Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 171 of 345
Found at i:58523270 original size:56 final size:56
Alignment explanation
Indices: 58523208--58523323 Score: 223
Period size: 56 Copynumber: 2.1 Consensus size: 56
58523198 TAGTTTATTG
58523208 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
*
58523264 CCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTTTTGC
1 CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
58523320 CCAT
1 CCAT
58523324 CATCCCTTGT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
CCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTTTTGC
Found at i:58530108 original size:31 final size:31
Alignment explanation
Indices: 58530047--58530109 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
58530037 CTTTAATACG
**
58530047 AAACTTTGGCAAATATTACCATTTTTCCCCT
1 AAACTTTGGCAAATATTACCATTTCGCCCCT
* *
58530078 AAACTTTTGCATA-ATTACCACTTTCGCCCCT
1 AAACTTTGGCAAATATTACCA-TTTCGCCCCT
58530109 A
1 A
58530110 GGCTCGGGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (31 bp):
AAACTTTGGCAAATATTACCATTTCGCCCCT
Found at i:58530655 original size:24 final size:26
Alignment explanation
Indices: 58530623--58530683 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 26
58530613 ATTAATAAAA
* *
58530623 AAAAT-TTAAAAT-TTTTATTTAA-T
1 AAAATATTAAAATATATTATATAATT
58530646 AAAATATT-AAATATATTATATAATT
1 AAAATATTAAAATATATTATATAATT
*
58530671 ATAATATTAAAAT
1 AAAATATTAAAAT
58530684 GACCAAAAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 9 0.29
24 10 0.32
25 8 0.26
26 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (26 bp):
AAAATATTAAAATATATTATATAATT
Found at i:58532259 original size:40 final size:39
Alignment explanation
Indices: 58532200--58532323 Score: 128
Period size: 40 Copynumber: 3.1 Consensus size: 39
58532190 CTTCGGAATT
* *
58532200 TAACCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACA
1 TAACCGGATTTAG-TAACTCGCTCAAATGCCTTCGGGACA
* * *
58532239 TAGCCGCG-TTATAGTAACTCGCACAAATGCCTTCGAGGACT
1 TAACCG-GATT-TAGTAACTCGCTCAAATGCCTTCG-GGACA
*
58532280 TAACCGGATTTAGTAACTCGCTCACAATGCCTTC-GGACT
1 TAACCGGATTTAGTAACTCGCTCA-AATGCCTTCGGGACA
58532319 TAACC
1 TAACC
58532324 CGGAACTTAG
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
39 17 0.24
40 35 0.49
41 20 0.28
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.26
Consensus pattern (39 bp):
TAACCGGATTTAGTAACTCGCTCAAATGCCTTCGGGACA
Found at i:58532327 original size:40 final size:39
Alignment explanation
Indices: 58532250--58532402 Score: 157
Period size: 40 Copynumber: 3.8 Consensus size: 39
58532240 AGCCGCGTTA
*
58532250 TAGTAACTCGCACAAATGCCTTCGAGGACTTAA-CCGGATT
1 TAGTAACTCGCACAAATGCCTTC--GGACTTAACCCGGAAT
*
58532290 TAGTAACTCGCTCACAATGCCTTCGGACTTAACCCGGAACT
1 TAGTAACTCGCACA-AATGCCTTCGGACTTAACCCGGAA-T
* * * *
58532331 TAG-AACTCACACCAATGCCTTAGGCTTACTTAGCCCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGG---ACTTAACCCGGAAT
*
58532372 TAGTATCTCGCACAAATGCCTTCGGATCTTA
1 TAGTAACTCGCACAAATGCCTTCGGA-CTTA
58532403 GTCCGGATAT
Statistics
Matches: 94, Mismatches: 11, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
39 19 0.20
40 29 0.31
41 17 0.18
42 29 0.31
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.26
Consensus pattern (39 bp):
TAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGAAT
Found at i:58533664 original size:55 final size:56
Alignment explanation
Indices: 58533563--58533681 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
58533553 TATTAGTTTA
58533563 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58533619 TTGCCCATGCTTCTTATTTTATT-TTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58533674 TTGCCCAT
1 TTGCCCAT
58533682 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.23, C:0.24, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58540175 original size:40 final size:40
Alignment explanation
Indices: 58540138--58540362 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
58540128 GCTACTCGTT
* *
58540138 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
58540178 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
58540218 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
58540258 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
58540297 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
58540338 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
58540363 CATCATTCGA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:58540322 original size:119 final size:120
Alignment explanation
Indices: 58540140--58540362 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
58540130 TACTCGTTCA
*
58540140 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
58540205 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
58540260 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
58540322 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
58540363 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:58541555 original size:56 final size:56
Alignment explanation
Indices: 58541488--58541607 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
58541478 TATTAGTTTA
58541488 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
58541544 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
58541600 TTGCCCAT
1 TTGCCCAT
58541608 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:58542093 original size:33 final size:33
Alignment explanation
Indices: 58542050--58542133 Score: 132
Period size: 33 Copynumber: 2.5 Consensus size: 33
58542040 TGGGATATTA
*
58542050 CAGACTGTACTGATACTGAATAGGGCTTTGGCC
1 CAGACTGTACTGATACTAAATAGGGCTTTGGCC
*
58542083 TAGACTGTACTGATACTAAATAGGGCTTTGGCC
1 CAGACTGTACTGATACTAAATAGGGCTTTGGCC
* *
58542116 CAGTCTATACTGATACTA
1 CAGACTGTACTGATACTA
58542134 TGTTATTCAT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (33 bp):
CAGACTGTACTGATACTAAATAGGGCTTTGGCC
Found at i:58543707 original size:23 final size:25
Alignment explanation
Indices: 58543662--58543707 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
58543652 GTCTTTCAGT
**
58543662 AATTCAAGTCGTCTTCTTTGTCACA
1 AATTCAAGTCGTCTTCTGAGTCACA
58543687 AATTCAAGTC-T-TTCTGAGTCA
1 AATTCAAGTCGTCTTCTGAGTCA
58543708 TTAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 1 0.05
25 10 0.53
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (25 bp):
AATTCAAGTCGTCTTCTGAGTCACA
Found at i:58547146 original size:40 final size:40
Alignment explanation
Indices: 58547091--58547268 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
58547081 CGGATGATAA
* *
58547091 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
58547131 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58547171 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58547211 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
58547251 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58547269 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 17 0.13
40 110 0.86
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58554591 original size:40 final size:40
Alignment explanation
Indices: 58554533--58554748 Score: 305
Period size: 40 Copynumber: 5.5 Consensus size: 40
58554523 CGGATGATAA
* * *
58554533 CCGGGCTAAGTCCAGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
58554573 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58554613 CCAGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58554653 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
58554692 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-AACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
58554731 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
58554749 TACTTGGTTT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
38 15 0.09
39 44 0.27
40 102 0.63
41 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:58557459 original size:17 final size:17
Alignment explanation
Indices: 58557437--58557479 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
58557427 ATTTCATTTA
**
58557437 AAATGTCAATTTCCATC
1 AAATGTCAATTAACATC
*
58557454 AAATGTCCATTAACATC
1 AAATGTCAATTAACATC
58557471 AAAT-TCAAT
1 AAATGTCAAT
58557480 ACAATCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.42, C:0.21, G:0.05, T:0.33
Consensus pattern (17 bp):
AAATGTCAATTAACATC
Found at i:58562605 original size:49 final size:48
Alignment explanation
Indices: 58562542--58562788 Score: 392
Period size: 47 Copynumber: 5.1 Consensus size: 48
58562532 GATAATTGTG
*
58562542 ATGTGAATG-GATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
58562589 ATGTGAAAGTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
58562638 ATGTGAAAGTGTATATATATATGTGATAAGGTCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG---ATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
58562689 ATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
58562736 ATGTGAAAGTG-TATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
58562783 ATGTGA
1 ATGTGA
58562789 GAATGTGCTT
Statistics
Matches: 188, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
47 93 0.49
48 1 0.01
49 47 0.25
51 47 0.25
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (48 bp):
ATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:58562654 original size:98 final size:96
Alignment explanation
Indices: 58562552--58562788 Score: 397
Period size: 100 Copynumber: 2.4 Consensus size: 96
58562542 ATGTGAATGG
58562552 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACATGTGATAAG
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT--ATGTGATAAG
*
58562617 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
64 GCCTAATAGCCGATGTGATGAATGTGAAAGTG-A
*
58562651 TATATATATGTGATAAGGTCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
1 -ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGG
58562716 CCTAATAGCCGATGTGATGAATGTGAAAGTG-
65 CCTAATAGCCGATGTGATGAATGTGAAAGTGA
*
58562747 -TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGA
1 ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
58562789 GAATGTGCTT
Statistics
Matches: 133, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
94 40 0.30
98 41 0.31
100 52 0.39
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
ATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
CTAATAGCCGATGTGATGAATGTGAAAGTGA
Found at i:58565317 original size:56 final size:56
Alignment explanation
Indices: 58565200--58565464 Score: 329
Period size: 56 Copynumber: 4.8 Consensus size: 56
58565190 GAAGTATATG
** * * * *
58565200 TGGCATCGATATGTGACTGAGATAAATGTG--CGAGTAAGTCCACGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACATTTAATACAT
* * * * * *
58565254 TGGCATCGATCTGTGACTCTGATATATGTGTACGATTAAGCCCGCGTTTAATACGT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACATTTAATACAT
** * * *
58565310 TGGCATCGATATGTGACTCCAATATATGTGTGCAAGTAAGACCATATTTAATACAT
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACATTTAATACAT
*
58565366 TGGCATCGATATGTGACT-TCGATATATGTGTGCGAGTAAGACCACATTTAATACAT
1 TGGCATCGATATGTGACTCT-GATATATGTGTACGAGTAAGACCACATTTAATACAT
*
58565422 TGGCATCGATATATGACTCTGATATATGTGTACGAGTAAGACC
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACC
58565465 CTGTCCGGGG
Statistics
Matches: 183, Mismatches: 24, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
54 26 0.14
56 156 0.85
57 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.32
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACATTTAATACAT
Found at i:58565482 original size:112 final size:112
Alignment explanation
Indices: 58565254--58565493 Score: 266
Period size: 112 Copynumber: 2.1 Consensus size: 112
58565244 TTTAATACGT
* * * * * *
58565254 TGGCATCGATCTGTGACTCTGATATATGTGTACGATTAAGCCCGCGTTTAATACGTTGGCATCGA
1 TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACATTTAATACATTGGCATCGA
* * ** * *
58565319 TATGTGACTCCAATATATGTGTGCAAGTAAGACCATATTTAATACAT
66 TATATGACTCCAATATATGTGTACAAGTAAGACCATATCCAAGACAG
*
58565366 TGGCATCGATATGTGACT-TCGATATATGTGTGCGAGTAAGACCACATTTAATACATTGGCATCG
1 TGGCATCGATATGTGACTCT-GATATATGTGTACGAGTAAGACCACATTTAATACATTGGCATCG
** * * * ** *
58565430 ATATATGACTCTGATATATGTGTACGAGTAAGACCCTGTCCGGGGCAG
65 ATATATGACTCCAATATATGTGTACAAGTAAGACCATATCCAAGACAG
*
58565478 TGGCATTGATATGTGA
1 TGGCATCGATATGTGA
58565494 TTACATGTAA
Statistics
Matches: 105, Mismatches: 22, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
111 1 0.01
112 104 0.99
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (112 bp):
TGGCATCGATATGTGACTCTGATATATGTGTACGAGTAAGACCACATTTAATACATTGGCATCGA
TATATGACTCCAATATATGTGTACAAGTAAGACCATATCCAAGACAG
Found at i:58568456 original size:46 final size:47
Alignment explanation
Indices: 58568360--58568530 Score: 158
Period size: 46 Copynumber: 3.7 Consensus size: 47
58568350 TGTGTGAGCT
*
58568360 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACG-TAAGC
1 AGTGTAAGACCATGTCTGGGACATAGCATCGG-CTCGAGATGATAAGC
* * *
58568405 TAGTGTAACA-CATGTTTGAGACAT-GCATCGGCTACGAGATGAT-AGTC
1 -AGTGTAAGACCATGTCTGGGACATAGCATCGGCT-CGAGATGATAAG-C
* * * *
58568452 AGTGTAAGAACCATGTCTGGGACATCGCATCGACTTGAGAT-ATGAGCC
1 AGTGTAAG-ACCATGTCTGGGACATAGCATCGGCTCGAGATGATAAG-C
*
58568500 AGTGTAAGACCATGTTTGGGACATAGCATCG
1 AGTGTAAGACCATGTCTGGGACATAGCATCG
58568531 ATACTTTACC
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
45 2 0.02
46 42 0.40
47 26 0.25
48 28 0.26
49 8 0.08
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATAGCATCGGCTCGAGATGATAAGC
Found at i:58572596 original size:41 final size:40
Alignment explanation
Indices: 58572491--58572659 Score: 245
Period size: 40 Copynumber: 4.2 Consensus size: 40
58572481 ATATATTATA
*
58572491 TATATCCGGGTCAAATCCCGCA-GCTTTCGTGCTAGTAATG
1 TATATCCGGGTCAAATCCCGCAGGC-TTCGTGCTGGTAATG
*
58572531 TATATCCGGGTCAAATCCCACAGGCTTCGTGCTGGTAATG
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
*
58572571 TATATCTGGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
1 TATATC-CGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
* * *
58572612 TATATCCGGGTTAAATCCCGTAGGCTTAGTGCTGGT-AT-
1 TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
58572650 TATATCCGGG
1 TATATCCGGG
58572660 CTTAAAATTC
Statistics
Matches: 119, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
38 10 0.08
39 2 0.02
40 67 0.56
41 40 0.34
ACGTcount: A:0.21, C:0.22, G:0.26, T:0.30
Consensus pattern (40 bp):
TATATCCGGGTCAAATCCCGCAGGCTTCGTGCTGGTAATG
Found at i:58572637 original size:81 final size:79
Alignment explanation
Indices: 58572498--58572655 Score: 237
Period size: 81 Copynumber: 2.0 Consensus size: 79
58572488 ATATATATCC
*
58572498 GGGTCAAATCCCGCAGCTTTCGTGCTAGTAATGTATATCCGGGTCAAATCCCACAGGCTTCGTGC
1 GGGTCAAATCCCGCAGCTTTCGTGCTAGTAATGTATATCCGGGTCAAATCCCACAGGCTTAGTGC
58572563 TGGTAATGTATATCTG
66 TGGT-AT-TATATCTG
* * **
58572579 GGGTCAAATCCCGCAGGC-TTCGTGCTGGTAATGTATATCCGGGTTAAATCCCGTAGGCTTAGTG
1 GGGTCAAATCCCGCA-GCTTTCGTGCTAGTAATGTATATCCGGGTCAAATCCCACAGGCTTAGTG
58572643 CTGGTATTATATC
65 CTGGTATTATATC
58572656 CGGGCTTAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 6 0.08
80 2 0.03
81 61 0.86
82 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (79 bp):
GGGTCAAATCCCGCAGCTTTCGTGCTAGTAATGTATATCCGGGTCAAATCCCACAGGCTTAGTGC
TGGTATTATATCTG
Found at i:58579040 original size:46 final size:46
Alignment explanation
Indices: 58578846--58579067 Score: 191
Period size: 46 Copynumber: 4.7 Consensus size: 46
58578836 ATTTGTGTGT
* * * ** *
58578846 GAGCTAGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGA
* **
58578892 GAGCAAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTGAGACGA
1 GAGCAAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CAAGACGA
* * *
58578940 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCT-CGAGACGTA
1 GAGCAAGTGTAAGACATGTCTGGGACATGCATCGG-CTACAAGACG-A
* * *
58578987 -AGCCAGTGTAAGACATGTTTGGGACATGCATCGGCTACAAGATGA
1 GAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGA
* *
58579032 TAGTC-AGTGTAAGACCATGTCTAGGACATGGCATCG
1 GAG-CAAGTGTAAGA-CATGTCTGGGACAT-GCATCG
58579068 ACTTGAGATA
Statistics
Matches: 146, Mismatches: 19, Indels: 20
0.79 0.10 0.11
Matches are distributed among these distances:
45 3 0.02
46 72 0.49
47 41 0.28
48 30 0.21
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGCAAGTGTAAGACATGTCTGGGACATGCATCGGCTACAAGACGA
Found at i:58579087 original size:47 final size:47
Alignment explanation
Indices: 58578892--58579116 Score: 185
Period size: 47 Copynumber: 4.8 Consensus size: 47
58578882 CACATTATGA
* * * *
58578892 GAGCAAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA-
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TCGAGA-TAT
* * **
58578940 GAGCTAGTGTAAGA-CATGTCT-GAGACAT-GCATCGGCCTCGAGACGT
1 GAGCCAGTGTAAGACCATGTCTAG-GACATGGCATC-GACTCGAGATAT
* * * * *
58578986 AAGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCTACAAGATGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACT-CGAGAT-AT
* *
58579033 -AGTCAGTGTAAGACCATGTCTAGGACATGGCATCGACTTGAGATAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGAGATAT
* * *
58579079 GAGCCAGTGTAAAACCATGTCTTGTACATGGCATCGAC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
58579117 ACTTTACCCA
Statistics
Matches: 146, Mismatches: 22, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
45 3 0.02
46 57 0.39
47 65 0.45
48 21 0.14
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACTCGAGATAT
Found at i:58579108 original size:140 final size:141
Alignment explanation
Indices: 58578851--58579114 Score: 358
Period size: 140 Copynumber: 1.9 Consensus size: 141
58578841 TGTGTGAGCT
* **
58578851 AGTGTAATACATGTCTGGGACATGCATCGGCCACATTATGAGAGCAAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCAAGTGTAAGACCATGTCTAG
* * *
58578916 GACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACATGTCTGAGACAT-GCATCGGCCTCG
66 GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAAACATGTCTGAGACATGGCATCGGCCTCG
58578980 AGACGTAAGCC
131 AGACGTAAGCC
* * *
58578991 AGTGTAAGACATGTTTGGGACATGCATCGGCTACAAGATGATAGTC-AGTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAG-CAAGTGTAAGACCATGTCTA
* *
58579055 GGACATGGCATCGAC-TTGAGA-TATGAGCCAGTGTAAAACCATGTCTTG-TACATGGCATCG
65 GGACATGGCATCGACATTGAGACGA-GAGCCAGTGTAAAA-CATGTC-TGAGACATGGCATCG
58579115 ACACTTTACC
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 1 0.01
139 18 0.17
140 80 0.74
141 9 0.08
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGAGAGCAAGTGTAAGACCATGTCTAG
GACATGGCATCGACATTGAGACGAGAGCCAGTGTAAAACATGTCTGAGACATGGCATCGGCCTCG
AGACGTAAGCC
Found at i:58594979 original size:41 final size:41
Alignment explanation
Indices: 58594852--58595037 Score: 245
Period size: 41 Copynumber: 4.6 Consensus size: 41
58594842 CTCGCACAAG
* * * * *
58594852 GCCTTCGGGTCTTAACCCGGATATGGTCAC-TAGCATAAATA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAA-A
*
58594893 -CCTTCGGGACTTAGCCCGGATATAGTCGC-TAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
* *
58594932 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGCTTAGCACAAAA
*
58594973 GCCTTCGGGACATAGCCCGGATATAGTCGCTTAGCACAAAA
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
58595014 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
58595038 CATTCGAGTA
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 56 0.44
41 66 0.52
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.24
Consensus pattern (41 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTTAGCACAAAA
Found at i:58600230 original size:64 final size:64
Alignment explanation
Indices: 58600125--58600332 Score: 179
Period size: 67 Copynumber: 3.2 Consensus size: 64
58600115 CATCATGTGT
* *
58600125 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACAAG--A-TA-AATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
58600190 TAG
62 TAG
** * * * * * * *
58600193 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATTT
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
58600258 AG
63 AG
* * * *
58600260 ACAAGAGAGCTACAAGATAAAT-TGGCCAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG
58600322 TACAAGAGAGC
1 -ACAAGAGAGC
58600333 CGAACTATAT
Statistics
Matches: 112, Mismatches: 23, Indels: 15
0.75 0.15 0.10
Matches are distributed among these distances:
62 1 0.01
63 18 0.16
64 25 0.22
65 2 0.02
66 21 0.19
67 31 0.28
68 14 0.12
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACAAGATAAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:58606586 original size:16 final size:17
Alignment explanation
Indices: 58606565--58606597 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58606555 CACATTGAAG
58606565 TGTTTT-TTGAAAACCT
1 TGTTTTATTGAAAACCT
58606581 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
58606598 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTATTGAAAACCT
Found at i:58614917 original size:40 final size:39
Alignment explanation
Indices: 58614718--58614936 Score: 237
Period size: 40 Copynumber: 5.5 Consensus size: 39
58614708 AGTGACAAAT
* *
58614718 TCCGGGCTAAGTCCCCAAGGCATTTGTGCTAGTGACTA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA
*
58614757 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTAC-AAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
* * * * *
58614797 TTTCGGACTAAGTCCCGAAAGCATTTTTACGAGTTACTATA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA
*
58614838 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATA
* *
58614878 TCTGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATA
* *
58614918 TCC-GGTTAAATCCCGAAGG
1 TCCGGGCTAAGTCCCGAAGG
58614937 TACTTGGTTT
Statistics
Matches: 154, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 18 0.12
40 132 0.86
41 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATA
Found at i:58643265 original size:40 final size:40
Alignment explanation
Indices: 58643210--58643431 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
58643200 TACTTGGATG
58643210 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
58643250 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58643290 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58643330 ATATCCGAGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
58643370 ATAACCGGGCTAAATCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* *
58643410 ATATCC-GGCTAATTCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
58643432 TACTTGGTTT
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 17 0.10
40 152 0.90
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:58650978 original size:40 final size:40
Alignment explanation
Indices: 58650748--58650979 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
58650738 CATTTGAATG
* * *
58650748 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
58650788 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
58650828 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
58650868 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
58650908 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
58650948 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
58650980 TTGTGGTTAT
Statistics
Matches: 182, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 179 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:58659224 original size:40 final size:40
Alignment explanation
Indices: 58658994--58659225 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
58658984 CATTTGAATG
* * *
58658994 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
58659034 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
58659074 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
58659114 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
58659154 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
58659194 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
58659226 TTGTGGTTAT
Statistics
Matches: 182, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 179 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:58661182 original size:21 final size:23
Alignment explanation
Indices: 58661158--58661202 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
58661148 TAATTTTTTC
*
58661158 AAATAGATTGATTA-A-TAATAT
1 AAATACATTGATTACATTAATAT
*
58661179 AAATTCATTGATTACATTAATAT
1 AAATACATTGATTACATTAATAT
58661202 A
1 A
58661203 CTTTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.49, C:0.04, G:0.07, T:0.40
Consensus pattern (23 bp):
AAATACATTGATTACATTAATAT
Found at i:58667875 original size:27 final size:26
Alignment explanation
Indices: 58667843--58667954 Score: 116
Period size: 27 Copynumber: 4.2 Consensus size: 26
58667833 AGGAATCGTC
* *
58667843 CTGGTGGTTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
58667870 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
58667897 TTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
** * *
58667925 CTGGTGAATCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
58667951 CTGG
1 CTGG
58667955 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 50 0.69
28 15 0.21
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:58667947 original size:54 final size:54
Alignment explanation
Indices: 58667844--58667950 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 54
58667834 GGAATCGTCC
* **
58667844 TGGTGGTTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTT
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATATATCTGTTT
* * *
58667898 TGGTGGCTCTGCCACGATTATCTGTATCTGGTGAATCTGTCACAT-TATCTGTT
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGAATCTGCCACATATATCTGTT
58667951 CTGGCAGCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 29 0.63
55 17 0.37
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGAATCTGCCACATATATCTGTTT
Found at i:58677210 original size:40 final size:40
Alignment explanation
Indices: 58677131--58677236 Score: 196
Period size: 40 Copynumber: 2.7 Consensus size: 40
58677121 ATTTGAATGA
58677131 TATCCGGGCTAAGTCCCGAAGGCA-TTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
58677170 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
*
58677210 TATCCGGGCTAAGACCCGAAGGCATTT
1 TATCCGGGCTAAGTCCCGAAGGCATTT
58677237 GTGCGAGTTG
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
39 24 0.37
40 41 0.63
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (40 bp):
TATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTT
Found at i:58677267 original size:79 final size:79
Alignment explanation
Indices: 58677130--58677299 Score: 186
Period size: 79 Copynumber: 2.2 Consensus size: 79
58677120 CATTTGAATG
* * * * * *
58677130 ATATCCGGGCTAAGTCCCGAAGGCATTATGCTAGTGATTTTATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGACCCGAAGGCATTATGCTAGCGATTCTATCCCGGCTAAGACCCGAAGGCAA
58677195 TTATGCTAGTGATT
66 TTATGCTAGTGATT
* *
58677209 TTATCCGGGCTAAGACCCGAAGGCATT-TG-T-GCGAGTTGCTATACCCGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTATGCTAGCGA-TT-CTAT-CCCGGCTAAGACCCGAAGG
* * *
58677271 CAATTGTGCTTGTGGTT
63 CAATTATGCTAGTGATT
58677288 ATATCC-GGCTAA
1 ATATCCGGGCTAA
58677300 ATTCCGAAGA
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
76 3 0.04
77 3 0.04
78 11 0.14
79 59 0.78
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCATTATGCTAGCGATTCTATCCCGGCTAAGACCCGAAGGCAA
TTATGCTAGTGATT
Found at i:58677307 original size:39 final size:40
Alignment explanation
Indices: 58677130--58677308 Score: 154
Period size: 39 Copynumber: 4.5 Consensus size: 40
58677120 CATTTGAATG
*
58677130 ATATCCGGGCTAAGTCCCGAAGGC-ATTATGCTAGTGATT
1 ATATCCGGGCTAAATCCCGAAGGCAATTATGCTAGTGATT
* * *
58677169 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAATCCCGAAGGCAATTATGCTAGTGATT
* * * * *
58677209 TTATCCGGGCTAAGA-CCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAA-ATCCCGAAGGCAATTATGCTAG-TGATT
* * * * *
58677249 ATA-CCCGGTTAAGA-CCCGAAGGCAATTGTGCTTGTGGTT
1 ATATCCGGGCTAA-ATCCCGAAGGCAATTATGCTAGTGATT
*
58677288 ATATCC-GGCTAAATTCCGAAG
1 ATATCCGGGCTAAATCCCGAAG
58677309 AAACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.03
39 64 0.54
40 50 0.42
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAATCCCGAAGGCAATTATGCTAGTGATT
Found at i:58685489 original size:40 final size:40
Alignment explanation
Indices: 58685259--58685490 Score: 324
Period size: 40 Copynumber: 5.8 Consensus size: 40
58685249 CATTTGAATG
* * *
58685259 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
* * * *
58685299 TTATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
58685339 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
58685379 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
58685419 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* * *
58685459 ATACCCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGC
58685491 TTGTGGTTAT
Statistics
Matches: 182, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 179 0.98
41 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:58687008 original size:51 final size:51
Alignment explanation
Indices: 58686932--58687034 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
58686922 TGATAATGTT
* *
58686932 AGCTTATCTATTCATCCGAGAAGTAATAAGTTGTATAGTGATTTGAACCAG
1 AGCTTATCTATTCATCCAAGAAGTAATAAGATGTATAGTGATTTGAACCAG
*
58686983 AGCTTATCTATTCATCCAATAAGTAATAAGATGTATAGTGATTTGAACCAG
1 AGCTTATCTATTCATCCAAGAAGTAATAAGATGTATAGTGATTTGAACCAG
58687034 A
1 A
58687035 TGTAATGGTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (51 bp):
AGCTTATCTATTCATCCAAGAAGTAATAAGATGTATAGTGATTTGAACCAG
Found at i:58691134 original size:24 final size:24
Alignment explanation
Indices: 58691083--58691205 Score: 158
Period size: 25 Copynumber: 5.0 Consensus size: 24
58691073 GCTTTATCAT
*
58691083 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
58691108 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
58691132 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* * *
58691157 GTAACTAGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
58691182 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
58691206 CACTTCCTCC
Statistics
Matches: 89, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
24 33 0.37
25 56 0.63
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58691136 original size:49 final size:49
Alignment explanation
Indices: 58691074--58691205 Score: 160
Period size: 49 Copynumber: 2.6 Consensus size: 49
58691064 AGCATAGCTG
* *
58691074 CTTTATCATATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCATAAGCC
1 CTTTAT-A-ATAACTGG-GGCATAAGCC-CTTTTAATAACTAGGGCATAAGCC
**
58691126 CTTT-TAATAACTGGGGCATAAGCCCTTTATCGTAACTAGGGCATAAGCC
1 CTTTATAATAACTGGGGCATAAGCCCTTT-TAATAACTAGGGCATAAGCC
*
58691175 CTTTATCATAACTGGGGCATAAGCCCTTTTA
1 CTTTATAATAACTGGGGCATAAGCCCTTTTA
58691206 CACTTCCTCC
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
48 8 0.11
49 34 0.48
50 24 0.34
51 1 0.01
52 4 0.06
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (49 bp):
CTTTATAATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCC
Found at i:58691279 original size:20 final size:20
Alignment explanation
Indices: 58691254--58691300 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
58691244 TTATGAATAC
58691254 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
58691274 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
58691294 ACCATGT
1 ATCATGT
58691301 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58696747 original size:25 final size:24
Alignment explanation
Indices: 58696641--58696761 Score: 165
Period size: 24 Copynumber: 5.0 Consensus size: 24
58696631 GCTTTATCAT
*
58696641 ATAACTGGAGACAT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
58696666 ATAACTGGGGCA-AAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
58696689 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
58696713 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
* *
58696738 ATAAATGGGGTATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
58696762 CACTTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
23 18 0.20
24 41 0.47
25 29 0.33
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:58696869 original size:20 final size:20
Alignment explanation
Indices: 58696810--58696876 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
58696800 TTATGAATAC
*
58696810 ATCATGTGCATATCATACAC
1 ATCATGTGCATATCATACAT
58696830 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
* *
58696850 GTCATGTGCAAATCATACAT
1 ATCATGTGCATATCATACAT
*
58696870 ACCATGT
1 ATCATGT
58696877 TTATCAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.31
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:58702870 original size:42 final size:43
Alignment explanation
Indices: 58702766--58702904 Score: 131
Period size: 42 Copynumber: 3.2 Consensus size: 43
58702756 TAAAATATCG
* * * * * *
58702766 TGTAAGACCGTGTCTGGGACACAGGCTTCAAT-TTGAGATTTACG
1 TGTAAGACCATGTATGGGACAGAGGCATCGATATTGA-A-TTACA
* ** *
58702810 TGTAAGACCATGTCTGGGACATCGGCATCG-TATCT-AATTTCA
1 TGTAAGACCATGTATGGGACAGAGGCATCGATAT-TGAATTACA
*
58702852 TGTAAGACCTTGTATGGGACAGAGGCATCGATATTGAATTACA
1 TGTAAGACCATGTATGGGACAGAGGCATCGATATTGAATTACA
58702895 TGTAAGACCA
1 TGTAAGACCA
58702905 CGTCCGGGAT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
42 30 0.38
43 20 0.26
44 27 0.35
45 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTATGGGACAGAGGCATCGATATTGAATTACA
Found at i:58714221 original size:37 final size:37
Alignment explanation
Indices: 58714171--58714249 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
58714161 TTATTACGAA
* * *
58714171 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
58714208 GTCTTACCCGGACAAAATCCCCACGCGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
58714245 GTCTT
1 GTCTT
58714250 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:58714683 original size:49 final size:49
Alignment explanation
Indices: 58714368--58715016 Score: 1013
Period size: 49 Copynumber: 13.5 Consensus size: 49
58714358 CCCTTCGGGA
* * * * *
58714368 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58714415 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58714462 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58714509 CTTATCAC--ATATATACACTTTCGCATTCATCACTTCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58714556 CTTA-C-CACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58714603 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58714650 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58714699 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58714748 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58714797 CTTATCACATATATATACACTTTCA-ATTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACA-TTCATCACATCGGCCATTAGGC
*
58714846 CTTATC-C-CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58714893 CGTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58714942 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58714991 CTTATCACATATATATACACTTTCAC
1 CTTATCACATATATATACACTTTCAC
58715017 GTATACACAC
Statistics
Matches: 564, Mismatches: 26, Indels: 22
0.92 0.04 0.04
Matches are distributed among these distances:
45 1 0.00
46 2 0.00
47 257 0.46
48 5 0.01
49 299 0.53
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58714860 original size:194 final size:190
Alignment explanation
Indices: 58714368--58715016 Score: 1002
Period size: 194 Copynumber: 3.4 Consensus size: 190
58714358 CCCTTCGGGA
* * * * * * *
58714368 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
58714431 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
* * *
58714496 TCGGCCATTAGGCCTTATCACATATATACACTTTCGCATTCATCACTTCGGCCATTAGGC
131 TCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
58714556 CTTA-C-CACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
58714619 ACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCAAATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATC--ACATATATACACTTTCACATTCATCA
*
58714684 CATCGGCCGTTAGGCCTTATCAAATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATC--ATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
58714748 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
*
58714813 ACACTTTCA-ATTTCATCACATCGGCCATTAGGCCTTATCCCATATATACACTTTCACATTCATC
64 ACACTTTCACA-TTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATC
*
58714877 ACATCGGCCATTAGGCCGTATCGCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 ACATCGGCCATTAGGCCTTAT--CATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
58714942 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATAT
58715007 ACACTTTCAC
64 ACACTTTCAC
58715017 GTATACACAC
Statistics
Matches: 423, Mismatches: 24, Indels: 21
0.90 0.05 0.04
Matches are distributed among these distances:
186 2 0.00
187 2 0.00
188 84 0.20
190 45 0.11
192 42 0.10
193 1 0.00
194 203 0.48
195 1 0.00
196 43 0.10
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:58719883 original size:43 final size:42
Alignment explanation
Indices: 58719804--58719885 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 42
58719794 TAGGACCATG
* * * *
58719804 TCTGTGACATAGGCATCATATCTAATTTCGTGTAAGACCCTA
1 TCTGGGACAGAGGCATCATATCTAATTACATGTAAGACCCTA
58719846 TCTGGGACAGAGGCATCGATAT-TGAATTACATGTAAGACC
1 TCTGGGACAGAGGCATC-ATATCT-AATTACATGTAAGACC
58719886 ACGTCCGGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
42 16 0.47
43 18 0.53
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (42 bp):
TCTGGGACAGAGGCATCATATCTAATTACATGTAAGACCCTA
Found at i:58722625 original size:27 final size:25
Alignment explanation
Indices: 58722558--58722632 Score: 107
Period size: 25 Copynumber: 2.9 Consensus size: 25
58722548 TGGACCCCAA
58722558 TTTATAAAATTACTGAAATACCCTC
1 TTTATAAAATTACTGAAATACCCTC
*
58722583 TTTGTAAAATTACTGAAATA-CCTCC
1 TTTATAAAATTACTGAAATACCCT-C
58722608 GGTTTATAAAATTACTGAAATACCC
1 --TTTATAAAATTACTGAAATACCC
58722633 CTAGGTTGTG
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
24 3 0.07
25 20 0.45
27 19 0.43
28 2 0.05
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.35
Consensus pattern (25 bp):
TTTATAAAATTACTGAAATACCCTC
Found at i:58722646 original size:27 final size:27
Alignment explanation
Indices: 58722564--58722739 Score: 120
Period size: 27 Copynumber: 6.6 Consensus size: 27
58722554 CCAATTTATA
*
58722564 AAATTACTGAAATACCCTCT---TTGTA
1 AAATTACTGAAATACCC-CTAAGTTGTG
* * *
58722589 AAATTACTGAAATACCTCC--GGTTTATA
1 AAATTACTGAAATACC-CCTAAG-TTGTG
*
58722616 AAATTACTGAAATACCCCTAGGTTGTG
1 AAATTACTGAAATACCCCTAAGTTGTG
*
58722643 AAATTA-TCGAAATACCCCTAATTTGTG
1 AAATTACT-GAAATACCCCTAAGTTGTG
* * *
58722670 AAATGA-TCGAAATA-CCCTAATTTGAG
1 AAATTACT-GAAATACCCCTAAGTTGTG
*
58722696 AAATTAAC-GAAATA-CCCTCAAATTGTG
1 AAATT-ACTGAAATACCCCT-AAGTTGTG
*
58722723 AAATTATTGAAATACCC
1 AAATTACTGAAATACCC
58722740 TTGTAGGGTA
Statistics
Matches: 128, Mismatches: 11, Indels: 21
0.80 0.07 0.13
Matches are distributed among these distances:
25 17 0.13
26 30 0.23
27 77 0.60
28 4 0.03
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (27 bp):
AAATTACTGAAATACCCCTAAGTTGTG
Found at i:58722698 original size:26 final size:26
Alignment explanation
Indices: 58722616--58722740 Score: 144
Period size: 27 Copynumber: 4.7 Consensus size: 26
58722606 CCGGTTTATA
**
58722616 AAATTA-CTGAAATACCCCTAGGTTGTG
1 AAATTATC-GAAATA-CCCTAATTTGTG
58722643 AAATTATCGAAATACCCCTAATTTGTG
1 AAATTATCGAAATA-CCCTAATTTGTG
* *
58722670 AAATGATCGAAATACCCTAATTTGAG
1 AAATTATCGAAATACCCTAATTTGTG
* *
58722696 AAATTAACGAAATACCCTCAAATTGTG
1 AAATTATCGAAATACCCT-AATTTGTG
*
58722723 AAATTATTGAAATACCCT
1 AAATTATCGAAATACCCT
58722741 TGTAGGGTAA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
26 27 0.31
27 58 0.67
28 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.30
Consensus pattern (26 bp):
AAATTATCGAAATACCCTAATTTGTG
Found at i:58722707 original size:53 final size:53
Alignment explanation
Indices: 58722624--58722740 Score: 146
Period size: 53 Copynumber: 2.2 Consensus size: 53
58722614 TAAAATTACT
* * * *
58722624 GAAATACCCCTAGGTTGTGAAATTATCGAAATACCC-CTAATTTGTGAAATGATC
1 GAAATA-CCCTAAGTTGAGAAATTAACGAAATACCCTC-AAATTGTGAAATGATC
* * *
58722678 GAAATACCCTAATTTGAGAAATTAACGAAATACCCTCAAATTGTGAAATTATT
1 GAAATACCCTAAGTTGAGAAATTAACGAAATACCCTCAAATTGTGAAATGATC
58722731 GAAATACCCT
1 GAAATACCCT
58722741 TGTAGGGTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
53 48 0.87
54 7 0.13
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (53 bp):
GAAATACCCTAAGTTGAGAAATTAACGAAATACCCTCAAATTGTGAAATGATC
Found at i:58722767 original size:26 final size:26
Alignment explanation
Indices: 58722738--58722808 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
58722728 ATTGAAATAC
58722738 CCTTGTAGGGTAAAATGACTGTTTTG
1 CCTTGTAGGGTAAAATGACTGTTTTG
** *
58722764 CCTTAAAGAGTAAAATGACTGTTTTG
1 CCTTGTAGGGTAAAATGACTGTTTTG
58722790 CCGTTGT-GGGT-AAATGACT
1 CC-TTGTAGGGTAAAATGACT
58722809 TTGGCTATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
25 8 0.21
26 28 0.74
27 2 0.05
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (26 bp):
CCTTGTAGGGTAAAATGACTGTTTTG
Found at i:58735188 original size:48 final size:48
Alignment explanation
Indices: 58735133--58735227 Score: 154
Period size: 48 Copynumber: 2.0 Consensus size: 48
58735123 ACGATGTCTC
* *
58735133 ATATCGATGCCAATGCCATATCCTAGATATGATCTTACATGGGATCAA
1 ATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCAA
* *
58735181 ATATCGATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCA
1 ATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCA
58735228 CACATAACCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (48 bp):
ATATCGATGCCAATGCCATATCCCAGACATGATCTTACATGGGATCAA
Found at i:58735620 original size:68 final size:68
Alignment explanation
Indices: 58735511--58735637 Score: 238
Period size: 68 Copynumber: 1.9 Consensus size: 68
58735501 TTTTTTTATC
58735511 TATAGTATCAAATTTCACTTATTTAATTATCACATTGTTCAAAT-AAGTCCATAAATCATTTCTT
1 TATAGTATCAAATTTCACTTATTTAATTATCACATTGTTCAAATCAA-TCCATAAATCATTTCTT
58735575 GATT
65 GATT
58735579 TATAGTATCAAATTTCACTTATTTAATTATCACATTGTTCAAATCAATCCATAAATCAT
1 TATAGTATCAAATTTCACTTATTTAATTATCACATTGTTCAAATCAATCCATAAATCAT
58735638 ACTTTGGAAA
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 56 0.97
69 2 0.03
ACGTcount: A:0.37, C:0.16, G:0.05, T:0.43
Consensus pattern (68 bp):
TATAGTATCAAATTTCACTTATTTAATTATCACATTGTTCAAATCAATCCATAAATCATTTCTTG
ATT
Found at i:58736745 original size:12 final size:12
Alignment explanation
Indices: 58736728--58736753 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
58736718 GCTGTTACAT
58736728 GGCCTAGCACAC
1 GGCCTAGCACAC
58736740 GGCCTAGCACAC
1 GGCCTAGCACAC
58736752 GG
1 GG
58736754 GTGTGTGAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.31, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:58738435 original size:26 final size:27
Alignment explanation
Indices: 58738375--58738490 Score: 139
Period size: 26 Copynumber: 4.4 Consensus size: 27
58738365 TGATTTGCAG
58738375 CAGTCATTTTACCACATAAGGGCAAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
* * *
58738402 CAATCATTTTACCACATAA-TGCCAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
* *
58738428 CAGTCATTTTA-CATATAAGGGTAAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
* * *
58738454 CAGTCATTTAATCA-ATTAGGGCAAAA
1 CAGTCATTTTACCACATAAGGGCAAAA
58738480 CAGTCATTTTA
1 CAGTCATTTTA
58738491 TCAATTAAGG
Statistics
Matches: 75, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
25 6 0.08
26 49 0.65
27 20 0.27
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (27 bp):
CAGTCATTTTACCACATAAGGGCAAAA
Found at i:58741399 original size:46 final size:46
Alignment explanation
Indices: 58741294--58741500 Score: 292
Period size: 46 Copynumber: 4.5 Consensus size: 46
58741284 GAGTGTCATG
* * * * *
58741294 GTGTCTTTCAACCATGGTTTTATTTATTCTC-ATCTTGATGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCTATCGTGTTGCCATA
*
58741339 GTGTCTTTCAACCATGGTCTTATTCATTTT-TCACCGTGTTGCCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCT-ATCGTGTTGCCATA
* * * *
58741385 GTGTCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTACAATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCTATCGTGTTGCCATA
*
58741431 GTGTCTTTCAACCATGGTCTTATTCATTTTCTATCGTGTTGGCATA
1 GTGTCTTTCAACCATGGTCTTATTCATTTTCTATCGTGTTGCCATA
58741477 GTGTCTTTCAACCATGGTCTTATT
1 GTGTCTTTCAACCATGGTCTTATT
58741501 TATATGATTT
Statistics
Matches: 143, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
45 27 0.19
46 115 0.80
47 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (46 bp):
GTGTCTTTCAACCATGGTCTTATTCATTTTCTATCGTGTTGCCATA
Found at i:58741574 original size:45 final size:45
Alignment explanation
Indices: 58741511--58741636 Score: 137
Period size: 45 Copynumber: 2.8 Consensus size: 45
58741501 TATATGATTT
* * * *
58741511 GTGATGTCATAGCGTCTTTCAGCTATGGTCTTACTCGATAGAATC
1 GTGATGCCATAACATCTTTTAGCTATGGTCTTACTCGATAGAATC
* * ** * * *
58741556 GTGTTGCCATAACTTCTTTTAGCCGTGGTCGTACTTGATAGAATT
1 GTGATGCCATAACATCTTTTAGCTATGGTCTTACTCGATAGAATC
58741601 GTGATGCCATAACATCTTTTAG-TCATGGTCTTACTC
1 GTGATGCCATAACATCTTTTAGCT-ATGGTCTTACTC
58741637 ATTTCTGGTA
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.38
Consensus pattern (45 bp):
GTGATGCCATAACATCTTTTAGCTATGGTCTTACTCGATAGAATC
Found at i:58743597 original size:49 final size:49
Alignment explanation
Indices: 58743525--58743699 Score: 233
Period size: 49 Copynumber: 3.5 Consensus size: 49
58743515 TGAGGTCACG
*
58743525 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGTCGCA
* * * * * * *
58743574 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCAATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAA-TTAG-TCGCA
* *
58743625 TGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGTCGCA
*
58743674 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
58743700 TGCGTACTAG
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 63 0.59
50 6 0.06
51 38 0.36
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATTAGTCGCA
Found at i:58743693 original size:100 final size:100
Alignment explanation
Indices: 58743520--58743706 Score: 347
Period size: 100 Copynumber: 1.9 Consensus size: 100
58743510 TATTGTGAGG
* *
58743520 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTAGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTAGTCGCATGTGTAGTACT
58743585 AAGTGTAGGCTACTATGCGTACCCAATAACTTCGA
66 AAGTGTAGGCTACTATGCGTACCCAATAACTTCGA
*
58743620 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTAGTCGCATGTGTAGTACT
58743685 AAGTGTAGGCTACTATGCGTAC
66 AAGTGTAGGCTACTATGCGTAC
58743707 TAGATAGCTT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 84 1.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCGAATAATTAGTCGCATGTGTAGTACT
AAGTGTAGGCTACTATGCGTACCCAATAACTTCGA
Found at i:58749346 original size:55 final size:53
Alignment explanation
Indices: 58749215--58749410 Score: 164
Period size: 55 Copynumber: 3.6 Consensus size: 53
58749205 CTTACCATTT
* * *
58749215 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATA
* * * *
58749268 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATA
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATA
** * * *
58749323 CCATGTCTTGACATGG-CTTTACATGATATCCTTGCCTTA-GAAACCTTACCAGTTG
1 CCATGTCTTGACATGGTC-TTACATGGGATCCTTGCCTTATG-AA-CTCACCA-ATA
* ** *
58749378 CCATGCCTTGGTATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
58749411 AAACCCTAAT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
52 2 0.02
53 36 0.31
54 8 0.07
55 67 0.58
56 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATA
Found at i:58754296 original size:41 final size:42
Alignment explanation
Indices: 58754182--58754318 Score: 170
Period size: 43 Copynumber: 3.2 Consensus size: 42
58754172 TAGGATTTCT
* *
58754182 GATATGTGTTCTCGTGTAAGACCAC-GTCTAGGACATTGGCATC
1 GATATGTGAT-TCGTGTAAGACC-CTGTCTGGGACATTGGCATC
* *
58754225 GATATGTGATTATGTGTAAGACCATGTCTGGGACATTGGCATC
1 GATATGTGATT-CGTGTAAGACCCTGTCTGGGACATTGGCATC
* * *
58754268 G-TATTTGATTCGTGTAAGACCCTATCTGGGACACTGGCATC
1 GATATGTGATTCGTGTAAGACCCTGTCTGGGACATTGGCATC
58754309 GATATGTGAT
1 GATATGTGAT
58754319 AGCACGTTTG
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
41 28 0.35
42 16 0.20
43 37 0.46
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (42 bp):
GATATGTGATTCGTGTAAGACCCTGTCTGGGACATTGGCATC
Found at i:58759570 original size:56 final size:54
Alignment explanation
Indices: 58759483--58759589 Score: 151
Period size: 54 Copynumber: 1.9 Consensus size: 54
58759473 GCATGTAATT
* * *
58759483 ATGTGGTACACGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGTGTGGCA
1 ATGTGATACACGCTAGGTCCGGGAGCTTATGTAGCCCTATTGAGAGGTGTGGCA
* *
58759537 ATGTGATACATGCTAGGTCCGGGTGCTCATATGTAGCCCTATTGAGAGGTGTG
1 ATGTGATACACGCTAGGTCCGGGAGCT--TATGTAGCCCTATTGAGAGGTGTG
58759590 CTATGTCATG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 23 0.50
56 23 0.50
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.29
Consensus pattern (54 bp):
ATGTGATACACGCTAGGTCCGGGAGCTTATGTAGCCCTATTGAGAGGTGTGGCA
Found at i:58767971 original size:14 final size:15
Alignment explanation
Indices: 58767934--58767975 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
58767924 AAATATGAAC
58767934 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
58767950 TATA-ATGTGATA-G
1 TATATATGTGAAATG
58767963 TATATATGTGAAA
1 TATATATGTGAAA
58767976 GCCGAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:58768157 original size:43 final size:43
Alignment explanation
Indices: 58768096--58768180 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
58768086 CATAGGATTT
* *
58768096 TCGATATGTGTTCTTGTGTAAGACCACGTCTGGGACGTTGGCG
1 TCGATATGTGTTCATGTGTAAGACCACGTCTGGGACATTGGCG
* *
58768139 TCGATATGTGATT-ATGTGTAAGACCATGTTTGGGACATTGGC
1 TCGATATGTG-TTCATGTGTAAGACCACGTCTGGGACATTGGC
58768181 ATTGTATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
43 35 0.95
44 2 0.05
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.34
Consensus pattern (43 bp):
TCGATATGTGTTCATGTGTAAGACCACGTCTGGGACATTGGCG
Found at i:58769683 original size:27 final size:27
Alignment explanation
Indices: 58769616--58769683 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
58769606 TGTTACTGAG
* * ** *
58769616 ATGGGC-TGGGCCCAATTGATTTTGTT
1 ATGGGCTTTGGCCCAAATGATAATGTA
* *
58769642 ATGGGCTGTGACCCAAATGATAATGTA
1 ATGGGCTTTGGCCCAAATGATAATGTA
58769669 ATGGGCTTTGGCCCA
1 ATGGGCTTTGGCCCA
58769684 CTTATGCTCT
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (27 bp):
ATGGGCTTTGGCCCAAATGATAATGTA
Found at i:58773064 original size:46 final size:46
Alignment explanation
Indices: 58772942--58773068 Score: 145
Period size: 44 Copynumber: 2.8 Consensus size: 46
58772932 TTATGAGAGC
*
58772942 CAGTGTAAGACCATGTCTAGGACACGGCATCGGCATTAAGACGAGTG
1 CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA-TAAGACGAGTG
* * *
58772989 CTAGTGTAAGA-TATGTCAAGGACAT-GCATCGGC-TACGA-GATGTG
1 C-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATAAGACGA-GTG
*
58773033 TCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 -CAGTGTAAGACCATGTCTAGGACATGGCATCGGCA
58773069 CCTTACCCCA
Statistics
Matches: 67, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
43 2 0.03
44 16 0.24
45 12 0.18
46 16 0.24
47 12 0.18
48 9 0.13
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAAGACGAGTG
Found at i:58779905 original size:22 final size:21
Alignment explanation
Indices: 58779880--58779928 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 21
58779870 ATACCTTAAT
58779880 CTAGCTTGAAAAAGGCCGAACC
1 CTAGCTT-AAAAAGGCCGAACC
*
58779902 CTAGCCTTAACAAGGCCGAACC
1 CTAG-CTTAAAAAGGCCGAACC
58779924 CTAGC
1 CTAGC
58779929 CTTATTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.84
23 3 0.12
ACGTcount: A:0.33, C:0.33, G:0.20, T:0.14
Consensus pattern (21 bp):
CTAGCTTAAAAAGGCCGAACC
Found at i:58779929 original size:22 final size:22
Alignment explanation
Indices: 58779891--58779932 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
58779881 TAGCTTGAAA
58779891 AAGGCCGAACCCTAGCCTTAAC
1 AAGGCCGAACCCTAGCCTTAAC
58779913 AAGGCCGAACCCTAGCCTTA
1 AAGGCCGAACCCTAGCCTTA
58779933 TTTTTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.36, G:0.19, T:0.14
Consensus pattern (22 bp):
AAGGCCGAACCCTAGCCTTAAC
Found at i:58780269 original size:20 final size:19
Alignment explanation
Indices: 58780238--58780275 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
58780228 TCAAATAATA
58780238 AAATTAAATCACA-AAAAC
1 AAATTAAATCACACAAAAC
58780256 AAATATAAATTCACACAAAA
1 AAAT-TAAA-TCACACAAAA
58780276 TAAACGCAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 5 0.29
21 4 0.24
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (19 bp):
AAATTAAATCACACAAAAC
Found at i:58782517 original size:9 final size:9
Alignment explanation
Indices: 58782505--58782531 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
58782495 AAACGGGCCA
58782505 AAATGGGCT
1 AAATGGGCT
58782514 AAATGGGCT
1 AAATGGGCT
58782523 AAATGGGCT
1 AAATGGGCT
58782532 GTTTGGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.22
Consensus pattern (9 bp):
AAATGGGCT
Found at i:58782665 original size:29 final size:29
Alignment explanation
Indices: 58782604--58782684 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 29
58782594 CATGACTGTT
* * *
58782604 AATGTGATTTGGGTCC-AGT-GGCCATATG
1 AATGTGATTTGGG-CCTAATAGGCCACATA
58782632 AATGTGATTTGGGCCTAATAGGCCACATA
1 AATGTGATTTGGGCCTAATAGGCCACATA
*
58782661 AATGTGA-ATGGGCCTAATAGGCCA
1 AATGTGATTTGGGCCTAATAGGCCA
58782685 TATGAAAGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
27 2 0.04
28 31 0.66
29 14 0.30
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATAGGCCACATA
Found at i:58794323 original size:22 final size:22
Alignment explanation
Indices: 58794298--58794349 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
58794288 TTTTAAATCA
58794298 TTCAAACACATAT-AATAAACAT
1 TTCAAA-ACATATCAATAAACAT
* *
58794320 TTCATATCATATCAATAAACAT
1 TTCAAAACATATCAATAAACAT
58794342 ATT-AAAAC
1 -TTCAAAAC
58794350 CAAGTCAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.21
22 17 0.71
23 2 0.08
ACGTcount: A:0.52, C:0.17, G:0.00, T:0.31
Consensus pattern (22 bp):
TTCAAAACATATCAATAAACAT
Found at i:58810002 original size:40 final size:40
Alignment explanation
Indices: 58809921--58810218 Score: 471
Period size: 40 Copynumber: 7.5 Consensus size: 40
58809911 AAACCAAGTA
* *
58809921 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
58809960 CCTTCGGGACTTAGCCC-GATTATAATGACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-TATAGTAACTCGCACAAATG
58810000 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58810040 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58810080 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
58810120 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
58810160 CCTTCAGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTC-GGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
58810200 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
58810219 TTATCATCCG
Statistics
Matches: 245, Mismatches: 7, Indels: 13
0.92 0.03 0.05
Matches are distributed among these distances:
39 20 0.08
40 220 0.90
41 5 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:58816819 original size:28 final size:28
Alignment explanation
Indices: 58816788--58816878 Score: 101
Period size: 28 Copynumber: 3.2 Consensus size: 28
58816778 TGACAGAGTA
* *
58816788 ACCAGATATAGATATTTGTGGCGTAGCC
1 ACCAGAAATAGATATTTGTGGCATAGCC
* * * **
58816816 ACCAAAAATAGATATTTTTTGTTTAGCC
1 ACCAGAAATAGATATTTGTGGCATAGCC
* *
58816844 ACCAGAAACAGATAATTGTGGCATAGCC
1 ACCAGAAATAGATATTTGTGGCATAGCC
58816872 ACCAGAA
1 ACCAGAA
58816879 TGCTTCCTCC
Statistics
Matches: 50, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (28 bp):
ACCAGAAATAGATATTTGTGGCATAGCC
Found at i:58822008 original size:50 final size:49
Alignment explanation
Indices: 58821828--58822222 Score: 432
Period size: 49 Copynumber: 7.9 Consensus size: 49
58821818 TCTATTGTGA
* *
58821828 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * ** *
58821877 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCTGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * * **
58821927 CGATCACGTGTGTAGTACTAAGTGCAAGCTACAACGTGTATCAAATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
58821977 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACC-GAATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* * * * * *
58822027 GGTCGCATGTGTAGCACTAAGTGCAGGCTACTATGCGTACCCGATAACTTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA--TT
* * * **
58822078 GATCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTATCAGATGGTT
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
58822127 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATCATT
1 -GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
58822177 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
58822223 GCCTTGTCTA
Statistics
Matches: 282, Mismatches: 57, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
49 122 0.43
50 88 0.31
51 72 0.26
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:58822098 original size:150 final size:150
Alignment explanation
Indices: 58821827--58822222 Score: 684
Period size: 150 Copynumber: 2.6 Consensus size: 150
58821817 ATCTATTGTG
*
58821827 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
* *
58821892 ACTAAGTGCAGGCTACTATGCATACCTGATAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
58821957 ACAACGTGTATCAAATGGTT
131 ACAACGTGTATCAAATGGTT
* * *
58821977 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCGAATAATTGGTCGCATGTGTAGC
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
* *
58822042 ACTAAGTGCAGGCTACTATGCGTACCCGATAACTTTGATCACGTGTGTAGTACTAAGTGCAAGCT
66 ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
* *
58822107 ACTACGTGTATCAGATGGTT
131 ACAACGTGTATCAAATGGTT
* *
58822127 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATCATTGGTCACATGTGTAGT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
58822192 ACTAAGTGCAGGCTACTATGCGTACCAGATA
66 ACTAAGTGCAGGCTACTATGCGTACCAGATA
58822223 GCCTTGTCTA
Statistics
Matches: 231, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 231 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (150 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCAGATAACTTCGATCACGTGTGTAGTACTAAGTGCAAGCT
ACAACGTGTATCAAATGGTT
Found at i:58828066 original size:50 final size:49
Alignment explanation
Indices: 58827892--58828123 Score: 254
Period size: 49 Copynumber: 4.7 Consensus size: 49
58827882 TCTATTGTGA
* *
58827892 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACC-GAATAATT
1 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATCTACCAG-ATAATT
* * *
58827941 GGTCACATGTGTAGTACTAAGTGCAGGCTACT--ATGCTTACCCGATAACTT
1 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACAT-C-TACCAGATAA-TT
* * * * **
58827991 CGATCACGTGTGTAGTACTAAGTGCAAGCTTCTACATGTATCAGATGGTT
1 -GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATCTACCAGATAATT
* * *
58828041 AGGTCACGTGTGTAGTACTATGTGCAGGCTACTACATCTACCGGATAATT
1 -GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATCTACCAGATAATT
*
58828091 GGTCACATGTGTAGTACTAAGTGCAAGCTACTA
1 GGTCACGTGTGTAGTACTAAGTGCAAGCTACTA
58828124 TGCGTACTAG
Statistics
Matches: 150, Mismatches: 26, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
47 1 0.01
49 68 0.45
50 45 0.30
51 34 0.23
53 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (49 bp):
GGTCACGTGTGTAGTACTAAGTGCAAGCTACTACATCTACCAGATAATT
Found at i:58828070 original size:101 final size:98
Alignment explanation
Indices: 58827894--58828123 Score: 295
Period size: 100 Copynumber: 2.3 Consensus size: 98
58827884 TATTGTGAGG
* *
58827894 TCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGAATAATTGGTCACATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACAGAATAATTGGTCACATGTGTAGTACT
58827959 AAGTGCAGGCTACT--ATGCTTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACAT-C-TACCCGATAA-TT-GA
* ** *
58827994 TCACGTGTGTAGTACTAAGTGCAAGCTTCTACATGTATCAG-ATGGTTAGGTCACGTGTGTAGTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTA-CAGAATAATT-GGTCACATGTGTAGTA
* * *
58828058 CTATGTGCAGGCTACTACATCTACCGGATAATTGG
64 CTAAGTGCAGGCTACTACATCTACCCGATAATTGA
*
58828093 TCACATGTGTAGTACTAAGTGCAAGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAAGCTACTA
58828124 TGCGTACTAG
Statistics
Matches: 115, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
99 30 0.26
100 41 0.36
101 41 0.36
102 1 0.01
103 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAAGCTACTACATGTACAGAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACATCTACCCGATAATTGA
Found at i:58832441 original size:29 final size:29
Alignment explanation
Indices: 58832364--58832511 Score: 142
Period size: 29 Copynumber: 5.2 Consensus size: 29
58832354 GCATGAACAT
* * * *
58832364 AATGTGATTTGGGCCAGATGAGCCATATA
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
58832393 AATGAG-ATTGGGCCTAATGGGCCATATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
58832421 AATGTGAATTGGGTCTGATGGGCCACATG
1 AATGTGAATTGGGCCTGATGGGCCATATG
* *
58832450 AACT-TGAATTGGGCCGGATGGGCCATATA
1 AA-TGTGAATTGGGCCTGATGGGCCATATG
*
58832479 AATGAG-ATTGGGCCT-AGTGGGCCATATG
1 AATGTGAATTGGGCCTGA-TGGGCCATATG
*
58832507 CATGT
1 AATGT
58832512 ATGTAGAGGT
Statistics
Matches: 96, Mismatches: 19, Indels: 9
0.77 0.15 0.07
Matches are distributed among these distances:
27 1 0.01
28 44 0.46
29 50 0.52
30 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.26
Consensus pattern (29 bp):
AATGTGAATTGGGCCTGATGGGCCATATG
Found at i:58835392 original size:53 final size:53
Alignment explanation
Indices: 58835312--58835413 Score: 168
Period size: 53 Copynumber: 1.9 Consensus size: 53
58835302 AGAGAACTTA
*
58835312 CCCAATTAGGCCTTGAAAGTTTCTTTTCTCACTCCTAGGGTCTCCATGTGTTT
1 CCCAATTAGGCCTTGAAAGTTTATTTTCTCACTCCTAGGGTCTCCATGTGTTT
* * *
58835365 CCCAATTAGGCCTTGAAAGTTTATTTTCTCTCTCTTAGGGTTTCCATGT
1 CCCAATTAGGCCTTGAAAGTTTATTTTCTCACTCCTAGGGTCTCCATGT
58835414 ATTTTAAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 45 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.41
Consensus pattern (53 bp):
CCCAATTAGGCCTTGAAAGTTTATTTTCTCACTCCTAGGGTCTCCATGTGTTT
Found at i:58840522 original size:47 final size:47
Alignment explanation
Indices: 58840471--58840662 Score: 287
Period size: 47 Copynumber: 4.1 Consensus size: 47
58840461 TTTAGGATTG
*
58840471 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
58840518 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
58840565 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* * * * * *
58840612 AATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCT
1 AATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCC
58840659 AATG
1 AATG
58840663 CGAAATGTGT
Statistics
Matches: 135, Mismatches: 9, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
47 132 0.98
48 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:58840525 original size:22 final size:22
Alignment explanation
Indices: 58840498--58840572 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
58840488 CATGCATATG
58840498 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
58840520 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
58840543 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
58840567 TGTGAT
1 TGTGAT
58840573 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:58840692 original size:46 final size:46
Alignment explanation
Indices: 58840636--58840818 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
58840626 GGAAGTGTAT
* * *
58840636 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
*
58840682 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
*
58840728 ATATGAGGTAAAGCCAAATGGCGAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
* * * **
58840774 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATG
58840819 TGTATATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.35, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
ATATGAGGTAAAGCCAAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:58849514 original size:30 final size:30
Alignment explanation
Indices: 58849465--58849525 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
58849455 AATTAAAAAC
* * * *
58849465 AATATTCAATTGAGCCCTCAGTCAAGTTTA
1 AATATTCAATTAAACCCTCAATCAAATTTA
*
58849495 AATATTCAATTAAATCCTCAATCAAATTTA
1 AATATTCAATTAAACCCTCAATCAAATTTA
58849525 A
1 A
58849526 GCTCATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.18, G:0.07, T:0.34
Consensus pattern (30 bp):
AATATTCAATTAAACCCTCAATCAAATTTA
Found at i:58850439 original size:20 final size:21
Alignment explanation
Indices: 58850414--58850475 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
58850404 AATTTTAAAA
58850414 TTTCTAAT-TTTTTAAAATTT
1 TTTCTAATATTTTTAAAATTT
* *
58850434 TTTCTATTATTTTTAATATTT
1 TTTCTAATATTTTTAAAATTT
*
58850455 TGT-T-ATA-TTTTATAAATTT
1 TTTCTAATATTTTTA-AAATTT
58850474 TT
1 TT
58850476 AAAAAGCTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 5 0.15
19 8 0.24
20 8 0.24
21 13 0.38
ACGTcount: A:0.27, C:0.03, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTCTAATATTTTTAAAATTT
Found at i:58850463 original size:19 final size:20
Alignment explanation
Indices: 58850422--58850474 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
58850412 AATTTCTAAT
*
58850422 TTTTTAAAATTTTTTCTATTA
1 TTTTT-AAATTTTGTCTATTA
58850443 TTTTTAATATTTTGT-TA-TA
1 TTTTTAA-ATTTTGTCTATTA
58850462 TTTTATAAATTTT
1 TTTT-TAAATTTT
58850475 TAAAAAGCTG
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
19 11 0.38
20 7 0.24
21 11 0.38
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.68
Consensus pattern (20 bp):
TTTTTAAATTTTGTCTATTA
Found at i:58851649 original size:104 final size:106
Alignment explanation
Indices: 58851477--58851670 Score: 250
Period size: 104 Copynumber: 1.8 Consensus size: 106
58851467 ATGCGTGTGG
* * * **
58851477 AAACAACATATTTAGTACATATGTATGTGTTTCAAAATAACATACAATAAATAACGAAACGTAAG
1 AAACAACATATTTAGAACATAGGTATGTGTTTAAAAATAACATACAATAAATAACGAAAAATAAG
* *
58851542 GTTTGGAATTAA-TAA-TAATAACAACAAAGGTGCGTATAA
66 GTTTGAAACTAATTAATTAATAACAACAAAGGTGCGTATAA
* * * * *
58851581 AAACCACATATTTAGAACATAGGTGTGTGTTTAAAAATAATATACAA-AAACTAATGAAAAATAT
1 AAACAACATATTTAGAACATAGGTATGTGTTTAAAAATAACATACAATAAA-TAACGAAAAATAA
58851645 GGTTTGAAACTAATTAATTAATAACA
65 GGTTTGAAACTAATTAATTAATAACA
58851671 CATGAAATAT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
103 3 0.04
104 61 0.81
105 3 0.04
106 8 0.11
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (106 bp):
AAACAACATATTTAGAACATAGGTATGTGTTTAAAAATAACATACAATAAATAACGAAAAATAAG
GTTTGAAACTAATTAATTAATAACAACAAAGGTGCGTATAA
Found at i:58852502 original size:15 final size:16
Alignment explanation
Indices: 58852478--58852507 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
58852468 TATAGTTTTA
58852478 TTTTTATATAAAAATG
1 TTTTTATATAAAAATG
58852494 TTTTT-TATAAAAAT
1 TTTTTATATAAAAAT
58852508 TATATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
TTTTTATATAAAAATG
Found at i:58852578 original size:19 final size:19
Alignment explanation
Indices: 58852554--58852596 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
58852544 TTAAATTAAT
*
58852554 TAAAAACAT-TTTATTTTTA
1 TAAAAACATACTT-TTTTTA
*
58852573 TAAAAATATACTTTTTTTA
1 TAAAAACATACTTTTTTTA
58852592 TAAAA
1 TAAAA
58852597 TATTATGATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
TAAAAACATACTTTTTTTA
Found at i:58853839 original size:14 final size:14
Alignment explanation
Indices: 58853820--58853902 Score: 64
Period size: 14 Copynumber: 5.8 Consensus size: 14
58853810 ATATAATTTA
58853820 ATATTAAAATAATT
1 ATATTAAAATAATT
58853834 ATATTAAAAT-ATT
1 ATATTAAAATAATT
*
58853847 AT-TAAACAATATATT
1 ATATTAA-AATA-ATT
** *
58853862 AT-TTTTATTAAATT
1 ATATTAAAAT-AATT
58853876 ATATTTAATAATAATT
1 ATA-TTAA-AATAATT
58853892 ATATTAAAATA
1 ATATTAAAATA
58853903 TGATTAAAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
12 3 0.06
13 8 0.15
14 21 0.39
15 11 0.20
16 9 0.17
17 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTAAAATAATT
Found at i:58853871 original size:32 final size:31
Alignment explanation
Indices: 58853835--58853947 Score: 85
Period size: 32 Copynumber: 3.7 Consensus size: 31
58853825 AAAATAATTA
58853835 TATTAAAATATTATTAAACAATATATTATTTT
1 TATTAAAATATTATTAAA-AATATATTATTTT
* *
58853867 TATTAAATTA-TATTTAATAATA-ATTA----
1 TATTAAAATATTA-TTAAAAATATATTATTTT
* *
58853893 TATTAAAATATGATTAAAATATTTATTATTTAT
1 TATTAAAATATTATTAAAA-ATATATTATTT-T
* * *
58853926 TATTAAATTATTTTTAATAATA
1 TATTAAAATATTATTAAAAATA
58853948 ATCCTATTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
26 14 0.23
27 3 0.05
28 4 0.07
30 4 0.07
31 6 0.10
32 15 0.25
33 15 0.25
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (31 bp):
TATTAAAATATTATTAAAAATATATTATTTT
Found at i:58853894 original size:58 final size:59
Alignment explanation
Indices: 58853823--58853949 Score: 197
Period size: 58 Copynumber: 2.2 Consensus size: 59
58853813 TAATTTAATA
*
58853823 TTAA-AATAATTATATTAAAATATTATTAAACA-ATATATTATTT-TTATTAAATTATAT
1 TTAATAATAATTATATTAAAATATGATTAAA-ATATATATTATTTATTATTAAATTATAT
* *
58853880 TTAATAATAATTATATTAAAATATGATTAAAATATTTATTATTTATTATTAAATTATTT
1 TTAATAATAATTATATTAAAATATGATTAAAATATATATTATTTATTATTAAATTATAT
58853939 TTAATAATAAT
1 TTAATAATAAT
58853950 CCTATTACAA
Statistics
Matches: 64, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
57 5 0.08
58 35 0.55
59 24 0.38
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (59 bp):
TTAATAATAATTATATTAAAATATGATTAAAATATATATTATTTATTATTAAATTATAT
Found at i:58858470 original size:27 final size:28
Alignment explanation
Indices: 58858386--58858483 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
58858376 CATGAGATTG
* * * *
58858386 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
58858415 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
58858443 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
58858470 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
58858484 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:58858494 original size:27 final size:27
Alignment explanation
Indices: 58858414--58858496 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
58858404 TAAATTGTAC
* *
58858414 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
58858442 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
58858469 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
58858496 A
1 A
58858497 TTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:58858497 original size:29 final size:27
Alignment explanation
Indices: 58858386--58858497 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
58858376 CATGAGATTG
** * *
58858386 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* *
58858415 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
58858443 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
58858470 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
58858498 TTTTGAATCA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
27 23 0.32
28 28 0.39
29 21 0.29
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:58861261 original size:19 final size:19
Alignment explanation
Indices: 58861225--58861262 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
58861215 TGGGCCACGT
*
58861225 TGGGTCAAAATGGGTCGTG
1 TGGGTCAAAATGGCTCGTG
58861244 TGGG-CAAAATAGGCTCGTG
1 TGGGTCAAAAT-GGCTCGTG
58861263 GGCCTCGCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.24, C:0.13, G:0.39, T:0.24
Consensus pattern (19 bp):
TGGGTCAAAATGGCTCGTG
Found at i:58861509 original size:27 final size:27
Alignment explanation
Indices: 58861478--58861543 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
58861468 CCCCAAAATA
**
58861478 GGTAAAATGGTCATAATACCCCTGTAG
1 GGTAAAATGACCATAATACCCCTGTAG
*
58861505 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCATAATACCCCTGTAG
58861532 GGTAAAATGACC
1 GGTAAAATGACC
58861544 GGTAAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.23
Consensus pattern (27 bp):
GGTAAAATGACCATAATACCCCTGTAG
Found at i:58861734 original size:27 final size:26
Alignment explanation
Indices: 58861690--58861790 Score: 96
Period size: 27 Copynumber: 3.8 Consensus size: 26
58861680 ATGGAGGAAG
* *
58861690 TACTG-TACTGGTGACTATGTCACAT
1 TACTGTTACTGGTGGCTATGCCACAT
*
58861715 TCACTGTTACTAGTGGCTATGCCACAAT
1 T-ACTGTTACTGGTGGCTATGCCAC-AT
* *
58861743 TACTGATACTGGTGGCTTTGCCACATT
1 TACTGTTACTGGTGGCTATGCCACA-T
* * *
58861770 TACTGTTTCTGATAGCTATGC
1 TACTGTTACTGGTGGCTATGC
58861791 TGCATTATTA
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.02
26 5 0.08
27 52 0.85
28 3 0.05
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
TACTGTTACTGGTGGCTATGCCACAT
Found at i:58861994 original size:30 final size:27
Alignment explanation
Indices: 58861936--58861998 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
58861926 CACTATACTG
*
58861936 ATACTGTATAGGGCTTAGGCCCACACT
1 ATACTGTATAGGGCTAAGGCCCACACT
* *
58861963 ATTACTGTATAGGGCTAAAAGGCCTAGACT
1 A-TACTGTATAGGGCT--AAGGCCCACACT
58861993 ATACTG
1 ATACTG
58861999 ATACTGTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 1 0.03
28 14 0.47
29 5 0.17
30 10 0.33
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (27 bp):
ATACTGTATAGGGCTAAGGCCCACACT
Found at i:58864002 original size:12 final size:12
Alignment explanation
Indices: 58863987--58864029 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
58863977 TTCCACTTTC
58863987 TTTTCTTGCTCT
1 TTTTCTTGCTCT
*
58863999 TTTTCTTTCAT-T
1 TTTTCTTGC-TCT
58864011 TTTTCTTGCTCT
1 TTTTCTTGCTCT
58864023 TTTTCTT
1 TTTTCTT
58864030 TTGACTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 1 0.04
12 25 0.93
13 1 0.04
ACGTcount: A:0.02, C:0.21, G:0.05, T:0.72
Consensus pattern (12 bp):
TTTTCTTGCTCT
Found at i:58864014 original size:24 final size:27
Alignment explanation
Indices: 58863969--58864030 Score: 94
Period size: 24 Copynumber: 2.4 Consensus size: 27
58863959 ACCTTTCCCC
58863969 CTTTTTCTTTCCACTTTCTTTTCTTGCT
1 CTTTTTCTTTCCAC-TTCTTTTCTTGCT
58863997 CTTTTTCTTT-CA-TT-TTTTCTTGCT
1 CTTTTTCTTTCCACTTCTTTTCTTGCT
58864021 CTTTTTCTTT
1 CTTTTTCTTT
58864031 TGACTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
24 20 0.59
25 2 0.06
27 2 0.06
28 10 0.29
ACGTcount: A:0.03, C:0.24, G:0.03, T:0.69
Consensus pattern (27 bp):
CTTTTTCTTTCCACTTCTTTTCTTGCT
Found at i:58871045 original size:46 final size:46
Alignment explanation
Indices: 58870989--58871423 Score: 545
Period size: 46 Copynumber: 9.3 Consensus size: 46
58870979 TAATGCTACT
58870989 ACTTTCACATTCATCACATCGCCTATTAGGCC-TATCACATATATAC
1 ACTTTCACATTCATCACATCGCC-ATTAGGCCTTATCACATATATAC
58871035 ACTTTCACATTCATCACATCGCTCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGC-CATTAGGCCTTATCACATATATAC
*
58871082 ACTTTCAACATTCCATCACACTCGGCCA-TAGGCCTTATCAATATATATAC
1 ACTTTC-ACATT-CATCACA-TC-GCCATTAGGCCTTATC-ACATATATAC
*
58871132 ACTTTCACACATTCATCACATGGCCATTCAGGCCTTATCAACATATATAC
1 ACTTT--CACATTCATCACATCGCCATT-AGGCCTTATC-ACATATATAC
58871182 ACTTTCA-ATTCATCACATCGCCATT--GCCTTATCACATATTATA-
1 ACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATA-TATAC
58871225 ACTTTCA-ATTC-TC-CAATCGGCCATTAGGCCTTATCACATATATATC
1 ACTTTCACATTCATCAC-ATC-GCCATTAGGCCTTATCACATATATA-C
* *
58871271 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACA-TCGCCATTAGGCCTTATCACATATATAC
*
58871318 ACTTTCACATTCATCACATCGCCATTAGG-CTTATCACATATAAATC
1 ACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATA-C
* *
58871364 ACTTTCACATTCA-CACATTGGCCATT-CGCCTTATCACATATA-AC
1 ACTTTCACATTCATCACA-TCGCCATTAGGCCTTATCACATATATAC
*
58871408 ACTTTCACATTTATCA
1 ACTTTCACATTCATCA
58871424 ATATATTCAC
Statistics
Matches: 351, Mismatches: 12, Indels: 53
0.84 0.03 0.13
Matches are distributed among these distances:
41 1 0.00
42 5 0.01
43 22 0.06
44 29 0.08
45 35 0.10
46 80 0.23
47 61 0.17
48 38 0.11
49 22 0.06
50 50 0.14
51 7 0.02
52 1 0.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (46 bp):
ACTTTCACATTCATCACATCGCCATTAGGCCTTATCACATATATAC
Found at i:58871308 original size:137 final size:138
Alignment explanation
Indices: 58870989--58871423 Score: 559
Period size: 137 Copynumber: 3.1 Consensus size: 138
58870979 TAATGCTACT
* *
58870989 ACTTTCACATTCATCACATCGCCTATTAGGCC-TATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATGGCC-ATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
*
58871053 TCGCTCATTAGGCCTTATCACATA-TATACACTTTCAACATTCCATCACACTCGGCCA-TAGGCC
65 TCGC-CATTA-GCCTTATCACATATTATA-ACTTTC-ACATT-C-TC-CAATCGGCCATTAGGCC
58871116 TTATCA-ATATATATAC
123 TTATCACATATATAT-C
58871132 ACTTTCACACATTCATCACATGGCCATTCAGGCCTTATCAACATATATACACTTTCA-ATTCATC
1 ACTTT--CACATTCATCACATGGCCATTC-GGCCTTATC-ACATATATACACTTTCACATTCATC
58871196 ACATCGCCATT-GCCTTATCACATATTATAACTTTCA-ATTCTCCAATCGGCCATTAGGCCTTAT
62 ACATCGCCATTAGCCTTATCACATATTATAACTTTCACATTCTCCAATCGGCCATTAGGCCTTAT
58871259 CACATATATATC
127 CACATATATATC
58871271 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACA-TGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* * * * * *
58871336 TCGCCATTAGGCTTATCACATATAAATCACTTTCACATTC-ACACATTGGCCATT-CGCCTTATC
65 TCGCCATTAGCCTTATCACATAT-TATAACTTTCACATTCTCCA-ATCGGCCATTAGGCCTTATC
58871399 ACATATA-A-C
128 ACATATATATC
*
58871408 ACTTTCACATTTATCA
1 ACTTTCACATTCATCA
58871424 ATATATTCAC
Statistics
Matches: 268, Mismatches: 10, Indels: 34
0.86 0.03 0.11
Matches are distributed among these distances:
136 17 0.06
137 56 0.21
138 32 0.12
139 46 0.17
140 22 0.08
141 3 0.01
142 1 0.00
143 24 0.09
144 7 0.03
145 25 0.09
146 18 0.07
147 17 0.06
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (138 bp):
ACTTTCACATTCATCACATGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGCCATTAGCCTTATCACATATTATAACTTTCACATTCTCCAATCGGCCATTAGGCCTTATCACA
TATATATC
Found at i:58871322 original size:93 final size:93
Alignment explanation
Indices: 58870989--58871423 Score: 549
Period size: 93 Copynumber: 4.7 Consensus size: 93
58870979 TAATGCTACT
*
58870989 ACTTTCACATTCATCACA-TCGCCTATTAGGCC-TATCACATATATACACTTTCACATTCATCAC
1 ACTTTCACATTCATCACATTGGCC-ATTAGGCCTTATCACATATATACACTTTCACATTCATCAC
58871052 ATCGCTCATTAGGCCTTATCACATATATAC
65 ATCGC-CATTAGGCCTTATCACATATATAC
* *
58871082 ACTTTCAACATTCCATCACACTCGGCCA-TAGGCCTTATCAATATATATACACTTTCACACATTC
1 ACTTTC-ACATT-CATCACA-TTGGCCATTAGGCCTTATC-ACATATATACACTTT--CACATTC
*
58871146 ATCACATGGCCATTCAGGCCTTATCAACATATATAC
60 ATCACATCGCCATT-AGGCCTTATC-ACATATATAC
*
58871182 ACTTTCA-ATTCATCACA-TCGCCATT--GCCTTATCACATATTATA-ACTTTCA-ATTC-TC-C
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATA-TATACACTTTCACATTCATCAC
58871239 AATCGGCCATTAGGCCTTATCACATATATATC
65 -ATC-GCCATTAGGCCTTATCACATATATA-C
*
58871271 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
58871336 TCGCCATTAGG-CTTATCACATATAAATC
66 TCGCCATTAGGCCTTATCACATATATA-C
* *
58871364 ACTTTCACATTCA-CACATTGGCCATT-CGCCTTATCACATATA-ACACTTTCACATTTATCA
1 ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
58871424 ATATATTCAC
Statistics
Matches: 307, Mismatches: 12, Indels: 49
0.83 0.03 0.13
Matches are distributed among these distances:
88 10 0.03
89 22 0.07
90 37 0.12
91 24 0.08
92 17 0.06
93 64 0.21
94 30 0.10
95 22 0.07
96 7 0.02
97 24 0.08
98 7 0.02
99 27 0.09
100 16 0.05
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (93 bp):
ACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGCCATTAGGCCTTATCACATATATAC
Found at i:58877561 original size:27 final size:27
Alignment explanation
Indices: 58877495--58877609 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
58877485 GGAGGAAGCG
* *
58877495 TTCTGGTGGCTATGC-CACAAATATCTGT
1 TTCTGGTGGCTCTGCTCAC-AATATCT-A
*
58877523 TTCTGGTGGCTCCGCT-ACAAATATCTA
1 TTCTGGTGGCTCTGCTCAC-AATATCTA
* *
58877550 TTCTGGTGGCTCTGC-CATAATATCTG
1 TTCTGGTGGCTCTGCTCACAATATCTA
*
58877576 TATCTGGTGACTCTG-TCACAATATCTA
1 T-TCTGGTGGCTCTGCTCACAATATCTA
58877603 TTCTGGT
1 TTCTGGT
58877610 AGCCACGCTG
Statistics
Matches: 74, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
26 14 0.19
27 37 0.50
28 23 0.31
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (27 bp):
TTCTGGTGGCTCTGCTCACAATATCTA
Found at i:58877584 original size:54 final size:54
Alignment explanation
Indices: 58877495--58877609 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
58877485 GGAGGAAGCG
* *
58877495 TTCTGGTGGCTATGCCACAAATATCTGTTTCTGGTGGCTCCG-CTACAAATATCTA
1 TTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCCGTC-AC-AATATCTA
* * *
58877550 TTCTGGTGGCTCTGCCA-TAATATCTGTATCTGGTGACTCTGTCACAATATCTA
1 TTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCCGTCACAATATCTA
58877603 TTCTGGT
1 TTCTGGT
58877610 AGCCACGCTG
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
53 15 0.28
54 22 0.41
55 17 0.31
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (54 bp):
TTCTGGTGGCTATGCCACAAATATCTGTATCTGGTGACTCCGTCACAATATCTA
Found at i:58879267 original size:32 final size:31
Alignment explanation
Indices: 58879151--58879293 Score: 144
Period size: 31 Copynumber: 4.5 Consensus size: 31
58879141 TATCAAAACT
* * * * *
58879151 AGAATCAAAATTAGAATCAGAATTAGGTGAC
1 AGAATAAAAATCAGAATCAGTATCAGGTAAC
* * * *
58879182 AGAATCAGAATCAGAATAAATATCAGGTAAC
1 AGAATAAAAATCAGAATCAGTATCAGGTAAC
* *
58879213 AGAATCAAAATCAGAATCAGTATCAGGTAAT
1 AGAATAAAAATCAGAATCAGTATCAGGTAAC
*
58879244 AGAATAAAAAATCTGAAAT-AGTATCAGGTAAC
1 AGAAT-AAAAATCAG-AATCAGTATCAGGTAAC
58879276 AGAATCAAAAATCAGAAT
1 AGAAT-AAAAATCAGAAT
58879294 GTGAATGCAA
Statistics
Matches: 94, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
31 59 0.63
32 32 0.34
33 3 0.03
ACGTcount: A:0.52, C:0.11, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATAAAAATCAGAATCAGTATCAGGTAAC
Found at i:58879407 original size:13 final size:13
Alignment explanation
Indices: 58879389--58879418 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
58879379 CATAGCCTTA
58879389 GGCAAATACGTTT
1 GGCAAATACGTTT
58879402 GGCAAATACGTTT
1 GGCAAATACGTTT
58879415 GGCA
1 GGCA
58879419 CACAACCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.27
Consensus pattern (13 bp):
GGCAAATACGTTT
Found at i:58879441 original size:22 final size:21
Alignment explanation
Indices: 58879413--58879477 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
58879403 GCAAATACGT
58879413 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
58879435 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
58879457 TTGACACAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
58879478 AATGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.35, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:58879758 original size:16 final size:16
Alignment explanation
Indices: 58879733--58879763 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
58879723 ATCCCAACCC
58879733 ATGCAACATGTCATGT
1 ATGCAACATGTCATGT
*
58879749 ATGCAGCATGTCATG
1 ATGCAACATGTCATG
58879764 CCCATATTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (16 bp):
ATGCAACATGTCATGT
Found at i:58880422 original size:27 final size:27
Alignment explanation
Indices: 58879904--58880414 Score: 691
Period size: 27 Copynumber: 19.0 Consensus size: 27
58879894 GGGCCAAAAT
* * * *
58879904 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58879930 AGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58879957 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58879984 AGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58880011 GATAATTTTTCCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58880038 GGTGATTCCACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
58880065 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
58880092 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58880119 GGTAATTCTACCCTACAAGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58880146 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
58880173 GATAATTTTACCGTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58880200 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58880227 GATAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58880254 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58880281 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58880308 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58880335 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
58880362 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
58880389 GGTAATTCTACCCTATAGGGATATTT
1 GGTAATTCTACCCTACAGGGGTATTT
58880415 TGATAATTTT
Statistics
Matches: 432, Mismatches: 52, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
26 13 0.03
27 419 0.97
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:58880438 original size:54 final size:53
Alignment explanation
Indices: 58880380--58880496 Score: 119
Period size: 54 Copynumber: 2.2 Consensus size: 53
58880370 TACCCTATAG
* * *
58880380 GGGTATTTCGGTAATTCTACC-CTATAGGGATATTTTGATAATTTTATAAATCGA
1 GGGTATTTCGGTAATTCTACCAATA-AGGG-TACTTTGATAATTTTACAAATCGA
*** * * *
58880434 GGGTAAAACGGTAATTCTATCAATCAAGGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTATTTCGGTAATTCTACCAAT-AAGGGTACTTTGATAATTTTACAAATCGA
58880488 GGGTATTTC
1 GGGTATTTC
58880497 ATTAATTTTA
Statistics
Matches: 49, Mismatches: 12, Indels: 4
0.75 0.18 0.06
Matches are distributed among these distances:
54 43 0.88
55 5 0.10
56 1 0.02
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (53 bp):
GGGTATTTCGGTAATTCTACCAATAAGGGTACTTTGATAATTTTACAAATCGA
Found at i:58880618 original size:27 final size:27
Alignment explanation
Indices: 58880515--58880801 Score: 313
Period size: 27 Copynumber: 10.6 Consensus size: 27
58880505 TACAGGTCGA
* * * * *
58880515 GGGTATTTTAGTAATTTCATAAATCAT
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58880542 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
58880569 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
** **
58880596 GGGTATTTTCATAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
58880623 GGGTATTTTGGTAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58880650 AGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
* ** *
58880677 GAGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58880704 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* * *
58880731 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAG
* *
58880758 GGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTACAAACCAG
*
58880785 GGGCATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
58880802 GGTAAACTAA
Statistics
Matches: 221, Mismatches: 39, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 221 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAG
Found at i:58880808 original size:27 final size:27
Alignment explanation
Indices: 58880405--58880801 Score: 292
Period size: 27 Copynumber: 14.7 Consensus size: 27
58880395 TCTACCCTAT
* * *
58880405 AGGGATATTTTGATAATTTTATAAATCG
1 AGGG-TATTTTGGTAATTTTATAAACCA
**** * * *
58880433 AGGGTAAAACGGTAATTCTATCAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * ** *
58880460 AGGGTACTTTGGTAATTTTACAAGTCG
1 AGGGTATTTTGGTAATTTTATAAACCA
*** * *** *
58880487 AGGGTATTTCATTAATTTTACAGGTCG
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
58880514 AGGGTATTTTAGTAATTTCATAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * * *
58880541 TGGGTATTTTGGTAATTTCACAAATCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
58880568 GGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* ** * **
58880595 GGGGTATTTTCATAATTTTACAAATTA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
58880622 GGGGTATTTTGGTAATTTTATAAACAA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
58880649 AAGGTATTTTAGTAATTTTACAAACC-
1 AGGGTATTTTGGTAATTTTATAAACCA
*
58880675 AGGAGTATTTTGGTAATTTTGTAAACCA
1 AGG-GTATTTTGGTAATTTTATAAACCA
* *
58880703 AGGGTATTTTGGTAATTTTACAAACTA
1 AGGGTATTTTGGTAATTTTATAAACCA
*
58880730 AGGGTATTTTGGTGATTTTATAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* * *
58880757 AGGGTATTTTAGTGATTTTACAAACCA
1 AGGGTATTTTGGTAATTTTATAAACCA
* *
58880784 GGGGCATTTTGGTAATTT
1 AGGGTATTTTGGTAATTT
58880802 GGTAAACTAA
Statistics
Matches: 302, Mismatches: 65, Indels: 5
0.81 0.17 0.01
Matches are distributed among these distances:
26 2 0.01
27 293 0.97
28 7 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
AGGGTATTTTGGTAATTTTATAAACCA
Found at i:58880808 original size:54 final size:54
Alignment explanation
Indices: 58880461--58880801 Score: 362
Period size: 54 Copynumber: 6.3 Consensus size: 54
58880451 TATCAATCAA
* * ** * * * ***
58880461 GGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCATTAATTTTACAGGTC-G
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * * * *
58880514 AGGGTATTTTAGTAATTTCATAAATCATGGGTATTTTGGTAATTTCACAAATCAG
1 -GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * **
58880569 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTCA-TAATTTTACAAATTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTT-AGTAATTTTACAAACCAG
* *
58880623 GGGTATTTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * * * *
58880677 GAGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
58880731 GGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGTGATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
*
58880785 GGGCATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
58880802 GGTAAACTAA
Statistics
Matches: 240, Mismatches: 44, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.00
54 238 0.99
55 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:58880811 original size:81 final size:81
Alignment explanation
Indices: 58880461--58880801 Score: 330
Period size: 81 Copynumber: 4.2 Consensus size: 81
58880451 TATCAATCAA
* * * *** *** *
58880461 GGGTACTTTGGTAATTTTAC-AAGTCGAGGGTATTTCATTAATTTTACAGGTCGAGGGTATTTTA
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTA
* * * *
58880525 GTAATTTCATAAATCAT
65 GTAATTTTACAAACCAG
* * * *
58880542 GGGTATTTTGGTAATTTCACAAA-TCAGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTC
1 GGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTT-
**
58880606 A-TAATTTTACAAATTAG
64 AGTAATTTTACAAACCAG
* * * * *
58880623 GGGTATTTTGGTAATTTTATAAACAAAAGGTATTTTAGTAATTTTACAAACC-AGGAGTATTTTG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAAGG-GTATTTTA
** *
58880687 GTAATTTTGTAAACCAA
65 GTAATTTTACAAACCAG
* *
58880704 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
*
58880769 TGATTTTACAAACCAG
66 TAATTTTACAAACCAG
*
58880785 GGGCATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
58880802 GGTAAACTAA
Statistics
Matches: 211, Mismatches: 43, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
80 2 0.01
81 203 0.96
82 6 0.03
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAG
TAATTTTACAAACCAG
Found at i:58882807 original size:31 final size:31
Alignment explanation
Indices: 58882764--58882906 Score: 148
Period size: 31 Copynumber: 4.5 Consensus size: 31
58882754 TATCAGAACT
* *
58882764 AGAATCAAAATCAAAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATTAGGTAAC
*
58882795 AGAATCAGAATCAGAAT-A-AATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAAT-T-AGGTAAC
* *
58882826 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATTAGGTAAC
* * *
58882857 AGAATAAAAAATCAGAAAT-AGTATCAGGTAAC
1 AGAAT-CAAAATCAG-AATCAGAATTAGGTAAC
58882889 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
58882907 GTGAATGCAG
Statistics
Matches: 97, Mismatches: 8, Indels: 14
0.82 0.07 0.12
Matches are distributed among these distances:
29 3 0.03
30 2 0.02
31 52 0.54
32 35 0.36
33 5 0.05
ACGTcount: A:0.53, C:0.13, G:0.15, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATTAGGTAAC
Done.