Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 159 of 226
Found at i:49277489 original size:27 final size:27
Alignment explanation
Indices: 49277451--49277781 Score: 358
Period size: 27 Copynumber: 12.3 Consensus size: 27
49277441 CAGAAAGGTT
* *
49277451 GTAAAATGACCGAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
49277478 GTAAAATTACCGAAATATCTTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * * *
49277505 ATAAAATGATCAAAATACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * * *
49277532 GTAAAATTGCTGAAATACCTTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
49277559 GTAAAATGA-CGAAAATACCCTCGAAAG
1 GTAAAATTACCG-AAATACCCTCGAAGG
49277586 GTAAAATTACCGAAATACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * * *
49277613 GTAAAATTATCAAAATATCCTCAAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
49277640 GTAAAATTACTGAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * *
49277667 GTAAAATAACTGAAATACCCTCGAAGC
1 GTAAAATTACCGAAATACCCTCGAAGG
* **
49277694 GTAAAATGATTGAAATACCCTCGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* * *
49277721 GTAAAATGACCTAAATACCCTTGAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
* *
49277748 GTAAAATTATCGAAATACCCTCAAAGG
1 GTAAAATTACCGAAATACCCTCGAAGG
*
49277775 TTAAAAT
1 GTAAAAT
49277782 GACTGTTATA
Statistics
Matches: 250, Mismatches: 52, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 1 0.00
27 247 0.99
28 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCTCGAAGG
Found at i:49277534 original size:54 final size:54
Alignment explanation
Indices: 49277451--49277784 Score: 398
Period size: 54 Copynumber: 6.2 Consensus size: 54
49277441 CAGAAAGGTT
* * * *
49277451 GTAAAATGACCGAAATACCCTTGAAGGGTAAAATTACCGAAATATCTTCGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* * * * * *
49277505 ATAAAATGATCAAAATACCCTCGAAGGGTAAAATTGCTGAAATACCTTTGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* *
49277559 GTAAAATGACGAAAATACCCTCGAAAGGTAAAATTACCGAAATACCCTCGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* * * * * *
49277613 GTAAAATTATCAAAATATCCTCAAAGGGTAAAATTACTGAAATACCCTTGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* ** * * **
49277667 GTAAAATAACTGAAATACCCTCGAAGCGTAAAATGATTGAAATACCCTCGAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
* * * *
49277721 GTAAAATGACCTAAATACCCTTGAAGGGTAAAATTATCGAAATACCCTCAAAGG
1 GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
*
49277775 TTAAAATGAC
1 GTAAAATGAC
49277785 TGTTATACCT
Statistics
Matches: 237, Mismatches: 43, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 237 1.00
ACGTcount: A:0.43, C:0.17, G:0.18, T:0.22
Consensus pattern (54 bp):
GTAAAATGACCAAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAAGG
Found at i:49278684 original size:30 final size:31
Alignment explanation
Indices: 49278650--49278707 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
49278640 TTCTAACACT
*
49278650 ACGTTTCCGCAACTCAATT-TTTAAAATATC
1 ACGTTTCCGCAAATCAATTGTTTAAAATATC
* *
49278680 ACGTTTTCGCAAATCAATTGTTTTAAAT
1 ACGTTTCCGCAAATCAATTGTTTAAAAT
49278708 TAAGCTTCCG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 17 0.71
31 7 0.29
ACGTcount: A:0.33, C:0.19, G:0.09, T:0.40
Consensus pattern (31 bp):
ACGTTTCCGCAAATCAATTGTTTAAAATATC
Found at i:49295017 original size:26 final size:26
Alignment explanation
Indices: 49294984--49295036 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
49294974 GTAACTAAAT
49294984 AAAACTTTAGGCACCTGCTCTGAAAA
1 AAAACTTTAGGCACCTGCTCTGAAAA
49295010 AAAACTTTAGGCACCTGCTCTGAAAA
1 AAAACTTTAGGCACCTGCTCTGAAAA
49295036 A
1 A
49295037 GTTGCATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAACTTTAGGCACCTGCTCTGAAAA
Found at i:49295232 original size:176 final size:178
Alignment explanation
Indices: 49295033--49295407 Score: 458
Period size: 176 Copynumber: 2.1 Consensus size: 178
49295023 CCTGCTCTGA
* * * * *
49295033 AAAAGTTGCATAATTTAAGTACCTAAAATGGTAATAGATTAAAAATGTCACGTGTCAGAATTTGA
1 AAAAGTTGCATAGTTTAAGTACCTAAAATGGTAACAAATTAAAAACGTCACGTATCAGAATTTGA
* * *
49295098 TTGGTTT-TAATTTTGTTTTTAA-AGAAAGTTAACAATTGGTACCTAAAGTGATAACAGAAGAAA
66 TTGGTTTGAAAATTT-TTTTTAACA-AAAGTTAACAATTGATACCTAAAGTGATAACAGAAGAAA
* *
49295161 A-TTTCAGGTACCTACTTTAAT-AAAAAAAAA-GTT-AGGTACTTAAATAGG
129 ACTTT-AGGTACCTACTTTAATAAAAAAAAAACGTTCA-GTACCTAAATAAG
* * * * *
49295209 AAAAGTTACATAGTTTAAGTACCTAAAGTGGTAACAAATTAAAACCGTCATGTATCATAATTTGA
1 AAAAGTTGCATAGTTTAAGTACCTAAAATGGTAACAAATTAAAAACGTCACGTATCAGAATTTGA
* * * * * *
49295274 TTGGTTTGAAAATTTTTTTTAACAAGAGTTAATAGTTTATACCTAAAGTGATAATAGAATAAAAC
66 TTGGTTTGAAAATTTTTTTTAACAAAAGTTAACAATTGATACCTAAAGTGATAACAGAAGAAAAC
* *
49295339 TTTAGGTACCTACTTTGATAAAAAAAAAACTTTCAGTACCTAAATAAG
131 TTTAGGTACCTACTTTAATAAAAAAAAAACGTTCAGTACCTAAATAAG
49295387 AAAAGTTGCATAG-TTAAGTAC
1 AAAAGTTGCATAGTTTAAGTAC
49295408 TTATTTTGAT
Statistics
Matches: 169, Mismatches: 24, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
176 117 0.69
177 26 0.15
178 25 0.15
179 1 0.01
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (178 bp):
AAAAGTTGCATAGTTTAAGTACCTAAAATGGTAACAAATTAAAAACGTCACGTATCAGAATTTGA
TTGGTTTGAAAATTTTTTTTAACAAAAGTTAACAATTGATACCTAAAGTGATAACAGAAGAAAAC
TTTAGGTACCTACTTTAATAAAAAAAAAACGTTCAGTACCTAAATAAG
Found at i:49297344 original size:22 final size:23
Alignment explanation
Indices: 49297281--49297358 Score: 72
Period size: 22 Copynumber: 3.4 Consensus size: 23
49297271 GCACCAATGA
*
49297281 ACAGAGAGCACTAAAGTGCT-AT
1 ACAGAGAGCACAAAAGTGCTAAT
*
49297303 ACATAGAGCACAAATA-TGCTAAT
1 ACAGAGAGCACAAA-AGTGCTAAT
* *
49297326 -CAGAGAGCACCAACGTGCTAAT
1 ACAGAGAGCACAAAAGTGCTAAT
49297348 AATCAGAGAGC
1 -A-CAGAGAGC
49297359 GCACTAAAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 34 0.76
23 3 0.07
25 8 0.18
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (23 bp):
ACAGAGAGCACAAAAGTGCTAAT
Found at i:49299030 original size:13 final size:13
Alignment explanation
Indices: 49299012--49299074 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
49299002 TCTTCATTCT
49299012 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
49299025 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
* * *
49299038 TGTGGAAAAGTGC
1 TTTTGAAAAGTAC
* **
49299051 TTTTGAGAAGTGT
1 TTTTGAAAAGTAC
49299064 TTTTGAAAAGT
1 TTTTGAAAAGT
49299075 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.33, C:0.05, G:0.24, T:0.38
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:49304454 original size:43 final size:42
Alignment explanation
Indices: 49304385--49304548 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 42
49304375 AAACACATAT
* * * *
49304385 ATCACATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTT
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA-GTA
** * * **
49304426 ATCACATATCGATGCCTCTGTCCCAGATAGGGTCTTACACAA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACAGTA
* *
49304468 ATCATATA-CGGTGCCAATGTCCCAGACATGGTCTTACACGTA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA-GTA
* * * *
49304510 ATCTCATATTGATGCCAATGTCCTAGACACGGTCTTACA
1 ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACA
49304549 CAAAATCACA
Statistics
Matches: 98, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
41 33 0.34
42 20 0.20
43 45 0.46
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (42 bp):
ATCACATATCGATGCCAATGTCCCAGACATGGTCTTACAGTA
Found at i:49304993 original size:68 final size:68
Alignment explanation
Indices: 49304911--49305045 Score: 216
Period size: 68 Copynumber: 2.0 Consensus size: 68
49304901 ATTCAGATAG
* * *
49304911 CTACATTTATTAAATAAAACAACATAAATGCTAGTGCATTGAACAGTGAATTTAACACATTCGAA
1 CTACATTTACTAAATAAAACAACATAAATGATAGTGCATTGAACAGTGAATCTAACACATTCGAA
49304976 CAA
66 CAA
* * *
49304979 CTACATTTACTAAATAAAACAACATAAATGATGGTGCTTTGATCAGTGAATCTAACACATTCGAA
1 CTACATTTACTAAATAAAACAACATAAATGATAGTGCATTGAACAGTGAATCTAACACATTCGAA
49305044 CA
66 CA
49305046 GCTTAATTTT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (68 bp):
CTACATTTACTAAATAAAACAACATAAATGATAGTGCATTGAACAGTGAATCTAACACATTCGAA
CAA
Found at i:49308572 original size:24 final size:24
Alignment explanation
Indices: 49308544--49308591 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
49308534 GAGTGTTTCT
49308544 ACCAAATATTAACAATTACAAGTC
1 ACCAAATATTAACAATTACAAGTC
49308568 ACCAAATATTAACAATTACAAGTC
1 ACCAAATATTAACAATTACAAGTC
49308592 TAATCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.21, G:0.04, T:0.25
Consensus pattern (24 bp):
ACCAAATATTAACAATTACAAGTC
Found at i:49315385 original size:27 final size:27
Alignment explanation
Indices: 49315329--49315497 Score: 182
Period size: 27 Copynumber: 6.2 Consensus size: 27
49315319 CCTAGCAGTC
* * * *
49315329 ATTTTACCCTAACGGGGGTATTACGGTA
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
49315357 ATTTTACCCTTCGGGGGTATTTCGATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
* *
49315384 ATTTTACCCATCGAGGGTATTTCAATA
1 ATTTTACCCTTCGAGGGTATTTCGATA
*
49315411 ATTTTACCCATT-GAGGGTATTTCAATA
1 ATTTTACCC-TTCGAGGGTATTTCGATA
*
49315438 ATTTTACCCTTC-AGGGGTATTTCGGTA
1 ATTTTACCCTTCGA-GGGTATTTCGATA
*
49315465 ATTTTA-CCTATCGAGGGTATTTCGGTA
1 ATTTTACCCT-TCGAGGGTATTTCGATA
*
49315492 TTTTTA
1 ATTTTA
49315498 GGTCCATTAC
Statistics
Matches: 126, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.05
27 108 0.86
28 12 0.10
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTCGATA
Found at i:49316710 original size:25 final size:25
Alignment explanation
Indices: 49316673--49316726 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
49316663 TGAACCTCTA
49316673 ACCTCCTTACCACACCTATGACGCC
1 ACCTCCTTACCACACCTATGACGCC
* * * *
49316698 ACCTCCTTGCCACACTTGTGTCGCC
1 ACCTCCTTACCACACCTATGACGCC
49316723 ACCT
1 ACCT
49316727 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTATGACGCC
Found at i:49321653 original size:21 final size:19
Alignment explanation
Indices: 49321624--49321663 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
49321614 TTCATAAATA
49321624 ATTCAAAATAGTTTTCCAAAC
1 ATTCAAAATA--TTTCCAAAC
*
49321645 ATTCCAAATATTTCCAAAC
1 ATTCAAAATATTTCCAAAC
49321664 CCATTCCACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
21 9 0.50
ACGTcount: A:0.42, C:0.23, G:0.03, T:0.33
Consensus pattern (19 bp):
ATTCAAAATATTTCCAAAC
Found at i:49322514 original size:27 final size:27
Alignment explanation
Indices: 49322471--49322535 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
49322461 AACAGAGCTG
49322471 CCAGT-ACAGTATATGTGGCAAAGCCA
1 CCAGTAACAGTATATGTGGCAAAGCCA
* *
49322497 CCAGTAACAGTGAT-TGTGGTAGAGCCA
1 CCAGTAACAGT-ATATGTGGCAAAGCCA
* *
49322524 CTAGAAACAGTA
1 CCAGTAACAGTA
49322536 CTTCATAACA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 6 0.18
27 25 0.76
28 2 0.06
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGTAACAGTATATGTGGCAAAGCCA
Found at i:49322686 original size:27 final size:27
Alignment explanation
Indices: 49322643--49322881 Score: 193
Period size: 27 Copynumber: 8.8 Consensus size: 27
49322633 CCTAGCATTC
* *
49322643 ATTTTACCCTAACG-GGGTATTACGATA
1 ATTTTACCC-ATCGAGGGTATTTCGATA
* * *
49322670 ATTTTACCCTTCGGGGGGTATTTC-AGGA
1 ATTTTACCCATC-GAGGGTATTTCGA-TA
* * *
49322698 ATTTTTCCCTTC-AGGGGTATTTCGGTA
1 ATTTTACCCATCGA-GGGTATTTCGATA
*
49322725 ATTTTTCCCATCGAGGGTATTTC-AGTA
1 ATTTTACCCATCGAGGGTATTTCGA-TA
* *
49322752 ATTTTACCCATCAAGGGTATTTAGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* *
49322779 ATTTTACCCATCGAAGGTATTT-TAGTA
1 ATTTTACCCATCGAGGGTATTTCGA-TA
* *
49322806 ATTTTACCCATC-AGGGGTACTTCGAAA
1 ATTTTACCCATCGA-GGGTATTTCGATA
* * * *
49322833 ATTTTACCCTTCGAGAGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
*
49322860 ATTTTACCCATCGAGAGTATTT
1 ATTTTACCCATCGAGGGTATTT
49322882 TGGTAAATGC
Statistics
Matches: 173, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
26 3 0.02
27 146 0.84
28 24 0.14
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:49322770 original size:54 final size:54
Alignment explanation
Indices: 49322657--49322881 Score: 252
Period size: 54 Copynumber: 4.1 Consensus size: 54
49322647 TACCCTAACG
* * * * * * *
49322657 GGGTATTACGATAATTTTACCCTTCGGGGGGTATTTCAGGAATTTTTCCCTTCAG
1 GGGTATTTCGATAATTTTACCCATC-GAGGGTATTTCAGTAATTTTACCCATCAA
* *
49322712 GGGTATTTCGGTAATTTTTCCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
* * * *
49322766 GGGTATTTAGATAATTTTACCCATCGAAGGTATTTTAGTAATTTTACCCATCAG
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
* * * * ** *
49322820 GGGTACTTCGAAAATTTTACCCTTCGAGAGTATTTTGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
*
49322874 GAGTATTT
1 GGGTATTT
49322882 TGGTAAATGC
Statistics
Matches: 144, Mismatches: 26, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
54 123 0.85
55 21 0.15
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (54 bp):
GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCAGTAATTTTACCCATCAA
Found at i:49324081 original size:25 final size:25
Alignment explanation
Indices: 49324043--49324096 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
49324033 TGAACCTCTG
*
49324043 ACCTCCTTATCACACCTGTGACACC
1 ACCTCCTTACCACACCTGTGACACC
* * *
49324068 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACACC
49324093 ACCT
1 ACCT
49324097 TGCCACTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACACC
Found at i:49328692 original size:3 final size:3
Alignment explanation
Indices: 49328684--49328736 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
49328674 AAACTTTAGG
* * * * *
49328684 TTA TTA TTA TTA TTA TTA TTA TCA TCA TCA TCA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49328732 TTA TT
1 TTA TT
49328737 CTTAAATTGT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.34, C:0.08, G:0.00, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:49328838 original size:17 final size:17
Alignment explanation
Indices: 49328814--49328853 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
49328804 CCGTTATCCT
* *
49328814 TATTATTTTTTTGTTTA
1 TATTATTTTATTCTTTA
*
49328831 TTTTATTTTATTCTTTA
1 TATTATTTTATTCTTTA
49328848 TATTAT
1 TATTAT
49328854 CATTCATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.20, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TATTATTTTATTCTTTA
Found at i:49331631 original size:14 final size:14
Alignment explanation
Indices: 49331592--49331632 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
49331582 GTGGAGGCAA
49331592 AAAAAACAAAAAAAT
1 AAAAAAC-AAAAAAT
*
49331607 AAAGAACAAAAAAT
1 AAAAAACAAAAAAT
*
49331621 AAAAAATAAAAA
1 AAAAAACAAAAA
49331633 CCTCTACCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.85, C:0.05, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAAAACAAAAAAT
Found at i:49332044 original size:5 final size:5
Alignment explanation
Indices: 49332028--49332070 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
49332018 ATGAACAGAA
*
49332028 AAAAG -AAA- AAAAG AAAAG AAAAG AAAAA AAAGAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA-AG AAAAG AAAA
49332071 AGGAGAGCCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 6 0.18
5 23 0.70
6 4 0.12
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:49332063 original size:21 final size:20
Alignment explanation
Indices: 49332024--49332071 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
49332014 AACAATGAAC
49332024 AGAAAAAAGAAAAAAAGAAA
1 AGAAAAAAGAAAAAAAGAAA
49332044 AGAAAAGAA-AAAAAAGAGAAA
1 AGAAAA-AAGAAAAAA-AGAAA
49332065 AGAAAAA
1 AGAAAAA
49332072 GGAGAGCCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AGAAAAAAGAAAAAAAGAAA
Found at i:49332077 original size:16 final size:16
Alignment explanation
Indices: 49332028--49332071 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
49332018 ATGAACAGAA
*
49332028 AAAAGAAAAAAAGAAAAG
1 AAAAG-AAAAAA-AAGAG
49332046 AAAAGAAAAAAAAGAG
1 AAAAGAAAAAAAAGAG
49332062 AAAAGAAAAA
1 AAAAGAAAAA
49332072 GGAGAGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 14 0.56
17 6 0.24
18 5 0.20
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAG
Found at i:49333027 original size:44 final size:44
Alignment explanation
Indices: 49332959--49333850 Score: 224
Period size: 44 Copynumber: 19.5 Consensus size: 44
49332949 TCATGGCGAA
49332959 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * ** * *
49333003 TCTTATC-CCCTTGAAGTTGTAGTGG-GATAGATTGAAGATTATGGCGAA
1 TCTTATCTCCC-TGAAGTTGCAGTGGAG-CAGATTGAAG-CCA---CTAG
* * *
49333051 TATTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCCACTAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * ** *
49333095 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGC-GG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAG
* * * * * * *
49333139 ATCTTATTTCCCTGAACTTGCAGTAGAACAGATTAAAGCTATAAATTACAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC----CACT--AG
** * * * * * *
49333190 ATCTTATCTGTCTGAATTTGCAGTAGAGCAGA-TCATAGCTACAAA
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACTAG
* * * * * * *
49333235 CCTTATCTCTCTGAAGTTGCAGTAGAGCAGA-TCATAGCTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACTAG
* * * ** * *
49333279 CCTTATCTCCCTGAAGTTGCAGT-AAGGCAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGCCACTAG
* *** *
49333323 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAATTTACTAC
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * * * * * * *
49333367 TCCTATCTCCCTGAAGATACAGTGGAGCGGATTAAAACGA-TGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT-AG
* * * * * * * ** *
49333411 CCCTATAC-CTCTGAAGTTACAGAAGGTCGGATCAAATCTATTAAAGTTACAAG
1 TCTTAT-CTCCCTGAAGTT---GCA-GT-GGAGC--A--GATTGAAGCCACTAG
* * * ** * *
49333464 TCTTAACTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCA-CTAG
* * * * * *
49333509 TCTTATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTATAAATTACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC-------CACTAG
* * * * * * *
49333560 TCTTATCTCTCTGAAGTTGCAGTAGAGTA-AATCATA-TCA--AA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA-AGCCACTAG
* * * * * *** * *
49333601 CCTTATCTTCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAATCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-GAAGCCACT-AG
* * * *
49333647 TCTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGAGATACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG-C----CACTAG
* * * ** * *
49333696 TCTTATCTCCCTGAAGTTACAGTGGAGTAGATTAAATTCACAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * * * ** * *
49333740 CCTTATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAGATACCAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
* * *
49333784 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACTAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
*
49333828 TCCTATCTCCCTGAAGTTGCAGT
1 TCTTATCTCCCTGAAGTTGCAGT
49333851 AAAGCGGATT
Statistics
Matches: 643, Mismatches: 151, Indels: 108
0.71 0.17 0.12
Matches are distributed among these distances:
41 27 0.04
42 2 0.00
43 10 0.02
44 326 0.51
45 72 0.11
46 31 0.05
47 3 0.00
48 38 0.06
49 45 0.07
50 8 0.01
51 58 0.09
52 3 0.00
53 20 0.03
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAG
Found at i:49333083 original size:92 final size:91
Alignment explanation
Indices: 49332918--49333119 Score: 323
Period size: 92 Copynumber: 2.2 Consensus size: 91
49332908 AGATCCTATA
* * *
49332918 CCCCTGAAGTTACAGTGGGATATATTGAAGATCATGGCGAATCTTATCTCCCTGAAGTTGCAGTG
1 CCCCTGAAGTTGCAGTGGGATAGATTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGTG
49332983 GAGCAGATTGAAGCCACTAGTCTTAT
66 GAGCAGATTGAAGCCACTAGTCTTAT
* * *
49333009 CCCCTTGAAGTTGTAGTGGGATAGATTGAAGATTATGGCGAATATTATCTCCCTGAAGTTGTAGT
1 CCCC-TGAAGTTGCAGTGGGATAGATTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
*
49333074 GGAGTAGATTGAAGCCACTAGTCTTAT
65 GGAGCAGATTGAAGCCACTAGTCTTAT
49333101 CTCCCTGAAGTTGCAGTGG
1 C-CCCTGAAGTTGCAGTGG
49333120 AGCAAACTGA
Statistics
Matches: 101, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
91 4 0.04
92 94 0.93
93 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (91 bp):
CCCCTGAAGTTGCAGTGGGATAGATTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGTG
GAGCAGATTGAAGCCACTAGTCTTAT
Found at i:49333131 original size:92 final size:92
Alignment explanation
Indices: 49332918--49333177 Score: 300
Period size: 92 Copynumber: 2.9 Consensus size: 92
49332908 AGATCCTATA
* * * *
49332918 CCCC-TGAAGTTACAGTGGGATATATTGAAGATCATGGCGAATCTTATCTCCCTGAAGTTGCAGT
1 CCCCTTGAAGTTGCAGTGGGATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
49332982 GGAGCAGATTGAAGCCACTAGTCTTAT
66 GGAGCAGATTGAAGCCACTAGTCTTAT
* * * *
49333009 CCCCTTGAAGTTGTAGTGGGATAGATTGAAGATTATGGCGAATATTATCTCCCTGAAGTTGTAGT
1 CCCCTTGAAGTTGCAGTGGGATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
*
49333074 GGAGTAGATTGAAGCCACTAGTCTTAT
66 GGAGCAGATTGAAGCCACTAGTCTTAT
* * * *
49333101 CTCCC-TGAAGTTGCAGTGGAGCA-A-ACTGAAGAT-A--GCGGATCTTATTTCCCTGAACTTGC
1 C-CCCTTGAAGTTGCAGTGG-G-ATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGC
* * *
49333160 AGTAGAACAGATTAAAGC
63 AGTGGAGCAGATTGAAGC
49333178 TATAAATTAC
Statistics
Matches: 147, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
89 34 0.23
91 5 0.03
92 102 0.69
93 5 0.03
94 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (92 bp):
CCCCTTGAAGTTGCAGTGGGATAGACTGAAGATCATGGCGAATATTATCTCCCTGAAGTTGCAGT
GGAGCAGATTGAAGCCACTAGTCTTAT
Found at i:49333807 original size:88 final size:91
Alignment explanation
Indices: 49333465--49333810 Score: 257
Period size: 93 Copynumber: 3.8 Consensus size: 91
49333455 AGTTACAAGT
* * * * * *
49333465 CTTAACTCCCTGAAGTTGTAGTGGAGCAGACT-GA-AGATAGCGAATCTTATTTCCCTAAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACAGATA-CAAATCTTATCTCCCTGAAGTTG
** ** *
49333528 CAGTGGAACAGATTGAAGCTATAAATTACAAAT
65 CAGTGGAGTAGATT-AA-AAAT-AA--AC-AAC
* * * * *
49333561 CTTATCTCTCTGAAGTTGCAGT--AG-AG--TAAATCATAT-CAAACCTTATCTTCCTGAAGTTG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGA-CAGATACAAATCTTATCTCCCTGAAGTTG
* *
49333620 CAGTGGAGTAGGTTAAAAATAAATCAAT
65 CAGTGGAGTAGATTAAAAATAAA-CAAC
*
49333648 CTTATTTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACGAGATACAAATCTTATCTCCCTGAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT--AGAC-AGATACAAATCTTATCTCCCTGAAGT
* **
49333713 TACAGTGGAGTAGATT--AAATTCACAAAC
63 TGCAGTGGAGTAGATTAAAAATAAAC-AAC
* * * *
49333741 CTTATCTCCCTTAAGTTGCAGTGGAGTAGGTT-GA-AGATACCAATCTTATCTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACAGATACAAATCTTATCTCCCTGAAGTTGC
49333804 AGTGGAG
66 AGTGGAG
49333811 CAAATTGAAG
Statistics
Matches: 204, Mismatches: 32, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
87 24 0.12
88 35 0.17
89 4 0.02
90 6 0.03
91 3 0.01
92 32 0.16
93 38 0.19
94 10 0.05
95 33 0.16
96 19 0.09
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (91 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAGACAGATACAAATCTTATCTCCCTGAAGTTGC
AGTGGAGTAGATTAAAAATAAACAAC
Found at i:49333818 original size:137 final size:135
Alignment explanation
Indices: 49333465--49333821 Score: 421
Period size: 137 Copynumber: 2.6 Consensus size: 135
49333455 AGTTACAAGT
* * * ** * *
49333465 CTTAACTCCCTGAAGTTGTAGTGGAGCAGACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATA-CCAATCTTATTTCCCTGAAGTTGCA
* * * * *
49333530 GTGGAACAGATTGAAGCTATAAATTACAAATCTTATCTCTCTGAAGTTGCAGTAGAGTAAATCAT
65 GTGGAGCAGATTGAAGC-AGAAATTACAAATCTTATCTCCCTGAAGTTACAGTAGAGTAAATCAA
49333595 ATCAAAC
129 ATCAAAC
* * * *
49333602 CTTATCTTCCTGAAGTTGCAGTGGAGTAGGTTAAAAATAAATCAATCTTATTTCCCTGAAGTTGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGAT--ACCAATCTTATTTCCCTGAAGTTGC
* * * *
49333667 AGTGGAGCAGATTGAAG-ACGAGA-TACAAATCTTATCTCCCTGAAGTTACAGTGGAGTAGATTA
64 AGTGGAGCAGATTGAAGCA-GAAATTACAAATCTTATCTCCCTGAAGTTACAGTAGAGTAAATCA
49333730 AATTCACAAAC
128 AA-T--CAAAC
* *
49333741 CTTATCTCCCTTAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAG
*
49333806 TGGAGCAAATTGAAGC
66 TGGAGCAGATTGAAGC
49333822 TACTAATCCT
Statistics
Matches: 186, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
136 37 0.20
137 72 0.39
138 37 0.20
139 40 0.22
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (135 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGGTTGAAGATACCAATCTTATTTCCCTGAAGTTGCAG
TGGAGCAGATTGAAGCAGAAATTACAAATCTTATCTCCCTGAAGTTACAGTAGAGTAAATCAAAT
CAAAC
Found at i:49333874 original size:44 final size:44
Alignment explanation
Indices: 49333782--49333895 Score: 113
Period size: 44 Copynumber: 2.6 Consensus size: 44
49333772 TGAAGATACC
* ** * * * *
49333782 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTAAAGCAAATTAAAACGACG
**
49333826 AATCCTATCTCCCTGAAGTTGCAGTAAAGCGGATTAAAACGACG
1 AATCCTATCTCCCTGAAGTTGCAGTAAAGCAAATTAAAACGACG
* *
49333870 AATCCTATAC-CTCTGAGGTTGCAGTA
1 AATCCTAT-CTCCCTGAAGTTGCAGTA
49333896 GGTCGGATTA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 57 0.98
45 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTAAAGCAAATTAAAACGACG
Found at i:49334288 original size:45 final size:45
Alignment explanation
Indices: 49334215--49334379 Score: 176
Period size: 45 Copynumber: 3.7 Consensus size: 45
49334205 GCAACAAACC
* * *
49334215 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAGATA
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATA
* * * **
49334260 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAAATTGAAG-GC
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATA
*
49334304 ACAAGTCTTATCTCCCTGAA-TATGA-AGTGGAGCAGACTGAAA-ATA
1 ACAAATCTTATCTCCCTGAAGT-T-ACAGTGGAGCAGACT-AAAGATA
* *
49334349 ACAAATTTTATTTCCCTGAAGTTACAGTGGA
1 ACAAATCTTATCTCCCTGAAGTTACAGTGGA
49334380 ATAGATTAAA
Statistics
Matches: 97, Mismatches: 17, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 32 0.33
45 63 0.65
46 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (45 bp):
ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAAGATA
Found at i:49334365 original size:89 final size:89
Alignment explanation
Indices: 49334214--49334379 Score: 264
Period size: 89 Copynumber: 1.9 Consensus size: 89
49334204 AGCAACAAAC
* *
49334214 CACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCGGACTAAAGATAACAAATCTTATCTCCCTGA
1 CACAAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGA
49334279 AGTTACAGTGGAGCAAATTGAAGG
66 AGTTACAGTGGAGCAAATTGAAGG
* *
49334303 CACAAGTCTTATCTCCCTGAA-TATGAAGTGGAGCAGACTGAAA-ATAACAAATTTTATTTCCCT
1 CACAAGTCTTATCTCCCTGAAGT-TGAAGTGGAGCAGACT-AAAGATAACAAATCTTATCTCCCT
49334366 GAAGTTACAGTGGA
64 GAAGTTACAGTGGA
49334380 ATAGATTAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
88 1 0.01
89 67 0.94
90 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (89 bp):
CACAAGTCTTATCTCCCTGAAGTTGAAGTGGAGCAGACTAAAGATAACAAATCTTATCTCCCTGA
AGTTACAGTGGAGCAAATTGAAGG
Found at i:49334617 original size:23 final size:23
Alignment explanation
Indices: 49334573--49334616 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49334563 CTAATTTACA
49334573 AATAAAAATTACAAACCCAAAAC
1 AATAAAAATTACAAACCCAAAAC
*
49334596 AATAAAAATTAC-ATCCCAAAA
1 AATAAAAATTACAAACCCAAAA
49334617 ATTAAAGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.64, C:0.20, G:0.00, T:0.16
Consensus pattern (23 bp):
AATAAAAATTACAAACCCAAAAC
Found at i:49335871 original size:3 final size:3
Alignment explanation
Indices: 49335863--49335903 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
49335853 AAACTTTAGG
* * *
49335863 TTA TTA TTA TTA TTA TCA TCA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
49335904 CTTAAATTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:49338950 original size:16 final size:17
Alignment explanation
Indices: 49338929--49338961 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49338919 GTTAACTTAA
49338929 ATGAT-CTAAATGCAAG
1 ATGATCCTAAATGCAAG
49338945 ATGATCCCTAAATGCAA
1 ATGAT-CCTAAATGCAA
49338962 TGTATGCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (17 bp):
ATGATCCTAAATGCAAG
Found at i:49341937 original size:27 final size:26
Alignment explanation
Indices: 49341845--49341942 Score: 115
Period size: 28 Copynumber: 3.6 Consensus size: 26
49341835 GTCAGAAAAG
* *
49341845 GGAAAGCCTTTGTGTCAAATCTCGAA
1 GGAAAGCCTTTGTGGCAAATCTTGAA
* *
49341871 TGGAAAAGCCTTTGTGGAAAATCTTAAAA
1 -GG-AAAGCCTTTGTGGCAAATCTT-GAA
49341900 GGAATAGCCTTTGTGGCAAATCTTGAA
1 GGAA-AGCCTTTGTGGCAAATCTTGAA
*
49341927 GGAAAGCCCTTGTGGC
1 GGAAAGCCTTTGTGGC
49341943 TACCATCTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
26 11 0.18
27 10 0.16
28 38 0.62
29 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.27
Consensus pattern (26 bp):
GGAAAGCCTTTGTGGCAAATCTTGAA
Found at i:49347841 original size:10 final size:10
Alignment explanation
Indices: 49347826--49347914 Score: 50
Period size: 10 Copynumber: 9.3 Consensus size: 10
49347816 AACGGAAAGT
49347826 ATTTTTAATA
1 ATTTTTAATA
49347836 ATTTTT-ATCA
1 ATTTTTAAT-A
*
49347846 A--TTTAATTG
1 ATTTTTAA-TA
49347855 A-TTTTAATA
1 ATTTTTAATA
49347864 ATTTATT-ATA
1 ATTT-TTAATA
49347874 A-TTTTAATA
1 ATTTTTAATA
*
49347883 AATTTTAA-A
1 ATTTTTAATA
*
49347892 TATTTTTTAT-
1 -ATTTTTAATA
*
49347902 ATTTGTAATA
1 ATTTTTAATA
49347912 ATT
1 ATT
49347915 ATTTGAAAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 22
0.69 0.07 0.24
Matches are distributed among these distances:
8 5 0.08
9 20 0.32
10 35 0.56
11 2 0.03
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.58
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:49347877 original size:19 final size:19
Alignment explanation
Indices: 49347833--49347883 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
49347823 AGTATTTTTA
*
49347833 ATAATTTTTATCAATTTAAT
1 ATAATTTTAAT-AATTTAAT
* *
49347853 -TGATTTTAATAATTTATT
1 ATAATTTTAATAATTTAAT
49347871 ATAATTTTAATAA
1 ATAATTTTAATAA
49347884 ATTTTAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATAATTTTAATAATTTAAT
Found at i:49347879 original size:29 final size:28
Alignment explanation
Indices: 49347828--49347901 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
49347818 CGGAAAGTAT
**
49347828 TTTTAATAATTTTTATCAATTTAATTGA
1 TTTTAATAATTTTTATCAATTTAATAAA
49347856 TTTTAATAATTTATTAT-AATTTTAATAAA
1 TTTTAATAATTT-TTATCAA-TTTAATAAA
*
49347885 TTTTAAATATTTTTTAT
1 TTTT-AATAATTTTTAT
49347902 ATTTGTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
28 14 0.35
29 19 0.47
30 7 0.17
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (28 bp):
TTTTAATAATTTTTATCAATTTAATAAA
Found at i:49347896 original size:19 final size:19
Alignment explanation
Indices: 49347855--49347897 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49347845 AATTTAATTG
* *
49347855 ATTTTAATAATTTATTATA
1 ATTTTAATAAATTATTAAA
49347874 ATTTTAATAAATT-TTAAA
1 ATTTTAATAAATTATTAAA
49347892 TATTTT
1 -ATTTT
49347898 TTATATTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTAATAAATTATTAAA
Found at i:49347902 original size:29 final size:27
Alignment explanation
Indices: 49347828--49347912 Score: 80
Period size: 29 Copynumber: 3.0 Consensus size: 27
49347818 CGGAAAGTAT
* * **
49347828 TTTTAATAATTTTTATCAATTTAATTGA
1 TTTTAATATTTTTTAT-ATTTTAATAAA
*
49347856 TTTTAATAATTTATTATAATTTTAATAAA
1 TTTTAAT-ATTTTTTAT-ATTTTAATAAA
49347885 TTTTAAATATTTTTTATATTTGTAATAA
1 TTTT-AATATTTTTTATATTT-TAATAA
49347913 TTATTTGAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 11 0.23
29 33 0.70
30 3 0.06
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTAATATTTTTTATATTTTAATAAA
Found at i:49356800 original size:47 final size:47
Alignment explanation
Indices: 49356738--49357227 Score: 809
Period size: 47 Copynumber: 10.4 Consensus size: 47
49356728 TTCAGCCAAG
*
49356738 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
49356785 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
49356832 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
49356879 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATAAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
49356926 AAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
49356973 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
49357020 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
49357067 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
*
49357114 AAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* * * * * * * *
49357161 AAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
* *
49357208 AAGTGCATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
49357228 TCCCGAAGGG
Statistics
Matches: 426, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 426 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
Found at i:49357388 original size:37 final size:37
Alignment explanation
Indices: 49357346--49357424 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
49357336 CCGAGCTCTA
* *
49357346 AAGACCCGATGACTACGTGTGG-GAATTTTATCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATATCCGGGT
* *
49357383 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
49357420 AAGAC
1 AAGAC
49357425 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATATCCGGGT
Found at i:49363751 original size:16 final size:15
Alignment explanation
Indices: 49363721--49363755 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
49363711 TTCTATTGTC
49363721 TATATTTTTTATAGA
1 TATATTTTTTATAGA
*
49363736 TATATTTTTATCTAGA
1 TATATTTTT-TATAGA
49363752 TATA
1 TATA
49363756 CAAGATCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
TATATTTTTTATAGA
Found at i:49364092 original size:20 final size:21
Alignment explanation
Indices: 49364067--49364110 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
49364057 TTACACGAGG
*
49364067 AAATTGTTATTTCTAATT-AA
1 AAATTGGTATTTCTAATTCAA
49364087 AAATTGGTATTTCTAATTCAA
1 AAATTGGTATTTCTAATTCAA
49364108 AAA
1 AAA
49364111 AAAAATAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (21 bp):
AAATTGGTATTTCTAATTCAA
Found at i:49372062 original size:7 final size:8
Alignment explanation
Indices: 49372042--49372066 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
49372032 ATCATTAAAT
49372042 ATTTTTAA
1 ATTTTTAA
49372050 ATTTTTAA
1 ATTTTTAA
49372058 ATTTTTAA
1 ATTTTTAA
49372066 A
1 A
49372067 AATTATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
ATTTTTAA
Found at i:49373384 original size:24 final size:24
Alignment explanation
Indices: 49373333--49373384 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
49373323 CACATAGTTG
* *
49373333 TGTGGTAGGCCGTGTGCCATGCCG
1 TGTGGTAGGCCGTGTGCCAGGCCC
* **
49373357 TGTGGTAGGCTGTGTGTGAGGCCC
1 TGTGGTAGGCCGTGTGCCAGGCCC
49373381 TGTG
1 TGTG
49373385 TGACACACGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.19, G:0.44, T:0.29
Consensus pattern (24 bp):
TGTGGTAGGCCGTGTGCCAGGCCC
Found at i:49381630 original size:19 final size:20
Alignment explanation
Indices: 49381606--49381643 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49381596 CAAATCTGCA
*
49381606 CAAAAC-ATTAAATTTAAGG
1 CAAAACTATAAAATTTAAGG
49381625 CAAAACTATAAAATTTAAG
1 CAAAACTATAAAATTTAAG
49381644 AAATAGGGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (20 bp):
CAAAACTATAAAATTTAAGG
Found at i:49383888 original size:35 final size:35
Alignment explanation
Indices: 49383842--49383911 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
49383832 AGTTTAGCAG
49383842 CAAAATCACAAATTTCAACAACAATAACATGCATA
1 CAAAATCACAAATTTCAACAACAATAACATGCATA
49383877 CAAAATCACAAATTTCAACAACAATAACATGCATA
1 CAAAATCACAAATTTCAACAACAATAACATGCATA
49383912 GACTAGATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.54, C:0.23, G:0.03, T:0.20
Consensus pattern (35 bp):
CAAAATCACAAATTTCAACAACAATAACATGCATA
Found at i:49395836 original size:39 final size:39
Alignment explanation
Indices: 49395429--49395839 Score: 459
Period size: 39 Copynumber: 10.5 Consensus size: 39
49395419 TATAATCAAT
* * * *
49395429 GGCACGTAAGTGCAAATCACGGGTACCAAAGTACAACAGG
1 GGCACGTATGTGC-ATTCAGGGGTACCGAAGTACAACAGG
* * *
49395469 GGCATGT-TGGTGCAGTT-AGGGGTATCGAAGTACAATAGG
1 GGCACGTAT-GTGCA-TTCAGGGGTACCGAAGTACAACAGG
* * * * *
49395508 GGCGCGTAGGTGCATTCAGGGGTACCAAAATACAACATG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* * *
49395547 GGCACGTATGTGTATTTAGGGGTATCGAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* *
49395586 GGCACATATGTGCATTTAGGGGTACCGAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* **
49395625 GGCATGTGGGTGCATTCAGGGGTACCGAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* * * * *
49395664 GGCACATATCTACA-TCTAGAGGTATCGAAGTACAACAGG
1 GGCACGTATGTGCATTC-AGGGGTACCGAAGTACAACAGG
* * *
49395703 GGCACATATGTGCATTCAAGGGTACCAAAGTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* *
49395742 GGCACGTATGTGCATTTAGGGGTACCGAAGTACAATAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
* ** *
49395781 GGAAAATATGTGCATTCAGGGGTACCGAACTACAACAGG
1 GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
49395820 GGCACGTATGTGCATTCAGG
1 GGCACGTATGTGCATTCAGG
49395840 TTTAATTACA
Statistics
Matches: 306, Mismatches: 59, Indels: 13
0.81 0.16 0.03
Matches are distributed among these distances:
38 4 0.01
39 289 0.94
40 13 0.04
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (39 bp):
GGCACGTATGTGCATTCAGGGGTACCGAAGTACAACAGG
Found at i:49401569 original size:40 final size:40
Alignment explanation
Indices: 49401539--49401747 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
49401529 GGACTAAGAT
* * * *
49401539 CCGAAGGCCTTTGTGCGAGATACTAAATCC-GGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
49401578 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
49401618 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
49401658 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
49401698 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
49401737 CCGAAGGCATT
1 CCGAAGGCATT
49401748 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
39 60 0.38
40 98 0.62
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:49401594 original size:39 final size:40
Alignment explanation
Indices: 49401486--49401747 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
49401476 TTGAATGCTG
* * * * * *
49401486 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
49401526 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
49401566 TCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
49401605 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
49401645 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
49401685 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
49401724 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49401748 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 19, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 65 0.33
40 125 0.63
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:49401717 original size:119 final size:120
Alignment explanation
Indices: 49401486--49401747 Score: 316
Period size: 119 Copynumber: 2.2 Consensus size: 120
49401476 TTGAATGCTG
* * *
49401486 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
49401550 TGTGCGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * * **
49401605 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
49401668 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
49401724 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
49401748 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
118 1 0.01
119 95 0.79
120 25 0.21
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:49401767 original size:79 final size:80
Alignment explanation
Indices: 49401539--49401782 Score: 244
Period size: 79 Copynumber: 3.1 Consensus size: 80
49401529 GGACTAAGAT
* * * * * ** * *
49401539 CCGAAGGCCTTTGTGCGAGATACTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAG-GAGCT
49401602 AAATCCGGGTTAAGTC
65 AAATCCGGGTTAAGTC
* * * ** ** *
49401618 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
49401683 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
49401698 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
49401762 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
49401776 CCGAAGG
1 CCGAAGG
49401783 TACGTGATTT
Statistics
Matches: 143, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
78 14 0.10
79 73 0.51
80 56 0.39
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:49401767 original size:119 final size:119
Alignment explanation
Indices: 49401487--49401782 Score: 296
Period size: 119 Copynumber: 2.5 Consensus size: 119
49401477 TGAATGCTGT
* ** * * ** *
49401487 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTATATCCGGGTTAAG-TCCCGAAGGCATT
* * *
49401550 TGTGCGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAAT
64 CGTGCGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
* ** * * *
49401606 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
* ** * *
49401671 TGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAA
66 TGCGAGATACTAAATCC-GGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
* * *
49401725 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTATATCCGGGTTAAGTCCCGAAGG
49401783 TACGTGATTT
Statistics
Matches: 147, Mismatches: 26, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
118 17 0.12
119 105 0.71
120 25 0.17
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTATATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAA
Found at i:49409471 original size:40 final size:40
Alignment explanation
Indices: 49409441--49409648 Score: 296
Period size: 40 Copynumber: 5.3 Consensus size: 40
49409431 GGACTAAGAT
* * * *
49409441 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
49409481 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
49409521 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
49409561 CCGAAGGCA-TCGTGCGA-TTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
49409599 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
49409638 CCGAAGGCATT
1 CCGAAGGCATT
49409649 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 33 0.21
39 37 0.24
40 85 0.55
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:49409639 original size:39 final size:39
Alignment explanation
Indices: 49409388--49409648 Score: 292
Period size: 40 Copynumber: 6.6 Consensus size: 39
49409378 TTGAATGCTG
* * * * * *
49409388 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTATTAAA
** * * *
49409428 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGG-CATTGTGCGAGTTATTAAA
49409468 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAA
49409508 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTATTAAA
* *
49409548 TCCGGGTTAAGTCCCGAAGGCATCGTGCGA-TTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
* * *
49409586 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
* * *
49409625 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
49409649 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 20, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
38 34 0.17
39 38 0.19
40 115 0.59
41 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTATTAAA
Found at i:49409679 original size:78 final size:78
Alignment explanation
Indices: 49409441--49409683 Score: 242
Period size: 78 Copynumber: 3.1 Consensus size: 78
49409431 GGACTAAGAT
* * * * * *
49409441 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTA-TT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-TCGTGCGAG--AGCT
49409505 AAATCCGGGTTAAGTC
63 AAATCCGGGTTAAGTC
* * * ** *
49409521 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATCGTGCGATTGTTAAA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATCGTGCGAGAGCTAAA
*
49409586 TCCGGGTTATGTC
66 TCCGGGTTAAGTC
* * *
49409599 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAT-TTGAACGAGGAGCT
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATCGTG--CGA-GAGCT
* *
49409662 ATATCC-GGTTAAATC
63 AAATCCGGGTTAAGTC
49409677 CCGAAGG
1 CCGAAGG
49409684 TACGTGATTT
Statistics
Matches: 140, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
76 2 0.01
77 33 0.24
78 45 0.32
79 15 0.11
80 45 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATCGTGCGAGAGCTAAA
TCCGGGTTAAGTC
Found at i:49445046 original size:27 final size:27
Alignment explanation
Indices: 49445016--49445193 Score: 198
Period size: 27 Copynumber: 6.6 Consensus size: 27
49445006 ATATTGAGTC
* * * *
49445016 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
49445043 CGCACACTTAGTGCTACGA-AATCAAAT
1 CGCACACTTAGTGCTAC-ATAGTCAAAT
49445070 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49445098 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49445125 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49445152 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49445179 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49445194 GTACAATTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 104 0.80
28 25 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:49446520 original size:13 final size:13
Alignment explanation
Indices: 49446502--49446526 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49446492 TTTCATTTGC
49446502 TTTCTTTTATTCT
1 TTTCTTTTATTCT
49446515 TTTCTTTTATTC
1 TTTCTTTTATTC
49446527 ATTAAATCCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTTATTCT
Found at i:49453037 original size:27 final size:27
Alignment explanation
Indices: 49453007--49453184 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
49452997 ATATTGAGTC
* * * *
49453007 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
49453034 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49453061 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
49453089 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
49453116 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
49453143 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
49453170 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49453185 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:49453146 original size:82 final size:81
Alignment explanation
Indices: 49453028--49453183 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
49453018 TGCTATATAA
* *
49453028 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
49453093 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
49453110 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
49453174 CACTTAGTGC
65 CACTTAGTGC
49453184 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:49455734 original size:39 final size:40
Alignment explanation
Indices: 49455680--49455769 Score: 146
Period size: 40 Copynumber: 2.3 Consensus size: 40
49455670 TACTATGACA
49455680 GGCTAAGGCCCTACTGCA-TTTTGACACTGCACTAAGATG
1 GGCTAAGGCCCTACTGCATTTTTGACACTGCACTAAGATG
* * *
49455719 GGCTAAAGCCCTACTGCATTTTTGACACTGTACTGAGATG
1 GGCTAAGGCCCTACTGCATTTTTGACACTGCACTAAGATG
49455759 GGCTAAGGCCC
1 GGCTAAGGCCC
49455770 AAACTTTCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
39 17 0.37
40 29 0.63
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GGCTAAGGCCCTACTGCATTTTTGACACTGCACTAAGATG
Found at i:49458306 original size:339 final size:335
Alignment explanation
Indices: 49457598--49458276 Score: 851
Period size: 339 Copynumber: 2.0 Consensus size: 335
49457588 AGCAGCCCAG
* * * * ** * *
49457598 TAAGTTATCGAAGTTTTAAAAAT--T-AATTAAAACATTTGTTTGTTTTTTAAGGAAGTTTAGTC
1 TAAGTAATC-AAGTTTCAAAAATAGTAAATTAAAATATTTGTTTATTTTAGACGAAAGTTTAGTC
* *
49457660 TATTTTCAGAAAAATATAGGAGTTTAAAAAAAGATTAAGTTTAACATCTTCATTATAATAGTGTT
65 TATTTTCAGAAAAACACAGGAGTTTAAAAAAAGATTAAGTTTAACATCTTCATTATAATAGTGTT
*
49457725 TACTATTGAAAACTTAGTTGAAAATCCAAATTACTCTTTTAACAATACATATTTGCAATTACGCA
130 TACTATTGAAAACTTAGTTGAAAATCCAAATTACTCTTTTAACAATACATATTTACAATTACGCA
** * *
49457790 ACGAAAAAGTGATATTAATGTAACTTTAATAAAAACCATGTTTCATGCATAATTAAATAAAAATT
195 ACGAAAAAGTGATATTAACATAAATTTAATAAAAAACATGTTTCATGCATAATTAAATAAAAATT
* * *
49457855 CATATTCTAATAGCCTAAATGAATTAAGTGTCATGTATACCTAAAGATAAATCGTAAACTAGCTC
260 CATATTCTAATAGCCTAAATGAATTAAATGTCATGTATACCGAAAGAAAAATCGTAAACTAGCTC
*
49457920 CCATGGCACGA
325 CCATGGCACAA
* * * *
49457931 TAAGTTATCGAAGTTTTAGAAATAGTTAATTAAAATATTTGTTTATTTTAGACGAAAGTTTAGTC
1 TAAGTAATC-AAGTTTCAAAAATAGTAAATTAAAATATTTGTTTATTTTAGACGAAAGTTTAGTC
* * * *
49457996 TTTTTTGAGAAAAAACACAGGAGTTTTTAAAAAACGATTAA-TTGTAACATCTTCATTATAATGG
65 TATTTTCAG-AAAAACACAGGAG--TTTAAAAAAAGATTAAGTT-TAACATCTTCATTATAATAG
49458060 TGTTTACTATTGAAAACTTAGTTGAAAAT-CAGAATTAC-CTTTTTAACAATACATATTTACAAT
126 TGTTTACTATTGAAAACTTAGTTGAAAATCCA-AATTACTC-TTTTAACAATACATATTTACAA-
* * *
49458123 TTA-GTAGC-AGAAAAGTGATATTAACATAAATTTAATAAAAAACATGTTTCATTCATAATTAAA
188 TTACGCAACGA-AAAAGTGATATTAACATAAATTTAATAAAAAACATGTTTCATGCATAATTAAA
* *
49458186 TAAAAATTCATATTCTAATAGCCTAAATGATTTAAATGTCATGTAT-GCGAAAGTAAAAA-CTGT
252 TAAAAATTCATATTCTAATAGCCTAAATGAATTAAATGTCATGTATACCGAAAG-AAAAATC-GT
* *
49458249 AAA-TTGACTCCCATGTCACAA
315 AAACTAG-CTCCCATGGCACAA
49458270 TAA-TAAT
1 TAAGTAAT
49458277 ATTGTTTCAA
Statistics
Matches: 302, Mismatches: 30, Indels: 23
0.85 0.08 0.06
Matches are distributed among these distances:
333 22 0.07
335 1 0.00
336 39 0.13
337 11 0.04
338 17 0.06
339 209 0.69
340 3 0.01
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.36
Consensus pattern (335 bp):
TAAGTAATCAAGTTTCAAAAATAGTAAATTAAAATATTTGTTTATTTTAGACGAAAGTTTAGTCT
ATTTTCAGAAAAACACAGGAGTTTAAAAAAAGATTAAGTTTAACATCTTCATTATAATAGTGTTT
ACTATTGAAAACTTAGTTGAAAATCCAAATTACTCTTTTAACAATACATATTTACAATTACGCAA
CGAAAAAGTGATATTAACATAAATTTAATAAAAAACATGTTTCATGCATAATTAAATAAAAATTC
ATATTCTAATAGCCTAAATGAATTAAATGTCATGTATACCGAAAGAAAAATCGTAAACTAGCTCC
CATGGCACAA
Found at i:49461648 original size:28 final size:28
Alignment explanation
Indices: 49461607--49461724 Score: 157
Period size: 28 Copynumber: 4.2 Consensus size: 28
49461597 CCAAACAGTA
* *
49461607 ACAGT-ATGGTGTGGGCCTTAGCCCATT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
*
49461634 ACAGTAATAGTGTGGGCCTTAGCCCATT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
*
49461662 ATAGTAATAGTGTGGGCCTTAGCCCAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
* * * *
49461690 ACAGTAACAGTGTAGGCCTTAACCGAAT
1 ACAGTAATAGTGTGGGCCTTAGCCCAAT
49461718 ACAGTAA
1 ACAGTAA
49461725 CCAGTGCAGT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
27 5 0.06
28 77 0.94
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (28 bp):
ACAGTAATAGTGTGGGCCTTAGCCCAAT
Found at i:49461725 original size:28 final size:28
Alignment explanation
Indices: 49461574--49461730 Score: 154
Period size: 28 Copynumber: 5.4 Consensus size: 28
49461564 ATACGTCATG
* *
49461574 CAGTAACAGTTTGGGCCTGAGTCCCAA-A
1 CAGTAACAGTGTGGGCCTTAG-CCCAATA
*
49461602 CAGTAACAGTATGGTGTGGGCCTTAGCCCATTA
1 CAGTAAC---A--GTGTGGGCCTTAGCCCAATA
* *
49461635 CAGTAATAGTGTGGGCCTTAGCCCATTA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* *
49461663 TAGTAATAGTGTGGGCCTTAGCCCAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
* * *
49461691 CAGTAACAGTGTAGGCCTTAACCGAATA
1 CAGTAACAGTGTGGGCCTTAGCCCAATA
49461719 CAGTAACCAGTG
1 CAGTAA-CAGTG
49461731 CAGTGTAGTA
Statistics
Matches: 111, Mismatches: 11, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
28 82 0.74
29 5 0.05
30 1 0.01
31 1 0.01
32 4 0.04
33 18 0.16
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.25
Consensus pattern (28 bp):
CAGTAACAGTGTGGGCCTTAGCCCAATA
Found at i:49462080 original size:27 final size:27
Alignment explanation
Indices: 49462061--49462257 Score: 258
Period size: 27 Copynumber: 7.3 Consensus size: 27
49462051 GGTATAACAG
49462061 TCATTTTACCCTTCGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
*
49462088 TCATTTTACCCTTTGAGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
49462115 TCATTTTACGCTTCGGGGGTATTTCGA
1 TCATTTTACCCTTCGAGGGTATTTCGA
* *
49462142 TCATTTTACCCTT-TAGGGGTATTT-TA
1 TCATTTTACCCTTCGA-GGGTATTTCGA
*
49462168 GTCATTTTACCCTTTGAGGGTATTTC-A
1 -TCATTTTACCCTTCGAGGGTATTTCGA
49462195 GTCATTTTACCCTTCGAGGGTATTTCGA
1 -TCATTTTACCCTTCGAGGGTATTTCGA
* *
49462223 TCATTTTACCC-TCCAGGGGTATTTCGG
1 TCATTTTACCCTTCGA-GGGTATTTCGA
49462250 TCATTTTA
1 TCATTTTA
49462258 GGCCCATTAT
Statistics
Matches: 152, Mismatches: 12, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.03
27 146 0.96
28 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.19, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTCGAGGGTATTTCGA
Found at i:49462850 original size:19 final size:19
Alignment explanation
Indices: 49462826--49462874 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
49462816 TGAGAGTTTC
*
49462826 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCTG
*
49462845 TTTTATTAGTTCCTCTTCTG
1 TTTTA-TATTTCCTCTTCTG
*
49462865 TTTAATATTT
1 TTTTATATTT
49462875 TTAAGCTGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.14, C:0.14, G:0.06, T:0.65
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCTG
Found at i:49466652 original size:72 final size:72
Alignment explanation
Indices: 49466552--49466722 Score: 256
Period size: 72 Copynumber: 2.4 Consensus size: 72
49466542 AACAACAATG
* * *
49466552 CTAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTAGATATTGAATTTATGTTCTATTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
49466616 ATTTATG
66 ATTTATA
* * * *
49466623 TTTAATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTT
1 CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
49466688 ATTTATA
66 ATTTATA
49466695 CTAAAT-TAGTTTTATCAATAGTTGTTTA
1 CTAAATCTAGTTTTATCAATAGTTGTTTA
49466723 AATATGATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
71 24 0.27
72 64 0.73
ACGTcount: A:0.26, C:0.06, G:0.13, T:0.55
Consensus pattern (72 bp):
CTAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
ATTTATA
Found at i:49468785 original size:13 final size:13
Alignment explanation
Indices: 49468764--49468803 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
49468754 ACACTCAAAT
49468764 TTCTCAAAAGTAA
1 TTCTCAAAAGTAA
* * *
49468777 TTCTGAAAAGCAC
1 TTCTCAAAAGTAA
49468790 TTCTCAAAAGTAA
1 TTCTCAAAAGTAA
49468803 T
1 T
49468804 AAAGAACTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (13 bp):
TTCTCAAAAGTAA
Found at i:49470619 original size:28 final size:28
Alignment explanation
Indices: 49470587--49470690 Score: 172
Period size: 28 Copynumber: 3.7 Consensus size: 28
49470577 AGTACAACGA
** *
49470587 GGGCCTTAGCCCAATTTAGTAGCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
*
49470615 GGGCCTTAGCCCAATACAGTATCAATGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
49470643 GGGCCTTAGCCCAATACAGTATCAGTGT
1 GGGCCTTAGCCCAATACAGTATCAGTGT
49470671 GGGCCTTAGCCCAATACAGT
1 GGGCCTTAGCCCAATACAGT
49470691 GACATTATAG
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 71 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (28 bp):
GGGCCTTAGCCCAATACAGTATCAGTGT
Found at i:49471150 original size:55 final size:55
Alignment explanation
Indices: 49471064--49471291 Score: 286
Period size: 54 Copynumber: 4.2 Consensus size: 55
49471054 GGTATAAAAA
* *
49471064 TCATTTTA-CCTTATGGGGGTATTTC-AGTCATTTTACCCTTTGGGGGTATTTCGG
1 TCATTTTACCCTTATGGGGGTATTTCGA-TCATTTTACCCTATGGGGGTATTTTGG
* * *
49471118 TCATTTTACCCTTTTGGGGGTATTTCGATCATTTTACCCTATGGGGGAATTTTGA
1 TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
* * * *
49471173 TCATTTTACCC-TATGGGGGAATTTTGATCATTTTACCATAT-GGGGTATTTTTG
1 TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
* * * *
49471226 TCATTTTA-GCTTATGAGGGTATTTCAATCATTTTACACTATGGGGGTATTTTGG
1 TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
*
49471280 TCATCTTACCCT
1 TCATTTTACCCT
49471292 ATACAGGTAT
Statistics
Matches: 147, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
52 1 0.01
53 41 0.28
54 52 0.35
55 52 0.35
56 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (55 bp):
TCATTTTACCCTTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTTGG
Found at i:49471192 original size:27 final size:27
Alignment explanation
Indices: 49471063--49471293 Score: 252
Period size: 27 Copynumber: 8.6 Consensus size: 27
49471053 GGGTATAAAA
* *
49471063 ATCATTTTACCTTATGGGGGTA-TTTC
1 ATCATTTTACCCTATGGGGGTATTTTG
* *
49471089 AGTCATTTTACCCTTTGGGGGTATTTCG
1 A-TCATTTTACCCTATGGGGGTATTTTG
* * *
49471117 GTCATTTTACCCTTTTGGGGGTATTTCG
1 ATCATTTTACCC-TATGGGGGTATTTTG
*
49471145 ATCATTTTACCCTATGGGGGAATTTTG
1 ATCATTTTACCCTATGGGGGTATTTTG
*
49471172 ATCATTTTACCCTATGGGGGAATTTTG
1 ATCATTTTACCCTATGGGGGTATTTTG
*
49471199 ATCATTTTACCATAT-GGGGTATTTTTG
1 ATCATTTTACCCTATGGGGGTA-TTTTG
* * * **
49471226 -TCATTTTAGCTTATGAGGGTATTTCA
1 ATCATTTTACCCTATGGGGGTATTTTG
*
49471252 ATCATTTTACACTATGGGGGTATTTTG
1 ATCATTTTACCCTATGGGGGTATTTTG
* *
49471279 GTCATCTTACCCTAT
1 ATCATTTTACCCTAT
49471294 ACAGGTATTT
Statistics
Matches: 174, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
26 21 0.12
27 125 0.72
28 28 0.16
ACGTcount: A:0.19, C:0.16, G:0.21, T:0.44
Consensus pattern (27 bp):
ATCATTTTACCCTATGGGGGTATTTTG
Found at i:49475581 original size:43 final size:43
Alignment explanation
Indices: 49475519--49475667 Score: 192
Period size: 43 Copynumber: 3.5 Consensus size: 43
49475509 AAAAAACACT
* * *
49475519 GCTAAAGATCATGTTCTTTAGCGGTGCTTTACACACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACACACAAACGCC
* * *
49475562 GCTAAAGAATATGACCTTTAGCGGCGCTTTACCCACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTACACACAAACGCC
* * * *
49475605 GCTAAGGAACATGATCTTTAGTGACGCTTTTA-TCACAAACGCC
1 GCTAAAGAACATGATCTTTAGCGGCGC-TTTACACACAAACGCC
49475648 GCTAAAGAACATGATCTTTA
1 GCTAAAGAACATGATCTTTA
49475668 AAATCCAATT
Statistics
Matches: 92, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
43 88 0.96
44 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGCTTTACACACAAACGCC
Found at i:49477819 original size:31 final size:31
Alignment explanation
Indices: 49477776--49477855 Score: 115
Period size: 31 Copynumber: 2.6 Consensus size: 31
49477766 CATGGTTGAT
* * *
49477776 TTAGCAGTAAAAATCAATAGAATGTACCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
49477807 TTAGCAGCAAAAACCAATAGAAGGTGCCATC
1 TTAGCAGCAAAAACCAATAGAAGGTACCATC
*
49477838 TTAGCTGCAAAAACCAAT
1 TTAGCAGCAAAAACCAAT
49477856 TAAAATCCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (31 bp):
TTAGCAGCAAAAACCAATAGAAGGTACCATC
Found at i:49479039 original size:17 final size:18
Alignment explanation
Indices: 49479017--49479050 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
49479007 TTATTCAAAT
49479017 AATTTAT-TTCAATTTTA
1 AATTTATGTTCAATTTTA
*
49479034 AATTTATGTTCTATTTT
1 AATTTATGTTCAATTTT
49479051 TAAGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (18 bp):
AATTTATGTTCAATTTTA
Found at i:49479256 original size:7 final size:7
Alignment explanation
Indices: 49479244--49479278 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
49479234 ATTCGTAACA
49479244 CTAAACC
1 CTAAACC
49479251 CTAAACC
1 CTAAACC
*
49479258 CTAAATC
1 CTAAACC
*
49479265 CAAAACC
1 CTAAACC
49479272 CTAAACC
1 CTAAACC
49479279 ATGCATTGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.46, C:0.40, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAAACC
Found at i:49479311 original size:21 final size:21
Alignment explanation
Indices: 49479287--49479327 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49479277 CCATGCATTG
* * *
49479287 TAAACCTTAAATCATTAACAC
1 TAAACCGTAAACCATAAACAC
49479308 TAAACCGTAAACCATAAACA
1 TAAACCGTAAACCATAAACA
49479328 TCAAGCCCTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.24, G:0.02, T:0.22
Consensus pattern (21 bp):
TAAACCGTAAACCATAAACAC
Found at i:49479720 original size:42 final size:42
Alignment explanation
Indices: 49479667--49479835 Score: 202
Period size: 41 Copynumber: 4.0 Consensus size: 42
49479657 TGCTAAAGCC
* *
49479667 CCGCTAAAATCCCCTGAGCATTAGCGGCGCTTTC-TAAAAAACG
1 CCGCT-AAAT-CCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
* * * *
49479710 CTGCTAAATCCCAGAGCAATAGCGGTGCTTTCTTCAAAAACA
1 CCGCTAAATCCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
49479752 CCGCT-AATGCCCAGAGCATTAGCGGCGC-TTCTTCAAAAACG
1 CCGCTAAAT-CCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
* * *
49479793 CCGCTAAAGCCTAGAGCATTAGCGGTGC-TTCTTCAAAAACG
1 CCGCTAAATCCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
49479834 CC
1 CC
49479836 ACCCTTGGTC
Statistics
Matches: 110, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
41 72 0.65
42 34 0.31
43 4 0.04
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (42 bp):
CCGCTAAATCCCAGAGCATTAGCGGCGCTTTCTTCAAAAACG
Found at i:49480184 original size:58 final size:57
Alignment explanation
Indices: 49480052--49480186 Score: 166
Period size: 58 Copynumber: 2.3 Consensus size: 57
49480042 GTAAAGTCAT
** *
49480052 ATAATAATTATATTAAGAA-ATTTATTAAATTATATGTTATTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATA-TGGTTAAATTATATATTATTTTATTAAATTATATTTA
* * *
49480110 ATAATAATTATGTTAAAATATGGTTAAATTATTTATTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGGTTAAATTATATATTA-TTTTATTAAATTATATTTA
49480168 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
49480187 TTCATAACAA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
57 16 0.24
58 50 0.75
59 1 0.01
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGGTTAAATTATATATTATTTTATTAAATTATATTTA
Found at i:49480369 original size:46 final size:44
Alignment explanation
Indices: 49480277--49480370 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
49480267 ATTACAACAT
* *
49480277 CATTCTATTCAACCAAACACAAGAATACTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACACAAGAATACTATTACACTTCTATTC
*
49480321 CATTCCATTCAACCAAACA-ATTGAACTACTGATTACAACTT-TATTC
1 CATTCCATTCAACCAAACACA-AGAA-TACT-ATTAC-ACTTCTATTC
49480367 CATT
1 CATT
49480371 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 4 0.09
46 14 0.33
47 3 0.07
ACGTcount: A:0.37, C:0.26, G:0.04, T:0.33
Consensus pattern (44 bp):
CATTCCATTCAACCAAACACAAGAATACTATTACACTTCTATTC
Found at i:49480392 original size:16 final size:16
Alignment explanation
Indices: 49480352--49480406 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
49480342 TGAACTACTG
* * *
49480352 ATTACAACTTTATTCC
1 ATTACAGCTCTATTCA
49480368 ATTACAGCTCTATTCA
1 ATTACAGCTCTATTCA
* * *
49480384 ATTATAGCTCTAATCC
1 ATTACAGCTCTATTCA
49480400 ATTACAG
1 ATTACAG
49480407 TGAACCAATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.33, C:0.24, G:0.05, T:0.38
Consensus pattern (16 bp):
ATTACAGCTCTATTCA
Found at i:49480594 original size:19 final size:20
Alignment explanation
Indices: 49480570--49480607 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49480560 CCTTTCGGTA
49480570 CAAAAC-ATAAAATTTAAGG
1 CAAAACTATAAAATTTAAGG
49480589 CAAAACTATAAAATTTAAG
1 CAAAACTATAAAATTTAAG
49480608 AAGTAAGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.58, C:0.11, G:0.08, T:0.24
Consensus pattern (20 bp):
CAAAACTATAAAATTTAAGG
Found at i:49482005 original size:18 final size:18
Alignment explanation
Indices: 49481982--49482017 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49481972 TGAATTAATG
49481982 ATTTATCATTCATTCATA
1 ATTTATCATTCATTCATA
*
49482000 ATTTATCATTCTTTCATA
1 ATTTATCATTCATTCATA
49482018 TTATCCAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTTATCATTCATTCATA
Found at i:49484688 original size:73 final size:73
Alignment explanation
Indices: 49484607--49484756 Score: 264
Period size: 73 Copynumber: 2.1 Consensus size: 73
49484597 TGGCCTAACA
*
49484607 TGGGTAATGAGATATTGATAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
1 TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
* *
49484672 TGTTTGTT
66 GGTCTGTT
*
49484680 TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACTAAATGGGTGGGAAAAAA
1 TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
49484745 GGTCTGTT
66 GGTCTGTT
49484753 TGGG
1 TGGG
49484757 CCAAATTGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.27
Consensus pattern (73 bp):
TGGGTAATGAGATATTGAGAATTGGAGGGAAATAGAAAGATTACTACAAAATGGGTGGGAAAAAA
GGTCTGTT
Found at i:49494394 original size:26 final size:26
Alignment explanation
Indices: 49494365--49494416 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
49494355 CATAATTTGC
* *
49494365 ATATTTTTATGATAGTGATTTAAATT
1 ATATTTTTATCATAATGATTTAAATT
*
49494391 ATATTTTTCTCATAATGATTTAAATT
1 ATATTTTTATCATAATGATTTAAATT
49494417 TTATAGAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (26 bp):
ATATTTTTATCATAATGATTTAAATT
Found at i:49497476 original size:33 final size:33
Alignment explanation
Indices: 49497439--49497505 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
49497429 TAAAAATATT
*
49497439 TTATTTCACCCACATTGCGGGGGTGACAAAATC
1 TTATTTCACCCACATTGCGAGGGTGACAAAATC
49497472 TTATTTCACCCACATTGCGAGGGTGACAAAATC
1 TTATTTCACCCACATTGCGAGGGTGACAAAATC
49497505 T
1 T
49497506 AGTATATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (33 bp):
TTATTTCACCCACATTGCGAGGGTGACAAAATC
Found at i:49498297 original size:10 final size:10
Alignment explanation
Indices: 49498282--49498362 Score: 87
Period size: 10 Copynumber: 8.3 Consensus size: 10
49498272 AACGGACATT
*
49498282 ATTTTTATTA
1 ATTTTTAATA
*
49498292 ATTTTTATTA
1 ATTTTTAATA
*
49498302 ATTTTAAATA
1 ATTTTTAATA
49498312 A-TTTTAATA
1 ATTTTTAATA
49498321 ATTTATT-ATA
1 ATTT-TTAATA
*
49498331 ATTTTTAACA
1 ATTTTTAATA
*
49498341 ATTTTTTAT-
1 ATTTTTAATA
49498350 ATTTTTAATA
1 ATTTTTAATA
49498360 ATT
1 ATT
49498363 ATTCGAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
9 18 0.30
10 40 0.67
11 2 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTTTTAATA
Found at i:49498306 original size:19 final size:19
Alignment explanation
Indices: 49498284--49498362 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
49498274 CGGACATTAT
*
49498284 TTTTATTAATTTTTATTAA
1 TTTTATTAATTTTTAATAA
*
49498303 TTTTAAATAA-TTTTAATAA
1 TTTT-ATTAATTTTTAATAA
*
49498322 -TTTATTATAATTTTTAACAA
1 TTTTA-T-TAATTTTTAATAA
49498342 TTTT-TTATATTTTTAATAA
1 TTTTATTA-ATTTTTAATAA
49498361 TT
1 TT
49498363 ATTCGAAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
17 1 0.02
18 5 0.10
19 28 0.57
20 12 0.24
21 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTATTAATTTTTAATAA
Found at i:49498332 original size:29 final size:29
Alignment explanation
Indices: 49498284--49498362 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 29
49498274 CGGACATTAT
* *
49498284 TTTTATTAATTTTTATTAATTTTAAATAA
1 TTTTAATAATTTTTATTAATTTTAAACAA
*
49498313 TTTTAATAATTTATTA-TAATTTTTAACAA
1 TTTTAATAATTT-TTATTAATTTTAAACAA
* *
49498342 TTTT-TTATATTTTTAATAATT
1 TTTTAATA-ATTTTTATTAATT
49498363 ATTCGAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
28 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTAATAATTTTTATTAATTTTAAACAA
Found at i:49498337 original size:39 final size:39
Alignment explanation
Indices: 49498282--49498362 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
49498272 AACGGACATT
**
49498282 ATTTTTATTAATTTTTATTAATTTTAAATAATTTTAATA
1 ATTTTTATTAATTTTTAACAATTTTAAATAATTTTAATA
** *
49498321 ATTTATTA-TAATTTTTAACAATTTTTTATATTTTTAATA
1 ATTT-TTATTAATTTTTAACAATTTTAAATAATTTTAATA
49498360 ATT
1 ATT
49498363 ATTCGAAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
39 33 0.92
40 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (39 bp):
ATTTTTATTAATTTTTAACAATTTTAAATAATTTTAATA
Found at i:49498469 original size:10 final size:10
Alignment explanation
Indices: 49498456--49498485 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
49498446 ATTTTATTTA
49498456 TTTTTTAAAT
1 TTTTTTAAAT
49498466 TTTTTTAAAT
1 TTTTTTAAAT
49498476 TTTTTTAAAT
1 TTTTTTAAAT
49498486 ATTGCAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:49502474 original size:63 final size:64
Alignment explanation
Indices: 49502375--49502501 Score: 184
Period size: 63 Copynumber: 2.0 Consensus size: 64
49502365 ATAAATGAAA
* * *
49502375 AAAATGGAGAACTGAGAAATCATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATC
1 AAAATGGAGAAAT-AGAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATC
* * *
49502440 AAAATGGAGAAAT-GAAATCATCTAGAAATTATTATGGTTTTCTCTAAACTGAAAATGAAAAT
1 AAAATGGAGAAATAGAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAAT
49502502 GGAAAACAGA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
63 44 0.79
65 12 0.21
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.29
Consensus pattern (64 bp):
AAAATGGAGAAATAGAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATC
Found at i:49502513 original size:20 final size:20
Alignment explanation
Indices: 49502485--49502523 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
49502475 GGTTTTCTCT
*
49502485 AAACTGAAAATGAAAATGGA
1 AAACAGAAAATGAAAATGGA
49502505 AAACAGAAAATGAAAATGG
1 AAACAGAAAATGAAAATGG
49502524 CCTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.62, C:0.05, G:0.21, T:0.13
Consensus pattern (20 bp):
AAACAGAAAATGAAAATGGA
Found at i:49502516 original size:63 final size:63
Alignment explanation
Indices: 49502390--49502519 Score: 172
Period size: 63 Copynumber: 2.1 Consensus size: 63
49502380 GGAGAACTGA
* * **
49502390 GAAATCATTTGGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATCAAAATGGAGAAAT
1 GAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATCAAAACAGAGAAAT
* * * *
49502453 GAAATCATCTAGAAATTATTATGGTTTTCTCTAAACTGAAAATGAAAATGGAAAACAGA-AAAT
1 GAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAAT-CAAAACAGAGAAAT
49502516 GAAA
1 GAAA
49502520 ATGGCCTAAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 52 0.90
64 6 0.10
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (63 bp):
GAAATCATCTAGAAATGATTATGGTTTTCTCCAAAATGAAAATGAAAATCAAAACAGAGAAAT
Found at i:49512215 original size:20 final size:22
Alignment explanation
Indices: 49512190--49512239 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
49512180 CCCAAATTAG
49512190 TTCCCCAAAATCCC-T-ATTTT
1 TTCCCCAAAATCCCTTAATTTT
49512210 TTCCCC-AAATCCCTTAATTTT
1 TTCCCCAAAATCCCTTAATTTT
49512231 TTCTCCCAA
1 TTC-CCCAA
49512240 CGTCTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 7 0.27
20 7 0.27
21 8 0.31
22 3 0.12
23 1 0.04
ACGTcount: A:0.24, C:0.36, G:0.00, T:0.40
Consensus pattern (22 bp):
TTCCCCAAAATCCCTTAATTTT
Found at i:49523537 original size:193 final size:193
Alignment explanation
Indices: 49523208--49523605 Score: 733
Period size: 193 Copynumber: 2.1 Consensus size: 193
49523198 TCAGGCTATT
49523208 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
1 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
* * *
49523273 TGGCTTGGTCGTGTAACCCAACTCAAAGAGTTACATGGGTGAGGATATGGGATAGGACATGGCTG
66 TGGCTTGGTCATGTAACCCAACTCAAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
49523338 TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
131 TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
*
49523401 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATTGGTGTG
1 ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
*
49523466 TGGCTTGGTCATGTAACCCAACTCCAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
66 TGGCTTGGTCATGTAACCCAACTCAAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
* *
49523531 TGTGTCCCAATTTCGATTGTTACATGGCCTCAAACATGGTCGTGTGTCTTAACCATGTGAAGC
131 TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
49523594 ACACGGCCTAGC
1 ACACGGCCTAGC
49523606 CACACCGCTG
Statistics
Matches: 198, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 198 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (193 bp):
ACACGGCCTAGCACATGGGCGTGTGTGTCTATTTCGAGACTTACACGGCCTGGCACATGGGTGTG
TGGCTTGGTCATGTAACCCAACTCAAAGAGTTACACGGGTGAGGACATGGGATAGGACATGGCTG
TGTGTCCCAATTTCGATTATTACATGGCCTCAAACATGGTCGTGTGTCTCAACCATGTGAAGC
Found at i:49526307 original size:37 final size:37
Alignment explanation
Indices: 49526247--49526322 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
49526237 TATTACGAAA
* *
49526247 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
49526284 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
49526321 TC
1 TC
49526323 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:49526521 original size:47 final size:47
Alignment explanation
Indices: 49526443--49526801 Score: 565
Period size: 47 Copynumber: 7.6 Consensus size: 47
49526433 CCCTTCGGGA
* * * * * *
49526443 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49526490 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
** *
49526537 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49526584 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49526633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49526680 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49526727 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49526774 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
49526802 ATGGGTTTAA
Statistics
Matches: 291, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 229 0.79
49 62 0.21
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49526766 original size:190 final size:190
Alignment explanation
Indices: 49526443--49526801 Score: 619
Period size: 190 Copynumber: 1.9 Consensus size: 190
49526433 CCCTTCGGGA
* * * * *
49526443 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
*
49526508 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
49526573 GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
49526633 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
* *
49526698 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
49526763 GGCCATTAAGCCTTATCACATATATATACACTTTCACAT
131 GGCCATTAAGCCTTATCACATATATATACACTTTCACAT
49526802 ATGGGTTTAA
Statistics
Matches: 158, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
190 158 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACATC
GGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49528233 original size:13 final size:13
Alignment explanation
Indices: 49528215--49528239 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49528205 TACTAAATTT
49528215 TCATGGATTCAAG
1 TCATGGATTCAAG
49528228 TCATGGATTCAA
1 TCATGGATTCAA
49528240 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:49531283 original size:29 final size:29
Alignment explanation
Indices: 49531244--49531322 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
49531234 CTTAATAATC
*
49531244 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
49531274 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
49531303 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49531323 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:49531365 original size:43 final size:43
Alignment explanation
Indices: 49531304--49531492 Score: 369
Period size: 43 Copynumber: 4.4 Consensus size: 43
49531294 TGCATTTCAA
49531304 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49531347 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49531390 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
49531433 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
49531476 GCTCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
49531493 TGAAAACCAA
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
43 145 1.00
ACGTcount: A:0.27, C:0.35, G:0.15, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:49533403 original size:37 final size:37
Alignment explanation
Indices: 49533343--49533418 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
49533333 TATTACGAAA
* *
49533343 TCTTACCCGGACATAATCTCCACACGAAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
*
49533380 TCTTACCCGGACAAAATCCCCACACGTAGTCATCGGG
1 TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
49533417 TC
1 TC
49533419 CTTAGAACTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.26, C:0.34, G:0.18, T:0.21
Consensus pattern (37 bp):
TCTTACCCGGACAAAATCCCCACACGAAGTCATCGGG
Found at i:49533617 original size:47 final size:47
Alignment explanation
Indices: 49533539--49533897 Score: 529
Period size: 47 Copynumber: 7.6 Consensus size: 47
49533529 CCCTTCGGGA
* * * * * **
49533539 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
49533586 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
49533633 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
49533680 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
** *
49533727 CTTATCACATATATATACACTTTCACATTCATCACATCTTCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
49533776 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
49533823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
49533870 CTTATCACATATATATACACTTTCACAT
1 CTTATCAC--ATATATACACTTTCACAT
49533898 ATGGGTTTAA
Statistics
Matches: 287, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 227 0.79
49 60 0.21
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:49533795 original size:143 final size:143
Alignment explanation
Indices: 49533539--49533897 Score: 542
Period size: 143 Copynumber: 2.5 Consensus size: 143
49533529 CCCTTCGGGA
** * * * * ** * *
49533539 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
*
49533602 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
49533667 TCGGCCATTAAGC
131 TCGGCCATTAAGC
*
49533680 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
** * *
49533745 ACTTTCACATTCATCACATCTTCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
*
49533810 TCGGCCATTAGGC
131 TCGGCCATTAAGC
*
49533823 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
49533888 ACTTTCACAT
66 ACTTTCACAT
49533898 ATGGGTTTAA
Statistics
Matches: 197, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
141 44 0.22
143 153 0.78
ACGTcount: A:0.30, C:0.31, G:0.07, T:0.32
Consensus pattern (143 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACACATATACACTTTCACATTCATCACA
TCGGCCATTAAGC
Found at i:49535329 original size:13 final size:13
Alignment explanation
Indices: 49535311--49535335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49535301 TACTAAATTT
49535311 TCATGGATTCAAG
1 TCATGGATTCAAG
49535324 TCATGGATTCAA
1 TCATGGATTCAA
49535336 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:49535709 original size:188 final size:188
Alignment explanation
Indices: 49535392--49535770 Score: 749
Period size: 188 Copynumber: 2.0 Consensus size: 188
49535382 AGGAAAATCA
*
49535392 CATTACAAATCTCAAATTCAAGCAAAGACCATGGCCGAAATGCACATATAACCACATAACAAAAA
1 CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
49535457 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
66 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
49535522 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
131 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
49535580 CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
1 CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
49535645 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
66 TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
49535710 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
131 ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
49535768 CAT
1 CAT
49535771 CCATGGCCAA
Statistics
Matches: 190, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 190 1.00
ACGTcount: A:0.44, C:0.25, G:0.08, T:0.23
Consensus pattern (188 bp):
CATTACAAATCTCAAATTCAAGCAAAGAACATGGCCGAAATGCACATATAACCACATAACAAAAA
TATTGAACCTTTGGTTGCCTAACTAGCTTAACATCCATCAAATTTTAAATCAAGAAACTCACCTC
ATCTATAATCAACCCTCAATACCCTAAAGCATCAAAAATGACATCAAAGAAATACAAC
Found at i:49546612 original size:48 final size:49
Alignment explanation
Indices: 49546553--49546658 Score: 142
Period size: 48 Copynumber: 2.2 Consensus size: 49
49546543 TAATACTTTT
* * * *
49546553 AATATTTAATTTAATTTTATACTTATCTTGAT-AATGTTCTATTAATTC
1 AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
** *
49546601 AATATTAAATTTAATCTTATGTTTATCTTGATAAATATTATATTAATTT
1 AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
49546650 AATATTAAA
1 AATATTAAA
49546659 GTAATTATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
48 28 0.56
49 22 0.44
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.52
Consensus pattern (49 bp):
AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
Found at i:49556210 original size:38 final size:38
Alignment explanation
Indices: 49556127--49556325 Score: 150
Period size: 38 Copynumber: 5.3 Consensus size: 38
49556117 TAGAAACGTG
* * * *
49556127 GTGATATTCGGGCTCCATGCATAACAGGTTTTTTG-TC
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * *
49556164 GATTATATTCGGGCTTCATACCTAACAGGCTTTATGCTA
1 G-TGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * ** *
49556203 GTGATATTTGGGCTCCGTGCCTAGCAGGCTCCGTGCTG
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * ** ** *
49556241 GTGATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCA
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * *
49556279 GTTATATTCGAGC-CCGTGCCTAACAGGCTTTGTGCTG
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
49556316 GTGATATTCG
1 GTGATATTCG
49556326 AGTTTTGTGC
Statistics
Matches: 122, Mismatches: 38, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
37 26 0.21
38 94 0.77
39 2 0.02
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.34
Consensus pattern (38 bp):
GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
Found at i:49556256 original size:76 final size:75
Alignment explanation
Indices: 49556168--49556327 Score: 203
Period size: 76 Copynumber: 2.1 Consensus size: 75
49556158 TTTGTCGATT
* * * * * *
49556168 ATATTCGGGCTTCATACCTAACAGGCTTTATGCTAGTGATATTTGGGCTCCGTGCCTAGCAGGCT
1 ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGC-CCGTGCCTAACAGGCT
49556233 CCGTGCTGGTG
65 CCGTGCTGGTG
** * * *
49556244 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAACAGGCTT
1 ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGCCCGTGCCTAACAGGCTC
*
49556309 TGTGCTGGTG
66 CGTGCTGGTG
49556319 ATATTCGAG
1 ATATTCGAG
49556328 TTTTGTGCTT
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 33 0.46
76 39 0.54
ACGTcount: A:0.19, C:0.22, G:0.26, T:0.33
Consensus pattern (75 bp):
ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGCCCGTGCCTAACAGGCTC
CGTGCTGGTG
Found at i:49556321 original size:75 final size:75
Alignment explanation
Indices: 49556168--49556397 Score: 228
Period size: 75 Copynumber: 3.0 Consensus size: 75
49556158 TTTGTCGATT
* * ** * * * * *
49556168 ATATTCGGGCTTCATACCTAACAGGCTTTATGCTAGTGATATTTGGGCTCCGTGCCTAGCAGGCT
1 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGC-CCGTGCCTAGCAGGCT
*
49556233 CCGTGCTGGTG
65 TCGTGCTGGTG
*
49556244 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAACAGGCTT
1 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAGCAGGCTT
*
49556309 TGTGCTGGTG
66 CGTGCTGGTG
* ** * * * *
49556319 ATATTCGAGTTTTGT-GCTTAGTAGGCTTCGTGCCAGTGTATTATATCAAGCCTTGTGCCTAGCA
1 ATATTCGAGCTTCATAAC-TAGTAGGCTTTGTGCCAGT-TA-TAT-TCGAGCC-CGTGCCTAGCA
49556383 GGCTTCGTGCTGGTG
61 GGCTTCGTGCTGGTG
49556398 TGTTATATCA
Statistics
Matches: 128, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
74 1 0.01
75 54 0.42
76 41 0.32
77 3 0.02
78 6 0.05
79 23 0.18
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (75 bp):
ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAGCAGGCTT
CGTGCTGGTG
Found at i:49556376 original size:41 final size:41
Alignment explanation
Indices: 49556330--49556448 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
49556320 TATTCGAGTT
*
49556330 TTGTGCTTAGTAGGCTTCGTGCCAGTGTATTATATCAAGCC
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
* ** * * *
49556371 TTGTGCCTAGCAGGCTTCGTGCTGGTGTGTTATATCAGGCT
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
** * * * *
49556412 TTAAGCTTAGCAGTCTTCATGCCAATGTATTGTATCA
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCA
49556449 GGTAAGTTGT
Statistics
Matches: 61, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (41 bp):
TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
Found at i:49565160 original size:14 final size:14
Alignment explanation
Indices: 49565141--49565167 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49565131 AATTGTTTTA
49565141 CTTAGTTTTTAATT
1 CTTAGTTTTTAATT
49565155 CTTAGTTTTTAAT
1 CTTAGTTTTTAAT
49565168 CATCTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.63
Consensus pattern (14 bp):
CTTAGTTTTTAATT
Found at i:49571313 original size:22 final size:21
Alignment explanation
Indices: 49571288--49571331 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
49571278 TGATAAACTT
49571288 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
49571310 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
49571331 T
1 T
49571332 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:49589201 original size:17 final size:18
Alignment explanation
Indices: 49589169--49589203 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49589159 GTTCATTATT
*
49589169 ATTTTAGTATTTTTTTTA
1 ATTTTAGTAATTTTTTTA
49589187 ATTTTA-TAATTTTTTTA
1 ATTTTAGTAATTTTTTTA
49589204 GCATTTGCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTAGTAATTTTTTTA
Found at i:49595278 original size:26 final size:26
Alignment explanation
Indices: 49595249--49595329 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
49595239 AGCAAGCTTT
49595249 AATAGATTTAGAGTAAAAGAAATTCA
1 AATAGATTTAGAGTAAAAGAAATTCA
* * * * *
49595275 AATATA-TTAAACT-AAAGCAAGCTT-T
1 AATAGATTTAGAGTAAAAG-AA-ATTCA
49595300 AATAGATTTAGAGTAAAAGAAATTCA
1 AATAGATTTAGAGTAAAAGAAATTCA
49595326 AATA
1 AATA
49595330 TATTAAACTA
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 4 0.10
25 14 0.35
26 18 0.45
27 4 0.10
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (26 bp):
AATAGATTTAGAGTAAAAGAAATTCA
Found at i:49595290 original size:25 final size:25
Alignment explanation
Indices: 49595262--49595341 Score: 74
Period size: 25 Copynumber: 3.2 Consensus size: 25
49595252 AGATTTAGAG
49595262 TAAAAGAAATTCAAATATATTAAAC
1 TAAAAGAAATTCAAATATATTAAAC
* * * * *
49595287 T-AAAGCAAGCTT-TAATAGATTTAGAG
1 TAAAAG-AA-ATTCAAATATA-TTAAAC
49595313 TAAAAGAAATTCAAATATATTAAAC
1 TAAAAGAAATTCAAATATATTAAAC
49595338 TAAA
1 TAAA
49595342 TCTTAAAGTG
Statistics
Matches: 40, Mismatches: 10, Indels: 10
0.67 0.17 0.17
Matches are distributed among these distances:
24 4 0.10
25 18 0.45
26 14 0.35
27 4 0.10
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (25 bp):
TAAAAGAAATTCAAATATATTAAAC
Found at i:49595295 original size:51 final size:51
Alignment explanation
Indices: 49595239--49595341 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
49595229 AAATTAAATG
49595239 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
1 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
49595290 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
1 AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
49595341 A
1 A
49595342 TCTTAAAGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (51 bp):
AGCAAGCTTTAATAGATTTAGAGTAAAAGAAATTCAAATATATTAAACTAA
Found at i:49600453 original size:19 final size:20
Alignment explanation
Indices: 49600429--49600470 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
49600419 TTCAAATAAG
49600429 TTTTCACAACAAACAC-TAT
1 TTTTCACAACAAACACATAT
*
49600448 TTTTCATAACAAACACATAT
1 TTTTCACAACAAACACATAT
49600468 TTT
1 TTT
49600471 CAACTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TTTTCACAACAAACACATAT
Found at i:49604722 original size:27 final size:27
Alignment explanation
Indices: 49604683--49604901 Score: 248
Period size: 27 Copynumber: 8.2 Consensus size: 27
49604673 GCTTGGGCTA
49604683 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* *
49604710 AAAAATTATCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
49604737 TAAAATTATCAAAATACCC-CCACTA-GG
1 TAAAATTACCGAAATACCCTCGA--AGGG
* *
49604764 TAAAATTACAGAAATACCCTC-AAAGG
1 TAAAATTACCGAAATACCCTCGAAGGG
49604790 TAAAATTACCGAAATACCCTCGAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
** *
49604817 TAAAATTACTAAAATACCCTCAAAGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
49604844 TAAAATTACCAAAATACCC-CAAAGGT
1 TAAAATTACCGAAATACCCTCGAAGGG
* * *
49604870 TAAAATTATCGAAATACCCCCGATGGG
1 TAAAATTACCGAAATACCCTCGAAGGG
49604897 TAAAA
1 TAAAA
49604902 CGACTGTAAT
Statistics
Matches: 166, Mismatches: 20, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
25 1 0.01
26 47 0.28
27 116 0.70
28 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.20
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCTCGAAGGG
Done.