Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 181 of 228
Found at i:54077986 original size:6 final size:6
Alignment explanation
Indices: 54077977--54078009 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
54077967 TACTTCCAGA
54077977 GATGGT GATGGT GATGGT GATGGT GATGGT GAT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GAT
54078010 ATGGTTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
GATGGT
Found at i:54078142 original size:144 final size:143
Alignment explanation
Indices: 54077855--54078132 Score: 375
Period size: 144 Copynumber: 2.0 Consensus size: 143
54077845 TCCAGAGATA
*
54077855 GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCGTAGCAAGAAGCACGGTGAGAAC
1 GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCATAGCAAGAAGCACGGTGAGAAC
*
54077920 TTATCGATAGAAGGCCAACGTAATGGACGCTACGAGAAAGATCAAGATACTTCCAGAGATGGTGA
66 TTATCGATAGAAGGCCAAC-TAATGGACGCTACGAGAAAGATCAAGATACATCCAGAGATGGTGA
54077985 TGGTGATGGTGATG
130 TGGTGATGGTGATG
* * * * * * * *
54077999 GTGATGGTGATATGGTTGATGAAAGTAGGTCTATTGATTCTCATAGCGAGGAGCACGGTGAGAAC
1 GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCATAGCAAGAAGCACGGTGAGAAC
* ** *
54078064 TTATCGGTAGAAGGCC-A-TAATGGTA-GCTACGAGGCAGATCAA-ATTGCATCCAGAGATGGTG
66 TTATCGATAGAAGGCCAACTAATGG-ACGCTACGAGAAAGATCAAGA-TACATCCAGAGATGGTG
54078125 ATGGTGAT
129 ATGGTGAT
54078133 ATGGTTGATG
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
140 1 0.01
141 44 0.37
142 1 0.01
143 1 0.01
144 71 0.60
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (143 bp):
GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCATAGCAAGAAGCACGGTGAGAAC
TTATCGATAGAAGGCCAACTAATGGACGCTACGAGAAAGATCAAGATACATCCAGAGATGGTGAT
GGTGATGGTGATG
Found at i:54093387 original size:3 final size:3
Alignment explanation
Indices: 54093379--54093405 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
54093369 AACCCTTGAC
54093379 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
54093406 ATCCATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:54094407 original size:126 final size:126
Alignment explanation
Indices: 54094163--54094465 Score: 318
Period size: 126 Copynumber: 2.4 Consensus size: 126
54094153 GTTAGAAGCT
* *
54094163 CGCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTAATGGTGAAATGCTTGATGAAAA
1 CGCTATGAGAAGGATCAAAATACATCCAGAGATA--G-T-G--ATGGTGATATGCTCGATGAAAA
* * ** * * * * * *
54094228 TAGATCTACTGGCTCTCATAGTGAGGAGCAAGATCAGCACTTATTGGTAGAAGGGCGACGTAATG
60 TAGATCAACTGACTCTCATAGCAAGAAGCAAGATCAGAACTTATCGATAGAAGGCCAACGTAATG
*
54094293 GT
125 GA
* * *
54094295 TGCTATGAGAAGGAACAAAATGCATCCAGAGATAGTGATGGTGATATGCTCGATGAAAATAGATC
1 CGCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTCGATGAAAATAGATC
* * * * *
54094360 AACTGATTCTCGTAGCAAGAAGCACGGTGAGAACTTATCGATAGAAGGCCAACGTAATGGA
66 AACTGACTCTCATAGCAAGAAGCAAGATCAGAACTTATCGATAGAAGGCCAACGTAATGGA
* * * * *
54094421 CGCTACGAGAAAGATCAAGATACTTCCAGAGATGGTGATGGTGAT
1 CGCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGAT
54094466 GGTGATGGTG
Statistics
Matches: 142, Mismatches: 29, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
126 108 0.76
128 1 0.01
129 1 0.01
130 1 0.01
132 31 0.22
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (126 bp):
CGCTATGAGAAGGATCAAAATACATCCAGAGATAGTGATGGTGATATGCTCGATGAAAATAGATC
AACTGACTCTCATAGCAAGAAGCAAGATCAGAACTTATCGATAGAAGGCCAACGTAATGGA
Found at i:54094460 original size:6 final size:6
Alignment explanation
Indices: 54094451--54094483 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
54094441 TACTTCCAGA
54094451 GATGGT GATGGT GATGGT GATGGT GATGGT GAT
1 GATGGT GATGGT GATGGT GATGGT GATGGT GAT
54094484 ATGGTTGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.48, T:0.33
Consensus pattern (6 bp):
GATGGT
Found at i:54094616 original size:144 final size:143
Alignment explanation
Indices: 54094329--54094606 Score: 375
Period size: 144 Copynumber: 2.0 Consensus size: 143
54094319 TCCAGAGATA
*
54094329 GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCGTAGCAAGAAGCACGGTGAGAAC
1 GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCATAGCAAGAAGCACGGTGAGAAC
*
54094394 TTATCGATAGAAGGCCAACGTAATGGACGCTACGAGAAAGATCAAGATACTTCCAGAGATGGTGA
66 TTATCGATAGAAGGCCAAC-TAATGGACGCTACGAGAAAGATCAAGATACATCCAGAGATGGTGA
54094459 TGGTGATGGTGATG
130 TGGTGATGGTGATG
* * * * * * * *
54094473 GTGATGGTGATATGGTTGATGAAAGTAGGTCTATTGATTCTCATAGCGAGGAGCACGGTGAGAAC
1 GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCATAGCAAGAAGCACGGTGAGAAC
* ** *
54094538 TTATCGGTAGAAGGCC-A-TAATGGTA-GCTACGAGGCAGATCAA-ATTGCATCCAGAGATGGTG
66 TTATCGATAGAAGGCCAACTAATGG-ACGCTACGAGAAAGATCAAGA-TACATCCAGAGATGGTG
54094599 ATGGTGAT
129 ATGGTGAT
54094607 ATGGTTGATG
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
140 1 0.01
141 44 0.37
142 1 0.01
143 1 0.01
144 71 0.60
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (143 bp):
GTGATGGTGATATGCTCGATGAAAATAGATCAACTGATTCTCATAGCAAGAAGCACGGTGAGAAC
TTATCGATAGAAGGCCAACTAATGGACGCTACGAGAAAGATCAAGATACATCCAGAGATGGTGAT
GGTGATGGTGATG
Found at i:54102753 original size:28 final size:28
Alignment explanation
Indices: 54102720--54102799 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
54102710 AGATTAATTG
* *
54102720 ACGAGTAGTGATCATTTTTATTACTAAT
1 ACGAGTAATGATCATTTTCATTACTAAT
* * * *
54102748 ATGAGTAATGATTATTTTCATTATTAGT
1 ACGAGTAATGATCATTTTCATTACTAAT
*
54102776 ACGAGTAAAGATCATTTTCATTAC
1 ACGAGTAATGATCATTTTCATTAC
54102800 AAAAGATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (28 bp):
ACGAGTAATGATCATTTTCATTACTAAT
Found at i:54104877 original size:18 final size:19
Alignment explanation
Indices: 54104834--54104875 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
54104824 GTACATTCGT
54104834 GTTTTGGTGTATGACGGGG
1 GTTTTGGTGTATGACGGGG
54104853 GTTTTGGTGTATGACGGGG
1 GTTTTGGTGTATGACGGGG
54104872 GTTT
1 GTTT
54104876 GGAGTGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.05, G:0.45, T:0.40
Consensus pattern (19 bp):
GTTTTGGTGTATGACGGGG
Found at i:54105014 original size:21 final size:21
Alignment explanation
Indices: 54104988--54105051 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
54104978 ATTTGGTGGA
*
54104988 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
* **
54105009 TCAGCTCTCACAAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
* *
54105030 TCATCTCGTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
54105051 T
1 T
54105052 AGCGTGTTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:54106530 original size:35 final size:34
Alignment explanation
Indices: 54106471--54106564 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 34
54106461 TGAATTGACG
* * * *
54106471 GATAAGACCATGGTTGGACCATGGCAATGTTTAAAT
1 GATAAGACCATAGCTGGGCTATGGCAAT-TTT-AAT
54106507 G-TAAGACCATAGCTGGGCTATGGC-ATTTTAAT
1 GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
* * * *
54106539 GAAAATACCATAACTGGGTTATGGCA
1 GATAAGACCATAGCTGGGCTATGGCA
54106565 CAAAGAGACG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 4 0.08
33 22 0.46
34 2 0.04
35 19 0.40
36 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (34 bp):
GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
Found at i:54106996 original size:37 final size:37
Alignment explanation
Indices: 54106946--54107047 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 37
54106936 CGGATAAATT
* * *
54106946 CGATGAGGTACTGGGTATCAAATTACTTCGACA-TGGC
1 CGATGAGGCACTGGGTGTCAAATTACTTCGA-ATTAGC
* *
54106983 CGATGAGACACTGGGTGTCAATCTATTACTTCGAATTATC
1 CGATGAGGCACTGGGTGTCAA---ATTACTTCGAATTAGC
*
54107023 CGATGAGGCACTGGGTGCCAAATTA
1 CGATGAGGCACTGGGTGTCAAATTA
54107048 GTGTGTTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
37 22 0.41
39 1 0.02
40 31 0.57
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (37 bp):
CGATGAGGCACTGGGTGTCAAATTACTTCGAATTAGC
Found at i:54112086 original size:17 final size:17
Alignment explanation
Indices: 54112064--54112097 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54112054 AAATATAACA
*
54112064 TTTTTGAATAATACTTG
1 TTTTTGAATAAAACTTG
54112081 TTTTTGAATAAAACTTG
1 TTTTTGAATAAAACTTG
54112098 ATAAATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (17 bp):
TTTTTGAATAAAACTTG
Found at i:54112484 original size:19 final size:18
Alignment explanation
Indices: 54112452--54112490 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
54112442 AAAGAAAATT
*
54112452 TCCCAAGTATCGATACCC
1 TCCCAAGTACCGATACCC
54112470 TCCCTAAGTACCGATACCC
1 TCCC-AAGTACCGATACCC
54112489 TC
1 TC
54112491 ATAGCAGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.26, C:0.41, G:0.10, T:0.23
Consensus pattern (18 bp):
TCCCAAGTACCGATACCC
Found at i:54112504 original size:20 final size:19
Alignment explanation
Indices: 54112456--54112505 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
54112446 AAAATTTCCC
*
54112456 AAGTATCGATACCCTCCCT
1 AAGTATCGATACCCTCCAT
*
54112475 AAGTACCGATACCCT-CAT
1 AAGTATCGATACCCTCCAT
54112493 AGCAGTATCGATA
1 A--AGTATCGATA
54112506 TATTCCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.12
19 14 0.54
20 9 0.35
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (19 bp):
AAGTATCGATACCCTCCAT
Found at i:54114745 original size:18 final size:18
Alignment explanation
Indices: 54114718--54114752 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
54114708 AAATATTACA
54114718 AAATAAAATTGAGTAATC
1 AAATAAAATTGAGTAATC
* *
54114736 AAATATAATTTAGTAAT
1 AAATAAAATTGAGTAAT
54114753 ATTGTGGTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (18 bp):
AAATAAAATTGAGTAATC
Found at i:54121124 original size:32 final size:31
Alignment explanation
Indices: 54121070--54121140 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
54121060 GGGAATTAGT
* *
54121070 CATTCATATTTGCATATCCATACCTTGTAATA
1 CATTCATATTTGCAAATCCATACCCTGTAA-A
54121102 -ATTCATAGTTTGCAAA-CTCATACCCTGTAAA
1 CATTCATA-TTTGCAAATC-CATACCCTGTAAA
54121133 CATTCATA
1 CATTCATA
54121141 NNNNNNNNNN
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
31 9 0.26
32 25 0.74
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.37
Consensus pattern (31 bp):
CATTCATATTTGCAAATCCATACCCTGTAAA
Found at i:54137364 original size:28 final size:28
Alignment explanation
Indices: 54137331--54137410 Score: 97
Period size: 28 Copynumber: 2.9 Consensus size: 28
54137321 AGATTAATTG
* *
54137331 ACGAGTAGTGATCATTTTTATTACTAAT
1 ACGAGTAATGATCATTTTCATTACTAAT
* * * *
54137359 ATGAGTAATGATTATTTTCATTATTAGT
1 ACGAGTAATGATCATTTTCATTACTAAT
*
54137387 ACGAGTAAAGATCATTTTCATTAC
1 ACGAGTAATGATCATTTTCATTAC
54137411 AAAAGATACA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.42
Consensus pattern (28 bp):
ACGAGTAATGATCATTTTCATTACTAAT
Found at i:54139487 original size:18 final size:19
Alignment explanation
Indices: 54139444--54139485 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
54139434 GTACATTCGT
54139444 GTTTTGGTGTATGACGGGG
1 GTTTTGGTGTATGACGGGG
54139463 GTTTTGGTGTATGACGGGG
1 GTTTTGGTGTATGACGGGG
54139482 GTTT
1 GTTT
54139486 GGAGTGGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.10, C:0.05, G:0.45, T:0.40
Consensus pattern (19 bp):
GTTTTGGTGTATGACGGGG
Found at i:54139625 original size:21 final size:21
Alignment explanation
Indices: 54139599--54139662 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
54139589 TTTTGGTGGA
*
54139599 TCAGCTCTTATGAGTTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
* **
54139620 TCAGCTCTCACAAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
* *
54139641 TCATCTCGTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
54139662 T
1 T
54139663 AGCGTGTTCT
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:54141143 original size:35 final size:34
Alignment explanation
Indices: 54141084--54141177 Score: 84
Period size: 33 Copynumber: 2.8 Consensus size: 34
54141074 TGAATTGACG
* * * *
54141084 GATAAGACCATGGTTGGACCATGGCAATGTTTAAAT
1 GATAAGACCATAGCTGGGCTATGGCAAT-TTT-AAT
54141120 G-TAAGACCATAGCTGGGCTATGGC-ATTTTAAT
1 GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
* * * *
54141152 GAAAATACCATAACTGGGTTATGGCA
1 GATAAGACCATAGCTGGGCTATGGCA
54141178 CAAAGAGACG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
32 4 0.08
33 22 0.46
34 2 0.04
35 19 0.40
36 1 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (34 bp):
GATAAGACCATAGCTGGGCTATGGCAATTTTAAT
Found at i:54141609 original size:37 final size:37
Alignment explanation
Indices: 54141559--54141660 Score: 107
Period size: 40 Copynumber: 2.7 Consensus size: 37
54141549 CGGATAAATT
* * *
54141559 CGATGAGGTACTGGGTATCAAATTACTTCGACA-TGGC
1 CGATGAGGCACTGGGTGTCAAATTACTTCGA-ATTAGC
* *
54141596 CGATGAGACACTGGGTGTCAATCTATTACTTCGAATTATC
1 CGATGAGGCACTGGGTGTCAA---ATTACTTCGAATTAGC
*
54141636 CGATGAGGCACTGGGTGCCAAATTA
1 CGATGAGGCACTGGGTGTCAAATTA
54141661 GTGTGTTTTG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
37 22 0.41
39 1 0.02
40 31 0.57
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (37 bp):
CGATGAGGCACTGGGTGTCAAATTACTTCGAATTAGC
Found at i:54146722 original size:17 final size:17
Alignment explanation
Indices: 54146702--54146734 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
54146692 AAATATAACA
*
54146702 TTTTGAATAATACTTGT
1 TTTTGAATAAAACTTGT
54146719 TTTTGAATAAAACTTG
1 TTTTGAATAAAACTTG
54146735 ATAAATTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.06, G:0.12, T:0.48
Consensus pattern (17 bp):
TTTTGAATAAAACTTGT
Found at i:54149408 original size:53 final size:53
Alignment explanation
Indices: 54149313--54149419 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
54149303 GTTATAAATT
* * *
54149313 AATAAAGTTAATAATTAAAATTTGAAAAATTAAATTTTAGTAATCAAAATATA
1 AATAAAATTAATAATTAAAATTTGAAAAATTAAAATTGAGTAATCAAAATATA
54149366 AATAAAATTAATAATTAAAATATT-ACAAAA-TAAAATTGAGTAATCAAAATATA
1 AATAAAATTAATAATTAAAAT-TTGA-AAAATTAAAATTGAGTAATCAAAATATA
54149419 A
1 A
54149420 TTTAGTAATA
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 43 0.88
54 6 0.12
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (53 bp):
AATAAAATTAATAATTAAAATTTGAAAAATTAAAATTGAGTAATCAAAATATA
Found at i:54149413 original size:19 final size:19
Alignment explanation
Indices: 54149391--54149428 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
54149381 TAAAATATTA
54149391 CAAAATAAAATTGAGTAAT
1 CAAAATAAAATTGAGTAAT
* *
54149410 CAAAATATAATTTAGTAAT
1 CAAAATAAAATTGAGTAAT
54149429 ATTGTGGTAG
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:0.55, C:0.05, G:0.08, T:0.32
Consensus pattern (19 bp):
CAAAATAAAATTGAGTAAT
Found at i:54149416 original size:29 final size:25
Alignment explanation
Indices: 54149349--54149417 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 25
54149339 AAATTAAATT
54149349 TTAGTAATCAAAATA-TAAATAAAA
1 TTAGTAATCAAAATATTAAATAAAA
* *
54149373 TTAATAATTAAAATATTACAAAATAAAA
1 TTAGTAATCAAAATATT---AAATAAAA
54149401 TTGAGTAATCAAAATAT
1 TT-AGTAATCAAAATAT
54149418 AATTTAGTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.36
25 1 0.03
28 10 0.28
29 12 0.33
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (25 bp):
TTAGTAATCAAAATATTAAATAAAA
Found at i:54156152 original size:31 final size:31
Alignment explanation
Indices: 54156069--54156161 Score: 98
Period size: 31 Copynumber: 3.0 Consensus size: 31
54156059 GGGAATTAGT
*
54156069 CATTCATATTTGCATATCCATACCTTGTAATA
1 CATTCATATTTGCATATTCATACCTTGTAA-A
* * * * *
54156101 -ATTCGTGTTTGCAAACTCATACCCTGTAAA
1 CATTCATATTTGCATATTCATACCTTGTAAA
* *
54156131 CATTCATATTTACATATTCATATCTTGTAAA
1 CATTCATATTTGCATATTCATACCTTGTAAA
54156162 GTCACATTCA
Statistics
Matches: 47, Mismatches: 13, Indels: 3
0.75 0.21 0.05
Matches are distributed among these distances:
30 1 0.02
31 46 0.98
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (31 bp):
CATTCATATTTGCATATTCATACCTTGTAAA
Found at i:54173529 original size:27 final size:27
Alignment explanation
Indices: 54173497--54173551 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
54173487 CCCATTTTTT
* *
54173497 AATAAACATTAAAAAAATTATTTTAAA
1 AATAAAAAATAAAAAAATTATTTTAAA
54173524 AATAAAAAATAAAAAAATTATTTTAAA
1 AATAAAAAATAAAAAAATTATTTTAAA
54173551 A
1 A
54173552 GTATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (27 bp):
AATAAAAAATAAAAAAATTATTTTAAA
Found at i:54177496 original size:40 final size:40
Alignment explanation
Indices: 54177391--54177506 Score: 151
Period size: 40 Copynumber: 2.9 Consensus size: 40
54177381 GCTTGGACAA
* * * * * *
54177391 AAAACGCCGCTAAAAATCGAGCATTAGCAGCACTTTATGG
1 AAAACGCCGCTAAAGATCAAACATTTGCGGCGCTTTATGG
* *
54177431 AAAACGCCGCTAAAGATCAAGCATTTGTGGCGCTTTATGG
1 AAAACGCCGCTAAAGATCAAACATTTGCGGCGCTTTATGG
*
54177471 AAAACGCTGCTAAAGATCAAACATTTGCGGCGCTTT
1 AAAACGCCGCTAAAGATCAAACATTTGCGGCGCTTT
54177507 TCGGAACACG
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.23
Consensus pattern (40 bp):
AAAACGCCGCTAAAGATCAAACATTTGCGGCGCTTTATGG
Found at i:54177649 original size:23 final size:22
Alignment explanation
Indices: 54177621--54177663 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
54177611 GGCGTTTTTG
*
54177621 AAAAAGCACCGCTAAAGGCCTAA
1 AAAAAG-ACCGCTAAAAGCCTAA
*
54177644 AAAAAGGCCGCTAAAAGCCT
1 AAAAAGACCGCTAAAAGCCT
54177664 GTTTTGGTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.47, C:0.26, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGACCGCTAAAAGCCTAA
Found at i:54180080 original size:25 final size:25
Alignment explanation
Indices: 54180051--54180100 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
54180041 ATCTTTTTAG
54180051 TGATTTTGAAATCAAACAAAATCAA
1 TGATTTTGAAATCAAACAAAATCAA
*
54180076 TGATTTTGAAGTCAAACAAAATCAA
1 TGATTTTGAAATCAAACAAAATCAA
54180101 AATAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (25 bp):
TGATTTTGAAATCAAACAAAATCAA
Found at i:54180778 original size:7 final size:7
Alignment explanation
Indices: 54180768--54180809 Score: 68
Period size: 7 Copynumber: 6.1 Consensus size: 7
54180758 AACAAAAACA
54180768 AAAATAT
1 AAAATAT
*
54180775 AAAAT-G
1 AAAATAT
54180781 AAAATAT
1 AAAATAT
54180788 AAAATAT
1 AAAATAT
54180795 AAAATAT
1 AAAATAT
54180802 AAAATAT
1 AAAATAT
54180809 A
1 A
54180810 TATAAGGAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (7 bp):
AAAATAT
Found at i:54180778 original size:13 final size:13
Alignment explanation
Indices: 54180750--54180805 Score: 60
Period size: 13 Copynumber: 4.3 Consensus size: 13
54180740 AAGATATGAG
*
54180750 AAAACAAAAACA-
1 AAAACAAAAATAT
54180762 AAAACAAAAATAT
1 AAAACAAAAATAT
**
54180775 AAAATGAAAATAT
1 AAAACAAAAATAT
*
54180788 AAAATATAAAATAT
1 AAAACA-AAAATAT
54180802 AAAA
1 AAAA
54180806 TATATATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.29
13 16 0.42
14 11 0.29
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAACAAAAATAT
Found at i:54180784 original size:14 final size:13
Alignment explanation
Indices: 54180762--54180807 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
54180752 AACAAAAACA
*
54180762 AAAACAAAAATAT
1 AAAATAAAAATAT
*
54180775 AAAATGAAAATAT
1 AAAATAAAAATAT
54180788 AAAATATAAAATAT
1 AAAATA-AAAATAT
54180802 AAAATA
1 AAAATA
54180808 TATATAAGGA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 16 0.55
14 13 0.45
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (13 bp):
AAAATAAAAATAT
Found at i:54182466 original size:21 final size:21
Alignment explanation
Indices: 54182442--54182504 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 21
54182432 AATAAAAAGG
54182442 ATAAATTTTAAAACGATGTTA
1 ATAAATTTTAAAACGATGTTA
* *
54182463 ATAAACTCT-AAAC-ATGTTA
1 ATAAATTTTAAAACGATGTTA
54182482 ATAATAATTTTAAATAACGATGT
1 AT-A-AATTTT-AA-AACGATGT
54182505 GTTGTACCTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 8 0.25
20 5 0.16
21 11 0.34
23 1 0.03
24 3 0.09
25 4 0.12
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.37
Consensus pattern (21 bp):
ATAAATTTTAAAACGATGTTA
Found at i:54183828 original size:25 final size:27
Alignment explanation
Indices: 54183799--54183867 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
54183789 AGGCCAGTTA
54183799 GGCTAAGG-T-ATTGGGCTTAG-GTTTG
1 GGCTAAGGTTAATTGGG-TTAGAGTTTG
*
54183824 GGCT-AGGTTAATTGGGTTAGATTTTG
1 GGCTAAGGTTAATTGGGTTAGAGTTTG
54183850 GGCT-AGGTTAATTGGGTT
1 GGCTAAGGTTAATTGGGTT
54183868 TGTAAAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
24 3 0.08
25 9 0.22
26 28 0.70
ACGTcount: A:0.17, C:0.06, G:0.38, T:0.39
Consensus pattern (27 bp):
GGCTAAGGTTAATTGGGTTAGAGTTTG
Found at i:54183838 original size:26 final size:26
Alignment explanation
Indices: 54183808--54183867 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
54183798 AGGCTAAGGT
54183808 ATTGGGCTTAG-GTTTGGGCTAGGTTA
1 ATTGGG-TTAGAGTTTGGGCTAGGTTA
*
54183834 ATTGGGTTAGATTTTGGGCTAGGTTA
1 ATTGGGTTAGAGTTTGGGCTAGGTTA
54183860 ATTGGGTT
1 ATTGGGTT
54183868 TGTAAAAGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 4 0.12
26 28 0.88
ACGTcount: A:0.17, C:0.05, G:0.37, T:0.42
Consensus pattern (26 bp):
ATTGGGTTAGAGTTTGGGCTAGGTTA
Found at i:54185684 original size:22 final size:23
Alignment explanation
Indices: 54185631--54185686 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
54185621 CCCATTTTTA
* * *
54185631 ATTAAAATTAAAATTATTTTTTT
1 ATTAAAATTAAAACTATATTGTT
*
54185654 AATAAAATTAAAACTA-ATTGTT
1 ATTAAAATTAAAACTATATTGTT
54185676 ATTAAAATTAA
1 ATTAAAATTAA
54185687 TTGTTAGTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTGTT
Found at i:54185699 original size:16 final size:16
Alignment explanation
Indices: 54185662--54185701 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
54185652 TTAATAAAAT
* *
54185662 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
54185678 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
54185694 TAAAATTA
1 TAAAATTA
54185702 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:54185807 original size:9 final size:9
Alignment explanation
Indices: 54185774--54185801 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
54185764 TTTATCAAAT
54185774 TATTAATTG
1 TATTAATTG
54185783 TATTAATTG
1 TATTAATTG
54185792 TATTAATTG
1 TATTAATTG
54185801 T
1 T
54185802 TGTAATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:54185814 original size:68 final size:68
Alignment explanation
Indices: 54185690--54185899 Score: 379
Period size: 68 Copynumber: 3.1 Consensus size: 68
54185680 AAATTAATTG
* *
54185690 TTAGTAAAATTATCAAATTATTAATTG--TTCATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
54185753 TGA
66 TGA
54185756 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
54185821 TGA
66 TGA
*
54185824 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
54185889 TGA
66 TGA
54185892 TTAGTAAA
1 TTAGTAAA
54185900 ACAAACTTGA
Statistics
Matches: 139, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
66 26 0.19
68 113 0.81
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (68 bp):
TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAATAAAATCTAACATT
TGA
Found at i:54185854 original size:9 final size:9
Alignment explanation
Indices: 54185842--54185869 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
54185832 TTTATCAAAT
54185842 TATTAATTG
1 TATTAATTG
54185851 TATTAATTG
1 TATTAATTG
54185860 TATTAATTG
1 TATTAATTG
54185869 T
1 T
54185870 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:54187710 original size:37 final size:37
Alignment explanation
Indices: 54187668--54187861 Score: 253
Period size: 37 Copynumber: 5.0 Consensus size: 37
54187658 TAGTTTTAGC
54187668 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
**
54187705 TACACTTATCTGATCAAGAAACAAAGTGATAAGTGGT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
* *
54187742 TACACTTATCTGATCAAGAGACAAAGTGATAAGTGGC
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
*
54187779 TACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTT
1 TACACTTATCTGATCAAGTGACAAAGTGATAAGT-G--G---T
*
54187822 AGCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGT
1 ---TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
54187862 AGCCTAGCTA
Statistics
Matches: 139, Mismatches: 9, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
37 102 0.73
38 1 0.01
40 2 0.01
43 1 0.01
45 1 0.01
46 32 0.23
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (37 bp):
TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGT
Found at i:54187757 original size:74 final size:78
Alignment explanation
Indices: 54187630--54187861 Score: 274
Period size: 74 Copynumber: 2.9 Consensus size: 78
54187620 TTTGAGTACT
**
54187630 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGACAAAGT
1 TCTGATCAAGAAACAAAGTGATAAGTGG-AG--TTA--TACACTTATCTGATCAAGTGACAAAGT
54187695 GATAAGTGGTTACACTTA
61 GATAAGTGGTTACACTTA
*
54187713 TCTGATCAAGAAACAAAGTGATAAGT-G-G-T-TACACTTATCTGATCAAGAGACAAAGTGATAA
1 TCTGATCAAGAAACAAAGTGATAAGTGGAGTTATACACTTATCTGATCAAGTGACAAAGTGATAA
*
54187774 GTGGCTACACTTA
66 GTGGTTACACTTA
** * *
54187787 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGGCAAAGT
1 TCTGATCAAGAAACAAAGTGATAAGTGG-AG--TTA--TACACTTATCTGATCAAGTGACAAAGT
54187852 GATAAGTGGT
61 GATAAGTGGT
54187862 AGCCTAGCTA
Statistics
Matches: 130, Mismatches: 10, Indels: 18
0.82 0.06 0.11
Matches are distributed among these distances:
74 66 0.51
75 1 0.01
77 2 0.02
80 2 0.02
82 1 0.01
83 58 0.45
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.29
Consensus pattern (78 bp):
TCTGATCAAGAAACAAAGTGATAAGTGGAGTTATACACTTATCTGATCAAGTGACAAAGTGATAA
GTGGTTACACTTA
Found at i:54187886 original size:45 final size:46
Alignment explanation
Indices: 54187777--54187900 Score: 191
Period size: 46 Copynumber: 2.8 Consensus size: 46
54187767 GTGATAAGTG
* *
54187777 GCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
54187823 GCTACACTTATCTGATCAAGTGGCAAAGTGATAAGTGGTAGC-CTA
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
*
54187868 GCTACACTTATCTAATCAAG-GAC-AAGTGATAAG
1 GCTACACTTATCTGATCAAGTGACAAAGTGATAAG
54187901 AGGTCATATG
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
43 10 0.14
44 2 0.03
45 21 0.29
46 40 0.55
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (46 bp):
GCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTA
Found at i:54190027 original size:29 final size:29
Alignment explanation
Indices: 54189979--54190035 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
54189969 CCGAAATAAA
* * *
54189979 TTAATTTTTCTATTACT-AAATAAATTAAT
1 TTAATTTTTATAGTAATAAAAT-AATTAAT
54190008 TTAATTTTTATAGTAATAAAATAATTAA
1 TTAATTTTTATAGTAATAAAATAATTAA
54190036 ATAAATTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (29 bp):
TTAATTTTTATAGTAATAAAATAATTAAT
Found at i:54206705 original size:35 final size:35
Alignment explanation
Indices: 54206631--54206705 Score: 80
Period size: 35 Copynumber: 2.1 Consensus size: 35
54206621 TGAAAATTTT
* * * *
54206631 TCATATATTTAGAGGATCCTATTCCTAAATATGTT
1 TCATATATTTAGAGGATCCAATACCCAAATATGTA
* *
54206666 TCATATATTTAGAGGATTCAATACCCAGAT-TGATA
1 TCATATATTTAGAGGATCCAATACCCAAATATG-TA
54206701 TCATA
1 TCATA
54206706 CTTGAGACTC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.39
Consensus pattern (35 bp):
TCATATATTTAGAGGATCCAATACCCAAATATGTA
Found at i:54208123 original size:24 final size:24
Alignment explanation
Indices: 54208086--54208142 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
54208076 CTGTTGTTGA
*
54208086 AGTTTTCAATTGAAAATGGTTTCTGT
1 AGTTTTC--TTGAAAATGGTTTCTAT
*
54208112 ATTTTTCTTGAAAATGGTTTCTAT
1 AGTTTTCTTGAAAATGGTTTCTAT
54208136 AGTTTTC
1 AGTTTTC
54208143 AATTTGTGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 22 0.79
26 6 0.21
ACGTcount: A:0.25, C:0.09, G:0.16, T:0.51
Consensus pattern (24 bp):
AGTTTTCTTGAAAATGGTTTCTAT
Found at i:54209209 original size:67 final size:66
Alignment explanation
Indices: 54209101--54209232 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 66
54209091 CAAAAGGTTT
* *
54209101 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTCTGAGTATAATTTGAACCTAAAT
1 TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
54209166 G
66 G
*
54209167 TGGTAGTGTTGGCATTGGCATTAGTAAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAA
1 TGGTAGTGTTGGCATTGGCATTAAT-AAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAA
54209232 T
65 T
54209233 CACATTTGAG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
66 24 0.39
67 38 0.61
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.36
Consensus pattern (66 bp):
TGGTAGTGTTGGCATTGGCATTAATAAAAGTTTGAGCTTACTATGAGTATAATTTGAACCCAAAT
G
Found at i:54209260 original size:24 final size:24
Alignment explanation
Indices: 54209228--54209273 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
54209218 AATTTGAACC
54209228 CAAATCACATTTGAGGTGATAACT
1 CAAATCACATTTGAGGTGATAACT
54209252 CAAATCACATTTGAGGTGATAA
1 CAAATCACATTTGAGGTGATAA
54209274 ATACTTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.28
Consensus pattern (24 bp):
CAAATCACATTTGAGGTGATAACT
Found at i:54209542 original size:17 final size:17
Alignment explanation
Indices: 54209522--54209555 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
54209512 TATATTAAGA
54209522 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
54209539 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
54209556 TTAATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:54209660 original size:29 final size:28
Alignment explanation
Indices: 54209627--54209692 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 28
54209617 ATATAAGAAG
54209627 ATTTAATATTAAGAATT-TTATTAAATTAT
1 ATTT-ATATTAAGAATTATT-TTAAATTAT
*
54209656 ATTTA-A-TAATAATTATTTTAAATTAT
1 ATTTATATTAAGAATTATTTTAAATTAT
54209682 ATTTTATATTA
1 A-TTTATATTA
54209693 TTATATATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
26 17 0.53
27 7 0.22
28 2 0.06
29 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
ATTTATATTAAGAATTATTTTAAATTAT
Found at i:54209662 original size:102 final size:102
Alignment explanation
Indices: 54209539--54209758 Score: 406
Period size: 102 Copynumber: 2.2 Consensus size: 102
54209529 TAAATTATAT
54209539 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
1 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
54209604 TTTTAGTAAATTCATATAAGAAGATTTAATATTAAGA
66 TTTTAGTAAATTCATATAAGAAGATTTAATATTAAGA
*
54209641 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATATTATTATATATTATGA
1 ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
* *
54209706 TTTTAGTTAATTCATATAAGAATATTTAATATTAAGA
66 TTTTAGTAAATTCATATAAGAAGATTTAATATTAAGA
54209743 ATTTTA-TAAATTATAT
1 ATTTTATTAAATTATAT
54209759 ATTTTTATTA
Statistics
Matches: 115, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
101 10 0.09
102 105 0.91
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.52
Consensus pattern (102 bp):
ATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATTATGA
TTTTAGTAAATTCATATAAGAAGATTTAATATTAAGA
Found at i:54209700 original size:119 final size:120
Alignment explanation
Indices: 54209620--54209916 Score: 406
Period size: 119 Copynumber: 2.5 Consensus size: 120
54209610 TAAATTCATA
54209620 TAAGAAGATTTA-ATATTAAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATAT
1 TAAGAA-ATTTATATATTAAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATAT
54209684 TTTATATTATTATATA--TTATGATTTTAGTTAATTCATATAAGAATATTTAATAT
65 TTTATATTATTATATATTTTATGATTTTAGTTAATTCATATAAGAATATTTAATAT
* * * * *
54209738 TAAGAATTTTATAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAATTATAT
1 TAAGAAATTTATATATTA-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATAT
* * *
54209803 TTAATAGTATTATATA--TTATGATTTTAGTAAATTCATATAAGAATATTTAATAT
65 TTTATATTATTATATATTTTATGATTTTAGTTAATTCATATAAGAATATTTAATAT
* * * * *
54209857 TAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TAAGAAATTTA-TATATTA-AGAATTTTATTAAATTATATTTAATAATAATTATTTTAAA
54209917 ATATGATTAA
Statistics
Matches: 168, Mismatches: 8, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
117 4 0.02
118 11 0.07
119 105 0.62
120 48 0.29
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.51
Consensus pattern (120 bp):
TAAGAAATTTATATATTAAGAATTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATT
TTATATTATTATATATTTTATGATTTTAGTTAATTCATATAAGAATATTTAATAT
Found at i:54210139 original size:45 final size:44
Alignment explanation
Indices: 54210060--54210147 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
54210050 ACATCATTCT
*
54210060 ATTCAACCAAACACAAGAATACTATTACGCCTCTATTCTATTAC
1 ATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTAC
* * *
54210104 ATTCAACCAAACA-ATTGAATTGCTATTACGTCTCTATTCCATTA
1 ATTCAACCAAACACA-AGAA-TACTATTACGCCTCTATTCCATTA
54210148 TAGCGAACCA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 1 0.03
44 16 0.42
45 21 0.55
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (44 bp):
ATTCAACCAAACACAAGAATACTATTACGCCTCTATTCCATTAC
Found at i:54216110 original size:36 final size:36
Alignment explanation
Indices: 54216065--54216133 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
54216055 TTAGTTTGAG
* *
54216065 TGCTCGAGTAATTTGGTTGAGGATTTAGAGTTCTTT
1 TGCTCGAGTAAGTAGGTTGAGGATTTAGAGTTCTTT
* * *
54216101 TGCTTGAGTAAGTAGGTTGAGGCTTTAGGGTTC
1 TGCTCGAGTAAGTAGGTTGAGGATTTAGAGTTC
54216134 CTTCAAAATA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.19, C:0.09, G:0.32, T:0.41
Consensus pattern (36 bp):
TGCTCGAGTAAGTAGGTTGAGGATTTAGAGTTCTTT
Found at i:54220541 original size:20 final size:20
Alignment explanation
Indices: 54220507--54220562 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
54220497 GGTTTCTTCA
*
54220507 ATAAGAATTACAAAAAAATT
1 ATAAAAATTACAAAAAAATT
*
54220527 CA-AAAAATTATAAAAAAATT
1 -ATAAAAATTACAAAAAAATT
*
54220547 ATAAAAATTTCAAAAA
1 ATAAAAATTACAAAAA
54220563 TTCTAAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.25
Consensus pattern (20 bp):
ATAAAAATTACAAAAAAATT
Found at i:54222842 original size:21 final size:20
Alignment explanation
Indices: 54222784--54222844 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
54222774 TTTAGACATG
*
54222784 ACAATGTATAAAGAAAAATTT
1 ACAAT-TATAAAGAAATATTT
*
54222805 ATAATTAAATAAA-AAATATTT
1 ACAATT--ATAAAGAAATATTT
54222826 ACAAGTTATAAAGAAATAT
1 ACAA-TTATAAAGAAATAT
54222845 ATAAATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 6 0.18
21 20 0.61
22 7 0.21
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (20 bp):
ACAATTATAAAGAAATATTT
Found at i:54223126 original size:3 final size:3
Alignment explanation
Indices: 54223111--54223167 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
54223101 GATATCGACG
*
54223111 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
54223159 ATA A-A ATA A
1 ATA ATA ATA A
54223168 AACACAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:54226849 original size:12 final size:12
Alignment explanation
Indices: 54226838--54226884 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
54226828 TTTAGCTTAT
54226838 TTAGT-TTATTA
1 TTAGTATTATTA
*
54226849 TTATTATTATTA
1 TTAGTATTATTA
*
54226861 TTAGTGTTATTA
1 TTAGTATTATTA
* *
54226873 TCATTATTATTA
1 TTAGTATTATTA
54226885 CTATTATTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 4 0.14
12 25 0.86
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (12 bp):
TTAGTATTATTA
Found at i:54226851 original size:3 final size:3
Alignment explanation
Indices: 54226843--54226903 Score: 68
Period size: 3 Copynumber: 20.0 Consensus size: 3
54226833 CTTATTTAGT
* * * *
54226843 TTA TTA TTA TTA TTA TTA TTA GTG TTA TTA TCA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
54226891 TTAA CTA TTA TTA
1 TT-A TTA TTA TTA
54226904 ATTTTATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
3 45 0.96
4 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:54227709 original size:108 final size:110
Alignment explanation
Indices: 54227513--54227735 Score: 326
Period size: 108 Copynumber: 2.0 Consensus size: 110
54227503 TTTCTAATTG
*
54227513 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
54227578 TCGTTCAACAAAATAGTTAAATATCCTTTTAAAA-TTTTAAAATA
66 TCATTCAACAAAATAGTTAAATATCCTTTTAAAACTTTTAAAATA
* * * *
54227622 AGGCAATGTTTTGCGTTT-GGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTC
1 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * * *
54227686 TCATTCAACCAAATGGCTT-AATATCCTTTTAAAACTTTTCACATA
66 TCATTCAACAAAATAG-TTAAATATCCTTTTAAAACTTTTAAAATA
54227731 AGGCA
1 AGGCA
54227736 CCTGGGTGTC
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
108 71 0.70
109 31 0.30
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (110 bp):
AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCATTCAACAAAATAGTTAAATATCCTTTTAAAACTTTTAAAATA
Found at i:54227891 original size:180 final size:176
Alignment explanation
Indices: 54227561--54227892 Score: 488
Period size: 180 Copynumber: 1.9 Consensus size: 176
54227551 CCCTAAGGTG
*
54227561 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGTTAAATATCCTTTTAAAATTTTAAAATAAGGC
1 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTAAATATCCTTTTAAAATTTTAAAATAAGGC
* *
54227626 AATGTTTTGCGTTTGGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTCTCATT
66 AATGTTTTGCATTTGGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTATCATT
* **
54227691 CAACCAAATGGCTTAATATCCTTTTAAAACTTTTCACATAAGGCAC
131 CAACCAAATAGCCAAATATCCTTTTAAAACTTTTCACATAAGGCAC
* * *
54227737 CTGGGTGTCGA-TTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTTTCGAAATA
1 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTAAATATCCTTTT-AAAA--TTTT-AAAATA
* *
54227801 AGGCAATGTTTTGTATTTGGGAAATTCGA-GAGAACGTGCCCTAAGGTGTTGGGTGTCGATTTTT
62 AGGCAATGTTTTGCATTT-GGAAATTCGAGGA-AACATGCCCTAAGGTGTTGGGTGTCGATTTTT
*
54227865 ATCATTTAACCAAATAGCCAAATATCCT
125 ATCATTCAACCAAATAGCCAAATATCCT
54227893 CTTGAATTTC
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
175 32 0.23
176 15 0.11
178 4 0.03
179 23 0.17
180 64 0.46
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (176 bp):
CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTAAATATCCTTTTAAAATTTTAAAATAAGGC
AATGTTTTGCATTTGGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTATCATT
CAACCAAATAGCCAAATATCCTTTTAAAACTTTTCACATAAGGCAC
Found at i:54239459 original size:44 final size:44
Alignment explanation
Indices: 54239349--54239824 Score: 319
Period size: 44 Copynumber: 10.8 Consensus size: 44
54239339 ATTATACAGG
* ** * *
54239349 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---GAGA
*
54239395 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGAGA
* * * *
54239439 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG-AGA
* * * * *** *
54239483 TCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATTAAGGGA
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAAGCCAGAGA
* ** * * * *
54239528 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCGCA-TCAG-G-
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGCCAGAGA
* * ** * *
54239569 TCTTATCACCCTGAG-TTACAGTGGAGTAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---GAGA
* *
54239614 TCTTGTCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGAGA
* ** * *
54239658 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAG-AATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCA---GAGA
*
54239704 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGAGA
* * * *
54239748 TCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAG-AGA
* * *
54239792 TCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT
54239825 AAAATTAAGG
Statistics
Matches: 344, Mismatches: 66, Indels: 42
0.76 0.15 0.09
Matches are distributed among these distances:
40 17 0.05
41 12 0.03
42 1 0.00
43 6 0.02
44 171 0.50
45 47 0.14
46 87 0.25
47 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGCCAGAGA
Found at i:54239687 original size:90 final size:90
Alignment explanation
Indices: 54239569--54239778 Score: 377
Period size: 90 Copynumber: 2.3 Consensus size: 90
54239559 TCGCATCAGG
* *
54239569 TCTTATCACCCTGAG-TTACAGTGGAGTAGACCGAAGAATTTCAGATCTTGTCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
54239633 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTGAAGCCAGAGA
54239658 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
54239723 CAGTGGAGCAGATTGAAGCCAGAGA
66 CAGTGGAGCAGATTGAAGCCAGAGA
* *
54239748 TCTTATCTCTCTGAGATTACAGCGGAGTAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGTAGA
54239779 TTGAAGCTAG
Statistics
Matches: 116, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
89 14 0.12
90 102 0.88
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (90 bp):
TCTTATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTA
CAGTGGAGCAGATTGAAGCCAGAGA
Found at i:54239857 original size:89 final size:87
Alignment explanation
Indices: 54239619--54240078 Score: 339
Period size: 90 Copynumber: 5.3 Consensus size: 87
54239609 TCAGATCTTG
* * * *** * * *
54239619 TCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCCCTGAGATTACAGTGG
1 TCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAGATTACAGCGG
* *
54239683 AGTAGACCGAAGAATTTCAG-ATCTTA
66 AGTAGATCGAAG-----CAGTATCCTA
* * * *** *
54239709 TCTCCCTGAGGTTACAGTGGAGCAGATT-GAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGG
1 TCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAGATTACAGCGG
*
54239773 AGTAGATTGAAGCTAGTAATCCTA
66 AGTAGATCGAAGC-AGT-ATCCTA
* *
54239797 TCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGA-AGTTACAGCA
1 TCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAGA-TTACAGCG
* *
54239861 GAGTAGATCGCATCAGGTAT--TA
65 GAGTAGATCGAAGCA-GTATCCTA
* * ** ** * * *
54239883 TCACCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTCA--GATCTTGTCTCCCTGAGATTACAG
1 TCTCCCTGAAGTTACAGTGGAGCGGA--TTAAAA-TTAAGGGATCTTATCTCTCTGAGATTACAG
*
54239946 CGGAGTAGATCGAAGACACTATCCTA
63 CGGAGTAGATCGAAG-CAGTATCCTA
* * * * *
54239972 TCTCCCCG-AGTTTACAGTGGGGCGGATTAAAA-TAAGGGATCTCATCTCTCTGAGGTTACATCG
1 TCTCCCTGAAG-TTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAGATTACAGCG
* * *
54240035 GAGTAGATCGCATCAG-GTCCTA
65 GAGTAGATCGAAGCAGTATCCTA
*
54240057 TCTCCCTGAAGTCACAGTGGAG
1 TCTCCCTGAAGTTACAGTGGAG
54240079 TAGACCAAAG
Statistics
Matches: 301, Mismatches: 52, Indels: 39
0.77 0.13 0.10
Matches are distributed among these distances:
85 24 0.08
86 29 0.10
87 71 0.24
88 42 0.14
89 63 0.21
90 72 0.24
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.27
Consensus pattern (87 bp):
TCTCCCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAGATTACAGCGG
AGTAGATCGAAGCAGTATCCTA
Found at i:54239976 original size:309 final size:309
Alignment explanation
Indices: 54239352--54239991 Score: 1156
Period size: 309 Copynumber: 2.1 Consensus size: 309
54239342 ATACAGGTCT
54239352 TATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
1 TATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
54239417 TGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
66 TGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
54239482 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAAGTTA
131 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAAGTTA
* *
54239547 CAGCAGAGTAGATCGCATCAGGTCTTATCACCCTGAGTTACAGTGGAGTAGACCGAAGAATTTCA
196 CAGCAGAGTAGATCGCATCAGGTATTATCACCCTGAGTTACAGTGGAGTAGACCGAAAAATTTCA
* * * * *
54239612 GATCTTGTCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGATCT
261 GATCTTGTCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCC
54239661 TATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
1 TATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
54239726 TGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
66 TGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
54239791 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAAGTTA
131 ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAAGTTA
54239856 CAGCAGAGTAGATCGCATCAGGTATTATCACCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTC
196 CAGCAGAGTAGATCGCATCAGGTATTATCACCCTGA-GTTACAGTGGAGTAGACCGAAAAATTTC
* **
54239921 AGATCTTGTCTCCCTGAGATTACAGCGGAGTAGATCGAAGACA-CTATCC
260 AGATCTTGTCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCC
* *
54239970 TATCTCCCCGAGTTTACAGTGG
1 TATCTCCCTGAGATTACAGTGG
54239992 GGCGGATTAA
Statistics
Matches: 318, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
309 253 0.80
310 65 0.20
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (309 bp):
TATCTCCCTGAGATTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAG
TGGAGCAGATTGAAGCCAGAGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTA
ATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAAGTTA
CAGCAGAGTAGATCGCATCAGGTATTATCACCCTGAGTTACAGTGGAGTAGACCGAAAAATTTCA
GATCTTGTCTCCCTGAGATTACAGCGGAGCAGATCGAAGACAGAGATCC
Found at i:54240021 original size:174 final size:176
Alignment explanation
Indices: 54239745--54240084 Score: 490
Period size: 174 Copynumber: 1.9 Consensus size: 176
54239735 TTGAAGCCAG
* * * * *
54239745 AGATCTTATCTCTCTGAGATTACAGCGGAGTAGATTGAAGCTAGTAATCCTATCTCTCTGAAGTT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGCTACTAATCCTATCTCCCCGAAGTT
*
54239810 ACAGTGGAGCGGATTAAAATTAAGGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
66 ACAGTGGAGCGGATTAAAATTAAGGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
* * *
54239875 AGGTATTATCACCCTGAGGTTACAGTGGAGTAGACCGAAAAATTTC
131 AGGTACTATCACCCTGAAGTCACAGTGGAGTAGACCGAAAAATTTC
*
54239921 AGATCTTGTCTCCCTGAGATTACAGCGGAGTAGATCGAAGAC-ACT-ATCCTATCTCCCCG-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAG-CTACTAATCCTATCTCCCCGAAG-
* * * *
54239983 TTACAGTGGGGCGGATTAAAA-TAAGGGATCTCATCTCTCTGAGGTTACATCGGAGTAGATCGCA
64 TTACAGTGGAGCGGATTAAAATTAAGGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCA
* *
54240047 TCAGGTCCTATCTCCCTGAAGTCACAGTGGAGTAGACC
129 TCAGGTACTATCACCCTGAAGTCACAGTGGAGTAGACC
54240085 AAAGATACAA
Statistics
Matches: 146, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
174 74 0.51
175 32 0.22
176 39 0.27
177 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (176 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGCTACTAATCCTATCTCCCCGAAGTT
ACAGTGGAGCGGATTAAAATTAAGGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATC
AGGTACTATCACCCTGAAGTCACAGTGGAGTAGACCGAAAAATTTC
Found at i:54240541 original size:20 final size:20
Alignment explanation
Indices: 54240516--54240560 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
54240506 CCCGAACAGC
*
54240516 CCAATACTCTTCAGCCCAAA
1 CCAATACCCTTCAGCCCAAA
54240536 CCAATACCCTTCAGCCCAAA
1 CCAATACCCTTCAGCCCAAA
54240556 CCAAT
1 CCAAT
54240561 GCCCAAGCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.42, G:0.04, T:0.18
Consensus pattern (20 bp):
CCAATACCCTTCAGCCCAAA
Found at i:54241685 original size:3 final size:3
Alignment explanation
Indices: 54241677--54241708 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
54241667 GAATTAGTCC
*
54241677 TAT TAT TAT TAT TAT TAC TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
54241709 CCTATTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:54241698 original size:15 final size:16
Alignment explanation
Indices: 54241680--54241714 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
54241670 TTAGTCCTAT
54241680 TATTATTATTATTA-C
1 TATTATTATTATTACC
54241695 TATTATTATTATTACC
1 TATTATTATTATTACC
54241711 TATT
1 TATT
54241715 TATTTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (16 bp):
TATTATTATTATTACC
Found at i:54242191 original size:22 final size:23
Alignment explanation
Indices: 54242138--54242191 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
54242128 AAATATACTT
*
54242138 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
54242161 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
54242183 TATATATAT
1 TATATATAT
54242192 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:54255691 original size:12 final size:11
Alignment explanation
Indices: 54255660--54255702 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
54255650 CTTCAATAAG
*
54255660 AATTACAAAAA
1 AATTATAAAAA
*
54255671 AATT-CAAAAA
1 AATTATAAAAA
*
54255681 ATTTATAAAAA
1 AATTATAAAAA
54255692 AATTATAAAAA
1 AATTATAAAAA
54255703 TTTTCAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (11 bp):
AATTATAAAAA
Found at i:54255711 original size:21 final size:22
Alignment explanation
Indices: 54255665--54255712 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
54255655 ATAAGAATTA
54255665 CAAAAAAATTCAAAAAATTTAT
1 CAAAAAAATTCAAAAAATTTAT
54255687 -AAAAAAATT-ATAAAAATTT-T
1 CAAAAAAATTCA-AAAAATTTAT
54255707 CAAAAA
1 CAAAAA
54255713 TTCTAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (22 bp):
CAAAAAAATTCAAAAAATTTAT
Found at i:54257988 original size:21 final size:20
Alignment explanation
Indices: 54257930--54257990 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
54257920 TTTAGACATG
*
54257930 ACAATGTATAAAGAAAAATTT
1 ACAAT-TATAAAGAAATATTT
*
54257951 ATAATTAAATAAA-AAATATTT
1 ACAATT--ATAAAGAAATATTT
54257972 ACAAGTTATAAAGAAATAT
1 ACAA-TTATAAAGAAATAT
54257991 ATAAAATAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 6 0.18
21 20 0.61
22 7 0.21
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (20 bp):
ACAATTATAAAGAAATATTT
Found at i:54258273 original size:3 final size:3
Alignment explanation
Indices: 54258258--54258317 Score: 104
Period size: 3 Copynumber: 20.3 Consensus size: 3
54258248 GATATCGACG
*
54258258 ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
54258306 ATA ATA A-A ATA A
1 ATA ATA ATA ATA A
54258318 AACACAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
2 2 0.04
3 52 0.96
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:54261612 original size:13 final size:13
Alignment explanation
Indices: 54261594--54261621 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
54261584 CTTTTGAGTT
54261594 AAAACAAAAAATA
1 AAAACAAAAAATA
54261607 AAAACAAAAAATA
1 AAAACAAAAAATA
54261620 AA
1 AA
54261622 GAACTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.86, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACAAAAAATA
Found at i:54262006 original size:12 final size:12
Alignment explanation
Indices: 54261995--54262041 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
54261985 TTTAGCTTAT
54261995 TTAGT-TTATTA
1 TTAGTATTATTA
*
54262006 TTATTATTATTA
1 TTAGTATTATTA
*
54262018 TTAGTGTTATTA
1 TTAGTATTATTA
* *
54262030 TCATTATTATTA
1 TTAGTATTATTA
54262042 CTTATTAACT
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 4 0.14
12 25 0.86
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (12 bp):
TTAGTATTATTA
Found at i:54262008 original size:3 final size:3
Alignment explanation
Indices: 54262000--54262058 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
54261990 CTTATTTAGT
* * *
54262000 TTA TTA TTA TTA TTA TTA TTA GTG TTA TTA TCA TTA TTA TTA CTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
54262046 TTAA CTA TTA TTA
1 TT-A TTA TTA TTA
54262059 ATTTTATTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
3 41 0.89
4 5 0.11
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:54262865 original size:108 final size:110
Alignment explanation
Indices: 54262669--54262891 Score: 326
Period size: 108 Copynumber: 2.0 Consensus size: 110
54262659 TTTCTAATTG
*
54262669 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
*
54262734 TCGTTCAACAAAATAGTTAAATATCCTTTTAAAA-TTTTAAAATA
66 TCATTCAACAAAATAGTTAAATATCCTTTTAAAACTTTTAAAATA
* * * *
54262778 AGGCAATGTTTTGCGTTT-GGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTC
1 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * * *
54262842 TCATTCAACCAAATGGCTT-AATATCCTTTTAAAACTTTTCACATA
66 TCATTCAACAAAATAG-TTAAATATCCTTTTAAAACTTTTAAAATA
54262887 AGGCA
1 AGGCA
54262892 CCTGGGTGTC
Statistics
Matches: 102, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
108 71 0.70
109 31 0.30
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (110 bp):
AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCATTCAACAAAATAGTTAAATATCCTTTTAAAACTTTTAAAATA
Found at i:54263048 original size:181 final size:176
Alignment explanation
Indices: 54262717--54263049 Score: 497
Period size: 181 Copynumber: 1.9 Consensus size: 176
54262707 CCCTAAGGTG
*
54262717 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGTTAAATATCCTTTTAAAATTTTAAAATAAGGC
1 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTAAATATCCTTTTAAAATTTTAAAATAAGGC
* *
54262782 AATGTTTTGCGTTTGGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTCTCATT
66 AATGTTTTGCATTTGGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTATCATT
* **
54262847 CAACCAAATGGCTTAATATCCTTTTAAAACTTTTCACATAAGGCAC
131 CAACCAAATAGCCAAATATCCTTTTAAAACTTTTCACATAAGGCAC
* * *
54262893 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTAAAAATTTTTTCGAAATA
1 CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTAAATATCCTTTT-AAAA--TTTT-AAAATA
* *
54262958 AGGCAATGTTTTGTATTTGGGAAATTCGA-GAGAACGTGCCCTAAGGTGTTGGGTGTCGATTTTT
62 AGGCAATGTTTTGCATTT-GGAAATTCGAGGA-AACATGCCCTAAGGTGTTGGGTGTCGATTTTT
*
54263022 ATCATTTAACCAAATAGCCAAATATCCT
125 ATCATTCAACCAAATAGCCAAATATCCT
54263050 CTTGAATTTC
Statistics
Matches: 139, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
176 44 0.32
177 4 0.03
179 4 0.03
180 23 0.17
181 64 0.46
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (176 bp):
CTGGGTGTCGATTTTTCTCGTTCAACAAAATAGCTAAATATCCTTTTAAAATTTTAAAATAAGGC
AATGTTTTGCATTTGGAAATTCGAGGAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTATCATT
CAACCAAATAGCCAAATATCCTTTTAAAACTTTTCACATAAGGCAC
Found at i:54274851 original size:46 final size:45
Alignment explanation
Indices: 54274799--54275183 Score: 187
Period size: 46 Copynumber: 8.7 Consensus size: 45
54274789 TCGCATCAGG
* *
54274799 TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAAA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAA-TTCAAA
* * *
54274845 TCTTATCT-CCTCG-AGATTACAGCGGAGCAGATCGAAG-A--CACTA
1 TCTTATCTCCCT-GAAG-TTACAGTGGAGCAGACCGAAGAATTCA-AA
* * ** *
54274888 TCCTATCTCCCTGAAGTTACAGTGGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCAA--A
* * * * * **
54274932 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATC---GTA-TCAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCAAA
* * * *
54274973 TCTTATCTCCCTGAGGTTACACTGGAGTAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAA-TTCAAA
* * * * *
54275019 TCTTATCTCCCCG-AGATTATAGCGGAGCAGATCGAAG-A--CACTA
1 TCTTATCTCCCTGAAG-TTACAGTGGAGCAGACCGAAGAATTCA-AA
* * * * ** *
54275062 TCCTATCTCCCTGAAGTTATAGTAGAGCGGA-TTAA-AA-TAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCAA--A
* * ** *
54275106 TCTTATCTCTCTGAAGTTACAGTGGAGTAGACCGATCAATTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAA-TTCAAA
54275152 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGAC
54275184 TAAGACCACA
Statistics
Matches: 253, Mismatches: 59, Indels: 54
0.69 0.16 0.15
Matches are distributed among these distances:
41 28 0.11
42 10 0.04
43 51 0.20
44 62 0.25
45 8 0.03
46 92 0.36
48 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGACCGAAGAATTCAAA
Found at i:54274937 original size:87 final size:87
Alignment explanation
Indices: 54274844--54275114 Score: 282
Period size: 87 Copynumber: 3.1 Consensus size: 87
54274834 AGAATTTCAA
54274844 ATCTTATCTCCTCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACA
1 ATCTTATCTCCTCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACA
54274909 GTGGAGCGGATTAAAATAAAGG
66 GTGGAGCGGATTAAAATAAAGG
** * * * ** * *
54274931 ATCTTATCT-CTCTGA-AGTTACAGTAGAGTAGATCGTA-TCA-GGTCTTATCTCCCTGAGGTTA
1 ATCTTATCTCCTC-GAGA-TTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTA
* ** ** **
54274992 CACTGGAGTAGACCGAAGAATTTCA-G
64 CAGTGGAGCGGA-TTAA-AA-TAAAGG
* * *
54275018 ATCTTATCTCCCCGAGATTATAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTATA
1 ATCTTATCTCCTCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACA
*
54275083 GTAGAGCGGATTAAAATAAAGG
66 GTGGAGCGGATTAAAATAAAGG
54275105 ATCTTATCTC
1 ATCTTATCTC
54275115 TCTGAAGTTA
Statistics
Matches: 138, Mismatches: 36, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
85 26 0.19
86 10 0.07
87 69 0.50
88 9 0.07
89 24 0.17
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.28
Consensus pattern (87 bp):
ATCTTATCTCCTCGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGAAGTTACA
GTGGAGCGGATTAAAATAAAGG
Found at i:54275045 original size:174 final size:174
Alignment explanation
Indices: 54274753--54275183 Score: 700
Period size: 174 Copynumber: 2.4 Consensus size: 174
54274743 AGTGAATATT
* *
54274753 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTATATCGCATCAGGTCTTATCTCCCTGAGGTTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGTTA
*
54274818 CAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCTCGAGATTACAGCGGAGCAGATCGAAGA
66 CAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGA
*
54274883 CACTATCCTATCTCCCTGAAGTTACAGTGGAGCGGATTAAAATA
131 CACTATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAATA
54274927 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGTTA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGTTA
* * *
54274992 CACTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCCGAGATTATAGCGGAGCAGATCGAAGA
66 CAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGA
*
54275057 CACTATCCTATCTCCCTGAAGTTATAGTAGAGCGGATTAAAATA
131 CACTATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAATA
* * *
54275101 AAGGATCTTATCTCTCTGAAGTTACAGTGGAGTAGACCGATCAATTTCAGATCTTATCTCCCTGA
1 AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG-T--A--TCAGGTCTTATCTCCCTGA
* *
54275166 AGTTACAGTGGAGCAGAC
61 GGTTACAGTGGAGTAGAC
54275184 TAAGACCACA
Statistics
Matches: 238, Mismatches: 14, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
174 203 0.85
175 1 0.00
177 1 0.00
179 33 0.14
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (174 bp):
AAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGTTA
CAGTGGAGTAGACCGAAGAATTTCAAATCTTATCTCCCCGAGATTACAGCGGAGCAGATCGAAGA
CACTATCCTATCTCCCTGAAGTTACAGTAGAGCGGATTAAAATA
Found at i:54276693 original size:3 final size:3
Alignment explanation
Indices: 54276685--54276742 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
54276675 CTTATTTAGT
* * * *
54276685 TTA TTA TTA TTA TTA TTA GTG TTA TTA TCA TTA TTA TTA CTA TTA TTAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A
*
54276734 CTA TTA TTA
1 TTA TTA TTA
54276743 ATTTTATTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:54276700 original size:21 final size:22
Alignment explanation
Indices: 54276676--54276722 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
54276666 ATGATTTAGC
*
54276676 TTATTTAGT-TTATTATTATTA
1 TTATTTAGTGTTATTATCATTA
54276697 TTA-TTAGTGTTATTATCATTA
1 TTATTTAGTGTTATTATCATTA
54276718 TTATT
1 TTATT
54276723 ACTATTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (22 bp):
TTATTTAGTGTTATTATCATTA
Found at i:54277730 original size:114 final size:110
Alignment explanation
Indices: 54277355--54277774 Score: 576
Period size: 114 Copynumber: 3.8 Consensus size: 110
54277345 TTTCTAATTG
* * * *
54277355 AGGCAATATTTAGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATGTTTTGCATTTGGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
* * * * *
54277420 TCGTTCAACAAAATAGTTAAATATCC-TTTCAAAATTTTAAAATA
66 TCATTCAACCAAATAGCTAAATATCCTTTTAAAAATTTTCAAATA
* * * *
54277464 AGGCAATGTTTTGCGTTT-GGAAATTCGAG-GAAACATGCCCTAAGGTGTTGGATGTCGATTTTT
1 AGGCAATGTTTTGCATTTGGGAAATTCGAGAG-AACGTGCCCTAAGGTGCTGGGTGTCGATTTTT
* * *
54277527 CTCATTCAACCAAATGGCTTAATATCCTTTTAAAACTTTTCAAATA
65 CTCATTCAACCAAATAGCTAAATATCCTTTTAAAAATTTTCAAATA
54277573 AGGCAATGTTTTGCATTTGGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATGTTTTGCATTTGGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
54277638 TCGTTCAACCAAATGGCTAAATATCCTTTTAAAAAAAATTTTCGAAATA
66 TCATTCAACCAAATAGCTAAATATCCTTTT---AAAAATTTTC-AAATA
* *
54277687 AGGCAATGTTTTGCATTTGAGAAATTTGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
1 AGGCAATGTTTTGCATTTGGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
* *
54277752 TCATTTAACCAAATAGCCAAATA
66 TCATTCAACCAAATAGCTAAATA
54277775 GCCAAATATC
Statistics
Matches: 276, Mismatches: 27, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
108 62 0.22
109 48 0.17
110 69 0.25
111 1 0.00
113 9 0.03
114 87 0.32
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (110 bp):
AGGCAATGTTTTGCATTTGGGAAATTCGAGAGAACGTGCCCTAAGGTGCTGGGTGTCGATTTTTC
TCATTCAACCAAATAGCTAAATATCCTTTTAAAAATTTTCAAATA
Found at i:54278322 original size:2 final size:2
Alignment explanation
Indices: 54278315--54278343 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
54278305 GCCTATTCTC
54278315 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54278344 ATTTAACCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:54284203 original size:28 final size:29
Alignment explanation
Indices: 54284147--54284208 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
54284137 CATAAATATT
*
54284147 ATAAAAAATAATTACCAAAATGAGATAAA
1 ATAAAAAATAAATACCAAAATGAGATAAA
* * * *
54284176 TTAAAAATTAAATACGAAAAT-AGGTAAA
1 ATAAAAAATAAATACCAAAATGAGATAAA
54284204 ATAAA
1 ATAAA
54284209 TAGCTTGCAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.23
Consensus pattern (29 bp):
ATAAAAAATAAATACCAAAATGAGATAAA
Found at i:54284371 original size:29 final size:28
Alignment explanation
Indices: 54284338--54284398 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
54284328 AAACGCCCAT
54284338 TTTTTTAAAAAATTACCGAAATGGGCTCG
1 TTTTTTAAAAAATTACCGAAATGGGC-CG
** * *
54284367 TTTTTTAATTATTTACCGGAATGGGCCG
1 TTTTTTAAAAAATTACCGAAATGGGCCG
54284395 TTTT
1 TTTT
54284399 CCGCGAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (28 bp):
TTTTTTAAAAAATTACCGAAATGGGCCG
Found at i:54284647 original size:23 final size:21
Alignment explanation
Indices: 54284609--54284678 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 21
54284599 AAATTCAATA
* *
54284609 TCAATATCCTTCAAAATTTCTT
1 TCAAT-TCCTTCAAAAATTCTC
54284631 TCAATTCCGTTCAAAAATTCTC
1 TCAATTCC-TTCAAAAATTCTC
54284653 TCAAATTCCTTTC-AAAATTCTC
1 TC-AATTCC-TTCAAAAATTCTC
54284675 TCAA
1 TCAA
54284679 ACTCTCAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.12
22 29 0.67
23 9 0.21
ACGTcount: A:0.33, C:0.26, G:0.01, T:0.40
Consensus pattern (21 bp):
TCAATTCCTTCAAAAATTCTC
Found at i:54284679 original size:22 final size:22
Alignment explanation
Indices: 54284618--54284679 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
54284608 ATCAATATCC
*
54284618 TTCAAAATTTCTTTC-AATTCCG
1 TTCAAAA-TTCTCTCAAATTCCG
*
54284640 TTCAAAAATTCTCTCAAATTCCT
1 TTC-AAAATTCTCTCAAATTCCG
54284663 TTCAAAATTCTCTCAAA
1 TTCAAAATTCTCTCAAA
54284680 CTCTCAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
22 23 0.64
23 13 0.36
ACGTcount: A:0.34, C:0.24, G:0.02, T:0.40
Consensus pattern (22 bp):
TTCAAAATTCTCTCAAATTCCG
Found at i:54284686 original size:30 final size:30
Alignment explanation
Indices: 54284650--54284708 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
54284640 TTCAAAAATT
* * *
54284650 CTCTCAAATTCCTTTCAAAATTCTCTCAAA
1 CTCTCAAATGCCTTCCAAAATCCTCTCAAA
54284680 CTCTCAAATGCCTTCCAAAATCCTCTCAA
1 CTCTCAAATGCCTTCCAAAATCCTCTCAA
54284709 TTTCCTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.34, G:0.02, T:0.32
Consensus pattern (30 bp):
CTCTCAAATGCCTTCCAAAATCCTCTCAAA
Found at i:54284828 original size:29 final size:29
Alignment explanation
Indices: 54284765--54284828 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
54284755 TAAATTTCAT
* *
54284765 TATTTTAAGAAAATTTTAAAATTTTTTAT
1 TATTTTAAAAAAATTTTAAAATTTTTTAA
*
54284794 TTTTTTAAAAATAATTTTAAAA-TTTTTAA
1 TATTTTAAAAA-AATTTTAAAATTTTTTAA
54284823 TATTTT
1 TATTTT
54284829 CAACAATGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 20 0.67
30 10 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
TATTTTAAAAAAATTTTAAAATTTTTTAA
Found at i:54287129 original size:28 final size:28
Alignment explanation
Indices: 54287084--54288008 Score: 1163
Period size: 28 Copynumber: 34.4 Consensus size: 28
54287074 TTTTGACATT
* *
54287084 ATTTGATTAAAAACCCTAACCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287112 ATATAATTAAAAACCCTAA-CT----TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287135 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287163 ATTTAATTAAAAA---T--CCTAACTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287186 ACTTAATTAAAAACCCTAACCCTAACCTA
1 ATTTAATTAAAAACCCTAA-CCTAACCTA
54287215 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287243 ATTTAATTAAAAACCCTAATCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287271 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287299 ATTTAATTAAAAACCCTAA-CT----TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287322 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287350 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287378 ATTAAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
**
54287406 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287434 ATTTAATT-AAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287461 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287489 ATTTAATTAAAAACCCTAA-CT----TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287512 ACTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287540 A-TTAATTAAAAACCCTAA-CT----TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287562 ACTTAATTAAAAACCCTAACACTAACCTA
1 ATTTAATTAAAAACCCTAAC-CTAACCTA
*
54287591 ATTTAATTAAAAACCCTAGCCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287619 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
**
54287647 ATTTAATTAAAAA-CCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287674 ATTTAATTAAAAACCTTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287702 ATTTAATTAAAAACCCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287730 ATTTAATTAAAAACCCTAA-CT----TA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287753 ACTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* * **
54287781 ATATAATTAAAAATCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
*
54287809 ATTTAATTAAAAACCCTAACCTAATCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287837 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287865 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
* **
54287893 ATTTAATTAAAAA-CCTAACATAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
**
54287920 ATTTAATTAAAAACCCTAACCTAATTTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287948 ATTTAATTAAAAA--C---CCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287971 ATTTAATTAAAAACCCTAACCTAACCTA
1 ATTTAATTAAAAACCCTAACCTAACCTA
54287999 ATTTAATTAA
1 ATTTAATTAA
54288009 TGTAAAAACC
Statistics
Matches: 803, Mismatches: 53, Indels: 82
0.86 0.06 0.09
Matches are distributed among these distances:
22 3 0.00
23 136 0.17
24 8 0.01
25 4 0.00
26 4 0.00
27 97 0.12
28 505 0.63
29 46 0.06
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (28 bp):
ATTTAATTAAAAACCCTAACCTAACCTA
Found at i:54291445 original size:123 final size:124
Alignment explanation
Indices: 54291223--54291501 Score: 393
Period size: 123 Copynumber: 2.3 Consensus size: 124
54291213 CCACGAGGGC
*
54291223 GCGATTTGACACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCCTACATGACCAACTGTAGCG
1 GCGATTTGACACTATTTGCTCAGAAACATCAAAAAAATTTATTTCCTACATGACCAACTGTAGCG
* * * * * **
54291288 AAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTTATATAGCATTCTGGTATCA
66 AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
* * *
54291347 GCGATTTTATACTATTTGCTCAGAAAACATCAAAAAAA-TTATTTCTTACATGACC-ACTGTAGC
1 GCGATTTGACACTATTTGCTCAG-AAACATCAAAAAAATTTATTTCCTACATGACCAACTGTAGC
54291410 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
65 GAAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
** *
54291470 GCGATTTCCCACTATTTGAC-CAGATACATCAA
1 GCGATTTGACACTATTTG-CTCAGAAACATCAA
54291502 CTCGAAAACA
Statistics
Matches: 138, Mismatches: 15, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
122 8 0.06
123 79 0.57
124 38 0.28
125 13 0.09
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (124 bp):
GCGATTTGACACTATTTGCTCAGAAACATCAAAAAAATTTATTTCCTACATGACCAACTGTAGCG
AAATCGCGTCCACGAGGCCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAA
Found at i:54301310 original size:9 final size:9
Alignment explanation
Indices: 54301296--54301324 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
54301286 TCTTGTACCT
54301296 TGTAAGAAA
1 TGTAAGAAA
54301305 TGTAAGAAA
1 TGTAAGAAA
54301314 TGTAAGAAA
1 TGTAAGAAA
54301323 TG
1 TG
54301325 AAACATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (9 bp):
TGTAAGAAA
Found at i:54304909 original size:15 final size:15
Alignment explanation
Indices: 54304889--54304920 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
54304879 CTGGTTCTGA
54304889 AACGGAATTTGGAAG
1 AACGGAATTTGGAAG
54304904 AACGGAATTTGGAAG
1 AACGGAATTTGGAAG
54304919 AA
1 AA
54304921 AGAGAGCCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (15 bp):
AACGGAATTTGGAAG
Found at i:54305793 original size:13 final size:13
Alignment explanation
Indices: 54305771--54305802 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
54305761 GTAAAAATAT
54305771 ATTAAAATGCACA
1 ATTAAAATGCACA
*
54305784 ATTAATATGCACA
1 ATTAAAATGCACA
54305797 ATTAAA
1 ATTAAA
54305803 TTATATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (13 bp):
ATTAAAATGCACA
Found at i:54306128 original size:34 final size:34
Alignment explanation
Indices: 54306085--54306151 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
54306075 TTGGCAATTT
54306085 GTTGACTAGCACTACACCCAAAAAAATTATTTTG
1 GTTGACTAGCACTACACCCAAAAAAATTATTTTG
* *
54306119 GTTGACTAGCACTACACTCAAAAATATTATTTT
1 GTTGACTAGCACTACACCCAAAAAAATTATTTT
54306152 TTAATCAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.33
Consensus pattern (34 bp):
GTTGACTAGCACTACACCCAAAAAAATTATTTTG
Found at i:54314384 original size:14 final size:14
Alignment explanation
Indices: 54314365--54314395 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
54314355 GGAATTGTTA
*
54314365 TAATCTAAATTTAC
1 TAATCTAAATTAAC
54314379 TAATCTAAATTAAC
1 TAATCTAAATTAAC
54314393 TAA
1 TAA
54314396 GAACGCGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.39
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:54317161 original size:25 final size:25
Alignment explanation
Indices: 54317102--54317161 Score: 61
Period size: 25 Copynumber: 2.3 Consensus size: 25
54317092 TTGTGAATTT
*
54317102 TATTTTATTAGTATTTTATATTTAAA
1 TATTTT-TTAGTATTATATATTTAAA
54317128 -ATTGATTTTA-TATTATATATATTAAA
1 TATT--TTTTAGTATTATATAT-TTAAA
54317154 TATTTTTT
1 TATTTTTT
54317162 TTAAAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
25 16 0.55
26 8 0.28
27 5 0.17
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (25 bp):
TATTTTTTAGTATTATATATTTAAA
Found at i:54319427 original size:7 final size:7
Alignment explanation
Indices: 54319412--54319466 Score: 92
Period size: 7 Copynumber: 7.9 Consensus size: 7
54319402 ATAACCCGAT
54319412 CCCTAAC
1 CCCTAAC
*
54319419 CCTTAAC
1 CCCTAAC
54319426 CCCTAAC
1 CCCTAAC
54319433 CCCTAAC
1 CCCTAAC
54319440 CCCTAAC
1 CCCTAAC
*
54319447 CCTTAAC
1 CCCTAAC
54319454 CCCTAAC
1 CCCTAAC
54319461 CCCTAA
1 CCCTAA
54319467 ACCTTATTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.29, C:0.53, G:0.00, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:54320109 original size:114 final size:114
Alignment explanation
Indices: 54319903--54320468 Score: 855
Period size: 114 Copynumber: 5.0 Consensus size: 114
54319893 TTTTAAATCT
* **
54319903 CTGAGTATTAGCGGCGCTTACATAAAAACGCCACTAAATCC-TCGAAAGCTCAGAAAACGGCGTC
1 CTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAGAAAACGGCGTC
* *
54319967 GTTGGGCTGAAGTATTTTTACGGTGCTTTCCCAAAAACGCCGCTAAAGAC
65 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
* * *
54320017 TTGAGCATTAGCGGCGCTTACATAAAAATGCCACTAAATCCTTCTCAGCTCAGAAAACGGTGTCG
1 CTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCG
* *
54320082 TTGGGGTGAAGTATTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGAC
66 TTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
* * * *
54320131 CTGAACATTAGTGGCGCTTACATAAAAACACCACTAAATCCTTCTTAGCTCAGAAAACGGCGTCG
1 CTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCG
* ** *
54320196 TTAGATTGACGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
66 TTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
* * *
54320245 CTGAGCATTAGCGGCGCTTACTTAAAAACGCCACTAAATCCTTATCAACTCAGAAAACGGCGTCG
1 CTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCG
*
54320310 TTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAGAACGCCGCTAAAGAC
66 TTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
* ** * *
54320359 CTGACCAGCAGCGGCACTTACATAAAAATGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCG
1 CTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCG
* *
54320424 TTGGGCTGAAGTATTTTTGCGACGCTTTCCCAAAAATGCCGCTAA
66 TTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
54320469 TGCTTATTTT
Statistics
Matches: 406, Mismatches: 45, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
114 404 1.00
115 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (114 bp):
CTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCTTCTCAGCTCAGAAAACGGCGTCG
TTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGAC
Found at i:54321686 original size:43 final size:45
Alignment explanation
Indices: 54321571--54321689 Score: 125
Period size: 43 Copynumber: 2.7 Consensus size: 45
54321561 AAAAAAGAGT
* * *
54321571 AACAATTCCTTAAAAACTAGCCTAGAAAACGTGGATGACTAGAAAA
1 AACAAATCCCTAAAAACTAGCCTA-AAAATGTGGATGACTAGAAAA
* ** * * * *
54321617 AACAAATCCCTGAAATGTAACTTAAAAATGTGGATGGCTA-AGAA
1 AACAAATCCCTAAAAACTAGCCTAAAAATGTGGATGACTAGAAAA
54321661 AA-AAATCCCTAAAAACTAGCCTAAAAATG
1 AACAAATCCCTAAAAACTAGCCTAAAAATG
54321690 CGGGTAGTTA
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
43 22 0.38
44 5 0.09
45 14 0.24
46 17 0.29
ACGTcount: A:0.49, C:0.17, G:0.14, T:0.20
Consensus pattern (45 bp):
AACAAATCCCTAAAAACTAGCCTAAAAATGTGGATGACTAGAAAA
Found at i:54329451 original size:11 final size:11
Alignment explanation
Indices: 54329435--54329473 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
54329425 CTTTTCCTTT
*
54329435 AATCAAACAAG
1 AATCAAGCAAG
54329446 AATCAAGCTAA-
1 AATCAAGC-AAG
54329457 AATCAAGCAAG
1 AATCAAGCAAG
54329468 AATCAA
1 AATCAA
54329474 CCTCTTTCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
10 2 0.08
11 21 0.84
12 2 0.08
ACGTcount: A:0.59, C:0.18, G:0.10, T:0.13
Consensus pattern (11 bp):
AATCAAGCAAG
Found at i:54333226 original size:3 final size:3
Alignment explanation
Indices: 54333209--54333279 Score: 124
Period size: 3 Copynumber: 23.3 Consensus size: 3
54333199 TCCAAAGAGA
*
54333209 AAG AAG AATG TAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
54333255 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
54333280 GAGTAATTAG
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 63 0.97
4 2 0.03
ACGTcount: A:0.65, C:0.00, G:0.32, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:54336035 original size:19 final size:19
Alignment explanation
Indices: 54336013--54336053 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
54336003 TCAATTTGAA
54336013 AAAAAAC-AGAAAATTTTG
1 AAAAAACTAGAAAATTTTG
* *
54336031 GAAAAACTTGAAAATTTTG
1 AAAAAACTAGAAAATTTTG
54336050 AAAA
1 AAAA
54336054 CATGGTCACG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (19 bp):
AAAAAACTAGAAAATTTTG
Found at i:54336037 original size:18 final size:18
Alignment explanation
Indices: 54336014--54336053 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
54336004 CAATTTGAAA
54336014 AAAAAC-AGAAAATTTTGG
1 AAAAACTAGAAAATTTT-G
*
54336032 AAAAACTTGAAAATTTTG
1 AAAAACTAGAAAATTTTG
54336050 AAAA
1 AAAA
54336054 CATGGTCACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.25
Consensus pattern (18 bp):
AAAAACTAGAAAATTTTG
Found at i:54337965 original size:32 final size:33
Alignment explanation
Indices: 54337924--54337994 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
54337914 TTTTTTTCTG
* **
54337924 TTATATATATTATTTCATTTTAT-TTT-TACGTA
1 TTATTTATATTAAATCATTTT-TGTTTATACGTA
*
54337956 TTATTTATATTAAATCATTTTTGTTTATATGTA
1 TTATTTATATTAAATCATTTTTGTTTATACGTA
54337989 TTATTT
1 TTATTT
54337995 TAAATTTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 1 0.03
32 21 0.64
33 11 0.33
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (33 bp):
TTATTTATATTAAATCATTTTTGTTTATACGTA
Found at i:54340109 original size:44 final size:44
Alignment explanation
Indices: 54340061--54340176 Score: 205
Period size: 44 Copynumber: 2.6 Consensus size: 44
54340051 AATGTCATTG
*
54340061 TATCTTTCAACCATGTTCTTTCCTTTTTGAATATAATGCCATGA
1 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
54340105 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
1 TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
* *
54340149 TATCTTTCAATCATGGTCTTTCCCTTTT
1 TATCTTTCAATCATGTTCTTTCCTTTTT
54340177 CTCAAATCAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 69 1.00
ACGTcount: A:0.22, C:0.21, G:0.09, T:0.48
Consensus pattern (44 bp):
TATCTTTCAATCATGTTCTTTCCTTTTTGAATATAATGCCATGA
Found at i:54342101 original size:16 final size:16
Alignment explanation
Indices: 54342077--54342107 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
54342067 AGAAATTCCA
*
54342077 AAGAGAAAGAAGAAGG
1 AAGAAAAAGAAGAAGG
54342093 AAGAAAAAGAAGAAG
1 AAGAAAAAGAAGAAG
54342108 AGAGTAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAGAAGG
Found at i:54346791 original size:43 final size:43
Alignment explanation
Indices: 54346734--54347019 Score: 328
Period size: 43 Copynumber: 6.7 Consensus size: 43
54346724 ATTTTTAGAA
*
54346734 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * *
54346777 ACAAACGCCACTAAAG-ACTAAGACCATTAGTGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCCC
* * *
54346820 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* * * *
54346863 ACAAACGCCGCTAAAGACCAAGACCATTAGCGACGCTTTTTCC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
*
54346906 ACAAACGCCACTAAAG-ACAAAGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGAAC-AAGACCTTTAGCGGCGCTTTTCCC
* * ** * * *
54346949 ACAAACGCTGCTAAAGACCGTGACTTTTAGCGGCGCTTCTCGC
1 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
* *
54346992 AAAAACACCGCTAAA-AACATA-ACCTTTA
1 ACAAACGCCGCTAAAGAACA-AGACCTTTA
54347020 AAAAATATAT
Statistics
Matches: 203, Mismatches: 35, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
42 11 0.05
43 190 0.94
44 2 0.01
ACGTcount: A:0.32, C:0.31, G:0.17, T:0.20
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTTTCCC
Found at i:54346930 original size:129 final size:129
Alignment explanation
Indices: 54346734--54347010 Score: 412
Period size: 129 Copynumber: 2.2 Consensus size: 129
54346724 ATTTTTAGAA
* * *
54346734 ACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCACAAACGCCACTAAAGACTAAG
1 ACAAACGCCGCTAAAGAACAAGACCATTAGCGACGCTTCTCCCACAAACGCCACTAAAGACAAAG
* * *
54346799 ACCATTAGTGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
66 ACCATTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCGC
* * *
54346863 ACAAACGCCGCTAAAGACCAAGACCATTAGCGACGCTTTTTCCACAAACGCCACTAAAGACAAAG
1 ACAAACGCCGCTAAAGAACAAGACCATTAGCGACGCTTCTCCCACAAACGCCACTAAAGACAAAG
* * * *
54346928 ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTAAAGACCGTGACTTTTAGCGGCGCTTCTCGC
66 ACCATTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCGC
* *
54346992 AAAAACACCGCTAAA-AACA
1 ACAAACGCCGCTAAAGAACA
54347011 TAACCTTTAA
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
128 3 0.02
129 129 0.98
ACGTcount: A:0.32, C:0.32, G:0.17, T:0.19
Consensus pattern (129 bp):
ACAAACGCCGCTAAAGAACAAGACCATTAGCGACGCTTCTCCCACAAACGCCACTAAAGACAAAG
ACCATTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTCTCGC
Found at i:54348541 original size:25 final size:26
Alignment explanation
Indices: 54348513--54348567 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
54348503 CCAACAGTTG
54348513 ATAAAACCAATA-ATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
* **
54348538 AT-AACCCCTTACATATGATCAAATT
1 ATAAAACCAATACATATGATCAAATT
54348563 ATAAA
1 ATAAA
54348568 TCAATATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 6 0.24
25 17 0.68
26 2 0.08
ACGTcount: A:0.51, C:0.16, G:0.04, T:0.29
Consensus pattern (26 bp):
ATAAAACCAATACATATGATCAAATT
Found at i:54359118 original size:50 final size:50
Alignment explanation
Indices: 54359003--54359195 Score: 287
Period size: 50 Copynumber: 3.8 Consensus size: 50
54358993 GATCATAACA
* ** *
54359003 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATGTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
54359054 TGCCAATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
54359104 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
54359154 TGTCAACACCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
54359196 TTACCCAAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
50 96 0.74
51 34 0.26
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:54359311 original size:13 final size:13
Alignment explanation
Indices: 54359290--54359319 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
54359280 GCTTGGGTCA
54359290 TCATCAAATAAAT
1 TCATCAAATAAAT
*
54359303 TCATGAAATAAAT
1 TCATCAAATAAAT
54359316 TCAT
1 TCAT
54359320 AGTTGCTGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
TCATCAAATAAAT
Found at i:54362791 original size:13 final size:14
Alignment explanation
Indices: 54362773--54362813 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
54362763 TTTTCAAAGA
54362773 TATGGTTTAGGA-T
1 TATGGTTTAGGACT
*
54362786 TATGGTTTATGACT
1 TATGGTTTAGGACT
*
54362800 TACGGTTTA-GACT
1 TATGGTTTAGGACT
54362813 T
1 T
54362814 TAAGGGTGGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 16 0.64
14 9 0.36
ACGTcount: A:0.22, C:0.07, G:0.24, T:0.46
Consensus pattern (14 bp):
TATGGTTTAGGACT
Found at i:54362904 original size:25 final size:26
Alignment explanation
Indices: 54362870--54362921 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
54362860 TTGTTTGTGG
** *
54362870 TTTACGGGTTTAATTTTTATGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
54362896 TTTA-GGGTTTAAGATTTACGGTTAA
1 TTTACGGGTTTAAGATTTACGGTTAA
54362921 T
1 T
54362922 GCGTACGATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.25, C:0.04, G:0.21, T:0.50
Consensus pattern (26 bp):
TTTACGGGTTTAAGATTTACGGTTAA
Found at i:54364268 original size:16 final size:16
Alignment explanation
Indices: 54364247--54364302 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
54364237 ACTTAGTAAT
54364247 TAAAAGATACAATTAA
1 TAAAAGATACAATTAA
*
54364263 TAAAAGATACACTTAA
1 TAAAAGATACAATTAA
* * *
54364279 GAAATAAATA-AATAAA
1 TAAA-AGATACAATTAA
54364295 TAAAAGAT
1 TAAAAGAT
54364303 GTGAGTTTTC
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
15 3 0.09
16 25 0.78
17 4 0.12
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.23
Consensus pattern (16 bp):
TAAAAGATACAATTAA
Found at i:54365349 original size:47 final size:47
Alignment explanation
Indices: 54365280--54365373 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
54365270 TTGTTTGATT
*
54365280 CCCCTTCGAAAAGATAATTTAGGGCTTGATTAATGCATATGGAGGTG
1 CCCCTTCGAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
* * * *
54365327 CCCCTTCTAAAATATAATTTAGGATTTGATTAATGCATGTGGAGGTG
1 CCCCTTCGAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
54365374 GTCTAGCGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (47 bp):
CCCCTTCGAAAAGATAATTTAGGACTTGATTAATGCATATGGAGGTG
Done.