Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 358 of 410
Found at i:110439211 original size:21 final size:19
Alignment explanation
Indices: 110439183--110439221 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
110439173 GAGCTCGACT
*
110439183 AAAATAAGATCTTAATCAAG
1 AAAATAAG-CCTTAATCAAG
110439203 AAAACTAAGCCTTAATCAA
1 AAAA-TAAGCCTTAATCAA
110439222 AATTAGTGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (19 bp):
AAAATAAGCCTTAATCAAG
Found at i:110442809 original size:19 final size:19
Alignment explanation
Indices: 110442785--110442823 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
110442775 TCTCACGACT
110442785 TCTTGCACAAGGTTTAAAG
1 TCTTGCACAAGGTTTAAAG
110442804 TCTTGCACAAGGTTTAAAG
1 TCTTGCACAAGGTTTAAAG
110442823 T
1 T
110442824 TGGTAGGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (19 bp):
TCTTGCACAAGGTTTAAAG
Found at i:110442917 original size:78 final size:79
Alignment explanation
Indices: 110442804--110443055 Score: 362
Period size: 79 Copynumber: 3.2 Consensus size: 79
110442794 AGGTTTAAAG
* * * *
110442804 TCTTGCACAAGGTTTAAAGTTGGTAGGTTGCCAATGAGGTACATTGGTGCTCCTTTTGTTTCTCG
1 TCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTCTTG
*
110442869 GAAGCTTTCTCACT
66 GAAGCTGTCTCACT
* *
110442883 TCTTGCACAAGGTTT-AAGTTGGTAGGCTACCAATGAGGTACCTTGGTGCACCTCTTGTTTCTTG
1 TCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTCTTG
*
110442947 GAAGCTGTCCCACT
66 GAAGCTGTCTCACT
* * * * * *
110442961 TCTTGCATAAGGTTTAAAGTCGGTAGGCTACTAGTGAGGTACTTTGGTGTTCCTCTTGTTTCTTG
1 TCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTCTTG
110443026 GAAGCTGTCTCACT
66 GAAGCTGTCTCACT
*
110443040 TCTTGCACGAGGTTTA
1 TCTTGCACAAGGTTTA
110443056 GTTCCTCTTG
Statistics
Matches: 154, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
78 69 0.45
79 85 0.55
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.37
Consensus pattern (79 bp):
TCTTGCACAAGGTTTAAAGTTGGTAGGCTACCAATGAGGTACATTGGTGCTCCTCTTGTTTCTTG
GAAGCTGTCTCACT
Found at i:110445727 original size:39 final size:39
Alignment explanation
Indices: 110445677--110445760 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
110445667 GCTCTGATGA
* * **
110445677 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAATTAGCCTTCGGGCCTCCGTTTAGCACTCATGT
110445716 GCTTCAATTAGCCTTCGGGCCTCCGTTTAGCACTCATGT
1 GCTTCAATTAGCCTTCGGGCCTCCGTTTAGCACTCATGT
110445755 GCTTCA
1 GCTTCA
110445761 GCTAGACTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.13, C:0.29, G:0.23, T:0.36
Consensus pattern (39 bp):
GCTTCAATTAGCCTTCGGGCCTCCGTTTAGCACTCATGT
Found at i:110453083 original size:35 final size:35
Alignment explanation
Indices: 110453037--110453107 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
110453027 ATGATGCTTG
110453037 AAAGTTATGTGATACACATTGTACCAAATTTCAAT
1 AAAGTTATGTGATACACATTGTACCAAATTTCAAT
110453072 AAAGTTATGTGATACACATTGTACCAAATTTCAAT
1 AAAGTTATGTGATACACATTGTACCAAATTTCAAT
110453107 A
1 A
110453108 CCACATATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (35 bp):
AAAGTTATGTGATACACATTGTACCAAATTTCAAT
Found at i:110455646 original size:9 final size:9
Alignment explanation
Indices: 110455632--110455659 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
110455622 CAGAGAGAAT
110455632 TCTCTCTTC
1 TCTCTCTTC
110455641 TCTCTCTTC
1 TCTCTCTTC
110455650 TCTCTCTTC
1 TCTCTCTTC
110455659 T
1 T
110455660 TTTTTTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (9 bp):
TCTCTCTTC
Found at i:110456119 original size:3 final size:3
Alignment explanation
Indices: 110456111--110456273 Score: 97
Period size: 3 Copynumber: 53.0 Consensus size: 3
110456101 CTTTATTAAA
* * * *
110456111 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT TAC TAT TGT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
110456156 TAT TAT TAT TAT TAT TAT TAT TAT TAGT GTA- TAT TTT TAT TAT ATAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT -TAT
* * *
110456203 GTA- TAT ATATT TAT ATAT T-T ATAT ATAG TAT TAT TTT TAAT TAC T-T
1 -TAT TAT -TA-T TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT TAT
*
110456249 TAT T-T TAA TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
110456274 ATTTGCTTTT
Statistics
Matches: 125, Mismatches: 19, Indels: 32
0.71 0.11 0.18
Matches are distributed among these distances:
2 11 0.09
3 92 0.74
4 19 0.15
5 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:110456469 original size:24 final size:22
Alignment explanation
Indices: 110456442--110456499 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 22
110456432 CATTATTTTT
*
110456442 TATTATTATTTTCTTTATTGTGAA
1 TATTATTATTTT-TTTATTCT-AA
*
110456466 TATTATTGTTATTTTTATTCTAA
1 TATTATTATT-TTTTTATTCTAA
110456489 TATTA-TATTTT
1 TATTATTATTTT
110456500 AATATTTTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 7 0.23
24 16 0.53
25 2 0.07
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (22 bp):
TATTATTATTTTTTTATTCTAA
Found at i:110468604 original size:153 final size:152
Alignment explanation
Indices: 110468377--110468817 Score: 681
Period size: 153 Copynumber: 2.9 Consensus size: 152
110468367 GTATTCTGAT
*
110468377 TTTTTA-TTTCTATTTTT-AAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
1 TTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
110468440 CGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
66 CGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
110468505 CCTCGGGTCACACGCTGAGGTA
131 CCTCGGGTCACACGCTGAGGTA
*
110468527 TTTTTAGTTCCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTTAGTTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
* * * *
110468592 ACGCACTAAGGTATTTTCAATTTATGTTTTAAAAAAATCAACTCATATTGTGAGAGGTGAGTTGA
65 ACGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
110468657 GCCTCGGGTCACACGCTGAGGTA
130 GCCTCGGGTCACACGCTGAGGTA
* *
110468680 TTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGA-C
1 TTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGATC
* * * *
110468744 ACACGCTGAGGTATTTTCAATTTATGTTTTTTCAAAAAAAAATCGACTCATATTGCTAGAAGTGA
65 ACGCACTGAGGTATTTTCAATTTATG---TTTC--AAAAAAATCAACTCATATTGCGAGAAGTGA
*
110468809 GTTAAGCCT
125 GTTGAGCCT
110468818 TTTAGTTTCT
Statistics
Matches: 264, Mismatches: 18, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
150 6 0.02
151 10 0.04
152 63 0.24
153 148 0.56
155 3 0.01
157 34 0.13
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (152 bp):
TTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCA
CGCACTGAGGTATTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAG
CCTCGGGTCACACGCTGAGGTA
Found at i:110468703 original size:77 final size:76
Alignment explanation
Indices: 110468377--110468817 Score: 539
Period size: 75 Copynumber: 5.8 Consensus size: 76
110468367 GTATTCTGAT
* * * *
110468377 TTTTTATTTCTATTTTT-AAAAAACTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATCAC
1 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
* *
110468441 GCACTGAGGTA
66 ACGCTGAGGTA
* * *
110468452 TTTTCAATT-TATGTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGTCAC
1 TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
110468516 ACGCTGAGGTA
66 ACGCTGAGGTA
* * * *
110468527 TTTTTAGTTCCTATTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGATC
1 TTTTCA-TTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
* * *
110468592 ACGCACTAAGGTA
64 ACACGCTGAGGTA
* *
110468605 TTTTCAATT-TATGTTTT-AAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCATTTCTAT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
110468668 CACGCTGAGGTA
65 CACGCTGAGGTA
* * *
110468680 TTTTTAGTTTCTATTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCA-TTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
110468745 CACGCTGAGGTA
65 CACGCTGAGGTA
* * * * * *
110468757 TTTTCAATTTATGTTTTTTCAAAAAAAAATCGACTCATATTGCTAGAAGTGAGTTAAGCCT
1 TTTTC-ATTTCT-ATTTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
110468818 TTTAGTTTCT
Statistics
Matches: 313, Mismatches: 41, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
74 6 0.02
75 121 0.39
76 10 0.03
77 78 0.25
78 64 0.20
80 34 0.11
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (76 bp):
TTTTCATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAC
ACGCTGAGGTA
Found at i:110469863 original size:19 final size:19
Alignment explanation
Indices: 110469839--110469904 Score: 123
Period size: 19 Copynumber: 3.5 Consensus size: 19
110469829 CTAGAGTAAC
*
110469839 ACCAAATCAGAAGCACAAT
1 ACCAAATCAGAGGCACAAT
110469858 ACCAAATCAGAGGCACAAT
1 ACCAAATCAGAGGCACAAT
110469877 ACCAAATCAGAGGCACAAT
1 ACCAAATCAGAGGCACAAT
110469896 ACCAAATCA
1 ACCAAATCA
110469905 AAGGATCTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 46 1.00
ACGTcount: A:0.50, C:0.27, G:0.12, T:0.11
Consensus pattern (19 bp):
ACCAAATCAGAGGCACAAT
Found at i:110470647 original size:3 final size:3
Alignment explanation
Indices: 110470639--110470803 Score: 119
Period size: 3 Copynumber: 54.0 Consensus size: 3
110470629 CTTTATTAAA
* * *
110470639 TAT TAT TAT TAT TAT T-T CTAA TAT TAT TAA TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
110470684 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAGT GTA- TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT TAT TAT TAT TAT
* * *
110470730 ATAT GTA- TAT ATATT TAT ATAT T-T ATAT ATAG TAT TAT TTT TAT TAC
1 -TAT -TAT TAT -TA-T TAT -TAT TAT -TAT -TAT TAT TAT TAT TAT TAT
*
110470777 T-T TAT T-T TAA TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
110470804 ATTTGCTTTT
Statistics
Matches: 130, Mismatches: 17, Indels: 30
0.73 0.10 0.17
Matches are distributed among these distances:
2 11 0.08
3 99 0.76
4 17 0.13
5 3 0.02
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:110470950 original size:31 final size:29
Alignment explanation
Indices: 110470912--110470970 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 29
110470902 TATTTTCTAC
110470912 TATTATTACAA-ATATATTATTTCTTTTATTA
1 TATTATTACAACAT-TATT-TTT-TTTTATTA
*
110470943 TATTATTAGAACATTATTTTTTTTTATT
1 TATTATTACAACATTATTTTTTTTTATT
110470971 TTCTTTATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 7 0.27
30 3 0.12
31 14 0.54
32 2 0.08
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (29 bp):
TATTATTACAACATTATTTTTTTTTATTA
Found at i:110471885 original size:26 final size:28
Alignment explanation
Indices: 110471849--110471904 Score: 89
Period size: 26 Copynumber: 2.1 Consensus size: 28
110471839 ATTTAGCTAG
110471849 GACACATTAAA-ACAAGTAAT-AACTAA
1 GACACATTAAACACAAGTAATAAACTAA
*
110471875 GACATATTAAACACAAGTAATAAACTAA
1 GACACATTAAACACAAGTAATAAACTAA
110471903 GA
1 GA
110471905 TAAAACATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 10 0.37
27 9 0.33
28 8 0.30
ACGTcount: A:0.57, C:0.14, G:0.09, T:0.20
Consensus pattern (28 bp):
GACACATTAAACACAAGTAATAAACTAA
Found at i:110477530 original size:15 final size:15
Alignment explanation
Indices: 110477506--110477539 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
110477496 TTAAAAGAAT
* *
110477506 TTAAATTTCAAAATC
1 TTAAAATTCAAAAGC
110477521 TTAAAATTCAAAAGC
1 TTAAAATTCAAAAGC
110477536 TTAA
1 TTAA
110477540 TTAATCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (15 bp):
TTAAAATTCAAAAGC
Found at i:110478067 original size:3 final size:3
Alignment explanation
Indices: 110478059--110478088 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
110478049 CGCATGAAAG
110478059 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
110478089 AGAGGATAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:110483319 original size:14 final size:14
Alignment explanation
Indices: 110483300--110483326 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
110483290 CATGATAAAA
110483300 TAAAATACAAGTGG
1 TAAAATACAAGTGG
110483314 TAAAATACAAGTG
1 TAAAATACAAGTG
110483327 TGCAAGAGAA
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:0.52, C:0.07, G:0.19, T:0.22
Consensus pattern (14 bp):
TAAAATACAAGTGG
Found at i:110487655 original size:223 final size:226
Alignment explanation
Indices: 110487235--110487679 Score: 797
Period size: 224 Copynumber: 2.0 Consensus size: 226
110487225 CTAGTCGTTG
* *
110487235 GACTTGAGCTTTAGGATGCTACAATAATTAACGGAACAGTATTATGCAAATCTAAAACCAAAAGT
1 GACTTGAACTATAGGATGCTACAATAATTAACGGAACAGTATTATGCAAATCTAAAACCAAAAGT
*
110487300 TCAATTAAACATCGGATGATCTCAAACATTTATACAAAAATCATGCTTTGCAAACAAAATCAAGT
66 TCAATTAAACATCGGATGATCTCAAACATTTACACAAAAATCATGCTTTGCAAACAAAATCAAGT
* *
110487365 TTAAATTGAGCCTACGAAAGCTCTAAAGTTGACCCAAAATCAAGCAATGACTAATTTGACACTTT
131 TTAAATTGAGCCTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTT
*
110487430 TACAAAATG-AAGG-CAAAAATGCAAACAGA
196 TACAAAATGAAAGGAAAAAAATGCAAACAGA
110487459 GACTTGAACTATAGGATGCTACAATAATTAACGGAACAGTATTATGCAAATCTAAAACCAAAAGT
1 GACTTGAACTATAGGATGCTACAATAATTAACGGAACAGTATTATGCAAATCTAAAACCAAAAGT
*
110487524 TCAATTAAACATCGGATGATCTCAAACATTTACAC-AAAATCATGCTTTGCAAACAAAATCGAGT
66 TCAATTAAACATCGGATGATCTCAAACATTTACACAAAAATCATGCTTTGCAAACAAAATCAAGT
*
110487588 TTAAATTGAGCTTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTT
131 TTAAATTGAGCCTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTT
110487653 TACAAAATGAAAGGAAAAAAATGCAAA
196 TACAAAATGAAAGGAAAAAAATGCAAA
110487680 ACAGGGGTCA
Statistics
Matches: 211, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
223 99 0.47
224 101 0.48
225 11 0.05
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.25
Consensus pattern (226 bp):
GACTTGAACTATAGGATGCTACAATAATTAACGGAACAGTATTATGCAAATCTAAAACCAAAAGT
TCAATTAAACATCGGATGATCTCAAACATTTACACAAAAATCATGCTTTGCAAACAAAATCAAGT
TTAAATTGAGCCTACGAAAGCTCTAAAGTTCACCCAAAATCAAGCAATGACTAATTTGAAACTTT
TACAAAATGAAAGGAAAAAAATGCAAACAGA
Found at i:110488570 original size:2 final size:2
Alignment explanation
Indices: 110488563--110488592 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
110488553 TTCCAATTTC
110488563 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
110488593 GTCTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110491920 original size:69 final size:69
Alignment explanation
Indices: 110491789--110491920 Score: 174
Period size: 69 Copynumber: 1.9 Consensus size: 69
110491779 CCCTCCTCTA
* * * * * **
110491789 TTTTTGCACTCAATTGAGCACTTGATCTTTCAAAATGCATCAAAAAGGCCCTCAAACTTCTTCTT
1 TTTTTGCACTCAATTAAGCACTTGAACTTTCAAAATGAATCAAAAAGACCCTAAAAAATCTTCTT
110491854 TTTT
66 TTTT
* * *
110491858 TTTTTTCATTCAATTAAGTACTTGAACTTTCAAAATGAATCAAAAAGACCCTAAAAAATCTTC
1 TTTTTGCACTCAATTAAGCACTTGAACTTTCAAAATGAATCAAAAAGACCCTAAAAAATCTTC
110491921 AAAAAAGCAA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
69 53 1.00
ACGTcount: A:0.34, C:0.20, G:0.08, T:0.37
Consensus pattern (69 bp):
TTTTTGCACTCAATTAAGCACTTGAACTTTCAAAATGAATCAAAAAGACCCTAAAAAATCTTCTT
TTTT
Found at i:110492259 original size:40 final size:41
Alignment explanation
Indices: 110492209--110492286 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 41
110492199 AAAATTAAAA
*
110492209 AATGTGTAAGTTTATTATATAATA-TATAAT-ATAAAATCTT
1 AATGTGTAAGTATA-TATATAATATTATAATAATAAAATCTT
* *
110492249 AATGTTTAAGTATATATATTATATTATAATAATAAAAT
1 AATGTGTAAGTATATATATAATATTATAATAATAAAAT
110492287 AAGTAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 8 0.24
40 18 0.55
41 7 0.21
ACGTcount: A:0.47, C:0.01, G:0.06, T:0.45
Consensus pattern (41 bp):
AATGTGTAAGTATATATATAATATTATAATAATAAAATCTT
Found at i:110494851 original size:20 final size:20
Alignment explanation
Indices: 110494774--110494840 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
110494764 TATAATTTTT
110494774 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
* * * ***
110494794 -TA-AAAAAACTTGTAAATGT
1 TTATAAAAATCAT-AAAAAAA
110494813 TTATAAAAATCATAAAAAAA
1 TTATAAAAATCATAAAAAAA
110494833 TTATAAAA
1 TTATAAAA
110494841 TACATCAAAA
Statistics
Matches: 32, Mismatches: 12, Indels: 6
0.64 0.24 0.12
Matches are distributed among these distances:
18 7 0.22
19 5 0.16
20 13 0.41
21 7 0.22
ACGTcount: A:0.64, C:0.04, G:0.03, T:0.28
Consensus pattern (20 bp):
TTATAAAAATCATAAAAAAA
Found at i:110495104 original size:28 final size:26
Alignment explanation
Indices: 110495086--110495170 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
110495076 TTCTTACGAC
110495086 TTTATAAAATTTTAT-ATTTTTTTACA
1 TTTATAAAATTTTATGA-TTTTTTACA
* *
110495112 TTTCTATATATTTTATGATTTTTTACTA
1 TTTATA-AAATTTTATGATTTTTTAC-A
** *
110495140 TTTTTATAAAATTTTACAATTTTTTATA
1 --TTTATAAAATTTTATGATTTTTTACA
110495168 TTT
1 TTT
110495171 TTTTACGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.17
27 16 0.34
28 3 0.06
29 15 0.32
30 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTATAAAATTTTATGATTTTTTACA
Found at i:110495144 original size:19 final size:18
Alignment explanation
Indices: 110495122--110495192 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
110495112 TTTCTATATA
*
110495122 TTTTATGATTTTTTACTAT
1 TTTTAT-ATTTTTTACAAT
**
110495141 TTTTATAAAATTTTACAATT
1 TTTTAT-ATTTTTTACAA-T
*
110495161 TTTTATATTTTTTTACGAT
1 TTTTATA-TTTTTTACAAT
110495180 TTTTATATTTTTT
1 TTTTATATTTTTT
110495193 CTAATTTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 6 0.14
19 23 0.53
20 14 0.33
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATATTTTTTACAAT
Found at i:110495147 original size:56 final size:57
Alignment explanation
Indices: 110495086--110495219 Score: 148
Period size: 56 Copynumber: 2.3 Consensus size: 57
110495076 TTCTTACGAC
*
110495086 TTTATAAAATTTTATATTTTTTTACATTTCTATA-TA-TTTTATGATTTTTTACT-ATT
1 TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTAT-ATTTTTT-CTAATT
* * * * *
110495142 TTTATAAAATTTTACAATTTTTTATATTTTTTTACGATTTTTATATTTTTTCTAATT
1 TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTATATTTTTTCTAATT
*
110495199 TTCAATAAAATTTTAATATTT
1 TT-TATAAAATTTT-ATATTT
110495220 AAATTTTTAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 31 0.48
57 13 0.20
58 16 0.25
59 4 0.06
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.63
Consensus pattern (57 bp):
TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTATATTTTTTCTAATT
Found at i:110495171 original size:28 final size:28
Alignment explanation
Indices: 110495086--110495243 Score: 110
Period size: 28 Copynumber: 5.6 Consensus size: 28
110495076 TTCTTACGAC
* *
110495086 TTTATAAAATTTTATATTTTTTTACATT
1 TTTATAAAATTTTATAATTTTTTATATT
* * *
110495114 TCTAT-ATATTTTATGATTTTTTACTATT
1 TTTATAAAATTTTATAATTTTTTA-TATT
*
110495142 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTATAATTTTTTATATT
* ** *
110495170 TTTTTACGATTTT-TATATTTTTTCTAATT
1 TTTATAAAATTTTATA-ATTTTTTAT-ATT
* * *
110495199 TTCAATAAAA-TTT-TAA-TATTTAAATT
1 TT-TATAAAATTTTATAATTTTTTATATT
*
110495225 TTTATTAAAATTTAATAAT
1 TTTA-TAAAATTTTATAAT
110495244 ATTTATAGCT
Statistics
Matches: 98, Mismatches: 23, Indels: 17
0.71 0.17 0.12
Matches are distributed among these distances:
25 1 0.01
26 10 0.10
27 22 0.22
28 37 0.38
29 25 0.26
30 3 0.03
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (28 bp):
TTTATAAAATTTTATAATTTTTTATATT
Found at i:110495224 original size:26 final size:27
Alignment explanation
Indices: 110495195--110495248 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
110495185 TATTTTTTCT
110495195 AATTTTCAATAAAATTT-TAATATTTA
1 AATTTTCAATAAAATTTATAATATTTA
* *
110495221 AATTTTTATTAAAATTTAATAATATTTA
1 AATTTTCAATAAAATTT-ATAATATTTA
110495249 TAGCTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 15 0.62
28 9 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
AATTTTCAATAAAATTTATAATATTTA
Found at i:110495280 original size:12 final size:12
Alignment explanation
Indices: 110495265--110495291 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
110495255 TTTATTTTAA
110495265 TTTTTTGTAATT
1 TTTTTTGTAATT
110495277 TTTTTTGTAATT
1 TTTTTTGTAATT
110495289 TTT
1 TTT
110495292 AATAAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTTGTAATT
Found at i:110495368 original size:341 final size:342
Alignment explanation
Indices: 110494974--110495648 Score: 1325
Period size: 341 Copynumber: 2.0 Consensus size: 342
110494964 ATAATAAAAA
110494974 AATAAATAAAATTTATAGAAAAATTATAAAATATTTCTTTTGGTATGATAATTTTTATAATTTTT
1 AATAAATAAAATTTATAGAAAAATTATAAAATATTTCTTTTGGTATGATAATTTTTATAATTTTT
110495039 TTTAAGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATT
66 TTTAAGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATT
110495104 TTTTTACATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATAT
131 TTTTTACATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATAT
110495169 TTTTTTACGATTTTTATATTTTTTCTAATTTTCAATAAAATTTTAATATTTAAATTTTTATTAAA
196 TTTTTTACGATTTTTATATTTTTTCTAATTTTCAATAAAATTTTAATATTTAAATTTTTATTAAA
110495234 ATTTAATAATATTTATAGCTTTTTATTTTAATTTTTTGTAATTTTTTTTGTAATTTTTAATAAAA
261 ATTTAATAATATTTATAGCTTTTTATTTTAATTTTTTGTAATTTTTTTTGTAATTTTTAATAAAA
110495299 GCAGAGGTAATTTTTAT
326 GCAGAGGTAATTTTTAT
*
110495316 AATAAA-AAAATTTATAGAAAAATTATAAAATGTTTCTTTTGGTATGATAATTTTTATAATTTTT
1 AATAAATAAAATTTATAGAAAAATTATAAAATATTTCTTTTGGTATGATAATTTTTATAATTTTT
110495380 TTTAAGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATT
66 TTTAAGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATT
110495445 TTTTTACATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATAT
131 TTTTTACATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATAT
*
110495510 TTTTTTACGATTTTTATATTTTTTCTAATTTTCAATAAAATTTTAATATTTTAATTTTTATTAAA
196 TTTTTTACGATTTTTATATTTTTTCTAATTTTCAATAAAATTTTAATATTTAAATTTTTATTAAA
110495575 ATTTAATAATATTTATAGCTTTTTATTTTAATTTTTTGTAATTTTTTTTGTAATTTTTAATAAAA
261 ATTTAATAATATTTATAGCTTTTTATTTTAATTTTTTGTAATTTTTTTTGTAATTTTTAATAAAA
110495640 GCAGAGGTA
326 GCAGAGGTA
110495649 TGATTGGCTT
Statistics
Matches: 331, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
341 325 0.98
342 6 0.02
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (342 bp):
AATAAATAAAATTTATAGAAAAATTATAAAATATTTCTTTTGGTATGATAATTTTTATAATTTTT
TTTAAGAAATTTATATTTCTTTACATTTTGTATAATTTTCTTACGACTTTATAAAATTTTATATT
TTTTTACATTTCTATATATTTTATGATTTTTTACTATTTTTATAAAATTTTACAATTTTTTATAT
TTTTTTACGATTTTTATATTTTTTCTAATTTTCAATAAAATTTTAATATTTAAATTTTTATTAAA
ATTTAATAATATTTATAGCTTTTTATTTTAATTTTTTGTAATTTTTTTTGTAATTTTTAATAAAA
GCAGAGGTAATTTTTAT
Found at i:110495445 original size:28 final size:26
Alignment explanation
Indices: 110495427--110495511 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 26
110495417 TTCTTACGAC
110495427 TTTATAAAATTTTAT-ATTTTTTTACA
1 TTTATAAAATTTTATGA-TTTTTTACA
* *
110495453 TTTCTATATATTTTATGATTTTTTACTA
1 TTTATA-AAATTTTATGATTTTTTAC-A
** *
110495481 TTTTTATAAAATTTTACAATTTTTTATA
1 --TTTATAAAATTTTATGATTTTTTACA
110495509 TTT
1 TTT
110495512 TTTTACGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
26 8 0.17
27 16 0.34
28 3 0.06
29 15 0.32
30 5 0.11
ACGTcount: A:0.31, C:0.05, G:0.01, T:0.64
Consensus pattern (26 bp):
TTTATAAAATTTTATGATTTTTTACA
Found at i:110495485 original size:19 final size:18
Alignment explanation
Indices: 110495463--110495533 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 18
110495453 TTTCTATATA
*
110495463 TTTTATGATTTTTTACTAT
1 TTTTAT-ATTTTTTACAAT
**
110495482 TTTTATAAAATTTTACAATT
1 TTTTAT-ATTTTTTACAA-T
*
110495502 TTTTATATTTTTTTACGAT
1 TTTTATA-TTTTTTACAAT
110495521 TTTTATATTTTTT
1 TTTTATATTTTTT
110495534 CTAATTTTCA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
18 6 0.14
19 23 0.53
20 14 0.33
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTATATTTTTTACAAT
Found at i:110495488 original size:56 final size:57
Alignment explanation
Indices: 110495427--110495561 Score: 150
Period size: 56 Copynumber: 2.4 Consensus size: 57
110495417 TTCTTACGAC
*
110495427 TTTATAAAATTTTATATTTTTTTACATTTCTATA-TA-TTTTATGATTTTTTACT-ATT
1 TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTAT-ATTTTTT-CTAATT
* * * * *
110495483 TTTATAAAATTTTACAATTTTTTATATTTTTTTACGATTTTTATATTTTTTCTAATT
1 TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTATATTTTTTCTAATT
*
110495540 TTCAATAAAATTTTAATATTTT
1 TT-TATAAAATTTT-ATATTTT
110495562 AATTTTTATT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 31 0.48
57 13 0.20
58 16 0.25
59 5 0.08
ACGTcount: A:0.30, C:0.05, G:0.01, T:0.63
Consensus pattern (57 bp):
TTTATAAAATTTTATATTTTTTTACATTTCTATACGATTTTTATATTTTTTCTAATT
Found at i:110495512 original size:28 final size:27
Alignment explanation
Indices: 110495427--110495578 Score: 103
Period size: 28 Copynumber: 5.4 Consensus size: 27
110495417 TTCTTACGAC
* *
110495427 TTTATAAAATTTTATATTTTTTTACATT
1 TTTATAAAATTTTA-AATTTTTTATATT
* * *
110495455 TCTAT-ATATTTTATGATTTTTTACTATT
1 TTTATAAAATTTTA-AATTTTTTA-TATT
110495483 TTTATAAAATTTTACAATTTTTTATATT
1 TTTATAAAATTTTA-AATTTTTTATATT
* * * * *
110495511 TTTTTACGATTTTTATATTTTTTCTAATT
1 TTTATA-AAATTTTAAATTTTTTAT-ATT
* *
110495540 TTCAATAAAATTTT-AATATTTTA-ATT
1 TT-TATAAAATTTTAAATTTTTTATATT
110495566 TTTATTAAAATTT
1 TTTA-TAAAATTT
110495579 AATAATATTT
Statistics
Matches: 96, Mismatches: 22, Indels: 14
0.73 0.17 0.11
Matches are distributed among these distances:
25 1 0.01
26 13 0.14
27 15 0.16
28 34 0.35
29 31 0.32
30 2 0.02
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTATAAAATTTTAAATTTTTTATATT
Found at i:110495564 original size:26 final size:27
Alignment explanation
Indices: 110495535--110495588 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
110495525 ATATTTTTTC
110495535 TAATTTTCAATAAAATTT-TAATATTT
1 TAATTTTCAATAAAATTTATAATATTT
* *
110495561 TAATTTTTATTAAAATTTAATAATATTT
1 TAATTTTCAATAAAATTT-ATAATATTT
110495589 ATAGCTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.67
28 8 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (27 bp):
TAATTTTCAATAAAATTTATAATATTT
Found at i:110495621 original size:12 final size:12
Alignment explanation
Indices: 110495606--110495632 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
110495596 TTTATTTTAA
110495606 TTTTTTGTAATT
1 TTTTTTGTAATT
110495618 TTTTTTGTAATT
1 TTTTTTGTAATT
110495630 TTT
1 TTT
110495633 AATAAAAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.07, T:0.78
Consensus pattern (12 bp):
TTTTTTGTAATT
Found at i:110495756 original size:88 final size:89
Alignment explanation
Indices: 110495653--110495815 Score: 202
Period size: 89 Copynumber: 1.8 Consensus size: 89
110495643 GAGGTATGAT
* * * * *
110495653 TGGCTTTTTGGAAAAA-GTTTAAGGGTCTTCTGGATGCATTTTGAAAGTTCAAGTACCCAATTGA
1 TGGCTTTTTGGAAAAAGGTTTAAGGATCTTCTGGATGCACTTTAAAAGTTCAAGTACCCAAATAA
*
110495717 GTGCAAAAAAAAGTATGGGCTTAA
66 GTACAAAAAAAAGTATGGGCTTAA
** * * * * *
110495741 TGGCTTTTTTTAAAAAGGTTTGAGGATTTTTTTGATGCACTTTAAAAGTTCAAGTACTCAAATAA
1 TGGCTTTTTGGAAAAAGGTTTAAGGATCTTCTGGATGCACTTTAAAAGTTCAAGTACCCAAATAA
110495806 GTACAAAAAA
66 GTACAAAAAA
110495816 TAAAAACAGA
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
88 14 0.23
89 47 0.77
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.34
Consensus pattern (89 bp):
TGGCTTTTTGGAAAAAGGTTTAAGGATCTTCTGGATGCACTTTAAAAGTTCAAGTACCCAAATAA
GTACAAAAAAAAGTATGGGCTTAA
Found at i:110501469 original size:13 final size:13
Alignment explanation
Indices: 110501453--110501502 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
110501443 TTTAAATCAA
110501453 ACTTTTCAAAAAC
1 ACTTTTCAAAAAC
* *
110501466 ACTTCTCAAAAGC
1 ACTTTTCAAAAAC
* *
110501479 ACTTTTTAAAAAT
1 ACTTTTCAAAAAC
110501492 ACTTTTCAAAA
1 ACTTTTCAAAA
110501503 GTATTACCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.44, C:0.20, G:0.02, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAAC
Found at i:110501489 original size:26 final size:26
Alignment explanation
Indices: 110501453--110501503 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
110501443 TTTAAATCAA
110501453 ACTTTTCAAAAACACTTCTCAAAAGC
1 ACTTTTCAAAAACACTTCTCAAAAGC
* * *
110501479 ACTTTTTAAAAATACTTTTCAAAAG
1 ACTTTTCAAAAACACTTCTCAAAAG
110501504 TATTACCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.33
Consensus pattern (26 bp):
ACTTTTCAAAAACACTTCTCAAAAGC
Found at i:110502779 original size:24 final size:24
Alignment explanation
Indices: 110502752--110502799 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
110502742 ACACTTCTGA
110502752 CCCTGAATACATCATTACTTATAG
1 CCCTGAATACATCATTACTTATAG
110502776 CCCTGAATACATCATTACTTATAG
1 CCCTGAATACATCATTACTTATAG
110502800 TCACAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.33
Consensus pattern (24 bp):
CCCTGAATACATCATTACTTATAG
Found at i:110507736 original size:5 final size:5
Alignment explanation
Indices: 110507726--110507761 Score: 58
Period size: 5 Copynumber: 7.6 Consensus size: 5
110507716 TTGTGTGTTC
110507726 TTTAT TTTA- TTT-T TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
110507762 TCACAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 6 0.21
5 23 0.79
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTAT
Found at i:110507889 original size:14 final size:15
Alignment explanation
Indices: 110507866--110507898 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
110507856 TTATAAAATG
110507866 ATTAAATTC-AATAT
1 ATTAAATTCAAATAT
*
110507880 ATTAATTTCAAATAT
1 ATTAAATTCAAATAT
110507895 ATTA
1 ATTA
110507899 TCAAACTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTAAATTCAAATAT
Found at i:110511515 original size:19 final size:17
Alignment explanation
Indices: 110511478--110511520 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
110511468 GTGGTATTAT
* *
110511478 CATAATTCAATTCATAA
1 CATAAATCAATTCAAAA
110511495 CATCAAATCAAGTTCAAAA
1 CAT-AAATCAA-TTCAAAA
110511514 CATAAAT
1 CATAAAT
110511521 GCACAAGTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 3 0.14
18 10 0.45
19 9 0.41
ACGTcount: A:0.51, C:0.19, G:0.02, T:0.28
Consensus pattern (17 bp):
CATAAATCAATTCAAAA
Found at i:110515237 original size:9 final size:9
Alignment explanation
Indices: 110515225--110515250 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
110515215 GGAGGATTAG
110515225 CAATGTTTC
1 CAATGTTTC
110515234 CAATGTTTC
1 CAATGTTTC
110515243 CAATGTTT
1 CAATGTTT
110515251 GAGGTTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (9 bp):
CAATGTTTC
Found at i:110533727 original size:24 final size:24
Alignment explanation
Indices: 110533694--110533741 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
110533684 GCAAAAACAA
*
110533694 AAGATGAATAACCAGAACCAATGG
1 AAGATAAATAACCAGAACCAATGG
110533718 AAGATAAATAACCAGAACCAATGG
1 AAGATAAATAACCAGAACCAATGG
110533742 GTAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.19, T:0.12
Consensus pattern (24 bp):
AAGATAAATAACCAGAACCAATGG
Found at i:110534961 original size:66 final size:66
Alignment explanation
Indices: 110534855--110534986 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
110534845 ATCCAAAGTT
110534855 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAAT-CGCGACAGCAA
1 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATAC-CGACAGCAA
110534919 GA
65 GA
110534921 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATACCGACAGCAAG
1 ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATACCGACAGCAAG
110534986 A
66 A
110534987 TTCCTAAATC
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
66 64 0.98
67 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (66 bp):
ACAGAGCGATTCCGATTATAAACAGGACAACATTGTTAAAGTGGTCAAAGAATACCGACAGCAAG
A
Found at i:110535213 original size:117 final size:116
Alignment explanation
Indices: 110535019--110535252 Score: 396
Period size: 117 Copynumber: 2.0 Consensus size: 116
110535009 AATTCTTCTA
*
110535019 AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATCAAAGAGA
1 AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
* * *
110535084 ATGGAAGGCATGAACAGGCAGTCTATTCAAAGGAGAATGGGAAATTTGGACG
66 ATGGAAGGCATGAAC-GGCAGTCTATTCAAAGGAGAACGGGAAAATCGGACG
*
110535136 AACTGGGACAACCTGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
1 AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
* *
110535201 ATGGAAGGCATGAACGGGAGTCTATTCAGAGGAGAACGGGAAAATCGGACG
66 ATGGAAGGCATGAACGGCAGTCTATTCAAAGGAGAACGGGAAAATCGGACG
110535252 A
1 A
110535253 TTGGATACTT
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
116 32 0.29
117 78 0.71
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.16
Consensus pattern (116 bp):
AACTGGGACAACCCGGAAACAGGAATTGCCAAGCTAAATGTTGATGGAAGCTGGAATAAAAGAGA
ATGGAAGGCATGAACGGCAGTCTATTCAAAGGAGAACGGGAAAATCGGACG
Found at i:110544038 original size:23 final size:24
Alignment explanation
Indices: 110543994--110544042 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
110543984 CAAAACGATG
*
110543994 AAATCTTAAATAACATTTTATTTT
1 AAATCTTAAATAACATTATATTTT
110544018 AAATCTT-AATATA-ATTATATTTT
1 AAATCTTAAATA-ACATTATATTTT
110544041 AA
1 AA
110544043 TAGTATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATCTTAAATAACATTATATTTT
Found at i:110551696 original size:18 final size:17
Alignment explanation
Indices: 110551673--110551718 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
110551663 AAAGGCGGCC
110551673 AAAAAGAAAAAAAATAAA
1 AAAAAGAAAAAAAA-AAA
* *
110551691 AAAAAGAAAGAAAAAAC
1 AAAAAGAAAAAAAAAAA
*
110551708 AAAAACAAAAA
1 AAAAAGAAAAA
110551719 CAACAAAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.87, C:0.04, G:0.07, T:0.02
Consensus pattern (17 bp):
AAAAAGAAAAAAAAAAA
Found at i:110553772 original size:45 final size:46
Alignment explanation
Indices: 110553715--110553811 Score: 144
Period size: 45 Copynumber: 2.2 Consensus size: 46
110553705 AGTTGTAGGA
* *
110553715 AGCAGA-CTGAAAATTGCAAATCTTATCTCTATGTATCGGCTATGG
1 AGCAGATCTGAAAATGGCAAATCTTATCTCCATGTATCGGCTATGG
* *
110553760 AGCAGATC-GAAAATGGCAAGTCTTATTTCCATGTATCGGCTATGG
1 AGCAGATCTGAAAATGGCAAATCTTATCTCCATGTATCGGCTATGG
110553805 AGCAGAT
1 AGCAGAT
110553812 TTTAGCCATC
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
45 46 0.98
46 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.29
Consensus pattern (46 bp):
AGCAGATCTGAAAATGGCAAATCTTATCTCCATGTATCGGCTATGG
Found at i:110553809 original size:177 final size:176
Alignment explanation
Indices: 110553603--110554120 Score: 793
Period size: 177 Copynumber: 2.9 Consensus size: 176
110553593 AAATTACAGA
110553603 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
*
110553668 AGAAAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGCA
66 AGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATT-CA
* ** *
110553733 AATCTTATCTCTATGTATCGGCTATGGAGCAGATCGAAAATGGCAAG
130 AATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGACAAG
* * *
110553780 TCTTATTTCCATGTATCGGCTATGGAGCAGATTTTAGCCATCAGTCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
* *
110553845 AGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGATTGAAAATTAAA
66 AGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTCAA
* * * *
110553910 GATCATATCTCCATGTATCGGCTATGGAGAAAATAAAAAATGACGAG
131 -ATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGACAAG
* *
110553957 TCTTATCTCCATGTATCGGCTATAGAGCGGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
* * * ** *
110554022 GGAGAACAGGTTGAAGATATAAGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACA
66 AGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATT-CA
* *
110554087 GATCTTATCTCCATGTATCGGCTATAGAGCAGAT
130 AATCTTATCTCCATGTATCGGCTATGGAGCAGAT
110554121 TTTAGCCACC
Statistics
Matches: 307, Mismatches: 32, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
176 2 0.01
177 304 0.99
178 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (176 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
AGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTCAA
ATCTTATCTCCATGTATCGGCTATGGAGCAGATAAAAAATGACAAG
Found at i:110554102 original size:309 final size:310
Alignment explanation
Indices: 110553780--110554408 Score: 974
Period size: 309 Copynumber: 2.0 Consensus size: 310
110553770 AAATGGCAAG
* * * * *
110553780 TCTTATTTCCATGTATCGGCTATGGAGCAGATTTTAGCCATCAGTCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* *
110553845 AGAGAACAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGATTGAAAATTAAA
66 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTAAA
*
110553910 GATCATATCTCCATGTATCGGCTATGGAGAAAATAAAAAAT-GACGAGTCTTATCTCCATGTATC
131 GATCATATCTCCATGTATCGGCTATGGAGAAAATAAAAAATAG-CAAGTCTTATCTCCATGTATC
* * * *
110553974 GGCTATAGAGCGGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAGGAGAACAGGTTGAAGA
195 AGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGTTAAAGA
*
110554039 TATAA-GTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACAGA
260 TACAATGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACAGA
110554089 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
**
110554154 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGTA
66 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTAAA
* * * ** *
110554219 GATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATAGCAAGTCTTATTTCCATGTATCA
131 GATCATATCTCCATGTATCGGCTATGGAGAAAATAAAAAATAGCAAGTCTTATCTCCATGTATCA
* * * *
110554284 GCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAATAT
196 GCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGTTAAAGAT
** * *
110554349 ACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTACAGA
261 ACAATGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACAGA
110554399 TCTTATCTCC
1 TCTTATCTCC
110554409 CTAAACAATA
Statistics
Matches: 289, Mismatches: 29, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
309 237 0.82
310 52 0.18
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (310 bp):
TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTAAA
GATCATATCTCCATGTATCGGCTATGGAGAAAATAAAAAATAGCAAGTCTTATCTCCATGTATCA
GCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAACAGGTTAAAGAT
ACAATGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACAGA
Found at i:110554107 original size:132 final size:132
Alignment explanation
Indices: 110553957--110554252 Score: 484
Period size: 132 Copynumber: 2.2 Consensus size: 132
110553947 AAATGACGAG
* *
110553957 TCTTATCTCCATGTATCGGCTATAGAGCGGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
110554022 GGAGAACAGGTTGAAGATATAAGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACA
66 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACA
110554087 GA
131 GA
110554089 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* ** * **
110554154 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGTA
66 AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACA
110554219 GA
131 GA
*
110554221 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
1 TCTTATCTCCATGTATCGGCTATAGAGCAGAT
110554253 CGAAAATAGC
Statistics
Matches: 152, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 152 1.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (132 bp):
TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAACAGGTTAAAGATACAAGTCTTATCTTCCAGAAGTTACAGGAAGCAGACTAAAAATTACA
GA
Found at i:110554279 original size:177 final size:178
Alignment explanation
Indices: 110554089--110554408 Score: 534
Period size: 177 Copynumber: 1.8 Consensus size: 178
110554079 AAATTACAGA
*
110554089 TCTTATCTCCATGTATCGGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* **
110554154 AGAGAACAGGTTAAAGATACAA-GTCTTATCTTCCTGAAGTTGTAGGAAGCAGACTGAAAATTGT
66 AGAGAACAGGTTAAAGATACAATGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
110554218 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATAGCAAG
131 AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATAGCAAG
* * * *
110554266 TCTTATTTCCATGTATCAGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGGTAGCA
1 TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
* * *
110554331 AGAGAGCAGGTTAAATATACAATGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAATTAC
66 AGAGAACAGGTTAAAGATACAATGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
110554396 AGATCTTATCTCC
131 AGATCTTATCTCC
110554409 CTAAACAATA
Statistics
Matches: 131, Mismatches: 11, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
177 80 0.61
178 51 0.39
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (178 bp):
TCTTATCTCCATGTATCAGCTATAGAGCAGATTTTAGCCACCAGCCTTATCTCTCTAAGGTAGCA
AGAGAACAGGTTAAAGATACAATGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAATTAC
AGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAAATAGCAAG
Found at i:110554508 original size:84 final size:84
Alignment explanation
Indices: 110554376--110554606 Score: 241
Period size: 84 Copynumber: 2.7 Consensus size: 84
110554366 TGAAGTTGCA
* * * * *
110554376 GGAAGCAGACTGAA-AATTACAGATCTTATCTCCCTAAACAATAGTGGAGCAGGTCGAAGATAGT
1 GGAAACAGACTGAAGAA-TACAGATC---TC-CCCTAAACAGTAGTGGAGCAGATCGAAGACAAT
110554440 GAGCCTTAACCCCCTAAGCAGTAG
61 GAGCCTTAACCCCCTAAGCAGTAG
* *
110554464 GGTAACAGGCTGGAA-AATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAGC
1 GGAAACAGACT-GAAGAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAGC
* *
110554528 CTTATCCCCCTATGCAGTAG
65 CTTAACCCCCTAAGCAGTAG
* * * *
110554548 GGAAACAGACTGAAGATTACAGATCATATCTCCCTAAGCAGTAGTAGAGCAGATTGAAG
1 GGAAACAGACTGAAGAATACAGATC---TC-CCCTAAACAGTAGTGGAGCAGATCGAAG
110554607 CAACAATTTC
Statistics
Matches: 122, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
83 3 0.02
84 69 0.57
85 2 0.02
87 2 0.02
88 41 0.34
89 5 0.04
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.20
Consensus pattern (84 bp):
GGAAACAGACTGAAGAATACAGATCTCCCCTAAACAGTAGTGGAGCAGATCGAAGACAATGAGCC
TTAACCCCCTAAGCAGTAG
Found at i:110556874 original size:22 final size:22
Alignment explanation
Indices: 110556846--110556890 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
110556836 AACTTACGAA
110556846 TAATTCACAATTAATATAACAT
1 TAATTCACAATTAATATAACAT
*
110556868 TAATTCATAATTAATATAACAT
1 TAATTCACAATTAATATAACAT
110556890 T
1 T
110556891 CATAGTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATTCACAATTAATATAACAT
Found at i:110557855 original size:27 final size:28
Alignment explanation
Indices: 110557791--110557860 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
110557781 GAATATCCAA
*
110557791 CCCAAACACACCCAGAATATTATAAATCCT
1 CCCAAACACA-CCAG-ATATAATAAATCCT
** *
110557821 CCGTAACACACCAG-TATAATATATCCT
1 CCCAAACACACCAGATATAATAAATCCT
110557848 CCCAAACACACCA
1 CCCAAACACACCA
110557861 ATAAGGCATT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 22 0.65
29 4 0.12
30 8 0.24
ACGTcount: A:0.41, C:0.36, G:0.04, T:0.19
Consensus pattern (28 bp):
CCCAAACACACCAGATATAATAAATCCT
Found at i:110558479 original size:51 final size:52
Alignment explanation
Indices: 110558403--110558525 Score: 169
Period size: 51 Copynumber: 2.4 Consensus size: 52
110558393 TCCCAAACTT
* * * *
110558403 ACTTCATACTTCATCCGGA-ATTATTACTTTGTTGTTCTGGCTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
*
110558454 ACTTCATATTTCATCCGGATA-TATTACTTTATTGCTCTAGTTTCAACAAGA
1 ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
* *
110558505 GCTTCATATTTCATCCAGATA
1 ACTTCATATTTCATCCGGATA
110558526 ACTTAGTTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 63 0.98
52 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.11, T:0.40
Consensus pattern (52 bp):
ACTTCATATTTCATCCGGATATTATTACTTTATTGCTCTAGCTTCAACAAGA
Found at i:110560433 original size:20 final size:19
Alignment explanation
Indices: 110560410--110560447 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
110560400 TTAAGGACTT
*
110560410 TTTAATTTAATTAAGTTTTA
1 TTTAAATTAA-TAAGTTTTA
110560430 TTTAAATTAATAAGTTTT
1 TTTAAATTAATAAGTTTT
110560448 CATATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TTTAAATTAATAAGTTTTA
Found at i:110560773 original size:9 final size:9
Alignment explanation
Indices: 110560755--110560817 Score: 50
Period size: 9 Copynumber: 7.6 Consensus size: 9
110560745 TTTATGTAAG
110560755 TTAA-GTGT
1 TTAATGTGT
110560763 TTAATGTGT
1 TTAATGTGT
110560772 TT--TGTGT
1 TTAATGTGT
110560779 TTAATAAGTGT
1 TTAAT--GTGT
*
110560790 TTAATATG-
1 TTAATGTGT
110560798 TT--TGT-T
1 TTAATGTGT
110560804 TTAATGTGT
1 TTAATGTGT
110560813 TTAAT
1 TTAAT
110560818 TGCAGGTGTC
Statistics
Matches: 44, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
6 4 0.09
7 7 0.16
8 9 0.20
9 15 0.34
11 9 0.20
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (9 bp):
TTAATGTGT
Found at i:110560786 original size:27 final size:25
Alignment explanation
Indices: 110560756--110560817 Score: 83
Period size: 27 Copynumber: 2.5 Consensus size: 25
110560746 TTATGTAAGT
*
110560756 TAAGTGTTTAATGTGTTTTGTGTTTAA
1 TAAGTGTTTAATATG-TTTGT-TTTAA
110560783 TAAGTGTTTAATATGTTTGTTTTAA
1 TAAGTGTTTAATATGTTTGTTTTAA
110560808 T--GTGTTTAAT
1 TAAGTGTTTAAT
110560818 TGCAGGTGTC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.26
25 6 0.18
26 5 0.15
27 14 0.41
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.56
Consensus pattern (25 bp):
TAAGTGTTTAATATGTTTGTTTTAA
Found at i:110565973 original size:15 final size:16
Alignment explanation
Indices: 110565944--110565974 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110565934 CGAAAATGTC
110565944 TACTTAAATTTTTTTT
1 TACTTAAATTTTTTTT
110565960 TACTTAAATTTTTTT
1 TACTTAAATTTTTTT
110565975 AGAGGTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TACTTAAATTTTTTTT
Found at i:110566343 original size:41 final size:40
Alignment explanation
Indices: 110566286--110566372 Score: 102
Period size: 41 Copynumber: 2.1 Consensus size: 40
110566276 TCAAATACAT
* *
110566286 TTAAAATAAATATTAAAATAAGAAACAAATAAAAAATTATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAA-TATA
* * * *
110566327 TTAAAACAATTATTAAAACAATACACAAATTAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
*
110566367 ATAAAA
1 TTAAAA
110566373 AGTGATTATA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 9 0.23
41 30 0.77
ACGTcount: A:0.67, C:0.06, G:0.01, T:0.26
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:110566423 original size:27 final size:26
Alignment explanation
Indices: 110566355--110566426 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
110566345 CAATACACAA
* *
110566355 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATA-AATAAAAAGTAAATAT
* *
110566382 ATTAAAATTAAAAATAAAATGTAAATAT
1 ATTAAAA--ATAAATAAAAAGTAAATAT
110566410 GATTAAAAATAAATAAA
1 -ATTAAAAATAAATAAA
110566427 TATATATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 15 0.41
28 13 0.35
29 9 0.24
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (26 bp):
ATTAAAAATAAATAAAAAGTAAATAT
Found at i:110566428 original size:20 final size:22
Alignment explanation
Indices: 110566388--110566429 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
110566378 TTATATTAAA
110566388 ATTAAAAATAAAATGTAAATATG
1 ATTAAAAATAAAA-GTAAATATG
110566411 ATTAAAAAT-AAA-TAAATAT
1 ATTAAAAATAAAAGTAAATAT
110566430 ATATTTAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (22 bp):
ATTAAAAATAAAAGTAAATATG
Found at i:110570705 original size:17 final size:17
Alignment explanation
Indices: 110570679--110570716 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
110570669 AAAATTTTAA
110570679 AATT-GTTATGTGATTT
1 AATTAGTTATGTGATTT
110570695 AATTAGTTATGTGATTT
1 AATTAGTTATGTGATTT
110570712 AATTA
1 AATTA
110570717 TTTTAGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (17 bp):
AATTAGTTATGTGATTT
Found at i:110576343 original size:20 final size:20
Alignment explanation
Indices: 110576315--110576352 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
110576305 CAGTAAGATT
* *
110576315 TATTTTAGTATCAAATTTGA
1 TATTGTAGTATAAAATTTGA
110576335 TATTGTAGTATAAAATTT
1 TATTGTAGTATAAAATTT
110576353 TAATATAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.50
Consensus pattern (20 bp):
TATTGTAGTATAAAATTTGA
Found at i:110577825 original size:18 final size:19
Alignment explanation
Indices: 110577801--110577837 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
110577791 AAAAAATTAT
*
110577801 AAAAAATAATAAATTTTAG
1 AAAAATTAATAAATTTTAG
*
110577820 AAAAATTATTAAATTTTA
1 AAAAATTAATAAATTTTA
110577838 ATAAAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAAAATTAATAAATTTTAG
Found at i:110578065 original size:19 final size:20
Alignment explanation
Indices: 110578036--110578117 Score: 98
Period size: 19 Copynumber: 4.2 Consensus size: 20
110578026 TTCTTATGAC
110578036 TTTATAAAATTTTATAATTT
1 TTTATAAAATTTTATAATTT
*
110578056 TTTA-AAAATTTCTAT-ATAT
1 TTTATAAAATTT-TATAATTT
* *
110578075 TTTATAATATTTTATGA-TT
1 TTTATAAAATTTTATAATTT
*
110578094 TTTATAAAATTTTACAATTT
1 TTTATAAAATTTTATAATTT
110578114 TTTA
1 TTTA
110578118 ATTTTTTAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
19 32 0.62
20 20 0.38
ACGTcount: A:0.38, C:0.02, G:0.01, T:0.59
Consensus pattern (20 bp):
TTTATAAAATTTTATAATTT
Found at i:110578068 original size:39 final size:40
Alignment explanation
Indices: 110578025--110578102 Score: 106
Period size: 39 Copynumber: 2.0 Consensus size: 40
110578015 TTTGTATAAT
110578025 TTTCT-TATGACTTTATAAAATTTTATAATTTTT-TAAAAA
1 TTTCTATAT-ACTTTATAAAATTTTATAATTTTTATAAAAA
* * *
110578064 TTTCTATATATTTTATAATATTTTATGATTTTTATAAAA
1 TTTCTATATACTTTATAAAATTTTATAATTTTTATAAAA
110578103 TTTTACAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 26 0.76
40 8 0.24
ACGTcount: A:0.37, C:0.04, G:0.03, T:0.56
Consensus pattern (40 bp):
TTTCTATATACTTTATAAAATTTTATAATTTTTATAAAAA
Found at i:110578096 original size:9 final size:10
Alignment explanation
Indices: 110578036--110578179 Score: 96
Period size: 10 Copynumber: 15.2 Consensus size: 10
110578026 TTCTTATGAC
*
110578036 TTTATAAAAT
1 TTTATAATAT
*
110578046 TTTATAATTT
1 TTTATAATAT
*
110578056 TTTA-AAAAT
1 TTTATAATAT
110578065 TTCTAT-ATAT
1 TT-TATAATAT
110578075 TTTATAATAT
1 TTTATAATAT
*
110578085 TTTATGAT-T
1 TTTATAATAT
*
110578094 TTTATAAAAT
1 TTTATAATAT
*
110578104 TTTACAAT-T
1 TTTATAATAT
110578113 TTT-TAAT-T
1 TTTATAATAT
110578121 TTT-TAAT-T
1 TTTATAATAT
110578129 TTTAATAATA-
1 TTT-ATAATAT
110578139 TTT-TAATA-
1 TTTATAATAT
110578147 TTT-TAATAT
1 TTTATAATAT
*
110578156 TTTAATTAAAAT
1 TTT-A-TAATAT
*
110578168 TTAATAATAT
1 TTTATAATAT
110578178 TT
1 TT
110578180 ATATCTTTTA
Statistics
Matches: 109, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
8 28 0.26
9 22 0.20
10 51 0.47
11 1 0.01
12 7 0.06
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (10 bp):
TTTATAATAT
Found at i:110578145 original size:8 final size:8
Alignment explanation
Indices: 110578113--110578161 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
110578103 TTTTACAATT
*
110578113 TTTTAATT
1 TTTTAATA
*
110578121 TTTTAATT
1 TTTTAATA
110578129 TTTAATAATA
1 TTT--TAATA
110578139 TTTTAATA
1 TTTTAATA
110578147 TTTTAATA
1 TTTTAATA
110578155 TTTTAAT
1 TTTTAAT
110578162 TAAAATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
8 31 0.82
10 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTTTAATA
Found at i:110578150 original size:19 final size:19
Alignment explanation
Indices: 110578050--110578154 Score: 80
Period size: 19 Copynumber: 5.7 Consensus size: 19
110578040 TAAAATTTTA
*
110578050 TAATTTTTTAA-AA-ATTT
1 TAATATTTTAATAATATTT
110578067 CTATATATTTT-ATAATATTT
1 -TA-ATATTTTAATAATATTT
* *
110578087 T-ATGATTTTTATAAAATTT
1 TAAT-ATTTTAATAATATTT
* *
110578106 TACA-ATTTT-TTAATTTTT
1 TA-ATATTTTAATAATATTT
110578124 TAAT-TTTTAATAATATTT
1 TAATATTTTAATAATATTT
110578142 TAATATTTTAATA
1 TAATATTTTAATA
110578155 TTTTAATTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
17 7 0.10
18 27 0.39
19 31 0.44
20 4 0.06
21 1 0.01
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (19 bp):
TAATATTTTAATAATATTT
Found at i:110578170 original size:27 final size:26
Alignment explanation
Indices: 110578114--110578173 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
110578104 TTTACAATTT
* *
110578114 TTTAATTTTTTAATTTTTAATAATAT
1 TTTAATATTTTAATTTTTAATAATAA
110578140 TTTAATATTTTAATATTTTAATTAA-AA
1 TTTAATATTTTAAT-TTTTAA-TAATAA
110578167 TTTAATA
1 TTTAATA
110578174 ATATTTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 13 0.43
27 14 0.47
28 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTAATATTTTAATTTTTAATAATAA
Found at i:110578225 original size:19 final size:19
Alignment explanation
Indices: 110578045--110578225 Score: 73
Period size: 19 Copynumber: 9.7 Consensus size: 19
110578035 CTTTATAAAA
* *
110578045 TTTTATAATTTTTTAAAAAT
1 TTTTATAA-TTTTTATATAT
*
110578065 TTCTAT-ATATTTTATA-AT
1 TTTTATAAT-TTTTATATAT
* * *
110578083 ATTTTATGATTTTTATAAAA
1 -TTTTATAATTTTTATATAT
*
110578103 TTTTACAATTTTT-TA-AT
1 TTTTATAATTTTTATATAT
110578120 TTTT-TAATTTTTA-ATAAT
1 TTTTATAATTTTTATAT-AT
*
110578138 ATTT-TAATATTTTA-ATAT
1 TTTTATAAT-TTTTATATAT
* **
110578156 TTTAATTAAAATTTA-ATAAT
1 TTTTA-TAATTTTTATAT-AT
*
110578176 ATTTAT-ATCTTTTAT-TGA-
1 TTTTATAAT-TTTTATAT-AT
*
110578194 TTTTA-AGTTTTTATATAT
1 TTTTATAATTTTTATATAT
110578212 TTTTATAATTTTTA
1 TTTTATAATTTTTA
110578226 ATAAAAACAC
Statistics
Matches: 123, Mismatches: 21, Indels: 35
0.69 0.12 0.20
Matches are distributed among these distances:
16 8 0.07
17 12 0.10
18 30 0.24
19 57 0.46
20 16 0.13
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTATATAT
Found at i:110578332 original size:89 final size:91
Alignment explanation
Indices: 110578228--110578433 Score: 242
Period size: 87 Copynumber: 2.3 Consensus size: 91
110578218 AATTTTTAAT
* * * *
110578228 AAAAACACGGGCTTAATTGCTTTTTTTGAAAAAAATTTGAGTGTCTTTTTTATGCATTTTAAAAA
1 AAAAACATGGGCTTAATTGCTTTTTTTG-AAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAA
*
110578293 TTCAAGTA-TCTAATTGAGTG-AAAAAA
65 TTCAAGTACT-TAAATGAGTGCAAAAAA
* ** * *
110578319 AAATA-A-GGGCTTAATTGC-TTTTTTGAAAAGGTTTGAGGGCCTTTTTGATGCATTTTGAAAGT
1 AAAAACATGGGCTTAATTGCTTTTTTTGAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAAT
*
110578381 TCAATTACTTAAATGAGTGCAAAAAA
66 TCAAGTACTTAAATGAGTGCAAAAAA
* *
110578407 AAAAACATAGGCTTAATTACTTTTTTT
1 AAAAACATGGGCTTAATTGCTTTTTTT
110578434 TTTTTTTAAA
Statistics
Matches: 97, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
87 45 0.46
88 18 0.19
89 13 0.13
90 11 0.11
91 10 0.10
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.38
Consensus pattern (91 bp):
AAAAACATGGGCTTAATTGCTTTTTTTGAAAAAATTTGAGGGCCTTTTTGATGCATTTTAAAAAT
TCAAGTACTTAAATGAGTGCAAAAAA
Found at i:110590604 original size:23 final size:23
Alignment explanation
Indices: 110590578--110590622 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
110590568 TGTGTATGTG
*
110590578 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
110590601 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
110590623 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:110595040 original size:28 final size:28
Alignment explanation
Indices: 110595008--110595063 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
110594998 TTTCTTACTC
110595008 CCTGACTATGAATTTTTCTTGTCTTAAG
1 CCTGACTATGAATTTTTCTTGTCTTAAG
*
110595036 CCTGAGTATGAATTTTTCTTGTCTTAAG
1 CCTGACTATGAATTTTTCTTGTCTTAAG
110595064 ATGATGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.46
Consensus pattern (28 bp):
CCTGACTATGAATTTTTCTTGTCTTAAG
Found at i:110601250 original size:191 final size:195
Alignment explanation
Indices: 110600916--110601304 Score: 615
Period size: 191 Copynumber: 2.0 Consensus size: 195
110600906 ATTTAGATTA
110600916 TAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACTAGTTAAATGATTACTTA
1 TAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATAC-AG-T-AA-GATTACTTA
* * * *
110600981 AATGTTAGTTTCTTGAGAAGGGCATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGTTTCTT
62 AATGGTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTT
* *
110601046 AAGCAGTTCCTGACCCTGAGCATTAAGTGCACTTGGGTGTTTAAAACTCCAGATGGCCAATTTCA
127 AAGCAGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCA
110601111 GGGT
192 GGGT
* *
110601115 TAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATA-A-T-A-CTTACTTTAATG
1 TAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACAGTAAGATTACTTAAATG
*
110601176 GTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTGCTGGTTCTTAAGC
66 GTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTTAAGC
* *
110601241 AGCTCCTGACCCTGAGCATTATGTGCACTTGGATGTTTAAAATTCCAGATGGCCAATTTCAGGG
131 AGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCAGGG
110601305 ATTCCCATTT
Statistics
Matches: 179, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
191 130 0.73
193 1 0.01
195 1 0.01
197 1 0.01
199 46 0.26
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (195 bp):
TAAAAGCTATTTAATTCTAGCATTTGAGTACACCAAAACTTGCATACAGTAAGATTACTTAAATG
GTAGTGTCTTGAGAAGGACATGTTGGTTCTTTTACAGAAGCAACTTCACTTACTGGTTCTTAAGC
AGCTCCTGACCCTGAGCATTAAGTGCACTTGGATGTTTAAAACTCCAGATGGCCAATTTCAGGGT
Found at i:110605890 original size:31 final size:31
Alignment explanation
Indices: 110605852--110605912 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
110605842 ACCTAGTAAC
*
110605852 TTAAATAAAAACTTTTAAATAGTTTAGTTAT
1 TTAAATAAAAACTTTTAAATAATTTAGTTAT
** *
110605883 TTAAATAAAATTTTTTGAATAATTTAGTTA
1 TTAAATAAAAACTTTTAAATAATTTAGTTA
110605913 ACAAAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.48
Consensus pattern (31 bp):
TTAAATAAAAACTTTTAAATAATTTAGTTAT
Found at i:110607897 original size:112 final size:115
Alignment explanation
Indices: 110607621--110607898 Score: 312
Period size: 112 Copynumber: 2.4 Consensus size: 115
110607611 TTGGTGCAAG
* * * *
110607621 TCCCAAGACACTTTTTTTTTTTTACTTTGAGACATTGATGGCCGACACTAATGTCATTTTAAAAT
1 TCCCAAGGCAC-TTTTTTTTTTTACTTTGGGACATTGATGGCCGACACCAATGCCATTTTAAAAT
* * ***
110607686 TTTTTTTTGGGTGTTGACCAGTAGATGACTAGCACCAAGTACATTTTTTGGC
65 TTTTTTTT-GGTGCTGACCAGTAGATGACGAGCACCAAGTACATTTTTCAAC
* * * * * * *
110607738 TCCCAATGCACTTTTTTTATATACTTTTGGACATTGATAGCCAACACCAGTGCCA-TTTAAAA-T
1 TCCCAAGGCACTTTTTTTTTTTACTTTGGGACATTGATGGCCGACACCAATGCCATTTTAAAATT
* * *
110607801 TTTTTTT-GTGCTGGCTAGTAGATCGCCGA-CACCAAGTACATTTTTCAAC
66 TTTTTTTGGTGCTGACCAGTAGAT-GACGAGCACCAAGTACATTTTTCAAC
* *
110607850 TCCCAAGGCACTTTTTTTTTTTACTTTGGGAAACTGATGGCCGACACCA
1 TCCCAAGGCACTTTTTTTTTTTACTTTGGGACATTGATGGCCGACACCA
110607899 CATTTTTTGG
Statistics
Matches: 133, Mismatches: 27, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
112 71 0.53
113 3 0.02
114 8 0.06
115 7 0.05
116 35 0.26
117 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (115 bp):
TCCCAAGGCACTTTTTTTTTTTACTTTGGGACATTGATGGCCGACACCAATGCCATTTTAAAATT
TTTTTTTGGTGCTGACCAGTAGATGACGAGCACCAAGTACATTTTTCAAC
Found at i:110608082 original size:2 final size:2
Alignment explanation
Indices: 110608075--110608103 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
110608065 AATTTATCAG
110608075 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
110608104 GGTGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:110611119 original size:22 final size:22
Alignment explanation
Indices: 110611094--110611163 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
110611084 TTCTTATTCC
110611094 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
** * *
110611116 TAATACAATATACA-TACATATT-
1 TAATTTAAAACACATTA-A-ATTA
110611138 TAATTTAAAACACATTAAATTA
1 TAATTTAAAACACATTAAATTA
110611160 TAAT
1 TAAT
110611164 ACAATTTACA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
21 5 0.14
22 26 0.72
23 5 0.14
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATTTAAAACACATTAAATTA
Found at i:110611144 original size:44 final size:44
Alignment explanation
Indices: 110611094--110611281 Score: 247
Period size: 44 Copynumber: 4.5 Consensus size: 44
110611084 TTCTTATTCC
110611094 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
110611138 TAATTTAAAACACATTAAATTATAATACAATTTACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
110611182 T-A-TT--------TT--ATTATAATACAATTTACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
*
110611214 TATTTTAAAACACATTAAATTATAATACAATATACATACATATT
1 TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
* *
110611258 TATTTTAAAACATATTAAATTATA
1 TAATTTAAAACACATTAAATTATA
110611282 TTAATTCAAC
Statistics
Matches: 128, Mismatches: 4, Indels: 24
0.82 0.03 0.15
Matches are distributed among these distances:
32 27 0.21
34 4 0.03
42 4 0.03
43 1 0.01
44 92 0.72
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (44 bp):
TAATTTAAAACACATTAAATTATAATACAATATACATACATATT
Found at i:110611174 original size:22 final size:22
Alignment explanation
Indices: 110611105--110611174 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
110611095 AATTTAAAAC
110611105 ACATTAAATTATAATACAATAT
1 ACATTAAATTATAATACAATAT
** * *
110611127 ACA-TACATATT-TAATTTAAAAC
1 ACATTA-A-ATTATAATACAATAT
*
110611149 ACATTAAATTATAATACAATTT
1 ACATTAAATTATAATACAATAT
110611171 ACAT
1 ACAT
110611175 ACATATTTAT
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
21 5 0.14
22 25 0.71
23 5 0.14
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (22 bp):
ACATTAAATTATAATACAATAT
Found at i:110611192 original size:32 final size:32
Alignment explanation
Indices: 110611156--110611220 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
110611146 AACACATTAA
110611156 ATTATAATACAATTTACATACATATTTATTTT
1 ATTATAATACAATTTACATACATATTTATTTT
110611188 ATTATAATACAATTTACATACATATTTATTTT
1 ATTATAATACAATTTACATACATATTTATTTT
110611220 A
1 A
110611221 AAACACATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTATAATACAATTTACATACATATTTATTTT
Found at i:110611198 original size:76 final size:76
Alignment explanation
Indices: 110611112--110611264 Score: 279
Period size: 76 Copynumber: 2.0 Consensus size: 76
110611102 AACACATTAA
*
110611112 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATTTACATAC
1 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
110611177 ATATTTATTTT
66 ATATTTATTTT
* *
110611188 ATTATAATACAATTTACATACATATTTATTTTAAAACACATTAAATTATAATACAATATACATAC
1 ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
110611253 ATATTTATTTT
66 ATATTTATTTT
110611264 A
1 A
110611265 AAACATATTA
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.42
Consensus pattern (76 bp):
ATTATAATACAATATACATACATATTTAATTTAAAACACATTAAATTATAATACAATATACATAC
ATATTTATTTT
Found at i:110611857 original size:5 final size:5
Alignment explanation
Indices: 110611847--110611929 Score: 58
Period size: 5 Copynumber: 15.2 Consensus size: 5
110611837 GAAAAAATTG
* *
110611847 ATGAA ATGAA ATGAA ATGTTAA ATGAA TATGAA ATGAA ATGTAA TTTGTA
1 ATGAA ATGAA ATGAA ATG--AA ATGAA -ATGAA ATGAA ATG-AA -ATGAA
* * *
110611897 ATGAA TTTGTA ATGATT ATGAA ATGAA ATGAA A
1 ATGAA -ATGAA ATGA-A ATGAA ATGAA ATGAA A
110611930 GTTTAAATGA
Statistics
Matches: 61, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
5 39 0.64
6 15 0.25
7 7 0.11
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (5 bp):
ATGAA
Found at i:110611883 original size:11 final size:10
Alignment explanation
Indices: 110611847--110611929 Score: 58
Period size: 11 Copynumber: 7.6 Consensus size: 10
110611837 GAAAAAATTG
110611847 ATGAAATGAA
1 ATGAAATGAA
110611857 ATGAAATGTTAA
1 ATGAAATG--AA
110611869 ATGAATATGAA
1 ATGAA-ATGAA
110611880 ATGAAATGTAA
1 ATGAAATG-AA
* *
110611891 TTTGTAATGAA
1 -ATGAAATGAA
* * *
110611902 TTTGTAATGATT
1 -ATGAAATGA-A
110611914 ATGAAATGAA
1 ATGAAATGAA
110611924 ATGAAA
1 ATGAAA
110611930 GTTTAAATGA
Statistics
Matches: 61, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
10 17 0.28
11 28 0.46
12 13 0.21
13 3 0.05
ACGTcount: A:0.49, C:0.00, G:0.18, T:0.33
Consensus pattern (10 bp):
ATGAAATGAA
Found at i:110611937 original size:17 final size:17
Alignment explanation
Indices: 110611911--110611964 Score: 58
Period size: 17 Copynumber: 3.1 Consensus size: 17
110611901 ATTTGTAATG
110611911 ATTATGAAATGAAATGAA
1 ATTAT-AAATGAAATGAA
110611929 AGTT-TAAATGAAAAT-AA
1 A-TTATAAATG-AAATGAA
110611946 ATTATAAATTGAAATGAA
1 ATTATAAA-TGAAATGAA
110611964 A
1 A
110611965 ACAAAAATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
16 2 0.06
17 16 0.52
18 11 0.35
19 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.13, T:0.30
Consensus pattern (17 bp):
ATTATAAATGAAATGAA
Found at i:110611972 original size:18 final size:17
Alignment explanation
Indices: 110611951--110611987 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 17
110611941 AATAAATTAT
110611951 AAATTGAAATGAAAACAA
1 AAATTGAAATGAAAA-AA
110611969 AAATTGAAATGAAAAAA
1 AAATTGAAATGAAAAAA
110611986 AA
1 AA
110611988 TTAATATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.70, C:0.03, G:0.11, T:0.16
Consensus pattern (17 bp):
AAATTGAAATGAAAAAA
Found at i:110612058 original size:21 final size:21
Alignment explanation
Indices: 110612017--110612076 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
110612007 TTATTAATAT
*
110612017 AAAAA-AAATTGAAATGAGAA
1 AAAAAGAAATTTAAATGAGAA
*
110612037 AAAAATTAAATTTAAATG-GAA
1 AAAAA-GAAATTTAAATGAGAA
110612058 AAAAAGATAATTTAAATGA
1 AAAAAGA-AATTTAAATGA
110612077 AATGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.18
21 18 0.53
22 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.12, T:0.23
Consensus pattern (21 bp):
AAAAAGAAATTTAAATGAGAA
Found at i:110615286 original size:18 final size:17
Alignment explanation
Indices: 110615251--110615283 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
110615241 CTTTTTATTC
110615251 TTTTATTATTTCATTTA
1 TTTTATTATTTCATTTA
110615268 TTTTACTTATTT-ATTT
1 TTTTA-TTATTTCATTT
110615284 TATCATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTATTATTTCATTTA
Found at i:110619614 original size:18 final size:18
Alignment explanation
Indices: 110619588--110619626 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
110619578 CCCGGGAAAC
*
110619588 TTTATATCCTTCAGGGAT
1 TTTAAATCCTTCAGGGAT
*
110619606 TTTAAATCCTTCTGGGAT
1 TTTAAATCCTTCAGGGAT
110619624 TTT
1 TTT
110619627 CATATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (18 bp):
TTTAAATCCTTCAGGGAT
Found at i:110627094 original size:113 final size:115
Alignment explanation
Indices: 110626924--110627247 Score: 392
Period size: 113 Copynumber: 2.8 Consensus size: 115
110626914 GTGGTGCCAA
* * * * *
110626924 CCATCAGTGTCCCAAAGTAAAAAAAAAAAAGCGCATTAGGAGCCGAAAAATGTACTTGGTGCCAG
1 CCATCAATATCCCAAAG--AAAAAAACAAAGTGCCTTAGGAGCCGAAAAATGTACTTGGTGCCAG
* *
110626989 -CCATCTACTGGTCAGCACCCAAAATATTTTATTAAATGACACTAGT-CCGTG
64 ACCATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCG-G
* * * **
110627040 CCATCAATATCCCAAA-ATAAAAACAAAGTGTCTTAGGAGCCGAAACATGTACTTGGT-ATAGAC
1 CCATCAATATCCCAAAGAAAAAAACAAAGTGCCTTAGGAGCCGAAAAATGTACTTGGTGCCAGAC
* *
110627103 CATCTATTGGTCAGCATCC-AAAT-TTTTTTTAAATGACACTAATGCCGG
66 CATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCGG
* * * *
110627151 CCATCAATGTCCCAAAGTAAAAAAAGAAAGTGCCATGGGAGCCGAAAAATGTACTTGGTGCC-GA
1 CCATCAATATCCCAAAG-AAAAAAACAAAGTGCCTTAGGAGCCGAAAAATGTACTTGGTGCCAGA
*
110627215 CCATCTATTGGTCAGCACCCAAAATAATTTATT
65 CCATCTATTGGTCAGCACCCAAAATATTTTATT
110627248 TTAAACCAAA
Statistics
Matches: 175, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
111 34 0.19
112 9 0.05
113 109 0.62
114 4 0.02
115 5 0.03
116 14 0.08
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (115 bp):
CCATCAATATCCCAAAGAAAAAAACAAAGTGCCTTAGGAGCCGAAAAATGTACTTGGTGCCAGAC
CATCTATTGGTCAGCACCCAAAATATTTTATTAAATGACACTAATGCCGG
Found at i:110628794 original size:42 final size:42
Alignment explanation
Indices: 110628742--110628847 Score: 117
Period size: 42 Copynumber: 2.5 Consensus size: 42
110628732 GGAAACCCGT
* *
110628742 AAGGGATAAACGAAAGCTCATAAGAGCTGAACAAAAATCCATA
1 AAGGGTTAAACGAAAGCTCATAAGAGCTGAACAAAAACCCA-A
* **
110628785 AA-GGTTAAACTG-AAGCTCAAAAGAGCTGAACTGAAACCCAA
1 AAGGGTTAAAC-GAAAGCTCATAAGAGCTGAACAAAAACCCAA
* *
110628826 AAGGGTTAAACTAAAACTCATA
1 AAGGGTTAAACGAAAGCTCATA
110628848 TGAGTTAACT
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.06
42 46 0.88
43 3 0.06
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.16
Consensus pattern (42 bp):
AAGGGTTAAACGAAAGCTCATAAGAGCTGAACAAAAACCCAA
Found at i:110628837 original size:21 final size:21
Alignment explanation
Indices: 110628787--110628842 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
110628777 AATCCATAAA
* *
110628787 GGTTAAACTGAAGCTCAAAAG
1 GGTTAAACTGAAACCCAAAAG
* * *
110628808 AGCTGAACTGAAACCCAAAAG
1 GGTTAAACTGAAACCCAAAAG
*
110628829 GGTTAAACTAAAAC
1 GGTTAAACTGAAAC
110628843 TCATATGAGT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.46, C:0.18, G:0.20, T:0.16
Consensus pattern (21 bp):
GGTTAAACTGAAACCCAAAAG
Found at i:110630666 original size:21 final size:22
Alignment explanation
Indices: 110630625--110630668 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
110630615 TGGAAAATTA
110630625 ATTTTGATATAACAAATATTTT
1 ATTTTGATATAACAAATATTTT
110630647 ATTTTGA-ATAA-AAATCATTTT
1 ATTTTGATATAACAAAT-ATTTT
110630668 A
1 A
110630669 AACATAACTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 10 0.48
22 7 0.33
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTTGATATAACAAATATTTT
Found at i:110630738 original size:43 final size:43
Alignment explanation
Indices: 110630686--110630773 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
110630676 CTTACCAAGA
110630686 ATTTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTC
1 ATTTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTC
110630729 ATTTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTC
1 ATTTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTC
110630772 AT
1 AT
110630774 ACTTTCAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (43 bp):
ATTTTCATTTTAAATAATCTCTAAAAGAAAAATGGTTGAACTC
Found at i:110639068 original size:26 final size:26
Alignment explanation
Indices: 110639019--110639068 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
110639009 AATTTTAATT
* **
110639019 AATTTTATATTTAAATAATTTAATAA
1 AATTATATATTTAAATAAGATAATAA
110639045 AATTATATATTTAAATAAGATAAT
1 AATTATATATTTAAATAAGATAAT
110639069 TGATCAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (26 bp):
AATTATATATTTAAATAAGATAATAA
Found at i:110639068 original size:31 final size:30
Alignment explanation
Indices: 110638981--110639069 Score: 73
Period size: 31 Copynumber: 3.0 Consensus size: 30
110638971 TTTAATTAAA
*
110638981 TTAATAAAATTACATACTTAAATGAAGA-AATT
1 TTAATAAAATTATATA-TTAAAT-AAGATAA-T
* *
110639013 TTAAT-TAATTTTATATT---TAA-ATAAT
1 TTAATAAAATTATATATTAAATAAGATAAT
110639038 TTAATAAAATTATATATTTAAATAAGATAAT
1 TTAATAAAATTATATA-TTAAATAAGATAAT
110639069 T
1 T
110639070 GATCAGCTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
25 7 0.16
26 12 0.27
27 3 0.07
30 5 0.11
31 13 0.29
32 5 0.11
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (30 bp):
TTAATAAAATTATATATTAAATAAGATAAT
Found at i:110642764 original size:12 final size:12
Alignment explanation
Indices: 110642724--110642757 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
110642714 CAAAACCCTA
*
110642724 TTTTTCCTT-TC
1 TTTTTCTTTCTC
110642735 TTTTTCTTTCTC
1 TTTTTCTTTCTC
110642747 TTTTTCTTTCT
1 TTTTTCTTTCT
110642758 TTCTTTCCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTTTCTTTCTC
Found at i:110645508 original size:18 final size:17
Alignment explanation
Indices: 110645485--110645573 Score: 115
Period size: 18 Copynumber: 5.0 Consensus size: 17
110645475 ACTGTTTACG
110645485 GTACTATTCACGTATAC
1 GTACTATTCACGTATAC
*
110645502 AGTACTATTTACGTATAC
1 -GTACTATTCACGTATAC
110645520 GATACTATTCACGTATAC
1 G-TACTATTCACGTATAC
* *
110645538 GATACTATTCATGTATATG
1 G-TACTATTCACGTATA-C
110645557 GTACTATTCACGTATAC
1 GTACTATTCACGTATAC
110645574 AATAGTTGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
17 1 0.02
18 61 0.97
19 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (17 bp):
GTACTATTCACGTATAC
Found at i:110645533 original size:36 final size:37
Alignment explanation
Indices: 110645481--110645574 Score: 138
Period size: 36 Copynumber: 2.6 Consensus size: 37
110645471 TACGACTGTT
*
110645481 TACGGTACTATTCACGTATACAG-TACTATTTACGTA
1 TACGGTACTATTCACGTATACAGATACTATTCACGTA
* *
110645517 TACGATACTATTCACGTATAC-GATACTATTCATGTA
1 TACGGTACTATTCACGTATACAGATACTATTCACGTA
*
110645553 TATGGTACTATTCACGTATACA
1 TACGGTACTATTCACGTATACA
110645575 ATAGTTGGGA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
35 1 0.02
36 50 0.98
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (37 bp):
TACGGTACTATTCACGTATACAGATACTATTCACGTA
Found at i:110652124 original size:31 final size:29
Alignment explanation
Indices: 110652055--110652125 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
110652045 ACTCTCAAAG
* * * *
110652055 AGTTTAGTGATCAAATTGTAATTTTTTCT
1 AGTTTAGTGATCAAAATGAAATTATTTAT
*
110652084 AGTTAAGTGATCAAAATGAAAACTTATTTAT
1 AGTTTAGTGATCAAAATG-AAA-TTATTTAT
110652115 AGTTTAGTGAT
1 AGTTTAGTGAT
110652126 TAATAGTAGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 16 0.47
30 2 0.06
31 16 0.47
ACGTcount: A:0.35, C:0.06, G:0.15, T:0.44
Consensus pattern (29 bp):
AGTTTAGTGATCAAAATGAAATTATTTAT
Found at i:110654418 original size:8 final size:8
Alignment explanation
Indices: 110654407--110654439 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
110654397 AAATATTTAC
110654407 ATTATAAT
1 ATTATAAT
110654415 ATTATAAT
1 ATTATAAT
110654423 ATTAT-AT
1 ATTATAAT
*
110654430 ATTATTAT
1 ATTATAAT
110654438 AT
1 AT
110654440 ATTTAATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (8 bp):
ATTATAAT
Found at i:110656320 original size:26 final size:26
Alignment explanation
Indices: 110656291--110656340 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
110656281 AAGTTTAATT
* *
110656291 AATTTTATATTTAAATAAGTTAATAA
1 AATTATATATTTAAATAAGATAATAA
110656317 AATTATATATTTAAATAAGATAAT
1 AATTATATATTTAAATAAGATAAT
110656341 TTATTAACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AATTATATATTTAAATAAGATAATAA
Found at i:110657556 original size:19 final size:20
Alignment explanation
Indices: 110657532--110657575 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
110657522 GTGAACGTGA
110657532 CAAAAAGCAT-TTT-GTGAGG
1 CAAAAAGCATATTTGGTG-GG
*
110657551 CAAAAATCATATTTGGTGGG
1 CAAAAAGCATATTTGGTGGG
110657571 CAAAA
1 CAAAA
110657576 GCCAAATGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 10 0.45
21 3 0.14
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.25
Consensus pattern (20 bp):
CAAAAAGCATATTTGGTGGG
Found at i:110657630 original size:2 final size:2
Alignment explanation
Indices: 110657623--110657651 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
110657613 TTAGTCAAAT
110657623 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
110657652 GCACACACAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:110666132 original size:25 final size:25
Alignment explanation
Indices: 110666063--110666140 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
110666053 AAAAAACTTG
* * *
110666063 AAATGTATATTTGAAATGTTTTATA
1 AAATATATTTTTGAAATATTTTATA
* *
110666088 ATATATATTTTTTAAA-ATTTTA-A
1 AAATATATTTTTGAAATATTTTATA
*
110666111 AAATATATTTTTGAAATTATTTTTTA
1 AAATATATTTTTGAAA-TATTTTATA
110666137 AAAT
1 AAAT
110666141 TTTAAATATT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
23 15 0.36
24 5 0.12
25 17 0.40
26 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (25 bp):
AAATATATTTTTGAAATATTTTATA
Found at i:110666151 original size:22 final size:22
Alignment explanation
Indices: 110666126--110666192 Score: 77
Period size: 20 Copynumber: 3.1 Consensus size: 22
110666116 TATTTTTGAA
*
110666126 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
*
110666148 ATTA--TTTTCAAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
*
110666168 A-TATTTTTTAATAATATAAAAT
1 ATTATTTTTTAA-AATATTAAAT
110666190 ATT
1 ATT
110666193 TAAATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.05
20 15 0.41
21 5 0.14
22 14 0.38
23 1 0.03
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:110666251 original size:17 final size:16
Alignment explanation
Indices: 110666231--110666299 Score: 56
Period size: 17 Copynumber: 4.3 Consensus size: 16
110666221 ATTTATTATT
110666231 AATTTTATAATATTTTA
1 AATTTTA-AATATTTTA
110666248 AATTTTAAATATTTTTTA
1 AATTTTAAATA--TTTTA
* *
110666266 AA-ATTAAA-ATATT-
1 AATTTTAAATATTTTA
110666279 AATTCTTAAA-ATTTTA
1 AATT-TTAAATATTTTA
110666295 AATTT
1 AATTT
110666300 AATTTAAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 2 0.05
14 3 0.07
15 10 0.23
16 9 0.21
17 12 0.28
18 7 0.16
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AATTTTAAATATTTTA
Found at i:110666301 original size:21 final size:21
Alignment explanation
Indices: 110666242--110666309 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 21
110666232 ATTTTATAAT
110666242 ATTTT-AAATTTTAAATATT-
1 ATTTTAAAATTTTAAATATTA
*
110666261 -TTTTAAAA-TTAAAATATTA
1 ATTTTAAAATTTTAAATATTA
110666280 ATTCTTAAAATTTTAAAT-TTA
1 ATT-TTAAAATTTTAAATATTA
*
110666301 ATTTAAAAA
1 ATTTTAAAA
110666310 ATGTTTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 13 0.32
19 3 0.07
20 7 0.17
21 12 0.29
22 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAAATTTTAAATATTA
Found at i:110666378 original size:20 final size:19
Alignment explanation
Indices: 110666347--110666463 Score: 60
Period size: 20 Copynumber: 5.6 Consensus size: 19
110666337 TAAAATTAAT
110666347 AATTTATAAAATTTATATTTA
1 AATTTATAAAA--TATATTTA
110666368 AATTT-TAAAATATATTTAA
1 AATTTATAAAATATATTT-A
*
110666387 AATATATATTTAAAATAT-TATAA
1 AAT-T-TA--TAAAATATAT-TTA
**
110666410 AATAAATTAAAATAATATTTAA
1 AATTTA-TAAAAT-ATATTT-A
110666432 AATTTA-AAATATATATTTAA
1 AATTTATAAA-ATATATTT-A
110666452 AATATTATAAAA
1 AAT-TTATAAAA
110666464 CAAATAATAA
Statistics
Matches: 77, Mismatches: 6, Indels: 26
0.71 0.06 0.24
Matches are distributed among these distances:
18 7 0.09
19 4 0.05
20 27 0.35
21 16 0.21
22 9 0.12
23 5 0.06
24 9 0.12
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTATAAAATATATTTA
Found at i:110666393 original size:13 final size:13
Alignment explanation
Indices: 110666377--110666456 Score: 69
Period size: 13 Copynumber: 7.2 Consensus size: 13
110666367 AAATTTTAAA
110666377 ATATATTTAAAAT
1 ATATATTTAAAAT
110666390 ATATATTTAAAAT
1 ATATATTTAAAAT
110666403 AT-TA--TAAAAT
1 ATATATTTAAAAT
110666413 A-A-A-TTAAAAT
1 ATATATTTAAAAT
110666423 A-ATATTT---A-
1 ATATATTTAAAAT
110666431 A-A-ATTTAAAAT
1 ATATATTTAAAAT
110666442 ATATATTTAAAAT
1 ATATATTTAAAAT
110666455 AT
1 AT
110666457 TATAAAACAA
Statistics
Matches: 57, Mismatches: 0, Indels: 20
0.74 0.00 0.26
Matches are distributed among these distances:
7 4 0.07
8 2 0.04
9 2 0.04
10 16 0.28
11 2 0.04
12 5 0.09
13 26 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATATATTTAAAAT
Found at i:110666431 original size:32 final size:33
Alignment explanation
Indices: 110666353--110666456 Score: 137
Period size: 32 Copynumber: 3.2 Consensus size: 33
110666343 TAATAATTTA
*
110666353 TAAAATTTATATTT-AAATTT-TAAAATATATT
1 TAAAATATATATTTAAAATTTATAAAATATATT
*
110666384 TAAAATATATATTTAAAATATTATAAAATA-AAT
1 TAAAATATATATTTAAAAT-TTATAAAATATATT
110666417 TAAAATA-ATATTTAAAATTTA-AAATATATATT
1 TAAAATATATATTTAAAATTTATAAA-ATATATT
110666449 TAAAATAT
1 TAAAATAT
110666457 TATAAAACAA
Statistics
Matches: 64, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
30 3 0.05
31 19 0.30
32 24 0.38
33 11 0.17
34 7 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (33 bp):
TAAAATATATATTTAAAATTTATAAAATATATT
Found at i:110666445 original size:18 final size:19
Alignment explanation
Indices: 110666360--110666458 Score: 78
Period size: 20 Copynumber: 4.8 Consensus size: 19
110666350 TTATAAAATT
*
110666360 TATATTT-AAATTTTAAAA
1 TATATTTAAAATATTAAAA
110666378 TATATTTAAAATATATATTTAAA
1 TATATTTAAAATAT-TA---AAA
110666401 -ATATTATAAAATAAATTAAAA
1 TATATT-TAAAAT--ATTAAAA
110666422 TAATATTTAAAAT-TTAAAATA
1 T-ATATTTAAAATATT-AAA-A
110666443 TATATTTAAAATATTA
1 TATATTTAAAATATTA
110666459 TAAAACAAAT
Statistics
Matches: 67, Mismatches: 1, Indels: 24
0.73 0.01 0.26
Matches are distributed among these distances:
18 7 0.10
19 7 0.10
20 17 0.25
21 7 0.10
22 11 0.16
23 14 0.21
24 2 0.03
25 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TATATTTAAAATATTAAAA
Found at i:110666525 original size:19 final size:20
Alignment explanation
Indices: 110666505--110666572 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 20
110666495 AAATATTTAA
* *
110666505 ATATTTTATATTATTAAAAAT
1 ATATTTAATATT-TAAAAAAT
110666526 ATATTTAATATTTAAAAAAT
1 ATATTTAATATTTAAAAAAT
*
110666546 AATATTTAAAATTTAAAAAAAT
1 -ATATTTAATATTT-AAAAAAT
110666568 ATATT
1 ATATT
110666573 ATAAAACATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
20 7 0.17
21 28 0.67
22 7 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATATTTAATATTTAAAAAAT
Found at i:110666571 original size:21 final size:20
Alignment explanation
Indices: 110666520--110666578 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
110666510 TTATATTATT
*
110666520 AAAAATATATTTAATATTTA
1 AAAAATATATTTAAAATTTA
110666540 AAAAATAATATTTAAAATTTAA
1 AAAAAT-ATATTTAAAATTT-A
110666562 AAAAATATATTATAAAA
1 AAAAATATATT-TAAAA
110666579 CATTTTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
20 6 0.17
21 17 0.49
22 12 0.34
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAATATATTTAAAATTTA
Found at i:110666637 original size:13 final size:13
Alignment explanation
Indices: 110666619--110666644 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
110666609 AATTATTAAT
110666619 AATAAATAAATAA
1 AATAAATAAATAA
110666632 AATAAATAAATAA
1 AATAAATAAATAA
110666645 GGACAAAGAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAAATAAATAA
Found at i:110671517 original size:3 final size:3
Alignment explanation
Indices: 110671509--110671540 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
110671499 AAACGATGCA
110671509 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
110671541 ATCCAACTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Done.