Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 115 of 320
Found at i:37380184 original size:81 final size:80
Alignment explanation
Indices: 37380006--37380176 Score: 189
Period size: 81 Copynumber: 2.1 Consensus size: 80
37379996 TTGTAAACCA
* * *
37380006 AGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCAAGGGTAAAATA
1 AGGGTA-TTTAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
*
37380071 GTAATTCTATAAATCG
65 GTAATTCTACAAATCG
** * ** *** *
37380087 AGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTATGTAAATCGGGGGTACTTTG
1 AGGGT-ATTTAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATA
* *
37380152 GTAATTTTACAAGTCG
65 GTAATTCTACAAATCG
37380168 AGGGTATTT
1 AGGGTATTT
37380177 CAATAATTGG
Statistics
Matches: 72, Mismatches: 17, Indels: 3
0.78 0.18 0.03
Matches are distributed among these distances:
80 2 0.03
81 69 0.96
82 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.33
Consensus pattern (80 bp):
AGGGTATTTAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTATGTAAATCAAGGGTAAAATAG
TAATTCTACAAATCG
Found at i:37383198 original size:25 final size:25
Alignment explanation
Indices: 37383170--37383226 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
37383160 GTTACCAATT
37383170 TCAGCTCATATGAGCTTATCGATAC
1 TCAGCTCATATGAGCTTATCGATAC
37383195 TCAGCTCATATGAGCTTATCGATAC
1 TCAGCTCATATGAGCTTATCGATAC
37383220 TCAGCTC
1 TCAGCTC
37383227 GAAGGAGCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (25 bp):
TCAGCTCATATGAGCTTATCGATAC
Found at i:37383234 original size:25 final size:25
Alignment explanation
Indices: 37383170--37383261 Score: 107
Period size: 25 Copynumber: 3.7 Consensus size: 25
37383160 GTTACCAATT
*
37383170 TCAGCTCATATGAGCTTATCGATAC
1 TCAGCTCATAGGAGCTTATCGATAC
*
37383195 TCAGCTCATATGAGCTTATCGATAC
1 TCAGCTCATAGGAGCTTATCGATAC
* *
37383220 TCAGCTCGA-AGGAGCTTA-CTGTTAT
1 TCAGCTC-ATAGGAGCTTATC-GATAC
*
37383245 TCAGCTCAGAGGAGCTT
1 TCAGCTCATAGGAGCTT
37383262 GCTGTTTACA
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
24 2 0.03
25 58 0.95
26 1 0.02
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (25 bp):
TCAGCTCATAGGAGCTTATCGATAC
Found at i:37383266 original size:25 final size:24
Alignment explanation
Indices: 37383220--37383276 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 24
37383210 TTATCGATAC
37383220 TCAGCTCGAAGGAGCTTACTGTTAT
1 TCAGCTCGAAGGAGCTTACTGTT-T
*
37383245 TCAGCTC-AGAGGAGCTTGCTGTTT
1 TCAGCTCGA-AGGAGCTTACTGTTT
*
37383269 ACAGCTCG
1 TCAGCTCG
37383277 TATGATACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (24 bp):
TCAGCTCGAAGGAGCTTACTGTTT
Found at i:37385004 original size:21 final size:20
Alignment explanation
Indices: 37384979--37385018 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37384969 TTTAAAGATG
37384979 GATTAAACGAGGATATAAAGT
1 GATTAAACG-GGATATAAAGT
**
37385000 GATTAGTCGGGATATAAAG
1 GATTAAACGGGATATAAAG
37385019 CTGAAGAGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (20 bp):
GATTAAACGGGATATAAAGT
Found at i:37393944 original size:29 final size:29
Alignment explanation
Indices: 37393874--37393963 Score: 121
Period size: 29 Copynumber: 3.2 Consensus size: 29
37393864 AAGTTTACAT
* *
37393874 ACATGCATAT-GCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
* *
37393901 TCATTCATATGGCCCATTAGGCCCAAATA
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
37393930 ACATTCGTATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
37393959 ACATT
1 ACATT
37393964 TATAGTCATG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 8 0.15
28 12 0.22
29 34 0.63
ACGTcount: A:0.30, C:0.31, G:0.14, T:0.24
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:37394202 original size:16 final size:16
Alignment explanation
Indices: 37394178--37394214 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
37394168 TGTAGCCAAA
*
37394178 ATTTTAGCTTTTTGGC
1 ATTTCAGCTTTTTGGC
*
37394194 ATTTCAGCTTTTTGGT
1 ATTTCAGCTTTTTGGC
37394210 ATTTC
1 ATTTC
37394215 GGGATTTGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.14, G:0.16, T:0.57
Consensus pattern (16 bp):
ATTTCAGCTTTTTGGC
Found at i:37403701 original size:22 final size:22
Alignment explanation
Indices: 37403673--37403748 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
37403663 AGATATGTAT
37403673 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* * ***
37403695 ATGTGATGAATG-TGAAAGTGTATA
1 ATGTGAT-AAGGCCG-AA-TGGCCA
37403719 TATGTGATAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
37403742 ATGTGAT
1 ATGTGAT
37403749 GAATGTGAAA
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 15 0.38
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:37403735 original size:47 final size:47
Alignment explanation
Indices: 37403670--37404197 Score: 898
Period size: 47 Copynumber: 11.3 Consensus size: 47
37403660 ACAAGATATG
37403670 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
37403717 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
37403764 TATATGTGATAAGGCC-AATGGCCAATGTGATGAATGTGAAACTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
37403810 TATATGTAATAAGGCC-AATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
37403856 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
37403903 TATATGTGACAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* *
37403950 TATATGTGAAAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
37403997 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGGAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
37404044 TATATGTGACAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
* * * * * *
37404091 TATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAGGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
37404138 TATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTA
1 TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
*
37404185 TAAATGTGATAAG
1 TATATGTGATAAG
37404198 TCCCTAAGGG
Statistics
Matches: 455, Mismatches: 25, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
46 88 0.19
47 367 0.81
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
TATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTA
Found at i:37404028 original size:22 final size:22
Alignment explanation
Indices: 37404000--37404075 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
37403990 AAGTGTATAT
37404000 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* ** ***
37404022 ATGTGATGAATGTGGAAGTGTATA
1 ATGTGAT-AAGGCCGAA-TGGCCA
*
37404046 TATGTGACAAGGCCGAATGGCCA
1 -ATGTGATAAGGCCGAATGGCCA
37404069 ATGTGAT
1 ATGTGAT
37404076 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 13 0.35
23 9 0.24
24 9 0.24
25 6 0.16
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:37406445 original size:16 final size:16
Alignment explanation
Indices: 37406426--37406457 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37406416 CAAAATTTTA
37406426 GCTTATCGGCATTTCG
1 GCTTATCGGCATTTCG
*
37406442 GCTTTTCGGCATTTCG
1 GCTTATCGGCATTTCG
37406458 AGATTTATCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.41
Consensus pattern (16 bp):
GCTTATCGGCATTTCG
Found at i:37414838 original size:93 final size:93
Alignment explanation
Indices: 37414674--37414844 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
37414664 GCCCATAAGT
* * *
37414674 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
37414739 CTAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
37414767 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
37414832 CGAGTTCGGATGC
66 CGAGTTCGGATGC
37414845 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:37414841 original size:46 final size:46
Alignment explanation
Indices: 37414666--37414841 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
37414656 TGTAACCCGC
* * * *
37414666 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
37414712 CCATAGGTGAACTCGGACTCAACTCAACTAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* * *
37414762 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
37414805 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37414842 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 61 0.58
47 28 0.27
48 1 0.01
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:37414860 original size:46 final size:45
Alignment explanation
Indices: 37414718--37414860 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
37414708 GCATCCATAG
* *
37414718 GTGAACTCGGACTCAACTCAACTAGTTCGGATGC-CTAGTTA-CATTTCA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-A
* * * * *
37414766 -CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AA
1 GTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATCTA
37414811 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTA
37414857 GTGA
1 GTGA
37414861 CATGTCACTT
Statistics
Matches: 78, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 30 0.38
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTA
Found at i:37423823 original size:13 final size:13
Alignment explanation
Indices: 37423805--37423832 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37423795 CTGTACTTCC
37423805 TCACACGGGCGTG
1 TCACACGGGCGTG
37423818 TCACACGGGCGTG
1 TCACACGGGCGTG
37423831 TC
1 TC
37423833 CATTAGGCAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:37426547 original size:27 final size:27
Alignment explanation
Indices: 37426517--37426694 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37426507 ATATTGAGTC
* * * *
37426517 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37426544 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37426571 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37426599 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37426626 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37426653 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37426680 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37426695 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37426656 original size:82 final size:81
Alignment explanation
Indices: 37426538--37426693 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37426528 TGCTATATAA
* *
37426538 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37426603 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37426620 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37426684 CACTTAGTGC
65 CACTTAGTGC
37426694 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37427193 original size:12 final size:12
Alignment explanation
Indices: 37427176--37427201 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37427166 ATGGCATACT
37427176 TATGTATATATA
1 TATGTATATATA
37427188 TATGTATATATA
1 TATGTATATATA
37427200 TA
1 TA
37427202 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:37434653 original size:27 final size:27
Alignment explanation
Indices: 37434623--37434800 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37434613 ATATTGAGTC
* * * *
37434623 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
37434650 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37434677 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
37434705 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
37434732 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
37434759 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
37434786 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37434801 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:37434762 original size:82 final size:81
Alignment explanation
Indices: 37434644--37434799 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37434634 TGCTATATAA
* *
37434644 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
37434709 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
37434726 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
37434790 CACTTAGTGC
65 CACTTAGTGC
37434800 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:37435299 original size:12 final size:12
Alignment explanation
Indices: 37435282--37435307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37435272 ATGGCATACT
37435282 TATGTATATATA
1 TATGTATATATA
37435294 TATGTATATATA
1 TATGTATATATA
37435306 TA
1 TA
37435308 CTTCGGAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (12 bp):
TATGTATATATA
Found at i:37447073 original size:41 final size:41
Alignment explanation
Indices: 37446981--37447170 Score: 240
Period size: 41 Copynumber: 4.7 Consensus size: 41
37446971 CGACAAATCA
* * * * *
37446981 GCTATATATGGCACTTAGTGTACGA-TTTAACATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* *
37447021 GCTATATATGGCACTTAGTGTGCGAGATCGAGATAGCTTCA
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
*
37447062 GCTATAAATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
37447103 GCTATATATGGCACTTAGTGTGTGA-TTTGAGATAGCTTTG
1 GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
* * *
37447143 GCTATGTACGACACTTAGTGTGCGAGAT
1 GCTATATATGGCACTTAGTGTGCGAGAT
37447171 ATTAAATATT
Statistics
Matches: 129, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
40 58 0.45
41 71 0.55
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
GCTATATATGGCACTTAGTGTGCGAGATTGAGATAGCTTCG
Found at i:37447136 original size:81 final size:82
Alignment explanation
Indices: 37446978--37447170 Score: 246
Period size: 81 Copynumber: 2.4 Consensus size: 82
37446968 CAACGACAAA
* * *
37446978 TCAGCTATATATGGCACTTAGTGTACGA-TTTAACATAGCTTTGGCTATATATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGT
37447042 GCGAGATCGAGATAGCT
66 GCGAGATCGAGATAGCT
* * *
37447059 TCAGCTATAAATGGCACTTAGTGTGCGAGATTGAGATAGCTTCGGCTATATATGGCACTTAGTGT
1 TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGT
* * *
37447124 GTGA-TTTGAGATAGCT
66 GCGAGATCGAGATAGCT
** * * *
37447140 TTGGCTATGTACGACACTTAGTGTGCGAGAT
1 TCAGCTATATATGGCACTTAGTGTGCGAGAT
37447171 ATTAAATATT
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 61 0.64
82 35 0.36
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (82 bp):
TCAGCTATATATGGCACTTAGTGTGCGAGATTAACATAGCTTCGGCTATATATGGCACTTAGTGT
GCGAGATCGAGATAGCT
Found at i:37449274 original size:37 final size:37
Alignment explanation
Indices: 37449224--37449302 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
37449214 TTATTACGAA
* * *
37449224 GTCTTACCCGGACATAATCTCCACACGAAGTTATCCG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCCG
* *
37449261 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCCG
37449298 GTCTT
1 GTCTT
37449303 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCCG
Found at i:37449498 original size:47 final size:47
Alignment explanation
Indices: 37449420--37449856 Score: 649
Period size: 47 Copynumber: 9.2 Consensus size: 47
37449410 CCCTTCGGGA
* * * * * **
37449420 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37449467 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
37449514 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37449561 CTTATCACATACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37449610 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
37449657 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
37449706 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
37449753 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37449801 CTTATCACATATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
37449848 CTTATCACA
1 CTTATCACA
37449857 ATTTAGAATT
Statistics
Matches: 356, Mismatches: 29, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 223 0.63
48 45 0.13
49 88 0.25
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:37449615 original size:96 final size:94
Alignment explanation
Indices: 37449420--37449856 Score: 649
Period size: 96 Copynumber: 4.6 Consensus size: 94
37449410 CCCTTCGGGA
** * * * * * * *
37449420 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
37449485 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAAGC
* *
37449514 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATACATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT--ATATAC
* *
37449579 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
37449610 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
37449675 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAAGC
* *
37449706 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA-TCACATATATACA
37449771 CTTTCACATTCATCACATCGGCCATTAAGC
65 CTTTCACATTCATCACATCGGCCATTAAGC
* *
37449801 CTTATCACATATATACACTTTGACATTCATCACATCGGCCATTAGGCCTTATCACA
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA
37449857 ATTTAGAATT
Statistics
Matches: 315, Mismatches: 23, Indels: 10
0.91 0.07 0.03
Matches are distributed among these distances:
94 51 0.16
95 87 0.28
96 171 0.54
97 4 0.01
98 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGC
Found at i:37449636 original size:143 final size:141
Alignment explanation
Indices: 37449420--37449856 Score: 694
Period size: 143 Copynumber: 3.1 Consensus size: 141
37449410 CCCTTCGGGA
* * * * * * *
37449420 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
**
37449485 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACGCATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
*
37449550 GGCCATTAAGC
131 GGCCATTAGGC
* * * *
37449561 CTTATCACATACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCGCACATATAC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
37449626 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATACACTTTCACATTCATCA
37449691 CATCGGCCATTAGGC
127 CATCGGCCATTAGGC
37449706 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTA-TCACATATATACA
*
37449771 CTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTGACATTCATCACAT
65 CTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACAT
37449836 CGGCCATTAGGC
130 CGGCCATTAGGC
37449848 CTTATCACA
1 CTTATCACA
37449857 ATTTAGAATT
Statistics
Matches: 272, Mismatches: 19, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
141 10 0.04
142 47 0.17
143 120 0.44
144 49 0.18
145 46 0.17
ACGTcount: A:0.30, C:0.31, G:0.08, T:0.31
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:37453318 original size:40 final size:40
Alignment explanation
Indices: 37453204--37453455 Score: 214
Period size: 40 Copynumber: 6.3 Consensus size: 40
37453194 CTAAGGGACC
* * **
37453204 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACT
1 TAGCCCGGATATATCAACTC-GCACCAATGC-CTTCGGGTCT
* ** * * *
37453244 TAGTCCGGATACCTC-ACTAGCACGAATGCTCTTCGGAAT-T
1 TAGCCCGGATATATCAACTCGCACCAATGC-CTTCGG-GTCT
*
37453284 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCT
1 TAGCCCGGATATA-TCAACTCGCACCAATGCCTTCGGGTCT
*
37453324 TAGCCCGGATATATCAACTTGCA-CAATTGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCACCAA-TGCCTTCGGGTCT
* * *
37453364 TAGCCAGGATATATCAATTCGCACAAATGCCTTCGGGTCT
1 TAGCCCGGATATATCAACTCGCACCAATGCCTTCGGGTCT
* * *
37453404 TAGCCCGGATATAATC-ACTAGC-TCAATTGCCTTCGGGACT
1 TAGCCCGGATAT-ATCAACTCGCACCAA-TGCCTTCGGGTCT
37453444 TAGCCCGGATAT
1 TAGCCCGGATAT
37453456 CATTCAAATG
Statistics
Matches: 177, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
39 7 0.04
40 151 0.85
41 19 0.11
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TAGCCCGGATATATCAACTCGCACCAATGCCTTCGGGTCT
Found at i:37453326 original size:80 final size:78
Alignment explanation
Indices: 37453204--37453455 Score: 242
Period size: 80 Copynumber: 3.2 Consensus size: 78
37453194 CTAAGGGACC
* * ** * **
37453204 TAGCCCGGATATAAC-AC-CAGCACGAATGCTCTTCGGAACTTAGTCCGGATACCTCACTAGCAC
1 TAGCCCGGATATATCAACTC-GCACAAATGC-CTTCGGGTCTTAGCCCGGATAAATCACTAGCAC
37453267 GAA-TGCTCTTCGGAATT
64 -AATTGC-CTTCGG-ATT
* * * *
37453284 TAGCCCGGATTTAGT-AACTCGCACCAATGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCAC
1 TAGCCCGGATATA-TCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATC-ACTAGCAC
*
37453348 AATTGCCTTCGGGTCT
64 AATTGCCTTCGGAT-T
* * *
37453364 TAGCCAGGATATATCAATTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAATCACTAGCTCA
1 TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATA-AATCACTAGCACA
*
37453429 ATTGCCTTCGGGACT
65 ATTGCCTTC-GGATT
37453444 TAGCCCGGATAT
1 TAGCCCGGATAT
37453456 CATTCAAATG
Statistics
Matches: 143, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
79 2 0.01
80 114 0.80
81 26 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (78 bp):
TAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATAAATCACTAGCACAA
TTGCCTTCGGATT
Found at i:37453784 original size:29 final size:29
Alignment explanation
Indices: 37453745--37453823 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
37453735 CTTAATAATC
*
37453745 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
37453775 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
37453804 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
37453824 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:37453866 original size:43 final size:43
Alignment explanation
Indices: 37453805--37453992 Score: 340
Period size: 43 Copynumber: 4.4 Consensus size: 43
37453795 TGCATTTCAA
*
37453805 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAATACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
*
37453848 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
* *
37453891 GCCCGCACACTTAGTGCCAATCTCGCAACCGTGAACACTGATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
37453934 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
37453977 GCCCGCACACTTAGTG
1 GCCCGCACACTTAGTG
37453993 TTGAAAACCA
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.26, C:0.35, G:0.16, T:0.23
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:37455887 original size:37 final size:37
Alignment explanation
Indices: 37455837--37455915 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
37455827 TTATTACGAA
* * *
37455837 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
37455874 GTCTTACCCGGACAAAATCCCCATACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
37455911 GTCTT
1 GTCTT
37455916 TAGAGCTCGA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:37456111 original size:47 final size:47
Alignment explanation
Indices: 37456033--37456422 Score: 564
Period size: 47 Copynumber: 8.2 Consensus size: 47
37456023 CCCTTCGGGA
* * * * * **
37456033 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37456080 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
37456127 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37456174 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37456223 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
37456270 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
37456319 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTA-TCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
37456367 CTTATCACATATATACACTTTGACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
37456414 CTTATCACA
1 CTTATCACA
37456423 ATTTAGAATT
Statistics
Matches: 309, Mismatches: 29, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
47 182 0.59
48 41 0.13
49 82 0.27
50 4 0.01
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:37456228 original size:96 final size:94
Alignment explanation
Indices: 37456033--37456422 Score: 582
Period size: 96 Copynumber: 4.1 Consensus size: 94
37456023 CCCTTCGGGA
** * * * * ** * *
37456033 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACAC
*
37456098 TTTCACATTCATCACATCGGCCATTAAGC
66 TTTCACATTCATCACATCGGCCATTAGGC
*
37456127 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATAC
*
37456192 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
*
37456223 CTTATCGCACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATAC
1 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCAC--ATATATAC
37456288 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
37456319 CCTATTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACA
1 CTTA-TCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACA
*
37456384 CTTTGACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
37456414 CTTATCACA
1 CTTATCACA
37456423 ATTTAGAATT
Statistics
Matches: 272, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
94 49 0.18
95 41 0.15
96 133 0.49
97 49 0.18
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:37470653 original size:20 final size:21
Alignment explanation
Indices: 37470614--37470653 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
37470604 GTCATAATGG
37470614 CCACACGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
37470635 CCACACGGGTGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
37470654 GTTTCAAGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:37489647 original size:42 final size:42
Alignment explanation
Indices: 37489589--37489709 Score: 127
Period size: 43 Copynumber: 2.9 Consensus size: 42
37489579 TAGGGTTACT
*
37489589 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
* * ** * *
37489631 GAGACTT-CGTGTAAGACCATAGCTGGCCTCTTGGCATTGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGAT-ATGGCATCGATAC
* * *
37489674 GAGATTACATGTAAGACCATATATGGGGTGTGGCAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCAT
37489710 TGGTACGATA
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAC
Found at i:37489717 original size:42 final size:42
Alignment explanation
Indices: 37489589--37489717 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 42
37489579 TAGGGTTACT
* *
37489589 GAGATTACATGTAAGACCATATCTGGGATATGGCATCGATAT
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATTGATAC
* * ** *
37489631 GAGACTT-CGTGTAAGACCATAGCTGGCCTCTTGGCATTGATAC
1 GAGA-TTACATGTAAGACCATATCTGGGAT-ATGGCATTGATAC
* * * *
37489674 GAGATTACATGTAAGACCATATATGGGGTGTGGCATTGGTAC
1 GAGATTACATGTAAGACCATATCTGGGATATGGCATTGATAC
37489716 GA
1 GA
37489718 TACTGTGTGT
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
42 37 0.53
43 33 0.47
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTGGGATATGGCATTGATAC
Found at i:37491063 original size:20 final size:20
Alignment explanation
Indices: 37491038--37491085 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
37491028 TGAAGGACAC
37491038 GGTCTTGGGACCCGAGCATA
1 GGTCTTGGGACCCGAGCATA
37491058 GGTCTTGGGACCCGAGCATA
1 GGTCTTGGGACCCGAGCATA
*
37491078 TGTCTTGG
1 GGTCTTGG
37491086 CCGTGTGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.23, G:0.35, T:0.25
Consensus pattern (20 bp):
GGTCTTGGGACCCGAGCATA
Found at i:37498483 original size:46 final size:46
Alignment explanation
Indices: 37498430--37498553 Score: 169
Period size: 46 Copynumber: 2.7 Consensus size: 46
37498420 TATTTGTATG
* *
37498430 TAGTGTAAGACATGTCTGGAACATGCATCAACCACATTATG-AGAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGTA-AGC
* * *
37498476 TAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGTGATGTAAGC
1 TAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGTAAGC
* *
37498522 CAGTATAAGACATGTCTGGGACATGCATCAAC
1 TAGTGTAAGACATGTCTGGGACATGCATCAAC
37498554 TACGAAATGT
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 68 0.99
47 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (46 bp):
TAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGTAAGC
Found at i:37498625 original size:48 final size:50
Alignment explanation
Indices: 37498562--37498693 Score: 173
Period size: 48 Copynumber: 2.7 Consensus size: 50
37498552 ACTACGAAAT
* *
37498562 GTGTCAGTGAAAGACCATGTCTGGGACATGGCATTGGCAC-G-TAT-AGA
1 GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGAGA
*
37498609 GGTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGTGA
1 -GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGAGA
* *
37498660 GAG-CTAGTGTAAGACCATGTTTGGGACATGGCAT
1 GTGTC-AGTGTAAGACCATGTCTGGGACATGGCAT
37498694 CAACTTGATG
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 38 0.51
49 2 0.03
50 33 0.44
51 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (50 bp):
GTGTCAGTGTAAGACCATGTCTGGGACATGGCATTAGCACAGATATGAGA
Found at i:37506538 original size:45 final size:45
Alignment explanation
Indices: 37506406--37506639 Score: 187
Period size: 45 Copynumber: 5.3 Consensus size: 45
37506396 GCCAACATCT
* * * * *
37506406 CAGACATGGTCTTACATGTTATCTCAT--ATCGATGCCACTGTCC
1 CAGACATGGTCTTACACGTAACCACATAGATCGATGCCAATGTCC
* * * *
37506449 CAGACA-GGTTCTTACTCG-AATCA-A-ATA-CGATGCCAATGTTC
1 CAGACATGG-TCTTACACGTAACCACATAGATCGATGCCAATGTCC
37506490 CAGACATGGTCTTACACGTAACCACATAGATCGATGCCAATGTCC
1 CAGACATGGTCTTACACGTAACCACATAGATCGATGCCAATGTCC
** ** * **
37506535 CAGATGTGGTCTTACATATAACCACATAGATCGATGTCAACATCC
1 CAGACATGGTCTTACACGTAACCACATAGATCGATGCCAATGTCC
* * * * * *
37506580 CAGACGTGGTCTTACAAGAAAACA-ATTATATCGATGCCAACGTCC
1 CAGACATGGTCTTACACGTAACCACA-TAGATCGATGCCAATGTCC
*
37506625 CAGACGTGGTCTTAC
1 CAGACATGGTCTTAC
37506640 TCGGAAACAC
Statistics
Matches: 157, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
41 27 0.17
42 12 0.08
43 14 0.09
44 3 0.02
45 101 0.64
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (45 bp):
CAGACATGGTCTTACACGTAACCACATAGATCGATGCCAATGTCC
Found at i:37510280 original size:79 final size:81
Alignment explanation
Indices: 37510144--37510326 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
37510134 TCGAATGATG
* *
37510144 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
37510208 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
37510223 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
37510285 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
37510303 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
37510327 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:37510342 original size:40 final size:40
Alignment explanation
Indices: 37510145--37510328 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
37510135 CGAATGATGT
* * * *
37510145 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
37510185 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
37510225 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37510263 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
37510304 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
37510329 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:37510350 original size:79 final size:79
Alignment explanation
Indices: 37510197--37510361 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
37510187 GGACTAAGAT
* **
37510197 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
37510262 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
37510276 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
37510339 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
37510355 CCGAAGG
1 CCGAAGG
37510362 TACGTGATTC
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:37527420 original size:31 final size:31
Alignment explanation
Indices: 37527382--37527441 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
37527372 GACCAATCGG
37527382 CTTCCCTTGAGTAATTCCTTGCTTCCTACGA
1 CTTCCCTTGAGTAATTCCTTGCTTCCTACGA
37527413 CTTCCCTTGAGTAATTCCTTGCTTCCTAC
1 CTTCCCTTGAGTAATTCCTTGCTTCCTAC
37527442 TCCCTGTGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.15, C:0.33, G:0.12, T:0.40
Consensus pattern (31 bp):
CTTCCCTTGAGTAATTCCTTGCTTCCTACGA
Found at i:37531245 original size:30 final size:30
Alignment explanation
Indices: 37531209--37531269 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
37531199 ATAGTGAGGG
37531209 GTTTATATAGATTTTGGGGCACACGGGCGT
1 GTTTATATAGATTTTGGGGCACACGGGCGT
*
37531239 GTTTATATAGATTTTGGGGCACACGGTCGT
1 GTTTATATAGATTTTGGGGCACACGGGCGT
37531269 G
1 G
37531270 GCACACGCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.34
Consensus pattern (30 bp):
GTTTATATAGATTTTGGGGCACACGGGCGT
Found at i:37542962 original size:50 final size:50
Alignment explanation
Indices: 37542776--37542963 Score: 184
Period size: 50 Copynumber: 3.8 Consensus size: 50
37542766 TGAATACATG
* * * *
37542776 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTTAGGTCACA
* * * * **
37542826 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-ATGACTTCGACCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATG-GTTAGGTCACA
* * * *
37542877 TGTGTAGTATTAAGTGTA-GCTACTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACA
* *
37542926 TGTGTAGTACTAAGTGCAGGCTACTATGGGTATCAGAT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAT
37542964 AGCTTCGCCT
Statistics
Matches: 110, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
49 25 0.23
50 62 0.56
51 23 0.21
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACA
Found at i:37558120 original size:27 final size:27
Alignment explanation
Indices: 37558063--37558122 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
37558053 ATACATCTCA
*
37558063 TAGGGGCATATAAGTCATTTTACCACG
1 TAGGGGCATATAAGTCATTTTACCAAG
* * * * *
37558090 TAGGGGCATTTCAGTTATTTTATCAAT
1 TAGGGGCATATAAGTCATTTTACCAAG
37558117 TAGGGG
1 TAGGGG
37558123 GTCTAGGTAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (27 bp):
TAGGGGCATATAAGTCATTTTACCAAG
Found at i:37562247 original size:31 final size:31
Alignment explanation
Indices: 37562209--37562269 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
37562199 TTTTCATATC
37562209 TCATATTTCATAACACTGGGCCGAAGCCTTT
1 TCATATTTCATAACACTGGGCCGAAGCCTTT
**
37562240 TCATATTTCATATTACTGGGCCGAAGCCTT
1 TCATATTTCATAACACTGGGCCGAAGCCTT
37562270 CACTATAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.16, T:0.34
Consensus pattern (31 bp):
TCATATTTCATAACACTGGGCCGAAGCCTTT
Found at i:37562533 original size:25 final size:25
Alignment explanation
Indices: 37562478--37562561 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 25
37562468 CTGGAAGCCT
* *
37562478 AGCCTCTTTTAAT-AACTAGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
*
37562502 AGCCCTTTTGATAAACTGGGGTAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
37562527 AGCCCTTTCCGGTAAACTGGGGCAAA
1 AGCCCTTT-TGATAAACTGGGGCAAA
37562553 AGCCCTTTT
1 AGCCCTTTT
37562562 TGCACTTACT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
23 7 0.14
24 11 0.22
25 10 0.20
26 22 0.44
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:37562632 original size:20 final size:20
Alignment explanation
Indices: 37562609--37562655 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
37562599 TTATTAATAC
37562609 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
37562629 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
37562649 ATCATGT
1 ATCATGT
37562656 ATATCAGAAT
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:37569909 original size:40 final size:40
Alignment explanation
Indices: 37569854--37570074 Score: 322
Period size: 40 Copynumber: 5.5 Consensus size: 40
37569844 TATTCGAATG
**
37569854 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGGGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
37569894 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
37569934 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
37569974 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
* * *
37570014 ATATCCGGGCCAAGACCCGAAGGCATTTGTGCTAGTTGTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
37570054 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
37570075 ATGCTTGGGT
Statistics
Matches: 164, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
39 14 0.09
40 147 0.90
41 3 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:37578015 original size:39 final size:40
Alignment explanation
Indices: 37577918--37578015 Score: 155
Period size: 40 Copynumber: 2.5 Consensus size: 40
37577908 AGGATGATAA
*
37577918 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
37577958 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTA-CTATAT
*
37577998 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
37578016 TACTTGGGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
39 17 0.31
40 38 0.69
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTTACTATAT
Found at i:37578283 original size:22 final size:22
Alignment explanation
Indices: 37578243--37578284 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
37578233 GAATGTGCAT
*
37578243 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
37578265 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
37578285 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:37581547 original size:19 final size:20
Alignment explanation
Indices: 37581506--37581547 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
37581496 TTTTGTAAAG
* *
37581506 TTTGTAAAATAGATGGTACT
1 TTTGTAAAATAGATGGAAAT
*
37581526 TTTGTGAAATA-ATGGAAAT
1 TTTGTAAAATAGATGGAAAT
37581545 TTT
1 TTT
37581548 AGGTTTCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTGTAAAATAGATGGAAAT
Found at i:37582173 original size:48 final size:46
Alignment explanation
Indices: 37582060--37582177 Score: 130
Period size: 46 Copynumber: 2.5 Consensus size: 46
37582050 TACGAGAGTC
* *
37582060 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAAAGCT
* * * *
37582106 AGTGTAAGGCATATCTGGGACATGCATCTGC-TTCGAGATATAAAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATT-GAG--ACAAAAGCT
* *
37582154 AGTGTAAGACCTGTTTGGGACATG
1 AGTGTAAGACATGTCTGGGACATG
37582178 GCGTCAGCTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
45 2 0.03
46 31 0.53
48 26 0.44
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGACAAAAGCT
Found at i:37582245 original size:44 final size:46
Alignment explanation
Indices: 37582197--37582315 Score: 161
Period size: 44 Copynumber: 2.6 Consensus size: 46
37582187 TGTTGTGTGT
37582197 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGAT-AG-AGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATGAGCAGC
*** *
37582241 CAGTGTAAGACCTGTCTGGGACATGGCATCGACTTTGATGTGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATGAGC-AGC
*
37582288 CAGTGTAAGACCATGTCTAGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
37582316 GTCGGCATCT
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 36 0.55
45 1 0.02
47 15 0.23
48 14 0.21
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (46 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATGAGCAGC
Found at i:37606609 original size:28 final size:28
Alignment explanation
Indices: 37606576--37606702 Score: 236
Period size: 28 Copynumber: 4.5 Consensus size: 28
37606566 ATATTAAGTC
*
37606576 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
37606604 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
37606632 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
37606660 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
37606688 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
37606703 GTTCAATTTA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 97 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:37610928 original size:40 final size:40
Alignment explanation
Indices: 37610882--37611066 Score: 235
Period size: 40 Copynumber: 4.6 Consensus size: 40
37610872 CTCGCACAAG
* *
37610882 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
37610922 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * * *
37610962 GCCTTCGGGTTTTGGCCCAGATATAGTAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * * *
37611002 GCCTTCGGATCTTAGTCCGAATATAGTCACTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
37611043 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
37611067 CATTCGAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
40 92 0.77
41 28 0.23
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:37625712 original size:40 final size:40
Alignment explanation
Indices: 37625661--37625806 Score: 211
Period size: 40 Copynumber: 3.6 Consensus size: 40
37625651 ACTTTATATC
* * * * * *
37625661 TCGCACCCTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
37625701 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
* * *
37625741 TCACACATTAAGTGCCATATATGGCCGAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
37625781 TCGCACACTAAGTGCCATATATAGCC
1 TCGCACACTAAGTGCCATATATAGCC
37625807 AATTTGTCAT
Statistics
Matches: 94, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 94 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTCGAA
Found at i:37627208 original size:12 final size:12
Alignment explanation
Indices: 37627191--37627216 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37627181 CATTCCGAAG
37627191 TATATATATACA
1 TATATATATACA
37627203 TATATATATACA
1 TATATATATACA
37627215 TA
1 TA
37627217 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:37627733 original size:27 final size:27
Alignment explanation
Indices: 37627702--37627879 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
37627692 TAAATTGTAC
37627702 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37627729 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37627755 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37627783 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* * *
37627811 AGCAGTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37627838 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37627865 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37627880 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37627820 original size:82 final size:81
Alignment explanation
Indices: 37627703--37627858 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
37627693 AAATTGTACA
* *
37627703 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37627767 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
37627784 GCACTAAGTGTGCGAGTTTGACTATGTAGCAGTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37627849 TGCGAGTTGA
65 TGCGAATTGA
37627859 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37627870 original size:82 final size:81
Alignment explanation
Indices: 37627699--37627879 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
37627689 GATTAAATTG
* *
37627699 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37627764 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
37627780 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCAGTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37627844 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37627862 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37627880 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37635311 original size:12 final size:12
Alignment explanation
Indices: 37635294--37635319 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
37635284 CATTCCGAAG
37635294 TATATATATACA
1 TATATATATACA
37635306 TATATATATACA
1 TATATATATACA
37635318 TA
1 TA
37635320 AGTATGCCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TATATATATACA
Found at i:37635830 original size:27 final size:27
Alignment explanation
Indices: 37635799--37635976 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
37635789 TAAATTGTAC
37635799 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
37635826 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37635852 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
37635880 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
37635908 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
37635935 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
37635962 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
37635977 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:37635913 original size:82 final size:81
Alignment explanation
Indices: 37635800--37635955 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
37635790 AAATTGTACA
* *
37635800 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
37635864 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
37635881 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
37635946 TGCGAGTTGA
65 TGCGAATTGA
37635956 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:37635967 original size:82 final size:81
Alignment explanation
Indices: 37635796--37635976 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
37635786 GATTAAATTG
* *
37635796 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
37635861 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
37635877 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
37635941 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
37635959 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
37635977 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:37640207 original size:107 final size:107
Alignment explanation
Indices: 37640021--37640234 Score: 410
Period size: 107 Copynumber: 2.0 Consensus size: 107
37640011 TGAGAAGAAA
*
37640021 ACCAATTGGCTGATGCTCTGGCCACTTTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
37640086 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
37640128 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
1 ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
*
37640193 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTGCACATTGT
66 ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
37640235 TTCAGCATTG
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 105 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.26
Consensus pattern (107 bp):
ACCAATTGGCTGATGCTCTGGCCACTGTGGCTTCAATGTTCAAAGCAAACAGAGAAACAGAAATA
ATGCCTCTTCAAATGAGCATATATGAAGTCCCTACACATTGT
Found at i:37642744 original size:72 final size:76
Alignment explanation
Indices: 37642639--37642856 Score: 234
Period size: 72 Copynumber: 2.9 Consensus size: 76
37642629 TTTATGTTTC
* * *
37642639 AAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAG-TCATA-TTGAGGTATTCTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-AGCTCACACCTGAGGTATTCTCAAT
37642702 TTAT-CA-TC-A
65 TTATACATTCAA
* *
37642711 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAAT
*
37642776 TTCTACATTTCAAAAA
65 TTATACA-TTC---AA
* * * *
37642792 AAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAG--GACACGCTGAGGTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACAC-CTGAGGTATTCTCAAT
37642855 TT
65 TT
37642857 CTGTTTGTCA
Statistics
Matches: 126, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
71 1 0.01
72 42 0.33
74 17 0.13
75 2 0.02
77 2 0.02
79 23 0.18
81 39 0.31
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGCTCACACCTGAGGTATTCTCAATT
TATACATTCAA
Found at i:37642844 original size:153 final size:153
Alignment explanation
Indices: 37642480--37642856 Score: 393
Period size: 153 Copynumber: 2.4 Consensus size: 153
37642470 TCTGTCTTTC
*
37642480 AAAAAAATCAACTCATATGT-GAGAGGTGAGTTGATCCTCAAGACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATAT-TCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* ** *** * **
37642544 TCTGTTTGTCAAAAATCAACTCAAATTGCGATAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTAT
65 TATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTAT
* *** * *
37642609 TTTCAATTTTTGTTTTTTAATTTATGTTT
130 TTTCAATTTCTACATTTCAA--TA---TA
* * * * ** *
37642638 CAAAAAATCAAATCATATTGCGAGAGGTGAGTTGAGCCTTAAGTCATATTGAGGTATTCTCAATT
1 AAAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
* *
37642703 TAT-CATCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGT
65 TATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGGT
37642767 ATTTTCAATTTCTACATTTCAA-A-A
128 ATTTTCAATTTCTACATTTCAATATA
* *
37642791 AAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATT-CGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATT
37642856 T
65 T
37642857 CTGTTTGTCA
Statistics
Matches: 180, Mismatches: 35, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
153 56 0.31
157 2 0.01
158 54 0.30
159 40 0.22
160 28 0.16
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (153 bp):
AAAAAAATCAACTCATATTCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTT
ATGCATCAAAAAAATCAACTCAAATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTATT
TTCAATTTCTACATTTCAATATA
Found at i:37643002 original size:86 final size:87
Alignment explanation
Indices: 37642712--37643127 Score: 430
Period size: 86 Copynumber: 4.8 Consensus size: 87
37642702 TTATCATCAA
*
37642712 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
* * *
37642777 TCTACATTTCAAA---A---A--A
66 TCT--GTTTTAAATTCATGTATTC
*
37642793 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* * *
37642855 TTCTGTTTGTCAAAAATCAATATTTTTC
65 TTCTGTTT-T--AAATTC-AT-GTATTC
* * * * *
37642883 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
*
37642948 TCTGTTTT-ACTTCATGTATTC
66 TCTGTTTTAAATTCATGTATTC
**
37642969 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGG---ACACGCTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCTCACACGCTGAGGTATTTTCAAT
* * *
37643031 TTCTGTTTTCAATTTATGTTTTTC
65 TTCTGTTTTAAATTCATG-TATTC
* * * *
37643055 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
37643120 TCTGTTTT
66 TCTGTTTT
37643128 TAATATCTGT
Statistics
Matches: 282, Mismatches: 30, Indels: 39
0.80 0.09 0.11
Matches are distributed among these distances:
77 3 0.01
79 25 0.09
80 3 0.01
81 36 0.13
82 2 0.01
84 29 0.10
85 8 0.03
86 76 0.27
87 4 0.01
88 30 0.11
89 2 0.01
90 36 0.13
91 1 0.00
92 27 0.10
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTTTCAATT
TCTGTTTTAAATTCATGTATTC
Found at i:37643056 original size:14 final size:13
Alignment explanation
Indices: 37643023--37643052 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
37643013 CGCTGAGGTA
*
37643023 TTTTCAATTTCTG
1 TTTTCAATTTATG
37643036 TTTTCAATTTATG
1 TTTTCAATTTATG
37643049 TTTT
1 TTTT
37643053 TCAAAAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:37643119 original size:172 final size:172
Alignment explanation
Indices: 37642712--37643127 Score: 581
Period size: 172 Copynumber: 2.4 Consensus size: 172
37642702 TTATCATCAA
* *
37642712 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
** * **
37642777 TC---TACATTTCAAAAAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACG
66 TCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACG
37642839 CTGAGGTATTTTCAATTTCTGTTTGTCAAAAATCAATATTTTTC
131 CTGAGGTATTTTCAATTTCTGTTTGTC--AAATCAATATTTTTC
* * * *
37642883 ATAAATCAACTCATATTACGAGGGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
* *** *
37642948 TCTGTTTTACTTCATGTATTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACA
66 TCTGTTTTACTTCA--AAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACA
** *
37643013 CGCTGAGGTATTTTCAATTTCTGTTT-TC-AATTTATGTTTTTC
129 CGCTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
*
37643055 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGCTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
37643120 TCTGTTTT
66 TCTGTTTT
37643128 TAATATCTGT
Statistics
Matches: 216, Mismatches: 24, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
171 61 0.28
172 79 0.37
174 6 0.03
175 2 0.01
176 68 0.31
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (172 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACATGCTGAGGTATTTCCAATT
TCTGTTTTACTTCAAAAAAAAAAATCAACTCATATTACGAGAAATGAGTTGAGCCTCAGGACACG
CTGAGGTATTTTCAATTTCTGTTTGTCAAATCAATATTTTTC
Found at i:37643806 original size:18 final size:18
Alignment explanation
Indices: 37643757--37643806 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
37643747 TACAAAACAG
37643757 ACCCACT-ACCCAAACCT
1 ACCCACTAACCCAAACCT
*
37643774 ACCCAAC-AGACCCAAACTT
1 ACCC-ACTA-ACCCAAACCT
37643793 ACCCACTAACCCAA
1 ACCCACTAACCCAA
37643807 TACTAACCTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 10 0.36
19 14 0.50
ACGTcount: A:0.40, C:0.48, G:0.02, T:0.10
Consensus pattern (18 bp):
ACCCACTAACCCAAACCT
Found at i:37667272 original size:40 final size:40
Alignment explanation
Indices: 37667228--37667411 Score: 191
Period size: 40 Copynumber: 4.7 Consensus size: 40
37667218 GCTCCTCGTT
* *
37667228 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
37667268 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
37667308 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
37667347 CGAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
37667388 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37667412 CATCATCCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 13
0.81 0.11 0.09
Matches are distributed among these distances:
38 2 0.02
39 46 0.38
40 65 0.53
41 9 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:37667339 original size:79 final size:81
Alignment explanation
Indices: 37667228--37667409 Score: 191
Period size: 79 Copynumber: 2.3 Consensus size: 81
37667218 GCTCCTCGTT
* **
37667228 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGAATATAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACCC
*
37667291 GGAT-TTAGTAAC-TCGCA
64 GGATATT-GTAACTTAGCA
* * **
37667308 CAAATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTTGCACGAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGAATA-TAGTATCTCGCACAAATGCCTTCGGATCTTAACCCG
*
37667371 GATATTGTCACTTAGCA
65 GATATTGTAACTTAGCA
37667388 C-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCG
37667410 GACATCATCC
Statistics
Matches: 87, Mismatches: 9, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
78 15 0.17
79 51 0.59
80 21 0.24
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGAATATAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:37674396 original size:14 final size:14
Alignment explanation
Indices: 37674373--37674410 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
37674363 AATAAATGGG
*
37674373 AAGAAGAAAAGAAA
1 AAGAAAAAAAGAAA
37674387 AAGAAAAAAAGAAA
1 AAGAAAAAAAGAAA
37674401 AAGAAAAAAA
1 AAGAAAAAAA
37674411 TTAAATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAGAAA
Found at i:37679487 original size:344 final size:344
Alignment explanation
Indices: 37678860--37679547 Score: 1207
Period size: 344 Copynumber: 2.0 Consensus size: 344
37678850 ATTTTTGAGA
37678860 TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
1 TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
37678925 TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
66 TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
*
37678990 AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTTTTCTGAGGAACC
131 AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTCTTCTGAGGAACC
*
37679055 TTCCATCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGAG
196 TACCATCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGAG
* * *
37679120 CTTTAGGGTCCACCAAATATGATTCCTGCACTTGAGCCAATAAATTGAAACTAATAGTGCTTCTA
261 CTTTAGGGTCCACCAAATATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCTA
*
37679185 GTGAGCTAAAAATATTGCC
326 GTGAACTAAAAATATTGCC
* *
37679204 TATCTGACATTCTCTTACCTATCTTTTGACATCAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
1 TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
* * * * *
37679269 TTAGTCTCTTTTTAGTTGCATTTACCCCTGAATGTCCCCTTAGAGTGCTATCACAGAATAGCTGA
66 TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
* *
37679334 AACAATTCCTTCTTGAGACCAGCAACATTTCGCACCATAATCTTCCC-TTTTCTTCTGAGGAGCC
131 AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTCTTCTGAGGAACC
37679398 TACCATCCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGA
196 TACCAT-CCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGA
*
37679463 GCTTTAGGGTCCACCAATTATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCT
260 GCTTTAGGGTCCACCAAATATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCT
*
37679528 AGTGAACTGAAAATATTGCC
325 AGTGAACTAAAAATATTGCC
37679548 CTTCTTTCAA
Statistics
Matches: 326, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
343 20 0.06
344 306 0.94
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (344 bp):
TATCTGACATTCTCTTACCTATCTCTTGACATAAGTGGTAAGGCTTTTCTAGTATACAAGGCTTG
TTAGTCTCTTCTTAGTTGCATTTACCCCTGAATGTCCCCCTAGAGTACTATCACAGAAGAGCTAA
AACAATTCCTTCTTGAGACCAGCAACATTTCCCACCATAATCTTCCCTTTTTCTTCTGAGGAACC
TACCATCCAGGAGTATTTTGGATGTTTGGAACCTTACTGTTGTACCTCTGAACATAACCTCTGAG
CTTTAGGGTCCACCAAATATGATTCCTACACTCGAGCCAATAAATTAAAACTAATAGTGCTTCTA
GTGAACTAAAAATATTGCC
Found at i:37684570 original size:198 final size:199
Alignment explanation
Indices: 37684231--37684631 Score: 725
Period size: 198 Copynumber: 2.0 Consensus size: 199
37684221 AGAACTCAAG
*
37684231 TTATGACCATTTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAGAAATTATG
1 TTATGACCAATTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAGAAATTATG
37684296 AGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATTA
66 AGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATTA
* * *
37684361 TATATGAGCCCAATGTTGTATTTATTAGCTCTTATTATTTTATTATTTTTTATTCTGAGTTTTTG
131 TATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTTG
37684426 ATAA
196 ATAA
*
37684430 TTATGACCAATTTAGTGATG-ACGCACGAGTATAATTTTTGGACGGGATTATTAC-GAAAATTAT
1 TTATGACCAATTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAG-AAATTAT
*
37684493 GAGTTTTGAGCTTTTAGTTCGAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATT
65 GAGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATT
37684558 ATATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTT
130 ATATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTT
37684623 GATAA
195 GATAA
37684628 TTAT
1 TTAT
37684632 TAAGTATTTA
Statistics
Matches: 195, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
197 1 0.01
198 175 0.90
199 19 0.10
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (199 bp):
TTATGACCAATTTAGTGATGAACGCACGAGTATAATTTTTGGACGGGATTATCACAGAAATTATG
AGTTTTGAGCTTTTAGTTCAAGTTTAAATCATATTGGGTTCGTGTTTTAGGTTTAATTTTTATTA
TATATGAGCCCAATATTGTATTTATTAGCTATTATTATTTTATTATTTTTTATTCTGAATTTTTG
ATAA
Found at i:37686554 original size:6 final size:6
Alignment explanation
Indices: 37686543--37686592 Score: 73
Period size: 6 Copynumber: 7.8 Consensus size: 6
37686533 TTTTCTCTAC
37686543 AATGAA AATGAA AATGAA AATGAAA AATGAAA AATGAAA AATGAA AATGA
1 AATGAA AATGAA AATGAA AATG-AA AATG-AA AATG-AA AATGAA AATGA
37686593 CTTAAAAATG
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
6 23 0.53
7 20 0.47
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AATGAA
Found at i:37686571 original size:7 final size:7
Alignment explanation
Indices: 37686543--37686589 Score: 73
Period size: 7 Copynumber: 7.1 Consensus size: 7
37686533 TTTTCTCTAC
37686543 AATG-AA
1 AATGAAA
37686549 AATG-AA
1 AATGAAA
37686555 AATG-AA
1 AATGAAA
37686561 AATGAAA
1 AATGAAA
37686568 AATGAAA
1 AATGAAA
37686575 AATGAAA
1 AATGAAA
37686582 AATGAAA
1 AATGAAA
37686589 A
1 A
37686590 TGACTTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
6 16 0.40
7 24 0.60
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (7 bp):
AATGAAA
Found at i:37686578 original size:14 final size:13
Alignment explanation
Indices: 37686543--37686592 Score: 84
Period size: 13 Copynumber: 3.8 Consensus size: 13
37686533 TTTTCTCTAC
37686543 AATGAAAATG-AA
1 AATGAAAATGAAA
37686555 AATGAAAATGAAA
1 AATGAAAATGAAA
37686568 AATGAAAAATGAAA
1 AATG-AAAATGAAA
37686582 AATGAAAATGA
1 AATGAAAATGA
37686593 CTTAAAAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
12 10 0.28
13 13 0.36
14 13 0.36
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
AATGAAAATGAAA
Found at i:37688421 original size:46 final size:45
Alignment explanation
Indices: 37688365--37688492 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 45
37688355 TCATCTTGTA
* * * *
37688365 GCCAACGCATGTCCCAGACATGTCTTACATTGGCTTAC-GTCTCGAG
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGC--ACTGTCTCAAG
* * * *
37688411 GCCGATGCATGTCCCAGACACGTTTTACACTAGCACTTGTCTCAAT
1 GCCAATGCATGTCCCAGACATGTCTTACACTAGCAC-TGTCTCAAG
37688457 GCCAATGCCATGTCCCAGACATGGTCTTACACTAGC
1 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGC
37688493 TCTCACAAAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.03
46 40 0.60
47 13 0.19
48 12 0.18
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (45 bp):
GCCAATGCATGTCCCAGACATGTCTTACACTAGCACTGTCTCAAG
Found at i:37690438 original size:29 final size:29
Alignment explanation
Indices: 37690406--37690465 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
37690396 TTATCTTCTC
*
37690406 ATGGCCCATTAGGCCCAAATTACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
**
37690435 ATGGCCTTTTAGGCCCAAATCACATTTAT
1 ATGGCCCATTAGGCCCAAATCACATTTAT
37690464 AT
1 AT
37690466 TCATGCTCAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.33
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTTAT
Found at i:37692128 original size:42 final size:41
Alignment explanation
Indices: 37692020--37692143 Score: 117
Period size: 43 Copynumber: 3.0 Consensus size: 41
37692010 ATCTATTTGA
* *
37692020 GATA-TTGTGTAAGACCGTGTCTGGGACACAGGCCTCGATT
1 GATATTTGTGTAAGACCATGTCTGGGACACAGGCATCGATT
* **
37692060 GATATTTACGTATAAGACCATGTCTGGGACATTGGCATCGTATCT
1 GATATTT--GTGTAAGACCATGTCTGGGACACAGGCATCG-AT-T
* * * *
37692105 GAT-TTTGTGTAAGACCCTATCTGGGATAGAGGCATCGAT
1 GATATTTGTGTAAGACCATGTCTGGGACACAGGCATCGAT
37692144 ATTAAATTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
40 4 0.06
41 4 0.06
42 25 0.37
43 26 0.38
44 5 0.07
45 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.31
Consensus pattern (41 bp):
GATATTTGTGTAAGACCATGTCTGGGACACAGGCATCGATT
Found at i:37697003 original size:99 final size:99
Alignment explanation
Indices: 37696832--37697030 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
37696822 AAAATGTATA
37696832 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
1 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
37696897 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
66 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
37696931 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
1 ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
37696996 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
66 TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
37697030 A
1 A
37697031 GGTGCCATTT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (99 bp):
ATGATCTGAAGAAGCATTATTGGTGGTCCGAAATGAAAAGAGATATCTCTGATTTTGTTTCTAAA
TGTTTAATCTGTCAGCAAGTTAAAGTTGAACATC
Found at i:37697086 original size:23 final size:23
Alignment explanation
Indices: 37697056--37697103 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
37697046 CAAAAAAGTG
37697056 CAAAAGTGCACTAAATATGTGTT
1 CAAAAGTGCACTAAATATGTGTT
37697079 CAAAAGTGCACTAAATATGTGTT
1 CAAAAGTGCACTAAATATGTGTT
37697102 CA
1 CA
37697104 TGGACGTCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (23 bp):
CAAAAGTGCACTAAATATGTGTT
Found at i:37700009 original size:39 final size:40
Alignment explanation
Indices: 37699964--37700135 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
37699954 GCTCCTCGTT
* * *
37699964 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
37700004 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37700043 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
37700083 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
37700123 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37700136 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37700064 original size:40 final size:39
Alignment explanation
Indices: 37699966--37700188 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
37699956 TCCTCGTTCA
* * * *
37699966 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
37700005 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
37700044 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
37700084 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
37700124 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
37700165 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
37700189 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:37700148 original size:80 final size:79
Alignment explanation
Indices: 37699964--37700188 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
37699954 GCTCCTCGTT
* * * * *
37699964 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
37700028 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
37700043 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
37700108 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
37700123 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
37700187 GA
63 GA
37700189 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:37700197 original size:41 final size:41
Alignment explanation
Indices: 37700120--37700197 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
37700110 TTTGTATCTC
* * *
37700120 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
37700161 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
37700198 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:37707974 original size:40 final size:40
Alignment explanation
Indices: 37707874--37708045 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
37707864 GCTCCTCGTT
* * *
37707874 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
37707914 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
37707953 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
37707993 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
37708033 CAAATGCCTTCGG
1 CAAATGCCTTCGG
37708046 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:37708058 original size:80 final size:79
Alignment explanation
Indices: 37707874--37708088 Score: 227
Period size: 80 Copynumber: 2.7 Consensus size: 79
37707864 GCTCCTCGTT
* * *
37707874 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
37707939 TTTAATAACTCGCA
66 TTTAATAACTCGCA
* * * * * *
37707953 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG
* *
37708018 AATTT-GTATCTCGCA
65 -ATTTAATAACTCGCA
* * * * * *
37708033 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGAC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCA-CACAAGGCCTTCGGGAC
37708089 TTGCCCGGAC
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
79 38 0.35
80 65 0.59
81 7 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGA
TTTAATAACTCGCA
Found at i:37714640 original size:39 final size:39
Alignment explanation
Indices: 37714597--37714750 Score: 220
Period size: 39 Copynumber: 3.9 Consensus size: 39
37714587 GACATATTTT
* *
37714597 CAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTC
1 CAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTC
37714636 CAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTC
* *
37714675 CAGCACATAGCCTGTGGACCCTAAGTCCGGATATAATTC
1 CAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTC
* * * *
37714714 TAGCATATAGCCCGCAGAGCC-TAAGTCCGGATATAAT
1 CAGCACATAGCCTGCGGA-CCTTAAGTCCGGATATAAT
37714751 CATCACTGAA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
39 103 0.98
40 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.23
Consensus pattern (39 bp):
CAGCACATAGCCTGCGGACCTTAAGTCCGGATATAATTC
Found at i:37714648 original size:78 final size:78
Alignment explanation
Indices: 37714581--37714725 Score: 200
Period size: 78 Copynumber: 1.9 Consensus size: 78
37714571 GCGGGATTTT
* * * * *
37714581 AGCCCGGACATATTTTCAGCACGTAGCCTGCGGACCTTAAGTCCGGTTATAATTCCAGCACATAG
1 AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAG
37714646 CCTGCGGACCTTA
66 CCTGCGGACCTTA
* * * * *
37714659 AGTCCGGATATAATTCCAGCACATAGCCTGTGGACCCTAAGTCCGGATATAATTCTAGCATATAG
1 AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAG
37714724 CC
66 CC
37714726 CGCAGAGCCT
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 57 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
AGCCCGGACATAATTCCAGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCCAGCACATAG
CCTGCGGACCTTA
Found at i:37716822 original size:19 final size:19
Alignment explanation
Indices: 37716793--37716830 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
37716783 CCCATTCCAC
37716793 ATAAAAACAAA-AGATAAA
1 ATAAAAACAAACAGATAAA
37716811 ATAAAGAACAAACAGATAAA
1 ATAAA-AACAAACAGATAAA
37716831 CTCAACCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.74, C:0.08, G:0.08, T:0.11
Consensus pattern (19 bp):
ATAAAAACAAACAGATAAA
Found at i:37727017 original size:23 final size:23
Alignment explanation
Indices: 37726991--37727043 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
37726981 AATACACTGA
*
37726991 GTGTGCAGTGT-ACTATGCACTAT
1 GTGTGCAGTGTGACGA-GCACTAT
*
37727014 GTGTGCGGTGTGACGAGCACTAT
1 GTGTGCAGTGTGACGAGCACTAT
37727037 GTGTGCA
1 GTGTGCA
37727044 AATTCGATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.34, T:0.30
Consensus pattern (23 bp):
GTGTGCAGTGTGACGAGCACTAT
Found at i:37736485 original size:22 final size:23
Alignment explanation
Indices: 37736445--37736487 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
37736435 GAAATCCTAC
*
37736445 CCATCCAGCCTTTACACTCCACT
1 CCATCCAGCCTCTACACTCCACT
37736468 CCATCCAGCC-CTACACTCCA
1 CCATCCAGCCTCTACACTCCA
37736488 TGTGGGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.23, C:0.51, G:0.05, T:0.21
Consensus pattern (23 bp):
CCATCCAGCCTCTACACTCCACT
Found at i:37736726 original size:26 final size:26
Alignment explanation
Indices: 37736697--37736775 Score: 131
Period size: 26 Copynumber: 3.0 Consensus size: 26
37736687 TCAGACATCT
*
37736697 CATAAGGGCATAATAGTCATTTGTCA
1 CATAGGGGCATAATAGTCATTTGTCA
37736723 CATAGGGGCATAATAGTCATTTGTCA
1 CATAGGGGCATAATAGTCATTTGTCA
*
37736749 CATAGGGGCATAACAGTCATTTTGTCA
1 CATAGGGGCATAATAGTCA-TTTGTCA
37736776 ATTTGAGGGT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
26 43 0.86
27 7 0.14
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (26 bp):
CATAGGGGCATAATAGTCATTTGTCA
Found at i:37741759 original size:22 final size:23
Alignment explanation
Indices: 37741736--37741874 Score: 105
Period size: 23 Copynumber: 6.2 Consensus size: 23
37741726 TTTGAGCTGA
*
37741736 TGAACAGTAAGCTCTAAT-GAGA
1 TGAACAGTAAGCTCTAATCGAGC
* * *
37741758 TGAAACGGTAGGCTCT-ATCGAGT
1 TG-AACAGTAAGCTCTAATCGAGC
37741781 TGAA-ATGGTAAGCTCT-ATCGAGC
1 TGAACA--GTAAGCTCTAATCGAGC
* *
37741804 TGAACAGTAAGCT-TTATCGAGT
1 TGAACAGTAAGCTCTAATCGAGC
37741826 TGAACAGTAAGCTC--ATACGAGC
1 TGAACAGTAAGCTCTAAT-CGAGC
* *
37741848 TGAAACGGTAAGCTCCAAT-GAGC
1 TG-AACAGTAAGCTCTAATCGAGC
37741871 TGAA
1 TGAA
37741875 TACAGTAATA
Statistics
Matches: 97, Mismatches: 9, Indels: 22
0.76 0.07 0.17
Matches are distributed among these distances:
21 3 0.03
22 40 0.41
23 51 0.53
24 1 0.01
25 2 0.02
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
TGAACAGTAAGCTCTAATCGAGC
Found at i:37741827 original size:45 final size:45
Alignment explanation
Indices: 37741736--37741862 Score: 154
Period size: 45 Copynumber: 2.8 Consensus size: 45
37741726 TTTGAGCTGA
* *
37741736 TGAACAGTAAGCTCTAAT-GAGATGAAACGGTAGGCTCTATCGAGT
1 TGAACAGTAAGCTCT-ATCGAGCTGAAACGGTAAGCTCTATCGAGT
* *
37741781 TGAA-ATGGTAAGCTCTATCGAGCTG-AACAGTAAGCTTTATCGAGT
1 TGAACA--GTAAGCTCTATCGAGCTGAAACGGTAAGCTCTATCGAGT
37741826 TGAACAGTAAGCTC-ATACGAGCTGAAACGGTAAGCTC
1 TGAACAGTAAGCTCTAT-CGAGCTGAAACGGTAAGCTC
37741863 CAATGAGCTG
Statistics
Matches: 70, Mismatches: 6, Indels: 12
0.80 0.07 0.14
Matches are distributed among these distances:
43 2 0.03
44 16 0.23
45 37 0.53
46 15 0.21
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (45 bp):
TGAACAGTAAGCTCTATCGAGCTGAAACGGTAAGCTCTATCGAGT
Found at i:37741870 original size:23 final size:22
Alignment explanation
Indices: 37741728--37741882 Score: 98
Period size: 23 Copynumber: 6.7 Consensus size: 22
37741718 AACCTCGTTT
37741728 TGAGCTGATGAACAGTAAGCTCTAA
1 TGAGCTGA--AACAGTAAGCTC-AA
* * * *
37741753 TGAGATGAAACGGTAGGCTCTA
1 TGAGCTGAAACAGTAAGCTCAA
* ** *
37741775 TCGAGTTGAAATGGTAAGCTCTA
1 T-GAGCTGAAACAGTAAGCTCAA
**
37741798 TCGAGCTG-AACAGTAAGCTTTA
1 T-GAGCTGAAACAGTAAGCTCAA
*
37741820 TCGAGTTG-AACAGTAAGCTCATA
1 T-GAGCTGAAACAGTAAGCTCA-A
* *
37741843 CGAGCTGAAACGGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCT-CAA
37741866 TGAGCTGAATACAGTAA
1 TGAGCTGAA-ACAGTAA
37741883 TATCTTATAA
Statistics
Matches: 106, Mismatches: 19, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
22 36 0.34
23 55 0.52
24 8 0.08
25 7 0.07
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (22 bp):
TGAGCTGAAACAGTAAGCTCAA
Found at i:37749029 original size:50 final size:49
Alignment explanation
Indices: 37748921--37749050 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
37748911 CTGGTACGCA
* * * **
37748921 TAGTAGCCTACACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
37748970 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
37749020 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
37749051 TCACAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 28 0.38
50 41 0.56
51 4 0.05
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:37751503 original size:34 final size:34
Alignment explanation
Indices: 37751458--37751528 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
37751448 ATTTATCCTA
* *
37751458 AATATGTTATGAAAGCTTTTCAAGAGAACAAGGC
1 AATATGATATGAAAGCTTTTCAAGAAAACAAGGC
37751492 AATATGATATGAAAGCTTTTCAAGAAAACAAGGC
1 AATATGATATGAAAGCTTTTCAAGAAAACAAGGC
37751526 AAT
1 AAT
37751529 CATTTCGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.25
Consensus pattern (34 bp):
AATATGATATGAAAGCTTTTCAAGAAAACAAGGC
Found at i:37770835 original size:13 final size:14
Alignment explanation
Indices: 37770817--37770848 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
37770807 GGTTACGAAA
37770817 AAAATAACT-AAAT
1 AAAATAACTAAAAT
37770830 AAAATAACTAAAAT
1 AAAATAACTAAAAT
37770844 AAAAT
1 AAAAT
37770849 GAGATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAATAACTAAAAT
Found at i:37777795 original size:46 final size:46
Alignment explanation
Indices: 37777728--37777905 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
37777718 TGTAACCCGC
* * * *
37777728 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
* *
37777774 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTAGCAT
* *** * *
37777820 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACT-TTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGA-TGTTAGCAT
*
37777867 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
37777906 CTCAACCATC
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
45 1 0.01
46 72 0.66
47 35 0.32
48 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTAGCAT
Found at i:37777845 original size:93 final size:93
Alignment explanation
Indices: 37777736--37777906 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
37777726 GCCCATAAGT
* * *
37777736 GAACTCAGACTCAACTCAATGAGCTCGG-GTGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAGCTCGGACT-TTCGCATCCATAAGTGAACTCGGACTCAACTCA
37777800 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
* *
37777829 GAACTCGGACTCAACTCAACGAGTTCGGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
37777894 CGAGTTCGGATGC
66 CGAGCTCGGATGC
37777907 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.99
94 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACTTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:37783629 original size:93 final size:93
Alignment explanation
Indices: 37783517--37783688 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
37783507 ACCCGTAAGT
* * * *
37783517 GAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAAGTCA
1 GAACTCGGACTCAACTCAACAAGT-TCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
37783581 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
*
37783610 GAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
37783675 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
37783689 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 71 0.99
94 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:37783681 original size:46 final size:46
Alignment explanation
Indices: 37783512--37783684 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
37783502 AACCCACCCG
* * *
37783512 TAAGTGAACTCGGACTCAACTCAACGA-TCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGT-TCGGACATTTGCATCCA
* * * *
37783558 TAAGTGAACTCGGACTCAAGTCAACGAGCTCGGATGCCTAGTTACATCTC-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATC-CA
* *
37783608 T---CGAACTCGGACTCAACTCAACAAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
37783651 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
37783685 TGCCCAAACA
Statistics
Matches: 102, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 58 0.57
47 26 0.25
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:37786112 original size:15 final size:16
Alignment explanation
Indices: 37786084--37786124 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
37786074 CAAGAAAACC
*
37786084 GAATAAATAAATCC-G
1 GAATAAAGAAATCCAG
*
37786099 GAATAAAGAGATCCAG
1 GAATAAAGAAATCCAG
37786115 G-ATAAAGAAA
1 GAATAAAGAAA
37786125 CCCAAGATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.15
Consensus pattern (16 bp):
GAATAAAGAAATCCAG
Found at i:37787902 original size:43 final size:40
Alignment explanation
Indices: 37787633--37787895 Score: 363
Period size: 40 Copynumber: 6.5 Consensus size: 40
37787623 ACACCAAGTA
* * *
37787633 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
37787672 CC-TCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
37787711 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
37787751 CCTTCGGGACTTAGCCCGGATATAG-ATACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTA-ACTCGCACAAATG
*
37787791 CCTTCGGGACTTAGCCCGGTTATCATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
*
37787834 CCTTCGGGACTTGGCCCGGTTATCATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGG--AT-ATAGTAACTCGCACAAATG
37787877 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
37787896 TTATCATCCG
Statistics
Matches: 205, Mismatches: 11, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
38 11 0.05
39 26 0.13
40 92 0.45
42 2 0.01
43 73 0.36
44 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:37790714 original size:24 final size:24
Alignment explanation
Indices: 37790687--37790737 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
37790677 TTCTTGGAAC
37790687 ACACAAACGACTTCTGAACCTCAA
1 ACACAAACGACTTCTGAACCTCAA
37790711 ACACAAACGACTTCTGAACCTCAA
1 ACACAAACGACTTCTGAACCTCAA
37790735 ACA
1 ACA
37790738 ATCGTCATCA
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:0.43, C:0.33, G:0.08, T:0.16
Consensus pattern (24 bp):
ACACAAACGACTTCTGAACCTCAA
Found at i:37811399 original size:19 final size:19
Alignment explanation
Indices: 37811363--37811401 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
37811353 TTTTCAACAT
* *
37811363 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
37811382 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
37811401 A
1 A
37811402 AAATAATTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:37811924 original size:27 final size:28
Alignment explanation
Indices: 37811867--37811936 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
37811857 GTGACAGAGT
** *
37811867 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ATAGATATTACGTGGCAGGGC
37811896 CACCAGAATAGATA-TACGTGGCAGGGC
1 CACCAGAATAGATATTACGTGGCAGGGC
* *
37811923 CACTAGAACAGATA
1 CACCAGAATAGATA
37811937 ATTTGTGGCA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
27 22 0.61
28 7 0.19
29 7 0.19
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.21
Consensus pattern (28 bp):
CACCAGAATAGATATTACGTGGCAGGGC
Found at i:37811952 original size:28 final size:27
Alignment explanation
Indices: 37811867--37811956 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
37811857 GTGACAGAGT
* *
37811867 CACCAGATATAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
* ** *
37811896 CACCAGAATAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
*
37811923 CACTAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
37811951 CACCAG
1 CACCAG
37811957 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 10, Indels: 5
0.77 0.16 0.08
Matches are distributed among these distances:
27 21 0.43
28 21 0.43
29 7 0.14
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.22
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:37812109 original size:28 final size:28
Alignment explanation
Indices: 37812062--37812126 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
37812052 AAATTAACCC
*
37812062 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
37812090 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
37812118 TAGGGGTAT
1 TAGGGGTAT
37812127 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:37820203 original size:8 final size:8
Alignment explanation
Indices: 37820181--37820214 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
37820171 GTATATAGAA
37820181 ATTTTGTG
1 ATTTTGTG
37820189 TATTTTGTG
1 -ATTTTGTG
37820198 ATTTTGTG
1 ATTTTGTG
37820206 ATTTTGTG
1 ATTTTGTG
37820214 A
1 A
37820215 ATTAGGGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.68
9 8 0.32
ACGTcount: A:0.15, C:0.00, G:0.24, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:37825352 original size:40 final size:40
Alignment explanation
Indices: 37825307--37825575 Score: 493
Period size: 40 Copynumber: 6.7 Consensus size: 40
37825297 GCAAACACAT
*
37825307 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37825347 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37825387 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37825427 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37825467 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37825507 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37825547 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
37825576 CCAATGCTCA
Statistics
Matches: 224, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 224 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:37833936 original size:40 final size:40
Alignment explanation
Indices: 37833891--37834159 Score: 493
Period size: 40 Copynumber: 6.7 Consensus size: 40
37833881 GCAAACACAT
*
37833891 TTGCCTTCGGGTCTTAGCCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37833931 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37833971 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37834011 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
37834051 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37834091 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
37834131 TTGCCTTCGGGTCTTAGCCCGGATATATC
1 TTGCCTTCGGGTCTTAGCCCGGATATATC
37834160 CAATGCTCAT
Statistics
Matches: 224, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 224 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Done.