copynumber: 4.0 Consensus size: 39
55973381 TGAATGTTCG
55973391 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
55973430 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
55973469 GTGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
55973507 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAAT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAAT
55973545 GNTATAAACG
Statistics
Matches: 109, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
38 35 0.32
39 74 0.68
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:55973499 original size:77 final size:78
Alignment explanation
Indices: 55973391--55973544 Score: 274
Period size: 77 Copynumber: 2.0 Consensus size: 78
55973381 TGAATGTTCG
*
55973391 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGC
55973456 AATTGTGCAAATT
66 AATTGTGCAAATT
* *
55973469 GTGATATCCGGGCTAAG-CCGAAGGCAATTGTGCGAGTTATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGC
55973533 AATTGTGCAAAT
66 AATTGTGCAAAT
55973545 GNTATAAACG
Statistics
Matches: 73, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 56 0.77
78 17 0.23
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (78 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGC
AATTGTGCAAATT
Found at i:55973720 original size:30 final size:30
Alignment explanation
Indices: 55973664--55973822 Score: 213
Period size: 30 Copynumber: 5.5 Consensus size: 30
55973654 ATAGTGAATC
55973664 CGCACACTTAGTGCTATAT-A-TTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
55973692 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
55973722 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
55973751 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
55973779 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
55973809 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55973823 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 5, Indels: 12
0.88 0.04 0.09
Matches are distributed among these distances:
27 2 0.02
28 41 0.34
29 30 0.25
30 45 0.38
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:55973813 original size:87 final size:87
Alignment explanation
Indices: 55973664--55973822 Score: 239
Period size: 87 Copynumber: 1.8 Consensus size: 87
55973654 ATAGTGAATC
* * * * * *
55973664 CGCACACTTAGTGCTATATATTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCTCGCACAC
1 CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
55973729 TTAGTGCTATATATTTTCAGCT
66 TTAGTGCTATATATTTTCAGCT
*
55973751 CGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAACCCGCACA
1 CGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACA
55973815 CTTAGTGC
65 CTTAGTGC
55973823 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
86 2 0.03
87 62 0.97
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (87 bp):
CGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAACCCGCACAC
TTAGTGCTATATATTTTCAGCT
Found at i:55981582 original size:30 final size:30
Alignment explanation
Indices: 55981527--55981686 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
55981517 ATAGTGAATC
55981527 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
55981556 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
55981586 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
55981615 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
55981643 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
55981673 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55981687 CAATCTTGTC
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:55981619 original size:59 final size:57
Alignment explanation
Indices: 55981527--55981686 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
55981517 ATAGTGAATC
*
55981527 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
55981586 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * * *
55981643 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
55981687 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 21 0.23
59 50 0.54
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:55983966 original size:31 final size:31
Alignment explanation
Indices: 55983928--55983991 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
55983918 CCTTTTCATA
55983928 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
55983959 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
55983990 TT
1 TT
55983992 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:55984234 original size:24 final size:24
Alignment explanation
Indices: 55984183--55984301 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
55984173 GCTTTATCAT
*
55984183 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
55984208 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
55984232 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
55984255 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
55984279 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55984302 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55984262 original size:47 final size:48
Alignment explanation
Indices: 55984183--55984301 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
55984173 GCTTTATCAT
*
55984183 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
55984232 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
55984279 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55984302 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:55984377 original size:20 final size:20
Alignment explanation
Indices: 55984352--55984411 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
55984342 TATGATTACC
55984352 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
55984372 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
55984392 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55984412 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:55984382 original size:11 final size:11
Alignment explanation
Indices: 55984352--55984406 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55984342 TATGATTACC
55984352 TCATGTGCATA
1 TCATGTGCATA
*
55984363 TCA--TACATA
1 TCATGTGCATA
55984372 TCATGTGCATA
1 TCATGTGCATA
* *
55984383 TCA--TACATG
1 TCATGTGCATA
55984392 TCATGTGCATA
1 TCATGTGCATA
55984403 TCAT
1 TCAT
55984407 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:55984486 original size:25 final size:25
Alignment explanation
Indices: 55984454--55984501 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
55984444 ATACATAAAC
* * *
55984454 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
55984479 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
55984502 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:55992016 original size:31 final size:31
Alignment explanation
Indices: 55991978--55992041 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
55991968 CCTTTTCATA
55991978 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
55992009 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
55992040 TT
1 TT
55992042 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:55992284 original size:24 final size:24
Alignment explanation
Indices: 55992233--55992351 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
55992223 GCTTTATCAT
*
55992233 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
55992258 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
55992282 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
55992305 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
55992329 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55992352 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:55992312 original size:47 final size:48
Alignment explanation
Indices: 55992233--55992351 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
55992223 GCTTTATCAT
*
55992233 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
55992282 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
55992329 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
55992352 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:55992427 original size:20 final size:20
Alignment explanation
Indices: 55992402--55992461 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
55992392 TATGATTACC
55992402 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
55992422 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
55992442 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
55992462 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:55992432 original size:11 final size:11
Alignment explanation
Indices: 55992402--55992456 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
55992392 TATGATTACC
55992402 TCATGTGCATA
1 TCATGTGCATA
*
55992413 TCA--TACATA
1 TCATGTGCATA
55992422 TCATGTGCATA
1 TCATGTGCATA
* *
55992433 TCA--TACATT
1 TCATGTGCATA
55992442 TCATGTGCATA
1 TCATGTGCATA
55992453 TCAT
1 TCAT
55992457 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:56011056 original size:16 final size:15
Alignment explanation
Indices: 56011023--56011051 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56011013 ATTTTCTGTG
56011023 TTTATTGTGTGTGAA
1 TTTATTGTGTGTGAA
56011038 TTTA-TGTGTGTGAA
1 TTTATTGTGTGTGAA
56011052 AATTTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (15 bp):
TTTATTGTGTGTGAA
Found at i:56018167 original size:42 final size:41
Alignment explanation
Indices: 56018120--56018217 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 41
56018110 ATTTCCCCAT
* * * * *
56018120 CATGGTCTTACATGGATCTACATGCCGATTCCATGTCCCAGA
1 CATGGTCTTACATGGACCT-CATACAGATGCCATGACCCAGA
* * *
56018162 CATGGTCTTATACGGGACCTCATATAGATGCCATGACCCAGA
1 CATGGTCTTACA-TGGACCTCATACAGATGCCATGACCCAGA
56018204 CATGGTCTTACATG
1 CATGGTCTTACATG
56018218 AAATCTCTTA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 1 0.02
42 39 0.87
43 5 0.11
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (41 bp):
CATGGTCTTACATGGACCTCATACAGATGCCATGACCCAGA
Found at i:56018329 original size:48 final size:48
Alignment explanation
Indices: 56018277--56018509 Score: 322
Period size: 48 Copynumber: 4.9 Consensus size: 48
56018267 ATACCGAGTT
* * * * * * *
56018277 CGATGTCATATCCCAGATATGGTATTACATTGGCACACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
* *
56018325 CGATGCCATGTCCTAGACATGGTCTTACACTGGCTCCCATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
* * * *
56018373 CGATGCCATGTCCTAAACATGGTCTTACACTAGCTCACATATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
* *
56018421 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACGTATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
*
56018469 CGATGCCATGTCCCAGACATGGTCTTACACGGGCTCACATA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA
56018510 AATCATGGTG
Statistics
Matches: 165, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 165 1.00
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATATCAACGC
Found at i:56021097 original size:27 final size:25
Alignment explanation
Indices: 56021062--56021118 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
56021052 TAATTTATAA
** *
56021062 AATTTTAAATTAATAATGATAAATTT
1 AATTTTAAAAAAATAATAAT-AATTT
56021088 ATATTTTAAAAAAATAATAATAATTT
1 A-ATTTTAAAAAAATAATAATAATTT
56021114 AATTT
1 AATTT
56021119 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 4 0.15
26 7 0.26
27 16 0.59
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (25 bp):
AATTTTAAAAAAATAATAATAATTT
Found at i:56021106 original size:30 final size:30
Alignment explanation
Indices: 56021072--56021130 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
56021062 AATTTTAAAT
*
56021072 TAATAATGA-TAAATTTATATTTTAAAAAAA
1 TAATAATAATTAAATTTA-ATTTTAAAAAAA
* *
56021102 TAATAATAATTTAATTTAATTTTTAAAAA
1 TAATAATAATTAAATTTAATTTTAAAAAA
56021131 GTATACAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 18 0.72
31 7 0.28
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (30 bp):
TAATAATAATTAAATTTAATTTTAAAAAAA
Found at i:56025118 original size:44 final size:44
Alignment explanation
Indices: 56025020--56025122 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 44
56025010 GCCATTTAGA
* * *
56025020 GAGATAAGATTTGTAGTTTCAATCTACTCCACTGCAACTTCAGG
1 GAGATAAGATTTGTTGTTTCAATCTACTCCACTACAACTTCACG
* * * * **
56025064 GAAATGAGATTTGTTGTTTTAGTCTGTTCCACTACAACGTT-ACG
1 GAGATAAGATTTGTTGTTTCAATCTACTCCACTACAAC-TTCACG
56025108 GAGATAAGATTTGTT
1 GAGATAAGATTTGTT
56025123 TATTTTTAAC
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 45 0.96
45 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (44 bp):
GAGATAAGATTTGTTGTTTCAATCTACTCCACTACAACTTCACG
Found at i:56025328 original size:44 final size:43
Alignment explanation
Indices: 56025195--56025333 Score: 134
Period size: 44 Copynumber: 3.1 Consensus size: 43
56025185 CATTTGCTCT
* * *
56025195 ACTGTAACTTCAGAGAGATAAGGTTTGTTATCTTCGATCTACTCC
1 ACTGCAACTTCAGA-AGATAAGGTTTATTA-CTTCAATCTACTCC
* * * * * * * *
56025240 ATTGCAACTTCAGGGAGATAAGATCTATTATTTTAACCTGCTCC
1 ACTGCAACTTCA-GAAGATAAGGTTTATTACTTCAATCTACTCC
*
56025284 ACTGCAACTTCAGTAAGATAAGGTTTATGACTTCAATCTACTCC
1 ACTGCAACTTCAG-AAGATAAGGTTTATTACTTCAATCTACTCC
56025328 ACTGCA
1 ACTGCA
56025334 TTTTTAGAGA
Statistics
Matches: 72, Mismatches: 20, Indels: 5
0.74 0.21 0.05
Matches are distributed among these distances:
43 1 0.01
44 48 0.67
45 22 0.31
46 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (43 bp):
ACTGCAACTTCAGAAGATAAGGTTTATTACTTCAATCTACTCC
Found at i:56025452 original size:101 final size:101
Alignment explanation
Indices: 56025313--56025554 Score: 394
Period size: 101 Copynumber: 2.4 Consensus size: 101
56025303 AAGGTTTATG
* ** *
56025313 ACTTCAATCTACTCCACTGCATTTTTAGAGAGATAAGATTCACCTTGGTAGACTTGATCCGACCT
1 ACTTCAATCTATTCCACTGCAACTTCAGAGAGATAAGATTCACCTTGGTAGACTTGATCCGACCT
*
56025378 ACTGCAACTTCAGATGTATAGGATTTGTGACTTGTA
66 ACTGCAACTTCAGAGGTATAGGATTTGTGACTTGTA
* *
56025414 ACTTTAATCTATTCCACTGCAACTTCAGAGAGATAAGATTCGCCTTGGTAGACTTGATCCGACCT
1 ACTTCAATCTATTCCACTGCAACTTCAGAGAGATAAGATTCACCTTGGTAGACTTGATCCGACCT
56025479 ACTGCAACTTCAGAGGTATAGGATTTGTGACTTGTA
66 ACTGCAACTTCAGAGGTATAGGATTTGTGACTTGTA
* * *
56025515 GCTTCAATCTATTCCACTACAACTTCAGGGAGATAAGATT
1 ACTTCAATCTATTCCACTGCAACTTCAGAGAGATAAGATT
56025555 TGCTATCTTC
Statistics
Matches: 130, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 130 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (101 bp):
ACTTCAATCTATTCCACTGCAACTTCAGAGAGATAAGATTCACCTTGGTAGACTTGATCCGACCT
ACTGCAACTTCAGAGGTATAGGATTTGTGACTTGTA
Found at i:56025492 original size:50 final size:50
Alignment explanation
Indices: 56025339--56025493 Score: 158
Period size: 50 Copynumber: 3.1 Consensus size: 50
56025329 CTGCATTTTT
*
56025339 AGAGAGATAAGATTCACCTTGGTAGACTTGATCCGACCTACTGCAACTTC
1 AGAGAGATAAGATTCGCCTTGGTAGACTTGATCCGACCTACTGCAACTTC
* * * * * *
56025389 AGATG-TATAGGATTTGTGACTT-GTA-ACTTTAAT-CTATTCC-ACTGCAACTTC
1 AGA-GAGATAAGA-TT-CGCCTTGGTAGAC-TTGATCCGA--CCTACTGCAACTTC
56025440 AGAGAGATAAGATTCGCCTTGGTAGACTTGATCCGACCTACTGCAACTTC
1 AGAGAGATAAGATTCGCCTTGGTAGACTTGATCCGACCTACTGCAACTTC
56025490 AGAG
1 AGAG
56025494 GTATAGGATT
Statistics
Matches: 81, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
49 6 0.07
50 37 0.46
51 33 0.41
52 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (50 bp):
AGAGAGATAAGATTCGCCTTGGTAGACTTGATCCGACCTACTGCAACTTC
Found at i:56025583 original size:45 final size:45
Alignment explanation
Indices: 56025516--56025686 Score: 209
Period size: 45 Copynumber: 3.8 Consensus size: 45
56025506 TGACTTGTAG
* *
56025516 CTTCAATCTATTCCACTACAACTTCAGGGAGATAAGATTTGCTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * *
56025561 CTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTG-TAA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * *
56025605 CTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTAT
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
* * * * *
56025650 TTTCAGTCTGCTCCACTGCAACTTTAGGAAGATAAGA
1 CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGA
56025687 CTCACCATTA
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
44 37 0.35
45 70 0.65
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (45 bp):
CTTCAATCTACTCCACTGCAACTTCAGGGAGATAAGATTTGCTAT
Found at i:56025658 original size:89 final size:89
Alignment explanation
Indices: 56025507--56025688 Score: 265
Period size: 89 Copynumber: 2.0 Consensus size: 89
56025497 TAGGATTTGT
* * * * *
56025507 GACTTGTAGCTTCAATCTATTCCACTACAACTTCAGGGAGATAAGATTTGCTATCTTCAGTCTAC
1 GACTTGTAACTTCAACCTACTCCACTACAACTTCAGAGAGATAAGATTTACTATCTTCAGTCTAC
*
56025572 TCCACTGCAACTTCAGGGAGATAA
66 TCCACTGCAACTTCAGGAAGATAA
* * * *
56025596 GACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAGATTTACTATTTTCAGTCTGC
1 GACTTGTAACTTCAACCTACTCCACTACAACTTCAGAGAGATAAGATTTACTATCTTCAGTCTAC
*
56025661 TCCACTGCAACTTTAGGAAGATAA
66 TCCACTGCAACTTCAGGAAGATAA
56025685 GACT
1 GACT
56025689 CACCATTATT
Statistics
Matches: 82, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
89 82 1.00
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (89 bp):
GACTTGTAACTTCAACCTACTCCACTACAACTTCAGAGAGATAAGATTTACTATCTTCAGTCTAC
TCCACTGCAACTTCAGGAAGATAA
Found at i:56025703 original size:16 final size:16
Alignment explanation
Indices: 56025682--56025713 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
56025672 TTTAGGAAGA
56025682 TAAGACTCACCATTAT
1 TAAGACTCACCATTAT
56025698 TAAGACTCACCATTAT
1 TAAGACTCACCATTAT
56025714 GATTTCTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (16 bp):
TAAGACTCACCATTAT
Found at i:56027185 original size:40 final size:41
Alignment explanation
Indices: 56027137--56027336 Score: 241
Period size: 40 Copynumber: 5.0 Consensus size: 41
56027127 CCTGAATGTG
*
56027137 GTCA-CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATA
1 GTCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
**
56027177 GTC-GCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATA
1 GTCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
56027217 ATC-GCTAGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 GTCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* * * *
56027257 G-CAACTCA-CACGAATGCCTTC-GGATCTTAGTCCGGTTATA
1 GTCAGCT-AGCACAAATGCCTTCGGGA-CTTAGCCCGGATATA
* *
56027297 GTCACCTAGCACAAAAGCCTTCGGGACTTAGCCCGGATAT
1 GTCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
56027337 CATTCGAATA
Statistics
Matches: 137, Mismatches: 16, Indels: 13
0.83 0.10 0.08
Matches are distributed among these distances:
39 3 0.02
40 103 0.75
41 28 0.20
42 3 0.02
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (41 bp):
GTCAGCTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
Found at i:56027330 original size:81 final size:80
Alignment explanation
Indices: 56027076--56027336 Score: 262
Period size: 80 Copynumber: 3.3 Consensus size: 80
56027066 CTCAAGTAAT
* * * * * * * * * *
56027076 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGCCTTCGGGTCTTAACCTGAATGTGG
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAG
*
56027138 TCACTAGCATAAATGC
65 TCACTAGCACAAATGC
* * * *
56027154 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGCCTTCGGGTTTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT
*
56027219 CGCTAGCACAAATGC
66 CACTAGCACAAATGC
* * * *
56027234 CTTCGGGTCTTAGCCCGGATATAG-CAACTCA-CACGAATGCCTTCGGATCTTAGTCCGGTTATA
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGCCTTCGGATCTTAGCCCGGATATA
*
56027297 GTCACCTAGCACAAAAGC
64 GTCA-CTAGCACAAATGC
56027315 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56027337 CATTCGAATA
Statistics
Matches: 152, Mismatches: 25, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
78 12 0.08
79 16 0.11
80 90 0.59
81 34 0.22
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGATCTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:56035279 original size:40 final size:40
Alignment explanation
Indices: 56035233--56035456 Score: 245
Period size: 40 Copynumber: 5.6 Consensus size: 40
56035223 CTTGCACAAG
* * * * *
56035233 GCCTTCGGGTCTTAGCCCTGATGTGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
*
56035273 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56035313 GCCTTTGGGTTTTAG-CCGGATATAATCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
* * * *
56035352 GCCTTCGGGTCTTAGCCTGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
* * * * *
56035392 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-GCTAGCACAAAT
*
56035433 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
56035457 CATTCGAATA
Statistics
Matches: 152, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
39 37 0.24
40 85 0.56
41 30 0.20
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56035343 original size:39 final size:39
Alignment explanation
Indices: 56035197--56035456 Score: 204
Period size: 40 Copynumber: 6.5 Consensus size: 39
56035187 CTCAAGTAAT
* * *
56035197 CTTCGGGAT-TTAGCCGGATATAA-CTACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCGGATATAATC-GCTAGCACAAATGC
* * ** * *
56035235 CTTCGGGTCTTAGCCCTGATGTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAG-CCGGATATAATCGCTAGCACAAATGC
* *
56035275 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAG-CCGGATATAATCGCTAGCACAAATGC
* *
56035315 CTTTGGGTTTTAGCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCGGATATAATCGCTAGCACAAATGC
* * * *
56035354 CTTCGGGTCTTAGCCTGGATAT-AGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCC-GGATATAATC-GCTAGCACAAATGC
* * * * *
56035394 CTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAG-CCGGATATAATC-GCTAGCACAAATGC
*
56035435 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAG-CCGGATAT
56035457 CATTCGAATA
Statistics
Matches: 179, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.06
39 52 0.29
40 83 0.46
41 32 0.18
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (39 bp):
CTTCGGGTCTTAGCCGGATATAATCGCTAGCACAAATGC
Found at i:56035345 original size:79 final size:81
Alignment explanation
Indices: 56035197--56035456 Score: 253
Period size: 79 Copynumber: 3.3 Consensus size: 81
56035187 CTCAAGTAAT
* * * * * * * * * **
56035197 CTTCGGGATTTAG-CCGGATATAACTACTTGCAC-AAGGCCTTCGGGTCTTAGCCCTGATGTGGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAAT
*
56035260 CA-CTAGCATAAATGC
66 CACCTAGCACAAATGC
* * * *
56035275 CTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGCCTTTGGGTTTTAG-CCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAA
*
56035338 TC-GCTAGCACAAATGC
65 TCACCTAGCACAAATGC
* * * * * *
56035354 CTTCGGGTCTTAGCCTGGATATAGCAACTCGCACGAATGCCTTCGGATCTTAGTCCGGTTATAGT
1 CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAAT
*
56035419 CACCTAGCACAAAAGC
66 CACCTAGCACAAATGC
56035435 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
56035457 CATTCGAATA
Statistics
Matches: 149, Mismatches: 26, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
78 13 0.09
79 78 0.52
80 26 0.17
81 32 0.21
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGATCTTAGTCCGGATATAAT
CACCTAGCACAAATGC
Found at i:56035417 original size:119 final size:119
Alignment explanation
Indices: 56035197--56035456 Score: 296
Period size: 119 Copynumber: 2.2 Consensus size: 119
56035187 CTCAAGTAAT
* * *
56035197 CTTCGGGATTTAGCCGGATATAACTACTTGCACAAGGCCTTCGGGTCTTAGCCCTGATGTGGTCA
1 CTTCGGGATTTAGCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCTGATATAGTCA
* * *
56035262 CTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTC-GCTAGCACAAATGC
66 CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
* * * *
56035315 CTTTGGGTTTTAGCCGGATATAA-TCGCTAGCACAAATGCCTTCGGGTCTTAG-CCTGGATATAG
1 CTTCGGGATTTAGCCGGATATAACT-ACTAGCAC-AAGGCCTTCGGGTCTTAGCCCT-GATATAG
* * * *
56035378 -CAACTCGCACGAATGCCTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
63 TC-ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACCTAGCACAAAAGC
*
56035435 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGATTTAG-CCGGATAT
56035457 CATTCGAATA
Statistics
Matches: 118, Mismatches: 17, Indels: 11
0.81 0.12 0.08
Matches are distributed among these distances:
117 1 0.01
118 34 0.29
119 53 0.45
120 22 0.19
121 8 0.07
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (119 bp):
CTTCGGGATTTAGCCGGATATAACTACTAGCACAAGGCCTTCGGGTCTTAGCCCTGATATAGTCA
CTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACCTAGCACAAAAGC
Found at i:56050587 original size:46 final size:45
Alignment explanation
Indices: 56050537--56050709 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
56050527 TGGTTGAGCA
56050537 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * * *
56050583 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* *
56050628 CATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGTGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
56050676 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56050710 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 60 0.57
47 28 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:56050693 original size:93 final size:93
Alignment explanation
Indices: 56050534--56050704 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56050524 GGATGGTTGA
* * *
56050534 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56050599 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
56050627 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
56050692 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56050705 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:56051643 original size:31 final size:31
Alignment explanation
Indices: 56051605--56051669 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
56051595 TAAACAAATA
56051605 ATTAGAAGTCATTATTTATATTTAAAGATTC
1 ATTAGAAGTCATTATTTATATTTAAAGATTC
56051636 ATTAGAAGTCATTATTTATATTTAAAGATTC
1 ATTAGAAGTCATTATTTATATTTAAAGATTC
56051667 ATT
1 ATT
56051670 CTTAAGTCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.46
Consensus pattern (31 bp):
ATTAGAAGTCATTATTTATATTTAAAGATTC
Found at i:56053432 original size:93 final size:93
Alignment explanation
Indices: 56053320--56053491 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
56053310 GCCCATAAGT
* *
56053320 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56053385 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
56053413 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56053478 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56053492 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56053487 original size:46 final size:46
Alignment explanation
Indices: 56053312--56053487 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
56053302 TGTAACCCGC
* * *
56053312 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
56053358 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
56053408 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
56053451 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56053488 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Done.