Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 241 of 332
Found at i:80075880 original size:16 final size:17
Alignment explanation
Indices: 80075859--80075891 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
80075849 ACAACTTTTT
80075859 ATTTTATTTTT-CTTTA
1 ATTTTATTTTTACTTTA
80075875 ATTTTATTTTTACTTTA
1 ATTTTATTTTTACTTTA
80075892 TCCTTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
ATTTTATTTTTACTTTA
Found at i:80078788 original size:13 final size:13
Alignment explanation
Indices: 80078770--80078795 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80078760 CTGTGCATTC
80078770 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
80078783 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
80078796 AACAAATCCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:80079136 original size:24 final size:24
Alignment explanation
Indices: 80079104--80079156 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
80079094 AAAGCTACCC
*
80079104 ATTATTGGCTCGTATGGGCTTCCTG
1 ATTA-TGGCTCGTATGAGCTTCCTG
*
80079129 ATTATGGCTCTTATGAGCTTCCTG
1 ATTATGGCTCGTATGAGCTTCCTG
80079153 -TTAT
1 ATTAT
80079157 ACAACCCAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 4 0.15
24 18 0.69
25 4 0.15
ACGTcount: A:0.15, C:0.19, G:0.23, T:0.43
Consensus pattern (24 bp):
ATTATGGCTCGTATGAGCTTCCTG
Found at i:80082432 original size:30 final size:29
Alignment explanation
Indices: 80082389--80082449 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
80082379 CAAGTAGCCG
80082389 AAGCTAGTTAAATCGCACACTTAGTACCA
1 AAGCTAGTTAAATCGCACACTTAGTACCA
*
80082418 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTACCA
80082448 AA
1 AA
80082450 ACTTCCATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTACCA
Found at i:80086593 original size:48 final size:47
Alignment explanation
Indices: 80086512--80086755 Score: 229
Period size: 48 Copynumber: 5.1 Consensus size: 47
80086502 TGTGTAACCG
* * * * * *
80086512 TGTAAGACCATATATGGGATATGGCAT-TAGCATTATTATGCGATCCCA
1 TGTAAGACCATGTCTGGGACATGGCATCGA-CATTGTTATGTGA-CCCA
* * * * *
80086560 TATAAGACCATGTCTGGGACATAGCATCGGCATTGTTACGTGAGCCA
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGACCCA
* *
80086607 GTGTAAGACCACGTCTGGGACATGGCATCGACATTGTTATGTGAGCCAA
1 -TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGA-CCCA
* *
80086656 TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCTA
1 TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGACCCA
* * * ** * *
80086703 GTGTAAGACCATGCCTGGGAAATGGTATCGGTATTATTATGTGAGCCA
1 -TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGACCCA
80086751 GTGTA
1 -TGTA
80086756 TGTGAGCCAG
Statistics
Matches: 164, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
47 5 0.03
48 157 0.96
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (47 bp):
TGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGACCCA
Found at i:80086675 original size:96 final size:96
Alignment explanation
Indices: 80086542--80086755 Score: 284
Period size: 96 Copynumber: 2.2 Consensus size: 96
80086532 ATGGCATTAG
* * * * *
80086542 CATTATTATGCGATCCCATATAAGACCATGTCTGGGACATAGCATCGGCATTGTTACGTGAGCCA
1 CATTATTATGTGAGCCAATGTAAGACCATGTCTGGGACATAGCATCGACATTGTTACGTGAGCCA
* *
80086607 GTGTAAGACCACGTCTGGGACATGGCATCGA
66 GTGTAAGACCACGCCTGGGAAATGGCATCGA
* * * *
80086638 CATTGTTATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCTA
1 CATTATTATGTGAGCCAATGTAAGACCATGTCTGGGACATAGCATCGACATTGTTACGTGAGCCA
* * *
80086703 GTGTAAGACCATGCCTGGGAAATGGTATCGG
66 GTGTAAGACCACGCCTGGGAAATGGCATCGA
* *
80086734 TATTATTATGTGAGCCAGTGTA
1 CATTATTATGTGAGCCAATGTA
80086756 TGTGAGCCAG
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
96 101 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (96 bp):
CATTATTATGTGAGCCAATGTAAGACCATGTCTGGGACATAGCATCGACATTGTTACGTGAGCCA
GTGTAAGACCACGCCTGGGAAATGGCATCGA
Found at i:80086759 original size:14 final size:14
Alignment explanation
Indices: 80086740--80086769 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
80086730 TCGGTATTAT
80086740 TATGTGAGCCAGTG
1 TATGTGAGCCAGTG
80086754 TATGTGAGCCAGTG
1 TATGTGAGCCAGTG
80086768 TA
1 TA
80086770 AGACCATGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.13, G:0.33, T:0.30
Consensus pattern (14 bp):
TATGTGAGCCAGTG
Found at i:80086795 original size:62 final size:62
Alignment explanation
Indices: 80086692--80086814 Score: 192
Period size: 62 Copynumber: 2.0 Consensus size: 62
80086682 TCGACATTGT
* * * *
80086692 TATGTGAGCTAGTGTAAGACCATGCCTGGGAAATGGTATCGGTATTATTATGTGAGCCAGTG
1 TATGTGAGCCAGTGTAAGACCATGCCTGGGAAATGGCATCGGCATCATTATGTGAGCCAGTG
* *
80086754 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGT
1 TATGTGAGCCAGTGTAAGACCATGCCTGGGAAATGGCATCGGCATCATTATGTGAGCCAGT
80086815 ATAAGACCAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.28
Consensus pattern (62 bp):
TATGTGAGCCAGTGTAAGACCATGCCTGGGAAATGGCATCGGCATCATTATGTGAGCCAGTG
Found at i:80086825 original size:48 final size:48
Alignment explanation
Indices: 80086754--80086846 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
80086744 TGAGCCAGTG
* *
80086754 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCAT
1 TATGTGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCATCAT
*
80086802 TATGTGAGCCAGTATAAGACCATGTTTGGGACATGACATCGGCAT
1 TATGTGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCAT
80086847 GAGGCATCGT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
TATGTGAGCCAGTATAAGACCATGTCTGGGACATGACATCGGCATCAT
Found at i:80086843 original size:110 final size:110
Alignment explanation
Indices: 80086644--80086843 Score: 301
Period size: 110 Copynumber: 1.8 Consensus size: 110
80086634 TCGACATTGT
** * *
80086644 TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATTGTTATGTGAGCTAGTGTAA
1 TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATCATTATGTGAGCCAGTATAA
**
80086709 GACCATGCCTGGGAAATGGTATCGGTATTATTATGTGAGCCAGTG
66 GACCATGCCTGGGAAATGACATCGGTATTATTATGTGAGCCAGTG
* *
80086754 TATGTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCATTATGTGAGCCAGTATAA
1 TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATCATTATGTGAGCCAGTATAA
** *
80086819 GACCATGTTTGGGACATGACATCGG
66 GACCATGCCTGGGAAATGACATCGG
80086844 CATGAGGCAT
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 79 1.00
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (110 bp):
TATGTGAGCCAATGTAAGACCATGTCTGGGACATGGCATCGACATCATTATGTGAGCCAGTATAA
GACCATGCCTGGGAAATGACATCGGTATTATTATGTGAGCCAGTG
Found at i:80091007 original size:35 final size:35
Alignment explanation
Indices: 80090959--80091028 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
80090949 ATTAAGGTCC
*
80090959 TTATATGGAAAAAGATCATTAAGAGGAGTTAATAG
1 TTATATGGAAAAAGACCATTAAGAGGAGTTAATAG
*
80090994 TTATATGGCAAAAGACCATTAAGAGGAGTTAATAG
1 TTATATGGAAAAAGACCATTAAGAGGAGTTAATAG
80091029 ATAAGTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.44, C:0.06, G:0.23, T:0.27
Consensus pattern (35 bp):
TTATATGGAAAAAGACCATTAAGAGGAGTTAATAG
Found at i:80092178 original size:26 final size:26
Alignment explanation
Indices: 80092115--80092191 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 26
80092105 TGGGCGTCCC
* *
80092115 ATTATATGGCTCTTCATGAGCTTCTTG
1 ATTA-ATGGCTCTTCATGAGCTTCCTA
** **
80092142 ATTAAAAGCTCTTTGTGAGCTTCCTA
1 ATTAATGGCTCTTCATGAGCTTCCTA
*
80092168 ATTAATGGCTCTCCA-GAGCTTCCT
1 ATTAATGGCTCTTCATGAGCTTCCT
80092192 GATATGGCTC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 9 0.23
26 26 0.67
27 4 0.10
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (26 bp):
ATTAATGGCTCTTCATGAGCTTCCTA
Found at i:80092368 original size:24 final size:24
Alignment explanation
Indices: 80092326--80092371 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
80092316 ACAGCCCGAA
*
80092326 TAAGCTTCCCGTTACATGGCTCAC
1 TAAGCTTCCCATTACATGGCTCAC
* *
80092350 TAAGCTTCCTATTATATGGCTC
1 TAAGCTTCCCATTACATGGCTC
80092372 GAGAGAGGGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.15, T:0.35
Consensus pattern (24 bp):
TAAGCTTCCCATTACATGGCTCAC
Found at i:80092492 original size:68 final size:68
Alignment explanation
Indices: 80092383--80092514 Score: 255
Period size: 68 Copynumber: 1.9 Consensus size: 68
80092373 AGAGAGGGCT
*
80092383 TCCTGATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATTGATTATAGTTTATACACTTG
1 TCCTGATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTTG
80092448 CCC
66 CCC
80092451 TCCTGATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTT
1 TCCTGATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTT
80092515 CAAGTGTATT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
68 63 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (68 bp):
TCCTGATTATATGCTCTAATGAGCACTCCTGAATATGAATTTATGGATTATAGTTTATACACTTG
CCC
Found at i:80094740 original size:47 final size:47
Alignment explanation
Indices: 80094681--80094812 Score: 185
Period size: 47 Copynumber: 2.8 Consensus size: 47
80094671 CACAATTGAT
*
80094681 AAGTACCAATACCATGGCCCGTAGCCAAATCAAGGTAACT-TATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCT-TCCCG
* * *
80094728 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTTTCTG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT-CTTCCCG
* *
80094776 AAATACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
80094813 TCATTCACAC
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
47 38 0.50
48 37 0.49
49 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCTTCCCG
Found at i:80094802 original size:48 final size:47
Alignment explanation
Indices: 80094684--80094812 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 47
80094674 AATTGATAAG
* * *
80094684 TACCAATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGGAG
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAA
* *
80094731 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCT-TTCTGAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACT--TATCCCGAAA
*
80094779 TACCTATACCATGGCCTGTAGCCAAATCAAGGTA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTA
80094813 TCATTCACAC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
47 36 0.49
48 37 0.50
49 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCGAAA
Found at i:80095468 original size:21 final size:20
Alignment explanation
Indices: 80095444--80095483 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
80095434 AAAACATGAA
80095444 AATCTATCATCAAACTCTCAT
1 AATCTATCATCAAAC-CTCAT
80095465 AATCTATCATCAAACCTCA
1 AATCTATCATCAAACCTCA
80095484 AACACATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (20 bp):
AATCTATCATCAAACCTCAT
Found at i:80098166 original size:28 final size:26
Alignment explanation
Indices: 80098095--80098181 Score: 88
Period size: 28 Copynumber: 3.3 Consensus size: 26
80098085 CACACCATAA
* *
80098095 AAAGGAAGCCTTTGTGGCAATCTATG
1 AAAGGAAACCTTTGTGGCGATCTATG
*
80098121 AAATGAAAGCCTTTGTGGCGATCTATGG
1 AAAGGAAA-CCTTTGTGGCGATCTAT-G
*
80098149 AAAGGAATACCTTCGTGGCGCAT-TAT-
1 AAAGGAA-ACCTTTGTGGCG-ATCTATG
80098175 AAAGGAA
1 AAAGGAA
80098182 GGCGCTAATG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
26 13 0.25
27 16 0.31
28 20 0.38
29 3 0.06
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (26 bp):
AAAGGAAACCTTTGTGGCGATCTATG
Found at i:80101357 original size:30 final size:30
Alignment explanation
Indices: 80101323--80101381 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
80101313 ATATGAGATC
*
80101323 ATTTATTGGTTTCATCCCAATCTACCCTTT
1 ATTTATTGGTTTAATCCCAATCTACCCTTT
*
80101353 ATTTATTGGTTTAATCTCAATCTACCCTT
1 ATTTATTGGTTTAATCCCAATCTACCCTT
80101382 ACATAGAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.22, C:0.24, G:0.07, T:0.47
Consensus pattern (30 bp):
ATTTATTGGTTTAATCCCAATCTACCCTTT
Found at i:80103307 original size:39 final size:40
Alignment explanation
Indices: 80103147--80103323 Score: 193
Period size: 40 Copynumber: 4.5 Consensus size: 40
80103137 GGATGATAAT
* *
80103147 CGGGCTAAGTCTCGAAGGCATTT-TGCGCTAGTGACTAGT-TC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATC
* * *
80103188 CGGTCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
80103228 CGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
* *
80103268 CGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
80103307 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
80103324 TACTTGGCTT
Statistics
Matches: 118, Mismatches: 15, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
38 15 0.13
39 16 0.14
40 62 0.53
41 21 0.18
42 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:80111382 original size:39 final size:40
Alignment explanation
Indices: 80111225--80111398 Score: 205
Period size: 40 Copynumber: 4.4 Consensus size: 40
80111215 TGATAACCGA
*
80111225 GCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-TCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TATCCGG
* *
80111266 GCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
80111306 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* **
80111346 GCTATGTCCCGAAGGCA-TTAAGCGAG-TAGCTATATCC-G
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
* *
80111384 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
80111399 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
38 15 0.13
39 15 0.13
40 65 0.55
41 20 0.17
42 4 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:80115727 original size:27 final size:26
Alignment explanation
Indices: 80115689--80115743 Score: 60
Period size: 28 Copynumber: 2.1 Consensus size: 26
80115679 TAAATCATGC
80115689 TAGCCAA-TTTTT-ATCTAATTATACAA
1 TAGCCAATTTTTTCATC-AATT-TACAA
*
80115715 TAGCCTATATTTTTCATCAATTTACAA
1 TAGCCAAT-TTTTTCATCAATTTACAA
80115742 TA
1 TA
80115744 TTTTCCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 6 0.24
27 7 0.28
28 9 0.36
29 3 0.12
ACGTcount: A:0.36, C:0.16, G:0.04, T:0.44
Consensus pattern (26 bp):
TAGCCAATTTTTTCATCAATTTACAA
Found at i:80139366 original size:25 final size:25
Alignment explanation
Indices: 80139337--80139387 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
80139327 CAAAGGAAAA
** *
80139337 TCCTAATCTAATTCCTATTTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
80139362 TCCTAATAGAATTCCTAATTTAAAG
1 TCCTAATAGAATTCCTAATTTAAAG
80139387 T
1 T
80139388 TTATAAGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.35, C:0.18, G:0.06, T:0.41
Consensus pattern (25 bp):
TCCTAATAGAATTCCTAATTTAAAG
Found at i:80143776 original size:10 final size:9
Alignment explanation
Indices: 80143755--80143784 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
80143745 TCAATAGGGC
80143755 TTTATTTTT
1 TTTATTTTT
80143764 TTTATTGTTT
1 TTTATT-TTT
80143774 TTTATTTTT
1 TTTATTTTT
80143783 TT
1 TT
80143785 GCAAAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTATTTTT
Found at i:80145447 original size:21 final size:19
Alignment explanation
Indices: 80145405--80145458 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
80145395 TTTTTGTTGC
*
80145405 TGTTTTTTTACTCTCTTT-T
1 TGTTTTTTTACTAT-TTTCT
*
80145424 T-TTTTGTTACTATTTTCT
1 TGTTTTTTTACTATTTTCT
80145442 TGTTTTTTTACTATTTT
1 TGTTTTTTTACTATTTT
80145459 GTTATCTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 3 0.10
18 12 0.40
19 15 0.50
ACGTcount: A:0.09, C:0.11, G:0.06, T:0.74
Consensus pattern (19 bp):
TGTTTTTTTACTATTTTCT
Found at i:80145468 original size:19 final size:19
Alignment explanation
Indices: 80145430--80145468 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
80145420 TTTTTTTTTG
* *
80145430 TTACTATTTTCTTGTTTTT
1 TTACTATTTTCTTATCTTT
*
80145449 TTACTATTTTGTTATCTTT
1 TTACTATTTTCTTATCTTT
80145468 T
1 T
80145469 CAATATTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (19 bp):
TTACTATTTTCTTATCTTT
Found at i:80147182 original size:143 final size:143
Alignment explanation
Indices: 80146923--80147204 Score: 410
Period size: 143 Copynumber: 2.0 Consensus size: 143
80146913 AGCTAAGTAG
* *
80146923 CAAAAGAAAAACAAATATAAGAGGATTGTAAAAAAGAGTTATTTAACAATTAAAAAAAAGTTACT
1 CAAAAGAAAAACAAACATAAGAGGATTGTAAAAAAGAATTATTTAACAATTAAAAAAAAG-TACT
* *
80146988 AAAAGAGAAGAAAGAATAGTGAGAAGAGTTGGTGTAAAAAAAGATTAGTTTTAATTTAATTTAAA
65 AAAAGAGAAGAAAGAAGAGTGAGAAGAGTAGGTGTAAAAAAAGATTAGTTTTAATTTAATTTAAA
80147053 TTTTTTTATTATAA
130 TTTTTTTATTATAA
*
80147067 CAAAAGAAAAACAAACATAGGAGGATTGTAAAGAAA-AATTATTTAACAATT-AAAAAAA-TACA
1 CAAAAGAAAAACAAACATAAGAGGATTGTAAA-AAAGAATTATTTAACAATTAAAAAAAAGTAC-
** *
80147129 TTAAAAGAGAAGAAAGAAGCTTGAGAAGAG-AGGATGTAAAAAAAGATTAGTTTTAGTTTAATTT
64 -TAAAAGAGAAGAAAGAAGAGTGAGAAGAGTAGG-TGTAAAAAAAGATTAGTTTTAATTTAATTT
*
80147193 AATTTTTTTTAT
127 AAATTTTTTTAT
80147205 AATTTAATTA
Statistics
Matches: 125, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
141 3 0.02
142 2 0.02
143 73 0.58
144 44 0.35
145 3 0.02
ACGTcount: A:0.52, C:0.04, G:0.16, T:0.29
Consensus pattern (143 bp):
CAAAAGAAAAACAAACATAAGAGGATTGTAAAAAAGAATTATTTAACAATTAAAAAAAAGTACTA
AAAGAGAAGAAAGAAGAGTGAGAAGAGTAGGTGTAAAAAAAGATTAGTTTTAATTTAATTTAAAT
TTTTTTATTATAA
Found at i:80151683 original size:7 final size:7
Alignment explanation
Indices: 80151671--80151696 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
80151661 ATAGTGAATG
80151671 ATTTTCA
1 ATTTTCA
80151678 ATTTTCA
1 ATTTTCA
80151685 ATTTTCA
1 ATTTTCA
80151692 ATTTT
1 ATTTT
80151697 TAGACTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:80151845 original size:19 final size:20
Alignment explanation
Indices: 80151803--80151847 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
80151793 ATGAATGATA
*
80151803 AATTG-TTAAATTTGTGACT
1 AATTGATTAAATTTGTGAAT
80151822 AATTGATTAAATTTGTGAAT
1 AATTGATTAAATTTGTGAAT
80151842 -ATTGAT
1 AATTGAT
80151848 ATACCTTAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 11 0.46
20 13 0.54
ACGTcount: A:0.36, C:0.02, G:0.16, T:0.47
Consensus pattern (20 bp):
AATTGATTAAATTTGTGAAT
Found at i:80159210 original size:47 final size:47
Alignment explanation
Indices: 80159123--80160042 Score: 1534
Period size: 47 Copynumber: 19.3 Consensus size: 47
80159113 CCCTTCGGGA
* * * * * *
80159123 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
80159170 CCTGTCACATATATACACTTTCACATTCATTACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
80159217 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159311 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80159360 CTTATCACATATATACACTTTCAGATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159407 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80159454 CTTATCACATATATATACACTTTCACATTCATCACATCGGTCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159503 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159550 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80159599 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80159646 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80159693 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80159740 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80159787 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159834 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80159883 CTCATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159932 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80159979 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80160028 CTTATCACATATATA
1 CTTATCACATATATA
80160043 TACACTCATA
Statistics
Matches: 833, Mismatches: 30, Indels: 20
0.94 0.03 0.02
Matches are distributed among these distances:
47 554 0.67
49 279 0.33
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:80159361 original size:96 final size:94
Alignment explanation
Indices: 80159126--80160042 Score: 1537
Period size: 96 Copynumber: 9.6 Consensus size: 94
80159116 TTCGGGACTT
* * * * * * * *
80159126 ATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
80159191 CACATTCATTACATCGGCCATTAGGCCTC
66 CACATTCATCACATCGGCCATTAGGCCTC
* *
80159220 ATCACATATATACACTTTCACATTCATCACATCGGCTATTCGGCCTTATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
80159285 CACATTCATCACATCGGCCATTAGGCCTT
66 CACATTCATCACATCGGCCATTAGGCCTC
80159314 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
* *
80159379 TTCAGATTCATCACATCGGCCATTAGGCCTT
64 TTCACATTCATCACATCGGCCATTAGGCCTC
80159410 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACT
* *
80159475 TTCACATTCATCACATCGGTCATTAGGCCTT
64 TTCACATTCATCACATCGGCCATTAGGCCTC
80159506 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACT
80159571 TTCACATTCATCACATCGGCCATTAGGCCTC
64 TTCACATTCATCACATCGGCCATTAGGCCTC
*
80159602 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
80159667 CACATTCATCACATCGGCCATTAGGCCTC
66 CACATTCATCACATCGGCCATTAGGCCTC
*
80159696 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
*
80159761 CACATTCATCACATCGGCTATTAGGCCTC
66 CACATTCATCACATCGGCCATTAGGCCTC
80159790 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT
1 ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACT
80159855 TTCACATTCATCACATCGGCCATTAGGCCTC
64 TTCACATTCATCACATCGGCCATTAGGCCTC
*
80159886 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACT
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
*
80159951 TTCACATTCATCACATCGGCCATTAGGCCTT
64 TTCACATTCATCACATCGGCCATTAGGCCTC
80159982 ATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
1 ATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATA
80160043 TACACTCATA
Statistics
Matches: 791, Mismatches: 24, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
94 322 0.41
96 423 0.53
98 46 0.06
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (94 bp):
ATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGCCTC
Found at i:80159379 original size:143 final size:143
Alignment explanation
Indices: 80159123--80160048 Score: 1558
Period size: 143 Copynumber: 6.5 Consensus size: 143
80159113 CCCTTCGGGA
* * * * * * * *
80159123 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
80159186 ACTTTCACATTCATTACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
* *
80159251 TCGGCTATTCGGC
131 TCGGCCATTAGGC
80159264 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
80159329 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCAGATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
80159394 TCGGCCATTAGGC
131 TCGGCCATTAGGC
80159407 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
80159472 ACTTTCACATTCATCACATCGGTCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
80159537 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
80159550 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
80159613 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCA
80159678 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
* *
80159693 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
80159756 ACTTTCACATTCATCACATCGGCTATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
80159821 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
80159834 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
80159899 ACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCA
80159964 CATCGGCCATTAGGC
129 CATCGGCCATTAGGC
80159979 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
80160044 ACACT
64 ACACT
80160049 CATATCACAA
Statistics
Matches: 752, Mismatches: 25, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
141 186 0.25
143 368 0.49
145 198 0.26
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:80167072 original size:27 final size:26
Alignment explanation
Indices: 80167042--80167103 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
80167032 ATCAAAGCTG
80167042 CCAGTATCAGTATATGTGGCAAAGCCA
1 CCAGTAT-AGTATATGTGGCAAAGCCA
*
80167069 CCAGTAGTAGTATATGTGGCGAAGCCA
1 CCAGTA-TAGTATATGTGGCAAAGCCA
*
80167096 CCGGTATA
1 CCAGTATA
80167104 ATACACTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
26 2 0.06
27 29 0.91
28 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (26 bp):
CCAGTATAGTATATGTGGCAAAGCCA
Found at i:80191303 original size:24 final size:24
Alignment explanation
Indices: 80191253--80191306 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
80191243 AATCGAATTT
*
80191253 GCACACATAGTGCTCGTCACACTC
1 GCACACATAGTGCTAGTCACACTC
80191277 GCACACATAGTGCCATAG-CACAC-C
1 GCACACATAGTG-C-TAGTCACACTC
80191301 GCACAC
1 GCACAC
80191307 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
24 19 0.70
25 6 0.22
26 2 0.07
ACGTcount: A:0.30, C:0.39, G:0.17, T:0.15
Consensus pattern (24 bp):
GCACACATAGTGCTAGTCACACTC
Found at i:80196745 original size:15 final size:13
Alignment explanation
Indices: 80196712--80196736 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
80196702 ACAAACGCTA
80196712 AAATTTTCACACT
1 AAATTTTCACACT
80196725 AAATTTTCACAC
1 AAATTTTCACAC
80196737 ATATAATTTA
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:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (13 bp):
AAATTTTCACACT
Found at i:80203910 original size:28 final size:28
Alignment explanation
Indices: 80203847--80203972 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
80203837 ATATTAAGTC
*
80203847 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
80203874 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
80203902 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
80203930 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
80203959 CGCACACTTAGTGC
1 CGCACACTTAGTGC
80203973 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:80212326 original size:28 final size:28
Alignment explanation
Indices: 80212263--80212388 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
80212253 ATATTAAGTC
*
80212263 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
80212290 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
80212318 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
80212346 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
80212375 CGCACACTTAGTGC
1 CGCACACTTAGTGC
80212389 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:80229547 original size:20 final size:21
Alignment explanation
Indices: 80229524--80229563 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
80229514 TATCAGTACC
80229524 TCCTCT-ATGGTATCAATATT
1 TCCTCTAATGGTATCAATATT
*
80229544 TCCTTTAAATGGTATCAATA
1 TCCTCT-AATGGTATCAATA
80229564 CCACCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.30, C:0.17, G:0.10, T:0.42
Consensus pattern (21 bp):
TCCTCTAATGGTATCAATATT
Found at i:80232966 original size:15 final size:15
Alignment explanation
Indices: 80232943--80232979 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
80232933 GGATTAAATA
80232943 GATCATTCAGACCAG
1 GATCATTCAGACCAG
* *
80232958 GATCGTTCAGACTAG
1 GATCATTCAGACCAG
80232973 GATCATT
1 GATCATT
80232980 TCCGTCCCTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (15 bp):
GATCATTCAGACCAG
Found at i:80254802 original size:19 final size:18
Alignment explanation
Indices: 80254755--80254804 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
80254745 AAAATATTTC
*
80254755 TTTTAAAAAATCTAAAAAA
1 TTTTAAAAAAT-AAAAAAA
80254774 TATTT-AAAAATAAATAAAA
1 T-TTTAAAAAATAAA-AAAA
80254793 TTTTAAAAAATA
1 TTTTAAAAAATA
80254805 TAACTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 5 0.19
19 19 0.70
20 3 0.11
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (18 bp):
TTTTAAAAAATAAAAAAA
Found at i:80255210 original size:16 final size:16
Alignment explanation
Indices: 80255189--80255231 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
80255179 TTTATGCTTG
80255189 TGAAAAAAATGAAAAA
1 TGAAAAAAATGAAAAA
*
80255205 TGAAAAGAAA-GAGAAA
1 TGAAAA-AAATGAAAAA
*
80255221 TGCAAAAAATG
1 TGAAAAAAATG
80255232 GATTCAAGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.12
Consensus pattern (16 bp):
TGAAAAAAATGAAAAA
Found at i:80257169 original size:32 final size:31
Alignment explanation
Indices: 80257108--80257173 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 31
80257098 TTAGTGGTTG
* *
80257108 TGAGGTCTAGTTTTACATAGTGTCTTAGTTT
1 TGAGGTCTAGTTTTACATAGTGACCTAGTTT
*
80257139 TGAGGTCTA-TTTTAGATTTAGTGACCTAGTTT
1 TGAGGTCTAGTTTTACA--TAGTGACCTAGTTT
80257171 TGA
1 TGA
80257174 ATTTTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 6 0.20
31 9 0.30
32 15 0.50
ACGTcount: A:0.21, C:0.09, G:0.23, T:0.47
Consensus pattern (31 bp):
TGAGGTCTAGTTTTACATAGTGACCTAGTTT
Found at i:80262622 original size:17 final size:17
Alignment explanation
Indices: 80262600--80262632 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
80262590 GAAATTAAAT
*
80262600 TGGGCGGTTGTGAGAAA
1 TGGGCGGTCGTGAGAAA
80262617 TGGGCGGTCGTGAGAA
1 TGGGCGGTCGTGAGAA
80262633 TTGTTCAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.09, G:0.48, T:0.21
Consensus pattern (17 bp):
TGGGCGGTCGTGAGAAA
Found at i:80263993 original size:46 final size:46
Alignment explanation
Indices: 80263823--80264001 Score: 193
Period size: 46 Copynumber: 3.9 Consensus size: 46
80263813 TGTAACCCGC
* * *
80263823 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* * *
80263869 CCATAAGTGAACTCGAACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACG-CTAG---CAT
* * *
80263919 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
* * *
80263962 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGACGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGC
80264002 CCAAATATCC
Statistics
Matches: 111, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 69 0.62
47 30 0.27
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACGCTAGCAT
Found at i:80266339 original size:29 final size:29
Alignment explanation
Indices: 80266306--80266393 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
80266296 CAAAGATAAC
80266306 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAAACCGAATAAAGAAATCCAAGATA
* *
80266335 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAAACCGAATAAAGAAATCCAAG-ATA
* * * *
80266364 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACC-GAATAAAGAAATCCAAGATA
80266394 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 30 0.61
30 15 0.31
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAAACCGAATAAAGAAATCCAAGATA
Found at i:80266364 original size:15 final size:15
Alignment explanation
Indices: 80266306--80266384 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
80266296 CAAAGATAAC
*
80266306 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
80266320 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
80266335 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
80266349 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
80266364 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
80266379 AAGAAA
1 AAGAAA
80266385 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:80266393 original size:15 final size:15
Alignment explanation
Indices: 80266317--80266393 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
80266307 AGAAAACCGA
80266317 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
80266332 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
80266346 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
80266360 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
80266376 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
80266391 ATA
1 ATA
80266394 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:80270629 original size:23 final size:23
Alignment explanation
Indices: 80270599--80270645 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
80270589 TTCTTCACGA
80270599 AATTTTCACACAATCATGCAATC
1 AATTTTCACACAATCATGCAATC
80270622 AATTTTCACACAATCATGCAATC
1 AATTTTCACACAATCATGCAATC
80270645 A
1 A
80270646 TATCATAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.26, G:0.04, T:0.30
Consensus pattern (23 bp):
AATTTTCACACAATCATGCAATC
Found at i:80270876 original size:17 final size:17
Alignment explanation
Indices: 80270856--80270888 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
80270846 TTAATAAATT
80270856 TAATATTTAATTTAATG
1 TAATATTTAATTTAATG
*
80270873 TAATATTTACTTTAAT
1 TAATATTTAATTTAAT
80270889 AGTATTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (17 bp):
TAATATTTAATTTAATG
Found at i:80273651 original size:46 final size:46
Alignment explanation
Indices: 80273601--80273776 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
80273591 TGGTTGAGCA
80273601 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * * *
80273647 TCCGAACTTGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
80273692 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
*
80273740 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80273777 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.56
47 28 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:80273757 original size:93 final size:93
Alignment explanation
Indices: 80273598--80273768 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
80273588 GGATGGTTGA
* * *
80273598 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
80273663 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
80273691 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
80273755 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
80273769 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.03
93 71 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:80282864 original size:5 final size:6
Alignment explanation
Indices: 80282828--80282861 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
80282818 ATTTTTGTTC
* *
80282828 TTTTTG TTTTTG TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
80282862 ATTATGCACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.09, C:0.00, G:0.06, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:80286038 original size:5 final size:5
Alignment explanation
Indices: 80286028--80286059 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
80286018 ATTGCTGTGA
80286028 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
80286060 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:80290473 original size:5 final size:5
Alignment explanation
Indices: 80290458--80290490 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
80290448 CCAATTTTTG
80290458 AAAATT AAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAA-T AAAAT AAAAT AAAAT AAAAT AAAAT AAA
80290491 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 18 0.69
6 4 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:80295929 original size:6 final size:6
Alignment explanation
Indices: 80295920--80295944 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
80295910 TTTTATTTTG
80295920 AAAATA AAAATA AAAATA AAAATA A
1 AAAATA AAAATA AAAATA AAAATA A
80295945 CGAAGCCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:80296902 original size:177 final size:177
Alignment explanation
Indices: 80296606--80296958 Score: 643
Period size: 177 Copynumber: 2.0 Consensus size: 177
80296596 ACTCACCCGA
80296606 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
1 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
* *
80296671 TTTTTCCAACATGATGTTGAGACCTAACCTGCTTCGTAGATCGTAGCTCTAAACTAGAAAGACTA
66 TTTTTCCAACATGATGTTGAGACCTAACCCGCTTCGTAGATCGCAGCTCTAAACTAGAAAGACTA
80296736 GGGCCTCTCTTATTTCAAACCTTACCTTCACACTTAATACACTTATC
131 GGGCCTCTCTTATTTCAAACCTTACCTTCACACTTAATACACTTATC
*
80296783 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTTACATTAT
1 ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
* *
80296848 TTTTTCCAACATGATGTTGAGACCTAGCCCGCTTCGTAGATTGCAGCTCTAAACTAGAAAGACTA
66 TTTTTCCAACATGATGTTGAGACCTAACCCGCTTCGTAGATCGCAGCTCTAAACTAGAAAGACTA
* *
80296913 GGGCCTCTTTTATTTCGAACCTTACCTTCACACTTAATACACTTAT
131 GGGCCTCTCTTATTTCAAACCTTACCTTCACACTTAATACACTTAT
80296959 TCATATTTTC
Statistics
Matches: 169, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
177 169 1.00
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (177 bp):
ATGGCACTTATTACAGAACCCACAAACTGGAATATCTATGCCACTGCTAGAACCACTCACATTAT
TTTTTCCAACATGATGTTGAGACCTAACCCGCTTCGTAGATCGCAGCTCTAAACTAGAAAGACTA
GGGCCTCTCTTATTTCAAACCTTACCTTCACACTTAATACACTTATC
Found at i:80307039 original size:17 final size:17
Alignment explanation
Indices: 80307017--80307050 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
80307007 ATATCATATC
80307017 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
80307034 ATATCATATCTAAGATT
1 ATATCATATCTAAGATT
80307051 GCATATCCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (17 bp):
ATATCATATCTAAGATT
Found at i:80310610 original size:54 final size:54
Alignment explanation
Indices: 80310545--80310652 Score: 180
Period size: 54 Copynumber: 2.0 Consensus size: 54
80310535 ATCATATTGG
* *
80310545 GAGAACAAATTTATCCCAAAAAGATTAAAGATATCTAATGAGGGGAACATACTT
1 GAGAAAAAATTTATCCCAAAAAGATTAAAGATATCTAATGAGGGGAACACACTT
* *
80310599 GAGAAAAAATTTATCCCAAAGAGATTAAAGATATCTAATGAGGGTAACACACTT
1 GAGAAAAAATTTATCCCAAAAAGATTAAAGATATCTAATGAGGGGAACACACTT
80310653 ATGACAATGT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.46, C:0.13, G:0.17, T:0.24
Consensus pattern (54 bp):
GAGAAAAAATTTATCCCAAAAAGATTAAAGATATCTAATGAGGGGAACACACTT
Found at i:80311163 original size:16 final size:15
Alignment explanation
Indices: 80311142--80311186 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
80311132 TTGGATTGAG
*
80311142 AAAATTATTTAATTAT
1 AAAATTAATTAATT-T
80311158 AAAATTAATTAATTT
1 AAAATTAATTAATTT
80311173 -AAATTAAATTAATT
1 AAAATT-AATTAATT
80311187 AATAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 5 0.19
15 9 0.33
16 13 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTAATTAATTT
Found at i:80318658 original size:13 final size:14
Alignment explanation
Indices: 80318642--80318683 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
80318632 TTTTAATTTT
80318642 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
80318655 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
80318670 ATTTTAAATAATAT
1 ATTTT-AATAATAT
80318684 TATTCAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:80318668 original size:16 final size:16
Alignment explanation
Indices: 80318646--80318682 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
80318636 AATTTTATTT
80318646 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
80318663 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
80318678 TAATA
1 TAATA
80318683 TTATTCAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:80318735 original size:15 final size:15
Alignment explanation
Indices: 80318715--80318771 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
80318705 ATTCAATATT
80318715 AATATTTTAATAATA
1 AATATTTTAATAATA
*
80318730 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
* *
80318749 GATATATTAATAATA
1 AATATTTTAATAATA
80318764 AATATTTT
1 AATATTTT
80318772 GTAGTATAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
15 16 0.50
16 2 0.06
17 4 0.12
18 1 0.03
19 9 0.28
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:80321888 original size:16 final size:17
Alignment explanation
Indices: 80321862--80321896 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
80321852 TAAAATTAGG
*
80321862 TTGAGAAAATTATTTAA
1 TTGAGAAAATTAATTAA
80321879 TTGA-AAAATTAATTAA
1 TTGAGAAAATTAATTAA
80321895 TT
1 TT
80321897 TAAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (17 bp):
TTGAGAAAATTAATTAA
Found at i:80343202 original size:43 final size:43
Alignment explanation
Indices: 80343088--80343192 Score: 165
Period size: 43 Copynumber: 2.4 Consensus size: 43
80343078 TGTGATTACA
*
80343088 TGTAAGACCATGTCTGGGACATTGGCATCGTTATTCAATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATTCAATTTCG
* **
80343131 TATAAGACCATGTCTGGGACATTGGCATCATTATTTGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATCATTATTCAATTTCG
*
80343174 TGTAAGACCTTGTCTGGGA
1 TGTAAGACCATGTCTGGGA
80343193 TAGAAGCATC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCATTATTCAATTTCG
Found at i:80347708 original size:41 final size:41
Alignment explanation
Indices: 80347651--80347732 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
80347641 GTGGAAGATG
80347651 GAATAAATGAGATGAGAATACTTTTCATCTTTCATTCCACT
1 GAATAAATGAGATGAGAATACTTTTCATCTTTCATTCCACT
80347692 GAATAAATGAGATGAGAATACTTTTCATCTTTCATTCCACT
1 GAATAAATGAGATGAGAATACTTTTCATCTTTCATTCCACT
80347733 AATTAACATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (41 bp):
GAATAAATGAGATGAGAATACTTTTCATCTTTCATTCCACT
Found at i:80350221 original size:11 final size:11
Alignment explanation
Indices: 80350195--80350232 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
80350185 TTACATGAAA
*
80350195 ATTTTA-AATA
1 ATTTTATAATT
80350205 ATTTTATAATT
1 ATTTTATAATT
80350216 ATTTTATAATT
1 ATTTTATAATT
*
80350227 TTTTTA
1 ATTTTA
80350233 AAAATTATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (11 bp):
ATTTTATAATT
Found at i:80350762 original size:25 final size:26
Alignment explanation
Indices: 80350695--80350759 Score: 62
Period size: 25 Copynumber: 2.6 Consensus size: 26
80350685 GATTTTTTTA
* *
80350695 ATAA-TTATAATATAATACAAAATAT
1 ATAATTTATAATATAATATAAAATAC
* * * *
80350720 TTAATTT-TTATATGATATAAATTAC
1 ATAATTTATAATATAATATAAAATAC
80350745 ATAATTTATAATATA
1 ATAATTTATAATATA
80350760 TATTAGGATA
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
ATAATTTATAATATAATATAAAATAC
Found at i:80356900 original size:17 final size:17
Alignment explanation
Indices: 80356878--80356916 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
80356868 TGTCCCGGGT
80356878 CGTGTACTTCACACGGC
1 CGTGTACTTCACACGGC
80356895 CGTGTACTTCACACGGC
1 CGTGTACTTCACACGGC
80356912 CGTGT
1 CGTGT
80356917 CTTATGCCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.15, C:0.33, G:0.26, T:0.26
Consensus pattern (17 bp):
CGTGTACTTCACACGGC
Found at i:80358285 original size:43 final size:42
Alignment explanation
Indices: 80358223--80358344 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
80358213 TACCGTACCA
* *
80358223 ATGCCATATCCCAGGTATGGTCTTACATGAAATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
80358265 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* * *
80358308 ATGCCGTATCCTAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
80358345 GTAAGCCTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 31 0.45
43 38 0.55
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:80359525 original size:7 final size:7
Alignment explanation
Indices: 80359513--80359573 Score: 68
Period size: 7 Copynumber: 8.3 Consensus size: 7
80359503 TTCTATGTTG
80359513 GGGTTTA
1 GGGTTTA
80359520 GGGTTTA
1 GGGTTTA
80359527 GGGTTTTA
1 GGG-TTTA
*
80359535 TGGTTTA
1 GGGTTTA
*
80359542 GAGTTTTA
1 G-GGTTTA
80359550 GGGTTTTA
1 GGG-TTTA
80359558 GGGTTTA
1 GGGTTTA
*
80359565 AGGTTTA
1 GGGTTTA
80359572 GG
1 GG
80359574 ATTTGGTCCT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
7 26 0.58
8 19 0.42
ACGTcount: A:0.16, C:0.00, G:0.38, T:0.46
Consensus pattern (7 bp):
GGGTTTA
Found at i:80359534 original size:15 final size:15
Alignment explanation
Indices: 80359516--80359573 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
80359506 TATGTTGGGG
80359516 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
* *
80359531 TTTATGGTTTAGAGT
1 TTTAGGGTTTAGGGT
80359546 TTTAGGGTTTTAGGG-
1 TTTAGGG-TTTAGGGT
*
80359561 TTTAAGGTTTAGG
1 TTTAGGGTTTAGG
80359574 ATTTGGTCCT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
14 6 0.16
15 25 0.68
16 6 0.16
ACGTcount: A:0.17, C:0.00, G:0.34, T:0.48
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:80359539 original size:8 final size:8
Alignment explanation
Indices: 80359516--80359563 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
80359506 TATGTTGGGG
80359516 TTTAGGG-
1 TTTAGGGT
80359523 TTTAGGGT
1 TTTAGGGT
*
80359531 TTTATGG-
1 TTTAGGGT
*
80359538 TTTAGAGT
1 TTTAGGGT
80359546 TTTAGGGT
1 TTTAGGGT
80359554 TTTAGGGT
1 TTTAGGGT
80359562 TT
1 TT
80359564 AAGGTTTAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
7 12 0.34
8 23 0.66
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (8 bp):
TTTAGGGT
Found at i:80366426 original size:9 final size:9
Alignment explanation
Indices: 80366413--80366498 Score: 73
Period size: 9 Copynumber: 9.2 Consensus size: 9
80366403 TATATAAGTT
80366413 GTTATGTAA
1 GTTATGTAA
*
80366422 ATTATGTAA
1 GTTATGTAA
*
80366431 GTTATGTGA
1 GTTATGTAA
80366440 GTTATGTAA
1 GTTATGTAA
80366449 GTTGTTATGTAA
1 ---GTTATGTAA
*
80366461 ATTATGTAA
1 GTTATGTAA
* **
80366470 GTTATATGG
1 GTTATGTAA
80366479 GTTATGTAA
1 GTTATGTAA
* *
80366488 TTTATTTAA
1 GTTATGTAA
80366497 GT
1 GT
80366499 AATGATCAAT
Statistics
Matches: 59, Mismatches: 15, Indels: 6
0.74 0.19 0.08
Matches are distributed among these distances:
9 50 0.85
12 9 0.15
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (9 bp):
GTTATGTAA
Found at i:80366431 original size:21 final size:21
Alignment explanation
Indices: 80366402--80366472 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
80366392 ATTAGTTAAG
*
80366402 TTATATAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
* *
80366423 TTATGTAA---GTTATGTGAG
1 TTATGTAAGTTGTTATGTAAA
80366441 TTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTGTTATGTAAA
80366462 TTATGTAAGTT
1 TTATGTAAGTT
80366473 ATATGGGTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
18 16 0.38
21 26 0.62
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTATGTAAGTTGTTATGTAAA
Found at i:80366484 original size:39 final size:39
Alignment explanation
Indices: 80366400--80366487 Score: 149
Period size: 39 Copynumber: 2.3 Consensus size: 39
80366390 GTATTAGTTA
* *
80366400 AGTTATATAAGTTGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
80366439 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
*
80366478 GGTTATGTAA
1 AGTTATGTAA
80366488 TTTATTTAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.45
Consensus pattern (39 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATG
Found at i:80367969 original size:64 final size:64
Alignment explanation
Indices: 80367658--80367959 Score: 523
Period size: 64 Copynumber: 4.7 Consensus size: 64
80367648 GATTTTATTG
* * *
80367658 ATATTATATTAATAAATAAATTTATTAAAAATCATGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
80367722 ATATTATATTAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
80367786 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
* * *
80367850 ATATTATATCAGTAAATAAATTTATTAAAAATCGCGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
80367914 ATATTATATCAATAAATAAATTTATTAAAAATTGTGATAGAAATAT
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATAT
80367960 AGAAATATTA
Statistics
Matches: 227, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 227 1.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (64 bp):
ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
Found at i:80372149 original size:16 final size:17
Alignment explanation
Indices: 80372130--80372165 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
80372120 ATTATTTTAT
80372130 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAACA
80372146 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
80372163 ATA
1 ATA
80372166 AGTTATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:80372575 original size:29 final size:28
Alignment explanation
Indices: 80372543--80372609 Score: 64
Period size: 29 Copynumber: 2.3 Consensus size: 28
80372533 TCCCATTAGC
*
80372543 CCCTAAACCCTTGAACCTTAAAC-CATAAA
1 CCCTAAACCC-TAAACCTTAAACAC-TAAA
* * *
80372572 CCCTTAATCCCTAAACTTTAAACACTAAT
1 CCC-TAAACCCTAAACCTTAAACACTAAA
80372601 CCCTAAACC
1 CCCTAAACC
80372610 ATATCCCCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
28 5 0.16
29 19 0.61
30 7 0.23
ACGTcount: A:0.39, C:0.36, G:0.01, T:0.24
Consensus pattern (28 bp):
CCCTAAACCCTAAACCTTAAACACTAAA
Found at i:80372586 original size:22 final size:22
Alignment explanation
Indices: 80372546--80372627 Score: 78
Period size: 22 Copynumber: 3.8 Consensus size: 22
80372536 CATTAGCCCC
*
80372546 TAAACCCTTGAA-CCTTAAACCA
1 TAAACCCTT-AATCCCTAAACCA
**
80372568 TAAACCCTTAATCCCTAAACTT
1 TAAACCCTTAATCCCTAAACCA
*
80372590 TAAACAC-TAATCCCTAAACCA
1 TAAACCCTTAATCCCTAAACCA
** *
80372611 TATCCCCTTAACCCCTA
1 TAAACCCTTAATCCCTA
80372628 GACCCTCAAC
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
21 18 0.38
22 30 0.62
ACGTcount: A:0.38, C:0.35, G:0.01, T:0.26
Consensus pattern (22 bp):
TAAACCCTTAATCCCTAAACCA
Found at i:80372644 original size:80 final size:79
Alignment explanation
Indices: 80372429--80372640 Score: 253
Period size: 80 Copynumber: 2.6 Consensus size: 79
80372419 TAACTTTTTT
* * * * * *
80372429 AACACTAATTACCCTTAACCCATGTCCCCTTAATCCCTAAACCCCTCAACCCTAAACCATTAACT
1 AACACTAA-T-CCC-TAAACCATATCCCCTTAACCCCTAAA-CCCTCAACCTTAAACCATAAACC
80372494 CTTAATCCATAAAATTTA
62 CTTAATCCATAAAATTTA
* * * * *
80372512 AACACTAAACCCTAAATCATATCCCATTAGCCCCTAAACCCTTGAACCTTAAACCATAAACCCTT
1 AACACTAATCCCTAAACCATATCCCCTTAACCCCTAAACCC-TCAACCTTAAACCATAAACCCTT
* *
80372577 AATCCCTAAACTTTA
65 AATCCATAAAATTTA
*
80372592 AACACTAATCCCTAAACCATATCCCCTTAACCCCTAGACCCTCAACCTT
1 AACACTAATCCCTAAACCATATCCCCTTAACCCCTAAACCCTCAACCTT
80372641 TAAATGTTAA
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
79 10 0.09
80 88 0.81
81 3 0.03
83 8 0.07
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.25
Consensus pattern (79 bp):
AACACTAATCCCTAAACCATATCCCCTTAACCCCTAAACCCTCAACCTTAAACCATAAACCCTTA
ATCCATAAAATTTA
Found at i:80372874 original size:16 final size:14
Alignment explanation
Indices: 80372843--80372880 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 14
80372833 ATAATCCATA
80372843 TAAACCATAAACCC
1 TAAACCATAAACCC
80372857 TAAACCATATATACCC
1 TAAACCATA-A-ACCC
80372873 TAAACCAT
1 TAAACCAT
80372881 GCATAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACCC
Found at i:80373131 original size:14 final size:14
Alignment explanation
Indices: 80373112--80373165 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
80373102 GTGTCATTAA
80373112 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
*
80373126 TTTAGGGTTTCA-AA
1 TTTAGGGTTT-ATAG
* *
80373140 TTTAAGGTCTATAG
1 TTTAGGGTTTATAG
80373154 TTTATGGGTTTA
1 TTTA-GGGTTTA
80373166 GGGGTTAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 1 0.03
14 24 0.77
15 6 0.19
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:80373152 original size:28 final size:29
Alignment explanation
Indices: 80373110--80373164 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
80373100 ATGTGTCATT
* *
80373110 AATTTAGGGTTTATAGTTTA-GGGTTTCA
1 AATTTAAGGTCTATAGTTTATGGGTTTCA
80373138 AATTTAAGGTCTATAGTTTATGGGTTT
1 AATTTAAGGTCTATAGTTTATGGGTTT
80373165 AGGGGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (29 bp):
AATTTAAGGTCTATAGTTTATGGGTTTCA
Found at i:80373377 original size:17 final size:17
Alignment explanation
Indices: 80373355--80373400 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
80373345 TTTAGATATG
80373355 ATCAAAATAAAATCGAA
1 ATCAAAATAAAATCGAA
80373372 ATCAAAATAAAATCGAA
1 ATCAAAATAAAATCGAA
80373389 ATCAAAATAAAA
1 ATCAAAATAAAA
80373401 ATAAGACCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.67, C:0.11, G:0.04, T:0.17
Consensus pattern (17 bp):
ATCAAAATAAAATCGAA
Found at i:80373379 original size:6 final size:6
Alignment explanation
Indices: 80373355--80373402 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
80373345 TTTAGATATG
* * *
80373355 ATCAAA AT-AAA ATCGAA ATCAAA AT-AAA ATCGAA ATCAAA ATAAAA
1 ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA ATCAAA
80373401 AT
1 AT
80373403 AAGACCTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
5 10 0.29
6 25 0.71
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (6 bp):
ATCAAA
Found at i:80373384 original size:11 final size:12
Alignment explanation
Indices: 80373355--80373402 Score: 55
Period size: 11 Copynumber: 4.2 Consensus size: 12
80373345 TTTAGATATG
80373355 ATCAAAAT-AAA
1 ATCAAAATCAAA
*
80373366 ATCGAAATCAAA
1 ATCAAAATCAAA
*
80373378 AT-AAAATCGAA
1 ATCAAAATCAAA
*
80373389 ATCAAAATAAAA
1 ATCAAAATCAAA
80373401 AT
1 AT
80373403 AAGACCTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
11 16 0.53
12 14 0.47
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (12 bp):
ATCAAAATCAAA
Found at i:80374146 original size:153 final size:154
Alignment explanation
Indices: 80373806--80374145 Score: 474
Period size: 153 Copynumber: 2.2 Consensus size: 154
80373796 TTTGAAAATG
* * *
80373806 CGCCGCTAATTCTCAATCTATAGCGGCGTTTTTGAGGAAGCGCCGCTATTGCCACGGAAGCTCAG
1 CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAGGAAGCGCCGCTATTGCCACCGAAGCACAG
* * * * * *
80373871 AATAAATGACGCCGTTCGGCTTAATCTTTTAGCGGCGTTTTTGTACAAATGCCGCTATAAGTCGA
66 AATAAACGACGCCATTCGGCTTAATCTTTTAGCGGCGTTTTTATAAAAACGCCGCTATAAGTAGA
80373936 CCTATAGCGGCGCTTCCATAAAAA
131 CCTATAGCGGCGCTTCCATAAAAA
*
80373960 CGCCGCTAATACTCAAACCTATAGCGGCGTTTTTG-GTGAAGCG-CGCTATTGCCACCGAAGCAC
1 CGCCGCTAATACTC-AATCTATAGCGGCGTTTTTGAG-GAAGCGCCGCTATTGCCACCGAAGCAC
* *
80374023 -GCAATAAACGACGTCATTCGGCTTAATC-TTTAGTGGCGTTTTTATAAAAACGCCGCTAT-AGA
64 AG-AATAAACGACGCCATTCGGCTTAATCTTTTAGCGGCGTTTTTATAAAAACGCCGCTATAAG-
*
80374085 TAGACCTATAGCGGCGCTTTCATAAAAA
127 TAGACCTATAGCGGCGCTTCCATAAAAA
* *
80374113 CGCCTCTAATACTCAATCTATAGTGGCGTTTTT
1 CGCCGCTAATACTCAATCTATAGCGGCGTTTTT
80374146 TCAAAAACAC
Statistics
Matches: 166, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
152 19 0.11
153 67 0.40
154 55 0.33
155 25 0.15
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (154 bp):
CGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAGGAAGCGCCGCTATTGCCACCGAAGCACAG
AATAAACGACGCCATTCGGCTTAATCTTTTAGCGGCGTTTTTATAAAAACGCCGCTATAAGTAGA
CCTATAGCGGCGCTTCCATAAAAA
Found at i:80386447 original size:46 final size:45
Alignment explanation
Indices: 80386394--80386569 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
80386384 TGGTTGAGCA
80386394 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *** *
80386440 TCTGAACTCGTTGAGTTGGGCCCGAGTTCGAGAGATGTAACTAG-GAA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
* *
80386487 TCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
80386533 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80386570 GCGGGTTATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 65 0.62
47 28 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:80386558 original size:93 final size:93
Alignment explanation
Indices: 80386393--80386561 Score: 266
Period size: 93 Copynumber: 1.8 Consensus size: 93
80386383 ATGGTTGAGC
* * *
80386393 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
*
80386458 GGCCCGAGTTCGAGAGATGTAACTAGGA
66 AGCCCGAGTTCGAGAGATGTAACTAGGA
* * *
80386486 ATCCGAGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
*
80386551 AGTCCGAGTTC
66 AGCCCGAGTTC
80386562 ACTTATGGGC
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGCCCGAGTTCGAGAGATGTAACTAGGA
Found at i:80388076 original size:40 final size:40
Alignment explanation
Indices: 80388014--80388218 Score: 342
Period size: 40 Copynumber: 5.2 Consensus size: 40
80388004 AAACCAAGTA
* * *
80388014 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
80388053 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
80388093 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
80388133 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
80388173 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
80388213 CCTTCG
1 CCTTCG
80388219 TTATCATCCG
Statistics
Matches: 157, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 13 0.08
40 144 0.92
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:80393952 original size:26 final size:29
Alignment explanation
Indices: 80393897--80393962 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 29
80393887 TTATTTTCAC
*
80393897 TTTTATCTTTATTTATCTTCTTTAAGTACTT
1 TTTTAT-TTTATTTATC-TCTTTAAGTACTA
80393928 TTTTATTTTATTT-TC-CTTTAA-TACTA
1 TTTTATTTTATTTATCTCTTTAAGTACTA
*
80393954 TTTCATTTT
1 TTTTATTTT
80393963 TAGGTTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
26 12 0.36
27 6 0.18
29 2 0.06
30 7 0.21
31 6 0.18
ACGTcount: A:0.20, C:0.12, G:0.02, T:0.67
Consensus pattern (29 bp):
TTTTATTTTATTTATCTCTTTAAGTACTA
Found at i:80398345 original size:93 final size:92
Alignment explanation
Indices: 80398210--80398384 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 92
80398200 CAAAGTCGAT
* * *
80398210 GTCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGACGTGTCTCAGGCAG
1 GTCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCGATG-CATGTCCCAGACAG
80398275 GTCTTACACT-GACACACAACAAGCTAAC
65 GTCTTACACTAG-CACACAACAAGCTAAC
* * * *
80398303 GTCATGTCCCAGATAGGTCTTA-ATCT-AGCTTGT-ATATCTCGAGGCTGATGCATGTCCCAGAC
1 GTCATGTCCCAAACAGGTCTTACA-CTGA-CTT-TCATATATCGAGGCCGATGCATGTCCCAGAC
*
80398365 ATGTCTTACACTAGCACACA
63 AGGTCTTACACTAGCACACA
80398385 TATCACCTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
92 28 0.40
93 41 0.59
94 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (92 bp):
GTCATGTCCCAAACAGGTCTTACACTGACTTTCATATATCGAGGCCGATGCATGTCCCAGACAGG
TCTTACACTAGCACACAACAAGCTAAC
Found at i:80400532 original size:42 final size:42
Alignment explanation
Indices: 80400420--80400541 Score: 165
Period size: 43 Copynumber: 2.9 Consensus size: 42
80400410 TATCGTACCA
* * *
80400420 ATGCCATAACCCAGATATGGTCTTACATGTAATCTCGTATCG
1 ATGCCATAACCCAGCTATGGTCTTACACGTAATCTCATATCG
* *
80400462 ATGCCAATAGCCCAACTATGGTCTTACACG-AAGTCTCATATCG
1 ATGCC-ATAACCCAGCTATGGTCTTACACGTAA-TCTCATATCG
*
80400505 ATGCCATATCCCAGCTATGGTCTTACACGTAATCTCA
1 ATGCCATAACCCAGCTATGGTCTTACACGTAATCTCA
80400542 ATAGCCCTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
42 34 0.49
43 36 0.51
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (42 bp):
ATGCCATAACCCAGCTATGGTCTTACACGTAATCTCATATCG
Found at i:80404645 original size:29 final size:29
Alignment explanation
Indices: 80404609--80404675 Score: 102
Period size: 29 Copynumber: 2.4 Consensus size: 29
80404599 AAATTAAACA
* *
80404609 TGTTCATAATTTTAGTTCAATTTAATTAT
1 TGTTCATAATTTGAGTGCAATTTAATTAT
80404638 TGTTCATAATTTGAGTGCAATTTAATTAT
1 TGTTCATAATTTGAGTGCAATTTAATTAT
80404667 T-TT-ATAATT
1 TGTTCATAATT
80404676 ATTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 6 0.17
28 2 0.06
29 28 0.78
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.54
Consensus pattern (29 bp):
TGTTCATAATTTGAGTGCAATTTAATTAT
Found at i:80404857 original size:25 final size:26
Alignment explanation
Indices: 80404810--80404858 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
80404800 AATGCACAAA
*
80404810 TTTGAAAAGAATTTCTCAGAAACACC
1 TTTGAAAAGAATTCCTCAGAAACACC
80404836 TTTGAAAA-AATTCCTTCA-AAACA
1 TTTGAAAAGAATTCC-TCAGAAACA
80404859 ACATTCTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (26 bp):
TTTGAAAAGAATTCCTCAGAAACACC
Found at i:80405342 original size:9 final size:9
Alignment explanation
Indices: 80405328--80405368 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
80405318 GTATGCTCTC
*
80405328 TCTTTTTGT
1 TCTTTTTCT
80405337 TCTTTTTCT
1 TCTTTTTCT
*
80405346 T-TTCTT-T
1 TCTTTTTCT
80405353 TCTTTTTCT
1 TCTTTTTCT
80405362 TCTTTTT
1 TCTTTTT
80405369 TTTTCACGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
7 2 0.07
8 8 0.30
9 17 0.63
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (9 bp):
TCTTTTTCT
Found at i:80405357 original size:16 final size:14
Alignment explanation
Indices: 80405336--80405373 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
80405326 TCTCTTTTTG
80405336 TTCTTTTTCTTTTCTT
1 TTCTTTTTC--TTCTT
80405352 TTCTTTTTCTTCTT
1 TTCTTTTTCTTCTT
80405366 TT-TTTTTC
1 TTCTTTTTC
80405374 ACGAGCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.27
14 7 0.32
16 9 0.41
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTTCTTCTT
Found at i:80410307 original size:42 final size:43
Alignment explanation
Indices: 80410206--80410344 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 43
80410196 GTCCCGAACG
* * **
80410206 TGGTCTTACACGTAATTCAATGTCGATGCCTCTGTACCAGACA
1 TGGTCTTACACGTAAATCAATATCGATGCCGATGTACCAGACA
* *
80410249 AGGTTTTACACG-AAATCAGATAT-GATGCCGATGT-CCAGACA
1 TGGTCTTACACGTAAATCA-ATATCGATGCCGATGTACCAGACA
* * * *
80410290 TGGTCTTATACGTAAATCTCA-ATCGAGGCCTG-TGTCCCAGACA
1 TGGTCTTACACGTAAATC-AATATCGATGCC-GATGTACCAGACA
*
80410333 CGGTCTTACACG
1 TGGTCTTACACG
80410345 ATATCTCAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
41 18 0.23
42 28 0.36
43 31 0.40
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (43 bp):
TGGTCTTACACGTAAATCAATATCGATGCCGATGTACCAGACA
Found at i:80436210 original size:18 final size:18
Alignment explanation
Indices: 80436162--80436210 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
80436152 AGAAGAGCGA
*
80436162 AAAGAACGAGAAATGGGCC
1 AAAGTACGA-AAATGGGCC
* *
80436181 AAAATAGAGAAAATGGGCC
1 AAAGTA-CGAAAATGGGCC
80436200 AAAGTACGAAA
1 AAAGTACGAAA
80436211 TCAACACGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 4 0.17
19 18 0.75
20 2 0.08
ACGTcount: A:0.53, C:0.12, G:0.27, T:0.08
Consensus pattern (18 bp):
AAAGTACGAAAATGGGCC
Found at i:80437547 original size:33 final size:33
Alignment explanation
Indices: 80437510--80437587 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
80437500 TGGCCCTACC
* * *
80437510 ATGGTCTTACATTCATAGTGCCATAACCCATTT
1 ATGGTCTTACATTCAGAATGCCATAACCCAGTT
* *
80437543 ATGGTCTTATCA-TCAGAATGCCATAGCCTAGTT
1 ATGGTCTTA-CATTCAGAATGCCATAACCCAGTT
80437576 ATGGTCTTACAT
1 ATGGTCTTACAT
80437588 ATATTCACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
32 2 0.05
33 34 0.89
34 2 0.05
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (33 bp):
ATGGTCTTACATTCAGAATGCCATAACCCAGTT
Found at i:80438208 original size:16 final size:16
Alignment explanation
Indices: 80438187--80438221 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
80438177 AGTCCTTGTA
80438187 ATTTTA-TCATTTTAAC
1 ATTTTAGTC-TTTTAAC
80438203 ATTTTAGTCTTTTAAC
1 ATTTTAGTCTTTTAAC
80438219 ATT
1 ATT
80438222 AAAATTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.57
Consensus pattern (16 bp):
ATTTTAGTCTTTTAAC
Found at i:80444931 original size:28 final size:29
Alignment explanation
Indices: 80444900--80444954 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
80444890 CTGAAATACT
80444900 GATAT-CAAGGCCCGAAGCCAAATCAGCC
1 GATATGCAAGGCCCGAAGCCAAATCAGCC
* *
80444928 GATATGCATGGCCTGAAGCCAAATCAG
1 GATATGCAAGGCCCGAAGCCAAATCAG
80444955 TTTATCTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.35, C:0.27, G:0.24, T:0.15
Consensus pattern (29 bp):
GATATGCAAGGCCCGAAGCCAAATCAGCC
Found at i:80445590 original size:21 final size:20
Alignment explanation
Indices: 80445566--80445605 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80445556 ACTTGTTTAA
80445566 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
80445587 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
80445606 ATCATTCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:80447140 original size:37 final size:37
Alignment explanation
Indices: 80447090--80447168 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
80447080 TTATTACGAA
* * *
80447090 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
80447127 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
80447164 GTCTT
1 GTCTT
80447169 TAGAGCTCGA
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:80447364 original size:47 final size:47
Alignment explanation
Indices: 80447286--80447794 Score: 840
Period size: 47 Copynumber: 10.7 Consensus size: 47
80447276 CCCTTCGGGA
* * * * *
80447286 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
80447333 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80447380 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80447427 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80447474 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80447521 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80447568 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
80447615 CTTATCACATATATATAGACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80447664 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
80447713 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
80447760 CTTATCTCTTATATTCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
80447795 AGAATCCTAA
Statistics
Matches: 440, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 345 0.78
49 94 0.21
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:80449985 original size:56 final size:56
Alignment explanation
Indices: 80449918--80450037 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
80449908 TATTAGTTTA
80449918 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
80449974 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
80450030 TTGCCCAT
1 TTGCCCAT
80450038 CATCCATTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:80453360 original size:35 final size:35
Alignment explanation
Indices: 80453321--80453388 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
80453311 AGATTCACAA
* *
80453321 TCGGGCCTGGGCCC-ATGTTAGATACAGATACAGAT
1 TCGGGCCTGAGCCCAAT-TTAGATACAAATACAGAT
* *
80453356 TCGGGCTTGAGCCCAATTTAGGTACAAATACAG
1 TCGGGCCTGAGCCCAATTTAGATACAAATACAG
80453389 TTACAAATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 26 0.93
36 2 0.07
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (35 bp):
TCGGGCCTGAGCCCAATTTAGATACAAATACAGAT
Found at i:80457478 original size:25 final size:27
Alignment explanation
Indices: 80457429--80457477 Score: 77
Period size: 24 Copynumber: 1.9 Consensus size: 27
80457419 AAAGAAATAA
80457429 CTAAAATTGATAATTAAAAATAAAATT
1 CTAAAATTGATAATTAAAAATAAAATT
80457456 CTAAAA-T-ATAA-TAAAAATAAAA
1 CTAAAATTGATAATTAAAAATAAAA
80457478 AGTAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 1 0.05
27 6 0.27
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (27 bp):
CTAAAATTGATAATTAAAAATAAAATT
Found at i:80477137 original size:46 final size:46
Alignment explanation
Indices: 80477087--80477262 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
80477077 TGTGTGAGCA
80477087 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
80477133 TCCGAACTCGTTGAGTTGAGTCCGAGTT---TGA-GAGATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* *
80477178 CATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
80477226 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80477263 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 3 0.03
43 7 0.06
45 1 0.01
46 62 0.57
47 26 0.24
48 1 0.01
50 6 0.06
51 3 0.03
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:80477236 original size:93 final size:93
Alignment explanation
Indices: 80477084--80477253 Score: 304
Period size: 93 Copynumber: 1.8 Consensus size: 93
80477074 ATGTGTGTGA
* * *
80477084 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80477149 TGAGTCCGAGTTTGAGAGATGTAACTAG
66 TGAGTCCGAGTTTGAGAGATGTAACTAG
*
80477177 GCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80477242 TGAGTCCGAGTT
66 TGAGTCCGAGTT
80477254 CACTTATGGG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAGCTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTTGAGAGATGTAACTAG
Found at i:80480238 original size:15 final size:15
Alignment explanation
Indices: 80480218--80480282 Score: 89
Period size: 15 Copynumber: 4.4 Consensus size: 15
80480208 GTATCTTGGG
80480218 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
80480233 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
80480248 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
80480263 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
80480277 TTTCTT
1 TTTCTT
80480283 GTTATCTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
14 10 0.22
15 33 0.73
16 2 0.04
ACGTcount: A:0.11, C:0.15, G:0.12, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:80482823 original size:45 final size:44
Alignment explanation
Indices: 80482666--80482839 Score: 197
Period size: 45 Copynumber: 3.8 Consensus size: 44
80482656 GGTTGAGCAT
80482666 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * * *
80482711 TCCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT
1 -CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
80482759 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*
80482804 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
80482840 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 37 0.35
46 31 0.29
47 30 0.28
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:80485902 original size:21 final size:20
Alignment explanation
Indices: 80485878--80485917 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
80485868 ACTTGTTTAA
80485878 CTATCAACAACCATTCAAAAT
1 CTATCAACAACCA-TCAAAAT
* *
80485899 CTATCATCAATCATCAAAA
1 CTATCAACAACCATCAAAA
80485918 CTCATACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.28, G:0.00, T:0.25
Consensus pattern (20 bp):
CTATCAACAACCATCAAAAT
Found at i:80488953 original size:34 final size:34
Alignment explanation
Indices: 80488906--80488981 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
80488896 CTGATACTAT
* *
80488906 AATGGGCTTAGGCCCTCACTGATACTATTACTGA
1 AATGGGCTCAGGCCCACACTGATACTATTACTGA
* ** * *
80488940 AATGGGCTCAGGCCCAGACTTCTACTGTTATTGA
1 AATGGGCTCAGGCCCACACTGATACTATTACTGA
80488974 AATGGGCT
1 AATGGGCT
80488982 AAAAGCCCTA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.25, C:0.22, G:0.24, T:0.29
Consensus pattern (34 bp):
AATGGGCTCAGGCCCACACTGATACTATTACTGA
Found at i:80489246 original size:17 final size:18
Alignment explanation
Indices: 80489224--80489258 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
80489214 AGGCCTCTTG
80489224 GGTA-TTTATTTTAATTT
1 GGTATTTTATTTTAATTT
*
80489241 GGTATTTTATTTTTATTT
1 GGTATTTTATTTTAATTT
80489259 TTCATTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (18 bp):
GGTATTTTATTTTAATTT
Found at i:80489900 original size:5 final size:6
Alignment explanation
Indices: 80489883--80489907 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
80489873 AAATTTGAAC
80489883 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
80489908 CGGATTTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:80521068 original size:15 final size:15
Alignment explanation
Indices: 80521042--80521075 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
80521032 ATGTAATTTT
80521042 TAAAATTTTAAAGG-
1 TAAAATTTTAAAGGA
80521056 TAAAATATTTAAAGGA
1 TAAAAT-TTTAAAGGA
80521072 TAAA
1 TAAA
80521076 TTTAAAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 8 0.44
16 4 0.22
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (15 bp):
TAAAATTTTAAAGGA
Found at i:80522448 original size:16 final size:18
Alignment explanation
Indices: 80522427--80522464 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
80522417 AATGGTATAT
*
80522427 AAATAT-ATATTA-TACA
1 AAATATCATAATAGTACA
80522443 AAATATCATAATAGTACA
1 AAATATCATAATAGTACA
80522461 AAAT
1 AAAT
80522465 CAAAATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 6 0.32
17 5 0.26
18 8 0.42
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATATCATAATAGTACA
Found at i:80530525 original size:12 final size:12
Alignment explanation
Indices: 80530508--80530532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80530498 CAGGTCTGGA
80530508 AGCTGCTTCAAC
1 AGCTGCTTCAAC
80530520 AGCTGCTTCAAC
1 AGCTGCTTCAAC
80530532 A
1 A
80530533 ATGAGGGGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (12 bp):
AGCTGCTTCAAC
Found at i:80530687 original size:21 final size:21
Alignment explanation
Indices: 80530633--80530696 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
80530623 TTGCTTCCTT
* *
80530633 AACACACTCCAGGATTTCTTG
1 AACACGCTCCAGGATTTCTTC
* * *
80530654 TACATGCTTCAGGATTTCTTC
1 AACACGCTCCAGGATTTCTTC
*
80530675 AACGCGCTCCAGGATTTTCTTC
1 AACACGCTCCAGGA-TTTCTTC
80530697 TGCAGTTCAG
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.22, C:0.28, G:0.16, T:0.34
Consensus pattern (21 bp):
AACACGCTCCAGGATTTCTTC
Done.