Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 107 of 205
Found at i:31741132 original size:47 final size:47
Alignment explanation
Indices: 31741054--31742067 Score: 1774
Period size: 47 Copynumber: 21.7 Consensus size: 47
31741044 CCCTTCGGGA
* * * * * *
31741054 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31741101 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741148 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741195 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741242 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741289 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741336 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741383 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741430 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741477 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741524 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741571 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741618 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
31741665 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31741712 CTTATCACATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31741759 ATTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
31741806 CTTATCAC------ACA--TACACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31741845 CTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31741892 CTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31741939 CTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31741986 CTTATCACACACATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
31742033 CTTATCACACACATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
31742068 TCTGAGCAAT
Statistics
Matches: 941, Mismatches: 18, Indels: 16
0.97 0.02 0.02
Matches are distributed among these distances:
39 35 0.04
41 3 0.00
45 3 0.00
47 900 0.96
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:31744809 original size:22 final size:22
Alignment explanation
Indices: 31744781--31744826 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
31744771 GAGCTTAATT
31744781 GAATTATACAGTCACAAAGAAA
1 GAATTATACAGTCACAAAGAAA
*
31744803 GAATTATACAGTCACAGAGAAA
1 GAATTATACAGTCACAAAGAAA
31744825 GA
1 GA
31744827 GTTACTTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (22 bp):
GAATTATACAGTCACAAAGAAA
Found at i:31744979 original size:19 final size:19
Alignment explanation
Indices: 31744955--31744992 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
31744945 CCGAGATTGA
31744955 TTCGATGGGTACTTCTACT
1 TTCGATGGGTACTTCTACT
31744974 TTCGATGGGTACTTCTACT
1 TTCGATGGGTACTTCTACT
31744993 CCAAGAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.16, C:0.21, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGATGGGTACTTCTACT
Found at i:31758867 original size:411 final size:410
Alignment explanation
Indices: 31758096--31758902 Score: 1416
Period size: 411 Copynumber: 2.0 Consensus size: 410
31758086 ACATGGTAAC
*
31758096 AGAAAAAGATTACTTGCTATTGTGTTTGCTTTTGACAAGTTTCGATCTTATCTTGTAGGTACCAA
1 AGAAAAAGATTACTTGCTATTGTGTTTGCTTTAGACAAGTTTCGATCTTATCTTGTAGGTACCAA
* *
31758161 AGTGACTGTTTATACGGACCAGTCGACAATTAAGTATTTACTTGCCAAGAAAGACGCTAAGCCGG
66 AGTGACTGTTTATACAGACCACTCGACAATTAAGTATTTACTTGCCAAGAAAGACGCTAAGCCGG
*
31758226 GACTGATGTGATGGGTACTTCTACTTAAAGAGTTCGATCTAGAAATTCAAGATCGAAAGGGAGTG
131 GACTGATCTGATGGGTACTTCTACTTAAAGAGTTCGATCTAGAAATTCAAGATCGAAAGGGAGTG
*
31758291 GAAAACCAAGTAGCAGACCACTTGTCCAGATTGGAGCCATAAGAAGGGAGCTCTCCTCTTATACC
196 GAAAACCAAGTAGCAGACCACTTGTCCAGATTGGAGCCATAAGAAGGGAACTCTCCTCTTATACC
*
31758356 AATTCGAGAGACGTTTCCAGATGAACACATACTGAAGTTAAATCATGTCGATAATACCCCTTAGT
261 AATTCGAGAGACGTTTCCAGATGAACACATACTGAAGGTAAATCATGTCGATAATACCCCTTAGT
** ** * *
31758421 TTGCTGATATTGCTTGCTTTTTAGCTTGTGGTTTGATGTTGATTGATAAGATGCATTATCAAAAG
326 TTGCTGATATTGCTAACTTTTTAGCTTGTGGTTTGATGCCGATTGATAAGACGCATCATCAAAAG
31758486 AAAAAGAGTTACACGGTCAT
391 AAAAAGAGTTACACGGTCAT
* * *
31758506 AGAAAAAGAGTTACTTGCTATTGTGTTTTCTTTAGACAAGTTTCTATCTTATCTTTTAGGTACCA
1 AGAAAAAGA-TTACTTGCTATTGTGTTTGCTTTAGACAAGTTTCGATCTTATCTTGTAGGTACCA
*
31758571 AAGTGACTGTTTATACAGACCACTCGACAATTAAGTATTTACTTGCCAAGAAAGACTCTAAGCCG
65 AAGTGACTGTTTATACAGACCACTCGACAATTAAGTATTTACTTGCCAAGAAAGACGCTAAGCCG
*
31758636 GGACTGATCTGATGGGTACTTCTACTTAAAGAGTTCGATCTAGAAATTCAAGATTGAAAGGGAGT
130 GGACTGATCTGATGGGTACTTCTACTTAAAGAGTTCGATCTAGAAATTCAAGATCGAAAGGGAGT
*
31758701 GGAAAACCAAGTAGCAGACCACTTGTTCAGATTGGAGCCATAAGAAGGGAACTCTCCTCTTATAC
195 GGAAAACCAAGTAGCAGACCACTTGTCCAGATTGGAGCCATAAGAAGGGAACTCTCCTCTTATAC
*
31758766 CAATTCGAGAGACGTTTCCAGATGAACACATACTGAAGGTAAATCATGTCGATAATACCCCTTGG
260 CAATTCGAGAGACGTTTCCAGATGAACACATACTGAAGGTAAATCATGTCGATAATACCCCTTAG
* *
31758831 TTTGCTTATATTGCTAACTTTTTAGCTTGTGGTTTGATGCCGATTGATAAGACGTATCATCAAAA
325 TTTGCTGATATTGCTAACTTTTTAGCTTGTGGTTTGATGCCGATTGATAAGACGCATCATCAAAA
31758896 GAAAAAG
390 GAAAAAG
31758903 TTTCTTTACG
Statistics
Matches: 375, Mismatches: 21, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
410 9 0.02
411 366 0.98
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (410 bp):
AGAAAAAGATTACTTGCTATTGTGTTTGCTTTAGACAAGTTTCGATCTTATCTTGTAGGTACCAA
AGTGACTGTTTATACAGACCACTCGACAATTAAGTATTTACTTGCCAAGAAAGACGCTAAGCCGG
GACTGATCTGATGGGTACTTCTACTTAAAGAGTTCGATCTAGAAATTCAAGATCGAAAGGGAGTG
GAAAACCAAGTAGCAGACCACTTGTCCAGATTGGAGCCATAAGAAGGGAACTCTCCTCTTATACC
AATTCGAGAGACGTTTCCAGATGAACACATACTGAAGGTAAATCATGTCGATAATACCCCTTAGT
TTGCTGATATTGCTAACTTTTTAGCTTGTGGTTTGATGCCGATTGATAAGACGCATCATCAAAAG
AAAAAGAGTTACACGGTCAT
Found at i:31761430 original size:7 final size:7
Alignment explanation
Indices: 31761420--31761458 Score: 60
Period size: 7 Copynumber: 5.4 Consensus size: 7
31761410 ATTTTTTCAA
31761420 TCATCCC
1 TCATCCC
31761427 TCATCCC
1 TCATCCC
31761434 TCATCCC
1 TCATCCC
31761441 TCATCCC
1 TCATCCC
*
31761448 ATCATCTC
1 -TCATCCC
31761456 TCA
1 TCA
31761459 CTCATTCATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 24 0.80
8 6 0.20
ACGTcount: A:0.18, C:0.51, G:0.00, T:0.31
Consensus pattern (7 bp):
TCATCCC
Found at i:31761462 original size:19 final size:19
Alignment explanation
Indices: 31761440--31761477 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31761430 TCCCTCATCC
31761440 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
31761459 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
31761478 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:31768834 original size:47 final size:48
Alignment explanation
Indices: 31768765--31768970 Score: 202
Period size: 48 Copynumber: 4.3 Consensus size: 48
31768755 TACTATGCGT
31768765 ACCGATAATCTGTTATGACACAAGGGTAGG-A-GGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGT-GGCACGGACTGTGTGCAGGCC
* *
31768812 ACCGATATTCTGTTGTGACACAAGGGTGGCACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * * *
31768860 ACCAATAA-CTTGTTAAGATACAAGGGTGGCACAGACTATGTGTAGGCC
1 ACCGATAATC-TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * * * * * *
31768908 ACCGAGAATCTATTATTATAGAAAGGTGGTATGGATTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
*
31768956 ACCGAGAAATCTGTT
1 ACCGA-TAATCTGTT
31768971 TTTATTCCGA
Statistics
Matches: 129, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
46 2 0.02
47 27 0.21
48 92 0.71
49 8 0.06
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.24
Consensus pattern (48 bp):
ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:31770038 original size:22 final size:22
Alignment explanation
Indices: 31770013--31770058 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
31770003 ATGTGCGGGT
31770013 GAGGTAATGTATTTATAAAGAG
1 GAGGTAATGTATTTATAAAGAG
31770035 GAGGTAATGTATTTATAAAGAG
1 GAGGTAATGTATTTATAAAGAG
31770057 GA
1 GA
31770059 CTATGTGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.30
Consensus pattern (22 bp):
GAGGTAATGTATTTATAAAGAG
Found at i:31772207 original size:14 final size:14
Alignment explanation
Indices: 31772188--31772217 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
31772178 CATTCCGAAG
*
31772188 TATATATATATACA
1 TATATACATATACA
31772202 TATATACATATACA
1 TATATACATATACA
31772216 TA
1 TA
31772218 AGTATGCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATACATATACA
Found at i:31772734 original size:28 final size:28
Alignment explanation
Indices: 31772666--31772931 Score: 453
Period size: 28 Copynumber: 9.5 Consensus size: 28
31772656 CATGAGATTG
* * * *
31772666 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
31772695 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31772723 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31772751 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31772779 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31772807 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
31772835 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31772863 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
31772891 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
31772918 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
31772932 GACTTAATAT
Statistics
Matches: 228, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.11
28 186 0.82
29 18 0.08
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:31780103 original size:29 final size:29
Alignment explanation
Indices: 31780070--31780143 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
31780060 GTTGTGAGAT
* *
31780070 TGGCACTAGGTGTGCGAACTTGAAA-TGCA
1 TGGCACTAAGTGTGCG-ACTTGAAAGTACA
* *
31780099 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGACTTGAAAGTACA
31780128 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
31780144 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 6 0.15
29 34 0.85
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGACTTGAAAGTACA
Found at i:31790101 original size:48 final size:48
Alignment explanation
Indices: 31790019--31790212 Score: 239
Period size: 48 Copynumber: 4.0 Consensus size: 48
31790009 TATGCGTACT
*
31790019 GATAATCTGTTATGACACAAGGGTGG-ATCAGACTGTGTGCAGGCCACC
1 GATAATCTGTTATGACACAAGGGTGGCA-CGGACTGTGTGCAGGCCACC
* *
31790067 GATATTCTGTTTTGACACAAGGGTGGCACGGACTGTGTGCAGGCCACC
1 GATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACC
* * ** *
31790115 GATAA-CTTGTTAAGATACAAGGGTGGCACGGACTACGTGGAGGCCACC
1 GATAATC-TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACC
* * * * *
31790163 GAGAATCTGTTATTACACAAAGGTGGTATGGACTGTGTGCAGGCCACC
1 GATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACC
31790211 GA
1 GA
31790213 GAAATATATT
Statistics
Matches: 123, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
47 1 0.01
48 120 0.98
49 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (48 bp):
GATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCCACC
Found at i:31795899 original size:51 final size:50
Alignment explanation
Indices: 31795819--31795915 Score: 149
Period size: 51 Copynumber: 1.9 Consensus size: 50
31795809 GCCTTTCCAT
* * *
31795819 CTTTTATTCCCTATGTTCATACCTTTACACCTTTAAACAATTTTTATTCA
1 CTTTTATTCCCCAAGTTCATACCTTTACACCTTTAAACAATCTTTATTCA
*
31795869 CTTTCTATTCCCCAAGTTCGTACCTTTACACCTTTAAACAATCTTTA
1 CTTT-TATTCCCCAAGTTCATACCTTTACACCTTTAAACAATCTTTA
31795916 CTCCACAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
50 4 0.10
51 38 0.90
ACGTcount: A:0.26, C:0.27, G:0.03, T:0.44
Consensus pattern (50 bp):
CTTTTATTCCCCAAGTTCATACCTTTACACCTTTAAACAATCTTTATTCA
Found at i:31797387 original size:15 final size:15
Alignment explanation
Indices: 31797359--31797402 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31797349 AAGGCCAAGG
* *
31797359 AAGAAACTACTGAGA
1 AAGAAGCTATTGAGA
*
31797374 CAGAAGCTATTGAGA
1 AAGAAGCTATTGAGA
*
31797389 AAGAATCTATTGAG
1 AAGAAGCTATTGAG
31797403 GACATTGTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.45, C:0.11, G:0.23, T:0.20
Consensus pattern (15 bp):
AAGAAGCTATTGAGA
Found at i:31798992 original size:26 final size:26
Alignment explanation
Indices: 31798935--31798996 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
31798925 TTTTACTTTG
* **
31798935 GTAAAATTTTGACGATTTTTCCCTTC
1 GTAAAATTTTGACGATTTTACCCTAA
31798961 GATAAAATTTTGACGATTTTACCCTAA
1 G-TAAAATTTTGACGATTTTACCCTAA
31798988 GTAAAATTT
1 GTAAAATTT
31798997 CAAGAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (26 bp):
GTAAAATTTTGACGATTTTACCCTAA
Found at i:31803776 original size:40 final size:40
Alignment explanation
Indices: 31803732--31803839 Score: 180
Period size: 40 Copynumber: 2.7 Consensus size: 40
31803722 GCAAACCCCT
* * *
31803732 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
31803772 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
31803812 TTGCCTTCGGGTCATAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
31803840 TCCAATGCTC
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:31811665 original size:79 final size:82
Alignment explanation
Indices: 31811554--31811738 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
31811544 GCTACTCGTT
* *
31811554 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
31811617 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
31811634 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
31811697 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
31811714 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31811739 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:31811738 original size:40 final size:40
Alignment explanation
Indices: 31811535--31811738 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
31811525 CGGAATTTAA
** *
31811535 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31811575 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
31811615 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
31811654 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
31811694 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
31811734 CCGGA
1 CCGGA
31811739 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:31824400 original size:152 final size:151
Alignment explanation
Indices: 31824178--31824486 Score: 456
Period size: 152 Copynumber: 2.0 Consensus size: 151
31824168 ATTGGTCAAC
* * * * ** *
31824178 TAGTCAAGGTACAAGTGATGCGTACCGAAATTCAAGTGGTTTTAAAAATGAGGTATCGGGACCTC
1 TAGTGAAGGTACAAGTGATGCGTACCGAAAGTCAAGCGATTTTAAAAATGAGGTATCAAGAACTC
* * * *
31824243 ATTTTCATAAATCGAGCCCGTGAATATTTTTATTAAATATTTATGGAGCTTTTATATAGGTGAAT
66 ATTTTCATAAATCGAACCCATGAATATTTTTATTAAATATTTACGAAGCTTTTATATAGGTGAAT
31824308 TGAAGTTTGGTCAAAAAATTT
131 TGAAGTTTGGTCAAAAAATTT
* * *
31824329 TAGTGAAGGTAGAAGTGGTGCGTATCGAAAGTCAAGCGATTTTGAAAAATGAGGTATCAAGAACT
1 TAGTGAAGGTACAAGTGATGCGTACCGAAAGTCAAGCGATTTT-AAAAATGAGGTATCAAGAACT
* *
31824394 CGTTTTCGTAAATCGAACCCATGAATATTTTTATTAAATATTTACGAAGCTTTTATATAGGTGAA
65 CATTTTCATAAATCGAACCCATGAATATTTTTATTAAATATTTACGAAGCTTTTATATAGGTGAA
*
31824459 TTGAAGTTTGGTCCAAAAATTT
130 TTGAAGTTTGGTCAAAAAATTT
31824481 TAGTGA
1 TAGTGA
31824487 TTGAATGATT
Statistics
Matches: 140, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
151 36 0.26
152 104 0.74
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (151 bp):
TAGTGAAGGTACAAGTGATGCGTACCGAAAGTCAAGCGATTTTAAAAATGAGGTATCAAGAACTC
ATTTTCATAAATCGAACCCATGAATATTTTTATTAAATATTTACGAAGCTTTTATATAGGTGAAT
TGAAGTTTGGTCAAAAAATTT
Found at i:31828021 original size:24 final size:24
Alignment explanation
Indices: 31827986--31828037 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
31827976 ACGAAATAAT
* *
31827986 ATATAAAACAATTTAAGGTAAATA
1 ATATAAAACAATTCAAAGTAAATA
*
31828010 ATATAAAGCAATTCAAAGTAAATA
1 ATATAAAACAATTCAAAGTAAATA
31828034 ATAT
1 ATAT
31828038 GCAACGCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (24 bp):
ATATAAAACAATTCAAAGTAAATA
Found at i:31828069 original size:23 final size:23
Alignment explanation
Indices: 31828029--31828076 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
31828019 AATTCAAAGT
* * *
31828029 AAATAATATGCAACGCAAAATAA
1 AAATAACATACAAAGCAAAATAA
*
31828052 AAATAACATACAAAGCAAATTAA
1 AAATAACATACAAAGCAAAATAA
31828075 AA
1 AA
31828077 TAAATAACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.65, C:0.12, G:0.06, T:0.17
Consensus pattern (23 bp):
AAATAACATACAAAGCAAAATAA
Found at i:31828168 original size:28 final size:25
Alignment explanation
Indices: 31828102--31828174 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 25
31828092 ACAATTTTAA
31828102 AATAATATATAAAAAGTTTAAAATG
1 AATAATATATAAAAAGTTTAAAATG
* *
31828127 AATAATATGTAAAAAGAAATTTCAAATG
1 AATAATATATAAAAAG---TTTAAAATG
*
31828155 AATAATATAAAAAACAGTTT
1 AATAATATATAAAA-AGTTT
31828175 TCTTTTAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
25 15 0.38
26 3 0.08
28 20 0.50
29 2 0.05
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (25 bp):
AATAATATATAAAAAGTTTAAAATG
Found at i:31828338 original size:25 final size:24
Alignment explanation
Indices: 31828310--31828388 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 24
31828300 TTAAAAATGC
* *
31828310 ATAATATGTGAAAAACTTAAAATAA
1 ATAATAT-TAAAAAATTTAAAATAA
*
31828335 ATAATAATAAAACAATTTAAAATAA
1 ATAATATTAAAA-AATTTAAAATAA
*
31828360 ATAATATAAAAAAAGTTTAAAATAA
1 ATAATATTAAAAAA-TTTAAAATAA
31828385 ATAA
1 ATAA
31828389 ATAAATAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
24 6 0.13
25 41 0.87
ACGTcount: A:0.66, C:0.03, G:0.04, T:0.28
Consensus pattern (24 bp):
ATAATATTAAAAAATTTAAAATAA
Found at i:31828407 original size:25 final size:23
Alignment explanation
Indices: 31828320--31828400 Score: 99
Period size: 25 Copynumber: 3.3 Consensus size: 23
31828310 ATAATATGTG
*
31828320 AAAAACTTAAAATAAATAATAATAA
1 AAAAATTTAAAATAAAT-A-AATAA
*
31828345 AACAATTTAAAATAAATAATATAA
1 AAAAATTTAAAATAAATAA-ATAA
31828369 AAAAAGTTTAAAATAAATAAATAA
1 AAAAA-TTTAAAATAAATAAATAA
31828393 ATAAAATT
1 A-AAAATT
31828401 GCAAAATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
23 1 0.02
24 16 0.32
25 33 0.66
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.27
Consensus pattern (23 bp):
AAAAATTTAAAATAAATAAATAA
Found at i:31829141 original size:15 final size:15
Alignment explanation
Indices: 31829118--31829182 Score: 78
Period size: 15 Copynumber: 4.3 Consensus size: 15
31829108 TTTAAAATGA
*
31829118 AAAATAAAAAAATAG
1 AAAAGAAAAAAATAG
*
31829133 AGAAGAAAAAAA-AG
1 AAAAGAAAAAAATAG
31829147 AAAAGAAAAAAATAG
1 AAAAGAAAAAAATAG
*
31829162 AAAAAAGAACAAAATAG
1 --AAAAGAAAAAAATAG
31829179 AAAA
1 AAAA
31829183 AAGAACACCT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
14 13 0.30
15 16 0.37
17 14 0.33
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAGAAAAAAATAG
Found at i:31829153 original size:17 final size:16
Alignment explanation
Indices: 31829111--31829187 Score: 74
Period size: 15 Copynumber: 5.0 Consensus size: 16
31829101 TTTTCTTTTT
31829111 AAAAT-GAAAAATA-AA
1 AAAATAGAAAAA-AGAA
*
31829126 AAAATAG--AGAAGAA
1 AAAATAGAAAAAAGAA
* *
31829140 AAAAAAGAAAAGA-AA
1 AAAATAGAAAAAAGAA
31829155 AAAATAGAAAAAAGAA
1 AAAATAGAAAAAAGAA
31829171 CAAAATAGAAAAAAGAA
1 -AAAATAGAAAAAAGAA
31829188 CACCTTTTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 18 0.36
16 5 0.10
17 16 0.32
ACGTcount: A:0.79, C:0.01, G:0.13, T:0.06
Consensus pattern (16 bp):
AAAATAGAAAAAAGAA
Found at i:31829188 original size:17 final size:17
Alignment explanation
Indices: 31829147--31829189 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
31829137 GAAAAAAAAG
*
31829147 AAAAGAAAAAAATAGAA
1 AAAAGAACAAAATAGAA
31829164 AAAAGAACAAAATAGAA
1 AAAAGAACAAAATAGAA
31829181 AAAAGAACA
1 AAAAGAACA
31829190 CCTTTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.79, C:0.05, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAAGAACAAAATAGAA
Found at i:31829300 original size:14 final size:15
Alignment explanation
Indices: 31829277--31829306 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
31829267 TTTATAACCG
31829277 AAAAGAAAAAAGAAA
1 AAAAGAAAAAAGAAA
31829292 AAAAG-AAAAAGAAA
1 AAAAGAAAAAAGAAA
31829306 A
1 A
31829307 GAAAAATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (15 bp):
AAAAGAAAAAAGAAA
Found at i:31830100 original size:21 final size:22
Alignment explanation
Indices: 31830069--31830119 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
31830059 ACACGGTTTG
*
31830069 CTCACACGGTCCTGTGACCCAT
1 CTCACATGGTCCTGTGACCCAT
* * *
31830091 C-CACATGGTCTTGTGGCCTAT
1 CTCACATGGTCCTGTGACCCAT
31830112 CTCACATG
1 CTCACATG
31830120 AGCACGGCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.18, C:0.35, G:0.20, T:0.27
Consensus pattern (22 bp):
CTCACATGGTCCTGTGACCCAT
Found at i:31840863 original size:9 final size:9
Alignment explanation
Indices: 31840849--31840874 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
31840839 TTTATTTTTA
31840849 AAAATATTT
1 AAAATATTT
31840858 AAAATATTT
1 AAAATATTT
31840867 AAAATATT
1 AAAATATT
31840875 AATATAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:31841002 original size:31 final size:30
Alignment explanation
Indices: 31840940--31841005 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
31840930 TTTAGTCATA
*
31840940 TAATAAATTATTAATATAATTTATTATTTT
1 TAATAAATTATTAATATAAATTATTATTTT
31840970 TAATAAATTATTTAATATTTAAATT-TTA-TTT
1 TAATAAATTA-TTAATA--TAAATTATTATTTT
31841001 TAATA
1 TAATA
31841006 GTAAATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
30 10 0.31
31 14 0.44
32 3 0.09
33 5 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (30 bp):
TAATAAATTATTAATATAAATTATTATTTT
Found at i:31846125 original size:30 final size:30
Alignment explanation
Indices: 31846079--31846202 Score: 203
Period size: 30 Copynumber: 4.1 Consensus size: 30
31846069 ATTTCTTATA
*
31846079 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
31846110 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
31846140 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
31846170 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
31846200 CCA
1 CCA
31846203 TAAATATGGA
Statistics
Matches: 88, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
30 81 0.92
31 7 0.08
ACGTcount: A:0.26, C:0.24, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:31846134 original size:15 final size:15
Alignment explanation
Indices: 31846076--31846196 Score: 79
Period size: 15 Copynumber: 8.1 Consensus size: 15
31846066 CAGATTTCTT
* *
31846076 ATACCAATATC-TCG
1 ATACCCATATCTTTG
31846090 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
31846105 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
31846120 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** *
31846135 ACTTTCCA-ATATTTG
1 A-TACCCATATCTTTG
31846150 ATACCCATATCTTTG
1 ATACCCATATCTTTG
** * *
31846165 ACTTTCTAT-TATTTG
1 A-TACCCATATCTTTG
31846180 ATACCCATATCTTTG
1 ATACCCATATCTTTG
31846195 AT
1 AT
31846197 TTTCCATAAA
Statistics
Matches: 78, Mismatches: 22, Indels: 13
0.69 0.19 0.12
Matches are distributed among these distances:
14 22 0.28
15 44 0.56
16 12 0.15
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
ATACCCATATCTTTG
Found at i:31850108 original size:159 final size:159
Alignment explanation
Indices: 31849816--31850136 Score: 624
Period size: 159 Copynumber: 2.0 Consensus size: 159
31849806 AATTTAGCAA
31849816 GTCTGCTAAAATTTTATTGAATGAGTTCACATGGTCATTCATCGACATACCGGGTGCATACGTGA
1 GTCTGCTAAAATTTTATTGAATGAGTTCACATGGTCATTCATCGACATACCGGGTGCATACGTGA
*
31849881 ATCGATAAAGTTTCTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTTC
66 ATCGATAAAGTTTCTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCC
*
31849946 AGTGTATTCCACAACTTCTTCGCTGATGT
131 AGTGTATCCCACAACTTCTTCGCTGATGT
31849975 GTCTGCTAAAATTTTATTGAATGAGTTCACATGGTCATTCATCGACATACCGGGTGCATACGTGA
1 GTCTGCTAAAATTTTATTGAATGAGTTCACATGGTCATTCATCGACATACCGGGTGCATACGTGA
31850040 ATCGATAAAGTTTCTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCC
66 ATCGATAAAGTTTCTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCC
31850105 AGTGTATCCCACAACTTCTTCGCTGATGT
131 AGTGTATCCCACAACTTCTTCGCTGATGT
31850134 GTC
1 GTC
31850137 CCTCATGACA
Statistics
Matches: 160, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 160 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (159 bp):
GTCTGCTAAAATTTTATTGAATGAGTTCACATGGTCATTCATCGACATACCGGGTGCATACGTGA
ATCGATAAAGTTTCTTTTTCATATAAAGCCTATTTTCAAGACTTTTTGTTAGAAACTTTTCTTCC
AGTGTATCCCACAACTTCTTCGCTGATGT
Found at i:31850981 original size:30 final size:30
Alignment explanation
Indices: 31850931--31851019 Score: 107
Period size: 25 Copynumber: 3.1 Consensus size: 30
31850921 ATTTCTTATA
*
31850931 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
31850962 CCAATATTTGATACTCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
31850991 ----TATTTGATACCCATATATTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
31851017 CCA
1 CCA
31851020 TAAATATGGA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
25 21 0.42
26 2 0.04
29 2 0.04
30 18 0.36
31 7 0.14
ACGTcount: A:0.27, C:0.24, G:0.07, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:31851904 original size:80 final size:80
Alignment explanation
Indices: 31851813--31852072 Score: 267
Period size: 80 Copynumber: 3.2 Consensus size: 80
31851803 ATTTTATTCG
* *
31851813 ATTTTATTTCCAAATTAAAAGTGAATAAAATCTATTTCGGGATTTATTCCCTCAGTTCAACGAAT
1 ATTTTATTTCCAAATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCTCAGTTCAACGAAT
31851878 TTTATTCTATTTTTT
66 TTTATTCTATTTTTT
* * * * *
31851893 ATTTTATTTCCAAATGAGAATTAAAGTTAAATAAAATCTGTTTCAGGATTTATTCCCGCCGCTCA
1 ATTTTATTTCCAAAT-----TAAAAG-TAAATAAAATCTGTTTCGGGATTTATTCCCTCAGTTCA
* *
31851958 ACGAACTTTATTCCATTTTTT
60 ACGAATTTTATTCTATTTTTT
* * * * *
31851979 ATTTGATTTCCAAA-CAAGAATTAAATAAAATCTGTTTCGGGATTTATT-CTTGCCA-TTC-ACT
1 ATTTTATTTCCAAATTAA-AAGTAAATAAAATCTGTTTCGGGATTTATTCCCT--CAGTTCAACG
31852040 AGATTTTATTCTATTTTTT
63 A-ATTTTATTCTATTTTTT
*
31852059 ATTTTGTTTCCAAA
1 ATTTTATTTCCAAA
31852073 ACGAGAAATT
Statistics
Matches: 147, Mismatches: 23, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
79 4 0.03
80 71 0.48
81 3 0.02
85 5 0.03
86 64 0.44
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.45
Consensus pattern (80 bp):
ATTTTATTTCCAAATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCTCAGTTCAACGAAT
TTTATTCTATTTTTT
Found at i:31851948 original size:86 final size:84
Alignment explanation
Indices: 31851836--31852115 Score: 304
Period size: 86 Copynumber: 3.3 Consensus size: 84
31851826 ATTAAAAGTG
31851836 AATAAAATCTATTTCGGGATTTATTCCCTCAGTTCAACGAATTTTATTCTATTTTTTATTTTATT
1 AATAAAATCTATTTCGGGATTTATTCCCTCAGTTCAACGAATTTTATTCTATTTTTTATTTTATT
31851901 TCCAAATGAGAATTAAAGTTA
66 TCCAAA-GAGAATTAAA-TTA
* * * * * * * *
31851922 AATAAAATCTGTTTCAGGATTTATTCCCGCCGCTCAACGAACTTTATTCCATTTTTTATTTGATT
1 AATAAAATCTATTTCGGGATTTATTCCCTCAGTTCAACGAATTTTATTCTATTTTTTATTTTATT
* *
31851987 TCC-AA-ACAA--GAATTA
66 TCCAAAGAGAATTAAATTA
* * *
31852002 AATAAAATCTGTTTCGGGATTTATT-CTTGCCA-TTC-ACTAGATTTTATTCTATTTTTTATTTT
1 AATAAAATCTATTTCGGGATTTATTCCCT--CAGTTCAACGA-ATTTTATTCTATTTTTTATTTT
*
31852064 GTTTCCAAAACGAGAAATTAAAATTA
63 ATTTCC-AAA-GAG-AATT-AAATTA
31852090 AATAAAATCTATTTCGGGATTTATTC
1 AATAAAATCTATTTCGGGATTTATTC
31852116 TCGCCGTTTA
Statistics
Matches: 159, Mismatches: 23, Indels: 21
0.78 0.11 0.10
Matches are distributed among these distances:
79 4 0.03
80 53 0.33
81 3 0.02
82 2 0.01
83 3 0.02
84 1 0.01
85 4 0.03
86 60 0.38
88 29 0.18
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (84 bp):
AATAAAATCTATTTCGGGATTTATTCCCTCAGTTCAACGAATTTTATTCTATTTTTTATTTTATT
TCCAAAGAGAATTAAATTA
Found at i:31863479 original size:95 final size:95
Alignment explanation
Indices: 31863331--31863506 Score: 273
Period size: 95 Copynumber: 1.9 Consensus size: 95
31863321 ACAATTGAGC
* * *
31863331 TATCACCTTTTGTTCACTGTTATTGGTGTAGTTCAAAATATCATAGGGCTTTCCAATGTCCAATT
1 TATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAGGGCTTTCCAATGTCCAATT
*
31863396 AAATATTCAAATAGAGGAATACGATTGAAA
66 AAATATCCAAATAGAGGAATACGATTGAAA
* *
31863426 TATCAGCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAAGGG-TTTCCAATGTCTAAT
1 TATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCAT-AGGGCTTTCCAATGTCCAAT
*
31863490 TAAATATCCAACTAGAG
65 TAAATATCCAAATAGAG
31863507 AAGAAAGTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 69 0.95
96 4 0.05
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (95 bp):
TATCACCTTTTGTGCAATGTTATTGGTGTAGTTCAAAAGATCATAGGGCTTTCCAATGTCCAATT
AAATATCCAAATAGAGGAATACGATTGAAA
Found at i:31865267 original size:119 final size:119
Alignment explanation
Indices: 31865121--31865366 Score: 483
Period size: 119 Copynumber: 2.1 Consensus size: 119
31865111 GCTTTTAATT
31865121 CGAGTTTTGGACTTAATTTTTATTATATATGAGCCCAATATTGTATTTATCAGCTCTTATTATTT
1 CGAGTTTTGGACTTAATTTTTATTATATATGAGCCCAATATTGTATTTATCAGCTCTTATTATTT
*
31865186 TATTATTTTATTATTCCAAATTTTTAATAATTTTTAAGTAGTTTAAGTTATTTA
66 TATTATTTTATTATTCCAAATTTTTAATAATTATTAAGTAGTTTAAGTTATTTA
31865240 CGAGTTTTGGACTTAATTTTTATTATATATGAGCCCAATATTGTATTTATCAGCTCTTATTATTT
1 CGAGTTTTGGACTTAATTTTTATTATATATGAGCCCAATATTGTATTTATCAGCTCTTATTATTT
31865305 TATTATTTTATTATTCCAAATTTTTAATAATTATTAAGTAGTTTAAGTTATTTA
66 TATTATTTTATTATTCCAAATTTTTAATAATTATTAAGTAGTTTAAGTTATTTA
31865359 CGAGTTTT
1 CGAGTTTT
31865367 ATGTTAACAA
Statistics
Matches: 126, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
119 126 1.00
ACGTcount: A:0.29, C:0.09, G:0.10, T:0.52
Consensus pattern (119 bp):
CGAGTTTTGGACTTAATTTTTATTATATATGAGCCCAATATTGTATTTATCAGCTCTTATTATTT
TATTATTTTATTATTCCAAATTTTTAATAATTATTAAGTAGTTTAAGTTATTTA
Found at i:31865590 original size:15 final size:15
Alignment explanation
Indices: 31865572--31865606 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
31865562 ATTTTTCTTT
31865572 AGTTTCTTTTAGAAG
1 AGTTTCTTTTAGAAG
31865587 AGTTTCTTTTAGAAG
1 AGTTTCTTTTAGAAG
31865602 AGTTT
1 AGTTT
31865607 TAACAATCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.26, C:0.06, G:0.20, T:0.49
Consensus pattern (15 bp):
AGTTTCTTTTAGAAG
Found at i:31867214 original size:62 final size:62
Alignment explanation
Indices: 31867143--31867279 Score: 197
Period size: 62 Copynumber: 2.2 Consensus size: 62
31867133 GCGAACGGAT
* *
31867143 GTGTGTCCAGGCCGTGTAACTTACTATTTGTATTTTTGGTCACACTGG-CTAAGG-ACATAGGC
1 GTGTGTCCAGGCCGTGGAACTCACTATTTGTATTTTTGGTCACAC-GGACT-AGGCACATAGGC
* *
31867205 GTGTGTCCAGGCCGTGGAACTCACTGTTTGTATTTTTGGTCACACGGACTAGGCACATAGGT
1 GTGTGTCCAGGCCGTGGAACTCACTATTTGTATTTTTGGTCACACGGACTAGGCACATAGGC
*
31867267 GTGTGTCTAGGCC
1 GTGTGTCCAGGCC
31867280 ATGTGTGGGG
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
61 5 0.07
62 63 0.93
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.32
Consensus pattern (62 bp):
GTGTGTCCAGGCCGTGGAACTCACTATTTGTATTTTTGGTCACACGGACTAGGCACATAGGC
Found at i:31868846 original size:15 final size:15
Alignment explanation
Indices: 31868828--31868859 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31868818 CAATTTACCT
31868828 AAAATCTAAATCTAA
1 AAAATCTAAATCTAA
*
31868843 AAAATTTAAATCTAA
1 AAAATCTAAATCTAA
31868858 AA
1 AA
31868860 CTTAAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATCTAAATCTAA
Found at i:31868859 original size:14 final size:14
Alignment explanation
Indices: 31868828--31868873 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
31868818 CAATTTACCT
*
31868828 AAAATCTAAATCTAA
1 AAAATTTAAATCT-A
31868843 AAAATTTAAATCTA
1 AAAATTTAAATCTA
* *
31868857 AAACTTAAAATCTA
1 AAAATTTAAATCTA
31868871 AAA
1 AAA
31868874 GTATGAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATTTAAATCTA
Found at i:31869635 original size:43 final size:43
Alignment explanation
Indices: 31869572--31869836 Score: 336
Period size: 43 Copynumber: 6.2 Consensus size: 43
31869562 AGAAAAAAAA
* * *
31869572 GCCGCGAAATACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
** * *
31869615 GCCGCTAAAGACCACGACCTTTAGCGGCAATTTCCCCATAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
*
31869658 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
* * *
31869701 GCTGCTAAAGACCACGACGTTTAGCGGCGCTTTTCCCACAAGC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
* ** *
31869744 GCCGCTAAAGACCACGACCTTTAGCGGCACTTTTATCACAAAT
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
* * ** *
31869787 GCCGCTAAAGA-CA-AACCTTTAGCGGCGCTTCTAGCAAAAAC
1 GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
31869828 GCCGCTAAA
1 GCCGCTAAA
31869837 AACATAATCT
Statistics
Matches: 193, Mismatches: 29, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 31 0.16
42 2 0.01
43 160 0.83
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (43 bp):
GCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCCACAAAC
Found at i:31869736 original size:129 final size:127
Alignment explanation
Indices: 31869582--31869816 Score: 371
Period size: 129 Copynumber: 1.8 Consensus size: 127
31869572 GCCGCGAAAT
31869582 ACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCAATT
1 ACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCAATT
* *
31869647 TCCCCATAAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAG
66 TCACCACAAACGCCGCTAAAGA-CAA-ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAG
* * * *
31869711 ACCACGACGTTTAGCGGCGCTTTTCCCACAAGCGCCGCTAAAGACCACGACCTTTAGCGGCACTT
1 ACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCAATT
* * *
31869776 TTATCACAAATGCCGCTAAAGACAAACCTTTAGCGGCGCTT
66 TCACCACAAACGCCGCTAAAGACAAACCTTTAGCGGCGCTT
31869817 CTAGCAAAAA
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
127 16 0.16
128 3 0.03
129 78 0.80
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (127 bp):
ACCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGACCTTTAGCGGCAATT
TCACCACAAACGCCGCTAAAGACAAACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAG
Found at i:31875009 original size:41 final size:41
Alignment explanation
Indices: 31874963--31875154 Score: 188
Period size: 41 Copynumber: 4.7 Consensus size: 41
31874953 ATATTTTTTA
* * * *
31874963 CGGCGTTTTTTTAAAAACGTCGCTAAAGACCCGAAAATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGAATTAG
* * * **
31875004 TGGCG-TTTCTGAAGAAACGCCGCTAAAGACTTGAGAATTAG
1 CGGCGCTTTTTCAA-AAACGCCGCTAAAGACCCGAGAATTAG
* * * * *
31875045 CGGTGCCTCTTCAAAAATGCCGCTAAAGACCCGAGCATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGAATTAG
*
31875086 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGCATTAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGAATTAG
* * * * *
31875127 TGGCACCTCTTCAAAAATGCCGCTAAAG
1 CGGCGCTTTTTCAAAAACGCCGCTAAAG
31875155 CTCATTTATA
Statistics
Matches: 123, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 6 0.05
41 113 0.92
42 4 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.22
Consensus pattern (41 bp):
CGGCGCTTTTTCAAAAACGCCGCTAAAGACCCGAGAATTAG
Found at i:31875112 original size:82 final size:82
Alignment explanation
Indices: 31874983--31875154 Score: 229
Period size: 82 Copynumber: 2.1 Consensus size: 82
31874973 TTAAAAACGT
* * **
31874983 CGCTAAAGACCCGAAAATTAGTGGCGTTTCTGAAGAAACGCCGCTAAAGACTTGAGAATTAGCGG
1 CGCTAAAGACCCGAAAATTAGCGGCGTTTCTCAAGAAACGCCGCTAAAGACCCGAGAATTAGCGG
**
31875048 TGCCTCTTCAAAAATGC
66 CACCTCTTCAAAAATGC
** * * *
31875065 CGCTAAAGACCCGAGCATTAGCGGCGCTTTTTCAA-AAACGCCGCTAAAGACCCGAGCATTAGTG
1 CGCTAAAGACCCGAAAATTAGCGGCG-TTTCTCAAGAAACGCCGCTAAAGACCCGAGAATTAGCG
31875129 GCACCTCTTCAAAAATGC
65 GCACCTCTTCAAAAATGC
31875147 CGCTAAAG
1 CGCTAAAG
31875155 CTCATTTATA
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
82 72 0.92
83 6 0.08
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (82 bp):
CGCTAAAGACCCGAAAATTAGCGGCGTTTCTCAAGAAACGCCGCTAAAGACCCGAGAATTAGCGG
CACCTCTTCAAAAATGC
Found at i:31881313 original size:26 final size:26
Alignment explanation
Indices: 31881265--31881320 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
31881255 CCTGTAAGTG
*
31881265 TTCTGAAACTGATACATGCTATGATA
1 TTCTGAAACTAATACATGCTATGATA
* *
31881291 TTCTGAAACTAATATATGTTATGATA
1 TTCTGAAACTAATACATGCTATGATA
31881317 TTCT
1 TTCT
31881321 AAAATTACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.41
Consensus pattern (26 bp):
TTCTGAAACTAATACATGCTATGATA
Found at i:31890787 original size:47 final size:47
Alignment explanation
Indices: 31890730--31891080 Score: 603
Period size: 47 Copynumber: 7.4 Consensus size: 47
31890720 ATTGATGTAC
* * * * *
31890730 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31890777 AAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31890826 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31890873 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31890920 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
31890967 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
* * *
31891014 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
*
31891061 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
31891081 TCCCGAAGGG
Statistics
Matches: 293, Mismatches: 9, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 250 0.85
49 43 0.15
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
Found at i:31897215 original size:17 final size:18
Alignment explanation
Indices: 31897193--31897230 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
31897183 GACCTACATA
31897193 AAAAATAAAA-CACACAC
1 AAAAATAAAAGCACACAC
*
31897210 AAAAATAAAAGCACATAC
1 AAAAATAAAAGCACACAC
31897228 AAA
1 AAA
31897231 TTGTAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.71, C:0.18, G:0.03, T:0.08
Consensus pattern (18 bp):
AAAAATAAAAGCACACAC
Found at i:31899569 original size:39 final size:40
Alignment explanation
Indices: 31899498--31899642 Score: 172
Period size: 40 Copynumber: 3.6 Consensus size: 40
31899488 GCTACCCGTT
* *
31899498 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
31899538 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
31899577 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
31899618 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
31899643 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
38 3 0.03
39 31 0.34
40 44 0.49
41 12 0.13
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:31911499 original size:56 final size:56
Alignment explanation
Indices: 31911432--31911663 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
31911422 TATTAGTTTA
* *
31911432 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
31911488 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
31911544 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
31911600 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
31911656 TTGCCCAT
1 TTGCCCAT
31911664 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:31917973 original size:5 final size:5
Alignment explanation
Indices: 31917963--31917989 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
31917953 ATTATTCATC
31917963 TTTAT TTTAT TTTAT TTTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TT
31917990 ATAGTAGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:31925968 original size:27 final size:27
Alignment explanation
Indices: 31925938--31926115 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
31925928 ATATTGAGTC
* * * *
31925938 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
31925965 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31925992 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
31926020 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
31926047 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
31926074 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
31926101 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31926116 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:31926077 original size:82 final size:81
Alignment explanation
Indices: 31925959--31926114 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
31925949 TGCTATATAA
* *
31925959 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
31926024 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
31926041 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
31926105 CACTTAGTGC
65 CACTTAGTGC
31926115 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:31930027 original size:332 final size:332
Alignment explanation
Indices: 31929421--31930084 Score: 1301
Period size: 332 Copynumber: 2.0 Consensus size: 332
31929411 TGATCAATAC
31929421 TCATAAACACCCGAAACAAATAAACACAAAAAATGGAATTAAAATTTAACAGAAAAAAAGACCAA
1 TCATAAACACCCGAAACAAATAAACACAAAAAATGGAATTAAAATTTAACAGAAAAAAAGACCAA
31929486 AATGCAAAATTAACAATTTCACAAATAATGTCTTTTAAAATAGTCCCCAGCAACAGAGCCAAAAA
66 AATGCAAAATTAACAATTTCACAAATAATGTCTTTTAAAATAGTCCCCAGCAACAGAGCCAAAAA
31929551 CTTGGAACGACGGAAATGTGCAAGTGTACACAATCACAATAAGTAATAAAGTGACAAGTAAATGT
131 CTTGGAACGACGGAAATGTGCAAGTGTACACAATCACAATAAGTAATAAAGTGACAAGTAAATGT
31929616 TGAGTTACCGTACCCACACGGACTGTGAAAAGAATTATTTATGAATGCAATTTAAAACACTTTGG
196 TGAGTTACCGTACCCACACGGACTGTGAAAAGAATTATTTATGAATGCAATTTAAAACACTTTGG
*
31929681 TGAAGAAAAATATTTTAATTTGAGGAGATGATTGAAAACTAAGATTTTTAACTAAGTAAAAGAAA
261 TGAAGAAAAATATTTTAATTTGAGGAGATGATTGAAAACTAAGAATTTTAACTAAGTAAAAGAAA
31929746 TAAAAAT
326 TAAAAAT
31929753 TCATAAACACCCGAAACAAATAAACACAAAAAATGGAATTAAAATTTAACAGAAAAAAAGACCAA
1 TCATAAACACCCGAAACAAATAAACACAAAAAATGGAATTAAAATTTAACAGAAAAAAAGACCAA
31929818 AATGCAAAATTAACAATTTCACAAATAATGTCTTTTAAAATAGTCCCCAGCAACAGAGCCAAAAA
66 AATGCAAAATTAACAATTTCACAAATAATGTCTTTTAAAATAGTCCCCAGCAACAGAGCCAAAAA
31929883 CTTGGAACGACGGAAATGTGCAAGTGTACACAATCACAATAAGTAATAAAGTGACAAGTAAATGT
131 CTTGGAACGACGGAAATGTGCAAGTGTACACAATCACAATAAGTAATAAAGTGACAAGTAAATGT
*
31929948 TGAGTTACCGTACCCACAGGGACTGTGAAAAGAATTATTTATGAATGCAATTTAAAACACTTTGG
196 TGAGTTACCGTACCCACACGGACTGTGAAAAGAATTATTTATGAATGCAATTTAAAACACTTTGG
*
31930013 TGAAGAAAAATATTTTGATTTGAGGAGATGATTGAAAACTAAGAATTTTAACTAAGTAAAAGAAA
261 TGAAGAAAAATATTTTAATTTGAGGAGATGATTGAAAACTAAGAATTTTAACTAAGTAAAAGAAA
31930078 TAAAAAT
326 TAAAAAT
31930085 AAAATAAAAG
Statistics
Matches: 329, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
332 329 1.00
ACGTcount: A:0.48, C:0.14, G:0.15, T:0.24
Consensus pattern (332 bp):
TCATAAACACCCGAAACAAATAAACACAAAAAATGGAATTAAAATTTAACAGAAAAAAAGACCAA
AATGCAAAATTAACAATTTCACAAATAATGTCTTTTAAAATAGTCCCCAGCAACAGAGCCAAAAA
CTTGGAACGACGGAAATGTGCAAGTGTACACAATCACAATAAGTAATAAAGTGACAAGTAAATGT
TGAGTTACCGTACCCACACGGACTGTGAAAAGAATTATTTATGAATGCAATTTAAAACACTTTGG
TGAAGAAAAATATTTTAATTTGAGGAGATGATTGAAAACTAAGAATTTTAACTAAGTAAAAGAAA
TAAAAAT
Found at i:31933961 original size:132 final size:130
Alignment explanation
Indices: 31933724--31934121 Score: 539
Period size: 132 Copynumber: 3.0 Consensus size: 130
31933714 CAACTTCAGA
* ** * * * *
31933724 GAGATAAGACCTGGAATTTTCAACCTACTCCACTGCTGCTCAGGGAAACAAGGCTCAGTGGCTTA
1 GAGATAAGATCTGCTATCTTCAACCTAATCC-CTGCTGCTCAGGGAGACAAGG-TCGGTGGCTTA
* * * *
31933789 GATCTACTTCCCACTATCCTGGAAAGATAAGATTTTCCGTCTTTCATCTGCTCCACTACTGCTTA
64 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTA
*
31933854 AG
129 GG
*
31933856 GAGATAAGATCTGCTATCTTCAACCTAATCCGCTGCTGTTCAGGGAGACAAGGTTCGGTGGCTTA
1 GAGATAAGATCTGCTATCTTCAACCTAATCC-CTGCTGCTCAGGGAGACAAGG-TCGGTGGCTTA
*
31933921 AATCTGCTTCCCACTATCTTGGAAAGATAAGGTTTTCCGTCTTTGATCTGCTCCACTACTGCTTA
64 AATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTA
31933986 GG
129 GG
* * *
31933988 GAGATAAGATCTACTATCTTCAACCT-A-CCCCGCTGCTCAGGGAGACAAGGCCTGGTGGCTTAA
1 GAGATAAGATCTGCTATCTTCAACCTAATCCCTGCTGCTCAGGGAGACAAGGTC-GGTGGCTTAA
* * * * *
31934051 ATATGCTTCCCACTATCTTAGAAAGATAAGATTTGCCGTCTTTGATCTGCTCCACGACTGCTGAG
65 ATCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTAG
31934116 G
130 G
31934117 GAGAT
1 GAGAT
31934122 GAGGCCTGGT
Statistics
Matches: 239, Mismatches: 26, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
128 1 0.00
129 94 0.39
130 2 0.01
131 1 0.00
132 141 0.59
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (130 bp):
GAGATAAGATCTGCTATCTTCAACCTAATCCCTGCTGCTCAGGGAGACAAGGTCGGTGGCTTAAA
TCTGCTTCCCACTATCTTGGAAAGATAAGATTTTCCGTCTTTGATCTGCTCCACTACTGCTTAGG
Found at i:31934127 original size:88 final size:88
Alignment explanation
Indices: 31934020--31934212 Score: 287
Period size: 88 Copynumber: 2.2 Consensus size: 88
31934010 ACCTACCCCG
*
31934020 CTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATATGCTTCCCACTATCTTAGAAAGATAAGATTT
1 CTGCTCAGGGAGATAAGGCCTGGTGGCTTAAATATGCTTCCCACTATCTTAGAAAGATAAGATTT
*
31934085 GCCGTCTTTGATCTGCTCCACGA
66 GCCATCTTTGATCTGCTCCACGA
* * * *
31934108 CTGCTGAGGGAGATGAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
1 CTGCTCAGGGAGATAAGGCCTGGTGGCTTAAATATGCTTCCCACTATCTTAGAAAGATAAGATTT
* * *
31934173 TCCATCTTTGATCTGTTCCACTA
66 GCCATCTTTGATCTGCTCCACGA
* *
31934196 ATGCTTAGGGAGATAAG
1 CTGCTCAGGGAGATAAG
31934213 ATTTAGTGTC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 93 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (88 bp):
CTGCTCAGGGAGATAAGGCCTGGTGGCTTAAATATGCTTCCCACTATCTTAGAAAGATAAGATTT
GCCATCTTTGATCTGCTCCACGA
Found at i:31934304 original size:132 final size:132
Alignment explanation
Indices: 31934108--31934346 Score: 397
Period size: 132 Copynumber: 1.8 Consensus size: 132
31934098 TGCTCCACGA
* **
31934108 CTGCTGAGGGAGATGAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
1 CTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
* *
31934173 TCCATCTTTGATCTGTTCCACTAATGCTTAGGGAGATAAGATTTAGTGTCTTCAACCTACTCCGC
66 GCCATCTTTGATCTGCTCCACTAATGCTTAGGGAGATAAGATTTAGTGTCTTCAACCTACTCCGC
31934238 TG
131 TG
*
31934240 CTGCTCAGGGAGACAAGGCCTGGTGGTTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
1 CTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
** *
31934305 GCTGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
66 GCCATCTTTGATCTGCTCCACTAATGCTTAGGGAGATAAGAT
31934347 CTGCTATCTT
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 98 1.00
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.32
Consensus pattern (132 bp):
CTGCTCAGGGAGACAAGGCCTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTT
GCCATCTTTGATCTGCTCCACTAATGCTTAGGGAGATAAGATTTAGTGTCTTCAACCTACTCCGC
TG
Found at i:31949038 original size:10 final size:10
Alignment explanation
Indices: 31949019--31949065 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
31949009 AAATCTATCG
31949019 AAAA-TAATC
1 AAAATTAATC
31949028 AAAATTAATC
1 AAAATTAATC
*
31949038 AAAATTAATTAT
1 AAAATTAA-T-C
*
31949050 AAAATTAATT
1 AAAATTAATC
31949060 AAAATT
1 AAAATT
31949066 CAACATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATC
Found at i:31953331 original size:20 final size:21
Alignment explanation
Indices: 31953292--31953331 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
31953282 CACCAAGTGA
31953292 AAGCATTTACATGAACAACTTC
1 AAGCATTTACAT-AACAACTTC
*
31953314 AAGCATTTAGAT-ACAACT
1 AAGCATTTACATAACAACT
31953332 ATGTTCTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
22 11 0.65
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
AAGCATTTACATAACAACTTC
Found at i:31953867 original size:70 final size:70
Alignment explanation
Indices: 31953740--31953941 Score: 225
Period size: 70 Copynumber: 2.9 Consensus size: 70
31953730 TGTGTCTAGG
* *
31953740 ACTAGTCGAACAAGTCAAC-AA--ATTGTGTCCAGCGCTAGTTAGATAACTGATGATAGTTGTGC
1 ACTAGTCGAACAAGTCAACAAATTATTGCGGCCAGCGCTAGTTAGATAACTGATGATAGTTGTGC
31953802 CC-ATC
66 CCGA-C
* *
31953807 ACTAGTCGAACAAGTCGACAAATTATTGCGGCCAGCGCTGGTTAGATAACCT-ATGATAGTTGTG
1 ACTAGTCGAACAAGTCAACAAATTATTGCGGCCAGCGCTAGTTAGATAA-CTGATGATAGTTGTG
31953871 CCCGAC
65 CCCGAC
* ** * * * ** **
31953877 ACTAGTTGAATGAGTCAACAAATTATTGTGTCCAACGCTAGTCGGATAACTGACAATAGTTGTGC
1 ACTAGTCGAACAAGTCAACAAATTATTGCGGCCAGCGCTAGTTAGATAACTGATGATAGTTGTGC
31953942 TCACCAAGAA
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
67 18 0.16
68 2 0.02
69 2 0.02
70 88 0.78
71 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (70 bp):
ACTAGTCGAACAAGTCAACAAATTATTGCGGCCAGCGCTAGTTAGATAACTGATGATAGTTGTGC
CCGAC
Found at i:31957796 original size:5 final size:5
Alignment explanation
Indices: 31957788--31957820 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
31957778 ATAGAAAGAG
31957788 AAATA AAATA ATAAT- AAATA AAATA AAATA AAA
1 AAATA AAATA A-AATA AAATA AAATA AAATA AAA
31957821 ACAAAAGGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
4 3 0.12
5 20 0.77
6 3 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:31958542 original size:18 final size:17
Alignment explanation
Indices: 31958511--31958544 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
31958501 GTCATGTCTC
*
31958511 TTTTTTTAAAATATTTA
1 TTTTTTAAAAATATTTA
31958528 TTTTTTAAAATATATTT
1 TTTTTTAAAA-ATATTT
31958545 TACTATACCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAAAATATTTA
Found at i:31959284 original size:12 final size:12
Alignment explanation
Indices: 31959267--31959310 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
31959257 ATATATAAAA
31959267 TAATTAAATATT
1 TAATTAAATATT
31959279 TAATTAAA-A-T
1 TAATTAAATATT
31959289 TAATATAAATATT
1 TAAT-TAAATATT
*
31959302 TATTTAAAT
1 TAATTAAAT
31959311 TTTTTTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 5 0.18
11 5 0.18
12 14 0.50
13 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATTAAATATT
Found at i:31959299 original size:23 final size:21
Alignment explanation
Indices: 31959262--31959309 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
31959252 TGACTATATA
31959262 TAAAATAATTAAATATTTAAT
1 TAAAATAATTAAATATTTAAT
*
31959283 TAAAATTAATATAAATATTTATT
1 TAAAA-TAAT-TAAATATTTAAT
31959306 TAAA
1 TAAA
31959310 TTTTTTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 15 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAAATAATTAAATATTTAAT
Found at i:31973714 original size:15 final size:15
Alignment explanation
Indices: 31973696--31973727 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31973686 CAATTTACCT
31973696 AAAATCTAAATCTAA
1 AAAATCTAAATCTAA
*
31973711 AAAATTTAAATCTAA
1 AAAATCTAAATCTAA
31973726 AA
1 AA
31973728 CTTAAAATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATCTAAATCTAA
Found at i:31973727 original size:14 final size:14
Alignment explanation
Indices: 31973696--31973741 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
31973686 CAATTTACCT
*
31973696 AAAATCTAAATCTAA
1 AAAATTTAAATCT-A
31973711 AAAATTTAAATCTA
1 AAAATTTAAATCTA
* *
31973725 AAACTTAAAATCTA
1 AAAATTTAAATCTA
31973739 AAA
1 AAA
31973742 GTATGAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATTTAAATCTA
Found at i:31973780 original size:18 final size:18
Alignment explanation
Indices: 31973757--31973794 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
31973747 AAACATAATT
*
31973757 CTAAAAATCCAATTTAAA
1 CTAAAAATCAAATTTAAA
*
31973775 CTAAAAATCAAATTTGAA
1 CTAAAAATCAAATTTAAA
31973793 CT
1 CT
31973795 TAATAAACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.16, G:0.03, T:0.29
Consensus pattern (18 bp):
CTAAAAATCAAATTTAAA
Found at i:31978687 original size:42 final size:41
Alignment explanation
Indices: 31978616--31978861 Score: 171
Period size: 42 Copynumber: 5.9 Consensus size: 41
31978606 TTGTGTTTAC
* * *
31978616 TTTCCGTTTAGCTCTCA-TGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTC-CATTGAGCTTCTGTTTAAC-CTTATGGG
* *
31978658 TTTTCGTTCAGCTCCATTGAGCTTTTGTTTAAGCCTTATGGG
1 TTTCCGTTCAGCTCCATTGAGCTTCTGTTTAA-CCTTATGGG
** * *
31978700 TTTCCGTTCAGCTTTATTAAGCTTTTGTTTAACCCTTATGGG
1 TTTCCGTTCAGCTCCATTGAGCTTCTGTTTAA-CCTTATGGG
* * *
31978742 TTTCCGTTCAACT-CACTCGAGCTTCTGTTTAACCCTTATAGGT
1 TTTCCGTTCAGCTCCA-TTGAGCTTCTGTTTAA-CCTTAT-GGG
* * * * *
31978785 TTTTC-TTCAG-TTCTTATGAGCTTCCGTTCAACCTTTATGGG
1 TTTCCGTTCAGCTCCAT-TGAGCTTCTGTTTAACC-TTATGGG
* * *
31978826 TTTCTGGTT-AGCT-CTTATGAGCTTCTGTTTAGCCTT
1 TTTC-CGTTCAGCTCCAT-TGAGCTTCTGTTTAACCTT
31978862 CGAGCTCTTA
Statistics
Matches: 166, Mismatches: 28, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
41 14 0.08
42 142 0.86
43 10 0.06
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (41 bp):
TTTCCGTTCAGCTCCATTGAGCTTCTGTTTAACCTTATGGG
Found at i:31978794 original size:84 final size:84
Alignment explanation
Indices: 31978616--31978829 Score: 209
Period size: 84 Copynumber: 2.5 Consensus size: 84
31978606 TTGTGTTTAC
* * * * * * * * *
31978616 TTTCCGTTTAGCTCTCATGAGCTTCTGTTTAACTCATATGAGTTTTCGTTCAGCTCCATTGAGCT
1 TTTCCGTTCAGCTCTTATAAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAACTCCATCGAGCT
* *
31978681 TTTGTTTAAGCCTTATGGG
66 TCTGTTTAACCCTTATGGG
*
31978700 TTTCCGTTCAGCT-TTATTAAGCTTTTGTTTAACCCTTATGGGTTTCCGTTCAACT-CACTCGAG
1 TTTCCGTTCAGCTCTTA-TAAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAACTCCA-TCGAG
*
31978763 CTTCTGTTTAACCCTTATAGGT
64 CTTCTGTTTAACCCTTAT-GGG
* * * * * *
31978785 TTTTC-TTCAGTTCTTATGAGCTTCCGTTCAACCTTTATGGGTTTC
1 TTTCCGTTCAGCTCTTATAAGCTTCTGTTTAACCCTTATGGGTTTC
31978830 TGGTTAGCTC
Statistics
Matches: 106, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
83 4 0.04
84 93 0.88
85 9 0.08
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (84 bp):
TTTCCGTTCAGCTCTTATAAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAACTCCATCGAGCT
TCTGTTTAACCCTTATGGG
Found at i:31981008 original size:17 final size:18
Alignment explanation
Indices: 31980982--31981016 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31980972 AGAGTTAGGC
31980982 CGTGTCGG-CCACATGGG
1 CGTGTCGGCCCACATGGG
*
31980999 CGTGTGGGCCCACATGGG
1 CGTGTCGGCCCACATGGG
31981017 TGAACCACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.11, C:0.29, G:0.43, T:0.17
Consensus pattern (18 bp):
CGTGTCGGCCCACATGGG
Found at i:31991301 original size:27 final size:27
Alignment explanation
Indices: 31991117--31991321 Score: 207
Period size: 27 Copynumber: 7.6 Consensus size: 27
31991107 TAAATTGTAC
31991117 AGCACTAAGTGTGCG-ATTCGACTATGT
1 AGCACTAAGTGTGCGAATT-GACTATGT
* * *
31991144 TGCACTAAGTGTGCGAAATGAATATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31991171 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
31991197 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
31991225 GGCACTAAGTGTGCGAGTCTGACTATGT
1 AGCACTAAGTGTGCGAAT-TGACTATGT
* * *
31991253 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
31991280 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
**
31991307 AGCACCGAGTGTGCG
1 AGCACTAAGTGTGCG
31991322 GGCTCAATAT
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
27 129 0.84
28 25 0.16
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:31991318 original size:109 final size:108
Alignment explanation
Indices: 31991118--31991321 Score: 275
Period size: 109 Copynumber: 1.9 Consensus size: 108
31991108 AAATTGTACA
* * * *
31991118 GCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
31991183 GCGAAATGAATATGATGCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATATGATGCACCAAGTGTGCGAATTGACCATGCG
** *
31991226 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGAGTC-GACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
** * *
31991291 TGCGAGTTGATTAT-ATAGCACCGAGTGTGCG
65 TGCGAAATGAATATGAT-GCACCAAGTGTGCG
31991322 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
108 19 0.23
109 63 0.77
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (108 bp):
GCACTAAGTGTGCGAGTCGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAAATGAATATGATGCACCAAGTGTGCGAATTGACCATGCG
Found at i:31995127 original size:42 final size:41
Alignment explanation
Indices: 31995055--31995175 Score: 120
Period size: 42 Copynumber: 2.9 Consensus size: 41
31995045 GTTTAGCTCT
* * *
31995055 CACGAGCTTTTGTTTAACTCATATGAGTTTCCGTTCAGCTCTA
1 CACGAGCTTTTGTTTAACCCTTATG-GTTTCCGTTCAACTC-A
** *
31995098 -TTGAGCTTTTGTTTAACCCTTATAGGTTTCTGTTCAACTCA
1 CACGAGCTTTTGTTTAACCCTTAT-GGTTTCCGTTCAACTCA
* *
31995139 CACGA-CTTCTGTTTAACCCTTATGGGTTTTCGTTCAA
1 CACGAGCTTTTGTTTAACCCTTAT-GGTTTCCGTTCAA
31995176 TTCTTATAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
41 29 0.45
42 34 0.53
43 1 0.02
ACGTcount: A:0.20, C:0.22, G:0.16, T:0.42
Consensus pattern (41 bp):
CACGAGCTTTTGTTTAACCCTTATGGTTTCCGTTCAACTCA
Found at i:31995229 original size:41 final size:42
Alignment explanation
Indices: 31995040--31995231 Score: 167
Period size: 41 Copynumber: 4.6 Consensus size: 42
31995030 TTGTGTTTAC
* * * * * *
31995040 TTTCTGTTTAGCTCTCACGAGCTTTTGTTTAACTCATATGAG
1 TTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
* * *
31995082 TTTCCGTTCAGCTCT-ATTGAGCTTTTGTTTAACCCTTATAGG
1 TTTCTGTTCAGCTCTCA-TGAGCTTCTGTTTAACCCTTATGGG
* * *
31995124 TTTCTGTTCAACTCACACGA-CTTCTGTTTAACCCTTATGGG
1 TTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
** * * * *
31995165 TTT-TCGTTCAATTCTTATAAGCTTCCGTTCAA-CCTTATGGG
1 TTTCT-GTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
*
31995206 TTTCTGTTTAGCTCTCATGAGCTTCT
1 TTTCTGTTCAGCTCTCATGAGCTTCT
31995232 ATTCAGCCTT
Statistics
Matches: 119, Mismatches: 26, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
40 1 0.01
41 60 0.50
42 57 0.48
43 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTCATGAGCTTCTGTTTAACCCTTATGGG
Found at i:31997491 original size:27 final size:26
Alignment explanation
Indices: 31997359--31997491 Score: 176
Period size: 27 Copynumber: 5.0 Consensus size: 26
31997349 TAAATAACAG
*
31997359 TTATGCCCCTATGTTATAAAATAACTA
1 TTATG-CCCTATGTTATAAAATGACTA
**
31997386 TTATGCCCTATGTTATAAAATGACGG
1 TTATGCCCTATGTTATAAAATGACTA
* *
31997412 TTATGCCCTTATATTATAAAATGACTG
1 TTATGCCC-TATGTTATAAAATGACTA
31997439 TTATGGCCCTATGTTATAAAATGACTA
1 TTAT-GCCCTATGTTATAAAATGACTA
*
31997466 TTATGTCCCTATGTTATATAATGACT
1 TTATG-CCCTATGTTATAAAATGACT
31997492 GTATGCTTAA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
26 27 0.28
27 64 0.67
28 4 0.04
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (26 bp):
TTATGCCCTATGTTATAAAATGACTA
Found at i:32004978 original size:54 final size:54
Alignment explanation
Indices: 32004912--32005749 Score: 1631
Period size: 54 Copynumber: 15.5 Consensus size: 54
32004902 AAAATAACGG
* * * *
32004912 TTATGCCCCTATGTTATAAAATGACTGCTATGCCCATATGTTATAAAATGACTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32004966 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005020 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005074 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005128 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005182 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005236 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005290 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005344 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005398 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005452 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005506 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005560 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005614 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
32005668 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
1 TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
*
32005722 TTATGCCCCTATGTTATAAAATAACTGT
1 TTATGCCCCTATGTTATAAAATGACTGT
32005750 GTGCTTAATG
Statistics
Matches: 779, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
54 779 1.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.42
Consensus pattern (54 bp):
TTATGCCCCTATGTTATAAAATGACTGTTATGCCCTTATGTTATTAAATGTCTA
Found at i:32006072 original size:34 final size:33
Alignment explanation
Indices: 32006019--32006091 Score: 101
Period size: 34 Copynumber: 2.2 Consensus size: 33
32006009 TGCATATTTG
*
32006019 AACTGTTACTGCCACTGTAATAGGCTAAGGCCC
1 AACTGATACTGCCACTGTAATAGGCTAAGGCCC
* * *
32006052 ACACTGATACTGTCATTGTAATGGGCTAAGGCCC
1 A-ACTGATACTGCCACTGTAATAGGCTAAGGCCC
32006086 AACTGA
1 AACTGA
32006092 ATTGAACTGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 6 0.17
34 29 0.83
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.25
Consensus pattern (33 bp):
AACTGATACTGCCACTGTAATAGGCTAAGGCCC
Found at i:32006345 original size:13 final size:13
Alignment explanation
Indices: 32006327--32006352 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32006317 GTAATAAGGC
32006327 CTTTTAAAATTTT
1 CTTTTAAAATTTT
32006340 CTTTTAAAATTTT
1 CTTTTAAAATTTT
32006353 AATTTTGGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (13 bp):
CTTTTAAAATTTT
Found at i:32012812 original size:21 final size:21
Alignment explanation
Indices: 32012786--32012830 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
32012776 ACATGTTTTT
*
32012786 CATATAACAAATTATACTTAG
1 CATATAACAAATCATACTTAG
*
32012807 CATATAACATATCATACTTAG
1 CATATAACAAATCATACTTAG
32012828 CAT
1 CAT
32012831 GTAATAGACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.18, G:0.04, T:0.33
Consensus pattern (21 bp):
CATATAACAAATCATACTTAG
Found at i:32017608 original size:26 final size:25
Alignment explanation
Indices: 32017552--32017608 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
32017542 AATCTAAAAT
*
32017552 AAATTC-AAAATCTAATTTCATTTA
1 AAATTCTAAAATCTAATTTCACTTA
* *
32017576 AAGTTCTAAAATCTATTTTACACTTA
1 AAATTCTAAAATCTAATTT-CACTTA
32017602 AAATTCT
1 AAATTCT
32017609 TATAACGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 5 0.19
25 11 0.41
26 11 0.41
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATTCTAAAATCTAATTTCACTTA
Found at i:32018712 original size:10 final size:10
Alignment explanation
Indices: 32018697--32018725 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
32018687 TGGGTTGACA
32018697 ATATTGAATG
1 ATATTGAATG
32018707 ATATTGAATG
1 ATATTGAATG
32018717 ATATTGAAT
1 ATATTGAAT
32018726 ATCGGGAACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (10 bp):
ATATTGAATG
Found at i:32019150 original size:13 final size:13
Alignment explanation
Indices: 32019132--32019162 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
32019122 TCCGAAAAAA
32019132 TAGAATTTATACT
1 TAGAATTTATACT
32019145 TAGAATTTATACT
1 TAGAATTTATACT
32019158 TAGAA
1 TAGAA
32019163 ATTAGTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.42
Consensus pattern (13 bp):
TAGAATTTATACT
Found at i:32023955 original size:33 final size:33
Alignment explanation
Indices: 32023892--32023993 Score: 134
Period size: 33 Copynumber: 3.1 Consensus size: 33
32023882 AGTTGTTCCC
*
32023892 TTTGCCGAAAATTACTTCTCTCTATTCATTGAG
1 TTTGCCGAAAATTACTTCTCTCCATTCATTGAG
* * *
32023925 TTTGTCGAATATTACTTCT-TCCCATCCATTGAG
1 TTTGCCGAAAATTACTTCTCT-CCATTCATTGAG
* *
32023958 TTTGCCGAAAATTGCTTCTCTCCATTCATTGCG
1 TTTGCCGAAAATTACTTCTCTCCATTCATTGAG
32023991 TTT
1 TTT
32023994 ATCGAAACCT
Statistics
Matches: 58, Mismatches: 9, Indels: 4
0.82 0.13 0.06
Matches are distributed among these distances:
32 1 0.02
33 56 0.97
34 1 0.02
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.43
Consensus pattern (33 bp):
TTTGCCGAAAATTACTTCTCTCCATTCATTGAG
Found at i:32024000 original size:33 final size:33
Alignment explanation
Indices: 32023892--32024031 Score: 133
Period size: 33 Copynumber: 4.3 Consensus size: 33
32023882 AGTTGTTCCC
* *
32023892 TTTGCCGAAAATTACTTCTCTCTATTCATTGAG
1 TTTGTCGAAAATTACTTCTCTCCATTCATTGAG
* *
32023925 TTTGTCGAATATTACTTCT-TCCCATCCATTGAG
1 TTTGTCGAAAATTACTTCTCT-CCATTCATTGAG
* * *
32023958 TTTGCCGAAAATTGCTTCTCTCCATTCATTGCG
1 TTTGTCGAAAATTACTTCTCTCCATTCATTGAG
* ** *
32023991 TTTATCGAAACCT-CTTCTC-CCTATTCATTGTG
1 TTTGTCGAAAATTACTTCTCTCC-ATTCATTGAG
*
32024023 TTGGTCGAA
1 TTTGTCGAA
32024032 CATTTTTTTT
Statistics
Matches: 88, Mismatches: 16, Indels: 7
0.79 0.14 0.06
Matches are distributed among these distances:
31 2 0.02
32 23 0.26
33 62 0.70
34 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (33 bp):
TTTGTCGAAAATTACTTCTCTCCATTCATTGAG
Found at i:32024956 original size:27 final size:27
Alignment explanation
Indices: 32024926--32025067 Score: 164
Period size: 27 Copynumber: 5.3 Consensus size: 27
32024916 CCCAAATTGC
32024926 TATAAAATAATAGTTATGCCCCTATGT
1 TATAAAATAATAGTTATGCCCCTATGT
* **
32024953 TATAAAATGACGGTTATGCCCCTATGT
1 TATAAAATAATAGTTATGCCCCTATGT
** *
32024980 TATAAAATAACGGTTATGCCCTTATGT
1 TATAAAATAATAGTTATGCCCCTATGT
* *
32025007 TATAAAATGACT-GTTATGCCTCTATGT
1 TATAAAAT-AATAGTTATGCCCCTATGT
*
32025034 TATAAAATGACTA-TTATG-CCCTATGT
1 TATAAAAT-AATAGTTATGCCCCTATGT
32025060 TATAAAAT
1 TATAAAAT
32025068 GATTGTATGC
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
26 15 0.15
27 87 0.84
28 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.37
Consensus pattern (27 bp):
TATAAAATAATAGTTATGCCCCTATGT
Found at i:32025008 original size:54 final size:53
Alignment explanation
Indices: 32024926--32025069 Score: 209
Period size: 54 Copynumber: 2.7 Consensus size: 53
32024916 CCCAAATTGC
*
32024926 TATAAAATAATAGTTATGCCCCTATGTTATAAAATGACGGTTATGCCCCTATGT
1 TATAAAATAACAGTTATG-CCCTATGTTATAAAATGACGGTTATGCCCCTATGT
* * *
32024980 TATAAAATAACGGTTATGCCCTTATGTTATAAAATGACTGTTATGCCTCTATGT
1 TATAAAATAACAGTTATGCCC-TATGTTATAAAATGACGGTTATGCCCCTATGT
*
32025034 TATAAAATGACTA-TTATGCCCTATGTTATAAAATGA
1 TATAAAATAAC-AGTTATGCCCTATGTTATAAAATGA
32025070 TTGTATGCTT
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
53 18 0.22
54 64 0.78
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.37
Consensus pattern (53 bp):
TATAAAATAACAGTTATGCCCTATGTTATAAAATGACGGTTATGCCCCTATGT
Found at i:32025392 original size:34 final size:33
Alignment explanation
Indices: 32025343--32025419 Score: 129
Period size: 34 Copynumber: 2.3 Consensus size: 33
32025333 TGCATGTCTG
*
32025343 AACTGTTACTGTCACTATAATGGGCTAAGGCCC
1 AACTGATACTGTCACTATAATGGGCTAAGGCCC
32025376 ACACTGATACTGTCACTATAATGGGCTAAGGCCC
1 A-ACTGATACTGTCACTATAATGGGCTAAGGCCC
32025410 AACTGA-ACTG
1 AACTGATACTG
32025420 AACTGTTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
32 4 0.10
33 6 0.14
34 32 0.76
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
AACTGATACTGTCACTATAATGGGCTAAGGCCC
Found at i:32026450 original size:34 final size:35
Alignment explanation
Indices: 32026412--32026478 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32026402 CAATAAAATA
*
32026412 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
32026446 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
32026479 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:32026452 original size:20 final size:20
Alignment explanation
Indices: 32026427--32026466 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32026417 CGTAAAATGA
*
32026427 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
32026447 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
32026467 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:32026482 original size:14 final size:15
Alignment explanation
Indices: 32026406--32026482 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
32026396 GATTGCCAAT
* *
32026406 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
32026420 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
32026434 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
32026454 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
32026469 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
32026483 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:32028064 original size:32 final size:32
Alignment explanation
Indices: 32028021--32028085 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
32028011 TCCATGAAAG
32028021 AACACTAGTCCTCCATGAAAGAACAGAAGCAA
1 AACACTAGTCCTCCATGAAAGAACAGAAGCAA
*
32028053 AACACTGGTCCTCCATGAAAGAACAGAAGCAA
1 AACACTAGTCCTCCATGAAAGAACAGAAGCAA
32028085 A
1 A
32028086 GAATTCCCCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.25, G:0.17, T:0.12
Consensus pattern (32 bp):
AACACTAGTCCTCCATGAAAGAACAGAAGCAA
Found at i:32029106 original size:27 final size:27
Alignment explanation
Indices: 32029076--32029157 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
32029066 AGTCTGTAGG
32029076 ATGATGAATTATAAGCCCAATGGACAT
1 ATGATGAATTATAAGCCCAATGGACAT
** ** *
32029103 ATGA-GCAAGAGATAAG--TGAT-G-CAC
1 ATGATG-AA-TTATAAGCCCAATGGACAT
32029127 ATGATGAATTATAAGCCCAATGGACAT
1 ATGATGAATTATAAGCCCAATGGACAT
32029154 ATGA
1 ATGA
32029158 GCAAGAGAAA
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
23 5 0.13
24 8 0.21
25 4 0.11
26 4 0.11
27 12 0.32
28 5 0.13
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.23
Consensus pattern (27 bp):
ATGATGAATTATAAGCCCAATGGACAT
Found at i:32029140 original size:51 final size:51
Alignment explanation
Indices: 32029076--32029178 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
32029066 AGTCTGTAGG
*
32029076 ATGATGAATTATAAGCCCAATGGACATATGAGCAAGAGATAAGTGATGCAC
1 ATGATGAATTATAAGCCCAATGGACATATGAGCAAGAGAAAAGTGATGCAC
32029127 ATGATGAATTATAAGCCCAATGGACATATGAGCAAGAGAAAAGTGATGCAC
1 ATGATGAATTATAAGCCCAATGGACATATGAGCAAGAGAAAAGTGATGCAC
32029178 A
1 A
32029179 AGCTTCCCAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (51 bp):
ATGATGAATTATAAGCCCAATGGACATATGAGCAAGAGAAAAGTGATGCAC
Found at i:32035438 original size:19 final size:20
Alignment explanation
Indices: 32035393--32035438 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 20
32035383 AAATAAGAGC
**
32035393 TCATT-TCTCACTTTTTCAA
1 TCATTCTCTCACTCATTCAA
32035412 TCA-TCTCTCACTCATTC-A
1 TCATTCTCTCACTCATTCAA
32035430 TCATTCTCT
1 TCATTCTCT
32035439 TTTCTCTCAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.48
Consensus pattern (20 bp):
TCATTCTCTCACTCATTCAA
Found at i:32039824 original size:5 final size:5
Alignment explanation
Indices: 32039816--32039843 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
32039806 TTAGATTAAG
32039816 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT
32039844 AAAATGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTC
Found at i:32043347 original size:8 final size:9
Alignment explanation
Indices: 32043326--32043359 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
32043316 AAACTGATTT
32043326 TTTTTAATA
1 TTTTTAATA
32043335 TTTTTAATA
1 TTTTTAATA
*
32043344 TTTTTAAAA
1 TTTTTAATA
32043353 TTTTTAA
1 TTTTTAA
32043360 AGTTAGTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTAATA
Found at i:32049197 original size:35 final size:36
Alignment explanation
Indices: 32049152--32049223 Score: 96
Period size: 35 Copynumber: 2.0 Consensus size: 36
32049142 ATTATGGCAA
*
32049152 TTTGTGTGAATT-TTGGTAGTCA-TTTTTGTGTTTTGT
1 TTTGTGTGAATTGTT-ATAGT-ATTTTTTGTGTTTTGT
32049188 TTTGT-TGAATTGTTATAGTATTTTTTGTGTTTTGT
1 TTTGTGTGAATTGTTATAGTATTTTTTGTGTTTTGT
32049223 T
1 T
32049224 GAATGGTTGT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
34 1 0.03
35 25 0.76
36 7 0.21
ACGTcount: A:0.12, C:0.01, G:0.22, T:0.64
Consensus pattern (36 bp):
TTTGTGTGAATTGTTATAGTATTTTTTGTGTTTTGT
Found at i:32053519 original size:25 final size:24
Alignment explanation
Indices: 32053491--32053566 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 24
32053481 ACACATAAAT
32053491 ATAATACAAAAACATGCAAATCACA
1 ATAATACAAAAACATGCAAA-CACA
* *
32053516 AT-A-A-AAAAATAT-CAAA-ATA
1 ATAATACAAAAACATGCAAACACA
*
32053535 ATATATACAAAAGCATGCAAAACACA
1 ATA-ATACAAAAACATGC-AAACACA
32053561 ATAATA
1 ATAATA
32053567 TCACTTAAAC
Statistics
Matches: 39, Mismatches: 5, Indels: 14
0.67 0.09 0.24
Matches are distributed among these distances:
19 4 0.10
21 5 0.13
22 8 0.21
23 7 0.18
24 2 0.05
25 8 0.21
26 5 0.13
ACGTcount: A:0.63, C:0.14, G:0.04, T:0.18
Consensus pattern (24 bp):
ATAATACAAAAACATGCAAACACA
Found at i:32053643 original size:21 final size:21
Alignment explanation
Indices: 32053619--32053664 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
32053609 CTAAACTGTT
32053619 TTATTCA-CACAAAAAAAAACA
1 TTATTCATCACAAAAAAAAA-A
* *
32053640 TTA-TCATTACAAAAATAAAA
1 TTATTCATCACAAAAAAAAAA
32053660 TTATT
1 TTATT
32053665 ATTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (21 bp):
TTATTCATCACAAAAAAAAAA
Found at i:32053777 original size:21 final size:21
Alignment explanation
Indices: 32053752--32053819 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
32053742 CAAAAAATAT
32053752 TTAAAATATAAAAATTTAATG
1 TTAAAATATAAAAATTTAATG
* *
32053773 TTAAAAATCTCAAAAA-AT-AT-
1 TT-AAAATAT-AAAAATTTAATG
32053793 TTAAAATATAAAAATTTAATG
1 TTAAAATATAAAAATTTAATG
32053814 TTAAAA
1 TTAAAA
32053820 ATCTCAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
18 5 0.13
19 7 0.18
20 4 0.11
21 10 0.26
22 7 0.18
23 5 0.13
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (21 bp):
TTAAAATATAAAAATTTAATG
Found at i:32053787 original size:41 final size:41
Alignment explanation
Indices: 32053742--32053830 Score: 178
Period size: 41 Copynumber: 2.2 Consensus size: 41
32053732 ATTTTCAACA
32053742 CAAAAAATATTTAAAATATAAAAATTTAATGTTAAAAATCT
1 CAAAAAATATTTAAAATATAAAAATTTAATGTTAAAAATCT
32053783 CAAAAAATATTTAAAATATAAAAATTTAATGTTAAAAATCT
1 CAAAAAATATTTAAAATATAAAAATTTAATGTTAAAAATCT
32053824 CAAAAAA
1 CAAAAAA
32053831 ATTATAATTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.61, C:0.06, G:0.02, T:0.31
Consensus pattern (41 bp):
CAAAAAATATTTAAAATATAAAAATTTAATGTTAAAAATCT
Found at i:32054785 original size:22 final size:22
Alignment explanation
Indices: 32054736--32054782 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
32054726 TGCAGAGGTA
32054736 ATTTCTGCTTCTTCTTCCATCG
1 ATTTCTGCTTCTTCTTCCATCG
32054758 ATTTCTGCTTCTTCTTCCATC-
1 ATTTCTGCTTCTTCTTCCATCG
32054779 ATTT
1 ATTT
32054783 TCTTATTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.11, C:0.30, G:0.06, T:0.53
Consensus pattern (22 bp):
ATTTCTGCTTCTTCTTCCATCG
Found at i:32058544 original size:49 final size:49
Alignment explanation
Indices: 32058483--32058586 Score: 172
Period size: 49 Copynumber: 2.1 Consensus size: 49
32058473 TCATGTGTTA
* * *
32058483 TAATTTTATAAAGTGTTGAGCTTTTGATTCATGATATTGAACTTAATTG
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTG
*
32058532 TAATTTTGTAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTG
1 TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTG
32058581 TAATTT
1 TAATTT
32058587 GTTTTTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (49 bp):
TAATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTG
Found at i:32064137 original size:6 final size:6
Alignment explanation
Indices: 32064123--32064164 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
32064113 TCCAGATTTG
* * *
32064123 AGCACA AGCAAA AGCAAA AGCAAA A-CAAA ATCAAA ATCAAA A
1 AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA AGCAAA A
32064165 TTGATTTTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
5 5 0.15
6 29 0.85
ACGTcount: A:0.67, C:0.19, G:0.10, T:0.05
Consensus pattern (6 bp):
AGCAAA
Found at i:32064157 original size:17 final size:17
Alignment explanation
Indices: 32064131--32064164 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32064121 TGAGCACAAG
32064131 CAAAAGCAAAAGCAAAA
1 CAAAAGCAAAAGCAAAA
* *
32064148 CAAAATCAAAATCAAAA
1 CAAAAGCAAAAGCAAAA
32064165 TTGATTTTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.18, G:0.06, T:0.06
Consensus pattern (17 bp):
CAAAAGCAAAAGCAAAA
Found at i:32064254 original size:14 final size:14
Alignment explanation
Indices: 32064235--32064262 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
32064225 AGCAGAAATC
32064235 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
32064249 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
32064263 GAAATGTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.29, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:32064275 original size:17 final size:18
Alignment explanation
Indices: 32064238--32064282 Score: 65
Period size: 17 Copynumber: 2.5 Consensus size: 18
32064228 AGAAATCTGG
32064238 AGAAAAGAAAATGGAGAAA
1 AGAAAAG-AAATGGAGAAA
*
32064257 AGAAAAGAAAT-GTGAAA
1 AGAAAAGAAATGGAGAAA
32064274 AGAAAAGAA
1 AGAAAAGAA
32064283 GCGTACCGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (18 bp):
AGAAAAGAAATGGAGAAA
Found at i:32064516 original size:15 final size:15
Alignment explanation
Indices: 32064496--32064525 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32064486 CCAAACGTCT
32064496 GTTTGGTGGTGGGCC
1 GTTTGGTGGTGGGCC
32064511 GTTTGGTGGTGGGCC
1 GTTTGGTGGTGGGCC
32064526 CAGAGAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.13, G:0.53, T:0.33
Consensus pattern (15 bp):
GTTTGGTGGTGGGCC
Found at i:32078092 original size:23 final size:24
Alignment explanation
Indices: 32078066--32078111 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
32078056 ATAGTTAAGA
*
32078066 TTTTATTCTTTTT-ATTATTTTGT
1 TTTTATTCTTTTTAAATATTTTGT
*
32078089 TTTTATTTTTTTTAAATATTTTG
1 TTTTATTCTTTTTAAATATTTTG
32078112 CATAATCCCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.76
Consensus pattern (24 bp):
TTTTATTCTTTTTAAATATTTTGT
Found at i:32089999 original size:6 final size:6
Alignment explanation
Indices: 32089966--32089996 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
32089956 AACGAGGAGT
*
32089966 TCGAGG TCGAGG TCGAGG TCGAGG TAGAGG T
1 TCGAGG TCGAGG TCGAGG TCGAGG TCGAGG T
32089997 AGACTTCAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.13, G:0.48, T:0.19
Consensus pattern (6 bp):
TCGAGG
Found at i:32092633 original size:29 final size:29
Alignment explanation
Indices: 32092597--32092656 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
32092587 ATATTTATTT
* *
32092597 TCTCACTTTAGTA-CTTCAATTTTTTTTTG
1 TCTCACTTTAATATC-TAAATTTTTTTTTG
32092626 TCTCACTTTAATATCTAAATTTTTTTTTG
1 TCTCACTTTAATATCTAAATTTTTTTTTG
32092655 TC
1 TC
32092657 ATGAGCAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.58
Consensus pattern (29 bp):
TCTCACTTTAATATCTAAATTTTTTTTTG
Found at i:32092708 original size:23 final size:23
Alignment explanation
Indices: 32092682--32092752 Score: 133
Period size: 23 Copynumber: 3.1 Consensus size: 23
32092672 ATTACTTTTT
*
32092682 AATTGGAAACAAGTTGGCACTTA
1 AATTGGAAGCAAGTTGGCACTTA
32092705 AATTGGAAGCAAGTTGGCACTTA
1 AATTGGAAGCAAGTTGGCACTTA
32092728 AATTGGAAGCAAGTTGGCACTTA
1 AATTGGAAGCAAGTTGGCACTTA
32092751 AA
1 AA
32092753 CCTTTTTTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.25
Consensus pattern (23 bp):
AATTGGAAGCAAGTTGGCACTTA
Found at i:32096426 original size:18 final size:18
Alignment explanation
Indices: 32096405--32096443 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
32096395 GATTGAGAGT
* *
32096405 GAAAAGGAATGTGAAACA
1 GAAAAGAAATGTGAAAAA
*
32096423 GAAAAGAAATTTGAAAAA
1 GAAAAGAAATGTGAAAAA
32096441 GAA
1 GAA
32096444 GTTGAAGAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.03, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAAAGAAATGTGAAAAA
Found at i:32098460 original size:95 final size:95
Alignment explanation
Indices: 32098348--32098536 Score: 369
Period size: 95 Copynumber: 2.0 Consensus size: 95
32098338 CTATTTTCTT
32098348 TTCTTATTGTGTTTTCAGCCTTTTTCTATCTTAAGGAATCAGCCCAAAAATCCCCAATTTCTAGG
1 TTCTTATTGTGTTTTCAGCCTTTTTCTATCTTAAGGAATCAGCCCAAAAATCCCCAATTTCTAGG
32098413 GTTTTTCCATACTCTTTTTGGGTGAAATTG
66 GTTTTTCCATACTCTTTTTGGGTGAAATTG
*
32098443 TTCTTATTGTGTTTTCAGCCTTTTTCTATCTTAAGGAATCAGCCCCAAAATCCCCAATTTCTAGG
1 TTCTTATTGTGTTTTCAGCCTTTTTCTATCTTAAGGAATCAGCCCAAAAATCCCCAATTTCTAGG
32098508 GTTTTTCCATACTCTTTTTGGGTGAAATT
66 GTTTTTCCATACTCTTTTTGGGTGAAATT
32098537 AGATTGTCGA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 93 1.00
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (95 bp):
TTCTTATTGTGTTTTCAGCCTTTTTCTATCTTAAGGAATCAGCCCAAAAATCCCCAATTTCTAGG
GTTTTTCCATACTCTTTTTGGGTGAAATTG
Found at i:32099202 original size:31 final size:31
Alignment explanation
Indices: 32099161--32099227 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
32099151 TCATTTCTTG
*
32099161 CAACTGATAAATTAGAAGAGATAGAGAATGA
1 CAACTAATAAATTAGAAGAGATAGAGAATGA
*
32099192 CAACTAATAAATTAGAAGAGATAGAGAATGG
1 CAACTAATAAATTAGAAGAGATAGAGAATGA
32099223 CAACT
1 CAACT
32099228 CAACAGAGTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.51, C:0.09, G:0.21, T:0.19
Consensus pattern (31 bp):
CAACTAATAAATTAGAAGAGATAGAGAATGA
Found at i:32100856 original size:26 final size:26
Alignment explanation
Indices: 32100825--32100887 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
32100815 GCTAATTAAT
*
32100825 CTAAACCCTAACCCGACCATGAATCC
1 CTAAACCCTAACACGACCATGAATCC
* *
32100851 CTAAACCCTAACATGACCCTGAATCC
1 CTAAACCCTAACACGACCATGAATCC
*
32100877 CTAACCCCTAA
1 CTAAACCCTAA
32100888 ACATTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.35, C:0.41, G:0.06, T:0.17
Consensus pattern (26 bp):
CTAAACCCTAACACGACCATGAATCC
Found at i:32101771 original size:41 final size:41
Alignment explanation
Indices: 32101714--32101941 Score: 303
Period size: 41 Copynumber: 5.5 Consensus size: 41
32101704 TTTTATTATT
* * * *
32101714 ATTAGCGTCGCTTTTTCAAAAACGTCGTTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
32101755 ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGGCTCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* *
32101796 ATTAGCGACGCTTCTCCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
* * *
32101837 ATTAGCGGCGCTTCATCAAAAAATGCCACTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTC-AAAAACGCCGCTAAAGGCCCGAGC
* * *
32101879 AATAGCGGAGCTTCTACAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
*
32101920 ATTAGCGGCGCTTCATCAAAAA
1 ATTAGCGGCGCTTCTTCAAAAA
32101942 ATGCCCTANN
Statistics
Matches: 161, Mismatches: 25, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
41 126 0.78
42 35 0.22
ACGTcount: A:0.31, C:0.28, G:0.22, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
Found at i:32101901 original size:83 final size:83
Alignment explanation
Indices: 32101716--32101946 Score: 324
Period size: 83 Copynumber: 2.8 Consensus size: 83
32101706 TTATTATTAT
* * * * * **
32101716 TAGCGTCGCTTTTTCAAAAACGTCGTTAAAGGCCCGAGCATTAGCGGCGCTTTTTCAAAAACA--
1 TAGCGACGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCATCAAAAA-ATG
* * *
32101779 CCGCTAAAGGCTCGAGCAT
65 CCACTAAAGGCCCGAGCAA
*
32101798 TAGCGACGCTTCTCCAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCATCAAAAAATGC
1 TAGCGACGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCATCAAAAAATGC
32101863 CACTAAAGGCCCGAGCAA
66 CACTAAAGGCCCGAGCAA
32101881 TAGCGGA-GCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCATCAAAAAATG
1 TAGC-GACGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCATCAAAAAATG
32101945 CC
65 CC
32101947 CTANNNNNNN
Statistics
Matches: 135, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
81 1 0.01
82 54 0.40
83 78 0.58
84 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.19
Consensus pattern (83 bp):
TAGCGACGCTTCTACAAAAACGCCGCTAAAGGCCCGAGCATTAGCGGCGCTTCATCAAAAAATGC
CACTAAAGGCCCGAGCAA
Done.