Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 174 of 295
Found at i:59517053 original size:45 final size:45
Alignment explanation
Indices: 59516987--59517112 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 45
59516977 CACTAGGAAT
*
59516987 TTAGAAAATCTG-AGTTCGTTGAGTTGGTCAGAGTTCGTGATATATG
1 TTAG-AAATCTGAACTT-GTTGAGTTGGTCAGAGTTCGTGATATATG
59517033 TTAGAAATCTGAACTTGTTGAGTTGGTTCA-AGTTCGTGATATATG
1 TTAGAAATCTGAACTTGTTGAGTTGG-TCAGAGTTCGTGATATATG
* * * *
59517078 -T-GAAGCATCCGAGCTCGTTGAGTTGGTCTGAGTTC
1 TTAGAA--ATCTGAACTTGTTGAGTTGGTCAGAGTTC
59517113 ATTATGGATG
Statistics
Matches: 70, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
43 3 0.04
44 3 0.04
45 54 0.77
46 10 0.14
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.37
Consensus pattern (45 bp):
TTAGAAATCTGAACTTGTTGAGTTGGTCAGAGTTCGTGATATATG
Found at i:59528259 original size:40 final size:40
Alignment explanation
Indices: 59528204--59528470 Score: 480
Period size: 40 Copynumber: 6.7 Consensus size: 40
59528194 AACATTGGAT
59528204 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
59528244 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
59528284 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
*
59528324 CATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* * *
59528364 TATATCCGGGCTATGACCCGAAGGCAATTATGCGGGATGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
59528404 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
1 TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
* *
59528444 TATGTCCGGGTTAAGACCCGAAGGCAA
1 TATATCCGGGCTAAGACCCGAAGGCAA
59528471 ATGTGTTTGC
Statistics
Matches: 217, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 217 1.00
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGA
Found at i:59549309 original size:46 final size:44
Alignment explanation
Indices: 59549250--59549364 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
59549240 ACAGGACAGA
* *
59549250 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
59549296 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
59549340 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
59549365 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:59549345 original size:44 final size:45
Alignment explanation
Indices: 59549250--59549383 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
59549240 ACAGGACAGA
* *
59549250 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
59549296 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
59549340 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
59549384 CAGGGTATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:59556719 original size:44 final size:45
Alignment explanation
Indices: 59556624--59556738 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 45
59556614 ACAGGACAGA
* **
59556624 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCACTGGAG
* *
59556670 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCACTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCACTGGAG
* **
59556714 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
59556739 GTCAAAGACA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
44 34 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCACTGGAG
Found at i:59560084 original size:5 final size:5
Alignment explanation
Indices: 59560076--59560101 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
59560066 AAAAAATAAA
59560076 ATTTT ATTTT ATTTT ATTTT ATTTT A
1 ATTTT ATTTT ATTTT ATTTT ATTTT A
59560102 CGGTTGGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:59568234 original size:48 final size:48
Alignment explanation
Indices: 59568174--59568491 Score: 286
Period size: 48 Copynumber: 6.6 Consensus size: 48
59568164 TATGTGTGCC
* *
59568174 AGTGTAAGACCATGTCTGGAACATGGCGTCGGCCACGATATGAAAGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATGAGAGCT
* * * * * * * * *
59568222 AGTGTAAAACCATGTTTGGAACATTGCATCGACGATGTTGTGAGAGCC
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATGAGAGCT
* * * * *
59568270 AATGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCA-CGATATGAGAGCT
* * * *
59568318 AGTATAAGACCATGT-TCGGAACATGGCATCAGCCACAACATGAGAGCT
1 AGTGTAAGACCATGTCT-GGAACATGGCATCGGCCACGATATGAGAGCT
* * * *
59568366 AGTGTAAGACCATGTCTAGG-ATATGGCATC-GACATTGAGATGAGAGCT
1 AGTGTAAGACCATGTCT-GGAACATGGCATCGGCCA-CGATATGAGAGCT
* * * *
59568414 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTA-AGCG
1 AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATG-AGAGCT
* *
59568462 AGTGTAAGACCATGTTTGGAACATAGCATC
1 AGTGTAAGACCATGTCTGGAACATGGCATC
59568492 AACAATTCAC
Statistics
Matches: 214, Mismatches: 48, Indels: 16
0.77 0.17 0.06
Matches are distributed among these distances:
47 7 0.03
48 199 0.93
49 8 0.04
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGAACATGGCATCGGCCACGATATGAGAGCT
Found at i:59568421 original size:144 final size:144
Alignment explanation
Indices: 59568161--59568492 Score: 393
Period size: 144 Copynumber: 2.3 Consensus size: 144
59568151 AACATTTGAG
* * * * *
59568161 TGATATGTGTGCCAGTGTAAGACCATG-TCTGGAACATGGCGTCGGCCACGATATGAAAGCTAGT
1 TGATATGTGAGCCAGTGTAAGACCATGTTC-GGAACATGGCATCAGCCACAACATGAAAGCTAGT
* * *
59568225 GTAAAACCATGTTTGGAACATTGCATCGACGATGTTGTGAGAGCCAATGTAAGACCATGTCTGGG
65 GTAAAACCATGTTAGGAACATGGCATCGACGATGTAGTGAGAGCCAATGTAAGACCATGTCTGGG
59568290 ACATGGCATCGGCAT
130 ACATGGCATCGGCAT
* * * *
59568305 TGATATGTGCGCTAGTATAAGACCATGTTCGGAACATGGCATCAGCCACAACATGAGAGCTAGTG
1 TGATATGTGAGCCAGTGTAAGACCATGTTCGGAACATGGCATCAGCCACAACATGAAAGCTAGTG
* * * *
59568370 TAAGACCATGTCTAGG-ATATGGCATCGAC-AT-TGAGATGAGAGCTAGTGTAAGACCATGTCTG
66 TAAAACCATGT-TAGGAACATGGCATCGACGATGT-AG-TGAGAGCCAATGTAAGACCATGTCTG
*
59568432 GGACATGGCATCGGCCT
128 GGACATGGCATCGGCAT
* * * * * *
59568449 CGACATGTAAGCGAGTGTAAGACCATGTTTGGAACATAGCATCA
1 TGATATGTGAGCCAGTGTAAGACCATGTTCGGAACATGGCATCA
59568493 ACAATTCACC
Statistics
Matches: 160, Mismatches: 24, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
142 1 0.01
143 3 0.02
144 151 0.94
145 5 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (144 bp):
TGATATGTGAGCCAGTGTAAGACCATGTTCGGAACATGGCATCAGCCACAACATGAAAGCTAGTG
TAAAACCATGTTAGGAACATGGCATCGACGATGTAGTGAGAGCCAATGTAAGACCATGTCTGGGA
CATGGCATCGGCAT
Found at i:59571733 original size:93 final size:93
Alignment explanation
Indices: 59571572--59571742 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
59571562 GGATGGTTGA
* * * * * *
59571572 GCATCCGAACTCATTGAGTTGAGTCCGATTTCACATATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACATATAGATGCGAACGCCCGAACTCATTGAGT
59571637 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
59571665 GCATCCAAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGCCCGAGCTCATTGATT
1 GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACATATAGATGCGAACGCCCGAACTCATTGAGT
59571730 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
59571743 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.29
Consensus pattern (93 bp):
GCATCCAAACTCATTGAGTTGAGTCCGAGTTCACATATAGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:59574296 original size:13 final size:13
Alignment explanation
Indices: 59574278--59574312 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
59574268 TGCTTGGGGA
59574278 AATGATTATGTAT
1 AATGATTATGTAT
59574291 AATGATTATGTAT
1 AATGATTATGTAT
59574304 AATGATTAT
1 AATGATTAT
59574313 TGAGATAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (13 bp):
AATGATTATGTAT
Found at i:59574437 original size:47 final size:46
Alignment explanation
Indices: 59574370--59574691 Score: 245
Period size: 47 Copynumber: 6.8 Consensus size: 46
59574360 ATTGTGTGCT
*
59574370 AGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-CACATTATGAGAGCC
*
59574416 AGTGTAAGACCATGTCTGGGACATGGCATCG-ACATTCAGATGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCACATT---ATGAGAGCC
* * *
59574464 AGTGTAAGA-CATGTCTGGGACAT-GCATC-AACA--ACGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCACATTATGAGA---GCC
* *
59574508 AGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG-CAC--AT-TATGAGAGCC
* * * * * * *
59574558 AGTGTAAGACCATGTTTGGGACTTCGCGTCGGCCTCGATT-TCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-CAC-ATTAT-GAGAGCC
* *
59574607 AGTGTAAGATCATGTCTGGGACATGGCATCG-AC-TTGATGTATGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCACATT-ATG-A-GAGCC
59574654 AGTGTAAGACCATGTCTGGGACATGGCATCG-ACATTAT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCACATTAT
59574692 ACCCTATATT
Statistics
Matches: 222, Mismatches: 29, Indels: 49
0.74 0.10 0.16
Matches are distributed among these distances:
41 5 0.02
44 12 0.05
45 20 0.09
46 25 0.11
47 64 0.29
48 28 0.13
49 30 0.14
50 31 0.14
51 3 0.01
53 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCACATTATGAGAGCC
Found at i:59574536 original size:92 final size:96
Alignment explanation
Indices: 59574415--59574683 Score: 311
Period size: 96 Copynumber: 2.8 Consensus size: 96
59574405 TTATGAGAGC
59574415 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTCAGATGAGAGCTAGTGTAAGA-CATGTC
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATT-AGATGAGAGCTAGTGTAAGACCATGTC
59574479 TGGGACAT-GCATCAACAACGAGAT-G-T-GT
65 TGGGACATCGCATCAACAACGAGATCGATAGT
*
59574507 CAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATG-TGAGAGCTAGTGTAAGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACA---TTA-GATGAGAGCTAGTGTAAGACCAT
* * * ** ** **
59574571 GTTTGGGACTTCGCGTCGGCCTCGATTTCGATAGT
62 GTCTGGGACATCGCATCAACAACGAGATCGATAGT
*
59574606 CAGTGTAAGATCATGTCTGGGACATGGCATCGAC-TT-GATGTATGAGCTAGTGTAAGACCATGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGATG-A-GAGCTAGTGTAAGACCATGT
*
59574669 CTGGGACATGGCATC
64 CTGGGACATCGCATC
59574684 GACATTATAC
Statistics
Matches: 149, Mismatches: 16, Indels: 20
0.81 0.09 0.11
Matches are distributed among these distances:
92 35 0.23
93 1 0.01
94 20 0.13
95 16 0.11
96 40 0.27
97 1 0.01
98 1 0.01
99 35 0.23
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (96 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATTAGATGAGAGCTAGTGTAAGACCATGTCT
GGGACATCGCATCAACAACGAGATCGATAGT
Found at i:59594529 original size:22 final size:19
Alignment explanation
Indices: 59594501--59594543 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 19
59594491 GGGATTTATT
59594501 TGTGAAAATGTGTGATTAAATG
1 TGTGAAAA-GT-TGA-TAAATG
59594523 TGTGAAAAGTTGATAAATG
1 TGTGAAAAGTTGATAAATG
59594542 TG
1 TG
59594544 GGCTGCTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.38
20 3 0.14
21 2 0.10
22 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.28, T:0.35
Consensus pattern (19 bp):
TGTGAAAAGTTGATAAATG
Found at i:59595056 original size:28 final size:28
Alignment explanation
Indices: 59595015--59595088 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
59595005 CATTGAGTTG
* * *
59595015 GCTTCGGGCGATGATGTTAG-GACTTTT
1 GCTTCGGGCCATGATATTAGCGAATTTT
*
59595042 GACTTCGGGCCATGAGTATTAGCTAATTTT
1 G-CTTCGGGCCATGA-TATTAGCGAATTTT
59595072 GCTTCGGGCCATGATAT
1 GCTTCGGGCCATGATAT
59595089 CAGTACTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.03
28 15 0.38
29 18 0.45
30 6 0.15
ACGTcount: A:0.19, C:0.18, G:0.28, T:0.35
Consensus pattern (28 bp):
GCTTCGGGCCATGATATTAGCGAATTTT
Found at i:59596490 original size:22 final size:20
Alignment explanation
Indices: 59596444--59596491 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
59596434 GTCTGTTGGC
*
59596444 CGTGTGTCGGGCCACACGGG
1 CGTGTGTCGGGCCACACAGG
*
59596464 CGTGTGTCGGGCCACATAGG
1 CGTGTGTCGGGCCACACAGG
*
59596484 CATGTGTC
1 CGTGTGTC
59596492 CCCTGTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.12, C:0.27, G:0.40, T:0.21
Consensus pattern (20 bp):
CGTGTGTCGGGCCACACAGG
Found at i:59597062 original size:22 final size:23
Alignment explanation
Indices: 59597021--59597066 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
59597011 CATATAACGG
59597021 CCTGTTAAAAATATATGTAAGCT
1 CCTGTTAAAAATATATGTAAGCT
59597044 CCTGTTAAAAATATA-GTAAGCT
1 CCTGTTAAAAATATATGTAAGCT
59597066 C
1 C
59597067 AATTTCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (23 bp):
CCTGTTAAAAATATATGTAAGCT
Found at i:59597611 original size:19 final size:16
Alignment explanation
Indices: 59597587--59597630 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 16
59597577 TTTATTAACT
59597587 TTTAATTAAACCAAATTAA
1 TTTAATTAAACC--ATT-A
59597606 TTTAATT-AACCATTA
1 TTTAATTAAACCATTA
59597621 TTTAATTAAA
1 TTTAATTAAA
59597631 GAAAAAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 5 0.21
18 4 0.17
19 7 0.29
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (16 bp):
TTTAATTAAACCATTA
Found at i:59599668 original size:42 final size:42
Alignment explanation
Indices: 59599555--59599672 Score: 132
Period size: 43 Copynumber: 2.8 Consensus size: 42
59599545 CGAAAAGCTC
* * * *
59599555 GTACAATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAA
1 GTACAATGCCAACATCCCAGACGTGGTCTTACATGAAAACAA
* *
59599597 ATATCGATGCC-ACTATCCCAGACAG-GGTCTTACATGAAAACAA
1 GTA-CAATGCCAAC-ATCCCAGAC-GTGGTCTTACATGAAAACAA
*
59599640 GTACAAAGCCAACATCCCAGACGTGGTCTTACA
1 GTACAATGCCAACATCCCAGACGTGGTCTTACA
59599673 CGATAAAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.02
42 27 0.44
43 33 0.53
44 1 0.02
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (42 bp):
GTACAATGCCAACATCCCAGACGTGGTCTTACATGAAAACAA
Found at i:59607068 original size:44 final size:41
Alignment explanation
Indices: 59606965--59607084 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 41
59606955 TAATCAAATA
*
59606965 TCGATGCC-ACTGTCCTAGACATGGTCTTACACGAAATCAAG
1 TCGATGCCAAC-GTCCTAGACGTGGTCTTACACGAAATCAAG
* * *
59607006 TACGAAGCCAATGTCCTAGACGTGGTCTTAGACGTAAATCATAAG
1 T-CGATGCCAACGTCCTAGACGTGGTCTTACACG-AAATC--AAG
59607051 TCGATGCCAACGTCCTAGACGTGGTCTTACACGA
1 TCGATGCCAACGTCCTAGACGTGGTCTTACACGA
59607085 TAACACAAAT
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
41 1 0.01
42 26 0.39
43 7 0.10
44 29 0.43
45 4 0.06
ACGTcount: A:0.29, C:0.25, G:0.22, T:0.24
Consensus pattern (41 bp):
TCGATGCCAACGTCCTAGACGTGGTCTTACACGAAATCAAG
Found at i:59612379 original size:24 final size:24
Alignment explanation
Indices: 59612365--59612458 Score: 143
Period size: 24 Copynumber: 3.9 Consensus size: 24
59612355 TATTGACATT
*
59612365 CAAATCCGTACACATAGTGCCATA
1 CAAATCCGCACACATAGTGCCATA
*
59612389 CAAATCCGCACACATAGTGCCGTA
1 CAAATCCGCACACATAGTGCCATA
* *
59612413 CAAATTCGCACACATAGTGCCATT
1 CAAATCCGCACACATAGTGCCATA
*
59612437 CAAATTCGCACACATAGTGCCA
1 CAAATCCGCACACATAGTGCCA
59612459 AAGTCATTTC
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 65 1.00
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.20
Consensus pattern (24 bp):
CAAATCCGCACACATAGTGCCATA
Found at i:59612404 original size:48 final size:48
Alignment explanation
Indices: 59612322--59612455 Score: 142
Period size: 48 Copynumber: 2.8 Consensus size: 48
59612312 CCATGTTTAC
* ** * * * * *
59612322 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAAT
1 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGACATACAAAT
* * *
59612370 CCGTACACATAGTGCCATACAAATCCGCACACATAGTGCCGTACAAAT
1 CCGCACACATAGTGCCATACAAATCCGCACACATAGTGACATACAAAT
* * *
59612418 TCGCACACATAGTGCCATTCAAATTCGCACACATAGTG
1 CCGCACACATAGTGCCATACAAATCCGCACACATAGTG
59612456 CCAAAGTCAT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 71 1.00
ACGTcount: A:0.34, C:0.28, G:0.13, T:0.24
Consensus pattern (48 bp):
CCGCACACATAGTGCCATACAAATCCGCACACATAGTGACATACAAAT
Found at i:59612428 original size:72 final size:72
Alignment explanation
Indices: 59612322--59612458 Score: 193
Period size: 72 Copynumber: 1.9 Consensus size: 72
59612312 CCATGTTTAC
* ** * * *
59612322 CCGCACACATAGTGCCTTAGTAATTCACATACATATTGACATTCAAATCCGTACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59612387 TACAAAT
66 TACAAAT
* * *
59612394 CCGCACACATAGTGCCGTACAAATTCGCACACATAGTGCCATTCAAATTCGCACACATAGTGCCA
1 CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
59612459 AAGTCATTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.23
Consensus pattern (72 bp):
CCGCACACATAGTGCCGTACAAATTCACACACATAGTGACATTCAAATCCGCACACATAGTGCCA
TACAAAT
Found at i:59613726 original size:15 final size:14
Alignment explanation
Indices: 59613700--59613735 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59613690 CCTTTTCTTC
*
59613700 TTTTATTTATTCAT
1 TTTTATTAATTCAT
59613714 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
59613729 TTTTATT
1 TTTTATT
59613736 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:59615064 original size:31 final size:31
Alignment explanation
Indices: 59615029--59615091 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
59615019 CCTTTTCATA
59615029 TTTCATATCTT-ATAACACTGGGCCGAAGCCT
1 TTTCATAT-TTCATAACACTGGGCCGAAGCCT
** *
59615060 TTTCATATTTCATATTACTGGGCTGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
59615091 T
1 T
59615092 CACTGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:59615333 original size:24 final size:25
Alignment explanation
Indices: 59615287--59615334 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
59615277 GCTTTATCAT
* *
59615287 ATAACTGGAGGCCTAGCCTTTTTTA
1 ATAACTGGAGGCATAGCCCTTTTTA
59615312 ATAACTGG-GGCATAGCCCTTTTT
1 ATAACTGGAGGCATAGCCCTTTTT
59615335 GCACTTCATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (25 bp):
ATAACTGGAGGCATAGCCCTTTTTA
Found at i:59615405 original size:20 final size:20
Alignment explanation
Indices: 59615380--59615426 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
59615370 TTATGAATAC
59615380 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59615400 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59615420 ATCATGT
1 ATCATGT
59615427 ATATCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59615506 original size:25 final size:25
Alignment explanation
Indices: 59615478--59615537 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
59615468 GGGTATAATG
* * *
59615478 GTCATTTTTACCC-AGGGGAGAATTA
1 GTCATTTTCACCCAAGGGCA-AAATA
59615503 GTCATTTTCACCCAAGGGCAAAATA
1 GTCATTTTCACCCAAGGGCAAAATA
59615528 GTCATTTTCA
1 GTCATTTTCA
59615538 TATTATAAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 26 0.84
26 5 0.16
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (25 bp):
GTCATTTTCACCCAAGGGCAAAATA
Found at i:59623411 original size:26 final size:24
Alignment explanation
Indices: 59623305--59623410 Score: 106
Period size: 25 Copynumber: 4.2 Consensus size: 24
59623295 AGCATAGCTG
**
59623305 CTTTATCATATAACTGGAGGCCTAGCC
1 CTTT-TCATA-AACTGG-GGCAAAGCC
*
59623332 TCTTTTAAT-AACTGGGGCAAAGCC
1 -CTTTTCATAAACTGGGGCAAAGCC
*
59623356 CTTTTGATAAACTGGGGCAAAAGCC
1 CTTTTCATAAACTGGGGC-AAAGCC
*
59623381 CTTTTCAGTAAACTGGGGCATAGCC
1 CTTTTCA-TAAACTGGGGCAAAGCC
59623406 CTTTT
1 CTTTT
59623411 TGCACTTCCT
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.10
24 16 0.23
25 28 0.41
26 11 0.16
27 3 0.04
28 4 0.06
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
CTTTTCATAAACTGGGGCAAAGCC
Found at i:59623483 original size:9 final size:9
Alignment explanation
Indices: 59623469--59623525 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
59623459 ACATCATGTG
59623469 CATATCATA
1 CATATCATA
*
59623478 CATATCATGTG
1 CATATCA--TA
*
59623489 CATATCGTA
1 CATATCATA
*
59623498 CATATCATGTG
1 CATATCA--TA
59623509 CATATCATA
1 CATATCATA
59623518 CATATCAT
1 CATATCAT
59623526 GTACATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:59623486 original size:20 final size:20
Alignment explanation
Indices: 59623461--59623527 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
59623451 TTATGAATAC
59623461 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
59623481 ATCATGTGCATATCGTACAT
1 ATCATGTGCATATCATACAT
59623501 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
59623521 ATCATGT
1 ATCATGT
59623528 ACATCAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:59623530 original size:11 final size:11
Alignment explanation
Indices: 59623461--59623531 Score: 73
Period size: 11 Copynumber: 7.0 Consensus size: 11
59623451 TTATGAATAC
*
59623461 ATCATGTGCAT
1 ATCATGTACAT
59623472 ATCA--TACAT
1 ATCATGTACAT
*
59623481 ATCATGTGCAT
1 ATCATGTACAT
59623492 ATC--GTACAT
1 ATCATGTACAT
*
59623501 ATCATGTGCAT
1 ATCATGTACAT
59623512 ATCA--TACAT
1 ATCATGTACAT
59623521 ATCATGTACAT
1 ATCATGTACAT
59623532 CAAAATCCCA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
9 24 0.49
11 25 0.51
ACGTcount: A:0.34, C:0.20, G:0.11, T:0.35
Consensus pattern (11 bp):
ATCATGTACAT
Found at i:59631345 original size:24 final size:24
Alignment explanation
Indices: 59631318--59631421 Score: 91
Period size: 24 Copynumber: 4.3 Consensus size: 24
59631308 TAATTCACAT
* *
59631318 ACATATTGACATTCAAATCCGCAC
1 ACATAGTGACATACAAATCCGCAC
*
59631342 ACATAGTGCCATACAAATCCGCAC
1 ACATAGTGACATACAAATCCGCAC
** * **
59631366 ACATAGTTCCGTACAAATTTGCAC
1 ACATAGTGACATACAAATCCGCAC
** * **
59631390 ACATAGTTCCGTACAAATTTGCAC
1 ACATAGTGACATACAAATCCGCAC
59631414 ACATAGTG
1 ACATAGTG
59631422 CCAAAGTCAT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.36, C:0.27, G:0.12, T:0.25
Consensus pattern (24 bp):
ACATAGTGACATACAAATCCGCAC
Found at i:59632694 original size:15 final size:14
Alignment explanation
Indices: 59632668--59632703 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
59632658 CCTTTTCTTC
*
59632668 TTTTATTCATTCAT
1 TTTTATTAATTCAT
59632682 TTCTTATTAATTCAT
1 TT-TTATTAATTCAT
59632697 TTTTATT
1 TTTTATT
59632704 TGGATTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTATTAATTCAT
Found at i:59635829 original size:16 final size:16
Alignment explanation
Indices: 59635810--59635846 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
59635800 ACTTTTATCA
*
59635810 CTTTTATAATTTAGTC
1 CTTTTACAATTTAGTC
59635826 CTTTTACAATTTAGTC
1 CTTTTACAATTTAGTC
59635842 CTTTT
1 CTTTT
59635847 TTTCTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (16 bp):
CTTTTACAATTTAGTC
Found at i:59636200 original size:21 final size:21
Alignment explanation
Indices: 59636174--59636219 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
59636164 AAACAGGGGC
*
59636174 ACACGCCCGTTTAGAAAGGCG
1 ACACGCCCGTGTAGAAAGGCG
* * *
59636195 ACACGCCTGTGTGGAAGGGCG
1 ACACGCCCGTGTAGAAAGGCG
59636216 ACAC
1 ACAC
59636220 TGTGACAGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTAGAAAGGCG
Found at i:59637983 original size:40 final size:40
Alignment explanation
Indices: 59637923--59638106 Score: 239
Period size: 40 Copynumber: 4.6 Consensus size: 40
59637913 TATTCGAATG
*
59637923 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
59637963 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
59638003 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
59638043 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
59638083 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
59638107 CTTGTGCGAG
Statistics
Matches: 126, Mismatches: 13, Indels: 10
0.85 0.09 0.07
Matches are distributed among these distances:
39 1 0.01
40 122 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:59638056 original size:80 final size:80
Alignment explanation
Indices: 59637923--59638106 Score: 264
Period size: 80 Copynumber: 2.3 Consensus size: 80
59637913 TATTCGAATG
* * *
59637923 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAG-TCCCGAAGGC
* *
59637987 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
59638003 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
*
59638068 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
59638083 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
59638107 CTTGTGCGAG
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
79 3 0.03
80 91 0.97
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:59640781 original size:48 final size:48
Alignment explanation
Indices: 59640610--59640807 Score: 184
Period size: 48 Copynumber: 4.1 Consensus size: 48
59640600 GTAAGATATT
* * * * * *
59640610 GATGTCATGTTCCAGACATGGTCTTACACTGGCTCTCATAT-ATCGGTGCT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCA--AG-GCC
* * * * **
59640660 GATGCCATATTCCAAACATGGTCTTACACTAGCCCACATGTCGAGGTT
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
* * * * * *
59640708 GATGCCA-GTCCCAGACATGGTCTTACATTAGCTCTCCTATCAATGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
*
59640755 GATGCCATGTTCCAAACATGGTCTTACAGTAGCTCACATATCAAGGCC
1 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
59640803 GATGC
1 GATGC
59640808 TATAATAGCC
Statistics
Matches: 118, Mismatches: 28, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
47 35 0.30
48 48 0.41
49 1 0.01
50 34 0.29
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (48 bp):
GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATATCAAGGCC
Found at i:59640807 original size:95 final size:96
Alignment explanation
Indices: 59640621--59640807 Score: 241
Period size: 95 Copynumber: 1.9 Consensus size: 96
59640611 ATGTCATGTT
* ** *
59640621 CCAGACATGGTCTTACACTGGCTCTCATATATCGGTGCTGATGCCATATTCCAAACATGGTCTTA
1 CCAGACATGGTCTTACACTAGCTCTCA-ATATCAATGCCGATGCCATATTCCAAACATGGTCTTA
* * **
59640686 CACTAGCCCACATGTCGAGGTTGATGCCAGTC
65 CACTAGCCCACATATCAAGGCCGATGCCAGTC
* * *
59640718 CCAGACATGGTCTTACATTAGCTCTC-CTATCAATGCCGATGCCATGTTCCAAACATGGTCTTAC
1 CCAGACATGGTCTTACACTAGCTCTCAATATCAATGCCGATGCCATATTCCAAACATGGTCTTAC
* *
59640782 AGTAGCTCACATATCAAGGCCGATGC
66 ACTAGCCCACATATCAAGGCCGATGC
59640808 TATAATAGCC
Statistics
Matches: 77, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
95 53 0.69
97 24 0.31
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.27
Consensus pattern (96 bp):
CCAGACATGGTCTTACACTAGCTCTCAATATCAATGCCGATGCCATATTCCAAACATGGTCTTAC
ACTAGCCCACATATCAAGGCCGATGCCAGTC
Found at i:59642875 original size:50 final size:51
Alignment explanation
Indices: 59642808--59642936 Score: 199
Period size: 50 Copynumber: 2.5 Consensus size: 51
59642798 GACTATGGAA
59642808 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAA-TG
*
59642859 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
* * *
59642909 ACAAGTGAAAAGTGGTAGCTTCAGCTAC
1 ACAAGTGATAAGTGATAGCTTCGGCTAC
59642937 CTGATCAATG
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 45 0.62
51 27 0.38
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
Found at i:59642952 original size:31 final size:31
Alignment explanation
Indices: 59642912--59643059 Score: 210
Period size: 31 Copynumber: 4.8 Consensus size: 31
59642902 ACAAATGACA
*
59642912 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
59642943 AATGAAAAGTGGTAGCTTCTGCTACATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
59642974 AGTGAAAAGTGGTAG-TTCCGGCTACCAGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
59643005 AGTGAAAA-TGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
59643035 AGTGAATAGTGGTACCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
59643060 AAGTGACAAG
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
30 27 0.26
31 77 0.74
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:59643047 original size:61 final size:62
Alignment explanation
Indices: 59642912--59643059 Score: 201
Period size: 61 Copynumber: 2.4 Consensus size: 62
59642902 ACAAATGACA
* *
59642912 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAATGAAAAGTGGTAGCTTCTGCTACATGATC
1 AGTGAAAAGTGGTAGCTTCAGCTACCAGATCAATGAAAAGTGGTAGCTTCGGCTACATGATC
* * *
59642974 AGTGAAAAGTGGTAG-TTCCGGCTACCAGATCAGTGAAAA-TGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CAGCTACCAGATCAATGAAAAGTGGTAGCTTCGGCTACATGATC
* * *
59643035 AGTGAATAGTGGTACCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTAC
59643060 AAGTGACAAG
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
61 42 0.55
62 35 0.45
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.26
Consensus pattern (62 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCAGATCAATGAAAAGTGGTAGCTTCGGCTACATGATC
Found at i:59643070 original size:7 final size:7
Alignment explanation
Indices: 59643058--59643086 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
59643048 ACCTTCGGCT
59643058 ACAAGTG
1 ACAAGTG
59643065 ACAAGTG
1 ACAAGTG
59643072 ACAAGTG
1 ACAAGTG
59643079 ACAAGTG
1 ACAAGTG
59643086 A
1 A
59643087 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:59643160 original size:47 final size:47
Alignment explanation
Indices: 59643090--59643255 Score: 166
Period size: 47 Copynumber: 3.7 Consensus size: 47
59643080 CAAGTGATTT
* *
59643090 CTGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * * *
59643137 CTGTATAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGATT
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
* * *
59643184 C-GTGTAAGACCATAGCTGGGCTATGGCATC-----GATATATGAATA
1 CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATG-ATA
* * *
59643226 -TGTGTAAGACCATATTTGGGCTATGGCATC
1 CTGTATAAGACCATATCTGGGATATGGCATC
59643256 ATTATGTGAA
Statistics
Matches: 103, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
41 7 0.07
42 29 0.28
46 25 0.24
47 42 0.41
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (47 bp):
CTGTATAAGACCATATCTGGGATATGGCATCGGTGAGATATATGATA
Found at i:59643246 original size:42 final size:42
Alignment explanation
Indices: 59643185--59643298 Score: 158
Period size: 42 Copynumber: 2.7 Consensus size: 42
59643175 TATGTGATTC
* *
59643185 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGTTGGGCTATGGCATC-ATTATATGAAGAT
* *
59643227 GTGTAAGACCATATTTGGGCTATGGCATCATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
**
59643269 GTGTAAGACCATAGTTGAACTATGGCATCA
1 GTGTAAGACCATAGTTGGGCTATGGCATCA
59643299 AGAAAACGAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
41 1 0.02
42 63 0.98
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCATTATATGAAGAT
Found at i:59649058 original size:40 final size:40
Alignment explanation
Indices: 59649010--59649597 Score: 1005
Period size: 40 Copynumber: 14.7 Consensus size: 40
59649000 GCAAACACCT
* * *
59649010 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59649050 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59649090 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59649130 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59649170 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59649210 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59649250 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59649290 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59649330 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59649370 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
59649410 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59649450 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59649490 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59649530 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59649570 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
59649598 TCCAATGCTC
Statistics
Matches: 517, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 517 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:59656799 original size:40 final size:40
Alignment explanation
Indices: 59656751--59657338 Score: 1005
Period size: 40 Copynumber: 14.7 Consensus size: 40
59656741 GCAAACACCT
* * *
59656751 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59656791 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59656831 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59656871 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59656911 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59656951 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59656991 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
59657031 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59657071 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59657111 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
59657151 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59657191 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
59657231 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59657271 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
59657311 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
59657339 TCCAATGCTC
Statistics
Matches: 517, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 517 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:59664931 original size:54 final size:52
Alignment explanation
Indices: 59664829--59664947 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 52
59664819 ATATTTCGAA
* *
59664829 TATGGTCTTACACGGGAGCATTTATCACTTTTCTCCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGGAGCACTTATCACTTTTCTCCGATGCCATAGCCCAGC
* *
59664881 TATGGTCTTATACGGGAATCACTTATCACTTATTTTCCGATGCCATAGCCCAGC
1 TATGGTCTTATACGGG-AGCACTTATCACTT-TTCTCCGATGCCATAGCCCAGC
59664935 TATGGTCTTATAC
1 TATGGTCTTATAC
59664948 AAATATCGCT
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 15 0.25
53 12 0.20
54 34 0.56
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (52 bp):
TATGGTCTTATACGGGAGCACTTATCACTTTTCTCCGATGCCATAGCCCAGC
Found at i:59664960 original size:54 final size:53
Alignment explanation
Indices: 59664850--59664965 Score: 171
Period size: 54 Copynumber: 2.2 Consensus size: 53
59664840 ACGGGAGCAT
**
59664850 TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGGGAATCAC
1 TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCAC
* *
59664903 TTATCACTTATTTTCCGATGCCATAGCCCAGCTATGGTCTTATAC-AAATATCGC
1 TTATCACTT-TTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAA-ATCAC
59664957 TTATCACTT
1 TTATCACTT
59664966 GTTGCCATGG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
53 10 0.18
54 47 0.82
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (53 bp):
TTATCACTTTTCTCCGATGCCATAGCCCAGCTATGGTCTTATACGAAAATCAC
Found at i:59667239 original size:18 final size:18
Alignment explanation
Indices: 59667169--59667292 Score: 69
Period size: 18 Copynumber: 6.8 Consensus size: 18
59667159 AATGAAAATT
*
59667169 TATATGTAAAAATAAT-A
1 TATATATAAAAATAATAA
* *
59667186 TGTATA-AATAAATGTATAA
1 TATATATAA-AAAT-AATAA
*
59667205 TATATGTAAAAATATAATAA
1 TATATAT-AAAA-ATAATAA
59667225 TATATATAAAAATAATAA
1 TATATATAAAAATAATAA
* * *
59667243 T-TATGAGAGAATTAAT-A
1 TATAT-ATAAAAATAATAA
* *
59667260 TATA-ATAAACAATTATTA
1 TATATATAAA-AATAATAA
*
59667278 TACATATAAAAATAA
1 TATATATAAAAATAA
59667293 CACTTATAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
16 5 0.06
17 17 0.21
18 28 0.35
19 14 0.17
20 12 0.15
21 4 0.05
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.35
Consensus pattern (18 bp):
TATATATAAAAATAATAA
Found at i:59667242 original size:21 final size:21
Alignment explanation
Indices: 59667179--59667243 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
59667169 TATATGTAAA
* *
59667179 AATAATATGTATAAATA-AAT
1 AATAATATATATAAAAATAAT
* *
59667199 GTATAATATATGTAAAAAT-AT
1 -AATAATATATATAAAAATAAT
59667220 AATAATATATATAAAAATAAT
1 AATAATATATATAAAAATAAT
59667241 AAT
1 AAT
59667244 TATGAGAGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (21 bp):
AATAATATATATAAAAATAAT
Found at i:59667360 original size:19 final size:19
Alignment explanation
Indices: 59667324--59667372 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
59667314 GAAGTAAAAT
*
59667324 TAAAATAAA-ACA-AATAA
1 TAAAATAAATATAGAATAA
*
59667341 TAAAATATATATAGAATAA
1 TAAAATAAATATAGAATAA
59667360 TAAAATAAATATA
1 TAAAATAAATATA
59667373 AGACTAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 17 0.63
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (19 bp):
TAAAATAAATATAGAATAA
Found at i:59669438 original size:119 final size:119
Alignment explanation
Indices: 59669048--59669615 Score: 857
Period size: 119 Copynumber: 4.8 Consensus size: 119
59669038 CTTGAGTCTG
* * **
59669048 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTTGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * * * * *
59669113 CAAATCATCTTGAACCTTGCTTCAGTATAAACCTCTGAAGGTTAGATCTGCCATG
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
* * * * **
59669168 TCTGAGAACATCTGAGAGTCAAATCTGCTATATCCTTGATTTGTTTCTTGTAAACATAAGAATGT
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * * *
59669233 CAAATCATCTTGGACCTTACTTCAGTATAAACCTCTGAAGGCTAGATCTACTATA
66 CAAATCATCTTGGATC-TGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
* *
59669288 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCCTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
* * *
59669353 CAAATCATCTTGGATCTGCTTCATTATAAACATCTGAAAGCTAGATCTGTTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
59669407 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
*
59669472 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGTTAGATCTGCTATA
66 CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
* * *
59669526 TCTGAGAACGTCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTCCTTGTAAACACAAGAATAC
1 TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
59669591 CAAATCATCTTGGATCTGCTTCAGT
66 CAAATCATCTTGGATCTGCTTCAGT
59669616 CTGATTGTCT
Statistics
Matches: 416, Mismatches: 32, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
119 232 0.56
120 184 0.44
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (119 bp):
TTTGAGAACATCTGAGAGTCAAATCTGCTATGTCCTCGATTTGTTTCTTGTAAACACAAGAATAC
CAAATCATCTTGGATCTGCTTCAGTATAAACATCTGAAGGCTAGATCTGCTATA
Found at i:59678160 original size:93 final size:93
Alignment explanation
Indices: 59678048--59678219 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
59678038 CGCCCATAAG
* * *
59678048 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
59678113 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* * *
59678141 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTACATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
*
59678206 ACGAGTTCGGATGC
66 ACGAGCTCGGATGC
59678220 TCAACCATCC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:59678163 original size:47 final size:49
Alignment explanation
Indices: 59678041--59678219 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 49
59678031 TGTAACCCGC
* *
59678041 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACAT
* * *
59678087 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACAT
* *
59678137 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
*
59678180 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
59678220 TCAACCATCC
Statistics
Matches: 112, Mismatches: 10, Indels: 19
0.79 0.07 0.13
Matches are distributed among these distances:
43 7 0.06
44 2 0.02
45 2 0.02
46 63 0.56
47 27 0.24
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACAT
Found at i:59682873 original size:26 final size:26
Alignment explanation
Indices: 59682844--59682924 Score: 64
Period size: 26 Copynumber: 3.2 Consensus size: 26
59682834 TTCGATCACG
59682844 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * *
59682870 TGTGTA-T-C-AAATGGTTAGG-TCAC-G
1 TGTGTAGTACTAAGT-G-CAGGCT-ACTA
59682894 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
59682920 CGTGT
1 TGTGT
59682925 GCTGGATAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 16
0.63 0.11 0.25
Matches are distributed among these distances:
23 3 0.08
24 9 0.22
25 12 0.30
26 13 0.32
27 3 0.08
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:59682914 original size:50 final size:51
Alignment explanation
Indices: 59682785--59682981 Score: 193
Period size: 50 Copynumber: 3.9 Consensus size: 51
59682775 ATCTATTGTG
* * * **
59682785 AGGTAACGTGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAACTT
* * * **
59682836 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAAT-GGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAACTT
* * ***
59682886 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCTGGATAA-TT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAACTT
*** **
59682936 -GGTCGTATGTGTAGTACTAAGTGCAGGCTACTATGCATACCAAATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATA
59682982 GCTTTAGCTA
Statistics
Matches: 116, Mismatches: 29, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
49 36 0.31
50 42 0.36
51 38 0.33
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (51 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATAACTT
Found at i:59682980 original size:99 final size:101
Alignment explanation
Indices: 59682785--59682980 Score: 252
Period size: 101 Copynumber: 2.0 Consensus size: 101
59682775 ATCTATTGTG
* * *
59682785 AGGTAACGTGTGTAGTACTAAGTGCAGGCTATTATGCGTACCCGATAACTTCGATCACGTGTGTA
1 AGGTAACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTA
** *
59682850 GTACTAAGTGCAGGCTACTATGTGTATCAAATGGTT
66 GTACTAAGTGCAGGCTACTATGCATACCAAATGGTT
* * * ** * **
59682886 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTGCTGGATAA-TT-GGTCGTATGTGTA
1 AGGTAACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTA
59682949 GTACTAAGTGCAGGCTACTATGCATACCAAAT
66 GTACTAAGTGCAGGCTACTATGCATACCAAAT
59682981 AGCTTTAGCT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
99 38 0.47
100 2 0.02
101 41 0.51
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (101 bp):
AGGTAACGTGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGATAACTTCGATCACATGTGTA
GTACTAAGTGCAGGCTACTATGCATACCAAATGGTT
Found at i:59696664 original size:44 final size:44
Alignment explanation
Indices: 59696526--59696696 Score: 184
Period size: 45 Copynumber: 3.8 Consensus size: 44
59696516 TCATTGGCTT
* * **
59696526 GAAATGAATAAGATCACAGTTGAAAGACACTATGGCACTATACCA
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCAC-ATGTCA
*
59696571 GAAATGAATAAGACCATAGTCGAAAGACACTATGGCAACATGAT-A
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACATG-TCA
* * *
59696616 GAAATGAATAAGGCCAT-GTTGAAAGGCACTATGGCATCATGTCG
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCA-CATGTCA
* * **
59696660 GAAATAAATAAGACCATGGTTGAAAGACGTTATGGCA
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
59696697 TCCTTGAACA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
43 2 0.02
44 35 0.33
45 68 0.64
46 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (44 bp):
GAAATGAATAAGACCATAGTTGAAAGACACTATGGCACATGTCA
Found at i:59696685 original size:89 final size:90
Alignment explanation
Indices: 59696526--59696696 Score: 213
Period size: 89 Copynumber: 1.9 Consensus size: 90
59696516 TCATTGGCTT
* *
59696526 GAAATGAATAAGATCACAGTTGAAAGACACTATGGCACTATACCAGAAATGAATAAGACCATAGT
1 GAAATGAATAAGAGCACAGTTGAAAGACACTATGGCACTATACCAGAAATAAATAAGACCATAGT
59696591 CGAAAGACACTATGGCAACATGATA
66 CGAAAGACACTATGGCAACATGATA
* ** * *
59696616 GAAATGAATAAG-GC-CATGTTGAAAGGCACTATGGCA-TCATGTCGGAAATAAATAAGACCATG
1 GAAATGAATAAGAGCACA-GTTGAAAGACACTATGGCACT-ATACCAGAAATAAATAAGACCATA
* **
59696678 GTTGAAAGACGTTATGGCA
64 GTCGAAAGACACTATGGCA
59696697 TCCTTGAACA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
88 3 0.04
89 54 0.78
90 12 0.17
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.20
Consensus pattern (90 bp):
GAAATGAATAAGAGCACAGTTGAAAGACACTATGGCACTATACCAGAAATAAATAAGACCATAGT
CGAAAGACACTATGGCAACATGATA
Found at i:59710260 original size:26 final size:26
Alignment explanation
Indices: 59710224--59710278 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
59710214 ATCTGATGAT
*
59710224 TGTTTGATGTTCTGAAATAGAATAAG
1 TGTTTGATGTTCTAAAATAGAATAAG
59710250 TGTTTGATGTTCTAAAATAGAATAAG
1 TGTTTGATGTTCTAAAATAGAATAAG
59710276 TGT
1 TGT
59710279 ACTGAGAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.40
Consensus pattern (26 bp):
TGTTTGATGTTCTAAAATAGAATAAG
Found at i:59712385 original size:27 final size:26
Alignment explanation
Indices: 59712341--59712392 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
59712331 CTCGCTGCAA
*
59712341 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
59712368 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
59712393 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:59712453 original size:61 final size:63
Alignment explanation
Indices: 59712322--59712453 Score: 151
Period size: 61 Copynumber: 2.1 Consensus size: 63
59712312 GAGGAAGCGT
* * * * *
59712322 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCT---C-CATATATCTGTTCTAGTGACCTAGCCACAA
59712387 TA
62 TA
* *
59712389 TCTGGCAGCCTCGCTACAATCTGGTGG-CT-TATATATCTGTTCTAGTGGCCTAGCCACAATA
1 TCTGGCAGCCTCGCTACAATCTGGTGGCCTCCATATATCTGTTCTAGTGACCTAGCCACAATA
59712450 TCTG
1 TCTG
59712454 TATCTGGTGA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
61 30 0.52
66 2 0.03
67 26 0.45
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.31
Consensus pattern (63 bp):
TCTGGCAGCCTCGCTACAATCTGGTGGCCTCCATATATCTGTTCTAGTGACCTAGCCACAATA
Found at i:59724421 original size:8 final size:8
Alignment explanation
Indices: 59724408--59724442 Score: 54
Period size: 8 Copynumber: 4.4 Consensus size: 8
59724398 TTAAATGATC
59724408 TTTTATTA
1 TTTTATTA
59724416 TTTTATTA
1 TTTTATTA
59724424 TTTTATTA
1 TTTTATTA
59724432 TTATT-TTA
1 TT-TTATTA
59724440 TTT
1 TTT
59724443 AGAGTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
7 1 0.04
8 23 0.88
9 2 0.08
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTATTA
Found at i:59726129 original size:33 final size:34
Alignment explanation
Indices: 59726008--59726150 Score: 107
Period size: 33 Copynumber: 4.3 Consensus size: 34
59725998 AATTGACGAA
* * *
59726008 TAAGACCATGGCTGGGCCATGGCAATA-TATGTG
1 TAAGACCATAGCTGGGCCATGGCAACACTACGTG
* * * * *
59726041 TAAGACCATAGCTAGGCTATGACATC-CTA-ATG
1 TAAGACCATAGCTGGGCCATGGCAACACTACGTG
* * ** * *
59726073 ATAAGACCATATCTGAGATATGGCACCACGA-GTG
1 -TAAGACCATAGCTGGGCCATGGCAACACTACGTG
*
59726107 TAAGACCATAGCTGGGCCATGGCAATAC-ACGTG
1 TAAGACCATAGCTGGGCCATGGCAACACTACGTG
59726140 TAAGACCATAG
1 TAAGACCATAG
59726151 TTGGACTATG
Statistics
Matches: 85, Mismatches: 21, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
32 3 0.04
33 78 0.92
34 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (34 bp):
TAAGACCATAGCTGGGCCATGGCAACACTACGTG
Found at i:59726226 original size:45 final size:45
Alignment explanation
Indices: 59726177--59726298 Score: 172
Period size: 45 Copynumber: 2.7 Consensus size: 45
59726167 TACCAGAAAT
* *
59726177 GAGTAGGACCATAGCTGAAAGATGCTATGGCATCACGATTCAGAC
1 GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
* * *
59726222 GAGTAAGACCATAGCTGAAAGACGCTATGGCATCGCGATTCAAAT
1 GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
* * *
59726267 GTGTAAGACCATAGTTGAAAGATACTATGGCA
1 GAGTAAGACCATAGCTGAAAGATGCTATGGCA
59726299 ACATGGTAGG
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGATGCTATGGCATCACGATTCAAAC
Found at i:59726330 original size:46 final size:46
Alignment explanation
Indices: 59726270--59726482 Score: 300
Period size: 46 Copynumber: 4.6 Consensus size: 46
59726260 TTCAAATGTG
* **
59726270 TAAGACCATAGTTGAAAGATACTATGGCAACATGGTAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACTATGGCAACATGACAGGAAATGAA
*
59726316 TAAGATCATGGTTGAAAGATACTATGGCAACATGACAGGAAATGAA
1 TAAGACCATGGTTGAAAGATACTATGGCAACATGACAGGAAATGAA
* * *
59726362 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACAAGAAATGAA
1 TAAGACCATGGTTGAAAGATACTATGGCAACATGACAGGAAATGAA
* * * * *
59726408 TAAGACTATGATTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACTATGGCAACATGACAGGAAATGAA
* *
59726454 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACTATGGCA
59726483 TCATATCGAA
Statistics
Matches: 148, Mismatches: 19, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 148 1.00
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACTATGGCAACATGACAGGAAATGAA
Found at i:59733596 original size:6 final size:6
Alignment explanation
Indices: 59733575--59733606 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
59733565 CTCTAAATTA
59733575 TATAAT TA-AA- TATAAT TATAAT TATAAT TATA
1 TATAAT TATAAT TATAAT TATAAT TATAAT TATA
59733607 TTTAAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
4 2 0.08
5 4 0.17
6 18 0.75
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TATAAT
Found at i:59734038 original size:22 final size:22
Alignment explanation
Indices: 59733995--59734043 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 22
59733985 TAAAATTTGA
*
59733995 ATTTTAGATTTTTTTGTAATAT
1 ATTTTAGATTTTTTAGTAATAT
59734017 -TTTTA-ATTTTTTAGATACATAT
1 ATTTTAGATTTTTTAG-TA-ATAT
59734039 ATTTT
1 ATTTT
59734044 TATAATTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 8 0.35
21 7 0.30
22 4 0.17
23 4 0.17
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (22 bp):
ATTTTAGATTTTTTAGTAATAT
Found at i:59734082 original size:36 final size:36
Alignment explanation
Indices: 59734040--59734108 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
59734030 GATACATATA
59734040 TTTTTAT-AATTTATATTTTAAAAATATAAATATAAT
1 TTTTTATGAATTTA-ATTTTAAAAATATAAATATAAT
* * * *
59734076 TTTTTATGTATTTACTTTTAAAATTTTAAATAT
1 TTTTTATGAATTTAATTTTAAAAATATAAATAT
59734109 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 23 0.82
37 5 0.18
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (36 bp):
TTTTTATGAATTTAATTTTAAAAATATAAATATAAT
Found at i:59735861 original size:68 final size:68
Alignment explanation
Indices: 59735733--59735883 Score: 178
Period size: 68 Copynumber: 2.2 Consensus size: 68
59735723 CCAATATGTG
* *
59735733 GACAAAGCCACCAATATTCGCAGACAAGCTGCCATATAGGTTGTAGATAAACCACCATGTAGGTT
1 GACAAAGCCACCAATATTCACAGACAAGCTGCCATATAGGTTGTAGAGAAACCACCATGTAGGTT
59735798 GTA
66 GTA
* * * * * * *
59735801 GACAATGCTACCAATATTCATAGACAAGCTGCCATGTAGGTTGTGGACGAACCCA-TATGTAGGT
1 GACAAAGCCACCAATATTCACAGACAAGCTGCCATATAGGTTGTAGA-GAAACCACCATGTAGGT
*
59735865 TGTG
65 TGTA
**
59735869 GATGAAGCCACCAAT
1 GACAAAGCCACCAAT
59735884 TCTTCCTTCT
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
68 63 0.93
69 5 0.07
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (68 bp):
GACAAAGCCACCAATATTCACAGACAAGCTGCCATATAGGTTGTAGAGAAACCACCATGTAGGTT
GTA
Found at i:59741949 original size:21 final size:22
Alignment explanation
Indices: 59741900--59741950 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
59741890 AAATTTTAAA
59741900 TAATTT-TTTAAGTTTTGCTTT
1 TAATTTATTTAAGTTTTGCTTT
59741921 TACATTTATTTAA-TTTTG-TTT
1 TA-ATTTATTTAAGTTTTGCTTT
59741942 CTAATTTAT
1 -TAATTTAT
59741951 AAAATTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 11 0.41
22 11 0.41
23 5 0.19
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.65
Consensus pattern (22 bp):
TAATTTATTTAAGTTTTGCTTT
Found at i:59745041 original size:19 final size:18
Alignment explanation
Indices: 59745019--59745084 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 18
59745009 AAAAAAAAAG
59745019 AAAAAGAAAAAAATTGAAA
1 AAAAAGAAAAAAA-TGAAA
*
59745038 AAAAA-AAACAAATGAAA
1 AAAAAGAAAAAAATGAAA
* *
59745055 AGAGAA-AAAAACAT-AAA
1 A-AAAAGAAAAAAATGAAA
*
59745072 AAAGAGAAAAAAA
1 AAAAAGAAAAAAA
59745085 AAATTTGATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 2 0.05
17 16 0.42
18 15 0.39
19 5 0.13
ACGTcount: A:0.80, C:0.03, G:0.11, T:0.06
Consensus pattern (18 bp):
AAAAAGAAAAAAATGAAA
Found at i:59745055 original size:24 final size:22
Alignment explanation
Indices: 59745012--59745087 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 22
59745002 TTTTTCTAAA
* **
59745012 AAAAAAGAAAAAGAAAAAAATTG
1 AAAAAA-AAAAACAAAAAAAGAG
59745035 AAAAAAAAAAACAAATGAAAAGAG
1 AAAAAAAAAAACAAA--AAAAGAG
59745059 ----AAAAAAACATAAAAAAGAG
1 AAAAAAAAAAACA-AAAAAAGAG
59745078 AAAAAAAAAA
1 AAAAAAAAAA
59745088 TTTGATTGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
19 7 0.16
20 9 0.21
21 2 0.05
22 8 0.19
23 12 0.28
24 5 0.12
ACGTcount: A:0.82, C:0.03, G:0.11, T:0.05
Consensus pattern (22 bp):
AAAAAAAAAAACAAAAAAAGAG
Found at i:59745062 original size:20 final size:19
Alignment explanation
Indices: 59745039--59745088 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
59745029 AAATTGAAAA
59745039 AAAAAAACAAATGAAAAGAG
1 AAAAAAACAAAT-AAAAGAG
59745059 AAAAAAACATAA-AAAAGAG
1 AAAAAAACA-AATAAAAGAG
59745078 AAAAAAA-AAAT
1 AAAAAAACAAAT
59745089 TTGATTGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 2 0.07
18 1 0.04
19 14 0.50
20 9 0.32
21 2 0.07
ACGTcount: A:0.80, C:0.04, G:0.10, T:0.06
Consensus pattern (19 bp):
AAAAAAACAAATAAAAGAG
Found at i:59745073 original size:34 final size:31
Alignment explanation
Indices: 59745009--59745085 Score: 82
Period size: 34 Copynumber: 2.3 Consensus size: 31
59744999 AATTTTTTCT
*
59745009 AAAAAAAAAGAAAAAGAAAAAAATTGAAAAA
1 AAAAAAAAAGAAAAAGAAAAAAAATGAAAAA
*
59745040 AAAAAACAAATGAAAAGAGAAAAAAACATAAAAAA
1 AAAAAA-AAA-GAAAA-AGAAAAAAA-ATGAAAAA
59745075 GAGAAAAAAAA
1 -A-AAAAAAAA
59745086 AATTTGATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
31 6 0.16
32 3 0.08
33 5 0.13
34 9 0.24
35 6 0.16
36 4 0.11
37 5 0.13
ACGTcount: A:0.82, C:0.03, G:0.10, T:0.05
Consensus pattern (31 bp):
AAAAAAAAAGAAAAAGAAAAAAAATGAAAAA
Found at i:59746446 original size:330 final size:331
Alignment explanation
Indices: 59745816--59746477 Score: 1209
Period size: 330 Copynumber: 2.0 Consensus size: 331
59745806 AGGAGAACAT
* * *
59745816 TTAGTAGTAAAACGAGCGACAAACGAGCAAAAAATAAGAAAATCAGAGCAAGTTCCAGGAGCCAC
1 TTAGGAGTAAAACGAGCGAAAAACGAGCAAAAAATAAGAAAATCAGAGCAAGTTCCAAGAGCCAC
59745881 ATGGGTTGAGTCATTACACACAGGCTGCCACACGACCATGTGTCATACCATGTAGATTTCACGAA
66 ATGGGTTGAGTCATTACACACAGGCTGCCACACGACCATGTGTCATACCATGTAGATTTCACGAA
* ** *
59745946 TCACACTCCAAACATGCGGGAAAATGCAATTTTTAGGTTTTTCGGGCATTCTAAGACCTATATAT
131 TCACACTCCAAACATGCAGGAAAACACAATTTTTAGATTTTTCGGGCATTCTAAGACCTATATAT
59746011 GACACAAATAAGAAGATAGGAGGGAGTCATCGTAGAATATTCAAGAAAACAACTCGGAAAACACC
196 GACACAAATAAGAAGATAGGAGGGAGTCATCGTAGAATATTCAAGAAAACAACTCGGAAAACACC
59746076 ATTGAAGCTAACTTTGAAGTAGATTTCCATCAAGATTGAAGATCTCCTTTTGATTTCTTTAAAGT
261 ATTGAAGCTAACTTTGAAGTAGATTTCCATCAAGATTGAAGATCTCCTTTTGATTTCTTTAAAGT
59746141 TTATTA
326 TTATTA
59746147 TTAGGAGTAAAACGAGCGAAAAACGAGC-AAAAATAAGAAAATCAGAGCAAGTTCCAAGAGCCAC
1 TTAGGAGTAAAACGAGCGAAAAACGAGCAAAAAATAAGAAAATCAGAGCAAGTTCCAAGAGCCAC
* * *
59746211 GTGGGTTGAGTCATTACACACGGGCTGCCACACGGCCATGTGTCATACCATGTAGATTTCACGAA
66 ATGGGTTGAGTCATTACACACAGGCTGCCACACGACCATGTGTCATACCATGTAGATTTCACGAA
*
59746276 TCACACTCCAAACATGCAGGAAAACACAATTTTTAGATTTTTCGGGTATTCTAAGACCTATATAT
131 TCACACTCCAAACATGCAGGAAAACACAATTTTTAGATTTTTCGGGCATTCTAAGACCTATATAT
59746341 GACACAAATAAGAAGATAGGAGGGAGTCATCGTAGAATATTCAAGAAAACAACTCGGAAAACACC
196 GACACAAATAAGAAGATAGGAGGGAGTCATCGTAGAATATTCAAGAAAACAACTCGGAAAACACC
*
59746406 ATTGAAGCTAACTTTGAAGTAGATTTCCATCAAGATTGAAGATCTCCTTTTGATTTCTTTGAAGT
261 ATTGAAGCTAACTTTGAAGTAGATTTCCATCAAGATTGAAGATCTCCTTTTGATTTCTTTAAAGT
59746471 TTATTA
326 TTATTA
59746477 T
1 T
59746478 GAGTTTCTTT
Statistics
Matches: 319, Mismatches: 12, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
330 293 0.92
331 26 0.08
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.25
Consensus pattern (331 bp):
TTAGGAGTAAAACGAGCGAAAAACGAGCAAAAAATAAGAAAATCAGAGCAAGTTCCAAGAGCCAC
ATGGGTTGAGTCATTACACACAGGCTGCCACACGACCATGTGTCATACCATGTAGATTTCACGAA
TCACACTCCAAACATGCAGGAAAACACAATTTTTAGATTTTTCGGGCATTCTAAGACCTATATAT
GACACAAATAAGAAGATAGGAGGGAGTCATCGTAGAATATTCAAGAAAACAACTCGGAAAACACC
ATTGAAGCTAACTTTGAAGTAGATTTCCATCAAGATTGAAGATCTCCTTTTGATTTCTTTAAAGT
TTATTA
Found at i:59747965 original size:45 final size:45
Alignment explanation
Indices: 59747861--59747980 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 45
59747851 GTATTAGATT
* * *
59747861 AAATGTCATAATAAT-TTTCAACTATGGTCTTACATATTTTCGGTT
1 AAATGCCATAAT-ATCTTTCAACTATGGTCTTACACATTTTCGGTA
* *
59747906 TAGTGCCATAATATCTTTCAACTATGGTCTTACACA-TTTCAGGTA
1 AAATGCCATAATATCTTTCAACTATGGTCTTACACATTTTC-GGTA
* *
59747951 AAATGCTATGATATCTTT-AA-TCATGGTCTT
1 AAATGCCATAATATCTTTCAACT-ATGGTCTT
59747981 TCTCGTTTCT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
43 1 0.02
44 16 0.25
45 46 0.73
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (45 bp):
AAATGCCATAATATCTTTCAACTATGGTCTTACACATTTTCGGTA
Found at i:59755543 original size:18 final size:18
Alignment explanation
Indices: 59755511--59755556 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 18
59755501 CTCTTCTAAG
*
59755511 GTTAGGGTTTTTTAATTTT
1 GTTA-GGTTTATTAATTTT
59755530 GTTAGGTTTATTAATTTT
1 GTTAGGTTTATTAATTTT
59755548 GTTAAGGTT
1 GTT-AGGTT
59755557 AGAGTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 16 0.64
19 9 0.36
ACGTcount: A:0.20, C:0.00, G:0.22, T:0.59
Consensus pattern (18 bp):
GTTAGGTTTATTAATTTT
Found at i:59759621 original size:6 final size:6
Alignment explanation
Indices: 59759603--59759722 Score: 68
Period size: 6 Copynumber: 19.3 Consensus size: 6
59759593 AAGAAACATT
* * *
59759603 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
59759652 ATCAGA ATCAGT ACCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
*
59759703 A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATC-AGA ATCAGA AT
59759723 GTGATTGCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 14 0.16
8 3 0.03
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:59759648 original size:31 final size:31
Alignment explanation
Indices: 59759612--59759722 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
59759602 TATCAGAACT
* ** * *
59759612 AGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
* *
59759643 AGAATCAGAATCAGAATCAGTACCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
59759674 AGAATCAAAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATCAGGTAAC
59759705 AGAATCAAAAATCAGAAT
1 AGAATC-AAAATCAGAAT
59759723 GTGATTGCAA
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
31 61 0.85
32 11 0.15
ACGTcount: A:0.50, C:0.15, G:0.17, T:0.18
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATCAGGTAAC
Found at i:59760160 original size:27 final size:27
Alignment explanation
Indices: 59760130--59760371 Score: 268
Period size: 27 Copynumber: 9.0 Consensus size: 27
59760120 GGGGTAAAAT
* * * *
59760130 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59760157 GGTAATTCTACCTTACAGGAGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59760184 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
59760211 GGTATTTCTACCCTATAAGGGTATTTA
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59760238 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
59760265 AGTAATTCTACCATACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
59760292 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * * *
59760319 GGTATTTCTATCGTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
59760346 AGCATTTCTACCCTACAAGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTT
59760372 TGATAATTTT
Statistics
Matches: 183, Mismatches: 32, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 183 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:59760255 original size:81 final size:80
Alignment explanation
Indices: 59760134--59760371 Score: 316
Period size: 81 Copynumber: 3.0 Consensus size: 80
59760124 TAAAATGGTA
* * * *
59760134 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCTTACAGGAGTATTTCAGTAATTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGG-GTATTTTAGTAATTCTACCCT
59760198 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
* * *
59760214 ATTTCTACCCTATAAGGGTATTTAGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCAT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACA-GGGTATTTTAGTAATTCTACCCT
59760279 ACAGGGGTATTTCGGT
65 ACAGGGGTATTTCGGT
* * * * * *
59760295 ATTTCTACCCTACAGGGGTATTTCGGTATTTCTATCGTACAAGGGTATTTTAGCATTTCTACCCT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGTATTTTAGTAATTCTACCCT
*
59760360 ACAAGGGTATTT
65 ACAGGGGTATTT
59760372 TGATAATTTT
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 4 0.03
81 131 0.95
82 3 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.37
Consensus pattern (80 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGTATTTTAGTAATTCTACCCTA
CAGGGGTATTTCGGT
Found at i:59760393 original size:27 final size:27
Alignment explanation
Indices: 59760372--59760693 Score: 361
Period size: 27 Copynumber: 11.9 Consensus size: 27
59760362 AAGGGTATTT
59760372 TGATAATTTTGTAAATCGAGGGTAAAA
1 TGATAATTTTGTAAATCGAGGGTAAAA
* * *
59760399 -CAGTAATTCTGTAAATCGAGGATAAAA
1 TGA-TAATTTTGTAAATCGAGGGTAAAA
*
59760426 T-AGTAATTTTGAAAATCGAGGGTAAAA
1 TGA-TAATTTTGTAAATCGAGGGTAAAA
* *
59760453 TGATAATTCTATAAATCGAGGGTAAAA
1 TGATAATTTTGTAAATCGAGGGTAAAA
* *
59760480 T-AGTAATTCTATAAATCGAGGGTAAAA
1 TGA-TAATTTTGTAAATCGAGGGTAAAA
* *
59760507 CGGTAATTTTGTAAATCGAGGGTAAAA
1 TGATAATTTTGTAAATCGAGGGTAAAA
*
59760534 -CAGTAATTTTGTAAATCGAGGGTAAAA
1 TGA-TAATTTTGTAAATCGAGGGTAAAA
*
59760561 T-AGTAATTCTGTAAATCGAGGGTAAAA
1 TGA-TAATTTTGTAAATCGAGGGTAAAA
* *
59760588 TGGTAATTTTTTAAATCGAGGGTAAAA
1 TGATAATTTTGTAAATCGAGGGTAAAA
* *
59760615 CGATAATTTTATAAATCGAGGGTAAAA
1 TGATAATTTTGTAAATCGAGGGTAAAA
*
59760642 T-AGTAATTCTGTAAATCGAGGGTAAAA
1 TGA-TAATTTTGTAAATCGAGGGTAAAA
*
59760669 T-AGTAATTTTTGTAATTCGAGGGTA
1 TGA-TAA-TTTTGTAAATCGAGGGTA
59760694 CTTTGATAAT
Statistics
Matches: 258, Mismatches: 27, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.01
27 238 0.92
28 17 0.07
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
TGATAATTTTGTAAATCGAGGGTAAAA
Found at i:59760442 original size:54 final size:54
Alignment explanation
Indices: 59760375--59760693 Score: 435
Period size: 54 Copynumber: 5.9 Consensus size: 54
59760365 GGTATTTTGA
*
59760375 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAG
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
* * *
59760429 TAATTTTGAAAATCGAGGGTAAAA-TGATAATTCTATAAATCGAGGGTAAAATAG
1 TAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAATAG
* * * * *
59760483 TAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACAG
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
* *
59760537 TAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGG
1 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
* * *
59760591 TAATTTTTTAAATCGAGGGTAAAAC-GATAATTTTATAAATCGAGGGTAAAATAG
1 TAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGAGGGTAAAATAG
* * * *
59760645 TAATTCTGTAAATCGAGGGTAAAATAGTAATTTTTGTAATTCGAGGGTA
1 TAATTTTGTAAATCGAGGGTAAAACAGTAA-TTCTGTAAATCGAGGGTA
59760694 CTTTGATAAT
Statistics
Matches: 232, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
53 2 0.01
54 212 0.91
55 18 0.08
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (54 bp):
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAG
Found at i:59760473 original size:81 final size:81
Alignment explanation
Indices: 59760372--59760707 Score: 494
Period size: 81 Copynumber: 4.1 Consensus size: 81
59760362 AAGGGTATTT
* * *
59760372 TGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTG
1 TGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTG
*
59760437 AAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * **
59760453 TGATAATTCTATAAATCGAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTTTG
1 TGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTG
59760518 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * *
59760534 -CAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTTT
1 TGA-TAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTT
*
59760598 TTAAATCGAGGGTAAAA
65 GTAAATCGAGGGTAAAA
*
59760615 CGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTT
1 TGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAA-TTTT
* ***
59760680 GTAATTCGAGGGTACTT
65 GTAAATCGAGGGTAAAA
59760697 TGATAATTTTA
1 TGATAATTTTA
59760708 CATGTCGAGG
Statistics
Matches: 229, Mismatches: 23, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
80 1 0.00
81 201 0.88
82 27 0.12
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (81 bp):
TGATAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTG
TAAATCGAGGGTAAAA
Found at i:59760744 original size:27 final size:27
Alignment explanation
Indices: 59760714--59760838 Score: 116
Period size: 27 Copynumber: 4.7 Consensus size: 27
59760704 TTTACATGTC
* *
59760714 GAGGGTATTTCAGTAATTTTGCAAACT
1 GAGGGTATTTCGGTAATTTTACAAACT
59760741 GAGGGTATTTCGGTAATTTTACAAA-T
1 GAGGGTATTTCGGTAATTTTACAAACT
* * * *
59760767 CGAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCGGTAATTTTACAAACT
*
59760795 G-GGGTACTTT-GGTAATTTTAC-AATT
1 GAGGGTA-TTTCGGTAATTTTACAAACT
*
59760820 G-GAGGTATTTCAGTAATTT
1 GAG-GGTATTTCGGTAATTT
59760839 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
25 7 0.09
26 26 0.32
27 49 0.60
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (27 bp):
GAGGGTATTTCGGTAATTTTACAAACT
Found at i:59760758 original size:54 final size:53
Alignment explanation
Indices: 59760686--59760838 Score: 168
Period size: 54 Copynumber: 2.9 Consensus size: 53
59760676 TTTTGTAATT
* *
59760686 CGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGTAATTTTGCAAAC
1 CGAGGGTACTTTGGTAATTTTACAT-TCGAGGGTATTTCAGTAATTTTACAAAC
* * * ** *
59760740 TGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GGTAATTTTAC-ATTCGAGGGTATTTCAGTAATTTTACAAAC
*
59760794 CG-GGGTACTTTGGTAATTTTACAATTGGA-GGTATTTCAGTAATTT
1 CGAGGGTACTTTGGTAATTTTAC-ATTCGAGGGTATTTCAGTAATTT
59760839 GGTAAACTAA
Statistics
Matches: 82, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
52 13 0.16
53 24 0.29
54 44 0.54
55 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (53 bp):
CGAGGGTACTTTGGTAATTTTACATTCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:59770796 original size:19 final size:19
Alignment explanation
Indices: 59770772--59770813 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59770762 CATTGAATGT
59770772 TGGCCTATAATGGTTATGA
1 TGGCCTATAATGGTTATGA
** *
59770791 TGGCCTATGGTGGTTATGT
1 TGGCCTATAATGGTTATGA
59770810 TGGC
1 TGGC
59770814 TATTGATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.12, G:0.33, T:0.38
Consensus pattern (19 bp):
TGGCCTATAATGGTTATGA
Found at i:59776953 original size:23 final size:24
Alignment explanation
Indices: 59776924--59776968 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
59776914 CCCCTTTGCC
59776924 CTCTCACC-ACCTTATTTCTCCTT
1 CTCTCACCTACCTTATTTCTCCTT
*
59776947 CTCTCACCTTCCTTATTTCTCC
1 CTCTCACCTACCTTATTTCTCC
59776969 ACGTAGGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.11, C:0.44, G:0.00, T:0.44
Consensus pattern (24 bp):
CTCTCACCTACCTTATTTCTCCTT
Found at i:59784468 original size:36 final size:36
Alignment explanation
Indices: 59784375--59784478 Score: 102
Period size: 36 Copynumber: 2.9 Consensus size: 36
59784365 CCTCACCTGC
* **
59784375 ATCTTCTT-CTTCGACCACAACTTCTTGCTTGTTAGG
1 ATCTTCTTCCTT-GACCACATCTTCTTGCTCATTAGG
* * ***
59784411 ATCATCTTCCTCGATTGCATCTTCTTGCTCATTAGG
1 ATCTTCTTCCTTGACCACATCTTCTTGCTCATTAGG
* *
59784447 ATTTTCTTCCTTGACCACATCTTCTTCCTCAT
1 ATCTTCTTCCTTGACCACATCTTCTTGCTCAT
59784479 CTGCACCTTC
Statistics
Matches: 52, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 50 0.96
37 2 0.04
ACGTcount: A:0.16, C:0.30, G:0.11, T:0.43
Consensus pattern (36 bp):
ATCTTCTTCCTTGACCACATCTTCTTGCTCATTAGG
Found at i:59793367 original size:40 final size:40
Alignment explanation
Indices: 59793309--59793486 Score: 270
Period size: 40 Copynumber: 4.5 Consensus size: 40
59793299 CGGATGATAA
*
59793309 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59793349 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
59793389 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
59793429 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
59793469 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
59793487 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 9, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
39 16 0.12
40 112 0.88
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:59800440 original size:28 final size:28
Alignment explanation
Indices: 59800399--59800462 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
59800389 CTATCGCACT
*
59800399 AAGTGTCATACTCAATATCTCGCACACC
1 AAGTGCCATACTCAATATCTCGCACACC
* * *
59800427 AAGTGCCATTCTCAATATTTCGCACACT
1 AAGTGCCATACTCAATATCTCGCACACC
59800455 AAGTGCCA
1 AAGTGCCA
59800463 CATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (28 bp):
AAGTGCCATACTCAATATCTCGCACACC
Found at i:59800528 original size:39 final size:39
Alignment explanation
Indices: 59800471--59800545 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
59800461 CACATATATA
*
59800471 TAGCTGAATCTATCTCAAATCGAACACCAAGTGCCACTT
1 TAGCTGAATCTATCTCAAACCGAACACCAAGTGCCACTT
* * *
59800510 TAGCTGAAGT-TATTTCAAACCGCACACTAAGTGCCA
1 TAGCTGAA-TCTATCTCAAACCGAACACCAAGTGCCA
59800546 TTCTTAGCCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
39 30 0.97
40 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (39 bp):
TAGCTGAATCTATCTCAAACCGAACACCAAGTGCCACTT
Found at i:59818203 original size:399 final size:399
Alignment explanation
Indices: 59817465--59818263 Score: 1571
Period size: 399 Copynumber: 2.0 Consensus size: 399
59817455 CATTGAAATG
* *
59817465 CCTTTTACAAATTGTCGCTAATAACCAGCTAGTCCCAGAAAGCTGCAGACCTCAGAAACATTTCT
1 CCTTTTACAAATTATCGCTAATAACCAGCTAGTCCCAGAAAGCTACAGACCTCAGAAACATTTCT
59817530 CAGAGGCTTCCAATCCATTATTGCAGAAATTTTGTTTGGATCGACTCAAATACCAGATGCTGACA
66 CAGAGGCTTCCAATCCATTATTGCAGAAATTTTGTTTGGATCGACTCAAATACCAGATGCTGACA
*
59817595 CAATATGCCTTAGAAAACCAACTTCATGCAACCAAAACTCACATTTACTGAACTTTGCATATAAT
131 CAATATGCCCTAGAAAACCAACTTCATGCAACCAAAACTCACATTTACTGAACTTTGCATATAAT
59817660 TGCTTATCACGCAGAATTTGCAAAACAATTCTCAAATGCCCAGAATGCTCAGTTTCATCTCGCGA
196 TGCTTATCACGCAGAATTTGCAAAACAATTCTCAAATGCCCAGAATGCTCAGTTTCATCTCGCGA
59817725 ATAGATCAAAATATCATCTATGAATACAACAACAAATTGATCTAGGTACGGTCTAAAAATATGGT
261 ATAGATCAAAATATCATCTATGAATACAACAACAAATTGATCTAGGTACGGTCTAAAAATATGGT
59817790 TTATTAGATTCATAAAGACTGCAGGAGCATTTGTTAATTCAAAAGGCATAACTAAGAATTCATAA
326 TTATTAGATTCATAAAGACTGCAGGAGCATTTGTTAATTCAAAAGGCATAACTAAGAATTCATAA
59817855 TGTTCGTAC
391 TGTTCGTAC
59817864 CCTTTTACAAATTATCGCTAATAACCAGCTAGTCCCAGAAAGCTACAGACCTCAGAAACATTTCT
1 CCTTTTACAAATTATCGCTAATAACCAGCTAGTCCCAGAAAGCTACAGACCTCAGAAACATTTCT
59817929 CAGAGGCTTCCAATCCATTATTGCAGAAATTTTGTTTGGATCGACTCAAATACCAGATGCTGACA
66 CAGAGGCTTCCAATCCATTATTGCAGAAATTTTGTTTGGATCGACTCAAATACCAGATGCTGACA
59817994 CAATATGCCCTAGAAAACCAACTTCATGCAACCAAAACTCACATTTACTGAACTTTGCATATAAT
131 CAATATGCCCTAGAAAACCAACTTCATGCAACCAAAACTCACATTTACTGAACTTTGCATATAAT
59818059 TGCTTATCACGCAGAATTTGCAAAACAATTCTCAAATGCCCAGAATGCTCAGTTTCATCTCGCGA
196 TGCTTATCACGCAGAATTTGCAAAACAATTCTCAAATGCCCAGAATGCTCAGTTTCATCTCGCGA
59818124 ATAGATCAAAATATCATCTATGAATACAACAACAAATTGATCTAGGTACGGTCTAAAAATATGGT
261 ATAGATCAAAATATCATCTATGAATACAACAACAAATTGATCTAGGTACGGTCTAAAAATATGGT
59818189 TTATTAGATTCATAAAGACTGCAGGAGCATTTGTTAATTCAAAAGGCATAACTAAGAATTCATAA
326 TTATTAGATTCATAAAGACTGCAGGAGCATTTGTTAATTCAAAAGGCATAACTAAGAATTCATAA
59818254 TGTTCGTAC
391 TGTTCGTAC
59818263 C
1 C
59818264 TCGTTCTGAA
Statistics
Matches: 397, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
399 397 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.28
Consensus pattern (399 bp):
CCTTTTACAAATTATCGCTAATAACCAGCTAGTCCCAGAAAGCTACAGACCTCAGAAACATTTCT
CAGAGGCTTCCAATCCATTATTGCAGAAATTTTGTTTGGATCGACTCAAATACCAGATGCTGACA
CAATATGCCCTAGAAAACCAACTTCATGCAACCAAAACTCACATTTACTGAACTTTGCATATAAT
TGCTTATCACGCAGAATTTGCAAAACAATTCTCAAATGCCCAGAATGCTCAGTTTCATCTCGCGA
ATAGATCAAAATATCATCTATGAATACAACAACAAATTGATCTAGGTACGGTCTAAAAATATGGT
TTATTAGATTCATAAAGACTGCAGGAGCATTTGTTAATTCAAAAGGCATAACTAAGAATTCATAA
TGTTCGTAC
Found at i:59824067 original size:48 final size:48
Alignment explanation
Indices: 59823996--59824316 Score: 216
Period size: 48 Copynumber: 6.8 Consensus size: 48
59823986 TCACGTATCA
* * *
59823996 ATGCCATATCCTAGATATGGTCTTATACGAAG-TCTCATATCGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTATAC-AAGATCTCATATCGATGCCG
**
59824044 ATGCCATGTCCCAGACATGGTCTTATACGGGA-CATCATATC-A-----
1 ATGCCATGTCCCAGACATGGTCTTATACAAGATC-TCATATCGATGCCG
* * * * * *
59824086 ATGCCATGCCCCAGACATGGTCTTATATGAA-ATCACTTAACGATGTCG
1 ATGCCATGTCCCAGACATGGTCTTATA-CAAGATCTCATATCGATGCCG
* * * * * *
59824134 AAGCCATATCCCTGATATGGTCTTATACAGGATCATACAT-T-GATGCTG
1 ATGCCATGTCCCAGACATGGTCTTATACAAGATC-T-CATATCGATGCCG
* * * * *
59824182 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTATACAAG-ATCTCATATCGATGCCG
* * * * * *
59824230 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGTCTCGAATGCTG
1 ATGCCATGTCCCAGACATGGTCTTATACAAGATCTCATATCG-ATGCCG
* * *
59824279 ACGCCATGTCCTAGACATGGTCTTACACAAGATCTCAT
1 ATGCCATGTCCCAGACATGGTCTTATACAAGATCTCAT
59824317 CAACCATGGT
Statistics
Matches: 208, Mismatches: 47, Indels: 35
0.72 0.16 0.12
Matches are distributed among these distances:
42 31 0.15
43 2 0.01
46 3 0.01
47 5 0.02
48 127 0.61
49 38 0.18
50 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTATACAAGATCTCATATCGATGCCG
Found at i:59824110 original size:90 final size:91
Alignment explanation
Indices: 59823957--59824254 Score: 287
Period size: 90 Copynumber: 3.2 Consensus size: 91
59823947 AGTGCCAAAA
* * * * * * * *
59823957 CCATGTCCTAGATATGGTCTTACATGGGATCA-CGTATCAATGCCATATCCTAGATATGGTCTTA
1 CCATGTCCCAGACATGGTCTTATACGGGATCATCATATCAATGCCATGTCCCAGACATGGTCTTA
*
59824021 TACGAAGTCTCATATCGATGCCGATG
66 TACGAAGTCACATATCGATGCCGATG
*
59824047 CCATGTCCCAGACATGGTCTTATACGGGA-CATCATATCAATGCCATGCCCCAGACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTATACGGGATCATCATATCAATGCCATGTCCCAGACATGGTCTTA
* * * * * *
59824111 TATGAAATCACTTAACGATGTCGAAG
66 TACGAAGTCACATATCGATGCCGATG
* * * * *
59824137 CCATATCCCTGATATGGTCTTATACAGGATCATACATTGATGCTGATGCCATGTCCCAGACATGG
1 CCATGTCCCAGACATGGTCTTATACGGGATCAT-CA-T-AT-C-AATGCCATGTCCCAGACATGG
* * * * *
59824202 TCTTACAC-TAGCACACATATCAACGCCGATG
61 TCTTATACGAAG-TCACATATCGATGCCGATG
59824233 CCATGTCCCAGACATGGTCTTA
1 CCATGTCCCAGACATGGTCTTA
59824255 CACTAGCTCT
Statistics
Matches: 164, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
89 2 0.01
90 96 0.59
91 3 0.02
92 2 0.01
93 1 0.01
94 2 0.01
95 2 0.01
96 56 0.34
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (91 bp):
CCATGTCCCAGACATGGTCTTATACGGGATCATCATATCAATGCCATGTCCCAGACATGGTCTTA
TACGAAGTCACATATCGATGCCGATG
Found at i:59828598 original size:46 final size:45
Alignment explanation
Indices: 59828531--59828705 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
59828521 TGTAACCCGC
*
59828531 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
59828577 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * *
59828623 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
*
59828670 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
59828706 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 21, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.66
47 32 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:59828667 original size:93 final size:93
Alignment explanation
Indices: 59828539--59828709 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
59828529 GCCCATAAGT
* * * *
59828539 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
59828604 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
59828632 GAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
59828697 CGAGTTCGGATGC
66 CGAGCTCGGATGC
59828710 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:59828725 original size:46 final size:46
Alignment explanation
Indices: 59828536--59828725 Score: 117
Period size: 46 Copynumber: 4.1 Consensus size: 46
59828526 CCCGCCCATA
* ** * *
59828536 AGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCC-T
*
59828581 AAGTGAACTCAGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * * *
59828631 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC-G-GATGCTCAACCATCCT
*
59828675 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
59828721 AGTGA
1 AGTGA
59828726 CTTGTCACGT
Statistics
Matches: 111, Mismatches: 18, Indels: 30
0.70 0.11 0.19
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 61 0.55
47 27 0.24
48 1 0.01
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:59832749 original size:28 final size:28
Alignment explanation
Indices: 59832707--59832777 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 28
59832697 TTCGATGTCT
* *
59832707 GCACACTAAGAGCCAGACTTAATATCTC
1 GCACACTAAGTGCCAGACTCAATATCTC
* ** *
59832735 GCACACCAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGCCAGACTCAATATCTC
*
59832763 ACACACTAAGTGCCA
1 GCACACTAAGTGCCA
59832778 CATATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.23
Consensus pattern (28 bp):
GCACACTAAGTGCCAGACTCAATATCTC
Found at i:59836840 original size:48 final size:48
Alignment explanation
Indices: 59836734--59836919 Score: 304
Period size: 48 Copynumber: 3.9 Consensus size: 48
59836724 CACATAGTAA
* * *
59836734 GATGCAAATGCCATATCCCAGATATGGTCTTACAT-GGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
59836781 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
* * *
59836829 AATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATT
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
59836877 GATGCCAATGCCATGTCCC-GACATGGTCTTACATAGGATCACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACA
59836920 CATAACCCTA
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
47 55 0.42
48 75 0.58
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATAGGATCACATATC
Found at i:59836903 original size:95 final size:95
Alignment explanation
Indices: 59836735--59836919 Score: 318
Period size: 95 Copynumber: 1.9 Consensus size: 95
59836725 ACATAGTAAG
*
59836735 ATGCAAATGCCATATCCCAGATATGGTCTTACATGGATCACATATCGATGCCAATGCCATGTCCC
1 ATGCAAATGCCATATCCCAGACATGGTCTTACATGGATCACATATCGATGCCAATGCCATGTCCC
59836800 AGACATGGTCTTACATAGGATCACATATCA
66 AGACATGGTCTTACATAGGATCACATATCA
* * *
59836830 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATTGATGCCAATGCCATGTCC
1 ATGCAAATGCCATATCCCAGACATGGTCTTACAT-GGATCACATATCGATGCCAATGCCATGTCC
59836895 C-GACATGGTCTTACATAGGATCACA
65 CAGACATGGTCTTACATAGGATCACA
59836920 CATAACCCTA
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
95 55 0.65
96 30 0.35
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (95 bp):
ATGCAAATGCCATATCCCAGACATGGTCTTACATGGATCACATATCGATGCCAATGCCATGTCCC
AGACATGGTCTTACATAGGATCACATATCA
Found at i:59840049 original size:15 final size:15
Alignment explanation
Indices: 59840029--59840060 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
59840019 TGAAGCTCCA
59840029 TCGACGCCTTCGCCC
1 TCGACGCCTTCGCCC
59840044 TCGACGCCTTCGCCC
1 TCGACGCCTTCGCCC
59840059 TC
1 TC
59840061 TCAAGTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.53, G:0.19, T:0.22
Consensus pattern (15 bp):
TCGACGCCTTCGCCC
Found at i:59842732 original size:58 final size:57
Alignment explanation
Indices: 59842583--59842732 Score: 162
Period size: 58 Copynumber: 2.6 Consensus size: 57
59842573 AATAATTATG
* * * *
59842583 ATTTT-TT-AATT-TATATAATAATAATTCTATTAAGAATTTTATTAAATTATATATT
1 ATTTTATTAAATTATATTTAATAATAATTATATTAA-AATATGATTAAATTATATATT
* * * *
59842638 ATTTTATTAAGTTATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATTT
1 ATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAATTATATA-TT
* * *
59842696 TTTTTATTAAATTATTTTTAATAATAATTTTATTAAA
1 ATTTTATTAAATTATATTTAATAATAATTATATTAAA
59842733 TTTTAATAAC
Statistics
Matches: 78, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
55 5 0.06
56 2 0.03
57 18 0.23
58 53 0.68
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (57 bp):
ATTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAATTATATATT
Found at i:59842928 original size:16 final size:16
Alignment explanation
Indices: 59842901--59842955 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
59842891 TGAATTACTG
*
59842901 ATTACAGGTCTATTCC
1 ATTACAGCTCTATTCC
* *
59842917 ATCACAGCTCTATTCA
1 ATTACAGCTCTATTCC
*
59842933 ATTACAGCCCTATTCC
1 ATTACAGCTCTATTCC
59842949 ATTACAG
1 ATTACAG
59842956 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:59843020 original size:24 final size:23
Alignment explanation
Indices: 59842976--59843020 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
59842966 GTACTGTAAG
*
59842976 AATATTAAAACCCTAAACCTAAA
1 AATATTAAAACCATAAACCTAAA
*
59842999 AATATTAAAAACCATAACCCTA
1 AATATT-AAAACCATAAACCTA
59843021 GGAGAGAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 6 0.32
24 13 0.68
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (23 bp):
AATATTAAAACCATAAACCTAAA
Found at i:59843548 original size:20 final size:18
Alignment explanation
Indices: 59843515--59843562 Score: 51
Period size: 18 Copynumber: 2.4 Consensus size: 18
59843505 AAAAAAGAGG
59843515 AAAAAAATAATCTTAAAACAT
1 AAAAAAAT--TCTTAAAA-AT
*
59843536 ATAAAAAATTCTTCAAAAT
1 A-AAAAAATTCTTAAAAAT
59843555 AAAAAAAT
1 AAAAAAAT
59843563 AAAAAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 7 0.28
19 3 0.12
20 7 0.28
21 1 0.04
22 7 0.28
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAAAATTCTTAAAAAT
Found at i:59844128 original size:79 final size:79
Alignment explanation
Indices: 59843997--59844157 Score: 259
Period size: 79 Copynumber: 2.0 Consensus size: 79
59843987 TAAAATTGAA
*
59843997 TTTATTTAAAAATAGCATAAATTATATCGTAGGTGACTTTAAAATAGTGTCTTTCCATTTTGATC
1 TTTATTTAAAAATAGCATAAATTATATCGTAGGTCACTTTAAAATAGTGTCTTTCCATTTTGATC
*
59844062 ACTTAAAATTTTCT
66 ACTTAAAATTTTAT
** * * *
59844076 TTTATTTAAAAATAGTGTAAATTATATCTTAGGTCACTTTAAAATAGTGTCTTTCTATTTTGGTC
1 TTTATTTAAAAATAGCATAAATTATATCGTAGGTCACTTTAAAATAGTGTCTTTCCATTTTGATC
59844141 ACTTAAAATTTTAT
66 ACTTAAAATTTTAT
59844155 TTT
1 TTT
59844158 TTGTCAATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (79 bp):
TTTATTTAAAAATAGCATAAATTATATCGTAGGTCACTTTAAAATAGTGTCTTTCCATTTTGATC
ACTTAAAATTTTAT
Found at i:59847088 original size:138 final size:138
Alignment explanation
Indices: 59846939--59847216 Score: 495
Period size: 138 Copynumber: 2.0 Consensus size: 138
59846929 ACGTCTGGGG
* *
59846939 ACTTAGATAGTAATTTTTCCAAAGACTAAAATGGTTAAAAATCAATTTTAGTTAGTAGATAGTGG
1 ACTTAGATAGTAATTATTCCAAAGACTAAAATGATTAAAAATCAATTTTAGTTAGTAGATAGTGG
**
59847004 ATGGTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAATTAA-TTAAGTGTAATT
66 ATGGTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAATTAATTTAA-AATAATT
59847068 AAATATAAA
130 AAATATAAA
59847077 ACTTAGATAGTAATTATTCCAAAGACTAAAATGATTAAAAATCAATTTTAGTTAGTAGATAGTGG
1 ACTTAGATAGTAATTATTCCAAAGACTAAAATGATTAAAAATCAATTTTAGTTAGTAGATAGTGG
*
59847142 ATGGTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAACTAATTAATTTAAAATAATTA
66 ATGGTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAATTAATTTAAAATAATTA
59847207 AATATAAA
131 AATATAAA
59847215 AC
1 AC
59847217 ATGATTAACT
Statistics
Matches: 134, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
138 130 0.97
139 4 0.03
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (138 bp):
ACTTAGATAGTAATTATTCCAAAGACTAAAATGATTAAAAATCAATTTTAGTTAGTAGATAGTGG
ATGGTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAATTAATTTAAAATAATTA
AATATAAA
Found at i:59847204 original size:14 final size:14
Alignment explanation
Indices: 59847160--59847215 Score: 67
Period size: 14 Copynumber: 3.9 Consensus size: 14
59847150 GAGGTTGGAC
*
59847160 ATTAAGTTAAAATA
1 ATTAAATTAAAATA
*
59847174 ATTATAATTAAACTA
1 ATTA-AATTAAAATA
*
59847189 ATTAATTTAAAATA
1 ATTAAATTAAAATA
59847203 ATTAAATATAAAA
1 ATTAAAT-TAAAA
59847216 CATGATTAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
14 18 0.51
15 17 0.49
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (14 bp):
ATTAAATTAAAATA
Found at i:59850546 original size:24 final size:24
Alignment explanation
Indices: 59850514--59850564 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
59850504 AAGCTGGAAA
59850514 AATACCCGTTAAATATTTAAAAAT
1 AATACCCGTTAAATATTTAAAAAT
59850538 AATACCCGTTAAATATTTAAAAAT
1 AATACCCGTTAAATATTTAAAAAT
59850562 AAT
1 AAT
59850565 CCTAATTATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.51, C:0.12, G:0.04, T:0.33
Consensus pattern (24 bp):
AATACCCGTTAAATATTTAAAAAT
Found at i:59856392 original size:20 final size:21
Alignment explanation
Indices: 59856367--59856415 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
59856357 GCAGAATAAT
*
59856367 TCCCAAATCC-AAATCCAAAG
1 TCCCAAATCCAAAAACCAAAG
*
59856387 TCCCAAAACCAAAAACCAAAG
1 TCCCAAATCCAAAAACCAAAG
*
59856408 TCCAAAAT
1 TCCCAAAT
59856416 TAAAGTCCAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.51, C:0.33, G:0.04, T:0.12
Consensus pattern (21 bp):
TCCCAAATCCAAAAACCAAAG
Found at i:59858066 original size:21 final size:21
Alignment explanation
Indices: 59858040--59858079 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
59858030 AGTCCGAAGA
*
59858040 CTAAACAGAAGCACATAAGTG
1 CTAAACAGAAACACATAAGTG
*
59858061 CTAAACAGAAACCCATAAG
1 CTAAACAGAAACACATAAG
59858080 GGTTGAACGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (21 bp):
CTAAACAGAAACACATAAGTG
Found at i:59858098 original size:21 final size:21
Alignment explanation
Indices: 59858074--59858117 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
59858064 AACAGAAACC
*
59858074 CATAAGGGTTGAACGAGAGCT
1 CATAAGGGTTGAACAAGAGCT
59858095 CATAAGGGTTGAACAAGAGCT
1 CATAAGGGTTGAACAAGAGCT
59858116 CA
1 CA
59858118 GAAGAGCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (21 bp):
CATAAGGGTTGAACAAGAGCT
Found at i:59858128 original size:21 final size:21
Alignment explanation
Indices: 59858083--59858128 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
59858073 CCATAAGGGT
* * * *
59858083 TGAACGAGAGCTCATAAGGGT
1 TGAACAAGAGCTCAGAAGAGC
59858104 TGAACAAGAGCTCAGAAGAGC
1 TGAACAAGAGCTCAGAAGAGC
59858125 TGAA
1 TGAA
59858129 TGGAAACCCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.15, G:0.30, T:0.15
Consensus pattern (21 bp):
TGAACAAGAGCTCAGAAGAGC
Found at i:59858141 original size:42 final size:42
Alignment explanation
Indices: 59858095--59858191 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
59858085 AACGAGAGCT
* * * *
59858095 CATAAGGGTTGAACA-AGAGCTCAGAAGAGCTGAATGGAAACC
1 CATAAGGGTTGAACAGA-AGCTCAAAAGAGCTAAACGAAAACC
* *
59858137 CATAAGGGTTAAACAGAAGCTCAAAAGAGCTAAACGAAAATC
1 CATAAGGGTTGAACAGAAGCTCAAAAGAGCTAAACGAAAACC
*
59858179 CATTAGGGTTGAA
1 CATAAGGGTTGAA
59858192 AGGAAACTCA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.43, C:0.15, G:0.25, T:0.16
Consensus pattern (42 bp):
CATAAGGGTTGAACAGAAGCTCAAAAGAGCTAAACGAAAACC
Found at i:59860386 original size:29 final size:28
Alignment explanation
Indices: 59860324--59860378 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
59860314 CATATTCAGT
* *
59860324 AACAGTACAGTCTGGGCCTTAGCCCTTA
1 AACAGTACAGTATGGGCCTAAGCCCTTA
59860352 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
59860379 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTA
Found at i:59860470 original size:30 final size:30
Alignment explanation
Indices: 59860392--59860474 Score: 141
Period size: 31 Copynumber: 2.7 Consensus size: 30
59860382 TCAGTCTCGA
59860392 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACT-GGCCGAAGCCTTTTCATAAAT
59860422 CATATCACTGGACCGAAGCCTTTTCATAAAT
1 CATATCACTGG-CCGAAGCCTTTTCATAAAT
59860453 CATATCACTGGCCGAAGCCTTT
1 CATATCACTGGCCGAAGCCTTT
59860475 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
30 18 0.35
31 33 0.65
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
CATATCACTGGCCGAAGCCTTTTCATAAAT
Found at i:59860744 original size:26 final size:26
Alignment explanation
Indices: 59860680--59860790 Score: 156
Period size: 26 Copynumber: 4.3 Consensus size: 26
59860670 TTGGAGGCCT
59860680 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
59860704 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
59860730 AGACCTTTTCGATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
* *
59860756 AGCCCTTTCCAATAAACCGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
59860782 AGCCCTTTT
1 AGCCCTTTT
59860791 GCACTTCCTA
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
23 5 0.06
24 7 0.09
25 10 0.13
26 55 0.71
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Done.