Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 106 of 276
Found at i:33611443 original size:24 final size:24
Alignment explanation
Indices: 33611354--33611462 Score: 80
Period size: 24 Copynumber: 4.4 Consensus size: 24
33611344 TTAAAAATTT
*
33611354 TAAAAA-TATAAAAAATACAAAAAA
1 TAAAAATTATATAAAATAC-AAAAA
* *
33611378 GGTAAAAAATTATA-AAATTATTAAAAA
1 --T-AAAAATTATATAAAATA-CAAAAA
*
33611405 TGAAAAAATAT-TAAAATACAAAAA
1 T-AAAAATTATATAAAATACAAAAA
* * *
33611429 TATAAATTATATAAACTATAAAAA
1 TAAAAATTATATAAAATACAAAAA
33611453 TAAAAATTAT
1 TAAAAATTAT
33611463 GAAATAATGT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
23 7 0.10
24 26 0.39
25 14 0.21
26 1 0.01
27 15 0.22
28 4 0.06
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (24 bp):
TAAAAATTATATAAAATACAAAAA
Found at i:33611553 original size:20 final size:20
Alignment explanation
Indices: 33611505--33611560 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
33611495 ATAAATTAAC
*
33611505 AAAATATTATAAAAAAGCATA
1 AAAATA-TATAAAAAAACATA
* *
33611526 AAGA-ATATAAAAAAACTTA
1 AAAATATATAAAAAAACATA
33611545 AAAATATATGAAAAAA
1 AAAATATAT-AAAAAA
33611561 TTATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 15 0.52
20 5 0.17
21 9 0.31
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATATATAAAAAAACATA
Found at i:33611558 original size:19 final size:20
Alignment explanation
Indices: 33611505--33611560 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 20
33611495 ATAAATTAAC
33611505 AAAATATTATAAAAAAGCATA
1 AAAATA-TATAAAAAAGCATA
*
33611526 AAGAATATA-AAAAAA-CTTA
1 AA-AATATATAAAAAAGCATA
33611545 AAAATATATGAAAAAA
1 AAAATATAT-AAAAAA
33611561 TTATAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 6 0.19
19 5 0.16
20 12 0.39
21 4 0.13
22 4 0.13
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATATATAAAAAAGCATA
Found at i:33611568 original size:20 final size:20
Alignment explanation
Indices: 33611485--33611568 Score: 59
Period size: 20 Copynumber: 4.2 Consensus size: 20
33611475 TAAAATATAG
* *
33611485 AAAAT-TATGAATAAATTAAC
1 AAAATATATGAAAAAATT-AT
**
33611505 AAAATATTAT-AAAAAAGCAT
1 AAAATA-TATGAAAAAATTAT
*
33611525 AAAGA-ATATAAAAAAACTTA-
1 AAA-ATATATGAAAAAA-TTAT
33611545 AAAATATATGAAAAAATTAT
1 AAAATATATGAAAAAATTAT
33611565 AAAA
1 AAAA
33611569 AATCTATTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
19 7 0.14
20 33 0.66
21 7 0.14
22 3 0.06
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.25
Consensus pattern (20 bp):
AAAATATATGAAAAAATTAT
Found at i:33611872 original size:25 final size:26
Alignment explanation
Indices: 33611837--33611898 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 26
33611827 TTTTTCTATA
33611837 TTTTC-ATAATTTTTA-AAACTTTAT
1 TTTTCTATAATTTTTATAAACTTTAT
* **
33611861 TTTTCTATAATTTCTATAATTTTTAT
1 TTTTCTATAATTTTTATAAACTTTAT
33611887 TTTT-T-TAATTTT
1 TTTTCTATAATTTT
33611899 AATATTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
24 11 0.34
25 10 0.31
26 11 0.34
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTCTATAATTTTTATAAACTTTAT
Found at i:33611895 original size:15 final size:15
Alignment explanation
Indices: 33611877--33611910 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
33611867 ATAATTTCTA
* *
33611877 TAATTTTTATTTTTT
1 TAATTTTAATATTTT
33611892 TAATTTTAATATTTT
1 TAATTTTAATATTTT
33611907 TAAT
1 TAAT
33611911 ATGTTATGCA
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:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TAATTTTAATATTTT
Found at i:33612044 original size:19 final size:19
Alignment explanation
Indices: 33612002--33612044 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
33611992 AATCTAGCAC
* *
33612002 TTTTTTATATTTTTCATAA
1 TTTTTTAAATTTTTAATAA
*
33612021 ATTTTTAAATTTTTAAT-A
1 TTTTTTAAATTTTTAATAA
33612039 TTTTTT
1 TTTTTT
33612045 GTGATTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TTTTTTAAATTTTTAATAA
Found at i:33616431 original size:39 final size:39
Alignment explanation
Indices: 33616362--33616453 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 39
33616352 ACCACAATGT
* * * *
33616362 TATTGAGTGGCTTAACCATAACGAGAAACTTGTCTGCAA
1 TATTCAGTGGCTTGACCACAACGAGAAACTTGACTGCAA
* * *
33616401 TATTTAGTGGCTTGACCACAACGTGCAACTTGACTGCAA
1 TATTCAGTGGCTTGACCACAACGAGAAACTTGACTGCAA
*
33616440 TATACAGTGGCTTG
1 TATTCAGTGGCTTG
33616454 GCCATAATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (39 bp):
TATTCAGTGGCTTGACCACAACGAGAAACTTGACTGCAA
Found at i:33618389 original size:81 final size:81
Alignment explanation
Indices: 33618254--33618496 Score: 477
Period size: 81 Copynumber: 3.0 Consensus size: 81
33618244 ATATTACTGT
33618254 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
1 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
33618319 AGAAAATTTCTTCTGA
66 AGAAAATTTCTTCTGA
33618335 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
1 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
33618400 AGAAAATTTCTTCTGA
66 AGAAAATTTCTTCTGA
33618416 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
1 TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
*
33618481 GGAAAATTTCTTCTGA
66 AGAAAATTTCTTCTGA
33618497 ATTAGTTCCT
Statistics
Matches: 161, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 161 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (81 bp):
TAAGAAAGAAGTTATTCATGAGGAATCGATTTATTCAAGTATGGTATTCACAAAATGAAATTTCT
AGAAAATTTCTTCTGA
Found at i:33620069 original size:122 final size:122
Alignment explanation
Indices: 33619851--33620099 Score: 378
Period size: 122 Copynumber: 2.0 Consensus size: 122
33619841 GGAGAGTTAT
* * * * * *
33619851 AATAGCTCGAATTTCAGCAATGTC-GAAAATAGTGGTTCAAGACCATCAAATTCGACAAATGAAC
1 AATAGCCCGAATTTTAACGATGTCAG-AAATAGTAGTTCAAGACCATCAAATTCGAAAAATGAAC
33619915 TCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGA-TTTTGA
65 TCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTTGA
*
33619972 ATATAGCCCGAATTTTAACGATGTCAGAAATAGTAGTTCGAGACCATCAAA-TCTGAAAAATGAA
1 A-ATAGCCCGAATTTTAACGATGTCAGAAATAGTAGTTCAAGACCATCAAATTC-GAAAAATGAA
*
33620036 CTTGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTTGA
64 CTCGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTTGA
33620095 AATAG
1 AATAG
33620100 TAAATTGTGT
Statistics
Matches: 116, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
121 3 0.03
122 105 0.91
123 8 0.07
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.34
Consensus pattern (122 bp):
AATAGCCCGAATTTTAACGATGTCAGAAATAGTAGTTCAAGACCATCAAATTCGAAAAATGAACT
CGTAGATTATATTATTTAATATTTACGAGCCAAATGTAGTTTTTAAAAGATTTTTGA
Found at i:33622041 original size:50 final size:50
Alignment explanation
Indices: 33621966--33622131 Score: 269
Period size: 50 Copynumber: 3.3 Consensus size: 50
33621956 GGCAACCAGA
*
33621966 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGATAAGTGAAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGT
* *
33622016 GATAAGTAATAGCTTCGGCTACACTTATTTGATCAAGGACAAGTGAAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGT
*
33622066 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGACAAGT
1 GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA-AAGT
* *
33622117 GAAAAGTGGTAGCTT
1 GATAAGTGATAGCTT
33622132 TGGTTACCTG
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
50 90 0.84
51 17 0.16
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.27
Consensus pattern (50 bp):
GATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGAAAGT
Found at i:33622152 original size:31 final size:31
Alignment explanation
Indices: 33622114--33622231 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
33622104 ACAAATGACA
* *
33622114 AGTGAAAAGTGGTAGCTTTGGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
33622145 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
33622176 AGTGAAAAGTAGTAGCTCCGACTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
33622207 AGGGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
33622232 AAGTGACAAG
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:33622320 original size:47 final size:46
Alignment explanation
Indices: 33622251--33622366 Score: 124
Period size: 47 Copynumber: 2.5 Consensus size: 46
33622241 GTGATTTCCA
* * * * *
33622251 TATAAGACCAAATCTAGGATATGACATCGGTGTGATATATGCTACTG
1 TATAAGACCATATCTGGGATATGACATCAGTGCGATATATGATAC-G
* * *
33622298 TATAAGACCATATCTGGGATATGGCATCAGTGCGATATGTGATTCG
1 TATAAGACCATATCTGGGATATGACATCAGTGCGATATATGATACG
* * *
33622344 TGTAAGACCATAGCTGGGCTATG
1 TATAAGACCATATCTGGGATATG
33622367 GTATCGATAT
Statistics
Matches: 58, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
46 21 0.36
47 37 0.64
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (46 bp):
TATAAGACCATATCTGGGATATGACATCAGTGCGATATATGATACG
Found at i:33622402 original size:49 final size:48
Alignment explanation
Indices: 33622300--33622429 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 48
33622290 TGCTACTGTA
* * * *
33622300 TAAGACCATATCTGGGATATGGCATC-A-GTGCGATATGTGATTCGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
* *
33622346 TAAGACCATAGCTGGGCTATGGTATCGATATGTGATATGTGATTATGTG
1 TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATT-CGTG
33622395 TAAGACCATAGCTGGGCTATGGCAT-GATTATGTGA
1 TAAGACCATAGCTGGGCTATGGCATCGA-TATGTGA
33622430 AGATGTGTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
46 23 0.32
47 1 0.01
48 15 0.21
49 34 0.47
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (48 bp):
TAAGACCATAGCTGGGCTATGGCATCGATATGTGATATGTGATTCGTG
Found at i:33622457 original size:42 final size:42
Alignment explanation
Indices: 33622381--33622461 Score: 108
Period size: 42 Copynumber: 1.9 Consensus size: 42
33622371 CGATATGTGA
** ***
33622381 TATGTGATTATGTGTAAGACCATAGCTGGGCTATGGCATGAT
1 TATGTGAAGATGTGTAAGACCATAGCTCAACTATGGCATGAT
*
33622423 TATGTGAAGATGTGTAAGACCATAGTTCAACTATGGCAT
1 TATGTGAAGATGTGTAAGACCATAGCTCAACTATGGCAT
33622462 CAAGAAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (42 bp):
TATGTGAAGATGTGTAAGACCATAGCTCAACTATGGCATGAT
Found at i:33624627 original size:27 final size:27
Alignment explanation
Indices: 33624589--33624642 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
33624579 GCCAACAAGT
*
33624589 GAGATTTTTATATACTCCAGTTATAAA
1 GAGATTTTTATATACACCAGTTATAAA
*
33624616 GAGATTTTTATATACACCGGTTATAAA
1 GAGATTTTTATATACACCAGTTATAAA
33624643 ATTATTCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (27 bp):
GAGATTTTTATATACACCAGTTATAAA
Found at i:33628485 original size:11 final size:11
Alignment explanation
Indices: 33628469--33628500 Score: 55
Period size: 12 Copynumber: 2.8 Consensus size: 11
33628459 ATGCGTCCGT
33628469 TTTGAGGATAG
1 TTTGAGGATAG
33628480 TTTGAGGGATAG
1 TTTGA-GGATAG
33628492 TTTGAGGAT
1 TTTGAGGAT
33628501 TTTGATTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.25, C:0.00, G:0.38, T:0.38
Consensus pattern (11 bp):
TTTGAGGATAG
Found at i:33630561 original size:30 final size:30
Alignment explanation
Indices: 33630525--33630922 Score: 769
Period size: 30 Copynumber: 13.3 Consensus size: 30
33630515 ACTTTTCTCA
*
33630525 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630555 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630585 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630615 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630645 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630675 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630705 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630735 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630765 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630795 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630825 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630855 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
33630885 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
33630915 ACTAGCCA
1 ACTAGCCA
33630923 NNNNNNNNNN
Statistics
Matches: 365, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
30 365 1.00
ACGTcount: A:0.26, C:0.49, G:0.04, T:0.21
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:33639687 original size:69 final size:70
Alignment explanation
Indices: 33639512--33639687 Score: 210
Period size: 71 Copynumber: 2.5 Consensus size: 70
33639502 CTTTCCAAGG
* ** *
33639512 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
33639577 TTTTT
66 GTTTT
* * ** * *
33639582 CAAAATCAACTCATATTACGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
33639647 TGTTTT
65 TGTTTT
** *
33639653 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
33639688 TTTAATTTTT
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
69 30 0.34
71 59 0.66
ACGTcount: A:0.29, C:0.15, G:0.22, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:33640007 original size:149 final size:150
Alignment explanation
Indices: 33639706--33640119 Score: 591
Period size: 149 Copynumber: 2.7 Consensus size: 150
33639696 TTGTTTTTTC
*
33639706 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
33639771 GTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTA
66 GTT-TT---AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTA
33639836 ATTTCAATTTCTGTTGTTAAAAAA
127 ATTTCAATTTCTGTTGTTAAAAAA
**
33639860 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
* * * * *
33639925 GTTTT-CAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTT
66 GTTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
33639989 CAATTTCTGTT-TTCAAAAAA
131 CAATTTCTGTTGTT-AAAAAA
* * *
33640009 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
**
33640073 TCTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
63 TCTG-TTTT-AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
33640120 TTCAGATTAC
Statistics
Matches: 234, Mismatches: 19, Indels: 14
0.88 0.07 0.05
Matches are distributed among these distances:
148 4 0.02
149 104 0.44
151 24 0.10
152 4 0.02
153 2 0.01
154 96 0.41
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.31
Consensus pattern (150 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTT
CAATTTCTGTTGTTAAAAAA
Found at i:33640094 original size:226 final size:225
Alignment explanation
Indices: 33639701--33640685 Score: 632
Period size: 226 Copynumber: 4.5 Consensus size: 225
33639691 AATTTTTGTT
* ** *
33639701 TTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
33639766 TTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
66 TTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
33639831 AGGTAATTTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
131 AGGTAATTTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
33639896 CAGGACACGCTGAGGTAATTTCAATTTCTG
196 CAGGACACGCTGAGGTAATTTCAATTTCTG
* * *
33639926 TTTTCAAAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* **
33639991 ATTTCTGTT-TTCAAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACA
65 ATTTCTGTTGTT-AAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACA
* * * **
33640054 TGCTGAGGTATTTTCAATTTCTGTT-TT-TAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
126 CGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTG
* * * *
33640117 AGCTTCAGATTACACACTGTGG-----T--A-TT-T-
191 AGCCTCAG--GACACGCTGAGGTAATTTCAATTTCTG
** * *
33640144 TTTTC--AAT----TCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAA
1 TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
* * * *
33640203 TTTCTGTT-TGT----CAAGAATCAACTCATATTGCGAG--A-G-G-TG-G-GT--TGA-AC-CT
66 TTTCTGTTGT-TAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCT
** * * * * * **
33640252 --TTTAATTTC---TACT-TT-TT--CAAA---ATCAGCTTATATTGCAAGAGGTGAGTTGAGCC
130 GAGGTAATTTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
* * * *
33640305 TCGGGGCACGCTGAGGTATTTTCAATTTTTG
195 TCAGGACACGCTGAGGTAATTTCAATTTCTG
** ** * * *
33640336 TGCTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTAAGGTATTTTC
1 T--TTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTC
* * * *
33640400 AATTTTCGTTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCC
64 AA-TTTC-TGTTGTTAA---A------AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCC
* * * * *
33640465 TCA--AGATGCTGAGGTAATTTCAATTTTTGTT-TGT----CAAAAATCAACTCATATTTCGAGA
118 TCAGGACACGCTGAGGTAATTTCAATTTCTGTTGT-TAAAAAAAAAATCAACTCATATTGCGAGA
** * * * *
33640523 GGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCAAATTCTATT
182 AATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC-AATT-TCTG
* ** * *
33640569 TTTATCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATT
1 TTT-TC---AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCA-AGACACGCTGAGGTAAT
* * * **
33640633 TTCAATTTTTGCTT-TT--TAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAG
61 TTCAATTTCTG-TTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAG
33640686 TCTCGGGCCA
Statistics
Matches: 606, Mismatches: 82, Indels: 146
0.73 0.10 0.18
Matches are distributed among these distances:
182 8 0.01
184 31 0.05
187 4 0.01
188 4 0.01
189 4 0.01
190 2 0.00
191 1 0.00
192 7 0.01
194 5 0.01
195 2 0.00
196 1 0.00
199 49 0.08
200 5 0.01
201 5 0.01
202 3 0.00
203 1 0.00
204 1 0.00
207 20 0.03
211 54 0.09
212 1 0.00
214 20 0.03
215 1 0.00
216 2 0.00
217 1 0.00
218 6 0.01
219 3 0.00
220 3 0.00
221 3 0.00
222 1 0.00
223 36 0.06
225 20 0.03
226 137 0.23
227 2 0.00
228 38 0.06
229 3 0.00
230 1 0.00
231 50 0.08
232 5 0.01
233 3 0.00
234 3 0.00
235 6 0.01
236 54 0.09
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (225 bp):
TTTTCAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
TTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTG
AGGTAATTTCAATTTCTGTTGTTAAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCT
CAGGACACGCTGAGGTAATTTCAATTTCTG
Found at i:33640144 original size:77 final size:76
Alignment explanation
Indices: 33639706--33640124 Score: 580
Period size: 77 Copynumber: 5.5 Consensus size: 76
33639696 TTGTTTTTTC
* **
33639706 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
33639771 GTTGTTAAAAAA
66 GTT-TTAAAAAA
33639783 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
33639848 GTTGTTAAAAAA
66 GTT-TTAAAAAA
33639860 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
33639925 GTTTT----CA
66 GTTTTAAAAAA
* * * * *
33639932 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
33639997 GTTTTCAAAAAA
66 GTTTT-AAAAAA
* ** * *
33640009 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
*
33640073 TCTGTTTT-TAAAA
63 TCTGTTTTAAAAAA
** *
33640086 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG
33640125 ATTACACACT
Statistics
Matches: 314, Mismatches: 19, Indels: 17
0.90 0.05 0.05
Matches are distributed among these distances:
72 66 0.21
76 3 0.01
77 216 0.69
78 1 0.00
79 28 0.09
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (76 bp):
AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAAAA
Found at i:33640320 original size:127 final size:126
Alignment explanation
Indices: 33640009--33640373 Score: 346
Period size: 127 Copynumber: 2.8 Consensus size: 126
33639999 TTTCAAAAAA
* *
33640009 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATC-ACTTATATTGCGAGAGGTGAGTTGAGCCTCGG--GACACGCTGAGGTATTTTCAATTT
*
33640074 CTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTCAGATTACACACTGTG
63 CTG-TTTT----AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGT-
33640138 GTATT
122 GTATT
**** * * * *
33640143 TTTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATGAGGTAATTTCAATTTCT
1 AAAATCACTT-ATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCT
* * * *
33640208 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTGGGTTGAACCTTTTA-ATTTC-TACT-T-T-T
65 GTTT-T-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTCAGATTACACACTGTGTAT
33640268 T
126 T
* * *
33640269 CAAAATCAGCTTATATTGCAAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTTT
1 -AAAATCA-CTTATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTC
**
33640334 TGTGCTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
64 TGT--TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
33640374 GCCTCAGGAC
Statistics
Matches: 192, Mismatches: 30, Indels: 26
0.77 0.12 0.10
Matches are distributed among these distances:
126 29 0.15
127 56 0.29
128 3 0.02
129 5 0.03
130 31 0.16
131 9 0.05
132 27 0.14
133 3 0.02
134 29 0.15
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (126 bp):
AAAATCACTTATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTG
TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGTGTATT
Found at i:33640591 original size:77 final size:77
Alignment explanation
Indices: 33640425--33640726 Score: 322
Period size: 77 Copynumber: 4.0 Consensus size: 77
33640415 AATTTATGTT
* * * *
33640425 TCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCA--AGATGCTGAGGTAATTTC-A
1 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
*
33640487 ATT-T-TTGTTTG
66 ATTCTATT-TTTA
*
33640498 TC--AAAAATCAACTCATATT-TCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGATATTTTCA
1 TCAAAAAAATCAACTCATATTGT-GAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCA
33640560 AATTCTATTTTTA
65 AATTCTATTTTTA
33640573 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-AGGGACACGCTGAGGTATTTTCA
1 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCA-GGACACGCTGAGGTATTTTCA
* * **
33640637 ATTTTTGCTTTT-
65 AATTCTATTTTTA
* * * * **
33640649 T-AAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACG-TCGAGGTCCTTT
1 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGG--ACACGCT-GAGGTATTTT
33640712 CAAATTCTATTTTTA
63 CAAATTCTATTTTTA
33640727 ATTTCTTTTT
Statistics
Matches: 193, Mismatches: 21, Indels: 25
0.81 0.09 0.10
Matches are distributed among these distances:
70 1 0.01
71 36 0.19
73 16 0.08
74 4 0.02
75 44 0.23
76 5 0.03
77 86 0.45
78 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (77 bp):
TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAA
ATTCTATTTTTA
Found at i:33640605 original size:148 final size:151
Alignment explanation
Indices: 33640425--33640726 Score: 416
Period size: 148 Copynumber: 2.0 Consensus size: 151
33640415 AATTTATGTT
* *
33640425 TCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCA-AGATGCTGAGGTAATTTCAAT
1 TCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCT-AGACACGCTGAGGTAATTTCAAT
* *
33640489 TTTTG-TTTGTCAAA-AATCAACTCATATTTCGAGAGGTGAGTTGAGCCTCAGG-ACACG-CTGA
65 TTTTGCTTTGTAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGTC-GA
*
33640550 GATATTTTCAAATTCTATTTTTA
129 GATACTTTCAAATTCTATTTTTA
* *
33640573 TCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTAGGGACACGCTGAGGTATTTTCAA
1 TCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTA--GACACGCTGAGGTAATTTCAA
* * *
33640638 TTTTTGCTTTTTAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCGGGCCACACGTCG
64 TTTTTGCTTTGTAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-CACACGTCG
* *
33640703 AGGTCCTTTCAAATTCTATTTTTA
128 AGATACTTTCAAATTCTATTTTTA
33640727 ATTTCTTTTT
Statistics
Matches: 134, Mismatches: 12, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
147 1 0.01
148 40 0.30
150 23 0.17
151 7 0.05
152 35 0.26
154 27 0.20
155 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (151 bp):
TCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTAGACACGCTGAGGTAATTTCAATT
TTTGCTTTGTAAAAGAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCACACGTCGAGA
TACTTTCAAATTCTATTTTTA
Found at i:33640941 original size:71 final size:71
Alignment explanation
Indices: 33640821--33641579 Score: 988
Period size: 71 Copynumber: 10.3 Consensus size: 71
33640811 TCCATTTCTA
* ** *
33640821 TTTTCAATTTCTGTTTTAATTCAAAAAATCAACTCATATTTTGAGAGGTGAGTTGAACCTCA-AG
1 TTTTCAATTTCT-ATTT--TTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACA-
* *
33640885 TCACATTGAGGTA
62 T-GC--TGAGGTG
** * **
33640898 TTTTCAA-TT-TA-TCATCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAAGACCC
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC---ACAT
* *
33640960 GTTGAGGTA
63 GCTGAGGTG
33640969 TTTTCAATTTCTGCTCAATTTATGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTTCAA--T-T--TC----TA--TTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
33641033 CCTCACATGCTGAGGTG
55 CCTCACATGCTGAGGTG
33641050 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
33641115 GAGGTG
66 GAGGTG
33641121 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
33641186 GAGGTG
66 GAGGTG
33641192 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
33641257 GAGGTG
66 GAGGTG
33641263 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
33641328 GAGGTG
66 GAGGTG
33641334 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
33641399 GAGGTG
66 GAGGTG
33641405 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCGCTTAC
1 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-T--C--AC
* *
33641470 ACGCTGAGGTAT
61 ATGCTGAGGT-G
* * *
33641482 TTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGTCTCGGCTCA
1 TTTTCAATTTCTATTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG---C--CTCA
*
33641547 CATGCTGAGGTC
60 CATGCTGAGGTG
* **
33641559 TTTTTAATTTCTGCTTTTCAA
1 TTTTCAATTTCTATTTTTCAA
33641580 TTTCTGTTTT
Statistics
Matches: 625, Mismatches: 26, Indels: 63
0.88 0.04 0.09
Matches are distributed among these distances:
70 6 0.01
71 444 0.71
72 3 0.00
73 1 0.00
74 2 0.00
75 2 0.00
76 17 0.03
77 41 0.07
78 46 0.07
79 1 0.00
80 1 0.00
81 17 0.03
82 3 0.00
83 1 0.00
84 37 0.06
85 3 0.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (71 bp):
TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCACATGCT
GAGGTG
Found at i:33641581 original size:14 final size:15
Alignment explanation
Indices: 33641556--33641596 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
33641546 ACATGCTGAG
*
33641556 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
33641571 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
33641585 GTTTTTTCAATT
1 GTCTTTTCAATT
33641597 ATATTTTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.63
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:33641593 original size:15 final size:14
Alignment explanation
Indices: 33641559--33641596 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
33641549 TGCTGAGGTC
33641559 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
33641572 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
33641586 TTTTTTCAATT
1 -TTTTTCAATT
33641597 ATATTTTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
15 9 0.43
ACGTcount: A:0.16, C:0.13, G:0.05, T:0.66
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:33641726 original size:179 final size:181
Alignment explanation
Indices: 33641405--33641822 Score: 684
Period size: 179 Copynumber: 2.3 Consensus size: 181
33641395 TGCTGAGGTG
* **
33641405 TTTTCAATTTCTATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTCGCTTAC
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC-TCGCGGAC
* *
33641470 ACGCTGAGGTATTTTTCAATTTCTGTTTGTCAAAAAAATCAACTCATATTGTGAGAGGTGAGTTG
65 ACGCTGAGGTATATTTCAATTTCTGTTTGTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
33641535 AGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTT
129 AGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTT
*
33641588 TTTTCAA-TTATATTTTTTCAAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCG-GGA
1 TTTTCAATTTATA-TTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGCGGA
*
33641651 CACGCTGAGGTA-ATTTCAATTTCTGTTTGTC-AAAAATTAACTCATATTGCGAGAGGTGAGTTG
64 CACGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTG
33641714 AGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTT
129 AGTCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTT
* *
33641767 TTTTCAATTTATATTTTTC-AAAAATCAACTCATATTGCGAGATGTGACTTGAGCCT
1 TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
33641823 TGGGTTCACA
Statistics
Matches: 222, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
177 34 0.15
179 96 0.43
180 5 0.02
181 18 0.08
182 17 0.08
183 16 0.07
184 36 0.16
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.40
Consensus pattern (181 bp):
TTTTCAATTTATATTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGCGGACA
CGCTGAGGTATATTTCAATTTCTGTTTGTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
TCTCGGCTCACATGCTGAGGTCTTTTTAATTTCTGCTTTTCAATTTCTGTT
Found at i:33641760 original size:14 final size:15
Alignment explanation
Indices: 33641735--33641776 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
33641725 ACATGCTGAG
*
33641735 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
33641750 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
33641764 GTTTTTTCAATTT
1 GTCTTTTCAATTT
33641777 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:33641772 original size:15 final size:14
Alignment explanation
Indices: 33641738--33641787 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
33641728 TGCTGAGGTC
33641738 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
33641751 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
33641765 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
33641780 TTTTTCAA
1 TTTTTCAA
33641788 AAATCAACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:33645629 original size:38 final size:38
Alignment explanation
Indices: 33645573--33645680 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
33645563 GCTCAGTAAA
* *
33645573 AGAAGAAATCCGGACTTAAAGTCCGCAGGCTATATGCT
1 AGAATAAATCCGGACTTAAAGTCCGCAGGCTATATGAT
*
33645611 AGAATAAATCCGGACTTAAAGTCTGCAGGCTATATGAT
1 AGAATAAATCCGGACTTAAAGTCCGCAGGCTATATGAT
* * * *
33645649 GGAATAAATTCGGACTTAAAGTTCGTAGGCTA
1 AGAATAAATCCGGACTTAAAGTCCGCAGGCTA
33645681 AGTGCTGGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (38 bp):
AGAATAAATCCGGACTTAAAGTCCGCAGGCTATATGAT
Found at i:33645690 original size:38 final size:38
Alignment explanation
Indices: 33645578--33645700 Score: 151
Period size: 38 Copynumber: 3.2 Consensus size: 38
33645568 GTAAAAGAAG
* *
33645578 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTAGAAT
1 AAATCCGGACTTAAAGTTCGCAGGCTATATGCTGGAAT
*
33645616 AAATCCGGACTTAAAG-TCTGCAGGCTATATGATGGAAT
1 AAATCCGGACTTAAAGTTC-GCAGGCTATATGCTGGAAT
* * *
33645654 AAATTCGGACTTAAAGTTCGTAGGCTA-AGTGCTGGAAA
1 AAATCCGGACTTAAAGTTCGCAGGCTATA-TGCTGGAAT
33645692 AATATCCGG
1 AA-ATCCGG
33645701 GTTAAGGACC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
37 2 0.03
38 64 0.88
39 7 0.10
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTTCGCAGGCTATATGCTGGAAT
Found at i:33653983 original size:38 final size:38
Alignment explanation
Indices: 33653932--33654586 Score: 1168
Period size: 38 Copynumber: 17.2 Consensus size: 38
33653922 GTAAAAGAAG
* * *
33653932 AAATCCGGACTTAAAGCCCACAGGCTATATGCTAGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
* *
33653970 AAATCCGGACTTAAAGTCCGTAGGCTATATGATGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
* * * **
33654008 AAATCCGGTCTTATAGTCTGTGGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
*
33654046 AAATCTGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654084 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654122 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654160 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654198 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654236 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654274 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654312 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654350 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654388 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654426 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654464 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
33654502 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
1 AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
* *
33654540 AAATCCGGACTTAAAGTCCGTAGGCTA-AGTGCTGGAAA
1 AAATCCGGACTTAAAGTCCGCAGGCTATA-TGCTGGAAT
33654578 AATATCCGG
1 AA-ATCCGG
33654587 GTTAAGGACT
Statistics
Matches: 596, Mismatches: 19, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
37 1 0.00
38 589 0.99
39 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (38 bp):
AAATCCGGACTTAAAGTCCGCAGGCTATATGCTGGAAT
Found at i:33662237 original size:48 final size:48
Alignment explanation
Indices: 33662163--33662340 Score: 227
Period size: 48 Copynumber: 3.7 Consensus size: 48
33662153 TGATATGTGT
*
33662163 GCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* **
33662211 GCCAGTGTAAGACCATGTCTGGGACATGGCATTAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
* * * *
33662259 GCTAGTGTAAGGCCATGTCTGGGACATGGCATC-G--ATATTGATATGTGT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACA-T--TATGAGA
*
33662307 GCTAGTGTGAGACCATGTCTGGGACATGGCATCG
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
33662341 AAAAATTTAC
Statistics
Matches: 114, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
45 2 0.02
46 1 0.01
47 1 0.01
48 110 0.96
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:33664846 original size:10 final size:10
Alignment explanation
Indices: 33664813--33664845 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
33664803 TGCATGACCA
33664813 AAAAAAAGA-
1 AAAAAAAGAG
33664822 AAAAAAAGAG
1 AAAAAAAGAG
*
33664832 AAAAGAAGAG
1 AAAAAAAGAG
33664842 AAAA
1 AAAA
33664846 GCTCTCATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAG
Found at i:33665967 original size:40 final size:39
Alignment explanation
Indices: 33665883--33666067 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
33665873 TCGAATGATG
* * * *
33665883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
33665923 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33665963 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
33666002 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
33666043 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCC-GAAGGCATTTG
33666068 AACAAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 36 0.29
40 77 0.63
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33666019 original size:79 final size:81
Alignment explanation
Indices: 33665883--33666065 Score: 214
Period size: 79 Copynumber: 2.3 Consensus size: 81
33665873 TCGAATGATG
* *
33665883 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
33665947 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
33665962 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
33666024 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
33666042 ACCGGGCTATGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
33666066 TGAACAAGTA
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.66
80 29 0.33
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:33666089 original size:79 final size:79
Alignment explanation
Indices: 33665936--33666100 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
33665926 GGACTAAGAT
* ** *
33665936 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAA
*
33666001 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * *
33666015 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCTGAAGGCATTTGAACAAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACAAGTTA-C
* *
33666078 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33666094 CCGAAGG
1 CCGAAGG
33666101 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.67
80 22 0.31
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACAAGTTACTAA
ATCCGGGTTAAATC
Found at i:33673427 original size:39 final size:40
Alignment explanation
Indices: 33673325--33673509 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
33673315 TCGAATGATG
* * * *
33673325 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* * *
33673364 ATCCGGACTAAGAT-CCGAAAGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33673405 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33673444 TCCGGGTTAAGTCCCGAAGGCATTTTTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
33673483 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
33673510 AATGAGTAGC
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 34 0.29
40 75 0.63
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:33673531 original size:79 final size:79
Alignment explanation
Indices: 33673378--33673542 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
33673368 GGACTAAGAT
* * **
33673378 CCGAAAGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
33673443 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * * * *
33673457 CCGAAGGCATTTTTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAATGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
33673520 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
33673536 CCGAAGG
1 CCGAAGG
33673543 TACGTGATTT
Statistics
Matches: 71, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 2 0.03
79 46 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:33675636 original size:27 final size:26
Alignment explanation
Indices: 33675588--33675719 Score: 160
Period size: 27 Copynumber: 4.9 Consensus size: 26
33675578 GCGAGGCTGC
* *
33675588 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
33675614 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
33675641 CAGATATATGTGGCAGAGCCACCAGGA-
1 CAGATAT-TGTGGCAGAGCCACCA-GAT
*
33675668 CAAATATATGTGGCAGAGCCACCAGAT
1 CAGATAT-TGTGGCAGAGCCACCAGAT
*
33675695 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33675720 GACGCTTCCT
Statistics
Matches: 95, Mismatches: 5, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
26 9 0.09
27 81 0.85
28 5 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:33676689 original size:33 final size:33
Alignment explanation
Indices: 33676652--33676717 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
33676642 CGTTTATTTC
33676652 ATTTGAAACTAGACTCATTAAGCTTTAATTACA
1 ATTTGAAACTAGACTCATTAAGCTTTAATTACA
*
33676685 ATTTGAATCTAGACTCATTAAGCTTTAATTACA
1 ATTTGAAACTAGACTCATTAAGCTTTAATTACA
33676718 TAATTTACTC
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:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (33 bp):
ATTTGAAACTAGACTCATTAAGCTTTAATTACA
Found at i:33677382 original size:26 final size:26
Alignment explanation
Indices: 33677352--33678213 Score: 1697
Period size: 26 Copynumber: 33.2 Consensus size: 26
33677342 TGAAGTTCCC
*
33677352 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
33677378 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677404 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677430 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677456 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677482 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677508 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677534 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677560 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677586 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677612 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677638 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677664 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677690 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677716 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677742 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677768 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677794 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677820 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677846 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677872 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677898 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677924 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677950 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33677976 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678002 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678028 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678054 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678080 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678106 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678132 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678158 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
33678184 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
33678210 ATCA
1 ATCA
33678214 ATTTGTATCA
Statistics
Matches: 834, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 834 1.00
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:33678513 original size:72 final size:72
Alignment explanation
Indices: 33678396--33678542 Score: 276
Period size: 72 Copynumber: 2.0 Consensus size: 72
33678386 TCACATAGGT
* *
33678396 CTTATTTCATAATTTCACCTGTTTTTTCTTATGGAACAAAAATTAACTAAAATTGTCGGGTTCTA
1 CTTATTTCATAATTTCACCCGCTTTTTCTTATGGAACAAAAATTAACTAAAATTGTCGGGTTCTA
33678461 TCTTAAG
66 TCTTAAG
33678468 CTTATTTCATAATTTCACCCGCTTTTTCTTATGGAACAAAAATTAACTAAAATTGTCGGGTTCTA
1 CTTATTTCATAATTTCACCCGCTTTTTCTTATGGAACAAAAATTAACTAAAATTGTCGGGTTCTA
33678533 TCTTAAG
66 TCTTAAG
33678540 CTT
1 CTT
33678543 GGGCCTTCTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.42
Consensus pattern (72 bp):
CTTATTTCATAATTTCACCCGCTTTTTCTTATGGAACAAAAATTAACTAAAATTGTCGGGTTCTA
TCTTAAG
Found at i:33683584 original size:27 final size:27
Alignment explanation
Indices: 33683536--33683694 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
33683526 GCGAGGCTGC
* *
33683536 CAGATATTGTGAC-GAGGTCACCAGATA
1 CAGATATTGTGGCAGA-GCCACCAGATA
*
33683563 TAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
33683589 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33683616 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
33683643 CAGATATATGCGGCAAAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
33683670 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33683695 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 9 0.08
27 98 0.87
28 6 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:33683695 original size:54 final size:54
Alignment explanation
Indices: 33683554--33683697 Score: 227
Period size: 54 Copynumber: 2.7 Consensus size: 54
33683544 GTGACGAGGT
* * * * *
33683554 CACCAGATATAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGC
33683608 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGC
33683662 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
33683698 GCTTCCTCCA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
53 4 0.05
54 80 0.95
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGC
Found at i:33684604 original size:26 final size:26
Alignment explanation
Indices: 33684568--33684727 Score: 293
Period size: 26 Copynumber: 6.2 Consensus size: 26
33684558 TGAAATTCTC
*
33684568 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33684594 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33684620 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33684646 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
33684672 ATCATGGAACATTTACCTAACCCATA
1 ATCATGGAACATTTACCTAACCCATT
33684698 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33684724 ATCA
1 ATCA
33684728 ATTTGTATCA
Statistics
Matches: 129, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 129 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33693562 original size:40 final size:40
Alignment explanation
Indices: 33693493--33693745 Score: 297
Period size: 40 Copynumber: 6.5 Consensus size: 40
33693483 ACCCAAGTAT
*
33693493 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
*
33693532 CTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
33693572 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
33693612 CTTCGGGTCTTAGCCC--ATA-A-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* * *
33693648 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * * *
33693688 CTTCAGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
33693728 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
33693746 TTATCATCCG
Statistics
Matches: 182, Mismatches: 22, Indels: 19
0.82 0.10 0.09
Matches are distributed among these distances:
35 1 0.01
36 29 0.16
38 7 0.04
39 13 0.07
40 129 0.71
41 3 0.02
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:33693664 original size:76 final size:79
Alignment explanation
Indices: 33693493--33693745 Score: 356
Period size: 76 Copynumber: 3.2 Consensus size: 79
33693483 ACCCAAGTAT
* *
33693493 CTTCGGGAT-TTAG-CCGGATATAA-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATA
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGTCTTAGCCC-GATATA
33693555 GCAACTCGCACAAATGC
63 GCAACTCGCACAAATGC
33693572 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCC-ATA-A-CA
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGATATAGCA
33693634 ACTCGCACAAATGC
66 ACTCGCACAAATGC
* * *
33693648 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCAGGACATAGCCCGGATATAGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCC-GATATAGC
*
33693713 AACTCGCACGAATGC
65 AACTCGCACAAATGC
* *
33693728 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
33693746 TTATCATCCG
Statistics
Matches: 159, Mismatches: 8, Indels: 13
0.88 0.04 0.07
Matches are distributed among these distances:
76 69 0.43
77 1 0.01
78 7 0.04
79 12 0.08
80 69 0.43
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCCGATATAGCA
ACTCGCACAAATGC
Found at i:33693727 original size:116 final size:116
Alignment explanation
Indices: 33693512--33693740 Score: 318
Period size: 116 Copynumber: 2.0 Consensus size: 116
33693502 TTAGCCGGAT
* *
33693512 ATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGCAACTCGCACAAATGCCTTCG
1 ATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCA
* * * * *
33693577 GGTCTTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTCTTAGCCC
66 GGACATAGCCCGGATATAAGCACTAGCACAAATGCCTTCGGATCTTAGCCC
* * *
33693628 ATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGCCTTC
1 ATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAT-AGCAACTAGCACAAATGCCTTC
* *
33693692 AGGACATAGCCCGGATAT-AGCAACTCGCACGAATGCCTTCGGATCTTAG
65 AGGACATAGCCCGGATATAAGC-ACTAGCACAAATGCCTTCGGATCTTAG
33693741 TCCGGTTATC
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
115 2 0.02
116 95 0.96
117 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (116 bp):
ATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATATAGCAACTAGCACAAATGCCTTCA
GGACATAGCCCGGATATAAGCACTAGCACAAATGCCTTCGGATCTTAGCCC
Found at i:33701056 original size:40 final size:40
Alignment explanation
Indices: 33700979--33701115 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
33700969 ACCCAAGTAT
33700979 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
33701018 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * * *
33701058 CTTCAGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
33701098 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
33701116 TTATCATCCG
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 12 0.15
40 66 0.82
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:33703035 original size:43 final size:43
Alignment explanation
Indices: 33702987--33703089 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
33702977 TTGGTTTTCA
33702987 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
33703030 GCACTAAGTGTGTGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
33703073 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
33703090 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.22, C:0.15, G:0.36, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:33703106 original size:29 final size:29
Alignment explanation
Indices: 33703071--33703144 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
33703061 GTTGTGAGAT
* *
33703071 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
33703100 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
33703129 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
33703145 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:33703578 original size:40 final size:40
Alignment explanation
Indices: 33703455--33703690 Score: 190
Period size: 40 Copynumber: 5.9 Consensus size: 40
33703445 TCGAATGATG
** *
33703455 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** ** * * *
33703495 TCCGGACTAAGAACCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA-TATA
*
33703535 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
33703575 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * ** * * * *
33703615 TACGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * * *
33703655 TCTGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
33703691 CGTGTATTCG
Statistics
Matches: 157, Mismatches: 37, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
40 139 0.89
41 18 0.11
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:33714052 original size:72 final size:72
Alignment explanation
Indices: 33713935--33714073 Score: 260
Period size: 72 Copynumber: 1.9 Consensus size: 72
33713925 CTTAATTGGT
*
33713935 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGTGTATTTGATGTTGCCATAGAAGGGAAAAA
1 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAA
33714000 TGCGGTA
66 TGCGGTA
*
33714007 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGTGAATTTGATGTTTCCATAGAAGGGAAAAA
1 AAAATACCTAATAGTCATAAGTACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAA
33714072 TG
66 TG
33714074 ATCAGCATGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.29
Consensus pattern (72 bp):
AAAATACCTAATAGTCATAAGTACATGTTAGAGTGTGAATTTGATGTTGCCATAGAAGGGAAAAA
TGCGGTA
Found at i:33714409 original size:158 final size:157
Alignment explanation
Indices: 33714122--33714437 Score: 551
Period size: 158 Copynumber: 2.0 Consensus size: 157
33714112 TTAATTTACA
** * *
33714122 AGCCTTGGGGCAAAAGTGAAAATATGTGAAAGTTTGGGGCAAAATGGTAATTTTTCCAAATTTCG
1 AGCCTTGGGGCAAAAGTGAAAATATGTGAAAGTTTGGGGCAAAATAATAATTTTGCAAAATTTCG
33714187 TACTAAGGGCTATTTTGATGAATGTATGTATTAAATAAAATTAATTTGGCATTATAGATCAAGAG
66 TACTAAGGGCTATTTTGATGAATGTATGTATTAAATAAAATTAATTTGGCATTATAGATCAAGAG
*
33714252 AAACGAGATTCAAGTCGCGATCGAGGG
131 AAACGAGATTCAAGTCACGATCGAGGG
*
33714279 AGCCTTGGGGCAAAAGTGCAAATATGTGAAAGTTTAGGGGCAAAATAATAATTTTGCAAAATTTC
1 AGCCTTGGGGCAAAAGTGAAAATATGTGAAAGTTT-GGGGCAAAATAATAATTTTGCAAAATTTC
* *
33714344 GTACTAAGGGCTGTTTTGATGAATGTATGTATTAATTAAAATTAATTTGGCATTATAGATCAAGA
65 GTACTAAGGGCTATTTTGATGAATGTATGTATTAAATAAAATTAATTTGGCATTATAGATCAAGA
33714409 GAAACGAGATTCAAGTCACGATCGAGGG
130 GAAACGAGATTCAAGTCACGATCGAGGG
33714437 A
1 A
33714438 AAAATAAAGT
Statistics
Matches: 150, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
157 34 0.23
158 116 0.77
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.30
Consensus pattern (157 bp):
AGCCTTGGGGCAAAAGTGAAAATATGTGAAAGTTTGGGGCAAAATAATAATTTTGCAAAATTTCG
TACTAAGGGCTATTTTGATGAATGTATGTATTAAATAAAATTAATTTGGCATTATAGATCAAGAG
AAACGAGATTCAAGTCACGATCGAGGG
Found at i:33715707 original size:27 final size:27
Alignment explanation
Indices: 33715659--33715817 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
33715649 GCGAGGCTGC
* * *
33715659 CAGATATTGTGAC-GAAGTCACTAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
33715686 CAGATATTGTGGCAGAGCCACTAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
33715712 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
33715739 CAAATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
33715766 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
33715793 CAGATAATTGTGGCATAACCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
33715818 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 10 0.09
27 98 0.87
28 5 0.04
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:33715759 original size:54 final size:54
Alignment explanation
Indices: 33715694--33715817 Score: 203
Period size: 54 Copynumber: 2.3 Consensus size: 54
33715684 TACAGATATT
* *
33715694 GTGGCAGAGCCACTAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
* *
33715748 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATT
1 GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
*
33715802 GTGGCATAACCACCAG
1 GTGGCATAGCCACCAG
33715818 GACGCTTCCT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 65 1.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
GTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAAATAATC
Found at i:33715985 original size:28 final size:26
Alignment explanation
Indices: 33715923--33715996 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 26
33715913 AAATTAACCC
** *
33715923 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAATAGTAATTTTGCACA
*
33715949 TAGGGGTATAATAGTAATTTTTCATACA
1 TAGGGGTATAATAGTAATTTTGC--ACA
*
33715977 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAATAGTAATTT
33715997 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 20 0.49
28 21 0.51
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (26 bp):
TAGGGGTATAATAGTAATTTTGCACA
Found at i:33717468 original size:26 final size:26
Alignment explanation
Indices: 33717432--33717539 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33717422 TGAAATGCTC
*
33717432 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
33717458 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
33717484 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
33717510 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
33717536 ATCA
1 ATCA
33717540 ATTTATACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:33724726 original size:88 final size:88
Alignment explanation
Indices: 33724577--33724751 Score: 278
Period size: 88 Copynumber: 2.0 Consensus size: 88
33724567 TATGTTTTTA
* *
33724577 AAATCCCGGAAGCTCAAATTAACTTATGCTAGCAATAGTTCAACCTAGGGTTCATATTTGGAAAA
1 AAATCCCGGAAGCTCAAATTAACTTATGCTAGCAATAATTCAACATAGGGTTCATATTTGGAAAA
* *
33724642 CTATCCATAGGTGAAATTTGTGG
66 ATACCCATAGGTGAAATTTGTGG
* *
33724665 AAATCCCGGTAGCTCGAATTAACTTATGCTAGCAATAATTCAACATAGGGTTCATATTTGGAAAA
1 AAATCCCGGAAGCTCAAATTAACTTATGCTAGCAATAATTCAACATAGGGTTCATATTTGGAAAA
* *
33724730 ATGCCCATAGGTTAAATTTGTG
66 ATACCCATAGGTGAAATTTGTG
33724752 TACTTTGGTG
Statistics
Matches: 79, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (88 bp):
AAATCCCGGAAGCTCAAATTAACTTATGCTAGCAATAATTCAACATAGGGTTCATATTTGGAAAA
ATACCCATAGGTGAAATTTGTGG
Found at i:33739193 original size:27 final size:27
Alignment explanation
Indices: 33739163--33739312 Score: 83
Period size: 27 Copynumber: 5.6 Consensus size: 27
33739153 TGTAGGGTAG
*
33739163 AATTACTGAAATACCATTAGTTTA-CAA
1 AATTACTGAAATACCATT-GATTAGCAA
** *
33739190 AATTACCAAAATACCCTTGATTAGCAA
1 AATTACTGAAATACCATTGATTAGCAA
* *** * *
33739217 AATTATTGAAATACCCCCGATTTGTAA
1 AATTACTGAAATACCATTGATTAGCAA
**** * *
33739244 AATTA-TCGAAATACCCCCAATTTGTAA
1 AATTACT-GAAATACCATTGATTAGCAA
*
33739271 AATTACTGAAATACC-TCTGATTTGCAA
1 AATTACTGAAATACCAT-TGATTAGCAA
33739298 AATTA-TCGAAATACC
1 AATTACT-GAAATACC
33739313 CCCGATTTGT
Statistics
Matches: 102, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.06
27 95 0.93
28 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACTGAAATACCATTGATTAGCAA
Found at i:33739246 original size:54 final size:53
Alignment explanation
Indices: 33739188--33739554 Score: 368
Period size: 54 Copynumber: 6.8 Consensus size: 53
33739178 ATTAGTTTAC
* * * * * *
33739188 AAAATTACCAAAATACCCTTGATTAGCAAAATTATTGAAATACCCCCGATTTGT
1 AAAATTACCGAAATACCC-CGATTTGTAAAATTATCGAAATACCCCTGATTTGT
* * * *
33739242 AAAATTATCGAAATACCCCCAATTTGTAAAATTA-CTGAAATACCTCTGATTTGC
1 AAAATTACCGAAATA-CCCCGATTTGTAAAATTATC-GAAATACCCCTGATTTGT
* * * *
33739296 AAAATTATCGAAATACCCCCGATTTGTAAAATTATCAAAATACCCTTG-TAGTGT
1 AAAATTACCGAAATA-CCCCGATTTGTAAAATTATCGAAATACCCCTGAT-TTGT
* * * *
33739350 AGAATTACTGAAATACCCCGATTTGTAAAATTA-CTGAAATA-CCCTCAATTTAT
1 AAAATTACCGAAATACCCCGATTTGTAAAATTATC-GAAATACCCCT-GATTTGT
*
33739403 AAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAATACCCCTGATTTGT
1 AAAATTACCGAAATACCC-CGATTTGTAAAATTATCGAAATACCCCTGATTTGT
* *
33739457 AAAATTACCGAAATACCCCGATTTGTAAAATTATCGAAATACCCTTG-TAGTGT
1 AAAATTACCGAAATACCCCGATTTGTAAAATTATCGAAATACCCCTGAT-TTGT
* * * *
33739510 AGAATTACCGAAATACCCTTG-TAATGTAGAATTATCGAAATACCC
1 AAAATTACCGAAATACCC-CGAT-TTGTAAAATTATCGAAATACCC
33739555 TTGTAGTGTA
Statistics
Matches: 264, Mismatches: 36, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
52 5 0.02
53 90 0.34
54 160 0.61
55 9 0.03
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.31
Consensus pattern (53 bp):
AAAATTACCGAAATACCCCGATTTGTAAAATTATCGAAATACCCCTGATTTGT
Found at i:33739319 original size:27 final size:27
Alignment explanation
Indices: 33739188--33739500 Score: 332
Period size: 27 Copynumber: 11.7 Consensus size: 27
33739178 ATTAGTTTAC
* * ** * *
33739188 AAAATTACCAAAATACCCTTGATTAGC
1 AAAATTATCGAAATACCCCCGATTTGT
*
33739215 AAAATTATTGAAATACCCCCGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
*
33739242 AAAATTATCGAAATACCCCCAATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
* * *
33739269 AAAATTA-CTGAAATACCTCTGATTTGC
1 AAAATTATC-GAAATACCCCCGATTTGT
33739296 AAAATTATCGAAATACCCCCGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
* ** *
33739323 AAAATTATCAAAATACCCTTG-TAGTGT
1 AAAATTATCGAAATACCCCCGAT-TTGT
*
33739350 AGAATTA-CTGAAATA-CCCCGATTTGT
1 AAAATTATC-GAAATACCCCCGATTTGT
* * *
33739376 AAAATTA-CTGAAATACCCTCAATTTAT
1 AAAATTATC-GAAATACCCCCGATTTGT
* *
33739403 AAAATTACCGAAATACCCTCGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
* *
33739430 AAAATTATCAAAATACCCCTGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
*
33739457 AAAATTACCGAAATA-CCCCGATTTGT
1 AAAATTATCGAAATACCCCCGATTTGT
33739483 AAAATTATCGAAATACCC
1 AAAATTATCGAAATACCC
33739501 TTGTAGTGTA
Statistics
Matches: 239, Mismatches: 39, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
26 47 0.20
27 190 0.79
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTATCGAAATACCCCCGATTTGT
Found at i:33739516 original size:107 final size:107
Alignment explanation
Indices: 33739163--33739554 Score: 427
Period size: 107 Copynumber: 3.7 Consensus size: 107
33739153 TGTAGGGTAG
* ** * * * * **
33739163 AATTACTGAAATACCATT-AGTTTACAAAATTACCAAAATACCCTTGATTAGCAAAATTATTGAA
1 AATTACTGAAATACCCTTGA-TTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAA
* * *
33739227 ATACCCCCGATTTGTAAAATTATCGAAATACCCCCAATTTGTAA
65 ATACCCCTGATTTGTAAAATTACCGAAATA-CCCCGATTTGTAA
* * *
33739271 AATTACTGAAATA-CCTCTGATTTGCAAAATTATCGAAATACCCCCGATTTGTAAAATTATCAAA
1 AATTACTGAAATACCCT-TGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAA
* * * *
33739335 ATACCCTTG-TAGTGTAGAATTACTGAAATACCCCGATTTGTAA
65 ATACCCCTGAT-TTGTAAAATTACCGAAATACCCCGATTTGTAA
** *
33739378 AATTACTGAAATACCCTCAATTTATAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAA
1 AATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAA
33739443 TACCCCTGATTTGTAAAATTACCGAAATACCCCGATTTGTAA
66 TACCCCTGATTTGTAAAATTACCGAAATACCCCGATTTGTAA
* * * * * *
33739485 AATTA-TCGAAATACCCTTG-TAGTGTAGAATTACCGAAATACCCTTG-TAATGTAGAATTATCG
1 AATTACT-GAAATACCCTTGAT-TTGTAAAATTACCGAAATACCCTCGAT-TTGTAAAATTATCA
33739547 AAATACCC
63 AAATACCC
33739555 TTGTAGTGTA
Statistics
Matches: 240, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
106 3 0.01
107 161 0.67
108 75 0.31
109 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (107 bp):
AATTACTGAAATACCCTTGATTTGTAAAATTACCGAAATACCCTCGATTTGTAAAATTATCAAAA
TACCCCTGATTTGTAAAATTACCGAAATACCCCGATTTGTAA
Found at i:33739521 original size:27 final size:27
Alignment explanation
Indices: 33739188--33739557 Score: 329
Period size: 27 Copynumber: 13.8 Consensus size: 27
33739178 ATTAGTTTAC
* * *
33739188 AAAATTACCAAAATACCCTTGATTAGC
1 AAAATTACCGAAATACCCTTGATTTGT
** **
33739215 AAAATTATTGAAATACCCCCGATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
* ***
33739242 AAAATTATCGAAATACCCCCAATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
* *
33739269 AAAATTACTGAAATA-CCTCTGATTTGC
1 AAAATTACCGAAATACCCT-TGATTTGT
* **
33739296 AAAATTATCGAAATACCCCCGATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
* * *
33739323 AAAATTATCAAAATACCCTTG-TAGTGT
1 AAAATTACCGAAATACCCTTGAT-TTGT
* * *
33739350 AGAATTACTGAAATACCC-CGATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
* ** *
33739376 AAAATTACTGAAATACCCTCAATTTAT
1 AAAATTACCGAAATACCCTTGATTTGT
*
33739403 AAAATTACCGAAATACCCTCGATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
* * *
33739430 AAAATTATCAAAATACCCCTGATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
*
33739457 AAAATTACCGAAATACCC-CGATTTGT
1 AAAATTACCGAAATACCCTTGATTTGT
* *
33739483 AAAATTATCGAAATACCCTTG-TAGTGT
1 AAAATTACCGAAATACCCTTGAT-TTGT
* *
33739510 AGAATTACCGAAATACCCTTG-TAATGT
1 AAAATTACCGAAATACCCTTGAT-TTGT
* *
33739537 AGAATTATCGAAATACCCTTG
1 AAAATTACCGAAATACCCTTG
33739558 TAGTGTAAAA
Statistics
Matches: 286, Mismatches: 50, Indels: 14
0.82 0.14 0.04
Matches are distributed among these distances:
26 49 0.17
27 235 0.82
28 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTGATTTGT
Found at i:33739579 original size:27 final size:27
Alignment explanation
Indices: 33739320--33739595 Score: 190
Period size: 27 Copynumber: 10.3 Consensus size: 27
33739310 ACCCCCGATT
* *
33739320 TGTAAAATTATCAAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * * *
33739347 TGTAGAATTACTGAAATACCC-CG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* ** *
33739373 TGTAAAATTACTGAAATACCC-TCAATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * *
33739400 TATAAAATTACCGAAATACCCTCG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* * * *
33739427 TGTAAAATTATCAAAATACCCCTG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
* *
33739454 TGTAAAATTACCGAAATACCC-CG-ATT
1 TGTAAAATTACCGAAATACCCTTGTA-G
*
33739480 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
33739507 TGTAGAATTACCGAAATACCCTTGTAA
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
33739534 TGTAGAATTATCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* * *
33739561 TGTAAAATGACC-AGCATACCCCTGTAG
1 TGTAAAATTACCGA-AATACCCTTGTAG
*
33739588 GGTAAAAT
1 TGTAAAAT
33739596 AACTGTTTTG
Statistics
Matches: 208, Mismatches: 35, Indels: 12
0.82 0.14 0.05
Matches are distributed among these distances:
25 1 0.00
26 46 0.22
27 160 0.77
28 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:33739869 original size:41 final size:41
Alignment explanation
Indices: 33739824--33739942 Score: 175
Period size: 41 Copynumber: 2.9 Consensus size: 41
33739814 AGGAAGTATA
* *
33739824 TGAGGATCACATGGTTGCTTGACGACCGTGGATCCACTGAT
1 TGAGGATCGCATGGTTGCTTGACGACAGTGGATCCACTGAT
* * *
33739865 TGAGGATCGCATGGTTGTTTGACGACTGTGGATCCATTGAT
1 TGAGGATCGCATGGTTGCTTGACGACAGTGGATCCACTGAT
* *
33739906 TAAGGATCGCATGGTTTCTTGACGACAGTGGATCCAC
1 TGAGGATCGCATGGTTGCTTGACGACAGTGGATCCAC
33739943 CGGTGGCTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.29
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACAGTGGATCCACTGAT
Found at i:33740126 original size:22 final size:22
Alignment explanation
Indices: 33740092--33740150 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
33740082 TATTCTGATC
* *
33740092 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTCTGCCAACCTAAAT
* * *
33740114 ATGGCTTTCTGCCATCTTAACT
1 ATGGCTTTCTGCCAACCTAAAT
33740136 ATGGC-TTCGTGCCAA
1 ATGGCTTTC-TGCCAA
33740151 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
21 3 0.10
22 27 0.90
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (22 bp):
ATGGCTTTCTGCCAACCTAAAT
Found at i:33741169 original size:16 final size:16
Alignment explanation
Indices: 33741148--33741181 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33741138 GTTTCTAATG
33741148 AAAACATGATTTTCGA
1 AAAACATGATTTTCGA
33741164 AAAACATGATTTTCGA
1 AAAACATGATTTTCGA
33741180 AA
1 AA
33741182 CACACTTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (16 bp):
AAAACATGATTTTCGA
Found at i:33742150 original size:49 final size:48
Alignment explanation
Indices: 33742095--33742281 Score: 142
Period size: 49 Copynumber: 3.8 Consensus size: 48
33742085 ATTAGTATCT
** *
33742095 GGATATGAGGGACCACTGGTAGGATATGTTAGTTGGTAATCAGATTAGC
1 GGATATGAGGG-CCACTGGTAGGGCATGTTAGTTGCTAATCAGATTAGC
* * ** * *
33742144 GTATATGTTGGGCCACTAATAGGGCATGTCAGTTGCTAATCA-AGTTGGC
1 GGATATG-AGGGCCACTGGTAGGGCATGTTAGTTGCTAATCAGA-TTAGC
* * * * *
33742193 GGAGATGAGGGGCCAATGGTAGGGCATGTTAGTTGCTAACCAGATTGGT
1 GGATATGA-GGGCCACTGGTAGGGCATGTTAGTTGCTAATCAGATTAGC
* * * ** *
33742242 GTATGTGTTGGGTTACTAGTAGGGCATGTTAGTTGCTAAT
1 GGATATG-AGGGCCACTGGTAGGGCATGTTAGTTGCTAAT
33742282 TAGCCTGGCA
Statistics
Matches: 106, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
48 1 0.01
49 101 0.95
50 4 0.04
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.30
Consensus pattern (48 bp):
GGATATGAGGGCCACTGGTAGGGCATGTTAGTTGCTAATCAGATTAGC
Found at i:33742268 original size:98 final size:98
Alignment explanation
Indices: 33742099--33742281 Score: 249
Period size: 98 Copynumber: 1.9 Consensus size: 98
33742089 GTATCTGGAT
* * * *
33742099 ATGAGGGACCACTGGTAGGATATGTTAGTTGGTAATCAGATTAGCGTATATGTTGGGCCACTAAT
1 ATGAGGGACCAATGGTAGGACATGTTAGTTGCTAACCAGATTAGCGTATATGTTGGGCCACTAAT
33742164 AGGGCATGTCAGTTGCTAATCAAGTTGGCGGAG
66 AGGGCATGTCAGTTGCTAATCAAGTTGGCGGAG
* * * * * ** *
33742197 ATGAGGGGCCAATGGTAGGGCATGTTAGTTGCTAACCAGATTGGTGTATGTGTTGGGTTACTAGT
1 ATGAGGGACCAATGGTAGGACATGTTAGTTGCTAACCAGATTAGCGTATATGTTGGGCCACTAAT
*
33742262 AGGGCATGTTAGTTGCTAAT
66 AGGGCATGTCAGTTGCTAAT
33742282 TAGCCTGGCA
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
98 72 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.31
Consensus pattern (98 bp):
ATGAGGGACCAATGGTAGGACATGTTAGTTGCTAACCAGATTAGCGTATATGTTGGGCCACTAAT
AGGGCATGTCAGTTGCTAATCAAGTTGGCGGAG
Found at i:33750871 original size:27 final size:27
Alignment explanation
Indices: 33750841--33751018 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
33750831 ATATTGAGTC
* * * *
33750841 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
33750868 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
33750895 CGTACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
33750923 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
33750950 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
33750977 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
33751004 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33751019 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:33750984 original size:82 final size:81
Alignment explanation
Indices: 33750862--33751017 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
33750852 TGCTATATAA
* * *
33750862 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGTACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
33750927 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
33750944 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
33751008 CACTTAGTGC
65 CACTTAGTGC
33751018 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33756189 original size:26 final size:26
Alignment explanation
Indices: 33756160--33757021 Score: 1589
Period size: 26 Copynumber: 33.2 Consensus size: 26
33756150 TGATACAAAT
33756160 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756186 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756212 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756238 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756264 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756290 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756316 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756342 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756368 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756394 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756420 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756446 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756472 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756498 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756524 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756550 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756576 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756602 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756628 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756654 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756680 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756706 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756732 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756758 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756784 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756810 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756836 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756862 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756888 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33756914 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756940 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756966 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33756992 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33757018 TGAT
1 TGAT
33757022 GTGAATTTCA
Statistics
Matches: 806, Mismatches: 30, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 806 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33757425 original size:44 final size:44
Alignment explanation
Indices: 33757362--33757449 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
33757352 TGATGAAAAA
33757362 TGGAAGATAGGTGAAGTTGAGCCAAACAAATAAGCATGCATGTG
1 TGGAAGATAGGTGAAGTTGAGCCAAACAAATAAGCATGCATGTG
*
33757406 TGGAAGATAGGTGAAGTTGAGCCAAACAAATGAGCATGCATGTG
1 TGGAAGATAGGTGAAGTTGAGCCAAACAAATAAGCATGCATGTG
33757450 CCTTAGATGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.38, C:0.11, G:0.31, T:0.20
Consensus pattern (44 bp):
TGGAAGATAGGTGAAGTTGAGCCAAACAAATAAGCATGCATGTG
Found at i:33758253 original size:8 final size:8
Alignment explanation
Indices: 33758240--33758269 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
33758230 CGATCGGCAC
33758240 AAGCCGAA
1 AAGCCGAA
33758248 AAGCCGAA
1 AAGCCGAA
*
33758256 ATGCCGAA
1 AAGCCGAA
33758264 AAGCCG
1 AAGCCG
33758270 GTATTTTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.43, C:0.27, G:0.27, T:0.03
Consensus pattern (8 bp):
AAGCCGAA
Found at i:33758753 original size:28 final size:26
Alignment explanation
Indices: 33758660--33758771 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
33758650 AGGAAGCGTC
* * *
33758660 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTT
*
33758687 CTGGTGGCTCTGCCACATATACCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
*
33758714 CTGGTGGCTCTGCCACGATTATTTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* *
33758742 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
33758768 CTGG
1 CTGG
33758772 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 50 0.68
28 17 0.23
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:33758767 original size:54 final size:54
Alignment explanation
Indices: 33758660--33758771 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
33758650 AGGAAGCGTC
*
33758660 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATACCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATACCTGTT
* * * * * *
33758714 CTGGTGGCTCTGCCACGATTATTTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATACCTGTT
33758768 CTGG
1 CTGG
33758772 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATACCTGTT
Found at i:33762561 original size:33 final size:33
Alignment explanation
Indices: 33762519--33762584 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
33762509 CGGAGTTTGT
33762519 AGGGAAATGTCTGACATGCCAACAAGTGAAAGC
1 AGGGAAATGTCTGACATGCCAACAAGTGAAAGC
*
33762552 AGGGAAATGTCTGACATGCCAGCAAGTGAAAGC
1 AGGGAAATGTCTGACATGCCAACAAGTGAAAGC
33762585 TGAGCATCAA
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:0.38, C:0.18, G:0.29, T:0.15
Consensus pattern (33 bp):
AGGGAAATGTCTGACATGCCAACAAGTGAAAGC
Found at i:33764033 original size:26 final size:26
Alignment explanation
Indices: 33764004--33764111 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
33763994 TGATACAAAT
33764004 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
33764030 TGATAATGGGTTAGGTAAATTTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33764056 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
33764082 TGATAATGGGTTAGATAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
33764108 TGAT
1 TGAT
33764112 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:33765696 original size:27 final size:27
Alignment explanation
Indices: 33765655--33765767 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
33765645 GGAGGAAGCC
*
33765655 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
33765682 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
33765709 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
33765737 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
33765763 TCTGG
1 TCTGG
33765768 CTGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:33765760 original size:54 final size:54
Alignment explanation
Indices: 33765655--33765767 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
33765645 GGAGGAAGCC
*
33765655 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGT
* * * *
33765709 TCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGT
1 TCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCTGT
33765763 TCTGG
1 TCTGG
33765768 CTGCCATGCT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (54 bp):
TCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCTGT
Found at i:33768516 original size:39 final size:40
Alignment explanation
Indices: 33768402--33768584 Score: 214
Period size: 40 Copynumber: 4.6 Consensus size: 40
33768392 GCTACTCGTT
*
33768402 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
33768442 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTC-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCA
* *
33768482 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
33768521 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
33768562 CAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
33768585 AACATCATTC
Statistics
Matches: 123, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
38 4 0.03
39 30 0.24
40 74 0.60
41 15 0.12
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:33768546 original size:79 final size:80
Alignment explanation
Indices: 33768404--33768584 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
33768394 TACTCGTTCA
* *
33768404 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
*
33768469 TTAGTAACTT-CCACC
66 ATAGTAACTTACCA-C
**
33768484 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
33768546 ATATGGTCACTTAGCAC
64 ATATAGTAACTTACCAC
*
33768563 AAAGCCTTCGGGACTTAGCCCG
1 AATGCCTTCGGGACTTAGCCCG
33768585 AACATCATTC
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 4 0.05
79 61 0.69
80 23 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTACCAC
Found at i:33776598 original size:79 final size:81
Alignment explanation
Indices: 33776489--33776671 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
33776479 TACTCGTTCA
* *
33776489 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
33776552 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
33776569 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
33776632 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
33776648 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
33776672 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:33776671 original size:40 final size:40
Alignment explanation
Indices: 33776468--33776671 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
33776458 CGGAATTTAA
** *
33776468 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33776508 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
33776548 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
33776587 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
33776627 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
33776667 CCGGA
1 CCGGA
33776672 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:33793488 original size:23 final size:23
Alignment explanation
Indices: 33793458--33793501 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
33793448 ATCTCGAGGG
33793458 TTACTCGGGTGATATACAGTAGA
1 TTACTCGGGTGATATACAGTAGA
33793481 TTACTCGGGTGATATACAGTA
1 TTACTCGGGTGATATACAGTA
33793502 CATATAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (23 bp):
TTACTCGGGTGATATACAGTAGA
Found at i:33794209 original size:13 final size:13
Alignment explanation
Indices: 33794191--33794215 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33794181 GTTAATTTAT
33794191 GTGTGAAAATTTC
1 GTGTGAAAATTTC
33794204 GTGTGAAAATTT
1 GTGTGAAAATTT
33794216 TATCGTTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:33795227 original size:80 final size:81
Alignment explanation
Indices: 33795133--33795293 Score: 263
Period size: 81 Copynumber: 2.0 Consensus size: 81
33795123 AAATACATAT
*
33795133 CGTTAAATTTGATTGTATATATTATATTTGTG-TGAATTGAACTATTGCTTGTATATATACGTTT
1 CGTTAAATTTGATTGTATATATTATATTTGTGCCGAATTGAACTATTGCTTGTATATATACGTTT
33795197 AAG-CTGAATTTGTTTA
66 AAGTC-GAATTTGTTTA
* * *
33795213 CGTTAAATTTGATTGTCTATATTATATTTGTGCCGAATTGAACTATTGTTTGTATATATATGTTT
1 CGTTAAATTTGATTGTATATATTATATTTGTGCCGAATTGAACTATTGCTTGTATATATACGTTT
33795278 AAGTCGAATTTGTTTA
66 AAGTCGAATTTGTTTA
33795294 AGTATGGAGA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
80 31 0.41
81 43 0.57
82 1 0.01
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.49
Consensus pattern (81 bp):
CGTTAAATTTGATTGTATATATTATATTTGTGCCGAATTGAACTATTGCTTGTATATATACGTTT
AAGTCGAATTTGTTTA
Found at i:33795453 original size:43 final size:44
Alignment explanation
Indices: 33795405--33795488 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 44
33795395 GATTCTAATA
33795405 TGTGATTT-CGTGTAAAACCATATCTGGGAC-GTCGGCATCGATT
1 TGTGATTTGCGTGTAAAACCATATCTGGGACAG-CGGCATCGATT
* *
33795448 TGTGATTTGCGTGTAAGACCATGTCTGGGACAGCGGCATCG
1 TGTGATTTGCGTGTAAAACCATATCTGGGACAGCGGCATCG
33795489 TATATGTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
43 8 0.22
44 28 0.76
45 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (44 bp):
TGTGATTTGCGTGTAAAACCATATCTGGGACAGCGGCATCGATT
Found at i:33803290 original size:15 final size:15
Alignment explanation
Indices: 33803270--33803312 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
33803260 TCGTATCTTG
33803270 GGTTTCTTTATTCTA
1 GGTTTCTTTATTCTA
* *
33803285 GGTTTCTCTA-TCTT
1 GGTTTCTTTATTCTA
33803299 GGATTTCTTTATTC
1 GG-TTTCTTTATTC
33803313 GGTTTTCTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 5 0.22
15 16 0.70
16 2 0.09
ACGTcount: A:0.12, C:0.16, G:0.14, T:0.58
Consensus pattern (15 bp):
GGTTTCTTTATTCTA
Found at i:33818967 original size:114 final size:112
Alignment explanation
Indices: 33818683--33819020 Score: 380
Period size: 111 Copynumber: 3.0 Consensus size: 112
33818673 TTATGCTTTG
33818683 TGGTTAATGTTGAGTAATATGCAAATTATGTTACTACTTGATAAATATGAATTGCTACCGAGTGT
1 TGGTTAATGTTGAGTAATATGCAAATTATGTTACTACTTGATAAATATGAATTGCTACCGAGTGT
* *
33818748 CGGTTTCGATATTCCATGGAAGACGGAAAATGTCAGATCGAGGGAAAA
66 CGGTTTCGATATTCCACGGAAGACGGAAAACGT-AGATCGAGGGAAAA
* * * * * * * * * * * *
33818796 AGCTT--T-TCGAATAAAATGCAAATTAAGTGTATTATTTGTTAAATATAAAGTGCTACCGAGTA
1 TGGTTAATGTTGAGTAATATGCAAATTATGT-TACTACTTGATAAATATGAATTGCTACCGAGTG
* * ** * *
33818858 TTGGTTTCGGTATTTTACGGAAGATGGCAAGGAGACGT-GTTCGA-GGAAAA
65 TCGGTTTCGATATTCCACGGAAGACGG-AA--A-ACGTAGATCGAGGGAAAA
33818908 TGGTTAATGTTGAGTAATATGCAAATTATGTTACTACTTGATAAATATGAATTGCTACCGAGTGT
1 TGGTTAATGTTGAGTAATATGCAAATTATGTTACTACTTGATAAATATGAATTGCTACCGAGTGT
* *
33818973 CGGTTTCGATATTCCATGGAAGACGGAAAATGTCAGATCGAGGGAAAA
66 CGGTTTCGATATTCCACGGAAGACGGAAAACGT-AGATCGAGGGAAAA
33819021 AGCCCGTTTG
Statistics
Matches: 174, Mismatches: 40, Indels: 22
0.74 0.17 0.09
Matches are distributed among these distances:
110 21 0.12
111 50 0.29
112 16 0.09
113 16 0.09
114 50 0.29
115 21 0.12
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (112 bp):
TGGTTAATGTTGAGTAATATGCAAATTATGTTACTACTTGATAAATATGAATTGCTACCGAGTGT
CGGTTTCGATATTCCACGGAAGACGGAAAACGTAGATCGAGGGAAAA
Found at i:33824314 original size:20 final size:19
Alignment explanation
Indices: 33824283--33824338 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
33824273 TTACTTTCAA
33824283 TCGTATAACAGTAATTTAT
1 TCGTATAACAGTAATTTAT
*
33824302 TCGTATAAACAGTACTTTA-
1 TCGTAT-AACAGTAATTTAT
* *
33824321 TCATATCACAG-AATTTAT
1 TCGTATAACAGTAATTTAT
33824339 GCCCGTTGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
17 5 0.16
18 4 0.13
19 11 0.35
20 11 0.35
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
TCGTATAACAGTAATTTAT
Found at i:33841250 original size:48 final size:47
Alignment explanation
Indices: 33841178--33841275 Score: 142
Period size: 48 Copynumber: 2.1 Consensus size: 47
33841168 TAAGTCGGAT
* * *
33841178 ACTCAAAAGTCTTGCACCCTAAGTGCCAATATCATGGCCCAAACCCA
1 ACTCAAAAATCTAGCACCCGAAGTGCCAATATCATGGCCCAAACCCA
* *
33841225 ACTCAATAAATCTAGCACCCGAAGTGCCAATATCATGGCCCGAAGCCA
1 ACTCAA-AAATCTAGCACCCGAAGTGCCAATATCATGGCCCAAACCCA
33841273 ACT
1 ACT
33841276 TAATGTAACC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 6 0.13
48 39 0.87
ACGTcount: A:0.35, C:0.33, G:0.14, T:0.18
Consensus pattern (47 bp):
ACTCAAAAATCTAGCACCCGAAGTGCCAATATCATGGCCCAAACCCA
Found at i:33842120 original size:15 final size:14
Alignment explanation
Indices: 33842093--33842122 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
33842083 CCAAATTATG
33842093 ATTTTATTTTATTT
1 ATTTTATTTTATTT
33842107 ATTTTATGTTTATTT
1 ATTTTAT-TTTATTT
33842122 A
1 A
33842123 CATATTTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (14 bp):
ATTTTATTTTATTT
Found at i:33854330 original size:37 final size:37
Alignment explanation
Indices: 33854280--33854358 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
33854270 TTATTACGAA
* * *
33854280 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
33854317 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
33854354 GTCTT
1 GTCTT
33854359 TAGAGCTCGG
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:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:33854553 original size:49 final size:47
Alignment explanation
Indices: 33854476--33854584 Score: 182
Period size: 49 Copynumber: 2.3 Consensus size: 47
33854466 GCTCTTCGGG
33854476 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCCTATCACATATAT--AC
*
33854526 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
33854573 ACTTTCACATTC
1 ACTTTCACATTC
33854585 TCAAAGTAAG
Statistics
Matches: 58, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
47 14 0.24
49 40 0.69
50 4 0.07
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
Found at i:33854903 original size:24 final size:23
Alignment explanation
Indices: 33854855--33854912 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
33854845 TAATCAAACA
33854855 TTATTATATATATATCATATCATT
1 TTATTAT-TATATATCATATCATT
*
33854879 TTATTATTAT-TATCATTATTTATT
1 TTATTATTATATATCA-TA-TCATT
33854903 TTATT-TTATA
1 TTATTATTATA
33854913 CTTTTCAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 5 0.17
23 9 0.30
24 16 0.53
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (23 bp):
TTATTATTATATATCATATCATT
Found at i:33857600 original size:5 final size:5
Alignment explanation
Indices: 33857590--33857615 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33857580 AATTTGGTAT
33857590 ATTAA ATTAA ATTAA ATTAA ATTAA A
1 ATTAA ATTAA ATTAA ATTAA ATTAA A
33857616 ACCAAAATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATTAA
Found at i:33860089 original size:49 final size:49
Alignment explanation
Indices: 33859985--33860097 Score: 138
Period size: 49 Copynumber: 2.3 Consensus size: 49
33859975 CTTGTTATGT
* * *
33859985 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACACTGATAGATGAGA
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACTGATAGAGGAAA
** * * *
33860034 CCCAGTGTAAAACCTATCTGGGACATGGCATCGGC-CTCGATATAGGAAA
1 GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACT-GATAGAGGAAA
33860083 GTCAGTGTAAGACCT
1 GTCAGTGTAAGACCT
33860098 GATTAAGACA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
48 2 0.04
49 50 0.96
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
GTCAGTGTAAGACCTATCTGGGACATGGCATCGACACTGATAGAGGAAA
Found at i:33864647 original size:17 final size:19
Alignment explanation
Indices: 33864605--33864648 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33864595 AAGAAATTTT
*
33864605 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
33864624 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
33864642 AA-TATTA
1 AATTATTA
33864649 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:33882895 original size:15 final size:15
Alignment explanation
Indices: 33882875--33882908 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
33882865 TGGTATTTAG
33882875 ATTCATGAGTAGCTA
1 ATTCATGAGTAGCTA
*
33882890 ATTCATGAGTATCTA
1 ATTCATGAGTAGCTA
33882905 ATTC
1 ATTC
33882909 CTTTAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (15 bp):
ATTCATGAGTAGCTA
Found at i:33885157 original size:37 final size:37
Alignment explanation
Indices: 33885102--33885175 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
33885092 CTCCGACGTC
33885102 TTCCGAACCCCGAACTCACTTGACGAAACTATAAGAG
1 TTCCGAACCCCGAACTCACTTGACGAAACTATAAGAG
* * *
33885139 TTCCGATCCCCGAGCTCACTTGGCGAAACTATAAGAG
1 TTCCGAACCCCGAACTCACTTGACGAAACTATAAGAG
33885176 ATGGAAAAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (37 bp):
TTCCGAACCCCGAACTCACTTGACGAAACTATAAGAG
Found at i:33890946 original size:47 final size:47
Alignment explanation
Indices: 33890853--33890947 Score: 111
Period size: 47 Copynumber: 2.0 Consensus size: 47
33890843 ATACTCATCA
* * *
33890853 TTCCTACTATGAATCCCATCAAAATAAGGTTTTAGGTTGGTATTGTT
1 TTCCTACTATCAATCCCATCAAAATAAGGTTTTAGATAGGTATTGTT
* * * *
33890900 TTCCTGCTATCAATCTCATCAAAATAGGGTTTTA-ATCAGGTGTTGTT
1 TTCCTACTATCAATCCCATCAAAATAAGGTTTTAGAT-AGGTATTGTT
33890947 T
1 T
33890948 ACCTTAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.26, C:0.16, G:0.17, T:0.41
Consensus pattern (47 bp):
TTCCTACTATCAATCCCATCAAAATAAGGTTTTAGATAGGTATTGTT
Found at i:33898201 original size:27 final size:27
Alignment explanation
Indices: 33898171--33898231 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
33898161 CAAATTGTAA
33898171 AATTACCAAAGTACCATCGATTTATAG
1 AATTACCAAAGTACCATCGATTTATAG
* *** *
33898198 AATTATCATTTTACCCTCGATTTATAG
1 AATTACCAAAGTACCATCGATTTATAG
33898225 AATTACC
1 AATTACC
33898232 GTTTTATCCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.20, G:0.08, T:0.36
Consensus pattern (27 bp):
AATTACCAAAGTACCATCGATTTATAG
Found at i:33898229 original size:54 final size:54
Alignment explanation
Indices: 33898171--33898353 Score: 136
Period size: 54 Copynumber: 3.4 Consensus size: 54
33898161 CAAATTGTAA
*
33898171 AATTACCAAAGTA-CCATCGATTTATAGAATTA-TCATTTTACCCTCGATTTATAG
1 AATTACCAAAGTATCC-TCGATTTATAGAATTACT-ATTTTACCCTCGATTTACAG
**** * * *
33898225 AATTACCGTTTTATCCTTGATTTATAGAATTACTGTTTTACCCTTGATTTACAG
1 AATTACCAAAGTATCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
***** * * * *** * *
33898279 AATTACTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAA
1 AATTACCAAAGTATCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
*
33898333 AATTACCAAAATATCCTCGAT
1 AATTACCAAAGTATCCTCGAT
33898354 CAGTAAAATT
Statistics
Matches: 101, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
54 98 0.97
55 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (54 bp):
AATTACCAAAGTATCCTCGATTTATAGAATTACTATTTTACCCTCGATTTACAG
Found at i:33898236 original size:27 final size:27
Alignment explanation
Indices: 33898182--33898311 Score: 161
Period size: 27 Copynumber: 4.8 Consensus size: 27
33898172 ATTACCAAAG
* * *
33898182 TACCATCGATTTATAGAATTATCATTT
1 TACCCTCGATTTATAGAATTACCGTTT
33898209 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
33898236 TATCCTTGATTTATAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* * *
33898263 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAGAATTACCGTTT
* *
33898290 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTATAGAATTAC
33898312 TAAAATACCC
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 93 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTATAGAATTACCGTTT
Found at i:33898320 original size:27 final size:27
Alignment explanation
Indices: 33898290--33898536 Score: 250
Period size: 27 Copynumber: 9.2 Consensus size: 27
33898280 ATTACTGTTT
** *
33898290 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* **
33898317 TACCCTCGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* **
33898344 TATCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
33898371 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
33898397 TACCCAT-GGTTTGTAAAATTACCGAAA
1 TACCC-TCGATTTGTAAAATTACCAAAA
*
33898424 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
33898451 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
33898478 TACCACTAG-TTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
*
33898505 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
33898532 TACCC
1 TACCC
33898537 CTGATTTACA
Statistics
Matches: 184, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
26 26 0.14
27 157 0.85
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:33898375 original size:81 final size:79
Alignment explanation
Indices: 33898290--33898553 Score: 287
Period size: 81 Copynumber: 3.3 Consensus size: 79
33898280 ATTACTGTTT
** * * * *
33898290 TACCCTCGATTTACAAAATTACTAAAATACCCTCGGTTTACAAAATTACCAAAATATCCTCGATC
1 TACCC-CGATTTACAAAATTACTAAAATACCCT-GGTTTGTAAAATTACCGAAATACCCTCAATT
*
33898355 AGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* * ** *
33898371 TA-CCCTAGTCTGTAAAATTGCTAAAATACCCATGGTTTGTAAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTCAATT
33898435 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* ** * * *
33898451 TACCCCTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAATACCCTCAATT
1 TACCCCGA-TTTACAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTCAATT
33898516 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
*
33898532 TACCCCTGATTTACAAAGTTAC
1 TACCCC-GATTTACAAAATTAC
33898554 AGAATTACCC
Statistics
Matches: 157, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
79 2 0.01
80 63 0.40
81 90 0.57
82 2 0.01
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (79 bp):
TACCCCGATTTACAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTCAATTTG
TAAAATTACCAAAA
Found at i:33898563 original size:54 final size:54
Alignment explanation
Indices: 33898290--33898564 Score: 162
Period size: 54 Copynumber: 5.1 Consensus size: 54
33898280 ATTACTGTTT
* ** * *
33898290 TACCCTCGATTTACAAAATTACTAAAATACC-CTCGGTTT-ACAAAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACT-AGTTTGAC-AAATTA-CAGAAA
* * ** * *
33898344 TATCCTCGATCAGTAAAATTACCAAAATACC-CTAGTCTGTA-AAATTGCTA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTG-ACAAATTAC-AGAAA
** * *
33898397 TACCCAT-GGTTTGTAAAATTACCGAAATACC-CTCAATTTGTA-AAATTACCA-AAA
1 TACCC-TCAATTTGTAAAATTACCAAAATACCACT-AGTTTG-ACAAATTA-CAGAAA
* ** *
33898451 TACCC-CTAGTTTGTAAAATTACCAAAATACCACTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
* *
33898505 TACCCTCAATTTGTAAAATTACCAAAATACCCCT-GATTT-ACAAAGTTACAGAAT
1 TACCCTCAATTTGTAAAATTACCAAAATACCACTAG-TTTGACAAA-TTACAGAAA
33898559 TACCCT
1 TACCCT
33898565 TGACTTTCTA
Statistics
Matches: 179, Mismatches: 28, Indels: 28
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 43 0.24
54 130 0.73
55 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCACTAGTTTGACAAATTACAGAAA
Found at i:33898711 original size:27 final size:27
Alignment explanation
Indices: 33898668--33898740 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
33898658 AAATGACTAA
*
33898668 AATACCCCTATTA-GGTAAAGAGACCGT
1 AATACCCCT-GTAGGGTAAAGAGACCGT
*
33898695 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAGAGACCGT
*
33898722 AATACCCCTGTATGGTAAA
1 AATACCCCTGTAGGGTAAA
33898741 ATGACGAATG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAGAGACCGT
Found at i:33899606 original size:52 final size:51
Alignment explanation
Indices: 33899524--33899652 Score: 192
Period size: 52 Copynumber: 2.6 Consensus size: 51
33899514 GAGGAAGTGC
*
33899524 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTT-TGCCCCAATTTACCG
* * *
33899576 AAAAGGGCTTATGCCCTAGTTTATTAAAAAGGGCTTTGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAATTTACCG
33899627 AAAAGGGCTT-T-CCCCAG-TTATTAAAA
1 AAAAGGGCTTATGCCCCAGTTTATTAAAA
33899653 GAGGCTAGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
48 9 0.12
49 5 0.07
50 1 0.01
51 23 0.32
52 34 0.47
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTAAAAAGGGCTTTGCCCCAATTTACCG
Found at i:33899615 original size:25 final size:26
Alignment explanation
Indices: 33899524--33899658 Score: 154
Period size: 26 Copynumber: 5.3 Consensus size: 26
33899514 GAGGAAGTGC
33899524 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
33899550 AAAAGGGCTTATGCCCCAATTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
* *
33899576 AAAAGGGCTTATGCCCTAGTTTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTG
* **
33899602 AAAAGGGCTT-TGCCTCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG
33899627 AAAAGGGCTT-T-CCCCAG-TTATT-
1 AAAAGGGCTTATGCCCCAGTTTATTG
33899649 AAAAGAGGCT
1 AAAAG-GGCT
33899659 AGGCCTCCAG
Statistics
Matches: 92, Mismatches: 16, Indels: 5
0.81 0.14 0.04
Matches are distributed among these distances:
22 5 0.05
23 7 0.08
24 5 0.05
25 21 0.23
26 54 0.59
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTG
Found at i:33899940 original size:31 final size:31
Alignment explanation
Indices: 33899863--33899941 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
33899853 CGTTTACAGT
*
33899863 AAAGGCTTCGGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
33899894 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
33899925 AAAGGCTTCAGCCCAGT
1 AAAGGCTTCGGCCCAGT
33899942 AACCGTTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:33908630 original size:39 final size:39
Alignment explanation
Indices: 33908576--33908664 Score: 133
Period size: 39 Copynumber: 2.3 Consensus size: 39
33908566 TCTCCCTAGA
* * *
33908576 GGAAGCATTTTTCACCACGTTAGCAAAATGCACTTACAT
1 GGAAGCGTTTTTCACCACGTCAGCAAAACGCACTTACAT
* *
33908615 GGAAGCGTTTTTCACCACGTCAGCAAAACGCGCTTACGT
1 GGAAGCGTTTTTCACCACGTCAGCAAAACGCACTTACAT
33908654 GGAAGCGTTTT
1 GGAAGCGTTTT
33908665 GCTGATGTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (39 bp):
GGAAGCGTTTTTCACCACGTCAGCAAAACGCACTTACAT
Found at i:33909132 original size:54 final size:53
Alignment explanation
Indices: 33909038--33909166 Score: 192
Period size: 54 Copynumber: 2.4 Consensus size: 53
33909028 GTAACAGTTT
33909038 ATTTTGAA-TTTTGAATTTTTTAAATATTTTTTTCATTTATGTAATTTTAATTA
1 ATTTT-AATTTTTGAATTTTTTAAATATTTTTTTCATTTATGTAATTTTAATTA
33909091 ATTTTAATTTTTGAATATTATTT-AATATTTTTTTCATTTATGTAATTTTAATTA
1 ATTTTAATTTTTGAAT-TT-TTTAAATATTTTTTTCATTTATGTAATTTTAATTA
*
33909145 ATTTTTATTTTAT-AATTTTTTA
1 ATTTTAATTTT-TGAATTTTTTA
33909167 TAACAGTCTG
Statistics
Matches: 70, Mismatches: 1, Indels: 10
0.86 0.01 0.12
Matches are distributed among these distances:
52 5 0.07
53 15 0.21
54 46 0.66
55 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.64
Consensus pattern (53 bp):
ATTTTAATTTTTGAATTTTTTAAATATTTTTTTCATTTATGTAATTTTAATTA
Found at i:33910085 original size:7 final size:7
Alignment explanation
Indices: 33910073--33910097 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33910063 AGTCGTTTCA
33910073 TATTTAG
1 TATTTAG
33910080 TATTTAG
1 TATTTAG
33910087 TATTTAG
1 TATTTAG
33910094 TATT
1 TATT
33910098 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:33910202 original size:49 final size:49
Alignment explanation
Indices: 33910145--33910242 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
33910135 TTCAATGGAC
* *
33910145 ACCATACGAGGATTCGGT-AATACTGGCAGTAATTCTGGAAGAATTCTTT
1 ACCATACGAGGA-TCCGTCAATACTGGCAGTAATTCTAGAAGAATTCTTT
33910194 ACCATACGAGGATCCGTCAATACTGGCAGTAATTCTAGAAGAATTCTTT
1 ACCATACGAGGATCCGTCAATACTGGCAGTAATTCTAGAAGAATTCTTT
33910243 CAAAATCTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 4 0.09
49 42 0.91
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (49 bp):
ACCATACGAGGATCCGTCAATACTGGCAGTAATTCTAGAAGAATTCTTT
Done.