Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 319 of 333
Found at i:104121336 original size:23 final size:22
Alignment explanation
Indices: 104121293--104121348 Score: 55
Period size: 23 Copynumber: 2.5 Consensus size: 22
104121283 TGAAATAATT
104121293 ATTG-ATTGAAAGGTGGAAAAA
1 ATTGAATTGAAAGGTGGAAAAA
104121314 TGATTGAATTGAAA-GTGTG-AAAA
1 --ATTGAATTGAAAGGTG-GAAAAA
104121337 ATTGTAATTGAA
1 ATTG-AATTGAA
104121349 TTGAGAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
21 4 0.13
22 7 0.23
23 11 0.37
24 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.25, T:0.30
Consensus pattern (22 bp):
ATTGAATTGAAAGGTGGAAAAA
Found at i:104129259 original size:28 final size:28
Alignment explanation
Indices: 104129222--104129300 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
104129212 GCAATCAAAT
* *
104129222 ATGGTACTTAGTGTACGAAATATTAAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
* *
104129250 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTGCGAAATATTAAGA
* *
104129278 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTGCGAAATAT
104129301 CGAATGATTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTGCGAAATATTAAGA
Found at i:104138396 original size:6 final size:6
Alignment explanation
Indices: 104138385--104138427 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
104138375 TTTTCTTGGT
* *
104138385 TAGGAA TGGGAA TAGGAA TAGGAA TAGGAA TAGGAA TTGGAA T
1 TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA TAGGAA T
104138428 CCCACTGCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (6 bp):
TAGGAA
Found at i:104152275 original size:73 final size:73
Alignment explanation
Indices: 104152188--104152373 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
104152178 ACAACTTGAC
104152188 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
104152253 CACTAACA
66 CACTAACA
104152261 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
104152326 CACTAACA
66 CACTAACA
*
104152334 AACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCA
104152374 AATAATAATA
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.41, C:0.25, G:0.06, T:0.28
Consensus pattern (73 bp):
AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCTACTAC
CACTAACA
Found at i:104152382 original size:3 final size:3
Alignment explanation
Indices: 104152374--104152402 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
104152364 ATTACATCCA
104152374 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
104152403 AACATGTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:104156742 original size:3 final size:3
Alignment explanation
Indices: 104156734--104156759 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
104156724 ATTACATCCA
104156734 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
104156760 AACATGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:104158026 original size:60 final size:57
Alignment explanation
Indices: 104157879--104158043 Score: 233
Period size: 57 Copynumber: 2.8 Consensus size: 57
104157869 ATAATATTTG
*
104157879 GTACCTAAACTTGACACTTTTTCCTAATTTGGTACCT-AATTTTTTTTACCCAAATTA
1 GTACCTGAACTTGACA-TTTTTCCTAATTTGGTACCTAAATTTTTTTTACCCAAATTA
* * *
104157936 GTACCTGAACTTGATATTTTTCCTAATTTGGTACTTAAATTTTTTTTGGACCCAAGTTA
1 GTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAATTTTTTTT--ACCCAAATTA
*
104157995 GTACCTGAACTTGGCATGTTTTCCTAATTTGGTACCTAAACTTTTTTTT
1 GTACCTGAACTTGACAT-TTTTCCTAATTTGGTACCTAAA-TTTTTTTT
104158044 TAGATTCAAT
Statistics
Matches: 96, Mismatches: 7, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
56 19 0.20
57 24 0.25
59 24 0.25
60 21 0.22
61 8 0.08
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (57 bp):
GTACCTGAACTTGACATTTTTCCTAATTTGGTACCTAAATTTTTTTTACCCAAATTA
Found at i:104158477 original size:17 final size:17
Alignment explanation
Indices: 104158455--104158492 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
104158445 TTATTCAGAT
**
104158455 ATTATAAAATTATAAAA
1 ATTATAAAAAAATAAAA
104158472 ATTATAAAAAAATAAAA
1 ATTATAAAAAAATAAAA
104158489 ATTA
1 ATTA
104158493 CTTTTGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTATAAAAAAATAAAA
Found at i:104158484 original size:11 final size:9
Alignment explanation
Indices: 104158455--104158492 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
104158445 TTATTCAGAT
104158455 ATTAT-AAA
1 ATTATAAAA
104158463 ATTATAAAA
1 ATTATAAAA
104158472 ATTATAAAA
1 ATTATAAAA
*
104158481 A-AATAAAA
1 ATTATAAAA
104158489 ATTA
1 ATTA
104158493 CTTTTGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 12 0.46
9 14 0.54
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
ATTATAAAA
Found at i:104158649 original size:9 final size:9
Alignment explanation
Indices: 104158635--104158660 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
104158625 TTTTGAATGA
104158635 ATATATATT
1 ATATATATT
104158644 ATATATATT
1 ATATATATT
104158653 ATATATAT
1 ATATATAT
104158661 ATTTGGGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:104160142 original size:11 final size:11
Alignment explanation
Indices: 104160126--104160164 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
104160116 CAATCTGTTA
104160126 AAAAAACAAGT
1 AAAAAACAAGT
104160137 AAAAAA-AGAGT
1 AAAAAACA-AGT
*
104160148 ATAAAACAAGT
1 AAAAAACAAGT
104160159 AAAAAA
1 AAAAAA
104160165 TTAGTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.74, C:0.05, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAAACAAGT
Found at i:104160155 original size:22 final size:22
Alignment explanation
Indices: 104160128--104160174 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
104160118 ATCTGTTAAA
104160128 AAAACAAGTAAAAAAAGAGTAT
1 AAAACAAGTAAAAAAAGAGTAT
**
104160150 AAAACAAGTAAAAAATTAGTAT
1 AAAACAAGTAAAAAAAGAGTAT
104160172 AAA
1 AAA
104160175 GTTGAAACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.68, C:0.04, G:0.11, T:0.17
Consensus pattern (22 bp):
AAAACAAGTAAAAAAAGAGTAT
Found at i:104160432 original size:6 final size:6
Alignment explanation
Indices: 104160422--104160452 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
104160412 GAAGGGAAGA
*
104160422 AAAAAA AAAAAG AAAAAG AAAAAG AAAAAG A
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A
104160453 GAAGGAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:104160442 original size:19 final size:20
Alignment explanation
Indices: 104160418--104160455 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
104160408 GAAGGAAGGG
104160418 AAGAAAAA-AAAAAAAGAAA
1 AAGAAAAAGAAAAAAAGAAA
*
104160437 AAGAAAAAGAAAAAGAGAA
1 AAGAAAAAGAAAAAAAGAA
104160456 GGAGAAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAAGAAA
Found at i:104160543 original size:10 final size:11
Alignment explanation
Indices: 104160528--104160556 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
104160518 TATTGTTGAT
104160528 TTTAATTTA-A
1 TTTAATTTAGA
104160538 TTTAATTTAGA
1 TTTAATTTAGA
104160549 TTTAATTT
1 TTTAATTT
104160557 TTAATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTAATTTAGA
Found at i:104160907 original size:16 final size:16
Alignment explanation
Indices: 104160865--104160916 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
104160855 TAAAAAAGAA
104160865 AATATGAAAAAAATATC
1 AATATGAAAAAAATA-C
* *
104160882 -TTAATG-AAAAAATAG
1 AAT-ATGAAAAAAATAC
104160897 AATATGAAAAAAATAC
1 AATATGAAAAAAATAC
104160913 AATA
1 AATA
104160917 AAATAAGAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 7
0.72 0.10 0.18
Matches are distributed among these distances:
15 3 0.11
16 22 0.79
17 3 0.11
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (16 bp):
AATATGAAAAAAATAC
Found at i:104160929 original size:19 final size:19
Alignment explanation
Indices: 104160905--104160941 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
104160895 AGAATATGAA
104160905 AAAAATACAATAAAATAAG
1 AAAAATACAATAAAATAAG
**
104160924 AAAAATAGTATAAAATAA
1 AAAAATACAATAAAATAA
104160942 TATAAGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.19
Consensus pattern (19 bp):
AAAAATACAATAAAATAAG
Found at i:104161269 original size:23 final size:23
Alignment explanation
Indices: 104161220--104161274 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
104161210 ATAAAATACG
*
104161220 AAAATAGT-ATATTTTAAAAAAT
1 AAAATAATAATATTTTAAAAAAT
* *
104161242 AAAATCATAATATTTT-AGAAAT
1 AAAATAATAATATTTTAAAAAAT
104161264 ACAAATAATAA
1 A-AAATAATAA
104161275 AGGGACAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAATAATAATATTTTAAAAAAT
Found at i:104161534 original size:135 final size:134
Alignment explanation
Indices: 104160934--104161938 Score: 1609
Period size: 135 Copynumber: 7.5 Consensus size: 134
104160924 AAAAATAGTA
* * * *
104160934 TAAAATAATAT-AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * * * *
104160998 -AAA-ATATA-AACAAAGGGACAAAATTAGGGTTATTTAAAAAAACACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
104161060 GTAC
131 GTAC
* * **
104161064 TAAAATACGAT-AAAAATGAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
* * *
104161128 GAAATAAAAATAATAAATGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
104161192 GTAC
131 GTAC
**
104161196 TAAAATAAGAT--AAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
*
104161259 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATA-AAAAAAACACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
104161323 GTAC
131 GTAC
* *
104161327 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAATCTTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
104161392 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAA-ACTAAAGTTATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
104161456 GTAC
131 GTAC
104161460 TAAAATAAGATAAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
1 TAAAATAAGAT--AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
104161525 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATAT-AAAAAACACTAAAGTTATACATTT
64 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
104161589 ATGTAC
129 ATGTAC
*
104161595 TAAAATATTAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAATATTT
1 TAAAATA--AGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTT
* * * *
104161660 TAAAAATACAAATAATAAAAGGACAAAATTAAGGTTATATAAAAAAATACTAAAGTTATACATTT
64 TAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTT
104161725 ATGTAC
129 ATGTAC
*
104161731 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
104161796 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
104161861 GTAC
131 GTAC
* * **
104161865 TAAAATAAGATAAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAATTCATAATATTTT
1 TAAAATAAGAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTT
104161930 AGAAATACA
65 AGAAATACA
104161939 CCTATTCAAT
Statistics
Matches: 822, Mismatches: 39, Indels: 23
0.93 0.04 0.03
Matches are distributed among these distances:
130 58 0.07
131 128 0.16
132 43 0.05
133 143 0.17
134 145 0.18
135 265 0.32
136 36 0.04
137 4 0.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (134 bp):
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAATATTTTA
GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
GTAC
Found at i:104161826 original size:404 final size:399
Alignment explanation
Indices: 104160934--104161938 Score: 1621
Period size: 404 Copynumber: 2.5 Consensus size: 399
104160924 AAAAATAGTA
* * * * *
104160934 TAAAATAATAT-AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
* * * * *
104160998 -AAA-ATATA-AACAAAGGGACAAAATTAGGGTTATTTAAAAAAACACTAAAGTAATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
* * *
104161060 GTACTAAAATACGAT--AAAAATGAAATACGAAAATAGTATATTTTAAAAAATAAAATCTAAATA
131 GTACTAAAATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAAAATA
* *
104161123 TTTTAGAAATAAAAATAATAAATGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACAT
196 TTTTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACAT
* *
104161188 TTATGTACTAAAATAAGATAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCATAAT
261 TTATGTACTAAAATAAGATAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCAGAAT
* * *
104161253 ATTTTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATAAAAAAAACACTAAAGTAATACA
326 ATTTTAAAAATACAAATAATAAAAGGACAAAATTAAGGTTATAAAAAAAACACTAAAGTAATACA
104161318 TTTATGTAC
391 TTTATGTAC
*
104161327 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAA-TCTGAATCTTTT
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTC-GAATATTTT
104161391 AGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAA-ACTAAAGTTATACATTTA
65 AGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTA
**
104161455 TGTACTAAAATAAGATAAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAA
130 TGTACTAAAATAAGAT-AAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAAAA
*
104161520 TATTTTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTTATAC
194 TATTTTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATAC
104161585 ATTTATGTACTAAAATATTAGATAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAAT
259 ATTTATGTACTAAAATA--AGAT--AAAATAAAATACGAAAATAATATATTTTAAAAAATAAAAT
* *
104161650 CCGAATATTTTAAAAATACAAATAATAAAAGGACAAAATTAAGGTTATATAAAAAAATACTAAAG
320 CAGAATATTTTAAAAATACAAATAATAAAAGGACAAAATTAAGGTTATA-AAAAAAACACTAAAG
*
104161715 TTATACATTTATGTAC
384 TAATACATTTATGTAC
104161731 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
1 TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
104161796 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
66 GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
* * *
104161861 GTACTAAAATAAGATAAAAAAATAAAATACTAAAATAGTATATTTTAAAAAATAAATTCATAATA
131 GTACTAAAATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAAAATA
104161926 TTTTAGAAATACA
196 TTTTAGAAATACA
104161939 CCTATTCAAT
Statistics
Matches: 566, Mismatches: 31, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
393 11 0.02
394 46 0.08
395 3 0.01
396 35 0.06
397 32 0.06
399 122 0.22
401 4 0.01
403 83 0.15
404 194 0.34
405 36 0.06
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (399 bp):
TAAAATAAGATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATTCGAATATTTTA
GAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAAACACTAAAGTTATACATTTAT
GTACTAAAATAAGATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCAAAATA
TTTTAGAAATACAAATAATAAAGGGACAAAATTAGGGTTATATAAAAAACACTAAAGTAATACAT
TTATGTACTAAAATAAGATAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCAGAAT
ATTTTAAAAATACAAATAATAAAAGGACAAAATTAAGGTTATAAAAAAAACACTAAAGTAATACA
TTTATGTAC
Found at i:104162538 original size:200 final size:200
Alignment explanation
Indices: 104162187--104162648 Score: 870
Period size: 200 Copynumber: 2.3 Consensus size: 200
104162177 CTAATAAAAC
*
104162187 ATAATAGTTATTTTTCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
* *
104162252 TAATGCATACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
66 TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
* *
104162317 TACACATGTTTCACGTTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
131 TACACATATTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
104162382 TTACA
196 TTACA
104162387 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
104162452 TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
66 TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
104162517 TACACATATTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
131 TACACATATTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
104162582 TTACA
196 TTACA
*
104162587 ATAATAGTTATTTTCCAAATAGCATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTT
1 ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTT
104162649 ATGTACTAAT
Statistics
Matches: 256, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
200 256 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.43
Consensus pattern (200 bp):
ATAATAGTTATTTTCCAAATAACATATTGTTTTATTTCTTATTTAATATTTCAATTTAATTTTAA
TAATGAACACTTTACCCGGGTAAAGTATGTATTAGCAGATTCACTAATATGATTATATATATATT
TACACATATTTCACATTACAAAAACAAAAATTTAAATACTTATACCTAATAAAACATGTATGTCA
TTACA
Found at i:104164503 original size:72 final size:72
Alignment explanation
Indices: 104164374--104164518 Score: 193
Period size: 72 Copynumber: 2.0 Consensus size: 72
104164364 AATCTGAGCA
* * * *
104164374 ATCGTATTCACATTCGGCTAATACTTCTTATCATCCAGATTTCCAGAGTAATGACTATTTACCGG
1 ATCGCATTCACATTCGGCCAATACTTCTTATCATCCAGATTTCCAGAGCAATAACTATTTACCGG
104164439 GCTCGTC
66 GCTCGTC
* *** *
104164446 ATCGCATTCACATTCGGCCGATACTTCTTATCATCCAGATTTATTG-GACAATAACTATTTCCCG
1 ATCGCATTCACATTCGGCCAATACTTCTTATCATCCAGATTTCCAGAG-CAATAACTATTTACCG
104164510 GGCTCGTC
65 GGCTCGTC
104164518 A
1 A
104164519 GGGGGCGGAT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 62 0.98
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (72 bp):
ATCGCATTCACATTCGGCCAATACTTCTTATCATCCAGATTTCCAGAGCAATAACTATTTACCGG
GCTCGTC
Found at i:104168177 original size:126 final size:123
Alignment explanation
Indices: 104168035--104168279 Score: 445
Period size: 126 Copynumber: 2.0 Consensus size: 123
104168025 TTCTTATTAT
*
104168035 AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTTTTCTTCTCCTTCTTTCTCCCTC
1 AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
104168100 TCTTCTCTTCTGTAATCTTTTTTTTTACTGAAATTTTTTTCCTTCTTTCTTTTTTTCAGAA
66 TCTTCTCTTCTGTAATC-TTTTTTTTACTG-AATTTTTTT-CTTCTTTCTTTTTTTCAGAA
*
104168161 AATCTGTTGTATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
1 AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
104168226 TCTTCTCTTCTGTAATCTTTTTTTTACTGAATTTTTTTCTTCTTTCTTTTTTTC
66 TCTTCTCTTCTGTAATCTTTTTTTTACTGAATTTTTTTCTTCTTTCTTTTTTTC
104168280 TTCTGTTCTC
Statistics
Matches: 117, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
123 16 0.14
124 9 0.08
125 12 0.10
126 80 0.68
ACGTcount: A:0.22, C:0.20, G:0.03, T:0.54
Consensus pattern (123 bp):
AATCTGTTATATTTAAAAATAACAAAAAAATACCTTTAATTTCTTCTTCTCCTTCTTTCTCCCTC
TCTTCTCTTCTGTAATCTTTTTTTTACTGAATTTTTTTCTTCTTTCTTTTTTTCAGAA
Found at i:104168275 original size:15 final size:16
Alignment explanation
Indices: 104168257--104168288 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
104168247 TTTTACTGAA
104168257 TTTTTTTCTTCT-TTC
1 TTTTTTTCTTCTGTTC
104168272 TTTTTTTCTTCTGTTC
1 TTTTTTTCTTCTGTTC
104168288 T
1 T
104168289 CCCTCCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTTCTTCTGTTC
Found at i:104168506 original size:26 final size:28
Alignment explanation
Indices: 104168468--104168521 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 28
104168458 CCGATATTTT
104168468 TTTTTTCAAATTC-A-TTTTTTTAACAG
1 TTTTTTCAAATTCAATTTTTTTTAACAG
*
104168494 TTTTTTCAGATTCAATTTTTTTTAACAG
1 TTTTTTCAAATTCAATTTTTTTTAACAG
104168522 ATTGTGTCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 12 0.48
27 1 0.04
28 12 0.48
ACGTcount: A:0.26, C:0.11, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTTTCAAATTCAATTTTTTTTAACAG
Found at i:104169008 original size:19 final size:19
Alignment explanation
Indices: 104168968--104169008 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
104168958 TCAACAATTT
** *
104168968 TTTTTTAAAATTCATTATA
1 TTTTTTAAAATTCAAAACA
104168987 TTTTTTAAAATTCAAAACA
1 TTTTTTAAAATTCAAAACA
104169006 TTT
1 TTT
104169009 AGAAAAAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTTTTAAAATTCAAAACA
Found at i:104171210 original size:16 final size:16
Alignment explanation
Indices: 104171189--104171221 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
104171179 TTTTTATACA
104171189 AACATATATTTCATGT
1 AACATATATTTCATGT
104171205 AACATATATTTCATGT
1 AACATATATTTCATGT
104171221 A
1 A
104171222 CACACAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (16 bp):
AACATATATTTCATGT
Found at i:104178887 original size:19 final size:18
Alignment explanation
Indices: 104178854--104178909 Score: 58
Period size: 19 Copynumber: 3.0 Consensus size: 18
104178844 ATACAGAAAA
* *
104178854 TATAAAAAATTAAAAATT
1 TATAAAACATAAAAAATT
104178872 TATCAAAACATAAAAAACTT
1 TAT-AAAACATAAAAAA-TT
* *
104178892 TGTAAAATATAAAAAATT
1 TATAAAACATAAAAAATT
104178910 ATTAAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 5 0.16
19 23 0.72
20 4 0.12
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
TATAAAACATAAAAAATT
Found at i:104178915 original size:18 final size:18
Alignment explanation
Indices: 104178859--104178915 Score: 55
Period size: 19 Copynumber: 3.2 Consensus size: 18
104178849 GAAAATATAA
* *
104178859 AAAAT-TAAAAATTTATC
1 AAAATATAAAAAATTATT
*
104178876 AAAACATAAAAAACTT-TGT
1 AAAATATAAAAAA-TTAT-T
104178895 AAAATATAAAAAATTATT
1 AAAATATAAAAAATTATT
104178913 AAA
1 AAA
104178916 TTTTATTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
19 15 0.47
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (18 bp):
AAAATATAAAAAATTATT
Found at i:104178987 original size:23 final size:24
Alignment explanation
Indices: 104178951--104178996 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
104178941 TAAAAATGGA
104178951 AATTTATTAAAAAATATAAAAAAT
1 AATTTATTAAAAAATATAAAAAAT
*
104178975 AATTT-TTAAAAAATATAGAAAA
1 AATTTATTAAAAAATATAAAAAA
104178997 GTCTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
AATTTATTAAAAAATATAAAAAAT
Found at i:104180410 original size:7 final size:7
Alignment explanation
Indices: 104180397--104180435 Score: 60
Period size: 7 Copynumber: 5.6 Consensus size: 7
104180387 CTTTATAATA
104180397 ACATTAT
1 ACATTAT
*
104180404 TCATTAT
1 ACATTAT
104180411 ACATTAT
1 ACATTAT
*
104180418 GCATTAT
1 ACATTAT
104180425 ACATTAT
1 ACATTAT
104180432 ACAT
1 ACAT
104180436 ATGTGCTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.03, T:0.44
Consensus pattern (7 bp):
ACATTAT
Found at i:104185162 original size:121 final size:113
Alignment explanation
Indices: 104184952--104185173 Score: 336
Period size: 121 Copynumber: 1.9 Consensus size: 113
104184942 TTATATATGT
104184952 AGGTATGATGGTGTTATAATTTGATATTATGTCACATTATTATTTTTTAAAAATTATACATTTTT
1 AGGTATGATGGTGTTATAATTTGATATTATGTCACATTATTATTTTTTAAAAATTATACATTTTT
*
104185017 CAATTACATATATTTTTAAGAATTTTTAATTGATGACAGAATCGGTTA
66 CAATTACATATATTTTTAAGAATTTTTAAGTGATGACAGAATCGGTTA
* *
104185065 AGGTATGATGGTGTTATAGTTTGATATTATGTCACATCATTATCTTTTTTTTCTTAAAAAATTAT
1 AGGTATGATGGTGTTATAATTTGATATTATGT--CA-CATTA---TTATTTT-TT-AAAAATTAT
*
104185130 ACATTTTTCAATTATATATATTTTTAAGAATTTTTAAGTGATGA
58 ACATTTTTCAATTACATATATTTTTAAGAATTTTTAAGTGATGA
104185174 TATGACACAA
Statistics
Matches: 97, Mismatches: 4, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
113 31 0.32
115 2 0.02
116 5 0.05
119 6 0.06
120 2 0.02
121 51 0.53
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (113 bp):
AGGTATGATGGTGTTATAATTTGATATTATGTCACATTATTATTTTTTAAAAATTATACATTTTT
CAATTACATATATTTTTAAGAATTTTTAAGTGATGACAGAATCGGTTA
Found at i:104187288 original size:48 final size:48
Alignment explanation
Indices: 104187217--104187312 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
104187207 TATACAAGGC
104187217 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
1 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
104187265 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
1 TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
104187313 CATCAGATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.50
Consensus pattern (48 bp):
TTATTTGTTTTTGCTGCTATTTCACATTTGATCAATTTGATAAGCAAT
Found at i:104198291 original size:43 final size:42
Alignment explanation
Indices: 104198121--104198349 Score: 269
Period size: 42 Copynumber: 5.4 Consensus size: 42
104198111 CGTCAGAAGT
* *** *
104198121 ATCCTAATTGAGGAGGGATTAAATGAAATTGTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* * * * *
104198163 ATCTTATTTGATGTAGGATTAAATGAAAAACTAAAAACATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* * * *
104198205 ATCCTATTTGACGTGAGATTAAATGAAAAATTAAAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
* *
104198247 ATCCTAATTGAGGTGGGATTAAATAAAAAAACTACAAAGATAA
1 ATCCTAATTGAGGTGGGATTAAAT-GAAAAACTAAAAAGATAA
* *
104198290 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAAGATAAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGAT-AA
*
104198333 ATCTTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGG
104198350 TTGTGGGGCT
Statistics
Matches: 159, Mismatches: 26, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
42 104 0.65
43 55 0.35
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (42 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAACTAAAAAGATAA
Found at i:104198318 original size:85 final size:84
Alignment explanation
Indices: 104198121--104198349 Score: 280
Period size: 85 Copynumber: 2.7 Consensus size: 84
104198111 CGTCAGAAGT
* * * * * *
104198121 ATCCTAATTGAGGAGGGATTAAATG-AAATTGTAAAAACATAAATCTTATTTGATGTAGGATTAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAAT-TAAAAAGATAAATCTTAATTGAGGTGGGATTAA
*
104198185 ATGAAAAACTAAAAACATAA
65 ATAAAAAACTAAAAACATAA
* * * *
104198205 ATCCTATTTGACGTGAGATTAAATGAAAAATTAAAAAGATAAATCCTAATTGAGGTGGGATTAAA
1 ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGATAAATCTTAATTGAGGTGGGATTAAA
* *
104198270 TAAAAAAACTACAAAGATAA
66 T-AAAAAACTAAAAACATAA
* **
104198290 ATTCTAATTGAGGTGGGATTAAATGAAAAGCTAAAAAGATAAAATCTTAATTGAGGTGGG
1 ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGAT-AAATCTTAATTGAGGTGGG
104198350 TTGTGGGGCT
Statistics
Matches: 122, Mismatches: 20, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
84 51 0.42
85 53 0.43
86 18 0.15
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.28
Consensus pattern (84 bp):
ATCCTAATTGAGGTGGGATTAAATGAAAAATTAAAAAGATAAATCTTAATTGAGGTGGGATTAAA
TAAAAAACTAAAAACATAA
Found at i:104200452 original size:21 final size:22
Alignment explanation
Indices: 104200424--104200489 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
104200414 CCTAATCAGT
104200424 ATACGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
** *
104200446 A-ACGACACACGACGTGCCTGAA
1 ATACGACACATAAAGTGCCT-AA
*
104200468 ATGCGACACATAAAGTGCCTAA
1 ATACGACACATAAAGTGCCTAA
104200490 TCGGTAAAGC
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 15 0.43
22 6 0.17
23 14 0.40
ACGTcount: A:0.41, C:0.26, G:0.18, T:0.15
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTAA
Found at i:104201913 original size:21 final size:20
Alignment explanation
Indices: 104201889--104201928 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
104201879 ATCCTCTCTG
*
104201889 TTTCGTTTCATTCTGCTTCTA
1 TTTCCTTTCATT-TGCTTCTA
104201910 TTTCCTTTCATTTGCTTCT
1 TTTCCTTTCATTTGCTTCT
104201929 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.07, C:0.25, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTCCTTTCATTTGCTTCTA
Found at i:104201948 original size:5 final size:5
Alignment explanation
Indices: 104201935--104201966 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
104201925 TTCTTTAGTT
104201935 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
104201967 TAAATCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:104201960 original size:15 final size:16
Alignment explanation
Indices: 104201935--104202017 Score: 63
Period size: 16 Copynumber: 5.5 Consensus size: 16
104201925 TTCTTTAGTT
104201935 TATATATATAATATAA
1 TATATATATAATATAA
104201951 TATA-ATATAATATAA
1 TATATATATAATATAA
*
104201966 T-TA-A-ATCATA-AA
1 TATATATATAATATAA
* * *
104201978 GTATCTTTATTATATAA
1 -TATATATATAATATAA
104201995 TA-ATATAATAATATAA
1 TATATAT-ATAATATAA
104202011 TA-ATATA
1 TATATATA
104202018 CTAAACATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
12 2 0.04
13 6 0.11
14 4 0.07
15 15 0.28
16 25 0.46
17 2 0.04
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (16 bp):
TATATATATAATATAA
Found at i:104202002 original size:8 final size:8
Alignment explanation
Indices: 104201989--104202017 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
104201979 TATCTTTATT
104201989 ATATAATA
1 ATATAATA
104201997 ATATAATA
1 ATATAATA
104202005 ATATAATA
1 ATATAATA
104202013 ATATA
1 ATATA
104202018 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:104205091 original size:18 final size:18
Alignment explanation
Indices: 104205070--104205104 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104205060 AAATCAAATT
104205070 AATTATTTTATTTTTTTG
1 AATTATTTTATTTTTTTG
*
104205088 AATTGTTTTATTTTTTT
1 AATTATTTTATTTTTTT
104205105 ATTATTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (18 bp):
AATTATTTTATTTTTTTG
Found at i:104206138 original size:21 final size:21
Alignment explanation
Indices: 104206114--104206154 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
104206104 GTTGCTACCT
*
104206114 TTTCCACCACTTCCGCCACCG
1 TTTCCACCACTTCCACCACCG
*
104206135 TTTCCACCCCTTCCACCACC
1 TTTCCACCACTTCCACCACC
104206155 ATCTCTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.56, G:0.05, T:0.24
Consensus pattern (21 bp):
TTTCCACCACTTCCACCACCG
Found at i:104219843 original size:44 final size:45
Alignment explanation
Indices: 104219774--104220620 Score: 830
Period size: 44 Copynumber: 19.2 Consensus size: 45
104219764 TGAAGTCATT
* * * *
104219774 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
** * * *
104219818 GTAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGACG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * *
104219862 -ACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * *
104219906 AAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * *
104219950 -TAGCAGATCTTATCTTCCTATATTGGTAG-GAAGTAGATCGACG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * *
104219993 -ACGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGCAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * *
104220037 AAAACAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * *
104220081 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * * *
104220125 ATATCAGATCCTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* *
104220169 -ATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * *
104220213 AAAGTAGATATTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* *
104220257 ATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * *
104220301 AAAGTAGATATTATCTTCCTATATTGGTAG-GAAGTGGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* *
104220345 ATA-CAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * *
104220389 AAAGTAGATATTGTCTTCCCATATTGGTGGCGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * *
104220434 AAAGTAGATATTGTCTTCCCATATTGGTGGCGAAGTAGATTGCAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * * *
104220479 AAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
** ** * * * *
104220523 GTAGCAGATCCGGTCTTCCTATATTGGTAG-GAAGTGGATTGACG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
* * * *
104220567 -ATGCAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAG
1 AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
104220611 AAAGCAGATC
1 AAAGCAGATC
104220621 GACAATGGCG
Statistics
Matches: 657, Mismatches: 130, Indels: 31
0.80 0.16 0.04
Matches are distributed among these distances:
43 166 0.25
44 292 0.44
45 199 0.30
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.30
Consensus pattern (45 bp):
AAAGCAGATCTTGTCTTCCTATATTGGTGGCGAAGTAGATCGAAG
Found at i:104224895 original size:21 final size:21
Alignment explanation
Indices: 104224859--104224902 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
104224849 ATTAAATTAA
104224859 ATAAAAAATATAAATAG-TTT
1 ATAAAAAATATAAATAGCTTT
104224879 ATAAATAAATA-ATAATAGCTTT
1 ATAAA-AAATATA-AATAGCTTT
104224901 AT
1 AT
104224903 TTAAATCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 6 0.29
21 10 0.48
22 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (21 bp):
ATAAAAAATATAAATAGCTTT
Found at i:104225467 original size:28 final size:29
Alignment explanation
Indices: 104225408--104225481 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
104225398 ATCTTTTTAG
104225408 TTTTAAGGG-TCTAAATTTTTTTTTACCAAC
1 TTTTAAGGGATCTAAA-TTTTTTTTA-CAAC
104225438 TTTTAAGGGATCTACAA-TTTTTTT-CAAC
1 TTTTAAGGGATCTA-AATTTTTTTTACAAC
*
104225466 TTTTAAGGAATCTAAA
1 TTTTAAGGGATCTAAA
104225482 ACCCAATTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
27 2 0.05
28 17 0.41
30 16 0.39
31 4 0.10
32 2 0.05
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (29 bp):
TTTTAAGGGATCTAAATTTTTTTTACAAC
Found at i:104228872 original size:14 final size:14
Alignment explanation
Indices: 104228832--104228872 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
104228822 GGTTAATGAT
104228832 TTAATATAAATATAA
1 TTAATAT-AATATAA
104228847 TTGAATAT-ATATAA
1 TT-AATATAATATAA
104228861 TTAATATAATAT
1 TTAATATAATAT
104228873 TTTTTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 5 0.21
14 12 0.50
15 2 0.08
16 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (14 bp):
TTAATATAATATAA
Found at i:104229416 original size:15 final size:15
Alignment explanation
Indices: 104229396--104229425 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104229386 ATTTTATATT
*
104229396 AAAAACAATATAATA
1 AAAAACAATAAAATA
104229411 AAAAACAATAAAATA
1 AAAAACAATAAAATA
104229426 GATTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.77, C:0.07, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAACAATAAAATA
Found at i:104233096 original size:12 final size:12
Alignment explanation
Indices: 104233079--104233103 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
104233069 ACATGAATAT
104233079 ATTTATATAAAA
1 ATTTATATAAAA
104233091 ATTTATATAAAA
1 ATTTATATAAAA
104233103 A
1 A
104233104 CATTAAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
ATTTATATAAAA
Found at i:104234138 original size:32 final size:32
Alignment explanation
Indices: 104234101--104234166 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
104234091 ATTATAATCC
*
104234101 AATTAAGATAGGTGAAATAATAGCAGAATAGT
1 AATTAAGATAGGTGAAATAATAGCAAAATAGT
* *
104234133 AATTAAGATAGGTGAAATGATAGTAAAATAGT
1 AATTAAGATAGGTGAAATAATAGCAAAATAGT
104234165 AA
1 AA
104234167 AAAAAAGAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.52, C:0.02, G:0.21, T:0.26
Consensus pattern (32 bp):
AATTAAGATAGGTGAAATAATAGCAAAATAGT
Found at i:104236021 original size:7 final size:7
Alignment explanation
Indices: 104236011--104236035 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
104236001 TTAAAATAAA
104236011 AAAATTC
1 AAAATTC
104236018 AAAATTC
1 AAAATTC
104236025 AAAATTC
1 AAAATTC
104236032 AAAA
1 AAAA
104236036 AAATCTCCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATTC
Found at i:104236021 original size:15 final size:15
Alignment explanation
Indices: 104235994--104236035 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
104235984 ACCACGTATC
104235994 AAAAAAATT-AAAAT
1 AAAAAAATTCAAAAT
104236008 AAAAAAATTCAAAAT
1 AAAAAAATTCAAAAT
**
104236023 -TCAAAATTCAAAA
1 AAAAAAATTCAAAA
104236036 AAATCTCCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (15 bp):
AAAAAAATTCAAAAT
Found at i:104240423 original size:39 final size:39
Alignment explanation
Indices: 104240369--104240447 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
104240359 CCAACATAAT
104240369 TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
*
104240408 TGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGAA
1 TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
104240447 T
1 T
104240448 AACACCAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
TGCCTTCGGAATTTAGCCCGGATATAACACCAGCACGAA
Found at i:104240451 original size:15 final size:15
Alignment explanation
Indices: 104240431--104240462 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
104240421 TAGCCCGGAT
104240431 ATAACACCAGCACGA
1 ATAACACCAGCACGA
*
104240446 ATAACACCAGTACGA
1 ATAACACCAGCACGA
104240461 AT
1 AT
104240463 GCCTTCGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.28, G:0.12, T:0.12
Consensus pattern (15 bp):
ATAACACCAGCACGA
Found at i:104240478 original size:54 final size:54
Alignment explanation
Indices: 104240392--104240501 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 54
104240382 TAGCCCGGAT
* *
104240392 ATAACACCAGCACGAATGCCTTCGGGATTTAGCCCGGATATAACACCAGCACGA
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
*
104240446 ATAACACCAGTACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
104240500 AT
1 AT
104240502 GCCTTTGGGA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.35, C:0.29, G:0.19, T:0.17
Consensus pattern (54 bp):
ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGAATATAACACCAGCACGA
Found at i:104240500 original size:39 final size:39
Alignment explanation
Indices: 104240446--104240527 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
104240436 ACCAGCACGA
*
104240446 ATAACACCAGTACGAATGCCTTCGGGACTTAGCCCGAAT
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGAAT
* *
104240485 ATAACACCAGCACGAATGCCTTTGGGACTTAGCCCGGAT
1 ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGAAT
104240524 ATAA
1 ATAA
104240528 ATCTCACACA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (39 bp):
ATAACACCAGCACGAATGCCTTCGGGACTTAGCCCGAAT
Found at i:104250660 original size:7 final size:7
Alignment explanation
Indices: 104250648--104250674 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
104250638 ACCATAAAAC
104250648 AAAAATG
1 AAAAATG
104250655 AAAAATG
1 AAAAATG
104250662 AAAAATG
1 AAAAATG
104250669 AAAAAT
1 AAAAAT
104250675 ACAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (7 bp):
AAAAATG
Found at i:104251659 original size:13 final size:13
Alignment explanation
Indices: 104251641--104251665 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
104251631 GTGGAACATT
104251641 GAAAAGAAGAAAA
1 GAAAAGAAGAAAA
104251654 GAAAAGAAGAAA
1 GAAAAGAAGAAA
104251666 CTAAATAATC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
GAAAAGAAGAAAA
Found at i:104256762 original size:20 final size:20
Alignment explanation
Indices: 104256737--104256774 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
104256727 ATGTGGAATA
104256737 CACTCATTAACAATCTAATC
1 CACTCATTAACAATCTAATC
*
104256757 CACTCATTAGCAATCTAA
1 CACTCATTAACAATCTAA
104256775 GCAGGTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (20 bp):
CACTCATTAACAATCTAATC
Found at i:104260967 original size:40 final size:40
Alignment explanation
Indices: 104260922--104261000 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
104260912 AGATGAAGAG
104260922 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACATA
1 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACATA
104260962 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACAT
1 AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACAT
104261001 CTGCATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.15, G:0.23, T:0.18
Consensus pattern (40 bp):
AAGAAGCGTAAGGATCGAAAGGCGTTAACACAATTACATA
Found at i:104266826 original size:25 final size:25
Alignment explanation
Indices: 104266798--104266876 Score: 60
Period size: 25 Copynumber: 3.3 Consensus size: 25
104266788 CGAATGGCCA
104266798 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
* * * *
104266823 ATGTG-TTAAGGCCG-A-ATGGC-CA-
1 ATGTGATGAATG-TGAACAT-GCATAT
104266845 ATGTGATGAATGTGAACATGCATAT
1 ATGTGATGAATGTGAACATGCATAT
*
104266870 GTGTGAT
1 ATGTGAT
104266877 AAGGCCGAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 14
0.62 0.15 0.23
Matches are distributed among these distances:
22 6 0.16
23 10 0.26
24 10 0.26
25 12 0.32
ACGTcount: A:0.32, C:0.10, G:0.28, T:0.30
Consensus pattern (25 bp):
ATGTGATGAATGTGAACATGCATAT
Found at i:104266841 original size:47 final size:47
Alignment explanation
Indices: 104266772--104266897 Score: 216
Period size: 47 Copynumber: 2.7 Consensus size: 47
104266762 TTTTATGTGT
*
104266772 ATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
*
104266819 ATATATGTGTTAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
1 ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
* *
104266866 ATATGTGTGATAAGGCCGAATGGCTAATGTGA
1 ATATATGTGATAAGGCCGAATGGCCAATGTGA
104266898 AACATGTATG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGC
Found at i:104266936 original size:48 final size:48
Alignment explanation
Indices: 104266866--104267001 Score: 218
Period size: 48 Copynumber: 2.8 Consensus size: 48
104266856 GTGAACATGC
* * *
104266866 ATATGTGTGATAAGGCCGAATGGCTAATGTGAAACATGTATGAGATATGT
1 ATATGTG-G-TAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
*
104266916 ATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTATGAGATATGT
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
104266964 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
104267002 GGCGATGTGC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 73 0.90
49 1 0.01
50 7 0.09
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAGATATGT
Found at i:104267256 original size:37 final size:37
Alignment explanation
Indices: 104267148--104267256 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
104267138 GGAAATATAT
*
104267148 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
104267185 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
104267222 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
104267257 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:104270010 original size:16 final size:16
Alignment explanation
Indices: 104269991--104270027 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
104269981 TTTTAATAAT
104269991 TTAAATTT-AAATTTGG
1 TTAAATTTCAAA-TTGG
104270007 TTAAATTTCAAATTGG
1 TTAAATTTCAAATTGG
104270023 TTAAA
1 TTAAA
104270028 CCAATTTCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.46
Consensus pattern (16 bp):
TTAAATTTCAAATTGG
Found at i:104275553 original size:30 final size:30
Alignment explanation
Indices: 104275519--104275578 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
104275509 TGAAAAAGAA
104275519 GGAGCCATTTGTTGACAATAATGCCTATAC
1 GGAGCCATTTGTTGACAATAATGCCTATAC
104275549 GGAGCCATTTGTTGACAATAATGCCTATAC
1 GGAGCCATTTGTTGACAATAATGCCTATAC
104275579 TTTTATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (30 bp):
GGAGCCATTTGTTGACAATAATGCCTATAC
Found at i:104276813 original size:18 final size:18
Alignment explanation
Indices: 104276771--104276819 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
104276761 ACTTTCATTC
104276771 TTTTATTACTATTGTTGT
1 TTTTATTACTATTGTTGT
** * *
104276789 TGCTATTTCTCTTGTTGT
1 TTTTATTACTATTGTTGT
*
104276807 TTTTATTATTATT
1 TTTTATTACTATT
104276820 TATATTATTG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.14, C:0.08, G:0.10, T:0.67
Consensus pattern (18 bp):
TTTTATTACTATTGTTGT
Found at i:104276815 original size:3 final size:3
Alignment explanation
Indices: 104276809--104276965 Score: 83
Period size: 3 Copynumber: 52.3 Consensus size: 3
104276799 CTTGTTGTTT
* * * *
104276809 TTA TTA TTA TT- TATA TTA TTG TTA GTA TTA TTA TTA TTCC TTA GT-
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
* * *
104276854 TTA TTA TTA TTA TTA TT- TTA TCA TTA TTT TCTA TTA TTG TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * * *
104276899 TCA ATA -CA CTA TTA TTA TTC TTA TTAA TGTA TTA CTA TTA TTT TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A T-TA TTA TTA TTA TTA T-TA
*
104276946 CT- TTA TTA TTA TTA -TA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
104276966 AACTATTGCT
Statistics
Matches: 114, Mismatches: 28, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
2 8 0.07
3 95 0.83
4 10 0.09
5 1 0.01
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:104276897 original size:30 final size:29
Alignment explanation
Indices: 104276807--104276899 Score: 96
Period size: 30 Copynumber: 3.0 Consensus size: 29
104276797 CTCTTGTTGT
* *
104276807 TTTTATTATTATTTATATTATTGTTAGTA
1 TTTTATTATTATTTTTATTATTGTTATTA
* *
104276836 TTATTATTATTCCTTAGTTTATTATTATTATTA
1 TT-TTATTATT-ATT--TTTATTATTGTTATTA
*
104276869 TTTTATCATTATTTTCTATTATTGTTATTA
1 TTTTATTATTATTTT-TATTATTGTTATTA
104276899 T
1 T
104276900 CAATACACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
29 4 0.08
30 22 0.42
31 4 0.08
32 7 0.13
33 15 0.29
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (29 bp):
TTTTATTATTATTTTTATTATTGTTATTA
Found at i:104278129 original size:127 final size:127
Alignment explanation
Indices: 104277901--104278271 Score: 453
Period size: 126 Copynumber: 2.9 Consensus size: 127
104277891 GTCGACTTTG
* * * *
104277901 TAAAACAAAGGTGAAGTTTGATGTTTAGAAATTCGAGGGATCATGCCCTAATGTGTTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
* *
104277966 ATCTTTTGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCGTTT-TCTAAACCT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTAT-TAAACCT
* * *
104278028 TAAAACAAAGGCGATGTTTGATATCTAGAAATTCGAGGAATCATGCCCTAATAT-CTGGGTTTCG
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
* * * * *
104278092 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAACTTCGTCCGCATTTATTAAACTT
66 ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTATTAAACCT
* * * * * *
104278154 TAAGACAAAAGCGATGATTGATGTTTGGAAATTCG-GGAAATCGTGCCCTAATGTGCTGAGTTTC
1 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGG-AATCATGCCCTAATGTGCTGGGTTTC
* * ** * *
104278218 GAT-TTCTTGTTTATCCAAATAATCAAACATCCCTTTAAAATTCCGTCCACATTT
65 GATCTT-TTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTT
104278272 TTCTTCAAAA
Statistics
Matches: 207, Mismatches: 33, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
125 2 0.01
126 107 0.52
127 98 0.47
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (127 bp):
TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCGAGGAATCATGCCCTAATGTGCTGGGTTTCG
ATCTTTTGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGCATTTATTAAACCT
Found at i:104281895 original size:23 final size:21
Alignment explanation
Indices: 104281869--104281918 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 21
104281859 TAAACTCGTT
*
104281869 TATATTATTTTTAATTTTAAAAA
1 TATATTATCTTT-A-TTTAAAAA
104281892 TATATTTATCTTTATTTAAAAA
1 TATA-TTATCTTTATTTAAAAA
104281914 TATAT
1 TATAT
104281919 CTTAGACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 1 0.04
22 12 0.48
23 5 0.20
24 7 0.28
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
TATATTATCTTTATTTAAAAA
Found at i:104284717 original size:3 final size:3
Alignment explanation
Indices: 104284709--104284756 Score: 53
Period size: 3 Copynumber: 16.0 Consensus size: 3
104284699 AGCCCTTTTA
* * *
104284709 TTC TTC TTCC TT- TTC TTT TTC CTC ATC TTC TTC TTC TTC TTC TTC
1 TTC TTC TT-C TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
104284754 TTC
1 TTC
104284757 ACTTCATCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
2 2 0.05
3 33 0.87
4 3 0.08
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (3 bp):
TTC
Found at i:104288075 original size:19 final size:19
Alignment explanation
Indices: 104288034--104288075 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
104288024 TATTTCATAC
*
104288034 CTTTCATATCCAATTTCAA
1 CTTTCATATCCAAATTCAA
104288053 -TTTCA-ATCCACAATTCAA
1 CTTTCATATCCA-AATTCAA
104288071 CTTTC
1 CTTTC
104288076 TCATTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.40
Consensus pattern (19 bp):
CTTTCATATCCAAATTCAA
Found at i:104288284 original size:21 final size:21
Alignment explanation
Indices: 104288260--104288300 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
104288250 CAAAAGCAGT
104288260 ATACGACACATA-AAGTGCCTA
1 ATACGACACATATAA-TGCCTA
104288281 ATACGACACATATAATGCCT
1 ATACGACACATATAATGCCT
104288301 GATCGGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.22
Consensus pattern (21 bp):
ATACGACACATATAATGCCTA
Found at i:104288412 original size:6 final size:6
Alignment explanation
Indices: 104288401--104288442 Score: 50
Period size: 6 Copynumber: 7.0 Consensus size: 6
104288391 AAATCATTTC
* *
104288401 TCAATT TCAATT TCAATT TCACTT TCAATGT ACAA-T TCAATT
1 TCAATT TCAATT TCAATT TCAATT TCAAT-T TCAATT TCAATT
104288443 CGATACAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
5 4 0.13
6 22 0.73
7 4 0.13
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.45
Consensus pattern (6 bp):
TCAATT
Found at i:104288785 original size:17 final size:18
Alignment explanation
Indices: 104288751--104288786 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
104288741 TGAATTTCTA
104288751 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
104288769 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
104288786 T
1 T
104288787 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:104289452 original size:3 final size:3
Alignment explanation
Indices: 104289439--104289475 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
104289429 GTCTTTATTT
* *
104289439 TAA TGA TAA TAA TAA TAA TAA GAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
104289476 TGAATAATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:104289802 original size:12 final size:12
Alignment explanation
Indices: 104289772--104289803 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
104289762 ATTTTATAAT
*
104289772 ATAATAATATTA
1 ATAATATTATTA
104289784 ATAATATTATTA
1 ATAATATTATTA
104289796 ATAATATT
1 ATAATATT
104289804 TAAATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATAATATTATTA
Found at i:104291394 original size:23 final size:23
Alignment explanation
Indices: 104291364--104291420 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
104291354 CGAAGTGCCA
104291364 TTCACTTGCACCATAATGCCACT
1 TTCACTTGCACCATAATGCCACT
* * *
104291387 TTCACTTGCATCGTAGTGCCACT
1 TTCACTTGCACCATAATGCCACT
*
104291410 ATCACTTGCAC
1 TTCACTTGCAC
104291421 ATTTAGTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.32
Consensus pattern (23 bp):
TTCACTTGCACCATAATGCCACT
Found at i:104291952 original size:18 final size:19
Alignment explanation
Indices: 104291918--104291953 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
104291908 TATTATTTAT
104291918 TATAATTATTAAATTAAAA
1 TATAATTATTAAATTAAAA
*
104291937 TATATTTATT-AATTAAA
1 TATAATTATTAAATTAAA
104291954 TTAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TATAATTATTAAATTAAAA
Found at i:104293352 original size:17 final size:17
Alignment explanation
Indices: 104293330--104293369 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
104293320 ATAATATATA
* *
104293330 AAAATATCATATGGAGT
1 AAAATATAATATGGAAT
*
104293347 AAAATATAATATGTAAT
1 AAAATATAATATGGAAT
104293364 AAAATA
1 AAAATA
104293370 ATATGAAAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (17 bp):
AAAATATAATATGGAAT
Found at i:104293571 original size:25 final size:28
Alignment explanation
Indices: 104293520--104293573 Score: 69
Period size: 30 Copynumber: 2.0 Consensus size: 28
104293510 TTTAATTAAT
104293520 ACAATATAAATAATACATATGCCATATAAA
1 ACAATATAAATAATA-ATATG-CATATAAA
104293550 ACAATAT-AATAAT-ATATG-ATATAA
1 ACAATATAAATAATAATATGCATATAA
104293574 TGGATTTTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 6 0.25
27 5 0.21
29 6 0.25
30 7 0.29
ACGTcount: A:0.57, C:0.09, G:0.04, T:0.30
Consensus pattern (28 bp):
ACAATATAAATAATAATATGCATATAAA
Found at i:104296096 original size:18 final size:18
Alignment explanation
Indices: 104296073--104296109 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
104296063 TTTGTGATCA
104296073 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
*
104296091 AAATTGAAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
104296109 A
1 A
104296110 TAAGAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:104296098 original size:12 final size:12
Alignment explanation
Indices: 104296073--104296109 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
104296063 TTTGTGATCA
104296073 AAATTGAAAGTG
1 AAATTGAAAGTG
* *
104296085 AAAGTGAAATTG
1 AAATTGAAAGTG
104296097 AAATTGAAAGTG
1 AAATTGAAAGTG
104296109 A
1 A
104296110 TAAGAATTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (12 bp):
AAATTGAAAGTG
Found at i:104299761 original size:21 final size:20
Alignment explanation
Indices: 104299737--104299775 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
104299727 GATTTAAGCT
104299737 TGATAATGATAAAATTATGGA
1 TGAT-ATGATAAAATTATGGA
* *
104299758 TGATATGTTTAAATTATG
1 TGATATGATAAAATTATG
104299776 TAAGGACCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
TGATATGATAAAATTATGGA
Found at i:104302609 original size:20 final size:20
Alignment explanation
Indices: 104302571--104302618 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
104302561 TAAATTCTAA
**
104302571 AAAGATAAATACATTTAATT
1 AAAGATAAATACAGATAATT
*
104302591 AAAGATAAATAGAGATAATT
1 AAAGATAAATACAGATAATT
104302611 AAA-ATAAA
1 AAAGATAAA
104302619 ATCCTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.27
Consensus pattern (20 bp):
AAAGATAAATACAGATAATT
Found at i:104303278 original size:11 final size:11
Alignment explanation
Indices: 104303262--104303286 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
104303252 AATTAATATA
104303262 TAAAATATTTT
1 TAAAATATTTT
104303273 TAAAATATTTT
1 TAAAATATTTT
104303284 TAA
1 TAA
104303287 TAAATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
TAAAATATTTT
Found at i:104304982 original size:30 final size:30
Alignment explanation
Indices: 104304948--104305045 Score: 111
Period size: 30 Copynumber: 3.5 Consensus size: 30
104304938 GCAATATAGG
104304948 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
* *
104304978 AGGAAGTGGT-G--GAA--TTGGTA--CTAT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGT-T
*
104305002 GGGAAGTGGTGGAAGAACGGTGGTAGGGTT
1 AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
104305032 AGGAAGTGGTGGAA
1 AGGAAGTGGTGGAA
104305046 TTGGTAATCT
Statistics
Matches: 54, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
23 1 0.02
24 10 0.19
25 6 0.11
27 6 0.11
29 6 0.11
30 24 0.44
31 1 0.02
ACGTcount: A:0.28, C:0.03, G:0.48, T:0.21
Consensus pattern (30 bp):
AGGAAGTGGTGGAAGAACGGTGGTAGGGTT
Found at i:104305012 original size:54 final size:54
Alignment explanation
Indices: 104304949--104305125 Score: 282
Period size: 54 Copynumber: 3.3 Consensus size: 54
104304939 CAATATAGGA
* * *
104304949 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTACTATG
1 GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
*
104305003 GGAAGTGGTGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
1 GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
* ** *
104305057 GGGAGTGGCGGAAGAACAATGGTAGGGTTAGGAAGCGGTGGAATTGGTAATCTG
1 GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
104305111 GGAAGTGGCGGAAGA
1 GGAAGTGGCGGAAGA
104305126 TTAGGAAGTG
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 115 1.00
ACGTcount: A:0.27, C:0.05, G:0.46, T:0.21
Consensus pattern (54 bp):
GGAAGTGGCGGAAGAACGGTGGTAGGGTTAGGAAGTGGTGGAATTGGTAATCTG
Found at i:104305134 original size:18 final size:18
Alignment explanation
Indices: 104305111--104305233 Score: 210
Period size: 18 Copynumber: 6.8 Consensus size: 18
104305101 TGGTAATCTG
104305111 GGAAGTGGCGGAAGATTA
1 GGAAGTGGCGGAAGATTA
104305129 GGAAGTGGCGGAAGATTA
1 GGAAGTGGCGGAAGATTA
*
104305147 GGAAGTGGTGGAAGATTA
1 GGAAGTGGCGGAAGATTA
104305165 GGAAGTGGCGGAAGATTA
1 GGAAGTGGCGGAAGATTA
*
104305183 GGAAGTGGTGGAAGATTA
1 GGAAGTGGCGGAAGATTA
*
104305201 GGAAGTGGCGGAAGGTTA
1 GGAAGTGGCGGAAGATTA
*
104305219 GGAAGTGGTGGAAGA
1 GGAAGTGGCGGAAGA
104305234 ACAACGATAG
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 98 1.00
ACGTcount: A:0.33, C:0.03, G:0.46, T:0.18
Consensus pattern (18 bp):
GGAAGTGGCGGAAGATTA
Found at i:104306871 original size:21 final size:20
Alignment explanation
Indices: 104306819--104306873 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
104306809 AAAAAAACGA
* *
104306819 AAATACAAAAGAATATCAAC
1 AAATTCAAAAAAATATCAAC
* *
104306839 AAATTCAGAAAAATATCAAAT
1 AAATTCAAAAAAATATC-AAC
*
104306860 AAATTTAAAAAAAT
1 AAATTCAAAAAAAT
104306874 GGAAAGCTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.65, C:0.09, G:0.04, T:0.22
Consensus pattern (20 bp):
AAATTCAAAAAAATATCAAC
Found at i:104307352 original size:24 final size:24
Alignment explanation
Indices: 104307301--104307354 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
104307291 AATAAATTAT
* * *
104307301 ATTTTATTTATATTTTAAATGAAT
1 ATTTTACTTATATTTTAAATAAAA
**
104307325 ATTTTACTTATATTTTCTATAAAA
1 ATTTTACTTATATTTTAAATAAAA
104307349 ATTTTA
1 ATTTTA
104307355 TACAAGCCTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTACTTATATTTTAAATAAAA
Found at i:104307401 original size:21 final size:21
Alignment explanation
Indices: 104307363--104307403 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
104307353 TATACAAGCC
*
104307363 TAAATTAATCATATTCAATAA
1 TAAATTAATAATATTCAATAA
104307384 TAAATTAAATAATA-TCAATA
1 TAAATT-AATAATATTCAATA
104307404 TCAATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.37
Consensus pattern (21 bp):
TAAATTAATAATATTCAATAA
Found at i:104309202 original size:42 final size:42
Alignment explanation
Indices: 104309146--104309235 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
104309136 AACATGTTTT
* * *
104309146 AAAACATAGACTTGCATAGGAGCATGCGTAAAACATATCTTC
1 AAAACACAGACTTGCATAGGAGCATGCATAAAACATATATTC
* *
104309188 AAAACACAGGCTTGCATAGGAGCATGCATAAAACATATATTT
1 AAAACACAGACTTGCATAGGAGCATGCATAAAACATATATTC
104309230 AAAACA
1 AAAACA
104309236 TAGCTTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (42 bp):
AAAACACAGACTTGCATAGGAGCATGCATAAAACATATATTC
Found at i:104309234 original size:13 final size:13
Alignment explanation
Indices: 104309216--104309261 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
104309206 GGAGCATGCA
*
104309216 TAAAACATATATT
1 TAAAACATATCTT
*
104309229 TAAAACATAGCTT
1 TAAAACATATCTT
*
104309242 AAAAACATATCTT
1 TAAAACATATCTT
*
104309255 GAAAACA
1 TAAAACA
104309262 GAGTATTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.54, C:0.13, G:0.04, T:0.28
Consensus pattern (13 bp):
TAAAACATATCTT
Found at i:104309272 original size:26 final size:26
Alignment explanation
Indices: 104309216--104309273 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
104309206 GGAGCATGCA
* *
104309216 TAAAACATATATTTAAAACATAGCTT
1 TAAAACATATATTGAAAACAGAGCTT
* *
104309242 AAAAACATATCTTGAAAACAGAG-TAT
1 TAAAACATATATTGAAAACAGAGCT-T
104309268 TAAAAC
1 TAAAAC
104309274 TTTAAAAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 1 0.04
26 25 0.96
ACGTcount: A:0.53, C:0.12, G:0.07, T:0.28
Consensus pattern (26 bp):
TAAAACATATATTGAAAACAGAGCTT
Found at i:104312855 original size:19 final size:19
Alignment explanation
Indices: 104312811--104312857 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
104312801 AAAAAATTAA
104312811 AAAAAATTAGTATAAATGAT
1 AAAAAA-TAGTATAAATGAT
*
104312831 ACAAAAATA-TATAAATTATT
1 A-AAAAATAGTATAAATGA-T
104312851 AAAAAAT
1 AAAAAAT
104312858 TGAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 14 0.58
20 5 0.21
21 5 0.21
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (19 bp):
AAAAAATAGTATAAATGAT
Found at i:104312899 original size:60 final size:60
Alignment explanation
Indices: 104312780--104312916 Score: 144
Period size: 60 Copynumber: 2.3 Consensus size: 60
104312770 TTGCAAAAGT
** *
104312780 TATA-AAATTA-TATAAAAA-TGAAAAAAATTAAAAAAAATTAGTATAAATGATACAAAAA
1 TATATAAATTATTA-AAAAATTGAAAAAAATTAAAAAAAATTAAAATAAATAATACAAAAA
**
104312838 TATATAAATTATTAAAAAATTGAAAAAAATTAAAAAAGCTTAAAAT-AATAATA-AATTAAA
1 TATATAAATTATTAAAAAATTGAAAAAAATTAAAAAAAATTAAAATAAATAATACAA--AAA
104312898 TATATATAA--ATTAAAAAAT
1 TATATA-AATTATTAAAAAAT
104312917 ATAAAAATGT
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
58 6 0.09
59 27 0.40
60 33 0.49
61 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (60 bp):
TATATAAATTATTAAAAAATTGAAAAAAATTAAAAAAAATTAAAATAAATAATACAAAAA
Found at i:104312920 original size:14 final size:14
Alignment explanation
Indices: 104312877--104312921 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
104312867 TTAAAAAAGC
104312877 TTAAAATAATAATAAA
1 TTAAAA-AAT-ATAAA
*
104312893 TTAAATATATATAAA
1 TTAAA-AAATATAAA
104312908 TTAAAAAATATAAA
1 TTAAAAAATATAAA
104312922 AATGTAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 8 0.31
15 10 0.38
16 7 0.27
17 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAATATAAA
Found at i:104312924 original size:16 final size:16
Alignment explanation
Indices: 104312879--104312930 Score: 52
Period size: 16 Copynumber: 3.1 Consensus size: 16
104312869 AAAAAAGCTT
104312879 AAAATAATAATAAATT-A
1 AAAAT-ATAA-AAATTAA
* *
104312896 AATATATATAAATTAA
1 AAAATATAAAAATTAA
104312912 AAAATATAAAAATGTAA
1 AAAATATAAAAAT-TAA
104312929 AA
1 AA
104312931 GAATGTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 5 0.17
16 15 0.52
17 9 0.31
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAATATAAAAATTAA
Found at i:104313737 original size:18 final size:17
Alignment explanation
Indices: 104313710--104313746 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
104313700 GTATTACGCT
104313710 ATTATTAATTCGGTTAA
1 ATTATTAATTCGGTTAA
104313727 ATTAGTTAATTCGGTTAA
1 ATTA-TTAATTCGGTTAA
104313745 AT
1 AT
104313747 GAACATTATC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (17 bp):
ATTATTAATTCGGTTAA
Found at i:104316289 original size:51 final size:51
Alignment explanation
Indices: 104316213--104316313 Score: 175
Period size: 51 Copynumber: 2.0 Consensus size: 51
104316203 AGACTTTGTC
*
104316213 GTCCTCACTAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACTA
1 GTCCTCACCAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACTA
* *
104316264 GTCCTCCCCAATGTTGGCCACTGCCCTCAGGTTTGCTCTTTCATGAAACT
1 GTCCTCACCAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACT
104316314 TTGGTTCGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.18, C:0.33, G:0.18, T:0.32
Consensus pattern (51 bp):
GTCCTCACCAATGTTGGCCACTGCCCTCAGGTTTGCTCTCTCATGAAACTA
Found at i:104322581 original size:26 final size:26
Alignment explanation
Indices: 104322552--104322659 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
104322542 TGATACAAAT
*
104322552 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
104322578 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
104322604 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
104322630 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
104322656 TGAT
1 TGAT
104322660 GGGCATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:104324820 original size:24 final size:24
Alignment explanation
Indices: 104324786--104324851 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
104324776 ACTACAATGG
*
104324786 CGAGGAAGACAAACCTAAACCTGA
1 CGAGGAAGACAAACCTAAACCTAA
*
104324810 CTAGGAAGACAAACCTAAACCTAA
1 CGAGGAAGACAAACCTAAACCTAA
*
104324834 CGAGTAAGACAAACCTAA
1 CGAGGAAGACAAACCTAA
104324852 GCCAGATCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.11
Consensus pattern (24 bp):
CGAGGAAGACAAACCTAAACCTAA
Found at i:104325038 original size:3 final size:3
Alignment explanation
Indices: 104325030--104325069 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
104325020 TATTAAGTTG
*
104325030 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
104325070 GTAATCTCGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:104325449 original size:3 final size:3
Alignment explanation
Indices: 104325441--104325478 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
104325431 TGACGTGGAA
* *
104325441 ATT ATT ATT ATT AAT ATT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
104325479 GTAATCTCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:104325566 original size:21 final size:21
Alignment explanation
Indices: 104325536--104325585 Score: 82
Period size: 21 Copynumber: 2.3 Consensus size: 21
104325526 GTGGTATATG
104325536 GTTAGTCAAGTGGTTAGTATTT
1 GTTA-TCAAGTGGTTAGTATTT
*
104325558 GTTATCAAGTGGTTAGTGTTT
1 GTTATCAAGTGGTTAGTATTT
104325579 GTTATCA
1 GTTATCA
104325586 CTCACTAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTATCAAGTGGTTAGTATTT
Found at i:104325959 original size:3 final size:3
Alignment explanation
Indices: 104325947--104325976 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
104325937 ATGCATTAAG
104325947 TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
104325977 GTAATCTCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:104326358 original size:3 final size:3
Alignment explanation
Indices: 104326350--104326387 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
104326340 TGGTGTGGAA
104326350 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
104326388 GTAATCTCCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:104326474 original size:21 final size:21
Alignment explanation
Indices: 104326450--104326492 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
104326440 ATACGATTAG
104326450 TCAAGTGGTTAATATTTGTTA
1 TCAAGTGGTTAATATTTGTTA
* *
104326471 TCAAGTGGTTAGTGTTTGTTA
1 TCAAGTGGTTAATATTTGTTA
104326492 T
1 T
104326493 TACTCACTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (21 bp):
TCAAGTGGTTAATATTTGTTA
Found at i:104326730 original size:42 final size:42
Alignment explanation
Indices: 104326631--104326719 Score: 135
Period size: 42 Copynumber: 2.1 Consensus size: 42
104326621 ATGAAAAGGA
* *
104326631 AAGAA-GGAAGCAGCACAAGGTCCTTAGAGATACTTGTAGGTG
1 AAGAAGGGAA-CAGCACAAGATCCTTAGAGATACTTGCAGGTG
*
104326673 AAGAAGGGAACAGCACATGATCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAACAGCACAAGATCCTTAGAGATACTTGCAGGTG
104326715 AAGAA
1 AAGAA
104326720 TGGAGTAGCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
42 39 0.91
43 4 0.09
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.18
Consensus pattern (42 bp):
AAGAAGGGAACAGCACAAGATCCTTAGAGATACTTGCAGGTG
Found at i:104326739 original size:42 final size:42
Alignment explanation
Indices: 104326631--104326739 Score: 130
Period size: 42 Copynumber: 2.6 Consensus size: 42
104326621 ATGAAAAGGA
* *
104326631 AAGAA-GGAAGCAGCACAAGGTCCTTAGAGATACTTGTAGGTG
1 AAGAAGGGAA-CAGCACAGGGTCCTTAGAGATACTTGCAGGTG
* *
104326673 AAGAAGGGAACAGCACATGATCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAACAGCACAGGGTCCTTAGAGATACTTGCAGGTG
* ** *
104326715 AAGAATGGAGTAGCACGGGGTCCTT
1 AAGAAGGGAACAGCACAGGGTCCTT
104326740 TTCAAGTAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 53 0.93
43 4 0.07
ACGTcount: A:0.34, C:0.16, G:0.31, T:0.19
Consensus pattern (42 bp):
AAGAAGGGAACAGCACAGGGTCCTTAGAGATACTTGCAGGTG
Found at i:104326878 original size:64 final size:65
Alignment explanation
Indices: 104326806--104326937 Score: 239
Period size: 64 Copynumber: 2.0 Consensus size: 65
104326796 AATTGATGGA
*
104326806 ATTAATAATTTAAAAGATATTAATAAATGGGAAAGT-AAAAAAATTGTTTTGATGATGATACATT
1 ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAAATTGTTTTGATGATGATACATT
*
104326870 ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAAATTGTTTTGATGATGATACGTT
1 ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAAATTGTTTTGATGATGATACATT
104326935 ATT
1 ATT
104326938 TTATTATTAT
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
64 35 0.54
65 30 0.46
ACGTcount: A:0.48, C:0.02, G:0.14, T:0.36
Consensus pattern (65 bp):
ATTAATAATTTAAAAGATATTAATAAATAGGAAAGTAAAAAAAATTGTTTTGATGATGATACATT
Found at i:104327458 original size:21 final size:21
Alignment explanation
Indices: 104327429--104327478 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
104327419 CTGATATATG
104327429 GTTAGTCAAGTCGTTAGTATTT
1 GTTA-TCAAGTCGTTAGTATTT
* *
104327451 GTTATCAAGTGGTTAGTGTTT
1 GTTATCAAGTCGTTAGTATTT
104327472 GTTATCA
1 GTTATCA
104327479 CTCACTAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.22, C:0.08, G:0.24, T:0.46
Consensus pattern (21 bp):
GTTATCAAGTCGTTAGTATTT
Found at i:104327677 original size:42 final size:42
Alignment explanation
Indices: 104327615--104327707 Score: 150
Period size: 42 Copynumber: 2.2 Consensus size: 42
104327605 ACGAAAAGGA
* * *
104327615 AAGAAGGGAGCAACATAAGGTCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAACAACACAAGGTCCTTAGAGATACTTGCAAGTG
*
104327657 AAGAAGGGAACAACACAAGGTTCTTAGAGATACTTGCAAGTG
1 AAGAAGGGAACAACACAAGGTCCTTAGAGATACTTGCAAGTG
104327699 AAGAAGGGA
1 AAGAAGGGA
104327708 GCAGCACAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.40, C:0.13, G:0.30, T:0.17
Consensus pattern (42 bp):
AAGAAGGGAACAACACAAGGTCCTTAGAGATACTTGCAAGTG
Found at i:104327702 original size:984 final size:984
Alignment explanation
Indices: 104325855--104327848 Score: 2963
Period size: 984 Copynumber: 2.0 Consensus size: 984
104325845 AATTGATGGA
*
104325855 ATTAATAATTTAAAAGATATTAATAAATGAGAAAGTAAAAAAATTGTTTTGATAATTATACGTTA
1 ATTAATAATTTAAAAGATATTAATAAATGAGAAAGTAAAAAAATTGTTTTGATAATGATACGTTA
104325920 TTTTATTATTATGTGAAATGCATTAAGTTATTATATTATTATTATTATTATTATTATGTAATCTC
66 TTTTATTATTATGTGAAA--CATT-AG----T-TATTA-TA-TATTATTATTATTATGTAATCTC
* * *
104325985 CATTGATTCCTTTGCATTGCAATCAAAGCCGGTGGAATACTACGATATTAGACATCTCTAACAAT
121 CATTGATTCCTTTGCACTGCAATCAAAGCCAGTAGAATACTACGATATTAGACATCTCTAACAAT
* * *
104326050 CTATAATCCCATGTCGTACTGTTCATCTTCTTCCTCCCCTTACAAACAAAAAAGGCCAAACACAC
186 CTATAATCCCATGCCGTACTGTTCATCTTCTTCCTCCCATTACAAACAAAAAAGGCCAAAAACAC
*
104326115 AATTATCACTAGGATTCAAAATCTCTAATATCTGATATAAAATAAAAAAGAATGAAAATGAGCAT
251 AATTATAACTAGGATTCAAAATCTCTAATATCTGATATAAAATAAAAAAGAATGAAAATGAGCAT
*
104326180 TAAGGACAAAAAGAAAGAAGGTACGTAACATAGGTGAAGAAAGGCGAAGAAGGGAGCAGCAATAG
316 TAAGGACAAAAAGAAAGAAGGTACATAACATAGGTGAAGAAAGGCGAAGAAGGGAGCAGCAATAG
* * *
104326245 TCTGCTCAATACGGTCCTTAGAGATACTTGCCTTTTCAAGTAAATCTTTCATGCGATTTCCAAAT
381 TCTGCTCAACACGGTCCTTAGAGATACTTGCCTCTTCAAGTAAATATTTCATGCGATTTCCAAAT
*
104326310 TGTATCATAGTCCTCTGTGGAAATTATTTTTGGTGTGGAAATTATTATTATTATTATTATTATTA
446 TGTATCATAGTCCTCTGAGGAAATTATTTTTGGTGTGG----------TA-TA-TATTATTATTA
*
104326375 TTATTATTATTATGTAATCTCCGTTGATTCATTTGCACTGCAATCACAGTCAGTTACAATCTGGT
499 TTATTATTATTATGTAATCTCCGTTGATTCATTTGCACTGCAATCACAGTCAGTTACAATCTGAT
* * *
104326440 ATACGATTAGTCAAGTGGTTAATATTTGTTATCAAGTGGTTAGTGTTTGTTATTACTCACTAGTG
564 ATACGATTAGTCAAGTCGTTAATATTTGTTATCAAGTGGTTAGTGTTTGTTATCACTCACTAATG
104326505 TATATAAGTATCATTTCTGTACAGGCTCACCAAAGCTAATGATACTAAGAATATTCAGCAAATAC
629 TATATAAGTATCATTTCTGTACAGGCTCACCAAAGCTAATGATACTAAGAATATTCAGCAAATAC
* * *
104326570 TATTATCTGTATTTCATTCATTATCATTTTTTTAGTATAGTTCTAAAAAGGATGAAAAGGAAAGA
694 TATTATCTGTATTTCATTCATTATCATTTCTTCAGTATAGTTCTAAAAAGGACGAAAAGGAAAGA
* * * *
104326635 AGGAAGCAGCACAAGGTCCTTAGAGATACTTGTAGGTGAAGAAGGGAACAGCACATGATCCTTAG
759 AGGAAGCAACACAAGGTCCTTAGAGATACTTGCAGGTGAAGAAGGGAACAACACAAGATCCTTAG
* * * *
104326700 AGATACTTGCAGGTGAAGAATGGAGTAGCACGGGGTCCTTTTCAAGTAAATATTTCATACGATTT
824 AGATACTTGCAAGTGAAGAAGGGAGCAGCACAGGGTCCTTTTCAAGTAAATATTTCAT--G----
104326765 CATGCAATTTCAAGTAAAGACTTTTAAATCAAATTGATGGAATTAATAATTTAAAAGATATTAAT
883 C--G--ATTTCAAGTAAAGACTTTTAAATCAAATTGATGGAATTAATAATTTAAAAGATATTAAT
*
104326830 AAATGGGAAAGT-AAAAAAATTGTTTTGATGATGATACATT
944 AAATGGGAAAGTAAAAAAAATTGTTTTGATAATGATACATT
*
104326870 ATTAATAATTTAAAAGATATTAATAAAT-AGGAAAGTAAAAAAAATTGTTTTGATGATGATACGT
1 ATTAATAATTTAAAAGATATTAATAAATGA-GAAAGT-AAAAAAATTGTTTTGATAATGATACGT
* **
104326934 TATTTTATTATTATGTG-AA-A-T-G-TATTA-A-GTTATTATTATTATGTAATCTCTGTTGATT
64 TATTTTATTATTATGTGAAACATTAGTTATTATATATTATTATTATTATGTAATCTCCATTGATT
* * * *
104326992 CCTTTGCACTGCAATCAAAGTCAGTAGAATCCTACGATATTAGACATCTCTAGCAATCTATGATC
129 CCTTTGCACTGCAATCAAAGCCAGTAGAATACTACGATATTAGACATCTCTAACAATCTATAATC
*
104327057 CCATGCCGTACTGTTCATCTTCTTCCTCCTATTACAAACAAAAAAGGCCAAAAAGCACAATTATA
194 CCATGCCGTACTGTTCATCTTCTTCCTCCCATTACAAACAAAAAAGGCCAAAAA-CACAATTATA
* *
104327122 ACTAGGATTCAAAATCTCTAATATCTTATATAAAATGAAAAAGAATGAAAA-GAAGCATTAAGGA
258 ACTAGGATTCAAAATCTCTAATATCTGATATAAAATAAAAAAGAATGAAAATG-AGCATTAAGGA
* * * * * * * *
104327186 CAAAAAGGAGGAAGGTACATAGCATATGTGAAGAAATGTGAAGAAGGGAGTAGCAATTGTCTGCT
322 CAAAAAGAAAGAAGGTACATAACATAGGTGAAGAAAGGCGAAGAAGGGAGCAGCAATAGTCTGCT
*
104327251 CAACAGGGTCCTTAGAGATACTTGCCTCTTCAAGTAAATATTTCATGCGATTTCCAAATTGTATC
387 CAACACGGTCCTTAGAGATACTTGCCTCTTCAAGTAAATATTTCATGCGATTTCCAAATTGTATC
104327316 ATAGTCCTCT-AGGAAATTATTTTTGGTGTGG-A-A-ATTATTATTATTATTATTATTATGTAAT
452 ATAGTCCTCTGAGGAAATTATTTTTGGTGTGGTATATATTATTATTATTATTATTATTATGTAAT
* * * *
104327377 CTCCTTTGATTCCTTTGCACTGCAATCACAGTCAGTTACAATCTGATATATGGTTAGTCAAGTCG
517 CTCCGTTGATTCATTTGCACTGCAATCACAGTCAGTTACAATCTGATATACGATTAGTCAAGTCG
*
104327442 TTAGTATTTGTTATCAAGTGGTTAGTGTTTGTTATCACTCACTAATGTATATAAGTATCATTTCT
582 TTAATATTTGTTATCAAGTGGTTAGTGTTTGTTATCACTCACTAATGTATATAAGTATCATTTCT
* * *
104327507 GTACAGGTTCACCAAAGCTAATGATACTAAGAATATTCAGCAAATACTATTCTCTGTATTTCGTT
647 GTACAGGCTCACCAAAGCTAATGATACTAAGAATATTCAGCAAATACTATTATCTGTATTTCATT
* * * *
104327572 CATTATCGTTTCTTCAGTATAGTTCTAACAAGGACGAAAAGGAAAGAAGGGAGCAACATAAGGTC
712 CATTATCATTTCTTCAGTATAGTTCTAAAAAGGACGAAAAGGAAAGAAGGAAGCAACACAAGGTC
* *
104327637 CTTAGAGATACTTGCAGGTGAAGAAGGGAACAACACAAGGTTCTTAGAGATACTTGCAAGTGAAG
777 CTTAGAGATACTTGCAGGTGAAGAAGGGAACAACACAAGATCCTTAGAGATACTTGCAAGTGAAG
*
104327702 AAGGGAGCAGCACAGGGTCTTTTTCAAGTAAATATTTCATGCGATTTCAAGTAAAGACTTTTAAA
842 AAGGGAGCAGCACAGGGTCCTTTTCAAGTAAATATTTCATGCGATTTCAAGTAAAGACTTTTAAA
*
104327767 TTAAATTGATGGAATTAATAATTTAAAAGATATTAATAAATGGGAAAGTAAAAAAAAATTGTTTT
907 TCAAATTGATGGAATTAATAATTTAAAAGATATTAATAAATGGGAAAGT-AAAAAAAATTGTTTT
*
104327832 GATAATGATACGTT
971 GATAATGATACATT
104327846 ATT
1 ATT
104327849 TTATTATTAT
Statistics
Matches: 907, Mismatches: 66, Indels: 51
0.89 0.06 0.05
Matches are distributed among these distances:
974 70 0.08
976 30 0.03
978 1 0.00
982 1 0.00
984 363 0.40
986 1 0.00
988 1 0.00
999 156 0.17
1000 196 0.22
1001 1 0.00
1003 5 0.01
1009 1 0.00
1011 1 0.00
1012 1 0.00
1014 1 0.00
1015 36 0.04
1016 42 0.05
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.34
Consensus pattern (984 bp):
ATTAATAATTTAAAAGATATTAATAAATGAGAAAGTAAAAAAATTGTTTTGATAATGATACGTTA
TTTTATTATTATGTGAAACATTAGTTATTATATATTATTATTATTATGTAATCTCCATTGATTCC
TTTGCACTGCAATCAAAGCCAGTAGAATACTACGATATTAGACATCTCTAACAATCTATAATCCC
ATGCCGTACTGTTCATCTTCTTCCTCCCATTACAAACAAAAAAGGCCAAAAACACAATTATAACT
AGGATTCAAAATCTCTAATATCTGATATAAAATAAAAAAGAATGAAAATGAGCATTAAGGACAAA
AAGAAAGAAGGTACATAACATAGGTGAAGAAAGGCGAAGAAGGGAGCAGCAATAGTCTGCTCAAC
ACGGTCCTTAGAGATACTTGCCTCTTCAAGTAAATATTTCATGCGATTTCCAAATTGTATCATAG
TCCTCTGAGGAAATTATTTTTGGTGTGGTATATATTATTATTATTATTATTATTATGTAATCTCC
GTTGATTCATTTGCACTGCAATCACAGTCAGTTACAATCTGATATACGATTAGTCAAGTCGTTAA
TATTTGTTATCAAGTGGTTAGTGTTTGTTATCACTCACTAATGTATATAAGTATCATTTCTGTAC
AGGCTCACCAAAGCTAATGATACTAAGAATATTCAGCAAATACTATTATCTGTATTTCATTCATT
ATCATTTCTTCAGTATAGTTCTAAAAAGGACGAAAAGGAAAGAAGGAAGCAACACAAGGTCCTTA
GAGATACTTGCAGGTGAAGAAGGGAACAACACAAGATCCTTAGAGATACTTGCAAGTGAAGAAGG
GAGCAGCACAGGGTCCTTTTCAAGTAAATATTTCATGCGATTTCAAGTAAAGACTTTTAAATCAA
ATTGATGGAATTAATAATTTAAAAGATATTAATAAATGGGAAAGTAAAAAAAATTGTTTTGATAA
TGATACATT
Found at i:104327886 original size:3 final size:3
Alignment explanation
Indices: 104327880--104327904 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
104327870 TAAGTTGTTG
104327880 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
104327905 GTAATCGCTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:104328381 original size:21 final size:21
Alignment explanation
Indices: 104328337--104328395 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
104328327 AGTTAAAATC
* *
104328337 TAGTATATGGTTACTCAAGTGGT
1 TAGTAT-TTGTTA-TCATGTGGT
*
104328360 TAGTATTTTTTATCATGTGGT
1 TAGTATTTGTTATCATGTGGT
*
104328381 TAGTGTTTGTTATCA
1 TAGTATTTGTTATCA
104328396 CTCACTAGTG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 21 0.68
22 4 0.13
23 6 0.19
ACGTcount: A:0.22, C:0.07, G:0.22, T:0.49
Consensus pattern (21 bp):
TAGTATTTGTTATCATGTGGT
Found at i:104330437 original size:19 final size:19
Alignment explanation
Indices: 104330412--104330484 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
104330402 ATAATCTTCA
104330412 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
104330431 GTGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104330450 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
104330467 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
104330485 AGATATGATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.34
19 33 0.66
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:104330452 original size:14 final size:15
Alignment explanation
Indices: 104330433--104330470 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
104330423 TCTTAGATGT
104330433 GATATG-CAATCTTA
1 GATATGACAATCTTA
104330447 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
104330464 GATATGA
1 GATATGA
104330471 TATGCAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 6 0.29
15 1 0.05
17 14 0.67
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:104330510 original size:22 final size:22
Alignment explanation
Indices: 104330412--104330507 Score: 79
Period size: 19 Copynumber: 4.8 Consensus size: 22
104330402 ATAATCTTCA
104330412 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
104330431 GTGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
104330450 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
104330467 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
104330489 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
104330508 GATTTAATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
17 17 0.25
19 30 0.45
22 8 0.12
23 12 0.18
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Done.