Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 200 of 259
Found at i:63672185 original size:150 final size:149
Alignment explanation
Indices: 63671782--63672137 Score: 476
Period size: 150 Copynumber: 2.4 Consensus size: 149
63671772 TTTGAGTACT
* * *
63671782 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
63671847 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
*
63671905 TTATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
63671926 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
63671991 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
63672055 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
63672076 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
63672138 AGTGATAAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 90 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:63673537 original size:49 final size:49
Alignment explanation
Indices: 63673476--63673717 Score: 421
Period size: 49 Copynumber: 4.9 Consensus size: 49
63673466 ATGTGAACAT
63673476 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
63673526 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
63673575 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
63673624 GTGATATGTGACTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
63673673 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
63673718 AGAAAACGAA
Statistics
Matches: 185, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
49 181 0.98
50 4 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:63676928 original size:52 final size:49
Alignment explanation
Indices: 63676843--63677209 Score: 422
Period size: 46 Copynumber: 7.6 Consensus size: 49
63676833 TTTGAGTACT
* **
63676843 TCTGATCAAGTGAC---AAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* * *
63676889 TCTGATCAAGAGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
63676941 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
63676987 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
63677033 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
63677085 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
63677137 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
63677183 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
63677210 GCTACACTTA
Statistics
Matches: 289, Mismatches: 18, Indels: 28
0.86 0.05 0.08
Matches are distributed among these distances:
46 155 0.54
48 1 0.00
49 1 0.00
52 132 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:63676964 original size:98 final size:97
Alignment explanation
Indices: 63676843--63677209 Score: 483
Period size: 98 Copynumber: 3.7 Consensus size: 97
63676833 TTTGAGTACT
* *
63676843 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGT-
*
63676908 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * * *
63676941 TCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* *
63677001 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
63677033 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGA
63677098 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
63677137 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGAC-AAGT
63677202 GATAAGTG
65 GA-AAGTG
63677210 GCTACACTTA
Statistics
Matches: 236, Mismatches: 19, Indels: 27
0.84 0.07 0.10
Matches are distributed among these distances:
92 42 0.18
98 141 0.60
99 10 0.04
104 43 0.18
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:63677191 original size:196 final size:196
Alignment explanation
Indices: 63676857--63677209 Score: 589
Period size: 196 Copynumber: 1.8 Consensus size: 196
63676847 ATCAAGTGAC
* * *
63676857 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAAGTA
* * * * *
63676922 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
63676987 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
63677052 G
196 G
* * *
63677053 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAAGTA
*
63677118 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
63677183 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
63677210 GCTACACTTA
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 144 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:63677217 original size:37 final size:37
Alignment explanation
Indices: 63677173--63677282 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
63677163 GATAGCTTTA
63677173 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
63677210 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
63677247 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
63677283 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:63677246 original size:150 final size:149
Alignment explanation
Indices: 63676843--63677198 Score: 476
Period size: 150 Copynumber: 2.4 Consensus size: 149
63676833 TTTGAGTACT
* * *
63676843 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
63676908 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
*
63676966 TTATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
63676987 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
63677052 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
63677116 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
63677137 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
63677199 AGTGATAAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 90 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:63679195 original size:53 final size:53
Alignment explanation
Indices: 63679115--63679221 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
63679105 CTAACAAATT
63679115 AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
1 AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
**
63679168 AAGTTACCCGGTCCAATTGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
1 AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
63679221 A
1 A
63679222 GAGTCGTTTC
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (53 bp):
AAGTTACCCGGTCCAACAGACCCGATTCCTTTGCAAAGTATAAATGAAAGGTA
Found at i:63680713 original size:27 final size:26
Alignment explanation
Indices: 63680681--63680751 Score: 79
Period size: 27 Copynumber: 2.7 Consensus size: 26
63680671 ATATATACAT
63680681 AATATATATATATAATAAATATTGAAA
1 AATATATATATATAATAAATA-TGAAA
* * * *
63680708 AATATATGTACATAACATATATGAAA
1 AATATATATATATAATAAATATGAAA
*
63680734 AATATATACATAATAATA
1 AATATATATAT-ATAATA
63680752 TTAAAATAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 13 0.37
27 22 0.63
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (26 bp):
AATATATATATATAATAAATATGAAA
Found at i:63680804 original size:19 final size:20
Alignment explanation
Indices: 63680743--63680809 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 20
63680733 AAATATATAC
63680743 ATAATAA-TATTAA-AATAAA
1 ATAATAAGTA-TAATAATAAA
*
63680762 ATAATAAGTGATAATAGTGAAA
1 ATAATAAGT-ATAATAAT-AAA
63680784 ATAATAAGTATAATAATAAA
1 ATAATAAGTATAATAATAAA
63680804 TATAAT
1 -ATAAT
63680810 GATGTATGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.17
20 7 0.17
21 15 0.37
22 12 0.29
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.31
Consensus pattern (20 bp):
ATAATAAGTATAATAATAAA
Found at i:63681575 original size:9 final size:10
Alignment explanation
Indices: 63681558--63681588 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
63681548 ACTCAAAAAA
63681558 TGTATTTTTT
1 TGTATTTTTT
*
63681568 TTTATTTTTT
1 TGTATTTTTT
63681578 TGTATTTTTT
1 TGTATTTTTT
63681588 T
1 T
63681589 ACGTTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.06, T:0.84
Consensus pattern (10 bp):
TGTATTTTTT
Found at i:63683141 original size:12 final size:12
Alignment explanation
Indices: 63683124--63683154 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
63683114 GCATCATGCA
63683124 CCAGAGCAGAAG
1 CCAGAGCAGAAG
*
63683136 CCAGAGCAGGAG
1 CCAGAGCAGAAG
63683148 CCAGAGC
1 CCAGAGC
63683155 CGGAACTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.29, G:0.35, T:0.00
Consensus pattern (12 bp):
CCAGAGCAGAAG
Found at i:63683346 original size:33 final size:34
Alignment explanation
Indices: 63683309--63683421 Score: 110
Period size: 33 Copynumber: 3.4 Consensus size: 34
63683299 ATTTATCTCA
*
63683309 GTACTCTACTCCTTCCGGCCCGTATCCACCCA-T
1 GTACTCTACTCCTTCCGGCCCGTATCCACCCACC
*
63683342 GTACTCAACTCC-TCCAGAG-CCGTATCCA-CCACC
1 GTACTCTACTCCTTCC-G-GCCCGTATCCACCCACC
* * *
63683375 GTACTCTACTCCTTTCGGCCCATATCCA-CCGCC
1 GTACTCTACTCCTTCCGGCCCGTATCCACCCACC
* *
63683408 ATATTCTACTCCTT
1 GTACTCTACTCCTT
63683422 TCGGTTCATG
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
32 7 0.10
33 57 0.85
34 3 0.04
ACGTcount: A:0.19, C:0.43, G:0.11, T:0.27
Consensus pattern (34 bp):
GTACTCTACTCCTTCCGGCCCGTATCCACCCACC
Found at i:63685081 original size:17 final size:17
Alignment explanation
Indices: 63685051--63685084 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63685041 TAAAAATAAA
63685051 ACTTTACAACTTGGGCC
1 ACTTTACAACTTGGGCC
63685068 ACTTTGACAA-TTGGGCC
1 ACTTT-ACAACTTGGGCC
63685085 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:0.21, T:0.29
Consensus pattern (17 bp):
ACTTTACAACTTGGGCC
Found at i:63689926 original size:17 final size:17
Alignment explanation
Indices: 63689896--63689929 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
63689886 TAAAAATAAA
63689896 ACTTTACAACTTGGGCC
1 ACTTTACAACTTGGGCC
63689913 ACTTTGACAA-TTGGGCC
1 ACTTT-ACAACTTGGGCC
63689930 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:0.21, T:0.29
Consensus pattern (17 bp):
ACTTTACAACTTGGGCC
Found at i:63692906 original size:27 final size:27
Alignment explanation
Indices: 63692844--63692906 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 27
63692834 CCTACCAAGA
* *
63692844 AGGCACAACTAGTCGCGCTTGTCAAAT
1 AGGCACAACTAGTCGAGCCTGTCAAAT
* * * *
63692871 AAGCTCAACTAGTTGAGCCTGTCAGAT
1 AGGCACAACTAGTCGAGCCTGTCAAAT
*
63692898 AGGCGCAAC
1 AGGCACAAC
63692907 ATGTATATAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (27 bp):
AGGCACAACTAGTCGAGCCTGTCAAAT
Found at i:63696314 original size:31 final size:31
Alignment explanation
Indices: 63696278--63696340 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
63696268 TCAAATTAAA
63696278 AGGGTTATTTACCAATTAAGTACTTAAAATC
1 AGGGTTATTTACCAATTAAGTACTTAAAATC
63696309 AGGGTTATTTACCAATTAAGTACTTAAAATC
1 AGGGTTATTTACCAATTAAGTACTTAAAATC
63696340 A
1 A
63696341 ATCTTCACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (31 bp):
AGGGTTATTTACCAATTAAGTACTTAAAATC
Found at i:63697376 original size:18 final size:18
Alignment explanation
Indices: 63697350--63697540 Score: 158
Period size: 18 Copynumber: 10.6 Consensus size: 18
63697340 AATTGATCGG
*
63697350 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
63697368 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
63697386 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
*
63697403 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
63697421 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
63697440 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
63697458 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
63697476 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
63697495 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
63697512 TTATCCGGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
63697530 TTATTCAGTAA
1 TTATTCAGTAA
63697541 TAATCAGCTA
Statistics
Matches: 138, Mismatches: 25, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
17 19 0.14
18 104 0.75
19 15 0.11
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:63697413 original size:54 final size:54
Alignment explanation
Indices: 63697350--63697552 Score: 196
Period size: 54 Copynumber: 3.8 Consensus size: 54
63697340 AATTGATCGG
*
63697350 TTATCCAGTAACAGTCAATTATTCAGTAA-AATCAGATATTCAGTAACAATTAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * * **
63697403 GTTATTCAGTAGCAGTC-ATTCATTCAGTGACAATCAGTTATTCAGTAATGATCAA
1 -TTATCCAGTAACAGTCAATT-ATTCAGTAACAATCAGATATTCAGTAACAATCAA
* * * * * * *
63697458 TTATTCAGTAATATTCAGTTATTCAGTAACAGTCTA-ATATCCAGTAACAGTCAA
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATC-AGATATTCAGTAACAATCAA
* * * *
63697512 TTATCCGGTAACAGTCAGTTATTCAGTAATAATCAGCTATT
1 TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATT
63697553 TTATACCTTT
Statistics
Matches: 118, Mismatches: 26, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
53 4 0.03
54 91 0.77
55 23 0.19
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.34
Consensus pattern (54 bp):
TTATCCAGTAACAGTCAATTATTCAGTAACAATCAGATATTCAGTAACAATCAA
Found at i:63697534 original size:72 final size:70
Alignment explanation
Indices: 63697351--63697552 Score: 215
Period size: 72 Copynumber: 2.8 Consensus size: 70
63697341 ATTGATCGGT
* * * * *
63697351 TATCCAGTAACAGTCAATTATTCAGTAAAATCAGATATTCAGTAACAATTAAGTTATTCAGTAGC
1 TATCCAGTAACAGTCAATTATTCAGTAAAGTCAGTTATTCAGTAA-TATTCAGTTATTCAGTAAC
*
63697416 AGTCAT
65 AGTCAA
* * * * * *
63697422 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAGTCAATTATTCAGTAAAG-TCAGTTATTCAGTAATATTCAGTTATTCAGTAA
63697487 CAGTCTAA
64 CAGTC-AA
* * * *
63697495 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAGTTATTCAGTAATAATCAGCTATT
1 TATCCAGTAACAGTCAATTATTCAGTAA-AGTCAGTTATTCAGTAATATTCAGTTATT
63697553 TTATACCTTT
Statistics
Matches: 105, Mismatches: 22, Indels: 7
0.78 0.16 0.05
Matches are distributed among these distances:
71 1 0.01
72 88 0.84
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (70 bp):
TATCCAGTAACAGTCAATTATTCAGTAAAGTCAGTTATTCAGTAATATTCAGTTATTCAGTAACA
GTCAA
Found at i:63697734 original size:47 final size:47
Alignment explanation
Indices: 63697669--63697775 Score: 160
Period size: 47 Copynumber: 2.3 Consensus size: 47
63697659 CAGTAACAGT
* * *
63697669 AACAGTAGCAGTACGGTACACAGAGTACCTCATCGGAACAAATCTGG
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
* * *
63697716 AACAGTAATAGTATGGTACACTGAGTACCTCATCGGAACAAATCCGA
1 AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
63697763 AACAGTAACAGTA
1 AACAGTAACAGTA
63697776 ACAATATCCG
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.19
Consensus pattern (47 bp):
AACAGTAACAGTACGGTACACAGAGTACCTCATCGGAACAAATCCGA
Found at i:63697821 original size:12 final size:12
Alignment explanation
Indices: 63697804--63697828 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63697794 AGTGCCGAAT
63697804 CGGTAACAGTAA
1 CGGTAACAGTAA
63697816 CGGTAACAGTAA
1 CGGTAACAGTAA
63697828 C
1 C
63697829 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:63703236 original size:18 final size:18
Alignment explanation
Indices: 63703184--63703479 Score: 152
Period size: 18 Copynumber: 16.1 Consensus size: 18
63703174 TCATTAACAA
* *
63703184 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAATTAT
* * *
63703201 TCTGTAACAGTCACTTAT
1 TCAGTAACAATCAATTAT
*
63703219 TCAGTAACAATGAATTAT
1 TCAGTAACAATCAATTAT
* * * * *
63703237 TCAATAATAACCAGTTAC
1 TCAGTAACAATCAATTAT
* *
63703255 TCAGTATCGATCAATTGATCGGTT
1 TCAGTAACAATCAATT-A-----T
63703279 ATCCAGTAACAATCAATTAT
1 -TC-AGTAACAATCAATTAT
63703299 TCAGTAA-AATCAGA-TAT
1 TCAGTAACAATCA-ATTAT
*
63703316 TCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAA-TTAT
** *
63703335 TCAGTTGCAGTC-ATTCAT
1 TCAGTAACAATCAATT-AT
* *
63703353 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATTAT
**
63703371 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAATTAT
* * *
63703389 TCAGTAATATTCAGTTAT
1 TCAGTAACAATCAATTAT
*
63703407 TCAGTAACAGTCTAA-TAT
1 TCAGTAACAATC-AATTAT
* * *
63703425 CCAGTAACAGTCGATTAT
1 TCAGTAACAATCAATTAT
* * *
63703443 CCGGTAACAGTCAATTAT
1 TCAGTAACAATCAATTAT
* *
63703461 TCAGTAATAATCAGTTAT
1 TCAGTAACAATCAATTAT
63703479 T
1 T
63703480 TTATACCTTT
Statistics
Matches: 211, Mismatches: 51, Indels: 33
0.72 0.17 0.11
Matches are distributed among these distances:
17 22 0.10
18 156 0.74
19 17 0.08
20 1 0.00
25 3 0.01
26 12 0.06
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAATTAT
Found at i:63703316 original size:17 final size:18
Alignment explanation
Indices: 63703277--63703479 Score: 153
Period size: 18 Copynumber: 11.3 Consensus size: 18
63703267 AATTGATCGG
*
63703277 TTATCCAGTAACAATCAA
1 TTATTCAGTAACAATCAA
63703295 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
63703313 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
** *
63703330 GTTATTCAGTTGCAGTC-A
1 -TTATTCAGTAACAATCAA
* *
63703348 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAATCAA
**
63703367 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * *
63703385 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAATCAA
*
63703403 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* * *
63703422 -TATCCAGTAACAGTCGA
1 TTATTCAGTAACAATCAA
* * *
63703439 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
63703457 TTATTCAGTAATAATCAG
1 TTATTCAGTAACAATCAA
63703475 TTATT
1 TTATT
63703480 TTATACCTTT
Statistics
Matches: 148, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
17 19 0.13
18 115 0.78
19 14 0.09
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:63703418 original size:72 final size:71
Alignment explanation
Indices: 63703278--63703479 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 71
63703268 ATTGATCGGT
* * * **
63703278 TATCCAGTAACAATCAATTATTCAGTAAAATCAGA-TATTCAGTAACAATTAAGTTATTCAGTTG
1 TATCCAGTAACAATCAGTTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAGTTATTCAGTAA
*
63703342 CAGTC-AT
64 CAGTCTAA
* * *
63703349 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAATATTCAGTTATTCAGTAA
1 T-ATCCAGTAACAATCAGTTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATTCAGTAA
63703414 CAGTCTAA
64 CAGTCTAA
* * * * *
63703422 TATCCAGTAACAGTC-GATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 TATCCAGTAACAATCAG-TTATTCAGTAA-AATCAATTATTCAGTAATATTCAGTTATT
63703480 TTATACCTTT
Statistics
Matches: 108, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
71 2 0.02
72 90 0.83
73 16 0.15
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (71 bp):
TATCCAGTAACAATCAGTTATTCAGTAAAATCAATTATTCAGTAATATTCAGTTATTCAGTAACA
GTCTAA
Found at i:63703691 original size:12 final size:12
Alignment explanation
Indices: 63703674--63703698 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63703664 AGTGCCGAAT
63703674 CGGTAACAGTAA
1 CGGTAACAGTAA
63703686 CGGTAACAGTAA
1 CGGTAACAGTAA
63703698 C
1 C
63703699 AGTAGTTGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:63704310 original size:20 final size:18
Alignment explanation
Indices: 63704276--63704320 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
63704266 AAACTTTCAA
63704276 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
63704294 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
63704314 -TTTCCCT
1 TTTTCCCT
63704321 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:63707074 original size:32 final size:32
Alignment explanation
Indices: 63707038--63707197 Score: 257
Period size: 32 Copynumber: 5.0 Consensus size: 32
63707028 TATAACTATG
63707038 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
63707070 CTACTTTTTCATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
63707102 CTACTTTTTTATATGTGAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
63707134 ATACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
63707166 CTACTTTTTTATAGGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
63707198 ATTTTTTATG
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 116 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:63709259 original size:21 final size:21
Alignment explanation
Indices: 63709209--63709261 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
63709199 CGCTGTTTCT
* *
63709209 AATCTCACCGCTACAGTATCC
1 AATCTCACTGCTACAGTAACC
63709230 AATCTCACTGCTACAGTAACC
1 AATCTCACTGCTACAGTAACC
63709251 AATCTCACTGC
1 AATCTCACTGC
63709262 CACTGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACTGCTACAGTAACC
Found at i:63710207 original size:20 final size:22
Alignment explanation
Indices: 63710163--63710207 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
63710153 TATCTTTATT
*
63710163 ATATTCTTTCGAATCTTTTTTTA
1 ATATTCTTTC-AATCTTTGTTTA
63710186 ATATTCTTTC-ATC-TTGTTTA
1 ATATTCTTTCAATCTTTGTTTA
63710206 AT
1 AT
63710208 TTTAGGTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
23 10 0.48
ACGTcount: A:0.22, C:0.13, G:0.04, T:0.60
Consensus pattern (22 bp):
ATATTCTTTCAATCTTTGTTTA
Found at i:63711188 original size:18 final size:18
Alignment explanation
Indices: 63711167--63711201 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
63711157 ATTTTATATT
*
63711167 TATTAAATAATTTAATTA
1 TATTAAATAATTAAATTA
*
63711185 TATTTAATAATTAAATT
1 TATTAAATAATTAAATT
63711202 TAAGTAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTAAATAATTAAATTA
Found at i:63711188 original size:22 final size:22
Alignment explanation
Indices: 63711160--63711220 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
63711150 AATTTAAATT
63711160 TTATATTTATTAAATAATTTAA
1 TTATATTTATTAAATAATTTAA
* *
63711182 TTATATTTAATAATTAAATTTAA
1 TTATATTTATTAAAT-AATTTAA
* *
63711205 GTA-ATTTATCAAATAA
1 TTATATTTATTAAATAA
63711221 ATTTTATAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 2 0.06
22 21 0.66
23 9 0.28
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
TTATATTTATTAAATAATTTAA
Found at i:63716795 original size:31 final size:31
Alignment explanation
Indices: 63716754--63716818 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
63716744 AACCCTTAAC
*
63716754 AGTCAAGTGACTTGAATAAAAACTTTTGAAT
1 AGTCAAGTGACTTAAATAAAAACTTTTGAAT
* *
63716785 AGTCTAGTGACTTAAATGAAAACTTTTGAAT
1 AGTCAAGTGACTTAAATAAAAACTTTTGAAT
63716816 AGT
1 AGT
63716819 TCAATGATCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (31 bp):
AGTCAAGTGACTTAAATAAAAACTTTTGAAT
Found at i:63718737 original size:15 final size:15
Alignment explanation
Indices: 63718717--63718746 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
63718707 GTCACGTCCC
63718717 AAAAATTAGGTTAGT
1 AAAAATTAGGTTAGT
*
63718732 AAAAATTGGGTTAGT
1 AAAAATTAGGTTAGT
63718747 GAATCAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AAAAATTAGGTTAGT
Found at i:63719314 original size:29 final size:29
Alignment explanation
Indices: 63719265--63719322 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
63719255 TGACCTCTAA
* *
63719265 TTCTTCTGTTGTCGTCCCCTTGCTATTGT
1 TTCTTCTGTTGTCGTCACCTTGCCATTGT
* *
63719294 TTCTTTTGTTGTTGTCACCTTGCCATTGT
1 TTCTTCTGTTGTCGTCACCTTGCCATTGT
63719323 GGTGTTGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.05, C:0.24, G:0.17, T:0.53
Consensus pattern (29 bp):
TTCTTCTGTTGTCGTCACCTTGCCATTGT
Found at i:63721261 original size:26 final size:26
Alignment explanation
Indices: 63721224--63721277 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
63721214 AATAGTCAAG
63721224 TTTTCTAATTAATAAAATGAGACGGT
1 TTTTCTAATTAATAAAATGAGACGGT
* *
63721250 TTTTCTACTTAATAAAATGAGATGGT
1 TTTTCTAATTAATAAAATGAGACGGT
63721276 TT
1 TT
63721278 ATGTTTTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.43
Consensus pattern (26 bp):
TTTTCTAATTAATAAAATGAGACGGT
Found at i:63722328 original size:42 final size:42
Alignment explanation
Indices: 63722272--63722360 Score: 108
Period size: 42 Copynumber: 2.1 Consensus size: 42
63722262 GTCCCCTCCC
* * * * *
63722272 AAGG-CTAGGTAGTCTTGTTGTGAGTCTTGGGCTTGGGAGGG
1 AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
*
63722313 AAGGACTAAGTAGTCTTATGGTGAGTTTTGGGCATGGGAAGG
1 AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
*
63722355 ATGGAC
1 AAGGAC
63722361 CAAGACTAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.10
42 36 0.90
ACGTcount: A:0.21, C:0.09, G:0.40, T:0.29
Consensus pattern (42 bp):
AAGGACTAAGTAGTCTTATGGTGAGTCTTGGGCATGGGAAGG
Found at i:63725966 original size:53 final size:53
Alignment explanation
Indices: 63725891--63725997 Score: 153
Period size: 53 Copynumber: 2.0 Consensus size: 53
63725881 CATGGAAACT
* * *
63725891 TGTGATATGTGATTTCCGTATAAGACCATAGTTGGGCTATGGCATCGGTGTGA
1 TGTGATATGTGACTTCCGTATAAGACCATAGTTGGGATATGGCATCAGTGTGA
* *
63725944 TGTGATTATGTG-CTTCCGTATAAGACTATATTTGGGATATGGCATCAGTGTGA
1 TGTGA-TATGTGACTTCCGTATAAGACCATAGTTGGGATATGGCATCAGTGTGA
63725997 T
1 T
63725998 ATGTGCTTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
53 42 0.88
54 6 0.12
ACGTcount: A:0.23, C:0.12, G:0.28, T:0.36
Consensus pattern (53 bp):
TGTGATATGTGACTTCCGTATAAGACCATAGTTGGGATATGGCATCAGTGTGA
Found at i:63726015 original size:47 final size:45
Alignment explanation
Indices: 63725944--63726063 Score: 152
Period size: 47 Copynumber: 2.6 Consensus size: 45
63725934 ATCGGTGTGA
* * * *
63725944 TGTGATTATGTGCTTCCGTATAAGACTATATTTGGGATATGGCATCAG
1 TGTGA-TATGTGCTTCTGTGTAAGACCATATCTGGGATA--GCATCAG
63725992 TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATAGCATCAG
1 TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATAGCATCAG
* *
63726037 TGTGGTATGTG-ATCTGTGTAAGACCAT
1 TGTGATATGTGCTTCTGTGTAAGACCAT
63726064 GGCTGGGCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 15 0.23
45 17 0.26
47 29 0.44
48 5 0.08
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (45 bp):
TGTGATATGTGCTTCTGTGTAAGACCATATCTGGGATAGCATCAG
Found at i:63728799 original size:130 final size:129
Alignment explanation
Indices: 63728619--63728990 Score: 440
Period size: 130 Copynumber: 2.9 Consensus size: 129
63728609 AAAATTCTTC
* * * *
63728619 AAAACGAAGACGAAATTTAATGTTCGGCGATTCACGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * * *
63728684 TTTCGTATTTGCTCAAAATAATCGAATTTCCCTTCGAAATTTCATTCATATCTTTTAAAATCCCT
66 TTTCG-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * *
63728749 TAAATGAAGATGAGATTTGATGTTTGGCCATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* * ** * * *
63728814 TTTCGCATTTGTTCAAAATAATCGAATATCACTTTAAAATTTTGCTCGTGTCTTTTAAAATCTCT
66 TTTCG-ATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
* * * * * * *
63728879 AAAACGAAGGCGATATGTGATATTTGGCAATTCGCGGGATCATGCCCTAACGTGTTGGGTAGCAA
1 AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
* *
63728944 TTTCCCGA-TTGTTTAAAATAATCAAATATCCCTTCAAAATTTCACTC
66 TTT--CGATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTC
63728991 GGCTCTTCTA
Statistics
Matches: 203, Mismatches: 37, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
130 200 0.99
131 1 0.00
132 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (129 bp):
AAAACGAAGACGAAATTTGATGTTTGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGTTGCAA
TTTCGATTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATATCTTTTAAAATCCCT
Found at i:63732606 original size:21 final size:21
Alignment explanation
Indices: 63732576--63732627 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
63732566 TGCATTCATG
63732576 CATT-TGCATTTGCATCATAT
1 CATTATGCATTTGCATCATAT
63732596 CATTATGCATTTGCATCATAT
1 CATTATGCATTTGCATCATAT
63732617 CATTATGCATT
1 CATTATGCATT
63732628 AAAGGCCATA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 4 0.13
21 27 0.87
ACGTcount: A:0.27, C:0.19, G:0.10, T:0.44
Consensus pattern (21 bp):
CATTATGCATTTGCATCATAT
Found at i:63741171 original size:44 final size:44
Alignment explanation
Indices: 63740789--63741160 Score: 550
Period size: 44 Copynumber: 8.5 Consensus size: 44
63740779 GGTAAATTCT
* *
63740789 GCAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCAAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
63740833 GCAGATTTGGTATCTCTGTATTGGCGGAGAGCA-A-CGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
** * * *
63740875 ATAGATTTGACATCTCTGTATTGGTGGAGAACAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * * * *
63740919 GCAGATTTGACATCTCTATATTGGCGGAGAACATATCGAAAATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
63740963 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATC
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* * *
63741007 GTAGATTTGGCATTTCTGTATTGGCAGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
* *
63741051 GCAGATTTGGCATCTCTGTATTGGCAGAGAGCAGATTGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
63741095 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
1 GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
*
63741139 GCAGATTTGGCGTCTCTGTATT
1 GCAGATTTGGCATCTCTGTATT
63741161 TACAAAGAGC
Statistics
Matches: 295, Mismatches: 31, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
42 34 0.12
43 2 0.01
44 259 0.88
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (44 bp):
GCAGATTTGGCATCTCTGTATTGGCGGAGAGCAGATCGAAGATA
Found at i:63748012 original size:14 final size:14
Alignment explanation
Indices: 63747977--63748019 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
63747967 CCACATATTT
*
63747977 TTATGTTTAAAT-A
1 TTATGTTTGAATAA
63747990 TT-T-TTTGAATAA
1 TTATGTTTGAATAA
63748002 TTATGTTTGAATAA
1 TTATGTTTGAATAA
63748016 TTAT
1 TTAT
63748020 TTGGTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 6 0.23
12 4 0.15
13 3 0.12
14 13 0.50
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (14 bp):
TTATGTTTGAATAA
Found at i:63764911 original size:37 final size:37
Alignment explanation
Indices: 63764870--63765045 Score: 298
Period size: 37 Copynumber: 4.8 Consensus size: 37
63764860 TTTGAGTACT
63764870 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
63764907 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
63764944 TCTGATCAAGAAACAAAGTGATAAGTGGTTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
*
63764981 TCTGATCAAGAGACAAAGTGATAAGTGGCTACACTTA
1 TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
** *
63765018 TCTGATCAAGTGATAAAGTGATAAGTGG
1 TCTGATCAAGAAACAAAGTGATAAGTGG
63765046 TAGCTTCAGC
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 134 1.00
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (37 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGCTACACTTA
Found at i:63765117 original size:45 final size:46
Alignment explanation
Indices: 63765008--63765131 Score: 200
Period size: 46 Copynumber: 2.8 Consensus size: 46
63764998 GTGATAAGTG
* *
63765008 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTCA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
*
63765054 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGCCT-A
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
63765099 GCTACACTTATCTGATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
63765132 AGGTCATATG
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.28
46 41 0.55
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTCA
Found at i:63775529 original size:13 final size:14
Alignment explanation
Indices: 63775508--63775536 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63775498 TGAAAAATGG
63775508 ATTAGAAAATATTT
1 ATTAGAAAATATTT
63775522 ATTA-AAAATATTT
1 ATTAGAAAATATTT
63775535 AT
1 AT
63775537 GAAGTTAATC
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:63775820 original size:23 final size:23
Alignment explanation
Indices: 63775767--63775820 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 23
63775757 TATGGTTATT
63775767 ATTATT-TAACTAATATTAAATA
1 ATTATTATAACTAATATTAAATA
* * *
63775789 ATTAATATAATTAATATTATATGA
1 ATTATTATAACTAATATTAAAT-A
63775813 A-TATTATA
1 ATTATTATA
63775821 TTTGAAAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 5 0.19
23 19 0.73
24 2 0.08
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTATTATAACTAATATTAAATA
Found at i:63776048 original size:28 final size:28
Alignment explanation
Indices: 63775995--63776078 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
63775985 CACTTTGTGC
63775995 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
63776024 TATTCTGGTGCGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
63776052 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
63776079 CTAGTGTGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 32 0.65
29 17 0.35
ACGTcount: A:0.19, C:0.05, G:0.31, T:0.45
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:63776395 original size:13 final size:14
Alignment explanation
Indices: 63776377--63776405 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63776367 GATTAACTTC
63776377 ATAAATATTTT-TA
1 ATAAATATTTTCTA
63776390 ATAAATATTTTCTA
1 ATAAATATTTTCTA
63776404 AT
1 AT
63776406 CCATTTTTTA
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:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:63776622 original size:13 final size:14
Alignment explanation
Indices: 63776601--63776629 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63776591 TGAAAAATGG
63776601 ATTAGAAAATATTT
1 ATTAGAAAATATTT
63776615 ATTA-AAAATATTT
1 ATTAGAAAATATTT
63776628 AT
1 AT
63776630 GAAGTTAATC
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:63777190 original size:31 final size:32
Alignment explanation
Indices: 63777141--63777204 Score: 87
Period size: 31 Copynumber: 2.0 Consensus size: 32
63777131 ATATTAAATA
*
63777141 AGATATTTATTAATTAAATA-ATTATATTATG
1 AGATATTTATTAATTAAATATATTAAATTATG
*
63777172 AGATTTTTATGTAA-TAAATATATTAAATTATG
1 AGATATTTAT-TAATTAAATATATTAAATTATG
63777204 A
1 A
63777205 CAAATGTATG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.52
32 14 0.48
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (32 bp):
AGATATTTATTAATTAAATATATTAAATTATG
Found at i:63778156 original size:15 final size:15
Alignment explanation
Indices: 63778133--63778176 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
63778123 TATCAAATTT
63778133 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
63778148 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
63778163 ATATTGATTGAAAT
1 ATATTGATTGAAAT
63778177 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:63778708 original size:18 final size:19
Alignment explanation
Indices: 63778685--63778758 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 19
63778675 AATGAAACGA
63778685 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
63778703 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
* * *
63778722 GAAA---ACATA-CA-CTT
1 GAAATTGAGATATGAGATT
63778736 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
63778755 GAAA
1 GAAA
63778759 ACATACACCA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
14 6 0.14
15 1 0.02
16 4 0.09
17 4 0.09
18 9 0.21
19 15 0.35
20 4 0.09
ACGTcount: A:0.46, C:0.04, G:0.22, T:0.28
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:63778739 original size:33 final size:33
Alignment explanation
Indices: 63778701--63778766 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
63778691 GAATTGAGAA
63778701 TTGAAATTGAGATATGAGATTGAAAACATACAC
1 TTGAAATTGAGATATGAGATTGAAAACATACAC
63778734 TTGAAATTGAGATATGAGATTGAAAACATACAC
1 TTGAAATTGAGATATGAGATTGAAAACATACAC
63778767 CAAAAGGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.45, C:0.09, G:0.18, T:0.27
Consensus pattern (33 bp):
TTGAAATTGAGATATGAGATTGAAAACATACAC
Found at i:63780027 original size:60 final size:60
Alignment explanation
Indices: 63779958--63780087 Score: 183
Period size: 60 Copynumber: 2.2 Consensus size: 60
63779948 AACTGGGCAT
*
63779958 TAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGTGTCAGAGTATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGT-TCAGA-TATATTGGGCC
* * *
63780018 TAGCCCATATCAGTATTAATCTGGGCCGTAGCCCTATTACAAGTTGAGATATATTGGGCC
1 TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTTCAGATATATTGGGCC
*
63780078 TTGCCCATAT
1 TAGCCCATAT
63780088 TAACACAGTT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
60 52 0.83
61 8 0.13
62 3 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (60 bp):
TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACAAGTTCAGATATATTGGGCC
Found at i:63787198 original size:15 final size:17
Alignment explanation
Indices: 63787166--63787201 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
63787156 GTTTCGTGAC
63787166 CACACGGGCGTGTGCCA
1 CACACGGGCGTGTGCCA
63787183 CACACGGGCG-GT-CCA
1 CACACGGGCGTGTGCCA
63787198 CACA
1 CACA
63787202 ATTATATGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 2 0.11
17 10 0.53
ACGTcount: A:0.22, C:0.39, G:0.31, T:0.08
Consensus pattern (17 bp):
CACACGGGCGTGTGCCA
Found at i:63791143 original size:15 final size:16
Alignment explanation
Indices: 63791125--63791155 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
63791115 TTTTTTAATA
63791125 TATTTTT-CTTTTCTT
1 TATTTTTCCTTTTCTT
63791140 TATTTTTCCTTTTCTT
1 TATTTTTCCTTTTCTT
63791156 GTAAATAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.77
Consensus pattern (16 bp):
TATTTTTCCTTTTCTT
Found at i:63796664 original size:21 final size:21
Alignment explanation
Indices: 63796635--63796722 Score: 86
Period size: 21 Copynumber: 4.0 Consensus size: 21
63796625 GCCATGTCCC
63796635 TAGTCCACACGGGCGTGTGCCT
1 TAGT-CACACGGGCGTGTGCCT
* *
63796657 TAGTCACACGGTCGTGTACCT
1 TAGTCACACGGGCGTGTGCCT
* *
63796678 CACTTCACACGGGCGTGTGCCT
1 TA-GTCACACGGGCGTGTGCCT
* * *
63796700 CAGTCACATGGTCGTGTGTCCT
1 TAGTCACACGGGCGTGTG-CCT
63796722 T
1 T
63796723 CTTTACGCGG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
21 29 0.54
22 25 0.46
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (21 bp):
TAGTCACACGGGCGTGTGCCT
Found at i:63801609 original size:30 final size:30
Alignment explanation
Indices: 63801560--63801618 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
63801550 AATTTTTTAT
*
63801560 TTTCCCTCTAAAATTTTAC-TCCCTCCCAC
1 TTTCCCCCTAAAATTTTACTTCCCTCCCAC
*
63801589 TTTCCCCCTAAAACTTTTACTTCCTTCCCA
1 TTTCCCCCTAAAA-TTTTACTTCCCTCCCA
63801619 TCCCACCCCC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 12 0.46
30 6 0.23
31 8 0.31
ACGTcount: A:0.20, C:0.41, G:0.00, T:0.39
Consensus pattern (30 bp):
TTTCCCCCTAAAATTTTACTTCCCTCCCAC
Found at i:63801718 original size:18 final size:18
Alignment explanation
Indices: 63801695--63801754 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
63801685 ACTCTCCTTA
63801695 TTTACTTTCCCTCAAACT
1 TTTACTTTCCCTCAAACT
* *
63801713 TTTAC--TCTCTAAAACTT
1 TTTACTTTCCCTCAAAC-T
*
63801730 TTTATTTTCCC-CTAAACT
1 TTTACTTTCCCTC-AAACT
63801748 TTTACTT
1 TTTACTT
63801755 CTCACTCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 8 0.25
17 5 0.16
18 12 0.38
19 7 0.22
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTACTTTCCCTCAAACT
Found at i:63806996 original size:131 final size:130
Alignment explanation
Indices: 63806830--63807221 Score: 536
Period size: 131 Copynumber: 3.0 Consensus size: 130
63806820 AAATTTGGAG
* * * *
63806830 AACATGAGTGAAATTCTAAAGGAATACTT-GATTATTTGGAACAAACAGGAGATCGTAACCCAGC
1 AACATGAGTGAAATTCCAAAGGAATA-TTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
* * *
63806894 ACGATAGGGCACGATTCCCCGAATTGCAAAACATCGAACATTCCCTTCGTGTTGAAGAATTTTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
63806959 A
130 A
* * * *
63806960 AGACATGAATGAAATTCCAAAGGAATGTTCAATTATTTTGAACAAACAGGAAATCGCAACCTAGC
1 A-ACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
*
63807025 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCATTTTGAAGAATTTTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
63807090 A
130 A
* * * *
63807091 AAGCATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAATAAGAAATCACAACCCAGC
1 AA-CATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGC
* * ** * * *
63807156 ACGATAGGGCACGATT-CCTGAATTGCCAAACACCGAGTATTGCCTTCGTTTTAAAGAATTCTTA
65 ACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTA
63807220 A
130 A
63807221 A
1 A
63807222 TGAATAATTA
Statistics
Matches: 231, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
130 46 0.20
131 185 0.80
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.26
Consensus pattern (130 bp):
AACATGAGTGAAATTCCAAAGGAATATTCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCA
CGATAGGGCACGATTCCCCGAATTGCCAAACATCGAACATTACCTTCGTTTTGAAGAATTTTTAA
Found at i:63816698 original size:4 final size:4
Alignment explanation
Indices: 63816689--63816714 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
63816679 AGCTGTTGAT
63816689 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
63816715 GTCAAAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:63818172 original size:36 final size:36
Alignment explanation
Indices: 63818125--63818196 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
63818115 AGGTCCATAT
63818125 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
1 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
63818161 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
1 TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
63818197 GATATAATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (36 bp):
TATCTAAGAAGTTGATGCATGTTTGCATGACAAAAG
Found at i:63824188 original size:19 final size:18
Alignment explanation
Indices: 63824164--63824220 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 18
63824154 AAATTATAAA
63824164 AAAAATCAATAAAATTTAT
1 AAAAAT-AATAAAATTTAT
* *
63824183 AAAAATTATTAAATTTTAAT
1 AAAAA-TAATAAAATTT-AT
*
63824203 AAAAAT-ATAAAATATAT
1 AAAAATAATAAAATTTAT
63824220 A
1 A
63824221 TTAAAAATTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
17 3 0.10
18 6 0.19
19 14 0.45
20 8 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAAATAATAAAATTTAT
Found at i:63824204 original size:20 final size:20
Alignment explanation
Indices: 63824153--63824230 Score: 63
Period size: 20 Copynumber: 4.0 Consensus size: 20
63824143 GTATGACAAA
* *
63824153 TAAATTATAAAAAAAATCAAT
1 TAAATTATAATAAAAAT-TAT
*
63824174 AAAATT-T-ATAAAAATTAT
1 TAAATTATAATAAAAATTAT
*
63824192 TAAATTTTAATAAAAA-TAT
1 TAAATTATAATAAAAATTAT
* *
63824211 AAAATATATATTAAAAATTA
1 TAAAT-TATAATAAAAATTA
63824231 GAAAAAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
18 7 0.15
19 15 0.33
20 17 0.37
21 7 0.15
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAATTATAATAAAAATTAT
Found at i:63824400 original size:11 final size:10
Alignment explanation
Indices: 63824375--63824409 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
63824365 GATATATGGC
*
63824375 AAAAAATGAT
1 AAAAAATTAT
63824385 AAAAAATTAT
1 AAAAAATTAT
63824395 AGAAAAATTAT
1 A-AAAAATTAT
63824406 AAAA
1 AAAA
63824410 TGCTTCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:63824564 original size:28 final size:28
Alignment explanation
Indices: 63824430--63824625 Score: 89
Period size: 28 Copynumber: 6.9 Consensus size: 28
63824420 GGTACAATAA
*
63824430 ATTTTATATATTTTTTATGAATTTTATATTTC
1 ATTTTATATA-TTTTTAT-AATTTT-T-TTAC
* * *
63824462 --TTTACAT-TTTTTATAATTTTCTTATG
1 ATTTTATATATTTTTATAATTTTTTTA-C
* * * * *
63824488 ACTTTATAAAATTTTATAGTTTTTTTTC
1 ATTTTATATATTTTTATAATTTTTTTAC
* *
63824516 TATATTTCTATATATTCTATAATTTTTTTAC
1 -AT-TTTATATAT-TTTTATAATTTTTTTAC
* *
63824547 ATTTTATATATTTTTAT-ATTTTTAATAA
1 ATTTTATATATTTTTATAATTTTT-TTAC
* * * *
63824575 ATTTTAAATATTTTAAT-ATTTTATTAA
1 ATTTTATATATTTTTATAATTTTTTTAC
* *
63824602 AATTTA-ATAATTTTTATAACTTTT
1 ATTTTATAT-ATTTTTATAATTTTT
63824626 ATTGTTTATA
Statistics
Matches: 124, Mismatches: 30, Indels: 24
0.70 0.17 0.13
Matches are distributed among these distances:
25 2 0.02
26 2 0.02
27 27 0.22
28 43 0.35
29 22 0.18
30 14 0.11
31 14 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (28 bp):
ATTTTATATATTTTTATAATTTTTTTAC
Found at i:63824569 original size:9 final size:9
Alignment explanation
Indices: 63824430--63824652 Score: 51
Period size: 9 Copynumber: 23.8 Consensus size: 9
63824420 GGTACAATAA
*
63824430 ATTTTATAT
1 ATTTTTTAT
63824439 ATTTTTTAT
1 ATTTTTTAT
*
63824448 GA-ATTTTAT
1 -ATTTTTTAT
*
63824457 ATTTCTTTAC
1 ATTT-TTTAT
63824467 ATTTTTTAT
1 ATTTTTTAT
63824476 AATTTTCTTAT
1 -ATTTT-TTAT
* * *
63824487 GACTTTATAAA
1 -A-TTTTTTAT
*
63824498 ATTTTATAGT
1 ATTTTTTA-T
* *
63824508 TTTTTTTCT
1 ATTTTTTAT
*
63824517 ATATTTCTAT
1 AT-TTTTTAT
* *
63824527 ATATTCTAT
1 ATTTTTTAT
63824536 AATTTTTT-T
1 -ATTTTTTAT
**
63824545 ACATTTTAT
1 ATTTTTTAT
63824554 ATATTTTTAT
1 AT-TTTTTAT
*
63824564 ATTTTTAAT
1 ATTTTTTAT
** *
63824573 AAATTTTAA
1 ATTTTTTAT
*
63824582 ATATTTTAAT
1 AT-TTTTTAT
63824592 ATTTTATTA-
1 ATTTT-TTAT
** *
63824601 AAATTTAAT
1 ATTTTTTAT
*
63824610 AATTTTTAT
1 ATTTTTTAT
**
63824619 A-ACTTT-T
1 ATTTTTTAT
*
63824626 ATTGTTTAT
1 ATTTTTTAT
63824635 ATTTGTTTAT
1 ATTT-TTTAT
63824645 CATTTTTT
1 -ATTTTTT
63824653 GCCACATGTC
Statistics
Matches: 150, Mismatches: 46, Indels: 35
0.65 0.20 0.15
Matches are distributed among these distances:
7 2 0.01
8 14 0.09
9 64 0.43
10 56 0.37
11 11 0.07
12 3 0.02
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTTAT
Found at i:63824626 original size:19 final size:19
Alignment explanation
Indices: 63824534--63824626 Score: 70
Period size: 19 Copynumber: 5.0 Consensus size: 19
63824524 TATATATTCT
* *
63824534 ATAATTTTTTTACATTTT-
1 ATAATTTTTATAAATTTTA
*
63824552 ATATATTTTTAT-ATTTTTA
1 ATA-ATTTTTATAAATTTTA
*
63824571 ATAAATTTTA-AATATTTTA
1 ATAATTTTTATAA-ATTTTA
*
63824590 AT-A-TTTTATTAAAATTTA
1 ATAATTTTTA-TAAATTTTA
*
63824608 ATAATTTTTATAACTTTTA
1 ATAATTTTTATAAATTTTA
63824627 TTGTTTATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
17 5 0.08
18 22 0.37
19 27 0.46
20 5 0.08
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTTTTATAAATTTTA
Found at i:63833710 original size:20 final size:21
Alignment explanation
Indices: 63833681--63833732 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
63833671 TGTTATACTT
* * *
63833681 TGATTGATTAA-GTAAAAATA
1 TGATTAATTAAGGAAAAAACA
63833701 TGATTAATTAAGGAAAAAACA
1 TGATTAATTAAGGAAAAAACA
*
63833722 TCATTAATTAA
1 TGATTAATTAA
63833733 ATTAGAGCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.33
Consensus pattern (21 bp):
TGATTAATTAAGGAAAAAACA
Found at i:63838962 original size:21 final size:21
Alignment explanation
Indices: 63838923--63838968 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
63838913 ATATGTCAAA
63838923 ATTTAAAAGAAAATAAATA-T
1 ATTTAAAAGAAAATAAATATT
* *
63838943 ATTTATAAATAAATTAAATATT
1 ATTTA-AAAGAAAATAAATATT
63838965 ATTT
1 ATTT
63838969 TTTATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 5 0.23
21 12 0.55
22 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTAAAAGAAAATAAATATT
Found at i:63839376 original size:26 final size:25
Alignment explanation
Indices: 63839325--63839376 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 25
63839315 AATTAATTTT
* *
63839325 ATTATTTTTAATTAATTATCATTTA
1 ATTATTTTTAATTAATTACCAATTA
63839350 ATTATTGTTTAA-TAATATACCAATTA
1 ATTATT-TTTAATTAAT-TACCAATTA
63839376 A
1 A
63839377 AACTAATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTATTTTTAATTAATTACCAATTA
Found at i:63839579 original size:16 final size:16
Alignment explanation
Indices: 63839560--63839593 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
63839550 TGATATTCAA
*
63839560 TAATTTTAATATTATT
1 TAATTTTAATAATATT
63839576 TAATTTTAATAATATT
1 TAATTTTAATAATATT
63839592 TA
1 TA
63839594 CATAATTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTTAATAATATT
Found at i:63840613 original size:11 final size:11
Alignment explanation
Indices: 63840597--63840626 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
63840587 TTATAGGCAT
63840597 AAGAAGTATAA
1 AAGAAGTATAA
63840608 AAGAAGTATAA
1 AAGAAGTATAA
63840619 AAGAAGTA
1 AAGAAGTA
63840627 GAGATCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (11 bp):
AAGAAGTATAA
Found at i:63852205 original size:19 final size:19
Alignment explanation
Indices: 63852181--63852219 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
63852171 AAGCAAAGAA
63852181 ATTCAAAACTTCGAAGTTT
1 ATTCAAAACTTCGAAGTTT
63852200 ATTCAAAACTTCGAAGTTT
1 ATTCAAAACTTCGAAGTTT
63852219 A
1 A
63852220 GTAATACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.36
Consensus pattern (19 bp):
ATTCAAAACTTCGAAGTTT
Found at i:63853547 original size:78 final size:78
Alignment explanation
Indices: 63853458--63853614 Score: 242
Period size: 78 Copynumber: 2.0 Consensus size: 78
63853448 ATTCATGGCT
* *
63853458 AATCACATCTTTATAAGTATGAATTATTGTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
1 AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
*
63853523 AGCTAATTAAAGG
66 AGCTAATCAAAGG
* * * * *
63853536 AATCACATCTTTATAAGTGTGAATCATTCTAGTTTAGGCAAATGATTACCACTCTCAATAGGATG
1 AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
63853601 AGCTAATCAAAGG
66 AGCTAATCAAAGG
63853614 A
1 A
63853615 GAGGATTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (78 bp):
AATCACATCTTTATAAGTATGAATCATTCTAATTTAGGCAAATGATTACAACTCTCAATAGAAGG
AGCTAATCAAAGG
Found at i:63862412 original size:47 final size:47
Alignment explanation
Indices: 63862350--63862475 Score: 155
Period size: 47 Copynumber: 2.7 Consensus size: 47
63862340 CTTTACATAA
* * *
63862350 TGATGCCATAGCCCAGCTATGGTCTTACAC-GTAATCACATATCTCAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAA-CACATATCACAC
* * * *
63862397 TGATGTCATATCCCAGATATGATCTTATACAGTAACATATATCACAC
1 TGATGCCATATCCCAGATATGGTCTTACACAGTAACACATATCACAC
* *
63862444 CGATGCCATATCCCAGATATGGTCTTATACAG
1 TGATGCCATATCCCAGATATGGTCTTACACAG
63862476 AAATCACTTG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
47 64 0.94
48 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (47 bp):
TGATGCCATATCCCAGATATGGTCTTACACAGTAACACATATCACAC
Found at i:63862491 original size:7 final size:7
Alignment explanation
Indices: 63862479--63862507 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
63862469 TATACAGAAA
63862479 TCACTTG
1 TCACTTG
63862486 TCACTTG
1 TCACTTG
63862493 TCACTTG
1 TCACTTG
63862500 TCACTTG
1 TCACTTG
63862507 T
1 T
63862508 AGCCAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.14, T:0.45
Consensus pattern (7 bp):
TCACTTG
Found at i:63862541 original size:31 final size:31
Alignment explanation
Indices: 63862506--63862714 Score: 292
Period size: 31 Copynumber: 6.7 Consensus size: 31
63862496 CTTGTCACTT
* *
63862506 GTAGCCAAAGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* ** * *
63862537 GTAGCTGGTGCTACCATTTTTCACTGATCAC
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
63862568 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
63862599 GTAGCCGAAGCTACCACTTTTCACTGATTAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
63862630 GTAGCAGAAGCTACCACTTTTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
63862661 GTAGCTGAAACTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
63862692 GTAGCTGAAGCTACCACTTTTCA
1 GTAGCCGAAGCTACCACTTTTCA
63862715 GTTGTCATTT
Statistics
Matches: 158, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 158 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:63862798 original size:50 final size:50
Alignment explanation
Indices: 63862692--63862868 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
63862682 CACTGATCAG
* * * * *
63862692 GTAGCTGAAGCTACCACTTTTCAGTTGTCATTTG-CCATTGATCAGATAAAT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCC-TTGATCAGATAAGT
* *
63862743 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTAATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
63862793 GTAGCCGAAGTTATTACTTATCACTTTCATTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
63862843 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
63862869 GTTTCCATGG
Statistics
Matches: 111, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.78
51 24 0.22
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:63865466 original size:27 final size:26
Alignment explanation
Indices: 63865412--63865580 Score: 90
Period size: 27 Copynumber: 6.3 Consensus size: 26
63865402 TTAGTTTACC
* * *
63865412 AAATTACTGAAATACCCCC-AGTTGTA
1 AAATTAC-CAAATACCCCCGATTTATA
*
63865438 AAATTACCAAAGTACCCCCGGTTTATA
1 AAATTACCAAA-TACCCCCGATTTATA
* * *
63865465 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTA-CCAAATACCCCCGATTTATA
* * **
63865492 AAATTACTGAAATACCCTC-AGTTTGCA
1 AAATTAC-CAAATACCCCCGA-TTTATA
* * **
63865519 AAATTACTGAAATACCCTCGACATATA
1 AAATTAC-CAAATACCCCCGATTTATA
* * *
63865546 AAATTATCAAAGTACCCTCGAATTATAA
1 AAATTACCAAA-TACCCCCGATTTAT-A
63865574 AAATTAC
1 AAATTAC
63865581 TATTTTACCC
Statistics
Matches: 115, Mismatches: 20, Indels: 14
0.77 0.13 0.09
Matches are distributed among these distances:
25 3 0.03
26 19 0.17
27 80 0.70
28 13 0.11
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (26 bp):
AAATTACCAAATACCCCCGATTTATA
Found at i:63865563 original size:54 final size:54
Alignment explanation
Indices: 63865404--63865581 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
63865394 AGAATACTTT
* * * * *
63865404 AGTTTACCAAATTACTGAAATACCC-CCAGTTGTAAAATTACCAAAGTACCCCC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
* * ** * * *
63865457 GGTTTATAAAATTACCCAAATATCCTCGATTTGTAAAATTACTGAAA-TACCCTC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTA-TCAAAGTACCCTC
* * *
63865511 AGTTTGCAAAATTACTGAAATACCCTCGACATATAAAATTATCAAAGTACCCTC
1 AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
*
63865565 GAATTATA-AAAATTACT
1 -AGTT-TACAAAATTACT
63865582 ATTTTACCCT
Statistics
Matches: 97, Mismatches: 23, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
53 23 0.24
54 58 0.60
55 15 0.15
56 1 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (54 bp):
AGTTTACAAAATTACTGAAATACCCTCGACTTGTAAAATTATCAAAGTACCCTC
Found at i:63865565 original size:81 final size:81
Alignment explanation
Indices: 63865412--63865581 Score: 193
Period size: 81 Copynumber: 2.1 Consensus size: 81
63865402 TTAGTTTACC
* ***
63865412 AAATTACTGAAATACCCCCAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAA
1 AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAGTACCCCCGACATATAAAATTACCCAAA
* * *
63865477 TATCCTCGATTTGT-A
66 TACCCTCGAATTATAA
* * * *
63865492 AAATTACTGAAATACCCTCAGTTTGCAAAATTACTGAAA-TACCCTCGACATATAAAATTA-TCA
1 AAATTACTGAAATACCCCCAG-TTGCAAAATTAC-CAAAGTACCCCCGACATATAAAATTACCCA
63865555 AAGTACCCTCGAATTATAA
64 AA-TACCCTCGAATTATAA
63865574 AAATTACT
1 AAATTACT
63865582 ATTTTACCCT
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
80 24 0.32
81 39 0.52
82 12 0.16
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (81 bp):
AAATTACTGAAATACCCCCAGTTGCAAAATTACCAAAGTACCCCCGACATATAAAATTACCCAAA
TACCCTCGAATTATAA
Found at i:63865593 original size:55 final size:54
Alignment explanation
Indices: 63865531--63865698 Score: 158
Period size: 54 Copynumber: 3.1 Consensus size: 54
63865521 ATTACTGAAA
*
63865531 TACCCTCGACATATAAAATTATCAAAGTACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCG-ATT-TACAAAATTACTATTT
** * * ***
63865586 TACCCTCGATTTACAGAATTATTATTTTACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
** * * **** *
63865640 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
63865694 TACCC
1 TACCC
63865699 CTAGGGTGTT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 2 0.02
54 71 0.71
55 27 0.27
ACGTcount: A:0.34, C:0.23, G:0.06, T:0.37
Consensus pattern (54 bp):
TACCCTCGACATACAAAATTATCAAAGTACCCTCGATTTACAAAATTACTATTT
Found at i:63865611 original size:27 final size:27
Alignment explanation
Indices: 63865558--63865698 Score: 203
Period size: 27 Copynumber: 5.2 Consensus size: 27
63865548 ATTATCAAAG
63865558 TACCCTCGAATTATA-AAAATTACTATTT
1 TACCCTCG-ATT-TACAAAATTACTATTT
* *
63865586 TACCCTCGATTTACAGAATTATTATTT
1 TACCCTCGATTTACAAAATTACTATTT
63865613 TACCCTCGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAAAATTACTATTT
* **
63865640 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTATTT
*
63865667 TACCCTCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTATTT
63865694 TACCC
1 TACCC
63865699 CTAGGGTGTT
Statistics
Matches: 103, Mismatches: 9, Indels: 3
0.90 0.08 0.03
Matches are distributed among these distances:
26 2 0.02
27 93 0.90
28 8 0.08
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTATTT
Found at i:63866239 original size:6 final size:6
Alignment explanation
Indices: 63866223--63866294 Score: 76
Period size: 6 Copynumber: 11.8 Consensus size: 6
63866213 ATTCTGTTAC
* * *
63866223 CTGATA CTGATT TTGATT CTGATT CTG-TCAC CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT CTGATT CTGATT
63866272 CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGA-TT CTGAT
63866295 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
5 2 0.04
6 49 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.17, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:63866248 original size:31 final size:31
Alignment explanation
Indices: 63866200--63866280 Score: 110
Period size: 31 Copynumber: 2.6 Consensus size: 31
63866190 TTGCATTCAC
*
63866200 ATTCTGATT-TGGAATTCTGTTACCTGATACTG
1 ATTCTGATTCT-G-ATTCTGTCACCTGATACTG
* *
63866232 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
63866263 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
63866281 ATTCTAGTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
31 34 0.77
32 9 0.20
33 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:63872010 original size:13 final size:13
Alignment explanation
Indices: 63871992--63872017 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63871982 GTGCAGGGGA
63871992 CACACGGCCATGG
1 CACACGGCCATGG
63872005 CACACGGCCATGG
1 CACACGGCCATGG
63872018 GAGGGAACCG
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:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (13 bp):
CACACGGCCATGG
Found at i:63890222 original size:21 final size:21
Alignment explanation
Indices: 63890196--63890236 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
63890186 GTGACATGAT
63890196 AAACTCGCAAGAAGAAAATAC
1 AAACTCGCAAGAAGAAAATAC
63890217 AAACTCGCAAGAAGAAAATA
1 AAACTCGCAAGAAGAAAATA
63890237 AAAAAAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.17, G:0.15, T:0.10
Consensus pattern (21 bp):
AAACTCGCAAGAAGAAAATAC
Found at i:63891701 original size:3 final size:3
Alignment explanation
Indices: 63891687--63891725 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
63891677 AAATAGGCAT
*
63891687 TGA TGC TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
63891726 AGAAGAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.31, C:0.03, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:63914797 original size:20 final size:20
Alignment explanation
Indices: 63914732--63914796 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
63914722 CTCCCATGTT
*
63914732 TTAATTATATTTTTAAATTA
1 TTAATTATATTATTAAATTA
* * *
63914752 TCAA-TATAATATTAATAATA
1 TTAATTATATTATTAA-ATTA
*
63914772 TT-ATTTTATTATTAAATTA
1 TTAATTATATTATTAAATTA
63914791 TTAATT
1 TTAATT
63914797 TAACTATTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 15 0.44
20 19 0.56
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAATTATATTATTAAATTA
Found at i:63914804 original size:20 final size:19
Alignment explanation
Indices: 63914744--63914808 Score: 67
Period size: 20 Copynumber: 3.3 Consensus size: 19
63914734 AATTATATTT
* *
63914744 TTAAATTATCAATATAATA
1 TTAAATTATTAATTTAATA
* * *
63914763 TTAATAATATTATTTTATTA
1 TTAA-ATTATTAATTTAATA
63914783 TTAAATTATTAATTTAACTA
1 TTAAATTATTAATTTAA-TA
63914803 TTAAAT
1 TTAAAT
63914809 GACATGTTAA
Statistics
Matches: 36, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAATTATTAATTTAATA
Found at i:63914897 original size:17 final size:17
Alignment explanation
Indices: 63914839--63914899 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
63914829 ATTAAATTGA
63914839 AAATAAAAATTTTAAAG
1 AAATAAAAATTTTAAAG
**
63914856 AAATATACAACTAAATT-AA-
1 AAATA-A-AA--ATTTTAAAG
63914875 AAATAAAAATTTTAAAG
1 AAATAAAAATTTTAAAG
63914892 AAATAAAA
1 AAATAAAA
63914900 TGTTGTCGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 15 0.44
18 2 0.06
19 7 0.21
20 2 0.06
21 3 0.09
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.26
Consensus pattern (17 bp):
AAATAAAAATTTTAAAG
Found at i:63919696 original size:45 final size:45
Alignment explanation
Indices: 63919632--63919725 Score: 170
Period size: 45 Copynumber: 2.1 Consensus size: 45
63919622 TTGGTATTCT
*
63919632 TCTTTAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
*
63919677 TCTTCAATACGAAGATGATTTGTCAAAGCCTCAAGAGATATTTCC
1 TCTTCAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
63919722 TCTT
1 TCTT
63919726 TCTTATGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (45 bp):
TCTTCAATACGAAAATGATTTGTCAAAGCCTCAAGAGATATTTCC
Found at i:63921279 original size:23 final size:24
Alignment explanation
Indices: 63921249--63921293 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
63921239 ATCATGATGT
63921249 TTTTATAAATATAT-AATTATTTA
1 TTTTATAAATATATAAATTATTTA
* *
63921272 TTTTATAATTATTTAAATTATT
1 TTTTATAAATATATAAATTATT
63921294 GATAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
TTTTATAAATATATAAATTATTTA
Found at i:63921292 original size:15 final size:15
Alignment explanation
Indices: 63921254--63921292 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
63921244 GATGTTTTTA
63921254 TAAATATATAATTATT
1 TAAAT-TATAATTATT
**
63921270 TATTTTATAATTATT
1 TAAATTATAATTATT
63921285 TAAATTAT
1 TAAATTAT
63921293 TGATAAATTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
15 16 0.84
16 3 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TAAATTATAATTATT
Found at i:63921839 original size:31 final size:31
Alignment explanation
Indices: 63921794--63921867 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
63921784 AATTTTTAAC
*
63921794 AGTTTATATATTTATAAATTTTTAAAGAAATAA
1 AGTTTA-ATTTTTAT-AATTTTTAAAGAAATAA
* * *
63921827 A-TTTAATTTTTATTATTTTTAAATAGATAA
1 AGTTTAATTTTTATAATTTTTAAAGAAATAA
63921857 AGTTTAATTTT
1 AGTTTAATTTT
63921868 ACTTTTATTG
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 15 0.42
31 16 0.44
32 4 0.11
33 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (31 bp):
AGTTTAATTTTTATAATTTTTAAAGAAATAA
Found at i:63923949 original size:33 final size:33
Alignment explanation
Indices: 63923902--63923968 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
63923892 CAAAATGTTA
63923902 GGATTTTTCAATGGATGAATATAGTTGAATTAT
1 GGATTTTTCAATGGATGAATATAGTTGAATTAT
*
63923935 GGATTTTTCCATGGATGAATATAGTTGAATTAT
1 GGATTTTTCAATGGATGAATATAGTTGAATTAT
63923968 G
1 G
63923969 AAATTTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.31, C:0.04, G:0.22, T:0.42
Consensus pattern (33 bp):
GGATTTTTCAATGGATGAATATAGTTGAATTAT
Found at i:63924789 original size:26 final size:26
Alignment explanation
Indices: 63924760--63924829 Score: 99
Period size: 26 Copynumber: 2.7 Consensus size: 26
63924750 CCTGATATAT
63924760 GGCTCTTCATGAGCTT-CTCAATTAAA
1 GGCTCTTCATGAGCTTCCT-AATTAAA
* *
63924786 GGCTCTTTATGAGCTTCCTAATTAAT
1 GGCTCTTCATGAGCTTCCTAATTAAA
63924812 GGCTCTTCA-GAGCTTCCT
1 GGCTCTTCATGAGCTTCCT
63924830 GATATGGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
25 9 0.22
26 29 0.73
27 2 0.05
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.37
Consensus pattern (26 bp):
GGCTCTTCATGAGCTTCCTAATTAAA
Found at i:63924840 original size:23 final size:23
Alignment explanation
Indices: 63924786--63924862 Score: 100
Period size: 23 Copynumber: 3.2 Consensus size: 23
63924776 CTCAATTAAA
* *
63924786 GGCTCTTTATGAGCTTCCTAATTAAT
1 GGCTCTTCA-GAGCTTCCTGA-T-AT
63924812 GGCTCTTCAGAGCTTCCTGATAT
1 GGCTCTTCAGAGCTTCCTGATAT
*
63924835 GGCTCTTCGGAGCTTCCTGATAT
1 GGCTCTTCAGAGCTTCCTGATAT
63924858 GGCTC
1 GGCTC
63924863 ACTTGAACTT
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
23 29 0.60
24 1 0.02
25 10 0.21
26 8 0.17
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (23 bp):
GGCTCTTCAGAGCTTCCTGATAT
Found at i:63924873 original size:23 final size:22
Alignment explanation
Indices: 63924810--63924880 Score: 72
Period size: 23 Copynumber: 3.1 Consensus size: 22
63924800 TTCCTAATTA
*
63924810 ATGGCTCTTCAGAGCTTCCTGAT
1 ATGGCTCTTC-GAACTTCCTGAT
*
63924833 ATGGCTCTTCGGAGCTTCCTGAT
1 ATGGCTCTTC-GAACTTCCTGAT
*
63924856 ATGGCTCACTT-GAACTTCCCGAT
1 ATGGCT--CTTCGAACTTCCTGAT
63924879 AT
1 AT
63924881 ACGGCTATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
23 40 0.93
25 3 0.07
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (22 bp):
ATGGCTCTTCGAACTTCCTGAT
Found at i:63925016 original size:25 final size:25
Alignment explanation
Indices: 63924988--63925035 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
63924978 TACAGCCCGG
63924988 ATAAGCTT-CTCATTATATAGCTCAC
1 ATAAGCTTCCT-ATTATATAGCTCAC
*
63925013 ATAAGCTTCCTATTATATTGCTC
1 ATAAGCTTCCTATTATATAGCTC
63925036 GAGAGAGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (25 bp):
ATAAGCTTCCTATTATATAGCTCAC
Found at i:63927966 original size:37 final size:37
Alignment explanation
Indices: 63927905--63928050 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
63927895 TACGTATGAT
* *
63927905 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
63927940 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
63927977 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
63928014 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
63928051 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:63928067 original size:46 final size:46
Alignment explanation
Indices: 63928014--63928282 Score: 331
Period size: 46 Copynumber: 5.6 Consensus size: 46
63928004 TAAGTGTAGC
* **
63928014 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
63928060 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
63928106 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
63928158 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
63928204 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
63928256 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
63928283 AGTACTCAAA
Statistics
Matches: 197, Mismatches: 14, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
46 111 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 82 0.42
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:63928115 original size:7 final size:7
Alignment explanation
Indices: 63928103--63928136 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
63928093 TAGCCGAAGC
63928103 TATCACT
1 TATCACT
63928110 TATCACT
1 TATCACT
*
63928117 TTTCACT
1 TATCACT
63928124 TATCACT
1 TATCACT
63928131 TGATCA
1 T-ATCA
63928137 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:63928137 original size:52 final size:52
Alignment explanation
Indices: 63928057--63928276 Score: 290
Period size: 52 Copynumber: 4.3 Consensus size: 52
63928047 TAGCTAAAGC
* *
63928057 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* *
63928110 TATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
63928162 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
63928208 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
63928260 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
63928277 ATCAGAAGTA
Statistics
Matches: 146, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
46 42 0.29
49 1 0.01
52 85 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:63928179 original size:98 final size:98
Alignment explanation
Indices: 63928031--63928282 Score: 441
Period size: 98 Copynumber: 2.6 Consensus size: 98
63928021 CACTTTGTCT
*
63928031 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
63928096 CCGAAGCTATCACTTATCACTTTTCACTTATCA
66 CCGAAGCTATCACTTATCACTTTCCACTTATCA
**
63928129 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
63928194 CCGAAGCTATTACTTATCACTTTCCACTTGTCA
66 CCGAAGCTATCACTTATCACTTTCCACTTATCA
*
63928227 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGA
63928283 AGTACTCAAA
Statistics
Matches: 145, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAG
CCGAAGCTATCACTTATCACTTTCCACTTATCA
Found at i:63933677 original size:21 final size:21
Alignment explanation
Indices: 63933653--63933693 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
63933643 AGCTAATGTC
* *
63933653 CTTAATTTTCAACAATAAACT
1 CTTAATTTCCAAAAATAAACT
63933674 CTTAATTTCCAAAAATAAAC
1 CTTAATTTCCAAAAATAAAC
63933694 GAAGGCATCT
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:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (21 bp):
CTTAATTTCCAAAAATAAACT
Found at i:63937751 original size:30 final size:30
Alignment explanation
Indices: 63937707--63937776 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
63937697 CAATCTTTAT
*
63937707 TTTTA-TTT-TTATTTATTATTTTCCTTTC-
1 TTTTATTTTATTATTTATTATTTT-ATTTCA
*
63937735 TTTTCTTTTATTATTTATTATTTTATTTCA
1 TTTTATTTTATTATTTATTATTTTATTTCA
63937765 TTTTATTTTATT
1 TTTTATTTTATT
63937777 TTAGTTAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 4 0.11
29 7 0.19
30 25 0.69
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (30 bp):
TTTTATTTTATTATTTATTATTTTATTTCA
Found at i:63937760 original size:5 final size:5
Alignment explanation
Indices: 63937702--63937779 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
63937692 CAACCCAATC
** * *
63937702 TTTATT TTTATT TTTATT TATTAT TTTCC TTTCT TTTCT TTTAT TATT-T
1 TTTA-T TTTA-T TTTA-T T-TTAT TTTAT TTTAT TTTAT TTTAT T-TTAT
* *
63937751 ATTAT TTTAT TTCAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
63937780 GTTAAATATT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
4 2 0.03
5 39 0.64
6 17 0.28
7 3 0.05
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:63937931 original size:42 final size:42
Alignment explanation
Indices: 63937885--63937996 Score: 154
Period size: 42 Copynumber: 2.6 Consensus size: 42
63937875 ATCCATGGTA
*
63937885 CCAAACAGTTCTATTCCAGCCCA-AAGTGCCATATCCCTACTG
1 CCAAACAGTTCTATTCCAGCCCAGAA-TGCCATATCCCTACAG
* * *
63937927 CCAAACAGTTCTATTCCAGTCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
*
63937969 CCAAACAGTCCTATTCCAGCCCTAGAAT
1 CCAAACAGTTCTATTCCAGCCC-AGAAT
63937997 CCCCAAAACC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
42 55 0.89
43 7 0.11
ACGTcount: A:0.29, C:0.34, G:0.12, T:0.24
Consensus pattern (42 bp):
CCAAACAGTTCTATTCCAGCCCAGAATGCCATATCCCTACAG
Found at i:63938011 original size:43 final size:42
Alignment explanation
Indices: 63937885--63938018 Score: 119
Period size: 42 Copynumber: 3.2 Consensus size: 42
63937875 ATCCATGGTA
* * * * * * *
63937885 CCAAACAGTTCTATTCCAGCCCA-AAGTGCCATATCCCTACTG
1 CCAAACAGTCCTATTCCAGCCCAGAA-TCCCAAAACTCTGCAG
* * * * *
63937927 CCAAACAGTTCTATTCCAGTCCAGAATGCCATATCTCTGCAG
1 CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAG
63937969 CCAAACAGTCCTATTCCAGCCCTAGAATCCCCAAAAC-CTGCAG
1 CCAAACAGTCCTATTCCAGCCC-AGAAT-CCCAAAACTCTGCAG
63938012 CCAAACA
1 CCAAACA
63938019 CCCATTTTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 55 0.69
43 20 0.25
44 5 0.06
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.21
Consensus pattern (42 bp):
CCAAACAGTCCTATTCCAGCCCAGAATCCCAAAACTCTGCAG
Found at i:63939001 original size:118 final size:118
Alignment explanation
Indices: 63938776--63938988 Score: 399
Period size: 118 Copynumber: 1.8 Consensus size: 118
63938766 TGTTTTCCAT
*
63938776 GGTTATGAGTATAGCTTAGATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
63938841 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
*
63938894 GGTTATGAGTATGGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
1 GGTTATGAGTATAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
*
63938959 CTACTTTGCGTCAAAAGGTTGTGTGACGTG
66 CTACTTCGCGTCAAAAGGTTGTGTGACGTG
63938989 TTGGGTAAAA
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 92 1.00
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (118 bp):
GGTTATGAGTATAGCTTAAATCGTGACTGACTGAGTAACCGGGGTAGGGTGCTTGGGTTGTCATT
CTACTTCGCGTCAAAAGGTTGTGTGACGTGACAAGTAAAACTCTGCTAGCCGA
Found at i:63939147 original size:9 final size:9
Alignment explanation
Indices: 63939135--63939168 Score: 61
Period size: 9 Copynumber: 3.9 Consensus size: 9
63939125 AAAATTTTAA
63939135 AAAAAAAAG
1 AAAAAAAAG
63939144 -AAAAAAAG
1 AAAAAAAAG
63939152 AAAAAAAAG
1 AAAAAAAAG
63939161 AAAAAAAA
1 AAAAAAAA
63939169 ATGAAGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:63939147 original size:11 final size:11
Alignment explanation
Indices: 63939133--63939205 Score: 62
Period size: 12 Copynumber: 6.6 Consensus size: 11
63939123 ATAAAATTTT
63939133 AAAAAAAA-AA
1 AAAAAAAAGAA
*
63939143 GAAAAAAAG--
1 AAAAAAAAGAA
63939152 AAAAAAAAGAA
1 AAAAAAAAGAA
*
63939163 AAAAAAATGAA
1 AAAAAAAAGAA
* *
63939174 GAAAAAATGAGTA
1 -AAAAAA-AAGAA
63939187 AAAAAAAAGAA
1 AAAAAAAAGAA
63939198 GAAAAAAA
1 -AAAAAAA
63939206 TGAATACTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
9 8 0.16
10 7 0.14
11 13 0.27
12 19 0.39
13 2 0.04
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:63939157 original size:17 final size:17
Alignment explanation
Indices: 63939135--63939167 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
63939125 AAAATTTTAA
63939135 AAAAAAAAGAAAAAAAG
1 AAAAAAAAGAAAAAAAG
63939152 AAAAAAAAGAAAAAAA
1 AAAAAAAAGAAAAAAA
63939168 AATGAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAAAAG
Found at i:63941015 original size:32 final size:32
Alignment explanation
Indices: 63940974--63941038 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
63940964 TCCCCTTTTC
63940974 TTTGTTGCTTAAAATAGAAAACATTAATTACA
1 TTTGTTGCTTAAAATAGAAAACATTAATTACA
63941006 TTTGTTGCTTAAAATAGAAAACATTAATTACA
1 TTTGTTGCTTAAAATAGAAAACATTAATTACA
63941038 T
1 T
63941039 AGTAAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (32 bp):
TTTGTTGCTTAAAATAGAAAACATTAATTACA
Found at i:63942694 original size:46 final size:46
Alignment explanation
Indices: 63942634--63942907 Score: 374
Period size: 46 Copynumber: 6.0 Consensus size: 46
63942624 TTTGACATGA
* * * * * *
63942634 TGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCAGGT
** * *
63942680 TGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCAAATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
63942726 TGCCATGGTATCTTTCAACGATGGTCTTA-TACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
63942772 TGCCATGGTATCTTTCAACCATGGTCTTA-TACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACT-CATTTCATATCAGGT
* *
63942818 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
*
63942864 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAG
63942908 AGAGCACACT
Statistics
Matches: 209, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
45 5 0.02
46 204 0.98
ACGTcount: A:0.23, C:0.23, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGT
Found at i:63946123 original size:3 final size:3
Alignment explanation
Indices: 63946115--63946149 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
63946105 AACAAGAATC
63946115 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
63946150 GGGTTGGGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:63967703 original size:6 final size:6
Alignment explanation
Indices: 63967692--63967720 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
63967682 GGAGGGTCGT
63967692 GTGGGA GTGGGA GTGGGA GTGGGA GTGGG
1 GTGGGA GTGGGA GTGGGA GTGGGA GTGGG
63967721 TTAAAAACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.69, T:0.17
Consensus pattern (6 bp):
GTGGGA
Done.