Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 113 of 153
Found at i:35504649 original size:3 final size:3
Alignment explanation
Indices: 35504641--35504671 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
35504631 ATTCACCAAG
*
35504641 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
35504672 ATCAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:35504660 original size:15 final size:15
Alignment explanation
Indices: 35504640--35504669 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35504630 GATTCACCAA
35504640 GATAATAATAATAAT
1 GATAATAATAATAAT
35504655 GATAATAATAATAAT
1 GATAATAATAATAAT
35504670 AAATCAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (15 bp):
GATAATAATAATAAT
Found at i:35504900 original size:88 final size:88
Alignment explanation
Indices: 35504749--35507097 Score: 2889
Period size: 88 Copynumber: 26.8 Consensus size: 88
35504739 TTAAGACAAT
** * * * * * * *
35504749 ATCTACTTCGCTATCAATAGAAGAACACAAGATCTACTATTTTCAACCTACTACACTACTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
*
35504814 GGGAGATAAGGTTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * * *
35504837 ATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATTTTAAACCTACTCCACTGTTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * *
35504902 GGGAGACAAGGCTG-GTATATTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
* * * * * *
35504925 ATCTACTTAGCTGCCAATACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTGA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
*
35504990 AGGAGATAAGGCTGAGGTCCTT-G
66 GGGAGATAAGGCTGAGGT-CTTCG
* * * * *
35505013 ATCTACTTCGCTGCCAATTCAAGAAGATAAGATTTACTATTTT-AACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35505077 GGGAGAGAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
*
35505100 ATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35505165 GGGAGAGAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
*
35505188 ATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35505253 GGGAGAGAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
*
35505276 ATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35505341 GGGAGAGAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
*
35505364 ATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
*
35505429 GAGAGATAAGGCTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * * *
35505452 AACTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCACCCTACTACACTACTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
35505517 GGGAGATAAGGCTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * * *
35505540 ATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATTTTAAACCTACTCCACTGTTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * *
35505605 GGGAGACAAGGCTG-GTATATTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
* * * * * *
35505628 ATCTACTTAGCTGCCAATACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTGA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
*
35505693 AGGAGATAAGGCTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * *
35505716 ATCTACTTCGCTGCCAATTCAGGAAGATAAGATTTACTATTTT-AACCTACTCCACTACTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35505780 GGGAGAGAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
35505803 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
*
35505868 GGGAGATAAGGTTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
35505891 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
*
35505956 GGGAGATAAGGTTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * * *
35505979 ATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGTTATTTTTAACTTACTCGACTGCTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * *
35506044 GGGTGACAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
* * *** * *
35506067 ATCTACTTCGCTACTAATACTCAAAGACAAGATCCGCTATTTTCAACCTACTTCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35506132 GGGAGATAAGGCTGCGGTGTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * * * *
35506155 ATCTACTTCGCTGCCAATACTA-GAATAGAAGATCTGCTATTTTTATCCTACTCCACTGTTGTTG
1 ATCTACTTCGCTGCCAATAC-AGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTC
* * * *
35506219 AAGGAGACAAGGC-CAGTATCTTCG
65 AGGGAGATAAGGCTGAG-GTCTTCG
* * *
35506243 ATCTACTTTGCTGCCAGTACAGGAAGACAAGATCTGCTACTTTCAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
**
35506308 AAGAGATAAGGCTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * * *
35506331 ATCTACTTCGCGGCCAATACAGGAAGATAAGATTTGCTATTTTAAACCTACTCCACTACTGCCCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35506396 GGGAGACAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
* ** * * *
35506419 ATCTACTGCGCTATCAATACAGGAAGACAAAATCTGGTATTTT-AACCTACTCCACTGTTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
35506483 GGGAGATAAGGCTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * *
35506506 ATCTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTCCTCCACTGTTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
35506571 GGGAGATAAGGCTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * *
35506594 ATCTATTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
**
35506659 GGGAGATAAGGAAGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * * * ** * * *
35506682 ATTTACTTCGTTGCCAATACAAGAAGACAAGATCTACTATTTTTTACCTATTCCACTACTGCTCC
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * *
35506747 GGGAGACAAGGCTG-GTATCTTCA
66 GGGAGATAAGGCTGAG-GTCTTCG
* * * * *
35506770 ATCTACTTCCCTGCCAATACAGGAAAACAAGATATGTTATTTTCAACCTACTCCACCGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* * *
35506835 AGGTGATAAGGTTGAGGTCTTCG
66 GGGAGATAAGGCTGAGGTCTTCG
* * *
35506858 ATCTACTTCGCTGCCAATACAGGAGGACAAGATCTGTTATTTTTAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
* *
35506923 GGGAGACAAGGCTG-GTATCTTCG
66 GGGAGATAAGGCTGAG-GTCTTCG
* * * * * *
35506946 ATCTACTTCGCTGTCAATACAAGAACACAAGAGT-TGTTATTTTCAACCTACTCCACTACTACTC
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGA-TCTGCTATTTTCAACCTACTCCACTGCTGCTC
35507010 AGGGAGATAAGGCTGA--------
65 AGGGAGATAAGGCTGAGGTCTTCG
* *
35507026 A-CTACTTCGCTGCCAATACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTACTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
35507090 GGGAGATA
66 GGGAGATA
35507098 GGATTTATGG
Statistics
Matches: 1967, Mismatches: 267, Indels: 63
0.86 0.12 0.03
Matches are distributed among these distances:
78 1 0.00
79 63 0.03
80 1 0.00
86 5 0.00
87 227 0.12
88 1659 0.84
89 11 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (88 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCA
GGGAGATAAGGCTGAGGTCTTCG
Found at i:35506126 original size:703 final size:703
Alignment explanation
Indices: 35504749--35507097 Score: 3221
Period size: 703 Copynumber: 3.4 Consensus size: 703
35504739 TTAAGACAAT
** * * * *
35504749 ATCTACTTCGCTATCAATAGAAGAACACAAGATCTACTATTTTCAACCTACTACACTACTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTACACTACTGCTTA
* * *
35504814 GGGAGATAAGGTTGAG-GTCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATT
66 GGGAGACAAGGCTGAGTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATT
* *
35504878 TTAAACCTACTCCACTGTTGCTTAGGGAGACAAGGCTGGTATATTCGATCTACTTAGCTGCCAAT
131 TTAAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGG-ATATTCGATCTACTTAGCTGCCAAT
*
35504943 ACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTGAAGGAGATAAGGCTGAGGT
195 ACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTCAAGGAGATAAGGCTGAGGT
*
35505008 CCTT-GATCTACTTCGCTGCCAATTCAAGAAGATAAGATTTACTATTTTAACCTACTCCACTGCT
260 -CTTCGATCTACTTCGCTGCCAATTCAGGAAGATAAGATTTACTATTTTAACCTACTCCACTGCT
*
35505072 GCTCAGGGAGAGAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGC
324 GCTCAGGGAGAGAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
* *
35505137 TATTTTCAACCTACTCCACTGCTGCTCAGGGAGAGAAGGCTG-GTATCTTCGATCTACTTCGCTG
389 TATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGAG-GTCTTCGATCTACTTCGCTG
* * *
35505201 CCAATACAGGAAAACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGAGAAGGCT
453 CCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGAT
* * *
35505266 G-GTATCTTCGATCTACTTCGCTGCCAATACAGGAAAACAAGATCTGCTATTTTCAACCTACTCC
518 GAG-GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCC
*
35505330 ACTGCTGCTCAGGGAGAGAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAAACAAG
582 ACTGCTGCTCAGGGAGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAAACAAG
35505395 ATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGAGGTCTTCG
647 ATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGAGGTCTTCG
* * *
35505452 AACTACTTTGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCACCCTACTACACTACTGCTTA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTACACTACTGCTTA
* *
35505517 GGGAGATAAGGCTGAG-GTCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATT
66 GGGAGACAAGGCTGAGTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATT
* *
35505581 TTAAACCTACTCCACTGTTGCTTAGGGAGACAAGGCTGGTATATTCGATCTACTTAGCTGCCAAT
131 TTAAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGG-ATATTCGATCTACTTAGCTGCCAAT
*
35505646 ACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTGAAGGAGATAAGGCTGAGGT
195 ACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTCAAGGAGATAAGGCTGAGGT
*
35505711 CTTCGATCTACTTCGCTGCCAATTCAGGAAGATAAGATTTACTATTTTAACCTACTCCACTACTG
260 CTTCGATCTACTTCGCTGCCAATTCAGGAAGATAAGATTTACTATTTTAACCTACTCCACTGCTG
35505776 CTCAGGGAGAGAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
325 CTCAGGGAGAGAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCT
*
35505841 ATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGAGGTCTTCGATCTACTTCGCTGCC
390 ATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTGCC
*
35505906 AATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTTGA
455 AATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGATGA
* * * *
35505971 GGTCTTCGATCTACTTCGCTGCCAATACAGGAAGATAAGATCTGTTATTTTTAACTTACTCGACT
520 GGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACT
* * * * **
35506036 GCTGCTTAGGGTGACAAGGCTGGTATCTTCGATCTACTTCGCTACTAATAC-TCAAAGACAAGAT
585 GCTGCTCAGGGAGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAA-ACAAGAT
* * * * *
35506100 CCGCTATTTTCAACCTACTTCACTGCTGCTCAGGGAGATAAGGCTGCGGTGTTCG
649 CTGCTATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGAGGTCTTCG
* * * * * **
35506155 ATCTACTTCGCTGCCAATACTA-GAATAGAAGATCTGCTATTTTTATCCTACTCCACTGTTG-TT
1 ATCTACTTCGCTGCCAATAC-AGGAAGACAAGATCTGCTATTTTCAACCTACTACACTACTGCTT
* * ** * * *
35506218 GAAGGAGACAAGGC-CAGTATCTTCGATCTACTTTGCTGCCAGTACAGGAAGACAAGATCTGCTA
65 -AGGGAGACAAGGCTGAGTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTA
* * ** * * * * *
35506282 CTTTCAACCTACTCCACTGCTGCTCAAAGAGATAAGGCTGAGGTCTTCGATCTACTTCGCGGCCA
129 TTTTAAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTG-GATATTCGATCTACTTAGCTGCCA
* * * * * * *
35506347 ATACAGGAAGATAAGATTTGCTATTTTAAACCTACTCCACTACTGCCCAGGGAGACAAGGCTG-G
193 ATACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTCAAGGAGATAAGGCTGAG
* * ** * * * * **
35506411 TATCTTCGATCTACTGCGCTATCAATACAGGAAGACAAAATCTGGTATTTTAACCTACTCCACTG
258 -GTCTTCGATCTACTTCGCTGCCAATTCAGGAAGATAAGATTTACTATTTTAACCTACTCCACTG
* * * *
35506476 TTGCTCAGGGAGATAAGGCTGAG-GTCTTCGATCTATTTCGCTGCCAATACAGGAAGACAAGATC
322 CTGCTCAGGGAGAGAAGGCTG-GTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATC
* * * *
35506540 TGCTATTTTTAACCTCCTCCACTGTTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTATTTCGC
386 TGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGC
* *
35506605 TGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTACTTAGGGAGATAAGG
451 TGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
* * * * * * *
35506670 AAGAGGTCTTCGATTTACTTCGTTGCCAATACAAGAAGACAAGATCTACTATTTTTTACCTATTC
516 ATGAGGTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTC
* * * *
35506735 CACTACTGCTCCGGGAGACAAGGCTGGTATCTTCAATCTACTTCCCTGCCAATACAGGAAAACAA
581 CACTGCTGCTCAGGGAGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAAACAA
* * * * *
35506800 GATATGTTATTTTCAACCTACTCCACCGCTGCTCA-AGGTGATAAGGTTGAGGTCTTCG
646 GATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGA-GAGATAAGGCTGAGGTCTTCG
* * * * * *
35506858 ATCTACTTCGCTGCCAATACAGGAGGACAAGATCTGTTATTTTTAACCTACTCCACTGCTGCTCA
1 ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTACACTACTGCTTA
* * *
35506923 GGGAGACAAGGCTG-GTATCTTCGATCTACTTCGCTGTCAATACAAGAACACAAGAGT-TGTTAT
66 GGGAGACAAGGCTGAGTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGA-TCTGTTAT
* * * * *
35506986 TTTCAACCTACTCCACTACTACTCAGGGAGATAAGGCT-G--A----A-CTACTTCGCTGCCAAT
130 TTTAAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGATATTCGATCTACTTAGCTGCCAAT
* * * * *
35507043 ACAGGAAGACAAGATCTACTATTTTCAACCTACTCCACTACTGCTCAGGGAGATA
195 ACAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTCAAGGAGATA
35507098 GGATTTATGG
Statistics
Matches: 1473, Mismatches: 157, Indels: 41
0.88 0.09 0.02
Matches are distributed among these distances:
694 64 0.04
695 1 0.00
701 1 0.00
702 12 0.01
703 1385 0.94
704 10 0.01
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (703 bp):
ATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTACACTACTGCTTA
GGGAGACAAGGCTGAGTATCTTCGATCTACTTCACTGCCAATACAAGAAGACAAGATCTGTTATT
TTAAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTGGATATTCGATCTACTTAGCTGCCAATA
CAGGAAGACAAGATTTGCTACTTTCAACCTACTACACTACTGCTCAAGGAGATAAGGCTGAGGTC
TTCGATCTACTTCGCTGCCAATTCAGGAAGATAAGATTTACTATTTTAACCTACTCCACTGCTGC
TCAGGGAGAGAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTA
TTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTGAGGTCTTCGATCTACTTCGCTGCCA
ATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGATGAG
GTCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGCTATTTTTAACCTACTCCACTG
CTGCTCAGGGAGACAAGGCTGGTATCTTCGATCTACTTCGCTGCCAATACAGGAAAACAAGATCT
GCTATTTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGAGGTCTTCG
Found at i:35507079 original size:79 final size:79
Alignment explanation
Indices: 35506948--35507097 Score: 230
Period size: 79 Copynumber: 1.9 Consensus size: 79
35506938 TATCTTCGAT
* **
35506948 CTACTTCGCTGTCAATACAAGAACACAAGAGTTGTTATTTTCAACCTACTCCACTACTACTCAGG
1 CTACTTCGCTGCCAATACAAGAACACAAGAGTTACTATTTTCAACCTACTCCACTACTACTCAGG
35507013 GAGATAAGGCTGAA
66 GAGATAAGGCTGAA
* * *
35507027 CTACTTCGCTGCCAATACAGGAAGACAAGA-TCTACTATTTTCAACCTACTCCACTACTGCTCAG
1 CTACTTCGCTGCCAATACAAGAACACAAGAGT-TACTATTTTCAACCTACTCCACTACTACTCAG
35507091 GGAGATA
65 GGAGATA
35507098 GGATTTATGG
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
78 1 0.02
79 63 0.98
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (79 bp):
CTACTTCGCTGCCAATACAAGAACACAAGAGTTACTATTTTCAACCTACTCCACTACTACTCAGG
GAGATAAGGCTGAA
Found at i:35508285 original size:21 final size:21
Alignment explanation
Indices: 35508251--35508313 Score: 92
Period size: 20 Copynumber: 3.0 Consensus size: 21
35508241 TTAGCCTCTC
*
35508251 CATTTTTACTTTTTTCATTTTT
1 CATTTTT-CATTTTTCATTTTT
35508273 CATTTTTCATTTTTCATTTTT
1 CATTTTTCATTTTTCATTTTT
*
35508294 CA-TTTTCATTTTTTATTTTT
1 CATTTTTCATTTTTCATTTTT
35508314 TTTTACGACT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
20 17 0.44
21 15 0.38
22 7 0.18
ACGTcount: A:0.14, C:0.13, G:0.00, T:0.73
Consensus pattern (21 bp):
CATTTTTCATTTTTCATTTTT
Found at i:35508314 original size:7 final size:7
Alignment explanation
Indices: 35508251--35508313 Score: 92
Period size: 7 Copynumber: 9.0 Consensus size: 7
35508241 TTAGCCTCTC
35508251 CATTTTT
1 CATTTTT
*
35508258 ACTTTTTT
1 -CATTTTT
35508266 CATTTTT
1 CATTTTT
35508273 CATTTTT
1 CATTTTT
35508280 CATTTTT
1 CATTTTT
35508287 CATTTTT
1 CATTTTT
35508294 CA-TTTT
1 CATTTTT
35508300 CATTTTT
1 CATTTTT
*
35508307 TATTTTT
1 CATTTTT
35508314 TTTTACGACT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
6 6 0.12
7 39 0.76
8 6 0.12
ACGTcount: A:0.14, C:0.13, G:0.00, T:0.73
Consensus pattern (7 bp):
CATTTTT
Found at i:35509300 original size:17 final size:17
Alignment explanation
Indices: 35509267--35509309 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
35509257 TCATTTTTCA
* *
35509267 ATTTTGATTTGATTTTT
1 ATTTTGATTTTAATTTT
35509284 ATTTTGATTTTAATTTT
1 ATTTTGATTTTAATTTT
35509301 -TTTT-ATTTT
1 ATTTTGATTTT
35509310 TTTGTTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 5 0.21
16 4 0.17
17 15 0.62
ACGTcount: A:0.19, C:0.00, G:0.07, T:0.74
Consensus pattern (17 bp):
ATTTTGATTTTAATTTT
Found at i:35510834 original size:9 final size:9
Alignment explanation
Indices: 35510817--35510850 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
35510807 TCTACCTGCA
*
35510817 TTATCCCCC
1 TTATTCCCC
35510826 TTATTCCCC
1 TTATTCCCC
35510835 TTATTCCCC
1 TTATTCCCC
*
35510844 TTCTTCC
1 TTATTCC
35510851 TTGGGGCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.47, G:0.00, T:0.44
Consensus pattern (9 bp):
TTATTCCCC
Found at i:35513361 original size:3 final size:3
Alignment explanation
Indices: 35513353--35513401 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
35513343 GTATAAAAAT
* * *
35513353 ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA ATA GTA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
35513401 A
1 A
35513402 ATTAATTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:35513440 original size:17 final size:16
Alignment explanation
Indices: 35513391--35513441 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
35513381 TAATAGTAAT
*
35513391 AATAAC-AATAAATTA
1 AATAACAAAAAAATTA
* * *
35513406 ATTAATAAAAAAACTA
1 AATAACAAAAAAATTA
35513422 AATAACAAAAAAGATTA
1 AATAACAAAAAA-ATTA
35513439 AAT
1 AAT
35513442 CGCAATCAAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
15 4 0.15
16 17 0.63
17 6 0.22
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (16 bp):
AATAACAAAAAAATTA
Found at i:35514531 original size:23 final size:26
Alignment explanation
Indices: 35514478--35514532 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
35514468 TCTTCAGAAA
*
35514478 AAAATAATAACACGTAGAAATAATTT
1 AAAATAATAACACATAGAAATAATTT
* *
35514504 GAAATAA-AACACATGGAAA-AA-TT
1 AAAATAATAACACATAGAAATAATTT
35514527 AAAATA
1 AAAATA
35514533 TTATTATTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 7 0.28
24 2 0.08
25 10 0.40
26 6 0.24
ACGTcount: A:0.62, C:0.07, G:0.09, T:0.22
Consensus pattern (26 bp):
AAAATAATAACACATAGAAATAATTT
Found at i:35514984 original size:8 final size:8
Alignment explanation
Indices: 35514963--35514997 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
35514953 TGGGATTTAA
35514963 GGTTTAGG
1 GGTTTAGG
*
35514971 GG-TTAGT
1 GGTTTAGG
35514978 GGTTTAGG
1 GGTTTAGG
35514986 GGTTTAGG
1 GGTTTAGG
35514994 GGTT
1 GGTT
35514998 AGATGTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.11, C:0.00, G:0.49, T:0.40
Consensus pattern (8 bp):
GGTTTAGG
Found at i:35514990 original size:23 final size:22
Alignment explanation
Indices: 35514963--35515011 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
35514953 TGGGATTTAA
35514963 GGTTTAGGGGTTAG-TGGTTTAGG
1 GGTTTAGGGGTTAGAT-G-TTAGG
35514986 GGTTTAGGGGTTAGATGTTAGG
1 GGTTTAGGGGTTAGATGTTAGG
35515008 GGTT
1 GGTT
35515012 AAAAGTTAGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 9 0.36
23 15 0.60
24 1 0.04
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (22 bp):
GGTTTAGGGGTTAGATGTTAGG
Found at i:35514999 original size:15 final size:15
Alignment explanation
Indices: 35514963--35515011 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
35514953 TGGGATTTAA
*
35514963 GGTTTAGGGGTTAGT
1 GGTTTAGGGGTTAGG
35514978 GGTTTAGGGGTTTAGG
1 GGTTTAGGGG-TTAGG
**
35514994 GG-TTAGATGTTAGG
1 GGTTTAGGGGTTAGG
35515008 GGTT
1 GGTT
35515012 AAAAGTTAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.24
15 16 0.55
16 6 0.21
ACGTcount: A:0.14, C:0.00, G:0.47, T:0.39
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:35515008 original size:14 final size:14
Alignment explanation
Indices: 35514989--35515022 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35514979 GTTTAGGGGT
* *
35514989 TTAGGGGTTAGATG
1 TTAGGGGTTAAAAG
35515003 TTAGGGGTTAAAAG
1 TTAGGGGTTAAAAG
35515017 TTAGGG
1 TTAGGG
35515023 ATTTAAGGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.32
Consensus pattern (14 bp):
TTAGGGGTTAAAAG
Found at i:35515360 original size:146 final size:146
Alignment explanation
Indices: 35515159--35515677 Score: 984
Period size: 146 Copynumber: 3.5 Consensus size: 146
35515149 CGCTAAAGGT
* * *
35515159 AATAAATCAACTTATAAAAAAAATAAAAAAATTTTAGAATAGCAAAATGGCGTCGTTTTGTTCAA
1 AATAAATCAATTTAT-AAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAA
35515224 AATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCT
65 AATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCT
35515289 ATAAAAACGCCGCAAAA
130 ATAAAAACGCCGCAAAA
*
35515306 AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGTGTCGTTTTGTTCAAA
1 AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
35515371 ATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCTA
66 ATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCTA
35515436 TAAAAACGCCGCAAAA
131 TAAAAACGCCGCAAAA
*
35515452 AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGTGTCGTTTTGTTCAAA
1 AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
35515517 ATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCTA
66 ATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCTA
35515582 TAAAAACGCCGCAAAA
131 TAAAAACGCCGCAAAA
35515598 AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
1 AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
35515663 ATGAAAAAATTTTGC
66 ATGAAAAAATTTTGC
35515678 GCATAAGCAA
Statistics
Matches: 367, Mismatches: 5, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
146 353 0.96
147 14 0.04
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (146 bp):
AATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCGTCGTTTTGTTCAAA
ATGAAAAAATTTTGCAGCGCTTTATAAGAAGCGCCGCTAAAGGTAAGCAATAGCAGCGTTTTCTA
TAAAAACGCCGCAAAA
Found at i:35515760 original size:102 final size:103
Alignment explanation
Indices: 35515583--35515879 Score: 409
Period size: 109 Copynumber: 2.8 Consensus size: 103
35515573 CGTTTTCTAT
35515583 AAAAACGCCGCAAAAAATAAATCAATTTATAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGC
1 AAAAACGCCGCAAAAAATAAATCAATTTA-AAAAAAATAAAAAAAATTTAGAATAGCAAAACGGC
*
35515648 GTCGTTTTGTTCAAAATGAAAAAATTTTGC-GC-ATAAGC
65 GTCGTTTTGTTCAAAATGAAAAAATTTTGCGGCTATAA-A
* *
35515686 AAAAACGCTGCAAAAAATAAATCAATTTAAAAAAAATAAAAAAATTTTAGAATAGCAAAACGGCG
1 AAAAACGCCGCAAAAAATAAATCAATTTAAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCG
35515751 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCGTTTTTATAAA
66 TCGTTTTGTTCAAAATGAAAAAATTTTGCGGC-----TATAAA
* * * * * * *
35515794 AATAAACGCCACAAAAAGTAAATCAATTTATAAAAAATAAAAAAAAATTAGCATAGCAAAATGGT
1 AA-AAACGCCGCAAAAAATAAATCAATTTAAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGC
*
35515859 GTCATTTTGTTCAAAATGAAA
65 GTCGTTTTGTTCAAAATGAAA
35515880 TAGCGGCATT
Statistics
Matches: 173, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
102 64 0.37
103 30 0.17
108 2 0.01
109 77 0.45
ACGTcount: A:0.52, C:0.11, G:0.12, T:0.25
Consensus pattern (103 bp):
AAAAACGCCGCAAAAAATAAATCAATTTAAAAAAAATAAAAAAAATTTAGAATAGCAAAACGGCG
TCGTTTTGTTCAAAATGAAAAAATTTTGCGGCTATAAA
Found at i:35516730 original size:30 final size:30
Alignment explanation
Indices: 35516696--35516756 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
35516686 TGATGCATCT
35516696 GCTGAACAGGTTCGAACCAAGGTGACGGGA
1 GCTGAACAGGTTCGAACCAAGGTGACGGGA
* *
35516726 GCTGAACCGGTTCGAACCAAGGTGGCGGGA
1 GCTGAACAGGTTCGAACCAAGGTGACGGGA
35516756 G
1 G
35516757 TGGCCCGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.39, T:0.13
Consensus pattern (30 bp):
GCTGAACAGGTTCGAACCAAGGTGACGGGA
Found at i:35517506 original size:31 final size:31
Alignment explanation
Indices: 35517471--35517530 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
35517461 GCCGATGCGG
*
35517471 AGGCATTGTTAGGCTTAGCCAATACATTGTT
1 AGGCATTGTTAGGCTTAGCCAATAAATTGTT
35517502 AGGCATTGTTAGGCTTAGCCAATAAATTG
1 AGGCATTGTTAGGCTTAGCCAATAAATTG
35517531 GGGCAGCTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (31 bp):
AGGCATTGTTAGGCTTAGCCAATAAATTGTT
Found at i:35519270 original size:21 final size:21
Alignment explanation
Indices: 35519227--35519273 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
35519217 TTAAATTTGA
* *
35519227 AATTTTACAATTTAATCATCT
1 AATTTTACAATATAATCAACT
* *
35519248 AATTTTACAATATCATTAACT
1 AATTTTACAATATAATCAACT
35519269 AATTT
1 AATTT
35519274 AAATAGTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (21 bp):
AATTTTACAATATAATCAACT
Found at i:35519995 original size:8 final size:8
Alignment explanation
Indices: 35519982--35520065 Score: 59
Period size: 8 Copynumber: 10.5 Consensus size: 8
35519972 GTCATACCAT
35519982 ATAACTTA
1 ATAACTTA
35519990 ATAACTTA
1 ATAACTTA
*
35519998 TATAA-TTC
1 -ATAACTTA
*
35520006 A-CA-T-A
1 ATAACTTA
35520011 ATAACTTA
1 ATAACTTA
35520019 CATAACTTA
1 -ATAACTTA
35520028 ATAACTTA
1 ATAACTTA
* *
35520036 ACAACTTGC
1 ATAACTT-A
*
35520045 ATAATTTA
1 ATAACTTA
35520053 CATAACTTA
1 -ATAACTTA
35520062 ATAA
1 ATAA
35520066 TTTTAAAATA
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
5 1 0.02
6 3 0.05
7 2 0.03
8 29 0.49
9 24 0.41
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (8 bp):
ATAACTTA
Found at i:35520002 original size:17 final size:17
Alignment explanation
Indices: 35519982--35520065 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 17
35519972 GTCATACCAT
*
35519982 ATAACTTAATAACTTAT
1 ATAACTTAATAACTTAC
35519999 ATAA-TTCACATAATAACTTAC
1 ATAACTT-A-AT---AACTTAC
35520020 ATAACTTAATAACTTA-
1 ATAACTTAATAACTTAC
* * *
35520036 ACAACTTGCATAATTTAC
1 ATAACTT-AATAACTTAC
35520054 ATAACTTAATAA
1 ATAACTTAATAA
35520066 TTTTAAAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
16 8 0.15
17 22 0.42
18 8 0.15
20 2 0.04
21 11 0.21
22 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.36
Consensus pattern (17 bp):
ATAACTTAATAACTTAC
Found at i:35520032 original size:46 final size:46
Alignment explanation
Indices: 35519886--35520057 Score: 125
Period size: 46 Copynumber: 3.6 Consensus size: 46
35519876 AAAAATGTCC
* * *
35519886 AACTTAATAACTTATATAATTCATATAATAACTTACATTGAACAACTTAAC
1 AACTTAATAACTTACATAATTCACATAATAACTTACA-T----AACTTAAT
* * * * * *
35519937 AACTCACATAATTTACATAATACATATATATATA-TGT-CATACCAT-AT
1 AACTTA-ATAACTTACATAATTCACATA-ATA-ACT-TACATAACTTAAT
*
35519984 AACTTAATAACTTATATAATTCACATAATAACTTACATAACTTAAT
1 AACTTAATAACTTACATAATTCACATAATAACTTACATAACTTAAT
* * *
35520030 AACTTAACAACTTGCATAATTTACATAA
1 AACTTAATAACTTACATAATTCACATAA
35520058 CTTAATAATT
Statistics
Matches: 96, Mismatches: 18, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
44 2 0.02
45 10 0.10
46 43 0.45
47 6 0.06
48 3 0.03
51 5 0.05
52 19 0.20
53 6 0.06
54 2 0.02
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (46 bp):
AACTTAATAACTTACATAATTCACATAATAACTTACATAACTTAAT
Found at i:35520068 original size:17 final size:17
Alignment explanation
Indices: 35520009--35520065 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
35519999 ATAATTCACA
35520009 TAATAACTTACATAACT
1 TAATAACTTACATAACT
*
35520026 TAATAACTTA-ACAACT
1 TAATAACTTACATAACT
* *
35520042 TGCATAATTTACATAACT
1 T-AATAACTTACATAACT
35520060 TAATAA
1 TAATAA
35520066 TTTTAAAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 6 0.18
17 21 0.64
18 6 0.18
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (17 bp):
TAATAACTTACATAACT
Found at i:35520773 original size:43 final size:43
Alignment explanation
Indices: 35520713--35520981 Score: 324
Period size: 43 Copynumber: 6.3 Consensus size: 43
35520703 CACCAAACAA
** *
35520713 TAGCGGCGTTTGTGGGAAAAGCGTTGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
35520756 TAACGGCGTTTGTGGGAAAAGCGCTGCTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * * * *
35520799 TAGTGGCATTTTTGGGAAAAGCGCTGTTAAAGAACATGGCCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * * ** **
35520842 TAGTGGCGTTTGCGGAAAAAGCGCCGCTAAAGGCCATGTTCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
* *
35520885 TAGCGGCGTTT-TCTGGAAAAGCGCCGCTAAAGAATATGGCCTT
1 TAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGAACATGGCCTT
* * *
35520928 TAGCGGCATTTGCGGGAAAAGCGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
35520971 TAGCGGCGTTT
1 TAGCGGCGTTT
35520982 ATTTCTATAA
Statistics
Matches: 191, Mismatches: 33, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 191 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGAACATGGCCTT
Found at i:35523387 original size:17 final size:17
Alignment explanation
Indices: 35523360--35523393 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
35523350 CTAATGAATT
35523360 AATTAGTAATTATATTGA
1 AATTAGTAATTA-ATTGA
35523378 AATT-GTAATTAATTGA
1 AATTAGTAATTAATTGA
35523394 CACAATACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 7 0.44
18 4 0.25
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
AATTAGTAATTAATTGA
Found at i:35526243 original size:32 final size:32
Alignment explanation
Indices: 35526207--35526270 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35526197 ACAACCTCTG
35526207 CCATGATGTATCTACTTAACCCTCAATACGTA
1 CCATGATGTATCTACTTAACCCTCAATACGTA
35526239 CCATGATGTATCTACTTAACCCTCAATACGTA
1 CCATGATGTATCTACTTAACCCTCAATACGTA
35526271 TGGCCATACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.31
Consensus pattern (32 bp):
CCATGATGTATCTACTTAACCCTCAATACGTA
Found at i:35531500 original size:98 final size:98
Alignment explanation
Indices: 35531328--35531516 Score: 279
Period size: 98 Copynumber: 1.9 Consensus size: 98
35531318 GAGATTTTCA
* ** * *
35531328 TTAATAAATTGTATGCAATTTTTTGGTAATTGTTCGTAAAATCTCATTACTCGGGTCCGGTGATC
1 TTAATAAATTGTATGCAATTGTTTGGTAATTGTTCGTAAAATCTCATTACTCAAGTCCGATGACC
**
35531393 AGATTGGGTAAGGGGTGTTACATTTATAGATAT
66 AGACCGGGTAAGGGGTGTTACATTTATAGATAT
* *
35531426 TTAATAAATTGTATGCAATTGTTTGGTAATTGTTCGTAACATCTCATTACTCAAGTCTGATGACC
1 TTAATAAATTGTATGCAATTGTTTGGTAATTGTTCGTAAAATCTCATTACTCAAGTCCGATGACC
* *
35531491 GGACCGGGTAAGGGGTGTTGCATTTA
66 AGACCGGGTAAGGGGTGTTACATTTA
35531517 GAACATGCAT
Statistics
Matches: 80, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
98 80 1.00
ACGTcount: A:0.27, C:0.12, G:0.23, T:0.38
Consensus pattern (98 bp):
TTAATAAATTGTATGCAATTGTTTGGTAATTGTTCGTAAAATCTCATTACTCAAGTCCGATGACC
AGACCGGGTAAGGGGTGTTACATTTATAGATAT
Found at i:35542407 original size:19 final size:19
Alignment explanation
Indices: 35542385--35542435 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
35542375 AATTTTAAAA
*
35542385 ATATATTTTTTATAATTTT
1 ATATATTTTTAATAATTTT
35542404 ATAT-TTTCTTAATAATTTT
1 ATATATTT-TTAATAATTTT
35542423 A-ATTATTTTTAAT
1 ATA-TATTTTTAAT
35542436 TTTAAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 4 0.14
19 21 0.75
20 3 0.11
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (19 bp):
ATATATTTTTAATAATTTT
Found at i:35545911 original size:21 final size:21
Alignment explanation
Indices: 35545885--35545945 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
35545875 ATTTAACTCT
*
35545885 TATGAGTTTCCGTTCAGCTCC
1 TATGAGTTTCTGTTCAGCTCC
* *
35545906 TATGAGTTTCTGTTCAACTCT
1 TATGAGTTTCTGTTCAGCTCC
*
35545927 TAAGAGTTTCTGTTCAGCT
1 TATGAGTTTCTGTTCAGCT
35545946 TACGAGCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.43
Consensus pattern (21 bp):
TATGAGTTTCTGTTCAGCTCC
Found at i:35548228 original size:9 final size:9
Alignment explanation
Indices: 35548214--35548262 Score: 52
Period size: 8 Copynumber: 5.9 Consensus size: 9
35548204 ATAAATTCCA
35548214 AAAAAATAT
1 AAAAAATAT
35548223 AAAAAAT-T
1 AAAAAATAT
*
35548231 -CAAAATAT
1 AAAAAATAT
*
35548239 AAAAAA-CT
1 AAAAAATAT
35548247 AAAAAATA-
1 AAAAAATAT
35548255 AAAAAATA
1 AAAAAATA
35548263 ACAATCCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
7 5 0.15
8 17 0.52
9 11 0.33
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (9 bp):
AAAAAATAT
Found at i:35548260 original size:16 final size:16
Alignment explanation
Indices: 35548214--35548263 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
35548204 ATAAATTCCA
35548214 AAAAAATATAAAAAAT
1 AAAAAATATAAAAAAT
**
35548230 TCAAAATATAAAAAACT
1 AAAAAATATAAAAAA-T
35548247 AAAAAATA-AAAAAAT
1 AAAAAATATAAAAAAT
35548262 AA
1 AA
35548264 CAATCCAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 3 0.10
16 19 0.66
17 7 0.24
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (16 bp):
AAAAAATATAAAAAAT
Found at i:35554085 original size:9 final size:9
Alignment explanation
Indices: 35554073--35554127 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
35554063 ATTTTTTTAT
*
35554073 AATTTTAAA
1 AATTATAAA
35554082 AATTATAAA
1 AATTATAAA
35554091 AA-T-T-AA
1 AATTATAAA
35554097 AATTATTAAA
1 AATTA-TAAA
*
35554107 AAGGTATAAA
1 AA-TTATAAA
35554117 AATTATAAA
1 AATTATAAA
35554126 AA
1 AA
35554128 ATATTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
6 4 0.11
7 2 0.05
8 1 0.03
9 19 0.50
10 10 0.26
11 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:35554114 original size:26 final size:24
Alignment explanation
Indices: 35554073--35554121 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
35554063 ATTTTTTTAT
*
35554073 AATTTTAAAAATTATAAAAATTAA
1 AATTTTAAAAAGTATAAAAATTAA
35554097 AATTATTAAAAAGGTATAAAAATTA
1 AATT-TTAAAAA-GTATAAAAATTA
35554122 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (24 bp):
AATTTTAAAAAGTATAAAAATTAA
Found at i:35554276 original size:7 final size:7
Alignment explanation
Indices: 35554260--35554309 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
35554250 GATAAAAAAT
35554260 AAATTCAA
1 AAATT-AA
35554268 AAATTAA
1 AAATTAA
*
35554275 AAGGATGAA
1 AA--ATTAA
35554284 AAATT--
1 AAATTAA
35554289 AAATTAA
1 AAATTAA
35554296 AAATTAA
1 AAATTAA
35554303 AAATTAA
1 AAATTAA
35554310 TAACTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
5 5 0.14
7 20 0.56
8 5 0.14
9 6 0.17
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (7 bp):
AAATTAA
Found at i:35554294 original size:21 final size:19
Alignment explanation
Indices: 35554268--35554309 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
35554258 ATAAATTCAA
35554268 AAATTAAAAGGATGAAAAATT
1 AAATTAAAA--ATGAAAAATT
*
35554289 AAATTAAAAATTAAAAATT
1 AAATTAAAAATGAAAAATT
35554308 AA
1 AA
35554310 TAACTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 11 0.55
21 9 0.45
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (19 bp):
AAATTAAAAATGAAAAATT
Found at i:35555805 original size:24 final size:24
Alignment explanation
Indices: 35555773--35555821 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35555763 GAATCCTTCC
35555773 ATTCTGTGGTAGGTAAGAAACACA
1 ATTCTGTGGTAGGTAAGAAACACA
35555797 ATTCTGTGGTAGGTAAGAAACACA
1 ATTCTGTGGTAGGTAAGAAACACA
35555821 A
1 A
35555822 ATTAACCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (24 bp):
ATTCTGTGGTAGGTAAGAAACACA
Found at i:35558879 original size:65 final size:65
Alignment explanation
Indices: 35558771--35558915 Score: 211
Period size: 65 Copynumber: 2.2 Consensus size: 65
35558761 ATACATGAAT
* * * *
35558771 CTCCAACACACTAAATGACTCATAGAGTTGAACATATCCCAAAAGTGAAGCAT-AAAGCTAACAC
1 CTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAATAAAGC-TCAAAGCTAACAC
35558835 C
65 C
* * *
35558836 CTCTAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAATAAAGCTCAAAGTTAACACT
1 CTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAATAAAGCTCAAAGCTAACACC
35558901 CTCCAACACACCAAA
1 CTCCAACACACCAAA
35558916 CATGTCCCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 1 0.01
65 70 0.99
ACGTcount: A:0.44, C:0.28, G:0.10, T:0.18
Consensus pattern (65 bp):
CTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAATAAAGCTCAAAGCTAACACC
Found at i:35562461 original size:35 final size:36
Alignment explanation
Indices: 35562422--35562505 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
35562412 TTATCAACTG
*
35562422 GTCCTTCGA-GGTGACACCACGTAAACGGTATACAA
1 GTCCTTCGAGGGCGACACCACGTAAACGGTATACAA
* * * *
35562457 GTCC-TCTAGGGCGACACCATGTAAATGGTATACAG
1 GTCCTTCGAGGGCGACACCACGTAAACGGTATACAA
35562492 GTCCTTCG-GGGCGA
1 GTCCTTCGAGGGCGA
35562506 TGCCGTGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 3 0.07
35 36 0.88
36 2 0.05
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.21
Consensus pattern (36 bp):
GTCCTTCGAGGGCGACACCACGTAAACGGTATACAA
Found at i:35562566 original size:35 final size:35
Alignment explanation
Indices: 35562465--35562568 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 35
35562455 AAGTCCTCTA
* *
35562465 GGGCGACACCATGTAAATGGTATACAGGTCCTTCG
1 GGGCGACACCATGTAAATGGTATATAGGTCTTTCG
** * ** *
35562500 GGGCGATGCCGTGTAAACAGTATTTAGGTCTTTCG
1 GGGCGACACCATGTAAATGGTATATAGGTCTTTCG
** *
35562535 GGTTGACACCATGTAAATGGTATATATGTCTTTC
1 GGGCGACACCATGTAAATGGTATATAGGTCTTTC
35562569 AAATGACACA
Statistics
Matches: 52, Mismatches: 17, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (35 bp):
GGGCGACACCATGTAAATGGTATATAGGTCTTTCG
Found at i:35563960 original size:27 final size:27
Alignment explanation
Indices: 35563919--35563972 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
35563909 CTAACGAGAA
**
35563919 GGTCAAAATTGAACGAAGGGATAACTT
1 GGTCAAAATCAAACGAAGGGATAACTT
35563946 GGTCAAAATCAAACGAAGGGATAACTT
1 GGTCAAAATCAAACGAAGGGATAACTT
35563973 AAGGATACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.13, G:0.24, T:0.20
Consensus pattern (27 bp):
GGTCAAAATCAAACGAAGGGATAACTT
Found at i:35565054 original size:27 final size:27
Alignment explanation
Indices: 35565015--35565111 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
35565005 ACACGCTAGA
* *
35565015 AAATGGAAACCTTTATGGCAATCTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
35565042 AAATGGAAGCCTTTGTAGCAATTTATG
1 AAATGGAAGCCTTTGTGGCAATCTATG
* *
35565069 AAATGGAAGCCTTTGTGGAAATCTATT
1 AAATGGAAGCCTTTGTGGCAATCTATG
35565096 AAATGGAAGCCTTTGT
1 AAATGGAAGCCTTTGT
35565112 CATGATCTAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.32
Consensus pattern (27 bp):
AAATGGAAGCCTTTGTGGCAATCTATG
Found at i:35565119 original size:27 final size:25
Alignment explanation
Indices: 35565035--35565120 Score: 91
Period size: 27 Copynumber: 3.2 Consensus size: 25
35565025 CTTTATGGCA
35565035 ATCTATGAAATGGAAGCCTTTGTAG
1 ATCTATGAAATGGAAGCCTTTGTAG
* *
35565060 CAATTTATGAAATGGAAGCCTTTGTGGAA
1 --ATCTATGAAATGGAAGCCTTTGT--AG
*
35565089 ATCTATTAAATGGAAGCCTTTGTCATG
1 ATCTATGAAATGGAAGCCTTTGT-A-G
35565116 ATCTA
1 ATCTA
35565121 AGGAAAGCCC
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
29 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.21, T:0.34
Consensus pattern (25 bp):
ATCTATGAAATGGAAGCCTTTGTAG
Found at i:35576709 original size:20 final size:19
Alignment explanation
Indices: 35576686--35576725 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
35576676 ATTTTTTTTC
*
35576686 TTTTTTATTTTTATTTTCAA
1 TTTTTTA-TTTTATGTTCAA
35576706 TTTTTTATTTTATGTTCAA
1 TTTTTTATTTTATGTTCAA
35576725 T
1 T
35576726 AAGAGGGTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTTATTTTATGTTCAA
Found at i:35590248 original size:13 final size:13
Alignment explanation
Indices: 35590230--35590254 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35590220 CTCTCTTTCA
35590230 TATCCTTAAAATT
1 TATCCTTAAAATT
35590243 TATCCTTAAAAT
1 TATCCTTAAAAT
35590255 CCTCACTACT
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
TATCCTTAAAATT
Found at i:35594354 original size:50 final size:50
Alignment explanation
Indices: 35594300--35594415 Score: 178
Period size: 50 Copynumber: 2.3 Consensus size: 50
35594290 TATCTTAGAT
* **
35594300 ATGGTCTTACATGGTAGTTCTCATATAGGTGCCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
* * *
35594350 ATGGTCTTACATGGGACCTCTCATCTTGGTGTCAACGCCATGTCCCAGAC
1 ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
35594400 ATGGTCTTACATGGGA
1 ATGGTCTTACATGGGA
35594416 TCGCTTTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.22, C:0.26, G:0.23, T:0.28
Consensus pattern (50 bp):
ATGGTCTTACATGGGACCTCTCATATAGGTGCCAACGCCATGTCCCAGAC
Found at i:35601450 original size:23 final size:22
Alignment explanation
Indices: 35601398--35601450 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
35601388 TCCACGTCTT
*
35601398 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
35601420 -TTCATTTTCTCTTCTTTTT-TCAA
1 TTTC-TTTTCT-TTCTTTTTCT-AA
35601443 TTTCTTTT
1 TTTCTTTT
35601451 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 14 0.54
24 3 0.12
ACGTcount: A:0.09, C:0.17, G:0.02, T:0.72
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:35606350 original size:41 final size:41
Alignment explanation
Indices: 35606280--35606602 Score: 447
Period size: 41 Copynumber: 7.9 Consensus size: 41
35606270 TTTTATTATT
* **
35606280 ATTAGCGGCGCTTTTTTC-AAAACAACGCTAAAGGCCAGAGC
1 ATTAGCGGCGC-TTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
35606321 ATTAGCGGCGCTT-TCTCAAAAATGCCGCTAAAGATCC-GAGC
1 ATTAGCGGCGCTTCT-TCAAAAACGCCGCTAAAG-GCCAGAGC
* *
35606362 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCTAGACC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* * *
35606403 ATTAGCGGCGCTACATCAAAAACGCCGCTAAAGCCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
* *
35606444 ATTAGCGGCGCTTTTTAAAAAACGCCGCTAAAGGACC-GAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGG-CCAGAGC
* *
35606485 ATTAGCAGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
35606526 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
*
35606567 ATTAGCGGCGCTTCTTCAAAAACGACGCTAAAGGCC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCC
35606603 CCAAAAACTC
Statistics
Matches: 251, Mismatches: 24, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.00
40 7 0.03
41 238 0.95
42 5 0.02
ACGTcount: A:0.31, C:0.28, G:0.23, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCAGAGC
Found at i:35606763 original size:40 final size:38
Alignment explanation
Indices: 35606651--35606773 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 38
35606641 TTTGCGGCAC
* * *
35606651 TTTTCAAAAAACGCCACTAATGCTTATTTTTAGCGGCG
1 TTTTTAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
** **
35606689 TTTCCCAAAAAGCGCCGCTAATGCTCTACCTTTAGCGGCG
1 TTT-TTAAAAAGCGCCGCTAATGCT-TATTTTTAGCGGCG
* *
35606729 TTTTTATAAAAGCGCCGCTAATGCTGGATTTTTAGTGGCG
1 TTTTTA-AAAAGCGCCGCTAATGCT-TATTTTTAGCGGCG
35606769 TTTTT
1 TTTTT
35606774 TGTCCAAACG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
38 3 0.04
39 19 0.27
40 48 0.69
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (38 bp):
TTTTTAAAAAGCGCCGCTAATGCTTATTTTTAGCGGCG
Found at i:35608378 original size:20 final size:21
Alignment explanation
Indices: 35608324--35608379 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
35608314 AAAAGAAACA
*
35608324 AGCT-GAAAGTAAGCTAAATTG
1 AGCTCGAAA-TAAGCTGAATTG
*
35608345 AGCTCGAAA-GAGCTGAATTG
1 AGCTCGAAATAAGCTGAATTG
35608365 AGCTC-AAATAAGCTG
1 AGCTCGAAATAAGCTG
35608380 GTTGGAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 3 0.10
20 19 0.63
21 4 0.13
22 4 0.13
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (21 bp):
AGCTCGAAATAAGCTGAATTG
Found at i:35615334 original size:40 final size:40
Alignment explanation
Indices: 35615279--35615431 Score: 183
Period size: 40 Copynumber: 3.9 Consensus size: 40
35615269 NNNNNNNNNN
35615279 GTGCGAGTTACTAAATCCGGGTTAAGTTCCGAAGGCATTT
1 GTGCGAGTTACTAAATCCGGGTTAAGTTCCGAAGGCATTT
35615319 GTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATTT
1 GTGCGAGTTACTAAATCCGGGTTAAGTTC-CGAAGGCATTT
*
35615359 GTGCGAGTTACTATAA-CCGGGCT-A-TTCCCGAAGGCATTT
1 GTGCGAGTTACTA-AATCCGGGTTAAGTT-CCGAAGGCATTT
** * *
35615398 GAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 GTGCGAGTTA-CTAAATCCGGGTTAAGTTCCGAAGG
35615432 TACGTGATTT
Statistics
Matches: 100, Mismatches: 5, Indels: 17
0.82 0.04 0.14
Matches are distributed among these distances:
38 6 0.06
39 33 0.33
40 59 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (40 bp):
GTGCGAGTTACTAAATCCGGGTTAAGTTCCGAAGGCATTT
Found at i:35623022 original size:40 final size:40
Alignment explanation
Indices: 35622965--35623105 Score: 196
Period size: 40 Copynumber: 3.5 Consensus size: 40
35622955 TTGAATGATG
35622965 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACCATA
* * *
35623005 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTATA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGTGACCATA
*
35623045 TCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
* *
35623085 TCCGGGTTAAGACCCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGC
35623106 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 79 0.89
41 9 0.10
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACCATA
Found at i:35625136 original size:18 final size:17
Alignment explanation
Indices: 35625101--35625196 Score: 88
Period size: 18 Copynumber: 5.5 Consensus size: 17
35625091 TTTTCTTTCG
*
35625101 TTTCTTTTTCATCATCTT
1 TTTCTTTTTCAT-TTCTT
** *
35625119 TTTCAATTTCTTTTTCTT
1 TTTCTTTTTC-ATTTCTT
* *
35625137 TTTGTTTTGCAATTTCTT
1 TTTCTTTTTC-ATTTCTT
35625155 TTTCTTTTTCACTTTCTT
1 TTTCTTTTTCA-TTTCTT
35625173 TTTCTTTTTC--TTCTT
1 TTTCTTTTTCATTTCTT
35625188 TTTCTTTTT
1 TTTCTTTTT
35625197 TATTACAACG
Statistics
Matches: 64, Mismatches: 12, Indels: 7
0.77 0.14 0.08
Matches are distributed among these distances:
15 14 0.22
17 1 0.02
18 48 0.75
19 1 0.02
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (17 bp):
TTTCTTTTTCATTTCTT
Found at i:35625159 original size:24 final size:24
Alignment explanation
Indices: 35625117--35625163 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
35625107 TTTCATCATC
*
35625117 TTTTTCAATTTCTTTTTCTTTTTG
1 TTTTGCAATTTCTTTTTCTTTTTG
35625141 TTTTGCAATTTCTTTTTCTTTTT
1 TTTTGCAATTTCTTTTTCTTTTT
35625164 CACTTTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.09, C:0.13, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTGCAATTTCTTTTTCTTTTTG
Found at i:35625162 original size:5 final size:6
Alignment explanation
Indices: 35625101--35625196 Score: 72
Period size: 6 Copynumber: 16.5 Consensus size: 6
35625091 TTTTCTTTCG
* ** ** * * **
35625101 TTTCTT TTTCAT CATCTT TTTCAA TTTCTT TTTCTT TTTGTT TTGCAA
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
**
35625149 TTTCTT TTTCTT TTTCAC TTTCTT TTTCTT TTTC-- -TTCTT TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
35625194 TTT
1 TTT
35625197 TATTACAACG
Statistics
Matches: 65, Mismatches: 22, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
3 3 0.05
6 62 0.95
ACGTcount: A:0.07, C:0.18, G:0.02, T:0.73
Consensus pattern (6 bp):
TTTCTT
Found at i:35630635 original size:21 final size:20
Alignment explanation
Indices: 35630598--35630649 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
35630588 AAAGGAAGAC
35630598 AGAAAAAGA-AATAAAAAAAA
1 AGAAAAAGAGAAT-AAAAAAA
* *
35630618 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATAAAAAAA
35630638 AGCAAAAAGAGA
1 AG-AAAAAGAGA
35630650 TTGAGAGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.57
21 12 0.43
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATAAAAAAA
Found at i:35632359 original size:33 final size:34
Alignment explanation
Indices: 35632322--35632393 Score: 110
Period size: 33 Copynumber: 2.1 Consensus size: 34
35632312 GAGTTAGTTT
*
35632322 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCACCTCAAATAAGTGTTAGTA
* *
35632355 ATTAATTTTAGTTCACCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCACCTCAAATAAGTGTTAGTA
35632389 ATTAA
1 ATTAA
35632394 TTTGTTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
33 29 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCACCTCAAATAAGTGTTAGTA
Found at i:35635041 original size:18 final size:17
Alignment explanation
Indices: 35635020--35635055 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
35635010 TTTTATTTGA
*
35635020 TTTTGTCTTTTTCTATTT
1 TTTTGACTTTTTCT-TTT
35635038 TTTTGACTTTTTCTTTT
1 TTTTGACTTTTTCTTTT
35635055 T
1 T
35635056 AATATTCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.06, C:0.11, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTGACTTTTTCTTTT
Found at i:35636079 original size:10 final size:11
Alignment explanation
Indices: 35636061--35636093 Score: 50
Period size: 12 Copynumber: 3.0 Consensus size: 11
35636051 TCGATTTCAC
35636061 GAAATTTTTTT
1 GAAATTTTTTT
35636072 GAAATTTTTTTT
1 GAAA-TTTTTTT
35636084 G-AATTTTTTT
1 GAAATTTTTTT
35636094 ATTTTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.33
11 6 0.29
12 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (11 bp):
GAAATTTTTTT
Found at i:35636082 original size:12 final size:12
Alignment explanation
Indices: 35636061--35636093 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
35636051 TCGATTTCAC
35636061 GAAA-TTTTTTT
1 GAAATTTTTTTT
35636072 GAAATTTTTTTT
1 GAAATTTTTTTT
35636084 G-AATTTTTTT
1 GAAATTTTTTT
35636094 ATTTTTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.09, T:0.67
Consensus pattern (12 bp):
GAAATTTTTTTT
Found at i:35637838 original size:197 final size:197
Alignment explanation
Indices: 35637503--35637896 Score: 761
Period size: 197 Copynumber: 2.0 Consensus size: 197
35637493 TTTAAAATGT
* *
35637503 TGTAGCTAGACATATTAAAAACAAATATTAACTAATACCCAAATTAAACTCAACAGCAGCTAAGA
1 TGTAGCTAGACATATTAAAAACAAATATTAACTAAGACCCAAATTAAACTCAACAACAGCTAAGA
35637568 CAAATTAATTAAAACATGAAATTAATTTGTCTCAACTTTAGACACATTTAAACACTTCTAATTAA
66 CAAATTAATTAAAACATGAAATTAATTTGTCTCAACTTTAGACACATTTAAACACTTCTAATTAA
35637633 AACGTCCAAAATTAAAATGCAATTTAATTATTTAAGCTAAATAAACTAATTGGCATTTATTTTAT
131 AACGTCCAAAATTAAAATGCAATTTAATTATTTAAGCTAAATAAACTAATTGGCATTTATTTTAT
35637698 TC
196 TC
*
35637700 TGTAGCTAGACATATTAAAAACAAATATTAACTAAGACTCAAATTAAACTCAACAACAGCTAAGA
1 TGTAGCTAGACATATTAAAAACAAATATTAACTAAGACCCAAATTAAACTCAACAACAGCTAAGA
35637765 CAAATTAATTAAAACATGAAATTAATTTGTCTCAACTTTAGACACATTTAAACACTTCTAATTAA
66 CAAATTAATTAAAACATGAAATTAATTTGTCTCAACTTTAGACACATTTAAACACTTCTAATTAA
35637830 AACGTCCAAAATTAAAATGCAATTTAATTATTTAAGCTAAATAAACTAATTGGCATTTATTTTAT
131 AACGTCCAAAATTAAAATGCAATTTAATTATTTAAGCTAAATAAACTAATTGGCATTTATTTTAT
35637895 TC
196 TC
35637897 CAACAACTAA
Statistics
Matches: 194, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 194 1.00
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.32
Consensus pattern (197 bp):
TGTAGCTAGACATATTAAAAACAAATATTAACTAAGACCCAAATTAAACTCAACAACAGCTAAGA
CAAATTAATTAAAACATGAAATTAATTTGTCTCAACTTTAGACACATTTAAACACTTCTAATTAA
AACGTCCAAAATTAAAATGCAATTTAATTATTTAAGCTAAATAAACTAATTGGCATTTATTTTAT
TC
Found at i:35639891 original size:39 final size:39
Alignment explanation
Indices: 35639837--35639914 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
35639827 CATAGTAAGT
35639837 TATTCATAAAGTCTAAAAATTAAAACAAAGTATTTAAAG
1 TATTCATAAAGTCTAAAAATTAAAACAAAGTATTTAAAG
*
35639876 TATTCATAAAGTCTAAAAATTAAAACTAAGTATTTAAAG
1 TATTCATAAAGTCTAAAAATTAAAACAAAGTATTTAAAG
35639915 AATTAAAATT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.53, C:0.08, G:0.08, T:0.32
Consensus pattern (39 bp):
TATTCATAAAGTCTAAAAATTAAAACAAAGTATTTAAAG
Found at i:35640122 original size:40 final size:40
Alignment explanation
Indices: 35640067--35640142 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
35640057 AATTGGCTCA
*
35640067 TTGATGCTCGTAACTGGGATCCAATGCGCTTTAGCTATCG
1 TTGATGCTCGTAACTGAGATCCAATGCGCTTTAGCTATCG
35640107 TTGATGCTCGTAACTGAGATCCAATGCGCTTTAGCT
1 TTGATGCTCGTAACTGAGATCCAATGCGCTTTAGCT
35640143 GCAAGATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (40 bp):
TTGATGCTCGTAACTGAGATCCAATGCGCTTTAGCTATCG
Found at i:35644869 original size:12 final size:12
Alignment explanation
Indices: 35644841--35644881 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
35644831 GGCACATGGT
35644841 CGTG-CCTCAGCC
1 CGTGTCCTCA-CC
35644853 CGTGTCCTCACC
1 CGTGTCCTCACC
*
35644865 TGTGTCCTCACC
1 CGTGTCCTCACC
35644877 CGTGT
1 CGTGT
35644882 AACTCACTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.07, C:0.44, G:0.22, T:0.27
Consensus pattern (12 bp):
CGTGTCCTCACC
Found at i:35649368 original size:16 final size:16
Alignment explanation
Indices: 35649343--35649373 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
35649333 CATCATAGCT
35649343 TTGATACATTTACATA
1 TTGATACATTTACATA
*
35649359 TTGATCCATTTACAT
1 TTGATACATTTACAT
35649374 TATAAATAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.45
Consensus pattern (16 bp):
TTGATACATTTACATA
Found at i:35656446 original size:18 final size:20
Alignment explanation
Indices: 35656425--35656474 Score: 68
Period size: 18 Copynumber: 2.5 Consensus size: 20
35656415 AAAGGAAGAC
35656425 AGAAAAAGA-AATCAAAAA-
1 AGAAAAAGAGAATCAAAAAG
*
35656443 AGAAAAAGAGAATGAAAAAG
1 AGAAAAAGAGAATCAAAAAG
35656463 AGAAAAAAGAGA
1 AG-AAAAAGAGA
35656475 TTGAGATTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.32
19 8 0.29
20 2 0.07
21 9 0.32
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (20 bp):
AGAAAAAGAGAATCAAAAAG
Found at i:35658259 original size:44 final size:44
Alignment explanation
Indices: 35658211--35658351 Score: 122
Period size: 44 Copynumber: 3.2 Consensus size: 44
35658201 TTCAATAAAA
35658211 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATT
1 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATT
* * ** * * * * * *** **
35658255 TCAAGAATCAAGAAAATCAAGATTC-ACTTTCTTGTTTTCAATAAAA
1 TCAAGAAAC-CG--AATCTTGGTCCAATTTTGTTGTTTTGAGCGATT
35658301 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATT
1 TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATT
35658345 TCAAGAA
1 TCAAGAA
35658352 TCAAGAAAAT
Statistics
Matches: 65, Mismatches: 28, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 7 0.11
44 28 0.43
45 2 0.03
46 21 0.32
47 7 0.11
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (44 bp):
TCAAGAAACCGAATCTTGGTCCAATTTTGTTGTTTTGAGCGATT
Found at i:35658378 original size:90 final size:90
Alignment explanation
Indices: 35658174--35658368 Score: 390
Period size: 90 Copynumber: 2.2 Consensus size: 90
35658164 ACGAAGGATA
35658174 AAGAAAATCAAGATTCACTTTCTTGTTTTCAATAAAATCAAGAAACCGAATCTTGGTCCAATTTT
1 AAGAAAATCAAGATTCACTTTCTTGTTTTCAATAAAATCAAGAAACCGAATCTTGGTCCAATTTT
35658239 GTTGTTTTGAGCGATTTCAAGAATC
66 GTTGTTTTGAGCGATTTCAAGAATC
35658264 AAGAAAATCAAGATTCACTTTCTTGTTTTCAATAAAATCAAGAAACCGAATCTTGGTCCAATTTT
1 AAGAAAATCAAGATTCACTTTCTTGTTTTCAATAAAATCAAGAAACCGAATCTTGGTCCAATTTT
35658329 GTTGTTTTGAGCGATTTCAAGAATC
66 GTTGTTTTGAGCGATTTCAAGAATC
35658354 AAGAAAATCAAGATT
1 AAGAAAATCAAGATT
35658369 TCAAATCTTG
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 105 1.00
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.34
Consensus pattern (90 bp):
AAGAAAATCAAGATTCACTTTCTTGTTTTCAATAAAATCAAGAAACCGAATCTTGGTCCAATTTT
GTTGTTTTGAGCGATTTCAAGAATC
Found at i:35664050 original size:16 final size:17
Alignment explanation
Indices: 35664019--35664052 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35664009 CAATTTAGTC
*
35664019 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
35664036 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
35664052 C
1 C
35664053 CCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:35671076 original size:19 final size:19
Alignment explanation
Indices: 35671045--35671082 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35671035 TTTCAATTGA
*
35671045 AAGAAAAGATAAAAGAGTG
1 AAGAAAAGATAAAACAGTG
35671064 AAGAAAA-ATTAAAACAGTG
1 AAGAAAAGA-TAAAACAGTG
35671083 GAGGAAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.63, C:0.03, G:0.21, T:0.13
Consensus pattern (19 bp):
AAGAAAAGATAAAACAGTG
Found at i:35672409 original size:14 final size:13
Alignment explanation
Indices: 35672390--35672441 Score: 54
Period size: 14 Copynumber: 3.9 Consensus size: 13
35672380 AAAGCTTAGA
35672390 AAAACATAGCTTAT
1 AAAACATAGCTT-T
35672404 AAAACAATA-CTTTT
1 AAAAC-ATAGC-TTT
*
35672418 AAAACA-AGCTTG
1 AAAACATAGCTTT
35672430 AAAACATAGCTT
1 AAAACATAGCTT
35672442 GTATAGGAGC
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 9 0.27
13 7 0.21
14 12 0.36
15 5 0.15
ACGTcount: A:0.50, C:0.15, G:0.08, T:0.27
Consensus pattern (13 bp):
AAAACATAGCTTT
Found at i:35673140 original size:27 final size:27
Alignment explanation
Indices: 35673069--35673140 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
35673059 CCTTAGTTTT
* **
35673069 CCAAACAGACTAGCAAACCCTAGGTTG
1 CCAAACAGACTAGCGAACCCTAGGTCA
* *
35673096 CCAAATAGACTAGTGAACCCTAGGTCA
1 CCAAACAGACTAGCGAACCCTAGGTCA
35673123 CCAAACAGACTAGCGAAC
1 CCAAACAGACTAGCGAAC
35673141 ACAACTTTCA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.39, C:0.29, G:0.18, T:0.14
Consensus pattern (27 bp):
CCAAACAGACTAGCGAACCCTAGGTCA
Found at i:35673230 original size:13 final size:12
Alignment explanation
Indices: 35673205--35673248 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 12
35673195 CTTTGCTAAA
35673205 TTTTACGTGAACT
1 TTTTA-GTGAACT
35673218 TTTTAGTGAAACT
1 TTTTAGTG-AACT
*
35673231 CTTTTGGTGAACT
1 -TTTTAGTGAACT
35673244 TTTTA
1 TTTTA
35673249 TTGATCCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.26
13 13 0.48
14 7 0.26
ACGTcount: A:0.23, C:0.11, G:0.16, T:0.50
Consensus pattern (12 bp):
TTTTAGTGAACT
Found at i:35686180 original size:60 final size:60
Alignment explanation
Indices: 35686078--35686302 Score: 301
Period size: 60 Copynumber: 3.8 Consensus size: 60
35686068 CTATGGCCAT
* * *
35686078 AAAGG-TTTCCTTTCCAGAGAATTTCCACAAAGGCATCCTTTTCATTCAATACTCACTAC
1 AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
* * *
35686137 AAGGGCTTTCCTTTCTAGAGATTTTCCACAAAGGCATCATTTTCATTCAGTACTCACCAC
1 AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
* * * * * *
35686197 AAAGGCTTTCTTTTCCAAAGATTTGCCACAAAGTCATCTTTTTCATTCAGTACTCGCCA-
1 AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
* *
35686256 AACAGGCTTTCCTTTCCATAGATTTTCCATAAAGGCATCCTTTTCAT
1 AA-AGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCAT
35686303 ACATTTTCAC
Statistics
Matches: 144, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
59 6 0.04
60 138 0.96
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.35
Consensus pattern (60 bp):
AAAGGCTTTCCTTTCCAGAGATTTTCCACAAAGGCATCCTTTTCATTCAGTACTCACCAC
Found at i:35686211 original size:31 final size:31
Alignment explanation
Indices: 35686102--35686211 Score: 82
Period size: 31 Copynumber: 3.6 Consensus size: 31
35686092 CAGAGAATTT
* * *
35686102 CCACAAAGGCATCCTTTTCATTCAATACTCA
1 CCACAAAGGCTTTCTTTTCATTCAGTACTCA
* * * ** * **
35686133 CTACAAGGGCTTTCCTTTC-TAGAG-ATTTT
1 CCACAAAGGCTTTCTTTTCATTCAGTACTCA
*
35686162 CCACAAAGGC-ATCATTTTCATTCAGTACTCA
1 CCACAAAGGCTTTC-TTTTCATTCAGTACTCA
35686193 CCACAAAGGCTTTCTTTTC
1 CCACAAAGGCTTTCTTTTC
35686212 CAAAGATTTG
Statistics
Matches: 54, Mismatches: 21, Indels: 8
0.65 0.25 0.10
Matches are distributed among these distances:
28 2 0.04
29 14 0.26
30 5 0.09
31 31 0.57
32 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (31 bp):
CCACAAAGGCTTTCTTTTCATTCAGTACTCA
Found at i:35694919 original size:22 final size:23
Alignment explanation
Indices: 35694873--35694921 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
35694863 TATCGATACC
35694873 TAGCTCGGAGGAGCTTACTGTTATT
1 TAGCTCGGAGGAGCTTAC--TTATT
*
35694898 TAGCTCGGAGGAGTTTAC-TATT
1 TAGCTCGGAGGAGCTTACTTATT
35694920 TA
1 TA
35694922 TAGCTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 6 0.26
25 17 0.74
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (23 bp):
TAGCTCGGAGGAGCTTACTTATT
Found at i:35694946 original size:25 final size:25
Alignment explanation
Indices: 35694917--35694964 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
35694907 GGAGTTTACT
* *
35694917 ATTTATAGCTTGTAAGAGCATACCG
1 ATTTAGAGCTCGTAAGAGCATACCG
*
35694942 ATTTAGAGCTCGTATGAGCATAC
1 ATTTAGAGCTCGTAAGAGCATAC
35694965 ATGTACAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (25 bp):
ATTTAGAGCTCGTAAGAGCATACCG
Found at i:35701243 original size:40 final size:40
Alignment explanation
Indices: 35701183--35701288 Score: 203
Period size: 40 Copynumber: 2.6 Consensus size: 40
35701173 ATAGCTTTAG
35701183 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
1 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
*
35701223 TAAAAGAAGCTACTTAGGAACCCGAGACAGCTATACGGAT
1 TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
35701263 TAAAAGAAGCTACTTGGGAACCCGAG
1 TAAAAGAAGCTACTTGGGAACCCGAG
35701289 GAAGCTGTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.17
Consensus pattern (40 bp):
TAAAAGAAGCTACTTGGGAACCCGAGACAGCTATACGGAT
Found at i:35715046 original size:16 final size:15
Alignment explanation
Indices: 35715021--35715051 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
35715011 TGATTAATTT
35715021 TAAAGGTTAAATAAG
1 TAAAGGTTAAATAAG
35715036 TAAATGGTTAAATAAG
1 TAAA-GGTTAAATAAG
35715052 GATAAAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.00, G:0.19, T:0.29
Consensus pattern (15 bp):
TAAAGGTTAAATAAG
Found at i:35716039 original size:25 final size:25
Alignment explanation
Indices: 35716005--35716053 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
35715995 CCACAGATCG
*
35716005 TGAGAGCATACCGATTTATAGCTCA
1 TGAGAGCATACCGATTCATAGCTCA
35716030 TGAGAGCATACCGATTCATAGCTC
1 TGAGAGCATACCGATTCATAGCTC
35716054 GTATCAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (25 bp):
TGAGAGCATACCGATTCATAGCTCA
Found at i:35719183 original size:6 final size:6
Alignment explanation
Indices: 35719172--35719196 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
35719162 GTCGAAACCA
35719172 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
35719197 ACATCATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:35719270 original size:13 final size:14
Alignment explanation
Indices: 35719252--35719280 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
35719242 TGATGGTCGG
35719252 AATGTAGCT-ACAC
1 AATGTAGCTCACAC
35719265 AATGTAGCTCACAC
1 AATGTAGCTCACAC
35719279 AA
1 AA
35719281 GTTGAAGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.41, C:0.24, G:0.14, T:0.21
Consensus pattern (14 bp):
AATGTAGCTCACAC
Found at i:35734433 original size:24 final size:22
Alignment explanation
Indices: 35734392--35734435 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
35734382 CATTATTCAA
*
35734392 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
35734414 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
35734436 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:35745278 original size:62 final size:62
Alignment explanation
Indices: 35745181--35745303 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
35745171 ATGTATTCAA
*
35745181 AGTTCAAGAAGATGAAATCGAACTCCAATAGTGAAATCCCACAAGCCGAATCTGCCAAGAAT
1 AGTTCAAGAAGATGAAATCGAACTCCAATAGTGAAATCCCACAAGACGAATCTGCCAAGAAT
35745243 AGTTCAAGAAGATGAAATCGAACTCCAATAGTGAAATCCCACAAGACGAATCTGCCAAGAA
1 AGTTCAAGAAGATGAAATCGAACTCCAATAGTGAAATCCCACAAGACGAATCTGCCAAGAA
35745304 CACCAAAACA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (62 bp):
AGTTCAAGAAGATGAAATCGAACTCCAATAGTGAAATCCCACAAGACGAATCTGCCAAGAAT
Found at i:35750626 original size:18 final size:19
Alignment explanation
Indices: 35750587--35750627 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
35750577 TTTTGTTATT
*
35750587 TTTGA-TTAAATGATTGAA
1 TTTGATTTAAATGATTAAA
35750605 -TTGATTTAAATG-TTAAA
1 TTTGATTTAAATGATTAAA
35750622 TTTGAT
1 TTTGAT
35750628 AGAGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.49
Consensus pattern (19 bp):
TTTGATTTAAATGATTAAA
Found at i:35767854 original size:27 final size:27
Alignment explanation
Indices: 35767815--35767866 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
35767805 CAGTATATAT
* *
35767815 CCACAACCCTCTAGGAATTGGGACTGC
1 CCACAACCCTCTAGAAATTGAGACTGC
* *
35767842 CCACGACCTTCTAGAAATTGAGACT
1 CCACAACCCTCTAGAAATTGAGACT
35767867 AAATAAAATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (27 bp):
CCACAACCCTCTAGAAATTGAGACTGC
Found at i:35780250 original size:34 final size:34
Alignment explanation
Indices: 35780199--35780263 Score: 112
Period size: 34 Copynumber: 1.9 Consensus size: 34
35780189 AAAATTTGGG
*
35780199 TTGGGTTGAGTTGAGTTTAGTTGAGTTAAATAAT
1 TTGGGTTGAGTTAAGTTTAGTTGAGTTAAATAAT
*
35780233 TTGGGTTGGGTTAAGTTTAGTTGAGTTAAAT
1 TTGGGTTGAGTTAAGTTTAGTTGAGTTAAAT
35780264 TATAAAGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.45
Consensus pattern (34 bp):
TTGGGTTGAGTTAAGTTTAGTTGAGTTAAATAAT
Found at i:35785215 original size:171 final size:170
Alignment explanation
Indices: 35784937--35785245 Score: 431
Period size: 170 Copynumber: 1.8 Consensus size: 170
35784927 AGTTAAGAGC
* * ** *
35784937 GTAGGTTCGTGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATTTCGGAGTAGCAGGCTTAAC
1 GTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATCCCAGAGTAGCAGGCTTAAC
* *
35785002 ACAGCTTACTCAAATAAATAAGGTTGTGAGTATAACTCATCTAACCATTAAACATCAGCTGGGAG
66 ACAACTTACTCAAATAAATAAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGGAG
35785067 CGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAATAGAAAT
131 CGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAATAGAAAT
* * * * * *
35785107 GTAGGTCCATGAGCTGTCAGTTGAGAGCGTAGGTTCGCGAGTTGTCCCAGAGTAG-TGAGCTTAA
1 GTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATCCCAGAGTAGCAG-GCTTAA
* * * * *
35785171 CTCAACTTACTGAAATAAATGAAGGTTGTAAGTATAATTCATCTAACCTTTAAACATCAGCTTGG
65 CACAACTTACTCAAATAAAT-AAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGG
35785236 AGCGTAGGTC
129 AGCGTAGGTC
35785246 CTCAAGTTGT
Statistics
Matches: 119, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
169 1 0.01
170 68 0.57
171 50 0.42
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (170 bp):
GTAGGTCCATGAGCTGTCAGCTGAGAGCATAGGTCCGCGAGCTATCCCAGAGTAGCAGGCTTAAC
ACAACTTACTCAAATAAATAAGGTTGTAAGTATAACTCATCTAACCATTAAACATCAGCTGGGAG
CGTAGGTCGGTGGGCTGTGTTGAAGTTTATCAATAGAAAT
Found at i:35790274 original size:31 final size:32
Alignment explanation
Indices: 35790195--35790464 Score: 214
Period size: 33 Copynumber: 8.2 Consensus size: 32
35790185 CAAATGTATG
* * *
35790195 TATATACTCATCAAATAATTATAACCGAATGCATA
1 TATACACT-ATCAAATACTTATAATCGAATGC--A
* *
35790230 TATATACTAATCAACTACTTATAATCGAATGCA
1 TATACACT-ATCAAATACTTATAATCGAATGCA
35790263 TATACAC-ATCAAATA--TATACATTCGAATGCA
1 TATACACTATCAAATACTTATA-A-TCGAATGCA
*
35790294 TATACACCTATCCAATACTTATAATCGAATGCA
1 TATACA-CTATCAAATACTTATAATCGAATGCA
* * *
35790327 TATACAC-ATCAAAT-GTATACAACCGAATGCA
1 TATACACTATCAAATACT-TATAATCGAATGCA
* * *
35790358 TATATACCTATCAAATACTTAAAATCAAATGCA
1 TATACA-CTATCAAATACTTATAATCGAATGCA
*
35790391 TATACAC-ATCAAAGGTA--TATAACCGAATGCATA
1 TATACACTATCAAA--TACTTATAATCGAATGC--A
* * *
35790424 TATATATCTATCAAATACTTATAATCAAAAGCA
1 TATACA-CTATCAAATACTTATAATCGAATGCA
35790457 TATACACT
1 TATACACT
35790465 GCAAAGGTAT
Statistics
Matches: 192, Mismatches: 25, Indels: 39
0.75 0.10 0.15
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 61 0.32
32 6 0.03
33 68 0.35
34 3 0.02
35 48 0.25
ACGTcount: A:0.45, C:0.19, G:0.06, T:0.30
Consensus pattern (32 bp):
TATACACTATCAAATACTTATAATCGAATGCA
Found at i:35790298 original size:16 final size:17
Alignment explanation
Indices: 35790253--35790361 Score: 74
Period size: 14 Copynumber: 6.8 Consensus size: 17
35790243 ACTACTTATA
35790253 ATCGAATGCATATACAC
1 ATCGAATGCATATACAC
*
35790270 ATCAAAT--ATATACA-
1 ATCGAATGCATATACAC
*
35790284 TTCGAATGCATATACACC
1 ATCGAATGCATATACA-C
* * *
35790302 TATCCAATAC-T-TATA-
1 -ATCGAATGCATATACAC
35790317 ATCGAATGCATATACAC
1 ATCGAATGCATATACAC
*
35790334 ATCAAATG--TATACA-
1 ATCGAATGCATATACAC
*
35790348 ACCGAATGCATATA
1 ATCGAATGCATATA
35790362 TACCTATCAA
Statistics
Matches: 69, Mismatches: 13, Indels: 21
0.67 0.13 0.20
Matches are distributed among these distances:
14 18 0.26
15 14 0.20
16 14 0.20
17 16 0.23
18 1 0.01
19 6 0.09
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (17 bp):
ATCGAATGCATATACAC
Found at i:35790458 original size:35 final size:34
Alignment explanation
Indices: 35790185--35790460 Score: 152
Period size: 35 Copynumber: 8.4 Consensus size: 34
35790175 TGTATAAAAC
* * * *
35790185 CAAATGTATGTATATACTCATCAAATAATTATAAC
1 CAAATGCATATATATACT-ATCAAATACTTATAAT
* *
35790220 CGAATGCATATATATACTAATCAACTACTTATAAT
1 CAAATGCATATATATACT-ATCAAATACTTATAAT
* *
35790255 CGAATGC--ATATACAC-ATCAAATA--TATACATT
1 CAAATGCATATATATACTATCAAATACTTATA-A-T
* * * *
35790286 CGAATGCATATACA-CCTATCCAATACTTATAAT
1 CAAATGCATATATATACTATCAAATACTTATAAT
* * * * *
35790319 CGAATGC--ATATACAC-ATCAAAT-GTATACAAC
1 CAAATGCATATATATACTATCAAATACT-TATAAT
* * *
35790350 CGAATGCATATATA-CCTATCAAATACTTAAAAT
1 CAAATGCATATATATACTATCAAATACTTATAAT
* *
35790383 CAAATGC--ATATACAC-ATCAAAGGTA--TATAAC
1 CAAATGCATATATATACTATCAAA--TACTTATAAT
*
35790414 CGAATGCATATATATATCTATCAAATACTTATAAT
1 CAAATGCATATATATA-CTATCAAATACTTATAAT
*
35790449 CAAAAGCATATA
1 CAAATGCATATA
35790461 CACTGCAAAG
Statistics
Matches: 188, Mismatches: 31, Indels: 44
0.71 0.12 0.17
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 57 0.30
32 4 0.02
33 58 0.31
34 3 0.02
35 60 0.32
ACGTcount: A:0.45, C:0.18, G:0.07, T:0.30
Consensus pattern (34 bp):
CAAATGCATATATATACTATCAAATACTTATAAT
Found at i:35790463 original size:66 final size:66
Alignment explanation
Indices: 35790214--35790506 Score: 368
Period size: 64 Copynumber: 4.5 Consensus size: 66
35790204 ATCAAATAAT
* *
35790214 TATAACCGAATGCATATATATA-CTAATCAACTACTTATAATCGAATGCATATACACATCAAA--
1 TATAACCGAATGCATATATATACCT-ATCAAATACTTATAATCAAATGCATATACACATCAAAGG
35790276 TA
65 TA
* * * * *
35790278 TATACATTCGAATGC--ATATACACCTATCCAATACTTATAATCGAATGCATATACACATCAAAT
1 TATA-A-CCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACATCAAAG
35790341 GTA
64 GTA
* *
35790344 TACAACCGAATGC--ATATATACCTATCAAATACTTAAAATCAAATGCATATACACATCAAAGGT
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACATCAAAGGT
35790407 A
66 A
* *
35790408 TATAACCGAATGCATATATATATCTATCAAATACTTATAATCAAAAGCATATACAC-TGCAAAGG
1 TATAACCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACAT-CAAAGG
35790472 TA
65 TA
* * *
35790474 TATAACCGAATGCATATAAATACTTATTAAATA
1 TATAACCGAATGCATATATATACCTATCAAATA
35790507 AGATATAATA
Statistics
Matches: 202, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
64 110 0.54
65 5 0.02
66 87 0.43
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (66 bp):
TATAACCGAATGCATATATATACCTATCAAATACTTATAATCAAATGCATATACACATCAAAGGT
A
Found at i:35790489 original size:31 final size:29
Alignment explanation
Indices: 35790249--35790491 Score: 107
Period size: 31 Copynumber: 7.6 Consensus size: 29
35790239 ATCAACTACT
*
35790249 TATAATCGAATGCATATACACATCAAA-TA
1 TATAACCGAATGCATATACAC-TCAAAGTA
* *
35790278 TATACATTCGAATGCATATACACCTATCCAA-TA
1 TATA-A-CCGAATGCATATACA-C--TCAAAGTA
*
35790311 CTTATAATCGAATGCATATACACATCAAATGTA
1 --TATAACCGAATGCATATACAC-TCAAA-GTA
* *
35790344 TACAACCGAATGCATATATACCTATCAAA-TA
1 TATAACCGAATGCATATACA-C--TCAAAGTA
* * *
35790375 CTTAAAATCAAATGCATATACACATCAAAGGTA
1 --TATAACCGAATGCATATACAC-TCAAA-GTA
*
35790408 TATAACCGAATGCATATATATATCTATCAAA-TA
1 TATAACCGAATGC--ATATACA-C--TCAAAGTA
* * *
35790441 CTTATAATCAAAAGCATATACACTGCAAAGGTA
1 --TATAACCGAATGCATATACACT-CAAA-GTA
35790474 TATAACCGAATGCATATA
1 TATAACCGAATGCATATA
35790492 AATACTTATT
Statistics
Matches: 171, Mismatches: 20, Indels: 44
0.73 0.09 0.19
Matches are distributed among these distances:
29 4 0.02
30 2 0.01
31 74 0.43
32 5 0.03
33 64 0.37
34 2 0.01
35 20 0.12
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (29 bp):
TATAACCGAATGCATATACACTCAAAGTA
Found at i:35791012 original size:78 final size:78
Alignment explanation
Indices: 35790850--35791259 Score: 689
Period size: 78 Copynumber: 5.3 Consensus size: 78
35790840 AAGTATTTAC
* * * * * * * *
35790850 AATTCATACTTTTAATTCAACTCAAGTACTTGTATATGTATATAC--ATCTATTCGAATCACACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
* * *
35790913 CATACATATGTAA
66 TATACATATATAT
* *
35790926 AATTCATACCTTTAATTTAATTCAATAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
35790991 TATACATATATAT
66 TATACATATATAT
35791004 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
35791069 TATACATATATAT
66 TATACATATATAT
35791082 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
35791147 TATACATATATAT
66 TATACATATATAT
35791160 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
1 AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
35791225 TATACATATATAT
66 TATACATATATAT
35791238 AATTCATACCTTTAATTCAATT
1 AATTCATACCTTTAATTCAATT
35791260 TATATACTTT
Statistics
Matches: 317, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
76 38 0.12
78 279 0.88
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (78 bp):
AATTCATACCTTTAATTCAATTCAAGAACTTATACATGTATATACATATATATTCGAACCTCACA
TATACATATATAT
Found at i:35795602 original size:94 final size:94
Alignment explanation
Indices: 35795418--35795588 Score: 234
Period size: 94 Copynumber: 1.8 Consensus size: 94
35795408 CAGTGAAACC
* * * * *
35795418 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAATCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
*
35795483 TTGAAGTTGCAGCAGAGCAAAATGAAGAT
66 TTGAAGTTGCAACAGAGCAAAATGAAGAT
* ** * * *
35795512 ACAAATCCTATACCCTTGAAGTTGTATTGGGTCGGCTTGAAACTACAACAACAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
35795577 TTGAAGTTGCAA
66 TTGAAGTTGCAA
35795589 TGGAGTAAGA
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
94 65 1.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTACAGTAGGTCGGATTGAAACTACAACAACAAATCTTATCTCC
TTGAAGTTGCAACAGAGCAAAATGAAGAT
Found at i:35806269 original size:179 final size:179
Alignment explanation
Indices: 35805969--35806333 Score: 658
Period size: 179 Copynumber: 2.0 Consensus size: 179
35805959 TGTAAATATT
35805969 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
1 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
* * *
35806034 TAGCACATCTAGAAGGAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTTTCTTGCT
66 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTACT
* *
35806099 GACTTTGTTATTCTAGACTTTAAAGTAGACAAATAACTGTCAATCATCC
131 GACTTTGTTATTCTAGACTTTAAAGCAGACAAATAACTATCAATCATCC
35806148 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
1 TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
*
35806213 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTATT
66 TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTACT
* *
35806278 GACTTTGTTATTCTAGACTTTGAAGCAGACAAATAAGTATCAATCATCC
131 GACTTTGTTATTCTAGACTTTAAAGCAGACAAATAACTATCAATCATCC
35806327 TAGGAAG
1 TAGGAAG
35806334 GCATTTCCTA
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
179 178 1.00
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (179 bp):
TAGGAAGTTAGGGATAGGTGAAGTTAGACCTACTACAGTTACGCTTCAATTAGCAGATCGATCCT
TAGCACATCTAGAAGAAAAACTAGAGGACGTATTGGTACGTGTAGACAAATTTATTTCTCTTACT
GACTTTGTTATTCTAGACTTTAAAGCAGACAAATAACTATCAATCATCC
Found at i:35809878 original size:16 final size:15
Alignment explanation
Indices: 35809851--35809884 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
35809841 AAGATGATAA
*
35809851 TATAATTATATTTAT
1 TATAATTATATTAAT
35809866 TATAATATATATTAAT
1 TATAAT-TATATTAAT
35809882 TAT
1 TAT
35809885 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:35810226 original size:49 final size:49
Alignment explanation
Indices: 35810169--35810268 Score: 191
Period size: 49 Copynumber: 2.0 Consensus size: 49
35810159 ACCCTCACGC
35810169 CTAGCAGTAGCCCCATTTGGCCAGTAGCCTACACACTCACCAAGTAGCT
1 CTAGCAGTAGCCCCATTTGGCCAGTAGCCTACACACTCACCAAGTAGCT
*
35810218 CTAGCAGTAGCCCCATTTGGCCAGTAGCCTACACACTCACCCAGTAGCT
1 CTAGCAGTAGCCCCATTTGGCCAGTAGCCTACACACTCACCAAGTAGCT
35810267 CT
1 CT
35810269 TGCCACCATT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.25, C:0.36, G:0.18, T:0.21
Consensus pattern (49 bp):
CTAGCAGTAGCCCCATTTGGCCAGTAGCCTACACACTCACCAAGTAGCT
Found at i:35810582 original size:25 final size:25
Alignment explanation
Indices: 35810548--35810607 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
35810538 AATTTCAATT
*
35810548 TTATTTAATTATTTAAT-TTTTCA-AA
1 TTATTAAATTA-TTAATATTTT-ATAA
*
35810573 TTATTAAATTATTAATATTTTATAC
1 TTATTAAATTATTAATATTTTATAA
35810598 TTATTAAATT
1 TTATTAAATT
35810608 TTTGAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
24 6 0.19
25 25 0.81
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATTAAATTATTAATATTTTATAA
Found at i:35810586 original size:8 final size:8
Alignment explanation
Indices: 35810548--35810607 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
35810538 AATTTCAATT
*
35810548 TTATTTAA
1 TTATTAAA
*
35810556 TTATTTAA
1 TTATTAAA
*
35810564 TTTTTCAAA
1 TTATT-AAA
35810573 TTATTAAA
1 TTATTAAA
35810581 TTATTAATA
1 TTATTAA-A
*
35810590 TT-TTATAC
1 TTATTA-AA
35810598 TTATTAAA
1 TTATTAAA
35810606 TT
1 TT
35810608 TTTGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
8 30 0.70
9 13 0.30
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTAAA
Found at i:35816454 original size:17 final size:16
Alignment explanation
Indices: 35816432--35816465 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35816422 GGGGATGGCA
35816432 TTTGTTTGATGTTTATT
1 TTTGTTTG-TGTTTATT
*
35816449 TTTGTTTGTTTTTATT
1 TTTGTTTGTGTTTATT
35816465 T
1 T
35816466 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.09, C:0.00, G:0.15, T:0.76
Consensus pattern (16 bp):
TTTGTTTGTGTTTATT
Found at i:35817041 original size:41 final size:41
Alignment explanation
Indices: 35816996--35817075 Score: 133
Period size: 41 Copynumber: 2.0 Consensus size: 41
35816986 ATGATTCCTT
* * *
35816996 GGGCTACCTTCCTGGTCAATTACTTCTTGGAATTCACTAAC
1 GGGCTACCTGCATGGTCAATTACTTCTTGGAATGCACTAAC
35817037 GGGCTACCTGCATGGTCAATTACTTCTTGGAATGCACTA
1 GGGCTACCTGCATGGTCAATTACTTCTTGGAATGCACTA
35817076 GCATCACAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.33
Consensus pattern (41 bp):
GGGCTACCTGCATGGTCAATTACTTCTTGGAATGCACTAAC
Found at i:35824716 original size:21 final size:22
Alignment explanation
Indices: 35824687--35824737 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
35824677 TCTCTCTCGC
*
35824687 TTTCCTTTTCTCCTTTTTCA-T
1 TTTCATTTTCTCCTTTTTCACT
*
35824708 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCTCCTTTTTCACT
35824730 TTT-ATTTT
1 TTTCATTTT
35824738 TCTCTTCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.08, C:0.22, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCATTTTCTCCTTTTTCACT
Found at i:35824743 original size:21 final size:20
Alignment explanation
Indices: 35824687--35824743 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
35824677 TCTCTCTCGC
*
35824687 TTTCCTTTTCTCCTTTTTCAT
1 TTTCATTTTCT-CTTTTTCAT
35824708 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTC-TCTTTTTCA-T
35824730 TTT-ATTTTTCTCTT
1 TTTCA-TTTTCTCTT
35824744 CTCCTTTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 22 0.69
22 10 0.31
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTCATTTTCTCTTTTTCAT
Found at i:35834381 original size:40 final size:40
Alignment explanation
Indices: 35834326--35834593 Score: 455
Period size: 40 Copynumber: 6.7 Consensus size: 40
35834316 AGCATTTGAA
35834326 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35834366 ATATATCCGGGCTAAGACACGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
35834406 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35834446 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
35834486 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
35834526 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
35834566 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
35834594 AGGTGTTTGC
Statistics
Matches: 213, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 213 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:35841965 original size:39 final size:39
Alignment explanation
Indices: 35841808--35841977 Score: 200
Period size: 40 Copynumber: 4.3 Consensus size: 39
35841798 GGACTAAGAT
* * *
35841808 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCC
1 CCGAAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTC
* * *
35841848 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTC
*
35841888 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTC
* *
35841928 CCGAAGGCATTGTGTGAGTTACTAAAAT-CGGGCTATGTC
1 CCGAAGGCATTGTGCGAGTTACT-AAATCCGGGTTATGTC
35841967 CCGAAGGCATT
1 CCGAAGGCATT
35841978 TGAACGAGGA
Statistics
Matches: 117, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
39 34 0.29
40 79 0.68
41 4 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTC
Found at i:35841997 original size:79 final size:80
Alignment explanation
Indices: 35841835--35842012 Score: 184
Period size: 79 Copynumber: 2.2 Consensus size: 80
35841825 AGATACAAAT
* * *
35841835 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
** * *
35841900 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * *
35841915 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAAT-CGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACT-AAATCCGGGCTAAGTCCCGAAGGCATT
* *
35841978 TGAACGAG-GAGCTATA
65 CGAACGAGTGA-CTAAA
*
35841994 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
35842013 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
78 15 0.19
79 44 0.54
80 22 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAATCCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:35845615 original size:20 final size:19
Alignment explanation
Indices: 35845590--35845628 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
35845580 TATCAAATTA
*
35845590 CAAAATGATATAAATATTTT
1 CAAAATAAT-TAAATATTTT
*
35845610 CAAAATAATTATATATTTT
1 CAAAATAATTAAATATTTT
35845629 TATAGGAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (19 bp):
CAAAATAATTAAATATTTT
Found at i:35846344 original size:3 final size:3
Alignment explanation
Indices: 35846336--35846379 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
35846326 ATACTATCAT
35846336 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
35846380 TTTTCCCTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:35859144 original size:48 final size:49
Alignment explanation
Indices: 35859085--35859190 Score: 142
Period size: 48 Copynumber: 2.2 Consensus size: 49
35859075 TAATACTTTT
* * * *
35859085 AATATTTAATTTAATTTTATACTTATCTTGAT-AATGTTCTATTAATTC
1 AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
** *
35859133 AATATTAAATTTAATCTTATGTTTATCTTGATAAATATTATATTAATTT
1 AATATTAAATTTAATCTTATACTTATCTTGATAAATATTATATTAATTC
35859182 AATATTAAA
1 AATATTAAA
35859191 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:35868742 original size:38 final size:38
Alignment explanation
Indices: 35868659--35868857 Score: 150
Period size: 38 Copynumber: 5.3 Consensus size: 38
35868649 TAGAAACGTG
* * * *
35868659 GTGATATTCGGGCTCCATGCATAACAGGTTTTTTG-TC
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * *
35868696 GATTATATTCGGGCTTCATACCTAACAGGCTTTATGCTA
1 G-TGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * ** *
35868735 GTGATATTTGGGCTCCGTGCCTAGCAGGCTCCGTGCTG
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * ** ** *
35868773 GTGATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCA
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
* * * *
35868811 GTTATATTCGAGC-CCGTGCCTAACAGGCTTTGTGCTG
1 GTGATATTCGGGCTCCATGCCTAACAGGCTTTGTGCTA
35868848 GTGATATTCG
1 GTGATATTCG
35868858 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:35868788 original size:76 final size:75
Alignment explanation
Indices: 35868700--35868859 Score: 203
Period size: 76 Copynumber: 2.1 Consensus size: 75
35868690 TTTGTCGATT
* * * * * *
35868700 ATATTCGGGCTTCATACCTAACAGGCTTTATGCTAGTGATATTTGGGCTCCGTGCCTAGCAGGCT
1 ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGC-CCGTGCCTAACAGGCT
35868765 CCGTGCTGGTG
65 CCGTGCTGGTG
** * * *
35868776 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAACAGGCTT
1 ATATTCGAGCTTCATAACTAACAGGCTTTATGCCAGTGATATTCGAGCCCGTGCCTAACAGGCTC
*
35868841 TGTGCTGGTG
66 CGTGCTGGTG
35868851 ATATTCGAG
1 ATATTCGAG
35868860 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:35868853 original size:75 final size:75
Alignment explanation
Indices: 35868700--35868929 Score: 228
Period size: 75 Copynumber: 3.0 Consensus size: 75
35868690 TTTGTCGATT
* * ** * * * * *
35868700 ATATTCGGGCTTCATACCTAACAGGCTTTATGCTAGTGATATTTGGGCTCCGTGCCTAGCAGGCT
1 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGC-CCGTGCCTAGCAGGCT
*
35868765 CCGTGCTGGTG
65 TCGTGCTGGTG
*
35868776 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAACAGGCTT
1 ATATTCGAGCTTCATAACTAGTAGGCTTTGTGCCAGTTATATTCGAGCCCGTGCCTAGCAGGCTT
*
35868841 TGTGCTGGTG
66 CGTGCTGGTG
* ** * * * *
35868851 ATATTCGAGTTTTGT-GCTTAGTAGGCTTCGTGCCAGTGTATTATATCAAGCCTTGTGCCTAGCA
1 ATATTCGAGCTTCATAAC-TAGTAGGCTTTGTGCCAGT-TA-TAT-TCGAGCC-CGTGCCTAGCA
35868915 GGCTTCGTGCTGGTG
61 GGCTTCGTGCTGGTG
35868930 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:35868908 original size:41 final size:41
Alignment explanation
Indices: 35868862--35868980 Score: 121
Period size: 41 Copynumber: 2.9 Consensus size: 41
35868852 TATTCGAGTT
*
35868862 TTGTGCTTAGTAGGCTTCGTGCCAGTGTATTATATCAAGCC
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
* ** * * *
35868903 TTGTGCCTAGCAGGCTTCGTGCTGGTGTGTTATATCAGGCT
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCAAGCC
** * * * *
35868944 TTAAGCTTAGCAGTCTTCATGCCAATGTATTGTATCA
1 TTGTGCTTAGCAGGCTTCGTGCCAGTGTATTATATCA
35868981 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:35877692 original size:14 final size:14
Alignment explanation
Indices: 35877673--35877699 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
35877663 AATTGTTTTA
35877673 CTTAGTTTTTAATT
1 CTTAGTTTTTAATT
35877687 CTTAGTTTTTAAT
1 CTTAGTTTTTAAT
35877700 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:35883858 original size:22 final size:21
Alignment explanation
Indices: 35883833--35883876 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
35883823 TGATAAACTT
35883833 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
35883855 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
35883876 T
1 T
35883877 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:35885391 original size:18 final size:18
Alignment explanation
Indices: 35885364--35885413 Score: 82
Period size: 18 Copynumber: 2.7 Consensus size: 18
35885354 ATTCTTGTCG
35885364 AAAAATAATTAAATATTAT
1 AAAAA-AATTAAATATTAT
35885383 AAAAAAATTAAATATTAT
1 AAAAAAATTAAATATTAT
*
35885401 AAAATAATTAAAT
1 AAAAAAATTAAAT
35885414 TATGTTAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAAAATTAAATATTAT
Found at i:35901762 original size:17 final size:18
Alignment explanation
Indices: 35901730--35901764 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
35901720 GTTCATTATT
*
35901730 ATTTTAGTATTTTTTTTA
1 ATTTTAGTAATTTTTTTA
35901748 ATTTTA-TAATTTTTTTA
1 ATTTTAGTAATTTTTTTA
35901765 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:35907839 original size:26 final size:26
Alignment explanation
Indices: 35907810--35907890 Score: 78
Period size: 26 Copynumber: 3.2 Consensus size: 26
35907800 AGCAAGCTTT
35907810 AATAGATTTAGAGTAAAAGAAATTCA
1 AATAGATTTAGAGTAAAAGAAATTCA
* * * * *
35907836 AATATA-TTAAACT-AAAGCAAGCTT-T
1 AATAGATTTAGAGTAAAAG-AA-ATTCA
35907861 AATAGATTTAGAGTAAAAGAAATTCA
1 AATAGATTTAGAGTAAAAGAAATTCA
35907887 AATA
1 AATA
35907891 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
Done.