Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10
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: 48586650
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2183483 characters in sequence are not A, C, G, or T
File 133 of 145
Found at i:44360321 original size:19 final size:19
Alignment explanation
Indices: 44360299--44360341 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
44360289 CCAAAATACC
44360299 GATCCTCCTCCAGTCCACA
1 GATCCTCCTCCAGTCCACA
*
44360318 GATCCTCCTCCAGTCCACC
1 GATCCTCCTCCAGTCCACA
44360337 GATCC
1 GATCC
44360342 ACCTTCGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.19, C:0.49, G:0.12, T:0.21
Consensus pattern (19 bp):
GATCCTCCTCCAGTCCACA
Found at i:44362567 original size:25 final size:25
Alignment explanation
Indices: 44362531--44362580 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
44362521 TACTTCCCTT
44362531 CTCTTTTCCTTTGCCTTGTAGTATC
1 CTCTTTTCCTTTGCCTTGTAGTATC
*
44362556 CTCTTTTTCTTTGCCTTGTAGTATC
1 CTCTTTTCCTTTGCCTTGTAGTATC
44362581 GCCAAGTTTG
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:0.08, C:0.26, G:0.12, T:0.54
Consensus pattern (25 bp):
CTCTTTTCCTTTGCCTTGTAGTATC
Found at i:44363654 original size:25 final size:25
Alignment explanation
Indices: 44363626--44363734 Score: 71
Period size: 25 Copynumber: 4.4 Consensus size: 25
44363616 CAGCTAGCAA
* * * *
44363626 GAGCGTCCTGTTATTTAGCTCTTAT
1 GAGCATCCCGTTATATAGCTCTCAT
*
44363651 GAGCATCCCGTTATATGGCTCTCAT
1 GAGCATCCCGTTATATAGCTCTCAT
* * * *
44363676 GAGCTTCCCGATTA-ATGGCTTTCTT
1 GAGCATCCCG-TTATATAGCTCTCAT
* *
44363701 GAGCTTCCCGTT-TATGGCTCAT-AT
1 GAGCATCCCGTTATATAGCTC-TCAT
*
44363725 GAGCTTCCCG
1 GAGCATCCCG
44363735 ATAATTGGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
24 19 0.27
25 49 0.69
26 3 0.04
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.37
Consensus pattern (25 bp):
GAGCATCCCGTTATATAGCTCTCAT
Found at i:44363727 original size:24 final size:23
Alignment explanation
Indices: 44363643--44363734 Score: 96
Period size: 25 Copynumber: 3.7 Consensus size: 23
44363633 CTGTTATTTA
*
44363643 GCTCTTATGAGCATCCCGTTATATG
1 GCTC-TATGAGCTTCCCGTT-TATG
*
44363668 GCTCTCATGAGCTTCCCGATTAATG
1 GCTCT-ATGAGCTTCCCG-TTTATG
44363693 GCTTTCT-TGAGCTTCCCGTTTATG
1 GC--TCTATGAGCTTCCCGTTTATG
44363717 GCTCATATGAGCTTCCCG
1 GCTC-TATGAGCTTCCCG
44363735 ATAATTGGCT
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
22 2 0.03
23 1 0.02
24 19 0.33
25 31 0.53
26 2 0.03
27 3 0.05
ACGTcount: A:0.16, C:0.27, G:0.21, T:0.36
Consensus pattern (23 bp):
GCTCTATGAGCTTCCCGTTTATG
Found at i:44363727 original size:49 final size:50
Alignment explanation
Indices: 44363650--44363744 Score: 142
Period size: 49 Copynumber: 1.9 Consensus size: 50
44363640 TTAGCTCTTA
44363650 TGAGCATCCCGTTATATGGCTCTCATGAGCTTCCCGATTAA-TGGCTTTCT
1 TGAGCATCCCGTTATATGGCTCTCATGAGCTTCCCGA-TAATTGGCTTTCT
*
44363700 TGAGCTTCCCGTT-TATGGCTCAT-ATGAGCTTCCCGATAATTGGCT
1 TGAGCATCCCGTTATATGGCTC-TCATGAGCTTCCCGATAATTGGCT
44363745 CGCAAGAGCT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 3 0.07
49 26 0.62
50 13 0.31
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (50 bp):
TGAGCATCCCGTTATATGGCTCTCATGAGCTTCCCGATAATTGGCTTTCT
Found at i:44365677 original size:23 final size:23
Alignment explanation
Indices: 44365646--44365689 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
44365636 AAATTAAATC
* * *
44365646 AAATCAAATCAAATTAATATTCT
1 AAATAAAATAAAAATAATATTCT
44365669 AAATAAAATAAAAATAATATT
1 AAATAAAATAAAAATAATATT
44365690 TACCGATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATAAAATAAAAATAATATTCT
Found at i:44374426 original size:15 final size:17
Alignment explanation
Indices: 44374400--44374431 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
44374390 TTAGCAATCG
44374400 AAAAGTAGATAT-TCAT
1 AAAAGTAGATATATCAT
44374416 AAAAG-AGATATATCAT
1 AAAAGTAGATATATCAT
44374432 CAATGAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.28
Consensus pattern (17 bp):
AAAAGTAGATATATCAT
Found at i:44378366 original size:6 final size:6
Alignment explanation
Indices: 44378355--44378391 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
44378345 TACTGCTATA
44378355 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT A
1 ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT ACAAAT A
44378392 ACAATTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.68, C:0.16, G:0.00, T:0.16
Consensus pattern (6 bp):
ACAAAT
Found at i:44380831 original size:14 final size:14
Alignment explanation
Indices: 44380812--44380839 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
44380802 GAAATAAGAA
44380812 AAACCTATATTTTT
1 AAACCTATATTTTT
44380826 AAACCTATATTTTT
1 AAACCTATATTTTT
44380840 GAACAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
AAACCTATATTTTT
Found at i:44404886 original size:13 final size:13
Alignment explanation
Indices: 44404868--44404892 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44404858 TATTTTAATA
44404868 TTATTTTGTGTGT
1 TTATTTTGTGTGT
44404881 TTATTTTGTGTG
1 TTATTTTGTGTG
44404893 CATTTGATTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:44412203 original size:208 final size:208
Alignment explanation
Indices: 44411845--44412263 Score: 811
Period size: 208 Copynumber: 2.0 Consensus size: 208
44411835 TATCCTATGC
44411845 ATTGCAACCAAGCAGTACAAGACACACCAGCAAGGAAAAATATACATGAAGCAGGATCAAGCCAA
1 ATTGCAACCAAGCAGTACAAGACACACCAGCAAGGAAAAATATACATGAAGCAGGATCAAGCCAA
44411910 AAATCACACAGGAAGTCAAAAGCCACTTTACTTCCCAGCTATGATAATGATGTGATACCACCTGA
66 AAATCACACAGGAAGTCAAAAGCCACTTTACTTCCCAGCTATGATAATGATGTGATACCACCTGA
* *
44411975 TGACCTTGAAAGAAGAATTGAACAGTTGGAGCTCAAATGTTAGAGAGCCCGTGAAGAAAAGAAAA
131 TGACCTTGAAAGAAGAATTGAACAGCTGAAGCTCAAATGTTAGAGAGCCCGTGAAGAAAAGAAAA
44412040 GAAAAGCAGAGGA
196 GAAAAGCAGAGGA
*
44412053 ATTGCAACCAAGCAGTACAAGACACACCAGCAAGGAAAAATATACATGAAGTAGGATCAAGCCAA
1 ATTGCAACCAAGCAGTACAAGACACACCAGCAAGGAAAAATATACATGAAGCAGGATCAAGCCAA
44412118 AAATCACACAGGAAGTCAAAAGCCACTTTACTTCCCAGCTATGATAATGATGTGATACCACCTGA
66 AAATCACACAGGAAGTCAAAAGCCACTTTACTTCCCAGCTATGATAATGATGTGATACCACCTGA
44412183 TGACCTTGAAAGAAGAATTGAACAGCTGAAGCTCAAATGTTAGAGAGCCCGTGAAGAAAAGAAAA
131 TGACCTTGAAAGAAGAATTGAACAGCTGAAGCTCAAATGTTAGAGAGCCCGTGAAGAAAAGAAAA
44412248 GAAAAGCAGAGGA
196 GAAAAGCAGAGGA
44412261 ATT
1 ATT
44412264 AAACATTACC
Statistics
Matches: 208, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
208 208 1.00
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (208 bp):
ATTGCAACCAAGCAGTACAAGACACACCAGCAAGGAAAAATATACATGAAGCAGGATCAAGCCAA
AAATCACACAGGAAGTCAAAAGCCACTTTACTTCCCAGCTATGATAATGATGTGATACCACCTGA
TGACCTTGAAAGAAGAATTGAACAGCTGAAGCTCAAATGTTAGAGAGCCCGTGAAGAAAAGAAAA
GAAAAGCAGAGGA
Found at i:44415116 original size:19 final size:18
Alignment explanation
Indices: 44415094--44415137 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
44415084 AAAAATAAAT
*
44415094 AAAAATATTAGTAATTATA
1 AAAAATATTA-AAATTATA
44415113 AAAAATATTAAAATTATA
1 AAAAATATTAAAATTATA
*
44415131 TAAAATA
1 AAAAATA
44415138 AAAAAGGGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAAATATTAAAATTATA
Found at i:44415707 original size:24 final size:24
Alignment explanation
Indices: 44415680--44415728 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44415670 AGAGGAAAGT
*
44415680 TTAAAGAACATAAAAGAAAAAAAA
1 TTAAAGAACATAAAACAAAAAAAA
** *
44415704 TTAAATTACTTAAAACAAAAAAAA
1 TTAAAGAACATAAAACAAAAAAAA
44415728 T
1 T
44415729 ATGGGGATCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.20
Consensus pattern (24 bp):
TTAAAGAACATAAAACAAAAAAAA
Found at i:44423459 original size:16 final size:16
Alignment explanation
Indices: 44423438--44423478 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
44423428 AATAATTTGA
**
44423438 TAATTTTACTAACAAT
1 TAATTTTAAGAACAAT
44423454 TAATTTTAAGAACAAT
1 TAATTTTAAGAACAAT
*
44423470 TAGTTTTAA
1 TAATTTTAA
44423479 TTTTATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (16 bp):
TAATTTTAAGAACAAT
Found at i:44423480 original size:22 final size:22
Alignment explanation
Indices: 44423453--44423506 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
44423443 TTACTAACAA
* * *
44423453 TTAATTTTAAGAACAATTAGTT
1 TTAATTTTAAGAAAAAATAATT
**
44423475 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAAGAAAAAATAATT
44423497 TTAATTTTAA
1 TTAATTTTAA
44423507 TTTTAATTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (22 bp):
TTAATTTTAAGAAAAAATAATT
Found at i:44430106 original size:33 final size:33
Alignment explanation
Indices: 44430064--44430131 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
44430054 AGGCCATGGA
44430064 CGGAAACAAAGACATTGCAACGGATCAAGTCTC
1 CGGAAACAAAGACATTGCAACGGATCAAGTCTC
* * * *
44430097 CGGAAACAAAGATATTTCTATGGATCAAGTCTC
1 CGGAAACAAAGACATTGCAACGGATCAAGTCTC
44430130 CG
1 CG
44430132 AAAATGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.21
Consensus pattern (33 bp):
CGGAAACAAAGACATTGCAACGGATCAAGTCTC
Found at i:44440057 original size:24 final size:22
Alignment explanation
Indices: 44440028--44440085 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 22
44440018 AAATAATTAT
44440028 AAAAATTTCAAAATTTATATTTTA
1 AAAAATTT-AAAATTT-TATTTTA
* *
44440052 AAAAATTTATAATTTT-TTTTT
1 AAAAATTTAAAATTTTATTTTA
44440073 AAAAATTCTAAAA
1 AAAAATT-TAAAA
44440086 ATAATATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.37
22 5 0.17
23 6 0.20
24 8 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAAATTTAAAATTTTATTTTA
Found at i:44440065 original size:23 final size:23
Alignment explanation
Indices: 44440028--44440077 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
44440018 AAATAATTAT
44440028 AAAAATTTCAAAATTTATATTTTA
1 AAAAATTTCAAAATTT-TATTTTA
* *
44440052 AAAAATTT-ATAATTTTTTTTTA
1 AAAAATTTCAAAATTTTATTTTA
44440074 AAAA
1 AAAA
44440078 TTCTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 6 0.25
24 8 0.33
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAATTTCAAAATTTTATTTTA
Found at i:44441225 original size:43 final size:43
Alignment explanation
Indices: 44441167--44441263 Score: 167
Period size: 43 Copynumber: 2.3 Consensus size: 43
44441157 CATAGCCCAG
* *
44441167 ATAACAAAAAGGGAGTCCCATAGAGAGAAAATGGTAGGAGATA
1 ATAACAAAAAAGGAGTCCCATAGAGAGAAAATAGTAGGAGATA
*
44441210 ATAACAAAAAAGGAGTCCTATAGAGAGAAAATAGTAGGAGATA
1 ATAACAAAAAAGGAGTCCCATAGAGAGAAAATAGTAGGAGATA
44441253 ATAACAAAAAA
1 ATAACAAAAAA
44441264 ATAGGATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.55, C:0.08, G:0.23, T:0.14
Consensus pattern (43 bp):
ATAACAAAAAAGGAGTCCCATAGAGAGAAAATAGTAGGAGATA
Found at i:44441437 original size:17 final size:16
Alignment explanation
Indices: 44441395--44441437 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
44441385 AGTTTTTCAG
44441395 TTTATTTATTTACTTTT
1 TTTATTT-TTTACTTTT
*
44441412 TTTGTTTTTTTACTTTT
1 TTT-ATTTTTTACTTTT
44441429 TATTATTTT
1 T-TTATTTT
44441438 CGAAAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (16 bp):
TTTATTTTTTACTTTT
Found at i:44451547 original size:16 final size:16
Alignment explanation
Indices: 44451507--44451551 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
44451497 ATGATAACTG
44451507 AATATGAG--ATGAGAA
1 AATATGAGAAATGA-AA
*
44451522 AATAT-TGAAATGAAA
1 AATATGAGAAATGAAA
44451537 AATATGAGAAATGAA
1 AATATGAGAAATGAA
44451552 TATGAGACGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
14 1 0.04
15 12 0.48
16 12 0.48
ACGTcount: A:0.58, C:0.00, G:0.20, T:0.22
Consensus pattern (16 bp):
AATATGAGAAATGAAA
Found at i:44451552 original size:43 final size:43
Alignment explanation
Indices: 44451480--44451565 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
44451470 TATGTGATTG
* * * *
44451480 ATATTGAAATGACAAAGATGATAACTGAATATGAGATGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGACGAGAAA
*
44451523 ATATTGAAATGAAAAATATGAGAAATGAATATGAGACGAGAAA
1 ATATTGAAATGAAAAAGATGAGAAATGAATATGAGACGAGAAA
44451566 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.53, C:0.03, G:0.21, T:0.22
Consensus pattern (43 bp):
ATATTGAAATGAAAAAGATGAGAAATGAATATGAGACGAGAAA
Found at i:44451583 original size:27 final size:27
Alignment explanation
Indices: 44451553--44451607 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
44451543 AGAAATGAAT
44451553 ATGAGACGAGAAATGAAA-TATGAAATG
1 ATGAGACGAGAAATGAAACT-TGAAATG
* **
44451580 ATGAGATGAGATGTGAAACTTGAAATG
1 ATGAGACGAGAAATGAAACTTGAAATG
44451607 A
1 A
44451608 ATTCAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.47, C:0.04, G:0.27, T:0.22
Consensus pattern (27 bp):
ATGAGACGAGAAATGAAACTTGAAATG
Found at i:44466557 original size:28 final size:29
Alignment explanation
Indices: 44466517--44466589 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
44466507 CAATACGACT
* * *
44466517 TCAGCTTGTGTGAGCAA-ATTCATAATTG
1 TCAGCTTGTGTGAGCAACAGTCATAACTA
* *
44466545 TCAGCTTGTGTGAGCAACCGTGATAACTA
1 TCAGCTTGTGTGAGCAACAGTCATAACTA
44466574 TCAGCTTGTGTGAGCA
1 TCAGCTTGTGTGAGCA
44466590 CTATAGTCCC
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 17 0.44
29 22 0.56
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (29 bp):
TCAGCTTGTGTGAGCAACAGTCATAACTA
Found at i:44468436 original size:24 final size:24
Alignment explanation
Indices: 44468391--44468437 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44468381 TATATATACC
44468391 AATTCAATCAATATAAATTCAATA
1 AATTCAATCAATATAAATTCAATA
44468415 AATTC-ATCACATACTAAA-TCAAT
1 AATTCAATCA-ATA-TAAATTCAAT
44468438 CCATTTCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 13 0.62
25 4 0.19
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (24 bp):
AATTCAATCAATATAAATTCAATA
Found at i:44475977 original size:12 final size:12
Alignment explanation
Indices: 44475960--44476024 Score: 50
Period size: 12 Copynumber: 5.5 Consensus size: 12
44475950 CCAAATAAGT
44475960 AATAAATAATAA
1 AATAAATAATAA
44475972 AATAAAGTAAT-A
1 AATAAA-TAATAA
*
44475984 AATAAAGTAA-AG
1 AATAAA-TAATAA
44475996 AAT-AATAAT--
1 AATAAATAATAA
44476005 AATAAATAAAATAA
1 AATAAAT--AATAA
44476019 AATAAA
1 AATAAA
44476025 AATTGGGTTG
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
9 3 0.07
10 6 0.14
11 2 0.05
12 23 0.52
13 4 0.09
14 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:44475981 original size:20 final size:19
Alignment explanation
Indices: 44475952--44476018 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 19
44475942 ATTAATATCC
44475952 AAATAAGTAATAAATAATA
1 AAATAAGTAATAAATAATA
44475971 AAATAAAGTAATAAATAAAGTAA
1 AAAT-AAGTAATAAAT-AA-T-A
44475994 AGAATAA-TAAT-AATAAATA
1 A-AATAAGTAATAAAT-AATA
44476013 AAATAA
1 AAATAA
44476019 AATAAAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
18 5 0.12
19 6 0.14
20 12 0.28
21 8 0.19
22 5 0.12
23 4 0.09
24 3 0.07
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (19 bp):
AAATAAGTAATAAATAATA
Found at i:44488320 original size:3 final size:3
Alignment explanation
Indices: 44488312--44488351 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
44488302 TACATTGTAG
44488312 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44488352 AATGGGAGGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44491201 original size:20 final size:21
Alignment explanation
Indices: 44491163--44491202 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44491153 CTGTAACTGT
44491163 CACCAATTTCCTCGTGAACCC
1 CACCAATTTCCTCGTGAACCC
*
44491184 CACCATTTTCCTCG-GAACC
1 CACCAATTTCCTCGTGAACC
44491203 ATTCAAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.42, G:0.10, T:0.25
Consensus pattern (21 bp):
CACCAATTTCCTCGTGAACCC
Found at i:44494761 original size:6 final size:6
Alignment explanation
Indices: 44494748--44494795 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
44494738 TATCTGTATC
*
44494748 CTTT-T CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCC CTTTCT
1 CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT CTTTCT
44494795 C
1 C
44494796 CTTGTCAGGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
5 4 0.10
6 36 0.90
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (6 bp):
CTTTCT
Found at i:44498711 original size:6 final size:6
Alignment explanation
Indices: 44498703--44498774 Score: 126
Period size: 6 Copynumber: 12.0 Consensus size: 6
44498693 ATTATAAATG
* *
44498703 TGTATG TGTATG TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA TGTATA
44498751 TGTATA TGTATA TGTATA TGTATA
1 TGTATA TGTATA TGTATA TGTATA
44498775 ATTAAAATAG
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 65 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:44503560 original size:21 final size:21
Alignment explanation
Indices: 44503534--44503575 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
44503524 TGGCAACACC
44503534 ACCCTAATTTTTTGAGCCAAT
1 ACCCTAATTTTTTGAGCCAAT
44503555 ACCCTAATTTTTTGAGCCAAT
1 ACCCTAATTTTTTGAGCCAAT
44503576 CATTTGACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (21 bp):
ACCCTAATTTTTTGAGCCAAT
Found at i:44503833 original size:17 final size:17
Alignment explanation
Indices: 44503811--44503844 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44503801 ATGGCTATTG
44503811 AAAGAAAAAAAGAAAGA
1 AAAGAAAAAAAGAAAGA
* *
44503828 AAAGAAGAGAAGAAAGA
1 AAAGAAAAAAAGAAAGA
44503845 TTTAGGTTAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
AAAGAAAAAAAGAAAGA
Found at i:44504052 original size:16 final size:15
Alignment explanation
Indices: 44504031--44504064 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
44504021 TATTTATCTT
*
44504031 TTTGTAATTTTTATTA
1 TTTGTAATTATT-TTA
44504047 TTTGTAATTATTTTA
1 TTTGTAATTATTTTA
44504062 TTT
1 TTT
44504065 ATGTTATTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTTGTAATTATTTTA
Found at i:44526747 original size:147 final size:148
Alignment explanation
Indices: 44526479--44526773 Score: 567
Period size: 147 Copynumber: 2.0 Consensus size: 148
44526469 AACCCCTACT
44526479 CTTTTATTGGAAGCAAATTAAAAATGTTTGAAACTAATAAGACTAAAGGGTAAAAAAATCTTAAT
1 CTTTTATTGGAAGCAAATTAAAAATGTTTGAAACTAATAAGACTAAAGGGTAAAAAAATCTTAAT
44526544 AACAAATTTTTAAAAAAATCAATTAAGTCCTTTTTAATTTTAAAAATTATTTAAAAGCAAAAAAT
66 AACAAATTTTTAAAAAAATCAATTAAGTCCTTTTTAATTTTAAAAATTATTTAAAAGCAAAAAAT
44526609 TTATAAAAATATAAAAAA
131 TTATAAAAATATAAAAAA
44526627 CTTTTATTGG-AGCAAATTAAAAATGTTTGAAACTAATAAGACTAAAGGGTAAAAAAATCTTAAT
1 CTTTTATTGGAAGCAAATTAAAAATGTTTGAAACTAATAAGACTAAAGGGTAAAAAAATCTTAAT
44526691 AACAAATTTTTAAAAAAATCAATTAAAG-CCTTTTTAATTTTAAAAATTATTTAAAAGCAAAAAA
66 AACAAATTTTTAAAAAAATCAATT-AAGTCCTTTTTAATTTTAAAAATTATTTAAAAGCAAAAAA
44526755 TTTATAAAAATATAAAAAA
130 TTTATAAAAATATAAAAAA
44526774 ATTTATTAAA
Statistics
Matches: 146, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
147 133 0.91
148 13 0.09
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (148 bp):
CTTTTATTGGAAGCAAATTAAAAATGTTTGAAACTAATAAGACTAAAGGGTAAAAAAATCTTAAT
AACAAATTTTTAAAAAAATCAATTAAGTCCTTTTTAATTTTAAAAATTATTTAAAAGCAAAAAAT
TTATAAAAATATAAAAAA
Found at i:44526774 original size:20 final size:20
Alignment explanation
Indices: 44526749--44526795 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
44526739 ATTTAAAAGC
44526749 AAAAAATTTA-TAAAAATATA
1 AAAAAATTTATTAAAAA-ATA
44526769 AAAAAATTTATTAAAAAATA
1 AAAAAATTTATTAAAAAATA
*
44526789 ACAAAAT
1 AAAAAAT
44526796 CGACCTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 19 0.76
21 6 0.24
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAATTTATTAAAAAATA
Found at i:44531236 original size:660 final size:660
Alignment explanation
Indices: 44529959--44531261 Score: 1835
Period size: 660 Copynumber: 2.0 Consensus size: 660
44529949 CTCTCAAAAT
* ** * * *
44529959 GCTTCAGGGCAGTCATATGAATGGAAGTAGGACAATGCATAAATTGACATATTCGATTAACAGCA
1 GCTTCAGAGCAGTCATATGAACAGAAGTAGGACAATGCATAAACTGACATATCCGATTAACAACA
* * *
44530024 TAGACAACATCAGGCCGCGTAAGAGTGACATACTGTAATGCTCCTGCAAGACTCCTGTATTCAGT
66 TAGACAACATCAAGCCGCGTAAGAGTAACATACTGTAATACTCCTGCAAGACTCCTGTATTCAGT
* ** * * *
44530089 CGGATCCTGTAGCCGCTCACCACCATCGCGAGTCATAACAGAGGAACTAACCATCGGTGTATGAA
131 CGGATCCTCTAAACGCTCACCACCATCGCGAGCCATAACAAAAGAACTAACCATCGGTGTATGAA
* * * *
44530154 CACTCTTTGCATTCTCCATCGAACAACGTATAAAAATATCACGTATATACTTCTTCTGACAGAGA
196 AACTCTTCGCATTCTCCATCGAACAACGAATAAAAATATCACGTATATACTTATTCTGACAGAGA
* *
44530219 TGAAGGCAACCTGATGAAGAACGATTAACCTCTATCCCAAGAAAATAATGAAGATCACCCATGTC
261 TGAAGACAACCTGATGAAGAACGAGTAACCTCTATCCCAAGAAAATAATGAAGATCACCCATGTC
*
44530284 CTTAAGCGAGAACTCACTATTCAGCAAATTAACAAACCACTCTATAACAGAAGGCATAGCACCAG
326 CTTAAGCGAGAACTCACTATTCAGCAAATTAACAAACCACTCTATAACAGAAGGCACAGCACCAG
* * * * * * * *
44530349 TAATAATAATATCATCAACGTACACAAGCACATACAATGTTGAAGCTGGTACAACTCGAACAAAT
391 TAACAATAATATCATCAACATACACAAGAACATACAACGTTGAACCTGATACAACCCGAACAAAC
* *
44530414 AAGGAAGCATCAGACTTTGAAACCACAAACCCCACAGAGACTAGAAACCTTTTTAGCTTCTCAAA
456 AAGGAAGCATCAGACTTCGAAACAACAAACCCCACAGAGACTAGAAACCTTTTTAGCTTCTCAAA
*
44530479 CCAGGCACAAGGAGCCTGACAAAGACCATACAACGCTTTCTTCAGACGGCACACCAAAGGTCTGC
521 CCAGGCACAAGGAGCCTGACAAAGACCATACAACGCTTTCTTCAGACGACACACCAAAGGTCTGC
* * * * *
44530544 CATCTGAGCCATATTGAACATAACCGGGAGGTTGATGCATAAAAACTTCAGTGTCAAGTAGATAT
586 CATCGGAACCATACTGAACATAACCAGGAGGTTGATGCATAAAAACTTCAGTATCAAGTAGATAT
44530609 CGCAAAATGC
651 CGCAAAATGC
*
44530619 GCTTCAGAGCAGTCATATGAACAGAAGT-GGAACAATGCATAAACTGACATATCCGATTTACAAC
1 GCTTCAGAGCAGTCATATGAACAGAAGTAGG-ACAATGCATAAACTGACATATCCGATTAACAAC
* *
44530683 ATATG-CAACATCAAGCCTCGTAAGAGTAACATACTGTAATACT-CTGGCAAGGCTCCTGTATTC
65 ATA-GACAACATCAAGCCGCGTAAGAGTAACATACTGTAATACTCCT-GCAAGACTCCTGTATTC
* * * * * *
44530746 AGTCGGATCCTCTAAACGCTCATCATCATCTCTAGCCATGACAAAAGAACTAATCATCGGTGTAT
128 AGTCGGATCCTCTAAACGCTCACCACCATCGCGAGCCATAACAAAAGAACTAACCATCGGTGTAT
* *
44530811 GAAAACTCTTCGCATTTTCCATCGAA-AACCGAATAAGAATATCACGTATATACTTATTCTGACA
193 GAAAACTCTTCGCATTCTCCATCGAACAA-CGAATAAAAATATCACGTATATACTTATTCTGACA
* * * **
44530875 GAGATGAAGACATCCTGATGAAGAACGAGTAACTTCTATCCCAAGAAAATAGTGAAGATCTTCCA
257 GAGATGAAGACAACCTGATGAAGAACGAGTAACCTCTATCCCAAGAAAATAATGAAGATCACCCA
* * *
44530940 TGTCCTTAAGCGAGAACTCACTATTCAG-TAATTGAACAAACCACTCTATAACAGAGGGCACATC
322 TGTCCTTAAGCGAGAACTCACTATTCAGCAAATT-AACAAACCACTCTATAACAGAAGGCACAGC
* * **
44531004 ACCTGTAACAATAATATCATCAACATACACAAGAATATACAACGTTGAACCTGATATGACCCGAA
386 ACCAGTAACAATAATATCATCAACATACACAAGAACATACAACGTTGAACCTGATACAACCCGAA
* * * * *
44531069 CAAACAAGGAAGCATCCGACTTCGACACAACAAAGCCCATAGATACTAGAAATCC-TTTTAGCTT
451 CAAACAAGGAAGCATCAGACTTCGAAACAACAAACCCCACAGAGACTAGAAA-CCTTTTTAGCTT
* * * * *
44531133 CTCAAACCAGGCACGAGGAGCCTGACGAAGACCATACAACGCTTTCTTCAGATGACATACCAGAG
515 CTCAAACCAGGCACAAGGAGCCTGACAAAGACCATACAACGCTTTCTTCAGACGACACACCAAAG
* * * *
44531198 GTCTGCCATCGGAACCATACTGGACATAGCCAGGAGGTTGATGCATGAAGACTTCAGTATCAAG
580 GTCTGCCATCGGAACCATACTGAACATAACCAGGAGGTTGATGCATAAAAACTTCAGTATCAAG
44531262 ATCTCCATTT
Statistics
Matches: 562, Mismatches: 75, Indels: 12
0.87 0.12 0.02
Matches are distributed among these distances:
659 10 0.02
660 549 0.98
661 3 0.01
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.22
Consensus pattern (660 bp):
GCTTCAGAGCAGTCATATGAACAGAAGTAGGACAATGCATAAACTGACATATCCGATTAACAACA
TAGACAACATCAAGCCGCGTAAGAGTAACATACTGTAATACTCCTGCAAGACTCCTGTATTCAGT
CGGATCCTCTAAACGCTCACCACCATCGCGAGCCATAACAAAAGAACTAACCATCGGTGTATGAA
AACTCTTCGCATTCTCCATCGAACAACGAATAAAAATATCACGTATATACTTATTCTGACAGAGA
TGAAGACAACCTGATGAAGAACGAGTAACCTCTATCCCAAGAAAATAATGAAGATCACCCATGTC
CTTAAGCGAGAACTCACTATTCAGCAAATTAACAAACCACTCTATAACAGAAGGCACAGCACCAG
TAACAATAATATCATCAACATACACAAGAACATACAACGTTGAACCTGATACAACCCGAACAAAC
AAGGAAGCATCAGACTTCGAAACAACAAACCCCACAGAGACTAGAAACCTTTTTAGCTTCTCAAA
CCAGGCACAAGGAGCCTGACAAAGACCATACAACGCTTTCTTCAGACGACACACCAAAGGTCTGC
CATCGGAACCATACTGAACATAACCAGGAGGTTGATGCATAAAAACTTCAGTATCAAGTAGATAT
CGCAAAATGC
Found at i:44538888 original size:72 final size:72
Alignment explanation
Indices: 44538748--44538896 Score: 255
Period size: 72 Copynumber: 2.1 Consensus size: 72
44538738 ACTTGATGAC
* *
44538748 ACCACTCAAGTTGTTTGATGACAAATCAAGTGAAGTAAGGTTCACAAGATCAAAAATGGAATCTG
1 ACCACTCAAGTTGTTCGATGACAAATCAAGTGAAGTAAGGTTCACAAGATCAAAAATGGAATCCG
*
44538813 GTATTGG
66 GTATTGA
44538820 ACCACTCAAGTTGTTCGATGACAAATCAAGTGAAGTAAGGTTCACAAGATCAAAAATGGAA-CAC
1 ACCACTCAAGTTGTTCGATGACAAATCAAGTGAAGTAAGGTTCACAAGATCAAAAATGGAATC-C
44538884 GGTATTGA
65 GGTATTGA
44538892 ACCAC
1 ACCAC
44538897 CAATGTTATT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
71 1 0.01
72 72 0.99
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (72 bp):
ACCACTCAAGTTGTTCGATGACAAATCAAGTGAAGTAAGGTTCACAAGATCAAAAATGGAATCCG
GTATTGA
Found at i:44540352 original size:12 final size:12
Alignment explanation
Indices: 44540335--44540361 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
44540325 CAATTCAGCC
44540335 CCACAAAATTAG
1 CCACAAAATTAG
44540347 CCACAAAATTAG
1 CCACAAAATTAG
44540359 CCA
1 CCA
44540362 TTGACTAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.07, T:0.15
Consensus pattern (12 bp):
CCACAAAATTAG
Found at i:44542882 original size:42 final size:43
Alignment explanation
Indices: 44542784--44542884 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
44542774 TTATATAAAC
* * *
44542784 GGCACTAAGTGCGCGGAACTAAAATGATGAGGTTGAATAAAAG
1 GGCACTAAGTGTGCGAAACTAAAATGATGAGATTGAATAAAAG
* * *
44542827 GGCACTAAGTGTGCGAAATTAAAATGGA-GATATTGAAT-AACG
1 GGCACTAAGTGTGCGAAACTAAAAT-GATGAGATTGAATAAAAG
44542869 GGCACTAAGTGTGCGA
1 GGCACTAAGTGTGCGA
44542885 TACCGGGAGC
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 19 0.37
43 30 0.59
44 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.21
Consensus pattern (43 bp):
GGCACTAAGTGTGCGAAACTAAAATGATGAGATTGAATAAAAG
Found at i:44543606 original size:260 final size:263
Alignment explanation
Indices: 44543129--44543652 Score: 1018
Period size: 260 Copynumber: 2.0 Consensus size: 263
44543119 ATAATTGTGA
44543129 ATTATATGCATTTATATATATATATGAATATGATTGCATTTTTCGGTTTTGTTATTGAATTATTA
1 ATTATATGCATTTATATATATATATGAATATGATTGCATTTTTCGGTTTTGTTATTGAATTATTA
44543194 ACATTATTGAATTGTCTATTTGATTATGACTTACTAAGCTATGATAGCTTATGGTGTATGTGTGT
66 ACATTATTGAATTGTCTATTTGATTATGACTTACTAAGCTATGATAGCTTATGGTG-ATGTGTGT
44543259 TTTCTTCAGTTTATAGATTTTGAAAGCTAGTTACGGGCTCGGGAATCGTCAGCAAAGTCAATCAC
130 TTTCTTCAGTTTATAGATTTTGAAAGCTAGTTACGGGCTCGGGAATCGTCAGCAAAGTCAATCAC
44543324 ACTATCATCCGTTCATCGGTATTTATAAAAGTTAAATGTAAACTCTATGGCATGTATAGGCTATA
195 ACTATCATCCGTTCATCGGTATTTATAAAAGTTAAATGTAAACTCTATGGCATGTATAGGCTATA
44543389 CTAT
260 CTAT
44543393 ATTATATGCA-TT-TATATATATATGAATATGATTGCATTTTTCGGTTTTGTTATTGAATTATTA
1 ATTATATGCATTTATATATATATATGAATATGATTGCATTTTTCGGTTTTGTTATTGAATTATTA
44543456 ACATTATTGAATTGTCTATTTGATTATGACTTACTAAGCTATGATAGCTTATGGTG-TGTGTGTT
66 ACATTATTGAATTGTCTATTTGATTATGACTTACTAAGCTATGATAGCTTATGGTGATGTGTGTT
44543520 TTCTTCAGTTTATAGATTTTGAAAGCTAGTTACGGGCTCGGGAATCGTCAGCAAAGTCAATCACA
131 TTCTTCAGTTTATAGATTTTGAAAGCTAGTTACGGGCTCGGGAATCGTCAGCAAAGTCAATCACA
44543585 CTATCATCCGTTCATCGGTATTTATAAAAGTTAAATGTAAACTCTATGGCATGTATAGGCTATAC
196 CTATCATCCGTTCATCGGTATTTATAAAAGTTAAATGTAAACTCTATGGCATGTATAGGCTATAC
44543650 TAT
261 TAT
44543653 CTTTTGAATA
Statistics
Matches: 260, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
260 141 0.54
262 107 0.41
263 2 0.01
264 10 0.04
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.41
Consensus pattern (263 bp):
ATTATATGCATTTATATATATATATGAATATGATTGCATTTTTCGGTTTTGTTATTGAATTATTA
ACATTATTGAATTGTCTATTTGATTATGACTTACTAAGCTATGATAGCTTATGGTGATGTGTGTT
TTCTTCAGTTTATAGATTTTGAAAGCTAGTTACGGGCTCGGGAATCGTCAGCAAAGTCAATCACA
CTATCATCCGTTCATCGGTATTTATAAAAGTTAAATGTAAACTCTATGGCATGTATAGGCTATAC
TAT
Found at i:44545421 original size:3 final size:3
Alignment explanation
Indices: 44545413--44545438 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
44545403 AATTTGACCA
44545413 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
44545439 TTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:44550828 original size:22 final size:22
Alignment explanation
Indices: 44550786--44550829 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44550776 ATTATAAATC
*
44550786 ATAAAAAAAACGAAAATAAAAA
1 ATAAAAAAAACGAAAACAAAAA
* *
44550808 ATAAAAAAAGCGGAAACAAAAA
1 ATAAAAAAAACGAAAACAAAAA
44550830 GCTCGAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.77, C:0.07, G:0.09, T:0.07
Consensus pattern (22 bp):
ATAAAAAAAACGAAAACAAAAA
Found at i:44557646 original size:19 final size:19
Alignment explanation
Indices: 44557622--44557734 Score: 172
Period size: 19 Copynumber: 5.8 Consensus size: 19
44557612 AATTTTTGAG
*
44557622 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
44557641 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
44557660 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44557679 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
**
44557700 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
44557719 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
44557735 AGATATGATT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
19 66 0.78
21 19 0.22
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:44557664 original size:38 final size:38
Alignment explanation
Indices: 44557622--44557757 Score: 182
Period size: 40 Copynumber: 3.4 Consensus size: 38
44557612 AATTTTTGAG
*
44557622 GATATGTAATCTTAGATATGATATGCAATCCTAGATAT
1 GATATGTAATCTTAGATATGATATGCAATCTTAGATAT
*
44557660 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGTAATCTTAGATATG--ATATGCAATCTTAGATAT
*
44557700 GATATATAATCTTAGATATGATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAGATATGATATGCAATCTT---AGATAT
*
44557741 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
44557758 GATACCCTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
38 31 0.36
40 35 0.41
41 8 0.09
42 12 0.14
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (38 bp):
GATATGTAATCTTAGATATGATATGCAATCTTAGATAT
Found at i:44557692 original size:59 final size:59
Alignment explanation
Indices: 44557623--44557734 Score: 188
Period size: 59 Copynumber: 1.9 Consensus size: 59
44557613 ATTTTTGAGG
* *
44557623 ATATGTAATCTTAGATATGATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
* *
44557682 ATATGCAATCTTAGATATGATATATAATCTTAGATATGATATGCAATCTTAGA
1 ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGA
44557735 AGATATGATT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (59 bp):
ATATGCAATCTTAGATATGATATACAATCCTAGATATGATATGCAATCTTAGATATGAT
Found at i:44557756 original size:23 final size:21
Alignment explanation
Indices: 44557622--44557761 Score: 127
Period size: 19 Copynumber: 7.0 Consensus size: 21
44557612 AATTTTTGAG
*
44557622 GATATGTAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
44557641 GATATGCAATCCT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
44557660 GATATGCAATCTTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
44557682 -ATATGCAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
**
44557700 GATATATAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
44557719 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
44557741 GATTTTGTAATCTTAGAGATA
1 GA-TATGCAATCTTAGAGATA
44557762 CCCTTTAATC
Statistics
Matches: 102, Mismatches: 11, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
18 2 0.02
19 59 0.58
21 15 0.15
22 15 0.15
23 11 0.11
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:44561097 original size:20 final size:21
Alignment explanation
Indices: 44561058--44561099 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
44561048 TAGCATGTGT
*
44561058 GGGATTGAAATTAAATTTTTAA
1 GGGATTAAAATT-AATTTTTAA
44561080 GGGATTAAAATT-ATTTTTAA
1 GGGATTAAAATTAATTTTTAA
44561100 AGAATTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (21 bp):
GGGATTAAAATTAATTTTTAA
Found at i:44564029 original size:11 final size:11
Alignment explanation
Indices: 44564015--44564053 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
44564005 ATTTTGATGA
*
44564015 AAAGAAAAGGG
1 AAAGAAAAGAG
44564026 AAAGAAAAGAG
1 AAAGAAAAGAG
*
44564037 AAAGAAGAAGAT
1 AAAGAA-AAGAG
44564049 AAAGA
1 AAAGA
44564054 GAGTTGTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 16 0.64
12 9 0.36
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (11 bp):
AAAGAAAAGAG
Found at i:44565702 original size:33 final size:33
Alignment explanation
Indices: 44565631--44565705 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
44565621 CAGCTAACGC
* *
44565631 TACACCCTCCTTGTTTATCTTTTCCCCTAAACT
1 TACACCCTCCTTATTTATCTTTTCACCTAAACT
* * *
44565664 CACACCCTCCTTATTTATCTTTTCAGCT-CACTT
1 TACACCCTCCTTATTTATCTTTTCACCTAAAC-T
44565697 TACACCCTC
1 TACACCCTC
44565706 ATTAACTACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
32 2 0.06
33 33 0.94
ACGTcount: A:0.19, C:0.39, G:0.03, T:0.40
Consensus pattern (33 bp):
TACACCCTCCTTATTTATCTTTTCACCTAAACT
Found at i:44577317 original size:19 final size:20
Alignment explanation
Indices: 44577281--44577318 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
44577271 ATATTTTTAT
* *
44577281 AAATATTTTTTTCATTTAAA
1 AAATAATTTATTCATTTAAA
44577301 AAATAATTTATTC-TTTAA
1 AAATAATTTATTCATTTAA
44577319 GAAACTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATAATTTATTCATTTAAA
Found at i:44579164 original size:17 final size:20
Alignment explanation
Indices: 44579123--44579167 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
44579113 TATAGGTAAT
*
44579123 TTATTAAATTAGTTTCTCTA
1 TTATTAATTTAGTTTCTCTA
44579143 TTATTAATTTAG-TTCT-TA
1 TTATTAATTTAGTTTCTCTA
44579161 -TATTAAT
1 TTATTAAT
44579168 AAAAAAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 7 0.29
18 2 0.08
19 4 0.17
20 11 0.46
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (20 bp):
TTATTAATTTAGTTTCTCTA
Found at i:44579598 original size:10 final size:10
Alignment explanation
Indices: 44579566--44579608 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
44579556 TAAAAAAAAT
44579566 ATACACT-AA
1 ATACACTAAA
*
44579575 ATGCACTAAAA
1 ATACACT-AAA
*
44579586 ATACGCTAAA
1 ATACACTAAA
44579596 ATACACTAAA
1 ATACACTAAA
44579606 ATA
1 ATA
44579609 AAAGTTTTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
9 6 0.21
10 15 0.54
11 7 0.25
ACGTcount: A:0.56, C:0.19, G:0.05, T:0.21
Consensus pattern (10 bp):
ATACACTAAA
Found at i:44579702 original size:39 final size:40
Alignment explanation
Indices: 44579633--44579725 Score: 125
Period size: 39 Copynumber: 2.3 Consensus size: 40
44579623 CATTAAAAAG
* * *
44579633 TATTCATATTAAAAAAACACTACATTAATATAATAAATGTTT
1 TATT-ATATT-AAAAAACACTAAATAAATATAATAAATATTT
44579675 TATTATATTAAAAAACAC-AAATAAATATAATAAATATTT
1 TATTATATTAAAAAACACTAAATAAATATAATAAATATTT
*
44579714 TATTGTATTAAA
1 TATTATATTAAA
44579726 TATAAATTTT
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
39 29 0.62
40 9 0.19
41 5 0.11
42 4 0.09
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (40 bp):
TATTATATTAAAAAACACTAAATAAATATAATAAATATTT
Found at i:44586462 original size:5 final size:5
Alignment explanation
Indices: 44586454--44586479 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44586444 TAAATGAAAT
44586454 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
44586480 CGGATTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:44591036 original size:17 final size:16
Alignment explanation
Indices: 44591011--44591045 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
44591001 TACAACATCC
44591011 AAACAAATAAAATATAA
1 AAACAAATAAAAT-TAA
*
44591028 AAACGAATAAAATTAA
1 AAACAAATAAAATTAA
44591044 AA
1 AA
44591046 CATTCATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.17
Consensus pattern (16 bp):
AAACAAATAAAATTAA
Found at i:44591454 original size:26 final size:26
Alignment explanation
Indices: 44591417--44591474 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
44591407 GATGTGCAAG
* *
44591417 TATATATGTATA-AAAAG-TGTAGAA
1 TATATATATATATAAAAGTTATAGAA
*
44591441 TATATATATATATATAAGTTATAGAA
1 TATATATATATATAAAAGTTATAGAA
44591467 TATATATA
1 TATATATA
44591475 AAAATATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.38
25 4 0.14
26 14 0.48
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (26 bp):
TATATATATATATAAAAGTTATAGAA
Found at i:44592975 original size:43 final size:42
Alignment explanation
Indices: 44592927--44593035 Score: 175
Period size: 43 Copynumber: 2.6 Consensus size: 42
44592917 CTTTTTTAGG
* *
44592927 CCTTTAGCGGCACTTCTGTCGCAAACGCCGCTAAAGACCACGA
1 CCTTTAGCGGCGCTT-TGTCGCAAACGCCGCTAAAGACCACAA
44592970 CCTTTAGCGGCGCTTTTGTCGCAAACGCCGCTAAAGACCACAA
1 CCTTTAGCGGCGC-TTTGTCGCAAACGCCGCTAAAGACCACAA
44593013 CCTTTAGCGGCGCTTT-TCGCAAA
1 CCTTTAGCGGCGCTTTGTCGCAAA
44593036 AAACGCCGCT
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
41 7 0.11
42 3 0.05
43 51 0.81
44 2 0.03
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.22
Consensus pattern (42 bp):
CCTTTAGCGGCGCTTTGTCGCAAACGCCGCTAAAGACCACAA
Found at i:44593972 original size:8 final size:8
Alignment explanation
Indices: 44593948--44593984 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
44593938 GCTTCCTTTG
44593948 TTATATATA
1 TTAT-TATA
44593957 TT-TTATA
1 TTATTATA
44593964 TTATTATA
1 TTATTATA
44593972 TTATTATA
1 TTATTATA
44593980 -TATTA
1 TTATTA
44593985 ATTTACTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 11 0.41
8 14 0.52
9 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TTATTATA
Found at i:44594040 original size:56 final size:56
Alignment explanation
Indices: 44593968--44594076 Score: 191
Period size: 56 Copynumber: 1.9 Consensus size: 56
44593958 TTTATATTAT
44593968 TATATTATTATATATTAATTTACTTTAAACTTCACATGATGGTTTATATAAATTTA
1 TATATTATTATATATTAATTTACTTTAAACTTCACATGATGGTTTATATAAATTTA
* * *
44594024 TATATTTTTTTATATTAATTTAGTTTAAACTTCACATGATGGTTTATATAAAT
1 TATATTATTATATATTAATTTACTTTAAACTTCACATGATGGTTTATATAAAT
44594077 GGAATGTGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.51
Consensus pattern (56 bp):
TATATTATTATATATTAATTTACTTTAAACTTCACATGATGGTTTATATAAATTTA
Found at i:44601664 original size:174 final size:175
Alignment explanation
Indices: 44601359--44601712 Score: 692
Period size: 174 Copynumber: 2.0 Consensus size: 175
44601349 AAAATTTAAA
*
44601359 TTTTAATATATTTATTAATATGGATTATTTACGTTATTTTACCTTTTATACGGAGATGCCATATG
1 TTTTTATATATTTATTAATATGGATTATTTACGTTATTTTACCTTTTATACGGAGATGCCATATG
44601424 TTATCATAAAAGTGTTCTTACTTGTTACGTTAGCATCTGTTAATGGAAATCATCAACAGAAAAAC
66 TTATCATAAAAGTGTTCTTACTTGTTACGTTAGCATCTGTTAATGGAAATCATCAACAGAAAAAC
44601489 TCAATTAATTTAATTTTGATAATTGAAGGCTCAATTGTGTGCAAT
131 TCAATTAATTTAATTTTGATAATTGAAGGCTCAATTGTGTGCAAT
44601534 TTTTTATATATTTA-TAATATGGATTATTTACGTTATTTTACCTTTTATACGGAGATGCCATATG
1 TTTTTATATATTTATTAATATGGATTATTTACGTTATTTTACCTTTTATACGGAGATGCCATATG
44601598 TTATCATAAAAGTGTTCTTACTTGTTACGTTAGCATCTGTTAATGGAAATCATCAACAGAAAAAC
66 TTATCATAAAAGTGTTCTTACTTGTTACGTTAGCATCTGTTAATGGAAATCATCAACAGAAAAAC
44601663 TCAATTAATTTAATTTTGATAATTGAAGGCTCAATTGTGTGCAAT
131 TCAATTAATTTAATTTTGATAATTGAAGGCTCAATTGTGTGCAAT
44601708 TTTTT
1 TTTTT
44601713 TAATAAATTA
Statistics
Matches: 178, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
174 165 0.93
175 13 0.07
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (175 bp):
TTTTTATATATTTATTAATATGGATTATTTACGTTATTTTACCTTTTATACGGAGATGCCATATG
TTATCATAAAAGTGTTCTTACTTGTTACGTTAGCATCTGTTAATGGAAATCATCAACAGAAAAAC
TCAATTAATTTAATTTTGATAATTGAAGGCTCAATTGTGTGCAAT
Found at i:44603037 original size:28 final size:29
Alignment explanation
Indices: 44602986--44603044 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
44602976 AATGTAACCC
44602986 ATTTTCCAAATGGAAAATGTTTTCCGCCA
1 ATTTTCCAAATGGAAAATGTTTTCCGCCA
*
44603015 ATTTTCCAAAT-GAAAATGTTTTCCTCCA
1 ATTTTCCAAATGGAAAATGTTTTCCGCCA
44603043 AT
1 AT
44603045 CAAACGCTGG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 18 0.62
29 11 0.38
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.37
Consensus pattern (29 bp):
ATTTTCCAAATGGAAAATGTTTTCCGCCA
Found at i:44606046 original size:26 final size:26
Alignment explanation
Indices: 44606015--44606136 Score: 99
Period size: 26 Copynumber: 4.6 Consensus size: 26
44606005 TGGATATTCC
44606015 GAAGCTTGTGTGAGCAATCATCAAACT
1 GAAGCTTGTGTGAGCAATCAT-AAACT
* * *
44606042 -AAGCTTGTATGAGCAATCCTAATCT
1 GAAGCTTGTGTGAGCAATCATAAACT
*
44606067 GAAGCTTGTGTGAGCAA-CCTAAA-T
1 GAAGCTTGTGTGAGCAATCATAAACT
*
44606091 ACGAAGGCTTGTGTGAGCCATTTCATAAA-T
1 --GAA-GCTTGTGTGAG-CA-ATCATAAACT
*
44606121 AAAAGCTTGTGTGAGC
1 -GAAGCTTGTGTGAGC
44606137 GAAATAGTCT
Statistics
Matches: 79, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.01
25 9 0.11
26 36 0.46
27 12 0.15
28 13 0.16
29 2 0.03
30 6 0.08
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (26 bp):
GAAGCTTGTGTGAGCAATCATAAACT
Found at i:44624900 original size:14 final size:13
Alignment explanation
Indices: 44624859--44624901 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
44624849 TGGTTTATTG
*
44624859 ATTTATTTTGTTT
1 ATTTATTTTTTTT
*
44624872 GTTTATTTTTCTTT
1 ATTTATTTTT-TTT
44624886 ATTTATTTCTTTTT
1 ATTTATTT-TTTTT
44624900 AT
1 AT
44624902 CTCTTCAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 8 0.32
14 15 0.60
15 2 0.08
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (13 bp):
ATTTATTTTTTTT
Found at i:44628871 original size:19 final size:19
Alignment explanation
Indices: 44628827--44628873 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
44628817 CTAAACCAAG
44628827 ACTAATTTTTATTTTTCAC
1 ACTAATTTTTATTTTTCAC
* *
44628846 ATTTAA-TTTTATATTTTCAT
1 A-CTAATTTTTAT-TTTTCAC
44628866 ACTAATTT
1 ACTAATTT
44628874 CCCTTTAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.30, C:0.11, G:0.00, T:0.60
Consensus pattern (19 bp):
ACTAATTTTTATTTTTCAC
Found at i:44631854 original size:63 final size:63
Alignment explanation
Indices: 44631766--44631909 Score: 191
Period size: 63 Copynumber: 2.3 Consensus size: 63
44631756 GTGGCAAGCT
* * *
44631766 GTGTAACTCACTATTTTGAATTTAGGATTACACAGGCTAGAGACACAAGTGTGTGTCCAGGCC
1 GTGTAACTCACTGTTTTGAATTTAGGATCACACAGGCTAGAGACACAAGCGTGTGTCCAGGCC
* * ***
44631829 GTGTAACTCACTGTTTGTGAA-TTAGGGTCACACGGGCTAGAGACATGGGCGTGTGTCCAGGCC
1 GTGTAACTCACTGTTT-TGAATTTAGGATCACACAGGCTAGAGACACAAGCGTGTGTCCAGGCC
*
44631892 ATGTAACTCACTGTTTTG
1 GTGTAACTCACTGTTTTG
44631910 GGAATTTGAG
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
62 2 0.03
63 65 0.92
64 4 0.06
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (63 bp):
GTGTAACTCACTGTTTTGAATTTAGGATCACACAGGCTAGAGACACAAGCGTGTGTCCAGGCC
Found at i:44632552 original size:28 final size:28
Alignment explanation
Indices: 44632520--44632574 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
44632510 TATCTGAATT
44632520 TGTAACTGTATCTAATATGTTCTGTATC
1 TGTAACTGTATCTAATATGTTCTGTATC
*
44632548 TGTAACTGTATCTGATATGTTCTGTAT
1 TGTAACTGTATCTAATATGTTCTGTAT
44632575 TCGTTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (28 bp):
TGTAACTGTATCTAATATGTTCTGTATC
Found at i:44632574 original size:16 final size:16
Alignment explanation
Indices: 44632525--44632574 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
44632515 GAATTTGTAA
*
44632525 CTGTATCTAATATGTT
1 CTGTATCTGATATGTT
*
44632541 CTGTATCTG-TA---A
1 CTGTATCTGATATGTT
44632553 CTGTATCTGATATGTT
1 CTGTATCTGATATGTT
44632569 CTGTAT
1 CTGTAT
44632575 TCGTTTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
15 2 0.07
16 14 0.52
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (16 bp):
CTGTATCTGATATGTT
Found at i:44634167 original size:27 final size:26
Alignment explanation
Indices: 44634102--44634167 Score: 60
Period size: 27 Copynumber: 2.5 Consensus size: 26
44634092 TTGGGGTTTG
44634102 GGAAAAAGTAAAAGATTTGGGGGAAA
1 GGAAAAAGTAAAAGATTTGGGGGAAA
* ** * ***
44634128 GCAAAAACAAAAATGTTTTGGGGGCTT
1 GGAAAAAGTAAAA-GATTTGGGGGAAA
44634155 GGAAAAAGTAAAA
1 GGAAAAAGTAAAA
44634168 AGGAAAAAAA
Statistics
Matches: 29, Mismatches: 10, Indels: 1
0.73 0.25 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.48, C:0.05, G:0.29, T:0.18
Consensus pattern (26 bp):
GGAAAAAGTAAAAGATTTGGGGGAAA
Found at i:44635331 original size:15 final size:16
Alignment explanation
Indices: 44635311--44635345 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
44635301 GGACTTAATG
44635311 AATATAA-AAAAATTA
1 AATATAATAAAAATTA
44635326 AATATAATAAAAATTA
1 AATATAATAAAAATTA
44635342 AATA
1 AATA
44635346 ATTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AATATAATAAAAATTA
Found at i:44639140 original size:62 final size:62
Alignment explanation
Indices: 44639051--44639173 Score: 203
Period size: 62 Copynumber: 2.0 Consensus size: 62
44639041 AAATGTCCGT
44639051 GTGTATGATTTCTAAAATTACAGAACTCCTTTTAGCATA-TTTCTTATTCTTGTTATGTCTGC
1 GTGTATGATTTCTAAAATTACAGAACTCCTTTTAGCATATTTTCTTATTCTTGTTA-GTCTGC
* *
44639113 GTGTATGGTTTCTAAAATTACAGAACTCCTTTTAGCATATTTTTTTTATTCTTGTTAGTCT
1 GTGTATGATTTCTAAAATTACAGAACTCCTTTTAGCATA-TTTTCTTATTCTTGTTAGTCT
44639174 AATCTCATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
62 38 0.67
63 4 0.07
64 15 0.26
ACGTcount: A:0.24, C:0.15, G:0.13, T:0.49
Consensus pattern (62 bp):
GTGTATGATTTCTAAAATTACAGAACTCCTTTTAGCATATTTTCTTATTCTTGTTAGTCTGC
Found at i:44639542 original size:244 final size:244
Alignment explanation
Indices: 44639105--44639658 Score: 665
Period size: 244 Copynumber: 2.3 Consensus size: 244
44639095 TATTCTTGTT
* * *
44639105 ATGTCTGCGTGTATGGTTTCTAAAATTAC-AGAACTCCTTTTAGCATATTTTTTTTATTCTTGTT
1 ATGTCTGTGTGTATGATTTCTAAAATT-CTAGAACTCCTTTTAGCATA--TTTCTTATTCTTGTT
* * * * *
44639169 AGTCTAATCTCATAATCTTAGTTTGCTTTTTGCATTGTTTCTCTACTTATGCTTTGTATACCTTA
63 AGTTTGATCTCATAATCTTAGTTTGCTTTTTACATTGTTTCTCTACTAATGCTTTGCATACCTTA
* * * *
44639234 AAAGCATCTAATGAATTAGTTTTATGATGAAGCAAGTAGAGATACATGTATCGAGAAAGATCATC
128 AAAGCAACTAATGAATCACTTTTATGATGAAGAAAGTAGAGATACATGTATCGAGAAAGATCATC
* * * * **
44639299 AATAAAGGTGATGAAATATTTTTTACCACTAGCATATATATTAAGGTTACAA
193 AATAAAGGTAATGAAATACTTTTAACCACTAACATATATATTAAGGCAACAA
* * *
44639351 ATGTCTGTGTGTAAGATGTCTAAAATTCTAGAACTCCTTTTAGCATATTTCTTGTTCTTGTTAGT
1 ATGTCTGTGTGTATGATTTCTAAAATTCTAGAACTCCTTTTAGCATATTTCTTATTCTTGTTAGT
* * * *
44639416 TTGATCTCATAATCTTAGTTTGGTTTTTACATTGTTTCTCTACTAATGTTTTGCATGCCTTAAAG
66 TTGATCTCATAATCTTAGTTTGCTTTTTACATTGTTTCTCTACTAATGCTTTGCATACCTTAAAA
** * * * * *
44639481 GCAACTAATGCCTCACTTTTGTGATGGAGAAATTAGAGATACATGTATTGCA-AATGATCATCAA
131 GCAACTAATGAATCACTTTTATGATGAAGAAAGTAGAGATACATGTATCG-AGAAAGATCATCAA
* * *
44639545 TAAAGGTAATGAAATACTTTTAATCACTAACATCTATATTAGGGCAACAA
195 TAAAGGTAATGAAATACTTTTAACCACTAACATATATATTAAGGCAACAA
* *
44639595 ATGT-TCGTATGTATGATTTCTAAAATT-TCAGAACTCC---TAGCAT-TTTCTTATTTTTGTTA
1 ATGTCT-GTGTGTATGATTTCTAAAATTCT-AGAACTCCTTTTAGCATATTTCTTATTCTTGTTA
44639654 GTTTG
64 GTTTG
44639659 CTTTCCTTTG
Statistics
Matches: 264, Mismatches: 40, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
240 19 0.07
241 6 0.02
243 2 0.01
244 194 0.73
245 2 0.01
246 41 0.16
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.41
Consensus pattern (244 bp):
ATGTCTGTGTGTATGATTTCTAAAATTCTAGAACTCCTTTTAGCATATTTCTTATTCTTGTTAGT
TTGATCTCATAATCTTAGTTTGCTTTTTACATTGTTTCTCTACTAATGCTTTGCATACCTTAAAA
GCAACTAATGAATCACTTTTATGATGAAGAAAGTAGAGATACATGTATCGAGAAAGATCATCAAT
AAAGGTAATGAAATACTTTTAACCACTAACATATATATTAAGGCAACAA
Found at i:44641184 original size:29 final size:29
Alignment explanation
Indices: 44641142--44641198 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
44641132 GTTCGGAAGA
*
44641142 AAAATTTATTTTTATATTATTTCATGGTT
1 AAAATTTATTTTTACATTATTTCATGGTT
44641171 AAAATTTATTTTTACATTATTTCATGGT
1 AAAATTTATTTTTACATTATTTCATGGT
44641199 CTTCATTATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.56
Consensus pattern (29 bp):
AAAATTTATTTTTACATTATTTCATGGTT
Found at i:44642569 original size:25 final size:24
Alignment explanation
Indices: 44642541--44642628 Score: 113
Period size: 25 Copynumber: 3.5 Consensus size: 24
44642531 TGACTCTTAT
*
44642541 GAGCTTCCCTATAATTGGCTCTTCG
1 GAGCTTCCCGATAA-TGGCTCTTCG
**
44642566 GAGCTTCCCGATAACTGGCTCTTAT
1 GAGCTTCCCGATAA-TGGCTCTTCG
*
44642591 GAGCTTCCCGATTAATGGCTCTCCG
1 GAGCTTCCCGA-TAATGGCTCTTCG
44642616 GAGCTTCCCGATA
1 GAGCTTCCCGATA
44642629 TTGACTCGCT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
24 2 0.04
25 50 0.91
26 3 0.05
ACGTcount: A:0.18, C:0.30, G:0.22, T:0.31
Consensus pattern (24 bp):
GAGCTTCCCGATAATGGCTCTTCG
Found at i:44642595 original size:50 final size:50
Alignment explanation
Indices: 44642534--44642628 Score: 156
Period size: 50 Copynumber: 1.9 Consensus size: 50
44642524 CTCATTATGA
* *
44642534 CTCTTATGAGCTTCCCTA-TAATTGGCTCTTCGGAGCTTCCCGATAACTGG
1 CTCTTATGAGCTTCCCGATTAA-TGGCTCTCCGGAGCTTCCCGATAACTGG
44642584 CTCTTATGAGCTTCCCGATTAATGGCTCTCCGGAGCTTCCCGATA
1 CTCTTATGAGCTTCCCGATTAATGGCTCTCCGGAGCTTCCCGATA
44642629 TTGACTCGCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 39 0.93
51 3 0.07
ACGTcount: A:0.18, C:0.29, G:0.20, T:0.33
Consensus pattern (50 bp):
CTCTTATGAGCTTCCCGATTAATGGCTCTCCGGAGCTTCCCGATAACTGG
Found at i:44644883 original size:31 final size:33
Alignment explanation
Indices: 44644846--44644910 Score: 91
Period size: 31 Copynumber: 2.0 Consensus size: 33
44644836 CGTTTTGTAC
*
44644846 TCTTTCTTCTTCTTT-CTT-TTT-ATTTTTCCTT
1 TCTTTCTTCTT-TTTACTTCTTTGATTTCTCCTT
44644877 TCTTTCTTCTTTTTACTTCTTTGATTTCTCCTT
1 TCTTTCTTCTTTTTACTTCTTTGATTTCTCCTT
44644910 T
1 T
44644911 TCGATTGTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 3 0.10
31 14 0.47
32 3 0.10
33 10 0.33
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.71
Consensus pattern (33 bp):
TCTTTCTTCTTTTTACTTCTTTGATTTCTCCTT
Found at i:44652840 original size:36 final size:36
Alignment explanation
Indices: 44652793--44652864 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
44652783 ATATTGTTGT
44652793 GCTTTTAGTTAAGTATTGATTTTTTGTGAAATTTAC
1 GCTTTTAGTTAAGTATTGATTTTTTGTGAAATTTAC
44652829 GCTTTTAGTTAAGTATTGATTTTTTGTGAAATTTAC
1 GCTTTTAGTTAAGTATTGATTTTTTGTGAAATTTAC
44652865 TTTAATGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.06, G:0.17, T:0.53
Consensus pattern (36 bp):
GCTTTTAGTTAAGTATTGATTTTTTGTGAAATTTAC
Found at i:44652883 original size:37 final size:35
Alignment explanation
Indices: 44652794--44652873 Score: 101
Period size: 36 Copynumber: 2.3 Consensus size: 35
44652784 TATTGTTGTG
* *
44652794 CTTTTAGTTAAGTATTGATTTTTTGTGAAATTTAC
1 CTTTTAATGAAGTATTGATTTTTTGTGAAATTTAC
* *
44652829 GCTTTTAGTTAAGTATTGATTTTTTGTGAAATTTA-
1 -CTTTTAATGAAGTATTGATTTTTTGTGAAATTTAC
44652864 C-TTTAATGAA
1 CTTTTAATGAA
44652874 TGATGTATTG
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
33 7 0.17
34 1 0.02
36 34 0.81
ACGTcount: A:0.28, C:0.05, G:0.15, T:0.53
Consensus pattern (35 bp):
CTTTTAATGAAGTATTGATTTTTTGTGAAATTTAC
Found at i:44655963 original size:3 final size:3
Alignment explanation
Indices: 44655934--44656022 Score: 69
Period size: 3 Copynumber: 30.0 Consensus size: 3
44655924 ATAGTAATCT
* * * * *
44655934 ATA ATA CTA AGA ATA ATA CTA AGA ATA ATA GTA A-A AT- ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
44655979 ATGA A-A ATA ATA ACA ATA GAGTA ATA ATA ATA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA
44656023 GCAAGCTAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 14
0.72 0.13 0.15
Matches are distributed among these distances:
2 8 0.12
3 53 0.79
4 4 0.06
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:44660186 original size:41 final size:41
Alignment explanation
Indices: 44660130--44660261 Score: 129
Period size: 41 Copynumber: 3.1 Consensus size: 41
44660120 GTTTTTAGTT
*
44660130 TGCTCCACTACAACTTCAGGGAGATAAGACTGGATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATC
* * ** ***
44660171 TGCTCTACTGCAACTTCAGAGAGATAAGATCTTTGTTTTTTAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGA-C--TG-GATGCGATC
* * *
44660216 CGCTCCACTGTAACTTCAGGGAGATAAGACTTGATGCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATC
44660257 TGCTC
1 TGCTC
44660262 TACTACTGCT
Statistics
Matches: 68, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
41 34 0.50
42 2 0.03
44 3 0.04
45 29 0.43
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (41 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGATC
Found at i:44660379 original size:82 final size:83
Alignment explanation
Indices: 44660274--44660485 Score: 417
Period size: 82 Copynumber: 2.6 Consensus size: 83
44660264 CTACTGCTTA
44660274 AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTACTCC
1 AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTACTCC
44660339 ACT-CTGCTTAGGGAGAT
66 ACTACTGCTTAGGGAGAT
44660356 AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTACTCC
1 AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTACTCC
44660421 ACTACTGCTTAGGGAGAT
66 ACTACTGCTTAGGGAGAT
44660439 AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGA
1 AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGA
44660486 TCGGTTTTTT
Statistics
Matches: 129, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 68 0.53
83 61 0.47
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.33
Consensus pattern (83 bp):
AAGATCGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTACTCC
ACTACTGCTTAGGGAGAT
Found at i:44660548 original size:83 final size:83
Alignment explanation
Indices: 44660417--44660696 Score: 359
Period size: 83 Copynumber: 3.3 Consensus size: 83
44660407 ATGTGATCTA
** * **
44660417 CTCCACTACTGCTTAGGGAGATAAGATCGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGATAAGA-C--TTGATGT-GATCTAATCCACTACTGCTTAGGGAGA
44660481 TAAGATCGGTTTTTTTCGTCCG
62 TAAGATCGGTTTTTTTCGTCCG
* *
44660503 CTCCACTACTACTTAGGGAGATAAGACTTGATGTGATCTAATCCACTACTGCTTAAGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTAATCCACTACTGCTTAGGGAGATAAG
* *
44660568 ATCGGTTTCTTTCGTCTG
66 ATCGGTTTTTTTCGTCCG
* *
44660586 CTCCACTACTGGTTAGGGAGATAAGACTTGATGTGATCTACTCCACTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTAATCCACTACTGCTTAGGGAGATAAG
*
44660651 ATCGATTTCTTTT-G-CCTG
66 ATCGGTTT-TTTTCGTCC-G
* *
44660669 CCCCACTACTGCTTAGGGAGATAGGACT
1 CTCCACTACTGCTTAGGGAGATAAGACT
44660697 GGTGGCTTAA
Statistics
Matches: 172, Mismatches: 19, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
82 2 0.01
83 141 0.82
84 3 0.02
85 1 0.01
86 25 0.15
ACGTcount: A:0.23, C:0.22, G:0.23, T:0.32
Consensus pattern (83 bp):
CTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTAATCCACTACTGCTTAGGGAGATAAG
ATCGGTTTTTTTCGTCCG
Found at i:44660770 original size:44 final size:43
Alignment explanation
Indices: 44660292--44661652 Score: 894
Period size: 44 Copynumber: 31.6 Consensus size: 43
44660282 TTTCTTTCGT
*** * *
44660292 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGAT-GT-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATCTTCGAC
* **** *
44660332 CTACTCCACT-CTGCTTAGGGAGATAAGATCGGTTTCTTTCG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATC-TTCGAC
*** * *
44660374 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGAT-GT-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATCTTCGAC
* **** *
44660414 CTACTCCACTACTGCTTAGGGAGATAAGATCGGTTTCTTTCG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATC-TTCGAC
**** * *
44660457 CTGCTCCACTACTGCTTAGGGAGATAAGATCGGTTTTTTTCGTC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *** * *
44660501 C-GCTCCACTACTACTTAGGGAGATAAGA-CTTGAT-GT-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATCTTCGAC
** * **** *
44660540 CTAATCCACTACTGCTTAAGGAGATAAGATCGGTTTCTTTCG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATC-TTCGAC
* *** * *
44660583 CTGCTCCACTACTGGTTAGGGAGATAAGA-CTTGAT-GT-GAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATCTTCGAC
* ** *
44660623 CTACTCCACTACTGCTTAGGGAGATAAGATCGA-TTTCTTTTG-C
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATC-TTCGAC
* * *** ** *
44660666 CTGCCCCACTACTGCTTAGGGAGATAGGA-C-TGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCAT--CTTCGAC
* * * *
44660709 CTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCACCATCTTCGAC
* *
44660753 CTGTTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
*
44660797 CTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *** ** *
44660841 CTGCT-CACTACTGCTTAGGGAGATAGGA-C-TGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCAT--CTTCGAC
* * * * * * *
44660883 CTTCTTCACTACTGCTGAGGAAGATAAGATTCGCCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCACCATCTTCGAC
*
44660927 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *
44660971 CTGCTCCACTACTGCTTAGGGAGATAAGAATTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAG-ATCACCATCTTCGAC
* * *** ** *
44661015 CTGCTCCACTACTACTTAGGGAGATAGGA-C-TGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCAT--CTTCGAC
* * * ** * * *
44661058 CTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCACCATCTTCGAC
*
44661102 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
*
44661146 CTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *** ** *
44661190 CTGCT-CACTACTGCTTAGGGAGATAGGA-C-TGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCAT--CTTCGAC
* * * * * * *
44661232 CTTCTTCACTACTGCTGAGGAAGATAAGATTCGCCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCACCATCTTCGAC
*
44661276 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *
44661320 CTGCTCCACTACTGCTTAGGGATATAGGATCTACCATCTTCGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* * *
44661364 CTGCTCCGCTACTGCTTAGGGAGATAGGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *
44661408 CTGCTCCACTACTGCTTAGGGAGATATGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* * *** ** *
44661452 CTGCTCCACTACTACTTAGGGAGATAGGA-C-TGGTGGCTTAAAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGATCACCAT--CTTCGAC
* * * ** * *
44661495 CTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-TCACCATCTTCGAC
*
44661539 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* * * *
44661583 CCGCTCCGCTACTGCTTAGGGAGATAGGATCTACCATCTTCAAC
1 CTGCTCCACTACTGCTTAGGGAGATAAGATC-ACCATCTTCGAC
* *
44661627 CTACTCCACTACTGCTTAGAGAGATA
1 CTGCTCCACTACTGCTTAGGGAGATA
44661653 GGACTGGTAG
Statistics
Matches: 1071, Mismatches: 192, Indels: 112
0.78 0.14 0.08
Matches are distributed among these distances:
39 22 0.02
40 96 0.09
41 11 0.01
42 37 0.03
43 315 0.29
44 571 0.53
45 7 0.01
46 12 0.01
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (43 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGATCACCATCTTCGAC
Found at i:44660852 original size:174 final size:174
Alignment explanation
Indices: 44660411--44661477 Score: 1306
Period size: 174 Copynumber: 6.2 Consensus size: 174
44660401 GACTTGATGT
* **** *
44660411 GATCTACTCCACTACTGCTTAGGGAGATAAGATC-GGTTTCTTTCG-TCTGCTCCACTACTGCTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTT-GACCTGCTCCACTACTGCTT
* ***** * * * * *
44660474 AGGGAGATAAGATCGGTTTTTTTCGTCC-GCTCCACTACTACTTAGGGAGATAAGACT--T-GAT
65 AGGGAGATAGGATCTACCATCTTCGACCTGCT-CACTACTGCTTAGGGAGATAGGACTGGTGGCT
* ** * ***
44660535 GT-GATCTAATCCACTACTGCTTAAGG-AGATAAGA-TCGGTTTCTTTC
129 -TAAATCTGCTTCACTACTGCTT-AGGAAGATAAGATTCGCCGTC-TTC
* ** * * *
44660581 G-TCTGCTCCACTACTGGTTAGGGAGATAAGA-CT-TGA--TGTGATCTACTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* * ** * *
44660641 GGGAGATAAGATCGA-TTTCTTTTG-CCTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCT
66 GGGAGATAGGATCTACCATC-TTCGACCTG-CTCACTACTGCTTAGGGAGATAGGACTGGTGGCT
*
44660704 TAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTC
129 TAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
*
44660750 GATCTGTTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
44660815 GGGAGATAGGATCTACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGGAGATAGGATCTACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
* *
44660880 AATCTTCTTCACTACTGCTGAGGAAGATAAGATTCGCCGTCTTC
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
44660924 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* * *
44660989 GGGAGATAAGAAT-TACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGGCT
66 GGGAGAT-AGGATCTACCATCTTCGACCTGCT-CACTACTGCTTAGGGAGATAGGACTGGTGGCT
* *
44661053 TAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTC
129 TAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
*
44661099 AATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
44661164 GGGAGATAGGATCTACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
66 GGGAGATAGGATCTACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
* *
44661229 AATCTTCTTCACTACTGCTGAGGAAGATAAGATTCGCCGTCTTC
131 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
44661273 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
* * *****
44661338 GGGATATAGGATCTACCATCTTCGACCTGCTCCGCTACTGCTTAGGGAGATAGGATCTACCATCT
66 GGGAGATAGGATCTACCATCTTCGACCTGCT-CACTACTGCTTAGGGAGATAGGA-CTGGTGGCT
** * * * * * * *
44661403 TTGACCTGCTCCACTACTGCTTAGGGAGATATGA-TCTACCATCTTT
129 TAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-GCCGTCTTC
* *
44661449 GACCTGCTCCACTACTACTTAGGGAGATA
1 GATCTGCTCCACTACTGCTTAGGGAGATA
44661478 GGACTGGTGG
Statistics
Matches: 800, Mismatches: 73, Indels: 42
0.87 0.08 0.05
Matches are distributed among these distances:
165 6 0.01
166 61 0.08
167 1 0.00
168 6 0.01
169 58 0.07
170 33 0.04
171 2 0.00
172 1 0.00
174 373 0.47
175 196 0.25
176 63 0.08
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (174 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTA
GGGAGATAGGATCTACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTA
AATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTC
Found at i:44661067 original size:349 final size:348
Alignment explanation
Indices: 44660578--44661392 Score: 1367
Period size: 349 Copynumber: 2.4 Consensus size: 348
44660568 ATCGGTTTCT
* ** * * *
44660578 TTCG-TCTGCTCCACTACTGGTTAGGGAGATAAGA-CT-TGA--TGTGATCTACTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
* *
44660638 TTAGGGAGATAAGA-T-CGATTTCTTTTG-CCTGCCCCACTACTGCTTAGGGAGATAGGACTGGT
66 TTAGGGAGATAAGATTACCA--TC-TTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGT
* * *
44660700 GGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTAC
128 GGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTAC
44660765 TGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
193 TGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTA
44660830 CCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTAC
258 CCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTAC
44660895 TGCTGAGGAAGATAAGATTCGCCGTC
323 TGCTGAGGAAGATAAGATTCGCCGTC
44660921 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
*
44660986 TTAGGGAGATAAGAATTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGG
66 TTAGGGAGATAAG-ATTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGG
**
44661051 CTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTG
130 CTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTG
44661116 CTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
195 CTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
44661181 ATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTACTG
260 ATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTACTG
44661246 CTGAGGAAGATAAGATTCGCCGTC
325 CTGAGGAAGATAAGATTCGCCGTC
44661270 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
* * * *
44661335 TTAGGGATATAGGATCTACCATCTTCGACCTGCTCCGCTACTGCTTAGGGAGATAGGA
66 TTAGGGAGATAAGAT-TACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGA
44661393 TCTACCATCT
Statistics
Matches: 443, Mismatches: 19, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
343 4 0.01
344 29 0.07
345 2 0.00
346 1 0.00
348 37 0.08
349 367 0.83
350 1 0.00
351 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (348 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
TTAGGGAGATAAGATTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGC
TTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCAATCTGCTCCACTACTGC
TTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCA
TCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTACTGC
TGAGGAAGATAAGATTCGCCGTC
Found at i:44661387 original size:437 final size:438
Alignment explanation
Indices: 44660919--44661720 Score: 1457
Period size: 437 Copynumber: 1.8 Consensus size: 438
44660909 AGATTCGCCG
*
44660919 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACT
1 TCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACT
44660984 GCTTAGGGAGATAAGAAT-TACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGG
66 GCTTAGGGAGATAAG-ATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGG
44661048 TGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAATCTGCTCCACTA
130 TGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAATCTGCTCCACTA
*
44661113 CTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCT
195 CTGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCACTACTGCTTAGGGAGATAGGATCT
* * * *
44661178 ACCATCTTCGACCTGCT-CACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTT-CTTCAC
260 ACCATCTTCAACCTACTCCACTACTGCTTAGAGAGATAGGACTGGTAGCTTAAAT-TTACTTCAC
44661241 TACTGCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
324 TACTGCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
44661306 CTACCATCTTTGACCTGCTCCACTACTGCTTAGGGATATAGGATCTACCA
389 CTACCATCTTTGACCTGCTCCACTACTGCTTAGGGATATAGGATCTACCA
* *
44661356 TCTTCGACCTGCTCCGCTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACT
1 TCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACT
*
44661421 GCTTAGGGAGATATGATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGT
66 GCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGT
*
44661486 GGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCGATCTGCTCCACTAC
131 GGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAATCTGCTCCACTAC
*
44661551 TGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCGCTACTGCTTAGGGAGATAGGATCTA
196 TGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCACTACTGCTTAGGGAGATAGGATCTA
44661616 CCATCTTCAACCTACTCCACTACTGCTTAGAGAGATAGGACTGGTAGCTTAAATTTACTTCACTA
261 CCATCTTCAACCTACTCCACTACTGCTTAGAGAGATAGGACTGGTAGCTTAAATTTACTTCACTA
*
44661681 CTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCC
326 CTGCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCC
44661721 GCCGTTAATA
Statistics
Matches: 350, Mismatches: 12, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
436 2 0.01
437 266 0.76
438 82 0.23
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (438 bp):
TCTTCGACCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACT
GCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGT
GGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAATCTGCTCCACTAC
TGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCACTACTGCTTAGGGAGATAGGATCTA
CCATCTTCAACCTACTCCACTACTGCTTAGAGAGATAGGACTGGTAGCTTAAATTTACTTCACTA
CTGCTGAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
ACCATCTTTGACCTGCTCCACTACTGCTTAGGGATATAGGATCTACCA
Found at i:44661507 original size:349 final size:348
Alignment explanation
Indices: 44660578--44661564 Score: 1192
Period size: 349 Copynumber: 2.8 Consensus size: 348
44660568 ATCGGTTTCT
* ** * * *
44660578 TTCG-TCTGCTCCACTACTGGTTAGGGAGATAAGA-CT-TGA--TGTGATCTACTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
* * * * **
44660638 TTAGGGAGATAAG-A-T-CGATTTCTTTTG-CCTGCCCCACTACTGCTTAGGGAGATAGGACTGG
66 TTAGGGAGATAAGAATTACCA--TC-TTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTAC
** * * * * * * * *
44660699 TGGCTTAAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTA
128 CAGCTTAAACCTACTCCACTACTGCTTAGGAAGATAAGATTC-GCATCTTCAACCTGCTCCACTA
* * ** *
44660764 CTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCT
192 CTACTTAGGGAGATAAGATCTACCAGCTTAAACCTACTCCACTACTGCTTAGGGAGATAGGATCT
44660829 ACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTA
257 ACCATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTA
44660894 CTGCTGAGGAAGATAAGATTCGCCGTC
322 CTGCTGAGGAAGATAAGATTCGCCGTC
44660921 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
* ****
44660986 TTAGGGAGATAAGAATTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGTGG
66 TTAGGGAGATAAGAATTACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTACCAG
* * * * *
44661051 CTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCGTCTTCAATCTGCTCCACTACTG
131 CTTAAACCTACTCCACTACTGCTTAGGAAGATAAGATTCG-CATCTTCAACCTGCTCCACTACTA
* ** *
44661116 CTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACC
195 CTTAGGGAGATAAGATCTACCAGCTTAAACCTACTCCACTACTGCTTAGGGAGATAGGATCTACC
44661181 ATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTACTG
260 ATCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTACTG
44661246 CTGAGGAAGATAAGATTCGCCGTC
325 CTGAGGAAGATAAGATTCGCCGTC
44661270 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
* * * *
44661335 TTAGGGATAT-AGGATCTACCATCTTCGACCTGCTCCGCTACTGCTTAGGGAGATAGGATCTACC
66 TTAGGGAGATAAGAAT-TACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGGA-CTACC
* ** * * * **
44661399 ATCTTTGACCTGCTCCACTACTGCTTAGGGAGATATGATCTAC-CATCTTTGACCTGCTCCACTA
129 AGCTTAAACCTACTCCACTACTGCTTAGGAAGATAAGAT-T-CGCATCTTCAACCTGCTCCACTA
* **** * * * *
44661463 CTACTTAGGGAGATAGGA-CTGGTGGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGAT-T
192 CTACTTAGGGAGATAAGATCTACCAGCTTAAACCTACTCCACTACTGCTTAGGGAGATAGGATCT
* *
44661526 -CGTCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
257 AC--CATCTTCGACCTGCT-CACTACTGCTTAGGGAGATA
44661565 AGATCTACCA
Statistics
Matches: 577, Mismatches: 50, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
343 4 0.01
344 29 0.05
345 2 0.00
346 1 0.00
347 1 0.00
348 40 0.07
349 410 0.71
350 86 0.15
351 3 0.01
352 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (348 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGC
TTAGGGAGATAAGAATTACCATCTTCGACCTGCTCCACTACTACTTAGGGAGATAGGACTACCAG
CTTAAACCTACTCCACTACTGCTTAGGAAGATAAGATTCGCATCTTCAACCTGCTCCACTACTAC
TTAGGGAGATAAGATCTACCAGCTTAAACCTACTCCACTACTGCTTAGGGAGATAGGATCTACCA
TCTTCGACCTGCTCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTTCTTCACTACTGC
TGAGGAAGATAAGATTCGCCGTC
Found at i:44661537 original size:175 final size:175
Alignment explanation
Indices: 44661356--44661722 Score: 608
Period size: 175 Copynumber: 2.1 Consensus size: 175
44661346 GGATCTACCA
* * *
44661356 TCTTCGACCTGCTCCGCTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTGCTCCACTACT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCACTACT
* ** * *
44661421 GCTTAGGGAGATATGATCTACCATCTTTGACCTGCTCCACTACTACTTAGGGAGATAGGACTGGT
66 GCTTAGGGAGATAGGATCTACCATCTTCAACCTACTCCACTACTACTTAGAGAGATAGGACTGGT
* *
44661486 GGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGTCG
131 AGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGCCG
* *
44661531 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCGCTACT
1 TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCACTACT
*
44661596 GCTTAGGGAGATAGGATCTACCATCTTCAACCTACTCCACTACTGCTTAGAGAGATAGGACTGGT
66 GCTTAGGGAGATAGGATCTACCATCTTCAACCTACTCCACTACTACTTAGAGAGATAGGACTGGT
*
44661661 AGCTTAAATTTACTTCACTACTGCTTAGGAAGATAAGATTCGCCG
131 AGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGCCG
44661706 TCTTCGATCTGCTCCGC
1 TCTTCGATCTGCTCCGC
44661723 CGTTAATACA
Statistics
Matches: 177, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
175 177 1.00
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (175 bp):
TCTTCGATCTGCTCCGCTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCCGCTCCACTACT
GCTTAGGGAGATAGGATCTACCATCTTCAACCTACTCCACTACTACTTAGAGAGATAGGACTGGT
AGCTTAAATCTACTTCACTACTGCTTAGGAAGATAAGATTCGCCG
Found at i:44661653 original size:44 final size:44
Alignment explanation
Indices: 44660626--44661655 Score: 915
Period size: 44 Copynumber: 23.6 Consensus size: 44
44660616 ATGTGATCTA
* * ** *
44660626 CTCCACTACTGCTTAGGGAGATAAGATCGA-TTTCTTTTG-CCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATC-TTCGACCTG
* ***** ** *
44660669 CCCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* * * * *
44660712 CTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGACCTG
* * *
44660756 TTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
44660800 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
***** ** * *
44660844 CT-CACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTT
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* * * * * * *
44660886 CTTCACTACTGCTGAGGAAGATAAGAT-TCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGACCTG
* *
44660930 CTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* *
44660974 CTCCACTACTGCTTAGGGAGATAAGAAT-TACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGAT-AGGATCTACCATCTTCGACCTG
* ***** ** * *
44661018 CTCCACTACTACTTAGGGAGATAGGA-CTGGTGGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* * * * * *
44661061 CTTCACTACTGCTTAGGAAGATAAGAT-T-CGTCGTCTTCAATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTAC--CATCTTCGACCTG
* *
44661105 CTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
44661149 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
***** ** * *
44661193 CT-CACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAATCTT
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* * * * * * *
44661235 CTTCACTACTGCTGAGGAAGATAAGAT-TCGCCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCT-ACCATCTTCGACCTG
* *
44661279 CTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
*
44661323 CTCCACTACTGCTTAGGGATATAGGATCTACCATCTTCGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* *
44661367 CTCCGCTACTGCTTAGGGAGATAGGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* *
44661411 CTCCACTACTGCTTAGGGAGATATGATCTACCATCTTTGACCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* ***** ** * *
44661455 CTCCACTACTACTTAGGGAGATAGGA-CTGGTGGCTTAAATCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* * * * *
44661498 CTTCACTACTGCTTAGGAAGATAAGAT-T-CGTCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTAC--CATCTTCGACCTG
* * *
44661542 CTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCCG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
* * *
44661586 CTCCGCTACTGCTTAGGGAGATAGGATCTACCATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
*
44661630 CTCCACTACTGCTTAGAGAGATAGGA
1 CTCCACTACTGCTTAGGGAGATAGGA
44661656 CTGGTAGCTT
Statistics
Matches: 811, Mismatches: 151, Indels: 49
0.80 0.15 0.05
Matches are distributed among these distances:
42 23 0.03
43 204 0.25
44 574 0.71
45 8 0.01
46 2 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGACCTG
Found at i:44662970 original size:7 final size:7
Alignment explanation
Indices: 44662960--44663026 Score: 118
Period size: 7 Copynumber: 9.7 Consensus size: 7
44662950 CCACTTTTAC
44662960 TTTTTCA
1 TTTTTCA
44662967 TTTTTCA
1 TTTTTCA
44662974 TTTTTCA
1 TTTTTCA
44662981 TTTTTCA
1 TTTTTCA
44662988 TTTTT-A
1 TTTTTCA
44662994 TTTTTCA
1 TTTTTCA
44663001 TTTTTCA
1 TTTTTCA
44663008 TTTTTCA
1 TTTTTCA
*
44663015 TTTGTCA
1 TTTTTCA
44663022 TTTTT
1 TTTTT
44663027 TTTGACTCAA
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
6 6 0.11
7 51 0.89
ACGTcount: A:0.13, C:0.12, G:0.01, T:0.73
Consensus pattern (7 bp):
TTTTTCA
Found at i:44662998 original size:34 final size:35
Alignment explanation
Indices: 44662954--44663026 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 35
44662944 GCCTCTCCAC
*
44662954 TTTTACTTTTTCATTTTTCATTTTTCATTTTTCAT
1 TTTTACTTTTTCATTTTTCATTTTTCATTTGTCAT
44662989 TTTTA-TTTTTCATTTTTCATTTTTCATTTGTCAT
1 TTTTACTTTTTCATTTTTCATTTTTCATTTGTCAT
44663023 TTTT
1 TTTT
44663027 TTTGACTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 32 0.86
35 5 0.14
ACGTcount: A:0.14, C:0.12, G:0.01, T:0.73
Consensus pattern (35 bp):
TTTTACTTTTTCATTTTTCATTTTTCATTTGTCAT
Found at i:44664014 original size:21 final size:20
Alignment explanation
Indices: 44663988--44664076 Score: 71
Period size: 21 Copynumber: 4.5 Consensus size: 20
44663978 TTTTTACTGC
44663988 TTTTTTATTTTTCTTTCCTCT
1 TTTTTTATTTTTCTTT-CTCT
**
44664009 TTTTTTATTGAATCTTT-TCT
1 TTTTTTATT-TTTCTTTCTCT
*
44664029 TTTTGTT-TTTTTAC--TGT-T
1 TTTT-TTATTTTT-CTTTCTCT
44664047 TTTTTTATTTTTCTTTCCTCT
1 TTTTTTATTTTTCTTT-CTCT
44664068 TTTTTTATT
1 TTTTTTATT
44664077 GAATCTGAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
17 3 0.06
18 11 0.20
19 3 0.06
20 11 0.20
21 21 0.39
22 5 0.09
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.76
Consensus pattern (20 bp):
TTTTTTATTTTTCTTTCTCT
Found at i:44664026 original size:57 final size:59
Alignment explanation
Indices: 44663964--44664082 Score: 215
Period size: 59 Copynumber: 2.1 Consensus size: 59
44663954 TTTCTCTTTT
44663964 TCTTTTCTTTTTG-TTTTTTACTG-CTTTTTTATTTTTCTTTCCTCTTTTTTTATTGAA
1 TCTTTTCTTTTTGTTTTTTTACTGTCTTTTTTATTTTTCTTTCCTCTTTTTTTATTGAA
*
44664021 TCTTTTCTTTTTGTTTTTTTACTGTTTTTTTTATTTTTCTTTCCTCTTTTTTTATTGAA
1 TCTTTTCTTTTTGTTTTTTTACTGTCTTTTTTATTTTTCTTTCCTCTTTTTTTATTGAA
44664080 TCT
1 TCT
44664083 GAGCTCATAG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
57 13 0.22
58 10 0.17
59 36 0.61
ACGTcount: A:0.08, C:0.13, G:0.05, T:0.73
Consensus pattern (59 bp):
TCTTTTCTTTTTGTTTTTTTACTGTCTTTTTTATTTTTCTTTCCTCTTTTTTTATTGAA
Found at i:44667520 original size:107 final size:107
Alignment explanation
Indices: 44667334--44667806 Score: 910
Period size: 107 Copynumber: 4.4 Consensus size: 107
44667324 GTTGATTAGT
44667334 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
1 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
44667399 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
66 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
44667441 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
1 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
44667506 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
66 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
44667548 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
1 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
44667613 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
66 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
44667655 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
1 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
44667720 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
66 TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
* * * *
44667762 GGGCACGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTT
1 GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTT
44667807 AGAAAAAAAT
Statistics
Matches: 362, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 362 1.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (107 bp):
GGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAAGGATAT
TTGGCTATTTGGCCAAACGAGTAATCGAAACCCAGCACGTTA
Found at i:44670042 original size:23 final size:23
Alignment explanation
Indices: 44670012--44670055 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
44670002 ATAGGTGTTG
*
44670012 CAGAATGAATTACACCGTAATAC
1 CAGAATGAATTACACCATAATAC
44670035 CAGAATGAATTACACCATAAT
1 CAGAATGAATTACACCATAAT
44670056 GTCAGGATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.11, T:0.23
Consensus pattern (23 bp):
CAGAATGAATTACACCATAATAC
Found at i:44679653 original size:22 final size:22
Alignment explanation
Indices: 44679611--44679653 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44679601 ATACCTCTAA
*
44679611 AATAATAATAACTATTTAAAAT
1 AATAATAATAACTATTAAAAAT
44679633 AATAATAATAACT-TATAAAAA
1 AATAATAATAACTAT-TAAAAA
44679654 GTTTTAATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AATAATAATAACTATTAAAAAT
Found at i:44680619 original size:18 final size:17
Alignment explanation
Indices: 44680596--44680631 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
44680586 AAAATTGATA
44680596 TATATTCAACAATCTAAT
1 TATATTCAACAAT-TAAT
*
44680614 TATATTCAGCAATTAAT
1 TATATTCAACAATTAAT
44680631 T
1 T
44680632 TAATTAGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.14, G:0.03, T:0.42
Consensus pattern (17 bp):
TATATTCAACAATTAAT
Found at i:44690074 original size:20 final size:21
Alignment explanation
Indices: 44690033--44690077 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
44690023 CTCCCTTCTC
44690033 CCTTTTCCTTATTTTATTTTT
1 CCTTTTCCTTATTTTATTTTT
*
44690054 CCTTTT-CTT-TTTTTTTATTT
1 CCTTTTCCTTATTTTATT-TTT
44690074 CCTT
1 CCTT
44690078 GAATTTTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 10 0.45
21 6 0.27
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (21 bp):
CCTTTTCCTTATTTTATTTTT
Found at i:44694211 original size:14 final size:14
Alignment explanation
Indices: 44694182--44694220 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
44694172 AATTTACAGC
*
44694182 ATATACGAATAAAT
1 ATATACAAATAAAT
* *
44694196 ATTTACAAATATAT
1 ATATACAAATAAAT
44694210 ATATACAAATA
1 ATATACAAATA
44694221 CAATGTACCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (14 bp):
ATATACAAATAAAT
Found at i:44696489 original size:132 final size:132
Alignment explanation
Indices: 44696324--44697046 Score: 1185
Period size: 132 Copynumber: 5.5 Consensus size: 132
44696314 AAATAGGGTA
* * * * *
44696324 ACTGGCTTCAATGTACTCCACTGTAAACACAGGGAGGTAAAACCCGCCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
** * * *
44696389 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTTCGCTGCTGCCGAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
44696454 TT
131 TT
* *
44696456 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
*
44696521 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTGTTCCACTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
44696586 TT
131 TT
* * *
44696588 ACTGGCTTCAATGCACTCCACTGCAACCTCAGGGAGGTAAAATCTACCATCTTTGATCTACTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
** *
44696653 CTACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTTCACTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
44696718 TT
131 TT
*
44696720 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
*
44696785 CTACTGCTTAGAGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
44696850 TT
131 TT
*
44696852 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGTCATCTTTGATCTGCTCCA
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
* * *
44696917 CTACTACTTAGGGAGAAAAGATCCAAAATCTTCAATCTATTCCGCTGCTGCCCAGGGAAGTAGAA
66 CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
44696982 TT
131 TT
* * * *
44696984 ATTGGCTTCAATGTAATCCATTGCAACCTCAGGAAGGTAAAATCTGCCATCTTTGATCTGCTC
1 ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTC
44697047 NNNNNNNNNN
Statistics
Matches: 556, Mismatches: 35, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 556 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
ACTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTGCCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
TT
Found at i:44696742 original size:43 final size:43
Alignment explanation
Indices: 44696418--44696875 Score: 122
Period size: 44 Copynumber: 10.4 Consensus size: 43
44696408 GATCTGAAAT
* * * *
44696418 CTTCAATCTATTTCGCTGCTGCCGAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
* ** * * ***
44696461 CTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCTACCAT
1 CTTCAATCTACTCCACTGCTGCC-CAGGGAAGTAGAAT-TACTGG
** * ** ** * ****
44696506 CTTTGATCTACTCCACTACTGCTTAGGGAGACAAG-ATCCAAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGA-AGTAGAAT-TACTGG
**
44696550 CTTCAATCTGTTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
** * * ***
44696593 CTTCAATGC-ACTCCACTGCAACCTCAGGGAGGTAAAATCTACCAT
1 CTTCAAT-CTACTCCACTGCTGCC-CAGGGAAGTAGAAT-TACTGG
** * ** * * *
44696638 CTTTGATCTACTCCACTACTGCTTAGGG-AG-ACAA-GATCTGAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTA-CTG---G
* *
44696682 CTTCAATCTATTTCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
* ** * * *
44696725 CTTCAATGTACTCCACTGCAACCTCAGGGAGGTA-AAAT-CTGTCAT
1 CTTCAATCTACTCCACTGCTGCC-CAGGGAAGTAGAATTACTG---G
** * * ** * ** * ****
44696770 CTTTGATCTGCTCCACTACTGCTTAGAGAGACAAG-ATCCAAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGA-AGTAGAAT-TACTGG
*
44696814 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
*
44696857 CTTCAATGTACTCCACTGC
1 CTTCAATCTACTCCACTGC
44696876 AACCTCAGGG
Statistics
Matches: 276, Mismatches: 115, Indels: 48
0.63 0.26 0.11
Matches are distributed among these distances:
40 1 0.00
41 1 0.00
42 6 0.02
43 81 0.29
44 123 0.45
45 57 0.21
46 6 0.02
47 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
Found at i:44698487 original size:44 final size:44
Alignment explanation
Indices: 44698420--44698619 Score: 113
Period size: 44 Copynumber: 4.5 Consensus size: 44
44698410 GCCATCTTTG
* * **
44698420 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCA
1 ATCTACTCCACTGCTGCCCAGGGAGACAAGATCCAAAATCTTCA
* ** * ** *
44698464 ATCTATTCCACTGCTGCCCAGGGA-AGTAGAAT-TATTAGCTTCA
1 ATCTACTCCACTGCTGCCCAGGGAGACAAG-ATCCAAAATCTTCA
* ** * * **
44698507 ATGTACTCCACTGCAACCTCAGGGAGGTAAAATATGCC---ATCTTTG
1 ATCTACTCCACTGCTGCC-CAGGGA-G-ACAAGAT-CCAAAATCTTCA
* * **
44698552 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCA
1 ATCTACTCCACTGCTGCCCAGGGAGACAAGATCCAAAATCTTCA
*
44698596 ATCTATTCCACTGCTGCCCAGGGA
1 ATCTACTCCACTGCTGCCCAGGGA
44698620 AGTAGAATTA
Statistics
Matches: 108, Mismatches: 38, Indels: 20
0.65 0.23 0.12
Matches are distributed among these distances:
41 2 0.02
42 5 0.05
43 25 0.23
44 56 0.52
45 16 0.15
46 2 0.02
47 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (44 bp):
ATCTACTCCACTGCTGCCCAGGGAGACAAGATCCAAAATCTTCA
Found at i:44698517 original size:43 final size:43
Alignment explanation
Indices: 44698459--44698652 Score: 131
Period size: 43 Copynumber: 4.4 Consensus size: 43
44698449 GATCCAAAAT
*
44698459 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTAG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTATTAG
* ** * * * *
44698502 CTTCAATGTACTCCACTGCAACCTCAGGGAGGTA-AAATATGCCAT
1 CTTCAATCTACTCCACTGCTGCC-CAGGGAAGTAGAATTAT--TAG
** * * ** ** * ** *
44698547 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAAG-ATCCAAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGA-AGTAGAAT-TATTAG
*
44698591 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTATTAG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTATTAG
*
44698634 CTTCAATGTACTCCACTGC
1 CTTCAATCTACTCCACTGC
44698653 AACCTCAGGG
Statistics
Matches: 105, Mismatches: 39, Indels: 14
0.66 0.25 0.09
Matches are distributed among these distances:
43 46 0.44
44 40 0.38
45 18 0.17
46 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTATTAG
Found at i:44698640 original size:132 final size:132
Alignment explanation
Indices: 44698403--44698823 Score: 725
Period size: 132 Copynumber: 3.2 Consensus size: 132
44698393 NNNNNNNNNN
*
44698403 AAAATCTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCT
1 AAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCT
44698468 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTAGCTTCAATGTACTCCACTGCAACCTCAGGGAG
66 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTAGCTTCAATGTACTCCACTGCAACCTCAGGGAG
44698533 GT
131 GT
44698535 AAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCT
1 AAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCT
44698600 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTAGCTTCAATGTACTCCACTGCAACCTCAGGGAG
66 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTAGCTTCAATGTACTCCACTGCAACCTCAGGGAG
44698665 GT
131 GT
* **
44698667 AAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGGCAAGATCTGAAATCTTCAATCT
1 AAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCT
* * * * * * **
44698732 ATTCCGCTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTTCTCCACTGTAACCACAGAAAG
66 ATTCCACTGCTGCCCAGGGAAGTAGAATTATTAGCTTCAATGTACTCCACTGCAACCTCAGGGAG
44698797 GT
131 GT
*
44698799 AAAATTTGCCATCTTTGATCTGCTC
1 AAAATATGCCATCTTTGATCTGCTC
44698824 TGCTGTCTAA
Statistics
Matches: 276, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 276 1.00
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.28
Consensus pattern (132 bp):
AAAATATGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCCAAAATCTTCAATCT
ATTCCACTGCTGCCCAGGGAAGTAGAATTATTAGCTTCAATGTACTCCACTGCAACCTCAGGGAG
GT
Found at i:44699711 original size:41 final size:41
Alignment explanation
Indices: 44699661--44699738 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
44699651 TATGCAAAAC
*
44699661 TTCCATTGTGAAAGTTTTATTAGTCTATTAATCATTACTCT
1 TTCCATTGTGAAAGTTTTATTAGTCCATTAATCATTACTCT
*
44699702 TTCCTTTGTGAAAGTTTTATTAGTCCATTAATCATTA
1 TTCCATTGTGAAAGTTTTATTAGTCCATTAATCATTA
44699739 TTCCAATGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (41 bp):
TTCCATTGTGAAAGTTTTATTAGTCCATTAATCATTACTCT
Found at i:44708686 original size:23 final size:23
Alignment explanation
Indices: 44708656--44708701 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
44708646 TAATTGCTTA
44708656 CTCTGTTTTATTTTTTTCGTGTT
1 CTCTGTTTTATTTTTTTCGTGTT
44708679 CTCTGTTTTATTTTTTTCGTGTT
1 CTCTGTTTTATTTTTTTCGTGTT
44708702 TTATAGTGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.70
Consensus pattern (23 bp):
CTCTGTTTTATTTTTTTCGTGTT
Found at i:44712828 original size:16 final size:16
Alignment explanation
Indices: 44712807--44712839 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44712797 GAACTACCCC
44712807 TCTCATTCTCTTT-CTT
1 TCTCATT-TCTTTACTT
44712823 TCTCATTTCTTTACTT
1 TCTCATTTCTTTACTT
44712839 T
1 T
44712840 GAAATATATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.09, C:0.27, G:0.00, T:0.64
Consensus pattern (16 bp):
TCTCATTTCTTTACTT
Found at i:44713684 original size:93 final size:90
Alignment explanation
Indices: 44713587--44713811 Score: 263
Period size: 92 Copynumber: 2.4 Consensus size: 90
44713577 TTAAGGGTGT
*
44713587 AAAAAGCTCTTAAACTTTTTCAAAGAAAGCAATTAAGCCCCTACTTTCTTTTTTTTACAC-AAAC
1 AAAAAGCCCTTAAACTTTTTCAAA-AAAGCAATTAAG-CCCTACTTTCTTTTTTTTACACTAAA-
* *
44713651 TTGGGCACTTGAACTTTCACAATGCATCA
63 TTGGACACTTGAACTTTCAAAATGCAT-A
* * ** * * *
44713680 AAAAAACCCTTAAGCTTTTTCAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTTTGCACTCAATT
1 AAAAAGCCCTTAAACTTTTTC-AAAAAAGCAATTAAGCCCTACTTTCTTTTTTTTACACTAAATT
44713745 GGACACTTGAACTTTCAAAATGCATA
65 GGACACTTGAACTTTCAAAATGCATA
* * * *
44713771 AAAAGGCCCTCAAAATTTTTCGAAAAAAGCAATTAAACCCT
1 AAAAAGCCCTTAAACTTTTTC-AAAAAAGCAATTAAGCCCT
44713812 TGCCTTTTTT
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
91 35 0.31
92 43 0.38
93 32 0.28
94 3 0.03
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (90 bp):
AAAAAGCCCTTAAACTTTTTCAAAAAAGCAATTAAGCCCTACTTTCTTTTTTTTACACTAAATTG
GACACTTGAACTTTCAAAATGCATA
Found at i:44713812 original size:91 final size:91
Alignment explanation
Indices: 44713602--44713843 Score: 260
Period size: 92 Copynumber: 2.7 Consensus size: 91
44713592 GCTCTTAAAC
* ** * *
44713602 TTTTTCAAAGAAAGCAATTAAGCCCCTACTTTCTTTTTTTTACAC-AAACTTGGGCACTTGAACT
1 TTTTTCAAA-AAAGCAATTAA-ACCCTTGTTTCTTTTTTTTGCACTCAA-TTGGGCACTTGAACT
* * **
44713666 TTCACAATGCATCAAAAAAACCCTTAAGC
63 TTCAAAATGCATCAAAAAAACCCTCAAAA
* * *
44713695 TTTTTCAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTTTGCACTCAATTGGACACTTGAACTTT
1 TTTTTC-AAAAAAGCAATTAAACCCTTGTTTCTTTTTTTTGCACTCAATTGGGCACTTGAACTTT
**
44713760 CAAAATGCAT-AAAAAGGCCCTCAAAA
65 CAAAATGCATCAAAAAAACCCTCAAAA
* *
44713786 TTTTTCGAAAAAAGCAATTAAACCCTTG---CCTTTTTTTGCACTCAATTGGGTACTTGAA
1 TTTTTC-AAAAAAGCAATTAAACCCTTGTTTCTTTTTTTTGCACTCAATTGGGCACTTGAA
44713844 ACGTCCTTAA
Statistics
Matches: 128, Mismatches: 19, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
88 26 0.20
91 37 0.29
92 43 0.34
93 19 0.15
94 3 0.02
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (91 bp):
TTTTTCAAAAAAGCAATTAAACCCTTGTTTCTTTTTTTTGCACTCAATTGGGCACTTGAACTTTC
AAAATGCATCAAAAAAACCCTCAAAA
Found at i:44713820 original size:92 final size:91
Alignment explanation
Indices: 44713602--44713822 Score: 257
Period size: 91 Copynumber: 2.4 Consensus size: 91
44713592 GCTCTTAAAC
* * *
44713602 TTTTTCAAAGAAAGCAATTAAGCCCCTACTTTCTTTTTTTTACACAAACTTGGGCACTTGAACTT
1 TTTTTCAAA-AAAGCAATTAAGCCCTTGCTTT-TTTTTTTTACACAAACTTGGACACTTGAACTT
* * **
44713667 TCACAATGCATCAAAAAAACCCTTAAGC
64 TCAAAATGCATCAAAAAAACCCTCAAAA
* * *
44713695 TTTTTCAAAAAAAGCAATTAAGCCCTTGTTTTTTTTTTTTGCACTCAA-TTGGACACTTGAACTT
1 TTTTTC-AAAAAAGCAATTAAGCCCTTGCTTTTTTTTTTTACAC-AAACTTGGACACTTGAACTT
**
44713759 TCAAAATGCAT-AAAAAGGCCCTCAAAA
64 TCAAAATGCATCAAAAAAACCCTCAAAA
* *
44713786 TTTTTCGAAAAAAGCAATTAAACCCTTGCCTTTTTTT
1 TTTTTC-AAAAAAGCAATTAAGCCCTTGCTTTTTTTT
44713823 GCACTCAATT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
91 44 0.40
92 36 0.33
93 27 0.25
94 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.35
Consensus pattern (91 bp):
TTTTTCAAAAAAGCAATTAAGCCCTTGCTTTTTTTTTTTACACAAACTTGGACACTTGAACTTTC
AAAATGCATCAAAAAAACCCTCAAAA
Found at i:44713983 original size:10 final size:10
Alignment explanation
Indices: 44713970--44713996 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
44713960 TAAAATTACA
44713970 AAAAAATCGT
1 AAAAAATCGT
44713980 AAAAAATCGT
1 AAAAAATCGT
44713990 AAAAAAT
1 AAAAAAT
44713997 TATAAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (10 bp):
AAAAAATCGT
Found at i:44717417 original size:13 final size:13
Alignment explanation
Indices: 44717399--44717426 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44717389 TCGCTCGAAA
44717399 CTCATTGAGGAGT
1 CTCATTGAGGAGT
44717412 CTCATTGAGGAGT
1 CTCATTGAGGAGT
44717425 CT
1 CT
44717427 TGGCTCAGCC
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:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (13 bp):
CTCATTGAGGAGT
Found at i:44719331 original size:9 final size:9
Alignment explanation
Indices: 44719317--44719347 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44719307 GTTAAACAAA
44719317 TCGAGTTAT
1 TCGAGTTAT
*
44719326 TCGAGTTAA
1 TCGAGTTAT
44719335 TCGAGTTAT
1 TCGAGTTAT
44719344 TCGA
1 TCGA
44719348 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:44719414 original size:9 final size:9
Alignment explanation
Indices: 44719400--44719427 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
44719390 TGAGTTTTCG
44719400 AATTCGAAT
1 AATTCGAAT
44719409 AATTCGAAT
1 AATTCGAAT
44719418 AATTCGAAT
1 AATTCGAAT
44719427 A
1 A
44719428 TCAAACTATA
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:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:44724299 original size:29 final size:28
Alignment explanation
Indices: 44724238--44724340 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 28
44724228 TAAATGACTT
* *
44724238 TTTTTATGATTTTTATAAAATTTTACAA
1 TTTTTATGATTTTTATAAAATTTAATAA
* *
44724266 TTTTTTATGATTTGTATAAAAATTAATTAA
1 -TTTTTATGATTTTTATAAAATTTAA-TAA
*
44724296 TTTTTAAT-ATTTTTAATATAATTTAATAA
1 TTTTT-ATGATTTTT-ATAAAATTTAATAA
* *
44724325 TTTTTATAACTTTTAT
1 TTTTTATGATTTTTAT
44724341 TAATTTTTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
28 4 0.06
29 45 0.73
30 13 0.21
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (28 bp):
TTTTTATGATTTTTATAAAATTTAATAA
Found at i:44724330 original size:10 final size:10
Alignment explanation
Indices: 44724288--44724365 Score: 60
Period size: 10 Copynumber: 8.2 Consensus size: 10
44724278 TGTATAAAAA
44724288 TTAATTAATTT
1 TTAA-TAATTT
44724299 TTAAT-ATTT
1 TTAATAATTT
*
44724308 TTAAT-ATAAT
1 TTAATAAT-TT
44724318 TTAATAATTT
1 TTAATAATTT
*
44724328 TT-ATAACTT
1 TTAATAATTT
*
44724337 TTATTAATTT
1 TTAATAATTT
44724347 TT--T-ATTT
1 TTAATAATTT
*
44724354 TTTATAATTT
1 TTAATAATTT
44724364 TT
1 TT
44724366 TTGCTACATG
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 20 0.36
10 23 0.41
11 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.65
Consensus pattern (10 bp):
TTAATAATTT
Found at i:44724333 original size:9 final size:9
Alignment explanation
Indices: 44724238--44724365 Score: 62
Period size: 9 Copynumber: 13.6 Consensus size: 9
44724228 TAAATGACTT
*
44724238 TTTTTATGA
1 TTTTTATAA
44724247 TTTTTATAAA
1 TTTTTAT-AA
* *
44724257 ATTTTACAA
1 TTTTTATAA
*
44724266 TTTTTTATGA
1 -TTTTTATAA
*
44724276 TTTGTATAAA
1 TTTTTAT-AA
** *
44724286 AATTAATTAA
1 TTTTTA-TAA
44724296 TTTTTA-ATA
1 TTTTTATA-A
44724305 TTTTTAATATA
1 TTTTT-ATA-A
* *
44724316 ATTTAATAA
1 TTTTTATAA
44724325 TTTTTATAA
1 TTTTTATAA
*
44724334 CTTTTATTAA
1 TTTTTA-TAA
*
44724344 TTTTT-TAT
1 TTTTTATAA
44724352 TTTTTATAA
1 TTTTTATAA
44724361 TTTTT
1 TTTTT
44724366 TTGCTACATG
Statistics
Matches: 87, Mismatches: 23, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
8 8 0.09
9 41 0.47
10 31 0.36
11 7 0.08
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:44727589 original size:13 final size:13
Alignment explanation
Indices: 44727571--44727598 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44727561 TCGCTCGAAA
44727571 CTCATTGAGGAGT
1 CTCATTGAGGAGT
44727584 CTCATTGAGGAGT
1 CTCATTGAGGAGT
44727597 CT
1 CT
44727599 TGGCTCAGCC
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:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (13 bp):
CTCATTGAGGAGT
Found at i:44728805 original size:33 final size:33
Alignment explanation
Indices: 44728763--44728833 Score: 142
Period size: 33 Copynumber: 2.2 Consensus size: 33
44728753 GGCTTAGACA
44728763 TTAAGATTAAGTCTGGAGGCTACATCAAAACGT
1 TTAAGATTAAGTCTGGAGGCTACATCAAAACGT
44728796 TTAAGATTAAGTCTGGAGGCTACATCAAAACGT
1 TTAAGATTAAGTCTGGAGGCTACATCAAAACGT
44728829 TTAAG
1 TTAAG
44728834 GGAAAAACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (33 bp):
TTAAGATTAAGTCTGGAGGCTACATCAAAACGT
Found at i:44729536 original size:9 final size:9
Alignment explanation
Indices: 44729522--44729552 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
44729512 GTTAAACAAA
44729522 TCGAGTTAT
1 TCGAGTTAT
*
44729531 TCGAGTTAA
1 TCGAGTTAT
44729540 TCGAGTTAT
1 TCGAGTTAT
44729549 TCGA
1 TCGA
44729553 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Done.