Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 193 of 310
Found at i:63015826 original size:31 final size:30
Alignment explanation
Indices: 63015764--63015842 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 30
63015754 TTGCACTTAT
*
63015764 ATATATTTATAATTTTTAATAGTTTTTTATA
1 ATAT-TTTATAATTTTTAATAGTTTTCTATA
63015795 ATATTTTATAATTTTCT-ATAAGTTTTCTATA
1 ATATTTTATAATTTT-TAAT-AGTTTTCTATA
* *
63015826 AT-TTTAATAAATTTTAA
1 ATATTTTATAATTTTTAA
63015843 ATTATTTTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
29 1 0.02
30 24 0.57
31 17 0.40
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (30 bp):
ATATTTTATAATTTTTAATAGTTTTCTATA
Found at i:63021555 original size:14 final size:14
Alignment explanation
Indices: 63021510--63021565 Score: 62
Period size: 14 Copynumber: 4.1 Consensus size: 14
63021500 GGTAACTTCG
63021510 AAGAGTTATTATAT
1 AAGAGTTATTATAT
** * *
63021524 AAGAGGAAGT-T-C
1 AAGAGTTATTATAT
63021536 AAGAGTTATTATAT
1 AAGAGTTATTATAT
63021550 AAGAGTTATTATAT
1 AAGAGTTATTATAT
63021564 AA
1 AA
63021566 TAGGTAACTC
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
12 7 0.22
13 2 0.06
14 23 0.72
ACGTcount: A:0.45, C:0.02, G:0.18, T:0.36
Consensus pattern (14 bp):
AAGAGTTATTATAT
Found at i:63021565 original size:40 final size:42
Alignment explanation
Indices: 63021510--63021598 Score: 137
Period size: 42 Copynumber: 2.2 Consensus size: 42
63021500 GGTAACTTCG
* *
63021510 AAGAGTTATTATATAAGAGG-AAGTTC-AAGAGTTATTATAT
1 AAGAGTTATTATATAAGAGGTAACTCCGAAGAGTTATTATAT
*
63021550 AAGAGTTATTATATAATAGGTAACTCCGAAGAGTTATTATAT
1 AAGAGTTATTATATAAGAGGTAACTCCGAAGAGTTATTATAT
63021592 AAGAGTT
1 AAGAGTT
63021599 GGACTGGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 19 0.43
41 4 0.09
42 21 0.48
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (42 bp):
AAGAGTTATTATATAAGAGGTAACTCCGAAGAGTTATTATAT
Found at i:63022485 original size:18 final size:18
Alignment explanation
Indices: 63022428--63022487 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
63022418 GACTGATTGC
* *
63022428 TACTGAATAATTGACCGT
1 TACTGAATAAATGACTGT
* * *
63022446 TATTGAATAAACGACTGA
1 TACTGAATAAATGACTGT
*
63022464 TACTGAATAAATGATTGT
1 TACTGAATAAATGACTGT
63022482 TACTGA
1 TACTGA
63022488 TTAACCGATT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (18 bp):
TACTGAATAAATGACTGT
Found at i:63029795 original size:15 final size:15
Alignment explanation
Indices: 63029775--63029808 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
63029765 AAAATTCATC
63029775 TAAAACATTAAATAT
1 TAAAACATTAAATAT
63029790 TAAAACATTAAATAT
1 TAAAACATTAAATAT
63029805 TAAA
1 TAAA
63029809 TTAAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (15 bp):
TAAAACATTAAATAT
Found at i:63036683 original size:21 final size:21
Alignment explanation
Indices: 63036653--63036712 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
63036643 ACCAAATTGT
63036653 AAAA-ATTATTTAAAATTATA
1 AAAATATTATTTAAAATTATA
* * *
63036673 AAAATATTATTCAATAGTATA
1 AAAATATTATTTAAAATTATA
* *
63036694 AACATAATATTATAAAATT
1 AAAATATTATT-TAAAATT
63036713 TTACATCAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
20 4 0.13
21 22 0.73
22 4 0.13
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (21 bp):
AAAATATTATTTAAAATTATA
Found at i:63037664 original size:22 final size:23
Alignment explanation
Indices: 63037638--63037680 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
63037628 TTTAATCTCC
63037638 GTATTT-TATTT-TTAAGATTTTA
1 GTATTTCTATTTCTTAA-ATTTTA
63037660 GTATTTCTATTTCTTAAATTT
1 GTATTTCTATTTCTTAAATTT
63037681 AAAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.32
23 9 0.47
24 4 0.21
ACGTcount: A:0.26, C:0.05, G:0.07, T:0.63
Consensus pattern (23 bp):
GTATTTCTATTTCTTAAATTTTA
Found at i:63049045 original size:22 final size:21
Alignment explanation
Indices: 63049020--63049063 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
63049010 TTTTTAATTT
*
63049020 TTTTAATATTTATATTATTTTA
1 TTTTAATATTTA-ATAATTTTA
63049042 TTTTAATATTTAATAATTTTA
1 TTTTAATATTTAATAATTTTA
63049063 T
1 T
63049064 ACATTCTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTAATATTTAATAATTTTA
Found at i:63050395 original size:16 final size:16
Alignment explanation
Indices: 63050374--63050405 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
63050364 TTAGGGTCAC
63050374 GTGTTATCCCGGTATG
1 GTGTTATCCCGGTATG
63050390 GTGTTATCCCGGTATG
1 GTGTTATCCCGGTATG
63050406 ATATAACCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (16 bp):
GTGTTATCCCGGTATG
Found at i:63059796 original size:20 final size:21
Alignment explanation
Indices: 63059762--63059813 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
63059752 TATACTTGCT
* * *
63059762 ATTTTTAATAGTATTACCATT
1 ATTTTTATTATTATTACCATC
*
63059783 ATTTTT-TTATTATTACTATC
1 ATTTTTATTATTATTACCATC
63059803 ATTTTTATTAT
1 ATTTTTATTAT
63059814 CTGTCGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.29, C:0.08, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTTTTATTATTATTACCATC
Found at i:63060968 original size:18 final size:17
Alignment explanation
Indices: 63060941--63060976 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
63060931 AAAATGTGCA
63060941 TTATTTTTTGTCCAAAC
1 TTATTTTTTGTCCAAAC
63060958 TTATATTTTTGTCCAAAC
1 TTAT-TTTTTGTCCAAAC
63060976 T
1 T
63060977 CATCCACTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.53
Consensus pattern (17 bp):
TTATTTTTTGTCCAAAC
Found at i:63080119 original size:39 final size:39
Alignment explanation
Indices: 63080065--63080158 Score: 125
Period size: 39 Copynumber: 2.4 Consensus size: 39
63080055 TTGAACAAGT
* * *
63080065 TATAACAAGATCTAGCATTTGTTGCAAACTATTGGGTAA
1 TATAACGAGATCTAGCATTTGTTGCAAACTATCGAGTAA
* * *
63080104 TATAACGAGATCTAGCATTTGTTGCAGATTCTCGAGTAA
1 TATAACGAGATCTAGCATTTGTTGCAAACTATCGAGTAA
*
63080143 TGTAACGAGATCTAGC
1 TATAACGAGATCTAGC
63080159 CTTGTCGTGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (39 bp):
TATAACGAGATCTAGCATTTGTTGCAAACTATCGAGTAA
Found at i:63081370 original size:28 final size:28
Alignment explanation
Indices: 63081333--63081390 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
63081323 AGGTATTGAA
63081333 AATGTGTTTTTATGTTTTTACTAGGTTG
1 AATGTGTTTTTATGTTTTTACTAGGTTG
*
63081361 AATGTGTTTTTATGTTTTTAGTAGGTTG
1 AATGTGTTTTTATGTTTTTACTAGGTTG
63081389 AA
1 AA
63081391 AGTGAACTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.21, C:0.02, G:0.22, T:0.55
Consensus pattern (28 bp):
AATGTGTTTTTATGTTTTTACTAGGTTG
Found at i:63081922 original size:31 final size:31
Alignment explanation
Indices: 63081870--63081928 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
63081860 ACATGAATTT
63081870 TGATTTTATGCAATTACACACAT-TAAACTG
1 TGATTTTATGCAATTACACACATGTAAACTG
*
63081900 TGATTTTGATTCAATT-CTACACATGTAAA
1 TGATTTT-ATGCAATTAC-ACACATGTAAA
63081929 TAAATGTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 8 0.32
31 13 0.52
32 4 0.16
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (31 bp):
TGATTTTATGCAATTACACACATGTAAACTG
Found at i:63083158 original size:19 final size:21
Alignment explanation
Indices: 63083120--63083158 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
63083110 CAGTGATATT
*
63083120 TTTTTATATATTGTTCTAAAG
1 TTTTTATATATTCTTCTAAAG
63083141 TTTTTATAT-TTCTT-TAAA
1 TTTTTATATATTCTTCTAAA
63083159 TTTGCATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 4 0.24
21 9 0.53
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (21 bp):
TTTTTATATATTCTTCTAAAG
Found at i:63085399 original size:11 final size:11
Alignment explanation
Indices: 63085381--63085414 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
63085371 TTTCTTGTTG
63085381 TTTT-TTACTA
1 TTTTGTTACTA
63085391 TTTTGTTACTA
1 TTTTGTTACTA
*
63085402 TTTTGTTATTA
1 TTTTGTTACTA
63085413 TT
1 TT
63085415 ATTTGGATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (11 bp):
TTTTGTTACTA
Found at i:63088095 original size:6 final size:6
Alignment explanation
Indices: 63088084--63088109 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
63088074 GAGAAGACCT
63088084 AGTAGC AGTAGC AGTAGC AGTAGC AG
1 AGTAGC AGTAGC AGTAGC AGTAGC AG
63088110 AAGAGGAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.35, T:0.15
Consensus pattern (6 bp):
AGTAGC
Found at i:63094033 original size:23 final size:22
Alignment explanation
Indices: 63093981--63094034 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
63093971 AAAAAAAAAT
*
63093981 TATTACTTTTTTTAGTATTTTAC
1 TATTA-TTTTTTTACTATTTTAC
63094004 TGA-TATTTTTTTCACTATTTTAC
1 T-ATTATTTTTTT-ACTATTTTAC
63094027 TATTATTT
1 TATTATTT
63094035 CACTGTTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 8 0.30
23 18 0.67
24 1 0.04
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.65
Consensus pattern (22 bp):
TATTATTTTTTTACTATTTTAC
Found at i:63094113 original size:31 final size:34
Alignment explanation
Indices: 63094038--63094114 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 34
63094028 ATTATTTCAC
*
63094038 TGTTGCTATTATTTTATTGTTATTATTTAGATAT
1 TGTTACTATTATTTTATTGTTATTATTTAGATAT
*
63094072 TGTATAACTATTATTTTATT-TTATTA-TTA-ATTT
1 TGT-T-ACTATTATTTTATTGTTATTATTTAGATAT
63094105 TGTTACTATT
1 TGTTACTATT
63094115 TTAGAGATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 6 0.15
32 1 0.03
33 6 0.15
34 6 0.15
35 7 0.18
36 13 0.33
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.62
Consensus pattern (34 bp):
TGTTACTATTATTTTATTGTTATTATTTAGATAT
Found at i:63103134 original size:22 final size:22
Alignment explanation
Indices: 63103088--63103137 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
63103078 TATTAGATAT
**
63103088 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
63103110 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
63103132 TAAATA
1 TAAATA
63103138 TATTATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:63103444 original size:15 final size:15
Alignment explanation
Indices: 63103424--63103453 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63103414 TTAATAGGTG
63103424 AGTCAATTTAGCCCT
1 AGTCAATTTAGCCCT
63103439 AGTCAATTTAGCCCT
1 AGTCAATTTAGCCCT
63103454 TTTTACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (15 bp):
AGTCAATTTAGCCCT
Found at i:63103922 original size:22 final size:22
Alignment explanation
Indices: 63103876--63103925 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
63103866 TATTAGATAT
**
63103876 TAAATAGATATTTATTATTTTA
1 TAAATAGATATTTATTATTAAA
63103898 TAAA-AGATATTTATTAATTAAA
1 TAAATAGATATTTATT-ATTAAA
63103920 TAAATA
1 TAAATA
63103926 TATTATAAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 11 0.46
22 12 0.50
23 1 0.04
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TAAATAGATATTTATTATTAAA
Found at i:63104232 original size:15 final size:15
Alignment explanation
Indices: 63104212--63104241 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63104202 TTAATAGGTG
63104212 AGTCAATTTAGCCCT
1 AGTCAATTTAGCCCT
63104227 AGTCAATTTAGCCCT
1 AGTCAATTTAGCCCT
63104242 TTTTACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (15 bp):
AGTCAATTTAGCCCT
Found at i:63104457 original size:788 final size:788
Alignment explanation
Indices: 63102941--63105297 Score: 3466
Period size: 788 Copynumber: 3.0 Consensus size: 788
63102931 ATATATTTAT
63102941 TAATAAATGATATTAAATTAATTTATTATAATTATATTATAAGATATTTATATGATAAATAAATT
1 TAATAAATGATATTAAATTAATTTATTATAATTATATTATAAGATATTTATATGATAAATAAATT
63103006 AGTACAAAGACAAATGTATAGTAAATAAAATATACAAGTGTATGGATAAAATACATACGTTTGTA
66 AGTACAAAGACAAATGTATAGTAAATAAAATATACAAGTGTATGGATAAAATACATACGTTTGTA
63103071 AAACATTTATTAGATATTAAATAGATATTTATTATTTTATAAAAGATATTTATTAATTAAATAAA
131 AAACATTTATTAGATATTAAATAGATATTTATTATTTTATAAAAGATATTTATTAATTAAATAAA
63103136 TATATTATAAGATTTGATATGATAAATATATTAAATAATGATAAATGTATGCTTATAAATGGATA
196 TATATTATAAGATTTGATATGATAAATATATTAAATAATGATAAATGTATGCTTATAAATGGATA
63103201 CAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAATACATG
261 CAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAATACATG
63103266 TGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAAC
326 TGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAAC
63103331 GAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAA
391 GAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAA
63103396 GGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACT
456 GGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACT
63103461 TAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGT
521 TAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGT
63103526 TATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAA
586 TATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAA
63103591 TTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCT
651 TTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCT
63103656 AATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTT
716 AATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTT
63103721 TGAATTAG
781 TGAATTAG
63103729 TAATAAATGATATTAAATTAATTTATTATAATTATATTATAAGATATTTATATGATAAATAAATT
1 TAATAAATGATATTAAATTAATTTATTATAATTATATTATAAGATATTTATATGATAAATAAATT
63103794 AGTACAAAGACAAATGTATAGTAAATAAAATATACAAGTGTATGGATAAAATACATACGTTTGTA
66 AGTACAAAGACAAATGTATAGTAAATAAAATATACAAGTGTATGGATAAAATACATACGTTTGTA
63103859 AAACATTTATTAGATATTAAATAGATATTTATTATTTTATAAAAGATATTTATTAATTAAATAAA
131 AAACATTTATTAGATATTAAATAGATATTTATTATTTTATAAAAGATATTTATTAATTAAATAAA
63103924 TATATTATAAGATTTGATATGATAAATATATTAAATAATGATAAATGTATGCTTATAAATGGATA
196 TATATTATAAGATTTGATATGATAAATATATTAAATAATGATAAATGTATGCTTATAAATGGATA
63103989 CAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAATACATG
261 CAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAATACATG
63104054 TGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAAC
326 TGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAAC
63104119 GAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAA
391 GAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAA
63104184 GGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACT
456 GGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACT
63104249 TAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGT
521 TAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGT
63104314 TATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAA
586 TATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAA
63104379 TTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCT
651 TTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCT
63104444 AATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTT
716 AATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTT
* *
63104509 TGATTTTG
781 TGAATTAG
* * * * ** * * *
63104517 -ATATAAGATAATTTTATTAAGTAAAATTGACGGA-AATTGAT-TT-TAGGACCTA-AT-TGTGA
1 TA-ATAA-ATGA---TATTAAAT-TAATTTA-TTATAATT-ATATTATAAGA--TATTTATATGA
** * * * ** ** * * ** *
63104576 -AAAT-GTTTGGAATTA-AAAGTCTAATG--CCG-AAATTATGATTTCCAAAAGT-T-G-TAAAG
56 TAAATAAATT---AGTACAAAGACAAATGTATAGTAAA-TAAAATATACAAGTGTATGGATAAAA
** * * * * * * *
63104632 TAGTTTAAG-GTGATAGAATAAAGTGTTAATTGAGA-A--AAATCAGCTCAATTGAGAGGCTAAT
117 TA-CATACGTTTG-TA-AA-ACA-T-TT-ATT-AGATATTAAAT-AGAT--ATT--TA--TTATT
* * * * * * * ***** * *
63104693 TAAGTAGGGACGA-AATTGTT-ATTTATTAAAGT-TCGGGGGAAGA-ATGATA--ATAAACA-AC
167 TTA-TA--AAAGATATTTATTAATTAAATAAA-TAT-ATTATAAGATTTGATATGATAAATATA-
* * * ** * ** * * * *
63104751 TTGCACTAA--A-ACAATAT-TGGGATACAAAT-G-TATTAA--TAAT-ATACACAT-GA-ATAA
226 TT-AAATAATGATA-AATGTAT-GCTTATAAATGGATACAAATGTATTAATA-ATATACACATGA
* * ** * *
63104805 ATAAAT-AATACTTAC-TA-TTTAAATATAA--ATACATGTGTGTATATATATATATAAAGAAAA
287 ATAAATAAATA-ATACTTACTATTTAAATATAAATACATGTGTGTATATATATATATAAAGAAAA
63104865 AAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAACGAAACAGAGAGCAGGGGAAGGAAAA
351 AAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAACGAAACAGAGAGCAGGGGAAGGAAAA
63104930 AAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAAGGTGTGAAGCTTGGAAGTTTAATAG
416 AAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAAGGTGTGAAGCTTGGAAGTTTAATAG
63104995 GTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACTTAATTTTGATGTTTTAGAAGCTTTG
481 GTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACTTAATTTTGATGTTTTAGAAGCTTTG
63105060 GAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGTTATTAGATTTCTAGATAATGTTCAT
546 GAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGTTATTAGATTTCTAGATAATGTTCAT
63105125 GTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAATTCAAGTTAGAAATGAAATAAGGAT
611 GTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAATTCAAGTTAGAAATGAAATAAGGAT
63105190 TGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCTAATTTTTAAAGTTATTATGGATGAC
676 TGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCTAATTTTTAAAGTTATTATGGATGAC
63105255 TGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTTTGA
741 TGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTTTGA
63105298 TTTTGATATA
Statistics
Matches: 1463, Mismatches: 66, Indels: 82
0.91 0.04 0.05
Matches are distributed among these distances:
786 465 0.32
787 9 0.01
788 802 0.55
789 15 0.01
790 27 0.02
791 13 0.01
792 35 0.02
793 19 0.01
794 15 0.01
795 3 0.00
796 14 0.01
797 8 0.01
798 9 0.01
799 16 0.01
800 10 0.01
801 3 0.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (788 bp):
TAATAAATGATATTAAATTAATTTATTATAATTATATTATAAGATATTTATATGATAAATAAATT
AGTACAAAGACAAATGTATAGTAAATAAAATATACAAGTGTATGGATAAAATACATACGTTTGTA
AAACATTTATTAGATATTAAATAGATATTTATTATTTTATAAAAGATATTTATTAATTAAATAAA
TATATTATAAGATTTGATATGATAAATATATTAAATAATGATAAATGTATGCTTATAAATGGATA
CAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAATACATG
TGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAGCAAAC
GAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAATTAAA
GGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTTTTACT
TAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTGAAAGT
TATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGATAGAAA
TTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAAGGGCT
AATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGAAGCTT
TGAATTAG
Found at i:63105018 original size:15 final size:15
Alignment explanation
Indices: 63104998--63105027 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
63104988 TTAATAGGTG
63104998 AGTCAATTTAGCCCT
1 AGTCAATTTAGCCCT
63105013 AGTCAATTTAGCCCT
1 AGTCAATTTAGCCCT
63105028 TTTTACTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (15 bp):
AGTCAATTTAGCCCT
Found at i:63105496 original size:786 final size:786
Alignment explanation
Indices: 63103984--63105557 Score: 3148
Period size: 786 Copynumber: 2.0 Consensus size: 786
63103974 GCTTATAAAT
63103984 GGATACAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAAT
1 GGATACAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAAT
63104049 ACATGTGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAG
66 ACATGTGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAG
63104114 CAAACGAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAA
131 CAAACGAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAA
63104179 TTAAAGGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTT
196 TTAAAGGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTT
63104244 TTACTTAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTG
261 TTACTTAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTG
63104309 AAAGTTATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGAT
326 AAAGTTATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGAT
63104374 AGAAATTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAA
391 AGAAATTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAA
63104439 GGGCTAATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGA
456 GGGCTAATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGA
63104504 AGCTTTGATTTTGATATAAGATAATTTTATTAAGTAAAATTGACGGAAATTGATTTTAGGACCTA
521 AGCTTTGATTTTGATATAAGATAATTTTATTAAGTAAAATTGACGGAAATTGATTTTAGGACCTA
63104569 ATTGTGAAAATGTTTGGAATTAAAAGTCTAATGCCGAAATTATGATTTCCAAAAGTTGTAAAGTA
586 ATTGTGAAAATGTTTGGAATTAAAAGTCTAATGCCGAAATTATGATTTCCAAAAGTTGTAAAGTA
63104634 GTTTAAGGTGATAGAATAAAGTGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTAAGTA
651 GTTTAAGGTGATAGAATAAAGTGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTAAGTA
63104699 GGGACGAAATTGTTATTTATTAAAGTTCGGGGGAAGAATGATAATAAACAACTTGCACTAAAACA
716 GGGACGAAATTGTTATTTATTAAAGTTCGGGGGAAGAATGATAATAAACAACTTGCACTAAAACA
63104764 ATATTG
781 ATATTG
63104770 GGATACAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAAT
1 GGATACAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAAT
63104835 ACATGTGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAG
66 ACATGTGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAG
63104900 CAAACGAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAA
131 CAAACGAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAA
63104965 TTAAAGGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTT
196 TTAAAGGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTT
63105030 TTACTTAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTG
261 TTACTTAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTG
63105095 AAAGTTATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGAT
326 AAAGTTATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGAT
63105160 AGAAATTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAA
391 AGAAATTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAA
63105225 GGGCTAATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGA
456 GGGCTAATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGA
63105290 AGCTTTGATTTTGATATAAGATAATTTTATTAAGTAAAATTGACGGAAATTGATTTTAGGACCTA
521 AGCTTTGATTTTGATATAAGATAATTTTATTAAGTAAAATTGACGGAAATTGATTTTAGGACCTA
63105355 ATTGTGAAAATGTTTGGAATTAAAAGTCTAATGCCGAAATTATGATTTCCAAAAGTTGTAAAGTA
586 ATTGTGAAAATGTTTGGAATTAAAAGTCTAATGCCGAAATTATGATTTCCAAAAGTTGTAAAGTA
63105420 GTTTAAGGTGATAGAATAAAGTGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTAAGTA
651 GTTTAAGGTGATAGAATAAAGTGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTAAGTA
63105485 GGGACGAAATTGTTATTTATTAAAGTTCGGGGGAAGAATGATAATAAACAACTTGCACTAAAACA
716 GGGACGAAATTGTTATTTATTAAAGTTCGGGGGAAGAATGATAATAAACAACTTGCACTAAAACA
63105550 ATATTG
781 ATATTG
63105556 GG
1 GG
63105558 CAGCAGCAGT
Statistics
Matches: 788, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
786 788 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.30
Consensus pattern (786 bp):
GGATACAAATGTATTAATAATATACACATGAATAAATAAATAATACTTACTATTTAAATATAAAT
ACATGTGTGTATATATATATATAAAGAAAAAAGAAAAAGAAAGAGAATAGAAGGAAGAAACAAAG
CAAACGAAACAGAGAGCAGGGGAAGGAAAAAAAGAAAAAGAGAAAAGAAAGAAGAAAAGGGAAAA
TTAAAGGTGTGAAGCTTGGAAGTTTAATAGGTGAGTCAATTTAGCCCTAGTCAATTTAGCCCTTT
TTACTTAATTTTGATGTTTTAGAAGCTTTGGAACAAGATTTTGATAAAATTAAGTTGATATTTTG
AAAGTTATTAGATTTCTAGATAATGTTCATGTTGAGTAAAATGATGAAATAAGGGTTTAATTGAT
AGAAATTCAAGTTAGAAATGAAATAAGGATTGGATTGTAAAGTAATTCATAAGTTTTATGTTGAA
GGGCTAATTTTTAAAGTTATTATGGATGACTGCAGGAAGAATATGATGAATGAACATAGAATTGA
AGCTTTGATTTTGATATAAGATAATTTTATTAAGTAAAATTGACGGAAATTGATTTTAGGACCTA
ATTGTGAAAATGTTTGGAATTAAAAGTCTAATGCCGAAATTATGATTTCCAAAAGTTGTAAAGTA
GTTTAAGGTGATAGAATAAAGTGTTAATTGAGAAAAATCAGCTCAATTGAGAGGCTAATTAAGTA
GGGACGAAATTGTTATTTATTAAAGTTCGGGGGAAGAATGATAATAAACAACTTGCACTAAAACA
ATATTG
Found at i:63106916 original size:23 final size:23
Alignment explanation
Indices: 63106802--63106917 Score: 94
Period size: 23 Copynumber: 5.0 Consensus size: 23
63106792 CCGAAATACA
63106802 GCTCTTCGTGAGCTTC-CTGATAG
1 GCTCTTCGTGAGCTTCTC-GATAG
* *
63106825 GCTCTTTGTGAGCCTCTCGATAG
1 GCTCTTCGTGAGCTTCTCGATAG
* * *
63106848 TGCTC-TCTTGAACTTCCCGATATATG
1 -GCTCTTCGTGAGCTTCTCG--ATA-G
* *
63106874 GCTATCCG-GAGCTTCTCGATAG
1 GCTCTTCGTGAGCTTCTCGATAG
*
63106896 GCTCTTCGTGAGCTTCACGATA
1 GCTCTTCGTGAGCTTCTCGATA
63106918 TGGTTCTTTG
Statistics
Matches: 71, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
22 7 0.10
23 43 0.61
24 5 0.07
25 14 0.20
26 2 0.03
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (23 bp):
GCTCTTCGTGAGCTTCTCGATAG
Found at i:63107375 original size:46 final size:46
Alignment explanation
Indices: 63107303--63107484 Score: 213
Period size: 46 Copynumber: 4.0 Consensus size: 46
63107293 AGTGTGCTCT
* *
63107303 CTGAAATGAAATGTCTAAGACCATGGTTGAAAGAGACCATGGCAAC
1 CTGAAATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* *
63107349 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGAAATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
63107395 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGAAATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
* * *** ** *
63107441 ATGACA-GAAAACAAGTAAGACCATAATTGAAAGATACTATGGCA
1 CTGAAATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGCA
63107485 TCAAGTCGAA
Statistics
Matches: 122, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
45 6 0.05
46 116 0.95
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
CTGAAATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:63107471 original size:92 final size:92
Alignment explanation
Indices: 63107308--63107484 Score: 239
Period size: 92 Copynumber: 1.9 Consensus size: 92
63107298 GCTCTCTGAA
** * * ***
63107308 ATGAAATGTCTAAGACCATGGTTGAAAGAGACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 ATGAAATGAATAAGACCATGGTTGAAAGAGACCATGGCAACATGACATGAAACAAGTAAGACCAT
**
63107373 GGTTGAAAGATACCATGGCAACGTGAC
66 AATTGAAAGATACCATGGCAACGTGAC
*
63107400 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAACAAGTAAGACCA
1 ATGAAATGAATAAGACCATGGTTGAAAGAGACCATGGCAACATGACATG-AAACAAGTAAGACCA
*
63107464 TAATTGAAAGATACTATGGCA
65 TAATTGAAAGATACCATGGCA
63107485 TCAAGTCGAA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
91 1 0.01
92 72 0.99
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (92 bp):
ATGAAATGAATAAGACCATGGTTGAAAGAGACCATGGCAACATGACATGAAACAAGTAAGACCAT
AATTGAAAGATACCATGGCAACGTGAC
Found at i:63107593 original size:13 final size:13
Alignment explanation
Indices: 63107572--63107641 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
63107562 ACCAGATGAC
63107572 AAATGGTTATATG
1 AAATGGTTATATG
* **
63107585 AATTGGTTATACA
1 AAATGGTTATATG
* *
63107598 AAATGGTTGTGTG
1 AAATGGTTATATG
* * *
63107611 AAATGTTTACAGG
1 AAATGGTTATATG
*
63107624 AATTGGTTATATGG
1 AAATGGTTATAT-G
63107638 AAAT
1 AAAT
63107642 ATATGTACAA
Statistics
Matches: 38, Mismatches: 18, Indels: 1
0.67 0.32 0.02
Matches are distributed among these distances:
13 34 0.89
14 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:63112087 original size:46 final size:46
Alignment explanation
Indices: 63112020--63112150 Score: 174
Period size: 46 Copynumber: 2.8 Consensus size: 46
63112010 NNNNNNNNNN
* *
63112020 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
63112066 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*** ** *
63112112 A-GAAAACAAGTAAGACCATAATTGAAAGATACTATGGCA
1 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
63112151 TCAAGTCGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
45 1 0.01
46 75 0.99
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:63112259 original size:13 final size:13
Alignment explanation
Indices: 63112238--63112307 Score: 50
Period size: 13 Copynumber: 5.3 Consensus size: 13
63112228 ACCAGATGAC
63112238 AAATGGTTATATG
1 AAATGGTTATATG
* **
63112251 AATTGGTTATACA
1 AAATGGTTATATG
* *
63112264 AAATGGTTGTGTG
1 AAATGGTTATATG
* * *
63112277 AAATGTTTACAGG
1 AAATGGTTATATG
*
63112290 AATTGGTTATATGG
1 AAATGGTTATAT-G
63112304 AAAT
1 AAAT
63112308 ATATGTACAA
Statistics
Matches: 38, Mismatches: 18, Indels: 1
0.67 0.32 0.02
Matches are distributed among these distances:
13 34 0.89
14 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:63128255 original size:27 final size:27
Alignment explanation
Indices: 63128203--63128323 Score: 93
Period size: 27 Copynumber: 4.5 Consensus size: 27
63128193 CGGACTAACC
* * * *
63128203 CGTGTTTAATGTTCCGTCAAAATATCT
1 CGTGTTTAATGTCCCATCGAACTATCT
*
63128230 CGTGTTTATTGTCCCATCGAACTATCT
1 CGTGTTTAATGTCCCATCGAACTATCT
* ** *
63128257 TGTGTTTAATGTCCTGTTGAACTATC-
1 CGTGTTTAATGTCCCATCGAACTATCT
** *
63128283 CTGTGTTTAATGTCTTATC-AGACTATCC
1 C-GTGTTTAATGTCCCATCGA-ACTATCT
*
63128311 CATGTTTAATGTC
1 CGTGTTTAATGTC
63128324 TCGTTAGATT
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
26 1 0.01
27 74 0.97
28 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.16, T:0.43
Consensus pattern (27 bp):
CGTGTTTAATGTCCCATCGAACTATCT
Found at i:63128345 original size:27 final size:27
Alignment explanation
Indices: 63128231--63128346 Score: 83
Period size: 27 Copynumber: 4.3 Consensus size: 27
63128221 AAAATATCTC
* * *
63128231 GTGTTTATTGTCCCATC-GAACTATCTT
1 GTGTTTAATGTCTCATCAG-ACTATCCT
** *
63128258 GTGTTTAATGTCCTGTTGA-ACTATCCT
1 GTGTTTAATGT-CTCATCAGACTATCCT
* *
63128285 GTGTTTAATGTCTTATCAGACTATCCC
1 GTGTTTAATGTCTCATCAGACTATCCT
* * * *
63128312 ATGTTTAATGTCTCGTTAGATTATCCT
1 GTGTTTAATGTCTCATCAGACTATCCT
*
63128339 GTATTTAA
1 GTGTTTAA
63128347 CGTCCCGTCG
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
26 4 0.06
27 62 0.91
28 2 0.03
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.45
Consensus pattern (27 bp):
GTGTTTAATGTCTCATCAGACTATCCT
Found at i:63128424 original size:45 final size:45
Alignment explanation
Indices: 63128375--63128511 Score: 154
Period size: 45 Copynumber: 3.0 Consensus size: 45
63128365 AAGGACGTCG
* *
63128375 TAACATCCTTTAGCCGTGGTCCTACTCAT-TTATATCATGATGCCA
1 TAACATCCTTTAGCCATGGTCCTACTCATCCT-TATCATGATGCCA
* * *
63128420 TAACATCTTTTAGCTATGGTCTTACTCATCCTTATCATGATGCCA
1 TAACATCCTTTAGCCATGGTCCTACTCATCCTTATCATGATGCCA
* **
63128465 TAGCAT-CTTTCAGTTATGG-CCTTACTCATCCTTATCATGATGCCA
1 TAACATCCTTT-AGCCATGGTCC-TACTCATCCTTATCATGATGCCA
63128510 TA
1 TA
63128512 GCATGTTTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
44 4 0.05
45 75 0.94
46 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (45 bp):
TAACATCCTTTAGCCATGGTCCTACTCATCCTTATCATGATGCCA
Found at i:63128471 original size:22 final size:22
Alignment explanation
Indices: 63128446--63128515 Score: 72
Period size: 22 Copynumber: 3.1 Consensus size: 22
63128436 TGGTCTTACT
63128446 CATCCTTATCATGATGCCATAG
1 CATCCTTATCATGATGCCATAG
* * *
63128468 CAT-CTT-TCAGTTATGGCCTTACT
1 CATCCTTATCA-TGAT-GCCATA-G
63128491 CATCCTTATCATGATGCCATAG
1 CATCCTTATCATGATGCCATAG
63128513 CAT
1 CAT
63128516 GTTTCAGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 3 0.08
21 6 0.16
22 11 0.30
23 8 0.22
24 6 0.16
25 3 0.08
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.36
Consensus pattern (22 bp):
CATCCTTATCATGATGCCATAG
Found at i:63128512 original size:45 final size:45
Alignment explanation
Indices: 63128407--63128538 Score: 219
Period size: 45 Copynumber: 2.9 Consensus size: 45
63128397 TACTCATTTA
* * * *
63128407 TATCATGATGCCATAACATCTTTTAGCTATGGTCTTACTCATCCT
1 TATCATGATGCCATAGCATCTTTCAGTTATGGCCTTACTCATCCT
63128452 TATCATGATGCCATAGCATCTTTCAGTTATGGCCTTACTCATCCT
1 TATCATGATGCCATAGCATCTTTCAGTTATGGCCTTACTCATCCT
*
63128497 TATCATGATGCCATAGCATGTTTCAGTTATGGCCTTACTCAT
1 TATCATGATGCCATAGCATCTTTCAGTTATGGCCTTACTCAT
63128539 TTTAGGCATA
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 82 1.00
ACGTcount: A:0.23, C:0.24, G:0.14, T:0.39
Consensus pattern (45 bp):
TATCATGATGCCATAGCATCTTTCAGTTATGGCCTTACTCATCCT
Found at i:63131025 original size:75 final size:75
Alignment explanation
Indices: 63130831--63131049 Score: 291
Period size: 75 Copynumber: 2.9 Consensus size: 75
63130821 GCAATTACCA
* * * *
63130831 TTGGTTTATCTAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATACCTGACTAGCATTGGGT
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATATCTGACTAACACTGGGT
63130896 GCAAATATCG
66 GCAAATATCG
* * *
63130906 TTGGTTTATCCACCTAGAGCTAGGCTCACAATTACTATCATCGGTATAT-TCGACTAACACTGGG
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATATCT-GACTAACACTGGG
63130970 TGCAAATATCG
65 TGCAAATATCG
* * *
63130981 TTGGTTTATCCAACTAGAGCTGGGCTCACATTTAATA-CTGTCGGT-TAATCTGACTAACGCTGG
1 TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATC-GTCGGTAT-ATCTGACTAACACTGG
*
63131044 GCGCAA
64 GTGCAA
63131050 TCTTTTCTAC
Statistics
Matches: 126, Mismatches: 14, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
74 3 0.02
75 122 0.97
76 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (75 bp):
TTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCGTCGGTATATCTGACTAACACTGGGT
GCAAATATCG
Found at i:63132718 original size:18 final size:18
Alignment explanation
Indices: 63132697--63132739 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
63132687 GAACAATTAT
*
63132697 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
* *
63132715 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAA
63132733 TTATTCA
1 TTATTCA
63132740 ATGATAACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:63132737 original size:36 final size:36
Alignment explanation
Indices: 63132684--63132967 Score: 146
Period size: 36 Copynumber: 7.7 Consensus size: 36
63132674 TTATTAACAA
* *
63132684 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * * **
63132719 TCGGTAACAATCAATTATTCAATGATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
63132755 TCAGTATCGATCAATTGATCGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTTAT
* * *
63132799 TCAGTAA-AAT-AAGATATTCAGTAACAATTAAGTTAT
1 TCAGTAACAATCAA-TTATTCAGTAAC-AGTCAGTTAT
* * * * *
63132835 TCGGTAACAGT-TATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTCAGTTAT
** * * *
63132871 TCAGTAATGATCAATTATTCAGTAATATTCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
63132907 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAGTCAGTTAT
* * **
63132943 CCGGTAACTGTCAATTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
63132968 TAATCAATTA
Statistics
Matches: 184, Mismatches: 49, Indels: 31
0.70 0.19 0.12
Matches are distributed among these distances:
35 12 0.07
36 128 0.70
37 19 0.10
42 4 0.02
43 4 0.02
44 17 0.09
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:63132803 original size:18 final size:18
Alignment explanation
Indices: 63132777--63132979 Score: 155
Period size: 18 Copynumber: 11.3 Consensus size: 18
63132767 AATTGATCGG
*
63132777 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
63132795 TTATTCAGTAA-AAT-AA
1 TTATTCAGTAACAGTCAA
* * *
63132811 GATATTCAGTAACAATTAA
1 -TTATTCAGTAACAGTCAA
* *
63132830 GTTATTCGGTAACAGT-TA
1 -TTATTCAGTAACAGTCAA
* * *
63132848 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
63132867 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* *
63132885 TTATTCAGTAATATTCAA
1 TTATTCAGTAACAGTCAA
63132903 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
63132922 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
63132939 TTATCCGGTAACTGTCAA
1 TTATTCAGTAACAGTCAA
* *
63132957 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAA
63132975 TTATT
1 TTATT
63132980 TTATACCTTT
Statistics
Matches: 148, Mismatches: 28, Indels: 18
0.76 0.14 0.09
Matches are distributed among these distances:
16 2 0.01
17 16 0.11
18 111 0.75
19 19 0.13
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:63132818 original size:17 final size:19
Alignment explanation
Indices: 63132796--63132843 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
63132786 AACAGTCAAT
63132796 TATTCAGTAA-AA-TAAGA
1 TATTCAGTAACAATTAAGA
*
63132813 TATTCAGTAACAATTAAGT
1 TATTCAGTAACAATTAAGA
*
63132832 TATTCGGTAACA
1 TATTCAGTAACA
63132844 GTTATTCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 10 0.37
18 2 0.07
19 15 0.56
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (19 bp):
TATTCAGTAACAATTAAGA
Found at i:63132885 original size:22 final size:22
Alignment explanation
Indices: 63132842--63132885 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
63132832 TATTCGGTAA
* *
63132842 CAGTTATTCATTCAGTGACAAT
1 CAGTTATTCAGTCAATGACAAT
63132864 CAGTTATTCAGT-AATGATCAAT
1 CAGTTATTCAGTCAATGA-CAAT
63132886 TATTCAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (22 bp):
CAGTTATTCAGTCAATGACAAT
Found at i:63132907 original size:72 final size:72
Alignment explanation
Indices: 63132778--63132979 Score: 189
Period size: 72 Copynumber: 2.8 Consensus size: 72
63132768 ATTGATCGGT
* * ** * * *
63132778 TATCCAGTAACAGTCAATTATTCAGTAA-AAT-AAGATATTCAGTAACAATT-AAGTTATTCGGT
1 TATCCAGTAACAATCAATTATCCAGTAACTGTCAA-TTATTCAGTAA-TATTCAA-TTATTCAGT
*
63132840 AACAGT-TAT
63 AACAGTCTAA
* * * *
63132849 TCATTCAGTGACAATCAGTTATTCAGTAA-TGATCAATTATTCAGTAATATTCAATTATTCAGTA
1 T-ATCCAGTAACAATCAATTATCCAGTAACTG-TCAATTATTCAGTAATATTCAATTATTCAGTA
63132913 ACAGTCTAA
64 ACAGTCTAA
* * *
63132922 TATCCAGTAACAGTCAATTATCCGGTAACTGTCAATTATTCAGTAATAATCAATTATT
1 TATCCAGTAACAATCAATTATCCAGTAACTGTCAATTATTCAGTAATATTCAATTATT
63132980 TTATACCTTT
Statistics
Matches: 108, Mismatches: 17, Indels: 11
0.79 0.12 0.08
Matches are distributed among these distances:
71 1 0.01
72 87 0.81
73 18 0.17
74 2 0.02
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (72 bp):
TATCCAGTAACAATCAATTATCCAGTAACTGTCAATTATTCAGTAATATTCAATTATTCAGTAAC
AGTCTAA
Found at i:63133154 original size:6 final size:6
Alignment explanation
Indices: 63133143--63133182 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
63133133 ACAAATCCGA
63133143 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACA
1 AACAGT AACAGT AACAGT AACAGT AACAGT AACAGT AACA
63133183 ATATCCGACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (6 bp):
AACAGT
Found at i:63142476 original size:86 final size:85
Alignment explanation
Indices: 63142324--63142604 Score: 275
Period size: 86 Copynumber: 3.2 Consensus size: 85
63142314 CCATCCTGTC
* * * * *
63142324 CCCCTAAGCAGTAGGGTAACAGGCTGAATTTTCAGATCTTAATCCCCTAAGCAGTAGGGAAACAG
1 CCCCTAAGAAGTAGGGTAAC-GGCTAAAATTACAGAT-TTTATCCCCTAAGCAGTAGGGAAACAG
*
63142389 ATCGAAGACGAAAGGTCTTAAA
64 ATCGAAGACGAAAGGCCTTAAA
* *
63142411 CCCCTAAGAAGTAGGGTAACGGAC-CAAATTACAGATTTTATCTCCCTAAGCAGTAGTGG-AGCA
1 CCCCTAAGAAGTAGGGTAACGG-CTAAAATTACAGATTTTATC-CCCTAAGCAGTAG-GGAAACA
*
63142474 GATCGAAGACGAAGGGCCTTAAA
63 GATCGAAGACGAAAGGCCTTAAA
* * *
63142497 CCCCCAA-ACAGTAGGGTAATAGGCTAAAAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAA
1 CCCCTAAGA-AGTAGGGTAA-CGGCT-AAAA-TTACAGATTTTATC-CCCTAAGCAGTAGGGAAA
* *
63142561 CAGATCAAAGACG-ACGAGCCTT-AA
61 CAGATCGAAGACGAAAG-GCCTTAAA
* *
63142585 CCCCTTAAGCAGTAAGGTAA
1 CCCC-TAAGAAGTAGGGTAA
63142605 TAGGCTAGAA
Statistics
Matches: 163, Mismatches: 19, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
85 6 0.04
86 65 0.40
87 24 0.15
88 13 0.08
89 55 0.34
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (85 bp):
CCCCTAAGAAGTAGGGTAACGGCTAAAATTACAGATTTTATCCCCTAAGCAGTAGGGAAACAGAT
CGAAGACGAAAGGCCTTAAA
Found at i:63142572 original size:89 final size:88
Alignment explanation
Indices: 63142323--63142643 Score: 311
Period size: 89 Copynumber: 3.7 Consensus size: 88
63142313 ACCATCCTGT
* * * *
63142323 CCCCCTAAGCAGTAGGGTAACAGGCT-GAATTTTCAGATCTTAATC-CCCTAAGCAGTAGGGAAA
1 CCCCC-AAACAGTAGGGTAATAGGCTAAAATTTACAGATCTT-ATCTCCCTAAGCAGTAGGGAAA
* *
63142386 CAGATCGAAGACGAAAGGTCTTAAA
64 CAGATCGAAGACGAAGGGCCTTAAA
* * * *
63142411 CCCCTAAGA-AGTAGGGTAA-CGGAC-CAAA-TTACAGATTTTATCTCCCTAAGCAGTAGTGG-A
1 CCCCCAA-ACAGTAGGGTAATAGG-CTAAAATTTACAGATCTTATCTCCCTAAGCAGTAG-GGAA
*
63142471 GCAGATCGAAGACGAAGGGCCTTAAA
63 ACAGATCGAAGACGAAGGGCCTTAAA
*
63142497 CCCCCAAACAGTAGGGTAATAGGCTAAAAATTTACAGATCTTATCACCCTAAGCAGTAGGGAAAC
1 CCCCCAAACAGTAGGGTAATAGGCT-AAAATTTACAGATCTTATCTCCCTAAGCAGTAGGGAAAC
* * *
63142562 AGATCAAAGACGACGAGCCTT-AA
65 AGATCGAAGACGAAGGGCCTTAAA
* * * * *
63142585 CCCCTTAAGCAGTAAGGTAATAGGCTAGAAATTGT--AGACCCTATCTCCCTAAGCAGTAG
1 CCCC-CAAACAGTAGGGTAATAGGCTA-AAATT-TACAGATCTTATCTCCCTAAGCAGTAG
63142644 TGGAGTAGGC
Statistics
Matches: 195, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
85 4 0.02
86 65 0.33
87 19 0.10
88 37 0.19
89 69 0.35
90 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (88 bp):
CCCCCAAACAGTAGGGTAATAGGCTAAAATTTACAGATCTTATCTCCCTAAGCAGTAGGGAAACA
GATCGAAGACGAAGGGCCTTAAA
Found at i:63147530 original size:22 final size:22
Alignment explanation
Indices: 63147505--63147553 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
63147495 TTTCATTCTG
*
63147505 TTTCTTTTCTATCTCTTTTTTT
1 TTTCTTTTCTATCTCTTTTGTT
* * *
63147527 TTTCATTTCTTTTTCTTTTGTT
1 TTTCTTTTCTATCTCTTTTGTT
63147549 TTTCT
1 TTTCT
63147554 ATATATATAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (22 bp):
TTTCTTTTCTATCTCTTTTGTT
Found at i:63147537 original size:16 final size:16
Alignment explanation
Indices: 63147495--63147545 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
63147485 CTCTGTTTCG
* *
63147495 TTTCA-TTCTGTTTCT
1 TTTCATTTCTTTTTTT
*
63147510 TTTCTATCTCTTTTTTT
1 TTTC-ATTTCTTTTTTT
63147527 TTTCATTTCTTTTTCTT
1 TTTCATTTCTTTTT-TT
63147544 TT
1 TT
63147546 GTTTTTCTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 4 0.14
16 10 0.34
17 15 0.52
ACGTcount: A:0.06, C:0.18, G:0.02, T:0.75
Consensus pattern (16 bp):
TTTCATTTCTTTTTTT
Found at i:63147553 original size:11 final size:11
Alignment explanation
Indices: 63147500--63147553 Score: 54
Period size: 11 Copynumber: 4.9 Consensus size: 11
63147490 TTTCGTTTCA
*
63147500 TTCTGTTTCTT
1 TTCTTTTTCTT
* *
63147511 TTCTATCTCTT
1 TTCTTTTTCTT
* *
63147522 TTTTTTTTCAT
1 TTCTTTTTCTT
63147533 TTCTTTTTCTT
1 TTCTTTTTCTT
*
63147544 TTGTTTTTCT
1 TTCTTTTTCT
63147554 ATATATATAT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 34 1.00
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:63147707 original size:31 final size:32
Alignment explanation
Indices: 63147651--63147713 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
63147641 CACACTTGTC
*
63147651 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
63147683 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
63147714 TTATAAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:63149163 original size:3 final size:3
Alignment explanation
Indices: 63149155--63149245 Score: 57
Period size: 3 Copynumber: 30.3 Consensus size: 3
63149145 TAATTTAATG
* *
63149155 TTA TTA TTA -TA TT- TTA TTT TTA TGT- TTA CTA CTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA -TTA TTA TTA TTA
* * *
63149199 -TA TTA TTA -AA TTAA TTAA CTTA GTA TTA TTA TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TT-A -TTA TTA TTA TTA TTA TTA TTA TTA TTA
63149245 T
1 T
63149246 AGTTCTTTCT
Statistics
Matches: 69, Mismatches: 10, Indels: 18
0.71 0.10 0.19
Matches are distributed among these distances:
2 8 0.12
3 50 0.72
4 9 0.13
5 2 0.03
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:63149410 original size:3 final size:3
Alignment explanation
Indices: 63149402--63149448 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
63149392 TATTTATTTA
* * * *
63149402 TAT TAT TAT TAT TAT CAT TAC TAT TAT TTT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
63149449 CTAATATTGT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:63149790 original size:16 final size:16
Alignment explanation
Indices: 63149762--63149797 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
63149752 TGTCTTTTTA
63149762 TTATTTTTTACGCAT-
1 TTATTTTTTACGCATG
63149777 TTATTTTATTACGCATG
1 TTATTTT-TTACGCATG
63149794 TTAT
1 TTAT
63149798 CATCGTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.22, C:0.11, G:0.08, T:0.58
Consensus pattern (16 bp):
TTATTTTTTACGCATG
Found at i:63150277 original size:222 final size:217
Alignment explanation
Indices: 63149879--63150283 Score: 510
Period size: 217 Copynumber: 1.8 Consensus size: 217
63149869 TTATTTTAAT
* *
63149879 AAAGGCAATATTCCGTATTTGGAAATTCGAGAAATTGTGCCCTAATGTACTGAGTTTCAATTTTT
1 AAAGGCAATATTCCGTATTTGGAAATTCGAGAAATCGAGCCCTAATGTACTGAGTTTCAATTTTT
* * * * *
63149944 TCTCGTTTAATCTAAATAACTGAATATACTTTTTTAAACGAAATACATAAGTTTTAAATAAAAAA
66 TCTCGTTCAATCTAAATAACTAAATATACCTTTTAAAACAAAATACATAAGTTTTAAATAAAAAA
* ** * *
63150009 GCTTATTCTCGAGAATTCGAGGTGTTGTGTCCTAACTTATTGGATGTGACATTTTGTTACCTCGA
131 GCTTATTCTCGAGAATTCAAAATGTCGTGTCCTAACTTACTGGATGTGACATTTTGTTACCTCGA
63150074 GATAAGATTTTTTTCTTAAAAC
196 GATAAGATTTTTTTCTTAAAAC
* * * *
63150096 AAAGGCAATATTCTGTATTTGGAAATTCGAGAAATCGAGCCTTAACT-TACTGGGTTTCGA-TTT
1 AAAGGCAATATTCCGTATTTGGAAATTCGAGAAATCGAGCCCTAA-TGTACTGAGTTTCAATTTT
* * *
63150159 TTCTTGTTCAATCTAAATAACTAAATAT-CCTTTTAAAATTAAAATACATGAGTTTTGAAAATTA
65 TTCTCGTTCAATCTAAATAACTAAATATACCTTTTAAAA-CAAAATACATAAGTTTT--AAA-T-
** * *
63150223 AAAAACAAGCTTATTCTCGAGGGTTTAAAATGTCGTGTCCTAACTTACTGGATGTGTCATT
125 -AAAA-AAGCTTATTCTCGAGAATTCAAAATGTCGTGTCCTAACTTACTGGATGTGACATT
63150284 ACTTCGAGAT
Statistics
Matches: 157, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
215 8 0.05
216 42 0.27
217 52 0.33
218 4 0.03
219 1 0.01
221 4 0.03
222 46 0.29
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (217 bp):
AAAGGCAATATTCCGTATTTGGAAATTCGAGAAATCGAGCCCTAATGTACTGAGTTTCAATTTTT
TCTCGTTCAATCTAAATAACTAAATATACCTTTTAAAACAAAATACATAAGTTTTAAATAAAAAA
GCTTATTCTCGAGAATTCAAAATGTCGTGTCCTAACTTACTGGATGTGACATTTTGTTACCTCGA
GATAAGATTTTTTTCTTAAAAC
Found at i:63157859 original size:16 final size:16
Alignment explanation
Indices: 63157838--63157869 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
63157828 CCCCCTTAAA
63157838 ACCAAATAGCTTAGCC
1 ACCAAATAGCTTAGCC
63157854 ACCAAATAGCTTAGCC
1 ACCAAATAGCTTAGCC
63157870 TTTACATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.31, G:0.12, T:0.19
Consensus pattern (16 bp):
ACCAAATAGCTTAGCC
Found at i:63174458 original size:15 final size:16
Alignment explanation
Indices: 63174427--63174463 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
63174417 TAAATTCAAC
63174427 AGTTAGATTGTTAAAA
1 AGTTAGATTGTTAAAA
63174443 AGTTA-ATTGTATAAAA
1 AGTTAGATTGT-TAAAA
63174459 AGTTA
1 AGTTA
63174464 TGAAAGTACG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.16, T:0.38
Consensus pattern (16 bp):
AGTTAGATTGTTAAAA
Found at i:63178882 original size:17 final size:18
Alignment explanation
Indices: 63178860--63178895 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
63178850 TTAGGAATGA
63178860 TTTTGT-CCAAAAGTGCT
1 TTTTGTCCCAAAAGTGCT
63178877 TTTTGTCCCAAAAGTGCT
1 TTTTGTCCCAAAAGTGCT
63178895 T
1 T
63178896 CTTCGAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.22, C:0.19, G:0.17, T:0.42
Consensus pattern (18 bp):
TTTTGTCCCAAAAGTGCT
Found at i:63183550 original size:6 final size:7
Alignment explanation
Indices: 63183535--63183560 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
63183525 CGCTTTGAAA
63183535 TTTTATT
1 TTTTATT
63183542 TTTTATT
1 TTTTATT
63183549 TTTTATT
1 TTTTATT
63183556 TTTTA
1 TTTTA
63183561 AAAGGGAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:63184218 original size:19 final size:20
Alignment explanation
Indices: 63184185--63184224 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
63184175 ACATATGTAT
63184185 ATAAAATAAAGAAAAT-AAA
1 ATAAAATAAAGAAAATGAAA
63184204 ATAAAATAACA-AAAATGAAA
1 ATAAAATAA-AGAAAATGAAA
63184224 A
1 A
63184225 ATGAACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (20 bp):
ATAAAATAAAGAAAATGAAA
Found at i:63184910 original size:21 final size:21
Alignment explanation
Indices: 63184872--63184931 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
63184862 GTACATCGTT
* * *
63184872 AACAGAAGTTCATAAGAGCTA
1 AACAGAAGCTCGTGAGAGCTA
* *
63184893 AACAGAAGCTCGTGAGAGTTG
1 AACAGAAGCTCGTGAGAGCTA
*
63184914 AATAGAAGCTCGTGAGAG
1 AACAGAAGCTCGTGAGAG
63184932 TTGATCCACC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.18
Consensus pattern (21 bp):
AACAGAAGCTCGTGAGAGCTA
Found at i:63184932 original size:21 final size:21
Alignment explanation
Indices: 63184896--63184935 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
63184886 AGAGCTAAAC
63184896 AGAAGCTCGTGAGAGTTGAAT
1 AGAAGCTCGTGAGAGTTGAAT
63184917 AGAAGCTCGTGAGAGTTGA
1 AGAAGCTCGTGAGAGTTGA
63184936 TCCACCTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.23
Consensus pattern (21 bp):
AGAAGCTCGTGAGAGTTGAAT
Found at i:63201862 original size:12 final size:12
Alignment explanation
Indices: 63201834--63201866 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
63201824 CATAGTTATT
63201834 TTTATG-TTTTC
1 TTTATGTTTTTC
63201845 -TTATGTTTTTC
1 TTTATGTTTTTC
63201856 TTTATGTTTTT
1 TTTATGTTTTT
63201867 ATTGGCGAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 5 0.25
11 5 0.25
12 10 0.50
ACGTcount: A:0.09, C:0.06, G:0.09, T:0.76
Consensus pattern (12 bp):
TTTATGTTTTTC
Found at i:63202665 original size:21 final size:21
Alignment explanation
Indices: 63202641--63202684 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
63202631 AATAGCGTTC
*
63202641 TAAGAGTGATATATGTTCATT
1 TAAGAGTGACATATGTTCATT
63202662 TAAGAGTGACATATGTTCATT
1 TAAGAGTGACATATGTTCATT
63202683 TA
1 TA
63202685 GGCATGATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.07, G:0.18, T:0.41
Consensus pattern (21 bp):
TAAGAGTGACATATGTTCATT
Found at i:63203513 original size:25 final size:28
Alignment explanation
Indices: 63203475--63203534 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 28
63203465 TAATTAGCTT
* *
63203475 TATATTACATATATA-AA-ATATTATAA
1 TATAATACATATATATAATATAATATAA
63203501 -ATAATACATATATATAATATAATATAA
1 TATAATACATATATATAATATAATATAA
63203528 TATAATA
1 TATAATA
63203535 TAATTATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 13 0.45
26 2 0.07
27 8 0.28
28 6 0.21
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (28 bp):
TATAATACATATATATAATATAATATAA
Found at i:63203522 original size:5 final size:5
Alignment explanation
Indices: 63203485--63203538 Score: 60
Period size: 5 Copynumber: 11.4 Consensus size: 5
63203475 TATATTACAT
* * *
63203485 ATATA AAATA TTATA A-ATA ATA-C ATAT- ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
63203532 ATATA AT
1 ATATA AT
63203539 TATTTTAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
4 11 0.27
5 30 0.73
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:63210046 original size:20 final size:20
Alignment explanation
Indices: 63209996--63210046 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
63209986 AAATACAAAT
* *
63209996 TAAAATACTAAAATTCAGGA
1 TAAAATACTGAAATTCAAGA
*
63210016 TAAAATCCTGAAATTCAAGA
1 TAAAATACTGAAATTCAAGA
*
63210036 TAAAAAACTGA
1 TAAAATACTGA
63210047 TGTGGCATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.24
Consensus pattern (20 bp):
TAAAATACTGAAATTCAAGA
Found at i:63210674 original size:15 final size:15
Alignment explanation
Indices: 63210644--63210688 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
63210634 ATTTTGTTAT
63210644 TCTAATATTATTATTTA
1 TCTAAT-TT-TTATTTA
63210661 TCTAATTTTTATTTA
1 TCTAATTTTTATTTA
*
63210676 TCT-ATTTATATTT
1 TCTAATTTTTATTT
63210689 CTACTATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.33
15 10 0.37
16 2 0.07
17 6 0.22
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (15 bp):
TCTAATTTTTATTTA
Found at i:63210687 original size:14 final size:15
Alignment explanation
Indices: 63210644--63210688 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 15
63210634 ATTTTGTTAT
63210644 TCTAATATTATTATTTA
1 TCTAAT-TTA-TATTTA
*
63210661 TCTAATTTTTATTTA
1 TCTAATTTATATTTA
63210676 TCT-ATTTATATTT
1 TCTAATTTATATTT
63210689 CTACTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 9 0.35
15 9 0.35
16 2 0.08
17 6 0.23
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (15 bp):
TCTAATTTATATTTA
Found at i:63210715 original size:15 final size:15
Alignment explanation
Indices: 63210681--63210725 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
63210671 ATTTATCTAT
*
63210681 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TCA
63210698 TTATATTTCTATTCA
1 TTATATTTCTATTCA
*
63210713 TTATATTTTTATT
1 TTATATTTCTATT
63210726 TCTATTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 14 0.54
16 1 0.04
17 11 0.42
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATATTTCTATTCA
Found at i:63212684 original size:27 final size:27
Alignment explanation
Indices: 63212646--63212701 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
63212636 ATGTAGTATA
*
63212646 GAATGTAACATCCCAGTACTTTAACCC
1 GAATGTAACATCCCAATACTTTAACCC
63212673 GAATGTAACATCCCAATACTTTAACCC
1 GAATGTAACATCCCAATACTTTAACCC
63212700 GA
1 GA
63212702 TGTTTAGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.36, C:0.29, G:0.11, T:0.25
Consensus pattern (27 bp):
GAATGTAACATCCCAATACTTTAACCC
Found at i:63221764 original size:29 final size:30
Alignment explanation
Indices: 63221717--63221784 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
63221707 TGGCCCAAGA
* *
63221717 GTAAATACTCAAAATTTGAAGGATTAA-AGT
1 GTAAATA-TCAAAAGTTGAAGGACTAATAGT
*
63221747 GTAAATATGAAAAGTTGAAGGACTAATAGT
1 GTAAATATCAAAAGTTGAAGGACTAATAGT
*
63221777 GCAAATAT
1 GTAAATAT
63221785 TTTAAGGGTG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (30 bp):
GTAAATATCAAAAGTTGAAGGACTAATAGT
Found at i:63223899 original size:46 final size:46
Alignment explanation
Indices: 63223852--63224125 Score: 406
Period size: 46 Copynumber: 6.0 Consensus size: 46
63223842 GCTCTCTGAT
** * *
63223852 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
63223898 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
63223944 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** *
63223990 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
63224036 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
63224082 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
63224126 TCAAAGATAA
Statistics
Matches: 211, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 210 1.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:63225233 original size:50 final size:50
Alignment explanation
Indices: 63225174--63225274 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
63225164 ATTCAACATG
63225174 ATATATCATCACAAGCATTCATATTTACAATCTTATTCTTTAATAAGCAT
1 ATATATCATCACAAGCATTCATATTTACAATCTTATTCTTTAATAAGCAT
*
63225224 ATATATCATCACAAGCATTCATGTTTACAATCTTATTCTTTAATAAGCAT
1 ATATATCATCACAAGCATTCATATTTACAATCTTATTCTTTAATAAGCAT
63225274 A
1 A
63225275 CTTGTTTCCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.40
Consensus pattern (50 bp):
ATATATCATCACAAGCATTCATATTTACAATCTTATTCTTTAATAAGCAT
Found at i:63227268 original size:46 final size:46
Alignment explanation
Indices: 63227216--63227355 Score: 210
Period size: 46 Copynumber: 3.0 Consensus size: 46
63227206 GTGTGCTTTC
63227216 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
63227262 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
* * * * * *
63227308 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
63227354 TG
1 TG
63227356 CCGAAGATAA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 86 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACA
Found at i:63240126 original size:52 final size:48
Alignment explanation
Indices: 63240107--63240309 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
63240097 TGACAAGTGG
* *
63240107 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
63240153 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
63240205 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
63240251 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
63240297 AAAGTGATAAGTG
1 AAAGTGATAAGTG
63240310 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:63240161 original size:98 final size:98
Alignment explanation
Indices: 63240041--63240309 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
63240031 TTTGAGTACT
*
63240041 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
63240106 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
63240139 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
63240204 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
63240237 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
63240302 GATAAGTG
65 GAAAAGTG
63240310 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:63240317 original size:37 final size:37
Alignment explanation
Indices: 63240273--63240418 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
63240263 GATAGCTTTA
*
63240273 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
63240310 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
63240347 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
63240384 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
63240419 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:63242550 original size:13 final size:12
Alignment explanation
Indices: 63242526--63242559 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
63242516 TTCACCACAT
63242526 CAAAATTTCAGA
1 CAAAATTTCAGA
63242538 CAAAATCTTCAGA
1 CAAAAT-TTCAGA
63242551 CAAATATTT
1 CAAA-ATTT
63242560 TCTCTCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 6 0.30
13 12 0.60
14 2 0.10
ACGTcount: A:0.47, C:0.18, G:0.06, T:0.29
Consensus pattern (12 bp):
CAAAATTTCAGA
Found at i:63245213 original size:2 final size:2
Alignment explanation
Indices: 63245206--63245233 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
63245196 TTATGGAACA
63245206 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
63245234 GGGAAGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:63245751 original size:14 final size:13
Alignment explanation
Indices: 63245723--63245748 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63245713 TCACAATTAA
63245723 AAATATATTTTTT
1 AAATATATTTTTT
63245736 AAATATATTTTTT
1 AAATATATTTTTT
63245749 TAAGTGATTA
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
AAATATATTTTTT
Found at i:63246142 original size:17 final size:20
Alignment explanation
Indices: 63246108--63246148 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
63246098 TGTTGACGGC
63246108 ATTTTTTTAATTAATCAAA-
1 ATTTTTTTAATTAATCAAAT
*
63246127 ATTTTTTT-A-TATTCAAAT
1 ATTTTTTTAATTAATCAAAT
63246145 ATTT
1 ATTT
63246149 ATTGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 8 0.40
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTTTTAATTAATCAAAT
Found at i:63250448 original size:23 final size:24
Alignment explanation
Indices: 63250382--63250450 Score: 78
Period size: 21 Copynumber: 3.1 Consensus size: 24
63250372 AAGAAAAAAT
*
63250382 GTAAT-AAT-GAAA-ATAATATTA
1 GTAATAAATAGAAATATAATAATA
63250403 GTATATAAATAGAAATA-AA-AATA
1 GTA-ATAAATAGAAATATAATAATA
63250426 -TAATAAATAGAAATATAATAATA
1 GTAATAAATAGAAATATAATAATA
63250449 GT
1 GT
63250451 TGAAATATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
21 16 0.40
22 6 0.15
23 10 0.25
24 7 0.17
25 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (24 bp):
GTAATAAATAGAAATATAATAATA
Found at i:63250457 original size:17 final size:15
Alignment explanation
Indices: 63250415--63250460 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
63250405 ATATAAATAG
*
63250415 AAATAAAAATATAAT
1 AAATAGAAATATAAT
63250430 AAATAGAAATATAAT
1 AAATAGAAATATAAT
*
63250445 AATAGTTGAAATATAA
1 AA-A-TAGAAATATAA
63250461 ATAGATGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 16 0.59
16 1 0.04
17 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:63254963 original size:19 final size:19
Alignment explanation
Indices: 63254922--63254961 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
63254912 TATTTCTTGG
*
63254922 TTATAACACAAAAATTATT
1 TTATAACACAAAAAATATT
*
63254941 TTATAACATAATAAAATATT
1 TTATAACACAA-AAAATATT
63254961 T
1 T
63254962 ATTATAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (19 bp):
TTATAACACAAAAAATATT
Found at i:63258473 original size:6 final size:6
Alignment explanation
Indices: 63258450--63258487 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
63258440 AATAACAAAA
*
63258450 TAATAT TAA-AT AAATAT TAATAT TAATAT TAATAT TAA
1 TAATAT TAATAT TAATAT TAATAT TAATAT TAATAT TAA
63258488 ATAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (6 bp):
TAATAT
Found at i:63259010 original size:23 final size:22
Alignment explanation
Indices: 63258983--63259039 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
63258973 TTTATTTTAC
*
63258983 ATTTATTGTTTTTTTATGAAAAT
1 ATTTATTGTTTTTATAT-AAAAT
*
63259006 ATTTATAT-TTTTTATATAAATT
1 ATTTAT-TGTTTTTATATAAAAT
*
63259028 ATTTAATGTTTT
1 ATTTATTGTTTT
63259040 AGAATCATGA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 1 0.03
22 13 0.45
23 14 0.48
24 1 0.03
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
ATTTATTGTTTTTATATAAAAT
Found at i:63259016 original size:22 final size:22
Alignment explanation
Indices: 63258991--63259040 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
63258981 ACATTTATTG
63258991 TTTTTT-TATGAAAATATTTATA
1 TTTTTTATAT-AAAATATTTATA
*
63259013 TTTTTTATATAAATTATTTA-A
1 TTTTTTATATAAAATATTTATA
*
63259034 TGTTTTA
1 TTTTTTA
63259041 GAATCATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTTTTTATATAAAATATTTATA
Found at i:63259026 original size:21 final size:21
Alignment explanation
Indices: 63258992--63259040 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
63258982 CATTTATTGT
63258992 TTTTTTATGAAAA-TATTTATA
1 TTTTTTATGAAAATTATTTA-A
63259013 TTTTTTAT-ATAAATTATTTAA
1 TTTTTTATGA-AAATTATTTAA
*
63259034 TGTTTTA
1 TTTTTTA
63259041 GAATCATGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 18 0.72
22 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (21 bp):
TTTTTTATGAAAATTATTTAA
Found at i:63259573 original size:15 final size:16
Alignment explanation
Indices: 63259537--63259577 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
63259527 GTTTATAAAG
*
63259537 TAATTTATCATTACAT
1 TAATTTATAATTACAT
*
63259553 TAATTTATAATTTCA-
1 TAATTTATAATTACAT
63259568 TAATTTATAA
1 TAATTTATAA
63259578 GGGATCTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.51
Consensus pattern (16 bp):
TAATTTATAATTACAT
Found at i:63263860 original size:5 final size:5
Alignment explanation
Indices: 63263850--63263892 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
63263840 TTGGAGCGGT
* * **
63263850 GGTGC GGTGC GGTGC GGTAC GGTGC GGTAC AATGC GGTGC GGT
1 GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGTGC GGT
63263893 ATAATACGTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.09, C:0.19, G:0.51, T:0.21
Consensus pattern (5 bp):
GGTGC
Found at i:63273525 original size:25 final size:25
Alignment explanation
Indices: 63273475--63273527 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
63273465 AGGTACAATT
*
63273475 TAATAAATAAATATCTGTAAATTAA
1 TAATAAATAAATATATGTAAATTAA
* *
63273500 TAATAAATATATAATATTTAAA-TAA
1 TAATAAATAAAT-ATATGTAAATTAA
63273525 TAA
1 TAA
63273528 CAATAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATAAATAAATATATGTAAATTAA
Found at i:63273561 original size:19 final size:19
Alignment explanation
Indices: 63273539--63273575 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
63273529 AATAAAATAG
*
63273539 TAGTAATATAATAGTGAAT
1 TAGTAATAAAATAGTGAAT
*
63273558 TAGTAGTAAAATAGTGAA
1 TAGTAATAAAATAGTGAA
63273576 AAAACAACAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.19, T:0.32
Consensus pattern (19 bp):
TAGTAATAAAATAGTGAAT
Found at i:63277550 original size:13 final size:14
Alignment explanation
Indices: 63277522--63277550 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
63277512 CTGAAAAGCT
63277522 AATTATTTTCTAAA
1 AATTATTTTCTAAA
63277536 AATTATTTT-TAAA
1 AATTATTTTCTAAA
63277549 AA
1 AA
63277551 GTCATATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTATTTTCTAAA
Found at i:63285468 original size:23 final size:23
Alignment explanation
Indices: 63285442--63285489 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
63285432 AAGAAATAAT
63285442 AAACCCATAGATAAATACAATCA
1 AAACCCATAGATAAATACAATCA
63285465 AAACCCATAGATAAATACAATCA
1 AAACCCATAGATAAATACAATCA
63285488 AA
1 AA
63285490 CTTTAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.17
Consensus pattern (23 bp):
AAACCCATAGATAAATACAATCA
Found at i:63286089 original size:17 final size:16
Alignment explanation
Indices: 63286067--63286118 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 16
63286057 TTTCTTTTAA
63286067 AAATAAATTTATATTT
1 AAATAAATTTATATTT
*
63286083 GAAATAAA-TTATTTTTT
1 -AAATAAATTTA-TATTT
*
63286100 AAA-AAATATATATTT
1 AAATAAATTTATATTT
63286115 AAAT
1 AAAT
63286119 TATCATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
15 10 0.34
16 8 0.28
17 11 0.38
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (16 bp):
AAATAAATTTATATTT
Found at i:63286460 original size:83 final size:85
Alignment explanation
Indices: 63286274--63286475 Score: 284
Period size: 83 Copynumber: 2.4 Consensus size: 85
63286264 AGCTATTAAT
* * *
63286274 TTTACATATTATATTATAAATTGACACT-ATATTATTTATTCAAACGTAGAATGTTTTTTCGAAC
1 TTTA-ATATTATATTATAATTTGACACTAATATTATTTATTCAAACGTAAAATGTTTTTCCGAAC
** * *
63286338 TATGTAATTAATTTTGATGTC
65 TACATAAGTAATTTCGATGTC
* *
63286359 TTTAATATTATATTATAATTTGACACTAAT-TTATTTTTTCAAATGTAAAATG-TTTTCCGAACT
1 TTTAATATTATATTATAATTTGACACTAATATTATTTATTCAAACGTAAAATGTTTTTCCGAACT
63286422 ACATAAGTAATTTCGATGTC
66 ACATAAGTAATTTCGATGTC
63286442 TTTAATATTATATTATAATTTGACACTAAATATT
1 TTTAATATTATATTATAATTTGACACT-AATATT
63286476 TCATATGTGT
Statistics
Matches: 105, Mismatches: 9, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
83 53 0.50
84 44 0.42
85 8 0.08
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.47
Consensus pattern (85 bp):
TTTAATATTATATTATAATTTGACACTAATATTATTTATTCAAACGTAAAATGTTTTTCCGAACT
ACATAAGTAATTTCGATGTC
Found at i:63286865 original size:26 final size:25
Alignment explanation
Indices: 63286836--63286890 Score: 58
Period size: 26 Copynumber: 2.2 Consensus size: 25
63286826 TCTTTTCTTC
*
63286836 TTTTACAGATTTTAATCATTTTGTT-T
1 TTTTACAGATGTTAAT-ATTTT-TTAT
* *
63286862 TTTTTCATATGTTAATATTTTTTAT
1 TTTTACAGATGTTAATATTTTTTAT
63286887 TTTT
1 TTTT
63286891 GTGCAACCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 2 0.08
25 10 0.40
26 13 0.52
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.67
Consensus pattern (25 bp):
TTTTACAGATGTTAATATTTTTTAT
Found at i:63297120 original size:30 final size:30
Alignment explanation
Indices: 63297086--63297155 Score: 131
Period size: 30 Copynumber: 2.3 Consensus size: 30
63297076 TTTAAAAAAT
63297086 ATTTAATATTTCAATTTTATTTTAATAATA
1 ATTTAATATTTCAATTTTATTTTAATAATA
*
63297116 ATTTAATAATTCAATTTTATTTTAATAATA
1 ATTTAATATTTCAATTTTATTTTAATAATA
63297146 ATTTAATATT
1 ATTTAATATT
63297156 CTTCATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (30 bp):
ATTTAATATTTCAATTTTATTTTAATAATA
Found at i:63297155 original size:19 final size:21
Alignment explanation
Indices: 63297111--63297155 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 21
63297101 TTTATTTTAA
*
63297111 TAATAATTTAATAATTCAATT
1 TAATATTTTAATAATTCAATT
63297132 T--TATTTTAATAA-T-AATT
1 TAATATTTTAATAATTCAATT
63297149 TAATATT
1 TAATATT
63297156 CTTCATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 6
0.75 0.04 0.21
Matches are distributed among these distances:
17 5 0.24
18 1 0.05
19 14 0.67
21 1 0.05
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATTTTAATAATTCAATT
Found at i:63297374 original size:21 final size:21
Alignment explanation
Indices: 63297349--63297391 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
63297339 AATGTTACGT
63297349 TTTTAAATAAAAAAAATTTAG
1 TTTTAAATAAAAAAAATTTAG
63297370 TTTTAAATAAAAAAAATTTAG
1 TTTTAAATAAAAAAAATTTAG
63297391 T
1 T
63297392 ATTCATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTTTAAATAAAAAAAATTTAG
Found at i:63297401 original size:22 final size:21
Alignment explanation
Indices: 63297353--63297401 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
63297343 TTACGTTTTT
*
63297353 AAATAAAAAAAATTTAGTTTT
1 AAATAAAAAAAATTTAGTTTC
63297374 AAATAAAAAAAATTTAGTATTC
1 AAATAAAAAAAATTTAGT-TTC
*
63297396 ATATAA
1 AAATAA
63297402 CTAAATAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
AAATAAAAAAAATTTAGTTTC
Found at i:63299733 original size:107 final size:107
Alignment explanation
Indices: 63299547--63299763 Score: 362
Period size: 107 Copynumber: 2.0 Consensus size: 107
63299537 TGATATCAAT
* *
63299547 TTACTTTACACTCTCAAATACATGTTATTCAATGAACAGGTAAGTGCTATAAAAACTACACCATT
1 TTACTTTACACTCTCAAATACATGTTATTCAATAAACAAGTAAGTGCTATAAAAACTACACCATT
* *
63299612 TTAACTTCCAAAGACATCTAAGATATAAGAGTTTGAGGCCTA
66 TTAACTTCCAAAGACATCTAAGACATAAGAGTTTGAGCCCTA
* * *
63299654 TTACTTTACACTCTCAAATATATGTTCTTCAATAAACAAGTAAGTGTTATAAAAACTACACCATT
1 TTACTTTACACTCTCAAATACATGTTATTCAATAAACAAGTAAGTGCTATAAAAACTACACCATT
*
63299719 TTAACTTCCAAAGACATTTAAGACATAAGAGTTTGAGCCCTA
66 TTAACTTCCAAAGACATCTAAGACATAAGAGTTTGAGCCCTA
63299761 TTA
1 TTA
63299764 AGATAAAGAT
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
107 102 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (107 bp):
TTACTTTACACTCTCAAATACATGTTATTCAATAAACAAGTAAGTGCTATAAAAACTACACCATT
TTAACTTCCAAAGACATCTAAGACATAAGAGTTTGAGCCCTA
Found at i:63316248 original size:29 final size:30
Alignment explanation
Indices: 63316216--63316272 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
63316206 AACTTATATA
* *
63316216 TTTTAGTTTTTTATTTAT-TTTTTTGTCTC
1 TTTTAATTTTTAATTTATATTTTTTGTCTC
*
63316245 TTTTAATTTTTAATTTGTATTTTTTGTC
1 TTTTAATTTTTAATTTATATTTTTTGTC
63316273 AAATTATCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.74
Consensus pattern (30 bp):
TTTTAATTTTTAATTTATATTTTTTGTCTC
Found at i:63317110 original size:8 final size:8
Alignment explanation
Indices: 63317097--63317122 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
63317087 AAGTTTTTAT
63317097 TTAAATTA
1 TTAAATTA
63317105 TTAAATTA
1 TTAAATTA
63317113 TTAAATTA
1 TTAAATTA
63317121 TT
1 TT
63317123 TATATATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAAATTA
Found at i:63327257 original size:45 final size:45
Alignment explanation
Indices: 63327208--63327426 Score: 339
Period size: 45 Copynumber: 4.9 Consensus size: 45
63327198 TCGGCCATGG
* * * * *
63327208 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
*
63327253 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
63327298 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
63327343 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
* * * **
63327388 TGCTTCCTTAATTTGTTCCACAAATTATGCATGATGTTG
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTG
63327427 TCCACCTCTT
Statistics
Matches: 162, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 162 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.40
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
Found at i:63328721 original size:20 final size:20
Alignment explanation
Indices: 63328677--63328727 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
63328667 GTTTCCCCGT
* * *
63328677 ATATTTTTTTATTTATAAGA
1 ATATTATTTTATCTATAAAA
*
63328697 TTATTATTTTATCTATAAAA
1 ATATTATTTTATCTATAAAA
63328717 ATATTATTTTA
1 ATATTATTTTA
63328728 ATAAATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (20 bp):
ATATTATTTTATCTATAAAA
Found at i:63328843 original size:17 final size:18
Alignment explanation
Indices: 63328822--63328866 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
63328812 AACGAAAATG
63328822 AATTTTTAAA-TAATTTTT
1 AATTTTTAAAGT-ATTTTT
*
63328840 -ATTTTTAAAGTTTTTTT
1 AATTTTTAAAGTATTTTT
63328857 AATTTTTAAA
1 AATTTTTAAA
63328867 AATCTAGACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AATTTTTAAAGTATTTTT
Found at i:63332098 original size:10 final size:10
Alignment explanation
Indices: 63332083--63332107 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63332073 AATTTTAAAA
63332083 TCAATTTTTT
1 TCAATTTTTT
63332093 TCAATTTTTT
1 TCAATTTTTT
63332103 TCAAT
1 TCAAT
63332108 AAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (10 bp):
TCAATTTTTT
Found at i:63336930 original size:10 final size:10
Alignment explanation
Indices: 63336915--63336939 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
63336905 AATTTTAAAA
63336915 TCAATTTTTT
1 TCAATTTTTT
63336925 TCAATTTTTT
1 TCAATTTTTT
63336935 TCAAT
1 TCAAT
63336940 AAAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (10 bp):
TCAATTTTTT
Found at i:63343056 original size:59 final size:61
Alignment explanation
Indices: 63342933--63343069 Score: 156
Period size: 59 Copynumber: 2.3 Consensus size: 61
63342923 AAATAATTGA
* *
63342933 ATTAAAATATTATTAA-ATTATATATTATTATTTTTACTAAATTATATTTAATAATAATTAT
1 ATTAAAATA-TAATAACATTATATATTATTATTTTTACTAAATTATATTTAATAATAATCAT
* * * * *
63342994 ATTAAAATATGATAACATTAT-T-TT-TTATTTTTTATTAAATTATTTTTGATAATAATCCT
1 ATTAAAATATAATAACATTATATATTATTA-TTTTTACTAAATTATATTTAATAATAATCAT
*
63343053 ATTAAAATTTAATAACA
1 ATTAAAATATAATAACA
63343070 ATAACAATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 3 0.05
59 43 0.66
60 5 0.08
61 14 0.22
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (61 bp):
ATTAAAATATAATAACATTATATATTATTATTTTTACTAAATTATATTTAATAATAATCAT
Found at i:63345476 original size:17 final size:18
Alignment explanation
Indices: 63345435--63345492 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
63345425 TGTATTTACT
63345435 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
63345453 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
*
63345470 TATTATATAATTATAAT-A
1 TATTATATAAGTA-AATAA
63345488 TATTA
1 TATTA
63345493 ATTAAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
17 15 0.44
18 16 0.47
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:63350378 original size:17 final size:18
Alignment explanation
Indices: 63350352--63350387 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
63350342 GCAAGTCCAT
*
63350352 GGTTACATTAA-ATTTGG
1 GGTTAAATTAATATTTGG
63350369 GGTTAAATTAATATTTGG
1 GGTTAAATTAATATTTGG
63350387 G
1 G
63350388 TCTCAACTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.31, C:0.03, G:0.25, T:0.42
Consensus pattern (18 bp):
GGTTAAATTAATATTTGG
Found at i:63364779 original size:3 final size:3
Alignment explanation
Indices: 63364771--63364807 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
63364761 NNNNNNNNNN
63364771 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
63364808 AGTTAACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:63366142 original size:13 final size:13
Alignment explanation
Indices: 63366124--63366164 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
63366114 AGTTTGATAA
63366124 TACTTTTGAAAAG
1 TACTTTTGAAAAG
*
63366137 TACTTTTGAAAAAA
1 TACTTTTG-AAAAG
*
63366151 TATTTTTGAAAAG
1 TACTTTTGAAAAG
63366164 T
1 T
63366165 TTGGTTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:63366157 original size:14 final size:14
Alignment explanation
Indices: 63366122--63366162 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
63366112 CTAGTTTGAT
63366122 AATACTTTTG-AAA
1 AATACTTTTGAAAA
*
63366135 AGTACTTTTGAAAA
1 AATACTTTTGAAAA
*
63366149 AATATTTTTGAAAA
1 AATACTTTTGAAAA
63366163 GTTTGGTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.39
Consensus pattern (14 bp):
AATACTTTTGAAAA
Found at i:63371476 original size:17 final size:18
Alignment explanation
Indices: 63371431--63371479 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
63371421 GCACATGGCT
63371431 AAATAAATAATTAACACA
1 AAATAAATAATTAACACA
*
63371449 AATTGAAATAATTGAA-A-A
1 AAAT-AAATAATT-AACACA
63371467 AAATAAATAATTA
1 AAATAAATAATTA
63371480 TTTAAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
16 1 0.04
17 8 0.30
18 7 0.26
19 9 0.33
20 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATTAACACA
Found at i:63371771 original size:22 final size:25
Alignment explanation
Indices: 63371735--63371781 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
63371725 TTTTCCTATA
63371735 TTTCTATATATTTT-ATAATTTTTT
1 TTTCTATATATTTTAATAATTTTTT
63371759 TTTCTA-A-ATTTTAATAATTTTTT
1 TTTCTATATATTTTAATAATTTTTT
63371782 AGATTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.23
23 11 0.50
24 6 0.27
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTCTATATATTTTAATAATTTTTT
Found at i:63371791 original size:20 final size:20
Alignment explanation
Indices: 63371767--63371829 Score: 58
Period size: 19 Copynumber: 3.2 Consensus size: 20
63371757 TTTTTCTAAA
63371767 TTTTAATAATTTTTTA-GAT
1 TTTTAATAATTTTTTATGAT
* * *
63371786 TATTTATTAAATTTTAATGAT
1 T-TTTAATAATTTTTTATGAT
* *
63371807 TTTT-ATTATTTTTTATCAT
1 TTTTAATAATTTTTTATGAT
63371826 TTTT
1 TTTT
63371830 TTTGTCACAT
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
19 15 0.44
20 15 0.44
21 4 0.12
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTAATAATTTTTTATGAT
Found at i:63371822 original size:30 final size:31
Alignment explanation
Indices: 63371745--63371823 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 31
63371735 TTTCTATATA
*
63371745 TTTTATAATTTTTTTTTCTAAATTTTAATAAT
1 TTTTATAA-TTTTTTATCTAAATTTTAATAAT
* *
63371777 TTTT-TAGATTATTTAT-TAAATTTTAATGAT
1 TTTTATA-ATTTTTTATCTAAATTTTAATAAT
*
63371807 TTTTATTATTTTTTATC
1 TTTTATAATTTTTTATC
63371824 ATTTTTTTTG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
30 25 0.64
31 9 0.23
32 5 0.13
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (31 bp):
TTTTATAATTTTTTATCTAAATTTTAATAAT
Done.