Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 142 of 173
Found at i:43117744 original size:19 final size:19
Alignment explanation
Indices: 43117722--43117777 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
43117712 TTTTTATATT
43117722 TTTTATGATTTTTATAAAA
1 TTTTATGATTTTTATAAAA
** *
43117741 TTTTAATTTTTTTTAT-AAT
1 TTTT-ATGATTTTTATAAAA
*
43117760 TTCTTACGATTTTTATAA
1 TT-TTATGATTTTTATAA
43117778 TTTTTATAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (19 bp):
TTTTATGATTTTTATAAAA
Found at i:43119571 original size:198 final size:199
Alignment explanation
Indices: 43119139--43119554 Score: 622
Period size: 204 Copynumber: 2.1 Consensus size: 199
43119129 TAAAAAAAAT
* ** *
43119139 TTAAAAGAATATCCATTGAA-TCAAGATTTAAGAAATCGTGGCCCAATACGTTAGGGCACAATTT
1 TTAAGAGAATA-CCATT-AATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTC
43119203 CTTTAAAATCCCAAACTCGGAATATTTCCTTTATTATTTTTTTTTAGAAAAAAAATCTTCATTTC
64 CTTTAAAATCCCAAACTCGGAATATTTCCTTTATTA---TTTTTTAG-AAAAAAATCTTCATTTC
* *
43119268 GAGAAATCAATATGTCACATCCAATACGTTAGGACACAACGTGTTGAATTCCCAACAATGAACTC
125 GAGAAATCAATACGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTC
43119333 TTATTTTTGA
190 TTATTTTTGA
*
43119343 TTAAGAGAATATCCATTTATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCC
1 TTAAGAGAATA-CCATTAATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCC
* * *
43119408 TTTAAAATCCCAAACTTGGAATATTTCCTTTATTA-TTTTTAG-GAAAAATCTTCATTTTGAGAA
65 TTTAAAATCCCAAACTCGGAATATTTCCTTTATTATTTTTTAGAAAAAAATCTTCATTTCGAGAA
* *
43119471 ATCAATGCGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAATAATGAACTCTTATT
130 ATCAATACGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATT
43119536 TTTGA
195 TTTGA
43119541 TTAAAGAAGAATAC
1 TT-AAG-AGAATAC
43119555 TTGAATGTCA
Statistics
Matches: 197, Mismatches: 12, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
198 87 0.44
199 4 0.02
200 13 0.07
203 1 0.01
204 92 0.47
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (199 bp):
TTAAGAGAATACCATTAATTCAAGATTTAAGAAATCGCAGCCCAATACGTTAGGGCACAATTCCT
TTAAAATCCCAAACTCGGAATATTTCCTTTATTATTTTTTAGAAAAAAATCTTCATTTCGAGAAA
TCAATACGTCACATCCAATACGTTAGGACACAACGTGTTAAATTCCCAACAATGAACTCTTATTT
TTGA
Found at i:43121751 original size:2 final size:2
Alignment explanation
Indices: 43121744--43121773 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43121734 GATAGAGACG
43121744 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
43121774 CTGTTGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:43123658 original size:28 final size:26
Alignment explanation
Indices: 43123613--43123667 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
43123603 ACCTTTCACT
* *
43123613 TACATATATATCTGCATGTCTACATTCA
1 TACATATATATATACATG-C-ACATTCA
43123641 TACATATATATATACATGCACATTCA
1 TACATATATATATACATGCACATTCA
43123667 T
1 T
43123668 GAACGCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 1 0.04
28 16 0.64
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (26 bp):
TACATATATATATACATGCACATTCA
Found at i:43128449 original size:26 final size:26
Alignment explanation
Indices: 43128420--43128509 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
43128410 TTATAGATTG
43128420 CAAATTAATTATTCATGAGCACTATT
1 CAAATTAATTATTCATGAGCACTATT
* * ** *
43128446 CAAATTAA-AAGTCATGATTTATCATCTT
1 CAAATTAATTATTCATGA-GCA-C-TATT
*
43128474 ACAAATTTAATTATTCATAAGCACTATT
1 -CAAA-TTAATTATTCATGAGCACTATT
43128502 CAAATTAA
1 CAAATTAA
43128510 AAGTGATGAT
Statistics
Matches: 47, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
25 7 0.15
26 13 0.28
27 5 0.11
28 6 0.13
29 5 0.11
30 5 0.11
31 6 0.13
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (26 bp):
CAAATTAATTATTCATGAGCACTATT
Found at i:43128505 original size:56 final size:55
Alignment explanation
Indices: 43128420--43128527 Score: 189
Period size: 56 Copynumber: 1.9 Consensus size: 55
43128410 TTATAGATTG
*
43128420 CAAATTAATTATTCATGAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
1 CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
*
43128475 CAAATTTAATTATTCATAAGCACTATTCAAATTAAAAGTGATGATTTATCATC
1 CAAA-TTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATC
43128528 CAATGGATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
55 4 0.08
56 46 0.92
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (55 bp):
CAAATTAATTATTCATAAGCACTATTCAAATTAAAAGTCATGATTTATCATCTTA
Found at i:43131138 original size:24 final size:24
Alignment explanation
Indices: 43131085--43131139 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
43131075 GACATGAGTA
*
43131085 TGTGAGACAATTGATTAAGGACGG
1 TGTGATACAATTGATTAAGGACGG
43131109 TGTGATACAATTGATTAAGGACGG
1 TGTGATACAATTGATTAAGGACGG
43131133 TGTGATA
1 TGTGATA
43131140 ACTGTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.33, C:0.07, G:0.31, T:0.29
Consensus pattern (24 bp):
TGTGATACAATTGATTAAGGACGG
Found at i:43132208 original size:56 final size:55
Alignment explanation
Indices: 43132111--43132219 Score: 182
Period size: 56 Copynumber: 2.0 Consensus size: 55
43132101 TGTATCCATT
* *
43132111 AGATGATAAATCATCACTTTTAATTTAAATAGTGCTTATGAATAATTAAATTTGTA
1 AGATGATAAATCATCACTTTTAATTTAAATAATGCTCATGAATAATT-AATTTGTA
*
43132167 AGATGATAAATCATCACTTTTAATTTGAATAATGCTCATGAATAATTAATTTG
1 AGATGATAAATCATCACTTTTAATTTAAATAATGCTCATGAATAATTAATTTG
43132220 CAATCTATAA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
55 6 0.12
56 44 0.88
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.40
Consensus pattern (55 bp):
AGATGATAAATCATCACTTTTAATTTAAATAATGCTCATGAATAATTAATTTGTA
Found at i:43134230 original size:125 final size:125
Alignment explanation
Indices: 43133991--43134552 Score: 652
Period size: 126 Copynumber: 4.5 Consensus size: 125
43133981 AAATCAAAGG
* * * * * * *
43133991 AGGATGATTTATCAGAA-AGATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGG
1 AGGATGCTTTATGAGAAGA-ATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
* *
43134055 TCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAGTAGTTTAAAAAACGCTTCAAGC
65 TCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
* * * *
43134116 AGGATGTTTTGTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGTGCTTTTACTACAGTTGGT
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGT
*
43134181 CCTGGAAGAAATAATTTCGAGTTGACGTTTTTGAGCAAATAGTTTAAAAAACGCTTCAAGC
66 CCTGGAA-AAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
* * * *
43134242 AGGGTGCTTTATAAGAAGAATTTGTGAAGTCGCG-CCTATGTGGACGCGCTTTTGCTACA-TTAG
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCT-CGTGGACGCGCTTTTGCTACAGTT-G
* ** * * * * *
43134305 GTCCT-AAAAAAGTAATTTTAAGTTTACGTTTCTGAGTAAATAGTATAAAACAACACTGCAAGC
64 GTCCTGGAAAAA-TAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAA-AACGCTTCAAGC
* *
43134368 AGCATGCTATT-TGATAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
1 AGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGG
* * * * * **
43134432 TCTTGGAAAAATAATTTCG-GCTTGATGTTTCTGAACAAATAGTAT-AAAATCGCTTTTAGC
65 TCCTGGAAAAATAATTTCGAG-TTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
* * * *
43134492 AGGATACTTTATGAGAAGAATTTGTAAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGT
1 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
43134553 AACATGTTTG
Statistics
Matches: 370, Mismatches: 55, Indels: 25
0.82 0.12 0.06
Matches are distributed among these distances:
123 2 0.01
124 62 0.17
125 103 0.28
126 191 0.52
127 12 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (125 bp):
AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGT
CCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAAAACGCTTCAAGC
Found at i:43134473 original size:251 final size:250
Alignment explanation
Indices: 43134010--43134553 Score: 709
Period size: 251 Copynumber: 2.2 Consensus size: 250
43134000 TATCAGAAAG
* * * *
43134010 ATTTTTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGA
1 ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAA
* * * * * *
43134075 CTTGACGTTTCTGAGCAAGTAGTTTAAAAAACGCTTCAAGCAGGATGTTTTGTGAGAAGAATTTG
66 CTTGACGTTTCTGAGCAAATAGTATAAAAAACACTGCAAGCAGCATGTATTGTGAGAAGAATTTG
*
43134140 TGAAATCGCGCCCTCGTGGACGTGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTG
131 TGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTG
* * * * *
43134205 ACGTTTTTGAGCAAATAGTTTAAAAAACGCTTCAAGCAGGGTGCTTTATAAGAAGA
196 ACGTTTCTGAACAAATAGTAT-AAAAACGCTTCAAGCAGGATACTTTATAAGAAGA
* * * *
43134261 ATTTGTGAAGTCGCGCCTATGTGGACGCGCTTTTGCTACATTAGGTCCT-AAAAAAGTAATTTTA
1 ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAA-TAATTTCA
* * * *
43134325 AGTTTACGTTTCTGAGTAAATAGTATAAAACAACACTGCAAGCAGCATGCTATT-TGATAAGAAT
65 ACTTGACGTTTCTGAGCAAATAGTATAAAA-AACACTGCAAGCAGCATG-TATTGTGAGAAGAAT
* *
43134389 TTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTTGGTCTTGGAA-AAATAATTTCG-G
128 TTGTGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGAG
* * ** *
43134452 CTTGATGTTTCTGAACAAATAGTATAAAATCGCTTTTAGCAGGATACTTTATGAGAAGA
193 -TTGACGTTTCTGAACAAATAGTATAAAAACGCTTCAAGCAGGATACTTTATAAGAAGA
* * *
43134511 ATTTGTAAAATCGCGCCCACGTAGACGCGCTTTTGCTACAGTA
1 ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTA
43134554 ACATGTTTGG
Statistics
Matches: 252, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
250 71 0.28
251 106 0.42
252 72 0.29
253 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (250 bp):
ATTTGTGAAGTCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAA
CTTGACGTTTCTGAGCAAATAGTATAAAAAACACTGCAAGCAGCATGTATTGTGAGAAGAATTTG
TGAAATCGCGCCCTCGTGGACGCGCTTTTACTACAGTTGGTCCTGGAAGAAATAATTTCGAGTTG
ACGTTTCTGAACAAATAGTATAAAAACGCTTCAAGCAGGATACTTTATAAGAAGA
Found at i:43137771 original size:22 final size:22
Alignment explanation
Indices: 43137722--43138634 Score: 816
Period size: 21 Copynumber: 42.0 Consensus size: 22
43137712 TCAAATTATA
43137722 TTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43137743 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43137765 TTAAAGTTAAGAGTATAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43137787 TTAAAGTTAAGGGTTTAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
43137808 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43137829 TTTAGGTTTAGGGTTTAGGGGT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43137851 TTTAATTTAAGAG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43137872 TTTAAGTTAACGATTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43137894 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43137916 TTAAAGTT-ATGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43137937 TTTAGGTTAAGGG-TTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43137958 TTTAGGTTAAGGGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43137980 TTTAATTTAATGG-TTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
43138000 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138022 TTTATGTTAAAGGTCTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138044 CTAAAATTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138065 TTCAGGTTAAGGG-TTAGGGTG
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138086 TTTAGGTTAAGTGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138108 TTTAATTTAA-GGATTGGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43138129 TTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138151 TTTAAGTTAAGGGTCTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138173 TTAAAGTTAA-GGTTTTGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138194 TTTAGGTTAAGGG-TTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138215 TTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138237 TTT-ACTTTAGGG-CTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138257 TTTAAGTTAAGGGTTCAAGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
43138278 TTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43138300 TTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
*
43138321 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138342 TTTAGGTTAAGGGTTAAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* * *
43138364 TTTAATTTAAGGG-CTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138385 TCTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138407 TTTAGGTTAAGGGTCTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTT
*
43138428 TTTAACGTTAA-GGTTTAAGGTT
1 TTTAA-GTTAAGGGTTTAGGGTT
*
43138450 TTTAGGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138471 TTAAAGTTAATGG-TTAGGGTTTT
1 TTTAAGTTAAGGGTTTAGGG--TT
*
43138494 TTGGGTAAGAATTTAGGG-TTAGGGTT
1 TT---TAAG--TTAAGGGTTTAGGGTT
* * *
43138520 TTTAGGTTAAAGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* **
43138542 TTAAAGTTAAGGG-TTAATGTT
1 TTTAAGTTAAGGGTTTAGGGTT
* *
43138563 TTTAGGTTAAAGGGTTAAGGG-T
1 TTTAAGTT-AAGGGTTTAGGGTT
43138585 TTTAAGTTAAGGGTGAGGATTAGGGTT
1 TTTAAGTTAAGGGT-----TTAGGGTT
* *
43138612 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTT
43138634 T
1 T
43138635 GTGAATTAAA
Statistics
Matches: 718, Mismatches: 136, Indels: 75
0.77 0.15 0.08
Matches are distributed among these distances:
20 27 0.04
21 335 0.47
22 309 0.43
23 10 0.01
26 12 0.02
27 14 0.02
28 11 0.02
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (22 bp):
TTTAAGTTAAGGGTTTAGGGTT
Found at i:43137789 original size:43 final size:42
Alignment explanation
Indices: 43137722--43138634 Score: 772
Period size: 43 Copynumber: 21.0 Consensus size: 42
43137712 TCAAATTATA
43137722 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
* *
43137765 TTAAAGTTAAGAGTATAGGGTTTTAAAGTTAAGGGTTTAAGG-T
1 TTTAAGTTAAGGGT-TAGGGTTTT-AAGTTAAGGGTTTAAGGTT
* * * * *
43137808 TTTAGGTTAAGGGTTAGGGTTTTTAGGTTTAGGGTTTAGGGGT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
* * * * *
43137851 TTTAATTTAAGAGTTAGGGTTTTTAAGTTAACGATTTAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
*
43137894 TTTAAGTTAAGGGTTTAGGGTTTTAAAGTT-ATGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTT-AAGTTAAGGGTTTAAGGTT
* * *
43137937 TTTAGGTTAAGGGTTAGTGTTTTTAGGTTAAGGGTTT-AGAGTT
1 TTTAAGTTAAGGGTTAG-GGTTTTAAGTTAAGGGTTTAAG-GTT
* * *
43137980 TTTAATTTAATGGTTAGGGTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTAAGTTAAGGGTTTAAGGTT
* * * * *
43138022 TTTATGTTAAAGGTCTAGGGTTCTAAAATTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGGT-TAGGGTT-TTAAGTTAAGGGTTTAAGGTT
* * * *
43138065 TTCAGGTTAAGGGTTAGGGTGTTTAGGTTAAGTGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGT-TTTAAGTTAAGGGTTTAAGGTT
* * * *
43138108 TTTAATTTAAGGATTGGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
* **
43138151 TTTAAGTTAAGGGTCTAAGGTTTTAAAGTTAA-GGTTTTGGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTT-AAGTTAAGGGTTTAAGGTT
* * * * *
43138194 TTTAGGTTAAGGGTTAGGATTTTTAGGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGG-GTTTTAAGTTAAGGGTTTAAGGTT
* * * *
43138237 TTT-ACTTTAGGGCTAGGGTTTTTAAGTTAAGGGTTCAAGG-T
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
* *
43138278 TTTAAGTTAAGGGTTTATGGTTTTAAAGTTAA-GGTTTAGGGTT
1 TTTAAGTTAAGGG-TTAGGGTTTT-AAGTTAAGGGTTTAAGGTT
* *
43138321 TTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGG-TTAAGGGTT
1 TTTAAGTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAA-GGTT
* * *
43138364 TTTAATTTAAGGGCTAGAGTTTCTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTAGGGTTT-TAAGTTAAGGGTTTAAGGTT
*
43138407 TTTAGGTTAAGGGTCTAGGGTTTTAACGTTAA-GGTTTAAGGTT
1 TTTAAGTTAAGGGT-TAGGGTTTTAA-GTTAAGGGTTTAAGGTT
* * *
43138450 TTTAGGTTAAGGGTTAGGGTTTTAAAGTTAATGG-TTAGGGTTTT
1 TTTAAGTTAAGGGTTAGGGTTTT-AAGTTAAGGGTTTAAGG--TT
* * *
43138494 TTGGGTAAGAATTTAGGGTTAGGGTTTTTAGGTTAAAGGTTT-AGTGTT
1 TT---TAAG--TTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAAG-GTT
* * * * *
43138542 TTAAAGTTAAGGGTTAATGTTTTTAGGTTAAAGGG-TTAAGGGT
1 TTTAAGTTAAGGGTT-AGGGTTTTAAGTT-AAGGGTTTAAGGTT
*
43138585 TTTAAGTTAAGGGTGAGGATTAGGGTTTTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAA----G-GG-TTAGGG-TTTTAAGTTAAGGGTTTAAGGTT
43138634 T
1 T
43138635 GTGAATTAAA
Statistics
Matches: 709, Mismatches: 107, Indels: 102
0.77 0.12 0.11
Matches are distributed among these distances:
41 4 0.01
42 162 0.23
43 397 0.56
44 79 0.11
45 3 0.00
47 4 0.01
48 13 0.02
49 40 0.06
50 7 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (42 bp):
TTTAAGTTAAGGGTTAGGGTTTTAAGTTAAGGGTTTAAGGTT
Found at i:43137952 original size:129 final size:129
Alignment explanation
Indices: 43137722--43138634 Score: 1086
Period size: 129 Copynumber: 7.0 Consensus size: 129
43137712 TCAAATTATA
* * * *
43137722 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTAAAGTTAAGAGTATAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
* *
43137787 TTAAAGTTAAGGGTTTAAGG-TTTTAGGTTAAGGGTTAGGGTTTTTAGGTTTAGGGTTTAGGGGT
66 TTAAAGTTAA-GGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
* * * * *
43137851 TTTAATTTAAGAGTTAGGGTTTTTAAGTTAACGATTTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
* * *
43137916 TTAAAGTTATGGTTTAAGGTTTTTAGGTTAAGGGTTAGTGTTTTTAGGTTAAGGGTTTAGAGTT
66 TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
* * * *
43137980 TTTAATTTAATGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTTTTTATGTTAAAGGTCTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
* * * * * * *
43138044 CTAAAATTAAGGTTTAGGGTTTTCAGGTTAAGGGTTAGGGTGTTTAGGTTAAGTGTTTAAGGTT
66 TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
* * * *
43138108 TTTAATTTAAGGATTGGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTCTAAGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
** * *
43138173 TTAAAGTTAAGGTTTTGGGTTTTTAGGTTAAGGGTTAGGATTTTTAGGTTAAGAGTTTAGGGTT
66 TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
* * * * *
43138237 TTTACTTT-AGGGCTAGGGTTTTTAAGTTAAGGGTTCAAGG-TTTTAAGTTAAGGGTTTATGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
* *
43138300 TTAAAGTTAAGGTTTAGGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTAAGGGTT
66 TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
* * * *
43138364 TTTAATTTAAGGGCTAGAGTTTCTAAGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTCTAGGGTT
1 TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
* * * *
43138429 TTAACGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTAAAGTTAATGG-TTAGGGTTT
66 TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGG--T
43138493 T
129 T
* * *
43138494 TTGGGTAAGAATTT-AGGGTTAGGGTTTTTAGGTTAAAGGTTT-AGTGTTTTAAAGTTAAGGGT-
1 TT---T---AATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAG-GTTTTTAAGTTAAGGGTC
** * * * * *
43138556 TAATGTTTTTAGGTTAAAGGGTTAAGGGTTTTAAGTTAAGGGTGAGGATTAGGGTTTTTAGGTTA
59 TAGGGTTTTAAAGTT-AAGGTTTAAGGTTTTTAGGTTAA----G-GG-TTAGGGTTTTTAGGTTA
*
43138621 AGGGTTTAAGGTT
117 AGGGTTTAGGGTT
43138634 T
1 T
43138635 GTGAATTAAA
Statistics
Matches: 676, Mismatches: 87, Indels: 31
0.85 0.11 0.04
Matches are distributed among these distances:
127 88 0.13
128 180 0.27
129 298 0.44
130 4 0.01
133 1 0.00
134 13 0.02
135 58 0.09
136 5 0.01
139 1 0.00
140 5 0.01
141 18 0.03
142 5 0.01
ACGTcount: A:0.25, C:0.01, G:0.31, T:0.44
Consensus pattern (129 bp):
TTTAATTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTCTAGGGTT
TTAAAGTTAAGGTTTAAGGTTTTTAGGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTAGGGTT
Found at i:43139840 original size:7 final size:7
Alignment explanation
Indices: 43139830--43139960 Score: 262
Period size: 7 Copynumber: 18.7 Consensus size: 7
43139820 TTATATACAT
43139830 AATACTA
1 AATACTA
43139837 AATACTA
1 AATACTA
43139844 AATACTA
1 AATACTA
43139851 AATACTA
1 AATACTA
43139858 AATACTA
1 AATACTA
43139865 AATACTA
1 AATACTA
43139872 AATACTA
1 AATACTA
43139879 AATACTA
1 AATACTA
43139886 AATACTA
1 AATACTA
43139893 AATACTA
1 AATACTA
43139900 AATACTA
1 AATACTA
43139907 AATACTA
1 AATACTA
43139914 AATACTA
1 AATACTA
43139921 AATACTA
1 AATACTA
43139928 AATACTA
1 AATACTA
43139935 AATACTA
1 AATACTA
43139942 AATACTA
1 AATACTA
43139949 AATACTA
1 AATACTA
43139956 AATAC
1 AATAC
43139961 CAATCGACTA
Statistics
Matches: 124, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 124 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:43140166 original size:20 final size:20
Alignment explanation
Indices: 43140129--43140166 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43140119 TTTATTTTTA
*
43140129 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
43140149 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
43140167 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:43141178 original size:11 final size:11
Alignment explanation
Indices: 43141178--43141239 Score: 90
Period size: 11 Copynumber: 5.6 Consensus size: 11
43141168 GAGAGAAATT
43141178 TTGA-AGGAAA
1 TTGAGAGGAAA
43141188 TTGAGAGGAAA
1 TTGAGAGGAAA
43141199 TTGAGAGGAAA
1 TTGAGAGGAAA
* *
43141210 TTCAGAAGAAA
1 TTGAGAGGAAA
43141221 TTGAGAGGAAA
1 TTGAGAGGAAA
43141232 TTTGAGAG
1 -TTGAGAG
43141240 AGGATTAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.09
11 35 0.76
12 7 0.15
ACGTcount: A:0.45, C:0.02, G:0.32, T:0.21
Consensus pattern (11 bp):
TTGAGAGGAAA
Found at i:43141186 original size:51 final size:51
Alignment explanation
Indices: 43141105--43141202 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
43141095 AATTATTTAA
* *
43141105 AAATAGGGATTTAAGAGAAATTTAAGAGGAACTTTAGAGCAAATTGAAAAT
1 AAATAGGGATTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAATTGAAAAT
* * * *
43141156 AAATATGGATTTGAGAGAAATTT-TGAAGGAAATTGAGAGGAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAAG-AGGAAATTGAGAGCAAATTGA
43141203 GAGGAAATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 1 0.03
51 39 0.98
ACGTcount: A:0.47, C:0.02, G:0.24, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAGGAAATTGAGAGCAAATTGAAAAT
Found at i:43141191 original size:22 final size:21
Alignment explanation
Indices: 43141166--43141240 Score: 89
Period size: 22 Copynumber: 3.4 Consensus size: 21
43141156 AAATATGGAT
43141166 TTGAGAGAAATTTTGA-AGGAAA
1 TTGAGAGAAA--TTGAGAGGAAA
43141188 TTGAGAGGAAATTGAGAGGAAA
1 TTGAGA-GAAATTGAGAGGAAA
*
43141210 TTCAGAAGAAATTGAGAGGAAA
1 TTGAG-AGAAATTGAGAGGAAA
43141232 TTTGAGAGA
1 -TTGAGAGA
43141241 GGATTAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.09
22 34 0.72
23 9 0.19
ACGTcount: A:0.45, C:0.01, G:0.31, T:0.23
Consensus pattern (21 bp):
TTGAGAGAAATTGAGAGGAAA
Found at i:43141203 original size:33 final size:33
Alignment explanation
Indices: 43141164--43141240 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
43141154 ATAAATATGG
**
43141164 ATTTGAGAGAAATTTTGAAGGAAATTGAGAGGAA
1 ATTTGAGAGAAATTCAGAA-GAAATTGAGAGGAA
43141198 A-TTGAGAGGAAATTCAGAAGAAATTGAGAGGAA
1 ATTTGAGA-GAAATTCAGAAGAAATTGAGAGGAA
43141231 ATTTGAGAGA
1 ATTTGAGAGA
43141241 GGATTAGTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
33 23 0.59
34 16 0.41
ACGTcount: A:0.45, C:0.01, G:0.30, T:0.23
Consensus pattern (33 bp):
ATTTGAGAGAAATTCAGAAGAAATTGAGAGGAA
Found at i:43143521 original size:48 final size:48
Alignment explanation
Indices: 43143465--43143632 Score: 120
Period size: 48 Copynumber: 3.6 Consensus size: 48
43143455 TAAATACAAG
43143465 TTGTTCTAAACAATGA-TTGTTCTAAACATAACTATTCCCAGAACACTA
1 TTGTTCTAAACAATGAGTTGTTCTAAACATAACTATT-CCAGAACACTA
* * * * ** *
43143513 TTGTTCTAAA-AAAGAGTTGTT-TCAAACTTTAATTGTT--ATTACA-AA
1 TTGTTCTAAACAATGAGTTGTTCT-AAAC-ATAACTATTCCAGAACACTA
*
43143558 TTGTTCTAAACAATGA-TTGTTCTAAATATAACTATTCTC-GAAACACTA
1 TTGTTCTAAACAATGAGTTGTTCTAAACATAACTATTC-CAG-AACACTA
* * * *
43143606 TTATTCTAAATAA-GATTTGTTTTAAAC
1 TTGTTCTAAACAATGAGTTGTTCTAAAC
43143633 TTTAGTTGTT
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
44 6 0.07
45 19 0.21
46 9 0.10
47 10 0.11
48 40 0.44
49 6 0.07
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (48 bp):
TTGTTCTAAACAATGAGTTGTTCTAAACATAACTATTCCAGAACACTA
Found at i:43143626 original size:93 final size:93
Alignment explanation
Indices: 43143459--43143695 Score: 300
Period size: 93 Copynumber: 2.5 Consensus size: 93
43143449 TTACTCTAAA
* * * *
43143459 TACAAGTTGTTCTAAACAATGATTGTTCTAAACATAACTATTC-CCAGAACACTATTGTTCTAAA
1 TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGA-AACACTATTATTCTAAA
43143523 AAAGAGTTGTTTCAAACTTTAATTGTTAT
65 AAAGAGTTGTTTCAAACTTTAATTGTTAT
*
43143552 TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAT
1 TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
* * *
43143617 AAGATTTGTTTTAAACTTTAGTTGTTAT
66 AAGAGTTGTTTCAAACTTTAATTGTTAT
* * *
43143645 AACTAAAGTCCTGTTCTAAAC-AT-ATCTATTCTAGATATAACTATTCTCGAA
1 TAC-AAA-T--TGTTCTAAACAATGAT-TGTTCTAAATATAACTATTCTCGAA
43143696 CAACAGTTGT
Statistics
Matches: 127, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
93 84 0.66
94 5 0.04
95 3 0.02
96 25 0.20
97 10 0.08
ACGTcount: A:0.37, C:0.15, G:0.09, T:0.39
Consensus pattern (93 bp):
TACAAATTGTTCTAAACAATGATTGTTCTAAATATAACTATTCTCGAAACACTATTATTCTAAAA
AAGAGTTGTTTCAAACTTTAATTGTTAT
Found at i:43145406 original size:23 final size:22
Alignment explanation
Indices: 43145379--43146002 Score: 268
Period size: 23 Copynumber: 26.8 Consensus size: 22
43145369 ACTACATATT
43145379 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
43145402 ACAAAATAT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
*
43145425 ACAAAATTT-GACAGCATTGATTC
1 AC-AAATTTGGACAGCATT-ATAC
* * * *
43145448 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCAT-TATAC
*
43145472 ACAGATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* *
43145495 ACAAAATAT-AACAGCATGTATGTAC
1 AC-AAATTTGGACAGCAT-TA--TAC
* *
43145520 A-AAATTT-GACAGCATTGCTTC
1 ACAAATTTGGACAGCATT-ATAC
* * *
43145541 ACCAAAATTGGGCAGCATACATAC
1 A-CAAATTTGGACAGCAT-TATAC
43145565 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* *
43145588 ACAAAATTT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
* *
43145611 ACAAAATTGGACAGCATTGATTC
1 ACAAATTTGGACAGCATT-ATAC
* * * *
43145634 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCAT-TATAC
43145658 ACAAATTTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
43145681 ACAATATAT-AACAGCATGTATAT
1 ACAA-ATTTGGACAGCAT-TATAC
* *
43145704 ACAAAATTGGACAACATTTATTCAC
1 ACAAATTTGGACAGCA-TTA-T-AC
* * *
43145729 CCAAAATTAGG-CAGCATACATAC
1 AC-AAATTTGGACAGCAT-TATAC
43145752 ACAAATTTGGACAGCATTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
43145775 ACAAAATTT-AACAGCATGTACAT
1 AC-AAATTTGGACAGCAT-TATAC
* *
43145798 ACAAAATTGGACAGCATTGATTC
1 ACAAATTTGGACAGCATT-ATAC
* * * *
43145821 ACCAAAATTGGGCAGCATACATAT
1 A-CAAATTTGGACAGCAT-TATAC
*
43145845 ACAAAATTGGACAGCACTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* * *
43145868 ACAAAATAT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
43145891 ACAAAATTT-GACAGCATTTATTCAC
1 AC-AAATTTGGACAGCA-TTA-T-AC
* * *
43145916 CCAAAATTAGG-CAGCATACATAC
1 AC-AAATTTGGACAGCAT-TATAC
43145939 ACAAATTTGGACAGCATTTATAC
1 ACAAATTTGGACAGCA-TTATAC
* *
43145962 ACAAAATTT-AACAGCATGTATAT
1 AC-AAATTTGGACAGCAT-TATAC
43145985 ACAAAATTT-GACAGCATT
1 AC-AAATTTGGACAGCATT
43146003 GATTTATCAA
Statistics
Matches: 456, Mismatches: 93, Indels: 105
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.01
22 38 0.08
23 278 0.61
24 105 0.23
25 25 0.05
26 7 0.02
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.26
Consensus pattern (22 bp):
ACAAATTTGGACAGCATTATAC
Found at i:43145487 original size:93 final size:93
Alignment explanation
Indices: 43145371--43146032 Score: 1072
Period size: 93 Copynumber: 7.1 Consensus size: 93
43145361 CTAACTATAC
43145371 TACATATTACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
1 TACATA-TACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGA
43145436 CAGCATTGATTCACCAAAATTGGGCAGCA
65 CAGCATTGATTCACCAAAATTGGGCAGCA
* *
43145465 TACATATACAGATTTGGACAGCACTTATACACAAAATATAACAGCATGTATGTACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
*
43145530 AGCATTGCTTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* * *
43145558 TACATACACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
43145623 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
* *
43145651 TACATATACAAATTTGGACAGCACTTATACACAATATATAACAGCATGTATATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* * *
43145716 AACATTTATTCACCCAAAATTAGGCAGCA
66 AGCATTGATTCA-CCAAAATTGGGCAGCA
* * * * *
43145745 TACATACACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTACATACAAAATTGGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
43145810 AGCATTGATTCACCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
*
43145838 TACATATACAAAATTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* *
43145903 AGCATTTATTCACCCAAAATTAGGCAGCA
66 AGCATTGATTCA-CCAAAATTGGGCAGCA
* * *
43145932 TACATACACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTTGAC
1 TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
* *
43145997 AGCATTGATTTATCAAAATTGGGCAGCA
66 AGCATTGATTCACCAAAATTGGGCAGCA
*
43146025 TACCTATA
1 TACATATA
43146033 ACAATTGGGC
Statistics
Matches: 525, Mismatches: 41, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
93 348 0.66
94 177 0.34
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (93 bp):
TACATATACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGAC
AGCATTGATTCACCAAAATTGGGCAGCA
Found at i:43145820 original size:187 final size:187
Alignment explanation
Indices: 43145379--43146032 Score: 1139
Period size: 187 Copynumber: 3.5 Consensus size: 187
43145369 ACTACATATT
* *
43145379 ACAAATTTGGACAGCACTTATACACAAAATATAACAGCATGTATATACAAAATTTGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
*
43145444 ATTCACCAAAATTGGGCAGCATACATATACAGATTTGGACAGCACTTATACACAAAATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
* ** *
43145509 CATGTATGTACAAAATTTGACAGCATTGCTTCA-CCAAAATTGGGCAGCATACATAC
131 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
43145565 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
*
43145630 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAATATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
* *
43145695 CATGTATATACAAAATTGGACAACATTTATTCACCCAAAATTAGGCAGCATACATAC
131 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
* *
43145752 ACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTACATACAAAATTGGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
*
43145817 ATTCACCAAAATTGGGCAGCATACATATACAAAATTGGACAGCACTTATACACAAAATATAACAG
66 ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
43145882 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
131 CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
* *
43145939 ACAAATTTGGACAGCATTTATACACAAAATTTAACAGCATGTATATACAAAATTTGACAGCATTG
1 ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
* * *
43146004 ATTTATCAAAATTGGGCAGCATACCTATA
66 ATTCACCAAAATTGGGCAGCATACATATA
43146033 ACAATTGGGC
Statistics
Matches: 446, Mismatches: 21, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
186 154 0.35
187 292 0.65
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (187 bp):
ACAAATTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATACAAAATTGGACAGCATTG
ATTCACCAAAATTGGGCAGCATACATATACAAATTTGGACAGCACTTATACACAAAATATAACAG
CATGTATATACAAAATTTGACAGCATTTATTCACCCAAAATTAGGCAGCATACATAC
Found at i:43146803 original size:28 final size:28
Alignment explanation
Indices: 43146771--43146936 Score: 181
Period size: 28 Copynumber: 6.0 Consensus size: 28
43146761 ATTTAATAAG
43146771 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
43146799 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
** ** *
43146827 CTCGCACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
* * * *
43146855 CTTGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
* * ** *
43146883 CTCACGCACTTAGTGCTTTATAATTAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
* *
43146911 TTCGCACACTTAGTG-TCAAAAATCAA
1 CTCGCACACTTAGTGCTCAATAATCAA
43146937 CAACTCAATA
Statistics
Matches: 118, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 7 0.06
28 111 0.94
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCAATAATCAAA
Found at i:43146832 original size:56 final size:56
Alignment explanation
Indices: 43146771--43146936 Score: 208
Period size: 56 Copynumber: 3.0 Consensus size: 56
43146761 ATTTAATAAG
** * *
43146771 CTCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAAA
** * * * *
43146827 CTCGCACACTTAGTGCTTTACCATTAAACTTGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAAA
* * *
43146883 CTCACGCACTTAGTGCTTTATAATTAAATTCGCACACTTAGTG-TCAAAAATCAA
1 CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAA
43146937 CAACTCAATA
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
55 8 0.09
56 84 0.91
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (56 bp):
CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAAA
Found at i:43147565 original size:40 final size:40
Alignment explanation
Indices: 43147520--43147602 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
43147510 CAATGGCACA
*
43147520 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATGGGT
1 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
43147560 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
1 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
43147600 TTT
1 TTT
43147603 GAAGTATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (40 bp):
TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
Found at i:43147961 original size:28 final size:28
Alignment explanation
Indices: 43147929--43148094 Score: 181
Period size: 28 Copynumber: 6.0 Consensus size: 28
43147919 ATTTAATAAG
43147929 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
43147957 CTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
** ** *
43147985 CTCGCACACTTAGTGCTTTACCATTAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
* * * *
43148013 CTTGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
* * ** *
43148041 CTCACGCACTTAGTGCTTTATAATTAAA
1 CTCGCACACTTAGTGCTCAATAATCAAA
* *
43148069 TTCGCACACTTAGTG-TCAAAAATCAA
1 CTCGCACACTTAGTGCTCAATAATCAA
43148095 CAACTCAATA
Statistics
Matches: 118, Mismatches: 20, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
27 7 0.06
28 111 0.94
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (28 bp):
CTCGCACACTTAGTGCTCAATAATCAAA
Found at i:43147991 original size:56 final size:56
Alignment explanation
Indices: 43147929--43148094 Score: 208
Period size: 56 Copynumber: 3.0 Consensus size: 56
43147919 ATTTAATAAG
** * *
43147929 CTCGCACACTTAGTGCTCAATAATCAAACTCGCACACTTAGTGCTCAATAATCAAA
1 CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAAA
** * * * *
43147985 CTCGCACACTTAGTGCTTTACCATTAAACTTGCACACTTAGTGCTCTACAATTAAA
1 CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAAA
* * *
43148041 CTCACGCACTTAGTGCTTTATAATTAAATTCGCACACTTAGTG-TCAAAAATCAA
1 CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAA
43148095 CAACTCAATA
Statistics
Matches: 92, Mismatches: 18, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
55 8 0.09
56 84 0.91
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.30
Consensus pattern (56 bp):
CTCGCACACTTAGTGCTTTATAATTAAACTCGCACACTTAGTGCTCAAAAATCAAA
Found at i:43148723 original size:40 final size:40
Alignment explanation
Indices: 43148678--43148760 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
43148668 CAATGGCACA
*
43148678 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATGGGT
1 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
43148718 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
1 TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
43148758 TTT
1 TTT
43148761 GAAGTATTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.45, C:0.14, G:0.08, T:0.33
Consensus pattern (40 bp):
TTTCAAAATCATCAAAAATTCTCAAAATTAAGACATAGGT
Found at i:43158426 original size:28 final size:28
Alignment explanation
Indices: 43158386--43158442 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
43158376 ATTTAACCGA
43158386 TAATTTATTTTGGTAAGCTAAAGATCGC
1 TAATTTATTTTGGTAAGCTAAAGATCGC
43158414 TAATTTATTTTGGTAAGCTAAAGATCGC
1 TAATTTATTTTGGTAAGCTAAAGATCGC
43158442 T
1 T
43158443 CACCGCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.40
Consensus pattern (28 bp):
TAATTTATTTTGGTAAGCTAAAGATCGC
Found at i:43161005 original size:41 final size:41
Alignment explanation
Indices: 43160919--43161179 Score: 215
Period size: 41 Copynumber: 6.4 Consensus size: 41
43160909 GTTTTTAAAC
* * * * *
43160919 CTTTAGCGGCGTTTTTATTTTAGTGCCACTAAT-TCTCCGAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGT
* *
43160960 CTTTAGCGGTGTTTTTATCTGAGCGCCACTAATGTTCTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTGGT
* * * * *
43161001 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTAT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTG-GT
* * * * *
43161042 CATTAGTGGCGTTATTGTCTGAGCGCCACTAAT-TCTCTGTT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGT
* * * *
43161083 CTTTAGCGGCGTTTTTTTCTAAGCGCCCCTAAAGTTC-GTGT
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTG-GT
* ** ** *
43161124 TTTTAATGGCGTTTTTATCTGAGCGCCACTAATACTCTGGC
1 CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTGGT
43161165 CTTTAGCGGCGTTTT
1 CTTTAGCGGCGTTTT
43161180 ATATGTAAGT
Statistics
Matches: 171, Mismatches: 42, Indels: 14
0.75 0.19 0.06
Matches are distributed among these distances:
40 2 0.01
41 165 0.96
42 4 0.02
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.40
Consensus pattern (41 bp):
CTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTGGT
Found at i:43161066 original size:82 final size:81
Alignment explanation
Indices: 43160918--43161201 Score: 309
Period size: 82 Copynumber: 3.5 Consensus size: 81
43160908 GGTTTTTAAA
* * * * * * *
43160918 CCTTTAGCGGCGTTTTTATTTTAGTGCCACTAATTCTCCG-ATCTTTAGCGGTGTTTTTATCTGA
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCT-CGTATCTTTAGTGGCGTTTTTATCTGA
43160982 GCGCCACTAATGTTCTGG
65 GCGCCACTAAT-TTCTGG
* * * *
43161000 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTATTGTCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
43161065 CGCCACTAATTCTCTGT
66 CGCCACTAATT-TCTGG
* * * * * * * *
43161082 TCTTTAGCGGCGTTTTTTTCTAAGCGCCCCTAAAGTTCGTGTTTTTAATGGCGTTTTTATCTGAG
1 CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
*
43161147 CGCCACTAATACTCTGG
66 CGCCACTAAT-TTCTGG
* *
43161164 CCTTTAGCGGCGTTTTATATGTAAGTGCCGCTAATGCT
1 CCTTTAGCGGCGTTTT-TATCTAAGCGCCGCTAATGCT
43161202 ACCTTTAGCG
Statistics
Matches: 166, Mismatches: 32, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
81 3 0.02
82 148 0.89
83 15 0.09
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.39
Consensus pattern (81 bp):
CCTTTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCTTTAGTGGCGTTTTTATCTGAG
CGCCACTAATTTCTGG
Found at i:43161176 original size:123 final size:123
Alignment explanation
Indices: 43160917--43161181 Score: 275
Period size: 123 Copynumber: 2.2 Consensus size: 123
43160907 CGGTTTTTAA
* * * * * *
43160917 ACCTTTAGCGGCGTTTTTATTTTAGTGCCACTAATTCTCCGATCTTTAGCGGTGTTTTTATCTGA
1 ACCTTTAGCGGCGTTATTATCTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
* * * * *
43160982 GCGCCACTAATGTTCTGGCCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGT
66 GCGCCACTAAAGTTCTGGCCTTTAACGGCGTTTTTATCTAAGCGCCACTAATACTCGT
* * * * * * *
43161040 ATCATTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTCTGTTCTTTAGCGGCGTTTTTTTCTAA
1 ACCTTTAGCGGCGTTATTATCTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
* ** * *
43161105 GCGCCCCTAAAGTTC-GTGTTTTTAATGGCGTTTTTATCTGAGCGCCACTAATACTC-T
66 GCGCCACTAAAGTTCTG-GCCTTTAACGGCGTTTTTATCTAAGCGCCACTAATACTCGT
*
43161162 GGCCTTTAGCGGCGTT-TTAT
1 -ACCTTTAGCGGCGTTATTAT
43161182 ATGTAAGTGC
Statistics
Matches: 112, Mismatches: 28, Indels: 5
0.77 0.19 0.03
Matches are distributed among these distances:
122 5 0.04
123 107 0.96
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.40
Consensus pattern (123 bp):
ACCTTTAGCGGCGTTATTATCTGAGCGCCACTAATTCTCCGATCTTTAGCGGCGTTTTTATCTAA
GCGCCACTAAAGTTCTGGCCTTTAACGGCGTTTTTATCTAAGCGCCACTAATACTCGT
Found at i:43163498 original size:8 final size:10
Alignment explanation
Indices: 43163475--43163512 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
43163465 ATATTTTTAC
43163475 ATATATATGG
1 ATATATATGG
*
43163485 ATATATATGA
1 ATATATATGG
43163495 ATATATATGG
1 ATATATATGG
43163505 ATATATAT
1 ATATATAT
43163513 ATAGTTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (10 bp):
ATATATATGG
Found at i:43163498 original size:20 final size:20
Alignment explanation
Indices: 43163475--43163512 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
43163465 ATATTTTTAC
43163475 ATATATATGGATATATATGA
1 ATATATATGGATATATATGA
43163495 ATATATATGGATATATAT
1 ATATATATGGATATATAT
43163513 ATAGTTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (20 bp):
ATATATATGGATATATATGA
Found at i:43163621 original size:27 final size:27
Alignment explanation
Indices: 43163580--43163631 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
43163570 AATAAACAAA
* *
43163580 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
43163607 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
43163632 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:43165595 original size:34 final size:34
Alignment explanation
Indices: 43165546--43165634 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 34
43165536 ATTTGGAAGG
43165546 CTTTTCGGCTATCTTGTGTAAGTTATATGG-GCAC
1 CTTTTCGGCTATCTTGTGTAAGTTATATGGTG-AC
* * * *
43165580 CTTTGT-GGCTATCTTGAGTAAGTTTTGTGGTGGC
1 CTTT-TCGGCTATCTTGTGTAAGTTATATGGTGAC
43165614 CTTTTCGGCTATCTTGTGTAA
1 CTTTTCGGCTATCTTGTGTAA
43165635 TAGAGGGAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
33 1 0.02
34 44 0.94
35 2 0.04
ACGTcount: A:0.15, C:0.16, G:0.26, T:0.44
Consensus pattern (34 bp):
CTTTTCGGCTATCTTGTGTAAGTTATATGGTGAC
Found at i:43174337 original size:71 final size:71
Alignment explanation
Indices: 43173982--43174337 Score: 421
Period size: 71 Copynumber: 5.0 Consensus size: 71
43173972 ATGGAATATC
* * * * * *
43173982 AGCTGAGAGCGTATGCTTGCGCTAACTATTTTTGGAAGTTACGGTATTAAACCTATGAGCCTTAA
1 AGCTGAGAGCGTAGGCTCGCGCTAACTA-TTTTGGAGGCTACGGTATTGAACCTACGAGCCTTAA
*
43174047 GATATTC
65 GATATTT
* * * * ** *
43174054 AGCTGAGAGCGTAGGCTCGCGCTAATTTTTTTGGAGGCTACGGTATTAAACTTGTGAGCCTTAAA
1 AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTACGAGCCTTAAG
*
43174119 ATATTC
66 ATATTT
* * * ** *
43174125 AGCTGAGAGAGTAGGCTCGCGCTAACTATTTTGGAGGTTGCGGGGTTGAGCTCTTA--AGCCTTA
1 AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAAC-C-TACGAGCCTTA
43174188 AGATATTT
64 AGATATTT
* *
43174196 AGAT-AGAAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAATCTACGAGCCTTAA
1 AGCTGAG-AGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTACGAGCCTTAA
43174260 GATATTT
65 GATATTT
* * *
43174267 TGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTGCAGTATTGAACCTACGAGCCTTAAG
1 AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTACGAGCCTTAAG
43174332 ATATTT
66 ATATTT
43174338 CCAAGTACAA
Statistics
Matches: 243, Mismatches: 35, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
69 2 0.01
70 3 0.01
71 211 0.87
72 26 0.11
73 1 0.00
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (71 bp):
AGCTGAGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTACGGTATTGAACCTACGAGCCTTAAG
ATATTT
Found at i:43176353 original size:16 final size:16
Alignment explanation
Indices: 43176332--43176383 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
43176322 TTTGCTTCGC
*
43176332 TGTATTAGATTAGATG
1 TGTATTAGATTAGAGG
*
43176348 TGTATTGGATTAGAGG
1 TGTATTAGATTAGAGG
* * *
43176364 TGTAATGGAATAGAGG
1 TGTATTAGATTAGAGG
43176380 TGTA
1 TGTA
43176384 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.37
Consensus pattern (16 bp):
TGTATTAGATTAGAGG
Found at i:43176384 original size:16 final size:16
Alignment explanation
Indices: 43176342--43176385 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
43176332 TGTATTAGAT
* * *
43176342 TAGATGTGTATTGGAT
1 TAGAGGTGTAATGGAA
43176358 TAGAGGTGTAATGGAA
1 TAGAGGTGTAATGGAA
43176374 TAGAGGTGTAAT
1 TAGAGGTGTAAT
43176386 AGCAAATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TAGAGGTGTAATGGAA
Found at i:43176636 original size:16 final size:16
Alignment explanation
Indices: 43176599--43176640 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
43176589 TTAATCATAT
*
43176599 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
43176615 TT-AAATATATTATAA
1 TTAAAATATATTATAA
43176630 TTAAAATATAT
1 TTAAAATATAT
43176641 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:43176647 original size:14 final size:15
Alignment explanation
Indices: 43176608--43176649 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
43176598 TTTAAACATA
*
43176608 ATTATTATTAAATAT
1 ATTATAATTAAATAT
43176623 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
43176637 A-TATAATTTAATA
1 ATTATAATTAAATA
43176650 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:43176756 original size:120 final size:108
Alignment explanation
Indices: 43176712--43176909 Score: 199
Period size: 105 Copynumber: 1.8 Consensus size: 108
43176702 GATACTATAA
* * *
43176712 AATATAATTTAAAATAATTAATATTAAATATATTTTAAGTAAAATATATGATTTATTAAAA-T-T
1 AATATAATTTAAAATAATTATTATTAAATATATTTTAA-TAAAATATATAATTTAATAAAATTCT
* * * *
43176775 TAA-AATAATTATACTTA-ATAAATTTTCTTATATGAATTTGTAT
65 TAATAATAA-TATTCTTATATGAATTTACTAATATGAATTTGTAT
* ** * *
43176818 AATTTAAAAT-AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATAAAATTCT
1 AATATAATTTAAAATAATTATTATTAAATATATTTTAATAA-AATATATAATTTAATAAAATTCT
* *
43176882 TGATAATAAATTTTCTTATATGAATTTA
65 TAATAAT-AATATTCTTATATGAATTTA
43176910 TATAATTTAA
Statistics
Matches: 73, Mismatches: 13, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
104 3 0.04
105 41 0.56
106 8 0.11
107 3 0.04
108 9 0.12
109 9 0.12
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (108 bp):
AATATAATTTAAAATAATTATTATTAAATATATTTTAATAAAATATATAATTTAATAAAATTCTT
AATAATAATATTCTTATATGAATTTACTAATATGAATTTGTAT
Found at i:43176894 original size:95 final size:91
Alignment explanation
Indices: 43176790--43176961 Score: 281
Period size: 91 Copynumber: 1.8 Consensus size: 91
43176780 TAATTATACT
* *
43176790 TAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAAATAATTATTATTAAATATAATTTAA
1 TAATAAATTTTCTTATATGAATTTATATAATTT---A-AAATAATTAATATTAAATATAATTTAA
43176855 TAATAATATATAATTTCATAAAATTCTTGA
62 TAATAATATATAATTTCATAAAATTCTTGA
43176885 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
1 TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
*
43176950 GATATATAATTT
66 AATATATAATTT
43176962 ATACATTTAA
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
91 41 0.55
92 1 0.01
95 32 0.43
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (91 bp):
TAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAATTTAATAAT
AATATATAATTTCATAAAATTCTTGA
Found at i:43176956 original size:44 final size:43
Alignment explanation
Indices: 43176828--43176962 Score: 121
Period size: 44 Copynumber: 3.0 Consensus size: 43
43176818 AATTTAAAAT
*
43176828 AAATAATTATTATTAAATATAATTTAATAATAATATATAATTTCATA
1 AAATAATTAATATTAAATATAATTTAATAAT-ATATATAA-TT--TA
** * * * *
43176875 AAATTCTTGATAATAAAT-T-TTCTTATATGAATTTATATAATTTA
1 AAATAATTAATATTAAATATAAT-TTA-AT-AATATATATAATTTA
43176919 AAATAATTAATATTAAATATAATTTAATAATGATATATAATTTA
1 AAATAATTAATATTAAATATAATTTAATAAT-ATATATAATTTA
43176963 TACATTTAAC
Statistics
Matches: 69, Mismatches: 13, Indels: 15
0.71 0.13 0.15
Matches are distributed among these distances:
43 3 0.04
44 29 0.42
45 5 0.07
46 7 0.10
47 22 0.32
48 3 0.04
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (43 bp):
AAATAATTAATATTAAATATAATTTAATAATATATATAATTTA
Found at i:43177980 original size:17 final size:17
Alignment explanation
Indices: 43177958--43177993 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43177948 GCACCTAATA
43177958 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
43177975 TAACTCATATTTCAAAT
1 TAACTCATATTTCAAAT
43177992 TA
1 TA
43177994 CAGCAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (17 bp):
TAACTCATATTTCAAAT
Found at i:43179800 original size:27 final size:27
Alignment explanation
Indices: 43179764--43179821 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
43179754 CCACTGCTGT
* *
43179764 TGATGTTGTTGCTGTTGCAGATGATGA
1 TGATGTTGTTGCTGTTGAAAATGATGA
*
43179791 TGATGTTGTTGTTGTTGAAAATGATGA
1 TGATGTTGTTGCTGTTGAAAATGATGA
43179818 TGAT
1 TGAT
43179822 TCTGCACCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.03, G:0.31, T:0.43
Consensus pattern (27 bp):
TGATGTTGTTGCTGTTGAAAATGATGA
Found at i:43185008 original size:18 final size:19
Alignment explanation
Indices: 43184974--43185014 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
43184964 ATCATTTTAG
43184974 ATTTTAAATTAATTTTCAA
1 ATTTTAAATTAATTTTCAA
43184993 ATTTT-AATATAA-TTTCAA
1 ATTTTAAAT-TAATTTTCAA
43185011 ATTT
1 ATTT
43185015 CAGAATCCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTAAATTAATTTTCAA
Found at i:43186504 original size:16 final size:16
Alignment explanation
Indices: 43186468--43186499 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
43186458 AATATTTTTG
43186468 ATAAATGTTATATATT
1 ATAAATGTTATATATT
43186484 ATAAAT-TT-TATATT
1 ATAAATGTTATATATT
43186498 AT
1 AT
43186500 TTAAACCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAAATGTTATATATT
Found at i:43191726 original size:12 final size:12
Alignment explanation
Indices: 43191709--43191735 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43191699 GGGGTTGAAT
43191709 GAAGAAAAAGAA
1 GAAGAAAAAGAA
43191721 GAAGAAAAAGAA
1 GAAGAAAAAGAA
43191733 GAA
1 GAA
43191736 TGGAGGGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
GAAGAAAAAGAA
Found at i:43192026 original size:38 final size:38
Alignment explanation
Indices: 43191951--43192026 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 38
43191941 TGATAAACAC
* *
43191951 GCTTTGGGGGGGAAATAGGGTAAAGTAAAAGGGTTGGG
1 GCTTTGGGGAGGAAATAGGGTAAAGTAAAAGAGTTGGG
* *
43191989 GCTTT-GGGAGGAAATGGGGTAAAGTAAAAAGATTTGGG
1 GCTTTGGGGAGGAAATAGGGTAAAGT-AAAAGAGTTGGG
43192027 TATAGGGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 18 0.55
38 15 0.45
ACGTcount: A:0.32, C:0.03, G:0.43, T:0.22
Consensus pattern (38 bp):
GCTTTGGGGAGGAAATAGGGTAAAGTAAAAGAGTTGGG
Found at i:43193255 original size:20 final size:21
Alignment explanation
Indices: 43193206--43193269 Score: 60
Period size: 22 Copynumber: 3.1 Consensus size: 21
43193196 GGATATTTGT
* *
43193206 TTAGCACTTTTATGCTCTCTAA
1 TTAGCACTTTTGTGCTCTCT-G
*
43193228 TTAACACTTTTGTGCTCTCTG
1 TTAGCACTTTTGTGCTCTCTG
**
43193249 TT-GCACTTCGGTGC-CTCTG
1 TTAGCACTTTTGTGCTCTCTG
43193268 TT
1 TT
43193270 CAGCTATACG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 7 0.19
20 9 0.25
21 2 0.06
22 18 0.50
ACGTcount: A:0.14, C:0.25, G:0.16, T:0.45
Consensus pattern (21 bp):
TTAGCACTTTTGTGCTCTCTG
Found at i:43198584 original size:22 final size:21
Alignment explanation
Indices: 43198558--43198612 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
43198548 AAATTAGATT
43198558 TCTGTTTAGCACTTTTGTGCTC
1 TCTGTTTAGCACTTTTGTGC-C
43198580 TCTG-TTAGCACTTTTGTGCC
1 TCTGTTTAGCACTTTTGTGCC
* *
43198600 TTTGTTCAGCACT
1 TCTGTTTAGCACT
43198613 ACGATGCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTGTTTAGCACTTTTGTGCC
Found at i:43199403 original size:3 final size:3
Alignment explanation
Indices: 43199395--43199420 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43199385 AAATTAGTTA
43199395 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
43199421 AAGGATAGAT
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:43199849 original size:20 final size:20
Alignment explanation
Indices: 43199826--43199873 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
43199816 AAAAAAACAG
*
43199826 AAAAAAAGCAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCACAA
* *
43199846 AAAAGAAGCAAAAAGCACAC
1 AAAAAAAGCAAAAAGCACAA
43199866 AAAAAAAG
1 AAAAAAAG
43199874 TTGCTTACCT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.71, C:0.15, G:0.15, T:0.00
Consensus pattern (20 bp):
AAAAAAAGCAAAAAGCACAA
Found at i:43205454 original size:31 final size:31
Alignment explanation
Indices: 43205417--43205477 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
43205407 AGATAATTTT
43205417 AAAGAGTTTTATTAGGATTCAATTACTCTTA
1 AAAGAGTTTTATTAGGATTCAATTACTCTTA
43205448 AAAGAGTTTTATTAGGATTCAATTACTCTT
1 AAAGAGTTTTATTAGGATTCAATTACTCTT
43205478 GTAATTTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.43
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTA
Found at i:43209076 original size:189 final size:189
Alignment explanation
Indices: 43208754--43209100 Score: 500
Period size: 189 Copynumber: 1.8 Consensus size: 189
43208744 TGGATGAGTT
** * * * *
43208754 GGAGCACGCGTAAAACCCTGCAGTTCCTATGTATGAACATGTTGAGGGAATTGCATTGGACCAGA
1 GGAGCACGCAAAAAACCCGGCAGTTCCTATGTATGAACATGCTGAGGGAATTGCATGGGAACAGA
* ** * *
43208819 ACAAGCCACAGATAGAGAAACGAAACAATATGCAAAGCCGGAGAAAGATAATCAGTGACTTGAAA
66 ACAAGCCACAGATAGAGAAACAAAACAATAACCAAAGCCGGAGAAAGATAATCAGTGACATCAAA
*
43208884 ATGAAGGATGTCAAACCTGATTCATCAAATGGACTCGTCATTGGGACCTTCAATGAGCC
131 ATGAAGAATGTCAAACCTGATTCATCAAATGGACTCGTCATTGGGACCTTCAATGAGCC
43208943 GGAGCACGCAAAAAACCCGGCAGTTCCTATGTATGAACATGCTGAGGGAGA-TGCATGGGAACAG
1 GGAGCACGCAAAAAACCCGGCAGTTCCTATGTATGAACATGCTGAGGGA-ATTGCATGGGAACAG
* * * * * *
43209007 AACCAGTCACAGATAGAGAAACAAAACGATAACCGAAGCTCGG-GAGAGATGATCAGTGACATCA
65 AACAAGCCACAGATAGAGAAACAAAACAATAACCAAAGC-CGGAGAAAGATAATCAGTGACATCA
43209071 AAATGAAGAATGTCAAACCTGATTCATCAA
129 AAATGAAGAATGTCAAACCTGATTCATCAA
43209101 CAAGACTAAA
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
189 134 0.97
190 4 0.03
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (189 bp):
GGAGCACGCAAAAAACCCGGCAGTTCCTATGTATGAACATGCTGAGGGAATTGCATGGGAACAGA
ACAAGCCACAGATAGAGAAACAAAACAATAACCAAAGCCGGAGAAAGATAATCAGTGACATCAAA
ATGAAGAATGTCAAACCTGATTCATCAAATGGACTCGTCATTGGGACCTTCAATGAGCC
Found at i:43213641 original size:21 final size:21
Alignment explanation
Indices: 43213615--43213655 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
43213605 ATCTGCTCAA
* *
43213615 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
43213636 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
43213656 TTGCTCGTCT
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:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:43223235 original size:16 final size:17
Alignment explanation
Indices: 43223207--43223238 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
43223197 TATGAAGAGT
43223207 ATTAAATTATATTAAAC
1 ATTAAATTATATTAAAC
43223224 ATTAAA-TATATTAAA
1 ATTAAATTATATTAAA
43223239 ATAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTAAATTATATTAAAC
Found at i:43255794 original size:25 final size:25
Alignment explanation
Indices: 43255689--43256054 Score: 222
Period size: 25 Copynumber: 14.6 Consensus size: 25
43255679 GAATTCTCTA
* * *
43255689 GAAAGTCTTTTTGGCATATCATTTG
1 GAAAGCCTTTGTGGCGTATCATTTG
* * **
43255714 GAAAGCTTTTATGGTATATCATTTG
1 GAAAGCCTTTGTGGCGTATCATTTG
* *** *
43255739 GAAAGCCTTTGTAGTAAAT-TTTCTAG
1 GAAAGCCTTTGTGGCGTATCATT-T-G
*
43255765 G-AAGCCTTTATGGCGTATCATTTG
1 GAAAGCCTTTGTGGCGTATCATTTG
* * *
43255789 GAAAGCCTTTGTGGTGATTTCA-CTG
1 GAAAGCCTTTGTGGCG-TATCATTTG
* *
43255814 GAAAGCCTCTGTGGCGTATCATTTA
1 GAAAGCCTTTGTGGCGTATCATTTG
* * * *
43255839 GAAAGCCTTTGTGGTGAATTC-TCTA
1 GAAAGCCTTTGTGGCGTA-TCATTTG
** * *
43255864 GAAAGATTTTTTGACGTATCATTTG
1 GAAAGCCTTTGTGGCGTATCATTTG
**
43255889 GAAAGCCTTTGTGGCAAATTC-TTTG
1 GAAAGCCTTTGTGGCGTA-TCATTTG
* ** * * *
43255914 GAAAGCCTTTATGAAGAATTATCTG
1 GAAAGCCTTTGTGGCGTATCATTTG
* * * *
43255939 GAAAGCCTTTATGGCGAATTATGTG
1 GAAAGCCTTTGTGGCGTATCATTTG
*
43255964 AAAAGCAC-TTGTGGCGTATCATTTG
1 GAAAGC-CTTTGTGGCGTATCATTTG
* * *
43255989 GAAAGCCTTTGTGGTGAATTATTTG
1 GAAAGCCTTTGTGGCGTATCATTTG
* * *
43256014 GAAAGCCCTTGTGGTGTATCATTTA
1 GAAAGCCTTTGTGGCGTATCATTTG
*
43256039 GAAAGCCTTTATGGCG
1 GAAAGCCTTTGTGGCG
43256055 AATTCTCTAG
Statistics
Matches: 262, Mismatches: 67, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
24 12 0.05
25 237 0.90
26 13 0.05
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.37
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGTATCATTTG
Found at i:43256058 original size:50 final size:50
Alignment explanation
Indices: 43255709--43256058 Score: 303
Period size: 50 Copynumber: 7.0 Consensus size: 50
43255699 TTGGCATATC
* ** * **
43255709 ATTTGGAAAGCTTTTATGGTATATCATTTGGAAAGCCTTTGTAGTAAATT
1 ATTTGGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
* *
43255759 -TTCTAGG-AAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGTGATTT
1 ATT-T-GGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
* * * * *
43255809 CA-CTGGAAAGCCTCTGTGGCGTATCATTTAGAAAGCCTTTGTGGTGAATT
1 -ATTTGGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
* * * ** * * *
43255859 CTCTAGAAAGATTTTTTGACGTATCATTTGGAAAGCCTTTGTGGCAAATT
1 ATTTGGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
* ** * * * *
43255909 CTTTGGAAAGCCTTTATGAAGAATTATCTGGAAAGCCTTTATGGCGAATT
1 ATTTGGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
* * * *
43255959 ATGTGAAAAGCAC-TTGTGGCGTATCATTTGGAAAGCCTTTGTGGTGAATT
1 ATTTGGAAAGC-CTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
* * * * *
43256009 ATTTGGAAAGCCCTTGTGGTGTATCATTTAGAAAGCCTTTATGGCGAATT
1 ATTTGGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
43256059 CTCTAGAAAT
Statistics
Matches: 243, Mismatches: 49, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
49 5 0.02
50 235 0.97
51 3 0.01
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (50 bp):
ATTTGGAAAGCCTTTATGGCGTATCATTTGGAAAGCCTTTGTGGCGAATT
Found at i:43259769 original size:21 final size:22
Alignment explanation
Indices: 43259731--43259771 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
43259721 GAGCCTTGAG
* *
43259731 AGGTTAGGTATTATGATACCCA
1 AGGTTAGGTATCACGATACCCA
43259753 AGGTTA-GTATCACGATACC
1 AGGTTAGGTATCACGATACC
43259772 ACTGTAGATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (22 bp):
AGGTTAGGTATCACGATACCCA
Found at i:43264998 original size:28 final size:27
Alignment explanation
Indices: 43264962--43265042 Score: 126
Period size: 28 Copynumber: 2.9 Consensus size: 27
43264952 GTGTAATGTG
* *
43264962 GGCCCTAGCCCAATACAGTAACAGTGT
1 GGCCTTAGCCCAATATAGTAACAGTGT
43264989 GAGCCTTAGCCCAATATAGTAACAGTGT
1 G-GCCTTAGCCCAATATAGTAACAGTGT
43265017 GGCCCTTAGCCCAATATAGTAACAGT
1 GG-CCTTAGCCCAATATAGTAACAGT
43265043 ACAGTGTAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
27 2 0.04
28 48 0.96
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (27 bp):
GGCCTTAGCCCAATATAGTAACAGTGT
Found at i:43265383 original size:15 final size:15
Alignment explanation
Indices: 43265363--43265391 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43265353 AGAGCAAATC
43265363 GGCCATACATACATA
1 GGCCATACATACATA
43265378 GGCCATACATACAT
1 GGCCATACATACAT
43265392 TTCGGCTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (15 bp):
GGCCATACATACATA
Found at i:43265461 original size:27 final size:27
Alignment explanation
Indices: 43265429--43265823 Score: 422
Period size: 27 Copynumber: 14.7 Consensus size: 27
43265419 TTTTTCCAAT
* *
43265429 GAGGGTATTTCAGTCATTTTACCCTTT
1 GAGGGTATTTCGGTCATTTTACCCTTC
* * * **
43265456 GGGGGTATTTTGGTCATTTTTCTATTC
1 GAGGGTATTTCGGTCATTTTACCCTTC
* * *
43265483 GAAGGTATTTTGGTCATTTTACCCTTT
1 GAGGGTATTTCGGTCATTTTACCCTTC
* * *
43265510 GGGGGTATTTCGGTCATTTTA-TCTTT
1 GAGGGTATTTCGGTCATTTTACCCTTC
* *
43265536 TAGGGGTATTTCGGTCATTTTACCCTTT
1 GA-GGGTATTTCGGTCATTTTACCCTTC
* * *
43265564 GAGGGTATTTCAGTCATTTCACCTTTC
1 GAGGGTATTTCGGTCATTTTACCCTTC
**
43265591 -AGAGGTATTTCAATCATTTTACCCTTC
1 GAG-GGTATTTCGGTCATTTTACCCTTC
*
43265618 GAGGGTATTTTGGTCA-TTTACCCTTC
1 GAGGGTATTTCGGTCATTTTACCCTTC
*
43265644 G-GGGTATTTCGGTCATTTTATCCTTC
1 GAGGGTATTTCGGTCATTTTACCCTTC
* * *
43265670 AAAGGTATTTCGGTCATTTTACCCATC
1 GAGGGTATTTCGGTCATTTTACCCTTC
* *
43265697 GAGGGTATTTCGGTTATTTTACCCATC
1 GAGGGTATTTCGGTCATTTTACCCTTC
* *
43265724 GAGGGTATTTCGGCCATTTCACCCATT-
1 GAGGGTATTTCGGTCATTTTACCC-TTC
* *
43265751 GAGGGTATTTCGATCATTTTACCCATC
1 GAGGGTATTTCGGTCATTTTACCCTTC
* *
43265778 GAGGGTATTTCGGTTATTTTACCCATC
1 GAGGGTATTTCGGTCATTTTACCCTTC
*
43265805 GAGGGTATTTCGGTTATTT
1 GAGGGTATTTCGGTCATTT
43265824 ACTCACGAAT
Statistics
Matches: 310, Mismatches: 50, Indels: 16
0.82 0.13 0.04
Matches are distributed among these distances:
25 13 0.04
26 27 0.09
27 262 0.85
28 8 0.03
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.43
Consensus pattern (27 bp):
GAGGGTATTTCGGTCATTTTACCCTTC
Found at i:43277602 original size:51 final size:46
Alignment explanation
Indices: 43277537--43277641 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 46
43277527 ATAAATAATA
*
43277537 TAAACAAATATTTATATTTATGTAAAAACACCAGATCTAAAGAAAACATAT
1 TAAATAAATATTTATATTTAT-TAAAAACACCAGATCT---GAAAACA-AT
* *
43277588 TAAATAAATATTTATATTTATTTAAAACATCAGATCTGAAAACAAT
1 TAAATAAATATTTATATTTATTAAAAACACCAGATCTGAAAACAAT
43277634 TAAATAAA
1 TAAATAAA
43277642 CAAGATATTT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
46 10 0.20
47 7 0.14
50 14 0.27
51 20 0.39
ACGTcount: A:0.53, C:0.10, G:0.05, T:0.32
Consensus pattern (46 bp):
TAAATAAATATTTATATTTATTAAAAACACCAGATCTGAAAACAAT
Found at i:43278799 original size:20 final size:21
Alignment explanation
Indices: 43278771--43278809 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
43278761 CAAAACGAGC
*
43278771 AAACAAGCT-CATTGAGCTGA
1 AAACAAGCTGAATTGAGCTGA
*
43278791 AAACGAGCTGAATTGAGCT
1 AAACAAGCTGAATTGAGCT
43278810 CAACCAGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.38, C:0.18, G:0.23, T:0.21
Consensus pattern (21 bp):
AAACAAGCTGAATTGAGCTGA
Found at i:43289828 original size:15 final size:15
Alignment explanation
Indices: 43289808--43289836 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43289798 GTTGACGGTT
43289808 AGTTTGTCATAGGCA
1 AGTTTGTCATAGGCA
43289823 AGTTTGTCATAGGC
1 AGTTTGTCATAGGC
43289837 TTTAAATTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (15 bp):
AGTTTGTCATAGGCA
Found at i:43295079 original size:3 final size:3
Alignment explanation
Indices: 43295071--43295111 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
43295061 ATTTTCACAG
43295071 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
43295112 TGCTGCTGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:43299170 original size:25 final size:25
Alignment explanation
Indices: 43299136--43299187 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
43299126 AACACAAGTC
* *
43299136 ACTTCAAAGCATTTGAACTTAACCA
1 ACTTCAAAGCATTTGAACATAAACA
43299161 ACTTCAAAGCATTTGAACATAAACA
1 ACTTCAAAGCATTTGAACATAAACA
43299186 AC
1 AC
43299188 AAATGGCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.23, G:0.08, T:0.25
Consensus pattern (25 bp):
ACTTCAAAGCATTTGAACATAAACA
Found at i:43308344 original size:109 final size:109
Alignment explanation
Indices: 43308182--43308578 Score: 625
Period size: 109 Copynumber: 3.7 Consensus size: 109
43308172 GTCAATCGAG
* * * * *
43308182 AAATCGAAACCCAACACATTAAGGCATG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* * *
43308246 TTGAAATTTTTAAAAGGATATTTAGCCATTTAGTTGAACGTGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
43308290 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATGTAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
43308355 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
*
43308399 AAATCGACACCCAGCGCCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
43308464 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * * * *
43308508 AAATCGACACCTAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAAAGCTAAATATTGCCTCATT
1 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
43308573 TAGAAA
66 TTGAAA
43308579 AATTTTCTTT
Statistics
Matches: 266, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
108 24 0.09
109 242 0.91
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (109 bp):
AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:43308716 original size:4 final size:4
Alignment explanation
Indices: 43308707--43308799 Score: 82
Period size: 4 Copynumber: 22.8 Consensus size: 4
43308697 GTACAACAAC
* ** * *
43308707 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAA- AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
43308754 AAAT AAAT AAAT GAACAT AAAGT AAAA AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT -AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA
43308800 ATAATAATAA
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
3 5 0.07
4 53 0.74
5 12 0.17
6 2 0.03
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:43308782 original size:43 final size:39
Alignment explanation
Indices: 43308708--43308799 Score: 105
Period size: 43 Copynumber: 2.3 Consensus size: 39
43308698 TACAACAACA
43308708 AATAAATAAATAAATAAACTAAAACATAAAAAATGGACATATA
1 AATAAATAAATAAATAAACTAAAACATAAAAAAT--A-A-ATA
* **
43308751 AATAAATAAATAAATGAACATAAAGTA-AAAAAATAAATA
1 AATAAATAAATAAATAAAC-TAAAACATAAAAAATAAATA
43308790 AATAAATAAA
1 AATAAATAAA
43308800 ATAATAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
39 13 0.29
40 1 0.02
41 1 0.02
43 25 0.56
44 5 0.11
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.21
Consensus pattern (39 bp):
AATAAATAAATAAATAAACTAAAACATAAAAAATAAATA
Found at i:43308823 original size:39 final size:37
Alignment explanation
Indices: 43308707--43308830 Score: 112
Period size: 39 Copynumber: 3.3 Consensus size: 37
43308697 GTACAACAAC
* *
43308707 AAATAAATAAATAAATAAACTAAAACATAAAA-AATGGA
1 AAATAAATAAATAAATAAAAT-AAA-ATAAAATAAAGGA
* * *
43308745 CATATAAATAAATAAAT-AAATGAACATAAAGTAAA--A
1 -AAATAAATAAATAAATAAAAT-AAAATAAAATAAAGGA
43308781 AAATAAATAAATAAATAAAATAATAATAACAATAAAGGA
1 AAATAAATAAATAAATAAAATAA-AATAA-AATAAAGGA
*
43308820 AAATAGATAAA
1 AAATAAATAAA
43308831 AATCATAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
35 17 0.25
36 9 0.13
37 10 0.14
38 7 0.10
39 26 0.38
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (37 bp):
AAATAAATAAATAAATAAAATAAAATAAAATAAAGGA
Found at i:43309176 original size:12 final size:12
Alignment explanation
Indices: 43309161--43309192 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
43309151 AAAATAAAAC
43309161 TAATAATAATAG
1 TAATAATAATAG
43309173 TAATAATAATAG
1 TAATAATAATAG
43309185 TAATAATA
1 TAATAATA
43309193 TGAAAGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:43311046 original size:44 final size:44
Alignment explanation
Indices: 43310975--43311741 Score: 250
Period size: 44 Copynumber: 17.7 Consensus size: 44
43310965 ACCTGATACG
* * * * *
43310975 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* * *
43311019 ATCCGCTCCACTGTAATCTCAGGGAGATAGGAT--TACTAGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTA-CTTCA
* * * *
43311063 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGA-CC-TGA-TACG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
* * * * * *
43311104 ATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTATTTTA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* * * *
43311148 ATCCGCTCCACTGTAATATCAGGGAGATAGGAT--TTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTT-T-ACTTCA
* * **
43311192 ATCTACTCCGCTGTAATCTCAGGGAGATAAGAT-CTATGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTACTTCA
* * * *
43311236 ATCTGCTTCACTGTAACCTCAGGGAGATAAGAT-CTAAAATT-TTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TTACTTCA
* * * * * * * *
43311282 GTCTACTCTACTGTAACCTCATGGAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
* * * * *
43311323 ATC-GACTCTACTGTAA-CTTCAGAGAGATGAGATCCTTTATTTTA
1 ATCTG-CTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* *
43311367 AT-TCGCTCCACTGTAA-CTTCA--G-GAT-AG----TGT-CTTCG
1 ATCT-GCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* ** **
43311402 ATCTGTTCCGTTGTAATCTCAGGGAGATAAGAT-CTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTACTTCA
* * *
43311446 ATCTGCTCCACTGTAACCTCAGGGAGATAAGAT-CTAAAATT-TTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TTACTTCA
* * * * * * *
43311492 GTCTACTCTACTGTAACCTCAGGGAGATAAGA-CC-TGA-TGCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
* * * * *
43311533 ATC-GACTCTACTGTAA-CTTCAGAGAGATGAGATCCTTTATTTTA
1 ATCTG-CTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
** * *
43311577 AT-TCGCTCCACTGTAA-CTTCAGGGAGATAAGATAGTGTA-TTCG
1 ATCT-GCTCCACTGTAATC-TCAGGGAGATAAGATCCTTTACTTCA
* * * * **
43311620 ATCTGCTCCGCTGTAATCTGAGGAAGAGAAGAT-CTCTGGCTTCA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT-TTACTTCA
* * *
43311664 ATCTGCTCCACCGTAACCTCAGGGAGATAAGAT-CTAAAATT-CTTCG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCT----TTACTTCA
* * *
43311710 GTCTACTCCACTGTAACCTCAGGGAGATAAGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA
43311742 CCTGATGCGA
Statistics
Matches: 544, Mismatches: 123, Indels: 110
0.70 0.16 0.14
Matches are distributed among these distances:
35 16 0.03
36 4 0.01
37 1 0.00
38 3 0.01
39 2 0.00
40 5 0.01
41 88 0.16
42 11 0.02
43 37 0.07
44 271 0.50
45 4 0.01
46 98 0.18
47 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCCTTTACTTCA
Found at i:43311106 original size:129 final size:129
Alignment explanation
Indices: 43310956--43311223 Score: 491
Period size: 129 Copynumber: 2.1 Consensus size: 129
43310946 CTCCACTTTA
43310956 GGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
1 GGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
* *
43311021 CCGCTCCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAG
66 CCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
*
43311085 GGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAAT
1 GGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
* *
43311150 CCGCTCCACTGTAATATCAGGGAGATAGGATTTCTGGCTTCAATCTACTCCGCTGTAATCTCAG
66 CCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
43311214 GGAGATAAGA
1 GGAGATAAGA
43311224 TCTATGGCTT
Statistics
Matches: 134, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
129 134 1.00
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (129 bp):
GGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAAT
CCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
Found at i:43311725 original size:218 final size:217
Alignment explanation
Indices: 43311068--43311810 Score: 1097
Period size: 210 Copynumber: 3.4 Consensus size: 217
43311058 CTTCAATCTG
* * * *
43311068 CTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATA
* ** * * *
43311133 AGATCTTTTATTTTAATCCGCTCCACTGTAA-TATCAGGGAGATAGGATTTCTGGCTTCAATCTA
66 AGATCCTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATA-GA-TAGTGTCTTCGATCTG
* *
43311197 CTCCGCTGTAATCTCAGGGAGATAAGATCTATGGCTTCAATCTGCTTCACTGTAACCTCAGGGAG
128 CTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAG
43311262 ATAAGATCTAAAATTTTTCGGTCTA
193 ATAAGATCTAAAATTTTTCGGTCTA
* * *
43311287 CTCTACTGTAACCTCATGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATG
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATA
* *
43311352 AGATCCTTTATTTTAATTCGCTCCACTGTAACTTC----AG---GATAGTGTCTTCGATCTGTTC
66 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGATAGTGTCTTCGATCTGCTC
*
43311410 CGTTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
131 CGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
43311475 AGATCTAAAATTTTTCGGTCTA
196 AGATCTAAAATTTTTCGGTCTA
* *
43311497 CTCTACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATG
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATA
* *
43311562 AGATCCTTTATTTTAATTCGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTATTCGATCTGCT
66 AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT-AGATAGTGTCTTCGATCTGCT
* * * *
43311627 CCGCTGTAATCTGAGGAAGAGAAGATCTCTGGCTTCAATCTGCTCCACCGTAACCTCAGGGAGAT
130 CCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGAT
*
43311692 AAGATCTAAAATTCTTCGGTCTA
195 AAGATCTAAAATTTTTCGGTCTA
* * *
43311715 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTAGTGTAACTTTAGAGAGATA
1 CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATA
* * *
43311780 AGATCTTTTATTTTAACCCGCTCCATTGTAA
66 AGATCCTTTATTTTAATCCGCTCCACTGTAA
43311811 TCGATAGAGG
Statistics
Matches: 479, Mismatches: 36, Indels: 19
0.90 0.07 0.04
Matches are distributed among these distances:
210 196 0.41
211 2 0.00
214 2 0.00
215 2 0.00
218 187 0.39
219 89 0.19
220 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (217 bp):
CTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGAGATA
AGATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGATAGTGTCTTCGATCTGCTC
CGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATA
AGATCTAAAATTTTTCGGTCTA
Found at i:43311736 original size:46 final size:43
Alignment explanation
Indices: 43311413--43311785 Score: 181
Period size: 44 Copynumber: 8.6 Consensus size: 43
43311403 TCTGTTCCGT
* * * * *
43311413 TGTAATCTCAGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCAC
1 TGTAACCTCAGGGAGATAAGATCTAAT--TTTCGATCTACTCCAC
* *
43311457 TGTAACCTCAGGGAGATAAGATCTAAAATTTTTCGGTCTACTCTAC
1 TGTAACCTCAGGGAGATAAGATCT--AA-TTTTCGATCTACTCCAC
* * * * *
43311503 TGTAACCTCAGGGAGATAAGACCTGA--TGCGATCGACTCTAC
1 TGTAACCTCAGGGAGATAAGATCTAATTTTCGATCTACTCCAC
* * * * * *
43311544 TGTAACTTCAGAGAGATGAGATCCTTTATTTT-AAT-TCGCTCCAC
1 TGTAACCTCAGGGAGATAAGAT-C-TAATTTTCGATCT-ACTCCAC
* * * *
43311588 TGTAACTTCAGGGAGATAAGA--TAGTGTATTCGATCTGCTCCGC
1 TGTAACCTCAGGGAGATAAGATCTAAT-T-TTCGATCTACTCCAC
* * * * * * * *
43311631 TGTAATCTGAGGAAGAGAAGATCT-CTGGCTTCAATCTGCTCCAC
1 TGTAACCTCAGGGAGATAAGATCTAAT--TTTCGATCTACTCCAC
* *
43311675 CGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTACTCCAC
1 TGTAACCTCAGGGAGATAAGATCT--AATT-TTCGATCTACTCCAC
* * * * *
43311721 TGTAACCTCAGGGAGATAAGACCTGA--TGCGATCTACTCTAG
1 TGTAACCTCAGGGAGATAAGATCTAATTTTCGATCTACTCCAC
* * *
43311762 TGTAACTTTAGAGAGATAAGATCT
1 TGTAACCTCAGGGAGATAAGATCT
43311786 TTTATTTTAA
Statistics
Matches: 251, Mismatches: 58, Indels: 43
0.71 0.16 0.12
Matches are distributed among these distances:
40 2 0.01
41 62 0.25
42 3 0.01
43 26 0.10
44 85 0.34
45 3 0.01
46 68 0.27
47 1 0.00
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (43 bp):
TGTAACCTCAGGGAGATAAGATCTAATTTTCGATCTACTCCAC
Found at i:43312017 original size:87 final size:87
Alignment explanation
Indices: 43311791--43313617 Score: 2322
Period size: 87 Copynumber: 21.0 Consensus size: 87
43311781 GATCTTTTAT
* * * * * * * *
43311791 TTTAACCCGCTCCATTGTAATCGATAGAGGCAAGACTTTGTTTTTGATCTGCTTTGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
**
43311856 CAGGAATACAAGATCTGCT-TC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43311877 TTTGACCACCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTTGATTTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
43311942 CAGGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * *
43311964 TTTAACCAGCTCCATTGCAACCGATGGAGGCAAGACTTTATTTTCGATCTGCTTCGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43312029 CAGGAAGGCAAGATTTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * *
43312051 TTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTGTATCTTCGATCTGCTTCGCTGTCA
1 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTA
* *
43312114 AGGCAGGAAGGCAAGATCTAG-TGTC
63 ACGCAGGAAGGCAAGATCT-GCTATC
* * * *
43312139 TTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGG-TTTTTTTTCGGTCTGCTTCGCTGTTAAC
1 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAC
* *
43312202 GCAGGAAGGTAAGATCTGTTATC
65 GCAGGAAGGCAAGATCTGCTATC
* * * * * *
43312225 TTTAACTAGTTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTTGATCTGCTTCGTTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* *
43312290 TAGGAAGGAAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43312312 TTTAACCAGCTCTAATACAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGCTTCGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43312377 CAAGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * *
43312399 TTTAACCAGCTCCACTGCAAGCGATGGAGGCAAGGCTTTATTTTCGATATGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* *
43312464 CAAGAAGGCAAGATCTGTTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43312486 TTTAACTAGTTCCACTGCAACAGATGGAGGCAAGGCTTTGTTTTTGATCTGCTTCGTTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* *
43312551 TAGGAAGGAAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * *
43312573 TTTAACCAGCTCCAATACAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGCTTCGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43312638 CAAGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * *
43312660 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* * *
43312725 CTA-GAAGGCAAGATTTGGTGTC
66 C-AGGAAGGCAAGATCTGCTATC
* * * * * * *
43312747 TTTAACTAGCTCCACTGCAACCAATAGAGGCAAGGTTTTATTTTTGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43312812 CAGGAAGGCAAGATTTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * * * *
43312834 TTTAACCAACTCCACTACAATCGATGGAGGCAAGGCTTCGTTTTTGATCTGCTTCACTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* * *
43312899 TAGGAAGGCAAGATCTGGTGTC
66 CAGGAAGGCAAGATCTGCTATC
* * * * * *
43312921 TTCAACCAGCTTCGCTACAACCGA-GAGAGGCAAGG-TTTGTTTTTGGTCTGCTTCGCTGTTAAC
1 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAC
* *
43312984 GCAGGAAGGCAAAATCTGTTATC
65 GCAGGAAGGCAAGATCTGCTATC
* * * *
43313007 TTTAACCAGCTCCACTGCAACCGATGGAGCCAAGGCTTTATTTTCGATCTGCTTCGTTGTTAACA
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43313072 CAGGAAGGCAAGATCTGTTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * *
43313094 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTCTCGATCTGCTTCACTTTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43313159 CAGGAAGGCAAGATCTACTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43313181 TTTAACCAGCTCCACTGCAACCGATAGAGGCAAGGCTTTATTTTCGATCTACTTCACTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
43313246 CAGGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43313268 TTTAACTAGCTCCACAGCAACCGATGGAGGCAAGGTTTTATTTTCGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43313333 CAGAAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * ** *
43313355 TTTAACCAGCTCTACTGCAACCGATGGAGGCAGGGCTTCATTTTCGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
*
43313420 CAGAAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* **
43313442 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTATTG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* * *
43313507 CAGGAGGGCAAGATCTGGTGTC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43313529 TTTAACCAGCTCCACTGGAATCGATGGAGGCAAGGTTTTGTTTTTGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
* *
43313594 CAGGAAGACAAAATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
43313616 TT
1 TT
43313618 CACTAATCTG
Statistics
Matches: 1529, Mismatches: 199, Indels: 25
0.87 0.11 0.01
Matches are distributed among these distances:
85 1 0.00
86 216 0.14
87 1232 0.81
88 79 0.05
89 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (87 bp):
TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAACG
CAGGAAGGCAAGATCTGCTATC
Found at i:43312126 original size:44 final size:44
Alignment explanation
Indices: 43312006--43312130 Score: 112
Period size: 44 Copynumber: 2.8 Consensus size: 44
43311996 AGACTTTATT
*
43312006 TTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATTTGCTATC
1 TTCGATCTGCTTCGCTGTCAA-GCAGGAAGGCAAGATTTGCTATC
* * * * * * * *
43312051 TTCAACCAGCTCCACT-ACAA-CCGAGAGAGGCAAGGTTTG-TATC
1 TTCGATCTGCTTCGCTGTCAAGCAG-GA-AGGCAAGATTTGCTATC
43312094 TTCGATCTGCTTCGCTGTCAAGGCAGGAAGGCAAGAT
1 TTCGATCTGCTTCGCTGTCAA-GCAGGAAGGCAAGAT
43312131 CTAGTGTCTT
Statistics
Matches: 58, Mismatches: 17, Indels: 11
0.67 0.20 0.13
Matches are distributed among these distances:
42 2 0.03
43 17 0.29
44 24 0.41
45 13 0.22
46 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.26
Consensus pattern (44 bp):
TTCGATCTGCTTCGCTGTCAAGCAGGAAGGCAAGATTTGCTATC
Found at i:43312170 original size:44 final size:43
Alignment explanation
Indices: 43312034--43312172 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 43
43312024 TAACGCAGGA
*
43312034 AGGCAAGATTTGCTATCTTCAACCAGCTCCACTACAACCGAGAG
1 AGGCAAGATTAG-TATCTTCAACCAGCTCCACTACAACCGAGAG
* * * * * * * * *
43312078 AGGCAAGGTTTGTATCTTCGATCTGCTTCGCTGTCAA-GGCAG-G
1 AGGCAAGATTAGTATCTTCAACCAGCTCCACT-ACAACCG-AGAG
*
43312121 AAGGCAAGATCTAGTGTCTTCAACCAGCTCCACTACAACCGAGAG
1 -AGGCAAGAT-TAGTATCTTCAACCAGCTCCACTACAACCGAGAG
43312166 AGGCAAG
1 AGGCAAG
43312173 GTTTTTTTTC
Statistics
Matches: 71, Mismatches: 18, Indels: 12
0.70 0.18 0.12
Matches are distributed among these distances:
43 17 0.24
44 36 0.51
45 18 0.25
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.22
Consensus pattern (43 bp):
AGGCAAGATTAGTATCTTCAACCAGCTCCACTACAACCGAGAG
Found at i:43314880 original size:6 final size:6
Alignment explanation
Indices: 43314852--43314887 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
43314842 CATTTTTACT
43314852 TTTTCA TTATTCA TTTCTCA TTTTCA TTTTCA TTTT
1 TTTTCA TT-TTCA TTT-TCA TTTTCA TTTTCA TTTT
43314888 TTTTGCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (6 bp):
TTTTCA
Found at i:43314884 original size:12 final size:12
Alignment explanation
Indices: 43314852--43314887 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 12
43314842 CATTTTTACT
43314852 TTTTCATTATTCA
1 TTTTCATT-TTCA
43314865 TTTCTCATTTTCA
1 TTT-TCATTTTCA
43314878 TTTTCATTTT
1 TTTTCATTTT
43314888 TTTTGCTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 7 0.32
13 10 0.45
14 5 0.23
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTCATTTTCA
Found at i:43314889 original size:14 final size:13
Alignment explanation
Indices: 43314842--43314888 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
43314832 TTAGCCTCTC
*
43314842 CATTTTTACTTTTT
1 CATTTTT-CATTTT
*
43314856 CATTATTCATTTCT
1 CATTTTTCATTT-T
43314870 CA-TTTTCATTTT
1 CATTTTTCATTTT
43314882 CATTTTT
1 CATTTTT
43314889 TTTGCTCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 3 0.11
13 16 0.57
14 9 0.32
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.66
Consensus pattern (13 bp):
CATTTTTCATTTT
Found at i:43315879 original size:6 final size:6
Alignment explanation
Indices: 43315865--43315917 Score: 61
Period size: 6 Copynumber: 8.7 Consensus size: 6
43315855 TTTCTTCTTT
* * * *
43315865 TTTTTA TTTTGA TTTTTGA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA
1 TTTTGA TTTTGA -TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
43315914 TTTT
1 TTTT
43315918 TCTTTTTCTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
6 35 0.85
7 6 0.15
ACGTcount: A:0.15, C:0.06, G:0.09, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:43315923 original size:12 final size:12
Alignment explanation
Indices: 43315865--43315923 Score: 64
Period size: 12 Copynumber: 4.8 Consensus size: 12
43315855 TTTCTTCTTT
43315865 TTTTTATTTTGA
1 TTTTTATTTTGA
*
43315877 TTTTTGATTTTCA
1 TTTTT-ATTTTGA
*
43315890 TTTTCATTTTGA
1 TTTTTATTTTGA
* *
43315902 CTTTGATTTTGA
1 TTTTTATTTTGA
*
43315914 TTTTTCTTTT
1 TTTTTATTTT
43315924 TCTTCCCTTT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
12 28 0.74
13 10 0.26
ACGTcount: A:0.14, C:0.07, G:0.08, T:0.71
Consensus pattern (12 bp):
TTTTTATTTTGA
Found at i:43315951 original size:69 final size:69
Alignment explanation
Indices: 43315819--43315951 Score: 173
Period size: 69 Copynumber: 1.9 Consensus size: 69
43315809 TTCTTTTTCA
* * * *
43315819 CATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTTCTTCTTTTTTTTATTTTGATTTTTGA
1 CATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTTCTTCCTTTTTTGATTTAGACTTTTGA
43315884 TTTT
66 TTTT
*
43315888 CATTTTCATTTTGA-CTTTGATTTTGA-TTTTTCTT-TTTCTTCCCTTTTTTGATCTTAGCCTTT
1 CATTTTCATTTTGATC-TTGATTTTGATTTTTTCTTCTTTCTT-CCTTTTTTGAT-TTAGACTTT
43315950 TG
63 TG
43315952 GGGCGCAACT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
67 6 0.11
68 18 0.32
69 32 0.57
ACGTcount: A:0.11, C:0.14, G:0.08, T:0.67
Consensus pattern (69 bp):
CATTTTCATTTTGATCTTGATTTTGATTTTTTCTTCTTTCTTCCTTTTTTGATTTAGACTTTTGA
TTTT
Found at i:43319454 original size:109 final size:109
Alignment explanation
Indices: 43319284--43319680 Score: 625
Period size: 109 Copynumber: 3.7 Consensus size: 109
43319274 GTCAATCGAG
* *
43319284 AAATCGAAACCCAGCACATTAGGGCATG-TTCCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
* *
43319348 TTGAAATTTTTAAAAGGATATTTAGCCATTTAGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * *
43319392 AAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATGTAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
43319457 TTAAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* *
43319501 AAATCGACACCCAGCGCCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
1 AAATCGAAACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
43319566 TTGAAATTTTTAAAAAGATATTAAGCCATTTGGTTGAACGAGAA
66 TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
* * * * * *
43319610 AAATCGAAACCTAGCACCTTAGGGCATGTTTTCTCGAATTTCTAAAAGCTAAATATTGCCTCATT
1 AAATCGAAACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
*
43319675 TAGAAA
66 TTGAAA
43319681 AATTTTCTTT
Statistics
Matches: 266, Mismatches: 22, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
108 26 0.10
109 240 0.90
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.31
Consensus pattern (109 bp):
AAATCGAAACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTTATT
TTGAAATTTTTAAAAGGATATTAAGCCATTTGGTTGAACGAGAA
Found at i:43319823 original size:4 final size:4
Alignment explanation
Indices: 43319814--43319902 Score: 74
Period size: 4 Copynumber: 21.8 Consensus size: 4
43319804 ATACAACAAC
* ** * *
43319814 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAA- AAAT GGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
*
43319861 AAAT AAAT GAACAT AAAGT AAAA AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT -AA-AT AAA-T AAAT AAAT AAAT AAAT AAAT AAA
43319903 ATAATAATAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
3 5 0.07
4 49 0.72
5 12 0.18
6 2 0.03
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:43319862 original size:19 final size:18
Alignment explanation
Indices: 43319818--43319885 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 18
43319808 AACAACAAAT
*
43319818 AAATAAATAAATAAAC-TAA
1 AAATAAA-AAATGAACAT-A
*
43319837 AACATAAAAAATGGACATA
1 AA-ATAAAAAATGAACATA
43319856 TAAATAAATAAATGAACATA
1 -AAATAAA-AAATGAACATA
*
43319876 AAGTAAAAAA
1 AAATAAAAAA
43319886 ATAAATAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.07
19 20 0.49
20 18 0.44
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.19
Consensus pattern (18 bp):
AAATAAAAAATGAACATA
Found at i:43319885 original size:39 final size:35
Alignment explanation
Indices: 43319815--43319902 Score: 97
Period size: 39 Copynumber: 2.4 Consensus size: 35
43319805 TACAACAACA
43319815 AATAAATAAATAAATAAACTAAAACATAAAAAATGGA
1 AATAAATAAATAAATAAACTAAAACATAAAAAAT--A
* **
43319852 CATATAAATAAATAAATGAACATAAAGTA-AAAAAATA
1 -A-ATAAATAAATAAATAAAC-TAAAACATAAAAAATA
43319889 AATAAATAAATAAA
1 AATAAATAAATAAA
43319903 ATAATAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
35 13 0.29
36 1 0.02
37 1 0.02
38 1 0.02
39 24 0.53
40 5 0.11
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (35 bp):
AATAAATAAATAAATAAACTAAAACATAAAAAATA
Found at i:43320224 original size:18 final size:18
Alignment explanation
Indices: 43320193--43320239 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
43320183 GAAATAAAAT
43320193 TAAAACTAA-AAATAGTA
1 TAAAACTAATAAATAGTA
* *
43320210 TAAAACTAATTAATATTA
1 TAAAACTAATAAATAGTA
43320228 TCAAAA-TAATAA
1 T-AAAACTAATAA
43320240 CGAATAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 9 0.36
18 12 0.48
19 4 0.16
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAACTAATAAATAGTA
Found at i:43320273 original size:3 final size:3
Alignment explanation
Indices: 43320265--43320299 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
43320255 AAAATAAAAC
* *
43320265 TAA TAA TAA TAA TAG TAA TAA TAA TAG TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
43320300 TGAAAGTTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:43320283 original size:12 final size:12
Alignment explanation
Indices: 43320268--43320299 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
43320258 ATAAAACTAA
43320268 TAATAATAATAG
1 TAATAATAATAG
43320280 TAATAATAATAG
1 TAATAATAATAG
43320292 TAATAATA
1 TAATAATA
43320300 TGAAAGTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:43322185 original size:44 final size:44
Alignment explanation
Indices: 43322131--43322848 Score: 215
Period size: 44 Copynumber: 16.6 Consensus size: 44
43322121 TTTTAATCCG
* *
43322131 CTCCACTGTAATCTCAGGGAGATAGGGTTACTAGCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * * *
43322175 CTCCGCTGTAATCTCAGGGAGATAAGA--CCT-GATACGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * ** * * **
43322216 CTCTACTGTAA-CTTCAGAGAGATAAGATCTTTTA-TTTTAATCCG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT-TACTAGCTTCAATCTA
* * * *
43322260 CTCCACTGTAATATCAGGGAGATAGGATTTCTGGCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * *
43322304 CTCCGCTGTAATCTCAGGAAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCAATCTA
* * * * *
43322348 CTTCACTGTAACCTCAGGGAGATAAGATCTGA-AATTCTTCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGAT-T-ACTA-GCTTCAATCTA
* * * * * * *
43322394 CTCCGCTGTAACCTCAGGGCGATAAGA--CCT-GATGCGATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * * * * * *
43322435 TTCTACTGTAA-CTTCAGAGAGATAAGATCATTTA-TTTTAATCCA
1 CTCCACTGTAATC-TCAGGGAGATAAGATTA-CTAGCTTCAATCTA
* * *
43322479 CTCCACTGTAA-CTTCA--G-GAT-AG--T-GT--CTTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATTACTAGCTTCAATCTA
* ** * * *
43322514 TTCCGTTGTAATCTCAGCGAGATAAGATCT-CTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCAATCTA
* ** ** **
43322558 CTCCACTGTAACCTCAGGGAGATAAGATCTAAAATTTTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-GCTTCAATCTA
* * * * * *
43322604 CTCCACTGTAACCTCAGGGAGATAAGA--CCT-GATGCGATCGA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
* * * * * * *
43322645 CTCTACTGTAA-CTTCAGAGAGATGAGATCCT-TTA-TTTTAATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTCAATCTA
* * * *
43322689 CTCCACTGTAA-CTTCAGGGAGATAAGA-TAGT-GTATTCGATCTG
1 CTCCACTGTAATC-TCAGGGAGATAAGATTACTAG-CTTCAATCTA
* * ** *
43322732 CTCCACTGTAATTTGAGGGAGATAAGATCT-CCGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTAGCTTCAATCTA
* * * ** * **
43322776 CTCTACCGTAACCTCAGGGAGATAAGATCTAAAATTCTTCGGTCTA
1 CTCCACTGTAATCTCAGGGAGATAAGAT-TACTA-GCTTCAATCTA
*
43322822 CTCCACTGTAACCTCAGGGAGATAAGA
1 CTCCACTGTAATCTCAGGGAGATAAGA
43322849 CCTGATGCGA
Statistics
Matches: 496, Mismatches: 134, Indels: 86
0.69 0.19 0.12
Matches are distributed among these distances:
35 16 0.03
36 2 0.00
37 1 0.00
38 3 0.01
39 2 0.00
40 5 0.01
41 90 0.18
42 6 0.01
43 34 0.07
44 237 0.48
45 3 0.01
46 97 0.20
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTCAATCTA
Found at i:43322217 original size:129 final size:129
Alignment explanation
Indices: 43322063--43322330 Score: 473
Period size: 129 Copynumber: 2.1 Consensus size: 129
43322053 CTCCACTTTA
43322063 GGAGATAAGACCTGATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAAT
1 GGAGATAAGACCTGATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAAT
* *
43322128 CCGCTCCACTGTAATCTCAGGGAGATAGGGTTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
66 CCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
* *
43322192 GGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGAGATAAGATCTTTTATTTTAAT
1 GGAGATAAGACCTGATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAAT
* *
43322257 CCGCTCCACTGTAATATCAGGGAGATAGGATTTCTGGCTTCAATCTACTCCGCTGTAATCTCAG
66 CCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
*
43322321 GAAGATAAGA
1 GGAGATAAGA
43322331 TCTCTGGCTT
Statistics
Matches: 132, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 132 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (129 bp):
GGAGATAAGACCTGATACGATCTACTCTACTATAACTTCAGAGAGATAAGATCCTTTATTTTAAT
CCGCTCCACTGTAATATCAGGGAGATAGGATTACTAGCTTCAATCTACTCCGCTGTAATCTCAG
Found at i:43322238 original size:41 final size:41
Alignment explanation
Indices: 43322064--43322461 Score: 122
Period size: 44 Copynumber: 9.2 Consensus size: 41
43322054 TCCACTTTAG
* * *
43322064 GAGATAAGACCTGATACGATCTACTCTACTATAA-CTTCAGA
1 GAGATAAGACCTGATACAATCTACTCCACTGTAATC-TCAGA
* ** ** *
43322105 GAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGG
1 GAGATAAGA-CC-TGA-TACAATCTACTCCACTGTAATCTCAGA
* * * * *
43322149 GAGATAGGGTTA-CTAGCTTCAATCTACTCCGCTGTAATCTCAGG
1 GAGATA-AG--ACCT-GATACAATCTACTCCACTGTAATCTCAGA
* *
43322193 GAGATAAGACCTGATACGATCTACTCTACTGTAA-CTTCAGA
1 GAGATAAGACCTGATACAATCTACTCCACTGTAATC-TCAGA
* * ** ** * *
43322234 GAGATAAGATCTTTTATTTTAATCCGCTCCACTGTAATATCAGG
1 GAGATAAGA-C-CTGA-TACAATCTACTCCACTGTAATCTCAGA
* * * * *
43322278 GAGATAGGATTTCTGGCTTCAATCTACTCCGCTGTAATCTCAG-
1 GAGATAAGA--CCT-GATACAATCTACTCCACTGTAATCTCAGA
* * * * * *
43322321 GAAGATAAGATCTCTGGCTTCAATCTGCTTCACTGTAACCTCAGG
1 G-AGATAAGA-C-CT-GATACAATCTACTCCACTGTAATCTCAGA
* * * * * *
43322366 GAGATAAGATCTGAAATTCTTCGATCTACTCCGCTGTAACCTCAGG
1 GAGATAAGACCTG--A---TACAATCTACTCCACTGTAATCTCAGA
* * * * *
43322412 GCGATAAGACCTGATGCGATCTATTCTACTGTAA-CTTCAGA
1 GAGATAAGACCTGATACAATCTACTCCACTGTAATC-TCAGA
43322453 GAGATAAGA
1 GAGATAAGA
43322462 TCATTTATTT
Statistics
Matches: 269, Mismatches: 63, Indels: 50
0.70 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 69 0.26
42 7 0.03
43 7 0.03
44 144 0.54
45 5 0.02
46 34 0.13
47 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (41 bp):
GAGATAAGACCTGATACAATCTACTCCACTGTAATCTCAGA
Found at i:43322823 original size:218 final size:217
Alignment explanation
Indices: 43322171--43322917 Score: 1080
Period size: 218 Copynumber: 3.5 Consensus size: 217
43322161 CTAGCTTCAA
* * *
43322171 TCTACTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
** * *
43322236 GATAAGATCTTTTATTTTAATCCGCTCCACTGTAA-TATCAGGGAGATAGGATTTCTGGCTTCAA
66 GATAAGATCTTTTATTTTAATCCGCTCCACTGTAACT-TCAGGGAGATA-GA-TAGTGTCTTCGA
* *
43322300 TCTACTCCGCTGTAATCTCAGGAAGATAAGATCTCTGGCTTCAATCTGCT-TCACTGTAACCTCA
128 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCT-ACTGTAACCTCA
* *
43322364 GGGAGATAAGATCTGAAATTCTTCGA
192 GGGAGATAAGATCTAAAATTCTTCGG
* * *
43322390 TCTACTCCGCTGTAACCTCAGGGCGATAAGACCTGATGCGATCTATTCTACTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* *
43322455 GATAAGATCATTTATTTTAATCCACTCCACTGTAACTTC----AG---GATAGTGTCTTCGATCT
66 GATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGATAGTGTCTTCGATCT
* * * *
43322513 GTTCCGTTGTAATCTCAGCGAGATAAGATCTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGA
131 GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCTACTGTAACCTCAGGGA
*
43322578 GATAAGATCTAAAATTTTTCGG
196 GATAAGATCTAAAATTCTTCGG
*
43322600 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCGACTCTACTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* * * *
43322665 GATGAGATCCTTTATTTTAATCTGCTCCACTGTAACTTCAGGGAGATAAGATAGTGTATTCGATC
66 GATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT-AGATAGTGTCTTCGATC
* * * * *
43322730 TGCTCCACTGTAATTTGAGGGAGATAAGATCTCCGGCTTCAATCTGCTCTACCGTAACCTCAGGG
130 TGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCTACTGTAACCTCAGGG
43322795 AGATAAGATCTAAAATTCTTCGG
195 AGATAAGATCTAAAATTCTTCGG
*
43322818 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTAGTGTAACTTCAGAGA
1 TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
* *
43322883 GATAAGATCTTTTATTTTAACCCGCTCCATTGTAA
66 GATAAGATCTTTTATTTTAATCCGCTCCACTGTAA
43322918 TCGATAGAGG
Statistics
Matches: 473, Mismatches: 45, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
210 184 0.39
211 2 0.00
214 2 0.00
215 2 0.00
218 186 0.39
219 96 0.20
220 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (217 bp):
TCTACTCCACTGTAACCTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCTTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGATAGTGTCTTCGATCT
GCTCCGCTGTAATCTCAGGGAGATAAGATCTCTGGCTTCAATCTGCTCTACTGTAACCTCAGGGA
GATAAGATCTAAAATTCTTCGG
Found at i:43323115 original size:87 final size:87
Alignment explanation
Indices: 43322898--43324289 Score: 1790
Period size: 87 Copynumber: 16.0 Consensus size: 87
43322888 GATCTTTTAT
* * * * * * * * *
43322898 TTTAACCCGCTCCATTGTAATCGATAGAGGCAAGACTTTGTTTTTGATCTGCTTTGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
**
43322963 CAGGAATACAAGATCTGCT-TC
66 CAGGAAGGCAAGATCTGCTATC
* * *
43322984 TTTGACCACCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATTTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
43323049 CAGGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43323071 TTTAACCAGCTCCATTGCAACTGATGGAGGCAAGACTTTATTTTCGATCTGCTTCGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* *
43323136 CAGGAAAGCAAGATTTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43323158 TTCAACCAGCTCCACTACAACCGA-GAGAGGAAAGG-TTTGTATCTTTGATCTGCTTCGCTGTCA
1 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTTA
** * *
43323221 GGGCAGGAAGGCAAGATCTGGTGTC
63 ATGCAGGAAGGCAAGATCTGCTATC
* * * * * *
43323246 TTCAACCAGCTCCACTACAACTGA-GAGAGGTAAGG-TTTGTTTTCGGTCTGCTTCGCTGTTAAC
1 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* *
43323309 GCAGGAGGGCAAGATCTGTTATC
65 GCAGGAAGGCAAGATCTGCTATC
* * * *
43323332 TTTAACTAGTTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGTTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* *
43323397 CAGGAAGGAAAGTTCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * *
43323419 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTCGTTCTCGATCTGCTTCGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
*
43323484 CAAGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
*
43323506 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTATCGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* *
43323571 CAGGAAGGCAAGGTTTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * * * *
43323593 TTAAACCAACTCCACTACAACCGATGGAGGCAAGGCTTCGTTTTTGATCTACTTCACTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* *
43323658 CAGGAAGGCAAGATCTGGTGTC
66 CAGGAAGGCAAGATCTGCTATC
* * * *
43323680 TTCAACCAGCTCCGCTACAACCGA-GAGAGGCAAGG-TTTGTTTTCGGTCTGCTTCGCTGTTAAT
1 TTTAACCAGCTCCACTGCAACCGATG-GAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAAT
* *
43323743 GCAGGAAGGCAAAATCTGTTATC
65 GCAGGAAGGCAAGATCTGCTATC
* * * * * * **
43323766 TTTAACCAGCTCTACTACAACCAATGGAGGTAAGGCTTTGTTTTCGATTTGCTTCGTTGTTAACA
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
*
43323831 TAGGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * *
43323853 TTTAACCAGCTCCACTACAACCGATGGAGGCAAGGCTTTGTTCTCGATCTGCTTCGCTTTTAACG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* *
43323918 CAAGAAGGCAAGATCTACTATC
66 CAGGAAGGCAAGATCTGCTATC
* *
43323940 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCACTTTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
*
43324005 TAGGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
* * * * *
43324027 TTTAACTAGCTCCACTGCAACCGATGGAGGCAATGTTTTATTTTTGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* *
43324092 CAGAAAGGCAAGATCTGTTATC
66 CAGGAAGGCAAGATCTGCTATC
* *
43324114 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTCGTTTTCGATCTGCTTCGCTGTTATTG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
* * * *
43324179 TAGGAGGGCAAGATCTGGTGTC
66 CAGGAAGGCAAGATCTGCTATC
* *
43324201 TTTAACCAGCTCCACTGCAATCGATGGAGGCAAGGTTTTGTTTTCGATCTGCTTCGCTGTTAATG
1 TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
43324266 CAGGAAGGCAAGATCTGCTATC
66 CAGGAAGGCAAGATCTGCTATC
43324288 TT
1 TT
43324290 CACTAATCTG
Statistics
Matches: 1136, Mismatches: 161, Indels: 17
0.86 0.12 0.01
Matches are distributed among these distances:
86 211 0.19
87 850 0.75
88 75 0.07
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
TTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATG
CAGGAAGGCAAGATCTGCTATC
Found at i:43329437 original size:45 final size:45
Alignment explanation
Indices: 43329309--43329515 Score: 127
Period size: 45 Copynumber: 4.6 Consensus size: 45
43329299 GATGAAACCA
* * * * * **
43329309 CAAATATTATCTCCCT-AAGGTTGCAGTGGAGTAGATTAAAGTTA-
1 CAAATCTTATCTCCCTGAA-GTTGCAGTGGGGCAGACTGAAGAAAG
* * * * ** *
43329353 CAAGTCTTATCTCCCTAAAGTTGTAATGCAGCAGGCTGAAGAAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGAAAG
* **
43329398 CAAGTCTTAT-TCCCTTGAAGTTGCAGTGGGGCAGACTGAAGATGG
1 CAAATCTTATCTCCC-TGAAGTTGCAGTGGGGCAGACTGAAGAAAG
* * * * * *
43329443 CAAATCTTATCTCCCTGAATTTGCAGTGGAGTAGATTAAAGCCAA-
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAG-AAAG
* *
43329488 -TAATCCTATCTCCCTGAAGTTGCAGTGG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGG
43329516 AGCGGATTAA
Statistics
Matches: 127, Mismatches: 31, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
44 59 0.46
45 64 0.50
46 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGACTGAAGAAAG
Found at i:43329542 original size:44 final size:44
Alignment explanation
Indices: 43329315--43329552 Score: 194
Period size: 44 Copynumber: 5.4 Consensus size: 44
43329305 ACCACAAATA
*
43329315 TTATCTCCCT-AAGGTTGCAGTGGAGTAGATTAAAGTTACAAGTC
1 TTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAGTTACAAGTC
* * * * ** * **
43329359 TTATCTCCCTAAAGTTGTAATGCAGCAGGCTGAAGAAAGCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTA-CAAGTC
* * * ** *
43329404 TTAT-TCCCTTGAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATC
1 TTATCTCCC-TGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAGTC
* * ** *
43329449 TTATCTCCCTGAATTTGCAGTGGAGTAGATTAAAGCCA-ATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AGTC
* *
43329493 CTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTTACAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTC
*
43329537 TTATCTCCTTGAAGTT
1 TTATCTCCCTGAAGTT
43329553 ACAGAGAAGT
Statistics
Matches: 151, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
43 1 0.01
44 83 0.55
45 63 0.42
46 4 0.03
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAGTC
Found at i:43329778 original size:44 final size:44
Alignment explanation
Indices: 43329611--43329783 Score: 168
Period size: 44 Copynumber: 3.9 Consensus size: 44
43329601 ATGGGACACT
* * * * ** * *
43329611 TATCCCCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCGAATCT
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAATCA
* ** *
43329656 TATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCA-ATAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACA-AATCA
*
43329700 TATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGTTACAAATCA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCA
* ** *
43329744 TATCTCCTTGAAGTTATAGTGGGGCAGATTAAAGTTACAA
1 TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAA
43329784 GTCTTATTGA
Statistics
Matches: 108, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
44 76 0.70
45 32 0.30
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCA
Found at i:43330236 original size:225 final size:223
Alignment explanation
Indices: 43329830--43330242 Score: 546
Period size: 225 Copynumber: 1.8 Consensus size: 223
43329820 TTGCAGTGGG
* * *
43329830 GCAGACTAAAGATAGCGAATCTCATTTTCCTAAAGTTGCAGTGGAACAGATTAAAGCTATAAATC
1 GCAGACTAAAGATAGCAAATCTCATTTTCCTAAAGTTGCAATGGAACAGATCAAAGCTATAAATC
* * * *
43329895 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCATGACAAATCTTATCTCCCTAAAGTTG
66 AAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATCACAAACCTTATCTCCCTAAAGTTG
* * *
43329960 CAGTGAAGCAGATTAAAGCCAATAATCCTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAGTGA
131 CAGTGAAGCAGATTAAAGACAACAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTGA
43330025 AGTCTTATCTCCCCAAAGTTACAGTAGA
196 AGTCTTATCTCCCCAAAGTTACAGTAGA
* * * * *
43330053 GCAGACTGAAGATAGCAAATGTC-GTTTCTCTAAAGATTGTAATGGAATAGATCAAAGCTATAAA
1 GCAGACTAAAGATAGCAAATCTCATTTTC-CTAAAG-TTGCAATGGAACAGATCAAAGCTATAAA
43330117 TCATAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCA-CATCAAACCTTATCTCCCTAAA
64 TCA-AAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATCA-CAAACCTTATCTCCCTAAA
* * * * * * *
43330181 GTTGCAGTGGAGCAGGTTGAAA-ATACCAATCTTATCTCCCTGACA-TTGCAGTGGAGCGGATT
127 GTTGCAGTGAAGCAGATT-AAAGACAACAATCCTATCTCCCT-AAAGTTGCAGTGGAGCAGATT
43330243 AAAATAATGA
Statistics
Matches: 162, Mismatches: 22, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
222 4 0.02
223 26 0.16
224 28 0.17
225 99 0.61
226 5 0.03
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (223 bp):
GCAGACTAAAGATAGCAAATCTCATTTTCCTAAAGTTGCAATGGAACAGATCAAAGCTATAAATC
AAAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATCATCACAAACCTTATCTCCCTAAAGTTG
CAGTGAAGCAGATTAAAGACAACAATCCTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTGA
AGTCTTATCTCCCCAAAGTTACAGTAGA
Found at i:43330597 original size:89 final size:89
Alignment explanation
Indices: 43330326--43330622 Score: 353
Period size: 89 Copynumber: 3.3 Consensus size: 89
43330316 AAGTTGCAAC
* * *
43330326 GGAGCAGACTGACGATAGCAGATCTTGTCTTCTTGTATTGGCAGCGAAACAGATCGAAGACACCA
1 GGAGCAGACTGAAGATAGCAGATCTTGTCTTCTTGTATTGACAGCGAAGCAGATCGAAGACACCA
* *
43330391 GTCTTGCCTCCCTGAGTTTGCAGA
66 GCCTTGCCTCACTGAGTTTGCAGA
* * *
43330415 GGAACAGACTGAAGATAGCAGATAC-TGTCTTCTTGTATTGACAGCGAAGCAAATCGAAGGCACC
1 GGAGCAGACTGAAGATAGCAGAT-CTTGTCTTCTTGTATTGACAGCGAAGCAGATCGAAGACACC
* *
43330479 AGCCTTGCCTCACTGAGTTTACAGC
65 AGCCTTGCCTCACTGAGTTTGCAGA
* * * * * * * *
43330504 GGAGTAGACTGAAAATAGCAGATCTTGTCTTCCTGTACTGACAGTGAAGTAGATCGAAAACACTA
1 GGAGCAGACTGAAGATAGCAGATCTTGTCTTCTTGTATTGACAGCGAAGCAGATCGAAGACACCA
* *
43330569 GCCTTGCCTCTCTGAGTTTGCAGT
66 GCCTTGCCTCACTGAGTTTGCAGA
* ** * *
43330593 GGAGTAGGTTGAAGATTGTAGATCTTGTCT
1 GGAGCAGACTGAAGATAGCAGATCTTGTCT
43330623 CCCTAAGCAG
Statistics
Matches: 177, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
88 1 0.01
89 175 0.99
90 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (89 bp):
GGAGCAGACTGAAGATAGCAGATCTTGTCTTCTTGTATTGACAGCGAAGCAGATCGAAGACACCA
GCCTTGCCTCACTGAGTTTGCAGA
Found at i:43330638 original size:44 final size:44
Alignment explanation
Indices: 43330590--43330908 Score: 116
Period size: 44 Copynumber: 7.3 Consensus size: 44
43330580 CTGAGTTTGC
* * * *
43330590 AGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGT
1 AGTGGAGCAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAGT
* * ** * *
43330634 AGTGGAGCAGATTAAAGA-CGGCGAATCTTATCTTCCC-AAGGTAGT
1 AGTGGAGCAGATTGAAGATTGTAG-ATCCTATC-TCCCTAA-GCAGT
* * * **** * * *
43330679 AGAGAAGCAGATTTAAGACACCAG-TCCTATCTCCCTGAGTAGC
1 AGTGGAGCAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAGT
* * *
43330722 AGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGT
1 AGTGGAGCAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAGT
* * * * *
43330766 AGTAGAGCAAATTGAAGA-CG-ATGAATCTTATCTTCCC-GAG-A-T
1 AGTGGAGCAGATTGAAGATTGTA-G-ATCCTATC-TCCCTAAGCAGT
* * * ***** * *
43330808 AGTAGGAAACGGATTTAAGCCACCA-TTCCTATCTCCCTGAGCAGT
1 AGT-GG-AGCAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAGT
* * * * *
43330853 AGTGGAGTAGGTTGAAGATTGTATATCATGTCTCCCTAAGCAGT
1 AGTGGAGCAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAGT
43330897 AGTGGAGCAGAT
1 AGTGGAGCAGAT
43330909 CAAAGACGGC
Statistics
Matches: 193, Mismatches: 65, Indels: 34
0.66 0.22 0.12
Matches are distributed among these distances:
42 9 0.05
43 46 0.24
44 105 0.54
45 31 0.16
46 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (44 bp):
AGTGGAGCAGATTGAAGATTGTAGATCCTATCTCCCTAAGCAGT
Found at i:43330746 original size:132 final size:132
Alignment explanation
Indices: 43330588--43331001 Score: 598
Period size: 131 Copynumber: 3.1 Consensus size: 132
43330578 CTCTGAGTTT
*
43330588 GCAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATTAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATTAAAGAC
* *
43330653 GGCGAATCTTATCTTCCCAAGGTAGTAGAGAAGCAGATTTAAGACACCAGTCCTATCTCCCTGAG
66 GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
43330718 TA
131 TA
* * * *
43330720 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCTAAGCAGTAGTAGAGCAAATTGAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATTAAAGAC
** * * * *
43330785 GATGAATCTTATCTTCCCGAGATAGTAG-GAAACGGATTTAAGCCACCATTCCTATCTCCCTGAG
66 GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
*
43330849 CA
131 TA
* * *
43330851 GTAGTGGAGTAGGTTGAAGATTGTATATCATGTCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATTAAAGAC
* *
43330916 GGCGACTCTTATCTTACCGAGGTAGTAGAGAAGCAGATTTAAGCCACCAG-CCTTATCTCCCTGA
66 GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCAGTCC-TATCTCCCTG-
* *
43330980 AATT
129 AGTA
*
43330984 GCAGTGGAGCAGGTTGAA
1 GCAGTGGAGTAGGTTGAA
43331002 ATTACCAATT
Statistics
Matches: 246, Mismatches: 33, Indels: 5
0.87 0.12 0.02
Matches are distributed among these distances:
131 116 0.47
132 113 0.46
133 17 0.07
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCCCTAAGCAGTAGTGGAGCAGATTAAAGAC
GGCGAATCTTATCTTCCCGAGGTAGTAGAGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTGAG
TA
Found at i:43332920 original size:17 final size:17
Alignment explanation
Indices: 43332900--43332933 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
43332890 CTAATCCTTC
*
43332900 CTCGTGCGTAATCGACT
1 CTCGTGCGTAACCGACT
43332917 CTCGTGCGTAACCGACT
1 CTCGTGCGTAACCGACT
43332934 TTCGAGCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.32, G:0.24, T:0.26
Consensus pattern (17 bp):
CTCGTGCGTAACCGACT
Found at i:43335506 original size:10 final size:9
Alignment explanation
Indices: 43335487--43335712 Score: 54
Period size: 9 Copynumber: 24.2 Consensus size: 9
43335477 TTTTGGTACA
43335487 ATAATTTTT
1 ATAATTTTT
43335496 ATAATTTTTT
1 ATAA-TTTTT
*
43335506 ATGAA-CTTT
1 AT-AATTTTT
*
43335515 ATATTTCTTT
1 ATAATT-TTT
* *
43335525 ACATTTTTT
1 ATAATTTTT
43335534 ATAAATTTCTT
1 AT-AATTT-TT
** *
43335545 ACGA-CTTT
1 ATAATTTTT
*
43335553 ATAAAATTTT
1 AT-AATTTTT
43335563 ATAATTTTT
1 ATAATTTTT
* *
43335572 TTATATTTCT
1 ATA-ATTTTT
43335582 AT-ATATTTT
1 ATAAT-TTTT
43335591 ATAATTTTT
1 ATAATTTTT
43335600 -TACGATTTTT
1 ATA--ATTTTT
*
43335610 ATAAAAATTTT
1 AT--AATTTTT
*
43335621 ACAATTTTT
1 ATAATTTTT
*
43335630 ATACTTTTT
1 ATAATTTTT
***
43335639 -TAA-AAAT
1 ATAATTTTT
*
43335646 ATATTTTTTT
1 ATA-ATTTTT
*
43335656 CTAATTTTT
1 ATAATTTTT
*
43335665 A-ATATTTTA
1 ATA-ATTTTT
43335674 AT-ATTTTT
1 ATAATTTTT
* *
43335682 ATTAAAATTTA
1 A-T-AATTTTT
43335693 ATAATTTTT
1 ATAATTTTT
*
43335702 ATAACTTTT
1 ATAATTTTT
43335711 AT
1 AT
43335713 TTTTTCTATT
Statistics
Matches: 153, Mismatches: 40, Indels: 48
0.63 0.17 0.20
Matches are distributed among these distances:
7 1 0.01
8 19 0.12
9 72 0.47
10 43 0.28
11 17 0.11
13 1 0.01
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:43335568 original size:28 final size:27
Alignment explanation
Indices: 43335530--43335629 Score: 85
Period size: 30 Copynumber: 3.5 Consensus size: 27
43335520 TCTTTACATT
*
43335530 TTTTATAAATTTCTTACGACTTTATAAAA
1 TTTTAT-AATTTTTTACGA-TTTATAAAA
* * *
43335559 TTTTATAATTTTTTTA-TATTTCTATATA
1 TTTTATAA-TTTTTTACGATTTATA-AAA
43335587 TTTTATAATTTTTTACGATTTTTATAAAAA
1 TTTTATAATTTTTTACGA--TTTAT-AAAA
*
43335617 TTTTACAATTTTT
1 TTTTATAATTTTT
43335630 ATACTTTTTT
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
27 12 0.21
28 14 0.25
29 12 0.21
30 18 0.32
31 1 0.02
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTTATAATTTTTTACGATTTATAAAA
Found at i:43335637 original size:28 final size:27
Alignment explanation
Indices: 43335550--43335645 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 27
43335540 TTCTTACGAC
43335550 TTTAT-AAAATTTTATAATTTTTTTA-T
1 TTTATAAAAATTTTATAA-TTTTTTACT
* * *
43335576 ATTTCTATATATTTTATAATTTTTTACGATT
1 -TTTATAAAAATTTTATAATTTTTTAC---T
*
43335607 TTTATAAAAATTTTACAATTTTTATACT
1 TTTATAAAAATTTTATAATTTTT-TACT
*
43335635 TTTTTAAAAAT
1 TTTATAAAAAT
43335646 ATATTTTTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
27 11 0.20
28 21 0.38
30 19 0.35
31 4 0.07
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (27 bp):
TTTATAAAAATTTTATAATTTTTTACT
Found at i:43335711 original size:19 final size:18
Alignment explanation
Indices: 43335657--43335711 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 18
43335647 TATTTTTTTC
43335657 TAATTTTTA-ATATTTTAA
1 TAATTTTTATA-ATTTTAA
*
43335675 T-ATTTTTATTAAAATTTAA
1 TAATTTTTA-T-AATTTTAA
43335694 TAATTTTTATAACTTTTA
1 TAATTTTTATAA-TTTTA
43335712 TTTTTTCTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
17 7 0.23
18 3 0.10
19 12 0.40
20 8 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTTTTATAATTTTAA
Found at i:43341655 original size:11 final size:11
Alignment explanation
Indices: 43341641--43341678 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
43341631 TCCCTTTCTT
43341641 TTTTTTATGTG
1 TTTTTTATGTG
*
43341652 TTTTTTATCT-
1 TTTTTTATGTG
*
43341662 CTTTTTATGTG
1 TTTTTTATGTG
43341673 TTTTTT
1 TTTTTT
43341679 TCTCTCTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.08, C:0.05, G:0.11, T:0.76
Consensus pattern (11 bp):
TTTTTTATGTG
Found at i:43341677 original size:22 final size:21
Alignment explanation
Indices: 43341642--43341688 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 21
43341632 CCCTTTCTTT
43341642 TTTTTATGTGTTTTTTATCTC
1 TTTTTATGTGTTTTTTATCTC
43341663 TTTTTATGTGTTTTTT-TCTC
1 TTTTTATGTGTTTTTTATCTC
43341683 TCTTTT
1 T-TTTT
43341689 CTTTCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 5 0.20
21 20 0.80
ACGTcount: A:0.06, C:0.11, G:0.09, T:0.74
Consensus pattern (21 bp):
TTTTTATGTGTTTTTTATCTC
Found at i:43343002 original size:49 final size:49
Alignment explanation
Indices: 43342944--43343044 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
43342934 CACTACCTTA
* *
43342944 CACCAAAGTGTAAAGTTAAC-AAATTGCACT-GAAGTGTCACTATCACTAG
1 CACCAAAGTGCAAA-ATAACTAAATTGCA-TAGAAGTGTCACTATCACTAG
* * *
43342993 CACCGAAGTGCAAAATCACTAAATTGTATAGAAGTGTCACTATCACTAG
1 CACCAAAGTGCAAAATAACTAAATTGCATAGAAGTGTCACTATCACTAG
43343042 CAC
1 CAC
43343045 GCTTGAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
48 4 0.09
49 41 0.91
ACGTcount: A:0.39, C:0.22, G:0.16, T:0.24
Consensus pattern (49 bp):
CACCAAAGTGCAAAATAACTAAATTGCATAGAAGTGTCACTATCACTAG
Found at i:43345829 original size:25 final size:25
Alignment explanation
Indices: 43345785--43345871 Score: 90
Period size: 25 Copynumber: 3.5 Consensus size: 25
43345775 TACATGTCTA
43345785 CTCATACGAGC-G-ATAAATGGTAAG
1 CTCATACGAGCTGAAT-AATGGTAAG
* *
43345809 CTCTTCCGAGCTGAATAATGGTAAG
1 CTCATACGAGCTGAATAATGGTAAG
*
43345834 CTCATACGAGCTGAGT-ATCGGTAAG
1 CTCATACGAGCTGAATAAT-GGTAAG
* *
43345859 CTTATAAGAGCTG
1 CTCATACGAGCTG
43345872 GAATCGGTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
24 11 0.21
25 40 0.75
26 2 0.04
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (25 bp):
CTCATACGAGCTGAATAATGGTAAG
Found at i:43347384 original size:2 final size:2
Alignment explanation
Indices: 43347377--43347418 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
43347367 ACTTTTCCCT
43347377 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
43347419 GATTTTACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:43353565 original size:28 final size:28
Alignment explanation
Indices: 43353525--43353582 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
43353515 TCCTTTTTCC
* *
43353525 ATTTTTTAATAAATGGCCCAATATTTTT
1 ATTTTTTAATAAATGACCCAATATGTTT
*
43353553 ATTTTTTACTAAATGACCCAATATGTTT
1 ATTTTTTAATAAATGACCCAATATGTTT
43353581 AT
1 AT
43353583 GCTTTTTCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (28 bp):
ATTTTTTAATAAATGACCCAATATGTTT
Found at i:43354235 original size:3 final size:3
Alignment explanation
Indices: 43354227--43354292 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
43354217 AATCATTTTC
43354227 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
43354275 CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT
43354293 TTATTGCCCA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Done.