Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 237 of 310
Found at i:78052782 original size:30 final size:29
Alignment explanation
Indices: 78052736--78052802 Score: 116
Period size: 30 Copynumber: 2.3 Consensus size: 29
78052726 CCTCAAGGAA
*
78052736 CCAAAGCTAGTTAAATCGCACACTTAGTT
1 CCAAAGCTAGTTAAATCGCACACTTAGTG
78052765 CCAAAGCTAGTTTAAATCGCACACTTAGTG
1 CCAAAGCTAG-TTAAATCGCACACTTAGTG
78052795 CCAAAGCT
1 CCAAAGCT
78052803 TCCGATTCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 10 0.28
30 26 0.72
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (29 bp):
CCAAAGCTAGTTAAATCGCACACTTAGTG
Found at i:78057887 original size:41 final size:42
Alignment explanation
Indices: 78057810--78057888 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
78057800 AATACTCGAT
*
78057810 ATCTCGCACACTAAGTGCCAAAGCATAGCTGAAGCTATTATA
1 ATCTCGCACACTAACTGCCAAAGCATAGCTGAAGCTATTATA
***
78057852 ATCTCGCACACTAACTGCC-TTTCATAGCTGAAGCTAT
1 ATCTCGCACACTAACTGCCAAAGCATAGCTGAAGCTAT
78057889 CTCACTCTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
41 15 0.45
42 18 0.55
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
ATCTCGCACACTAACTGCCAAAGCATAGCTGAAGCTATTATA
Found at i:78057985 original size:40 final size:40
Alignment explanation
Indices: 78057916--78057992 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
78057906 GCTACCATAT
*
78057916 ATATAGCCGAAGCTATTCTGATTCACACACTAAGTGCTTA
1 ATATAGCCGAAGCTATTCTAATTCACACACTAAGTGCTTA
*
78057956 ATATAGCCGAAGCTA-TCTCAATAT-GCACACTAAGTGC
1 ATATAGCCGAAGCTATTCT-AAT-TCACACACTAAGTGC
78057993 CAAACATATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 3 0.09
40 29 0.88
41 1 0.03
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (40 bp):
ATATAGCCGAAGCTATTCTAATTCACACACTAAGTGCTTA
Found at i:78063358 original size:24 final size:25
Alignment explanation
Indices: 78063308--78063376 Score: 90
Period size: 24 Copynumber: 2.9 Consensus size: 25
78063298 GTGAAATAGC
*
78063308 AAAGGCTGAAAA-CCAAAAA-TCCA
1 AAAGGCTAAAAAGCCAAAAAGTCCA
*
78063331 AAAGGCTAAAAAGCCAAAAAGT-CG
1 AAAGGCTAAAAAGCCAAAAAGTCCA
*
78063355 AAAGGCTAAAAAGCCGAAAAGT
1 AAAGGCTAAAAAGCCAAAAAGT
78063377 GGGTTCACGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
23 11 0.27
24 29 0.71
25 1 0.02
ACGTcount: A:0.55, C:0.17, G:0.19, T:0.09
Consensus pattern (25 bp):
AAAGGCTAAAAAGCCAAAAAGTCCA
Found at i:78067488 original size:27 final size:27
Alignment explanation
Indices: 78067472--78067626 Score: 145
Period size: 27 Copynumber: 5.8 Consensus size: 27
78067462 TGCCCTATAG
78067472 GGGTATTTCGATAATTTTACACCACAA
1 GGGTATTTCGATAATTTTACACCACAA
* *
78067499 GGGTATTTCGATAATCTTACACAACAA
1 GGGTATTTCGATAATTTTACACCACAA
* * * *
78067526 GGTTATTTTGGTAATTTTACACTACAA
1 GGGTATTTCGATAATTTTACACCACAA
* * *
78067553 TGGTATTT-TAGTAATTTTACACTACAA
1 GGGTATTTCGA-TAATTTTACACCACAA
* * *
78067580 AGGTATTTCGGTAA-TTTACA-AATCAA
1 GGGTATTTCGATAATTTTACACCA-CAA
* *
78067606 GGGTATTTTGGTAATTTTACA
1 GGGTATTTCGATAATTTTACA
78067627 ATCTAAGGGT
Statistics
Matches: 107, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
25 1 0.01
26 21 0.20
27 85 0.79
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACACCACAA
Found at i:78073451 original size:9 final size:9
Alignment explanation
Indices: 78073437--78073560 Score: 103
Period size: 9 Copynumber: 14.0 Consensus size: 9
78073427 TAAGTATAAT
78073437 TAAGTTATG
1 TAAGTTATG
78073446 TAAGTTATG
1 TAAGTTATG
* * *
78073455 ATATGATATA
1 -TAAGTTATG
*
78073465 T-ATTTATG
1 TAAGTTATG
78073473 TAAGTTATG
1 TAAGTTATG
78073482 TAAGTTATG
1 TAAGTTATG
78073491 TAAGTTATG
1 TAAGTTATG
* * *
78073500 ATATGATATA
1 -TAAGTTATG
* *
78073510 T-ATTTACG
1 TAAGTTATG
*
78073518 T-A-TTAAG
1 TAAGTTATG
78073525 TAAGTTATG
1 TAAGTTATG
*
78073534 TAAGCTATG
1 TAAGTTATG
78073543 TAAGTTATG
1 TAAGTTATG
78073552 TAAGTTATG
1 TAAGTTATG
78073561 ATCCAAAGTT
Statistics
Matches: 90, Mismatches: 20, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
7 5 0.06
8 9 0.10
9 64 0.71
10 12 0.13
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:78073528 original size:43 final size:45
Alignment explanation
Indices: 78073427--78073542 Score: 173
Period size: 45 Copynumber: 2.6 Consensus size: 45
78073417 TGTTTATATA
* *
78073427 TAAGTATAATTAAGTTATGTAAGTTATGATATGATATATATTTATG
1 TAAGT-TAAGTAAGTTATGTAAGTTATGATATGATATATATTTACG
*
78073473 TAAGTTATGTAAGTTATGTAAGTTATGATATGATATATATTTACG
1 TAAGTTAAGTAAGTTATGTAAGTTATGATATGATATATATTTACG
*
78073518 T-A-TTAAGTAAGTTATGTAAGCTATG
1 TAAGTTAAGTAAGTTATGTAAGTTATG
78073543 TAAGTTATGT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
43 21 0.32
44 1 0.02
45 38 0.58
46 5 0.08
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (45 bp):
TAAGTTAAGTAAGTTATGTAAGTTATGATATGATATATATTTACG
Found at i:78075486 original size:41 final size:43
Alignment explanation
Indices: 78075395--78075523 Score: 129
Period size: 43 Copynumber: 3.0 Consensus size: 43
78075385 GTGTAAAATA
*
78075395 ATGTCTGGGACATTGGCATCGATATGAGATTACATGTAAGACC
1 ATGTCTAGGACATTGGCATCGATATGAGATTACATGTAAGACC
**
78075438 ATGTCTAGGACATTGGCATC-ATAT-ATGATT-TGTGTAAGACC
1 ATGTCTAGGACATTGGCATCGATATGA-GATTACATGTAAGACC
* ** * * * **
78075479 CTGTCTAGGACAGAGACATTGATATGTGAAAACATGTAAGACC
1 ATGTCTAGGACATTGGCATCGATATGAGATTACATGTAAGACC
78075522 AT
1 AT
78075524 ATCTGAGATA
Statistics
Matches: 68, Mismatches: 14, Indels: 8
0.76 0.16 0.09
Matches are distributed among these distances:
41 25 0.37
42 14 0.21
43 29 0.43
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.29
Consensus pattern (43 bp):
ATGTCTAGGACATTGGCATCGATATGAGATTACATGTAAGACC
Found at i:78081748 original size:14 final size:15
Alignment explanation
Indices: 78081724--78081752 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
78081714 AATAAAACAT
78081724 AAAGAAAAAAGAAAA
1 AAAGAAAAAAGAAAA
78081739 AAAG-AAAAAGAAAA
1 AAAGAAAAAAGAAAA
78081753 CCATGCATCT
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:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAGAAAA
Found at i:78091016 original size:46 final size:46
Alignment explanation
Indices: 78090929--78091141 Score: 218
Period size: 46 Copynumber: 4.6 Consensus size: 46
78090919 CCCGCCCCTA
* * * * * * *
78090929 AGTGAGCTCGGACTCAACTCAACAAGCTCGGGCGTTCGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATG
* *
78090975 AATGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCATG
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATG
* * * *
78091021 AGTGAAATCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--G
* *
78091067 AGTGACATGTC-AACTCAACTCAACGAGTTCGGACATTTGCATCCATG
1 AGTGA-A-CTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATG
78091114 AGTGAACTCGGACTCAACTCAACGAGTT
1 AGTGAACTCGGACTCAACTCAACGAGTT
78091142 TGGATGCTCA
Statistics
Matches: 136, Mismatches: 22, Indels: 18
0.77 0.12 0.10
Matches are distributed among these distances:
44 8 0.06
45 3 0.02
46 88 0.65
47 26 0.19
48 3 0.02
49 8 0.06
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATG
Found at i:78091095 original size:47 final size:47
Alignment explanation
Indices: 78091032--78091171 Score: 155
Period size: 47 Copynumber: 3.0 Consensus size: 47
78091022 GTGAAATCGG
78091032 ACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTGACATGTCA
1 ACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTGACATGTCA
* * * * *
78091079 ACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--GAGTGA-A-CTCGG
1 ACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCTAGTGACATGTC-A
*
78091125 ACTCAACTCAACGAGTTTGGATGCTCAACCATCCTAGTGACATGTCA
1 ACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTGACATGTCA
78091172 CTTGTATCCT
Statistics
Matches: 73, Mismatches: 11, Indels: 18
0.72 0.11 0.18
Matches are distributed among these distances:
44 8 0.11
45 3 0.04
46 25 0.34
47 26 0.36
48 3 0.04
49 8 0.11
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (47 bp):
ACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGTGACATGTCA
Found at i:78091102 original size:93 final size:93
Alignment explanation
Indices: 78090986--78091171 Score: 345
Period size: 93 Copynumber: 2.0 Consensus size: 93
78090976 ATGAACTCGG
78090986 ACTCAACTCAACGAGTTCAGACATTTGCATCCATGAGTGAAATCGGACTCAACTCAACGAGTTCG
1 ACTCAACTCAACGAGTTCAGACATTTGCATCCATGAGTGAAATCGGACTCAACTCAACGAGTTCG
78091051 GATGCTCAACCATCCTAGTGACATGTCA
66 GATGCTCAACCATCCTAGTGACATGTCA
* * *
78091079 ACTCAACTCAACGAGTTCGGACATTTGCATCCATGAGTGAACTCGGACTCAACTCAACGAGTTTG
1 ACTCAACTCAACGAGTTCAGACATTTGCATCCATGAGTGAAATCGGACTCAACTCAACGAGTTCG
78091144 GATGCTCAACCATCCTAGTGACATGTCA
66 GATGCTCAACCATCCTAGTGACATGTCA
78091172 CTTGTATCCT
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (93 bp):
ACTCAACTCAACGAGTTCAGACATTTGCATCCATGAGTGAAATCGGACTCAACTCAACGAGTTCG
GATGCTCAACCATCCTAGTGACATGTCA
Found at i:78091164 original size:46 final size:46
Alignment explanation
Indices: 78091021--78091164 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
78091011 TGCATCCATG
78091021 AGTGAAATCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAAATCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
* * * * *
78091067 AGTGACAT-GTCAACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT--G
1 AGTGAAATCG--GACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCCT
* *
78091114 AGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 AGTGAAATCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
78091160 AGTGA
1 AGTGA
78091165 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 31 0.40
47 26 0.34
48 2 0.03
49 8 0.10
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
AGTGAAATCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:78098713 original size:93 final size:93
Alignment explanation
Indices: 78098601--78098771 Score: 254
Period size: 93 Copynumber: 1.8 Consensus size: 93
78098591 GCCCCTAAGT
*
78098601 GAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAATGAACTCAGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAATGAACTCAGACTCAACTCA
78098665 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * * * * *
78098694 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
*
78098759 CGAGTTTGGATGC
66 CGAGTTCGGATGC
78098772 TCAACCATCC
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
92 2 0.03
93 67 0.97
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:78098761 original size:46 final size:46
Alignment explanation
Indices: 78098596--78098764 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 46
78098586 TAACCGCCCC
* * *
78098596 TAAGTGAACTCAGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * *
78098642 TAAATGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* * *
78098690 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* *
78098735 TGAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCAGACTCAACTCAACGAGTT
78098765 TGGATGCTCA
Statistics
Matches: 102, Mismatches: 13, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 54 0.53
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:78104183 original size:28 final size:26
Alignment explanation
Indices: 78104118--78104183 Score: 62
Period size: 28 Copynumber: 2.4 Consensus size: 26
78104108 AGCAAAGTTG
*
78104118 CTAATAACAGTAAACGTGGCAAAGCCA
1 CTAAT-ACAGTAAACATGGCAAAGCCA
* *
78104145 CCAGA-ATAGTAATTACATGGCAAAGCCA
1 CTA-ATACAGTAA--ACATGGCAAAGCCA
78104173 CTAATACAGTA
1 CTAATACAGTA
78104184 CTTCCTCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
26 6 0.20
27 3 0.10
28 21 0.70
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (26 bp):
CTAATACAGTAAACATGGCAAAGCCA
Found at i:78109256 original size:23 final size:23
Alignment explanation
Indices: 78109226--78109270 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
78109216 AGTTTGCAAG
*
78109226 TATAGGACAATGAAGGCTTTAAA
1 TATAGGACAATAAAGGCTTTAAA
78109249 TATAGGACAATAAAGGCTTTAA
1 TATAGGACAATAAAGGCTTTAA
78109271 CAGTTTGCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.09, G:0.20, T:0.27
Consensus pattern (23 bp):
TATAGGACAATAAAGGCTTTAAA
Found at i:78113998 original size:751 final size:751
Alignment explanation
Indices: 78112506--78114680 Score: 3623
Period size: 751 Copynumber: 2.9 Consensus size: 751
78112496 TTAAGTAATA
* *
78112506 TTTAAAAGAATTAGATAAAATTTGAAATTTTTATATAATTTTTTATGTAAG--------A-AAAA
1 TTTAAAAGAATTAGGTAAAATTTGAAA-TTTTATATAACTTTTTATGTAAGAAACAAAAACAAAA
*
78112562 AAA---CAAAATATGAAAAAAAAAACTA-AAAAGCTTTAAAAAAATTTCTCTTTTATAATTATAT
65 AAATTTCAAAATATG-AAAAAAAAAC-AGAAAAGCTTTAAAAAAATTTCTCTTTTGTAATTATAT
* *
78112623 ATTATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAA-TAATTTTGTTTCTTTG
128 ATTATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTCCTTTA
** *
78112687 GAGATGCATGGGTTAGCAATTTTTTTTTAATTTTAATATATATAAAGTTTATCTATTATCTCTTA
193 GAGATGCATGGGTTA-CAA-ACTTTTTAAATTTTAATATATATAAAGTTTATCTATTATCTCTTA
78112752 AATAATTTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTACAATTATA
256 AATAATTTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTACAATTATA
78112817 TAAGAAATTAATTAATATATAACTTAAAAAACAATTAGTCATATACCCAAAAAACTTTAAAACTA
321 TAAGAAATTAATTAATATATAACTTAAAAAACAATTAGTCATATACCCAAAAAACTTTAAAACTA
78112882 TTTTAAATAATAATATTTTAATTTTTTCATTTTTAACATATATTTTTCTATCTGTCATTAATTTT
386 TTTTAAATAATAATATTTTAATTTTTTCATTTTTAACATATATTTTTCTATCTGTCATTAATTTT
78112947 TTTTAAGATTTTAAATATTAAATTAAAAATAAATTGTATTTTAATTAATATAAAGAAACTAGTTA
451 TTTTAAGATTTTAAATATTAAATTAAAAATAAATTGTATTTTAATTAATATAAAGAAACTAGTTA
78113012 AATAATAAATAGAAGAGGACGAAAGAGTGCATGAGTTATTGAAAAGAATACATGAAGGGCACTTG
516 AATAATAAATAGAAGAGGACGAAAGAGTGCATGAGTTATTGAAAAGAATACATGAAGGGCACTTG
78113077 GATGATAGGTGAGAATACAGGGAGCAAAACGACGCCGTTTTGTTTAAAATAAAATGATTTTTTGA
581 GATGATAGGTGAGAATACAGGGAGCAAAACGACGCCGTTTTGTTTAAAATAAAATGATTTTTTGA
78113142 GGCATTTTTATTTACGGCGTTTTTCTCATAAACGCTACTAATGCTTGACTTTTTTAATAATATAT
646 GGCATTTTTATTTACGGCGTTTTTCTCATAAACGCTACTAATGCTTGACTTTTTTAATAATATAT
78113207 GACCAATTTTTATATTGAATTATTATATCTTTCATATCGTT
711 GACCAATTTTTATATTGAATTATTATATCTTTCATATCGTT
78113248 TTTAAAAGAATTAGGTAAAATTTGAAATTTTATATAACTTTTTATGTAAGAAACAAAAACAAAAA
1 TTTAAAAGAATTAGGTAAAATTTGAAATTTTATATAACTTTTTATGTAAGAAACAAAAACAAAAA
78113313 AATTTCAAAATATGAAAAAAAAACAGAAAAGCTTTAAAAAAATTTCTCTTTTGTAATTATATATT
66 AATTTCAAAATATGAAAAAAAAACAGAAAAGCTTTAAAAAAATTTCTCTTTTGTAATTATATATT
78113378 ATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTCCTTTAGAG
131 ATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTCCTTTAGAG
78113443 ATGCATGGGTTACAAACTTTTTAAATTTTAATATATATAAAGTTTATCTATTATCTCTTAAATAA
196 ATGCATGGGTTACAAACTTTTTAAATTTTAATATATATAAAGTTTATCTATTATCTCTTAAATAA
78113508 TTTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTACAATTATATAAGA
261 TTTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTACAATTATATAAGA
78113573 AATTAATTAATATATAACTTAAAAAACAATTAGTCATATACCCAAAAAACTTTAAAACTATTTTA
326 AATTAATTAATATATAACTTAAAAAACAATTAGTCATATACCCAAAAAACTTTAAAACTATTTTA
78113638 AATAATAATATTTTAATTTTTTCATTTTTAACATATATTTTTCTATCTGTCATTAATTTTTTTTA
391 AATAATAATATTTTAATTTTTTCATTTTTAACATATATTTTTCTATCTGTCATTAATTTTTTTTA
78113703 AGATTTTAAATATTAAATTAAAAATAAATTGTATTTTAATTAATATAAAGAAACTAGTTAAATAA
456 AGATTTTAAATATTAAATTAAAAATAAATTGTATTTTAATTAATATAAAGAAACTAGTTAAATAA
78113768 TAAATAGAAGAGGACGAAAGAGTGCATGAGTTATTGAAAAGAATACATGAAGGGCACTTGGATGA
521 TAAATAGAAGAGGACGAAAGAGTGCATGAGTTATTGAAAAGAATACATGAAGGGCACTTGGATGA
78113833 TAGGTGAGAATACAGGGAGCAAAACGACGCCGTTTTGTTTAAAATAAAATGATTTTTTGAGGCAT
586 TAGGTGAGAATACAGGGAGCAAAACGACGCCGTTTTGTTTAAAATAAAATGATTTTTTGAGGCAT
78113898 TTTTATTTACGGCGTTTTTCTCATAAACGCTACTAATGCTTGACTTTTTTAATAATATATGACCA
651 TTTTATTTACGGCGTTTTTCTCATAAACGCTACTAATGCTTGACTTTTTTAATAATATATGACCA
78113963 ATTTTTATATTGAATTATTATATCTTTCATATCGTT
716 ATTTTTATATTGAATTATTATATCTTTCATATCGTT
78113999 TTTAAAAGAATTAGGTAAAATTTGAAATTTTATATAACTTTTTATGTAAGAAACAAAAACAAAAA
1 TTTAAAAGAATTAGGTAAAATTTGAAATTTTATATAACTTTTTATGTAAGAAACAAAAACAAAAA
78114064 AATTTCAAAATATGAAAAAAAAACAGAAAAGCTTTAAAAAAATTTCTCTTTTGTAATTATATATT
66 AATTTCAAAATATGAAAAAAAAACAGAAAAGCTTTAAAAAAATTTCTCTTTTGTAATTATATATT
78114129 ATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTCCTTTAGAG
131 ATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTCCTTTAGAG
78114194 ATGCATGGGTTACAAACTTTTTAAATTTTAATATATATAAAGTTTATCTATTATCTCTTAAATAA
196 ATGCATGGGTTACAAACTTTTTAAATTTTAATATATATAAAGTTTATCTATTATCTCTTAAATAA
* * *
78114259 TTTAAACTATAATGATAATTTTAATATATTAAACTTAATATTATCTCTTTTATAATTATATTTA-
261 TTTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTACAATTATA-TAAG
* * * * * *
78114323 AAATTAACTAATATATAATTTAAAAAAACAATCAGTCAATATACTCAAAAAACGTTAAAATTATT
325 AAATTAATTAATATATAACTT-AAAAAACAATTAGTC-ATATACCCAAAAAACTTTAAAACTATT
*
78114388 TTAAATAATAGTATTTTAATTTTTTTCATTTTTAACATATATTTTTCTATGTTTTTACTTTCAAA
388 TTAAATAATAATATTTTAA-TTTTTTCATTTTTAAC--ATA------TA--TTTTT-C--T---A
*
78114453 TTTTTTCTACATTTCATTGAATTTTTTTTAAAGATTTTAAATATTAAATTAAAAATAAATT-TAT
436 -------T-C-TGTCATT-AATTTTTTTT-AAGATTTTAAATATTAAATTAAAAATAAATTGTAT
* * *
78114517 TTTAATTAATATAACGAAACTA-TTAAATAATAAATAGAAGAGAACGAAAGAGTGCATGAGTTGT
490 TTTAATTAATATAAAGAAACTAGTTAAATAATAAATAGAAGAGGACGAAAGAGTGCATGAGTTAT
* * *
78114581 TGAAAAGAATACAT-AATGGGCACTTGGATGAT-GGATGAGAATACTGGGAGCAAAATGGCGCCG
555 TGAAAAGAATACATGAA-GGGCACTTGGATGATAGG-TGAGAATACAGGGAGCAAAACGACGCCG
* * *
78114644 TTTTGTTTAAAATAAAATGACTTTTTGCGGCTTTTTT
618 TTTTGTTTAAAATAAAATGATTTTTTGAGGCATTTTT
78114681 GATAACGCCG
Statistics
Matches: 1358, Mismatches: 28, Indels: 57
0.94 0.02 0.04
Matches are distributed among these distances:
741 22 0.02
742 26 0.02
749 1 0.00
750 7 0.01
751 876 0.65
752 112 0.08
753 80 0.06
754 16 0.01
756 3 0.00
762 2 0.00
764 5 0.00
765 1 0.00
767 1 0.00
770 1 0.00
777 1 0.00
778 5 0.00
779 134 0.10
780 34 0.03
781 31 0.02
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (751 bp):
TTTAAAAGAATTAGGTAAAATTTGAAATTTTATATAACTTTTTATGTAAGAAACAAAAACAAAAA
AATTTCAAAATATGAAAAAAAAACAGAAAAGCTTTAAAAAAATTTCTCTTTTGTAATTATATATT
ATTTCAATATTTTAGGAAATTTAAATAACTTTTTCAATTTACTAATTAATTTTGTTCCTTTAGAG
ATGCATGGGTTACAAACTTTTTAAATTTTAATATATATAAAGTTTATCTATTATCTCTTAAATAA
TTTAAACTATAATGATAATTTTAATATATTAAAATTAATATTATCTCTTTTACAATTATATAAGA
AATTAATTAATATATAACTTAAAAAACAATTAGTCATATACCCAAAAAACTTTAAAACTATTTTA
AATAATAATATTTTAATTTTTTCATTTTTAACATATATTTTTCTATCTGTCATTAATTTTTTTTA
AGATTTTAAATATTAAATTAAAAATAAATTGTATTTTAATTAATATAAAGAAACTAGTTAAATAA
TAAATAGAAGAGGACGAAAGAGTGCATGAGTTATTGAAAAGAATACATGAAGGGCACTTGGATGA
TAGGTGAGAATACAGGGAGCAAAACGACGCCGTTTTGTTTAAAATAAAATGATTTTTTGAGGCAT
TTTTATTTACGGCGTTTTTCTCATAAACGCTACTAATGCTTGACTTTTTTAATAATATATGACCA
ATTTTTATATTGAATTATTATATCTTTCATATCGTT
Found at i:78114771 original size:36 final size:36
Alignment explanation
Indices: 78114704--78114774 Score: 88
Period size: 36 Copynumber: 2.0 Consensus size: 36
78114694 ATGGTTGACT
* ** * *
78114704 TTTTGCGGTGTTTTTCTCATAAATACTGCTACTGCC
1 TTTTGCGGCGTTTTAATCATAAACACCGCTACTGCC
*
78114740 TTTTGCGGCGTTTTAATCATAAACGCCGCTACTGC
1 TTTTGCGGCGTTTTAATCATAAACACCGCTACTGC
78114775 TTGACCTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.18, C:0.24, G:0.18, T:0.39
Consensus pattern (36 bp):
TTTTGCGGCGTTTTAATCATAAACACCGCTACTGCC
Found at i:78114793 original size:19 final size:19
Alignment explanation
Indices: 78114769--78114806 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
78114759 TAAACGCCGC
*
78114769 TACTGCTTGACCTTTTGCG
1 TACTGCTTGACCTATTGCG
*
78114788 TACTGCTTTACCTATTGCG
1 TACTGCTTGACCTATTGCG
78114807 GCGTTTTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.42
Consensus pattern (19 bp):
TACTGCTTGACCTATTGCG
Found at i:78123200 original size:46 final size:44
Alignment explanation
Indices: 78123108--78123229 Score: 120
Period size: 46 Copynumber: 2.7 Consensus size: 44
78123098 CGGGTTAATT
* * * *
78123108 ATGTGCTAGTGTAAGACATGTTTGGGACATGCATCAGCCTCGAG
1 ATGTACTAGTGTAAAACATGTCTGGGACATGCATCAGCCTCAAG
* *
78123152 ATGTAAACTAGTGTAAAACATGTCTGGGACATGCAT-TGGCTACAAG
1 ATGT--ACTAGTGTAAAACATGTCTGGGACATGCATCAGCCT-CAAG
** *
78123198 ATGTGTTAGTGTAAGACCATGTCTGGGACATG
1 ATGTACTAGTGTAA-AACATGTCTGGGACATG
78123230 GCTTCAGCAC
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 12 0.18
45 19 0.29
46 34 0.52
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (44 bp):
ATGTACTAGTGTAAAACATGTCTGGGACATGCATCAGCCTCAAG
Found at i:78123324 original size:47 final size:48
Alignment explanation
Indices: 78123205--78123332 Score: 152
Period size: 47 Copynumber: 2.6 Consensus size: 48
78123195 AAGATGTGTT
* * *
78123205 AGTGTAAGACCATGTCTGGGACATGGCTTCAGCACTGATATGTAAGAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCACTGA-ATGGAAGAGCC
* * *
78123255 AGTGTAAGACTATGTCTAGGACATGGCATCG-ACTTG-ATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCAC-TGAATGGAAGAGCC
*
78123302 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
78123333 GCATTATACC
Statistics
Matches: 68, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 36 0.53
48 2 0.03
49 3 0.04
50 27 0.40
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCACTGAATGGAAGAGCC
Found at i:78123859 original size:31 final size:31
Alignment explanation
Indices: 78123824--78123890 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
78123814 AATATTTGAC
78123824 TCATTTTGTATAAGGCCATGAAAAATGACTA
1 TCATTTTGTATAAGGCCATGAAAAATGACTA
*
78123855 TCATTTTGTATAAGGCCATGAAAAATGGCTA
1 TCATTTTGTATAAGGCCATGAAAAATGACTA
*
78123886 ACATT
1 TCATT
78123891 GAAAGTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (31 bp):
TCATTTTGTATAAGGCCATGAAAAATGACTA
Found at i:78127520 original size:40 final size:40
Alignment explanation
Indices: 78127454--78127674 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
78127444 ATTCGGATTG
* *
78127454 ATAATCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
**
78127493 ATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
78127533 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
78127573 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
78127613 ACAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* **
78127653 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
78127675 TACCTGGTTT
Statistics
Matches: 166, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.17
40 137 0.83
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:78138799 original size:44 final size:44
Alignment explanation
Indices: 78138742--78138828 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
78138732 TATCGTAACC
*
78138742 AAAATTCACATTTGCTAAACTTCACATACAGTTGCTTATCTCAA
1 AAAATTCACATTTGCTAAACTTCACATACAATTGCTTATCTCAA
* *
78138786 AAAATTCATATTTGCTAAACTTCGCATACAATTGCTTATCTCA
1 AAAATTCACATTTGCTAAACTTCACATACAATTGCTTATCTCA
78138829 CAAAGTTTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.36
Consensus pattern (44 bp):
AAAATTCACATTTGCTAAACTTCACATACAATTGCTTATCTCAA
Found at i:78153424 original size:44 final size:42
Alignment explanation
Indices: 78153332--78153445 Score: 104
Period size: 44 Copynumber: 2.6 Consensus size: 42
78153322 CAATGAACTC
* * * *
78153332 GCACACTTAGTGCCAATTTAATTAGCCGAAGTTATAATATTATT
1 GCACACTTAGTGCC-ATTT-ATTAACCGAACTTATAATAGTATA
*
78153376 GCACACTTAGTGCCATTTCATTAAACCGAACTTAT-ATCGGTATA
1 GCACACTTAGTGCCATTT-ATT-AACCGAACTTATAAT-AGTATA
* *
78153420 GCACACATAGTGCTATTTATTCAACC
1 GCACACTTAGTGCCATTTATT-AACC
78153446 ATCACTATTA
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 16 0.27
44 43 0.73
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (42 bp):
GCACACTTAGTGCCATTTATTAACCGAACTTATAATAGTATA
Found at i:78156579 original size:24 final size:24
Alignment explanation
Indices: 78156552--78156599 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
78156542 GTTTCAAATA
78156552 CATAAACTCATCTTCTTATCATCT
1 CATAAACTCATCTTCTTATCATCT
78156576 CATAAACTCATCTTCTTATCATCT
1 CATAAACTCATCTTCTTATCATCT
78156600 ATTTCATACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (24 bp):
CATAAACTCATCTTCTTATCATCT
Found at i:78158178 original size:17 final size:16
Alignment explanation
Indices: 78158156--78158187 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
78158146 ATGTAAAGAG
78158156 ACATAACAAATAGGCAC
1 ACATAACAAAT-GGCAC
78158173 ACATAACAAATGGCA
1 ACATAACAAATGGCA
78158188 ATCAACTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.53, C:0.22, G:0.12, T:0.12
Consensus pattern (16 bp):
ACATAACAAATGGCAC
Found at i:78158848 original size:33 final size:33
Alignment explanation
Indices: 78158804--78158866 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
78158794 CCTATAGAGT
* *
78158804 TTAATTTGGATTACCAGTCTAGGCTAAATCTAG
1 TTAATTAGGATTACCAGTCCAGGCTAAATCTAG
78158837 TTAATTAGGATTACCAGTCCAGGCTAAATC
1 TTAATTAGGATTACCAGTCCAGGCTAAATC
78158867 CTAATTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Consensus pattern (33 bp):
TTAATTAGGATTACCAGTCCAGGCTAAATCTAG
Found at i:78164314 original size:55 final size:53
Alignment explanation
Indices: 78164169--78164365 Score: 157
Period size: 55 Copynumber: 3.7 Consensus size: 53
78164159 AACTTACCAT
* * * *
78164169 TGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACTAT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATCAACTCACTAA
* * * *
78164222 TGCCATGCCTTGGCATGGTCTTACATGGGATAT--TTGCCTTATCATAGTTTA-TCAA
1 TGCCATGTCTTGACATGGTCTTACAT--GATATCCTTGCCTTATCA-A-CTCACT-AA
* * * * *
78164277 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAAAACTTACCAA
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-CAACTCACTAA
* * * * *
78164331 TGCCATGCCTTGGCATGGTTTTACTTGGTATCCTT
1 TGCCATGTCTTGACATGGTCTTACATGATATCCTT
78164366 AAATCCTAAT
Statistics
Matches: 114, Mismatches: 21, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
53 37 0.32
54 36 0.32
55 40 0.35
56 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (53 bp):
TGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATCAACTCACTAA
Found at i:78170963 original size:29 final size:28
Alignment explanation
Indices: 78170911--78170996 Score: 118
Period size: 28 Copynumber: 3.0 Consensus size: 28
78170901 GTGAGCATGA
* *
78170911 ATATGAATGTGACTGGGCCTAATGAGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
*
78170939 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGA-TTGGGCCTAATGGGCC
* *
78170968 ATATGAATATGATTGGGCTTAATGGGCC
1 ATATGAATGTGATTGGGCCTAATGGGCC
78170996 A
1 A
78170997 GATACAGGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
28 27 0.53
29 24 0.47
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
ATATGAATGTGATTGGGCCTAATGGGCC
Found at i:78173702 original size:21 final size:21
Alignment explanation
Indices: 78173656--78173701 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
78173646 AATCTTGAAT
*
78173656 GAAATTGAGAGTAGAAAAAAA
1 GAAAATGAGAGTAGAAAAAAA
*
78173677 GAAAATGAGAGT-GAGAAAAA
1 GAAAATGAGAGTAGAAAAAAA
78173697 GAAAA
1 GAAAA
78173702 AAGAATTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.63, C:0.00, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAAATGAGAGTAGAAAAAAA
Found at i:78173717 original size:6 final size:6
Alignment explanation
Indices: 78173708--78173743 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
78173698 AAAAAAGAAT
* *
78173708 TTGAGA TTGAGA TTGAGA TTGATA TTGATA TTGAGA
1 TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA TTGAGA
78173744 AAAAAATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.39
Consensus pattern (6 bp):
TTGAGA
Found at i:78175830 original size:13 final size:13
Alignment explanation
Indices: 78175812--78175836 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78175802 GTATTGATCA
78175812 TGTGTTCACACCT
1 TGTGTTCACACCT
78175825 TGTGTTCACACC
1 TGTGTTCACACC
78175837 ATGATGACCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.32, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTGTTCACACCT
Found at i:78176964 original size:55 final size:54
Alignment explanation
Indices: 78176855--78177063 Score: 201
Period size: 55 Copynumber: 3.9 Consensus size: 54
78176845 CATTAGTGTT
* * *
78176855 TAAGGATACCATGTAAAACCATGCCAAGGCATGCCAATTGGTAATGTT-TCTAAGG
1 TAAGGATACCATGTAAAACCATGCCAAGACATGGC-ATTGGTAA-GTTCTATAAGG
* *
78176910 TAAGGATACCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTATAAGG
1 TAAGGATACCATGTAAAACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGG
* * ** * *
78176965 CAAAGG-T-CCTATGTAAGACCATGCCAAGGTATGACATTGGTGAGTTC-ATAAGG
1 -TAAGGATACC-ATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
* * * * *
78177018 TAAGGATACCATGTAAGACCATGTCGAGACATGGAAATGGTAAGTT
1 TAAGGATACCATGTAAAACCATGCCAAGACATGGCATTGGTAAGTT
78177064 TCAAAAGGAT
Statistics
Matches: 126, Mismatches: 22, Indels: 14
0.78 0.14 0.09
Matches are distributed among these distances:
52 4 0.03
53 38 0.30
54 12 0.10
55 68 0.54
56 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (54 bp):
TAAGGATACCATGTAAAACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGG
Found at i:78177062 original size:108 final size:110
Alignment explanation
Indices: 78176865--78177063 Score: 287
Period size: 108 Copynumber: 1.8 Consensus size: 110
78176855 TAAGGATACC
*
78176865 ATGTAAAACCATGCCAAGGCATGCCAATTGGTAATGTTTCTAAGGTAAGGATACCATGTAAAACC
1 ATGTAAAACCATGCCAAGGCATGACAATTGGTAATGTTTCTAAGGTAAGGATACCATGTAAAACC
* *
78176930 ATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCT
66 ATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCCT
* * * *
78176975 ATGTAAGACCATGCCAAGGTATGAC-ATTGGTGA-G-TTCATAAGGTAAGGATACCATGTAAGAC
1 ATGTAAAACCATGCCAAGGCATGACAATTGGTAATGTTTC-TAAGGTAAGGATACCATGTAAAAC
* *
78177037 CATGTCGAGACATGGAAATGGTAAGTT
65 CATGTCAAGACATGGAAATGATAAGTT
78177064 TCAAAAGGAT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 3 0.04
108 47 0.59
109 7 0.09
110 22 0.28
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (110 bp):
ATGTAAAACCATGCCAAGGCATGACAATTGGTAATGTTTCTAAGGTAAGGATACCATGTAAAACC
ATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCCT
Found at i:78180642 original size:53 final size:53
Alignment explanation
Indices: 78180561--78180774 Score: 214
Period size: 54 Copynumber: 4.0 Consensus size: 53
78180551 GGTACCTTTT
* *
78180561 CTTATTAAACTTACCATTTCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
1 CTTA-TAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
* * * * * *
78180615 CTTATGAACTCACCATTGTCATGTCTTGGCATGGTCTTACATGGGT-TCTTTGC
1 CTTATAAACTTACCAATGCCATGTCTTGACATGGTCTTACAT-GGTATCCTTGC
** * * *
78180668 CTTATCATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGC
1 CTTAT-A-AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
* * * **
78180723 CTTGTAAAACTTACCAATGCCATGCCTTGGCATGGTCTTATTTGGTATCCTT
1 CTTAT-AAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
78180775 AAACCCTAAT
Statistics
Matches: 129, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
53 44 0.34
54 45 0.35
55 40 0.31
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.40
Consensus pattern (53 bp):
CTTATAAACTTACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGC
Found at i:78180711 original size:55 final size:52
Alignment explanation
Indices: 78180568--78180762 Score: 194
Period size: 53 Copynumber: 3.6 Consensus size: 52
78180558 TTTCTTATTA
* *
78180568 AACTTACCATTTCCATGTCTTGACATGGTCTTACAT-GGTATCCTTGCCTTAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGT-TCCTTGCCTTAT
* * * * *
78180620 GAACTCACCATTGTCATGTCTTGGCATGGTCTTACATGGGTTCTTTGCCTTAT
1 -AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGTTCCTTGCCTTAT
* * ** *
78180673 CATAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -A-A-CTTACCAATGCCATGTCTTGACATGGTCTTACATGGGTTCCTTGCC-T-TAT
* *
78180730 AACTTACCAATGCCATGCCTTGGCATGGTCTTA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTA
78180763 TTTGGTATCC
Statistics
Matches: 117, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
53 44 0.38
54 31 0.26
55 38 0.32
56 2 0.02
57 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (52 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGGGTTCCTTGCCTTAT
Found at i:78192021 original size:40 final size:40
Alignment explanation
Indices: 78191824--78192007 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
78191814 CGAATGATGT
* * * *
78191824 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
78191864 CCGGACGAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
78191904 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
78191942 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
78191983 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
78192008 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:78192029 original size:79 final size:79
Alignment explanation
Indices: 78191876--78192030 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
78191866 GGACGAAGAT
* **
78191876 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
78191941 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
78191955 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
78192018 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
78192031 ATTTCGAAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:78194669 original size:18 final size:18
Alignment explanation
Indices: 78194648--78194697 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
78194638 GTGAAACATT
78194648 TTATCAATGTAGAGGTTG
1 TTATCAATGTAGAGGTTG
78194666 TTATCAA--TA-A---TG
1 TTATCAATGTAGAGGTTG
78194678 TTATCAATGTAGAGGTTG
1 TTATCAATGTAGAGGTTG
78194696 TT
1 TT
78194698 TCGAATAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 12
0.68 0.00 0.32
Matches are distributed among these distances:
12 9 0.35
14 2 0.08
15 2 0.08
16 2 0.08
18 11 0.42
ACGTcount: A:0.30, C:0.06, G:0.22, T:0.42
Consensus pattern (18 bp):
TTATCAATGTAGAGGTTG
Found at i:78194684 original size:30 final size:30
Alignment explanation
Indices: 78194648--78194705 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
78194638 GTGAAACATT
78194648 TTATCAATGTAGAGGTTGTTATC-AATAATG
1 TTATCAATGTAGAGGTTGTT-TCGAATAATG
78194678 TTATCAATGTAGAGGTTGTTTCGAATAA
1 TTATCAATGTAGAGGTTGTTTCGAATAA
78194706 GAGTTATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.40
Consensus pattern (30 bp):
TTATCAATGTAGAGGTTGTTTCGAATAATG
Found at i:78199073 original size:38 final size:38
Alignment explanation
Indices: 78198992--78199114 Score: 140
Period size: 38 Copynumber: 3.2 Consensus size: 38
78198982 CAAACATAAC
* * * ** *
78198992 ACCAGCACGAAGCCTACAGGACTTTAAACTCAAATATAAT
1 ACCAGCACGAAGCCTGCGGGA-TTT-AACCCGGATATATT
* *
78199032 ACCAGCACTAGGCCTGCGGGATTTAACCCGGATATATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
78199070 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATT
1 ACCAGCACGAAGCCTGCGGGATTTAACCCGGATAT-ATT
78199109 -CCAGCA
1 ACCAGCA
78199115 TATAACCTGC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
38 49 0.68
39 6 0.08
40 17 0.24
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (38 bp):
ACCAGCACGAAGCCTGCGGGATTTAACCCGGATATATT
Found at i:78205565 original size:21 final size:21
Alignment explanation
Indices: 78205541--78205580 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78205531 TTCCACCGTT
*
78205541 GAGACTTTTGAATCCAGTTGG
1 GAGACTTTAGAATCCAGTTGG
*
78205562 GAGACTTTAGAATCTAGTT
1 GAGACTTTAGAATCCAGTT
78205581 TCTTGAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (21 bp):
GAGACTTTAGAATCCAGTTGG
Found at i:78209629 original size:12 final size:12
Alignment explanation
Indices: 78209607--78209636 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
78209597 ACGATATTGT
78209607 AATTC-AAAAAA
1 AATTCAAAAAAA
78209618 AATTCAAAAAAA
1 AATTCAAAAAAA
78209630 AATTCAA
1 AATTCAA
78209637 TATCCATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.70, C:0.10, G:0.00, T:0.20
Consensus pattern (12 bp):
AATTCAAAAAAA
Found at i:78213583 original size:295 final size:299
Alignment explanation
Indices: 78213112--78213791 Score: 769
Period size: 295 Copynumber: 2.3 Consensus size: 299
78213102 TTAAAATAAA
* * * * **
78213112 AAATAAAAAGACTAAAATAACCTTGAATAATA-AACTT-TTTTTACTACGGAAGGGTATATCGAT
1 AAATAAAAAGACTAAAATACCCTTGAATAATATAACTTATTTTAATTACGGAAGGGTATGTCCTT
*
78213175 AATTTGT-CTAACCGAGTTGGTGACCCCATTGAAGGTGACACCAACTCAGTAAGAGCTTAAATAA
66 AATTT-TCCTAACCGAGTTGGTAACCCCATTGAAGGTGACACCAACTCAGTAAGAGCTTAAATAA
* * * * *
78213239 TAGTAAGTGTATATATACAAATGATGTAAGTAATAAAGTGTATATAATAAAATTAAAATACATAA
130 TACTAAGTATAGATATACAAATGATGAAAGTAATAAAGTGTACATAATAAAATTAAAATACATAA
* * * * **
78213304 AAATA-TCAAATAA-AGTTTTAGTTGAGTGGTAAATTAAAAATTTTATTAATGTAATTAATTTGG
195 AAATATTAAAATAACA-TGTTAGTTGAGTGATAAATTAAAAATTTTACTAATACAATTAATTTGG
* *
78213367 GTTCAAAT-CTCACAATATGCATT-TTT-TATTGGTT-TTTT-T
259 GTCCAAATAC-CACAATATGC-TTATTTATATT-ATTCTTTTAT
* *
78213406 -AA-AAAAAGACTAAAATACCCTTGAATAATATAACTTATTTTAATTAAGGAATGGTATGTCCTT
1 AAATAAAAAGACTAAAATACCCTTGAATAATATAACTTATTTTAATTACGGAAGGGTATGTCCTT
* * * *
78213469 AATTTTCCTAACCGAGTTGGTAACTCGATTGAGGGTGACATCAACTCAGTAAGGAGCTTAAATAA
66 AATTTTCCTAACCGAGTTGGTAACCCCATTGAAGGTGACACCAACTCAGTAA-GAGCTTAAATAA
* * * ***
78213534 TACTATAG-ATAGATATACAGATGATGAAAGTGATAAAGTGTGCATAATAAAATTAAAATGTTTA
130 TACTA-AGTATAGATATACAAATGATGAAAGTAATAAAGTGTACATAATAAAATTAAAATACATA
* * ** *
78213598 AATATATTAAAATAACATGTTATTTGAGTGATAAATTAAAGGTTTTACTAATACAATTAGTTTGG
194 AAAATATTAAAATAACATGTTAGTTGAGTGATAAATTAAAAATTTTACTAATACAATTAATTTGG
*
78213663 GTCCAAATACCACCATATGCTTATTTATATTATTCTTTTAAAT
259 GTCCAAATACCACAATATGCTTATTTATATTATTCTTTT--AT
* * * *
78213706 AAATAAAAAAACTAAAGTACCCTTGGATGAA-ATAATTTATTTTAATTACGGAAGGGTATG-CCT
1 AAATAAAAAGACTAAAATACCCTTGAAT-AATATAACTTATTTTAATTACGGAAGGGTATGTCCT
*
78213769 ATAATTTTCCTAACCAAGTTGGT
65 -TAATTTTCCTAACCGAGTTGGT
78213792 GGCTTTGTTG
Statistics
Matches: 323, Mismatches: 45, Indels: 28
0.82 0.11 0.07
Matches are distributed among these distances:
292 27 0.08
293 8 0.02
294 64 0.20
295 69 0.21
296 69 0.21
297 10 0.03
300 1 0.00
301 5 0.02
302 68 0.21
303 2 0.01
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (299 bp):
AAATAAAAAGACTAAAATACCCTTGAATAATATAACTTATTTTAATTACGGAAGGGTATGTCCTT
AATTTTCCTAACCGAGTTGGTAACCCCATTGAAGGTGACACCAACTCAGTAAGAGCTTAAATAAT
ACTAAGTATAGATATACAAATGATGAAAGTAATAAAGTGTACATAATAAAATTAAAATACATAAA
AATATTAAAATAACATGTTAGTTGAGTGATAAATTAAAAATTTTACTAATACAATTAATTTGGGT
CCAAATACCACAATATGCTTATTTATATTATTCTTTTAT
Found at i:78215164 original size:31 final size:31
Alignment explanation
Indices: 78215078--78215168 Score: 89
Period size: 31 Copynumber: 3.0 Consensus size: 31
78215068 TTTGATACGT
* * *
78215078 AAACTTTGA-TTTGGTACAATTATACACATA
1 AAACTTTGATTTTGGTTCAATTGTATACATA
* *
78215108 AAAC-TTGAATTGTGGTTC-ATATGTATACATG
1 AAACTTTG-ATTTTGGTTCAAT-TGTATACATA
*
78215139 AAACTTTGATTTTGATTCAATTGTATACAT
1 AAACTTTGATTTTGGTTCAATTGTATACAT
78215169 TTAAAGAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
29 3 0.06
30 7 0.14
31 34 0.69
32 5 0.10
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (31 bp):
AAACTTTGATTTTGGTTCAATTGTATACATA
Found at i:78221011 original size:27 final size:26
Alignment explanation
Indices: 78220981--78221056 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 26
78220971 GGCTGCCAAA
* *
78220981 ACAGATATTGTGACAGAGTCACCAGAT
1 ACAGATATTGTGGCAGAGCCACCAG-T
78221008 ACAGATATTGTGGCAGAGCCACCAGT
1 ACAGATATTGTGGCAGAGCCACCAGT
78221034 ACAGATATTTGTGGCAGAGCCAC
1 ACAGATA-TTGTGGCAGAGCCAC
78221057 TAGAATACTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
26 8 0.17
27 38 0.83
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (26 bp):
ACAGATATTGTGGCAGAGCCACCAGT
Found at i:78229973 original size:47 final size:48
Alignment explanation
Indices: 78229910--78230029 Score: 188
Period size: 49 Copynumber: 2.5 Consensus size: 48
78229900 ATGATAGTAT
*
78229910 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAA
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATATGATAA
* *
78229957 TGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATATGATAG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATATGATAA
*
78230006 GGCCTAATGGCCGATATGATGAAT
1 GGCCTAATGGCCGATGTGATGAAT
78230030 AATGGCCAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
47 32 0.48
49 34 0.52
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (48 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATATGATAA
Found at i:78230034 original size:19 final size:19
Alignment explanation
Indices: 78230010--78230048 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
78230000 TGATAGGGCC
*
78230010 TAATGGCCGATATGATGAA
1 TAATGGCCAATATGATGAA
*
78230029 TAATGGCCAATGTGATGAA
1 TAATGGCCAATATGATGAA
78230048 T
1 T
78230049 GTGATAAGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (19 bp):
TAATGGCCAATATGATGAA
Found at i:78230231 original size:37 final size:37
Alignment explanation
Indices: 78230175--78230253 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
78230165 CCGAGCTCTA
* * *
78230175 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
78230212 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
78230249 AAGAC
1 AAGAC
78230254 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:78232730 original size:27 final size:26
Alignment explanation
Indices: 78232690--78232775 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
78232680 AGCATGGCTG
*
78232690 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
78232716 CCAGATACAAATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* **
78232743 CCAGAACAGATATTTATGGTAGAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
78232770 CCAGAA
1 CCAGAA
78232776 TACTTCCTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
26 11 0.21
27 41 0.79
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:78234037 original size:25 final size:25
Alignment explanation
Indices: 78234004--78234053 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
78233994 AACCAAAGAA
78234004 AATAAATGTGAAATAGAAGGAAAAG
1 AATAAATGTGAAATAGAAGGAAAAG
78234029 AATAAATGTGAAATAGAAGGAAAAG
1 AATAAATGTGAAATAGAAGGAAAAG
78234054 GAATTGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (25 bp):
AATAAATGTGAAATAGAAGGAAAAG
Found at i:78234641 original size:18 final size:18
Alignment explanation
Indices: 78234607--78234648 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
78234597 ACAATTCACT
*
78234607 AAAATTCTCAGAAATCCTG
1 AAAA-TCTCAGAAATCCCG
78234626 AAAATCTC-GAAGATCCCG
1 AAAATCTCAGAA-ATCCCG
78234644 AAAAT
1 AAAAT
78234649 TAGGGCGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 3 0.14
18 14 0.67
19 4 0.19
ACGTcount: A:0.45, C:0.21, G:0.12, T:0.21
Consensus pattern (18 bp):
AAAATCTCAGAAATCCCG
Found at i:78235603 original size:8 final size:8
Alignment explanation
Indices: 78235585--78235614 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
78235575 AAATAAACTT
78235585 AACATTATA
1 AACA-TATA
78235594 AACATATA
1 AACATATA
78235602 AACATATA
1 AACATATA
78235610 AACAT
1 AACAT
78235615 CATCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.13, G:0.00, T:0.27
Consensus pattern (8 bp):
AACATATA
Found at i:78236936 original size:46 final size:43
Alignment explanation
Indices: 78236868--78236994 Score: 137
Period size: 46 Copynumber: 2.8 Consensus size: 43
78236858 TGATATGTGT
*
78236868 GCTAGTGTAAGACATGTCTGGGACATGCATTAGCCACATCATGAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCCACA-CA--AGA
*** *
78236914 GCTAGTGTAAGACATGTTTGGGACATGCATCTGTATTGAGACAAGA
1 GCTAGTGTAAGACATGTTTGGGACATGCA--T-TAGCCACACAAGA
* *
78236960 GCTAGTGTAAGAAATGTTTGGGACATGCATCAGCC
1 GCTAGTGTAAGACATGTTTGGGACATGCATTAGCC
78236995 TCGCGATATA
Statistics
Matches: 68, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 1 0.01
46 59 0.87
48 3 0.04
49 4 0.06
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTTTGGGACATGCATTAGCCACACAAGA
Found at i:78245752 original size:39 final size:40
Alignment explanation
Indices: 78245657--78245918 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
78245647 TTGAATGATG
*
78245657 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
78245695 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
78245736 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
78245775 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78245814 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
78245853 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
78245892 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78245919 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78253779 original size:39 final size:40
Alignment explanation
Indices: 78253684--78253945 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
78253674 TTGAATGATG
*
78253684 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
78253722 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
78253763 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
78253802 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
78253841 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
78253880 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
78253919 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
78253946 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:78255479 original size:48 final size:46
Alignment explanation
Indices: 78255367--78255539 Score: 156
Period size: 46 Copynumber: 3.7 Consensus size: 46
78255357 TATGCGTGCT
* * **
78255367 AATGTAAGACATGTCTGGGACATGTATCAGCC-ACA-ACATGAGAGCC
1 AATGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACAT-A-AGCC
* *
78255413 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTTAAGCC
1 AATGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACA--TAAGCC
* ** * *
78255461 AATGTAAGACATGTCTGGGACATACATTC-GTATTGAGACGA-GAGCT
1 AATGTAAGACATGTCTGGGACATGCA-TCGGCCTTGAGAC-ATAAGCC
*
78255507 AGTGTAAGACATGTCTGGGACATGCATCGGCCT
1 AATGTAAGACATGTCTGGGACATGCATCGGCCT
78255540 CGTGATATAC
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.02
46 58 0.56
47 1 0.01
48 37 0.36
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (46 bp):
AATGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACATAAGCC
Found at i:78255561 original size:94 final size:94
Alignment explanation
Indices: 78255406--78255577 Score: 254
Period size: 94 Copynumber: 1.8 Consensus size: 94
78255396 GCCACAACAT
* **
78255406 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATATTTAAGCCAATGTAAGAC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAATGTAAGAC
*
78255471 ATGTCTGGGACATACATTCGTATTGAGAC
66 ATGTCTGAGACATACATTCGTATTGAGAC
* * * * *
78255500 GAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGTGATATACAAGCTAGTGTAAGGC
1 GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAATGTAAGAC
*
78255565 CTGTCTGAGACAT
66 ATGTCTGAGACAT
78255578 GGTGTCAACT
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
94 68 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (94 bp):
GAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATACAAGCCAATGTAAGAC
ATGTCTGAGACATACATTCGTATTGAGAC
Found at i:78267470 original size:8 final size:8
Alignment explanation
Indices: 78267457--78267481 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
78267447 AACTTAACTT
78267457 TATAAACA
1 TATAAACA
78267465 TATAAACA
1 TATAAACA
78267473 TATAAACA
1 TATAAACA
78267481 T
1 T
78267482 CATTAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TATAAACA
Found at i:78268073 original size:116 final size:116
Alignment explanation
Indices: 78267869--78268210 Score: 657
Period size: 116 Copynumber: 2.9 Consensus size: 116
78267859 CTAGACATGG
78267869 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTACGAAAACCC
1 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTACGAAAACCC
78267934 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATACCAAA
66 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATACCAAA
*
78267985 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACAAGAAACTCCTACGAAAACCC
1 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTACGAAAACCC
*
78268050 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTATATACCAAA
66 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATACCAAA
*
78268101 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTACAAAAACCC
1 TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTACGAAAACCC
78268166 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
66 TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGAT
78268211 TTTTGAATTT
Statistics
Matches: 221, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
116 221 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (116 bp):
TGATACGGGGTTGCGCGCGGACCAAGATCGAGTTGCCAAGTCACGAGAAACTCCTACGAAAACCC
TAAACAATTAGATCTGAAACGAAACAGAAAATTAAAAGATTAGATACCAAA
Found at i:78287381 original size:49 final size:50
Alignment explanation
Indices: 78287301--78287533 Score: 290
Period size: 49 Copynumber: 4.7 Consensus size: 50
78287291 AGCTATTGTG
* *
78287301 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
78287351 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
78287401 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCATATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
78287451 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCACATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
78287501 -GGTCGCATATGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
78287534 TGCATACCTG
Statistics
Matches: 156, Mismatches: 25, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
49 71 0.46
50 48 0.31
51 37 0.24
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:78295266 original size:269 final size:269
Alignment explanation
Indices: 78294787--78295860 Score: 2130
Period size: 269 Copynumber: 4.0 Consensus size: 269
78294777 TTTTCGTCCT
78294787 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
1 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
*
78294852 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTCGCATCGGTCTATAAAATCATTTTCTT
66 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
78294917 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
131 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
78294982 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
196 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
78295047 ATCATCAGA
261 ATCATCAGA
78295056 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
1 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
78295121 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
66 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
78295186 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
131 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
78295251 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
196 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
78295316 ATCATCAGA
261 ATCATCAGA
78295325 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
1 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
78295390 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
66 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
78295455 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
131 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
78295520 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
196 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
78295585 ATCATCAGA
261 ATCATCAGA
78295594 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
1 CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
78295659 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
66 TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
78295724 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
131 ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
*
78295789 AAGCAATAATCACTTAACTTAATTCATAAATGCATTTCAAACACATATTAACATGTATAATTCAC
196 AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
78295854 ATCATCA
261 ATCATCA
78295861 ACCCACATAT
Statistics
Matches: 803, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
269 803 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (269 bp):
CGAAAATTTCTACCGATGCATAGTTTAGGATAACGTCCTCTTATTGAATTACATCCACAAAGACA
TTAGCTCATTGATAGCAATTGTAATTCATTATTGATTTTGCATCGGTCTATAAAATCATTTTCTT
ATCTTAAAACAAATACATAAACATTTCTACAAGTATGCACAAATATCTCATTTTCTTGATTTCAT
AAGCAATAATCACTTAACTTAATTCACAAATGCATTTCAAACACATATTAACATGTATAATTCAC
ATCATCAGA
Found at i:78296717 original size:40 final size:40
Alignment explanation
Indices: 78296672--78296868 Score: 259
Period size: 40 Copynumber: 4.9 Consensus size: 40
78296662 CGAATACACG
* * * * *
78296672 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGACATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * ** * *
78296712 ACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* *
78296752 TCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
78296792 TCACTAGCATGAATGCTCCTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
78296832 TCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGAT
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT
78296869 TTAGTAACTC
Statistics
Matches: 137, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 137 1.00
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:78296893 original size:40 final size:39
Alignment explanation
Indices: 78296738--78296947 Score: 128
Period size: 40 Copynumber: 5.3 Consensus size: 39
78296728 TCTTCGGGGT
* *
78296738 TTAGCACGGATATA-TCAC-TAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATAGTAACTTAGCAC-AATGC-CTTCGG-AC
* * * *
78296778 TTAGCCCGGATACA-TCAC-TAGCATGAATGCTCCTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTC-GGAC
* * *
78296818 TTAGCCCGGATACA-TCAC-TAGCATGAATGCTCTTCGAGAC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGC-CTTCG-GAC
* *
78296858 TTAGCCCGGATTTAGTAAC-TCGCACCAATGCCTTCGGATC
1 TTAGCCCGGATATAGTAACTTAGCA-CAATGCCTTCGGA-C
* * * *
78296898 TTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTTAGCACAATGCCTTC-GGAC
78296938 TTAGCCCGGA
1 TTAGCCCGGA
78296948 CATCATTCAA
Statistics
Matches: 145, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
39 3 0.02
40 121 0.83
41 21 0.14
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAGTAACTTAGCACAATGCCTTCGGAC
Found at i:78296901 original size:80 final size:80
Alignment explanation
Indices: 78296723--78296947 Score: 208
Period size: 80 Copynumber: 2.8 Consensus size: 80
78296713 CACCAGCATG
* ** * *
78296723 AATGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
1 AATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
* **
78296788 TACATCACTAGCATG
66 TACATAACTAGCACC
*
78296803 AATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTC-GAGACTTAGCCCGG
1 AATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGA-ACTTAGCCCGG
** *
78296867 ATTTAGTAACTCGCACC
65 ATACA-TAACTAGCACC
* * ** * *
78296884 AATGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AAAGC-CTTCGGGACTTAGCCC
1 AATGCTCCTCGGGA-CTTAGCCCGGATA-CATCAC-TAGCACGAATGCTCTTCGGAACTTAGCCC
78296945 GGA
63 GGA
78296948 CATCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
79 5 0.04
80 89 0.74
81 21 0.17
82 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
AATGCTCCTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGA
TACATAACTAGCACC
Found at i:78296935 original size:120 final size:120
Alignment explanation
Indices: 78296686--78296949 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
78296676 CAGCATGATT
* * * **
78296686 GCTCTTCGGGACCTAGCCCGGACATAACACCAGCATGAATGCTCTTCGGGGTTTAGCACGGATAT
1 GCTCTTCGGGACTTAGCCCGGACACAACACCAGCATGAATGCTCTTCGAGACTTAGCACGGATAT
* * * *
78296751 ATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAAT
66 ATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATCAAA
* * * * * *
78296806 GCTCCTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGAGACTTAGCCCGGATTT
1 GCTCTTCGGGACTTAGCCCGGACACAACACCAGCATGAATGCTCTTCGAGACTTAGCACGGATAT
* * * **
78296871 AGTAACTCGCACCAATGC-CTTCGGATCTTAGTCCGGATATGGTCACTTAGCA-CAAA
66 A-TAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATA-CATCAC-TAGCATCAAA
78296927 GC-CTTCGGGACTTAGCCCGGACA
1 GCTCTTCGGGACTTAGCCCGGACA
78296950 TCATTCAAAT
Statistics
Matches: 119, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
120 93 0.78
121 21 0.18
122 5 0.04
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (120 bp):
GCTCTTCGGGACTTAGCCCGGACACAACACCAGCATGAATGCTCTTCGAGACTTAGCACGGATAT
ATAACTAGCACCAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATCAAA
Found at i:78297292 original size:29 final size:29
Alignment explanation
Indices: 78297253--78297331 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
78297243 CTTAATAATC
* *
78297253 AACCACGCACACTTAGTGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
78297283 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
78297312 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
78297332 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:78297374 original size:43 final size:43
Alignment explanation
Indices: 78297313--78297415 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
78297303 TGCATTTCAA
78297313 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
78297356 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
78297399 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
78297416 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:78306684 original size:37 final size:37
Alignment explanation
Indices: 78306634--78306708 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
78306624 ACTCTGATAG
*
78306634 ACATAGGTTCTACGCACTCCTACGTAGCTAGTATTGT
1 ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
78306671 ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
1 ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
78306708 A
1 A
78306709 TCTGAACTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (37 bp):
ACATAGGTTCTACGCACTCCTACGTAGCTAGTACTGT
Found at i:78308128 original size:40 final size:40
Alignment explanation
Indices: 78308048--78308129 Score: 92
Period size: 40 Copynumber: 2.0 Consensus size: 40
78308038 TGAAAAGCTA
* * * *
78308048 AAGTCTGTTCTGACTCAGGCACCTGTTCTCATACAGTCTG
1 AAGTCTATTCTAACTCAGGCACCTATTCTCATACAATCTG
* * * *
78308088 AAGTCTATTCTAACTTAGGCTCCTATTCTGATATAATCTG
1 AAGTCTATTCTAACTCAGGCACCTATTCTCATACAATCTG
78308128 AA
1 AA
78308130 TCTGGTATGG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (40 bp):
AAGTCTATTCTAACTCAGGCACCTATTCTCATACAATCTG
Found at i:78318674 original size:34 final size:34
Alignment explanation
Indices: 78318610--78318674 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
78318600 GTTAGGCCCC
* * *
78318610 ACTGCTACAGATACTGAAATGGGTTCAGGCCCAG
1 ACTGCTACAGATACTGAAATAGGCTAAGGCCCAG
* *
78318644 ACTGCTACTGTTACTGAAATAGGCTAAGGCC
1 ACTGCTACAGATACTGAAATAGGCTAAGGCC
78318675 TAACTGATTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (34 bp):
ACTGCTACAGATACTGAAATAGGCTAAGGCCCAG
Found at i:78319536 original size:17 final size:17
Alignment explanation
Indices: 78319514--78319548 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
78319504 GAAACTCTTT
78319514 AGTTAGAGTAAATTTCA
1 AGTTAGAGTAAATTTCA
78319531 AGTTAGAGTAAATTTCA
1 AGTTAGAGTAAATTTCA
78319548 A
1 A
78319549 CCCGTAGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
AGTTAGAGTAAATTTCA
Found at i:78327620 original size:42 final size:42
Alignment explanation
Indices: 78327568--78327669 Score: 143
Period size: 42 Copynumber: 2.4 Consensus size: 42
78327558 TAGAATGGGT
*
78327568 CTGCTAACACAAGCTGTCGGTC-AGAATGTAAGCTAAACAATG
1 CTGCTCACACAAGCTGTCGGTCGA-AATGTAAGCTAAACAATG
* * **
78327610 CTGCTCACACAAGTTGTCGGTCGAAATGTAAGCTACATGATG
1 CTGCTCACACAAGCTGTCGGTCGAAATGTAAGCTAAACAATG
78327652 CTGCTCACACAAGCTGTC
1 CTGCTCACACAAGCTGTC
78327670 TAGTATCTGC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (42 bp):
CTGCTCACACAAGCTGTCGGTCGAAATGTAAGCTAAACAATG
Found at i:78330322 original size:117 final size:117
Alignment explanation
Indices: 78330106--78330438 Score: 486
Period size: 117 Copynumber: 2.8 Consensus size: 117
78330096 ACAAAGCATG
* * *
78330106 CGGGACTTTAAGCCCGGATATAATACTAGCACGAATGCCTTCAGGACTTAGCCTGGATATAACAG
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACAC
* * *
78330171 CAGCACGAATACCATCGGGACTTAGCCCAGATATAGCACCAACACGAATGCCTT
64 CAGCACGAATGCCATCGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
* * *
78330225 CGGGACTTAGCCCGGACATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGAATATAGCACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCA
* * * * *
78330290 GCGCGAATGCCTTTGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
66 GCACGAATGCCATCGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
* * * *
78330342 CAGGACTTAGCCTGGATATAATACCAGTACGAATGCCTTCAGGAATTAGCCCGGATATAACACCA
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCA
78330407 GCACGAATGCCATCGGGACTTAGCCCGGATAT
66 GCACGAATGCCATCGGGACTTAGCCCGGATAT
78330439 TTTTCCAGCA
Statistics
Matches: 190, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
117 182 0.96
118 2 0.01
119 6 0.03
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (117 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCAGGACTTAGCCCGGATATAACACCA
GCACGAATGCCATCGGGACTTAGCCCGGATATAACACCAACACGAATGCCTT
Found at i:78330449 original size:39 final size:39
Alignment explanation
Indices: 78330106--78330438 Score: 423
Period size: 39 Copynumber: 8.5 Consensus size: 39
78330096 ACAAAGCATG
*
78330106 CGGGACTTTAAGCCCGGATATAATACTAGCACGAATGCCTT
1 CGGGAC-TT-AGCCCGGATATAATACCAGCACGAATGCCTT
* * * * * *
78330147 CAGGACTTAGCCTGGATATAACAGCAGCACGAATACCAT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* ** *
78330186 CGGGACTTAGCCCAGATATAGCACCAACACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
78330225 CGGGACTTAGCCCGGACATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * ** *
78330264 CAGGACTTAGCCCGAATATAGCACCAGCGCGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
*
78330303 TGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * *
78330342 CAGGACTTAGCCTGGATATAATACCAGTACGAATGCCTT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
* * * *
78330381 CAGGAATTAGCCCGGATATAACACCAGCACGAATGCCAT
1 CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
78330420 CGGGACTTAGCCCGGATAT
1 CGGGACTTAGCCCGGATAT
78330439 TTTTCCAGCA
Statistics
Matches: 249, Mismatches: 43, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
39 242 0.97
40 2 0.01
41 5 0.02
ACGTcount: A:0.30, C:0.27, G:0.22, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTT
Found at i:78330474 original size:39 final size:39
Alignment explanation
Indices: 78330431--78330521 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
78330421 GGGACTTAGC
* * * *
78330431 CCGGATATTTTTCCAGCACT-TAGCCTGTGGACTTTAAGT
1 CCGGATATTTTTCCAGCA-TAAAGCCCGCGGACTTCAAGT
*
78330470 CCGGATATATTTCCAGCATAAAGCCCGCGGACTTCAAGT
1 CCGGATATTTTTCCAGCATAAAGCCCGCGGACTTCAAGT
78330509 CCGGATATATTTT
1 CCGGATAT-TTTT
78330522 TCCAATACCA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
38 1 0.02
39 40 0.91
40 3 0.07
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (39 bp):
CCGGATATTTTTCCAGCATAAAGCCCGCGGACTTCAAGT
Found at i:78336457 original size:16 final size:16
Alignment explanation
Indices: 78336436--78336468 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
78336426 TGGGCCCTAG
*
78336436 AGCTATTTAATTTCAA
1 AGCTATTCAATTTCAA
78336452 AGCTATTCAATTTCAA
1 AGCTATTCAATTTCAA
78336468 A
1 A
78336469 CATTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (16 bp):
AGCTATTCAATTTCAA
Found at i:78337054 original size:28 final size:26
Alignment explanation
Indices: 78336957--78337071 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
78336947 AGCATGGCTG
* *
78336957 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
78336983 CCAAATACAGATATTGTGGCGGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
78337010 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
78337037 CCAGAAACAGATATTTGTGGCAGAGCCA
1 CCAG-AACAGATA-TTGTGGCAGAGCCA
*
78337065 CCTGAAC
1 CCAGAAC
78337072 GCTTCCTCCA
Statistics
Matches: 79, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 11 0.14
27 42 0.53
28 26 0.33
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:78337506 original size:33 final size:33
Alignment explanation
Indices: 78337464--78337529 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
78337454 CCTACTTTTC
*
78337464 GGCATTCCAGCTTTTCAGTTTTTGTCGATCTAG
1 GGCATTCCAGCTTTTCAGCTTTTGTCGATCTAG
78337497 GGCATTCCAGCTTTTCAGCTTTTGTCGATCTAG
1 GGCATTCCAGCTTTTCAGCTTTTGTCGATCTAG
78337530 TCTATGAGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (33 bp):
GGCATTCCAGCTTTTCAGCTTTTGTCGATCTAG
Found at i:78341452 original size:30 final size:30
Alignment explanation
Indices: 78341418--78341474 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
78341408 CGAGCCTAGA
78341418 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGG
* * * *
78341448 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
78341475 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGG
Found at i:78343644 original size:17 final size:19
Alignment explanation
Indices: 78343622--78343656 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
78343612 GCTAAAGATA
78343622 TTTGGTA-AAATG-ATAAT
1 TTTGGTATAAATGTATAAT
78343639 TTTGGTATAAATGTATAA
1 TTTGGTATAAATGTATAA
78343657 GTGGTACTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (19 bp):
TTTGGTATAAATGTATAAT
Found at i:78350959 original size:12 final size:13
Alignment explanation
Indices: 78350942--78350970 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
78350932 GCAATTTAAA
78350942 TTTTATT-CTAAT
1 TTTTATTACTAAT
78350954 TTTTATTACTAAT
1 TTTTATTACTAAT
78350967 TTTT
1 TTTT
78350971 CTTTTTCCCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (13 bp):
TTTTATTACTAAT
Found at i:78360723 original size:47 final size:47
Alignment explanation
Indices: 78360639--78360842 Score: 243
Period size: 47 Copynumber: 4.4 Consensus size: 47
78360629 TAATTGAATA
* * *
78360639 AATGTGAA-AGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATG
1 AATGTGAACA-TGTGTATGTGAG-ATAAGGCCGAATGGCCAATGTGATG
** * *
78360687 AATGTGAACATGCATATATGAGATAAGGTCGAATGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * * *
78360734 AAAGTGAACAGGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
* * *
78360781 AATGTGAGCATGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
78360828 AATGTGAA-A-GTGTAT
1 AATGTGAACATGTGTAT
78360843 AAATGTGATA
Statistics
Matches: 134, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
45 6 0.04
46 1 0.01
47 109 0.81
48 17 0.13
49 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.26
Consensus pattern (47 bp):
AATGTGAACATGTGTATGTGAGATAAGGCCGAATGGCCAATGTGATG
Found at i:78360850 original size:94 final size:93
Alignment explanation
Indices: 78360639--78360854 Score: 281
Period size: 94 Copynumber: 2.3 Consensus size: 93
78360629 TAATTGAATA
*
78360639 AATGTGAAAGTGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
1 AATGTGAAAGTGTATA-GTGTG-ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
*
78360704 ATGAGATAAGGTCGAATGGCCAATGTGATG
64 ATGAGATAAGGCCGAATGGCCAATGTGATG
* * * **
78360734 AAAGTGAACAGGTGTAT-GTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCATGTGTAT
1 AATGTGAA-A-GTGTATAGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATAT
* * *
78360798 GTGAGATAAGGCCTAATGGCCGATGTGATG
64 ATGAGATAAGGCCGAATGGCCAATGTGATG
*
78360828 AATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTAT-AGTGTGATAAG
78360855 TCCCGAAGGG
Statistics
Matches: 105, Mismatches: 12, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
92 6 0.06
93 1 0.01
94 79 0.75
95 12 0.11
96 1 0.01
97 6 0.06
ACGTcount: A:0.33, C:0.09, G:0.32, T:0.26
Consensus pattern (93 bp):
AATGTGAAAGTGTATAGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATAT
GAGATAAGGCCGAATGGCCAATGTGATG
Found at i:78362523 original size:61 final size:55
Alignment explanation
Indices: 78362413--78362592 Score: 252
Period size: 55 Copynumber: 3.2 Consensus size: 55
78362403 CTGCCAAAAT
* *
78362413 AACACGGGCGTGCAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATTT
1 AACACGGGCGTGTAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATTG
78362468 AACACGGGCGTGTAACACGGGCACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATTG
1 AACACGGGCGTGT-A-A----CACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATTG
* * *
78362529 AACACGGGTGTGTAACACGCCCGTGTTTTGAAACCGTAGGTGAACCTGTCAATTG
1 AACACGGGCGTGTAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATTG
*
78362584 AACATGGGC
1 AACACGGGC
78362593 ATGGGAGAAG
Statistics
Matches: 112, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
55 57 0.51
56 1 0.01
57 1 0.01
59 1 0.01
60 1 0.01
61 51 0.46
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.24
Consensus pattern (55 bp):
AACACGGGCGTGTAACACGCCCGTGTTTTGAAATCGTGGGTGAACCTGTCAATTG
Found at i:78367278 original size:25 final size:25
Alignment explanation
Indices: 78367247--78367307 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
78367237 TCAAAATGTG
*
78367247 AATCAGAATCAAAATCAGGTGACAA
1 AATCAGAATCAAAATCAGGTAACAA
* ** *
78367272 AATCAGAATTAGTATCAGGTAACAG
1 AATCAGAATCAAAATCAGGTAACAA
78367297 AATCAGAATCA
1 AATCAGAATCA
78367308 GAATGTGAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.49, C:0.15, G:0.16, T:0.20
Consensus pattern (25 bp):
AATCAGAATCAAAATCAGGTAACAA
Found at i:78368528 original size:40 final size:40
Alignment explanation
Indices: 78368484--78368707 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
78368474 AAGTGAATAT
* * * * **
78368484 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
78368524 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
78368564 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
78368604 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
78368644 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
78368683 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
78368708 TGAACGAGGA
Statistics
Matches: 171, Mismatches: 12, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 35 0.20
40 136 0.80
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:78368582 original size:80 final size:80
Alignment explanation
Indices: 78368445--78368707 Score: 318
Period size: 80 Copynumber: 3.3 Consensus size: 80
78368435 TTGAATGCTG
* * * * *
78368445 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCC
*
78368507 TTTGTGCGAGATACTAAA
63 TTTGTGCGAGTTACTAAA
* * *
78368525 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
**
78368590 GTGCGAGTTGTTAAA
66 GTGCGAGTTACTAAA
* * *
78368605 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
78368669 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* *
78368684 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
78368708 TGAACGAGGA
Statistics
Matches: 159, Mismatches: 21, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
79 35 0.22
80 116 0.73
81 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:78368659 original size:120 final size:120
Alignment explanation
Indices: 78368445--78368707 Score: 318
Period size: 120 Copynumber: 2.2 Consensus size: 120
78368435 TTGAATGCTG
* * *
78368445 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGATTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
* **
78368509 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * *
78368565 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAG-TGAATAAATCCGGATTAAGAT-CCGAAGGCA
* ** * *
78368627 TTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
64 TTCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
78368684 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
78368708 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 34 0.28
120 80 0.66
121 8 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGATTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:78378001 original size:27 final size:27
Alignment explanation
Indices: 78377971--78378041 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 27
78377961 GGGGCAAAAT
78377971 GGTAATTTTACCCTACAAAGCTATCTC
1 GGTAATTTTACCCTACAAAGCTATCTC
* * * *
78377998 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTTTACCCTACAAAGCTATCTC
78378024 GGT-ATTTCTACCCTACAA
1 GGTAATTT-TACCCTACAA
78378042 GGGTATTTCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 3 0.08
26 18 0.49
27 16 0.43
ACGTcount: A:0.27, C:0.25, G:0.14, T:0.34
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAAGCTATCTC
Found at i:78378032 original size:26 final size:27
Alignment explanation
Indices: 78377971--78378050 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
78377961 GGGGCAAAAT
* * * *
78377971 GGTAATTTTACCCTACAAAGCTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
78377998 GGTAATTCTACCCTAC-AGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
78378024 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
78378051 AATAATTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 22 0.47
27 25 0.53
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:78388705 original size:115 final size:115
Alignment explanation
Indices: 78388503--78388731 Score: 397
Period size: 115 Copynumber: 2.0 Consensus size: 115
78388493 TGCGGATACC
78388503 ACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTG
1 ACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTG
* *
78388568 CTTATCCCGCAAAATTTGCAACACTAGCCTC-AGATGCTCAGCATGTTCGG
66 CTTATCCCGCAAAACTTGCAACACTAACCTCAAG-TGCTCAGCATGTTCGG
*
78388618 ACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTT
1 ACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTG
* *
78388683 CTTATCCCGCAAAACTTGCAACACTAATCTCAAGTGTTCAGCATGTTCG
66 CTTATCCCGCAAAACTTGCAACACTAACCTCAAGTGCTCAGCATGTTCG
78388732 ATCTCATCTC
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
115 106 0.98
116 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (115 bp):
ACATGACCCAAGAAGCTAACCTCTCTTAACCAGAACTCACACTTACTGAACTTAGCATATAACTG
CTTATCCCGCAAAACTTGCAACACTAACCTCAAGTGCTCAGCATGTTCGG
Found at i:78392841 original size:29 final size:29
Alignment explanation
Indices: 78392778--78392845 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
78392768 TAATCAACCG
*
78392778 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
78392807 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
78392836 CGCACACTTA
1 CGCACACTTA
78392846 CCTTTTCCGC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:78392958 original size:174 final size:174
Alignment explanation
Indices: 78392667--78392994 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
78392657 AACTCAAGGT
* * *
78392667 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
*
78392732 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
78392797 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
78392841 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
78392906 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
*
78392971 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
78392995 TGTACAATTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGATAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:78392986 original size:29 final size:30
Alignment explanation
Indices: 78392947--78393025 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
78392937 CTTAATAATC
78392947 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
78392977 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
78393006 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
78393026 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:78398033 original size:40 final size:40
Alignment explanation
Indices: 78397946--78398126 Score: 226
Period size: 40 Copynumber: 4.6 Consensus size: 40
78397936 TATTCGGATG
* *
78397946 ATATCCGGGCTAAGTCCAGAAGGCA-TGGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
*
78397985 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
* **
78398025 ATACCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
* *
78398065 ATATCCGGGCTAAGACCCGAAGGC-GTTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTAG-TGACT
* *
78398105 ATATCC-GGCTAAATCCCAAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
78398127 TACTTGGGTT
Statistics
Matches: 125, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
39 37 0.30
40 86 0.69
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACT
Found at i:78402506 original size:46 final size:45
Alignment explanation
Indices: 78402450--78402625 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 45
78402440 TGTTTGGGCA
78402450 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
78402496 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* * *
78402541 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTCATGGATGGAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGG-AATG
* * *
78402589 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
78402626 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:78402605 original size:93 final size:93
Alignment explanation
Indices: 78402446--78402618 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
78402436 AGGATGTTTG
* * *
78402446 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
78402511 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
78402539 GGCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTCATGGATG-GAAACGCCCGAGCTCGTTGA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCG-AACGCCCGAACTCGTTGA
78402603 GTTGAGTCCGAGTTCG
65 GTTGAGTCCGAGTTCG
78402619 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:78426104 original size:15 final size:15
Alignment explanation
Indices: 78426076--78426109 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
78426066 TGGACCCACT
78426076 ACATAATAAAAATTA
1 ACATAATAAAAATTA
* *
78426091 ACATATTAATAATTA
1 ACATAATAAAAATTA
78426106 ACAT
1 ACAT
78426110 GAAAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.32
Consensus pattern (15 bp):
ACATAATAAAAATTA
Found at i:78433396 original size:15 final size:15
Alignment explanation
Indices: 78433376--78433413 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
78433366 TCAAGATAAG
*
78433376 GAAATCCATAATAGA
1 GAAATCCAGAATAGA
*
78433391 GAAATCCAGAATATA
1 GAAATCCAGAATAGA
78433406 GAAATCCA
1 GAAATCCA
78433414 ACATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.53, C:0.16, G:0.13, T:0.18
Consensus pattern (15 bp):
GAAATCCAGAATAGA
Found at i:78434217 original size:46 final size:45
Alignment explanation
Indices: 78434150--78434317 Score: 196
Period size: 46 Copynumber: 3.6 Consensus size: 45
78434140 GGACAATACG
* *
78434150 ATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGTA-GCCA
1 ATGCATGTCCCAAACATGTCTTACACTGACT-TCGTCTCG-AGGCCA
* * *
78434196 ATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCCG
1 ATGCATGTCCCAAACATGTCTTACACTGACTT-CGTCTCGAGGCCA
*
78434242 ATGCATGTCCCAAACATGTCTTACACTAGTACTT-GTCTCGATGCCA
1 ATGCATGTCCCAAACATGTCTTACACT-G-ACTTCGTCTCGAGGCCA
*
78434288 ATGCCATATCCCAAACATGGTCTTACACTG
1 ATG-CATGTCCCAAACAT-GTCTTACACTG
78434318 GTCCTCATAA
Statistics
Matches: 108, Mismatches: 8, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
45 2 0.02
46 78 0.72
47 15 0.14
48 13 0.12
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (45 bp):
ATGCATGTCCCAAACATGTCTTACACTGACTTCGTCTCGAGGCCA
Found at i:78439557 original size:15 final size:16
Alignment explanation
Indices: 78439537--78439566 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
78439527 GAAAATTGCC
78439537 AAAATGGG-CTAAATA
1 AAAATGGGACTAAATA
78439552 AAAATGGGACTAAAT
1 AAAATGGGACTAAAT
78439567 TGGAATATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.07, G:0.20, T:0.20
Consensus pattern (16 bp):
AAAATGGGACTAAATA
Found at i:78444321 original size:25 final size:25
Alignment explanation
Indices: 78444251--78444324 Score: 112
Period size: 25 Copynumber: 3.0 Consensus size: 25
78444241 CCATTAGGGT
* *
78444251 TACCGATTTATAGCTCGTGAAAGCA
1 TACCGATTTATAGCTCATGAGAGCA
78444276 TACCGATTTATAGCTCATGAGAGCA
1 TACCGATTTATAGCTCATGAGAGCA
* *
78444301 TACTGATTGATAGCTCATGAGAGC
1 TACCGATTTATAGCTCATGAGAGC
78444325 GTACGGATCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (25 bp):
TACCGATTTATAGCTCATGAGAGCA
Found at i:78444342 original size:25 final size:24
Alignment explanation
Indices: 78444258--78444332 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 24
78444248 GGTTACCGAT
* * *
78444258 TTATAGCTCGTGAAAGCATACCGA
1 TTATAGCTCATGAGAGCATACGGA
*
78444282 TTTATAGCTCATGAGAGCATACTGA
1 -TTATAGCTCATGAGAGCATACGGA
*
78444307 TTGATAGCTCATGAGAGCGTACGGA
1 TT-ATAGCTCATGAGAGCATACGGA
78444332 T
1 T
78444333 CTTCAGCTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 2 0.05
25 42 0.95
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (24 bp):
TTATAGCTCATGAGAGCATACGGA
Found at i:78445798 original size:30 final size:30
Alignment explanation
Indices: 78445762--78445829 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
78445752 CCTAAGACAT
* *
78445762 GGGCATGTCTATTGGTCGTGTGAGTCACAC
1 GGGCATGTCTATTGGTCGTGTGAGGCACAA
*
78445792 GGGCATGTCTCTTGGTCGTGTGAGGCACAA
1 GGGCATGTCTATTGGTCGTGTGAGGCACAA
*
78445822 GGCCATGT
1 GGGCATGT
78445830 GACCCCTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.16, C:0.21, G:0.35, T:0.28
Consensus pattern (30 bp):
GGGCATGTCTATTGGTCGTGTGAGGCACAA
Found at i:78451030 original size:27 final size:27
Alignment explanation
Indices: 78451000--78451144 Score: 130
Period size: 27 Copynumber: 5.4 Consensus size: 27
78450990 GTGGCATTTC
*
78451000 AGTCATTTTACCACATAAGGGCAAAGT
1 AGTCATTTTACCACATAAGGGCAAAAT
* * * *
78451027 AGTCATTTTACCTCAAAAGGGTAGAAT
1 AGTCATTTTACCACATAAGGGCAAAAT
* * * * * *
78451054 AGTCATTTTATCATATAGGGGTGAGACT
1 AGTCATTTTACCACATAAGGG-CAAAAT
* *
78451082 -GTCATTTTACCACATAAAGGCAAAAC
1 AGTCATTTTACCACATAAGGGCAAAAT
** *
78451108 AGTCATTTTACCTTATAAGGGGAAAAT
1 AGTCATTTTACCACATAAGGGCAAAAT
78451135 AGTCATTTTA
1 AGTCATTTTA
78451145 TCGATTAAGG
Statistics
Matches: 91, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
26 2 0.02
27 85 0.93
28 4 0.04
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (27 bp):
AGTCATTTTACCACATAAGGGCAAAAT
Found at i:78451058 original size:54 final size:54
Alignment explanation
Indices: 78450999--78451144 Score: 152
Period size: 54 Copynumber: 2.7 Consensus size: 54
78450989 AGTGGCATTT
* * * * * *
78450999 CAGTCATTTTACCACATAAGGGCAAAGTAGTCATTTTACCTCA-AAAGGGTAGAA
1 CAGTCATTTTACCATATAAGGGGAAAATAGTCATTTTACCACATAAA-GGCAAAA
* * * * *
78451053 TAGTCATTTTATCATATAGGGGTGAGACT-GTCATTTTACCACATAAAGGCAAAA
1 CAGTCATTTTACCATATAAGGG-GAAAATAGTCATTTTACCACATAAAGGCAAAA
*
78451107 CAGTCATTTTACCTTATAAGGGGAAAATAGTCATTTTA
1 CAGTCATTTTACCATATAAGGGGAAAATAGTCATTTTA
78451145 TCGATTAAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 6
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.05
54 63 0.86
55 6 0.08
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.31
Consensus pattern (54 bp):
CAGTCATTTTACCATATAAGGGGAAAATAGTCATTTTACCACATAAAGGCAAAA
Found at i:78454730 original size:27 final size:27
Alignment explanation
Indices: 78454700--78454871 Score: 188
Period size: 27 Copynumber: 6.4 Consensus size: 27
78454690 GGGGCATTTT
78454700 AGTCATTTTAGCAT-ATAAGGGCAAAAC
1 AGTCATTTTA-CATCATAAGGGCAAAAC
* *
78454727 AGTCATTTTACCTCATAAGGGCAAAAT
1 AGTCATTTTACATCATAAGGGCAAAAC
*
78454754 AGTCATTTTACCAT-ATAAGGGCAAGAC
1 AGTCATTTTA-CATCATAAGGGCAAAAC
*
78454781 TGTCATTTTACCA-CATAAGGGCAAAAC
1 AGTCATTTTA-CATCATAAGGGCAAAAC
* * * *
78454808 AATCATTTCACCTCATAAGGCCAAAAC
1 AGTCATTTTACATCATAAGGGCAAAAC
* * * *
78454835 AATTATTTTACCTCATAAGGGCAAAAT
1 AGTCATTTTACATCATAAGGGCAAAAC
78454862 AGTCATTTTA
1 AGTCATTTTA
78454872 TCGATTAAAG
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.02
27 118 0.96
28 2 0.02
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.28
Consensus pattern (27 bp):
AGTCATTTTACATCATAAGGGCAAAAC
Found at i:78454757 original size:54 final size:53
Alignment explanation
Indices: 78454699--78454871 Score: 229
Period size: 54 Copynumber: 3.2 Consensus size: 53
78454689 AGGGGCATTT
78454699 TAGTCATTTTAGCATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAA
1 TAGTCATTTTA-CATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAA
* * *
78454753 TAGTCATTTTACCATATAAGGGCAAGACTGTCATTTTACCACATAAGGGCAAAA
1 TAGTCATTTTA-CATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAA
* * * * * * *
78454807 CAATCATTTCACCTCATAAGGCCAAAACAATTATTTTACCTCATAAGGGCAAAA
1 TAGTCATTTTACAT-ATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAA
78454861 TAGTCATTTTA
1 TAGTCATTTTA
78454872 TCGATTAAAG
Statistics
Matches: 101, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 2 0.02
54 99 0.98
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (53 bp):
TAGTCATTTTACATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAA
Found at i:78454826 original size:81 final size:81
Alignment explanation
Indices: 78454699--78454871 Score: 233
Period size: 81 Copynumber: 2.1 Consensus size: 81
78454689 AGGGGCATTT
* * * * * * *
78454699 TAGTCATTTTAGCATATAAGGGCAAAACAGTCATTTTACCTCATAAGGGCAAAATAGTCATTTTA
1 TAGTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATCATTTTA
*
78454764 CCAT-ATAAGGGCAAGAC
66 CC-TCATAAGGGCAA-AA
*
78454781 T-GTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATTATTTTA
1 TAGTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATCATTTTA
78454845 CCTCATAAGGGCAAAA
66 CCTCATAAGGGCAAAA
78454861 TAGTCATTTTA
1 TAGTCATTTTA
78454872 TCGATTAAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
80 3 0.04
81 76 0.95
82 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (81 bp):
TAGTCATTTTACCACATAAGGGCAAAACAATCATTTCACCTCATAAGGCCAAAACAATCATTTTA
CCTCATAAGGGCAAAA
Found at i:78458121 original size:18 final size:18
Alignment explanation
Indices: 78458088--78458122 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78458078 ATGATATGCT
**
78458088 AAACTATTTTTGTGCTTG
1 AAACTATTTTAATGCTTG
78458106 AAACTATTTTAATGCTT
1 AAACTATTTTAATGCTT
78458123 CCTGTTCTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
AAACTATTTTAATGCTTG
Found at i:78460970 original size:39 final size:39
Alignment explanation
Indices: 78460916--78461033 Score: 202
Period size: 39 Copynumber: 3.0 Consensus size: 39
78460906 CAAGACACTA
*
78460916 GAAATGTATTCGGGCTAAAGT-CTCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCT-GCAGGCTTCGTGCTG
78460955 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
*
78460994 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
78461033 G
1 G
78461034 TAATATAATA
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
39 74 0.97
40 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.27
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTGCTG
Found at i:78463772 original size:12 final size:12
Alignment explanation
Indices: 78463755--78463784 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
78463745 CCACAAATGT
*
78463755 CCATGTGCTAGG
1 CCATGTGCGAGG
78463767 CCATGTGCGAGG
1 CCATGTGCGAGG
78463779 CCATGT
1 CCATGT
78463785 AATAGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (12 bp):
CCATGTGCGAGG
Found at i:78472683 original size:45 final size:45
Alignment explanation
Indices: 78472567--78472670 Score: 163
Period size: 45 Copynumber: 2.3 Consensus size: 45
78472557 ATCTAATACG
* * * *
78472567 ATGCCAGTGTCCCAGACATGGTCTTACACATAACCACATATATCA
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAAACACATATATCA
*
78472612 ATGCCAACGTCCCAAACATGGTCTTACACAAAAACACATATATCA
1 ATGCCAATGTCCCAAACATGGTCTTACACAAAAACACATATATCA
78472657 ATGCCAATGTCCCA
1 ATGCCAATGTCCCA
78472671 TATGTGGTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.37, C:0.30, G:0.12, T:0.22
Consensus pattern (45 bp):
ATGCCAATGTCCCAAACATGGTCTTACACAAAAACACATATATCA
Found at i:78474508 original size:27 final size:26
Alignment explanation
Indices: 78474452--78474562 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
78474442 AGCATGGCTG
* * *
78474452 CCAGAATAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
78474478 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
78474505 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * * *
78474532 CTAGATCTGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
78474559 CCAG
1 CCAG
78474563 GACGCTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.19
27 58 0.78
28 2 0.03
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:78478584 original size:6 final size:6
Alignment explanation
Indices: 78478566--78478653 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
78478556 AAGAAACATT
* *
78478566 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * *
78478615 ATCAGA ATCAGT ATCAGGTA A-CCGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
78478654 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.83
7 5 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:78478611 original size:31 final size:31
Alignment explanation
Indices: 78478575--78478653 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
78478565 TATCAGAACT
* *
78478575 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
*
78478606 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGGTAAC
* *
78478637 CGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
78478654 GTGAATGCAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:78479112 original size:27 final size:27
Alignment explanation
Indices: 78479073--78479276 Score: 291
Period size: 27 Copynumber: 7.6 Consensus size: 27
78479063 TACCTCACAA
*
78479073 GGTATCTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
78479100 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
** *
78479127 GGTATTTCGGTGTTTCTACCCTACAAG
1 GGTATTTCGGTAATTCTACCCTACAGG
78479154 GGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
*
78479181 GGTATTTCAGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* ** *
78479208 GGTATTGCCATAATTCTACCCTATAGG
1 GGTATTTCGGTAATTCTACCCTACAGG
* *
78479235 GGTATTTCGGTAATTCTACCCTATAGA
1 GGTATTTCGGTAATTCTACCCTACAGG
*
78479262 GGTGTTTCGGTAATT
1 GGTATTTCGGTAATT
78479277 TTACAAGTCA
Statistics
Matches: 158, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 158 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (27 bp):
GGTATTTCGGTAATTCTACCCTACAGG
Done.