Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 139 of 356
Found at i:44699707 original size:31 final size:31
Alignment explanation
Indices: 44699664--44699748 Score: 136
Period size: 31 Copynumber: 2.8 Consensus size: 31
44699654 CAATCTCAAT
44699664 ATAT-ACTGGGCCGAAGCCTTTACATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
* * *
44699694 ATGTCGCTGGGCCGAAGCCTTTTCATTATTC
1 ATATCACTGGGCCGAAGCCTTTACATTATTC
44699725 ATATCACTGGGCCGAAGCCTTTAC
1 ATATCACTGGGCCGAAGCCTTTAC
44699749 TGTAACAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 3 0.06
31 45 0.94
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (31 bp):
ATATCACTGGGCCGAAGCCTTTACATTATTC
Found at i:44700000 original size:26 final size:26
Alignment explanation
Indices: 44699966--44700037 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
44699956 CTCCTTTAAT
*
44699966 AACTAGGGCAAAAGCCCTTTTCGATA
1 AACTGGGGCAAAAGCCCTTTTCGATA
* *
44699992 AACTGGGGCAAAAGTCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTTCGATA
*
44700018 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
44700038 GCACTTCCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 9 0.22
26 32 0.78
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (26 bp):
AACTGGGGCAAAAGCCCTTTTCGATA
Found at i:44700198 original size:25 final size:25
Alignment explanation
Indices: 44700170--44700217 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44700160 ATAATTAAAC
** *
44700170 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGACAAAATAGTCATTTTTA
44700195 CCTAGGGACAAAATAGTCATTTT
1 CCTAGGGACAAAATAGTCATTTT
44700218 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (25 bp):
CCTAGGGACAAAATAGTCATTTTTA
Found at i:44707775 original size:27 final size:28
Alignment explanation
Indices: 44707745--44707821 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
44707735 GATACAAATA
*
44707745 TTGTGGCAGAGCCACTAGAACAGAT-AT
1 TTGTGGCATAGCCACTAGAACAGATAAT
*
44707772 TTGTGGCATAGCCACCAGAAACAGATAAT
1 TTGTGGCATAGCCACTAG-AACAGATAAT
44707801 TT-TGGCATAGCCACTAGAACA
1 TTGTGGCATAGCCACTAGAACA
44707822 CTTCCTCCAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
27 20 0.44
28 21 0.47
29 4 0.09
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (28 bp):
TTGTGGCATAGCCACTAGAACAGATAAT
Found at i:44707806 original size:28 final size:27
Alignment explanation
Indices: 44707731--44707819 Score: 99
Period size: 28 Copynumber: 3.3 Consensus size: 27
44707721 TGATAGAGTT
* * * *
44707731 ACCAGATACAAATATTGTGGCAGAGCC
1 ACCAGAAACAGATATTTTGGCATAGCC
*
44707758 ACTAG-AACAGATATTTGTGGCATAGCC
1 ACCAGAAACAGATATTT-TGGCATAGCC
44707785 ACCAGAAACAGATAATTTTGGCATAGCC
1 ACCAGAAACAGAT-ATTTTGGCATAGCC
*
44707813 ACTAGAA
1 ACCAGAA
44707820 CACTTCCTCC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.15
27 17 0.33
28 23 0.44
29 4 0.08
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.21
Consensus pattern (27 bp):
ACCAGAAACAGATATTTTGGCATAGCC
Found at i:44715649 original size:27 final size:26
Alignment explanation
Indices: 44715608--44715719 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
44715598 CATGGCTGCT
* **
44715608 AGAACAGATATTGTGACAGAGTTACC
1 AGAACAGATATTGTGGCAGAGCCACC
44715634 AGATACAGATATTGTGGCAGAGCCACC
1 AGA-ACAGATATTGTGGCAGAGCCACC
*
44715661 AGAACAGATATTTGTGGCATAGCCACC
1 AGAACAGATA-TTGTGGCAGAGCCACC
*
44715688 AGAAACAGATAATTGTGGCATAGCCACC
1 AG-AACAGAT-ATTGTGGCAGAGCCACC
44715716 AGAA
1 AGAA
44715720 AGCTTCCTCC
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
26 10 0.13
27 42 0.54
28 25 0.32
29 1 0.01
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (26 bp):
AGAACAGATATTGTGGCAGAGCCACC
Found at i:44715703 original size:28 final size:28
Alignment explanation
Indices: 44715631--44715720 Score: 139
Period size: 28 Copynumber: 3.3 Consensus size: 28
44715621 TGACAGAGTT
* *
44715631 ACCAGATACAGAT-ATTGTGGCAGAGCC
1 ACCAGAAACAGATAATTGTGGCATAGCC
*
44715658 ACCAG-AACAGATATTTGTGGCATAGCC
1 ACCAGAAACAGATAATTGTGGCATAGCC
44715685 ACCAGAAACAGATAATTGTGGCATAGCC
1 ACCAGAAACAGATAATTGTGGCATAGCC
44715713 ACCAGAAA
1 ACCAGAAA
44715721 GCTTCCTCCA
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
26 6 0.11
27 22 0.39
28 29 0.51
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (28 bp):
ACCAGAAACAGATAATTGTGGCATAGCC
Found at i:44722003 original size:14 final size:14
Alignment explanation
Indices: 44721977--44722014 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
44721967 ATTTTATGTG
44721977 TTTATTATGTGTGAA
1 TTTATT-TGTGTGAA
44721992 TTTATTTGTGTGAA
1 TTTATTTGTGTGAA
*
44722006 ATT-TTTGTG
1 TTTATTTGTG
44722015 CTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 6 0.27
14 10 0.45
15 6 0.27
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (14 bp):
TTTATTTGTGTGAA
Found at i:44724152 original size:39 final size:40
Alignment explanation
Indices: 44724054--44724275 Score: 242
Period size: 39 Copynumber: 5.6 Consensus size: 40
44724044 GAATGATGTG
* *
44724054 CGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT-TC
**
44724094 CGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATTC
*
44724134 CGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTC
* *
44724173 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTC
* * *
44724212 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT-TC
* *
44724252 TGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
44724276 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 16, Indels: 14
0.84 0.08 0.07
Matches are distributed among these distances:
39 73 0.46
40 73 0.46
41 12 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATTC
Found at i:44724197 original size:78 final size:80
Alignment explanation
Indices: 44724054--44724275 Score: 249
Period size: 79 Copynumber: 2.8 Consensus size: 80
44724044 GAATGATGTG
* * * **
44724054 CGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGAACTAAGAT-CCGAAGGCATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCGGGCTAAG-TCCCGAAGGCATT
*
44724116 TGTGCGAGATACTAATTC
63 TGTGCGAGATACTAAATC
* *
44724134 CGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATA-ACCGGGCTAAGTCCCGAAGGCATTTG
*
44724196 TGCGAGTTACTAAATC
65 TGCGAGATACTAAATC
* * * *
44724212 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACTGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTG
44724276 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
78 36 0.30
79 53 0.43
80 32 0.26
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATACTAAATC
Found at i:44724282 original size:40 final size:40
Alignment explanation
Indices: 44724054--44724275 Score: 256
Period size: 40 Copynumber: 5.6 Consensus size: 40
44724044 GAATGATGTG
* * * *
44724054 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATC
** * *
44724094 CGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATTC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATC
* * *
44724134 CGGGCTAAG-CCCGAAGGCATTTGTGTGAGATACTAATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
44724173 CGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
*
44724212 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-C
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATC
* *
44724252 TGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
44724276 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
39 72 0.45
40 77 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATC
Found at i:44724306 original size:79 final size:79
Alignment explanation
Indices: 44724105--44724308 Score: 209
Period size: 79 Copynumber: 2.6 Consensus size: 79
44724095 GAACTAAGAT
** * * * * *
44724105 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATTTGTGTGAGATACTA
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
44724169 ATTCCGGGCTAAGC
66 ATACCGGGCTAAGC
** * *
44724183 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
* *
44724247 ATAACTGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
44724263 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
44724309 TACGTGATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
78 34 0.32
79 48 0.45
80 25 0.23
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:44734701 original size:27 final size:27
Alignment explanation
Indices: 44734602--44734715 Score: 113
Period size: 28 Copynumber: 4.2 Consensus size: 27
44734592 AGCATGGTTG
* * * *
44734602 CCAGAACAGATA-TTGTGACTGAGTCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
* * * *
44734628 CCAAATACAGATAATTGTGGTAGGGCCA
1 CCAGAT-CAGATATTTGTGGCAGAGCCA
* *
44734656 CCAGAAACAGATATTTGTGGGAGAGCCA
1 CCAG-ATCAGATATTTGTGGCAGAGCCA
44734684 CCAGATCAGATATTTGTGGCAGAGCCA
1 CCAGATCAGATATTTGTGGCAGAGCCA
44734711 CCAGA
1 CCAGA
44734716 ACGCTTCCTC
Statistics
Matches: 71, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
26 4 0.06
27 32 0.45
28 34 0.48
29 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
CCAGATCAGATATTTGTGGCAGAGCCA
Found at i:44736920 original size:44 final size:44
Alignment explanation
Indices: 44736837--44736995 Score: 152
Period size: 43 Copynumber: 3.7 Consensus size: 44
44736827 TGTGTTATCG
* * *
44736837 TGTAAGACCACGTCTGGGATGTTGG-AAT-AAACTTATGATTTACA
1 TGTAAGACCACGTCTGGGACGTTGGCATTCATA-TT-TGATTTACA
* *
44736881 TGTAAGACCACGTCTGAGACGTTGGCATTCATATTTGATTT-CG
1 TGTAAGACCACGTCTGGGACGTTGGCATTCATATTTGATTTACA
*
44736924 TGTCAGACC-CTGTCTGGGACAG-TGGCA-TCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATTC-ATATTTGATTTACA
* *
44736967 TGTAAGACCACGTTTGGGATGTTGGCATT
1 TGTAAGACCACGTCTGGGACGTTGGCATT
44736996 GTACGAGCTT
Statistics
Matches: 95, Mismatches: 11, Indels: 18
0.77 0.09 0.15
Matches are distributed among these distances:
42 6 0.06
43 51 0.54
44 32 0.34
45 4 0.04
46 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATTCATATTTGATTTACA
Found at i:44738532 original size:16 final size:16
Alignment explanation
Indices: 44738511--44738553 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
44738501 GTAGATTGGC
* *
44738511 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATACCG
*
44738527 AAAAGCCAAAATACCG
1 AAAAGCCGAAATACCG
44738543 AAAAGCCGAAA
1 AAAAGCCGAAA
44738554 GTATGGCTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (16 bp):
AAAAGCCGAAATACCG
Found at i:44738684 original size:19 final size:18
Alignment explanation
Indices: 44738660--44738696 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
44738650 TGGATAGGCC
44738660 AAATAGGCCCGAATGGGCT
1 AAATAGGCCCGAA-GGGCT
44738679 AAATAGGCCCGAAGGGCT
1 AAATAGGCCCGAAGGGCT
44738697 GTTGGGCCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.32, C:0.22, G:0.32, T:0.14
Consensus pattern (18 bp):
AAATAGGCCCGAAGGGCT
Found at i:44738846 original size:29 final size:29
Alignment explanation
Indices: 44738804--44738916 Score: 106
Period size: 29 Copynumber: 3.9 Consensus size: 29
44738794 TTTAAATGAG
* *
44738804 ATTGGGGCTAATGGGCCATATGAATGTGA
1 ATTGGGCCTGATGGGCCATATGAATGTGA
* **
44738833 ATTGGGCCTGATGGGCCAAATGAACATGA
1 ATTGGGCCTGATGGGCCATATGAATGTGA
* * *
44738862 ATTGGG-CTAGATGGGCTATATAAATGAG-
1 ATTGGGCCT-GATGGGCCATATGAATGTGA
*
44738890 ATTGGGCCT-AGTGGGCCATATGCATGT
1 ATTGGGCCTGA-TGGGCCATATGAATGT
44738917 ATGTAGGGGT
Statistics
Matches: 66, Mismatches: 15, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.02
28 20 0.30
29 45 0.68
ACGTcount: A:0.27, C:0.13, G:0.33, T:0.27
Consensus pattern (29 bp):
ATTGGGCCTGATGGGCCATATGAATGTGA
Found at i:44746616 original size:28 final size:27
Alignment explanation
Indices: 44746581--44746724 Score: 87
Period size: 29 Copynumber: 5.1 Consensus size: 27
44746571 GTGAGCATGG
* *
44746581 ATATAATGTGATTTGG-CTGGATGGGTC
1 ATATAATGTGATTTGGCCT-AATGGGCC
* *
44746608 ATATAAATGAGATTGGGCCTAATGGGCC
1 ATAT-AATGTGATTTGGCCTAATGGGCC
* * *
44746636 ATATGAATGTGAATTGGGTCTGATGGGCC
1 ATAT-AATGTG-ATTTGGCCTAATGGGCC
** *
44746665 ATATGAACCTGAATTGGGCC-AGATGGGCC
1 ATAT-AATGTG-ATTTGGCCTA-ATGGGCC
* *
44746694 ATATAAATGAGA-TTGGCCTAGTGGGCC
1 ATAT-AATGTGATTTGGCCTAATGGGCC
44746721 ATAT
1 ATAT
44746725 GCATGTATGT
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
27 19 0.20
28 27 0.29
29 48 0.51
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (27 bp):
ATATAATGTGATTTGGCCTAATGGGCC
Found at i:44746661 original size:29 final size:29
Alignment explanation
Indices: 44746600--44746724 Score: 123
Period size: 29 Copynumber: 4.4 Consensus size: 29
44746590 GATTTGGCTG
* *
44746600 GATGGGTCATATAAATGAG-ATTGGGCCT
1 GATGGGCCATATAAATGTGAATTGGGCCT
* * *
44746628 AATGGGCCATATGAATGTGAATTGGGTCT
1 GATGGGCCATATAAATGTGAATTGGGCCT
* ** *
44746657 GATGGGCCATATGAACCTGAATTGGGCCA
1 GATGGGCCATATAAATGTGAATTGGGCCT
*
44746686 GATGGGCCATATAAATGAG-ATT-GGCCT
1 GATGGGCCATATAAATGTGAATTGGGCCT
44746713 -AGTGGGCCATAT
1 GA-TGGGCCATAT
44746725 GCATGTATGT
Statistics
Matches: 80, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 14 0.17
28 18 0.22
29 47 0.59
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.26
Consensus pattern (29 bp):
GATGGGCCATATAAATGTGAATTGGGCCT
Found at i:44750116 original size:29 final size:29
Alignment explanation
Indices: 44750050--44750168 Score: 161
Period size: 29 Copynumber: 4.2 Consensus size: 29
44750040 CAAATACCTG
* *
44750050 TATATGGCCCACTAGG-CCTAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
** *
44750078 CCTATGGCCCATTAGGCCCAGATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
44750107 TATATAGCCCATTAGGCCCAAATCACATT
1 TATATGGCCCATTAGGCCCAAATCACATT
*
44750136 TATATGGCCTATTAGGCCCAAATCACA-T
1 TATATGGCCCATTAGGCCCAAATCACATT
44750164 TATAT
1 TATAT
44750169 TCATGCTCAC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 19 0.24
29 60 0.76
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (29 bp):
TATATGGCCCATTAGGCCCAAATCACATT
Found at i:44753278 original size:17 final size:17
Alignment explanation
Indices: 44753256--44753288 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
44753246 CACTAAAATT
44753256 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
44753273 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
44753289 GTGCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:44755280 original size:27 final size:27
Alignment explanation
Indices: 44755249--44755302 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
44755239 ACTTGTTGAA
44755249 AGCAAAGAATACAACCAAAAATTCTTT
1 AGCAAAGAATACAACCAAAAATTCTTT
*
44755276 AGCAAAGATTACAACCAAAAATTCTTT
1 AGCAAAGAATACAACCAAAAATTCTTT
44755303 CTCTGTAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (27 bp):
AGCAAAGAATACAACCAAAAATTCTTT
Found at i:44758334 original size:40 final size:40
Alignment explanation
Indices: 44758304--44758529 Score: 314
Period size: 40 Copynumber: 5.7 Consensus size: 40
44758294 GCTACTCGTT
* *
44758304 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
44758344 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
44758384 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGAA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
44758424 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
44758464 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44758505 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44758530 CATCATTCAA
Statistics
Matches: 171, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 3 0.02
40 155 0.91
41 13 0.08
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44766551 original size:40 final size:40
Alignment explanation
Indices: 44766507--44766698 Score: 190
Period size: 40 Copynumber: 4.8 Consensus size: 40
44766497 ATAAACACAA
* *
44766507 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
44766547 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * * * *
44766587 GCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * * * * *
44766627 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGAT-ATAGCAACTC
* * *
44766667 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT
44766699 CATTCAAATG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.96
41 4 0.03
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:44766591 original size:80 final size:80
Alignment explanation
Indices: 44766487--44766697 Score: 241
Period size: 80 Copynumber: 2.6 Consensus size: 80
44766477 TCTTCGAAAT
* * * * * *
44766487 TTAG-CCGGATATAAA-CACAAGCACAATTGCCTTCGGGTCTTAACCCGGGT-ATAGCAACTCGC
1 TTAGCCCGGATA-AAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGC-ACTAGC
*
44766549 ACAAATGCCTTCGGGTC
64 ACAAATGCCTTCGGGAC
* * * *
44766566 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCAGATAAAATCACTAGCA
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCA
*
44766630 TAAATGCCTTCGGGAC
65 CAAATGCCTTCGGGAC
* *
44766646 TTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATA
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATA
44766698 TCATTCAAAT
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.02
79 5 0.05
80 96 0.87
81 7 0.06
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (80 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGATAAAAGCACTAGCAC
AAATGCCTTCGGGAC
Found at i:44771632 original size:50 final size:49
Alignment explanation
Indices: 44771561--44771697 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 49
44771551 ACCGAAGCTC
* *
44771561 TCTGGTACGCATAGTCACCTGCACTTAGTACTACACATG-GAACCGAACAA
1 TCTGGTACACGTAGT-ACCTGCACTTAGTACTACACATGTG-ACCGAACAA
* *
44771611 TCTGGTACACGTAGTATCCTGCACTTAGTACTACACATGTGACCTAACCA
1 TCTGGTACACGTAGTA-CCTGCACTTAGTACTACACATGTGACCGAACAA
44771661 TC-GGATACACGTAGTAACCTGCACTTAGTACTACACA
1 TCTGG-TACACGTAGT-ACCTGCACTTAGTACTACACA
44771698 CGTAGTAGCC
Statistics
Matches: 79, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
49 3 0.04
50 74 0.94
51 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TCTGGTACACGTAGTACCTGCACTTAGTACTACACATGTGACCGAACAA
Found at i:44771695 original size:26 final size:26
Alignment explanation
Indices: 44771616--44771696 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 26
44771606 AACAATCTGG
*
44771616 TACACGTAGTATCCTGCACTTAGTAC
1 TACACGTAGTAACCTGCACTTAGTAC
* * * * * *
44771642 TACACAT-GTGACCT-AACCATCGGA-
1 TACACGTAGTAACCTGCA-CTTAGTAC
44771666 TACACGTAGTAACCTGCACTTAGTAC
1 TACACGTAGTAACCTGCACTTAGTAC
44771692 TACAC
1 TACAC
44771697 ACGTAGTAGC
Statistics
Matches: 38, Mismatches: 13, Indels: 8
0.64 0.22 0.14
Matches are distributed among these distances:
24 7 0.18
25 19 0.50
26 12 0.32
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (26 bp):
TACACGTAGTAACCTGCACTTAGTAC
Found at i:44774310 original size:30 final size:30
Alignment explanation
Indices: 44774276--44774336 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
44774266 TCCTTTACTA
*
44774276 AAACTTTT-CAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
44774306 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
44774336 A
1 A
44774337 TGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:44777811 original size:40 final size:41
Alignment explanation
Indices: 44777612--44777797 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 41
44777602 TTGAATGATG
* * *
44777612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
*
44777652 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
44777692 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44777732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
44777773 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
44777798 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 10, Indels: 10
0.87 0.07 0.07
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:44785893 original size:40 final size:40
Alignment explanation
Indices: 44785663--44785886 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
44785653 TTGAATGATG
* * * * *
44785663 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
44785703 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
44785743 TCCGGGTTAAGT-CCGATGGCATTTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
44785782 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
44785822 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
44785862 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
44785887 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 72 0.43
40 86 0.52
41 8 0.05
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:44785919 original size:79 final size:79
Alignment explanation
Indices: 44785663--44785886 Score: 292
Period size: 79 Copynumber: 2.8 Consensus size: 79
44785653 TTGAATGATG
* * * * * *
44785663 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
44785726 TTGTGCGAGTTACTAAA
63 TTGTGCGAGTTACTAAA
* * *
44785743 TCCGGGTTAAGTCCGATGGCATTTGTGTGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
44785808 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* *
44785822 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTT
44785886 G
65 G
44785887 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.01
79 107 0.84
80 19 0.15
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (79 bp):
TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTAAA
Found at i:44791714 original size:28 final size:28
Alignment explanation
Indices: 44791657--44791836 Score: 294
Period size: 28 Copynumber: 6.5 Consensus size: 28
44791647 TAAATTGTGC
*
44791657 AGCACTAAGTGTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
44791684 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
44791712 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
44791740 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
44791767 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
44791795 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
44791822 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44791837 GACTTAATAT
Statistics
Matches: 147, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
27 66 0.45
28 81 0.55
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:44791721 original size:55 final size:55
Alignment explanation
Indices: 44791657--44791836 Score: 299
Period size: 55 Copynumber: 3.3 Consensus size: 55
44791647 TAAATTGTGC
*
44791657 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
44791712 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * *
44791767 AGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
44791822 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44791837 GACTTAATAT
Statistics
Matches: 119, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
55 92 0.77
56 27 0.23
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:44791796 original size:83 final size:82
Alignment explanation
Indices: 44791657--44791836 Score: 306
Period size: 83 Copynumber: 2.2 Consensus size: 82
44791647 TAAATTGTGC
44791657 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
44791722 GTGCGAGTTTGACTATGT
66 GTGCGAG-TTGACTATAT
* *
44791740 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
*
44791805 GTGCGAGTTGATTATAT
66 GTGCGAGTTGACTATAT
*
44791822 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44791837 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
82 22 0.24
83 70 0.76
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
GTGCGAGTTGACTATAT
Found at i:44813513 original size:39 final size:39
Alignment explanation
Indices: 44813419--44813535 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
44813409 GTCCAGCACG
*
44813419 TAGCCTGCGGACCTAAAGT-CGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
44813457 TA-CCTGCGGACATGAAGTCCGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
*
44813495 TAGCCTGCGGACCTGAAGTCTGGATATAATTCTCGCATA
1 TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
44813534 TA
1 TA
44813536 TATATTCACA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
37 14 0.19
38 23 0.32
39 36 0.49
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.27
Consensus pattern (39 bp):
TAGCCTGCGGACCTGAAGTCCGGATATAATTCTCGCATA
Found at i:44815704 original size:16 final size:16
Alignment explanation
Indices: 44815683--44815713 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44815673 TTATGCGTGA
*
44815683 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
44815699 AAAATACAAAAGACA
1 AAAATACAAAAGACA
44815714 TTATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:44824258 original size:89 final size:89
Alignment explanation
Indices: 44824107--44824308 Score: 350
Period size: 89 Copynumber: 2.3 Consensus size: 89
44824097 ATTTGACGGA
* * * *
44824107 GAGCAGGTCGAAGATATAGCAGATCTAACCTTTGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
44824172 ATTCGGCATCCTTGCGTTTACAAG
66 ATTCGGCATCCTTGCGTTTACAAG
*
44824196 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
*
44824261 ATTTGGCATCCTTGCGTTTACAAG
66 ATTCGGCATCCTTGCGTTTACAAG
44824285 GAGCAGATCGAAGACATAGCAGAT
1 GAGCAGATCGAAGACATAGCAGAT
44824309 TTGGCTTTCA
Statistics
Matches: 106, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
ATTCGGCATCCTTGCGTTTACAAG
Found at i:44824325 original size:89 final size:89
Alignment explanation
Indices: 44824107--44824357 Score: 337
Period size: 89 Copynumber: 2.8 Consensus size: 89
44824097 ATTTGACGGA
* * **
44824107 GAGCAGGTCGAAGATATAGCAGATCTAACCTTTGGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTTCACATCGAAGTAGATCCAAGATG
*
44824172 ATTCGGCATCCTTGCGTTTACAAG
66 ATTTGGCATCCTTGCGTTTACAAG
* * *
44824196 GAGCAGATCGAAGACATAGCAGGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATG
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTTCACATCGAAGTAGATCCAAGATG
44824261 ATTTGGCATCCTTGCGTTTACAAG
66 ATTTGGCATCCTTGCGTTTACAAG
* ** * * * *
44824285 GAGCAGATCGAAGACATAGCAGATTTGGCTTTCACG-TG-TTT-ACGTTGAAGTAGATCTAAGAT
1 GAGCAGATCGAAGACATAGCAGATCTAACCTTC-CGATGTTTTCACATCGAAGTAGATCCAAGAT
44824347 GATTTGGCATC
65 GATTTGGCATC
44824358 TCTGTATTGT
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
87 28 0.19
88 3 0.02
89 113 0.78
90 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (89 bp):
GAGCAGATCGAAGACATAGCAGATCTAACCTTCCGATGTTTTCACATCGAAGTAGATCCAAGATG
ATTTGGCATCCTTGCGTTTACAAG
Found at i:44824553 original size:44 final size:43
Alignment explanation
Indices: 44824505--44824753 Score: 338
Period size: 44 Copynumber: 5.7 Consensus size: 43
44824495 CGTTTACAAG
44824505 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGA
* * * *
44824549 GAGCAGAT-TAGAGAAAACAGATTAGGTGTCTCTGTATTGTCAGA
1 GAGCAGATCGA-AGATAGCAGATT-GGCGTCTCTGTATTGTCAGA
*
44824593 GAGCAGATCGAAGATAGCAGATTAGGCATCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGATT-GGCGTCTCTGTATTGTCAGA
* *
44824637 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGA
1 GAGCAGATCGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGA
*
44824681 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGA
1 GAGCAGATCGAAGATAGCAGA-TTGGCGTCTCTGTATTGTCAGA
* *
44824725 GAGTAGATCGAAGATAACAGATCTGGCGT
1 GAGCAGATCGAAGATAGCAGAT-TGGCGT
44824754 TCCTGAGTTT
Statistics
Matches: 184, Mismatches: 16, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
43 4 0.02
44 177 0.96
45 3 0.02
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.27
Consensus pattern (43 bp):
GAGCAGATCGAAGATAGCAGATTGGCGTCTCTGTATTGTCAGA
Found at i:44824662 original size:309 final size:305
Alignment explanation
Indices: 44824022--44824738 Score: 720
Period size: 309 Copynumber: 2.3 Consensus size: 305
44824012 TGTTTACGCT
* * * * *
44824022 GAAGCAGATCCAAGATGATTTGGCATATCTGTATTGTCAAAGAACAAATCGAAGAAACAGATTTG
1 GAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGAAACAGATTTG
* * *
44824087 GCATCTCCATATTTGACGGAGAGCAGGTCGAAGATATAGCAGATCTAACCTTTGGATGTTTTCAC
66 GCATCTCCATA-TTGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCAC
* *
44824152 ATCGAAGTAGATCCAAGATGATTCGGCATCCTTGCGTTTACAAGGAGCAGATCGAAGACATAGCA
130 ATCGAAGCAGATCCAAGATGATTCGGCATCCTTACGTTTACAAGGAGCAGATCGAAGA-ATAGCA
* * * * *** * * *
44824217 GGTCTAACCTTCGGATGTTTTCACATCAAAGTAGATCCAAGATGATTTGGCATCCTTGCGTTTAC
194 GCTCTAACCTTCGGATATTGTCACAGCAAAGTAGAGAAAACATGATTAGGCATCCTTGCATTTAC
* * *
44824282 AAGGAGCAGATCGAAGACATAGCAGATTTGGCTTTCACGTGTTTACGTT
259 AAGGAGCAGATCGAAGA-ATAGCAGATTAGGCTATCACGTGTTTA-GTA
*
44824331 GAAGTAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGAAACAGATTTG
1 GAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGAAACAGATTTG
* **
44824396 GCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGTAGATCTAACCTTCGGATGTTTTTGC
66 GCATCTCCATATT-GACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCAC
*
44824461 ATCGAAGCAGATCCAAGATGATTTGGCATCCTTACGTTTACAAGGAGCAGATCGAAG-ATAGCAG
130 ATCGAAGCAGATCCAAGATGATTCGGCATCCTTACGTTTACAAGGAGCAGATCGAAGAATAGCAG
** * * * * * ** *
44824525 ACT-TGGCGTCTCTG-TATTGTCAGAGAGCAGATTAGAGAAAACA-GATTAGGTGT-CTCTGTAT
195 -CTCTAACCT-TCGGATATTGTC--ACAGCAAAGTAGAGAAAACATGATTAGGCATCCT-TGCAT
*
44824586 TGT-C-AGAGAGCAGATCGAAG-ATAGCAGATTAGGC-ATCTC-TGTATT-GTCA
255 T-TACAAG-GAGCAGATCGAAGAATAGCAGATTAGGCTATCACGTGT-TTAGT-A
* * * *
44824635 GAGAGCAGAT-TGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTGAAGATAGC
1 GA-AGCAGATCT-AAGAT----GATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGA-AAC
* ** * * *
44824699 AGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGA
59 AGATTTGGCATCTCCATATTGACGGAGAGCAGATCGAAGA
44824739 TAACAGATCT
Statistics
Matches: 341, Mismatches: 50, Indels: 34
0.80 0.12 0.08
Matches are distributed among these distances:
303 2 0.01
304 6 0.02
305 16 0.05
306 13 0.04
307 19 0.06
308 31 0.09
309 235 0.69
310 19 0.06
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (305 bp):
GAAGCAGATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAGCAAATTGAAGAAACAGATTTG
GCATCTCCATATTGACGGAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTCACA
TCGAAGCAGATCCAAGATGATTCGGCATCCTTACGTTTACAAGGAGCAGATCGAAGAATAGCAGC
TCTAACCTTCGGATATTGTCACAGCAAAGTAGAGAAAACATGATTAGGCATCCTTGCATTTACAA
GGAGCAGATCGAAGAATAGCAGATTAGGCTATCACGTGTTTAGTA
Found at i:44824793 original size:88 final size:88
Alignment explanation
Indices: 44824505--44824786 Score: 337
Period size: 88 Copynumber: 3.2 Consensus size: 88
44824495 CGTTTACAAG
* * * *
44824505 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGAGAGCAGATTAGAGAAAACAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATGA-AGATAACAGA
*
44824570 TTAG-GTGTCTCT-GTATTGTCAGA
65 TTGGCGT-TCTCTAGTATTGTCAGA
* * * *
44824593 GAGCAGATCGAAGATAGCAGATTAGGCATCTCTGTATTGTCAGAGAGCAGATTGAAGATAGCAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGA-TGAAGATAACAGA
44824658 TTTGGCG-TCTCTA-TATTGTCAGA
65 -TTGGCGTTCTCTAGTATTGTCAGA
*
44824681 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAACAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGAT-GAAGATAACAGA
44824746 TCTGGCGTTC-CTGAGT-TTG-C-GA
65 T-TGGCGTTCTCT-AGTATTGTCAGA
*
44824768 GAAGCAGGTTGAAGATAGC
1 G-AGCAGATTGAAGATAGC
44824787 CAATTTGACA
Statistics
Matches: 171, Mismatches: 13, Indels: 20
0.84 0.06 0.10
Matches are distributed among these distances:
87 5 0.03
88 153 0.89
89 11 0.06
90 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (88 bp):
GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATGAAGATAACAGAT
TGGCGTTCTCTAGTATTGTCAGA
Found at i:44824793 original size:132 final size:132
Alignment explanation
Indices: 44824505--44824746 Score: 387
Period size: 132 Copynumber: 1.8 Consensus size: 132
44824495 CGTTTACAAG
* * *
44824505 GAGCAGATCGAAGATAGCAGACTTGGCGTCTCTGTATTGTCAGAGAGCAGATTAGAGAAAACAGA
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTAGAGAAAACAGA
* *
44824570 TTAGGTGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGATTAGGCATCTCTGTATTGTCA
66 TTAGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTAGGCATCTCTGTATTGTCA
44824635 GA
131 GA
* *
44824637 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATT-GAAGATAGCAG
1 GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTAG-AGAAAACAG
* *
44824701 ATTTGGCGTCTCTGTATTGTCAGAGAGTAGATCGAAGATAACAGAT
65 ATTAGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGAT
44824747 CTGGCGTTCC
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
131 1 0.01
132 99 0.99
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.26
Consensus pattern (132 bp):
GAGCAGATTGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGCAGATTAGAGAAAACAGA
TTAGGCGTCTCTGTATTGTCAGAGAGCAGATCGAAGATAACAGATTAGGCATCTCTGTATTGTCA
GA
Found at i:44827219 original size:37 final size:38
Alignment explanation
Indices: 44827159--44827321 Score: 187
Period size: 37 Copynumber: 4.3 Consensus size: 38
44827149 CGACTAAGAT
44827159 CCGAAGGCATTT-TGCGAGATACTAATCCGGGCTAAG-
1 CCGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGC
*
44827195 CCGAAGGCATTTGTGCGAGATACTAATTCGGGCTAAG-
1 CCGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGC
* *
44827232 CCGAAGGCATTTG-GCGAGTTACTAAAT-C-GGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACT-AATCCGGGCTAAG-C
* *
44827269 CCGAAGGCATTTGTGCGA-ATTACTATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTA-ATCCGGGCTAAG-C
44827309 CCGAAGGCATTTG
1 CCGAAGGCATTTG
44827322 AACGAGGAGC
Statistics
Matches: 111, Mismatches: 7, Indels: 14
0.84 0.05 0.11
Matches are distributed among these distances:
35 6 0.05
36 22 0.20
37 53 0.48
38 9 0.08
39 1 0.01
40 20 0.18
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (38 bp):
CCGAAGGCATTTGTGCGAGATACTAATCCGGGCTAAGC
Found at i:44843791 original size:79 final size:78
Alignment explanation
Indices: 44843689--44843911 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
44843679 GCTCCTCGTT
* *
44843689 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44843754 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
44843769 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44843832 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
44843847 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
44843910 GA
63 GA
44843912 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:44843806 original size:39 final size:40
Alignment explanation
Indices: 44843689--44843911 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
44843679 GCTCCTCGTT
* *
44843689 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
44843729 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44843769 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44843808 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
44843847 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
44843888 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44843912 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:44851933 original size:79 final size:78
Alignment explanation
Indices: 44851831--44852053 Score: 265
Period size: 79 Copynumber: 2.8 Consensus size: 78
44851821 GCTCCTCGTT
* *
44851831 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44851896 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
44851911 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
44851974 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
44851989 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
44852052 GA
63 GA
44852054 CATCATTCAA
Statistics
Matches: 125, Mismatches: 11, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 47 0.38
79 57 0.46
80 20 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:44851948 original size:39 final size:40
Alignment explanation
Indices: 44851831--44852053 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
44851821 GCTCCTCGTT
* *
44851831 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
44851871 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44851911 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
44851950 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
44851989 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
44852030 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44852054 CATCATTCAA
Statistics
Matches: 166, Mismatches: 9, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 64 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:44854451 original size:44 final size:43
Alignment explanation
Indices: 44854403--44854650 Score: 329
Period size: 44 Copynumber: 5.7 Consensus size: 43
44854393 AAACTCAGGA
* * *
44854403 ACGCCAGATCTGTTATCTTCGATCTACTCTCTGACAATACAGAG
1 ACGCCA-ATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAG
*
44854447 ACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATATAGAG
1 ACGCC-AATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAG
44854491 ACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAG
1 ACGCC-AATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAG
* *
44854535 ATGCCTAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAG
1 ACGCC-AATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAG
* * *
44854579 ACACCTAATCTGTTTTC-TCTAATCTGCTCTCTGACAATACAGAG
1 ACGCC-AATCTGCTATCTTC-AATCTGCTCTCTGACAATACAGAG
*
44854623 ACGCCAAGTCTGCTATC-TCGATCTGCTC
1 ACGCCAA-TCTGCTATCTTCAATCTGCTC
44854651 CTTGTAAACG
Statistics
Matches: 184, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
43 12 0.07
44 171 0.93
45 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (43 bp):
ACGCCAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAG
Found at i:44854521 original size:88 final size:88
Alignment explanation
Indices: 44854403--44854650 Score: 365
Period size: 88 Copynumber: 2.8 Consensus size: 88
44854393 AAACTCAGGA
* * * *
44854403 ACGCCAGATCTGTTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCA
1 ACGCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
*
44854468 ATCTGCTCTCTGACAATATAGAG
66 ATCTGCTCTCTGACAATACAGAG
* * *
44854491 ACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGATGCCTAATCTGCTATCTTCG
1 ACGCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
44854556 ATCTGCTCTCTGACAATACAGAG
66 ATCTGCTCTCTGACAATACAGAG
* * * *
44854579 ACACCTAATCTGTTTTC-TCTAATCTGCTCTCTGACAATACAGAGACGCCAAGTCTGCTATC-TC
1 ACGCCAAATCTGTTATCTTC-AATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTC
44854642 GATCTGCTC
65 GATCTGCTC
44854651 CTTGTAAACG
Statistics
Matches: 144, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
87 13 0.09
88 131 0.91
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.30
Consensus pattern (88 bp):
ACGCCAAATCTGTTATCTTCAATCTGCTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCG
ATCTGCTCTCTGACAATACAGAG
Found at i:44854603 original size:132 final size:131
Alignment explanation
Indices: 44854410--44854650 Score: 376
Period size: 132 Copynumber: 1.8 Consensus size: 131
44854400 GGAACGCCAG
* *
44854410 ATCTGTTATCTTCGATCTACTCTCTGACAATACAGAGACGCCAAATCTGCTATCTTCAATCTGCT
1 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCAATCTGCT
*
44854475 CTCTGACAATATAGAGACGCCAAATCTGCTATCTTCAATCTGCTCTCTGACAATACAGAGATGCC
66 CTCTGACAATACAGAGACGCCAAATCTGCTATC-TCAATCTGCTCTCTGACAATACAGAGATGCC
44854540 TA
130 TA
* * * *
44854542 ATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGACACCTAATCTGTTTTC-TCTAATCTGC
1 ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACACCAAATCTGCTATCTTC-AATCTGC
* *
44854606 TCTCTGACAATACAGAGACGCCAAGTCTGCTATCTCGATCTGCTC
65 TCTCTGACAATACAGAGACGCCAAATCTGCTATCTCAATCTGCTC
44854651 CTTGTAAACG
Statistics
Matches: 99, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
131 12 0.12
132 87 0.88
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (131 bp):
ATCTGCTATCTTCGATCTACTCTCTGACAATACAGAGACACCAAATCTGCTATCTTCAATCTGCT
CTCTGACAATACAGAGACGCCAAATCTGCTATCTCAATCTGCTCTCTGACAATACAGAGATGCCT
A
Found at i:44854949 original size:88 final size:89
Alignment explanation
Indices: 44854849--44855047 Score: 346
Period size: 89 Copynumber: 2.2 Consensus size: 89
44854839 AAAGCCAAAT
*
44854849 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCC-AATCATCTTGGATCTACTTTGA
1 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCGAATCATCTTGGATCTACTTCGA
*
44854913 TGTGAAAACATCCGAAGGTTAGAC
66 TGTGAAAACATCCAAAGGTTAGAC
44854937 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCGAATCATCTTGGATCTACTTCGA
1 CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCGAATCATCTTGGATCTACTTCGA
*
44855002 TGTGAAAACATCCAAAGGTTAGAT
66 TGTGAAAACATCCAAAGGTTAGAC
* *
44855026 CTGCTATATCTTCGACCTGCTC
1 CTGCTATGTCTTCGATCTGCTC
44855048 TCCGTCAAAT
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
88 42 0.40
89 63 0.60
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (89 bp):
CTGCTATGTCTTCGATCTGCTCCTTGTAAACGCAAGGATGCCGAATCATCTTGGATCTACTTCGA
TGTGAAAACATCCAAAGGTTAGAC
Found at i:44863422 original size:16 final size:16
Alignment explanation
Indices: 44863401--44863431 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44863391 TTCACTATAA
*
44863401 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
44863417 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
44863432 TCACGCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:44865707 original size:39 final size:39
Alignment explanation
Indices: 44865572--44865690 Score: 211
Period size: 39 Copynumber: 3.1 Consensus size: 39
44865562 TGTGAATATA
*
44865572 TATATGCGAGAATTATATCCAGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
44865611 TATATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
*
44865650 TATATGCGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
44865689 TA
1 TA
44865691 CGTGCTGGAC
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.28
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:44873731 original size:39 final size:39
Alignment explanation
Indices: 44873675--44873793 Score: 193
Period size: 39 Copynumber: 3.1 Consensus size: 39
44873665 TGTGAATATA
*
44873675 TATATGCGAGAATTATATTCGGACTTCAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
44873714 TCTATGCGAGAATTATATCCGGACTTCATGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
* *
44873753 TATATGTGAGAATTATATCCGGACTTTAGGTCCGCAGGC
1 TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
44873792 TA
1 TA
44873794 CGTGCTGGAC
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.29
Consensus pattern (39 bp):
TATATGCGAGAATTATATCCGGACTTCAGGTCCGCAGGC
Found at i:44878044 original size:40 final size:40
Alignment explanation
Indices: 44877980--44878161 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
44877970 GCTACTCGTT
* *
44877980 CAAATGCCTTCGAGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
44878020 CAAATGCCTTCGGGACTTAACCCGGATT-TACTGACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * *
44878060 CCAATGCCTTCGGG-CTTAGCCTGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * *
44878099 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
44878140 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
44878162 AGGCATCATT
Statistics
Matches: 116, Mismatches: 18, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
38 2 0.02
39 28 0.24
40 72 0.62
41 14 0.12
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:44878124 original size:79 final size:80
Alignment explanation
Indices: 44878008--44878160 Score: 204
Period size: 79 Copynumber: 1.9 Consensus size: 80
44877998 AGCCCGGTTA
* * * *
44878008 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTACTGAC-TCGCACCAATGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATACTCACTTAGCA-CAAAGCCTTCG
44878072 GG-CTTAGCCTGGAAT
65 GGACTTAGCCTGGAAT
** *
44878087 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCG
1 TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATACTCACTTAGCACAAAGCCTTCG
44878151 GGACTTAGCC
65 GGACTTAGCC
44878161 CAGGCATCAT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 3 0.05
79 50 0.78
80 11 0.17
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATACTCACTTAGCACAAAGCCTTCGG
GACTTAGCCTGGAAT
Found at i:44884149 original size:13 final size:13
Alignment explanation
Indices: 44884127--44884156 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
44884117 ACATCTCTTC
*
44884127 TTTCTTCTCTCAT
1 TTTCTCCTCTCAT
44884140 TTTCTCCTCTCAT
1 TTTCTCCTCTCAT
44884153 TTTC
1 TTTC
44884157 CTATTCGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.33, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTCTCCTCTCAT
Found at i:44893089 original size:26 final size:27
Alignment explanation
Indices: 44893060--44893111 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 27
44893050 CCAAATTGAT
44893060 AAATGACTATTATACCC-TATGAGATA
1 AAATGACTATTATACCCTTATGAGATA
*
44893086 AAATGACTATTATGCCCTTATGAGAT
1 AAATGACTATTATACCCTTATGAGAT
44893112 GTATGACTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.33
Consensus pattern (27 bp):
AAATGACTATTATACCCTTATGAGATA
Found at i:44897107 original size:29 final size:26
Alignment explanation
Indices: 44897075--44897132 Score: 62
Period size: 26 Copynumber: 2.1 Consensus size: 26
44897065 TAATTTTGAG
* *
44897075 AAAGATGTTGTTCTGAAGGAATTTTTTTC
1 AAAGATG-T-TTCT-AAGAAATTCTTTTC
*
44897104 AAAGGTGTTTCTAAGAAATTCTTTTC
1 AAAGATGTTTCTAAGAAATTCTTTTC
44897130 AAA
1 AAA
44897133 ATTTGTGCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 15 0.58
27 4 0.15
28 1 0.04
29 6 0.23
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (26 bp):
AAAGATGTTTCTAAGAAATTCTTTTC
Found at i:44898891 original size:26 final size:26
Alignment explanation
Indices: 44898852--44898920 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 26
44898842 TTTACATTGT
* *
44898852 TGCTCACACAAGCTGTGAAATGGGTC
1 TGCTCACACGAGCTGTGAAATGGGCC
* * *
44898878 TGCTCATACGAGCTATGGAATGGGCC
1 TGCTCACACGAGCTGTGAAATGGGCC
* *
44898904 TACTCACACGAGTTGTG
1 TGCTCACACGAGCTGTG
44898921 GGTCGGAATG
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (26 bp):
TGCTCACACGAGCTGTGAAATGGGCC
Found at i:44899703 original size:13 final size:13
Alignment explanation
Indices: 44899685--44899709 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44899675 CCCAGGGGAC
44899685 ACATGACCGTGTA
1 ACATGACCGTGTA
44899698 ACATGACCGTGT
1 ACATGACCGTGT
44899710 GTCGTACACG
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:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGACCGTGTA
Found at i:44899738 original size:30 final size:30
Alignment explanation
Indices: 44899698--44899768 Score: 115
Period size: 30 Copynumber: 2.4 Consensus size: 30
44899688 TGACCGTGTA
* *
44899698 ACATGACCGTGTGTCGTACACGGCTGAGAC
1 ACATGCCCGTGTGTCGTACACGGCTAAGAC
44899728 ACATGCCCGTGTGTCGTACACGGCTAAGAC
1 ACATGCCCGTGTGTCGTACACGGCTAAGAC
*
44899758 ACACGCCCGTG
1 ACATGCCCGTG
44899769 CCTCTACCCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.23, C:0.31, G:0.28, T:0.18
Consensus pattern (30 bp):
ACATGCCCGTGTGTCGTACACGGCTAAGAC
Found at i:44903901 original size:37 final size:36
Alignment explanation
Indices: 44903849--44903924 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
44903839 ATTCCAAAAA
*
44903849 TAATATTATTTTAATAGT-TTAATACTTAATTTAAT-T
1 TAATATTATCTTAATAGTATT-ATAC-TAATTTAATAT
*
44903885 TAATACTTATCTTAATAGTATTTTACTAATTTAATAT
1 TAATA-TTATCTTAATAGTATTATACTAATTTAATAT
44903922 TAA
1 TAA
44903925 AGTGACTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 14 0.40
37 19 0.54
38 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTATTATACTAATTTAATAT
Found at i:44908788 original size:56 final size:56
Alignment explanation
Indices: 44908708--44908819 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
44908698 GCCTTATTTC
44908708 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
1 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
44908764 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
1 ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
44908820 TGAAAATGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.27, G:0.04, T:0.23
Consensus pattern (56 bp):
ATTCATAATCATGTATACATACAACCCAACCACATATCAAAGTAACCAAACATTCA
Found at i:44910494 original size:4 final size:4
Alignment explanation
Indices: 44910485--44910557 Score: 137
Period size: 4 Copynumber: 18.2 Consensus size: 4
44910475 ACTAGTGAAT
44910485 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
44910533 TATG TATG TGTG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
44910558 GTGTTGAACA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 67 1.00
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:44912583 original size:18 final size:18
Alignment explanation
Indices: 44912560--44912597 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
44912550 TTTGATTTAT
44912560 TTAAATAATAAAT-TTGAA
1 TTAAATAA-AAATCTTGAA
*
44912578 TTAAATCAAAATCTTGAA
1 TTAAATAAAAATCTTGAA
44912596 TT
1 TT
44912598 TTAAATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (18 bp):
TTAAATAAAAATCTTGAA
Found at i:44913576 original size:23 final size:24
Alignment explanation
Indices: 44913536--44913605 Score: 70
Period size: 28 Copynumber: 2.8 Consensus size: 24
44913526 CTGAAAGTTG
*
44913536 ATAACAATTTTAAGTTAAT-AAATA
1 ATAA-AATTTTAATTTAATAAAATA
*
44913560 ATAAAATTATAATTTAATTTTAAAAATA
1 ATAAAATTTTAATTTAA---T-AAAATA
44913588 ATAAAATTTTAATTTAAT
1 ATAAAATTTTAATTTAAT
44913606 TTTTCTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
23 11 0.29
24 4 0.11
25 1 0.03
26 1 0.03
28 21 0.55
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (24 bp):
ATAAAATTTTAATTTAATAAAATA
Found at i:44913606 original size:28 final size:29
Alignment explanation
Indices: 44913550--44913608 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 29
44913540 CAATTTTAAG
44913550 TTAATAAATAATAAAATTATAATTTAATT
1 TTAATAAATAATAAAATTATAATTTAATT
*
44913579 TTAA-AAATAATAAAATTTTAATTTAATT
1 TTAATAAATAATAAAATTATAATTTAATT
44913607 TT
1 TT
44913609 TCTAAAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 25 0.86
29 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TTAATAAATAATAAAATTATAATTTAATT
Found at i:44919716 original size:123 final size:126
Alignment explanation
Indices: 44919506--44920410 Score: 544
Period size: 140 Copynumber: 6.9 Consensus size: 126
44919496 ATAAGACAAT
* * * *
44919506 ACTTTTGGGGCAACACTTTCTTAAGTGTTGGGATAAACTTACTAACATACGCTTTGGCCAACTTT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
*
44919571 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAGCC-TAAG-ATG-AC
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAGCCTTAAGCAAGAAC
* *
44919629 ACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTTT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* *
44919694 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACACTTAAATAAGAGTTGCCTTTGTTTAGTC
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAAT-A-A---GCC----TTAAG--
44919759 CTAAGAAGAC
120 C-AAG-A-AC
* *
44919769 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCTAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * * * * *
44919834 TTGTATAAGGGTTGTGATATGAATGCCTAAGACAATGCTTAAATAAGAATTGGCTTTGTCTAGTC
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAAT---AA---GC-CT-T-AAG--
44919899 CTAAGACAAC
120 C-AAG--AAC
* * ** * * *
44919909 ACTTCTAGGGCGACACTTTCCTAAGTGTTCAGATAGACTTGCCAACATACGTTTTGGCCAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * * ** * ** **
44919974 TTGTATAAAGGTTGAGG-TATGCATGCCTACGGCAATGCTTAAATAAGAGTT-GGCTTTGTCC
66 TTGTATAAGGGTTG-GGATATGCATGTCTAAGGCAACGCTTAAATAAGCCTTAAGC-AAGAAC
** ** ***** * * * *
44920035 GGTCCTAAAATGACACTTTCCTAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGCCAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * *
44920100 TTGTATAATGGTTAGGATATGCTTG-CTTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCGAC
66 TTGTATAAGGGTTGGGATATGCATGTC-TAAGGCAACGCTTAAAT-A-AG-C--C-TTA--AG-C
*
44920164 ACTATGCCGAC
121 A--A-G--AAC
* * * * * * * *
44920175 ACTTTTGGGTCGACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAAC--
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGC-TTTGGCCAACTT
* * * *
44920238 TTTGTATAAGGGTTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTT-TGTC--C
65 TTTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAAT-A-AG-C--CTTAAG-CAAG
44920300 AAC
124 AAC
* * * * * * *
44920303 AC-TAT--GCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACGTATGCTTTGGCCAACTCT
1 ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
* * * *
44920365 ATGTATAAGGGTT-GGATATGCATGCCTAAGACAACACTTAAATAAG
66 TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAG
44920411 AGTTGGTTTT
Statistics
Matches: 632, Mismatches: 105, Indels: 90
0.76 0.13 0.11
Matches are distributed among these distances:
123 104 0.16
124 12 0.02
125 65 0.10
126 101 0.16
127 3 0.00
128 12 0.02
130 1 0.00
132 3 0.00
133 4 0.01
134 1 0.00
135 3 0.00
136 1 0.00
137 4 0.01
138 4 0.01
139 50 0.08
140 247 0.39
141 16 0.03
142 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (126 bp):
ACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTTTGGCCAACTTT
TTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACGCTTAAATAAGCCTTAAGCAAGAAC
Found at i:44919875 original size:140 final size:138
Alignment explanation
Indices: 44919618--44920422 Score: 804
Period size: 140 Copynumber: 6.0 Consensus size: 138
44919608 CTTAAATAAG
* *
44919618 CCTAAGATGACACTTTTGGGGTGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
1 CCTAAGA-AACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * * *
44919683 TGGCCAACTTTTTGTATAAGGGTTGGGATATGCATGTCTAAGGCAACACTTAAATAAGAGTTGCC
65 TGGCCAACTCTTTGTATAAGGGTT-GGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGC
44919748 TTTGTTTAGT
129 TTTGTTTAGT
*
44919758 CCTAAGAAGACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAAACTTGCCAACATACGCTT
1 CCTAAGAA-ACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * * * *
44919823 TGGCTAACTCTTTGTATAAGGGTTGTGATATGAATGCCTAAGACAATGCTTAAATAAGAATTGGC
65 TGGCCAACTCTTTGTATAAGGGTTG-GATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGC
*
44919888 TTTGTCTAGT
129 TTTGTTTAGT
* * ** *
44919898 CCTAAGACAACACTTCTAGGGCGACACTTTCCTAAGTGTTCAGATAGACTTGCCAACATACGTTT
1 CCTAAGA-AACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTT
* * * *
44919963 TGGCCAACTCTTTGTATAAAGGTTGAGGTATGCATGCCTACGGCAATGCTTAAATAAGAGTTGGC
65 TGGCCAACTCTTTGTATAAGGGTTG-GATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGC
***
44920028 TTTGTCCGGT
129 TTTGTTTAGT
* *
44920038 CCT---AAA-A----T-----GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACGTACGCTTT
1 CCTAAGAAACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTT
* * * *
44920090 GGCCAACTCTTTGTATAATGGTTAGGATATGCTTGCTTAAGGCAACGCTTAAATAAGAGTCGGCT
66 GGCCAACTCTTTGTATAAGGGTT-GGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCT
* ** *
44920155 TT-ATCCGA
130 TTGTTTAGT
* ** * * * * * * *
44920163 CACTATGCCGACACTTTTGGGTCGACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCT
1 C-CTAAG-AAACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGC-
* *
44920228 TTTGGCCAA--CTTTGTATAAGGGTTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCG
63 TTTGGCCAACTCTTTGTATAAGGGTT-GGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTG
44920291 GC----TTT-GT
127 GCTTTGTTTAGT
* * * * *
44920298 CC-----AACAC-TAT--GCCAACACTTTCCTAAGTGTTGGGATAGACTTGCCAACGTATGCTTT
1 CCTAAGAAACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTT
* * * *
44920355 GGCCAACTCTATGTATAAGGGTTGGATATGCATGCCTAAGACAACACTTAAATAAGAGTTGGTTT
66 GGCCAACTCTTTGTATAAGGGTTGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTT
44920420 TGT
131 TGT
44920423 CCAATAGTAT
Statistics
Matches: 560, Mismatches: 79, Indels: 63
0.80 0.11 0.09
Matches are distributed among these distances:
124 9 0.02
125 72 0.13
126 113 0.20
127 3 0.01
128 4 0.01
129 1 0.00
130 1 0.00
131 2 0.00
134 1 0.00
135 4 0.01
136 3 0.01
137 1 0.00
139 52 0.09
140 284 0.51
141 10 0.02
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (138 bp):
CCTAAGAAACACTTTTGGGGCGACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTT
GGCCAACTCTTTGTATAAGGGTTGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTTGGCTT
TGTTTAGT
Found at i:44920145 original size:126 final size:126
Alignment explanation
Indices: 44919920--44920424 Score: 498
Period size: 126 Copynumber: 3.9 Consensus size: 126
44919910 CTTCTAGGGC
** * *
44919920 GACACTTTCCTAAGTGTTCAGATAGACTTGCCAACATACGTTTTGGCCAACTCTTTGTATAAAGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * *
44919985 TTGAGG-TATGCATGCCTACGGCAATGCTTAAATAAGAGTTGGCTTTGTCCGGTC-CTAAAAT
66 TT-AGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC-GACACTAAAAT
* * *
44920046 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGCCAACTCTTTGTATAATGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * *
44920111 TTAGGATATGCTTGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCGACACTATGCCGACA
66 TTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCGACACTA-----A-A
*
44920176 CTTTTGGGT
125 -------AT
* * * * * *
44920185 CGACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAA--CTTTGTATAAG
1 -GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGC-TTTGGCCAACTCTTTGTATAAG
* * * ****
44920248 GGTTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
64 GGTTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCGACACTAAAAT
* * * *
44920311 AACACTTTCCTAAGTGTTGGGATAGACTTGCCAACGTATGCTTTGGCCAACTCTATGTATAAGGG
1 GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
* * * *
44920376 TT-GGATATGCATGCCTAAGACAACACTTAAATAAGAGTTGGTTTTGTCC
66 TTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCC
44920425 AATAGTATGC
Statistics
Matches: 314, Mismatches: 46, Indels: 39
0.79 0.12 0.10
Matches are distributed among these distances:
124 9 0.03
125 79 0.25
126 116 0.37
131 1 0.00
132 1 0.00
139 64 0.20
140 35 0.11
141 9 0.03
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (126 bp):
GACACTTTCCTAAGTGTTGGGATAGACTTGCCAACATACGCTTTGGCCAACTCTTTGTATAAGGG
TTAGGATATGCATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCGACACTAAAAT
Found at i:44920305 original size:139 final size:139
Alignment explanation
Indices: 44920046--44920318 Score: 395
Period size: 139 Copynumber: 2.0 Consensus size: 139
44920036 GTCCTAAAAT
* * * * *
44920046 GACACTTTCCTAAGTGTTGGGATAGACTTGCCGACGTACGCTTTGGCCAACTCTTTGTATAATGG
1 GACACTTTCCTAAGTATTGGGACAGACTTGCCGACATACCCTTTGGCCAAC-CTTTGTATAAGGG
* * * * *
44920111 TTAGGATATGCTTGCTTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCGACACTATGCCGACA
65 TTAGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGCCAACA
44920176 CTTTTGGGTC
130 CTTTTGGGTC
* *
44920186 GACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAA-CTTTGTATAAGGG
1 GACACTTTCCTAAGTATTGGGACAGACTTGCCGACATACCC-TTTGGCCAACCTTTGTATAAGGG
* *
44920250 TTGGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCAACA
65 TTAGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGCCAACA
44920315 CTTT
130 CTTT
44920319 CCTAAGTGTT
Statistics
Matches: 118, Mismatches: 14, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
139 74 0.63
140 35 0.30
141 9 0.08
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (139 bp):
GACACTTTCCTAAGTATTGGGACAGACTTGCCGACATACCCTTTGGCCAACCTTTGTATAAGGGT
TAGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTATCCAACACTATGCCAACAC
TTTTGGGTC
Found at i:44920409 original size:125 final size:125
Alignment explanation
Indices: 44920187--44920435 Score: 331
Period size: 125 Copynumber: 2.0 Consensus size: 125
44920177 TTTTGGGTCG
* * *
44920187 ACACTTTCCTAATTATTGGGACAGACTTGTCGACATACCCTTTTGGCCAACTTTGTATAAGGGTT
1 ACACTTTCCTAAGTATTGGGACAGACTTGCCAACATACCCTTTTGGCCAACTTTGTATAAGGGTT
* *
44920252 GGGATATACATGCCTAAGGCAACGCTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCA
66 GGGATATACATGCCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCA
* * * **
44920312 ACACTTTCCTAAGTGTTGGGATAGACTTGCCAACGTATGC-TTTGGCCAACTCTATGTATAAGGG
1 ACACTTTCCTAAGTATTGGGACAGACTTGCCAACATACCCTTTTGGCCAACT-T-TGTATAAGGG
* * * * *
44920376 TT-GGATATGCATGCCTAAGACAACACTTAAATAAGAGTTGGTTTTGTCCAATAGTATGCC
64 TTGGGATATACATGCCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCC
44920436 TAAGGAAACA
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
124 11 0.10
125 84 0.79
126 12 0.11
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (125 bp):
ACACTTTCCTAAGTATTGGGACAGACTTGCCAACATACCCTTTTGGCCAACTTTGTATAAGGGTT
GGGATATACATGCCTAAGACAACACTTAAATAAGAGTCGGCTTTGTCCAACACTATGCCA
Found at i:44921624 original size:128 final size:129
Alignment explanation
Indices: 44921234--44921878 Score: 996
Period size: 129 Copynumber: 5.0 Consensus size: 129
44921224 ACACTTAATG
***
44921234 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTTTTATTTTAAAATTTTTTTAATCATTTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTT-AAATTTTTTTAATCATTTT
*
44921299 GAATTTTAAGTT-TCTTTTGATCGAGTCATTTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
65 GAATTTTAAGTTAT-TTTTGATCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
44921363 T
129 T
44921364 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTTAAACTTTTTTTTAATCATTT
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTTAAA--TTTTTTTAATCATTT
*
44921429 TGAATTTTAAGTTATTTTTGGTCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
64 TGAATTTTAAGTTATTTTTGATCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGT
44921494 T
129 T
** ** * *
44921495 ATGAAGTTATGGTAAAATGAATTGCATAAGGTAAATTCGGATTTT-AATTTTTTTAATCATTTTG
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTTAAATTTTTTTAATCATTTTG
* *
44921559 AATTTTAAGTTATTTTTGATCGAGCCAATTTGGGTTTAGCTCATTCAGGTTTGTTAATCGAGTT
66 AATTTTAAGTTATTTTTGATCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
* *
44921623 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGGATTTTAAACTTTTTTAATCATTTTG
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTTAAATTTTTTTAATCATTTTG
* * * *
44921688 AATTTTAAGTTTTTTTTGGTCAAG-CAAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCAAGTT
66 AATTTTAAGTTATTTTTGATCGAGTC-AATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
44921752 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTT--ATTTTTTTAATCATTTTG
1 ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTTAAATTTTTTTAATCATTTTG
* * *
44921815 AATTTTAAGATATTTTT-AGTCGAGTTAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCTAGTT
66 AATTTTAAGTTATTTTTGA-TCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
44921879 TTTCAAGTCG
Statistics
Matches: 475, Mismatches: 33, Indels: 17
0.90 0.06 0.03
Matches are distributed among these distances:
127 73 0.15
128 119 0.25
129 122 0.26
130 44 0.09
131 116 0.24
132 1 0.00
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.48
Consensus pattern (129 bp):
ATGAAGTTATGGTATTATGAATTGTTTAGGGTAAATTCGAATTTTAAATTTTTTTAATCATTTTG
AATTTTAAGTTATTTTTGATCGAGTCAATTTGGGTTTAGCTCATTCAAGTTTGTTAATCGAGTT
Found at i:44926326 original size:40 final size:40
Alignment explanation
Indices: 44926232--44926376 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
44926222 TACTCGAATG
*
44926232 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
44926273 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
44926313 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
44926353 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
44926377 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:44933924 original size:39 final size:38
Alignment explanation
Indices: 44933835--44933931 Score: 124
Period size: 39 Copynumber: 2.5 Consensus size: 38
44933825 CACACCATCT
* * *
44933835 CCACCCACCCCTACACACCACGTGGGGATAAAATCAAC
1 CCACCCAACCCTACACACCAAGTGGGGATAAAATAAAC
*
44933873 CCACCCAGCCCTACACACCAAGTATGGGGAT-AAATAAAC
1 CCACCCAACCCTACACACCAAG--TGGGGATAAAATAAAC
*
44933912 CCATCCAACCCTACACACCA
1 CCACCCAACCCTACACACCA
44933932 TAAGGTACCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 20 0.38
39 25 0.48
40 7 0.13
ACGTcount: A:0.36, C:0.41, G:0.11, T:0.11
Consensus pattern (38 bp):
CCACCCAACCCTACACACCAAGTGGGGATAAAATAAAC
Found at i:44934359 original size:17 final size:18
Alignment explanation
Indices: 44934287--44934361 Score: 55
Period size: 17 Copynumber: 4.1 Consensus size: 18
44934277 CATGTGGCTT
*
44934287 GCCCGTGTGAGCCCACAA
1 GCCCGTGTGAGCCCACAC
*
44934305 GCCCGTGTG-GCACACAC
1 GCCCGTGTGAGCCCACAC
* * *
44934322 GGCCTGGTCTAGATTCCCACAC
1 -GCC-CGTGT-GA-GCCCACAC
44934344 GCCCGTGTG-GCCCACAC
1 GCCCGTGTGAGCCCACAC
44934361 G
1 G
44934362 TCCCAATTGG
Statistics
Matches: 43, Mismatches: 9, Indels: 11
0.68 0.14 0.17
Matches are distributed among these distances:
17 14 0.33
18 12 0.28
19 4 0.09
20 4 0.09
21 3 0.07
22 6 0.14
ACGTcount: A:0.17, C:0.40, G:0.28, T:0.15
Consensus pattern (18 bp):
GCCCGTGTGAGCCCACAC
Found at i:44938101 original size:40 final size:40
Alignment explanation
Indices: 44938016--44938111 Score: 133
Period size: 40 Copynumber: 2.4 Consensus size: 40
44938006 TACTATGTTT
44938016 GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAAATA
1 GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTAT-AATA
* *
44938057 -GCACTTAGTGTGCGAATTGGAATAGCTTCGGCTCT-ATGA
1 GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAAT-A
*
44938096 GGCACTAAGTGTGCGA
1 GGCACTTAGTGTGCGA
44938112 TACAAAGATA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 47 0.94
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (40 bp):
GGCACTTAGTGTGCGAATTGGAATAGCTTCAGCTATAATA
Found at i:44941013 original size:27 final size:23
Alignment explanation
Indices: 44940960--44941006 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44940950 ATCTATATGA
44940960 ATTCAAAATTAACTTATTTAATC
1 ATTCAAAATTAACTTATTTAATC
*
44940983 ATTCAGAATTAACTTATTTAATC
1 ATTCAAAATTAACTTATTTAATC
44941006 A
1 A
44941007 ACCATTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.43, C:0.13, G:0.02, T:0.43
Consensus pattern (23 bp):
ATTCAAAATTAACTTATTTAATC
Found at i:44944052 original size:41 final size:41
Alignment explanation
Indices: 44944007--44944089 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
44943997 CGAATTCTTT
*
44944007 ACCTGATTCAGGCTGAACTAACACTGGTGCCTCTATCAGTA
1 ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTATCAGTA
*
44944048 ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTGTCAGTA
1 ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTATCAGTA
44944089 A
1 A
44944090 TGCTTTCAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.27
Consensus pattern (41 bp):
ACCTGATTCAGGCTAAACTAACACTGGTGCCTCTATCAGTA
Found at i:44956388 original size:13 final size:13
Alignment explanation
Indices: 44956332--44956390 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
44956322 AATTTAATTC
44956332 ACACGGGCATGGG
1 ACACGGGCATGGG
*
44956345 ACACAGG-AGTGGG
1 ACACGGGCA-TGGG
* *
44956358 ATACAGGCATGGG
1 ACACGGGCATGGG
*
44956371 ACACGGGCATAGG
1 ACACGGGCATGGG
44956384 ACACGGG
1 ACACGGG
44956391 TGTGTCCCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
12 1 0.03
13 37 0.95
14 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.42, T:0.08
Consensus pattern (13 bp):
ACACGGGCATGGG
Found at i:44966278 original size:15 final size:15
Alignment explanation
Indices: 44966255--44966292 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
44966245 TTAGTGAATT
*
44966255 AATTGAATTATGTTA
1 AATTAAATTATGTTA
44966270 AATTAAATTATGTTA
1 AATTAAATTATGTTA
44966285 AATTAAAT
1 AATTAAAT
44966293 GATTATGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
AATTAAATTATGTTA
Found at i:44970991 original size:48 final size:48
Alignment explanation
Indices: 44970920--44971143 Score: 279
Period size: 48 Copynumber: 4.7 Consensus size: 48
44970910 TGAGCCAATT
* **
44970920 TAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGATATGAGAGCTAGTG
* * * * *
44970968 TAAGACCATGTCTGGGACATGGCATTGGCCTCGATATGTGAACTAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGATATGAGAGCTAGTG
* * * ** *
44971016 TAAGACCATATTTGGAACATGGCACCGGCATTTATATGAGAGCTAGCG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGATATGAGAGCTAGTG
* *
44971064 TAAGACCATGTTTGGGACATGGCATCGGCCTCGACT-TGTGAGCTAGTG
1 TAAGACCATGTTTGGGACATGGCATCGGCATCGA-TATGAGAGCTAGTG
*
44971112 TAAGACCATGTCTGGGACATGGCATCGGCATC
1 TAAGACCATGTTTGGGACATGGCATCGGCATC
44971144 TTACCCTTTT
Statistics
Matches: 146, Mismatches: 29, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
48 145 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (48 bp):
TAAGACCATGTTTGGGACATGGCATCGGCATCGATATGAGAGCTAGTG
Found at i:44971070 original size:96 final size:96
Alignment explanation
Indices: 44970920--44971142 Score: 358
Period size: 96 Copynumber: 2.3 Consensus size: 96
44970910 TGAGCCAATT
*
44970920 TAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGTGTAAGACCATGTCTGGGA
1 TAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGCGTAAGACCATGTCTGGGA
*
44970985 CATGGCATTGGCCTCGA-TATGTGAACTAGTG
66 CATGGCATCGGCCTCGACT-TGTGAACTAGTG
* * *
44971016 TAAGACCATATTTGGAACATGGCACCGGCATTTATATGAGAGCTAGCGTAAGACCATGTTTGGGA
1 TAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGCGTAAGACCATGTCTGGGA
*
44971081 CATGGCATCGGCCTCGACTTGTGAGCTAGTG
66 CATGGCATCGGCCTCGACTTGTGAACTAGTG
* *
44971112 TAAGACCATGTCTGGGACATGGCATCGGCAT
1 TAAGACCATGTTTGGAACATGGCATCGGCAT
44971143 CTTACCCTTT
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
96 115 0.99
97 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
TAAGACCATGTTTGGAACATGGCATCGGCATTTATATGAGAGCTAGCGTAAGACCATGTCTGGGA
CATGGCATCGGCCTCGACTTGTGAACTAGTG
Found at i:44979768 original size:20 final size:18
Alignment explanation
Indices: 44979735--44979776 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 18
44979725 CAGTTTTATA
44979735 ATTTTAAAATTTTTAATG
1 ATTTTAAAATTTTTAATG
*
44979753 ATTTTAATATATTTTTAATT
1 ATTTTAA-A-ATTTTTAATG
44979773 ATTT
1 ATTT
44979777 AATTAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.33
19 1 0.05
20 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTAAAATTTTTAATG
Found at i:44979961 original size:30 final size:30
Alignment explanation
Indices: 44979925--44979984 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
44979915 AGATACATGG
44979925 CATTGCATACATATCGTGAAGTTTTACTCT
1 CATTGCATACATATCGTGAAGTTTTACTCT
* *
44979955 CATTGCATACTTATTGTGAAGTTTTACTCT
1 CATTGCATACATATCGTGAAGTTTTACTCT
44979985 TTGTGCGCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.13, T:0.43
Consensus pattern (30 bp):
CATTGCATACATATCGTGAAGTTTTACTCT
Found at i:44981791 original size:80 final size:79
Alignment explanation
Indices: 44981707--44981878 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
44981697 GGACTAAGAT
*
44981707 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
44981771 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
44981787 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
44981852 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
44981866 CCGAAGGCATTTG
1 CCGAAGGCATTTG
44981879 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:44981858 original size:39 final size:39
Alignment explanation
Indices: 44981654--44981876 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
44981644 TTGAATGCTG
* * * * *
44981654 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
44981694 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
44981733 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
44981774 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
44981814 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
44981853 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
44981877 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:44985026 original size:25 final size:25
Alignment explanation
Indices: 44984998--44985072 Score: 114
Period size: 25 Copynumber: 3.0 Consensus size: 25
44984988 CTCACTTGAA
*
44984998 CTATAGATTAGTATGCTCTCACGAG
1 CTATAAATTAGTATGCTCTCACGAG
**
44985023 CTATAAATCGGTATGCTCTCACGAG
1 CTATAAATTAGTATGCTCTCACGAG
*
44985048 CTCTAAATTAGTATGCTCTCACGAG
1 CTATAAATTAGTATGCTCTCACGAG
44985073 TTGTGGAGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (25 bp):
CTATAAATTAGTATGCTCTCACGAG
Found at i:44985033 original size:50 final size:50
Alignment explanation
Indices: 44984978--44985072 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
44984968 ACGAGTTGTG
** *
44984978 AATCGGTATGCTCACTTGAACTATAGATTAGTATGCTCTCACGAGCTATA
1 AATCGGTATGCTCACACGAACTATAAATTAGTATGCTCTCACGAGCTATA
* * *
44985028 AATCGGTATGCTCTCACGAGCTCTAAATTAGTATGCTCTCACGAG
1 AATCGGTATGCTCACACGAACTATAAATTAGTATGCTCTCACGAG
44985073 TTGTGGAGTC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (50 bp):
AATCGGTATGCTCACACGAACTATAAATTAGTATGCTCTCACGAGCTATA
Found at i:44985602 original size:23 final size:23
Alignment explanation
Indices: 44985566--44985637 Score: 56
Period size: 23 Copynumber: 3.1 Consensus size: 23
44985556 GTTTGGGATC
* *
44985566 TGTGGCGTAATCTGCTAAGCTTA
1 TGTGGCATATTCTGCTAAGCTTA
* *** *
44985589 TGTGGCATATTCTGTTTTCCTTT
1 TGTGGCATATTCTGCTAAGCTTA
*
44985612 TGTGGCATAATT-TGCTAAGCCTA
1 TGTGGCAT-ATTCTGCTAAGCTTA
44985635 TGT
1 TGT
44985638 ATCATAGTCT
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
23 32 0.91
24 3 0.09
ACGTcount: A:0.18, C:0.17, G:0.22, T:0.43
Consensus pattern (23 bp):
TGTGGCATATTCTGCTAAGCTTA
Found at i:44985660 original size:46 final size:46
Alignment explanation
Indices: 44985566--44985662 Score: 115
Period size: 46 Copynumber: 2.1 Consensus size: 46
44985556 GTTTGGGATC
* * * * *
44985566 TGTGGCGTAATCTGCTAAGCTTATGTGGCATATTCTGTTTTCCTTT
1 TGTGGCATAATCTGCTAAGCCTATGTAGCATAGTCTGTTTGCCTTT
* *
44985612 TGTGGCATAATTTGCTAAGCCTATGTATCATAGTCTGTTTGGCC-TT
1 TGTGGCATAATCTGCTAAGCCTATGTAGCATAGTCTGTTT-GCCTTT
44985658 TGTGG
1 TGTGG
44985663 TGCATTCTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
46 41 0.95
47 2 0.05
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (46 bp):
TGTGGCATAATCTGCTAAGCCTATGTAGCATAGTCTGTTTGCCTTT
Found at i:44987952 original size:25 final size:25
Alignment explanation
Indices: 44987906--44987953 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
44987896 ATGAAATAAT
*
44987906 TTTAAAATAATAATATATAAGTTAA
1 TTTAAAATAATAATATACAAGTTAA
*
44987931 TTTAAAATGAT-ATATAACAAGTT
1 TTTAAAATAATAATAT-ACAAGTT
44987954 TAAGATACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (25 bp):
TTTAAAATAATAATATACAAGTTAA
Found at i:45000650 original size:14 final size:13
Alignment explanation
Indices: 45000605--45000646 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
45000595 TTCTTTATTG
45000605 ATTTATTTATTTCT
1 ATTTATTTATTT-T
45000619 ATTTATTTTATTTT
1 ATTTA-TTTATTTT
*
45000633 ATTTATTAATTTT
1 ATTTATTTATTTT
45000646 A
1 A
45000647 ATTTTAATAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.31
14 11 0.42
15 7 0.27
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTATTTATTTT
Found at i:45000650 original size:24 final size:24
Alignment explanation
Indices: 45000606--45000652 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
45000596 TCTTTATTGA
**
45000606 TTTATTTATTTCTATTTATTTTAT
1 TTTATTTATTAATATTTATTTTAT
45000630 TTTATTTATTAAT-TTTAATTTTA
1 TTTATTTATTAATATTT-ATTTTA
45000653 ATACTCTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTATTTATTAATATTTATTTTAT
Found at i:45002608 original size:80 final size:80
Alignment explanation
Indices: 45002492--45002677 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 80
45002482 AGTAACTCAT
* *
45002492 ACAATGCCTTCGGGACTTAACCC-GAATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCC
1 ACAAAGCCTTCGGGACTTAACCCGGAA-TTTAAAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
45002555 GGA-ATTAGT-A-TCTCGC
64 GGATA-TAGTCACT-TAGC
**
45002571 ACAAAGGCCTTCGGGACTTAACCCGGAA-TTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGAATTTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
45002635 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
45002652 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
45002678 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
79 11 0.12
80 69 0.73
81 13 0.14
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGAATTTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:45002637 original size:40 final size:40
Alignment explanation
Indices: 45002494--45002677 Score: 198
Period size: 40 Copynumber: 4.6 Consensus size: 40
45002484 TAACTCATAC
*
45002494 AATGCCTTCGGGACTTAACCC-GAATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGAA--TTAATAACTCGCACA
* *
45002534 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45002574 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
45002614 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
45002655 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45002678 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
39 8 0.06
40 102 0.82
41 14 0.11
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45010444 original size:39 final size:40
Alignment explanation
Indices: 45010401--45010568 Score: 148
Period size: 40 Copynumber: 4.2 Consensus size: 40
45010391 CTCGTTCAAG
* * * *
45010401 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
45010440 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
45010480 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * *
45010520 GGCCTTCGGGACTTAACCCGGAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCACACGAA
45010560 TGCCTTCGG
1 TGCCTTCGG
45010569 ATCTTAGTCC
Statistics
Matches: 111, Mismatches: 12, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
39 26 0.23
40 81 0.73
41 3 0.03
42 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:45010552 original size:80 final size:80
Alignment explanation
Indices: 45010436--45010621 Score: 229
Period size: 80 Copynumber: 2.3 Consensus size: 80
45010426 AGTAACTCAT
* * *
45010436 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTC-GGATCTTAACCCG
*
45010500 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
45010515 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATGCCTTCGGATCTTAACCC
45010579 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
45010596 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
45010622 CAGCATTCAA
Statistics
Matches: 94, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 11 0.12
80 72 0.77
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:45010581 original size:40 final size:40
Alignment explanation
Indices: 45010438--45010621 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
45010428 TAACTCATAC
* *
45010438 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
45010478 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
45010518 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
** * * *
45010558 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
45010599 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
45010622 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 105 0.85
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:45017087 original size:47 final size:47
Alignment explanation
Indices: 45017026--45017427 Score: 597
Period size: 47 Copynumber: 8.5 Consensus size: 47
45017016 ATTCAACCAA
*
45017026 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45017073 AAAAGTGTAAATATGTGATAAGGCCTAATGGCCGATGTAATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45017120 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45017169 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45017216 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
45017263 GAAAGTGTATATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
45017312 GGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * *
45017359 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45017406 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
45017428 TCCCGAAGGG
Statistics
Matches: 325, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 237 0.73
49 88 0.27
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:45017137 original size:96 final size:94
Alignment explanation
Indices: 45017026--45017427 Score: 588
Period size: 96 Copynumber: 4.2 Consensus size: 94
45017016 ATTCAACCAA
*
45017026 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTAAAAGTGTAAATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAAATATGTGA
*
45017091 TAAGGCCTAATGGCCGATGTAATGAATGT
66 TAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45017120 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAAATATGT
*
45017185 GATAAGGCCTAATAGCCGATGTGATGAATGT
64 GATAAGGCCTAATGGCCGATGTGATGAATGT
*
45017216 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTA-A-ATATGT
*
45017281 AATAAGGCCTAATGGCCGATGTGATGAATGT
64 GATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45017312 GGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAAATATGTGA
* * * * * * *
45017377 CAGGGCCGAGTGGCCAACGTGATGGATGT
66 TAAGGCCTAATGGCCGATGTGATGAATGT
* *
45017406 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
45017428 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 27, Indels: 8
0.89 0.09 0.03
Matches are distributed among these distances:
94 102 0.37
96 175 0.63
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAAATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:45017286 original size:143 final size:143
Alignment explanation
Indices: 45017026--45017412 Score: 630
Period size: 143 Copynumber: 2.7 Consensus size: 143
45017016 ATTCAACCAA
* *
45017026 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTAAAAGTGTAAATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45017091 TAAGGCCTAATGGCCGATGTAATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
45017156 ATGTGATGAATGT
131 ATGTGATGAATGT
* *
45017169 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45017234 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
45017299 ATGTGATGAATGT
131 ATGTGATGAATGT
* *
45017312 GGAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * *
45017377 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
45017413 CATAAATGTG
Statistics
Matches: 225, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
143 225 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
ATGTGATGAATGT
Found at i:45017604 original size:37 final size:37
Alignment explanation
Indices: 45017546--45017624 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
45017536 CCGAGCTCTA
* *
45017546 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
45017583 AAGACCCGATAACTTCTTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45017620 AAGAC
1 AAGAC
45017625 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45018962 original size:29 final size:29
Alignment explanation
Indices: 45018927--45019000 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
45018917 GTTGTGAGAT
* *
45018927 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
45018956 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
45018985 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
45019001 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:45019375 original size:40 final size:40
Alignment explanation
Indices: 45019355--45019659 Score: 459
Period size: 40 Copynumber: 7.6 Consensus size: 40
45019345 TAAGTGACCA
*
45019355 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
45019395 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
45019435 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
45019475 TATCCGGACTAAGTTCCAAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
45019515 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATG
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*
45019555 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATA
1 TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
*** * * *
45019595 TATCCGTG-CTAAACCCCGAAGAGCATTCGTGCTGGTGTTA
1 TATCCG-GACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
* * * *
45019635 TATCCGGGCTAGGTCCCAAAGAGCA
1 TATCCGGACTAAGTTCCGAAGAGCA
45019660 ATCATGCTGG
Statistics
Matches: 246, Mismatches: 17, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 244 0.99
41 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATG
Found at i:45019485 original size:120 final size:120
Alignment explanation
Indices: 45019317--45019659 Score: 467
Period size: 120 Copynumber: 2.9 Consensus size: 120
45019307 TTGAATGATG
* * * * *
45019317 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATATCCGGACTAAGTTTCGAAGAGCA
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGACTAAGTTCCGAAGAGCA
45019380 TTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
64 TTCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
* * *
45019437 TCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTATCCGGACTAAGTTCCAAAGAGCATT
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCGAAGAGCATT
*
45019502 CGTGCTAGTGATGTATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATGTA
66 CGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
***
45019557 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGTG-CTAAACCCCGAAGAGCAT
1 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCG-GACTAAGTTCCGAAGAGCAT
* * * * * * *
45019621 TCGTGCTGGTGTTATATCCGGGCTAGGTCCCAAAGAGCA
65 TCGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCA
45019660 ATCATGCTGG
Statistics
Matches: 197, Mismatches: 23, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
120 182 0.92
121 8 0.04
122 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGACTAAGTTCCGAAGAGCATT
CGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:45023253 original size:47 final size:47
Alignment explanation
Indices: 45023195--45023596 Score: 615
Period size: 47 Copynumber: 8.5 Consensus size: 47
45023185 ATTCAGCCAA
*
45023195 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45023242 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45023289 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45023338 GAAAGTGCATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45023385 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45023432 GAAAGTGTATATATATGTAATAAGGCCTAATGGTCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45023481 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * *
45023528 GAAAGTGTATATATGTGACAAGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45023575 GAATGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
45023597 TCCCGAAGGG
Statistics
Matches: 330, Mismatches: 21, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 240 0.73
49 90 0.27
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:45023311 original size:96 final size:94
Alignment explanation
Indices: 45023195--45023596 Score: 615
Period size: 96 Copynumber: 4.2 Consensus size: 94
45023185 ATTCAGCCAA
45023195 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
45023260 TAAGGCCTAATGGCCGATGTGATGAATGT
66 TAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45023289 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGCATATGTGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
45023354 GATAAGGCCTAATAGCCGATGTGATGAATGT
64 GATAAGGCCTAATGGCCGATGTGATGAATGT
*
45023385 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGT
* *
45023450 AATAAGGCCTAATGGTCGATGTGATGAATGT
64 GATAAGGCCTAATGGCCGATGTGATGAATGT
*
45023481 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
45023546 CAAGGCCGAGTGGCCAACGTGATGGATGT
66 TAAGGCCTAATGGCCGATGTGATGAATGT
* * *
45023575 GAATGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
45023597 TCCCGAAGGG
Statistics
Matches: 280, Mismatches: 24, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
94 103 0.37
96 177 0.63
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:45023568 original size:143 final size:143
Alignment explanation
Indices: 45023195--45023577 Score: 649
Period size: 143 Copynumber: 2.7 Consensus size: 143
45023185 ATTCAGCCAA
45023195 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
45023260 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
45023325 ATGTGATGAATGT
131 ATGTGATGAATGT
* * *
45023338 GAAAGTGCATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
45023403 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGTCG
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
45023468 ATGTGATGAATGT
131 ATGTGATGAATGT
*
45023481 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
45023546 CAAGGCCGAGTGGCCAACGTGATGGATGTGAA
66 TAAGGCCTAATGGCCGATGTGATGAATGTGAA
45023578 TGTGCATAAA
Statistics
Matches: 223, Mismatches: 17, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
143 223 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTAATAAGGCCTAATGGCCG
ATGTGATGAATGT
Found at i:45023771 original size:37 final size:37
Alignment explanation
Indices: 45023715--45023793 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
45023705 CCGAGCTCTA
* **
45023715 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATAATGTCCGGGT
*
45023752 AAGACCCGATAACTTCGTGTGGAGATAATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATAATGTCCGGGT
45023789 AAGAC
1 AAGAC
45023794 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATAATGTCCGGGT
Found at i:45025714 original size:28 final size:27
Alignment explanation
Indices: 45025650--45025801 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
45025640 TTATTAAGTC
* *
45025650 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
45025677 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
45025705 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
45025732 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
45025760 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
45025787 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45025802 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45025734 original size:55 final size:55
Alignment explanation
Indices: 45025650--45025826 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
45025640 TTATTAAGTC
* * *
45025650 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
45025705 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
45025760 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
45025816 CGCACACTTAG
1 CGCACACTTAG
45025827 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45033708 original size:28 final size:27
Alignment explanation
Indices: 45033644--45033795 Score: 232
Period size: 27 Copynumber: 5.6 Consensus size: 27
45033634 TTATTAAGTC
* *
45033644 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
45033671 CGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCA-ACT
*
45033699 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
45033726 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
* *
45033754 CGCACACTTAGTGCTACATATTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
45033781 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
45033796 GCACAATTTA
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 66 0.56
28 52 0.44
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:45033728 original size:55 final size:55
Alignment explanation
Indices: 45033644--45033820 Score: 246
Period size: 55 Copynumber: 3.2 Consensus size: 55
45033634 TTATTAAGTC
* * *
45033644 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCATACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* *
45033699 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
* * * * * *
45033754 CGCACACTTAGTGCTACATATTCAATTCGCACACTTAGTGCTGCACAATTTAAACC
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAA-TCAAACT
45033810 CGCACACTTAG
1 CGCACACTTAG
45033821 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 93 0.85
56 16 0.15
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:45057063 original size:47 final size:47
Alignment explanation
Indices: 45057007--45057547 Score: 875
Period size: 47 Copynumber: 11.5 Consensus size: 47
45056997 ATTCAGCCAA
*
45057007 GAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45057054 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45057101 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45057148 GAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45057197 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45057244 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45057291 GAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
45057338 GAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
*
45057385 GAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
45057432 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* * * * * * * *
45057479 GAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGACGGATGT
1 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
* *
45057526 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
45057548 TCCCGAAGGG
Statistics
Matches: 469, Mismatches: 23, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 422 0.90
49 47 0.10
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
Found at i:45057722 original size:37 final size:37
Alignment explanation
Indices: 45057666--45057744 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
45057656 CTGAGCTCTA
* *
45057666 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
* *
45057703 AAGAGCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
45057740 AAGAC
1 AAGAC
45057745 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 35 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:45061239 original size:68 final size:63
Alignment explanation
Indices: 45061092--45061271 Score: 166
Period size: 68 Copynumber: 2.8 Consensus size: 63
45061082 ATATAGTTCG
* * *
45061092 GCTCTCTTCTACACATGGTGAACACTCAGTACCACCCATGTGACCTAGCCAATTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
* *
45061155 GCTCTCTTGT-CTACATGGTGTACACAT-AGTATCACCCATGCGACCTAGCTACATCATAATATC
1 GCTCTCTTGTAC-ACATGGTGAACAC-TCAGTACCACCCATGCGACCTAGC--CA--AT-ATATC
*
45061218 TTGTA
59 TCGTA
* ** * ** *
45061223 GCTCTCTTGTACACATGATGTTCACTCAGCACCATACATGTGACCTAGC
1 GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGC
45061272 TACATACTAT
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
62 1 0.01
63 41 0.43
64 1 0.01
65 2 0.02
67 3 0.03
68 46 0.48
69 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.30
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTCAGTACCACCCATGCGACCTAGCCAATATATCTCGTA
Found at i:45061977 original size:30 final size:30
Alignment explanation
Indices: 45061943--45062003 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
45061933 TCCTTAACTC
45061943 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
45061973 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
45062003 A
1 A
45062004 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:45068060 original size:30 final size:31
Alignment explanation
Indices: 45067994--45068071 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
45067984 CTCAACATAT
**
45067994 ACTGGGCCGAAGCCTTTGCATTATTCATGTC
1 ACTGGGCCGAAGCCTTTGCATTATTCATACC
*
45068025 ACTGGGCCGAAGCCTTTTCATTA-TCATACC
1 ACTGGGCCGAAGCCTTTGCATTATTCATACC
*
45068055 ACTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
45068072 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
30 21 0.49
31 22 0.51
ACGTcount: A:0.21, C:0.27, G:0.22, T:0.31
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTGCATTATTCATACC
Done.