Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 207 of 378
Found at i:61142922 original size:18 final size:18
Alignment explanation
Indices: 61142899--61142934 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
61142889 TGTGCAAATC
*
61142899 ACTGTGTGTTTTGTCATT
1 ACTGTGGGTTTTGTCATT
61142917 ACTGTGGGTTTTGTCATT
1 ACTGTGGGTTTTGTCATT
61142935 CTTTTCTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.11, G:0.25, T:0.53
Consensus pattern (18 bp):
ACTGTGGGTTTTGTCATT
Found at i:61146935 original size:48 final size:48
Alignment explanation
Indices: 61146864--61147213 Score: 551
Period size: 48 Copynumber: 7.3 Consensus size: 48
61146854 TGTACAAGAT
*
61146864 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
61146912 AAATATATAAGAGATATGTATATGTGGTAAAGCCAAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
61146960 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
*
61147008 AAATATGTATGAGATATGTATAT-TGGTAAAGCCGAATGGCTAATGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
61147055 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
61147103 AAATATGA-ATGGGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG
1 AAATAT-ATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* * *
61147151 AAATATGTATGAGATATGTATATGTGGTAAAGCTGAATGGCTAGTGTG
1 AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
* *
61147199 AAATATGTAGGAGAT
1 AAATATATATGAGAT
61147214 GTGTGTATAT
Statistics
Matches: 288, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 47 0.16
48 241 0.84
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (48 bp):
AAATATATATGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTG
Found at i:61147201 original size:191 final size:191
Alignment explanation
Indices: 61146864--61147213 Score: 576
Period size: 191 Copynumber: 1.8 Consensus size: 191
61146854 TGTACAAGAT
61146864 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAAGAGATAT
1 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAAGAGATAT
61146929 GTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATAAGAGATATGTATATGTGGTAAAGCC
66 GTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATAAGAGATATGTATATGTGGTAAAGCC
*
61146994 GAATGGCTAATGTGAAATATGTATGAGATATGTATATTGGTAAAGCCGAATGGCTAATGTG
131 GAATGGCTAATGTGAAATATGTAGGAGATATGTATATTGGTAAAGCCGAATGGCTAATGTG
* * * * *
61147055 AAATATGTATGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGA-ATGGGATA
1 AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT-ATAAGAGATA
* * * *
61147119 TGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGTATATGTGGTAAAGC
65 TGTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATAAGAGATATGTATATGTGGTAAAGC
* *
61147184 TGAATGGCTAGTGTGAAATATGTAGGAGAT
130 CGAATGGCTAATGTGAAATATGTAGGAGAT
61147214 GTGTGTATAT
Statistics
Matches: 146, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
191 145 0.99
192 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.27, T:0.30
Consensus pattern (191 bp):
AAATATATAAGAGATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATAAGAGATAT
GTATATGTGGTAAAGCCAAATGGCTAATGTGAAATATATAAGAGATATGTATATGTGGTAAAGCC
GAATGGCTAATGTGAAATATGTAGGAGATATGTATATTGGTAAAGCCGAATGGCTAATGTG
Found at i:61147407 original size:37 final size:37
Alignment explanation
Indices: 61147357--61147456 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
61147347 AATATATTCC
61147357 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
* *
61147394 GGGTAAGACCCGATGACTGCGTGTGGAGATTTTGTCT
1 GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
*
61147431 GGGTAAGACCCGATAACTACGTGTGG
1 GGGTAAGACCCGATGACTACGTGTGG
61147457 GGACGATTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.17, G:0.34, T:0.26
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTATGTCT
Found at i:61148798 original size:40 final size:40
Alignment explanation
Indices: 61148745--61149023 Score: 450
Period size: 40 Copynumber: 7.0 Consensus size: 40
61148735 TTGAGAGTTA
*
61148745 TATAGCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
61148785 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
61148825 TATGTCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGATGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
61148865 TATATCTGGGCTAAGTCCCGAAGAGCATTTGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
61148905 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
61148945 TATAACCGGACTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
61148985 TATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTG
61149024 ATGTGCATTC
Statistics
Matches: 223, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 223 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:61149237 original size:25 final size:25
Alignment explanation
Indices: 61149187--61149239 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
61149177 TGTGTAACAA
* *
61149187 CAAATGAATAGGGGCACTATATGTG
1 CAAATGAATAGAGGCACTATAAGTG
*
61149212 CAAATGATTAGAGGCACTGA-AAGTG
1 CAAATGAATAGAGGCACT-ATAAGTG
61149237 CAA
1 CAA
61149240 GTTCTTCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (25 bp):
CAAATGAATAGAGGCACTATAAGTG
Found at i:61158052 original size:28 final size:28
Alignment explanation
Indices: 61158020--61158118 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
61158010 TGCATAAGCC
*
61158020 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
61158048 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
61158076 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
61158105 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61158119 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:61165721 original size:28 final size:28
Alignment explanation
Indices: 61165689--61165787 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
61165679 GCAATAAGCC
*
61165689 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
61165717 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
61165745 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
61165774 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61165788 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:61168691 original size:28 final size:28
Alignment explanation
Indices: 61168659--61168757 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
61168649 TGCATAAGCC
*
61168659 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
61168687 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
61168715 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
61168744 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61168758 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:61176357 original size:28 final size:28
Alignment explanation
Indices: 61176325--61176423 Score: 112
Period size: 28 Copynumber: 3.5 Consensus size: 28
61176315 TGCATAAGCC
*
61176325 CGCACACTTAGTGCTTAATAGTCGAACT
1 CGCACACTTAGTGCTTAATAATCGAACT
*
61176353 CGCACACTTAGTGC-TATATAATCAAACT
1 CGCACACTTAGTGCTTA-ATAATCGAACT
* * *
61176381 TGCACACTTAGTGCTGT-ATAATTTGAACC
1 CGCACACTTAGTGCT-TAATAA-TCGAACT
61176410 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61176424 CAATTTGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
27 2 0.03
28 40 0.67
29 17 0.28
30 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTTAATAATCGAACT
Found at i:61178990 original size:22 final size:22
Alignment explanation
Indices: 61178965--61179024 Score: 84
Period size: 23 Copynumber: 2.7 Consensus size: 22
61178955 TCAGCTTGTA
61178965 AGAGCTTACTGTTCAGCTCAAT
1 AGAGCTTACTGTTCAGCTCAAT
* * *
61178987 AGAGCTTACCGTTTTAGCTCATT
1 AGAGCTTACTG-TTCAGCTCAAT
61179010 AGAGCTTACTGTTCA
1 AGAGCTTACTGTTCA
61179025 TTAGCTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (22 bp):
AGAGCTTACTGTTCAGCTCAAT
Found at i:61184029 original size:16 final size:16
Alignment explanation
Indices: 61184004--61184044 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
61183994 AGATCGGTAT
*
61184004 AAGCCAAAATGCTAAA
1 AAGCCGAAATGCTAAA
61184020 AAGCCGAAATGCTAAA
1 AAGCCGAAATGCTAAA
*
61184036 AAGCTGAAA
1 AAGCCGAAA
61184045 GTTTGGTTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.54, C:0.17, G:0.17, T:0.12
Consensus pattern (16 bp):
AAGCCGAAATGCTAAA
Found at i:61184297 original size:29 final size:29
Alignment explanation
Indices: 61184256--61184360 Score: 115
Period size: 29 Copynumber: 3.7 Consensus size: 29
61184246 GTGAGCATGA
* * *
61184256 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGAGATTTGGGCCTGATGGGCC
61184284 ATATAAAGGAGATTTGGGCCTGATGGGCC
1 ATATAAAGGAGATTTGGGCCTGATGGGCC
* * * * *
61184313 ATATGAATGTGAATTGGGCTTGATGGGCC
1 ATATAAAGGAGATTTGGGCCTGATGGGCC
*
61184342 ATATAAATGAGA-TTGGGCC
1 ATATAAAGGAGATTTGGGCC
61184361 AAGTGGGCCA
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
28 10 0.15
29 55 0.85
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATAAAGGAGATTTGGGCCTGATGGGCC
Found at i:61189528 original size:17 final size:16
Alignment explanation
Indices: 61189505--61189536 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
61189495 GTTGTAACAC
61189505 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
61189521 CCCAAAAATCCCGAAA
1 CCCAAAAATCCCGAAA
61189537 TCTTGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.38, G:0.06, T:0.06
Consensus pattern (16 bp):
CCCAAAAATCCCGAAA
Found at i:61191066 original size:29 final size:29
Alignment explanation
Indices: 61191010--61191114 Score: 88
Period size: 29 Copynumber: 3.7 Consensus size: 29
61191000 TGTGAGCATG
* * *
61191010 AATAT-AAGGTGATTTGGGCCTAACGGGC
1 AATATAAAGGAGATTTGGGCCTGATGGGC
61191038 AATATAAAGGAGATTTGGGCCTGATGGGC
1 AATATAAAGGAGATTTGGGCCTGATGGGC
* * * * * * *
61191067 CATATGAATGTGAATTGGGCCTGGTAGGC
1 AATATAAAGGAGATTTGGGCCTGATGGGC
* *
61191096 CATATAAATGAGA-TTGGGC
1 AATATAAAGGAGATTTGGGC
61191115 TAAGTGGGTC
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
28 11 0.17
29 53 0.83
ACGTcount: A:0.30, C:0.12, G:0.32, T:0.26
Consensus pattern (29 bp):
AATATAAAGGAGATTTGGGCCTGATGGGC
Found at i:61194646 original size:14 final size:14
Alignment explanation
Indices: 61194629--61194702 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
61194619 ATCTCTAGTC
61194629 ATAAACCCTAAACT
1 ATAAACCCTAAACT
*
61194643 ATAAACCTTAAACT
1 ATAAACCCTAAACT
* ***
61194657 CTAAATATTAAACCT
1 ATAAACCCTAAA-CT
* * *
61194672 -TGAATCCTAAACC
1 ATAAACCCTAAACT
61194685 ATAAAACCCTAAACT
1 AT-AAACCCTAAACT
61194700 ATA
1 ATA
61194703 GACACTGAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
13 1 0.02
14 32 0.70
15 13 0.28
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (14 bp):
ATAAACCCTAAACT
Found at i:61194654 original size:21 final size:21
Alignment explanation
Indices: 61194630--61194698 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
61194620 TCTCTAGTCA
61194630 TAAACCCTAAACTATAAACCT
1 TAAACCCTAAACTATAAACCT
*
61194651 TAAACTCTAAA-TATTAAACCT
1 TAAACCCTAAACTA-TAAACCT
* * * *
61194672 TGAATCCTAAACCATAAAACCC
1 TAAACCCTAAACTAT-AAACCT
61194694 TAAAC
1 TAAAC
61194699 TATAGACACT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
20 2 0.05
21 26 0.70
22 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAACTATAAACCT
Found at i:61195181 original size:3 final size:3
Alignment explanation
Indices: 61195173--61195213 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
61195163 ATTAATAGTA
61195173 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
61195214 AGAGAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:61195595 original size:188 final size:184
Alignment explanation
Indices: 61195320--61195675 Score: 439
Period size: 188 Copynumber: 1.9 Consensus size: 184
61195310 TTTGAAGTTT
*
61195320 TGTTATTAGTGGCACTTTTAAAAAAACGCCACAAAACATCTATTAAGAGAATGTAAAACGACGTC
1 TGTTATTAGTGGCACTTTTAAAAAAACGCCACAAAACATCTA-TAAGAGAATGTAAAACGACATC
* * * * * *
61195385 ATTTACATCTTTGTTATTAGTGGCGCTTCTATAAACGCCGCAACAGGTGTGAATTACCAACGTTT
65 ATTTACAGCCTTGTAATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGTGAAATA-C--CGTTT
* *
61195450 TCACTAGAAAATGCCACAAACATCTATTAATAGATTGCAAAACAGCGTCGTTATTACCC
127 TCACTAGAAAAT-CCACAAAAATCTATTAACAGATTGCAAAACAGCGTCGTTATTACCC
** * * *
61195509 TGTTATTAGTGGTGCTTTTTATAAAAACGCCACAAAACATCTA-AAGAGATTTTAAAAC-ATCAT
1 TGTTATTAGTGGCAC-TTTTAAAAAAACGCCACAAAACATCTATAAGAGAATGTAAAACGA-CAT
* * * *
61195572 CGTTTTATAGCCTT-TAATTAGTGGCGCTTTTATAAACTCCACAAAAGGTGTGAAATACCGTTTT
64 C-ATTTACAGCCTTGTAATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGTGAAATACCGTTTT
* *
61195636 CACTAGAAACTCCATAAAAATCTATTAACAGATTGCAAAA
128 CACTAGAAAATCCACAAAAATCTATTAACAGATTGCAAAA
61195676 ACTGCATCGT
Statistics
Matches: 144, Mismatches: 20, Indels: 11
0.82 0.11 0.06
Matches are distributed among these distances:
184 26 0.18
185 16 0.11
187 2 0.01
188 53 0.37
189 21 0.15
190 26 0.18
ACGTcount: A:0.37, C:0.19, G:0.14, T:0.31
Consensus pattern (184 bp):
TGTTATTAGTGGCACTTTTAAAAAAACGCCACAAAACATCTATAAGAGAATGTAAAACGACATCA
TTTACAGCCTTGTAATTAGTGGCGCTTCTATAAACGCCACAAAAGGTGTGAAATACCGTTTTCAC
TAGAAAATCCACAAAAATCTATTAACAGATTGCAAAACAGCGTCGTTATTACCC
Found at i:61196359 original size:21 final size:21
Alignment explanation
Indices: 61196335--61196379 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
61196325 TGATGAGATC
*
61196335 TTGAGAAAAGGGTTTTCGAGT
1 TTGAGAAAAGGGTTTTCCAGT
61196356 TTGAGAAAAGGGTTTTCCAGT
1 TTGAGAAAAGGGTTTTCCAGT
61196377 TTG
1 TTG
61196380 TTCATGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.07, G:0.31, T:0.36
Consensus pattern (21 bp):
TTGAGAAAAGGGTTTTCCAGT
Found at i:61196927 original size:39 final size:38
Alignment explanation
Indices: 61196866--61196943 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 38
61196856 AATAACTTAA
* *
61196866 ATGTTATAATACATGATTTATCTCAATTACATCCATAT
1 ATGTTATAATACATAATATATCTCAATTACATCCATAT
61196904 ATGTTATATATACATAATATATCTCAATTACATCCATAT
1 ATGTTATA-ATACATAATATATCTCAATTACATCCATAT
61196943 A
1 A
61196944 AATATATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
38 8 0.22
39 29 0.78
ACGTcount: A:0.40, C:0.15, G:0.04, T:0.41
Consensus pattern (38 bp):
ATGTTATAATACATAATATATCTCAATTACATCCATAT
Found at i:61199071 original size:8 final size:8
Alignment explanation
Indices: 61199058--61199083 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
61199048 TTGTGATTAA
61199058 ATATTTCT
1 ATATTTCT
61199066 ATATTTCT
1 ATATTTCT
61199074 ATATTTCT
1 ATATTTCT
61199082 AT
1 AT
61199084 CACGATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (8 bp):
ATATTTCT
Found at i:61199219 original size:24 final size:24
Alignment explanation
Indices: 61199192--61199238 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
61199182 ATTATTATTG
*
61199192 AAATATTCTCGTCCGTTTTATCAC
1 AAATATTATCGTCCGTTTTATCAC
61199216 AAATATTATCGTCCGTTTTATCA
1 AAATATTATCGTCCGTTTTATCA
61199239 TTTAAGTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.28, C:0.21, G:0.09, T:0.43
Consensus pattern (24 bp):
AAATATTATCGTCCGTTTTATCAC
Found at i:61199477 original size:19 final size:19
Alignment explanation
Indices: 61199453--61199506 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
61199443 CAATCTTATT
61199453 TTAATTAATATAAT-TTAGA
1 TTAATTAATATAATATTA-A
* * *
61199472 TTAATTTATTTAAATATTAT
1 TTAATTAATAT-AATATTAA
61199492 TTAATTAATATAATA
1 TTAATTAATATAATA
61199507 ATATAATTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 13 0.46
20 12 0.43
21 3 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAATTAATATAATATTAA
Found at i:61199487 original size:25 final size:25
Alignment explanation
Indices: 61199459--61199535 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
61199449 TATTTTAATT
61199459 AATATAATTTAGATTAATTTATTTA
1 AATATAATTTAGATTAATTTATTTA
* * *
61199484 AATATTATTTA-ATTAATATA-AT-
1 AATATAATTTAGATTAATTTATTTA
*
61199506 AATATAATTTGGATTAATTTATTTA
1 AATATAATTTAGATTAATTTATTTA
61199531 AATAT
1 AATAT
61199536 TATTAAATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
22 9 0.21
23 9 0.21
24 9 0.21
25 15 0.36
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (25 bp):
AATATAATTTAGATTAATTTATTTA
Found at i:61199512 original size:47 final size:46
Alignment explanation
Indices: 61199458--61199566 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 46
61199448 TTATTTTAAT
*
61199458 TAATATAATTTAGATTAATTTATTTAAATATTATTTAATTAATATAA
1 TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATAT-A
*
61199505 TAATATAATTTGGATTAATTTATTTAAATATTATTAAATTAATATA
1 TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATA
*
61199551 -AATATTATTTA-ATTAA
1 TAATATAATTTAGATTAA
61199567 AATAATTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
44 5 0.09
45 9 0.16
46 1 0.02
47 43 0.74
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (46 bp):
TAATATAATTTAGATTAATTTATTTAAATATTATTAAATTAATATA
Found at i:61199565 original size:20 final size:20
Alignment explanation
Indices: 61199452--61199571 Score: 91
Period size: 20 Copynumber: 5.7 Consensus size: 20
61199442 TCAATCTTAT
61199452 TTTAATTAATAT-AAT-TTA
1 TTTAATTAATATAAATATTA
* * *
61199470 GATTAATTTATTTAAATATTA
1 -TTTAATTAATATAAATATTA
*
61199491 TTTAATTAATATAATAATATAA
1 TTTAATTAATAT-A-AATATTA
*
61199513 TTTGGATTAATTTATTTAAATATTA
1 TTT-AATTAA--TA--TAAATATTA
*
61199538 TTAAATTAATATAAATATTA
1 TTTAATTAATATAAATATTA
*
61199558 TTTAATTAAAATAA
1 TTTAATTAATATAA
61199572 TTTTTTTCCA
Statistics
Matches: 79, Mismatches: 13, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
19 9 0.11
20 33 0.42
21 4 0.05
22 11 0.14
23 5 0.06
24 5 0.06
25 10 0.13
26 1 0.01
27 1 0.01
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTAATTAATATAAATATTA
Found at i:61199865 original size:9 final size:9
Alignment explanation
Indices: 61199846--61199928 Score: 112
Period size: 9 Copynumber: 9.2 Consensus size: 9
61199836 TATATATTTG
*
61199846 AACTTACAT
1 AACTCACAT
*
61199855 AACTCATAT
1 AACTCACAT
61199864 AACTCACAT
1 AACTCACAT
*
61199873 AACTTACAT
1 AACTCACAT
61199882 AACTCACAT
1 AACTCACAT
*
61199891 AACTTACAT
1 AACTCACAT
61199900 AACTCACAT
1 AACTCACAT
*
61199909 AACTTACAT
1 AACTCACAT
*
61199918 AACTTACAT
1 AACTCACAT
61199927 AA
1 AA
61199929 TACATAAATA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 66 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (9 bp):
AACTCACAT
Found at i:61199872 original size:18 final size:18
Alignment explanation
Indices: 61199846--61199966 Score: 131
Period size: 18 Copynumber: 6.8 Consensus size: 18
61199836 TATATATTTG
* * *
61199846 AACTTACATAACTCATAT
1 AACTCACATAACTTACAT
61199864 AACTCACATAACTTACAT
1 AACTCACATAACTTACAT
61199882 AACTCACATAACTTACAT
1 AACTCACATAACTTACAT
61199900 AACTCACATAACTTACAT
1 AACTCACATAACTTACAT
*
61199918 AACTTACATAA--TACAT
1 AACTCACATAACTTACAT
* * * *
61199934 AAAT-ATATATCATATCAT
1 AACTCACATAACTTA-CAT
*
61199952 AACTTACATAACTTA
1 AACTCACATAACTTA
61199967 ATTAGAGTTA
Statistics
Matches: 88, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.05
16 8 0.09
17 2 0.02
18 67 0.76
19 7 0.08
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.31
Consensus pattern (18 bp):
AACTCACATAACTTACAT
Found at i:61199877 original size:27 final size:27
Alignment explanation
Indices: 61199846--61199964 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
61199836 TATATATTTG
* *
61199846 AACTTACATAACTCATATAACTCACAT
1 AACTTACATAACTCACATAACTTACAT
61199873 AACTTACATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
* *
61199900 AACTCACATAACTTACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
* * * *
61199927 AA--TACATAAAT-ATATATCATATCAT
1 AACTTACATAACTCACATAACTTA-CAT
61199952 AACTTACATAACT
1 AACTTACATAACT
61199965 TAATTAGAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
24 7 0.09
25 12 0.15
27 60 0.76
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (27 bp):
AACTTACATAACTCACATAACTTACAT
Found at i:61202172 original size:84 final size:84
Alignment explanation
Indices: 61202064--61202282 Score: 348
Period size: 84 Copynumber: 2.6 Consensus size: 84
61202054 TTCGGGCTTT
* * * * *
61202064 GAGCCTAGTAGGTGTAATGCCGGTGAAATGATATCAGACTTAAAGGTCTAGCAAGTTTTAAGCTG
1 GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
61202129 GTGAATATTATCGAGCTCA
66 GTGAATATTATCGAGCTCA
*
61202148 GAGCTTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
1 GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
* * *
61202213 GTGAATATTATTGGGCTCC
66 GTGAATATTATCGAGCTCA
*
61202232 GAGCCTAGCAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAG
1 GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAG
61202283 AAGGCTTATT
Statistics
Matches: 124, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 124 1.00
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (84 bp):
GAGCCTAGAAGGCGTAATGCCGGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACTG
GTGAATATTATCGAGCTCA
Found at i:61202217 original size:43 final size:42
Alignment explanation
Indices: 61202085--61202217 Score: 114
Period size: 42 Copynumber: 3.1 Consensus size: 42
61202075 GTGTAATGCC
*
61202085 GGTGAAATGATATCAGACTTAAAGGTCTAGCAAGTTTTAAGCT
1 GGTGAAATGATATC-GACTTAAAGGTCTAGCAAGCTTTAAGCT
* * * * *
61202128 GGTG-AAT-ATTATCGAGCTCAGAGCT-TAG-AAGGC-GTAATGCC
1 GGTGAAATGA-TATCGA-CTTAAAGGTCTAGCAA-GCTTTAA-GCT
*
61202169 GGTGAAATGATATCGGACTTAAAGGTCTAGCAAGCTTTAAACT
1 GGTGAAATGATATC-GACTTAAAGGTCTAGCAAGCTTTAAGCT
61202212 GGTGAA
1 GGTGAA
61202218 TATTATTGGG
Statistics
Matches: 68, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
40 5 0.07
41 13 0.19
42 26 0.38
43 19 0.28
44 5 0.07
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (42 bp):
GGTGAAATGATATCGACTTAAAGGTCTAGCAAGCTTTAAGCT
Found at i:61213683 original size:13 final size:14
Alignment explanation
Indices: 61213667--61213695 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
61213657 TTACAAATAT
61213667 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
61213680 TTATAATGGTTTAA
1 TTATAATGGTTTAA
61213694 TT
1 TT
61213696 CGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:61214458 original size:31 final size:31
Alignment explanation
Indices: 61214406--61214464 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
61214396 TTTATATTAC
** *
61214406 ATTTGCTGTTTTTGGTTGGATTTCATGCTAT
1 ATTTGCTGTTTTTGGCAGGATTTAATGCTAT
61214437 ATTTGCTGTTTTTGGCAGGATTTAATGC
1 ATTTGCTGTTTTTGGCAGGATTTAATGC
61214465 AAAAAGGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.15, C:0.10, G:0.24, T:0.51
Consensus pattern (31 bp):
ATTTGCTGTTTTTGGCAGGATTTAATGCTAT
Found at i:61216819 original size:33 final size:33
Alignment explanation
Indices: 61216782--61216862 Score: 153
Period size: 33 Copynumber: 2.5 Consensus size: 33
61216772 GTGATCAACA
*
61216782 CAGTATCAATACAGTCTGGGCCGAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCCGAAGCCCTATT
61216815 CAGTATCAGTACAGTCTGGGCCGAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCCGAAGCCCTATT
61216848 CAGTATCAGTACAGT
1 CAGTATCAGTACAGT
61216863 GCATAATGCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.22, T:0.25
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGGCCGAAGCCCTATT
Found at i:61218324 original size:27 final size:27
Alignment explanation
Indices: 61218252--61218346 Score: 93
Period size: 27 Copynumber: 3.5 Consensus size: 27
61218242 TGGATAAGTT
* *
61218252 GTAGAATTACTAAAATACCCCTGTAGG
1 GTAGAAATACTGAAATACCCCTGTAGG
* * *
61218279 ATAGAATTACTGAAATACCCTTGTAGG
1 GTAGAAATACTGAAATACCCCTGTAGG
* ** *
61218306 GTAGAAATATTGATTTACCCCTGGAGG
1 GTAGAAATACTGAAATACCCCTGTAGG
61218333 GTA-AAATGACTGAA
1 GTAGAAAT-ACTGAA
61218347 TCGGTAAAAG
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
26 4 0.07
27 51 0.93
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (27 bp):
GTAGAAATACTGAAATACCCCTGTAGG
Found at i:61237123 original size:31 final size:31
Alignment explanation
Indices: 61237085--61237148 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
61237075 CCTTTTCATA
61237085 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
61237116 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
61237147 TT
1 TT
61237149 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:61237398 original size:24 final size:24
Alignment explanation
Indices: 61237340--61237481 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
61237330 GCTTTATCAT
*
61237340 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
61237365 ATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
61237388 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
61237411 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
61237435 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
61237459 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61237482 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
23 37 0.34
24 66 0.61
25 6 0.06
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61237422 original size:47 final size:48
Alignment explanation
Indices: 61237340--61237480 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 48
61237330 GCTTTATCAT
* *
61237340 ATAACTGGAGGCCT-AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
61237388 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
61237435 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
61237481 TTCACTTCCT
Statistics
Matches: 86, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
46 6 0.07
47 46 0.53
48 34 0.40
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:61237446 original size:71 final size:71
Alignment explanation
Indices: 61237339--61237481 Score: 209
Period size: 71 Copynumber: 2.0 Consensus size: 71
61237329 TGCTTTATCA
*
61237339 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
61237404 CCCTTT
66 CCCTTT
* * **
61237410 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACT-GGGCAAAAGCCCTTTCAATAACTGGGGCATA
61237473 AGCCCTTT
64 AGCCCTTT
61237481 T
1 T
61237482 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 15 0.23
71 50 0.77
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGCAAAAGCCCTTTCAATAACTGGGGCATAAG
CCCTTT
Found at i:61237557 original size:20 final size:20
Alignment explanation
Indices: 61237532--61237591 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
61237522 TATGATTACC
61237532 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
61237552 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
61237572 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
61237592 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:61237666 original size:25 final size:25
Alignment explanation
Indices: 61237634--61237681 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61237624 ATACATAAAC
* * *
61237634 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61237659 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61237682 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61245214 original size:31 final size:30
Alignment explanation
Indices: 61245163--61245271 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 30
61245153 TCAATCATGC
* *
61245163 ACTGGGCCGTAGCCCTTTTCATATTCATTTCAT
1 ACTGGGCCGAAG-CCTTTTCATATTCATAT--T
61245196 ACTGGGCCGAA-CCTTTTCATATT-ATATT
1 ACTGGGCCGAAGCCTTTTCATATTCATATT
61245224 ACTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATA-TTCATATT
61245255 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
61245272 ACTGTAAACG
Statistics
Matches: 71, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
28 12 0.17
29 10 0.14
30 5 0.07
31 34 0.48
33 10 0.14
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (30 bp):
ACTGGGCCGAAGCCTTTTCATATTCATATT
Found at i:61245514 original size:24 final size:24
Alignment explanation
Indices: 61245463--61245581 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
61245453 GCTTTATCAT
*
61245463 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
61245488 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
61245512 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
61245535 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
61245559 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61245582 TACTTCCTCC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61245542 original size:47 final size:48
Alignment explanation
Indices: 61245463--61245581 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
61245453 GCTTTATCAT
*
61245463 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
61245512 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
61245559 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61245582 TACTTCCTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:61245673 original size:20 final size:19
Alignment explanation
Indices: 61245630--61245686 Score: 89
Period size: 18 Copynumber: 3.0 Consensus size: 19
61245620 TATGATTACC
61245630 TCATGTGCATATCATACA-
1 TCATGTGCATATCATACAT
61245648 TCATGTGCATATCATACAT
1 TCATGTGCATATCATACAT
*
61245667 GTCATGTGCATCTCATACAT
1 -TCATGTGCATATCATACAT
61245687 ACCATATTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
18 18 0.50
20 18 0.50
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (19 bp):
TCATGTGCATATCATACAT
Found at i:61245762 original size:25 final size:25
Alignment explanation
Indices: 61245730--61245777 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61245720 ATACATAAAC
* * *
61245730 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61245755 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61245778 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61246232 original size:23 final size:24
Alignment explanation
Indices: 61246206--61246266 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
61246196 TAAAAAATGC
61246206 TAATACAATTACATAT-AAAATTT
1 TAATACAATTACATATAAAAATTT
*
61246229 TAATA-AATATAAAT-TAAAAATTT
1 TAATACAAT-TACATATAAAAATTT
*
61246252 AAATACAATTACATA
1 TAATACAATTACATA
61246267 CATAGGATAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
22 4 0.13
23 24 0.77
24 3 0.10
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (24 bp):
TAATACAATTACATATAAAAATTT
Found at i:61246755 original size:21 final size:22
Alignment explanation
Indices: 61246729--61246790 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
61246719 TCTAAACTCT
61246729 AAACCCTTAACCCTT-AACCCC
1 AAACCCTTAACCCTTAAACCCC
*
61246750 AAACCCTT-ACACCTTAAACTCC
1 AAACCCTTAAC-CCTTAAACCCC
*
61246772 -AA-CCTTAACCCCTAAACCC
1 AAACCCTTAACCCTTAAACCC
61246791 TAAATTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 14 0.40
21 16 0.46
22 5 0.14
ACGTcount: A:0.35, C:0.45, G:0.00, T:0.19
Consensus pattern (22 bp):
AAACCCTTAACCCTTAAACCCC
Found at i:61246880 original size:21 final size:21
Alignment explanation
Indices: 61246854--61246938 Score: 89
Period size: 21 Copynumber: 3.9 Consensus size: 21
61246844 ACTCCTAAAC
*
61246854 CTTAAACCCTAAACCATATAT
1 CTTAAACCATAAACCATATAT
* *
61246875 CTTAAACCATAGTTAACTCAAAAAT
1 CTTAAACCATA---AAC-CATATAT
* *
61246900 CTTAAACCCTAAACTATATAT
1 CTTAAACCATAAACCATATAT
61246921 CTTAAACCATAAACCATA
1 CTTAAACCATAAACCATA
61246939 AACTATAATG
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
21 30 0.59
22 3 0.06
24 3 0.06
25 15 0.29
ACGTcount: A:0.46, C:0.25, G:0.01, T:0.28
Consensus pattern (21 bp):
CTTAAACCATAAACCATATAT
Found at i:61246891 original size:46 final size:46
Alignment explanation
Indices: 61246838--61246931 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
61246828 CTTCAAATAC
**
61246838 TAGTTAACTCCTAAACCTTAAACCCTAAACCATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
* *
61246884 TAGTTAACTCAAAAATCTTAAACCCTAAACTATATATCTTAAACCA
1 TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
61246930 TA
1 TA
61246932 AACCATAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.44, C:0.24, G:0.02, T:0.30
Consensus pattern (46 bp):
TAGTTAACTCAAAAACCTTAAACCCTAAACCATATATCTTAAACCA
Found at i:61247151 original size:41 final size:41
Alignment explanation
Indices: 61247094--61247312 Score: 318
Period size: 41 Copynumber: 5.4 Consensus size: 41
61247084 GTTATATGAC
61247094 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
61247135 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* *
61247176 TTTTAGCGGCGTTTTTCCACAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
61247217 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATTCTCT-GT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
* * * *
61247257 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTCT-AT
1 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGGT
*
61247298 TTTTAGTGGCGTTTT
1 TTTTAGCGGCGTTTT
61247313 TGGTAAAACG
Statistics
Matches: 163, Mismatches: 13, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
39 4 0.02
40 13 0.08
41 137 0.84
42 9 0.06
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
Found at i:61247343 original size:41 final size:41
Alignment explanation
Indices: 61247094--61247343 Score: 151
Period size: 41 Copynumber: 6.1 Consensus size: 41
61247084 GTTATATGAC
* * * * *
61247094 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTAT-AT
* * * *
61247135 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATGCTCTGAT
1 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTATTGCTAT-AT
* * * * *
61247176 TTTTAGCGGCG-TTTTT-CCACAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTTTACTA-AAACGCCGCTATTGCTAT-AT
* * * *
61247217 TTTTAGCGGCG--TTTTGCCAAAAGCGCCGCTAATT-CTCTGT
1 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCT-ATTGCTATAT
*
61247257 TTTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTCTAT
1 TTTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTATAT
* **
61247298 TTTTAGTGGCG-TTTTTGGTAAAACGCCGCTATTGCTATAT
1 TTTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTATAT
61247338 GTTTTA
1 -TTTTA
61247344 CAATTTTTGC
Statistics
Matches: 188, Mismatches: 12, Indels: 18
0.86 0.06 0.08
Matches are distributed among these distances:
40 48 0.26
41 123 0.65
42 17 0.09
ACGTcount: A:0.18, C:0.22, G:0.23, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTTACTAAAACGCCGCTATTGCTATAT
Found at i:61247385 original size:13 final size:13
Alignment explanation
Indices: 61247367--61247393 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61247357 GTTTTTTGAT
61247367 AAAACGCCGCTAA
1 AAAACGCCGCTAA
61247380 AAAACGCCGCTAA
1 AAAACGCCGCTAA
61247393 A
1 A
61247394 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (13 bp):
AAAACGCCGCTAA
Found at i:61247817 original size:2 final size:2
Alignment explanation
Indices: 61247798--61247846 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
61247788 TAAAAATAAC
* *
61247798 TA TA TA CA TA -A TA CA TA TA TA TA -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61247838 TA TA TA TA T
1 TA TA TA TA T
61247847 GTTTAACAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.05
2 39 0.95
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:61250083 original size:31 final size:31
Alignment explanation
Indices: 61250045--61250108 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
61250035 CCTTTTCATA
61250045 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
61250076 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
61250107 TT
1 TT
61250109 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:61250351 original size:24 final size:24
Alignment explanation
Indices: 61250300--61250442 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
61250290 GCTTTATCAT
*
61250300 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
61250325 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
61250349 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
61250372 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
61250396 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
61250420 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61250443 TCACTTCCTC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 76 0.68
25 12 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61250379 original size:47 final size:48
Alignment explanation
Indices: 61250300--61250441 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 48
61250290 GCTTTATCAT
* *
61250300 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTCA
**
61250349 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
*
61250396 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
61250442 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 44 0.51
48 31 0.36
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:61250400 original size:71 final size:72
Alignment explanation
Indices: 61250299--61250442 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
61250289 TGCTTTATCA
*
61250299 TATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
1 TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
61250364 GCCCTTT
66 GCCCTTT
* * **
61250371 TATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 TATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
61250434 AGCCCTTT
65 AGCCCTTT
61250442 T
1 T
61250443 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 53 0.80
72 13 0.20
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (72 bp):
TATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAA
GCCCTTT
Found at i:61250518 original size:20 final size:20
Alignment explanation
Indices: 61250493--61250552 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
61250483 TATGATTACC
61250493 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
61250513 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
61250533 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
61250553 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:61250523 original size:11 final size:11
Alignment explanation
Indices: 61250493--61250547 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61250483 TATGATTACC
61250493 TCATGTGCATA
1 TCATGTGCATA
*
61250504 TCA--TACATA
1 TCATGTGCATA
61250513 TCATGTGCATA
1 TCATGTGCATA
* *
61250524 TCA--TACATG
1 TCATGTGCATA
61250533 TCATGTGCATA
1 TCATGTGCATA
61250544 TCAT
1 TCAT
61250548 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:61250627 original size:25 final size:25
Alignment explanation
Indices: 61250595--61250642 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61250585 ATACATAAAC
* * *
61250595 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61250620 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61250643 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61258199 original size:31 final size:31
Alignment explanation
Indices: 61258137--61258230 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
61258127 CCTTTTCATA
*
61258137 TTTCATATTTCATAATACTGGGCC-AAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
61258167 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
61258198 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGGCCGAAGCCT
61258229 TT
1 TT
61258231 ACTGTAAACG
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 23 0.37
31 39 0.63
ACGTcount: A:0.23, C:0.22, G:0.15, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATATTACTGGGCCGAAGCCT
Found at i:61258473 original size:24 final size:24
Alignment explanation
Indices: 61258422--61258540 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
61258412 GCTTTATCAT
*
61258422 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
61258447 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
61258471 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
61258494 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
61258518 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61258541 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
23 23 0.26
24 52 0.60
25 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:61258501 original size:47 final size:48
Alignment explanation
Indices: 61258422--61258540 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
61258412 GCTTTATCAT
*
61258422 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCA
* **
61258471 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
61258518 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
61258541 TCACTTCCTC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 44 0.68
48 9 0.14
49 12 0.18
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (48 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCA
Found at i:61258616 original size:20 final size:20
Alignment explanation
Indices: 61258591--61258650 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
61258581 TATGATTACC
61258591 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
61258611 TCATGTGCATATCATACATG
1 TCATGTGCATATCATACATA
*
61258631 TCATGTGCATCTCATACATA
1 TCATGTGCATATCATACATA
61258651 CCATATTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:61258725 original size:25 final size:25
Alignment explanation
Indices: 61258693--61258740 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61258683 ATACATAAAC
* * *
61258693 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
61258718 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
61258741 CATGGTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:61261071 original size:33 final size:33
Alignment explanation
Indices: 61261027--61261100 Score: 121
Period size: 33 Copynumber: 2.2 Consensus size: 33
61261017 GTGATCAACA
**
61261027 CAGTATCAGTACAGTCTGGGCCGAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCAAAAGCCCTATT
*
61261060 CAGTATTAGTACAGTCTGGGCAAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCAAAAGCCCTATT
61261093 CAGTATCA
1 CAGTATCA
61261101 CTATAGTGCA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGGCAAAAGCCCTATT
Found at i:61266017 original size:28 final size:28
Alignment explanation
Indices: 61265977--61266046 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
61265967 ATAGTAAGTC
*
61265977 CGCACACTTAGTGCT-TATTAATCAAACT
1 CGCACACTTAGTGCTATA-CAATCAAACT
*
61266005 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
61266033 CGCACACTTAGTGC
1 CGCACACTTAGTGC
61266047 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 37 0.95
29 2 0.05
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:61271130 original size:36 final size:35
Alignment explanation
Indices: 61271079--61271150 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 35
61271069 TTAAAGCAGA
61271079 CCAAACAAACAAACCTTAACTAAATGTACATATAT
1 CCAAACAAACAAACCTTAACTAAATGTACATATAT
61271114 CCAAACCAAACAAACCTTAACTAAATGTACATATAT
1 CCAAA-CAAACAAACCTTAACTAAATGTACATATAT
61271150 C
1 C
61271151 ATTCTTATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 5 0.14
36 31 0.86
ACGTcount: A:0.50, C:0.25, G:0.03, T:0.22
Consensus pattern (35 bp):
CCAAACAAACAAACCTTAACTAAATGTACATATAT
Found at i:61271568 original size:44 final size:43
Alignment explanation
Indices: 61271441--61271598 Score: 144
Period size: 44 Copynumber: 3.7 Consensus size: 43
61271431 AACATCTCAA
* * *
61271441 ACATGGTCTTACA-TGTAATTACATATCGATGCCATTGTCCCAG
1 ACATGGTCTTACACT-AAATCACATATCGATGCCAATGTCCCAG
* * * * *
61271484 ATA-GTGTCTTACAC-AAA-CTCGTGTACGATGCCGATGTCCCAG
1 ACATG-GTCTTACACTAAATCACATAT-CGATGCCAATGTCCCAG
*
61271526 ACATGGTCTTACACGTAAATCACAAATCGATGCCAATGTCCCAG
1 ACATGGTCTTACAC-TAAATCACATATCGATGCCAATGTCCCAG
* * *
61271570 ATATGGTCTTACTCAAAATCACATATCGA
1 ACATGGTCTTACACTAAATCACATATCGA
61271599 AATCCTATGT
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 3 0.03
42 29 0.32
43 24 0.27
44 31 0.34
45 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
ACATGGTCTTACACTAAATCACATATCGATGCCAATGTCCCAG
Found at i:61271609 original size:44 final size:44
Alignment explanation
Indices: 61271441--61271598 Score: 128
Period size: 43 Copynumber: 3.7 Consensus size: 44
61271431 AACATCTCAA
* * * * *
61271441 ACATGGTCTTACATG-TAATTACATATCGATGCCATTGTCCCAG
1 ACATGGTCTTACACGAAAATCACAAATCGATGCCAATGTCCCAG
* * **** *
61271484 ATA-GTGTCTTACAC-AAACTCGTGTA-CGATGCCGATGTCCCAG
1 ACATG-GTCTTACACGAAAATCACAAATCGATGCCAATGTCCCAG
*
61271526 ACATGGTCTTACACGTAAATCACAAATCGATGCCAATGTCCCAG
1 ACATGGTCTTACACGAAAATCACAAATCGATGCCAATGTCCCAG
* * *
61271570 ATATGGTCTTACTC-AAAATCACATATCGA
1 ACATGGTCTTACACGAAAATCACAAATCGA
61271599 AATCCTATGT
Statistics
Matches: 88, Mismatches: 22, Indels: 10
0.73 0.18 0.08
Matches are distributed among these distances:
42 27 0.31
43 33 0.38
44 28 0.32
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
ACATGGTCTTACACGAAAATCACAAATCGATGCCAATGTCCCAG
Found at i:61274238 original size:39 final size:39
Alignment explanation
Indices: 61274107--61274297 Score: 172
Period size: 40 Copynumber: 4.8 Consensus size: 39
61274097 GGATATAACG
* ** **
61274107 ACTCGCTCAAATGCCTTCGGGACGAAGCCCGG-TTATAGCG
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
61274147 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AATGCCTTCGGGACTTAGCCCGGATTTAGTA
* *
61274187 ACTTGCACAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * * *
61274225 ACTCGCACGAATGCCTTC-GGATCCTAGTCCGGATATAGTC
1 ACTCGCAC-AATGCCTTCGGGA-CTTAGCCCGGATTTAGTA
* *
61274265 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAATGCCTTCGGGACTTAGCCCGGA
61274298 CATCATTCGA
Statistics
Matches: 124, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
38 24 0.19
39 21 0.17
40 69 0.56
41 10 0.08
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.24
Consensus pattern (39 bp):
ACTCGCACAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:61274242 original size:78 final size:80
Alignment explanation
Indices: 61274147--61274297 Score: 209
Period size: 78 Copynumber: 1.9 Consensus size: 80
61274137 GGTTATAGCG
* * * *
61274147 ACTCGCACGAATGCCTTCGGGA-CTTAACCCGGGTTTAGTAACTT-GCACAATGCCTTCGGG-CT
1 ACTCGCACGAATGCCTTC-GGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACT
61274209 TAGCCCGGATTTATTA
65 TAGCCCGGATTTATTA
** *
61274225 ACTCGCACGAATGCCTTCGGATCCTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTT
1 ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
61274290 AGCCCGGA
66 AGCCCGGA
61274298 CATCATTCGA
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
77 3 0.05
78 34 0.54
79 15 0.24
80 11 0.17
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTCGCACGAATGCCTTCGGATCCTAACCCGGATATAGTAACTTAGCACAAAGCCTTCGGGACTT
AGCCCGGATTTATTA
Found at i:61278181 original size:46 final size:44
Alignment explanation
Indices: 61278012--61278231 Score: 140
Period size: 46 Copynumber: 4.7 Consensus size: 44
61278002 GACTATTATG
* *
61278012 AGCTAGTGTATGACATGTCTGGGACATGCATCAGCCACATTACGAGTTA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCAG---C--TACGAGTTA
* * * * **
61278061 AGCTAGTGTAAGACCATGTCCA-AACATGGCATC-GATAGTGAGACGA
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCAGCTA-CGAG-TTA
** * * *
61278107 GAGCTAGTGTAAGACACATCTCGAACATGTATCAGCCT-CGAGATGTA
1 -AGCTAGTGTAAGACATGTCTAGGACATGCATCAG-CTACGAG-T-TA
* *
61278154 AGCTAGTGTAAGACATGTCTAGGACATGCATCTGCTATGAGTTA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGTTA
*
61278198 AGCTAGTGTAAGACCATGTCCAGGACATGGCATC
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATC
61278232 GGTATCCTAT
Statistics
Matches: 134, Mismatches: 25, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
44 17 0.13
45 19 0.14
46 49 0.37
47 20 0.15
48 1 0.01
49 17 0.13
50 11 0.08
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (44 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCAGCTACGAGTTA
Found at i:61279959 original size:48 final size:48
Alignment explanation
Indices: 61279893--61280084 Score: 278
Period size: 48 Copynumber: 4.0 Consensus size: 48
61279883 AAATCTCATG
** * * *
61279893 TCAATGCCAATGCGATGTCCCAAACATGGTCTTACACTAGCACACATA
1 TCAATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
* * *
61279941 TCAGTGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACATA
1 TCAATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
*
61279989 TCAATGCTAATGCCATGTCCCAAACATGGTCTTACACTGG-TCACATA
1 TCAATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
* *
61280036 TCAACGCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
1 TCAATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
61280084 T
1 T
61280085 ACATTTCATG
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
47 44 0.34
48 84 0.66
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
TCAATGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATA
Found at i:61280073 original size:95 final size:96
Alignment explanation
Indices: 61279893--61280084 Score: 296
Period size: 95 Copynumber: 2.0 Consensus size: 96
61279883 AAATCTCATG
* ** *
61279893 TCAATGCCAATGCGATGTCCCAAACATGGTCTTACACTAGCACACATATCAGTGCTGATGCCATG
1 TCAATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATG
* *
61279958 TCCTAGACATGGTCTTACACTGGCTCACATA
66 TCCCAAACATGGTCTTACACTGGCTCACATA
* **
61279989 TCAATGCTAATGCCATGTCCCAAACATGGTCTTACACT-GGTCACATATCAACGCCGATGCCATG
1 TCAATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATG
61280053 TCCCAAACATGGTCTTACACTGGCTCACATA
66 TCCCAAACATGGTCTTACACTGGCTCACATA
61280084 T
1 T
61280085 ACATTTCATG
Statistics
Matches: 87, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
95 51 0.59
96 36 0.41
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (96 bp):
TCAATGCCAATGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATG
TCCCAAACATGGTCTTACACTGGCTCACATA
Found at i:61285232 original size:71 final size:71
Alignment explanation
Indices: 61285149--61285312 Score: 292
Period size: 71 Copynumber: 2.3 Consensus size: 71
61285139 CGATTTGTCT
* *
61285149 CGTAGCTCTCTTGTCTGCATGGTGTCCGTCACTTGGAATCACGTATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
61285214 CTTTCA
66 CTTTCA
* *
61285220 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
61285285 CTTTCA
66 CTTTCA
61285291 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
61285313 GATACATCTC
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
71 89 1.00
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCGTCACTTGGAATCACGCATGCGACCCAGCTACATTTAT
CTTTCA
Found at i:61285350 original size:71 final size:70
Alignment explanation
Indices: 61285149--61285346 Score: 231
Period size: 71 Copynumber: 2.8 Consensus size: 70
61285139 CGATTTGTCT
* * * * ** *
61285149 CGTAGCTCTCTTGTCTGCATGGTGTCCGTCACTTGGAATCACGTATGCGACCCAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61285214 CTTTCA
65 CTTTCA
* * * *
61285220 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
61285285 CTTTCA
65 CTTTCA
* *
61285291 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
61285347 TACAGGGTGT
Statistics
Matches: 116, Mismatches: 10, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 1 0.01
71 92 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.33
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:61287546 original size:24 final size:24
Alignment explanation
Indices: 61287515--61287563 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
61287505 AGAGTTATGG
61287515 TGGCAACGGACTATGAGCGTTGCA
1 TGGCAACGGACTATGAGCGTTGCA
61287539 TGGCAACGGACTATGAGCGTTGCA
1 TGGCAACGGACTATGAGCGTTGCA
61287563 T
1 T
61287564 TAGATTTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.33, T:0.22
Consensus pattern (24 bp):
TGGCAACGGACTATGAGCGTTGCA
Found at i:61288284 original size:2 final size:2
Alignment explanation
Indices: 61288277--61288303 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61288267 GAGACTAGTC
61288277 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
61288304 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61293307 original size:28 final size:28
Alignment explanation
Indices: 61293234--61293320 Score: 120
Period size: 28 Copynumber: 3.1 Consensus size: 28
61293224 GTGAGCATGA
* *
61293234 ATATAATGTGTTTTGGGCCTAAAGGGCT
1 ATATAATGTGATTTGGGCCTAAAGGGCC
61293262 ATATAAATGTGATTTGGGCCTAAAGGGCC
1 ATAT-AATGTGATTTGGGCCTAAAGGGCC
* * *
61293291 ATATAATGTGATCTGGGCTTAATGGGCC
1 ATATAATGTGATTTGGGCCTAAAGGGCC
61293319 AT
1 AT
61293321 GTGAATATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
28 27 0.51
29 26 0.49
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
ATATAATGTGATTTGGGCCTAAAGGGCC
Found at i:61299713 original size:49 final size:49
Alignment explanation
Indices: 61299653--61300003 Score: 563
Period size: 49 Copynumber: 7.3 Consensus size: 49
61299643 GTATGAGATA
61299653 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61299702 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61299751 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
61299800 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
61299849 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAG-GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* *
61299896 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
* * * * * *
61299943 TATATATGTGATAGGGCC-AGTGGCCAACGTGATGGATGTGGAA--GTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
*
61299989 TATAAATGTGATAAG
1 TATATATGTGATAAG
61300004 TCCCGAAGGG
Statistics
Matches: 290, Mismatches: 11, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
46 37 0.13
47 61 0.21
48 5 0.02
49 187 0.64
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (49 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTG
Found at i:61302106 original size:2 final size:2
Alignment explanation
Indices: 61302099--61302133 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
61302089 TTAAATTGAA
61302099 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61302134 GTGTTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:61303061 original size:15 final size:15
Alignment explanation
Indices: 61303037--61303084 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
61303027 ATTATTCAAG
*
61303037 TATGTGAATTTGGTT
1 TATGTCAATTTGGTT
61303052 TATGTCAATTTGG-T
1 TATGTCAATTTGGTT
*
61303066 TAT-ACGAATTTGGTT
1 TATGTC-AATTTGGTT
61303081 TATG
1 TATG
61303085 GATTTTTGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 1 0.04
14 11 0.39
15 16 0.57
ACGTcount: A:0.23, C:0.04, G:0.23, T:0.50
Consensus pattern (15 bp):
TATGTCAATTTGGTT
Found at i:61324793 original size:40 final size:40
Alignment explanation
Indices: 61324666--61324795 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
61324656 ATGCTGGAAA
* *
61324666 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
61324706 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
61324746 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
61324786 TTATATCCGG
1 TTATATCCGG
61324796 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:61332847 original size:40 final size:40
Alignment explanation
Indices: 61332720--61332849 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
61332710 ATGCTGGAAA
* *
61332720 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
61332760 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
61332800 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
61332840 TTATATCCGG
1 TTATATCCGG
61332850 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:61335348 original size:20 final size:20
Alignment explanation
Indices: 61335323--61335364 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
61335313 CCGCAAAGCG
61335323 TAGCATATTACTAATTTAAA
1 TAGCATATTACTAATTTAAA
61335343 TAGCATATTACTAATTTAAA
1 TAGCATATTACTAATTTAAA
61335363 TA
1 TA
61335365 ATAAAACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAGCATATTACTAATTTAAA
Found at i:61343613 original size:13 final size:13
Alignment explanation
Indices: 61343595--61343621 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61343585 AAAGCTACGC
61343595 TTATAAAATTGTT
1 TTATAAAATTGTT
61343608 TTATAAAATTGTT
1 TTATAAAATTGTT
61343621 T
1 T
61343622 ATCTTATGCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TTATAAAATTGTT
Found at i:61349055 original size:40 final size:40
Alignment explanation
Indices: 61349011--61349120 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
61349001 TTCACAATTT
* *
61349011 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61349051 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61349091 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
61349121 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:61357100 original size:40 final size:40
Alignment explanation
Indices: 61357056--61357165 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
61357046 TTCACAATTT
* *
61357056 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAGTCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61357096 GCACAATTGCCTTCGGGTCTTAACCCGGATGTAATTACCA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
* * *
61357136 GCATAAATGTCTTCGGGACTTAGCCCGGAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT
61357166 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATGTAATCACCA
Found at i:61364338 original size:30 final size:30
Alignment explanation
Indices: 61364302--61364361 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
61364292 TTGGTGACAT
61364302 ATCAAACATTTAGAAACAAAATCAAAGATA
1 ATCAAACATTTAGAAACAAAATCAAAGATA
61364332 ATCAAACATTTAGAAACAAAATCAAAGATA
1 ATCAAACATTTAGAAACAAAATCAAAGATA
61364362 TCTCTTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (30 bp):
ATCAAACATTTAGAAACAAAATCAAAGATA
Found at i:61370534 original size:16 final size:16
Alignment explanation
Indices: 61370515--61370552 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
61370505 AGCAAATCCT
61370515 GAAAAGCCGAAATGCC
1 GAAAAGCCGAAATGCC
*
61370531 GAAAAGCTGAAATGCC
1 GAAAAGCCGAAATGCC
61370547 GAAAAG
1 GAAAAG
61370553 TCAAAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.47, C:0.18, G:0.26, T:0.08
Consensus pattern (16 bp):
GAAAAGCCGAAATGCC
Found at i:61370840 original size:28 final size:28
Alignment explanation
Indices: 61370768--61370845 Score: 77
Period size: 29 Copynumber: 2.8 Consensus size: 28
61370758 CTGTAAAAGT
* **
61370768 GATTGCGCCTAGTGGGCCATATAGATGT
1 GATTGGGCCTAGTGGGCCATATAGATAA
* * *
61370796 GATTTGGGCTTAATGGGTCATAT-GAATAA
1 GA-TTGGGCCTAGTGGGCCATATAG-ATAA
61370825 GATTGGGCCTAGTGGGCCATA
1 GATTGGGCCTAGTGGGCCATA
61370846 AGCATGTATG
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
28 19 0.49
29 20 0.51
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.29
Consensus pattern (28 bp):
GATTGGGCCTAGTGGGCCATATAGATAA
Found at i:61381356 original size:17 final size:17
Alignment explanation
Indices: 61381330--61381363 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61381320 TGAGGGGGCT
*
61381330 TAATAGGATATCTTCTA
1 TAATACGATATCTTCTA
61381347 TAATACGATATCTTCTA
1 TAATACGATATCTTCTA
61381364 ATTTGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (17 bp):
TAATACGATATCTTCTA
Found at i:61382534 original size:30 final size:30
Alignment explanation
Indices: 61382498--61382558 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
61382488 ATTAAAAAAG
61382498 AGGTATATTTACACAAATTTAAAAAATCAA
1 AGGTATATTTACACAAATTTAAAAAATCAA
61382528 AGGTATATTTACACAAATTTAAAAAATCAA
1 AGGTATATTTACACAAATTTAAAAAATCAA
61382558 A
1 A
61382559 CTTCTAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.30
Consensus pattern (30 bp):
AGGTATATTTACACAAATTTAAAAAATCAA
Found at i:61382582 original size:10 final size:10
Alignment explanation
Indices: 61382567--61382591 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61382557 AACTTCTAAA
61382567 AAATTATAAT
1 AAATTATAAT
61382577 AAATTATAAT
1 AAATTATAAT
61382587 AAATT
1 AAATT
61382592 CTAAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTATAAT
Found at i:61392299 original size:22 final size:24
Alignment explanation
Indices: 61392271--61392326 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
61392261 TTACCTTGAA
61392271 AGAGCTTACTG-TT-CATCTCAAT
1 AGAGCTTACTGTTTCCATCTCAAT
*
61392293 AGAGCTTATTGTTTCCATCTCAAT
1 AGAGCTTACTGTTTCCATCTCAAT
*
61392317 CGAGCTTACT
1 AGAGCTTACT
61392327 ATTATCAGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 10 0.34
23 2 0.07
24 17 0.59
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (24 bp):
AGAGCTTACTGTTTCCATCTCAAT
Found at i:61413578 original size:39 final size:39
Alignment explanation
Indices: 61413513--61413775 Score: 436
Period size: 39 Copynumber: 6.7 Consensus size: 39
61413503 TTCCAACACA
* * *
61413513 AATGCTTTTGGGACTTAGCCCAGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
61413552 AATACCTTCGGGACTTAGCCCGGATATAACACCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
* *
61413591 AATACCTTCGGGACTTAGCCCGGATATAACACCAGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
61413630 AATGCCTTCGGGACTTAGCTCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
61413669 AATGCCTTCGGGACTTAGCCCGGACATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
*
61413708 AATGCCTTTGGGACTTAGCCCGGATATAACACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
61413747 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
61413776 ATCTCACACA
Statistics
Matches: 209, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 209 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.20
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCAGCACG
Found at i:61415869 original size:24 final size:24
Alignment explanation
Indices: 61415842--61415923 Score: 129
Period size: 24 Copynumber: 3.6 Consensus size: 24
61415832 CTTATTATGT
61415842 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
61415866 TCG----C-TAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
61415885 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
61415909 TCGCACACATAGTGC
1 TCGCACACATAGTGC
61415924 ATTTGAGATT
Statistics
Matches: 53, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
19 18 0.34
20 1 0.02
23 1 0.02
24 33 0.62
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:61415875 original size:19 final size:20
Alignment explanation
Indices: 61415849--61415913 Score: 87
Period size: 19 Copynumber: 3.1 Consensus size: 20
61415839 TGTTCGCACA
61415849 CATAGTGCCATAGTAAATCG
1 CATAGTGCCATAGTAAATCG
61415869 C-TAGTGCCATAGTAAATCG
1 CATAGTGCCATAGTAAATCG
61415888 CACACATAGTGCCATAGTAAATCG
1 ----CATAGTGCCATAGTAAATCG
61415912 CA
1 CA
61415914 CACATAGTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
19 18 0.45
20 3 0.08
23 1 0.03
24 18 0.45
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (20 bp):
CATAGTGCCATAGTAAATCG
Found at i:61424027 original size:41 final size:43
Alignment explanation
Indices: 61423946--61424062 Score: 118
Period size: 46 Copynumber: 2.7 Consensus size: 43
61423936 GTTATTGTAT
*
61423946 GCTAGTGTAAGAACATGTCT-GG-CATCGGCATTGAGAC-GA-G-A
1 GCTAGTGTAAG-ACATGTCTAGGACAT--GCATTGACACAGATGAA
*
61423987 GCTAGTGTAAGACATGTCTAGGACATGCATTGACCTCGAGATGTAA
1 GCTAGTGTAAGACATGTCTAGGACATGCATTGA-CAC-AGATG-AA
*
61424033 GCCAGTGTAAGACATGTCTAGGACATGCAT
1 GCTAGTGTAAGACATGTCTAGGACATGCAT
61424063 CGGCTACGAG
Statistics
Matches: 65, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
40 15 0.23
41 14 0.22
42 3 0.05
43 2 0.03
44 1 0.02
46 30 0.46
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (43 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATTGACACAGATGAA
Found at i:61424057 original size:46 final size:44
Alignment explanation
Indices: 61423990--61424110 Score: 145
Period size: 46 Copynumber: 2.7 Consensus size: 44
61423980 GACGAGAGCT
*
61423990 AGTGTAAGACATGTCTAGGACATGCATTGACCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCG-CCTACGAGATGT--GCC
* *
61424036 AGTGTAAGACATGTCTAGGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTAGGACATGCATCGCCTACGAGATGTGCC
* *
61424080 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTAGGACAT-GCATCG
61424111 GCACAGATAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 11 0.16
45 14 0.21
46 42 0.63
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTAGGACATGCATCGCCTACGAGATGTGCC
Found at i:61424199 original size:49 final size:50
Alignment explanation
Indices: 61424080--61424209 Score: 167
Period size: 49 Copynumber: 2.6 Consensus size: 50
61424070 GAGATGTGTC
61424080 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAAAGCT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAAAGCT
* * * * * *
61424130 AGTGTAAGACCATGTCTGGGACATGGCGTTGGCCTCA-AT-T-TCGATAGTT
1 AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACAGATATGT-GAAAGCT
61424179 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGACCATGTTTGGGACATGGCATCG
61424210 ACATTATACC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
48 1 0.01
49 34 0.49
50 31 0.45
51 3 0.04
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (50 bp):
AGTGTAAGACCATGTTTGGGACATGGCATCGGCACAGATATGTGAAAGCT
Found at i:61426897 original size:21 final size:21
Alignment explanation
Indices: 61426873--61426913 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
61426863 AGGTATTACG
61426873 GATCAATACACAACATGTATC
1 GATCAATACACAACATGTATC
61426894 GATCAATACACAACATGTAT
1 GATCAATACACAACATGTAT
61426914 TGGCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.22, G:0.10, T:0.24
Consensus pattern (21 bp):
GATCAATACACAACATGTATC
Found at i:61426922 original size:10 final size:10
Alignment explanation
Indices: 61426907--61426937 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
61426897 CAATACACAA
*
61426907 CATGTATTGG
1 CATGTATAGG
61426917 CATGTATAGG
1 CATGTATAGG
61426927 CATGTATAGG
1 CATGTATAGG
61426937 C
1 C
61426938 TATTGAAGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (10 bp):
CATGTATAGG
Found at i:61429668 original size:40 final size:40
Alignment explanation
Indices: 61429476--61429661 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
61429466 TCGAATGATG
* * *
61429476 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
61429516 TCCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
61429556 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
61429596 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
61429637 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61429662 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 9 0.07
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:61435215 original size:40 final size:40
Alignment explanation
Indices: 61435160--61435327 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
61435150 TGAATGATAC
*
61435160 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* *
61435200 CCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
61435240 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
61435280 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
61435320 CC-GGCTAA
1 CCGGGCTAA
61435328 ATTCCGAAGA
Statistics
Matches: 106, Mismatches: 20, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
39 6 0.06
40 98 0.92
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:61443229 original size:40 final size:40
Alignment explanation
Indices: 61443174--61443320 Score: 170
Period size: 40 Copynumber: 3.7 Consensus size: 40
61443164 TGAATGATAC
* * *
61443174 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* *
61443214 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAG-TGATTATAT
* * ** *
61443254 CCGGGCTAAGACCTGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
* *
61443294 CCGGGTTAAGACCCGAAGGCAATTGTG
1 CCGGGCTAAGACCCGAAGGCATTTGTG
61443321 TTGTGGTTAT
Statistics
Matches: 91, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 88 0.97
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTGATTATAT
Found at i:61444986 original size:40 final size:40
Alignment explanation
Indices: 61444942--61445124 Score: 196
Period size: 38 Copynumber: 4.7 Consensus size: 40
61444932 GTTCAAAACA
* * ***
61444942 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
61444982 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
61445022 CCTTCGGG-CTTAGCCCGGATATCATAGCTCG-ACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
61445060 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
61445099 CCTTC-GG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
61445125 TTCGCACATT
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
38 56 0.44
39 32 0.25
40 40 0.31
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:61445063 original size:38 final size:39
Alignment explanation
Indices: 61444972--61445132 Score: 245
Period size: 38 Copynumber: 4.2 Consensus size: 39
61444962 TATGGTAACC
* *
61444972 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
61445012 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61445051 CG-ACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
61445089 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
61445127 CGCACA
1 CGCACA
61445133 TTCATTCACA
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
38 64 0.57
39 32 0.28
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:61445085 original size:77 final size:77
Alignment explanation
Indices: 61444975--61445121 Score: 251
Period size: 77 Copynumber: 1.9 Consensus size: 77
61444965 GGTAACCCGC
61444975 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCCCGG
1 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTC-GGCTTAGCCCGG
61445040 ATATCATAGCTCG
65 ATATCATAGCTCG
* * *
61445053 ACAATTGCCTTCGGG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGCTTAGCCCGGA
1 ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGCTTAGCCCGGA
61445117 TATCA
66 TATCA
61445122 CAATTCGCAC
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
76 18 0.27
77 34 0.52
78 14 0.21
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (77 bp):
ACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGCTTAGCCCGGA
TATCATAGCTCG
Found at i:61448424 original size:39 final size:40
Alignment explanation
Indices: 61448294--61448473 Score: 217
Period size: 39 Copynumber: 4.6 Consensus size: 40
61448284 TATTCGAATG
* * * *
61448294 ATATCCTGACTAAGTCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
61448334 AT-T-CGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGACT
*
61448372 ATATCCGGGCTAAGACCCGAAGGCATTT-TGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* *
61448411 ATATCCGGGCTAAGTCCCGAAGGC-TTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
61448450 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
61448474 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 14, Indels: 11
0.83 0.10 0.08
Matches are distributed among these distances:
38 32 0.26
39 66 0.55
40 23 0.19
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:61448454 original size:78 final size:78
Alignment explanation
Indices: 61448294--61448508 Score: 217
Period size: 78 Copynumber: 2.8 Consensus size: 78
61448284 TATTCGAATG
* * * * *
61448294 ATATCCTGACTAAGTCCCGAAGGCTTTTATGCTAGTGACTAT-T-CGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTT-TGCTAG-GACTATATCCGGGCTAAG-TCCCGAAGGC
* *
61448356 ATTTGTGCGAGTTGCT
63 ATTTATGCGAGTTGCC
61448372 ATATCCGGGCTAAGACCCGAAGGCATTTTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGC-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGCTAG-GACTATATCCGGGCTAAGTCCCGAAGGCAT
*
61448436 TTATGCTAG-TGACC
65 TTATGCGAGTTG-CC
* * * ** *
61448450 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGGGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCATTTTGCTAGGACTATATCCGGGCTAAGTCCCGAAG
61448509 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
76 14 0.12
77 22 0.19
78 66 0.56
79 16 0.14
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.26
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTTGCTAGGACTATATCCGGGCTAAGTCCCGAAGGCATT
TATGCGAGTTGCC
Found at i:61457596 original size:15 final size:16
Alignment explanation
Indices: 61457576--61457610 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
61457566 CCAAATCTTG
61457576 CTTCTCATCATTTT-T
1 CTTCTCATCATTTTCT
*
61457591 CTTCTCCTCATTTTCT
1 CTTCTCATCATTTTCT
61457607 CTTC
1 CTTC
61457611 ATTTGACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.09, C:0.34, G:0.00, T:0.57
Consensus pattern (16 bp):
CTTCTCATCATTTTCT
Found at i:61465230 original size:17 final size:17
Alignment explanation
Indices: 61465208--61465243 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
61465198 AACTATTGAG
61465208 TATATTTGGTACGAACT
1 TATATTTGGTACGAACT
61465225 TATATTTGGTACGAACT
1 TATATTTGGTACGAACT
61465242 TA
1 TA
61465244 CTCAGCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.42
Consensus pattern (17 bp):
TATATTTGGTACGAACT
Found at i:61466714 original size:47 final size:47
Alignment explanation
Indices: 61466655--61466786 Score: 183
Period size: 47 Copynumber: 2.8 Consensus size: 47
61466645 TCACAATCGA
* * *
61466655 AAAGTACTTATACCATGACCCGTAGCCAAATCAAGGTAACTCATCCC
1 AAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCAC
** * *
61466702 GTAGTACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCCTCAC
1 AAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCAC
* *
61466749 AAAATACCTATATCATGGCCCGTAGCCAAATCAAGGTA
1 AAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
61466787 TTATTCGTAC
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 73 1.00
ACGTcount: A:0.35, C:0.28, G:0.15, T:0.22
Consensus pattern (47 bp):
AAAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCAC
Found at i:61468953 original size:93 final size:93
Alignment explanation
Indices: 61468841--61469012 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
61468831 GCCCATAAGT
* *
61468841 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61468906 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
61468934 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
61468999 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
61469013 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:61469008 original size:46 final size:46
Alignment explanation
Indices: 61468833--61469008 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
61468823 TGTAACCCGC
* * *
61468833 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
61468879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
61468929 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
61468972 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
61469009 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:61471428 original size:30 final size:30
Alignment explanation
Indices: 61471384--61471452 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
61471374 CAAAGATAAC
*
61471384 AAGAAAACC-GAATAAAGAAATCCA-AGATA
1 AAGAAACCCAGAATAAAGAAATCCAGA-ATA
*
61471413 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCCAGAATA
61471443 AAGAAACCCA
1 AAGAAACCCA
61471453 AGATACGATA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
29 7 0.20
30 27 0.77
31 1 0.03
ACGTcount: A:0.59, C:0.17, G:0.14, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAGAATA
Done.