Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 89 of 259
Found at i:29032459 original size:49 final size:50
Alignment explanation
Indices: 29032379--29032596 Score: 260
Period size: 49 Copynumber: 4.4 Consensus size: 50
29032369 ATCTATTGTG
*
29032379 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * ** *
29032429 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
29032479 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* ** *
29032529 AGGTCACGTGTGTAGTACTAAGCACAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
29032579 -GGTCACATGTGTAGTACT
1 AGGTCACATGTGTAGTACT
29032597 GGATAATTGG
Statistics
Matches: 141, Mismatches: 25, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 58 0.41
50 45 0.32
51 38 0.27
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:29032600 original size:26 final size:26
Alignment explanation
Indices: 29032566--29032622 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
29032556 GCTACTACGT
*
29032566 GTACCGGATAATTGGTCACATGTGTA
1 GTACTGGATAATTGGTCACATGTGTA
*
29032592 GTACTGGATAATTGGTCGCATGTGTA
1 GTACTGGATAATTGGTCACATGTGTA
29032618 GTACT
1 GTACT
29032623 AAGTGCAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (26 bp):
GTACTGGATAATTGGTCACATGTGTA
Found at i:29035436 original size:18 final size:18
Alignment explanation
Indices: 29035413--29035447 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
29035403 TAAAAGAAAA
29035413 CATACTATCACAATTAAG
1 CATACTATCACAATTAAG
29035431 CATACTATCACAATTAA
1 CATACTATCACAATTAA
29035448 TCATGGTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.23, G:0.03, T:0.29
Consensus pattern (18 bp):
CATACTATCACAATTAAG
Found at i:29035967 original size:6 final size:6
Alignment explanation
Indices: 29035956--29036089 Score: 102
Period size: 6 Copynumber: 22.7 Consensus size: 6
29035946 ATAATAAAAT
* * * *
29035956 AAAACA AAAACA AAAACA AAAACA AAAAAA AAATAAA AAAATA AAAAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAA-ACA AAAACA AAAACA
**
29036005 TAAAACA AAAA-A AAGAA-A AAGAA-A AAAA-A GAAATGA AAAAC- AAAAC-
1 -AAAACA AAAACA AA-AACA AA-AACA AAAACA -AAAACA AAAACA AAAACA
* *
29036051 AAAACA AAAACA AAAACA AAAGCA AAAGC- AAAACA AAAA
1 AAAACA AAAACA AAAACA AAAACA AAAACA AAAACA AAAA
29036090 ATAAAAATAA
Statistics
Matches: 112, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
5 20 0.18
6 80 0.71
7 12 0.11
ACGTcount: A:0.83, C:0.10, G:0.04, T:0.03
Consensus pattern (6 bp):
AAAACA
Found at i:29035971 original size:1 final size:1
Alignment explanation
Indices: 29035951--29036071 Score: 71
Period size: 1 Copynumber: 121.0 Consensus size: 1
29035941 AATGCATAAT
* * * * * * * * *
29035951 AAAATAAAACAAAAACAAAAACAAAAACAAAAAAAAAATAAAAAAATAAAAAAATAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * ** * * * * *
29036016 AAAGAAAAAGAAAAAAAAGAAATGAAAAACAAAACAAAACAAAAACAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
29036072 GCAAAAGCAA
Statistics
Matches: 83, Mismatches: 37, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
1 83 1.00
ACGTcount: A:0.84, C:0.08, G:0.03, T:0.04
Consensus pattern (1 bp):
A
Found at i:29038125 original size:30 final size:30
Alignment explanation
Indices: 29038091--29038157 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
29038081 CAAATTGAAC
*
29038091 CACACGGCAGGGCCACATGCCCATGTCCCT
1 CACACGGCAGGGCCACACGCCCATGTCCCT
* * *
29038121 CACACGACCGGGCCACACGCCCGTGTCCCT
1 CACACGGCAGGGCCACACGCCCATGTCCCT
29038151 CACACGG
1 CACACGG
29038158 TTGAGACACA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.19, C:0.46, G:0.24, T:0.10
Consensus pattern (30 bp):
CACACGGCAGGGCCACACGCCCATGTCCCT
Found at i:29053092 original size:19 final size:19
Alignment explanation
Indices: 29053070--29053156 Score: 151
Period size: 19 Copynumber: 4.7 Consensus size: 19
29053060 TCATATATTC
29053070 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
29053089 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
*
29053108 AACATTG--TATCATATCT
1 AAGATTGCATATCATATCT
29053125 AAGATTGCATATCATATCT
1 AAGATTGCATATCATATCT
29053144 AAGATTGCATATC
1 AAGATTGCATATC
29053157 CTTAAAGATT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
17 16 0.25
19 48 0.75
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (19 bp):
AAGATTGCATATCATATCT
Found at i:29053126 original size:36 final size:36
Alignment explanation
Indices: 29053079--29053150 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
29053069 CAAGATTGCA
29053079 TATCATATCTAAGATTGCATATCATATCTAACATTG
1 TATCATATCTAAGATTGCATATCATATCTAACATTG
*
29053115 TATCATATCTAAGATTGCATATCATATCTAAGATTG
1 TATCATATCTAAGATTGCATATCATATCTAACATTG
29053151 CATATCCTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (36 bp):
TATCATATCTAAGATTGCATATCATATCTAACATTG
Found at i:29053165 original size:36 final size:35
Alignment explanation
Indices: 29053070--29053166 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 35
29053060 TCATATATTC
*
29053070 AAGATTGCATATCATATCTAAGATTGCATATCATATCT
1 AAGATTGCATATC--CT-TAAGATTGCATATCATATCT
*
29053108 AACATTGTATCATAT-C-TAAGATTGCATATCATATCT
1 AAGATTG---CATATCCTTAAGATTGCATATCATATCT
29053144 AAGATTGCATATCCTTAAAGATT
1 AAGATTGCATATCCTT-AAGATT
29053167 ATATTTCCAT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
33 5 0.10
34 1 0.02
35 1 0.02
36 32 0.64
38 6 0.12
41 5 0.10
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (35 bp):
AAGATTGCATATCCTTAAGATTGCATATCATATCT
Found at i:29055395 original size:21 final size:21
Alignment explanation
Indices: 29055353--29055395 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
29055343 GCTGTTGAGA
* *
29055353 AGGAAGTTGCTGCTGCAGAAG
1 AGGAAGTTGCTGCTGAAAAAG
*
29055374 AGGAAGTTGTTGCTGAAAAAG
1 AGGAAGTTGCTGCTGAAAAAG
29055395 A
1 A
29055396 ATTTGCTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAAAAG
Found at i:29056745 original size:30 final size:30
Alignment explanation
Indices: 29056711--29056768 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
29056701 AAATAGGGCA
* *
29056711 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTACCAAAGTC
29056741 TAGGGGCAAAATGGTCATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTTTACCAAAG
29056769 ATATAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTACCAAAGTC
Found at i:29057218 original size:47 final size:47
Alignment explanation
Indices: 29057108--29057376 Score: 158
Period size: 47 Copynumber: 5.7 Consensus size: 47
29057098 TGATTTGTGC
*** **
29057108 GCCAGTGTAAGACATGTCTGGGACAT-GTTTCGGCCACATTGTGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCCACAGAGTGAGA
*
29057154 GCCAGTGTAAGACCATGTCTGGGACATGGCAACGG-CACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCAACGGCCACAGAG-TGAGA
* * * * * * *
29057202 GCCAGAGTAAGACATGTCTGGGACAT-GCATCGACCTCGACAGAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCCAC-AGAGTGAGA
** * * * * * *
29057249 GCCAGTGTAAGATGTGTTTGGGACA-CGCATCGGCTA-AGAGT-TGT
1 GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCCACAGAGTGAGA
* * * * *
29057293 GCTAGTGTAAGACATGTCTGGGACAT-GCATCAG-CACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCCAC-AG-A-GTGAGA
* * *
29057341 GCCAGTATAAGACCATTTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCAACGGC
29057377 AATATATCCC
Statistics
Matches: 168, Mismatches: 40, Indels: 25
0.72 0.17 0.11
Matches are distributed among these distances:
43 1 0.01
44 27 0.16
45 4 0.02
46 18 0.11
47 66 0.39
48 33 0.20
49 13 0.08
50 6 0.04
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCAACGGCCACAGAGTGAGA
Found at i:29057271 original size:94 final size:91
Alignment explanation
Indices: 29057108--29057366 Score: 236
Period size: 94 Copynumber: 2.8 Consensus size: 91
29057098 TGATTTGTGC
** * ** *
29057108 GCCAGTGTAAGACATGTCTGGGACATGTTTCGGCCACATTGTGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACACAGAGAGAGCCAGTGTAAGACCATGTC
*
29057173 TGGGACATGGCAACGGC-ACAGAGATGAGT
66 TGGGACA-CGCAACGGCTA-AGAG-T-AGT
* * * **
29057202 GCCAGAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGAGATAGCCAGTGTAAGA-TGTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCAC-ACAGAGAGAGCCAGTGTAAGACCATGT
* * *
29057266 TTGGGACACGCATCGGCTAAGAGTTGT
65 CTGGGACACGCAACGGCTAAGAGTAGT
* * * * *
29057293 GCTAGTGTAAGACATGTCTGGGACATGCATC-AGCACGCGTATATGAGAGCCAGTATAAGACCAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACAC--AGA-GAGAGCCAGTGTAAGACCAT
*
29057357 TTCTGGGACA
63 GTCTGGGACA
29057367 TGGCATCGGC
Statistics
Matches: 132, Mismatches: 27, Indels: 13
0.77 0.16 0.08
Matches are distributed among these distances:
89 1 0.01
90 3 0.02
91 33 0.25
92 15 0.11
93 20 0.15
94 43 0.33
95 17 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (91 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACCACACAGAGAGAGCCAGTGTAAGACCATGTC
TGGGACACGCAACGGCTAAGAGTAGT
Found at i:29057315 original size:44 final size:45
Alignment explanation
Indices: 29057108--29057323 Score: 177
Period size: 47 Copynumber: 4.7 Consensus size: 45
29057098 TGATTTGTGC
** * ** * *
29057108 GCCAGTGTAAGACATGTCTGGGACATGTTTCGGCCACATTGTGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGT-TGT
* *
29057154 GCCAGTGTAAGACCATGTCTGGGACATGGCAACGGC-ACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACAGAG-T-TGT
* * * *
29057202 GCCAGAGTAAGACATGTCTGGGACATGCATCGACCTCGACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCG-GCT--ACAGAGTTGT
** * *
29057249 GCCAGTGTAAGATGTGTTTGGGACACGCATCGGCTA-AGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGT
*
29057293 GCTAGTGTAAGACATGTCTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
29057324 AGCACGCGTA
Statistics
Matches: 137, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
43 5 0.04
44 27 0.20
46 19 0.14
47 60 0.44
48 20 0.15
50 6 0.04
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACAGAGTTGT
Found at i:29060131 original size:43 final size:43
Alignment explanation
Indices: 29060070--29060164 Score: 181
Period size: 43 Copynumber: 2.2 Consensus size: 43
29060060 GGAGGGGTCA
*
29060070 CACGCCCGTGTGCCCCAACCATGTCCCTTACACGGCAAAGTGG
1 CACGCCCGTATGCCCCAACCATGTCCCTTACACGGCAAAGTGG
29060113 CACGCCCGTATGCCCCAACCATGTCCCTTACACGGCAAAGTGG
1 CACGCCCGTATGCCCCAACCATGTCCCTTACACGGCAAAGTGG
29060156 CACGCCCGT
1 CACGCCCGT
29060165 GTCTCCGGTC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.21, C:0.41, G:0.22, T:0.16
Consensus pattern (43 bp):
CACGCCCGTATGCCCCAACCATGTCCCTTACACGGCAAAGTGG
Found at i:29067863 original size:44 final size:43
Alignment explanation
Indices: 29067815--29067928 Score: 133
Period size: 44 Copynumber: 2.6 Consensus size: 43
29067805 AAAAGAAAAC
*
29067815 ATAATTAAGTTAAAAAGTTTT-AAAAAATTAAATAAAAATATTGA
1 ATAATTAA--TAAAAAGTTTTAAAAAAATTAAATAAAAATATGGA
* * *
29067859 ATAATTTATAGAAATTTTTAAAAAAAATTAAATAAAAATATGGA
1 ATAATTAATAAAAAGTTTT-AAAAAAATTAAATAAAAATATGGA
*
29067903 ATAATTTATAGAAAA-TTTTAAAAAAA
1 ATAATTAATA-AAAAGTTTTAAAAAAA
29067929 ATCTAACTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
42 9 0.15
43 7 0.11
44 43 0.69
45 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (43 bp):
ATAATTAATAAAAAGTTTTAAAAAAATTAAATAAAAATATGGA
Found at i:29067929 original size:44 final size:44
Alignment explanation
Indices: 29067836--29067930 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
29067826 AAAAAGTTTT
* *
29067836 AAAAAATTAAATAAAAATATTGAATAATTTATAGAAATTTTTAA
1 AAAAAATTAAATAAAAATATGGAATAATTTATAGAAAATTTTAA
29067880 AAAAAATTAAATAAAAATATGGAATAATTTATAGAAAATTTTAA
1 AAAAAATTAAATAAAAATATGGAATAATTTATAGAAAATTTTAA
29067924 AAAAAAT
1 AAAAAAT
29067931 CTAACTTCCT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (44 bp):
AAAAAATTAAATAAAAATATGGAATAATTTATAGAAAATTTTAA
Found at i:29071203 original size:40 final size:40
Alignment explanation
Indices: 29071129--29071380 Score: 305
Period size: 40 Copynumber: 6.3 Consensus size: 40
29071119 GATAACCAGA
*
29071129 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * * * *
29071169 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
* *
29071209 CTAATACCTGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * * * *
29071249 CTATGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCCGGG
29071289 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
* * *
29071329 CTAAGACCCGAGGGCATTTGTGCTAGTTGTTATATCC-GG
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
29071368 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
29071381 ATACTTGGGT
Statistics
Matches: 178, Mismatches: 29, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
38 1 0.01
39 16 0.09
40 157 0.88
41 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (40 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGG
Found at i:29071271 original size:80 final size:80
Alignment explanation
Indices: 29071129--29071380 Score: 402
Period size: 80 Copynumber: 3.2 Consensus size: 80
29071119 GATAACCAGA
*
29071129 CTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
29071194 GTGATTATATCCGGG
66 GTGATTATATCCGGG
* *
29071209 CTAATACCTGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
29071274 GTGATTATATCCGGG
66 GTGATTATATCCGGG
* * * *
29071289 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAGGGCATTTGTGCTA
1 CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
29071354 GTTG-TTATATCC-GG
66 G-TGATTATATCCGGG
29071368 CTAA-ATCCCGAAG
1 CTAAGA-CCCGAAG
29071381 ATACTTGGGT
Statistics
Matches: 161, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
78 1 0.01
79 13 0.08
80 145 0.90
81 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (80 bp):
CTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTATGCTA
GTGATTATATCCGGG
Found at i:29089618 original size:223 final size:224
Alignment explanation
Indices: 29089230--29089678 Score: 864
Period size: 223 Copynumber: 2.0 Consensus size: 224
29089220 GACAATTAGA
29089230 GGTCATGCCTTATATTTATAGATTCCCTTTTGAGTCTAGTTTTGTTAGAAACAAACGGTATAAGT
1 GGTCATGCCTTATATTTATAGATTCCCTTTTGAGTCTAGTTTTGTTAGAAACAAACGGTATAAGT
29089295 ATTGAAGCTCTGTACAGGGAGATATCTAAGTCGTAGTGCATGAAGGTCACAGTAGTCGAACCCTG
66 ATTGAAGCTCTGTACAGGGAGATATCTAAGTCGTAGTGCATGAAGGTCACAGTAGTCGAACCCTG
*
29089360 AAACAGGGGTGACTTTAACTAATAAACTGTACTAATTGGCCTGACC-AAAATTCTAGAAAAAAAT
131 AAACAGGGGTGACTTTAACTAATAAACTGTACTAATTGACCTGACCAAAAATTCTAGAAAAAAAT
*
29089424 CTGTAGGTGGATATATGAGTCTAGTTTTG
196 CTGTAGATGGATATATGAGTCTAGTTTTG
29089453 GGTCATGCCTTATATTTATAGATTCCCTTTTGAGTCTAGTTTTGTTAGAAACAAACGGTATAAGT
1 GGTCATGCCTTATATTTATAGATTCCCTTTTGAGTCTAGTTTTGTTAGAAACAAACGGTATAAGT
*
29089518 ATTGAAGCTCTGTACAGGGAGATATCTAAGTCGTAGTGCATGAAGGTCAGAGTAGTCGAACCCTG
66 ATTGAAGCTCTGTACAGGGAGATATCTAAGTCGTAGTGCATGAAGGTCACAGTAGTCGAACCCTG
29089583 AAACAGGGGTGACTTTAACTAATAAACTGTACTAATTGACCTGACCAAAAATTCTAGAAAAAAAT
131 AAACAGGGGTGACTTTAACTAATAAACTGTACTAATTGACCTGACCAAAAATTCTAGAAAAAAAT
29089648 CTGTAGATGGATATATGAGTCTAGTTTTG
196 CTGTAGATGGATATATGAGTCTAGTTTTG
29089677 GG
1 GG
29089679 GAAAATTTAC
Statistics
Matches: 222, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
223 174 0.78
224 48 0.22
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.31
Consensus pattern (224 bp):
GGTCATGCCTTATATTTATAGATTCCCTTTTGAGTCTAGTTTTGTTAGAAACAAACGGTATAAGT
ATTGAAGCTCTGTACAGGGAGATATCTAAGTCGTAGTGCATGAAGGTCACAGTAGTCGAACCCTG
AAACAGGGGTGACTTTAACTAATAAACTGTACTAATTGACCTGACCAAAAATTCTAGAAAAAAAT
CTGTAGATGGATATATGAGTCTAGTTTTG
Found at i:29091784 original size:48 final size:48
Alignment explanation
Indices: 29091711--29092126 Score: 593
Period size: 48 Copynumber: 9.0 Consensus size: 48
29091701 TACAAGATAA
*
29091711 ATATATATATGTGTTGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTG--GTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29091761 ATATGTATATGTGGTAAAGCCGAATGGC-----T---A-ATG--TGAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29091798 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29091846 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29091894 ATACGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29091942 ATACGCATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29091990 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29092038 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTG--A-A---AT---
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29092077 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29092125 AT
1 AT
29092127 GTGTGTATAT
Statistics
Matches: 333, Mismatches: 13, Indels: 42
0.86 0.03 0.11
Matches are distributed among these distances:
37 31 0.09
39 37 0.11
40 1 0.00
41 1 0.00
42 4 0.01
43 1 0.00
45 3 0.01
46 3 0.01
48 240 0.72
50 12 0.04
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:29092082 original size:39 final size:39
Alignment explanation
Indices: 29092038--29092117 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
29092028 TATGTATGAG
29092038 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
*
29092077 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
29092116 AT
1 AT
29092118 GTAGGAGATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.35, C:0.07, G:0.26, T:0.31
Consensus pattern (39 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
Found at i:29092317 original size:37 final size:37
Alignment explanation
Indices: 29092267--29092369 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
29092257 GGAAATATAT
29092267 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29092304 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29092341 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
29092370 GGACTATTCG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.24
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:29100583 original size:19 final size:19
Alignment explanation
Indices: 29100555--29100644 Score: 67
Period size: 19 Copynumber: 4.6 Consensus size: 19
29100545 ATTTTAAAAT
*
29100555 CAAGTGAAAATGA-TTTAA
1 CAAGTCAAAATGATTTTAA
* *
29100573 CCAAGTCAAAATGATCTCAA
1 -CAAGTCAAAATGATTTTAA
* * *
29100593 TTAAGTTAAAATCATTTTAA
1 -CAAGTCAAAATGATTTTAA
29100613 CACA-TCAAAATGATTTTCAAA
1 CA-AGTCAAAATGATTTT--AA
29100634 CAAGTCAAAAT
1 CAAGTCAAAAT
29100645 TGCTCTAGGC
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
19 24 0.44
20 19 0.35
21 11 0.20
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (19 bp):
CAAGTCAAAATGATTTTAA
Found at i:29104719 original size:74 final size:74
Alignment explanation
Indices: 29104608--29104747 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 74
29104598 TATCCATCGA
* * * *
29104608 CAAAGAAAAAGTAAAACTCCCTTGCTCGTGCAGGGATTCGAACACAAGACCTTCAGCAAACTCAC
1 CAAAGAAAAAGTAAAACTCCCTTACTCGCGCAAGGATTCGAACACAAGACCTTCAACAAACTCAC
29104673 ATCAATCAG
66 ATCAATCAG
29104682 CAAAGCAAAAA-TAAAACT-CCTTCACTCGCGCAAGGATTCGAACACAAGACCTTCAACAAACTC
1 CAAAG-AAAAAGTAAAACTCCCTT-ACTCGCGCAAGGATTCGAACACAAGACCTTCAACAAACTC
29104745 ACA
64 ACA
29104748 CTCCACCTAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
73 4 0.07
74 51 0.85
75 5 0.08
ACGTcount: A:0.41, C:0.29, G:0.14, T:0.16
Consensus pattern (74 bp):
CAAAGAAAAAGTAAAACTCCCTTACTCGCGCAAGGATTCGAACACAAGACCTTCAACAAACTCAC
ATCAATCAG
Found at i:29107503 original size:25 final size:25
Alignment explanation
Indices: 29107469--29107517 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
29107459 CTCATACCAG
29107469 ATAGAATGGCTCAGGTAAATTTGTT
1 ATAGAATGGCTCAGGTAAATTTGTT
29107494 ATAGAATGGCTCAGGTAAATTTGT
1 ATAGAATGGCTCAGGTAAATTTGT
29107518 GTTAAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (25 bp):
ATAGAATGGCTCAGGTAAATTTGTT
Found at i:29107991 original size:12 final size:12
Alignment explanation
Indices: 29107976--29108022 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
29107966 GAAAAAGGAA
29107976 GAAAAGAAAGAG
1 GAAAAGAAAGAG
*
29107988 GAAAAGAAAGAA
1 GAAAAGAAAGAG
*
29108000 GAGAAA-AACGAG
1 GA-AAAGAAAGAG
*
29108012 GAGAAGAAAGA
1 GAAAAGAAAGA
29108023 AGTCAAGGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
11 2 0.07
12 23 0.82
13 3 0.11
ACGTcount: A:0.66, C:0.02, G:0.32, T:0.00
Consensus pattern (12 bp):
GAAAAGAAAGAG
Found at i:29107992 original size:21 final size:21
Alignment explanation
Indices: 29107957--29108005 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
29107947 TAGGACCTGC
*
29107957 AAAAG-AAGAGAAAAAGGAAG
1 AAAAGAAAGAGAAAAAGAAAG
*
29107977 AAAAGAAAGAGGAAAAGAAAG
1 AAAAGAAAGAGAAAAAGAAAG
*
29107998 AAGAGAAA
1 AAAAGAAA
29108006 AACGAGGAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAAGAAAGAGAAAAAGAAAG
Found at i:29108000 original size:24 final size:24
Alignment explanation
Indices: 29107973--29108024 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
29107963 AGAGAAAAAG
29107973 GAAGA-AAAGAAAGAGGAAAAGAAA
1 GAAGAGAAA-AAAGAGGAAAAGAAA
* *
29107997 GAAGAGAAAAACGAGGAGAAGAAA
1 GAAGAGAAAAAAGAGGAAAAGAAA
29108021 GAAG
1 GAAG
29108025 TCAAGGAAGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.33, T:0.00
Consensus pattern (24 bp):
GAAGAGAAAAAAGAGGAAAAGAAA
Found at i:29110495 original size:16 final size:16
Alignment explanation
Indices: 29110471--29110501 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29110461 TTATTTTTTT
29110471 AATTATTTGAATTAAA
1 AATTATTTGAATTAAA
*
29110487 AATTGTTTGAATTAA
1 AATTATTTGAATTAA
29110502 TACTAAATCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
AATTATTTGAATTAAA
Found at i:29112465 original size:20 final size:20
Alignment explanation
Indices: 29112440--29112504 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
29112430 AATTATTGTA
29112440 TGATTGCACATATGTGCCCT
1 TGATTGCACATATGTGCCCT
* * *
29112460 TGATTGTAC-TTTGGTACCGC-
1 TGATTGCACATAT-GTGCC-CT
29112480 TGATTGCACATATGTGCCCT
1 TGATTGCACATATGTGCCCT
29112500 TGATT
1 TGATT
29112505 ATACTTCGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
19 3 0.09
20 29 0.83
21 3 0.09
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
TGATTGCACATATGTGCCCT
Found at i:29112495 original size:40 final size:39
Alignment explanation
Indices: 29112440--29112700 Score: 236
Period size: 40 Copynumber: 6.5 Consensus size: 39
29112430 AATTATTGTA
*
29112440 TGATTGCACATATGTGCCCTTGATTGTACTTTGGTACCGC
1 TGATTGCACATATGTGCCCCTGATTGTACTTTGGTACC-C
* * *
29112480 TGATTGCACATATGTGCCCTTGATTATACTTCGGTACCCC
1 TGATTGCACATATGTGCCCCTGATTGTACTTTGGTA-CCC
* * * * *
29112520 TGATTGCACATACGTGCCCCTGATTATACTTCGTTACCTT
1 TGATTGCACATATGTGCCCCTGATTGTACTTTGGTACC-C
* * * *
29112560 TGATTGCACATACGTGTCCCAGTTTGTACTTTGGTACCC
1 TGATTGCACATATGTGCCCCTGATTGTACTTTGGTACCC
* * * *
29112599 TTGTTTGTACATATGTACCCCT-ATTTGTACTTTGATACCCC
1 -TGATTGCACATATGTGCCCCTGA-TTGTACTTTGGTA-CCC
* * * * *
29112640 TAATTGCACTTACGTGCCCCTGACTGTACTTTGGCAACCC
1 TGATTGCACATATGTGCCCCTGATTGTACTTTGG-TACCC
* *
29112680 TGAATGCACTTATGTGCCCCT
1 TGATTGCACATATGTGCCCCT
29112701 ATTTTTACTG
Statistics
Matches: 181, Mismatches: 33, Indels: 14
0.79 0.14 0.06
Matches are distributed among these distances:
39 2 0.01
40 172 0.95
41 7 0.04
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (39 bp):
TGATTGCACATATGTGCCCCTGATTGTACTTTGGTACCC
Found at i:29112523 original size:20 final size:20
Alignment explanation
Indices: 29112500--29112557 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
29112490 TATGTGCCCT
29112500 TGATTATACTTCGGTACCCC
1 TGATTATACTTCGGTACCCC
** * *
29112520 TGATTGCACATAC-GTGCCCC
1 TGATTATAC-TTCGGTACCCC
*
29112540 TGATTATACTTCGTTACC
1 TGATTATACTTCGGTACC
29112558 TTTGATTGCA
Statistics
Matches: 27, Mismatches: 9, Indels: 4
0.68 0.22 0.10
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (20 bp):
TGATTATACTTCGGTACCCC
Found at i:29112606 original size:20 final size:20
Alignment explanation
Indices: 29112581--29112640 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
29112571 ACGTGTCCCA
*
29112581 GTTTGTACTTTGGTACCCTT
1 GTTTGTACTTTGGTACCCCT
*
29112601 GTTTGTACATAT-GTACCCCT
1 GTTTGTAC-TTTGGTACCCCT
* *
29112621 ATTTGTACTTTGATACCCCT
1 GTTTGTACTTTGGTACCCCT
29112641 AATTGCACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.23, G:0.15, T:0.45
Consensus pattern (20 bp):
GTTTGTACTTTGGTACCCCT
Found at i:29112700 original size:20 final size:20
Alignment explanation
Indices: 29112644--29112700 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
29112634 TACCCCTAAT
* *
29112644 TGCACTTACGTGCCCCTGAC
1 TGCACTTATGTGCCCCTGAA
*
29112664 TGTACTT-TG-GCAACCCTGAA
1 TGCACTTATGTGC--CCCTGAA
29112684 TGCACTTATGTGCCCCT
1 TGCACTTATGTGCCCCT
29112701 ATTTTTACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
18 2 0.07
19 1 0.03
20 22 0.76
21 2 0.07
22 2 0.07
ACGTcount: A:0.18, C:0.33, G:0.19, T:0.30
Consensus pattern (20 bp):
TGCACTTATGTGCCCCTGAA
Found at i:29119881 original size:18 final size:18
Alignment explanation
Indices: 29119855--29119906 Score: 86
Period size: 18 Copynumber: 2.8 Consensus size: 18
29119845 TTGTTTGCAC
29119855 TTTGAGCATTGAATGCTCA
1 TTTG-GCATTGAATGCTCA
29119874 TTTGGCATTGAATGCTCA
1 TTTGGCATTGAATGCTCA
*
29119892 TTTGGCTTTGAATGC
1 TTTGGCATTGAATGC
29119907 CGATGGTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 28 0.88
19 4 0.12
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.40
Consensus pattern (18 bp):
TTTGGCATTGAATGCTCA
Found at i:29122558 original size:39 final size:40
Alignment explanation
Indices: 29122490--29122579 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 40
29122480 TTATTGTATG
* *
29122490 ATTGCACATACATGCTCCTGATTGTACTTCAGTACCCCTA
1 ATTGCACATACATGCCCCTAATTGTACTTCAGTACCCCTA
* * *
29122530 ATTGCACATA-GTGCCCCTAATTGTACTTCGGTACCCCTG
1 ATTGCACATACATGCCCCTAATTGTACTTCAGTACCCCTA
*
29122569 ATTCCACATAC
1 ATTGCACATAC
29122580 GTTCCCTTGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 33 0.77
40 10 0.23
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.31
Consensus pattern (40 bp):
ATTGCACATACATGCCCCTAATTGTACTTCAGTACCCCTA
Found at i:29122636 original size:20 final size:20
Alignment explanation
Indices: 29122607--29122677 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
29122597 TCAATACCTG
*
29122607 TGATTTTACTTACGTGCCCC
1 TGATTATACTTACGTGCCCC
* *
29122627 TGGTTATACTT-CAGTACCCC
1 TGATTATACTTAC-GTGCCCC
* ** *
29122647 TGAATGCATTTACGTGCCCC
1 TGATTATACTTACGTGCCCC
*
29122667 TGTTTATACTT
1 TGATTATACTT
29122678 TGGTAACTCT
Statistics
Matches: 35, Mismatches: 14, Indels: 4
0.66 0.26 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.18, C:0.27, G:0.15, T:0.39
Consensus pattern (20 bp):
TGATTATACTTACGTGCCCC
Found at i:29122690 original size:40 final size:40
Alignment explanation
Indices: 29122616--29122691 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
29122606 GTGATTTTAC
*
29122616 TTACGTGCCCCTGGTTATACTTCAGTACCCCTGAATGCAT
1 TTACGTGCCCCTGGTTATACTTCAGTAACCCTGAATGCAT
* ** *
29122656 TTACGTGCCCCTGTTTATACTTTGGTAACTCTGAAT
1 TTACGTGCCCCTGGTTATACTTCAGTAACCCTGAAT
29122692 AAAATAGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (40 bp):
TTACGTGCCCCTGGTTATACTTCAGTAACCCTGAATGCAT
Found at i:29125494 original size:34 final size:34
Alignment explanation
Indices: 29125438--29125510 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
29125428 CATGTTGTAT
29125438 TGAAATAGGCTAAGACCCAGACTGCCACTGATAC
1 TGAAATAGGCTAAGACCCAGACTGCCACTGATAC
* * * * ** *
29125472 TGAAATGGGCTCAGGCCTAGACTGTTACTGCTAC
1 TGAAATAGGCTAAGACCCAGACTGCCACTGATAC
29125506 TGAAA
1 TGAAA
29125511 GAGGGGCTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (34 bp):
TGAAATAGGCTAAGACCCAGACTGCCACTGATAC
Found at i:29136939 original size:18 final size:19
Alignment explanation
Indices: 29136916--29136951 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
29136906 GTTTGGGTAC
*
29136916 TGTTTAGCCGCCA-AGAGG
1 TGTTTAGCAGCCACAGAGG
29136934 TGTTTAGCAGCCACAGAG
1 TGTTTAGCAGCCACAGAG
29136952 AGGCCGTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.25, C:0.22, G:0.31, T:0.22
Consensus pattern (19 bp):
TGTTTAGCAGCCACAGAGG
Found at i:29145428 original size:40 final size:41
Alignment explanation
Indices: 29145349--29145538 Score: 258
Period size: 40 Copynumber: 4.7 Consensus size: 41
29145339 TTGGGGTTTA
*
29145349 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
29145390 AATCCGAGCTTGGTCTTGAAGGG-TTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
*
29145430 AGTCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
* * * * * * * * *
29145471 AA-CTGAACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCAT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
29145511 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
29145539 TGAGTCAGCG
Statistics
Matches: 126, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
40 68 0.54
41 58 0.46
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (41 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCAT
Found at i:29145455 original size:81 final size:81
Alignment explanation
Indices: 29145349--29145538 Score: 258
Period size: 81 Copynumber: 2.3 Consensus size: 81
29145339 TTGGGGTTTA
* * *
29145349 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCATAATCCGAGCTTGGTCTT-GAAGGG
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCATAA-CCGAACCTAGT-TTCGAAGGG
* * *
29145413 -TTTTGAGCCAGTGTCAT
64 CCTTCGAGCCAATGTCAT
* * *
29145430 AGTCCGAGCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAACTGAACCTAGTTTCGAAGGGCC
1 AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
*
29145495 TTCGGGCCAATGTCAT
66 TTCGAGCCAATGTCAT
29145511 AATCCGAGCTTGGTCTCGAAGGGCTTTT
1 AATCCGAGCTTGGTCTCGAAGGGCTTTT
29145539 TGAGTCAGCG
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 2 0.02
80 13 0.14
81 81 0.84
ACGTcount: A:0.21, C:0.22, G:0.28, T:0.29
Consensus pattern (81 bp):
AATCCGAGCTTGGTCTCGAAGGGCTTTTGAACCAGTGTCATAACCGAACCTAGTTTCGAAGGGCC
TTCGAGCCAATGTCAT
Found at i:29156125 original size:29 final size:29
Alignment explanation
Indices: 29156062--29156129 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29156052 TAATCAACCG
29156062 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29156091 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29156120 CGCACACTTA
1 CGCACACTTA
29156130 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29156299 original size:29 final size:29
Alignment explanation
Indices: 29156236--29156303 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29156226 TAATCAACCG
29156236 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29156265 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29156294 CGCACACTTA
1 CGCACACTTA
29156304 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29156446 original size:29 final size:30
Alignment explanation
Indices: 29156412--29156483 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
29156402 ACCAACCACG
*
29156412 CACACTTAGTGCCATGTAC-TTTAAACTCA
1 CACACTTAGTGCCATGTACATTTAAACCCA
*
29156441 CACACTTAGTG-C-TGTACAATTTAAACCCG
1 CACACTTAGTGCCATGTAC-ATTTAAACCCA
29156470 CACACTTAGTGCCA
1 CACACTTAGTGCCA
29156484 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 5 0.14
28 1 0.03
29 30 0.81
30 1 0.03
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (30 bp):
CACACTTAGTGCCATGTACATTTAAACCCA
Found at i:29156477 original size:174 final size:174
Alignment explanation
Indices: 29155951--29156452 Score: 959
Period size: 174 Copynumber: 2.9 Consensus size: 174
29155941 AACTCAAGGT
*
29155951 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
29156016 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29156081 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
29156125 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
29156190 GAAAATATATATTGCGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29156255 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
29156299 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
29156364 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAACCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29156429 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
29156453 TGTACAATTT
Statistics
Matches: 322, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 322 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:29165791 original size:40 final size:40
Alignment explanation
Indices: 29165732--29165919 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
29165722 GAGCATTGGA
29165732 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29165772 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29165812 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29165852 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29165892 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
29165920 ATGTGTTTGC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29174292 original size:40 final size:40
Alignment explanation
Indices: 29174233--29174420 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
29174223 GAGCATTGGA
29174233 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29174273 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29174313 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29174353 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29174393 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
29174421 ATGTGTTTGC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29177509 original size:48 final size:48
Alignment explanation
Indices: 29177438--29178103 Score: 1159
Period size: 48 Copynumber: 14.0 Consensus size: 48
29177428 AGATAAATAT
*
29177438 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177486 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177534 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177582 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177630 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177678 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177726 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29177774 ATATGTATATGTGGTAAAG-CGAATGGCTAGTGTGAAATA--TAT-AG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177818 A-A---ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177862 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29177910 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
29177958 ATATGTGTATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGAATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29178006 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
29178054 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
29178102 AT
1 AT
29178104 GTGTGTATAT
Statistics
Matches: 593, Mismatches: 17, Indels: 16
0.95 0.03 0.03
Matches are distributed among these distances:
40 13 0.02
41 20 0.03
43 3 0.01
44 6 0.01
45 4 0.01
47 20 0.03
48 527 0.89
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:29177703 original size:28 final size:28
Alignment explanation
Indices: 29177671--29177751 Score: 70
Period size: 28 Copynumber: 3.2 Consensus size: 28
29177661 TGTGAAATAT
29177671 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
* ***
29177699 GAATG-GCTA-G----TGT-G-AAATAT
1 GAATGAGATATGTATATGTGGTAAAGCC
29177719 GAATGAGATATGTATATGTGGTAAAGCC
1 GAATGAGATATGTATATGTGGTAAAGCC
29177747 GAATG
1 GAATG
29177752 GCTAGTGTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 16
0.61 0.13 0.26
Matches are distributed among these distances:
20 8 0.22
21 4 0.11
22 4 0.11
26 4 0.11
27 4 0.11
28 13 0.35
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (28 bp):
GAATGAGATATGTATATGTGGTAAAGCC
Found at i:29178296 original size:37 final size:37
Alignment explanation
Indices: 29178244--29178346 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
29178234 GGAAATATAT
*
29178244 TCCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
29178281 TTCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
29178318 TCCGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
29178347 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:29179381 original size:20 final size:20
Alignment explanation
Indices: 29179358--29179405 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
29179348 AGCTCCGTCC
29179358 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
29179378 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
29179398 AGCTCAAC
1 AGCTCAAC
29179406 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:29187746 original size:43 final size:42
Alignment explanation
Indices: 29187698--29187857 Score: 164
Period size: 43 Copynumber: 3.8 Consensus size: 42
29187688 TGTGTTTACA
29187698 TGTAAGACCATGTCTGGGACATTGGCATTGTATCGTGATTATG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTAT-GTGATTATG
* *
29187741 TGTAAGACCATGTCTAGGACATTGGCATCAT-TATATGATT-TCG
1 TGTAAGACCATGTCTGGGACATTGGCAT--TGTATGTGATTAT-G
* * * **
29187784 TGTAAGACAATGTCTGGGACATTGGCATCGATATGTGATAACA
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATGTGATTATG
* * *
29187827 TGTAAAACCATATCTGGGATA-TGGCATTGTA
1 TGTAAGACCATGTCTGGGACATTGGCATTGTA
29187858 CGGGCAAAGT
Statistics
Matches: 97, Mismatches: 14, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 83 0.86
44 3 0.03
45 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (42 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATGTGATTATG
Found at i:29190670 original size:20 final size:20
Alignment explanation
Indices: 29190645--29190700 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
29190635 GCCCATAAGT
29190645 GAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAAC
29190665 GAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAAC
**
29190685 GAGTTCGGAACTCAAC
1 GAACTCGG-ACTCAAC
29190701 CATCCTAGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.16
Consensus pattern (20 bp):
GAACTCGGACTCAACTCAAC
Found at i:29193039 original size:10 final size:10
Alignment explanation
Indices: 29193015--29193044 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
29193005 GATGGTTTAA
29193015 ATATATGTG-
1 ATATATGTGT
29193024 ATATATGTGT
1 ATATATGTGT
29193034 ATATATGTGT
1 ATATATGTGT
29193044 A
1 A
29193045 ATAAATCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (10 bp):
ATATATGTGT
Found at i:29193415 original size:32 final size:33
Alignment explanation
Indices: 29193379--29193442 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
29193369 ACAAGTAAGG
* *
29193379 ATGAACGTCC-AAGTACATGTATTAC-AAGGGAC
1 ATGAACATCCTAA-TACATGTATGACAAAGGGAC
*
29193411 ATGAACATCCTTATACATGTATGACAAAGGGA
1 ATGAACATCCTAATACATGTATGACAAAGGGA
29193443 GATGCTAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 20 0.74
33 7 0.26
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.23
Consensus pattern (33 bp):
ATGAACATCCTAATACATGTATGACAAAGGGAC
Found at i:29194636 original size:32 final size:33
Alignment explanation
Indices: 29194574--29194637 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 33
29194564 AACTAACATC
* *
29194574 TCCCTTTGTCATACATGTATAAGGATGTTCATG
1 TCCCTTTGTAATACATGTATAAGGACGTTCATG
*
29194607 TCCC-TTGTAATACATGTACT-TGGACGTTCAT
1 TCCCTTTGTAATACATGTA-TAAGGACGTTCAT
29194638 CCTTACTTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 22 0.81
33 5 0.19
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.39
Consensus pattern (33 bp):
TCCCTTTGTAATACATGTATAAGGACGTTCATG
Found at i:29195791 original size:50 final size:50
Alignment explanation
Indices: 29195654--29195798 Score: 141
Period size: 50 Copynumber: 2.9 Consensus size: 50
29195644 GACGTTTCAA
* * ** *
29195654 GCATGAAGCATGAATGATTTCAATGCATGGAGATGTTCTTTATCA-TTCAAAT
1 GCATG-AGCATGAATGATTTCAATGAAAGGAGA-CAT-TTTCTCATTTCAAAT
* * * * *
29195706 ACATGAGCATGGATGGTTTCAACTCATAGGA-ACATTTTCTCATTTCAAAT
1 GCATGAGCATGAATGATTTCAA-TGAAAGGAGACATTTTCTCATTTCAAAT
*
29195756 GCATGAGCATGAATGATTTCAAAGAAAGGAGACATTTTCTCAT
1 GCATGAGCATGAATGATTTCAATGAAAGGAGACATTTTCTCAT
29195799 CCAAATACAT
Statistics
Matches: 74, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
49 11 0.15
50 39 0.53
51 16 0.22
52 8 0.11
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (50 bp):
GCATGAGCATGAATGATTTCAATGAAAGGAGACATTTTCTCATTTCAAAT
Found at i:29204986 original size:25 final size:25
Alignment explanation
Indices: 29204958--29205042 Score: 111
Period size: 26 Copynumber: 3.4 Consensus size: 25
29204948 CTGGAGGCCT
*
29204958 AGCCTCTTTTAAT-AACTGGGGCAAA
1 AGCC-CTTTTGATAAACTGGGGCAAA
29204983 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCC-TTTTGATAAACTGGGGCAAA
*
29205009 AGCCCTTTTCGGTAAACTGGGGC-AA
1 AGCCCTTTT-GATAAACTGGGGCAAA
29205034 AGCCCTTTT
1 AGCCCTTTT
29205043 CTGTAACTAG
Statistics
Matches: 55, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.45
26 29 0.53
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:29205043 original size:25 final size:26
Alignment explanation
Indices: 29204971--29205066 Score: 126
Period size: 26 Copynumber: 3.8 Consensus size: 26
29204961 CTCTTTTAAT
* *
29204971 AACTGGGGCAAAAGCCCTTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
29204997 AACTGGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGGTA
*
29205023 AACTGGGGC-AAAGCCCTTTTCTGT-
1 AACTGGGGCAAAAGCCCTTTTCGGTA
* *
29205047 AACTAGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
29205067 GAAGTTCCTC
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
24 18 0.28
25 14 0.22
26 33 0.51
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGGTA
Found at i:29211544 original size:34 final size:34
Alignment explanation
Indices: 29211506--29211578 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
29211496 TTAGCCCCTC
* *
29211506 TTTCAATAGCAGTAGCAGTCTGGGCCTGAGCCCA
1 TTTCAATAACAGTAGCAGTCTAGGCCTGAGCCCA
* * * * *
29211540 TTTCAGTAATAGTGGTAGTCTAGGCCTTAGCCCA
1 TTTCAATAACAGTAGCAGTCTAGGCCTGAGCCCA
29211574 TTTCA
1 TTTCA
29211579 CTATAGTATG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.30
Consensus pattern (34 bp):
TTTCAATAACAGTAGCAGTCTAGGCCTGAGCCCA
Found at i:29214343 original size:21 final size:21
Alignment explanation
Indices: 29214301--29214343 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
29214291 TATCGTGGTA
*
29214301 GTGGTAGTAAAAGAGGTCATG
1 GTGGTAGTAAAAGAGGGCATG
29214322 GTGGTAG-AAAAGAGGGCGATG
1 GTGGTAGTAAAAGAGGGC-ATG
29214343 G
1 G
29214344 GACTAGATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.05, G:0.44, T:0.19
Consensus pattern (21 bp):
GTGGTAGTAAAAGAGGGCATG
Found at i:29216088 original size:40 final size:40
Alignment explanation
Indices: 29216006--29216227 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
29215996 AACCCAAGTA
* * *
29216006 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCAGAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
29216045 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
29216085 CCTTCGGGACTTAGCCCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-T-AGCACAAATG
29216125 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* * * *
29216165 CCTTCGGTACTTAGCCCGCATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
29216205 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
29216228 CATTCGAATA
Statistics
Matches: 164, Mismatches: 13, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
39 16 0.10
40 141 0.86
41 7 0.04
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:29216114 original size:80 final size:80
Alignment explanation
Indices: 29216006--29216227 Score: 347
Period size: 80 Copynumber: 2.8 Consensus size: 80
29215996 AACCCAAGTA
* * *
29216006 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCAGAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
29216070 TCAATAGCACAAAAG
66 TCAATAGCACAAAAG
*
29216085 CCTTCGGGACTTAGCCCGGATATAGCAACTCACACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
29216150 TCAATAGCACAAATG
66 TCAATAGCACAAAAG
* * ** *
29216165 CCTTCGGTACTTAGCCCGCATATAGTTACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATAT
29216228 CATTCGAATA
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
79 13 0.10
80 118 0.90
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:29220151 original size:43 final size:43
Alignment explanation
Indices: 29220101--29220258 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 43
29220091 ATGATTTGTG
*
29220101 TAAGACCACATCTGGGACGTTGGCATCGATTTGAGATATCGTC
1 TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATATCGTC
* * *
29220144 TAAGACCACGTCTGGGACGTTGGCATTGATTTCAGATATCGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATATCGTC
* * * * * *
29220187 TAAGACCACGTCTGGCACATTGGCATCAATTAGAGATTTTGT-
1 TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATATCGTC
* **
29220229 TGAAGACCATGTCT-GGACAATGGCATCGAT
1 T-AAGACCACGTCTGGGACGTTGGCATCGAT
29220259 ATGTAATTAC
Statistics
Matches: 98, Mismatches: 16, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
42 14 0.14
43 84 0.86
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (43 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATATCGTC
Found at i:29226099 original size:39 final size:40
Alignment explanation
Indices: 29225982--29226201 Score: 251
Period size: 39 Copynumber: 5.6 Consensus size: 40
29225972 GCTCCTCGTT
* *
29225982 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
29226022 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29226062 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29226101 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
29226140 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
29226181 C-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
29226202 AGACAGCATT
Statistics
Matches: 162, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 63 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:29226159 original size:79 final size:79
Alignment explanation
Indices: 29225982--29226197 Score: 253
Period size: 79 Copynumber: 2.7 Consensus size: 79
29225972 GCTCCTCGTT
* *
29225982 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
*
29226047 ATTTAGTAACTCGCA
65 AATTAGTAACTCGCA
* *
29226062 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCG
1 CAAATGCCTTCGGACTTAGCCCGGATA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCCG
*
29226124 GAATTAGTATCTCGCA
64 GAATTAGTAACTCGCA
* * * * *
29226140 CAAATGCCTTCGGATCTTAGTCCAGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTA
1 CAAATGCCTTCGGA-CTTAGCCCGGATATAGT-AATTCGCACAAATGCCTTCGGGACTTA
29226198 GCCCAGACAG
Statistics
Matches: 117, Mismatches: 12, Indels: 15
0.81 0.08 0.10
Matches are distributed among these distances:
78 47 0.40
79 52 0.44
80 17 0.15
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAGCCCGGATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
ATTAGTAACTCGCA
Found at i:29234049 original size:79 final size:78
Alignment explanation
Indices: 29233947--29234169 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
29233937 GCTCCTCATT
* *
29233947 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29234012 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
29234027 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
29234090 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
29234105 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
29234168 GA
63 GA
29234170 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:29234064 original size:39 final size:40
Alignment explanation
Indices: 29233947--29234169 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
29233937 GCTCCTCATT
* *
29233947 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
29233987 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29234027 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
29234066 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
29234105 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
29234146 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
29234170 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:29247074 original size:20 final size:20
Alignment explanation
Indices: 29247008--29247074 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
29246998 ATTTTGATAA
* *
29247008 ACATGGTATGTATAATATGC
1 ACATGATATGTATGATATGC
*
29247028 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
*
29247048 ACATGATATGTATGATAGGC
1 ACATGATATGTATGATATGC
29247068 ACATGAT
1 ACATGAT
29247075 GTATTCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:29247151 original size:24 final size:24
Alignment explanation
Indices: 29247124--29247205 Score: 146
Period size: 24 Copynumber: 3.4 Consensus size: 24
29247114 GAGGAAGTGC
29247124 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
29247148 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
29247172 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
29247196 AAAAGAGGCT
1 AAAAG-GGCT
29247206 AGGCCTCCGG
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
24 52 0.93
25 4 0.07
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:29250252 original size:40 final size:40
Alignment explanation
Indices: 29250175--29250352 Score: 245
Period size: 40 Copynumber: 4.5 Consensus size: 40
29250165 AAACCAAGTA
* * *
29250175 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
29250214 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
29250254 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
29250294 CCTTCGGGGCTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
29250334 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
29250353 TTATCATCCG
Statistics
Matches: 125, Mismatches: 11, Indels: 5
0.89 0.08 0.04
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:29265771 original size:29 final size:29
Alignment explanation
Indices: 29265686--29265841 Score: 205
Period size: 29 Copynumber: 5.5 Consensus size: 29
29265676 ATAGTAAGTC
* *
29265686 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
29265714 CGCACAC-TAGTGCTTA-ATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
29265741 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
29265770 CGCACACTTAGTGCTTACATAATCAAAC-
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * *
29265798 CTGCACACTTAGTGCTATGCA-ATTTAAACC
1 C-GCACACTTAGTGCT-TACATAATCAAACT
29265828 CGCACACTTAGTGC
1 CGCACACTTAGTGC
29265842 CAATCTCATG
Statistics
Matches: 118, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
27 22 0.19
28 20 0.17
29 72 0.61
30 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.12, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:29281928 original size:27 final size:26
Alignment explanation
Indices: 29281897--29282046 Score: 133
Period size: 27 Copynumber: 5.6 Consensus size: 26
29281887 TAAATTGTAC
29281897 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* *
29281924 TGCACTAAGTGTGCGAAATGGA-TATG-
1 AGCACTAAGTGTGCG--ATTGACTATGT
* *
29281950 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCG-ATTGACTATGT
* * *
29281978 GGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
29282005 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
29282032 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29282047 GGCTCAATAA
Statistics
Matches: 102, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
26 6 0.06
27 92 0.90
28 2 0.02
29 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:29282037 original size:54 final size:52
Alignment explanation
Indices: 29281897--29282046 Score: 149
Period size: 54 Copynumber: 2.8 Consensus size: 52
29281887 TAAATTGTAC
* *
29281897 AGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGGATATG
1 AGCACTAAGTGTGCGATT-GACTATGTAGCACTAAGTGTGCGAAATGGATACG
* ** * *
29281950 ATGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCG-ATTTGATTACG
1 A-GCACTAAGTGTGCG-ATTGACTATGTAGCACTAAGTGTGCGAAATGGA-TACG
* * *
29282004 TAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 -AGCACTAAGTGTGCGA-TTGACTATGTAGCACTAAGTGTGCG
29282047 GGCTCAATAA
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
53 6 0.08
54 70 0.88
55 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (52 bp):
AGCACTAAGTGTGCGATTGACTATGTAGCACTAAGTGTGCGAAATGGATACG
Found at i:29284699 original size:29 final size:29
Alignment explanation
Indices: 29284654--29284754 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 29
29284644 TCATTTATAT
* * *
29284654 GGCCCTATTCACGTTCATATGGACCATCA
1 GGCCCAATTCACATTCATATGGCCCATCA
*
29284683 GGCCCAATTCACATTCATATGGCCCATTA
1 GGCCCAATTCACATTCATATGGCCCATCA
* * * *
29284712 GGCCC-AGTCTCATTTATATGGCCCATCC
1 GGCCCAATTCACATTCATATGGCCCATCA
* *
29284740 GTCCCAAATCACATT
1 GGCCCAATTCACATT
29284755 ACATTCATGC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 22 0.37
29 37 0.63
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.28
Consensus pattern (29 bp):
GGCCCAATTCACATTCATATGGCCCATCA
Found at i:29287198 original size:43 final size:42
Alignment explanation
Indices: 29287139--29287311 Score: 161
Period size: 43 Copynumber: 4.1 Consensus size: 42
29287129 GATTACCGAG
* * * *
29287139 ATGTGTTTACATGTAAGACCATGTTTGGGACATTGGCATTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
* * * * *
29287181 ATCGTGATTACGTGTAAGACCTTGTCTAGGACATTCAG-ATCGTT
1 AT-GTGATTACATGTAAGACCATATCTGGGACATT-GGCATCG-T
* * *
29287225 ATATGATTTCATGTAAGACCATATCTGGGACATTGGCATCCAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCAT-CGT
* * *
29287268 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
29287309 ATG
1 ATG
29287312 AGCTTTATGT
Statistics
Matches: 105, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
41 4 0.04
42 9 0.09
43 87 0.83
44 5 0.05
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGT
Found at i:29289366 original size:18 final size:18
Alignment explanation
Indices: 29289332--29289368 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
29289322 GTAGTAGCAA
**
29289332 TAAACAGTGCAGTAATAG
1 TAAACAGTGCAAAAATAG
29289350 TAAACAGTGCAAAAATAG
1 TAAACAGTGCAAAAATAG
29289368 T
1 T
29289369 GAACTGTAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.22
Consensus pattern (18 bp):
TAAACAGTGCAAAAATAG
Found at i:29289734 original size:27 final size:26
Alignment explanation
Indices: 29289704--29289909 Score: 144
Period size: 27 Copynumber: 7.7 Consensus size: 26
29289694 AGTAAAACAG
* *
29289704 TCATCTTACCATAAAAGGGCAAAATAA
1 TCATTTTACCA-AAAGGGGCAAAATAA
* **
29289731 TCATTTCACCACATAA-GGTAAAAATAA
1 TCATTTTACCA-A-AAGGGGCAAAATAA
* * *
29289758 TCATTTTACCTCATAGGGGCAAAACAA
1 TCATTTTACC-AAAAGGGGCAAAATAA
* * * *
29289785 TCATTTAACCACAAGGGGTAAAATAG
1 TCATTTTACCAAAAGGGGCAAAATAA
* * *
29289811 TCATTTTACCACACAGGGGCAATACAA
1 TCATTTTACCA-AAAGGGGCAAAATAA
* * *
29289838 TCATTTTACCACAATGGGCAAAATAG
1 TCATTTTACCAAAAGGGGCAAAATAA
* * * *
29289864 TTATTTTACCACACAGGGGCAATAGAA
1 TCATTTTACCA-AAAGGGGCAAAATAA
29289891 TCATTTTACCACAAAGGGG
1 TCATTTTACCA-AAAGGGG
29289910 GTCTATGTAC
Statistics
Matches: 134, Mismatches: 40, Indels: 10
0.73 0.22 0.05
Matches are distributed among these distances:
26 40 0.30
27 92 0.69
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (26 bp):
TCATTTTACCAAAAGGGGCAAAATAA
Found at i:29289831 original size:53 final size:53
Alignment explanation
Indices: 29289695--29289909 Score: 234
Period size: 53 Copynumber: 4.0 Consensus size: 53
29289685 TCACATAAGA
* * * * * * * *
29289695 GTAAAACAGTCATCTTACCATAAAAGGGCAAAATAATCATTTCACCACATA-AG
1 GTAAAATAGTCATTTTACCACACAGGGGCAAAACAATCATTTTACCACA-AGGG
* * * *
29289748 GTAAAAATAATCATTTTACCTCATAGGGGCAAAACAATCATTTAACCACAAGGG
1 GT-AAAATAGTCATTTTACCACACAGGGGCAAAACAATCATTTTACCACAAGGG
* *
29289802 GTAAAATAGTCATTTTACCACACAGGGGCAATACAATCATTTTACCACAATGG
1 GTAAAATAGTCATTTTACCACACAGGGGCAAAACAATCATTTTACCACAAGGG
* * * *
29289855 GCAAAATAGTTATTTTACCACACAGGGGCAATAGAATCATTTTACCACAAAGGG
1 GTAAAATAGTCATTTTACCACACAGGGGCAAAACAATCATTTTACCAC-AAGGG
29289909 G
1 G
29289910 GTCTATGTAC
Statistics
Matches: 139, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
53 93 0.67
54 46 0.33
ACGTcount: A:0.41, C:0.20, G:0.15, T:0.24
Consensus pattern (53 bp):
GTAAAATAGTCATTTTACCACACAGGGGCAAAACAATCATTTTACCACAAGGG
Found at i:29291275 original size:20 final size:20
Alignment explanation
Indices: 29291252--29291299 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
29291242 AGCTCCGTCC
29291252 AGCTCAACTCAGCTCATTTG
1 AGCTCAACTCAGCTCATTTG
*** *
29291272 AGCTCGTTTCAGCTCGTTTG
1 AGCTCAACTCAGCTCATTTG
29291292 AGCTCAAC
1 AGCTCAAC
29291300 CGAGCTTACT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCAACTCAGCTCATTTG
Found at i:29293799 original size:42 final size:42
Alignment explanation
Indices: 29293737--29293833 Score: 142
Period size: 42 Copynumber: 2.3 Consensus size: 42
29293727 ATATTATGAG
* * * *
29293737 AGAAAATGAGAGGATTTTGAATGAAATTGAGAGAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
29293779 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
1 AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
*
29293821 AG-AAATGAAAGAA
1 AGAAAATGAGAGAA
29293834 AAAGAAAATG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
41 10 0.20
42 40 0.80
ACGTcount: A:0.57, C:0.04, G:0.24, T:0.15
Consensus pattern (42 bp):
AGAAAATGAGAGAATCTTGAATGAAATCGAGAAAAGAAACAA
Found at i:29293804 original size:21 final size:21
Alignment explanation
Indices: 29293738--29293804 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
29293728 TATTATGAGA
* *
29293738 GAAAATGAGAGGATTTTGAAT
1 GAAAATGAGAGAATATTGAAT
* * *** *
29293759 GAAATTGAGAGAAGAAACAAA
1 GAAAATGAGAGAATATTGAAT
*
29293780 GAAAATGAGAGAATCTTGAAT
1 GAAAATGAGAGAATATTGAAT
29293801 GAAA
1 GAAA
29293805 TCGAGAAAAG
Statistics
Matches: 31, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.25, T:0.19
Consensus pattern (21 bp):
GAAAATGAGAGAATATTGAAT
Found at i:29293866 original size:30 final size:30
Alignment explanation
Indices: 29293831--29293898 Score: 100
Period size: 30 Copynumber: 2.3 Consensus size: 30
29293821 AGAAATGAAA
* ** *
29293831 GAAAAAGAAAATGAGATTGAGATTGAGAGT
1 GAAAAAGAAAATGAGATTGAAAAAGAGAAT
29293861 GAAAAAGAAAATGAGATTGAAAAAGAGAAT
1 GAAAAAGAAAATGAGATTGAAAAAGAGAAT
29293891 GAAAAAGA
1 GAAAAAGA
29293899 GTTTGAGAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.59, C:0.00, G:0.26, T:0.15
Consensus pattern (30 bp):
GAAAAAGAAAATGAGATTGAAAAAGAGAAT
Found at i:29293875 original size:24 final size:24
Alignment explanation
Indices: 29293848--29293917 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
29293838 AAAATGAGAT
*
29293848 TGAGATTGAGAGTGAAAAAGAAAA
1 TGAGATTGAGAGAGAAAAAGAAAA
* * * *
29293872 TGAGATTGAAAAAGAGAATGAAAA
1 TGAGATTGAGAGAGAAAAAGAAAA
* *
29293896 AGAGTTTGAGAGAGAAAAAGAA
1 TGAGATTGAGAGAGAAAAAGAA
29293918 TGTGAACAAG
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.56, C:0.00, G:0.29, T:0.16
Consensus pattern (24 bp):
TGAGATTGAGAGAGAAAAAGAAAA
Found at i:29293881 original size:18 final size:18
Alignment explanation
Indices: 29293854--29293892 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
29293844 AGATTGAGAT
29293854 TGAGAGTGAAAAAGAAAA
1 TGAGAGTGAAAAAGAAAA
* *
29293872 TGAGATTGAAAAAGAGAA
1 TGAGAGTGAAAAAGAAAA
29293890 TGA
1 TGA
29293893 AAAAGAGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.15
Consensus pattern (18 bp):
TGAGAGTGAAAAAGAAAA
Found at i:29293946 original size:18 final size:19
Alignment explanation
Indices: 29293910--29293948 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
29293900 TTTGAGAGAG
*
29293910 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
29293929 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
29293947 AA
1 AA
29293949 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:29298086 original size:40 final size:40
Alignment explanation
Indices: 29298027--29298214 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
29298017 GAGCATTGGA
29298027 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29298067 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29298107 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29298147 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29298187 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
29298215 ATGTGTTTGC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29306591 original size:40 final size:40
Alignment explanation
Indices: 29306532--29306719 Score: 340
Period size: 40 Copynumber: 4.7 Consensus size: 40
29306522 GAGCATTGGA
29306532 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29306572 ATATATCCGGGCTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
29306612 ATATATCCGGGCTAGGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
29306652 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
29306692 ATATGTTCGGGCTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
29306720 ATGTGTTTGC
Statistics
Matches: 143, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 143 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:29308907 original size:29 final size:29
Alignment explanation
Indices: 29308844--29308911 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29308834 TAATCAACCG
29308844 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29308873 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29308902 CGCACACTTA
1 CGCACACTTA
29308912 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29309081 original size:29 final size:29
Alignment explanation
Indices: 29309018--29309085 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
29309008 TAATCAACCG
29309018 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
29309047 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
29309076 CGCACACTTA
1 CGCACACTTA
29309086 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:29309228 original size:29 final size:29
Alignment explanation
Indices: 29309194--29309265 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
29309184 ACCAACCATG
** * *
29309194 CACACTTAGTGCCATGTACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
* *
29309223 CACACTTAGTGCTATACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
29309252 CACACTTAGTGCCA
1 CACACTTAGTGCCA
29309266 ATCTCATGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:29309259 original size:174 final size:174
Alignment explanation
Indices: 29308733--29309234 Score: 941
Period size: 174 Copynumber: 2.9 Consensus size: 174
29308723 AACTCAAGGT
*
29308733 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
29308798 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29308863 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
29308907 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
29308972 GAAAATATATATTGCGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29309037 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
29309081 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGAAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* ** *
29309146 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAACCAACCATGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
29309211 ACTTTAAACTCACACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
29309235 TATACAATTT
Statistics
Matches: 320, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 320 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:29311491 original size:9 final size:9
Alignment explanation
Indices: 29311477--29311502 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
29311467 ATAGTGAATA
29311477 ACTTTTACT
1 ACTTTTACT
29311486 ACTTTTACT
1 ACTTTTACT
29311495 ACTTTTAC
1 ACTTTTAC
29311503 AATTTAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (9 bp):
ACTTTTACT
Found at i:29327363 original size:46 final size:44
Alignment explanation
Indices: 29327312--29327429 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 44
29327302 TGAGACGAGT
*
29327312 GCTAGTGTAAGACATGTCTGGGACATGTATCAGCCT-CGAGACATAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAG-CTACGAG--ATAA
* * * **
29327358 GCTAGTATAAGATATGCCTGGGACATGCATCAGCTACGAGATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAA
29327402 G-TCAGTGTAAGACCATGTCTGGGACATG
1 GCT-AGTGTAAGA-CATGTCTGGGACATG
29327430 GCTTCGACAC
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 1 0.02
44 11 0.18
45 15 0.25
46 33 0.55
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATAA
Found at i:29328451 original size:13 final size:13
Alignment explanation
Indices: 29328433--29328468 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
29328423 GCCGTGTGAA
29328433 GGACACGGGCTAG
1 GGACACGGGCTAG
29328446 GGACACGGGCTAG
1 GGACACGGGCTAG
*
29328459 AGACACGGGC
1 GGACACGGGC
29328469 ATGTGGTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.25, C:0.25, G:0.44, T:0.06
Consensus pattern (13 bp):
GGACACGGGCTAG
Found at i:29335793 original size:47 final size:47
Alignment explanation
Indices: 29335724--29335990 Score: 453
Period size: 47 Copynumber: 5.7 Consensus size: 47
29335714 TTTTAGGTGT
* *
29335724 ATATATGAGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
29335771 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
29335818 ATATGTGTGATAAAGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
29335865 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
29335912 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
29335959 ATATGTGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
29335991 AATATGTATG
Statistics
Matches: 208, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 208 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:29336243 original size:37 final size:37
Alignment explanation
Indices: 29336193--29336305 Score: 199
Period size: 37 Copynumber: 3.1 Consensus size: 37
29336183 GGAAATATAT
*
29336193 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
29336230 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
29336267 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
29336304 TC
1 TC
29336306 TGAGCTAAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:29337626 original size:40 final size:40
Alignment explanation
Indices: 29337571--29338000 Score: 668
Period size: 40 Copynumber: 10.8 Consensus size: 40
29337561 GAGAATTGAG
29337571 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
29337611 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29337651 AGTGATATATCCGAGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
29337691 AGTGATATATCCGGGCTAAGTCCC-AAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAA-GAGCATTCGTGCT
29337731 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29337771 AGCGATATATCCGGGCTAAGTCCCGAGGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29337811 AGTGATGTATCCGGACTAAGTCCCG-AGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29337850 AGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* **
29337890 AGTGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
29337930 GGTGTTATATCCGGGCTAGGTCCCAAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29337970 GGTGTTATATCCGGGCTAGGTCCC-AAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
29338001 ATCATGCTGG
Statistics
Matches: 363, Mismatches: 24, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 44 0.12
40 317 0.87
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:29342138 original size:47 final size:47
Alignment explanation
Indices: 29342077--29342335 Score: 455
Period size: 47 Copynumber: 5.5 Consensus size: 47
29342067 GTATATAGGA
*
29342077 GATAAGGCCGAATGGCCAATGTCATGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
* *
29342124 GTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
29342171 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
*
29342218 GATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
* *
29342265 GTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
*
29342312 GATAAGGCCGAATGGCTAATGTGA
1 GATAAGGCCGAATGGCCAATGTGA
29342336 AATATGTATG
Statistics
Matches: 201, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 201 1.00
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATATGT
Found at i:29342242 original size:22 final size:22
Alignment explanation
Indices: 29342168--29342242 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
29342158 CATGCATATG
*
29342168 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
* *
29342190 TGTGATGAATGT-GAACAT-GCATATA
1 TGTGAT-AAGGTCG-A-ATGGC-CA-A
29342215 TGTGATAAGGTCGAATGGCCAA
1 TGTGATAAGGTCGAATGGCCAA
29342237 TGTGAT
1 TGTGAT
29342243 GAATGTGAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 14 0.34
23 9 0.22
24 10 0.24
25 8 0.20
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGTCGAATGGCCAA
Found at i:29342374 original size:48 final size:47
Alignment explanation
Indices: 29342107--29342391 Score: 198
Period size: 47 Copynumber: 6.0 Consensus size: 47
29342097 GTCATGAATG
* * *
29342107 TGAACATGCATATATGTGTTAAGGCCGAATGGCCAATGTGATGA-ATG--
1 TGAACATG--TATATGTGGTAAGGCCGAATGGCTAATGTGA-AATATGTA
* * *
29342154 TGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA-ATG--
1 TGAACATGTATATGTG-G-TAAGGCCGAATGGCTAATGTGA-AATATGTA
* * * *
29342201 TGAACATGCATATATGTGATAAGGTCGAATGGCCAATGTGATGA-ATG--
1 TGAACATG--TATATGTGGTAAGGCCGAATGGCTAATGTGA-AATATGTA
* * *
29342248 TGAACATGCATATATGTGTTAAGGCCGAATGGCCAATGTGATGA-ATG--
1 TGAACATG--TATATGTGGTAAGGCCGAATGGCTAATGTGA-AATATGTA
*
29342295 TGAACATGCATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATGTA
1 TGAACATGTATATGTG-G-TAAGGCCGAATGGCTAATGTGAAATATGTA
* * *
29342344 TGAGATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TGA-ACATGTATATGTGGTAAGGCCGAATGGCTAATGTGAAATATGTA
29342392 GGCGATGTGC
Statistics
Matches: 213, Mismatches: 15, Indels: 19
0.86 0.06 0.08
Matches are distributed among these distances:
45 14 0.07
46 1 0.00
47 148 0.69
48 28 0.13
49 11 0.05
50 11 0.05
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (47 bp):
TGAACATGTATATGTGGTAAGGCCGAATGGCTAATGTGAAATATGTA
Found at i:29342417 original size:141 final size:137
Alignment explanation
Indices: 29342077--29342375 Score: 395
Period size: 141 Copynumber: 2.1 Consensus size: 137
29342067 GTATATAGGA
* * *
29342077 GATAAGGCCGAATGGCCAATGTCATGAATGTGAACATGCATATATGTGTTAAGGCCGAATGGCCA
1 GATAAAGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTG-T-A-GCCGAATGGCCA
*
29342142 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
63 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACA
29342207 TGCATATATGT
128 TG-ATATATGT
* * *
29342218 GATAAGGTCGAATGGCCAATGTGATGAATGTGAACATGCATATATGTGTTAAGGCCGAATGGCCA
1 GATAAAGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTG-T-A-GCCGAATGGCCA
*
29342283 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCTAATGTGA-AATATGTATGA
63 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATAA-ATG--TGA
*
29342347 GATATG-TATATGT
125 -ACATGATATATGT
*
29342360 GGTAAAGCCGAATGGC
1 GATAAAGCCGAATGGC
29342376 TAGTGTGAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
140 1 0.01
141 118 0.81
142 20 0.14
143 3 0.02
144 4 0.03
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (137 bp):
GATAAAGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGTAGCCGAATGGCCAATG
TGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGA
TATATGT
Found at i:29342645 original size:37 final size:37
Alignment explanation
Indices: 29342541--29342645 Score: 192
Period size: 37 Copynumber: 2.8 Consensus size: 37
29342531 ATATATTCCA
*
29342541 GGTAAGACCCGATGACTACGTGTGGAGATTATGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
29342578 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
1 GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
*
29342615 GGTAAGACCCGATAACTACGTGTGGAGATTT
1 GGTAAGACCCGATGACTACGTGTGGAGATTT
29342646 CGTCTGAGCT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 66 1.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (37 bp):
GGTAAGACCCGATGACTACGTGTGGAGATTTTGTCCG
Found at i:29344050 original size:38 final size:38
Alignment explanation
Indices: 29343999--29344082 Score: 141
Period size: 38 Copynumber: 2.2 Consensus size: 38
29343989 ATTTGATGTG
* * *
29343999 TATTCGAGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATTCGAGATAAATCCCGCAGGCCTAGTGCTGGTATTA
29344037 TATTCGAGATAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATTCGAGATAAATCCCGCAGGCCTAGTGCTGGTATTA
29344075 TATTCGAG
1 TATTCGAG
29344083 CCTTCGTGCC
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (38 bp):
TATTCGAGATAAATCCCGCAGGCCTAGTGCTGGTATTA
Found at i:29357082 original size:43 final size:43
Alignment explanation
Indices: 29356960--29357071 Score: 215
Period size: 43 Copynumber: 2.6 Consensus size: 43
29356950 GCTGGTATTA
29356960 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
29357003 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTT
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
29357046 TATTCGGGCCTTCGTGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
29357072 GTAATGCCGG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.10, C:0.27, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:29362430 original size:43 final size:43
Alignment explanation
Indices: 29362380--29362550 Score: 261
Period size: 43 Copynumber: 4.0 Consensus size: 43
29362370 GCTGGTATTA
*
29362380 TATTCGGGCCTTTATGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
29362423 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCAGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
29362466 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * * *
29362509 TAATCGGGCCTTCGTGCCTAGCAGGCGTAATGCCGGTGATGT
1 TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGT
29362551 AACAGCCCGA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.13, C:0.24, G:0.33, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:29365285 original size:20 final size:18
Alignment explanation
Indices: 29365260--29365296 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
29365250 ATTGCTAAGT
29365260 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
29365280 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
29365297 TATGAGTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:29372512 original size:42 final size:40
Alignment explanation
Indices: 29372436--29372513 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 40
29372426 GTTTTTGCAC
*
29372436 ACGGGCTAGGACACGGGCGTGTCATGGCCGTGTGAAGGAT
1 ACGGGCTAGGACACGGGCGTGCCATGGCCGTGTGAAGGAT
*
29372476 ACGGGCTAGGGACATGGGCATGTGCCA-GGCCGTGTGAA
1 ACGGGCTA-GGACACGGGC--GTGCCATGGCCGTGTGAA
29372514 AACCCCTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 8 0.24
41 9 0.27
42 11 0.33
43 5 0.15
ACGTcount: A:0.21, C:0.21, G:0.42, T:0.17
Consensus pattern (40 bp):
ACGGGCTAGGACACGGGCGTGCCATGGCCGTGTGAAGGAT
Found at i:29377770 original size:16 final size:16
Alignment explanation
Indices: 29377749--29377780 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
29377739 AAATTGAACC
29377749 AAAAATCATATTTTTG
1 AAAAATCATATTTTTG
*
29377765 AAAAATTATATTTTTG
1 AAAAATCATATTTTTG
29377781 CCACTAAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (16 bp):
AAAAATCATATTTTTG
Found at i:29380487 original size:17 final size:18
Alignment explanation
Indices: 29380460--29380500 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
29380450 GGACCGAAGT
29380460 GGGTCGTGTGGGCC-ACAC
1 GGGT-GTGTGGGCCTACAC
*
29380478 GGGTGTGTGGGCCTTCAC
1 GGGTGTGTGGGCCTACAC
29380496 GGGTG
1 GGGTG
29380501 AACCACACGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.07, C:0.22, G:0.49, T:0.22
Consensus pattern (18 bp):
GGGTGTGTGGGCCTACAC
Found at i:29381955 original size:42 final size:42
Alignment explanation
Indices: 29381925--29382005 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
29381915 CTTATATGGG
**
29381925 ATTTCATTTTGATGCCATAT-CTCAGATATGGTCTTACACGAA
1 ATTTCATAATGATGCCATATCCT-AGATATGGTCTTACACGAA
*
29381967 ATTTCATAATGATGTCATATCCTAGATATGGTCTTACAC
1 ATTTCATAATGATGCCATATCCTAGATATGGTCTTACAC
29382006 CTAGTCTCGG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 33 0.94
43 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (42 bp):
ATTTCATAATGATGCCATATCCTAGATATGGTCTTACACGAA
Found at i:29386332 original size:25 final size:25
Alignment explanation
Indices: 29386286--29386333 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
29386276 TTCAATTTTT
*
29386286 AATAAATATATATGTATTATTTGAC
1 AATAAATATATATGTATAATTTGAC
*
29386311 AATAAATCTCATATGTA-AATTTG
1 AATAAATAT-ATATGTATAATTTG
29386334 CTATTAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (25 bp):
AATAAATATATATGTATAATTTGAC
Found at i:29390162 original size:40 final size:40
Alignment explanation
Indices: 29390107--29390270 Score: 265
Period size: 40 Copynumber: 4.1 Consensus size: 40
29390097 GAATACACAT
* * *
29390107 CACCAGCATGAATGCTCTTCGGGACCTAGCCTGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACCTAGCCCGGATATAA
*
29390147 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACCTAGCCCGGATATAA
* *
29390187 CACCAGCACGAATGCTCTTCGAGACCTAGCCCGAATGTAA
1 CACCAGCACGAATGCTCTTCGAGACCTAGCCCGGATATAA
*
29390227 CACCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGAGACCTAGCCCGGATATAA
29390267 CACC
1 CACC
29390271 TGTGACAGCC
Statistics
Matches: 114, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 114 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGAGACCTAGCCCGGATATAA
Found at i:29392003 original size:40 final size:40
Alignment explanation
Indices: 29391948--29392137 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
29391938 CGGATGATAA
29391948 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
29391988 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * *
29392028 CC-GGCTAAG-CTCGAAGGCATTTGTGCGAGTTACCAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
29392066 CCAGGCTAAGTCCCGAAGGC-TTTGGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTT-GTGCGAGTTACTAAT-T
* *
29392106 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
29392138 AGCTATATCT
Statistics
Matches: 135, Mismatches: 10, Indels: 10
0.87 0.06 0.06
Matches are distributed among these distances:
38 28 0.21
39 18 0.13
40 86 0.64
41 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:29392094 original size:78 final size:80
Alignment explanation
Indices: 29391944--29392137 Score: 279
Period size: 78 Copynumber: 2.5 Consensus size: 80
29391934 TATTCGGATG
* * *
29391944 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCAGGCTAAGTCCCGAAGGCA
29392009 TTTGTGCGAGTTACT
66 TTTGTGCGAGTTACT
* *
29392024 A-ATTCC-GGCTAAG-CTCGAAGGCATTTGTGCGAGTTACCAAATCCAGGCTAAGTCCCGAAGGC
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCAGGCTAAGTCCCGAAGGC
29392086 -TTTGGTGCGAGTTACT
65 ATTT-GTGCGAGTTACT
* *
29392102 ATAACCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
29392138 AGCTATATCT
Statistics
Matches: 100, Mismatches: 9, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
77 3 0.03
78 60 0.60
79 15 0.15
80 22 0.22
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAATCCAGGCTAAGTCCCGAAGGCA
TTTGTGCGAGTTACT
Found at i:29399994 original size:39 final size:40
Alignment explanation
Indices: 29399920--29400103 Score: 217
Period size: 37 Copynumber: 4.8 Consensus size: 40
29399910 CAGATGATAA
29399920 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
29399959 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* * * *
29399998 CC-GGCTAAG-CTCGAAGGC-GTTGTGCAAGTTAC-AAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
* *
29400034 CCAGGCTAAGT-CCGAAGGC--TTGTGCGAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-T
*
29400071 CCGGGCTAATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGT
29400104 AGCTATATCC
Statistics
Matches: 125, Mismatches: 10, Indels: 18
0.82 0.07 0.12
Matches are distributed among these distances:
36 26 0.21
37 33 0.26
38 9 0.07
39 29 0.23
40 19 0.15
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATT
Found at i:29400041 original size:37 final size:38
Alignment explanation
Indices: 29399923--29400128 Score: 196
Period size: 37 Copynumber: 5.4 Consensus size: 38
29399913 ATGATAACCG
29399923 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
1 GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
29399961 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATTCC
1 -GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAATTCC
* * *
29400000 GGCTAAG-CTCGAAGGC-GTTGTGCAAGTTAC-AAATCC
1 GGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTAATTCC
*
29400036 AGGCTAAGTCCGAAGGC--TTGTGCGAGTTACT-ATAACC
1 -GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAT-TCC
*
29400073 GGGCTAATGTCCCGAAGGCATTTGAGCGAG-TAGCT-ATATCC
1 -GGCTAA-GT-CCGAAGGCATTTGTGCGAGTTA-CTAAT-TCC
* *
29400114 GGTTAAATCCGAAGG
1 GGCTAAGTCCGAAGG
29400129 TACGTGATTG
Statistics
Matches: 144, Mismatches: 11, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
36 27 0.19
37 32 0.22
38 17 0.12
39 27 0.19
40 26 0.18
41 15 0.10
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAATTCC
Found at i:29406900 original size:48 final size:48
Alignment explanation
Indices: 29406858--29406951 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
29406848 TTTGGGTGTG
* *
29406858 AGTTACCTTGATTTGTCTACGGGCCATGGTATTGGTATTTTGGAGAAA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGGAGAAA
29406906 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGGAGA
1 AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGGAGA
29406952 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.22, C:0.13, G:0.29, T:0.36
Consensus pattern (48 bp):
AGTTACCTTGATTTGGCTACGGGCCATGGTATAGGTATTTTGGAGAAA
Done.