Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 36 of 141
Found at i:10786459 original size:19 final size:19
Alignment explanation
Indices: 10786435--10786477 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
10786425 TAAAAAACAG
*
10786435 AAAAAAGCAAAAAGCGCAA
1 AAAAAACCAAAAAGCGCAA
10786454 AAAAAACCAAAAAGCGCAA
1 AAAAAACCAAAAAGCGCAA
10786473 AAAAA
1 AAAAA
10786478 GTTGCATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.72, C:0.16, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAACCAAAAAGCGCAA
Found at i:10792994 original size:12 final size:12
Alignment explanation
Indices: 10792977--10793004 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
10792967 CAAGCCCTAT
10792977 TTTTATTTTTTA
1 TTTTATTTTTTA
10792989 TTTTATTTTTTA
1 TTTTATTTTTTA
10793001 TTTT
1 TTTT
10793005 CTAGATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (12 bp):
TTTTATTTTTTA
Found at i:10793028 original size:23 final size:21
Alignment explanation
Indices: 10792988--10793088 Score: 59
Period size: 20 Copynumber: 4.8 Consensus size: 21
10792978 TTTATTTTTT
*
10792988 ATTTTATTTTTTATTTTCTAG
1 ATTTTATTTTTTAGTTTCTAG
**
10793009 ATTTATATATTTTTAGTTTCTTT
1 ATTT-TAT-TTTTTAGTTTCTAG
* * *
10793032 A-TTTATCTTTTATTTTCTAA
1 ATTTTATTTTTTAGTTTCTAG
*
10793052 ATTTATATCTTTTA-TTT-T--
1 ATTT-TATTTTTTAGTTTCTAG
10793070 ATTTTATTTTATTATGTTT
1 ATTTTATTTT-TTA-GTTT
10793089 TTTTATTATG
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.08
18 7 0.11
20 15 0.23
21 12 0.18
22 14 0.22
23 12 0.18
ACGTcount: A:0.22, C:0.05, G:0.03, T:0.70
Consensus pattern (21 bp):
ATTTTATTTTTTAGTTTCTAG
Found at i:10793043 original size:43 final size:42
Alignment explanation
Indices: 10792974--10793081 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
10792964 TCCCAAGCCC
* *
10792974 TATTTTTATTTTTTATTTTATTTTTTATTTTCTAGATTTATA
1 TATTTTTATTTTTTATTTTATCTTTTATTTTCTAAATTTATA
10793016 TATTTTTAGTTTCTTTA-TTTATCTTTTATTTTCTAAATTTATA
1 TATTTTTA-TTT-TTTATTTTATCTTTTATTTTCTAAATTTATA
* *
10793059 TCTTTTATTTTATTTTATTTTAT
1 TATTTT-TATT-TTTTATTTTAT
10793082 TATGTTTTTT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
42 8 0.14
43 38 0.67
44 11 0.19
ACGTcount: A:0.21, C:0.05, G:0.02, T:0.72
Consensus pattern (42 bp):
TATTTTTATTTTTTATTTTATCTTTTATTTTCTAAATTTATA
Found at i:10793063 original size:22 final size:21
Alignment explanation
Indices: 10792988--10793069 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 21
10792978 TTTATTTTTT
* *
10792988 ATTTTATTTTTTATTTTCTAG
1 ATTTTATCTTTTATTTTCTAA
* * **
10793009 ATTTATATATTTTTAGTTTCTTT
1 ATTT-TAT-CTTTTATTTTCTAA
10793032 A-TTTATCTTTTATTTTCTAA
1 ATTTTATCTTTTATTTTCTAA
10793052 ATTTATATCTTTTATTTT
1 ATTT-TATCTTTTATTTT
10793070 ATTTTATTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
20 11 0.22
21 9 0.18
22 18 0.36
23 12 0.24
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (21 bp):
ATTTTATCTTTTATTTTCTAA
Found at i:10802356 original size:15 final size:16
Alignment explanation
Indices: 10802328--10802360 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10802318 TCTTTAACAG
*
10802328 AAATAAAGATAAAAGA
1 AAATAAAGAAAAAAGA
10802344 AAATAAA-AAAAAAGA
1 AAATAAAGAAAAAAGA
10802359 AA
1 AA
10802361 TAGAGAGATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAATAAAGAAAAAAGA
Found at i:10809297 original size:25 final size:26
Alignment explanation
Indices: 10809230--10809297 Score: 81
Period size: 23 Copynumber: 2.8 Consensus size: 26
10809220 TAGCTCCAAA
10809230 GAGCCATTAATCGGGAAG-TTCAAGC
1 GAGCCATTAATCGGGAAGCTTCAAGC
* *
10809255 GAGCCA-T-ATCGGGAAGCTTC-GGG
1 GAGCCATTAATCGGGAAGCTTCAAGC
*
10809278 GAGCCATTAATCAGGAAGCT
1 GAGCCATTAATCGGGAAGCT
10809298 CACAAAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 16 0.43
24 5 0.14
25 16 0.43
ACGTcount: A:0.29, C:0.21, G:0.31, T:0.19
Consensus pattern (26 bp):
GAGCCATTAATCGGGAAGCTTCAAGC
Found at i:10809342 original size:26 final size:26
Alignment explanation
Indices: 10809228--10809345 Score: 95
Period size: 26 Copynumber: 4.7 Consensus size: 26
10809218 AATAGCTCCA
* *
10809228 AAGAGCCATTAATCGGGAAGTTCAAG
1 AAGAGCCATTAATCGGGAAGCTCACG
* *
10809254 -CGAGCCA-T-ATCGGGAAGCT-TCG
1 AAGAGCCATTAATCGGGAAGCTCACG
** * *
10809276 GGGAGCCATTAATCAGGAAGCTCACA
1 AAGAGCCATTAATCGGGAAGCTCACG
*
10809302 AAAAG-CATTTAATCGGGAAGCTCACG
1 AAGAGCCA-TTAATCGGGAAGCTCACG
10809328 AAGAGCCA-TATATCGGGA
1 AAGAGCCATTA-ATCGGGA
10809346 CGTTCATAAG
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 16 0.23
24 2 0.03
25 20 0.28
26 30 0.42
27 2 0.03
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AAGAGCCATTAATCGGGAAGCTCACG
Found at i:10816439 original size:32 final size:32
Alignment explanation
Indices: 10816396--10816458 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
10816386 TTTAAAAGAG
* * *
10816396 ACATAATTATTCAATTAATATCTCTTAAATAA
1 ACATAACTATTCAAGTAATATCACTTAAATAA
*
10816428 ACATAACTATTCAAGTAATATCACTTGAATA
1 ACATAACTATTCAAGTAATATCACTTAAATA
10816459 GTTATAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (32 bp):
ACATAACTATTCAAGTAATATCACTTAAATAA
Found at i:10829846 original size:13 final size:13
Alignment explanation
Indices: 10829830--10829889 Score: 84
Period size: 13 Copynumber: 4.5 Consensus size: 13
10829820 AAATGTGTGA
10829830 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* *
10829843 ATGAAATGATTAC
1 ATGAAATGGTTAT
10829856 ATGAAATGGTTAT
1 ATGAAATGGTTAT
*
10829869 ATGAATTGGTTAT
1 ATGAAATGGTTAT
10829882 ATGGAAAT
1 AT-GAAAT
10829890 AGATGTATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 36 0.90
14 4 0.10
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.37
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:10834627 original size:18 final size:18
Alignment explanation
Indices: 10834587--10834627 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10834577 ATAAAATTAA
10834587 AATTTATTTTTATTTATT
1 AATTTATTTTTATTTATT
*
10834605 TATTTATTTTCTATTT-TT
1 AATTTATTTT-TATTTATT
10834623 AATTT
1 AATTT
10834628 TTTGTATATC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (18 bp):
AATTTATTTTTATTTATT
Found at i:10836688 original size:37 final size:37
Alignment explanation
Indices: 10836646--10836736 Score: 137
Period size: 37 Copynumber: 2.5 Consensus size: 37
10836636 TAATCAACAA
* *
10836646 TAAAGATTCTCTGCAAAGAAAAGATGGAGATCAATAG
1 TAAAGATTCTCTGCAAAGAAAAGACGGAGATCAAGAG
* *
10836683 TAAAGATTATCTGCAAAGAAAAGACGGAGATTAAGAG
1 TAAAGATTCTCTGCAAAGAAAAGACGGAGATCAAGAG
*
10836720 TGAAGATTCTCTGCAAA
1 TAAAGATTCTCTGCAAA
10836737 AGTTTTGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.45, C:0.11, G:0.22, T:0.22
Consensus pattern (37 bp):
TAAAGATTCTCTGCAAAGAAAAGACGGAGATCAAGAG
Found at i:10838443 original size:37 final size:37
Alignment explanation
Indices: 10838394--10838467 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
10838384 TCATAATTAG
* * * *
10838394 TTTTGAATTCAATTTTTAAGATATTTACTTAATTTTT
1 TTTTAAATTCAATCTTTAAGATATTTACATAAATTTT
*
10838431 TTTTAAATTCAATCTTTAAGATTTTTACATAAATTTT
1 TTTTAAATTCAATCTTTAAGATATTTACATAAATTTT
10838468 CAAGATAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (37 bp):
TTTTAAATTCAATCTTTAAGATATTTACATAAATTTT
Found at i:10838533 original size:22 final size:22
Alignment explanation
Indices: 10838492--10838534 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10838482 TCTTTTACCT
* **
10838492 TTATTTAAGTTCACGGTAAGTA
1 TTATTTAAGCTCACAATAAGTA
10838514 TTATTTAAGCTCACAATAAGT
1 TTATTTAAGCTCACAATAAGT
10838535 GTTGTAGTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTATTTAAGCTCACAATAAGTA
Found at i:10838572 original size:13 final size:13
Alignment explanation
Indices: 10838554--10838578 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10838544 ATTCGTCTTC
10838554 AAATATATATATG
1 AAATATATATATG
10838567 AAATATATATAT
1 AAATATATATAT
10838579 TCCATTAAAT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AAATATATATATG
Found at i:10839241 original size:84 final size:84
Alignment explanation
Indices: 10839083--10839388 Score: 333
Period size: 84 Copynumber: 3.6 Consensus size: 84
10839073 AACAAGCCGA
* * * * *
10839083 CAAGCAACCACTCAAATTCTTGCAACCAATTTGCCTCCTACCACCACTAAGCCTCGTGTAGCAAC
1 CAAGCAACCACTCAAACTCTTACAACCAATTTGCCTCCTACCACCACTAAGCCTCATGCATCAAC
*
10839148 AATTGAGGCCCTAAACCAG
66 AATTAAGGCCCTAAACCAG
* * ** * * *
10839167 CAAGCAATCACTCAAACTCCTACAACCAATCGGCCTCCTACCACCATTAAGCTTCTTGCATCAAC
1 CAAGCAACCACTCAAACTCTTACAACCAATTTGCCTCCTACCACCACTAAGCCTCATGCATCAAC
* * *
10839232 CACTAAGGCCTTAAACCAG
66 AATTAAGGCCCTAAACCAG
* * * * * *
10839251 CAAGTAACCACCCAAACTCTTACAACCAATTTGTCTCCTGCCACTACTAAGCCTCATGCATCAAT
1 CAAGCAACCACTCAAACTCTTACAACCAATTTGCCTCCTACCACCACTAAGCCTCATGCATCAAC
* *
10839316 AATTAGGGCCCTAAACTAG
66 AATTAAGGCCCTAAACCAG
* * * * * * *
10839335 CATGCAACCACTCAGATTCTTGCAACCAGTTTGCTTCCTACCACTACTAAGCCT
1 CAAGCAACCACTCAAACTCTTACAACCAATTTGCCTCCTACCACCACTAAGCCT
10839389 GTTACAATGA
Statistics
Matches: 179, Mismatches: 43, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
84 179 1.00
ACGTcount: A:0.32, C:0.35, G:0.11, T:0.23
Consensus pattern (84 bp):
CAAGCAACCACTCAAACTCTTACAACCAATTTGCCTCCTACCACCACTAAGCCTCATGCATCAAC
AATTAAGGCCCTAAACCAG
Found at i:10841244 original size:15 final size:15
Alignment explanation
Indices: 10841226--10841255 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10841216 AATTTAACTC
*
10841226 AATTTTAGTTAATTT
1 AATTTTAATTAATTT
10841241 AATTTTAATTAATTT
1 AATTTTAATTAATTT
10841256 TTTATTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (15 bp):
AATTTTAATTAATTT
Found at i:10843185 original size:992 final size:992
Alignment explanation
Indices: 10841261--10843244 Score: 3968
Period size: 992 Copynumber: 2.0 Consensus size: 992
10841251 AATTTTTTAT
10841261 TTTGATTTTAATCAATATTTGTATTGGGATGAAATTCATAATTAATTTTTTTTTCAAAAAAATAT
1 TTTGATTTTAATCAATATTTGTATTGGGATGAAATTCATAATTAATTTTTTTTTCAAAAAAATAT
10841326 ATTTGTTCAGTTTTTACAATCAAACAAGTGTTTTTTAATGGGTTCCTCATTTTGCAAAATGAAAA
66 ATTTGTTCAGTTTTTACAATCAAACAAGTGTTTTTTAATGGGTTCCTCATTTTGCAAAATGAAAA
10841391 CAAAGGTATTTCTTCTTACGAAGCCAAACGTGAAGCAATAAGTGGTCGGAGATCGGTTTCTAGGG
131 CAAAGGTATTTCTTCTTACGAAGCCAAACGTGAAGCAATAAGTGGTCGGAGATCGGTTTCTAGGG
10841456 TTGAGTTGGGTTGAAATCAATTTTTTTTTGTTTTTCCATAGTAATTTTGTGTTTTAAGTGTTGTA
196 TTGAGTTGGGTTGAAATCAATTTTTTTTTGTTTTTCCATAGTAATTTTGTGTTTTAAGTGTTGTA
10841521 TTTATTCTGATAAAACAGACTTTATTTTATAACTTTTTTCACATTATTTGATAGAATCTTAAAGT
261 TTTATTCTGATAAAACAGACTTTATTTTATAACTTTTTTCACATTATTTGATAGAATCTTAAAGT
10841586 ATTTTCATAAATACTTTTAAAATATTAATTTTTCAAGTAAATAAAAGAATAATTTACCACTCTTA
326 ATTTTCATAAATACTTTTAAAATATTAATTTTTCAAGTAAATAAAAGAATAATTTACCACTCTTA
10841651 TATATAAAAAAATATATAAACATTGTAATTTATTTGCACTTATTTAAATAAAAATTAAATTAATT
391 TATATAAAAAAATATATAAACATTGTAATTTATTTGCACTTATTTAAATAAAAATTAAATTAATT
10841716 ATAAATAAAATAAAATTCGATTCTGATGCACGATTTTTTAACTCTGCATTTTTATAAATGGTGTA
456 ATAAATAAAATAAAATTCGATTCTGATGCACGATTTTTTAACTCTGCATTTTTATAAATGGTGTA
10841781 AACACCTAAATTCAAATCAGTTTTTGATTTTATTTTTCCATTACTCTTATAAATAGAAACAGAAC
521 AACACCTAAATTCAAATCAGTTTTTGATTTTATTTTTCCATTACTCTTATAAATAGAAACAGAAC
10841846 TAAGCTGATGGAAGGCGGCCATTTTAACTTACAAGCTGGGTCACCCAACACATGTACTACTTTCA
586 TAAGCTGATGGAAGGCGGCCATTTTAACTTACAAGCTGGGTCACCCAACACATGTACTACTTTCA
10841911 GAAAACCTCAATGTGCCCTTGCACTTGCATTACCCCAAAAGAGAAATGGTAAAATTATAATAGAG
651 GAAAACCTCAATGTGCCCTTGCACTTGCATTACCCCAAAAGAGAAATGGTAAAATTATAATAGAG
10841976 AAGGAGCCAAGAGGGGTTTATTATATTTCTCAAAGAAGAAAAGAATGAAAAAACAAAGATTTAGA
716 AAGGAGCCAAGAGGGGTTTATTATATTTCTCAAAGAAGAAAAGAATGAAAAAACAAAGATTTAGA
10842041 AGGACTGACCAAAACTGAAGATCAGAAAGATATGTTAAGGCAGGAATATACACTTAAAGACATGG
781 AGGACTGACCAAAACTGAAGATCAGAAAGATATGTTAAGGCAGGAATATACACTTAAAGACATGG
10842106 CAGCATTGAAAAGAAACAGTCTTGGAGACTAATGGAGTTCCTCTGTGCAATTCCCATTCGTGTGT
846 CAGCATTGAAAAGAAACAGTCTTGGAGACTAATGGAGTTCCTCTGTGCAATTCCCATTCGTGTGT
10842171 TAACTAAGAAATACATAAATAGCTTAGGCTATCTTATTCTATGTATCACACAAATTTTCTTCTCC
911 TAACTAAGAAATACATAAATAGCTTAGGCTATCTTATTCTATGTATCACACAAATTTTCTTCTCC
10842236 TCTATATTATTTGTTGC
976 TCTATATTATTTGTTGC
10842253 TTTGATTTTAATCAATATTTGTATTGGGATGAAATTCATAATTAATTTTTTTTTCAAAAAAATAT
1 TTTGATTTTAATCAATATTTGTATTGGGATGAAATTCATAATTAATTTTTTTTTCAAAAAAATAT
10842318 ATTTGTTCAGTTTTTACAATCAAACAAGTGTTTTTTAATGGGTTCCTCATTTTGCAAAATGAAAA
66 ATTTGTTCAGTTTTTACAATCAAACAAGTGTTTTTTAATGGGTTCCTCATTTTGCAAAATGAAAA
10842383 CAAAGGTATTTCTTCTTACGAAGCCAAACGTGAAGCAATAAGTGGTCGGAGATCGGTTTCTAGGG
131 CAAAGGTATTTCTTCTTACGAAGCCAAACGTGAAGCAATAAGTGGTCGGAGATCGGTTTCTAGGG
10842448 TTGAGTTGGGTTGAAATCAATTTTTTTTTGTTTTTCCATAGTAATTTTGTGTTTTAAGTGTTGTA
196 TTGAGTTGGGTTGAAATCAATTTTTTTTTGTTTTTCCATAGTAATTTTGTGTTTTAAGTGTTGTA
10842513 TTTATTCTGATAAAACAGACTTTATTTTATAACTTTTTTCACATTATTTGATAGAATCTTAAAGT
261 TTTATTCTGATAAAACAGACTTTATTTTATAACTTTTTTCACATTATTTGATAGAATCTTAAAGT
10842578 ATTTTCATAAATACTTTTAAAATATTAATTTTTCAAGTAAATAAAAGAATAATTTACCACTCTTA
326 ATTTTCATAAATACTTTTAAAATATTAATTTTTCAAGTAAATAAAAGAATAATTTACCACTCTTA
10842643 TATATAAAAAAATATATAAACATTGTAATTTATTTGCACTTATTTAAATAAAAATTAAATTAATT
391 TATATAAAAAAATATATAAACATTGTAATTTATTTGCACTTATTTAAATAAAAATTAAATTAATT
10842708 ATAAATAAAATAAAATTCGATTCTGATGCACGATTTTTTAACTCTGCATTTTTATAAATGGTGTA
456 ATAAATAAAATAAAATTCGATTCTGATGCACGATTTTTTAACTCTGCATTTTTATAAATGGTGTA
10842773 AACACCTAAATTCAAATCAGTTTTTGATTTTATTTTTCCATTACTCTTATAAATAGAAACAGAAC
521 AACACCTAAATTCAAATCAGTTTTTGATTTTATTTTTCCATTACTCTTATAAATAGAAACAGAAC
10842838 TAAGCTGATGGAAGGCGGCCATTTTAACTTACAAGCTGGGTCACCCAACACATGTACTACTTTCA
586 TAAGCTGATGGAAGGCGGCCATTTTAACTTACAAGCTGGGTCACCCAACACATGTACTACTTTCA
10842903 GAAAACCTCAATGTGCCCTTGCACTTGCATTACCCCAAAAGAGAAATGGTAAAATTATAATAGAG
651 GAAAACCTCAATGTGCCCTTGCACTTGCATTACCCCAAAAGAGAAATGGTAAAATTATAATAGAG
10842968 AAGGAGCCAAGAGGGGTTTATTATATTTCTCAAAGAAGAAAAGAATGAAAAAACAAAGATTTAGA
716 AAGGAGCCAAGAGGGGTTTATTATATTTCTCAAAGAAGAAAAGAATGAAAAAACAAAGATTTAGA
10843033 AGGACTGACCAAAACTGAAGATCAGAAAGATATGTTAAGGCAGGAATATACACTTAAAGACATGG
781 AGGACTGACCAAAACTGAAGATCAGAAAGATATGTTAAGGCAGGAATATACACTTAAAGACATGG
10843098 CAGCATTGAAAAGAAACAGTCTTGGAGACTAATGGAGTTCCTCTGTGCAATTCCCATTCGTGTGT
846 CAGCATTGAAAAGAAACAGTCTTGGAGACTAATGGAGTTCCTCTGTGCAATTCCCATTCGTGTGT
10843163 TAACTAAGAAATACATAAATAGCTTAGGCTATCTTATTCTATGTATCACACAAATTTTCTTCTCC
911 TAACTAAGAAATACATAAATAGCTTAGGCTATCTTATTCTATGTATCACACAAATTTTCTTCTCC
10843228 TCTATATTATTTGTTGC
976 TCTATATTATTTGTTGC
10843245 AGAGGGTACT
Statistics
Matches: 992, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
992 992 1.00
ACGTcount: A:0.36, C:0.13, G:0.14, T:0.36
Consensus pattern (992 bp):
TTTGATTTTAATCAATATTTGTATTGGGATGAAATTCATAATTAATTTTTTTTTCAAAAAAATAT
ATTTGTTCAGTTTTTACAATCAAACAAGTGTTTTTTAATGGGTTCCTCATTTTGCAAAATGAAAA
CAAAGGTATTTCTTCTTACGAAGCCAAACGTGAAGCAATAAGTGGTCGGAGATCGGTTTCTAGGG
TTGAGTTGGGTTGAAATCAATTTTTTTTTGTTTTTCCATAGTAATTTTGTGTTTTAAGTGTTGTA
TTTATTCTGATAAAACAGACTTTATTTTATAACTTTTTTCACATTATTTGATAGAATCTTAAAGT
ATTTTCATAAATACTTTTAAAATATTAATTTTTCAAGTAAATAAAAGAATAATTTACCACTCTTA
TATATAAAAAAATATATAAACATTGTAATTTATTTGCACTTATTTAAATAAAAATTAAATTAATT
ATAAATAAAATAAAATTCGATTCTGATGCACGATTTTTTAACTCTGCATTTTTATAAATGGTGTA
AACACCTAAATTCAAATCAGTTTTTGATTTTATTTTTCCATTACTCTTATAAATAGAAACAGAAC
TAAGCTGATGGAAGGCGGCCATTTTAACTTACAAGCTGGGTCACCCAACACATGTACTACTTTCA
GAAAACCTCAATGTGCCCTTGCACTTGCATTACCCCAAAAGAGAAATGGTAAAATTATAATAGAG
AAGGAGCCAAGAGGGGTTTATTATATTTCTCAAAGAAGAAAAGAATGAAAAAACAAAGATTTAGA
AGGACTGACCAAAACTGAAGATCAGAAAGATATGTTAAGGCAGGAATATACACTTAAAGACATGG
CAGCATTGAAAAGAAACAGTCTTGGAGACTAATGGAGTTCCTCTGTGCAATTCCCATTCGTGTGT
TAACTAAGAAATACATAAATAGCTTAGGCTATCTTATTCTATGTATCACACAAATTTTCTTCTCC
TCTATATTATTTGTTGC
Found at i:10854819 original size:55 final size:55
Alignment explanation
Indices: 10854743--10854855 Score: 181
Period size: 55 Copynumber: 2.1 Consensus size: 55
10854733 CATGCCATAG
* * *
10854743 TTAGCGAACTGTAAGCGGAAGTCCAACAATTGTCCAAGGCAAAAAATACAAAGGC
1 TTAGAGAACTGTAAGCAGAAGTCCAACAATTATCCAAGGCAAAAAATACAAAGGC
* *
10854798 TTAGAGAACTGTAGGCAGAAGTTCAACAATTATCCAAGGCAAAAAATACAAAGGC
1 TTAGAGAACTGTAAGCAGAAGTCCAACAATTATCCAAGGCAAAAAATACAAAGGC
10854853 TTA
1 TTA
10854856 CACTTTATCC
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (55 bp):
TTAGAGAACTGTAAGCAGAAGTCCAACAATTATCCAAGGCAAAAAATACAAAGGC
Found at i:10856586 original size:74 final size:74
Alignment explanation
Indices: 10856489--10856633 Score: 168
Period size: 74 Copynumber: 2.0 Consensus size: 74
10856479 ATTATTGTTT
** * ** * *
10856489 ATGATTAGCTCGGACGAGTAATTGATACTTGTTGTATAGGTTCAACCCGA-AC-GAGTGACTAGA
1 ATGATTAGCTCAAACGAGAAATTGATAAATATTGTATAGGTTCAACCC-ATACTG-GTAACTAGA
10856552 CACTATTATTC
64 CACTATTATTC
* * *
10856563 ATGATTAGCTCAAATGAGAAATTGATAAATATTGTGTAGGTTTAACCCATACTGGTAACTAGACA
1 ATGATTAGCTCAAACGAGAAATTGATAAATATTGTATAGGTTCAACCCATACTGGTAACTAGACA
10856628 CTATTA
66 CTATTA
10856634 CTTTCACCTG
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
73 1 0.02
74 57 0.97
75 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (74 bp):
ATGATTAGCTCAAACGAGAAATTGATAAATATTGTATAGGTTCAACCCATACTGGTAACTAGACA
CTATTATTC
Found at i:10858961 original size:71 final size:71
Alignment explanation
Indices: 10858841--10858972 Score: 185
Period size: 71 Copynumber: 1.9 Consensus size: 71
10858831 TCACAACTTA
* * *
10858841 AGTTCATTGATTAACGATCATAAATAGTTCATTTTGAGTTTGCTGATTTACGATCGCAACTCTAT
1 AGTTCATTGATTAACGATCATAAACAGTTCATTTTGAGTTGGCTGATTTACGATCACAACTCTAT
10858906 TCAAAC
66 TCAAAC
* * * *
10858912 AGTTCGTTGATTTACGATCATGAACAGTTCATTTTGAGTTCGGGT-ATTTACGATCACAACT
1 AGTTCATTGATTAACGATCATAAACAGTTCATTTTGAGTT-GGCTGATTTACGATCACAACT
10858973 GGTATTATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
71 51 0.96
72 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.38
Consensus pattern (71 bp):
AGTTCATTGATTAACGATCATAAACAGTTCATTTTGAGTTGGCTGATTTACGATCACAACTCTAT
TCAAAC
Found at i:10859095 original size:170 final size:170
Alignment explanation
Indices: 10858787--10859104 Score: 447
Period size: 170 Copynumber: 1.9 Consensus size: 170
10858777 CAGATCGTTG
* * * *
10858787 ATTTATGATCACGACTGGAATTATTAAAGCTTGTTGATTTACAATCACAACTTAAGTTCATTGAT
1 ATTTACGATCACAACTGGAATTATTAAAGCTTGCTAATTTACAATCACAACTTAAGTTCATTGAT
* * * * * * *
10858852 TAACGATCATAAATAGTTCATTTTGAGTTTGCTGATTTACGATCGCAACTCTATTCAAACAGTTC
66 TAACGATCATAAACAGTTCATTATGAGTTCGCTCATTCACGATCGCAACTCCATTCAAACAATTC
* *
10858917 GTTGATTTACGATCATGAACAGTTCATTTTGAGTTCGGGT
131 GCTGATTTACAATCATGAACAGTTCATTTTGAGTTCGGGT
* *
10858957 ATTTACGATCACAACTGGTATTATTAAAGCTTGCTAATTTACAATCACAGCTTAAGTTCATTGAT
1 ATTTACGATCACAACTGGAATTATTAAAGCTTGCTAATTTACAATCACAACTTAAGTTCATTGAT
* * * * * *
10859022 TTACGATCATGACCAGTTCATTATGAGTTCGCTCATTCATGATTGTAACTCCATTCAAACAATTC
66 TAACGATCATAAACAGTTCATTATGAGTTCGCTCATTCACGATCGCAACTCCATTCAAACAATTC
10859087 GCTGATTTACAATCATGA
131 GCTGATTTACAATCATGA
10859105 CTAGAATTAT
Statistics
Matches: 127, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
170 127 1.00
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (170 bp):
ATTTACGATCACAACTGGAATTATTAAAGCTTGCTAATTTACAATCACAACTTAAGTTCATTGAT
TAACGATCATAAACAGTTCATTATGAGTTCGCTCATTCACGATCGCAACTCCATTCAAACAATTC
GCTGATTTACAATCATGAACAGTTCATTTTGAGTTCGGGT
Found at i:10859138 original size:134 final size:134
Alignment explanation
Indices: 10858957--10859585 Score: 636
Period size: 134 Copynumber: 4.7 Consensus size: 134
10858947 GAGTTCGGGT
* * * * * *
10858957 ATTTACGATCACAACTGGTATTATTAAAGCTTGCTAATTTACAATCACAGCTTAAGTTCATTGAT
1 ATTTACAATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * * ** * *
10859022 TTACGATCATGACCAGTTCATTATGAGTTCGCTCATTCATGATTGTAACTCCATTCAAACAATTC
66 TTACGATCATGAACAGTTCATTTTGAGTTCGCTCATTTACAATCGCAACTCCATTCAAACAATTC
*
10859087 GCTG
131 ACTG
* * * * * * * * *
10859091 ATTTACAATCATGACTAGAATTATTAAAGCTTACTGATTTGCTATCACAGCTTAGGTTTATTAAT
1 ATTTACAATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* *
10859156 TTATGATCATAAACAGTTCATTTTGAGTTCGC-CAATTTACAATCGCAACTCCATTCAAA-AAGT
66 TTACGATCATGAACAGTTCATTTTGAGTTCGCTC-ATTTACAATCGCAACTCCATTCAAACAA-T
10859219 TCACTG
129 TCACTG
* * * *
10859225 ATTTACGATCACAACTAGTATTATTAAAGCTTACTGATTTACGATCACAACTTAAGTTTATTGAT
1 ATTTACAATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * * * *
10859290 TTACGATCATGAACAGTTGATTTTGAGCTT-GTTGATTTACAATTGCAACTCCATTCAAACAGTT
66 TTACGATCATGAACAGTTCATTTTGAG-TTCGCTCATTTACAATCGCAACTCCATTCAAACAATT
*
10859354 CGCTG
130 CACTG
** * * * * * * * * *
10859359 ATTTATGATTATGAATGGTATTATTAAAGCATGTTAATTTAAGATCAC-ACTTAAGTTAATTGAT
1 ATTTACAATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * * * * ** * *
10859423 TTACGATCATGAATAATTCGTTTTGAGTTCACTGATTTACGGTCACAACTCCATTCAAACAGTTC
66 TTACGATCATGAACAGTTCATTTTGAGTTCGCTCATTTACAATCGCAACTCCATTCAAACAATTC
10859488 ACTG
131 ACTG
* * *
10859492 ATTTACAATCACGACTGGTATTATTAAAGCTTGTTGATTTATGATCACAACTTAAGTTCATTGAT
1 ATTTACAATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * * * *
10859557 TTATGATCACGAACAATTTATTTTTAGTT
66 TTACGATCATGAACAGTTCATTTTGAGTT
10859586 TGTCAATTTA
Statistics
Matches: 411, Mismatches: 77, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
132 2 0.00
133 113 0.27
134 293 0.71
135 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (134 bp):
ATTTACAATCACGACTAGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
TTACGATCATGAACAGTTCATTTTGAGTTCGCTCATTTACAATCGCAACTCCATTCAAACAATTC
ACTG
Found at i:10859540 original size:267 final size:268
Alignment explanation
Indices: 10858957--10859585 Score: 758
Period size: 268 Copynumber: 2.4 Consensus size: 268
10858947 GAGTTCGGGT
* * *
10858957 ATTTACGATCACAACTGGTATTATTAAAGCTTGCTAATTTACAATCACAGCTTAAGTTCATTGAT
1 ATTTACGATCACAACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * ** *
10859022 TTACGATCATGACCAGTTCATTATGAGTTCGCTCATTCATGATTGTAACTCCATTCAAACAATTC
66 TTACGATCATGAACAGTTCATTTTGAGTTCGCTCATTCACAATTGCAACTCCATTCAAACAATTC
* * * *** * *
10859087 GCTGATTTACAATCATGACTAGAATTATTAAAGCTTACTGATTTGCTATCACAGCTTAGGTTTAT
131 GCTGATTTACAATCATGAATAGAATTATTAAAGCATACTAATTTAAGATCACAGCTTAAGTTAAT
* * * *
10859152 TAATTTATGATCATAAACAGTTCATTTTGAGTTCGCCAATTTACAATCGCAACTCCATTCAAAAA
196 TAATTTACGATCATAAACAATTCATTTTGAGTTCACCAATTTACAATCACAACTCCATTCAAAAA
10859217 GTTCACTG
261 GTTCACTG
* * *
10859225 ATTTACGATCACAACTAGTATTATTAAAGCTTACTGATTTACGATCACAACTTAAGTTTATTGAT
1 ATTTACGATCACAACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * * * *
10859290 TTACGATCATGAACAGTTGATTTTGAGCTT-GTTGATTTACAATTGCAACTCCATTCAAACAGTT
66 TTACGATCATGAACAGTTCATTTTGAG-TTCGCTCATTCACAATTGCAACTCCATTCAAACAATT
** * * * **
10859354 CGCTGATTTATGATTATGAATGGTATTATTAAAGCATGTTAATTTAAGATCACA-CTTAAGTTAA
130 CGCTGATTTACAATCATGAATAGAATTATTAAAGCATACTAATTTAAGATCACAGCTTAAGTTAA
* * * * ** ** *
10859418 TTGATTTACGATCATGAATAATTCGTTTTGAGTTCACTGATTTACGGTCACAACTCCATTCAAAC
195 TTAATTTACGATCATAAACAATTCATTTTGAGTTCACCAATTTACAATCACAACTCCATTCAAAA
10859483 AGTTCACTG
260 AGTTCACTG
* * * *
10859492 ATTTACAATCACGACTGGTATTATTAAAGCTTGTTGATTTATGATCACAACTTAAGTTCATTGAT
1 ATTTACGATCACAACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
* * * * *
10859557 TTATGATCACGAACAATTTATTTTTAGTT
66 TTACGATCATGAACAGTTCATTTTGAGTT
10859586 TGTCAATTTA
Statistics
Matches: 304, Mismatches: 56, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
266 2 0.01
267 149 0.49
268 151 0.50
269 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (268 bp):
ATTTACGATCACAACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGAT
TTACGATCATGAACAGTTCATTTTGAGTTCGCTCATTCACAATTGCAACTCCATTCAAACAATTC
GCTGATTTACAATCATGAATAGAATTATTAAAGCATACTAATTTAAGATCACAGCTTAAGTTAAT
TAATTTACGATCATAAACAATTCATTTTGAGTTCACCAATTTACAATCACAACTCCATTCAAAAA
GTTCACTG
Found at i:10859670 original size:99 final size:99
Alignment explanation
Indices: 10859492--10859705 Score: 295
Period size: 99 Copynumber: 2.2 Consensus size: 99
10859482 CAGTTCACTG
* * *
10859492 ATTTACAATCACGACTGGTATTATTAAAGCTTGTTGATTTATGATCACAACTTAAGTTCATTGAT
1 ATTTACAATCACAACTGGTATTATTAAAACTTGTTGATTTATGATCACAACTTAAGTTCACTGAT
* * *
10859557 TTATGATCACGAACAATTTATTTTTAGTTTGTCA
66 TTACGATCACGAACAATTCATTTTAAGTTTGTCA
* *
10859591 ATTTACGATCACAACTGGTATTATTAAAACTTGTTGATTTATGATCACAATTTAAGTTCACTGAT
1 ATTTACAATCACAACTGGTATTATTAAAACTTGTTGATTTATGATCACAACTTAAGTTCACTGAT
* * * *
10859656 TTACGATTATGAACAGTTCATTTTAAG-TTCTCTA
66 TTACGATCACGAACAATTCATTTTAAGTTTGTC-A
*
10859690 ATTTACAATCGCAACT
1 ATTTACAATCACAACT
10859706 TTATTCAAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
98 4 0.04
99 96 0.96
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.41
Consensus pattern (99 bp):
ATTTACAATCACAACTGGTATTATTAAAACTTGTTGATTTATGATCACAACTTAAGTTCACTGAT
TTACGATCACGAACAATTCATTTTAAGTTTGTCA
Found at i:10859714 original size:233 final size:232
Alignment explanation
Indices: 10859374--10859818 Score: 620
Period size: 233 Copynumber: 1.9 Consensus size: 232
10859364 TGATTATGAA
* * *
10859374 TGGTATTATTAAAGCATGTTAATTTAAGATCACACTTAAGTTAATTGATTTACGATCATGAATAA
1 TGGTATTATTAAAACATGTTAATTTAAGATCACACTTAAGTTAACTGATTTACGATCATGAACAA
* * * ** *
10859439 TTCGTTTTGAGTTCACTGATTTACGGTCACAACTCCATTCAAACAGTTCACTGATTTACAATCAC
66 TTCATTTTAAGTTCACTAATTTACAATCACAACTCCATTCAAAAAGTTCACTGATTTACAATCAC
* * **
10859504 GACTGGTATTATTAAAGCTTGTTGATTTATGATCACAACTTAAGTTCATTGATTTATGATCACGA
131 GACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGATTTACAATCACGA
*
10859569 ACAATTTATTTTTAGTTTGTCAATTTACGATCACAAC
196 ACAATTTATTTTGAGTTTGTCAATTTACGATCACAAC
* * * * * *
10859606 TGGTATTATTAAAACTTGTTGATTTATGATCACAATTTAAGTTCACTGATTTACGATTATGAACA
1 TGGTATTATTAAAACATGTTAATTTAAGATCAC-ACTTAAGTTAACTGATTTACGATCATGAACA
* * * ** * *
10859671 GTTCATTTTAAGTTCTCTAATTTACAATCGCAACTTTATTCAAAAAGTTCGCTGATTTACGATCA
65 ATTCATTTTAAGTTCACTAATTTACAATCACAACTCCATTCAAAAAGTTCACTGATTTACAATCA
* *
10859736 CGACTGGTATTATTAAAGCTTGCTGATTTACGATCGCAACTTAAGTTCATTGATTTACAATCATG
130 CGACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGATTTACAATCACG
10859801 AACAATTTATTTTGAGTT
195 AACAATTTATTTTGAGTT
10859819 CACTGATTTA
Statistics
Matches: 183, Mismatches: 29, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
232 29 0.16
233 154 0.84
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (232 bp):
TGGTATTATTAAAACATGTTAATTTAAGATCACACTTAAGTTAACTGATTTACGATCATGAACAA
TTCATTTTAAGTTCACTAATTTACAATCACAACTCCATTCAAAAAGTTCACTGATTTACAATCAC
GACTGGTATTATTAAAGCTTGCTGATTTACGATCACAACTTAAGTTCATTGATTTACAATCACGA
ACAATTTATTTTGAGTTTGTCAATTTACGATCACAAC
Found at i:10859750 original size:134 final size:134
Alignment explanation
Indices: 10859591--10859905 Score: 416
Period size: 134 Copynumber: 2.4 Consensus size: 134
10859581 TAGTTTGTCA
* * *
10859591 ATTTACGATCACAACTGGTATTATTAAAACTTGTTGATTTATGATCACAATTTAAGTTCACTGAT
1 ATTTACGATCACGACTGGTATTATTAAAACTTGTTGATTTACGATCACAACTTAAGTTCACTGAT
* * * * * * *
10859656 TTACGATTATGAACAGTTCATTTTAAGTTCTCTAATTTACAATCGCAACTTTATTCAAAAAG-TT
66 TTACAATCATGAACAATTCATTTTAAGTTCACTAATTTACAACCACAACTTCATTCAAAAAGCTT
10859720 CGCTG
131 -GCTG
* * * *
10859725 ATTTACGATCACGACTGGTATTATTAAAGCTTGCTGATTTACGATCGCAACTTAAGTTCATTGAT
1 ATTTACGATCACGACTGGTATTATTAAAACTTGTTGATTTACGATCACAACTTAAGTTCACTGAT
* * * * *
10859790 TTACAATCATGAACAATTTATTTTGAGTTCACTGATTTACGACCACAACTTCATTCAAACAGCTT
66 TTACAATCATGAACAATTCATTTTAAGTTCACTAATTTACAACCACAACTTCATTCAAAAAGCTT
10859855 GCTG
131 GCTG
* * *
10859859 AATTATGATCACGACTGATATTATTAAAACTTGTTGATTTACGATCA
1 ATTTACGATCACGACTGGTATTATTAAAACTTGTTGATTTACGATCA
10859906 TGAACAGTTT
Statistics
Matches: 155, Mismatches: 25, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
134 153 0.99
135 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (134 bp):
ATTTACGATCACGACTGGTATTATTAAAACTTGTTGATTTACGATCACAACTTAAGTTCACTGAT
TTACAATCATGAACAATTCATTTTAAGTTCACTAATTTACAACCACAACTTCATTCAAAAAGCTT
GCTG
Found at i:10861175 original size:510 final size:511
Alignment explanation
Indices: 10860151--10861162 Score: 1670
Period size: 510 Copynumber: 2.0 Consensus size: 511
10860141 CATTTGAATC
* * * *
10860151 ATCAACATCTTCCCTTGTATCTTCGCTCTCACCTTTCTCAAAATCTGCGAATGGAGCAACACTAT
1 ATCAACATCTTCCATTGTATCTTCGC-CTCACCTTTCTCAAAATCTACAAAGGGAGCAACACTAT
* *
10860216 CCTCAACAGGTTTATCAGCCACAAAAAGTTCGTTTGAGTTCTTCCACTCTTCAAGGAACTCTTCC
65 CCTCAACAAGTTTATCAGCCACAAAAAGTTCATTTGAGTTCTTCCACTCTTCAAGGAACTCTTCC
* * * *
10860281 CAAGCAGGTCCCGAAGGAAAGCAAATGTCAAAACCAAGTTTAGTATCTTTGAGATGACTTAAGGC
130 CAAGCAGGTCCCGAAGGAAAGCAAATGTCAAAACCAAGTTGAGAATCTTTAAGATGACTCAAGGC
* * *
10860346 ATCAAGGTTCACCCTCCGAGCGTCAAAAGGCCTACCAACAACTTAGGTGTGCAACAAAATGTTTG
195 ATCAAGGTTCACCCTCCAAGCATCAAAAGGCCCACCAACAACTTAGGTGTGCAACAAAATGTTTG
*
10860411 ACTTCAAGTCTGGCATATAGTCCTGAAACTTGTGCATCGTCTCTGCTTGGTACTTCGTAGGGCTT
260 ACTTCAAGTCTGGCATATAGTCCTGAAACTTGTGCATCGTCTCTGCTTAGTACTTCGTAGGGCTT
*
10860476 CCTCATGGCACTTTTCAAAGTTAGCCGTATCAATTTTGTTCTTCTCACCCATGGTTTCCATACTT
325 CCTCATGGCACTTTTCAAAGTTAGCCGTATCAATTTTGTGCTTCTCACCCATGGTTTCCATACTT
* * *
10860541 TCCTAAAAGCCAAGTTTTTCAACTTGAAGCATAGAAATCTCTTTATGCAATTGATCATTGGCTTT
390 TCCTAAAAGCCAAGTTTTTCAACTCGAAGCATAGAAAGCTCATTATGCAATTGATCATTGGCTTT
10860606 CTCTAAGAGCATAAGGCATTTATCTATCCCTTCATTCCTCTCTACCAAACTCCTATT
455 CTCTAAGAGCATAAGGCATTTATCTATCCCTTCATTCCTCTCTACCAAACTCCTATT
* * * *
10860663 ATCAACATCTTCCATTGTATTTTCG-CTCACCTTTCTTAGAATCTACAAAGGGAGCAACACTATG
1 ATCAACATCTTCCATTGTATCTTCGCCTCACCTTTCTCAAAATCTACAAAGGGAGCAACACTATC
* * * *
10860727 CTTAACAAGTTTATCAGCCATAAAAAGTTTATTTGAGTTCTTCCACTCTT-TAGTGAACTCTTCC
66 CTCAACAAGTTTATCAGCCACAAAAAGTTCATTTGAGTTCTTCCACTCTTCAAG-GAACTCTTCC
***
10860791 CAAGCAGGTCCCGAAAGG-AAGTGGATGTCAAAACCAAGTTGAGAATCTTTAAGATGACTCAAGG
130 CAAGCAGGTCCCG-AAGGAAAGCAAATGTCAAAACCAAGTTGAGAATCTTTAAGATGACTCAAGG
* * *
10860855 CATCGAGGTTTACCCTCCAAGCATCAAAAGGCCCCCCAACAACTTAGGTGTGCAACAAAATGTTT
194 CATCAAGGTTCACCCTCCAAGCATCAAAAGGCCCACCAACAACTTAGGTGTGCAACAAAATGTTT
10860920 GACTTCAAGTCTGGCATATAGTCCTGAAACTTGTGCATCGTCTCTGCTTAGTACTTCGTAGGGCT
259 GACTTCAAGTCTGGCATATAGTCCTGAAACTTGTGCATCGTCTCTGCTTAGTACTTCGTAGGGCT
10860985 TCCTCATGGCACTTTTCAAAGTTAGCCGTATCAATTTTGTGCTTCTCACCCATGGTTTCCATACT
324 TCCTCATGGCACTTTTCAAAGTTAGCCGTATCAATTTTGTGCTTCTCACCCATGGTTTCCATACT
* *
10861050 TTCCTAAAGGCCAAGTTTTTCAGCTCGAAGCATAGAAAGCTCATTATGCAATTGATCATTGGCTT
389 TTCCTAAAAGCCAAGTTTTTCAACTCGAAGCATAGAAAGCTCATTATGCAATTGATCATTGGCTT
10861115 TCTCTAAGAGCATAAGGCATTTATCTATCCCTTCATTCCTCTCTACCA
454 TCTCTAAGAGCATAAGGCATTTATCTATCCCTTCATTCCTCTCTACCA
10861163 GCCTTCTATT
Statistics
Matches: 464, Mismatches: 34, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
509 2 0.00
510 435 0.94
511 4 0.01
512 23 0.05
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (511 bp):
ATCAACATCTTCCATTGTATCTTCGCCTCACCTTTCTCAAAATCTACAAAGGGAGCAACACTATC
CTCAACAAGTTTATCAGCCACAAAAAGTTCATTTGAGTTCTTCCACTCTTCAAGGAACTCTTCCC
AAGCAGGTCCCGAAGGAAAGCAAATGTCAAAACCAAGTTGAGAATCTTTAAGATGACTCAAGGCA
TCAAGGTTCACCCTCCAAGCATCAAAAGGCCCACCAACAACTTAGGTGTGCAACAAAATGTTTGA
CTTCAAGTCTGGCATATAGTCCTGAAACTTGTGCATCGTCTCTGCTTAGTACTTCGTAGGGCTTC
CTCATGGCACTTTTCAAAGTTAGCCGTATCAATTTTGTGCTTCTCACCCATGGTTTCCATACTTT
CCTAAAAGCCAAGTTTTTCAACTCGAAGCATAGAAAGCTCATTATGCAATTGATCATTGGCTTTC
TCTAAGAGCATAAGGCATTTATCTATCCCTTCATTCCTCTCTACCAAACTCCTATT
Found at i:10861215 original size:7 final size:7
Alignment explanation
Indices: 10861203--10861233 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
10861193 GAATTCTCAA
10861203 ATTCTTT
1 ATTCTTT
10861210 ATTCTTT
1 ATTCTTT
10861217 ATTCTTT
1 ATTCTTT
10861224 ATTCTTT
1 ATTCTTT
10861231 ATT
1 ATT
10861234 TCTTCCTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (7 bp):
ATTCTTT
Found at i:10872393 original size:21 final size:21
Alignment explanation
Indices: 10872367--10872410 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10872357 CAGGGAATGG
10872367 TTAGGTTTCGTGGTTAAAATC
1 TTAGGTTTCGTGGTTAAAATC
10872388 TTAGGTTTCGTGGTTAAAATC
1 TTAGGTTTCGTGGTTAAAATC
10872409 TT
1 TT
10872411 CTTGTTCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.09, G:0.23, T:0.45
Consensus pattern (21 bp):
TTAGGTTTCGTGGTTAAAATC
Found at i:10877928 original size:20 final size:20
Alignment explanation
Indices: 10877881--10877980 Score: 57
Period size: 20 Copynumber: 5.2 Consensus size: 20
10877871 ACGTGGTAAG
10877881 AAAATTA-TAAAAG--AT-A
1 AAAATTATTAAAAGTTATAA
* *
10877897 AAAGTTAATAAAAGTTATAA
1 AAAATTATTAAAAGTTATAA
**
10877917 AAAATTATTAAACTTTA-AA
1 AAAATTATTAAAAGTTATAA
* * * *
10877936 AAAAATATTAAAATTTTTTGA
1 AAAATTATTAAAA-GTTATAA
** *
10877957 AAAATTCGTAAAAATTATAA
1 AAAATTATTAAAAGTTATAA
10877977 AAAA
1 AAAA
10877981 AATTATAAAA
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
16 6 0.10
17 6 0.10
19 15 0.24
20 25 0.40
21 11 0.17
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAATTATTAAAAGTTATAA
Found at i:10877981 original size:12 final size:12
Alignment explanation
Indices: 10877966--10877990 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10877956 AAAAATTCGT
10877966 AAAAATTATAAA
1 AAAAATTATAAA
10877978 AAAAATTATAAA
1 AAAAATTATAAA
10877990 A
1 A
10877991 TATATCAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:10879008 original size:40 final size:40
Alignment explanation
Indices: 10878919--10879012 Score: 102
Period size: 42 Copynumber: 2.3 Consensus size: 40
10878909 CATTTTTCGC
*
10878919 GAAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGTGACAG
1 GAAATCGCGTCCACGTCAGCGCGA--TCAGGCTACGTGACAG
* **
10878961 GACATCGCGTCCACGTCAGCGCGA-CCTGCTAACGTGGA-AG
1 GAAATCGCGTCCACGTCAGCGCGATCAGGCT-ACGT-GACAG
10879001 GAAATCGCGTCC
1 GAAATCGCGTCC
10879013 TTGAGGAAGC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.07
40 17 0.38
41 2 0.04
42 23 0.51
ACGTcount: A:0.23, C:0.30, G:0.31, T:0.16
Consensus pattern (40 bp):
GAAATCGCGTCCACGTCAGCGCGATCAGGCTACGTGACAG
Found at i:10879192 original size:14 final size:15
Alignment explanation
Indices: 10879163--10879196 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
10879153 AAATTTTAAA
10879163 TTTTATTTAAGATAT
1 TTTTATTTAAGATAT
*
10879178 TTTTATTTATG-TAT
1 TTTTATTTAAGATAT
10879192 TTTTA
1 TTTTA
10879197 GATATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTATTTAAGATAT
Found at i:10882247 original size:23 final size:23
Alignment explanation
Indices: 10882217--10882754 Score: 376
Period size: 23 Copynumber: 20.9 Consensus size: 23
10882207 TAAAAACCCT
*
10882217 AACCCTAACCTAATTTAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
10882240 AACCCTAACTTAACTTAATT-AA
1 AACCCTAACCTAATTTAATTAAA
10882262 AACCCTAACCTAACTTAATTTAATTAAA
1 AACCCTAA-C---C-TAATTTAATTAAA
10882290 AACCCTTACCCTAACCTAATTTAATTAAA
1 AA------CCCTAACCTAATTTAATTAAA
* *
10882319 AACCCTAACTTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
10882342 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
*
10882370 AACCCTAACCTAATATAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
10882393 AACCCTAGCCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
* *
10882421 AATCCTAACCTAATTTAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
*
10882444 AACCCTAACCCTAACCTATTTTACATGAAAA
1 AACCCTAA-CCT-A---A-TTTA-AT-TAAA
*
10882475 CCCTAACACTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
* *
10882502 AACCCTAACTTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
10882525 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
10882553 AACCCTAACCTAATTTAATTTAATTAAA
1 AACCCTAACC-----TAATTTAATTAAA
*
10882581 AACCCCAACCTAATTTAATTTAATTAA
1 AACCCTAACCTAATTTAA-TT-A--AA
10882608 AATCCCTAACCTAATTTAATTTAATTAA
1 AA-CCCTAACCTAATTTAA-TT-A--AA
10882636 AATCCCTAACCTAATTTAATTAAA
1 AA-CCCTAACCTAATTTAATTAAA
* *
10882660 ATCCCTAACCTAATTTAGTTAAA
1 AACCCTAACCTAATTTAATTAAA
10882683 AACCCTAACCCTAACCTATTTTAATTAAA
1 AACCCTAA-CCT-A---A-TTTAATTAAA
* *
10882712 AACCCTAACTTAACTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
10882735 AACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATT
10882755 TAATTAACAG
Statistics
Matches: 430, Mismatches: 35, Indels: 100
0.76 0.06 0.18
Matches are distributed among these distances:
22 10 0.02
23 177 0.41
24 12 0.03
25 3 0.01
26 1 0.00
27 19 0.04
28 144 0.33
29 40 0.09
30 3 0.01
31 3 0.01
33 2 0.00
34 9 0.02
35 7 0.02
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.33
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:10882258 original size:28 final size:28
Alignment explanation
Indices: 10882200--10882761 Score: 506
Period size: 28 Copynumber: 21.4 Consensus size: 28
10882190 TTTTGACATT
* *
10882200 ATTTGATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
10882229 ATTTAGTTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10882252 ACTTAATT-AAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882279 ATTTAATTAAAAACCCTTACCCTAACCTA
1 ATTTAATTAAAAACCC-TAACCTAACTTA
10882308 ATTTAATTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882331 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10882359 ATTTAATTAAAAACCCTAACCTAA--T-
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882384 A--TAATTAAAAACCCTAGCCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10882410 ATTTAATTAAAAA---T--CCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882433 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
* * *
10882462 TTTTACA-TGAAAACCCTAACACTAACCTA
1 ATTTA-ATTAAAAACCCTAAC-CTAACTTA
10882491 ATTTAATTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882514 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10882542 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882570 ATTTAATTAAAAACCCCAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882598 ATTTAATTAAAATCCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10882626 ATTTAATTAAAATCCCTAA-C---C-TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
*
10882649 ATTTAATTAAAATCCCTAA-C---C-TA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882672 ATTTAGTTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACTTA
*
10882701 TTTTAATTAAAAA--C---CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
* *
10882724 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACTTA
10882752 ATTTAATTAA
1 ATTTAATTAA
10882762 CAGAAGAACT
Statistics
Matches: 453, Mismatches: 38, Indels: 85
0.79 0.07 0.15
Matches are distributed among these distances:
22 4 0.01
23 153 0.34
24 2 0.00
25 7 0.02
26 3 0.01
27 21 0.05
28 175 0.39
29 88 0.19
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.33
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACTTA
Found at i:10882266 original size:51 final size:51
Alignment explanation
Indices: 10882209--10882761 Score: 423
Period size: 51 Copynumber: 10.6 Consensus size: 51
10882199 TATTTGATTA
* *
10882209 AAAACCCTAACCCTAACCTAATTTAGTTAAAAACCCTAACTTAACTTAATT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
* * *
10882260 AAAACCCTAA-CCTAACTTAATTTAATTAAAAACCCTTACCCTAACCTAATT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCC-TAACCTAACTTAATT
* ***** * * *
10882311 TAATTAAAAACCCTAACTTAACTTAATTAAAAACCCTAACCTAATTTAATT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
* ***** * * *
10882362 TAATTAAAAACCCTAACCTAATATAATTAAAAACCCTAGCCTAATTTAATT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
* ***** * * *
10882413 TAATTAAAAATCCTAACCTAATTTAGTTAAAAACCCTAACCCTAACCTATTTTACATG
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAA-CCTAA-C----TTA-ATT
* *
10882471 AAAACCCTAACACTAACCTAATTTAATTAAAAACCCTAACTTAACTTAATT
1 AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
** *
10882522 AAAAACCCTAA-CCTAATTTAATTTAATTAAAAACCCTAACCTAATTTAATTTAATT
1 -AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACC-----TAACTTAATT
* ** * *
10882578 AAAAACCCCAA-CCTAATTTAATTTAATTAAAATCCCTAACCTAATTTAATT
1 -AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
* **** * * *
10882629 -TAATTAAAATCCCTAACCTAATTTAATTAAAATCCCTAACCTAATTTAGTT
1 AAAACCCTAA-CCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
* *
10882680 AAAAACCCTAACCCTAACCTATTTTAATTAAAAACCCTAACTTAACTTAATT
1 -AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
**
10882732 AAAAACCCTAA-CCTAATTTAATTTAATTAA
1 -AAAACCCTAACCCTAACCTAATTTAATTAA
10882762 CAGAAGAACT
Statistics
Matches: 419, Mismatches: 64, Indels: 38
0.80 0.12 0.07
Matches are distributed among these distances:
49 4 0.01
50 23 0.05
51 211 0.50
52 89 0.21
53 4 0.01
56 49 0.12
57 7 0.02
58 32 0.08
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (51 bp):
AAAACCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTAACTTAATT
Found at i:10883325 original size:124 final size:123
Alignment explanation
Indices: 10883105--10883334 Score: 381
Period size: 124 Copynumber: 1.9 Consensus size: 123
10883095 TTTGACACTA
10883105 TTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGA
1 TTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGA
*** *
10883170 GGGTGCGATTTCACAATTTCTTCTCATATAGCATCCTGGTACCAGCGATTCTATACTC
66 GGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTACCAGCGATTCTATACTC
* *
10883228 TTTGCTCAGAAAACGTCAAAAAAAATTGTTTCTTACATGACC-ACTGTAGCGAAATCGCGTCCAC
1 TTTGCTCAG-AAACGTCAAAAAAAA-TATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCAC
10883292 GAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
64 GAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTA
10883335 GAAACGATTT
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
123 9 0.09
124 76 0.77
125 14 0.14
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (123 bp):
TTTGCTCAGAAACGTCAAAAAAAATATTTCCTACATGACCAACTGTAGCGAAATCGCGTCCACGA
GGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTACCAGCGATTCTATACTC
Found at i:10895181 original size:3 final size:3
Alignment explanation
Indices: 10895168--10895268 Score: 53
Period size: 3 Copynumber: 33.3 Consensus size: 3
10895158 AAGGAATACT
* * * * * *
10895168 ATA ACA ATA ATA AT- GTA ATA ATA ATA TTA TTA ATA TTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
10895215 TTA ATA TTA ATA ATC AT- ATC ATA ATA ATA AGTA GATAA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA -AT-A ATA ATA ATA
*
10895262 ATG ATA A
1 ATA ATA A
10895269 CAAGGATAAA
Statistics
Matches: 73, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
2 3 0.04
3 63 0.86
4 5 0.07
5 2 0.03
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:10895233 original size:12 final size:12
Alignment explanation
Indices: 10895186--10895243 Score: 64
Period size: 12 Copynumber: 4.9 Consensus size: 12
10895176 AATAATGTAA
*
10895186 TAATAATATTAT
1 TAATAATAATAT
*
10895198 TAATATTAATAT
1 TAATAATAATAT
*
10895210 TAATATTAATAT
1 TAATAATAATAT
*
10895222 TAATAATCATA-
1 TAATAATAATAT
*
10895233 TCATAATAATA
1 TAATAATAATA
10895244 AGTAGATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
11 9 0.22
12 31 0.77
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (12 bp):
TAATAATAATAT
Found at i:10895233 original size:18 final size:17
Alignment explanation
Indices: 10895186--10895233 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 17
10895176 AATAATGTAA
10895186 TAATAATATTATTAATAT
1 TAATAATA-TATTAATAT
*
10895204 TAATATTAATATTAATAT
1 TAATAAT-ATATTAATAT
10895222 TAATAATCATAT
1 TAATAAT-ATAT
10895234 CATAATAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATAATATATTAATAT
Found at i:10901395 original size:20 final size:20
Alignment explanation
Indices: 10901367--10901405 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10901357 TTAATGAAAA
*
10901367 ATAATTATTTAAATATAAAT
1 ATAAATATTTAAATATAAAT
*
10901387 ATAAATATTTTAATATAAA
1 ATAAATATTTAAATATAAA
10901406 ATTTGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
ATAAATATTTAAATATAAAT
Found at i:10902870 original size:23 final size:24
Alignment explanation
Indices: 10902826--10902871 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
10902816 TTTCTCACAT
* **
10902826 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
10902850 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
10902872 AATTCACACA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:10903024 original size:3 final size:3
Alignment explanation
Indices: 10903016--10903062 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10903006 CCACTCATCT
10903016 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10903063 CTTACCTCAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10903821 original size:16 final size:16
Alignment explanation
Indices: 10903802--10903837 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10903792 ATTATTTAGT
*
10903802 TAATATAATATTATAA
1 TAATATAATATAATAA
*
10903818 TAATGTAATATAATAA
1 TAATATAATATAATAA
10903834 TAAT
1 TAAT
10903838 TTCTTAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
TAATATAATATAATAA
Found at i:10904640 original size:27 final size:26
Alignment explanation
Indices: 10904581--10904643 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 26
10904571 ATTAAAATCT
** * *
10904581 AATAATAATAAAACTAAGGAATATCA
1 AATAATAATAAAACTAAACAAAACCA
10904607 AATTAATAATAAAAACTAAACAAAACCA
1 AA-TAATAAT-AAAACTAAACAAAACCA
10904635 AATAATAAT
1 AATAATAAT
10904644 GAACATCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.06
27 14 0.45
28 15 0.48
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.22
Consensus pattern (26 bp):
AATAATAATAAAACTAAACAAAACCA
Found at i:10920108 original size:125 final size:122
Alignment explanation
Indices: 10919886--10920136 Score: 394
Period size: 125 Copynumber: 2.0 Consensus size: 122
10919876 GATTTTCAGA
* * *
10919886 TACTTACGATATACTATTGATATTTTCTTACAATTTGGAAGAACTAGAGATGGAGTCATTGAGTA
1 TACTTACAATATACTACTGATATTTTCTTACAACTTGGAAGAACTAGAGATGGAGTCATTGAGTA
*
10919951 TGTTGATTCTGATTTTGTTAGAGACCTTGATAAAATAAGATCTCTCACAGGGTATGTCTT
66 TGTTGATTCTGATTTTGTTAGAGACCTTGAT--AA-AAGATCTCTCACAAGGTATGTCTT
* *
10920011 TACTTACAATGTACTACTGATATTTTCTTACAGCTTGGAAGAACTAGAGATGGAGTCATTGAGTA
1 TACTTACAATATACTACTGATATTTTCTTACAACTTGGAAGAACTAGAGATGGAGTCATTGAGTA
* * *
10920076 TGTTGATTTTGATTTTTTTGGAGACCTTGATAAAAGATCTCTCACAAGGTATGTCTT
66 TGTTGATTCTGATTTTGTTAGAGACCTTGATAAAAGATCTCTCACAAGGTATGTCTT
10920133 TACT
1 TACT
10920137 ATTGGGGGTT
Statistics
Matches: 117, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
122 27 0.23
123 2 0.02
125 88 0.75
ACGTcount: A:0.29, C:0.13, G:0.19, T:0.39
Consensus pattern (122 bp):
TACTTACAATATACTACTGATATTTTCTTACAACTTGGAAGAACTAGAGATGGAGTCATTGAGTA
TGTTGATTCTGATTTTGTTAGAGACCTTGATAAAAGATCTCTCACAAGGTATGTCTT
Found at i:10921518 original size:29 final size:31
Alignment explanation
Indices: 10921460--10921519 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
10921450 CAAGGCTCCC
*
10921460 CATTTTTGAAAATATATTTTTCATTTTTTTT
1 CATTTTTGAAAATATATTTTTCATTGTTTTT
*
10921491 CATTTTT-AAAA-ATATTTTTTATTGTTTTT
1 CATTTTTGAAAATATATTTTTCATTGTTTTT
10921520 GAAAATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 16 0.59
30 4 0.15
31 7 0.26
ACGTcount: A:0.27, C:0.05, G:0.03, T:0.65
Consensus pattern (31 bp):
CATTTTTGAAAATATATTTTTCATTGTTTTT
Found at i:10921553 original size:22 final size:22
Alignment explanation
Indices: 10921528--10921575 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
10921518 TTGAAAATTG
*
10921528 AAAAATA-TGTTAGGTAATGAAA
1 AAAAATATTGTTA-ATAATGAAA
* *
10921550 AAAATTATTTTTAATAATGAAA
1 AAAAATATTGTTAATAATGAAA
10921572 AAAA
1 AAAA
10921576 TTAAATACTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (22 bp):
AAAAATATTGTTAATAATGAAA
Found at i:10923020 original size:11 final size:11
Alignment explanation
Indices: 10923006--10923071 Score: 54
Period size: 11 Copynumber: 6.4 Consensus size: 11
10922996 ATTTTTTTAA
10923006 TTTTAAAATAC
1 TTTTAAAATAC
10923017 TTTTAAAATAC
1 TTTTAAAATAC
*
10923028 TTTTTAAATTTA-
1 -TTTTAAA-ATAC
10923040 TTTT---A-A-
1 TTTTAAAATAC
*
10923046 TTTTAAAATAT
1 TTTTAAAATAC
10923057 TTTTAAAATAC
1 TTTTAAAATAC
10923068 TTTT
1 TTTT
10923072 TTTAATTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
6 5 0.11
9 1 0.02
10 1 0.02
11 29 0.64
12 7 0.16
13 2 0.04
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:10923032 original size:29 final size:28
Alignment explanation
Indices: 10922989--10923063 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
10922979 ATATATTTAT
* * *
10922989 TTTTAAAATTTTTTTAATTTTAAAATAC
1 TTTTAAAATATTTTTAAATTTAAAATAA
***
10923017 TTTTAAAATACTTTTTAAATTTATTTTAA
1 TTTTAAAATA-TTTTTAAATTTAAAATAA
10923046 TTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAA
10923064 ATACTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
28 17 0.43
29 23 0.57
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTAAAATATTTTTAAATTTAAAATAA
Found at i:10923032 original size:40 final size:39
Alignment explanation
Indices: 10922988--10923081 Score: 143
Period size: 40 Copynumber: 2.3 Consensus size: 39
10922978 AATATATTTA
10922988 TTTTTAAAATTTTTTTAATTTTAAAATACTTTTAAAATAC
1 TTTTT-AAATTTTTTTAATTTTAAAATACTTTTAAAATAC
*
10923028 TTTTTAAATTTATTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTAAATTT-TTTTAATTTTAAAATACTTTTAAAATAC
*
10923068 TTTTTTTAATTTTT
1 -TTTTTAAATTTTT
10923082 AAAATAAATT
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 6 0.12
40 34 0.68
41 10 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTTTAAATTTTTTTAATTTTAAAATACTTTTAAAATAC
Found at i:10923060 original size:17 final size:17
Alignment explanation
Indices: 10922977--10923062 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 17
10922967 CCGATATAAT
* *
10922977 AAATATATTTATTTTTA
1 AAATATTTTTAATTTTA
*
10922994 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
* *
10923011 AAATACTTTTAAAATACTTTTT
1 AAATA-TTTT----TAATTTTA
*
10923033 AAATTTATTTTAATTTTA
1 AAATAT-TTTTAATTTTA
10923051 AAATATTTTTAA
1 AAATATTTTTAA
10923063 AATACTTTTT
Statistics
Matches: 53, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
17 24 0.45
18 15 0.28
21 1 0.02
22 13 0.25
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:10923093 original size:21 final size:21
Alignment explanation
Indices: 10923055--10923094 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10923045 ATTTTAAAAT
**
10923055 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
10923076 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
10923095 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:10923101 original size:22 final size:21
Alignment explanation
Indices: 10923054--10923112 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
10923044 AATTTTAAAA
* *
10923054 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
10923074 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
10923097 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
10923113 GGGTCGGGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:10923673 original size:27 final size:27
Alignment explanation
Indices: 10923616--10923680 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
10923606 GGCCTGCCAA
* * * *
10923616 AGGCGGCACCAGAGGTGCCAGTGGCAG
1 AGGCGACACCAAAGGTGCCACTGGCAC
10923643 AGGCGACACCAAAGGTGCCACT-GCGAC
1 AGGCGACACCAAAGGTGCCACTGGC-AC
10923670 AGGCGACACCA
1 AGGCGACACCA
10923681 GCCTCTTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 2 0.06
27 31 0.94
ACGTcount: A:0.28, C:0.31, G:0.35, T:0.06
Consensus pattern (27 bp):
AGGCGACACCAAAGGTGCCACTGGCAC
Found at i:10923733 original size:13 final size:13
Alignment explanation
Indices: 10923715--10923739 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10923705 TCGGCTGAAA
10923715 GAGAAGAAAGAAG
1 GAGAAGAAAGAAG
10923728 GAGAAGAAAGAA
1 GAGAAGAAAGAA
10923740 AAAGAAAGAA
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:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (13 bp):
GAGAAGAAAGAAG
Found at i:10923791 original size:44 final size:43
Alignment explanation
Indices: 10923712--10923795 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 43
10923702 AATTCGGCTG
10923712 AAAGAGAAGAAAGAAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
1 AAAGAGAAGAAAGAAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
* * *
10923755 AAAGAGAAG-AAGAAGAGGGAGGGAAGGAAAAAGAAAGAAAA
1 AAAGAGAAGAAAGAAG-GAGA-AGAAAGAAAAAGAAAGAAAA
10923796 AAAATAAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 6 0.17
43 12 0.33
44 18 0.50
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (43 bp):
AAAGAGAAGAAAGAAGGAGAAGAAAGAAAAAGAAAGAAAAGGA
Found at i:10923844 original size:19 final size:20
Alignment explanation
Indices: 10923810--10923849 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
10923800 TAAGGAAAGG
10923810 TAATTTTTTTGGGTATTATTT
1 TAATTTTTTT-GGTATTATTT
10923831 TAATTTTTTT-GTATTATTT
1 TAATTTTTTTGGTATTATTT
10923850 GTGTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
21 10 0.53
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (20 bp):
TAATTTTTTTGGTATTATTT
Found at i:10924306 original size:145 final size:147
Alignment explanation
Indices: 10924094--10924627 Score: 698
Period size: 153 Copynumber: 3.5 Consensus size: 147
10924084 AAAAAAATGG
** ** * *
10924094 AAATAGTATATTCATTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAACAAATGGCCAAAA
1 AAATAGTATATTTTTTGAAAGTAATAAAATCTG----GGA-AAAAATACGAACAAAGGGCCGAAA
* *
10924159 TAAAGGTTTTTTTACTAAATTTATAT-AAAAACACACTAAATTAATACATTTCAAACATAATGTA
61 T-AAGGGTTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTA
10924223 CTAAAATAATGTAAAAT-A-AGA
125 CTAAAATAATGTAAAATAATAGA
* *
10924244 AAATAATATGTTTTTTGAAAGTAATAAAATAC-GGGAAAAAATACGAACAAAGGGCCGAAATAAG
1 AAATAGTATATTTTTTGAAAGTAATAAAAT-CTGGGAAAAAATACGAACAAAGGGCCGAAATAAG
10924308 GGTTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAA
65 GGTTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAA
*
10924373 ATAATATAAAATTAGAAAATTAGA
130 ATAATGTAAAA-T----AA-TAGA
*
10924397 AAATAGTATATTTTTTGAAAGTAATAAAATCTGAGAAAAAATACGAACAAAGGGCCGAAATAAGG
1 AAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAATACGAACAAAGGGCCGAAATAAGG
* * * *
10924462 GTTTTTTACTAAATTTATTTAAAAAATAAAATTAATTAATACATTTCAAACATAATGTACTAAAA
66 GTTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAA
10924527 TAATGTAAAATAATAAAATTAGA
131 TAATGT--AA-AAT--AA-TAGA
* *
10924550 AAATAGTATATTTTTTGAAAGTAATAAAATCTGGGGAAAAAATATGAACAAAGGGTCGAAATAAG
1 AAATAGTATATTTTTTGAAAGTAATAAAATCT-GGGAAAAAATACGAACAAAGGGCCGAAATAAG
10924615 GGTTTTTTACTAA
65 GGTTTTTTACTAA
10924628 CTTTGTTTTG
Statistics
Matches: 347, Mismatches: 22, Indels: 26
0.88 0.06 0.07
Matches are distributed among these distances:
144 22 0.06
145 76 0.22
146 2 0.01
150 27 0.08
151 2 0.01
152 1 0.00
153 170 0.49
154 42 0.12
155 3 0.01
156 2 0.01
ACGTcount: A:0.51, C:0.08, G:0.11, T:0.30
Consensus pattern (147 bp):
AAATAGTATATTTTTTGAAAGTAATAAAATCTGGGAAAAAATACGAACAAAGGGCCGAAATAAGG
GTTTTTTACTAAATTTATTTAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAA
TAATGTAAAATAATAGA
Found at i:10929876 original size:39 final size:37
Alignment explanation
Indices: 10929816--10929902 Score: 95
Period size: 37 Copynumber: 2.3 Consensus size: 37
10929806 ACTAACACAA
* *
10929816 TAATAATAATAATAATAGTTTTTTACTCAAAATAAT-AC
1 TAATAATAATAATAAGAG--TTTTACTAAAAATAATAAC
* *
10929854 TAACTAATAATAATTAGGGTTTTACTAAAAATAATAAC
1 TAA-TAATAATAATAAGAGTTTTACTAAAAATAATAAC
*
10929892 TAAAAATAATA
1 TAATAATAATA
10929903 TAATGTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
37 22 0.52
38 8 0.19
39 12 0.29
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.36
Consensus pattern (37 bp):
TAATAATAATAATAAGAGTTTTACTAAAAATAATAAC
Found at i:10929895 original size:13 final size:13
Alignment explanation
Indices: 10929877--10929902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10929867 TTAGGGTTTT
10929877 ACTAAAAATAATA
1 ACTAAAAATAATA
10929890 ACTAAAAATAATA
1 ACTAAAAATAATA
10929903 TAATGTAAAA
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:0.69, C:0.08, G:0.00, T:0.23
Consensus pattern (13 bp):
ACTAAAAATAATA
Found at i:10930011 original size:41 final size:39
Alignment explanation
Indices: 10929823--10930027 Score: 126
Period size: 39 Copynumber: 5.3 Consensus size: 39
10929813 CAATAATAAT
*
10929823 AATAATAA-TAGTTTTTTACTCAA-AATAATACTAACT--
1 AATAATAATTAGGTTTTTACT-AACAATAATACTAACTAA
* *
10929859 AATAATAATTAGGGTTTTACT-A-AA-AATAATAACTAAA
1 AATAATAATTAGGTTTTTACTAACAATAATACTAACT-AA
* * **** *
10929896 AATAAT-ATAATGTAAAAACTAACAATCATACTAACTAA
1 AATAATAATTAGGTTTTTACTAACAATAATACTAACTAA
*
10929934 AATAATAATTAGGGTTTTTACTAATC-CTAATAACTAACCATAA
1 AATAATAATTA-GGTTTTTACTAA-CAATAAT-ACTAA-C-TAA
*
10929977 TAATAAT-ATTA-GTTTTTGACTAACAATAATACTAAGTAA
1 -AATAATAATTAGGTTTTT-ACTAACAATAATACTAACTAA
*
10930016 CAATAATTATTA
1 -AATAATAATTA
10930028 ATAACTAAAC
Statistics
Matches: 129, Mismatches: 23, Indels: 30
0.71 0.13 0.16
Matches are distributed among these distances:
34 9 0.07
35 3 0.02
36 15 0.12
37 17 0.13
38 10 0.08
39 20 0.16
40 14 0.11
41 18 0.14
42 10 0.08
43 7 0.05
44 6 0.05
ACGTcount: A:0.50, C:0.10, G:0.05, T:0.35
Consensus pattern (39 bp):
AATAATAATTAGGTTTTTACTAACAATAATACTAACTAA
Found at i:10933953 original size:29 final size:29
Alignment explanation
Indices: 10933902--10933983 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
10933892 TATTTTGGTA
* *** *
10933902 TCATTCTATTATGCTAAAACACTTCAGTG
1 TCATTCTATTATGATATTGCACTTCAATG
10933931 TCATTCTATTATGATATTGCACTTCAATG
1 TCATTCTATTATGATATTGCACTTCAATG
* *
10933960 TCATTCTGTT-TAGTTATTGCACTT
1 TCATTCTATTAT-GATATTGCACTT
10933984 TGGTGCATCT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.02
29 44 0.98
ACGTcount: A:0.26, C:0.18, G:0.11, T:0.45
Consensus pattern (29 bp):
TCATTCTATTATGATATTGCACTTCAATG
Found at i:10937299 original size:13 final size:13
Alignment explanation
Indices: 10937247--10937310 Score: 67
Period size: 13 Copynumber: 4.9 Consensus size: 13
10937237 AGTTCTTTAT
10937247 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
10937260 TACTATTGAGAAG
1 TGCTTTTGAAAAG
*
10937273 TG-TTGTGGAAAAG
1 TGCTT-TTGAAAAG
*
10937286 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
10937299 TGCTTTTGAAAA
1 TGCTTTTGAAAA
10937311 ATTTGAGTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
12 1 0.03
13 36 0.92
14 2 0.05
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:10937309 original size:26 final size:26
Alignment explanation
Indices: 10937247--10937310 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
10937237 AGTTCTTTAT
10937247 TGCTTTTGAAAAGTACTATTGAGAAG
1 TGCTTTTGAAAAGTACTATTGAGAAG
* * *
10937273 TG-TTGTGGAAAAGTGCTTTTGAGAAG
1 TGCTT-TTGAAAAGTACTATTGAGAAG
10937299 TGCTTTTGAAAA
1 TGCTTTTGAAAA
10937311 ATTTGAGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.06
26 28 0.88
27 2 0.06
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTATTGAGAAG
Found at i:10937525 original size:24 final size:23
Alignment explanation
Indices: 10937497--10937557 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
10937487 ATATATAATT
10937497 TTAATTTTAAATATTT-CTAAGTAA
1 TTAATTTTAAATATTTACTAA--AA
* * *
10937521 TTAATATTAATTATTTACTAAAT
1 TTAATTTTAAATATTTACTAAAA
*
10937544 TTAAATTTAAATAT
1 TTAATTTTAAATAT
10937558 AAAAATTAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
23 12 0.40
24 14 0.47
25 4 0.13
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTAAATATTTACTAAAA
Found at i:10939587 original size:27 final size:28
Alignment explanation
Indices: 10939539--10939606 Score: 102
Period size: 27 Copynumber: 2.4 Consensus size: 28
10939529 AGAATGAGAG
*
10939539 TAAAATAAGACAAGGAGAGAAAGGAAGAT
1 TAAAACAAGA-AAGGAGAGAAAGGAAGAT
*
10939568 TGAAACAAGAAAGGA-AGAAAGGAAGAT
1 TAAAACAAGAAAGGAGAGAAAGGAAGAT
10939595 TAAAACAAGAAA
1 TAAAACAAGAAA
10939607 AGAAACCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 23 0.64
28 5 0.14
29 8 0.22
ACGTcount: A:0.62, C:0.04, G:0.25, T:0.09
Consensus pattern (28 bp):
TAAAACAAGAAAGGAGAGAAAGGAAGAT
Found at i:10948749 original size:35 final size:35
Alignment explanation
Indices: 10948703--10948787 Score: 143
Period size: 35 Copynumber: 2.4 Consensus size: 35
10948693 AATGTAATTT
* *
10948703 GCTTGACTTTTTATTTTATTTTATTTGTTGATAGA
1 GCTTGATTTTTTATTTTATTTTATTTGTTGACAGA
*
10948738 GCTTGATTTTTTATTTTATTTTATTTTTTGACAGA
1 GCTTGATTTTTTATTTTATTTTATTTGTTGACAGA
10948773 GCTTGATTTTTTATT
1 GCTTGATTTTTTATT
10948788 AATAAAATAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.62
Consensus pattern (35 bp):
GCTTGATTTTTTATTTTATTTTATTTGTTGACAGA
Found at i:10957418 original size:20 final size:21
Alignment explanation
Indices: 10957389--10957432 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
10957379 AAATTTTAAC
10957389 TTTTTATCTCCCAAAAGCA-T
1 TTTTTATCTCCCAAAAGCACT
*
10957409 TTTTTCTCTCCCAAAAGCACT
1 TTTTTATCTCCCAAAAGCACT
10957430 TTT
1 TTT
10957433 AGTGTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.25, C:0.27, G:0.05, T:0.43
Consensus pattern (21 bp):
TTTTTATCTCCCAAAAGCACT
Found at i:10957602 original size:33 final size:35
Alignment explanation
Indices: 10957565--10957661 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 35
10957555 ATGGTTATAT
10957565 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTGCTTAA
* *
10957598 TTAAAT-TTTATAA-ATAATTAATATTTATTGCTTAA
1 TTAAATATTTAAAATATAATT--TATATATTGCTTAA
*
10957633 --AAATATTTAAAATTTATATTTTATATATT
1 TTAAATATTTAAAA--TATAATTTATATATT
10957662 AAAATATTAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.14
35 10 0.20
37 5 0.10
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTGCTTAA
Found at i:10963773 original size:100 final size:100
Alignment explanation
Indices: 10963600--10963800 Score: 393
Period size: 100 Copynumber: 2.0 Consensus size: 100
10963590 CATTCATCTC
10963600 CTTCTTCAAGCTTTATTTGTTATGATTCTAATGATCTGGGTTTCTGCTGTTTGGACTTTTCTCTG
1 CTTCTTCAAGCTTTATTTGTTATGATTCTAATGATCTGGGTTTCTGCTGTTTGGACTTTTCTCTG
*
10963665 TACTGATGGTGGTGTTTCTGCTGCTGCAACTTCTA
66 TACTGATGGTGGTGTTGCTGCTGCTGCAACTTCTA
10963700 CTTCTTCAAGCTTTATTTGTTATGATTCTAATGATCTGGGTTTCTGCTGTTTGGACTTTTCTCTG
1 CTTCTTCAAGCTTTATTTGTTATGATTCTAATGATCTGGGTTTCTGCTGTTTGGACTTTTCTCTG
10963765 TACTGATGGTGGTGTTGCTGCTGCTGCAACTTCTA
66 TACTGATGGTGGTGTTGCTGCTGCTGCAACTTCTA
10963800 C
1 C
10963801 CATTTTCAAC
Statistics
Matches: 100, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.14, C:0.18, G:0.21, T:0.46
Consensus pattern (100 bp):
CTTCTTCAAGCTTTATTTGTTATGATTCTAATGATCTGGGTTTCTGCTGTTTGGACTTTTCTCTG
TACTGATGGTGGTGTTGCTGCTGCTGCAACTTCTA
Found at i:10964003 original size:12 final size:12
Alignment explanation
Indices: 10963986--10964012 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
10963976 AATAAATCAT
10963986 ATATGTATATTA
1 ATATGTATATTA
10963998 ATATGTATATTA
1 ATATGTATATTA
10964010 ATA
1 ATA
10964013 GAAAATTTAA
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:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATGTATATTA
Found at i:10964379 original size:20 final size:21
Alignment explanation
Indices: 10964331--10964382 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
10964321 ACCATTATTT
* **
10964331 CTAATCTCACCGCTATAGTGT
1 CTAATCTCACCACTATAGTAA
*
10964352 CCAATCTCACCACTA-AGTAA
1 CTAATCTCACCACTATAGTAA
10964372 CTAATCTCACC
1 CTAATCTCACC
10964383 GCCACCGCTG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.27
Consensus pattern (21 bp):
CTAATCTCACCACTATAGTAA
Found at i:10969257 original size:30 final size:29
Alignment explanation
Indices: 10969223--10969306 Score: 96
Period size: 30 Copynumber: 2.8 Consensus size: 29
10969213 AACACCAAAA
** *
10969223 AAAAATTTAGAAAATTAAAAAATATATTTT
1 AAAAATTTTCAAAAATAAAAAA-ATATTTT
*
10969253 AAAAATATTTCAAAAATAAAAAAGTATTTT
1 AAAAAT-TTTCAAAAATAAAAAAATATTTT
*
10969283 AAAATATTTTTAAAAATAAAAAAA
1 AAAA-ATTTTCAAAAATAAAAAAA
10969307 ATATATATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 31 0.67
31 15 0.33
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (29 bp):
AAAAATTTTCAAAAATAAAAAAATATTTT
Found at i:10970279 original size:24 final size:24
Alignment explanation
Indices: 10970251--10970463 Score: 192
Period size: 24 Copynumber: 9.0 Consensus size: 24
10970241 GCTGCTCAAA
* * *
10970251 TTGGTATATATATGTTGCCCAATT
1 TTGGTATATAAATGCTGTCCAATT
*
10970275 TTGGTGA-ATAAATGTTGTCCAATT
1 TTGGT-ATATAAATGCTGTCCAATT
* *
10970299 TT-GTATATACATG-TGTCAAATT
1 TTGGTATATAAATGCTGTCCAATT
* * *
10970321 TT-GTGTATAAGTGCTGTCCAA-A
1 TTGGTATATAAATGCTGTCCAATT
* *
10970343 TTGGTATATATATGCTGCCCAATT
1 TTGGTATATAAATGCTGTCCAATT
10970367 TTGGTGA-ATAAATGCTGTCCAATT
1 TTGGT-ATATAAATGCTGTCCAATT
* *
10970391 GT-GTATATAAATGCTGTCAAATT
1 TTGGTATATAAATGCTGTCCAATT
*
10970414 TTGGTGTATAAATGCTGTCCAATT
1 TTGGTATATAAATGCTGTCCAATT
10970438 TT-GTATATATATATGCTG-CTCAATT
1 TTGGTATATA-A-ATGCTGTC-CAATT
10970463 T
1 T
10970464 CTGATGTATA
Statistics
Matches: 156, Mismatches: 22, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
22 22 0.14
23 54 0.35
24 66 0.42
25 14 0.09
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (24 bp):
TTGGTATATAAATGCTGTCCAATT
Found at i:10970288 original size:47 final size:47
Alignment explanation
Indices: 10970237--10970449 Score: 245
Period size: 47 Copynumber: 4.6 Consensus size: 47
10970227 TTTTATGCTA
* *
10970237 AAATGCTG-CTCAAATTGGTATATATATGTTGCCCAATTTTGGTGAAT
1 AAATGCTGTC-CAAATTGGTATATATATGCTGCCAAATTTTGGTGAAT
* * * * * *
10970284 AAATGTTGTCCAATTTTGTATATACATG-TGTCAAATTTT-GTGTAT
1 AAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGTGAAT
* *
10970329 AAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAAT
1 AAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGTGAAT
* * *
10970376 AAATGCTGTCC-AATTGTGTATATAAATGCTGTCAAATTTTGGTGTAT
1 AAATGCTGTCCAAATTG-GTATATATATGCTGCCAAATTTTGGTGAAT
* *
10970423 AAATGCTGTCCAATTTTGTATATATAT
1 AAATGCTGTCCAAATTGGTATATATAT
10970450 ATGCTGCTCA
Statistics
Matches: 138, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
45 28 0.20
46 23 0.17
47 83 0.60
48 4 0.03
ACGTcount: A:0.30, C:0.12, G:0.18, T:0.41
Consensus pattern (47 bp):
AAATGCTGTCCAAATTGGTATATATATGCTGCCAAATTTTGGTGAAT
Found at i:10970352 original size:23 final size:23
Alignment explanation
Indices: 10970237--10970455 Score: 137
Period size: 23 Copynumber: 9.3 Consensus size: 23
10970227 TTTTATGCTA
10970237 AAATGCTG-CTCAAATTGGTATAT
1 AAATGCTGTC-CAAATTGGTATAT
* * * *
10970260 ATATGTTGCCCAATTTTGGTGA-AT
1 AAATGCTGTCCAA-ATTGGT-ATAT
* * *
10970284 AAATGTTGTCCAATTTTGTATAT
1 AAATGCTGTCCAAATTGGTATAT
* * *
10970307 ACATG-TGT-CAAATTTTGTGTAT
1 AAATGCTGTCCAAA-TTGGTATAT
*
10970329 AAGTGCTGTCCAAATTGGTATAT
1 AAATGCTGTCCAAATTGGTATAT
* * *
10970352 ATATGCTGCCCAATTTTGGTGA-AT
1 AAATGCTGTCCAA-ATTGGT-ATAT
10970376 AAATGCTGTCC-AATTGTGTATAT
1 AAATGCTGTCCAAATTG-GTATAT
*
10970399 AAATGCTGT-CAAATTTTGGTGTAT
1 AAATGCTGTCCAAA--TTGGTATAT
* *
10970423 AAATGCTGTCCAATTTTGTATAT
1 AAATGCTGTCCAAATTGGTATAT
10970446 ATATATGCTG
1 A-A-ATGCTG
10970456 CTCAATTTCT
Statistics
Matches: 155, Mismatches: 24, Indels: 32
0.73 0.11 0.15
Matches are distributed among these distances:
21 3 0.02
22 20 0.13
23 64 0.41
24 54 0.35
25 14 0.09
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
AAATGCTGTCCAAATTGGTATAT
Found at i:10970397 original size:92 final size:94
Alignment explanation
Indices: 10970237--10970463 Score: 334
Period size: 92 Copynumber: 2.4 Consensus size: 94
10970227 TTTTATGCTA
* * *
10970237 AAATGCTG-CTCAAATTGGTATATATATGTTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTT
1 AAATGCTGTC-CAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTGT
*
10970301 GTATATACATG-TGTCAAATTTT-GTGTAT
65 GTATATAAATGCTGTCAAATTTTGGTGTAT
*
10970329 AAGTGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTGTG
1 AAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTGTG
10970394 TATATAAATGCTGTCAAATTTTGGTGTAT
66 TATATAAATGCTGTCAAATTTTGGTGTAT
* * *
10970423 AAATGCTGTCCAATTTTGTATATATATATGCTGCTCAATTT
1 AAATGCTGTCCAA-ATTG-GTATATATATGCTGCCCAATTT
10970464 CTGATGTATA
Statistics
Matches: 121, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
92 68 0.56
93 12 0.10
94 18 0.15
95 3 0.02
96 20 0.17
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (94 bp):
AAATGCTGTCCAAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTGTG
TATATAAATGCTGTCAAATTTTGGTGTAT
Found at i:10971820 original size:2 final size:2
Alignment explanation
Indices: 10971808--10971837 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
10971798 ATCGGATTGT
10971808 TA TA GTA 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
10971838 GATTACAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10976377 original size:13 final size:13
Alignment explanation
Indices: 10976361--10976403 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
10976351 ATAAAAGCTA
10976361 AAAATATTTTCAT
1 AAAATATTTTCAT
* *
10976374 AAAATAAGTTTCTAC
1 AAAAT-ATTTTC-AT
10976389 AAAATATTTTCAT
1 AAAATATTTTCAT
10976402 AA
1 AA
10976404 TCTTTCAGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
13 8 0.33
14 10 0.42
15 6 0.25
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.40
Consensus pattern (13 bp):
AAAATATTTTCAT
Found at i:10979303 original size:21 final size:20
Alignment explanation
Indices: 10979277--10979323 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
10979267 AACTACCATT
*
10979277 AAAAAAACATCACTACTGTTA
1 AAAAAAAC-CCACTACTGTTA
*
10979298 AAAAAAACCCATTACTGTTA
1 AAAAAAACCCACTACTGTTA
10979318 AAAAAA
1 AAAAAA
10979324 GTTGGCTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.21
Consensus pattern (20 bp):
AAAAAAACCCACTACTGTTA
Found at i:10979454 original size:31 final size:28
Alignment explanation
Indices: 10979411--10979480 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
10979401 ATATTACAAA
*
10979411 AATAAAAATAAA-AATAGAT-TAAAAAAT
1 AATAAAAATAAATAA-AAATATAAAAAAT
**
10979438 TTTAAAAATAAATAAAAATATAAAAAAT
1 AATAAAAATAAATAAAAATATAAAAAAT
10979466 AATAAAAAT-AATAAA
1 AATAAAAATAAATAAA
10979481 TAGAAATCAC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 19 0.53
28 17 0.47
ACGTcount: A:0.74, C:0.00, G:0.01, T:0.24
Consensus pattern (28 bp):
AATAAAAATAAATAAAAATATAAAAAAT
Found at i:10979473 original size:9 final size:9
Alignment explanation
Indices: 10979417--10979480 Score: 58
Period size: 9 Copynumber: 6.7 Consensus size: 9
10979407 CAAAAATAAA
10979417 AATAAAAAT
1 AATAAAAAT
10979426 AGATTAAAAAAT
1 A-A-T-AAAAAT
**
10979438 TTTAAAAAT
1 AATAAAAAT
10979447 AAATAAAAAT
1 -AATAAAAAT
10979457 -ATAAAAAAT
1 AAT-AAAAAT
10979466 AATAAAAAT
1 AATAAAAAT
10979475 AATAAA
1 AATAAA
10979481 TAGAAATCAC
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
8 2 0.04
9 25 0.56
10 11 0.24
11 1 0.02
12 6 0.13
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (9 bp):
AATAAAAAT
Found at i:10979479 original size:19 final size:19
Alignment explanation
Indices: 10979441--10979480 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
10979431 AAAAAATTTT
10979441 AAAAATAAATAAAAATATA
1 AAAAATAAATAAAAATATA
10979460 AAAAAT-AATAAAAATAATA
1 AAAAATAAATAAAAAT-ATA
10979479 AA
1 AA
10979481 TAGAAATCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAAATAAATAAAAATATA
Found at i:10982544 original size:15 final size:16
Alignment explanation
Indices: 10982521--10982558 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
10982511 TAAAAAATAA
10982521 AAGAGAAAGAAAAAAG
1 AAGAGAAAGAAAAAAG
*
10982537 AA-AGAAAGAAAGAAG
1 AAGAGAAAGAAAAAAG
10982552 AAGAGAA
1 AAGAGAA
10982559 TACGCATGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (16 bp):
AAGAGAAAGAAAAAAG
Found at i:10991300 original size:18 final size:18
Alignment explanation
Indices: 10991277--10991313 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10991267 AATTTATTCC
* *
10991277 TCATTTTTATTTTTATTT
1 TCATTTTCATTTCTATTT
10991295 TCATTTTCATTTCTATTT
1 TCATTTTCATTTCTATTT
10991313 T
1 T
10991314 GAGAAAACCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.73
Consensus pattern (18 bp):
TCATTTTCATTTCTATTT
Found at i:10997379 original size:31 final size:32
Alignment explanation
Indices: 10997344--10997413 Score: 90
Period size: 31 Copynumber: 2.2 Consensus size: 32
10997334 AATAAATACC
10997344 AAAAATTTATTTTAAAAAT-TTAAAAAATTAA
1 AAAAATTTATTTTAAAAATATTAAAAAATTAA
* **
10997375 AAAAA-GTATTTTAAAAATATTTTAAAATTAA
1 AAAAATTTATTTTAAAAATATTAAAAAATTAA
*
10997406 ACAAATTT
1 AAAAATTT
10997414 TAAAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
30 12 0.38
31 19 0.59
32 1 0.03
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (32 bp):
AAAAATTTATTTTAAAAATATTAAAAAATTAA
Found at i:10997429 original size:7 final size:7
Alignment explanation
Indices: 10997417--10997452 Score: 54
Period size: 7 Copynumber: 4.9 Consensus size: 7
10997407 CAAATTTTAA
10997417 AAAAAAT
1 AAAAAAT
10997424 AAAAAAT
1 AAAAAAT
10997431 AAAAAAAAT
1 --AAAAAAT
10997440 AAAAAAT
1 AAAAAAT
10997447 AAAAAA
1 AAAAAA
10997453 ATTATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.74
9 7 0.26
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (7 bp):
AAAAAAT
Found at i:10997429 original size:8 final size:8
Alignment explanation
Indices: 10997416--10997454 Score: 55
Period size: 8 Copynumber: 5.0 Consensus size: 8
10997406 ACAAATTTTA
10997416 AAAAAAAT
1 AAAAAAAT
10997424 -AAAAAAT
1 AAAAAAAT
10997431 AAAAAAA-
1 AAAAAAAT
10997438 ATAAAAAAT
1 A-AAAAAAT
10997447 AAAAAAAT
1 AAAAAAAT
10997455 TATTATATTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
7 8 0.29
8 19 0.68
9 1 0.04
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (8 bp):
AAAAAAAT
Found at i:10997435 original size:16 final size:16
Alignment explanation
Indices: 10997414--10997453 Score: 80
Period size: 16 Copynumber: 2.5 Consensus size: 16
10997404 AAACAAATTT
10997414 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
10997430 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
10997446 TAAAAAAA
1 TAAAAAAA
10997454 TTATTATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:11004937 original size:6 final size:6
Alignment explanation
Indices: 11004921--11004959 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
11004911 TGGTTTTCTC
*
11004921 AAAATG GAAATG AAAATG AAAATG AAAATG AGAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG A-AAATG AA
11004960 TTTATTTAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (6 bp):
AAAATG
Found at i:11007713 original size:2 final size:2
Alignment explanation
Indices: 11007706--11007739 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
11007696 TCAGCTACCG
11007706 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
11007740 ATATATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:11010488 original size:14 final size:14
Alignment explanation
Indices: 11010471--11010497 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11010461 TTGATCTTTA
11010471 TAGATGAGCTTTCG
1 TAGATGAGCTTTCG
11010485 TAGATGAGCTTTC
1 TAGATGAGCTTTC
11010498 ATACTTCCAT
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:0.15, G:0.26, T:0.37
Consensus pattern (14 bp):
TAGATGAGCTTTCG
Found at i:11010571 original size:42 final size:42
Alignment explanation
Indices: 11010512--11010593 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
11010502 TTCCATAGTA
**
11010512 CTAGCATTATTCGAAGTCCAAAGATTTTGTTTAAAGAATTGT
1 CTAGCATTATTCGAAGTCCAAAGATTTTAATTAAAGAATTGT
*
11010554 CTAGCATTATTTGAAGTCCAAAGATTTTAATTAAAGAATT
1 CTAGCATTATTCGAAGTCCAAAGATTTTAATTAAAGAATT
11010594 TTCAACTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.38
Consensus pattern (42 bp):
CTAGCATTATTCGAAGTCCAAAGATTTTAATTAAAGAATTGT
Found at i:11019438 original size:104 final size:104
Alignment explanation
Indices: 11019258--11019689 Score: 471
Period size: 104 Copynumber: 4.2 Consensus size: 104
11019248 TAAGATTGGG
* * * * *
11019258 GGTTGCGAGCTTAAC-CATGCTAACCTTTAATAATCAGATGGAAGTGTAGGTCCACGAGCTGTAT
1 GGTTGCGAGCTTAACTC-TGCTAACCTTTAATAATCAGCTGGAAGCGTAGGTCCGCTAGCTGTCT
***
11019322 -GAGAGCTGTGAGCTTAACTCTGCTAACTCAAAAGACCA-GA
65 AG-GAGCTACAAGCTTAACTCTGCTAACTCAAAAGA-CAGGA
* * * * *
11019362 GGTTGCGAGCTTAACTCTGCTAACTTTTAATACTCAGCTGGGAGCATAGGTCCGCTAGCTGTCCA
1 GGTTGCGAGCTTAACTCTGCTAACCTTTAATAATCAGCTGGAAGCGTAGGTCCGCTAGCTGTCTA
* *** * *
11019427 GGAGTTGTGAGCTTAACTTTGCTAACTCAAAAGATAGGA
66 GGAGCTACAAGCTTAACTCTGCTAACTCAAAAGACAGGA
* * * *
11019466 GGTTGCGAGCTTAACTCTACTAACC-TTAATAATCAGTTGG-AGTGTAGGTCCGCTAGTTGTCTA
1 GGTTGCGAGCTTAACTCTGCTAACCTTTAATAATCAGCTGGAAGCGTAGGTCCGCTAGCTGTCTA
* * * *
11019529 GGAGTTACAAGTTTAACTTTGCTAACTCAAAAGATC-GAA
66 GGAGCTACAAGCTTAACTCTGCTAACTCAAAAGA-CAGGA
* * * * * *
11019568 GGTTACAAGCTTAACTCTGCTAACCTTAAATAATCAGCTGGAAGCGTAGGTCCGCTAGTTATCTG
1 GGTTGCGAGCTTAACTCTGCTAACCTTTAATAATCAGCTGGAAGCGTAGGTCCGCTAGCTGTCTA
* *
11019633 GGAGCTACAAGCTTAAGTCTGCTAACTCAAAAGATAGGA
66 GGAGCTACAAGCTTAACTCTGCTAACTCAAAAGACAGGA
11019672 GGTTGCGAGCTTAACTCT
1 GGTTGCGAGCTTAACTCT
11019690 ACTATTGGCA
Statistics
Matches: 278, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
102 73 0.26
103 27 0.10
104 176 0.63
105 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (104 bp):
GGTTGCGAGCTTAACTCTGCTAACCTTTAATAATCAGCTGGAAGCGTAGGTCCGCTAGCTGTCTA
GGAGCTACAAGCTTAACTCTGCTAACTCAAAAGACAGGA
Found at i:11019620 original size:206 final size:208
Alignment explanation
Indices: 11019249--11019693 Score: 540
Period size: 206 Copynumber: 2.1 Consensus size: 208
11019239 GTTTGTAAAT
* * *
11019249 AAGATTGGGGGTTGCGAGCTTAAC-CATGCTAACCTTTAATAATCAGATGGAAGTGTAGGTCCAC
1 AAGATAGGAGGTTGCGAGCTTAACTC-TACTAACCTTTAATAATCAGATGGAAGTGTAGGTCCAC
*** * *
11019313 GAGCTGTATGAGAGCTGTGAGCTTAACTCTGCTAACTCAAAAGACCAGAGGTTGCGAGCTTAACT
65 GAGCTGTATGAGAGCTACAAGCTTAACTCTGCTAACTCAAAAGACCAGAGGTTACAAGCTTAACT
* * * * * * ***
11019378 CTGCTAACTTTTAATACTCAGCTGGGAGCATAGGTCCGCTAGCTGTCCAGGAGTTGTGAGCTTAA
130 CTGCTAACCTTAAATAATCAGCTGGAAGCATAGGTCCGCTAGCTATCCAGGAGCTACAAGCTTAA
*
11019443 CTTTGCTAACTCAA
195 CTCTGCTAACTCAA
* * *
11019457 AAGATAGGAGGTTGCGAGCTTAACTCTACTAACC-TTAATAATCAGTTGG-AGTGTAGGTCCGCT
1 AAGATAGGAGGTTGCGAGCTTAACTCTACTAACCTTTAATAATCAGATGGAAGTGTAGGTCCACG
* * * * * *
11019520 AGTTGTCT-AGGAGTTACAAGTTTAACTTTGCTAACTCAAAAGATC-GAAGGTTACAAGCTTAAC
66 AGCTGTATGA-GAGCTACAAGCTTAACTCTGCTAACTCAAAAGACCAG-AGGTTACAAGCTTAAC
* * **
11019583 TCTGCTAACCTTAAATAATCAGCTGGAAGCGTAGGTCCGCTAGTTATCTGGGAGCTACAAGCTTA
129 TCTGCTAACCTTAAATAATCAGCTGGAAGCATAGGTCCGCTAGCTATCCAGGAGCTACAAGCTTA
*
11019648 AGTCTGCTAACTCAA
194 ACTCTGCTAACTCAA
11019663 AAGATAGGAGGTTGCGAGCTTAACTCTACTA
1 AAGATAGGAGGTTGCGAGCTTAACTCTACTA
11019694 TTGGCATGGT
Statistics
Matches: 202, Mismatches: 32, Indels: 8
0.83 0.13 0.03
Matches are distributed among these distances:
205 2 0.01
206 156 0.77
207 14 0.07
208 29 0.14
209 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (208 bp):
AAGATAGGAGGTTGCGAGCTTAACTCTACTAACCTTTAATAATCAGATGGAAGTGTAGGTCCACG
AGCTGTATGAGAGCTACAAGCTTAACTCTGCTAACTCAAAAGACCAGAGGTTACAAGCTTAACTC
TGCTAACCTTAAATAATCAGCTGGAAGCATAGGTCCGCTAGCTATCCAGGAGCTACAAGCTTAAC
TCTGCTAACTCAA
Found at i:11021501 original size:12 final size:14
Alignment explanation
Indices: 11021479--11021517 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
11021469 GAGAAAAACT
*
11021479 TAATAATAATATAAA
1 TAATAAT-ATATACA
*
11021494 TGATAATATATACA
1 TAATAATATATACA
11021508 TAATAATATA
1 TAATAATATA
11021518 CAAAAGTTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATAATATATACA
Found at i:11022019 original size:31 final size:31
Alignment explanation
Indices: 11021958--11022019 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
11021948 TATATCAAAA
* * *
11021958 AATAAGAACTAATTAGATTTAAAATTAAAGT
1 AATAAAAACTAATTAGAATTAAAATCAAAGT
*
11021989 AATAAAAACTAAATTAGAATTGAAA-CAAAGT
1 AATAAAAACT-AATTAGAATTAAAATCAAAGT
11022020 TAAAAGAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.58, C:0.05, G:0.10, T:0.27
Consensus pattern (31 bp):
AATAAAAACTAATTAGAATTAAAATCAAAGT
Found at i:11023186 original size:7 final size:7
Alignment explanation
Indices: 11023163--11023199 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
11023153 ACTGGACATT
11023163 TTATTTA
1 TTATTTA
*
11023170 -TATATA
1 TTATTTA
11023176 TTATTTA
1 TTATTTA
11023183 TTATTTA
1 TTATTTA
11023190 TTA-TTA
1 TTATTTA
11023196 TTAT
1 TTAT
11023200 ATATATTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
6 11 0.42
7 15 0.58
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (7 bp):
TTATTTA
Found at i:11023188 original size:20 final size:20
Alignment explanation
Indices: 11023163--11023212 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
11023153 ACTGGACATT
*
11023163 TTATTTATATATATTATTTA
1 TTATTTATATATATTATATA
11023183 TTATTTAT-TATTATTATATA
1 TTATTTATATA-TATTATATA
11023203 -TATTT-TATAT
1 TTATTTATATAT
11023213 TTTTGTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 9 0.33
20 16 0.59
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATTTATATATATTATATA
Found at i:11024806 original size:19 final size:19
Alignment explanation
Indices: 11024778--11024819 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11024768 TCATCAATTA
11024778 ATTTAATAAT-ATTACTATT
1 ATTTAATAATCA-TACTATT
* *
11024797 ATTTATTAATCATATTATT
1 ATTTAATAATCATACTATT
11024816 ATTT
1 ATTT
11024820 GTATTATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAATAATCATACTATT
Found at i:11034841 original size:196 final size:195
Alignment explanation
Indices: 11034506--11034895 Score: 744
Period size: 196 Copynumber: 2.0 Consensus size: 195
11034496 ATGCACACAG
*
11034506 TTGAGGAGATTGTTCTCGAGGAGCCCAGAATTTGAATAACAGGTCGTCGAGCTTAACGACGTTAA
1 TTGAGGAGATTGTTCTCAAGGAGCCCAGAATTTGAATAACAGGTCGTCGAGCTTAACGACGTTAA
11034571 ACAAAGCGTTGTTGGGAGGCAACCCAAATTTTCTTTTCCTTTATGCAAATAAAATTGTTGGTAAA
66 ACAAAGCGTTGTTGGGAGGCAACCCAAATTTTCTTTTCCTTTATGCAAATAAAATTGTTGGTAAA
11034636 ATGGAAAATGAAAATGCATGTCAAGGATTAGTTCTGTCTAAGGAAAGACTTCGTACTTAAGAATA
131 ATGGAAAATGAAAATGCATGTCAAGGATTAGTTCTGTCTAAGGAAAGACTTCGTACTTAAGAATA
11034701 TNTGAGGAGATTGTTCTCAAGGAGCCCAGAATTTGAATAACAGGTCGTCGAGCTTAACGACGTTA
1 T-TGAGGAGATTGTTCTCAAGGAGCCCAGAATTTGAATAACAGGTCGTCGAGCTTAACGACGTTA
*
11034766 AACAAAGCGTTGTTGGGAGGCAACCCAAATTTTCTTTTCCTTTATGCAAATAAAATTTTTGGTAA
65 AACAAAGCGTTGTTGGGAGGCAACCCAAATTTTCTTTTCCTTTATGCAAATAAAATTGTTGGTAA
*
11034831 AATGGAAAATGAAAATGCATGTCAAGGATTAGTTCTGTCTAAGGAAAGACTTGGTACTTAAGAAT
130 AATGGAAAATGAAAATGCATGTCAAGGATTAGTTCTGTCTAAGGAAAGACTTCGTACTTAAGAAT
11034896 GTCCATTGTG
Statistics
Matches: 191, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
195 1 0.01
196 190 0.99
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (195 bp):
TTGAGGAGATTGTTCTCAAGGAGCCCAGAATTTGAATAACAGGTCGTCGAGCTTAACGACGTTAA
ACAAAGCGTTGTTGGGAGGCAACCCAAATTTTCTTTTCCTTTATGCAAATAAAATTGTTGGTAAA
ATGGAAAATGAAAATGCATGTCAAGGATTAGTTCTGTCTAAGGAAAGACTTCGTACTTAAGAATA
Found at i:11035065 original size:6 final size:6
Alignment explanation
Indices: 11035050--11035101 Score: 61
Period size: 6 Copynumber: 8.3 Consensus size: 6
11035040 AATTTTCCTA
*
11035050 TTATTAT TTATTT TTACTATT TTA-TT TTATTT TCATTT TTATTT TTATTT
1 TTATT-T TTATTT TTA-T-TT TTATTT TTATTT TTATTT TTATTT TTATTT
11035100 TT
1 TT
11035102 GCAGGAAACA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.12
6 24 0.60
7 6 0.15
8 5 0.12
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:11035069 original size:19 final size:19
Alignment explanation
Indices: 11035042--11035101 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
11035032 ACATTTTAAA
*
11035042 TTTTCCTATTATTATTTAT
1 TTTTACTATTATTATTTAT
11035061 TTTTACTATT-TTATTTTAT
1 TTTTACTATTATTA-TTTAT
* * *
11035080 TTTCATTTTTATT-TTTAT
1 TTTTACTATTATTATTTAT
11035098 TTTT
1 TTTT
11035102 GCAGGAAACA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 11 0.32
19 21 0.62
20 2 0.06
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTTACTATTATTATTTAT
Found at i:11038599 original size:16 final size:16
Alignment explanation
Indices: 11038558--11038614 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 16
11038548 TAGGTATAAA
*
11038558 ATTTCACTTCCCACTT
1 ATTTCACTTACCACTT
*
11038574 ACTTT-GCTTACCACTT
1 A-TTTCACTTACCACTT
* *
11038590 ATTTCTCTTAGCACTT
1 ATTTCACTTACCACTT
11038606 ATTTCACTT
1 ATTTCACTT
11038615 GGTCACTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 3 0.09
16 28 0.82
17 3 0.09
ACGTcount: A:0.19, C:0.30, G:0.04, T:0.47
Consensus pattern (16 bp):
ATTTCACTTACCACTT
Found at i:11048898 original size:30 final size:30
Alignment explanation
Indices: 11048864--11048957 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
11048854 ATATTTTATT
*
11048864 AATTTGATCCTAATTTTAAATAATTTAATA
1 AATTTGATCCTAATTATAAATAATTTAATA
* * *
11048894 AATTTAATCTTCACATTCATAAAT--TTT-ATC
1 AATTTGATCCT-A-ATT-ATAAATAATTTAATA
* *
11048924 AATTTGATCCTAATTCTGAATAA-TTAATA
1 AATTTGATCCTAATTATAAATAATTTAATA
11048953 AATTT
1 AATTT
11048958 AACACTTCAC
Statistics
Matches: 49, Mismatches: 9, Indels: 13
0.69 0.13 0.18
Matches are distributed among these distances:
27 4 0.08
28 5 0.10
29 8 0.16
30 20 0.41
31 4 0.08
32 3 0.06
33 5 0.10
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (30 bp):
AATTTGATCCTAATTATAAATAATTTAATA
Found at i:11048921 original size:60 final size:60
Alignment explanation
Indices: 11048856--11048988 Score: 187
Period size: 60 Copynumber: 2.2 Consensus size: 60
11048846 ATACTTACAT
* * * *
11048856 ATTTTATTAATTTGATCCTAATTTTAAATAATTTAATAAATTTAA-TCTTCACATTCATAA
1 ATTTTATCAATTTGATCCTAATTCTAAATAA-TTAATAAATTTAACACTTCACATTCACAA
* *
11048916 ATTTTATCAATTTGATCCTAATTCTGAATAATTAATAAATTTAACACTTCACATTTACAA
1 ATTTTATCAATTTGATCCTAATTCTAAATAATTAATAAATTTAACACTTCACATTCACAA
*
11048976 ATTCTATCAATTT
1 ATTTTATCAATTT
11048989 AATATTCAAA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
59 13 0.20
60 52 0.80
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (60 bp):
ATTTTATCAATTTGATCCTAATTCTAAATAATTAATAAATTTAACACTTCACATTCACAA
Found at i:11072656 original size:19 final size:19
Alignment explanation
Indices: 11072632--11072669 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11072622 CCTGCTTACC
11072632 AACCACCAATCACACCACA
1 AACCACCAATCACACCACA
* *
11072651 AACCACCATTCATACCACA
1 AACCACCAATCACACCACA
11072670 CAAATACATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.45, G:0.00, T:0.11
Consensus pattern (19 bp):
AACCACCAATCACACCACA
Found at i:11074430 original size:23 final size:24
Alignment explanation
Indices: 11074404--11074454 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
11074394 TCATATTCTG
* *
11074404 ACATAATCACATTTCATATA-ATC
1 ACATAAGCACATTTCATACACATC
* *
11074427 ACATTAGCACATTTTATACACATC
1 ACATAAGCACATTTCATACACATC
11074451 ACAT
1 ACAT
11074455 CACATTTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (24 bp):
ACATAAGCACATTTCATACACATC
Found at i:11075213 original size:58 final size:60
Alignment explanation
Indices: 11075098--11075214 Score: 175
Period size: 58 Copynumber: 2.0 Consensus size: 60
11075088 CATTCCCTAG
* *
11075098 TCCCAAGGCTAATATTGTATAAAAAAAAATAAAACAAACTTGTTTATTAACTACTAGAAAC
1 TCCCAAGGCTAATATTGCAT-AAAAAAAATAAAACAAACTTGTTTATTAACCACTAGAAAC
* *
11075159 TCCCACGGCTAATATTGCAT-AGAAAAATAAAAC-AACTTGTTTATTAACCACTAGAA
1 TCCCAAGGCTAATATTGCATAAAAAAAATAAAACAAACTTGTTTATTAACCACTAGAA
11075215 TTTCTATCAC
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
58 22 0.42
59 12 0.23
61 18 0.35
ACGTcount: A:0.46, C:0.17, G:0.09, T:0.27
Consensus pattern (60 bp):
TCCCAAGGCTAATATTGCATAAAAAAAATAAAACAAACTTGTTTATTAACCACTAGAAAC
Found at i:11075614 original size:30 final size:30
Alignment explanation
Indices: 11075580--11075642 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
11075570 ACTTATTTTA
* *
11075580 TTGTTAATTTTGTTATTATTTTAAAGGTAT
1 TTGTTAATATTGTTATTATTTTAAAGGCAT
*
11075610 TTGTTAATATTGTTATTATTTTAGAGGCAT
1 TTGTTAATATTGTTATTATTTTAAAGGCAT
11075640 TTG
1 TTG
11075643 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.02, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATATTGTTATTATTTTAAAGGCAT
Found at i:11076327 original size:14 final size:15
Alignment explanation
Indices: 11076299--11076331 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
11076289 AAGGCTTATA
11076299 GATTATGGAATTAGG
1 GATTATGGAATTAGG
11076314 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
11076328 GATT
1 GATT
11076332 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:11076592 original size:88 final size:89
Alignment explanation
Indices: 11076405--11076579 Score: 262
Period size: 88 Copynumber: 2.0 Consensus size: 89
11076395 TAGGGTTTAT
* * *
11076405 GGATTTGGTGTCGGGTTAGGGTTTAGGGTTTAGATTGATTATTGTGTTTTAATTTATATATTAAA
1 GGATTTGGGGTCGGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAA
* *
11076470 TGATGTTTAAGGGTTAGAGGTTAA
66 TAAGGTTTAAGGGTTAGAGGTTAA
* *
11076494 GGATTCGGGGTCGGGTTAGGGTTTA-GGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAA
1 GGATTTGGGGTCGGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAA
* *
11076558 TAAGGTTTAGGGGTTAGTGGTT
66 TAAGGTTTAAGGGTTAGAGGTT
11076580 TGGGGTTTGG
Statistics
Matches: 77, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 54 0.70
89 23 0.30
ACGTcount: A:0.24, C:0.02, G:0.30, T:0.45
Consensus pattern (89 bp):
GGATTTGGGGTCGGGTTAGGGTTTAGGGTTTAGATTAATTAGTGTGTTTTAATTTATATATTAAA
TAAGGTTTAAGGGTTAGAGGTTAA
Found at i:11076593 original size:14 final size:15
Alignment explanation
Indices: 11076561--11076607 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
11076551 TATTAAATAA
*
11076561 GGTTTAGGGGTTAGT
1 GGTTTAGGGGTTAGG
*
11076576 GGTTT-GGGGTTTGG
1 GGTTTAGGGGTTAGG
*
11076590 GGTTTA-AGGTTAGG
1 GGTTTAGGGGTTAGG
11076604 GGTT
1 GGTT
11076608 AAGAGTTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.11, C:0.00, G:0.49, T:0.40
Consensus pattern (15 bp):
GGTTTAGGGGTTAGG
Found at i:11077002 original size:4 final size:4
Alignment explanation
Indices: 11076993--11077017 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11076983 ATATTAGATT
11076993 TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA T
11077018 GTAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:11077106 original size:14 final size:14
Alignment explanation
Indices: 11077089--11077120 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
11077079 AATAAAAATG
11077089 AAATACAAAAACTA
1 AAATACAAAAACTA
11077103 AAATACAAAAACTA
1 AAATACAAAAACTA
11077117 AAAT
1 AAAT
11077121 CATTCCACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.72, C:0.12, G:0.00, T:0.16
Consensus pattern (14 bp):
AAATACAAAAACTA
Found at i:11087563 original size:29 final size:29
Alignment explanation
Indices: 11087540--11087596 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
11087530 AACATATGTG
*
11087540 ACTAAAACGTAACATTTGAAACATAAATA
1 ACTAAAACGTAACATTTCAAACATAAATA
* *
11087569 ACTAGAACGTAATATTTCAAACATAAAT
1 ACTAAAACGTAACATTTCAAACATAAAT
11087597 GACAAAGTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.53, C:0.14, G:0.07, T:0.26
Consensus pattern (29 bp):
ACTAAAACGTAACATTTCAAACATAAATA
Found at i:11096823 original size:14 final size:14
Alignment explanation
Indices: 11096800--11096838 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
11096790 ATTTAATAAA
*
11096800 TAAAAATAAAAATC
1 TAAAACTAAAAATC
*
11096814 TAAAACTAAAAGTC
1 TAAAACTAAAAATC
11096828 TAAAACTAAAA
1 TAAAACTAAAA
11096839 CACAGTAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.67, C:0.10, G:0.03, T:0.21
Consensus pattern (14 bp):
TAAAACTAAAAATC
Found at i:11097594 original size:21 final size:21
Alignment explanation
Indices: 11097551--11097594 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11097541 TTTGAAAGAA
* *
11097551 TATTATTTTAGAAAATTATTT
1 TATTATTTTAGAAAATAAGTT
11097572 TATTATTTTA-AAAATAAAGTT
1 TATTATTTTAGAAAAT-AAGTT
11097593 TA
1 TA
11097595 ATTCTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (21 bp):
TATTATTTTAGAAAATAAGTT
Done.