Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 25 of 325
Found at i:9434478 original size:16 final size:16
Alignment explanation
Indices: 9434457--9434487 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9434447 ACATTAGGTG
9434457 AAAAATTAAATTAAAT
1 AAAAATTAAATTAAAT
9434473 AAAAATTAAATTAAA
1 AAAAATTAAATTAAA
9434488 ACACAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTAAATTAAAT
Found at i:9435617 original size:38 final size:38
Alignment explanation
Indices: 9435565--9435638 Score: 112
Period size: 38 Copynumber: 1.9 Consensus size: 38
9435555 TTTACCCCAC
* * *
9435565 ACTTGCTTTTAAAAGAATCTTTTAACATTCTCCAATCG
1 ACTTGCTCTGAAAAGAATCTTATAACATTCTCCAATCG
*
9435603 ACTTGCTCTGAAAAGCATCTTATAACATTCTCCAAT
1 ACTTGCTCTGAAAAGAATCTTATAACATTCTCCAAT
9435639 TGCCAATTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (38 bp):
ACTTGCTCTGAAAAGAATCTTATAACATTCTCCAATCG
Found at i:9446242 original size:21 final size:21
Alignment explanation
Indices: 9446216--9446256 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9446206 AGACGAGCAA
* *
9446216 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
9446237 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
9446257 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:9452253 original size:14 final size:15
Alignment explanation
Indices: 9452221--9452267 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
9452211 AATTTATTGA
* *
9452221 ATTTGTAAATAAAAT
1 ATTTTTAAACAAAAT
9452236 -TTTTTAAA-AAAAT
1 ATTTTTAAACAAAAT
*
9452249 ATTTTGAAACAAAAT
1 ATTTTTAAACAAAAT
9452264 ATTT
1 ATTT
9452268 ATCCAAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 5 0.18
14 14 0.50
15 9 0.32
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.43
Consensus pattern (15 bp):
ATTTTTAAACAAAAT
Found at i:9499815 original size:17 final size:17
Alignment explanation
Indices: 9499785--9499818 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
9499775 TAAAAATAAA
9499785 ACTTTACAACTTTGGCC
1 ACTTTACAACTTTGGCC
9499802 ACTTTGACAA-TTTGGCC
1 ACTTT-ACAACTTTGGCC
9499819 TGATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (17 bp):
ACTTTACAACTTTGGCC
Found at i:9501424 original size:60 final size:60
Alignment explanation
Indices: 9501331--9501452 Score: 181
Period size: 60 Copynumber: 2.0 Consensus size: 60
9501321 TAATGTTGGG
* * *
9501331 TAGATGACGACTTCAAGCCTCGCCATATTGTCCTAAGAACTCTCAATGACAACCTCTACA
1 TAGATGACAACTTCAAGCCTCGCCACATTGTCCTAAAAACTCTCAATGACAACCTCTACA
* * * *
9501391 TAGATTACAACTTCAGGGCTCGCCACATTGTCCTAAAAACTCTCAATGACATCCTCTACA
1 TAGATGACAACTTCAAGCCTCGCCACATTGTCCTAAAAACTCTCAATGACAACCTCTACA
9501451 TA
1 TA
9501453 ACATATCATC
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.26
Consensus pattern (60 bp):
TAGATGACAACTTCAAGCCTCGCCACATTGTCCTAAAAACTCTCAATGACAACCTCTACA
Found at i:9501889 original size:240 final size:243
Alignment explanation
Indices: 9501456--9501907 Score: 712
Period size: 240 Copynumber: 1.9 Consensus size: 243
9501446 CTACATAACA
* *
9501456 TATCATCAGCACTTGGTATTTAGATGTGCTAGGTATGATACAAAACTAAAATTAATAAGTTCTTA
1 TATCATCAACACTTGGTATTTAGATGTGCTAGGTATGACACAAAACTAAAATT-ATAAGTTCTTA
* * *
9501521 GCTCCTTCAAAAGAATGGGGCAACAAAATTCCATATATAATCCAACACTCTTTGATTTTCTAATA
65 GCTCCTTCAAAAGAATAGGGCAACAAAATTCCATACATAATCCAACACTCTTCGATTTTCTAATA
** *
9501586 TTTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAATATGTTGTTAGTTCTTATATTTTGAC
130 TTTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAATATAATGTTAGTTCTTACATTTTGAC
*
9501651 AAAATTTAATATTTAATTAATCTGAAAATTAAATTTTACTTTTATTATT
195 AAAATTTAAAATTTAATTAATCTGAAAATTAAATTTTACTTTTATTATT
* * *
9501700 TATCATCAACACTTGGTATTTGGATGTGCTAGGTATGACACCAAACT-AAATT-TAAGTTTTTAG
1 TATCATCAACACTTGGTATTTAGATGTGCTAGGTATGACACAAAACTAAAATTATAAGTTCTTAG
**
9501763 CTCCTTCAAAAGCTTAGGGCAACAAAA-TCCATACATAATCCAACACTCTTCGATTTTCTAATAT
66 CTCCTTCAAAAGAATAGGGCAACAAAATTCCATACATAATCCAACACTCTTCGATTTTCTAATAT
* * *
9501827 TTAAATGAAGTTAGAATATAAAATGTAATTTGTTAAAATATAATGTTATTTTTTACATTTTGACA
131 TTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAATATAATGTTAGTTCTTACATTTTGACA
*
9501892 TAATTTAAAATTTAAT
196 AAATTTAAAATTTAAT
9501908 CCTTGTACTT
Statistics
Matches: 190, Mismatches: 18, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
240 108 0.57
241 34 0.18
243 5 0.03
244 43 0.23
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (243 bp):
TATCATCAACACTTGGTATTTAGATGTGCTAGGTATGACACAAAACTAAAATTATAAGTTCTTAG
CTCCTTCAAAAGAATAGGGCAACAAAATTCCATACATAATCCAACACTCTTCGATTTTCTAATAT
TTAAATAAAGTTAGAATATAAAATGTAATTTGTTAAAATATAATGTTAGTTCTTACATTTTGACA
AAATTTAAAATTTAATTAATCTGAAAATTAAATTTTACTTTTATTATT
Found at i:9508988 original size:13 final size:13
Alignment explanation
Indices: 9508966--9508996 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
9508956 AATATTTGTC
9508966 TTTTTCAAAAACA
1 TTTTTCAAAAACA
*
9508979 TTTTTGAAAAACA
1 TTTTTCAAAAACA
9508992 TTTTT
1 TTTTT
9508997 AAACTATGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (13 bp):
TTTTTCAAAAACA
Found at i:9512455 original size:46 final size:47
Alignment explanation
Indices: 9512365--9512556 Score: 217
Period size: 46 Copynumber: 4.0 Consensus size: 47
9512355 GAAATGTGAT
* *
9512365 TTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGTGATTTGTGC
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATC-G-G---TGTGATATGTGC
9512417 TTCCGTATAAGACCATAGCTGGGCTATGGC-TCGGTGTGATATGTGC
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGTGC
* * * * *
9512463 TACTGTATAAGACCATATCTGGGATATGGCATCAGTGTGATATGTG-
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGTGC
* * *
9512509 ATCCGTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTG
1 TTCCGTATAAGACCATAGCTGGGCTATGGCATCGG--TGTGATATGTG
9512557 ACTATGTGCA
Statistics
Matches: 123, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
46 64 0.52
47 14 0.11
48 11 0.09
49 1 0.01
50 1 0.01
51 2 0.02
52 30 0.24
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (47 bp):
TTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATATGTGC
Found at i:9512596 original size:92 final size:90
Alignment explanation
Indices: 9512404--9512574 Score: 227
Period size: 92 Copynumber: 1.8 Consensus size: 90
9512394 CTTCGGAGAA
* *
9512404 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTCGGTGTGATATGTGCTACTGT
1 ATGTGATATGTG-ATCCGTATAAGACCATAGCTGGGCTATGGCTCGGTGTGATATGTGCTACTGT
*
9512469 ATAAGACCATATCTGGGATATGGCAT
65 ACAAGACCATATCTGGGATATGGCAT
*
9512495 CAGTGTGATATGTGATCCGTATAAGACCATGGCTGGGCTATGGCCTCGGTATGTGATATGTGACT
1 -A-TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGG-CTCGG--TGTGATATGTG-CT
*
9512560 A-TGTGCAAGACCATA
60 ACTGTACAAGACCATA
9512575 ATTTTACTAT
Statistics
Matches: 69, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
92 28 0.41
93 15 0.22
95 23 0.33
96 3 0.04
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (90 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCTCGGTGTGATATGTGCTACTGTA
CAAGACCATATCTGGGATATGGCAT
Found at i:9515791 original size:15 final size:15
Alignment explanation
Indices: 9515771--9515839 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
9515761 GTATCTTGGG
9515771 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
9515786 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
9515801 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
9515816 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
9515831 TTTCTTTAT
1 TTTCTTTAT
9515840 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:9515840 original size:30 final size:30
Alignment explanation
Indices: 9515762--9515858 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
9515752 CATAGTATCG
* * * *
9515762 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
9515792 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
9515822 TATCTTGGATTTCTTTATTC-GGTTTTCTTC
1 TATCTTGGATTTCTTTATTCTGGATTTC-TC
9515852 TTATCTT
1 -TATCTT
9515859 TGCTCCATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 7 0.12
30 43 0.75
31 7 0.12
ACGTcount: A:0.10, C:0.18, G:0.14, T:0.58
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:9518426 original size:52 final size:48
Alignment explanation
Indices: 9518347--9518506 Score: 164
Period size: 52 Copynumber: 3.2 Consensus size: 48
9518337 CATGGCAGCA
* *
9518347 TGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 TGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
* * * *
9518397 AAATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG
1 ---TGTGATATGTGAT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
* *
9518447 TGTGATATGTGATCCGTATAAGACCATGGCTGGGCTATGGCCTCGGTA-
1 TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGG-AG
9518495 TGTGATATGTGA
1 TGTGATATGTGA
9518507 CTATGTGCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 13
0.78 0.10 0.11
Matches are distributed among these distances:
46 26 0.29
47 12 0.13
48 12 0.13
49 1 0.01
50 2 0.02
51 1 0.01
52 27 0.30
53 10 0.11
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.31
Consensus pattern (48 bp):
TGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGAG
Found at i:9518472 original size:46 final size:47
Alignment explanation
Indices: 9518346--9518506 Score: 162
Period size: 46 Copynumber: 3.3 Consensus size: 47
9518336 CCATGGCAGC
* *
9518346 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAG
1 ATGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATC--AG
* * * *
9518397 AAATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATCAG
1 --ATGTGATATGTGAT-CCGTATAAGACCATAGCTGGGCTATGGCATCAG
* * *
9518447 -TGTGATATGTGATCCGTATAAGACCATGGCTGGGCTATGGCCTCGG
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAG
9518493 TATGTGATATGTGA
1 -ATGTGATATGTGA
9518507 CTATGTGCAA
Statistics
Matches: 92, Mismatches: 13, Indels: 11
0.79 0.11 0.09
Matches are distributed among these distances:
46 27 0.29
47 12 0.13
48 12 0.13
50 2 0.02
51 1 0.01
52 27 0.29
53 11 0.12
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCAG
Found at i:9518538 original size:95 final size:98
Alignment explanation
Indices: 9518338--9518523 Score: 247
Period size: 98 Copynumber: 1.9 Consensus size: 98
9518328 TGGTTGGACC
* *
9518338 ATGGCAGCATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAAATGT
1 ATGGCATCATGTGAAATGTGA-TTCCGTATAAGACCATAGCTGGGCTATGGCCTCGGAGAAATGT
*
9518403 GATATGTGCTACTGTATAAGACCATATCTGGGAT
65 GATATGTGCTACTGTACAAGACCATATCTGGGAT
* * *
9518437 ATGGCATCAGTGTGATATGTGA-TCCGTATAAGACCATGGCTGGGCTATGGCCTC-G-G-TATGT
1 ATGGCATCA-TGTGAAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCCTCGGAGAAATGT
*
9518498 GATATGTGACTA-TGTGCAAGACCATA
65 GATATGTG-CTACTGTACAAGACCATA
9518524 ATTTTACTAT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
95 24 0.31
96 4 0.05
97 1 0.01
98 30 0.38
99 8 0.10
100 11 0.14
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (98 bp):
ATGGCATCATGTGAAATGTGATTCCGTATAAGACCATAGCTGGGCTATGGCCTCGGAGAAATGTG
ATATGTGCTACTGTACAAGACCATATCTGGGAT
Found at i:9521070 original size:18 final size:18
Alignment explanation
Indices: 9521043--9521135 Score: 105
Period size: 18 Copynumber: 5.2 Consensus size: 18
9521033 TACGACCGTT
*
9521043 TACGGTACTATTTACGTA
1 TACGGTACTATTCACGTA
* *
9521061 TACGGCACTATTCATGTA
1 TACGGTACTATTCACGTA
* *
9521079 TATGGTACTATTCACGCA
1 TACGGTACTATTCACGTA
* * *
9521097 TATGGCACTATTCATGTA
1 TACGGTACTATTCACGTA
*
9521115 TACTGTACTATTCACGTA
1 TACGGTACTATTCACGTA
9521133 TAC
1 TAC
9521136 AGTAGTTAGG
Statistics
Matches: 61, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 61 1.00
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:9521104 original size:36 final size:37
Alignment explanation
Indices: 9521046--9521135 Score: 130
Period size: 36 Copynumber: 2.5 Consensus size: 37
9521036 GACCGTTTAC
* *
9521046 GGTACTATTTACGTATACGGCACTATTCATGTATA-T
1 GGTACTATTCACGCATACGGCACTATTCATGTATACT
*
9521082 GGTACTATTCACGCATATGGCACTATTCATGTATACT
1 GGTACTATTCACGCATACGGCACTATTCATGTATACT
*
9521119 -GTACTATTCACGTATAC
1 GGTACTATTCACGCATAC
9521136 AGTAGTTAGG
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 47 0.98
37 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.37
Consensus pattern (37 bp):
GGTACTATTCACGCATACGGCACTATTCATGTATACT
Found at i:9522978 original size:42 final size:42
Alignment explanation
Indices: 9522927--9523030 Score: 145
Period size: 42 Copynumber: 2.5 Consensus size: 42
9522917 CCTGATCAGT
9522927 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
** * * * *
9522969 ATACGACACACGAGGTGCTTGATACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
*
9523011 ATACAACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
9523031 GATCAATAAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (42 bp):
ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
Found at i:9523033 original size:21 final size:21
Alignment explanation
Indices: 9522927--9523020 Score: 125
Period size: 21 Copynumber: 4.5 Consensus size: 21
9522917 CCTGATCAGT
** * *
9522927 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
9522948 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
9522969 ATACGACACACGAGGTGCTTG
1 ATACGACACACGAGGTGCCTG
9522990 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
*
9523011 ATACAACACA
1 ATACGACACA
9523021 TAAAGTGCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:9524503 original size:16 final size:17
Alignment explanation
Indices: 9524468--9524503 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
9524458 CCTAATTCTC
9524468 CCTT-TTTCTTTTCTTT
1 CCTTCTTTCTTTTCTTT
9524484 -CTTCTTTC-TTTCTTT
1 CCTTCTTTCTTTTCTTT
9524499 CCTTC
1 CCTTC
9524504 CCCTGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (17 bp):
CCTTCTTTCTTTTCTTT
Found at i:9530383 original size:243 final size:244
Alignment explanation
Indices: 9530024--9530604 Score: 734
Period size: 250 Copynumber: 2.4 Consensus size: 244
9530014 GAGAAATGCC
* * * * *
9530024 TAAATAAAATTAGATTTATGATATAAATGCATAATGGTATTTTAAAGATTATTAAAATCATTATT
1 TAAAT-AAATTAGATTTA-AACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
* * ** *
9530089 ATTATTTTCGATCACTAAAAATAATATACATTTGGCCACGGTGATTAAAATTATCTACAAC--AA
64 ATTA---TCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCTACAACAAAA
9530152 A-ATATATAAGAATATTTTAG-GCAATTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACA
126 ATATATATAAG-ATATTTTAGTGCAATTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACA
* *
9530215 TATTTTGATCGATAAATTGTTTGAATAAATTCATAATTATATTTTAATTGACCGT
190 TATTTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
9530270 TAAAATAAATTAGATTTACAACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
1 T-AAATAAATTAGATTTA-AACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATT
*
9530335 ATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCTATAACAAAAAAT
64 ATTATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCTACAAC-AAAAAT
** * * *
9530400 ATATATAATGATATTTTAGTTAGCCGTTAAAACCGTTATTACTTTCACTCACTAAAATAAACACA
128 ATATATAA-GATATTTTAG-T-GCAATTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACA
*
9530465 TATTTTGATTGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
190 TATTTTGATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
* * *
9530520 TAAA-ACA--A-A--T-AAGATAAATGCATAATGACATTTTAACAATGATCATTAAAATCATTAT
1 TAAATAAATTAGATTTAAACATAAATGCATAATGATATTTTAAC---GATCATTAAAATCATTAT
**
9530578 TATTATCTAAAACTAAAAATAATATAT
63 TATTATCTATCACTAAAAATAATATAT
9530605 TTCTACAACA
Statistics
Matches: 298, Mismatches: 25, Indels: 26
0.85 0.07 0.07
Matches are distributed among these distances:
241 25 0.08
243 49 0.16
244 43 0.14
245 1 0.00
246 62 0.21
247 21 0.07
248 3 0.01
249 3 0.01
250 91 0.31
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.37
Consensus pattern (244 bp):
TAAATAAATTAGATTTAAACATAAATGCATAATGATATTTTAACGATCATTAAAATCATTATTAT
TATCTATCACTAAAAATAATATATATTTGGCCACAATAATTAAAATTATCTACAACAAAAATATA
TATAAGATATTTTAGTGCAATTAAAACCGTTATCACTCTCACTCACTAAAAAAAACACATATTTT
GATCGATAAATTGTTTAAATAAATTCATAATTATATTTTAATTAACCGT
Found at i:9534389 original size:21 final size:20
Alignment explanation
Indices: 9534357--9534396 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
9534347 ACCCTAAACT
9534357 TAAATACTAAACCTCAAACCC
1 TAAATACTAAACCT-AAACCC
9534378 TAAATCAC-AAACCTAAACC
1 TAAAT-ACTAAACCTAAACC
9534397 TGAAGCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 11 0.61
22 2 0.11
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAATACTAAACCTAAACCC
Found at i:9558566 original size:107 final size:106
Alignment explanation
Indices: 9558426--9558650 Score: 396
Period size: 107 Copynumber: 2.1 Consensus size: 106
9558416 AATTTTTAAA
* *
9558426 TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTATCATAAAAAATA
1 TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTAGCATAAAAAACA
9558491 ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
66 ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
* *
9558532 TAAATAATAAATTAAAAGTTGAATTTAAATAGATGATATATTTATCTATATTTAGCATAAAAAAC
1 TAAATAATAAATT-AAAGGTGAATTTAAATAGATGATACATTTATCTATATTTAGCATAAAAAAC
9558597 AATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
65 AATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
*
9558639 TAAATAAAAAAT
1 TAAATAATAAAT
9558651 AAGATAAATA
Statistics
Matches: 113, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
106 13 0.12
107 100 0.88
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (106 bp):
TAAATAATAAATTAAAGGTGAATTTAAATAGATGATACATTTATCTATATTTAGCATAAAAAACA
ATAACAATAAAATATTAAATACTATAGTAATATTATAACAT
Found at i:9577912 original size:23 final size:23
Alignment explanation
Indices: 9577886--9577955 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
9577876 TTATGTAGAT
9577886 TAATTCTGAGGGTGTATTTTTAC
1 TAATTCTGAGGGTGTATTTTTAC
* * * ** *
9577909 TAATTAT-A---TCTATGTAGAT
1 TAATTCTGAGGGTGTATTTTTAC
9577928 TAATTCTGAGGGTGTATTTTTAC
1 TAATTCTGAGGGTGTATTTTTAC
9577951 TAATT
1 TAATT
9577956 ATATCTATTA
Statistics
Matches: 31, Mismatches: 12, Indels: 8
0.61 0.24 0.16
Matches are distributed among these distances:
19 12 0.39
20 1 0.03
22 1 0.03
23 17 0.55
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (23 bp):
TAATTCTGAGGGTGTATTTTTAC
Found at i:9577924 original size:42 final size:42
Alignment explanation
Indices: 9577877--9577963 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
9577867 GATGTGTATT
9577877 TATGTAGATTAATTCTGAGGGTGTATTTTTACTAATTATATC
1 TATGTAGATTAATTCTGAGGGTGTATTTTTACTAATTATATC
9577919 TATGTAGATTAATTCTGAGGGTGTATTTTTACTAATTATATC
1 TATGTAGATTAATTCTGAGGGTGTATTTTTACTAATTATATC
9577961 TAT
1 TAT
9577964 TAGTTTGAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.29, C:0.07, G:0.16, T:0.48
Consensus pattern (42 bp):
TATGTAGATTAATTCTGAGGGTGTATTTTTACTAATTATATC
Found at i:9580660 original size:41 final size:39
Alignment explanation
Indices: 9580613--9580731 Score: 116
Period size: 41 Copynumber: 3.0 Consensus size: 39
9580603 TTCGACTTCG
*
9580613 AGTCGATGAGACACTGAGTGTCAATTTACTACTTCGGATTA
1 AGTCGATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTA
* ** * *
9580654 ATTCGATGAGGTATTGGGTGTCAATT-TACTTCGG-TTT
1 AGTCGATGAGACACTGGGTGTCAATTATACTTCGGATTA
* *
9580691 AGCCGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 AGTCGATGAGACACTGGGTGTC-AATTA-TACTTCGGATTA
9580732 TCCGATAAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
37 19 0.31
38 12 0.20
40 9 0.15
41 21 0.34
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (39 bp):
AGTCGATGAGACACTGGGTGTCAATTATACTTCGGATTA
Found at i:9580709 original size:37 final size:40
Alignment explanation
Indices: 9580616--9580731 Score: 112
Period size: 37 Copynumber: 2.9 Consensus size: 40
9580606 GACTTCGAGT
* **
9580616 CGATGAGACACTGAGTGTCAATTTACTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTAAGC
** * *
9580657 CGATGAGGTATTGGGTGTCAA-TT-TACTTCGG-TTTAGC
1 CGATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGC
* *
9580694 CGATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 CGATGAGACACTGGGTGTCAATTTA-TACTTCGGATTA
9580732 TCCGATAAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
37 21 0.36
38 10 0.17
40 9 0.15
41 19 0.32
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAATTTATACTTCGGATTAAGC
Found at i:9580749 original size:40 final size:38
Alignment explanation
Indices: 9580666--9580755 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 38
9580656 TCGATGAGGT
** *
9580666 ATTGGGTGTC-AATTTACTTCGGTTTAGCCGATGAGAC
1 ATTGGGTGTCAAATTTACTTCGAATTAGCCGATAAGAC
* *
9580703 ACTGGGTGTCAAATTATTACTTCGAATTATCCGATAAGAC
1 ATTGGGTGTCAAA-T-TTACTTCGAATTAGCCGATAAGAC
* *
9580743 GTTGGGTGCCAAA
1 ATTGGGTGTCAAA
9580756 CTTGTGTGTT
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
37 9 0.21
38 2 0.05
39 1 0.02
40 30 0.71
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (38 bp):
ATTGGGTGTCAAATTTACTTCGAATTAGCCGATAAGAC
Found at i:9588077 original size:26 final size:26
Alignment explanation
Indices: 9588041--9588150 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
9588031 TGATACAAAT
9588041 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
9588067 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9588093 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9588119 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9588145 TGATAA
1 TGATAA
9588151 GAATTTCATA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:9591380 original size:39 final size:40
Alignment explanation
Indices: 9591296--9591380 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
9591286 AGTTAATTCA
* * *
9591296 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9591336 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
9591375 TCAGCA
1 CCAGCA
9591381 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:9591498 original size:44 final size:44
Alignment explanation
Indices: 9591443--9591650 Score: 222
Period size: 47 Copynumber: 4.5 Consensus size: 44
9591433 TCTAATATTG
*
9591443 CACACTTT-TCACAATTGGTCATTCGGCCTTATCACATATTCACTT
1 CACA-TTTATCAC-ATTGGCCATTCGGCCTTATCACATATTCACTT
* *
9591488 -ACATTTTTCACAATTGGTCATTCGGCCTTATCACATATTCACTT
1 CACATTTATCAC-ATTGGCCATTCGGCCTTATCACATATTCACTT
* ** *
9591532 ACACATATATCACATTAACCATTCGGCCTTATCACATGTATGCACTTT
1 -CACATTTATCACATTGGCCATTCGGCCTTATCACA--TATTCAC-TT
* *
9591580 CACATTCATCACATTGGCCATTCGGCCTTATCACATATACACACTTT
1 CACATTTATCACATTGGCCATTCGGCCTTATCACATAT--TCAC-TT
*
9591627 CACATTCATCACATTGGCCATTCG
1 CACATTTATCACATTGGCCATTCG
9591651 ATCTTAAGCT
Statistics
Matches: 144, Mismatches: 11, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
43 3 0.02
44 40 0.28
45 23 0.16
46 9 0.06
47 67 0.47
48 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.35
Consensus pattern (44 bp):
CACATTTATCACATTGGCCATTCGGCCTTATCACATATTCACTT
Found at i:9606239 original size:149 final size:149
Alignment explanation
Indices: 9605976--9606253 Score: 477
Period size: 149 Copynumber: 1.9 Consensus size: 149
9605966 TTAGTTCCTG
9605976 GGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTCG
1 GGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTCG
* *
9606041 ATTCCCGGCTGGTGCATTTGTTAAGTCAATTTTACGATATTTCGACAATGAAGTTGTGGTTTTGT
66 ATTCCCGGCTGGTGCATTTGTTAAGTCAATTTTACGACATTTCGACAATGAAGTTGTGCTTTTGT
9606106 TAATAAAACATAGTTTTTC
131 TAATAAAACATAGTTTTTC
9606125 GGAACAACT-AGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTC
1 GGAACAA-TAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTC
* * * * *
9606189 GATTCCCGGCTGGTGCATTTGTTAATTCAGTTTTACGACGTTTTGTCAATGAAGTTGTGCTTTTG
65 GATTCCCGGCTGGTGCATTTGTTAAGTCAATTTTACGACATTTCGACAATGAAGTTGTGCTTTTG
9606254 CTGACAAAAC
Statistics
Matches: 121, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
149 120 0.99
150 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (149 bp):
GGAACAATAAGCACCAGTGGTCTAGTGGTAGAATAGTACCCTGCCACGGTACAGACCCGGGTTCG
ATTCCCGGCTGGTGCATTTGTTAAGTCAATTTTACGACATTTCGACAATGAAGTTGTGCTTTTGT
TAATAAAACATAGTTTTTC
Found at i:9607581 original size:2 final size:2
Alignment explanation
Indices: 9607574--9607602 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9607564 GGGCATTGCG
9607574 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
9607603 CATATATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:9619511 original size:1 final size:1
Alignment explanation
Indices: 9619500--9619543 Score: 61
Period size: 1 Copynumber: 44.0 Consensus size: 1
9619490 CTTCTTCTTC
* * *
9619500 TTTTTTCTTTTTTTTCTTTTTTCTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9619544 GCTATAACCA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (1 bp):
T
Found at i:9619518 original size:16 final size:16
Alignment explanation
Indices: 9619497--9619543 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
9619487 GCACTTCTTC
9619497 TTCTTTTTTCTTTTTT
1 TTCTTTTTTCTTTTTT
9619513 TTCTTTTTTCTTTTTT
1 TTCTTTTTTCTTTTTT
9619529 TT-TTTTTT-TTTTTT
1 TTCTTTTTTCTTTTTT
9619543 T
1 T
9619544 GCTATAACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.23
15 6 0.19
16 18 0.58
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTCTTTTTTCTTTTTT
Found at i:9619524 original size:23 final size:22
Alignment explanation
Indices: 9619497--9619543 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9619487 GCACTTCTTC
9619497 TTCTTTTTTCTTTTTTTTCTTTT
1 TTCTTTTTT-TTTTTTTTCTTTT
*
9619520 TTCTTTTTTTTTTTTTTTTTTT
1 TTCTTTTTTTTTTTTTTCTTTT
9619542 TT
1 TT
9619544 GCTATAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (22 bp):
TTCTTTTTTTTTTTTTTCTTTT
Found at i:9627181 original size:12 final size:12
Alignment explanation
Indices: 9627164--9627193 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
9627154 TCTACTCATC
9627164 AGTGACTCCCTT
1 AGTGACTCCCTT
9627176 AGTGACTCCCTT
1 AGTGACTCCCTT
*
9627188 TGTGAC
1 AGTGAC
9627194 CATGGTGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (12 bp):
AGTGACTCCCTT
Found at i:9629824 original size:5 final size:5
Alignment explanation
Indices: 9629798--9629855 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
9629788 ATGTGTTAAA
* *
9629798 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
9629847 ATATT ATAT
1 ATATT ATAT
9629856 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:9629834 original size:10 final size:9
Alignment explanation
Indices: 9629799--9629856 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
9629789 TGTGTTAAAA
9629799 TATATATAT
1 TATATATAT
*
9629808 TAAAT-TAT
1 TATATATAT
9629816 TAT-TATAT
1 TATATATAT
9629824 TATAGTATAT
1 TATA-TATAT
9629834 TATAT-TA-
1 TATATATAT
9629841 TATATTATAT
1 TATA-TATAT
9629851 TATATA
1 TATATA
9629857 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:9629846 original size:12 final size:12
Alignment explanation
Indices: 9629801--9629856 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
9629791 TGTTAAAATA
*
9629801 TATATATTAAAT
1 TATATATTATAT
9629813 TAT-TATTATATT
1 TATATATTATA-T
9629825 ATAGTATATTATAT
1 -TA-TATATTATAT
9629839 TATATATTATAT
1 TATATATTATAT
9629851 TATATA
1 TATATA
9629857 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:9631194 original size:18 final size:19
Alignment explanation
Indices: 9631171--9631209 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
9631161 ATATATAGAT
9631171 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
9631189 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
9631208 AT
1 AT
9631210 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:9631559 original size:39 final size:39
Alignment explanation
Indices: 9631449--9631583 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
9631439 GACCTCGAGT
* * * *
9631449 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
* ** ** * *
9631490 CGGTGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
9631528 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
9631567 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
9631584 CCATATTGGT
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
38 17 0.24
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:9631727 original size:18 final size:19
Alignment explanation
Indices: 9631706--9631746 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9631696 AATGAAATGA
9631706 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
9631724 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
9631743 GAAA
1 GAAA
9631747 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:9635451 original size:38 final size:39
Alignment explanation
Indices: 9635377--9635456 Score: 101
Period size: 38 Copynumber: 2.1 Consensus size: 39
9635367 GTGAATGATA
9635377 TCAAAAGAAATATTACAATCATTGAATAGAAGAATTAAC
1 TCAAAAGAAATATTACAATCATTGAATAGAAGAATTAAC
* * * *
9635416 TCAAAA-AATTATTACATTCACTT-AATTGAATAATTAAC
1 TCAAAAGAAATATTACAATCA-TTGAATAGAAGAATTAAC
9635454 TCA
1 TCA
9635457 CTCACAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 28 0.78
39 8 0.22
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (39 bp):
TCAAAAGAAATATTACAATCATTGAATAGAAGAATTAAC
Found at i:9636182 original size:114 final size:114
Alignment explanation
Indices: 9635984--9636409 Score: 457
Period size: 114 Copynumber: 3.7 Consensus size: 114
9635974 GTTTACTACC
** * * * * *
9635984 AAGCGCCGCAAAAGCTCTTATCCAAAACGCAGCGCTTTGGTCTTGATGTATAGTAGCCTTAGTGG
1 AAGCGCCGC-AAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* *
9636049 CGCTTATATTCAAACGCCGCTAAAGTATAGTATTAGCGGCGAGTACTGAA
65 CGCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * *
9636099 AAGCGCCGCAATATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGAGGTACATTAGGATTAGTGA
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
* * * ** * *
9636163 CGCTTAT-TTAAAAACGCCGCTAACGCATAGTAGTAGCGGCGCTTATTGTA
65 CGCTTATATT-AAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* * * * * * * *
9636213 AAGCGTCGCAAA-ATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACTACCAGTAGTGGC
1 AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
* ** * *
9636277 ACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAA
66 GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
* *
9636326 AAGCGCCGCAAGATTTCTTAACCAAAACGCAGAG-TTTGGTCTTGCGGTATATTAGGATTAGTGG
1 AAGCGCCGCAA-ATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGG
*
9636390 CGCTTAT-TGGAAAACGCCGC
65 CGCTTATAT-TAAAACGCCGC
9636410 AAAATATTAA
Statistics
Matches: 250, Mismatches: 54, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
112 17 0.07
113 73 0.29
114 116 0.46
115 44 0.18
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (114 bp):
AAGCGCCGCAAATTTCTTAACCAAAACGCAGAGCTTTGGTCTTGAGGTATATTAGCATTAGTGGC
GCTTATATTAAAACGCCGCTAAAGAATAGTATTAGCGGCGAGTACTGAA
Found at i:9636517 original size:188 final size:188
Alignment explanation
Indices: 9636200--9636602 Score: 689
Period size: 188 Copynumber: 2.1 Consensus size: 188
9636190 TAGTAGTAGC
* * *
9636200 GGCGCTTATTGTAAAGCGTCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
9636265 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
* * *
9636330 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGCGGTATATTAGGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
9636388 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
1 GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
* * * *
9636453 AGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGAATAGTATTAGCGGCGAGTAGTGAAAAGC
66 ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
*
9636518 GCCGCAATATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
131 GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
* *
9636576 GGCGCTTATTTGAAAACGCCGCTAAAT
1 GGCGCTTATTGGAAAACGCCGCAAAAT
9636603 CATAGTATTA
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
188 202 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (188 bp):
GGCGCTTATTGGAAAACGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGATGTATACT
ACCAGTAGTGGCACTTATATTAAAACGCTACTAAAGAATAGTATTAGCAGCGAGTAGTGAAAAGC
GCCGCAAGATTTCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTACATTACGATTAGT
Found at i:9636725 original size:113 final size:112
Alignment explanation
Indices: 9636382--9636732 Score: 397
Period size: 113 Copynumber: 3.1 Consensus size: 112
9636372 GTATATTAGG
* *
9636382 ATTAGTGGCGCTTATTGGAAAA-CGCCGCAAAATATTAACCAAAACGCAGCGCTTTGGTCTTGAT
1 ATTAGCGGCGCTTATT-GAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGAT
* * *
9636446 GTATACTAGCAGTAGTGGCGCTTATATTAAAACGCTGCTAAAGA-ATAGT
65 GTATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAA-ACATAGT
** * * *
9636495 ATTAGCGGCGAGTAGTGAAAAGCGCCGCAATATTTC-TTAACCAAAACGCAGAG-TTTGGTCTTG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAA-A--ACATTAACCAAAACGCAGCGCTTTGGTCTTG
* * * * *
9636558 AGGTACATTACGA-TTAGTGGCGCTTATTTGAAAACGCCGCTAAATCATAGT
63 ATGTATACTACCAGTT-GTGGCGCTTATTT-AAAACGCCGCTAAAACATAGT
* *
9636609 ATTAGCGGCGCTTATTGTAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCGTTGGTCTTGATG
1 ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
* * * *
9636674 TATACTACCAGTTGTGGCGCTTATGGTAAAACACCGGTAAAACATATT
66 TATACTACCAGTTGTGGCGCTTAT-TTAAAACGCCGCTAAAACATAGT
9636722 ATTAGCGGCGC
1 ATTAGCGGCGC
9636733 GTTGTGGGAA
Statistics
Matches: 196, Mismatches: 31, Indels: 22
0.79 0.12 0.09
Matches are distributed among these distances:
111 1 0.01
112 21 0.11
113 81 0.41
114 77 0.39
115 16 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.26
Consensus pattern (112 bp):
ATTAGCGGCGCTTATTGAAAAGCGCCGCAAAACATTAACCAAAACGCAGCGCTTTGGTCTTGATG
TATACTACCAGTTGTGGCGCTTATTTAAAACGCCGCTAAAACATAGT
Found at i:9636785 original size:17 final size:17
Alignment explanation
Indices: 9636754--9636803 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
9636744 CGCCGCTAGA
*
9636754 TTATTATAT-ATGTAGT
1 TTATTATATAATGTAGG
9636770 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
9636787 TTATTATATAATGTAGG
1 TTATTATATAATGTAGG
9636804 AAATAGGATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
16 9 0.28
17 23 0.72
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (17 bp):
TTATTATATAATGTAGG
Found at i:9636855 original size:7 final size:7
Alignment explanation
Indices: 9636843--9636919 Score: 57
Period size: 7 Copynumber: 11.0 Consensus size: 7
9636833 TTTGAATTCT
9636843 GGTTTAG
1 GGTTTAG
9636850 GGTTTAG
1 GGTTTAG
*
9636857 AGTTTAG
1 GGTTTAG
*
9636864 GGTTTAA
1 GGTTTAG
*
9636871 GGTTTAC
1 GGTTTAG
* *
9636878 GATGTA-
1 GGTTTAG
9636884 GGTTTAG
1 GGTTTAG
* **
9636891 TGTTTTT
1 GGTTTAG
9636898 GGTTTAG
1 GGTTTAG
9636905 GGTTTGAG
1 GGTTT-AG
*
9636913 AGTTTAG
1 GGTTTAG
9636920 TGATTAAGGT
Statistics
Matches: 53, Mismatches: 15, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
6 4 0.08
7 43 0.81
8 6 0.11
ACGTcount: A:0.18, C:0.01, G:0.35, T:0.45
Consensus pattern (7 bp):
GGTTTAG
Found at i:9638882 original size:11 final size:11
Alignment explanation
Indices: 9638845--9638884 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
9638835 GAATATCTCA
9638845 AACT-ATGGGT
1 AACTAATGGGT
*
9638855 AACTAGTGGGT
1 AACTAATGGGT
9638866 AACTAATGGGT
1 AACTAATGGGT
9638877 AACTAATG
1 AACTAATG
9638885 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:9640249 original size:17 final size:17
Alignment explanation
Indices: 9640227--9640525 Score: 161
Period size: 17 Copynumber: 16.6 Consensus size: 17
9640217 GTTAAATTTA
9640227 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
9640244 TTACTAAAATAAATTAC
1 TTACTAAAATACATTAC
*
9640261 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
9640284 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
9640301 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
* *
9640318 TTACATAAATTTGTTTAAATTTA-
1 TTAC-TAAA-----ATACA-TTAC
*
9640341 TTTCTAAAATACATTAC
1 TTACTAAAATACATTAC
*
9640358 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
9640381 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
9640398 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
*
9640415 TTACTAAAAT---TT-G
1 TTACTAAAATACATTAC
** *
9640428 TT--T-AAATTTATTAA
1 TTACTAAAATACATTAC
*
9640442 TTACTTAAATACATTAC
1 TTACTAAAATACATTAC
*
9640459 TTACTAAAATTTGTTTAAATTTA-
1 TTACTAAAA------TACA-TTAC
9640482 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
9640499 TTACTAAAATACATTAC
1 TTACTAAAATACATTAC
9640516 TTACTAAAAT
1 TTACTAAAAT
9640526 TTGTTTAAAT
Statistics
Matches: 225, Mismatches: 18, Indels: 78
0.70 0.06 0.24
Matches are distributed among these distances:
10 4 0.02
11 1 0.00
13 4 0.02
14 4 0.02
16 13 0.06
17 136 0.60
18 4 0.02
22 4 0.02
23 43 0.19
24 12 0.05
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.43
Consensus pattern (17 bp):
TTACTAAAATACATTAC
Found at i:9640300 original size:40 final size:40
Alignment explanation
Indices: 9640244--9640407 Score: 157
Period size: 40 Copynumber: 3.7 Consensus size: 40
9640234 AATACATTAC
*
9640244 TTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTA
1 TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
*
9640284 TTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGTTTAAA
1 TTACTAAAATACATTACTTACTAAAAT---TT-GTT---TAAA----TTT--A
9640337 TTTATTTCTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
1 -TTA---CTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
9640381 TTACTAAAATACATTACTTACTAAAAT
1 TTACTAAAATACATTACTTACTAAAAT
9640408 ACATTACTTA
Statistics
Matches: 104, Mismatches: 3, Indels: 34
0.74 0.02 0.24
Matches are distributed among these distances:
40 50 0.48
43 5 0.05
44 3 0.03
46 3 0.03
47 4 0.04
50 4 0.04
51 3 0.03
53 3 0.03
54 5 0.05
57 24 0.23
ACGTcount: A:0.44, C:0.11, G:0.02, T:0.43
Consensus pattern (40 bp):
TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTA
Found at i:9640306 original size:57 final size:57
Alignment explanation
Indices: 9640218--9640367 Score: 266
Period size: 57 Copynumber: 2.6 Consensus size: 57
9640208 CGATTGAATG
9640218 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTAC-TAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACAT-AAATTTGT
*
9640275 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACATAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
*
9640332 TTAAATTTATTTCTAAAATACATTACTTACTAAAAT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAAT
9640368 TTGTTTAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
57 89 0.99
58 1 0.01
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATAAATTACTTACATAAATTTGT
Found at i:9640363 original size:97 final size:97
Alignment explanation
Indices: 9640247--9640558 Score: 518
Period size: 97 Copynumber: 3.2 Consensus size: 97
9640237 ACATTACTTA
*
9640247 CTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
9640312 CATTACTTAC-ATAAATTTGTTTAAATTTATTT
66 CATTACTTACTA-AAATTTGTTTAAATTTATTT
9640344 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
9640409 CATTACTTACTAAAATTTGTTTAAATTTATTAATT
66 CATTACTTACTAAAATTTGTTTAAATTTA-T--TT
*
9640444 ACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
1 -CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAAT
*
9640509 ACATTACTTACTAAAATTTGTTTAAATTTATTA
65 ACATTACTTACTAAAATTTGTTTAAATTTATTT
* **
9640542 CTTAAATATGTTACTTA
1 CTAAAATACATTACTTA
9640559 AATTTATTAC
Statistics
Matches: 205, Mismatches: 5, Indels: 10
0.93 0.02 0.05
Matches are distributed among these distances:
97 106 0.52
98 3 0.01
100 3 0.01
101 93 0.45
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (97 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTACTAAAATA
CATTACTTACTAAAATTTGTTTAAATTTATTT
Found at i:9640405 original size:57 final size:60
Alignment explanation
Indices: 9640344--9640468 Score: 211
Period size: 57 Copynumber: 2.1 Consensus size: 60
9640334 AAATTTATTT
9640344 CTAAAATACATTACTTACTAAAATTTGTTTAAA-T-TT-ATTACTAAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
*
9640401 CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTAATTACTTAAATACATTACTTA
1 CTAAAATACATTACTTACTAAAATTTGTTTAAA-TTATTAATTACTAAAATACATTACTTA
9640462 CTAAAAT
1 CTAAAAT
9640469 TTGTTTAAAT
Statistics
Matches: 63, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
57 33 0.52
59 1 0.02
60 2 0.03
61 27 0.43
ACGTcount: A:0.44, C:0.12, G:0.02, T:0.42
Consensus pattern (60 bp):
CTAAAATACATTACTTACTAAAATTTGTTTAAATTATTAATTACTAAAATACATTACTTA
Found at i:9640476 original size:101 final size:100
Alignment explanation
Indices: 9640239--9640541 Score: 533
Period size: 101 Copynumber: 3.0 Consensus size: 100
9640229 ACTAAAATAC
*
9640239 ATTACTTACTAAAATAAATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATTA-TTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
9640304 CTAAAATACATTACTTAC-ATAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTA-AAATTTGTTTAAATTT
9640340 A-T-TT-CTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
1 ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
9640402 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
66 TAAAATACATTACTTACTAAAATTTGTTTAAATTT
*
9640437 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
1 ATT-ATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTA
9640502 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
65 CTAAAATACATTACTTACTAAAATTTGTTTAAATTT
9640538 ATTA
1 ATTA
9640542 CTTAAATATG
Statistics
Matches: 195, Mismatches: 2, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
97 91 0.47
98 4 0.02
100 4 0.02
101 96 0.49
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (100 bp):
ATTATTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATACATTACTTAC
TAAAATACATTACTTACTAAAATTTGTTTAAATTT
Found at i:9640485 original size:40 final size:43
Alignment explanation
Indices: 9640393--9640508 Score: 184
Period size: 44 Copynumber: 2.7 Consensus size: 43
9640383 ACTAAAATAC
*
9640393 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTT
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAA-TT
*
9640437 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAA-T
1 ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
9640479 -TT-ATTACTAAAATACATTACTTACTAAAAT
1 ATTAATTACTAAAATACATTACTTACTAAAAT
9640509 ACATTACTTA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
40 27 0.39
41 2 0.03
42 1 0.01
44 39 0.57
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (43 bp):
ATTAATTACTAAAATACATTACTTACTAAAATTTGTTTAAATT
Found at i:9640512 original size:57 final size:57
Alignment explanation
Indices: 9640437--9640558 Score: 199
Period size: 57 Copynumber: 2.1 Consensus size: 57
9640427 GTTTAAATTT
* *
9640437 ATTAATTACTTAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
* *
9640494 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTTAAATAT
1 ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
*
9640551 GTTACTTA
1 ATTACTTA
9640559 AATTTATTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (57 bp):
ATTACTTACTAAAATACATTACTTACTAAAATTTGTTTAAATTTATTACTAAAATAC
Found at i:9640548 original size:13 final size:13
Alignment explanation
Indices: 9640530--9640600 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
9640520 TAAAATTTGT
9640530 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
9640543 TTAAATATGTTAC
1 TTAAATTTATTAC
9640556 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
9640569 TTAAATATGTTAC
1 TTAAATTTATTAC
9640582 TTAAATTTATTAC
1 TTAAATTTATTAC
9640595 TTAAAT
1 TTAAAT
9640601 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:9640566 original size:26 final size:26
Alignment explanation
Indices: 9640530--9640601 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
9640520 TAAAATTTGT
9640530 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
9640556 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
9640582 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
9640602 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:9640830 original size:73 final size:73
Alignment explanation
Indices: 9640747--9640896 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
9640737 TAAAATAAAA
9640747 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
9640812 TTAATAAT
66 TTAATAAT
9640820 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
1 TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
9640885 TTAATAAT
66 TTAATAAT
9640893 TATA
1 TATA
9640897 TTAGTAATGT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (73 bp):
TATAAAAAAATATGTGGAATATTAAAATTGACTATTAAAATAAAATGTTATTTTATTAAATATTA
TTAATAAT
Found at i:9640863 original size:38 final size:38
Alignment explanation
Indices: 9640748--9640864 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
9640738 AAAATAAAAT
9640748 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
*** * * * *
9640786 ATAAAATGTTAT-T---TTATTAAATATT-ATTAATAATT
1 ATAAAAAAATATGTGGAATATTAAA-ATTGACTATTAA-A
9640821 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
1 ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
9640859 ATAAAA
1 ATAAAA
9640865 TGTTATTTTA
Statistics
Matches: 58, Mismatches: 14, Indels: 14
0.67 0.16 0.16
Matches are distributed among these distances:
34 13 0.22
35 12 0.21
36 1 0.02
37 1 0.02
38 18 0.31
39 13 0.22
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (38 bp):
ATAAAAAAATATGTGGAATATTAAAATTGACTATTAAA
Found at i:9640961 original size:19 final size:19
Alignment explanation
Indices: 9640937--9641163 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
9640927 TATTAAATAA
9640937 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
9640956 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
9640974 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
9640990 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
9641009 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
9641034 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* *
9641052 GACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* *
9641070 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
9641084 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
9641103 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
9641122 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
9641136 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
9641155 TACATAATA
1 TACATAATA
9641164 CATAATAACT
Statistics
Matches: 161, Mismatches: 19, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 10 0.06
16 14 0.09
17 11 0.07
18 43 0.27
19 52 0.32
21 1 0.01
22 6 0.04
23 1 0.01
25 15 0.09
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:9640975 original size:18 final size:18
Alignment explanation
Indices: 9640952--9641073 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
9640942 AATAACTTAC
9640952 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
9640970 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
9640988 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
9641005 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
9641028 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
* *
9641048 GACTGACATAATACATTT
1 AACTTACATAATACATTT
9641066 AACTTACA
1 AACTTACA
9641074 ACTTACACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 33 0.41
19 11 0.14
20 7 0.09
21 1 0.01
23 1 0.01
24 1 0.01
25 15 0.19
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:9641016 original size:26 final size:26
Alignment explanation
Indices: 9640933--9641338 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
9640923 ATTTTATTAA
9640933 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
9640959 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
9640986 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
9641012 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
9641037 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
9641055 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
9641080 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
9641106 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
9641132 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
9641158 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
9641184 ATAATACAT-TTAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
9641209 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
9641235 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
9641261 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
9641286 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
9641311 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
9641337 AT
1 AT
9641339 TTAACTTACA
Statistics
Matches: 343, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
20 3 0.01
23 3 0.01
25 113 0.33
26 188 0.55
27 15 0.04
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:9641184 original size:19 final size:19
Alignment explanation
Indices: 9641110--9641240 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
9641100 ACTTACATAA
9641110 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
9641129 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
9641148 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
9641162 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
9641181 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
9641199 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
9641213 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
9641232 TACATAATA
1 TACATAATA
9641241 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:9641214 original size:77 final size:76
Alignment explanation
Indices: 9641057--9641338 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
9641047 TGACTGACAT
* * *
9641057 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
9641122 TACAACTTACAC
65 TACAACTTACAC
9641134 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
9641199 TGCAACTTACAC
65 TACAACTTACAC
9641211 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
9641276 TACAACTTACAC
65 TACAACTTACAC
*
9641288 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
9641339 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:9641346 original size:11 final size:10
Alignment explanation
Indices: 9641330--9641383 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
9641320 AATAACTTAC
9641330 AACTTACATTT
1 AACTTACA-TT
9641341 AACTTACA-T
1 AACTTACATT
9641350 AA--TACATTT
1 AACTTACA-TT
9641359 AACTTACA-T
1 AACTTACATT
9641368 AACTTACA-T
1 AACTTACATT
9641377 AACTTAC
1 AACTTAC
9641384 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:9641367 original size:18 final size:18
Alignment explanation
Indices: 9641304--9641369 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
9641294 TTTAACTTAC
*
9641304 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
9641323 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
9641341 AACTTACATAATACATTT
1 AACTTACATAATACATTT
9641359 AACTTACATAA
1 AACTTACATAA
9641370 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:9641379 original size:18 final size:18
Alignment explanation
Indices: 9641219--9641383 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
9641209 ACAATACATA
9641219 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
9641235 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
9641254 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
9641268 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
9641286 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
9641304 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
9641321 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
9641337 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
9641355 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
9641375 ATAACTTAC
1 ATAACTTAC
9641384 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:9642556 original size:21 final size:21
Alignment explanation
Indices: 9642530--9642600 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
9642520 CTACAACTTA
* *
9642530 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
9642551 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
9642572 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
9642593 AAGCAGAG
1 AAGCAGAG
9642601 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:9642842 original size:14 final size:14
Alignment explanation
Indices: 9642823--9642856 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
9642813 ATTGCTATTG
9642823 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
9642837 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
9642851 TTTGCT
1 GTTGCT
9642857 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:9643076 original size:42 final size:41
Alignment explanation
Indices: 9642925--9643298 Score: 392
Period size: 42 Copynumber: 8.9 Consensus size: 41
9642915 TTTTGTATAA
* * * **
9642925 AAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATT
** * *** **
9642966 AAATGCCACTAAAGAACATGTTCTTTAGCGGCGATTAGAAAAA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-TT-TTTATT
* * *
9643009 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCATT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTT-TATT
*
9643051 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT-TCCA
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT--T
* * *
9643093 AAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTT-TT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATT
* *
9643133 ACAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCT
1 --AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT-T
* *
9643177 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT-T
* *
9643219 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTAT-T
* *
9643261 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTT
9643299 GTTTGTAAAC
Statistics
Matches: 294, Mismatches: 30, Indels: 17
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.00
41 30 0.10
42 228 0.78
43 34 0.12
44 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (41 bp):
AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTATT
Found at i:9643100 original size:84 final size:82
Alignment explanation
Indices: 9642910--9643297 Score: 434
Period size: 84 Copynumber: 4.6 Consensus size: 82
9642900 CAAAAATAGT
* * * * ** * *
9642910 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGCGGCGTTTGTAAAAAATGCCAC
1 GGCGTTTTT-T-TCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TATTAAACGCCGC
9642975 TAAAGAACATGTTCTTTAGC
63 TAAAGAACATGTTCTTTAGC
****** * *
9642995 GGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCATTAAGCGCCGC
1 GGCG-TTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT--ATTAAACGCCGC
9643060 TAAAGAACATGTTCTTTAGC
63 TAAAGAACATGTTCTTTAGC
* * * * *
9643080 GGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTACAAACGCCGCT
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATT--AAACGCCGCT
9643145 AAAGAACATGTTCTTTAGC
64 AAAGAACATGTTCTTTAGC
* * *
9643164 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCT
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTAT-TAAACGCCGCT
*
9643229 AAAGAACATGATCTTTAGC
64 AAAGAACATGTTCTTTAGC
* * *
9643248 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTT
1 GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT
9643298 TGTTTGTAAA
Statistics
Matches: 261, Mismatches: 35, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
82 2 0.01
83 5 0.02
84 210 0.80
85 41 0.16
86 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (82 bp):
GGCGTTTTTTTCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTATTAAACGCCGCTAA
AGAACATGTTCTTTAGC
Found at i:9643256 original size:126 final size:125
Alignment explanation
Indices: 9643009--9643298 Score: 438
Period size: 126 Copynumber: 2.3 Consensus size: 125
9642999 ATTAGAAAAA
* *
9643009 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCATTAAGCGCCGCTAAAGAACATGTTC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TATTAAGCGCCGCTAAAGAACATGATC
* *
9643074 TTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-
65 TTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT-CT
* *
9643135 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTAT-TAAGCGCCGCTAAAGAACATGATC
* * *
9643200 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
65 TTTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
* * *
9643261 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
9643299 GTTTGTAAAC
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
125 2 0.01
126 148 0.99
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (125 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTATTAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTTTTCCAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
Found at i:9643298 original size:84 final size:84
Alignment explanation
Indices: 9643012--9643298 Score: 443
Period size: 84 Copynumber: 3.4 Consensus size: 84
9643002 AGAAAAAAAA
**
9643012 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCAT-TAAGCGCCGCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTCTAAGCGCCGCTAAAGAACATGTTCTT
* *
9643076 TAGCGGCGTTTTTTCCAAAG
65 TAGCGGCGTTTTTTTCTAAG
* * * *
9643096 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAACGCCGCTAAAGAACATGTTCTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAGCGCCGCTAAAGAACATGTTCTT
9643160 TAGCGGCGTTTTTTTCTAAG
65 TAGCGGCGTTTTTTTCTAAG
*
9643180 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTT
9643245 AGCGGCGTTTTTTTCTAAG
66 AGCGGCGTTTTTTTCTAAG
* *
9643264 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
9643299 GTTTGTAAAC
Statistics
Matches: 185, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
83 2 0.01
84 183 0.99
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.32
Consensus pattern (84 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGTTCTTT
AGCGGCGTTTTTTTCTAAG
Found at i:9644409 original size:19 final size:19
Alignment explanation
Indices: 9644373--9644411 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
9644363 TATTATTAAT
**
9644373 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
9644392 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
9644411 A
1 A
9644412 ATTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:9644462 original size:16 final size:16
Alignment explanation
Indices: 9644441--9644473 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9644431 AATAAATTAT
*
9644441 ATTTATTATATTAATA
1 ATTTATTATATGAATA
9644457 ATTTATTATATGAATA
1 ATTTATTATATGAATA
9644473 A
1 A
9644474 ATATAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:9645680 original size:33 final size:33
Alignment explanation
Indices: 9645637--9645709 Score: 119
Period size: 33 Copynumber: 2.2 Consensus size: 33
9645627 AATGTTCAAA
* *
9645637 TGTCATTATTTTTTTAAAAATATAATATATTTT
1 TGTCACTATTTTCTTAAAAATATAATATATTTT
*
9645670 TGTCACTATTTTCTTAAAAATATAATATGTTTT
1 TGTCACTATTTTCTTAAAAATATAATATATTTT
9645703 TGTCACT
1 TGTCACT
9645710 GCACTTAATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.53
Consensus pattern (33 bp):
TGTCACTATTTTCTTAAAAATATAATATATTTT
Found at i:9651446 original size:23 final size:22
Alignment explanation
Indices: 9651395--9651446 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
9651385 CCTCGTCTTT
*
9651395 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
9651417 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
9651440 TTCTTTT
1 TTCTTTT
9651447 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:9651455 original size:12 final size:12
Alignment explanation
Indices: 9651404--9651458 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
9651394 TTTCTTTTGT
9651404 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
9651417 -TCATTTTC-TC
1 TTCTTTTTCAAC
9651427 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
9651440 TTCTTTTTCAAT
1 TTCTTTTTCAAC
9651452 TTCTTTT
1 TTCTTTT
9651459 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:9651465 original size:17 final size:18
Alignment explanation
Indices: 9651440--9651477 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
9651430 TTTCTTCAAC
* *
9651440 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
9651457 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
9651475 TTC
1 TTC
9651478 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:9656791 original size:21 final size:17
Alignment explanation
Indices: 9656766--9656832 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 17
9656756 GTTAAAAGTA
9656766 AAATTAAACAGATAACTTTT
1 AAATTAAA-AG-T-ACTTTT
9656786 GAAATTAAAAGTACTTTT
1 -AAATTAAAAGTACTTTT
*
9656804 AAATTTAAAAGCACTTTT
1 AAA-TTAAAAGTACTTTT
9656822 AAATTTAAAAG
1 AAA-TTAAAAG
9656833 CAAAAGCAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
17 3 0.07
18 30 0.68
19 1 0.02
20 2 0.05
21 8 0.18
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.36
Consensus pattern (17 bp):
AAATTAAAAGTACTTTT
Found at i:9656833 original size:18 final size:18
Alignment explanation
Indices: 9656780--9656834 Score: 85
Period size: 18 Copynumber: 3.1 Consensus size: 18
9656770 TAAACAGATA
*
9656780 ACTTTTGAAA-TTAAAAGT
1 ACTTTT-AAATTTAAAAGC
9656798 ACTTTTAAATTTAAAAGC
1 ACTTTTAAATTTAAAAGC
9656816 ACTTTTAAATTTAAAAGC
1 ACTTTTAAATTTAAAAGC
9656834 A
1 A
9656835 AAAGCAGATT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
17 3 0.09
18 32 0.91
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.38
Consensus pattern (18 bp):
ACTTTTAAATTTAAAAGC
Found at i:9657807 original size:17 final size:19
Alignment explanation
Indices: 9657764--9657807 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
9657754 TTGAAATTCC
9657764 TTAT-TAAAATTTAGAAAA
1 TTATATAAAATTTAGAAAA
*
9657782 TTCTA-AAAA-TTA-AAAA
1 TTATATAAAATTTAGAAAA
9657798 TTATATAAAA
1 TTATATAAAA
9657808 ATAGATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 8 0.36
17 7 0.32
18 7 0.32
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (19 bp):
TTATATAAAATTTAGAAAA
Found at i:9663648 original size:17 final size:16
Alignment explanation
Indices: 9663628--9663673 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
9663618 TATATACGTA
9663628 TAATAAATATATAAAAT
1 TAATAAATAT-TAAAAT
*
9663645 TAATAATTATTAAAAT
1 TAATAAATATTAAAAT
9663661 CT-ATAAA-ATTAAA
1 -TAATAAATATTAAA
9663674 CTTTAATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 6 0.23
16 10 0.38
17 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
TAATAAATATTAAAAT
Found at i:9663660 original size:16 final size:17
Alignment explanation
Indices: 9663628--9663660 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9663618 TATATACGTA
9663628 TAATAAATATATAAAAT
1 TAATAAATATATAAAAT
*
9663645 TAATAATTAT-TAAAAT
1 TAATAAATATATAAAAT
9663661 CTATAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TAATAAATATATAAAAT
Found at i:9668657 original size:8 final size:8
Alignment explanation
Indices: 9668617--9668655 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
9668607 ATGGTGTGAC
9668617 ATTTTAAT
1 ATTTTAAT
*
9668625 ATTATAAT
1 ATTTTAAT
*
9668633 ATTTTATT
1 ATTTTAAT
*
9668641 ATTTTAAA
1 ATTTTAAT
9668649 ATTTTAA
1 ATTTTAA
9668656 AAAATATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
ATTTTAAT
Found at i:9669617 original size:29 final size:29
Alignment explanation
Indices: 9669575--9669632 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9669565 GTTGTATCTT
9669575 AATTCAATTCATTATTTTCATTTTTAATC
1 AATTCAATTCATTATTTTCATTTTTAATC
9669604 AATTCAATTCATTATTTTCATTTTTAATC
1 AATTCAATTCATTATTTTCATTTTTAATC
9669633 TTTTTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (29 bp):
AATTCAATTCATTATTTTCATTTTTAATC
Found at i:9669887 original size:75 final size:72
Alignment explanation
Indices: 9669764--9669963 Score: 285
Period size: 72 Copynumber: 2.7 Consensus size: 72
9669754 CTAACGCACA
* *
9669764 AGATTATTTTCACTCTTTTATTTAAGTTGTTGCCCACATGCATATACTTTAATTCTTCAAGTTGA
1 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACATGCATATAC--T--TTCTTCAAGTTGA
9669829 -TTATCACACG
62 TTTATCACACG
* * *
9669839 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACGTGTATATACTTTCTTCAAGTTGATTTT
1 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACATGCATATACTTTCTTCAAGTTGATTTA
9669904 TCACACG
66 TCACACG
* * *
9669911 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCTACCTACATATACTTTCTT
1 AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACATGCATATACTTTCTT
9669964 TCTTTTATTT
Statistics
Matches: 115, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 13 0.11
72 58 0.50
73 1 0.01
75 43 0.37
ACGTcount: A:0.25, C:0.20, G:0.10, T:0.46
Consensus pattern (72 bp):
AGATTATTTTCACTCTTTTATTTAAGTTGCTACCCACATGCATATACTTTCTTCAAGTTGATTTA
TCACACG
Found at i:9673161 original size:366 final size:367
Alignment explanation
Indices: 9672437--9673892 Score: 2013
Period size: 366 Copynumber: 4.0 Consensus size: 367
9672427 GATTATTCTA
* * * * *
9672437 TGTATTTATGCAAGTTTCGTTTTGGATTTTTATTATCTCTTGTTCGTACAGAATACACAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATATCTTGTTCGTACAGAATACACAAATTCC
* * * *
9672502 AACTGTAACAACCTGCATTATTGCTGGAACT-AAAAAAAGATATACAAATTTTAGGAAGAAAAAA
66 AACTATAACAACCTGCATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* * * *
9672566 TGATTATCGACAAATGGCACCACCTCTTACCAAATAGGTTACAATTATAGTGTAAAGCCAACTAG
131 TGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAAAGCCAACTAG
* * *
9672631 AACCACGTAAGCTTTTTTTTTTCCAACGTAAGTATATCTCACGTGCTTCGTGTGCAGAGACTATG
196 AATCACATAAGC-TTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
* * * *
9672696 AGAATAAATAAAGGACTTCTTACTAGATTCACCAAACTCCATTGGGTGGTGCATCAGTGACTAAT
260 AGAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
* *
9672761 GACATTTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
325 GACATCTACAAAAAGTTCGTAATTAATAAAATCCGCAAAAGGT
* * * * *
9672804 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATATTTTGTTCATACATAATACAAAAATGCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATATCTTGTTCGTACAGAATACACAAATTCC
* * * * **
9672869 AACTATAATAACCTGCATTATTGTTGGAACT-AAAAAGAGATATATAAATTTAATAAAGAAAAAA
66 AACTATAACAACCTGCATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* * * *
9672933 TGATTATCGACATATGGCACCACCTCTTACCAATGAGGTTTCAATAATTGCGTAATGCCCAACTA
131 TGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAAAG-CCAACTA
* * * *
9672998 GAATCACATAAG-GTTTTTTTTCCAACATAAGAATATCTCACGTGCTTCGTGTGCAAAGATTATG
195 GAATCACATAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
* * * ** *
9673062 AGAACAGATAAAGGACATATTACTAGATTCACCAAACTCCATTGGGTGTTGAATTGGTGACTGAC
260 AGAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
* *
9673127 GGCATCTATAAAAAGTTCGTAATTAATAAAATCCGCAAAAGGT
325 GACATCTACAAAAAGTTCGTAATTAATAAAATCCGCAAAAGGT
* * * *
9673170 TGTATTTATTCATGTTTTACTTTGGACTTTTATTATATCTTGTTTGTACAGAATATACAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATATCTTGTTCGTACAGAATACACAAATTCC
* * *
9673235 AACTATAACAACCTACATTATTGCTAAAACTAAAAAAAAGATATATAAATTCAAGGAAGAAAAAA
66 AACTATAACAACCTGCATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* * *
9673300 TGATTATCGACAAATGGTACCACATTTTACCAAAGAGGTTTCAATAATAGCGTAAAGCCAACTAG
131 TGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAAAGCCAACTAG
* * * * *
9673365 AATCACGTAAGCATTTTTTTT-AAACGTAAAAATATCTCACGTGCTTCGTGTGCAGAGGCTATGA
196 AATCACATAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
* * * *
9673429 GAACAAATAAATGACATCTTACTAAATTTACCAAACTCCATTAGGTGTTGCATCAGTGACTGATG
261 GAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
*
9673494 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
326 ACATCTACAAAAAGTTCGTAATTAATAAAATCCGCAAAAGGT
* *
9673536 TGTATTTATGCATGTTTTGCTTTGGACTTTTTATTATCTCTTGTTCGTATAGAATACACAAATTC
1 TGTATTTATGCATGTTTTGCTTTGGAC-TTTTATTATATCTTGTTCGTACAGAATACACAAATTC
* * * * *
9673601 CAACTGTAACAACGTGCATTGTTGCTAGAACTAAAAATATATATATATAAATTTAAGGAAGAAAA
65 CAACTATAACAACCTGCATTATTGCTAGAACTAAAAA-AAAGATATATAAATTTAAGGAAGAAAA
* * * * * *
9673666 AATGATTATCGATAAATGGCGCCACAC-CTTCCCAAAGAGGTTCCAATCATAGCGTAATGCCCAA
129 AATGATTATCGACAAATGGCACCAC-CTCTTACCAAAGAGGTTTCAATAATAGCGTAAAG-CCAA
*
9673730 CTAGAATCACATAAGCTTTTTTTTTTCCAATGTAAGAATATCTCACGTGCTTCGTGTGCAGAGAC
192 CTAGAATCACATAAGC-TTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGAC
* * *
9673795 TATGAGAACAAATAAATGATATCTTACTAGATTCACCAATCTCCATTGGGTGTTGCATCAGTGAC
256 TATGAGAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGAC
* * *
9673860 TGATGACATCTACAAAAAGATCGTCATTGATAA
321 TGATGACATCTACAAAAAGTTCGTAATTAATAA
9673893 TGCTCTAGAA
Statistics
Matches: 949, Mismatches: 131, Indels: 14
0.87 0.12 0.01
Matches are distributed among these distances:
366 397 0.42
367 312 0.33
368 90 0.09
369 19 0.02
370 8 0.01
371 123 0.13
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (367 bp):
TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATATCTTGTTCGTACAGAATACACAAATTCC
AACTATAACAACCTGCATTATTGCTAGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
TGATTATCGACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAAAGCCAACTAG
AATCACATAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
GAACAAATAAAGGACATCTTACTAGATTCACCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
ACATCTACAAAAAGTTCGTAATTAATAAAATCCGCAAAAGGT
Found at i:9678402 original size:364 final size:366
Alignment explanation
Indices: 9676417--9680076 Score: 5046
Period size: 367 Copynumber: 10.0 Consensus size: 366
9676407 GATTATTCTA
*** * * * **
9676417 TGTATTTATGCATGTTTCATTTTGGATTTTTATTATCTCTTGATCGTACAGAATACACCAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * *
9676482 AACTGTAACAACCTGCATTATTGCTGGAACTAAAAAAAGATATATAAATTTTAGAAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* * * * * * * *
9676547 GATTATCGATAAATGGCACCACCTCTTACTAAAGAGGTTACGAGAATAGCCTAA-AGCCAACTAG
131 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTAG
* * *
9676611 AATCACGTAAGCTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCATGTGCAAAGATTATGA
196 AATCACGTAAGC-TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
* * *
9676676 GAACAAATAAAAGATATCTTACTAGATTCGCCAAACTCCATTGGGTGGTGCATCAATGACTGATG
260 GAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* * **
9676741 ACATTTACAAAAAGTTCATAATTAATGAAATCCGCAAAATAT
325 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* *
9676783 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCATACATAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * *
9676848 AACTGCAACAACCTGCATTATTATTGGAACTAAAAAAAGATATATAAATTTAAGAAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* * * * *
9676913 GATTATCGATATATGGCACCACCTCTTACCAAAGAGGTTTCAATAATTGCGTAACGCCCAACTAG
131 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTAG
* * * * *
9676978 AATCACGTAAGCTTTTTTTTTTTTCCAACATAAGAATGTCTCATGTGCTTCGTGTACAGAGACTC
196 AATCACGTAAGC----TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTA
* * * * * * *
9677043 TGAGAATAAATAAATGACACCTTACTAGATTCACCAAAATCCAATGAGTGTTGCATCAGTGACTG
257 TGAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTG
* * * *
9677108 ATGACGTCTATAAAAAGTTCGTAATTAATGAAATCCGTAAAATGT
322 ATGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * * *
9677153 TGTATTTATACATGTTTTGCTTTGGAATTTTATTGTCTTTTGTTCGTACATAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* *
9677218 AACTATAACAACCAGCATTATTGTTGGAACTAAAAAAAAGATATATAAATTTAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACT-AAAAAAAGATATATAAATTTAAGGAAGAAAAAA
* * * * *
9677283 TGACTATAAAGAAATGGCACCACTTCTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTA
130 TGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTA
* * *
9677348 GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACATACTTCGTGTGCAAAGACTATGA
195 GAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGA
* * * * *
9677413 GAATAAATAAAAGACATCTTACTAGATTCGCGAAACTCCATTGGATGTTGCATCAGTGATTGGTG
260 GAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATG
* * * *
9677478 ACACCTACAAAAAATTTGTAATTAATGAAATCCGCAAAAGAT
325 ACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * *
9677520 TGTATTTATGCATGTTTTGATTTGGACTTTTATTATCTTTTGTTCGTACGGAATATAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* * * *
9677585 TACTGTAACAACCTACTTTATTGTTGGAACTAAAAAATATATATATAAATTTAAGGAAGAAAAAA
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAA-AGATATATAAATTTAAGGAAGAAAAAA
* ** *
9677650 TGATTATCAACAAATGGCACCACCTCTTACCAAAAAGGTTTCAATAATAGCGTAATGCCTAACTA
130 TGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTA
* * *
9677715 GAATCATGTAAGCTTTTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTC-CGTGCAAAGACTA
195 GAATCACGTAAGC---TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTA
*
9677779 TGAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTAGGTGTTGCATCAGTGACTG
257 TGAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTG
* * *
9677844 ATGACATTTATAAAAAGTTCGTAATTAATGAAATCCGTAAAAGGT
322 ATGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* *
9677889 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTTTTGGTACAGAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
*
9677954 AACTGTAACAACCTGCTTTATTGTTGGAACT-AAAAAA-ATATATAAATTTAAGGAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* * * *
9678017 GATTATTAACAAATAGCACCACCTTTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAACTAG
131 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTAG
* * *
9678082 AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTACTTCGTGTGTATAGACTATGAG
196 AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAG
*
9678147 AACAAATAAATGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGA
261 AACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGA
*
9678212 CATCTA-AAAATGTTCGTAATTAATGAAATCCGCAAAAGGT
326 CATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
9678252 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
* *
9678317 AACTGTAACAACCTGTATTATTGTTGGAACT-AAAAAATATATATAAATTTAAGGAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* * * **
9678381 GATTATCAACAAATGGCACCACCTCTTACCAAATAGGTTTCAATAATAACATAATGCCCAACTAG
131 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTAG
* ** * *
9678446 AATCGCGTAAGCTTTTTTTTCCAGTGTAAGAATATCTCACGTGCTTCATGTACAGAGACTATGAG
196 AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAG
* * * * *
9678511 AACAAATAAAGGACACCTTACTAGATTCGCCAAACGCCATTAGGTGTTGCATCAGTGATTGATGA
261 AACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGA
* * *
9678576 CAGCTACAAAAAGTTCGTAATTAATGAAATCTGTAAAAGGT
326 CATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * *
9678617 TGTATTTATGCATGTTTTGGTTTGGACTTTTAGTAT-TATTT-TTCATACAGAATACAAAAATTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCT-TTTGTTCGTACAGAATACAAAAATTC
* * * *
9678680 CAACTGTAACAACTTGCTTTATTTTTGGAACTAAAAAAAAGGTATATAAATTTAAGGAAGAAAAA
65 CAACTGTAACAACCTGCATTATTGTTGGAACT-AAAAAAAGATATATAAATTTAAGGAAGAAAAA
* * *
9678745 ATGATTATCAACAAATGGCACCACCTTTTGCCAAAGAGGTTTCAATAATTGCGTAACACCCAACT
129 ATGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACT
* * * *
9678810 AGAATCACGAAAG--TTTTTTTCCAACGTTAGAATATCTCACGTACTTCGTGTGCATAGACTATG
194 AGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATG
* *
9678873 AGAACAAATAAAGGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCTGTGACTGAT
259 AGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGAT
9678938 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
324 GACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * *
9678981 TGTATTTATGCATGTTTTGCTTTGGAATTTTATTATCTTTTGTTCGTACGGAATACAAAAATTTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
*
9679046 AACTGTAACAACCTGCATTATTGTTGGAACT-AAAAAATATATATAAATTTAAGGAAGAAAAAAT
66 AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
* * * **
9679110 GATTATCAACAAATGGCACCACCTTTTTCCAAAAAGGTTTCAATAATAGCGTAATGCCCAACTAG
131 GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTAG
* * * *
9679175 AATCACGAAAGC--TTTTTTCCAACGTAAGAATATCTCACGTGTTTTGTGTGCAGAGACTACGAG
196 AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAG
* * * *
9679238 AACAAATAAAAGACATCTTACTAGATTCACCAAACTCCATTAGGTGTTGCATTAGTTACTGATGA
261 AACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGA
* *
9679303 CATCTACAAAAAGTTCGCAATTAATGAAATCCGTAAAAGGT
326 CATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * *
9679344 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATATTTTTTTTCGTACAGAATACAAAAGTTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTAT-CTTTTGTTCGTACAGAATACAAAAATTC
* * * * * *
9679409 AAACTATAACAACCAGCATTGTTGTTGGAACCAAAAAAAAAGATATATAAATTGAAGGAAGAAAA
65 CAACTGTAACAACCTGCATTATTGTTGGAA-C-TAAAAAAAGATATATAAATTTAAGGAAGAAAA
* *
9679474 AATGATTATCAACAAATAGCACCACCTCTTACCAAAGAGGTTTCAATAATTGCGTAACACCCAAC
128 AATGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAAC
* * * *
9679539 TAGAATCACGTAAGCTTTTTTTTCCAATGTAAGAATATCTCAAGTGCTTCGTATGCACAGACTAT
193 TAGAATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTAT
* * * * ** **
9679604 AAGAACAAATAAAGGACATCTTATTAGATTCACCAAACTCCATTCCGTGTTGCATCAGTGGTTGA
258 GAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGA
* *
9679669 TGACATCTACAAAAAGTTTGTAATTAATGATATCCGCAAAAGGT
323 TGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
* * * *
9679713 TGTATTTATGCATGTTTTGCTTTGAAC-TTTATTATCTCTTATTCGTACAGAATACACAAATTTC
1 TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACA-AAAATTC
* * * * * * * *
9679777 AAACTATGACAGCCTGCATTATTAG-TGAAACTAAAAAAATATATATAAATTTAAAGAAGAAAGA
65 CAACTGTAACAACCTGCATTATT-GTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAA
* ** * * **
9679841 ATGATTATCGACAAATGGCACCACCTCTTTGCAATGAGGTTTTAATAATAGCGTAATGCCCAACT
129 ATGATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACT
* * * * * * *
9679906 AAAATCATGTAAGCTTTTTTTTTCCAAAGTAAGAATATCTCATGTGTTTTGTGTGCAGAGAGTAT
194 AGAATCACGTAAGC-TTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTAT
* * * ** * *
9679971 GAGAATAAATAAAAGATATCTTACTAGATTCTCCAAACTCCATTAAGTATTGCGTCAGTGACTGA
258 GAGAACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGA
* *
9680036 TGACATCTACAAAAAGTTCGTAATTAATGAATTTCGCAAAA
323 TGACATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAA
9680077 TGTTACAAAA
Statistics
Matches: 2930, Mismatches: 337, Indels: 53
0.88 0.10 0.02
Matches are distributed among these distances:
363 444 0.15
364 564 0.19
365 118 0.04
366 456 0.16
367 584 0.20
368 42 0.01
369 362 0.12
370 257 0.09
371 103 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (366 bp):
TGTATTTATGCATGTTTTGCTTTGGACTTTTATTATCTTTTGTTCGTACAGAATACAAAAATTCC
AACTGTAACAACCTGCATTATTGTTGGAACTAAAAAAAGATATATAAATTTAAGGAAGAAAAAAT
GATTATCAACAAATGGCACCACCTCTTACCAAAGAGGTTTCAATAATAGCGTAACACCCAACTAG
AATCACGTAAGCTTTTTTTTCCAACGTAAGAATATCTCACGTGCTTCGTGTGCAGAGACTATGAG
AACAAATAAAAGACATCTTACTAGATTCGCCAAACTCCATTGGGTGTTGCATCAGTGACTGATGA
CATCTACAAAAAGTTCGTAATTAATGAAATCCGCAAAAGGT
Found at i:9680653 original size:32 final size:32
Alignment explanation
Indices: 9680608--9680671 Score: 85
Period size: 32 Copynumber: 2.0 Consensus size: 32
9680598 AACGTCCAAC
9680608 AAGATCTAAAATATCCTTCGA-TTATTTATAAT
1 AAGATCTAAAATATCCTT-GAGTTATTTATAAT
* * *
9680640 AAGATTTAGAATATCCTTTAGTTATTTATAAT
1 AAGATCTAAAATATCCTTGAGTTATTTATAAT
9680672 TGTTATTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.39, C:0.09, G:0.08, T:0.44
Consensus pattern (32 bp):
AAGATCTAAAATATCCTTGAGTTATTTATAAT
Found at i:9685851 original size:18 final size:18
Alignment explanation
Indices: 9685828--9685863 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9685818 TATATTGCAT
9685828 GCAACTATGTATTAGGAA
1 GCAACTATGTATTAGGAA
*
9685846 GCAACTATGTTTTAGGAA
1 GCAACTATGTATTAGGAA
9685864 ACTACTAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (18 bp):
GCAACTATGTATTAGGAA
Found at i:9685870 original size:18 final size:18
Alignment explanation
Indices: 9685829--9685870 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9685819 ATATTGCATG
*
9685829 CAACTATGTATTAGGAAG
1 CAACTATGTATTAGGAAA
*
9685847 CAACTATGTTTTAGGAAA
1 CAACTATGTATTAGGAAA
*
9685865 CTACTA
1 CAACTA
9685871 AGTCCAGGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (18 bp):
CAACTATGTATTAGGAAA
Found at i:9687415 original size:23 final size:23
Alignment explanation
Indices: 9687372--9687415 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
9687362 TTTAGAAAAA
* *
9687372 TCAATTTACTTACGAGTTATTAT
1 TCAATATACTGACGAGTTATTAT
9687395 TCAATATACTGAC-AGTGTATT
1 TCAATATACTGACGAGT-TATT
9687416 TTTTTATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 3 0.17
23 15 0.83
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (23 bp):
TCAATATACTGACGAGTTATTAT
Found at i:9687485 original size:16 final size:15
Alignment explanation
Indices: 9687455--9687483 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
9687445 TATTATGTAT
9687455 TTTTTTAAATATTTA
1 TTTTTTAAATATTTA
9687470 TTTTTTAAATATTT
1 TTTTTTAAATATTT
9687484 TACTATATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTTTAAATATTTA
Found at i:9696859 original size:43 final size:43
Alignment explanation
Indices: 9696798--9696891 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 43
9696788 ATCCTAATTG
9696798 AGAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-
1 AGAAAATAGTTCCCTTATTCTAATAAACTA-TAAAACATAAAAT
* *
9696841 AGAAAATAGTTCCCTTATTCTAGTAAACTATAAAAGATAAAAT
1 AGAAAATAGTTCCCTTATTCTAATAAACTATAAAACATAAAAT
*
9696884 AAAAAATA
1 AGAAAATA
9696892 TTTCTAGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 11 0.23
43 36 0.77
ACGTcount: A:0.53, C:0.13, G:0.06, T:0.28
Consensus pattern (43 bp):
AGAAAATAGTTCCCTTATTCTAATAAACTATAAAACATAAAAT
Found at i:9696935 original size:19 final size:18
Alignment explanation
Indices: 9696913--9696952 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9696903 TGAATAAAAC
9696913 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
9696932 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
9696950 TTA
1 TTA
9696953 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:9701602 original size:43 final size:44
Alignment explanation
Indices: 9701539--9701631 Score: 145
Period size: 43 Copynumber: 2.2 Consensus size: 44
9701529 TCCTAATTGG
9701539 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA-A
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
* * *
9701582 GAAAATAGTTCCCTTGTTCTAGTAAACTACTAAAAGATAAAATA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
9701626 -AAAATA
1 GAAAATA
9701632 TTTCTAGAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
43 45 0.98
44 1 0.02
ACGTcount: A:0.51, C:0.14, G:0.08, T:0.28
Consensus pattern (44 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAATA
Found at i:9701675 original size:19 final size:18
Alignment explanation
Indices: 9701653--9701692 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
9701643 TGAATAAAAC
9701653 TTATCTATCC-AAATAAGAT
1 TTATCTA-CCTAAATAA-AT
9701672 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
9701690 TTA
1 TTA
9701693 AAATATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:9704242 original size:141 final size:143
Alignment explanation
Indices: 9703969--9704249 Score: 426
Period size: 141 Copynumber: 2.0 Consensus size: 143
9703959 TTCACAACAA
9703969 AGCCATAATGAAAAAAACCCATTCCTTACCATAGGAACATTCTTCATAAAGCTGTAGTTACAGCA
1 AGCCATAATGAAAAAAACCCATTCCTTACCATAGGAACATTCTTCATAAAGCTGTAGTTACAGCA
* * * *
9704034 AGCTGTTAAAAGACAGGTGTTTAAAGAAAGTTGCTCCTCCTAGAAGTTGATTCCTATTTGCTCTG
66 AACTGTTAAAAGACAGGTGTTCAAAGAAAGTTGCTCCTCCTACAAGTTGATTCCTATTAGCTCTG
*
9704099 GCTATTGCTTGAT
131 GCTACTGCTTGAT
9704112 AGCCATAATG-AAAAAA-CCATTCCTTACCAT-GGAAACATTCTTCATAAAGCTGTAGTTACAGC
1 AGCCATAATGAAAAAAACCCATTCCTTACCATAGG-AACATTCTTCATAAAGCTGTAGTTACAGC
* ** * *
9704174 AAACTGTTAAAAGACAGGTGTTCAAAGAAAGTTGTTGTTTCC-ACAAGTTGATTCTTATTAGCTT
65 AAACTGTTAAAAGACAGGTGTTCAAAGAAAGTTGCT-CCTCCTACAAGTTGATTCCTATTAGCTC
9704238 TGGCTACTGCTT
129 TGGCTACTGCTT
9704250 TATAAAAGCT
Statistics
Matches: 126, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
140 2 0.02
141 105 0.83
142 9 0.07
143 10 0.08
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (143 bp):
AGCCATAATGAAAAAAACCCATTCCTTACCATAGGAACATTCTTCATAAAGCTGTAGTTACAGCA
AACTGTTAAAAGACAGGTGTTCAAAGAAAGTTGCTCCTCCTACAAGTTGATTCCTATTAGCTCTG
GCTACTGCTTGAT
Found at i:9704903 original size:16 final size:15
Alignment explanation
Indices: 9704884--9704950 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 15
9704874 AAAATCAAAA
9704884 AAATGTAAAAAAATTT
1 AAAT-TAAAAAAATTT
* *
9704900 AAATCT-AAAAAAGTA
1 AAAT-TAAAAAAATTT
9704915 AAATTAAAAAAATATTT
1 AAATT-AAAAAA-ATTT
*
9704932 AAAATTATAAAAATTT
1 -AAATTAAAAAAATTT
9704948 AAA
1 AAA
9704951 AGAAATAAAG
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 1 0.02
15 14 0.34
16 14 0.34
17 7 0.17
18 5 0.12
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (15 bp):
AAATTAAAAAAATTT
Found at i:9711893 original size:13 final size:13
Alignment explanation
Indices: 9711875--9711900 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9711865 CAAGGGTCTG
9711875 TCCCCCCCCCCCC
1 TCCCCCCCCCCCC
9711888 TCCCCCCCCCCCC
1 TCCCCCCCCCCCC
9711901 CGGGAGAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.92, G:0.00, T:0.08
Consensus pattern (13 bp):
TCCCCCCCCCCCC
Found at i:9722462 original size:21 final size:22
Alignment explanation
Indices: 9722436--9722482 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
9722426 CTCTGCTCAA
*
9722436 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
9722457 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
9722479 ACTC
1 ACTC
9722483 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:9729855 original size:13 final size:13
Alignment explanation
Indices: 9729837--9729862 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9729827 ATTATATGAA
9729837 ATTAATATTACTT
1 ATTAATATTACTT
9729850 ATTAATATTACTT
1 ATTAATATTACTT
9729863 TTTACTTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTAATATTACTT
Found at i:9733257 original size:6 final size:6
Alignment explanation
Indices: 9733246--9733278 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
9733236 AATTTATCTC
9733246 ATATTT ATATTT ATATTT ATATTT ATATTT ATA
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATA
9733279 GTTTGTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
ATATTT
Found at i:9739390 original size:18 final size:18
Alignment explanation
Indices: 9739355--9739409 Score: 69
Period size: 17 Copynumber: 3.2 Consensus size: 18
9739345 CGTGATCCGA
*
9739355 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
* *
9739372 TTTAAAACACTAAAA-TT
1 TTGAAAACACGAAAATTT
9739389 TTGAAAACACGAAAATTT
1 TTGAAAACACGAAAATTT
9739407 TTG
1 TTG
9739410 GGATCCGATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 21 0.68
18 10 0.32
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:9739979 original size:26 final size:27
Alignment explanation
Indices: 9739936--9739989 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
9739926 TATGTATACC
* *
9739936 AAATAATACATAATAATA-TTAAAATA
1 AAATAATACATAACAATAGTGAAAATA
9739962 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATAGTGAAAATA
9739989 A
1 A
9739990 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 15 0.62
27 8 0.33
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.26
Consensus pattern (27 bp):
AAATAATACATAACAATAGTGAAAATA
Found at i:9740024 original size:18 final size:17
Alignment explanation
Indices: 9739998--9740051 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 17
9739988 AATAAGCATA
9739998 ATAATAAATATAATGATAT
1 ATAA-AAATATAAT-ATAT
*
9740017 ATAAAAATATTACTATAT
1 ATAAAAATA-TAATATAT
*
9740035 ATAAAAGTAT-ATATAT
1 ATAAAAATATAATATAT
9740051 A
1 A
9740052 CGTACAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
16 6 0.19
17 1 0.03
18 17 0.55
19 7 0.23
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (17 bp):
ATAAAAATATAATATAT
Found at i:9740115 original size:30 final size:31
Alignment explanation
Indices: 9740072--9740153 Score: 82
Period size: 30 Copynumber: 2.7 Consensus size: 31
9740062 AATATATACT
* *
9740072 AATATTAATAATAAATATAATAG-GGGTAAA
1 AATAATAATAATAAATATAATAGAGAGTAAA
* *
9740102 AATAAGT-ATAAT-AATATATTAGATAGTAAA
1 AATAA-TAATAATAAATATAATAGAGAGTAAA
9740132 AATAATAATAATAACA-ATAATA
1 AATAATAATAATAA-ATATAATA
9740154 ATAATATGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 10 0.24
30 24 0.57
31 7 0.17
32 1 0.02
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (31 bp):
AATAATAATAATAAATATAATAGAGAGTAAA
Found at i:9740117 original size:3 final size:3
Alignment explanation
Indices: 9740109--9740159 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
9740099 AAAAATAAGT
* * * *
9740109 ATA ATA AT- ATA TTA GATA GTA AAA ATA ATA ATA ATA ACA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9740154 ATA ATA
1 ATA ATA
9740160 TGTGAAGGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.05
3 34 0.89
4 2 0.05
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9740470 original size:29 final size:30
Alignment explanation
Indices: 9740438--9740494 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
9740428 ATTAGCAGCG
* *
9740438 TGAAAATGATAA-AATAACAAATATTTAAA
1 TGAAAATAATAAGAACAACAAATATTTAAA
*
9740467 TGAAGATAATAAGAACAACAAATATTTA
1 TGAAAATAATAAGAACAACAAATATTTA
9740495 GAAAGTAAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.60, C:0.05, G:0.09, T:0.26
Consensus pattern (30 bp):
TGAAAATAATAAGAACAACAAATATTTAAA
Found at i:9748984 original size:13 final size:14
Alignment explanation
Indices: 9748963--9748991 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9748953 TGAAAAATGG
9748963 ATTAGAAAATATTT
1 ATTAGAAAATATTT
9748977 ATTA-AAAATATTT
1 ATTAGAAAATATTT
9748990 AT
1 AT
9748992 GAATTTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATTAGAAAATATTT
Found at i:9750069 original size:15 final size:15
Alignment explanation
Indices: 9750046--9750089 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
9750036 TATCAAATTT
9750046 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
9750061 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
9750076 ATATTGATTGAAAT
1 ATATTGATTGAAAT
9750090 ATAATATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:9750624 original size:18 final size:19
Alignment explanation
Indices: 9750603--9750643 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9750593 AATGAAATGA
9750603 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
9750621 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
9750640 GAAA
1 GAAA
9750644 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:9753729 original size:15 final size:15
Alignment explanation
Indices: 9753709--9753765 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
9753699 CGATGAATTT
9753709 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
9753724 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
9753739 ATTGAATTTATATTG
1 ATTGAATTTATATTG
9753754 ATTGAA-TTATAT
1 ATTGAATTTATAT
9753766 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:9754167 original size:23 final size:23
Alignment explanation
Indices: 9754137--9754219 Score: 84
Period size: 21 Copynumber: 3.8 Consensus size: 23
9754127 GCTTTATCGA
* *
9754137 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
9754160 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
9754181 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
9754203 T-AGGCACTTTATGTGTC
1 TCAGGCACCTCATGTGTC
9754220 ATATACTGAT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
21 33 0.63
22 1 0.02
23 18 0.35
ACGTcount: A:0.14, C:0.23, G:0.25, T:0.37
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:9754184 original size:21 final size:21
Alignment explanation
Indices: 9754149--9754209 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 21
9754139 AGGCACTTTA
9754149 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
9754172 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* *
9754193 TGTGTCGTTTTAGGCAC
1 TGTGTCGTATCAGGCAC
9754210 TTTATGTGTC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 27 0.75
23 9 0.25
ACGTcount: A:0.13, C:0.25, G:0.28, T:0.34
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:9754406 original size:18 final size:19
Alignment explanation
Indices: 9754385--9754425 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
9754375 AATGAAATGA
9754385 GAAATTGA-AT-TGAGAATT
1 GAAATTGATATATGAG-ATT
9754403 GAAATTGATATATGAGATT
1 GAAATTGATATATGAGATT
9754422 GAAA
1 GAAA
9754426 ATATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.22, T:0.32
Consensus pattern (19 bp):
GAAATTGATATATGAGATT
Done.