Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 37 of 318
Found at i:10232005 original size:46 final size:46
Alignment explanation
Indices: 10231946--10232121 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
10231936 TATTTGGGCA
*
10231946 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * * * * * * * *
10231992 TTCGAACTCGTTGAGTTGAGTCCGTGTTC-GTGAGATGTA-ACTAGGCA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATACGA-ACG
* * *
10232039 TCCGAGCTCATTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
*
10232085 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
10232122 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 25, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
45 1 0.01
46 68 0.68
47 30 0.30
48 1 0.01
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:10232101 original size:93 final size:93
Alignment explanation
Indices: 10231942--10232113 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
10231932 GGAATATTTG
* * * **
10231942 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAATGTTCGAACTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTCCACTTATGGATACGAACGCCCGAACTCGTTGAG
*
10232007 TTGAGTCCGTGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
10232035 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTCCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAGCTCATTGAGTTGAGTCCGAGTCCACTTATGGATACGAACGCCCGAACTCGTTGAG
10232100 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
10232114 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAGCTCATTGAGTTGAGTCCGAGTCCACTTATGGATACGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:10252441 original size:42 final size:42
Alignment explanation
Indices: 10252334--10252492 Score: 176
Period size: 43 Copynumber: 3.7 Consensus size: 42
10252324 ACTCGTATAG
* * * *
10252334 TGCCAATGTCCCAGATACGGTCTTACATGTAATCAAATATCGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATA-CGA
* *
10252377 TGCCACTGTCCCAGACAGGGTCTTACACGAAATCAAATACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACGA
* *
10252419 TGCCAATGTCCCAAACATGGTCTTACACGTAAATCATAAGT-TGA
1 TGCCAATGTCCCAGACATGGTCTTACACG-AAATCA-AA-TACGA
* * *
10252463 TGCCAGTGTCCCATACGTGGTCTTACACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGA
10252493 GAAAACATAT
Statistics
Matches: 101, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.29
43 41 0.41
44 30 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAATCAAATACGA
Found at i:10252473 original size:86 final size:85
Alignment explanation
Indices: 10252334--10252492 Score: 207
Period size: 86 Copynumber: 1.9 Consensus size: 85
10252324 ACTCGTATAG
* * *
10252334 TGCCAATGTCCCAGATACGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG-GGT
1 TGCCAATGTCCCAAACACGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAC-GTGGT
10252398 CTTACACGAAATCAAATACGA
65 CTTACACGAAATCAAATACGA
* * *
10252419 TGCCAATGTCCCAAACATGGTCTTACACGTAAATCATAAGT-T-GATGCCAGTGTCCCATACGTG
1 TGCCAATGTCCCAAACACGGTCTTACACGT-AATCA-AA-TATCGATGCCACTGTCCCAGACGTG
10252482 GTCTTACACGA
63 GTCTTACACGA
10252493 GAAAACATAT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
85 27 0.42
86 33 0.52
87 3 0.05
88 1 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
TGCCAATGTCCCAAACACGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGACGTGGTC
TTACACGAAATCAAATACGA
Found at i:10259072 original size:3 final size:3
Alignment explanation
Indices: 10259064--10259088 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10259054 CAAATTAGTC
10259064 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
10259089 CTAATTCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10260222 original size:19 final size:19
Alignment explanation
Indices: 10260184--10260223 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10260174 ACTAAAATGA
*
10260184 TATCGATACTAAAGGTAAG
1 TATCGATACTAAAGGAAAG
10260203 TATCGATACATAAA-GAAAG
1 TATCGATAC-TAAAGGAAAG
10260222 TA
1 TA
10260224 ACGGTACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.47, C:0.10, G:0.17, T:0.25
Consensus pattern (19 bp):
TATCGATACTAAAGGAAAG
Found at i:10268463 original size:4 final size:4
Alignment explanation
Indices: 10268448--10268679 Score: 221
Period size: 4 Copynumber: 56.5 Consensus size: 4
10268438 TAACTTCCCA
*
10268448 ACAT AAAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10268496 ACAT ACACGT ACGT ACGT ACAT ACAT ACGT ACGT ACAA ACAT ACACGT
1 ACAT ACA--T ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA--T
* * * * * *
10268544 ACGT ACGT ACAT ACAT ACGT ACGT ACAT ACAT ACACGT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA--T ACAT ACAT ACAT
* * *
10268594 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACCT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
10268642 ACAT ACGT ACCT ACGT ACAT ACGT ACCT ACGT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
10268680 GTACTTATGT
Statistics
Matches: 196, Mismatches: 26, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
4 187 0.95
6 9 0.05
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:10268877 original size:4 final size:4
Alignment explanation
Indices: 10268868--10273123 Score: 5040
Period size: 4 Copynumber: 1062.5 Consensus size: 4
10268858 TAACTTCCCA
*
10268868 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10268916 ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10268964 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACTT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10269012 ACGT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10269060 ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10269108 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10269156 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10269204 ACAT ACAT ACGT ACAT ACGT ACAT ACGT ACAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10269252 ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
** * * *
10269300 ACAT ACGG ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10269348 ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10269396 ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10269444 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACCT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10269492 ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT TCAT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10269540 ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10269588 ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACGT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
10269636 ACGT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACGT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10269684 ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10269732 ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10269780 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10269828 ACAT ACAT ACGT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10269876 ACAT ACAT ACAT ACGT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10269924 ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10269972 ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10270020 ACAT ACAT ACAT ATAT ACAT ACACGT ACGT ACGT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACA--T ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10270070 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACCT ACGT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * * ** * *
10270118 ACCT ACGT ACAT ACGT ACCT ACGT ACAT ACGT ACTT ATGT -CGT ACAA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
** * * ** * * **
10270165 AC-T -CAT TTA- AGCCT -CGT -GTT A-ATGT CCGT A-AT GA-ATTT ATTT
1 ACAT ACAT ACAT A-CAT ACAT ACAT ACA--T ACAT ACAT -ACA--T ACAT
* * * *** * * ** * * *
10270207 ACATT A-AT A-A- ACTT ATAG GGGT A-A- ACTT ACTTT TTAT A-TT TCGTT
1 ACA-T ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC-AT ACAT ACAT AC-AT
* ** * * ** * *
10270252 AACTT ATCAT ATTGT GAAAT TCA- ATTTT AAAAT TC-T -CAT GA-AT AGC-T
1 -ACAT A-CAT A-CAT -ACAT ACAT A-CAT -ACAT ACAT ACAT -ACAT A-CAT
* * ** ** * *
10270299 -CAT ATAGT ATCCAA ATCAT TTAT TGATT AACTT CCCA- ACAT ACAT ACAT
1 ACAT ACA-T A--CAT A-CAT ACAT ACA-T -ACAT -ACAT ACAT ACAT ACAT
10270348 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10270396 ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10270444 ACGT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10270492 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10270540 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10270588 ACAT ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10270636 ACAT ACAT ACAT ACGT ACGT ACAT ACAT ACAT ACGT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10270684 ACAT ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10270732 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACTT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10270780 ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10270828 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10270876 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10270924 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10270972 ACGT ACAT ACGT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10271020 ACAT ACGT ACAT ACAT ACGT ACGT ACAT ACAT ACGT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10271068 ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10271116 ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10271164 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10271212 ACAT ACCT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10271260 ACGT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACGT ACGT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10271308 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
10271356 ACGT ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACGT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10271404 ACAT ACGT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10271452 ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10271500 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10271548 ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10271596 ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACGT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10271644 ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10271692 ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10271740 ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACACGT ACGT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACA--T ACAT ACAT ACAT ACAT
* * * * * *
10271790 ACAT ACAT ACAT ACAT ACGT ACCT ACGT ACAT ACGT ACCT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * ** * * **
10271838 ACGT ACCT ACGT ACAT ACGT ACTT ATGT -CGT ACAA AC-T -CAT TTA-
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * ** * * **
10271882 AGCCT -CGT -GTT A-ATGT CCGT A-AT GA-ATTT ATTT ACATT A-AT A-A-
1 A-CAT ACAT ACAT ACA--T ACAT ACAT -ACA--T ACAT ACA-T ACAT ACAT
* * * *** * * ** * * * *
10271925 ACTT ATAG GGGT A-A- ACTT ACTTT TTAT A-TT TCGTT AACTT ATCAT
1 ACAT ACAT ACAT ACAT ACAT AC-AT ACAT ACAT AC-AT -ACAT A-CAT
** * * ** * * *
10271970 ATTGT GAAAT TCA- ATTTT AAAAT TC-T -CAT GA-AT AGC-T -CAT ATAGT
1 A-CAT -ACAT ACAT A-CAT -ACAT ACAT ACAT -ACAT A-CAT ACAT ACA-T
* ** ** * *
10272015 ATCCAA ATCAT TTAT TGATT AACTT CCCA- ACAT ACAT ACAT ACAT ACAT
1 A--CAT A-CAT ACAT ACA-T -ACAT -ACAT ACAT ACAT ACAT ACAT ACAT
*
10272064 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10272112 ACAT ACGT ACAT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10272160 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10272208 ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
10272256 ACGT ACGT ACGT ACAT ACAT ACAT ACGT ACGT ACAT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
*
10272304 ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10272352 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ATAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10272400 ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10272448 ACAT ACGT ACGT ACAT ACAT --AT ACAT ACAT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * *
10272494 ACAT ACGT ACAT ACAT ACGT ACGT ACAT ATAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10272542 ACAT ACAT ACGT ACGT ACAT ACAT ACAT ATAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10272590 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10272638 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10272686 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * *
10272734 ACAT ACAT ACAT ACAT ACGT ACGT ACAT ACGT ACAT ACAT ACGT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * *
10272782 ACAT ACGT ACGT ACAT ACGT ACGT ACAT ACAT ACGT ACAT ACAT ACGT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10272830 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10272878 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACGT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10272926 ACAT ACGT ACAT ACAT ACGT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* *
10272974 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACGT ACAT ACAT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * *
10273022 ATAT ACAT ACAT ACAT ACGT ACGT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
* * * * * * *
10273070 ATAT ACAT ATAT ACAT ACAT ACAT ACGT ACGT ACGT ACGT ACGT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
10273118 ACAT AC
1 ACAT AC
10273124 CTAAGCTTTC
Statistics
Matches: 3724, Mismatches: 442, Indels: 172
0.86 0.10 0.04
Matches are distributed among these distances:
2 12 0.00
3 34 0.01
4 3612 0.97
5 48 0.01
6 16 0.00
7 2 0.00
ACGTcount: A:0.44, C:0.24, G:0.05, T:0.27
Consensus pattern (4 bp):
ACAT
Found at i:10279265 original size:27 final size:27
Alignment explanation
Indices: 10279224--10279322 Score: 135
Period size: 27 Copynumber: 3.7 Consensus size: 27
10279214 CCCTGGCGTA
** *
10279224 CAAAATTACTGAAATACCTTTGCAGTG
1 CAAAATTACCAAAATACCTTTGTAGTG
*
10279251 CAAAATTACCAAAATACCCTTGTAGTG
1 CAAAATTACCAAAATACCTTTGTAGTG
*
10279278 CAAAATTATCAAAATACCTTTGTAGTG
1 CAAAATTACCAAAATACCTTTGTAGTG
* *
10279305 TAAAATTACCGAAATACC
1 CAAAATTACCAAAATACC
10279323 CCTGTAGGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.28
Consensus pattern (27 bp):
CAAAATTACCAAAATACCTTTGTAGTG
Found at i:10279337 original size:27 final size:27
Alignment explanation
Indices: 10279225--10279337 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
10279215 CCTGGCGTAC
** * * *
10279225 AAAATTACTGAAATACCTTTGCAGTGC
1 AAAATTACCAAAATACCCTTGTAGTGA
*
10279252 AAAATTACCAAAATACCCTTGTAGTGC
1 AAAATTACCAAAATACCCTTGTAGTGA
* * *
10279279 AAAATTATCAAAATACCTTTGTAGTGT
1 AAAATTACCAAAATACCCTTGTAGTGA
* *
10279306 AAAATTACCGAAATACCCCTGTAG-GA
1 AAAATTACCAAAATACCCTTGTAGTGA
10279332 ATAAAT
1 A-AAAT
10279338 GACTGTTTTG
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
26 2 0.03
27 71 0.97
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTGTAGTGA
Found at i:10279932 original size:22 final size:22
Alignment explanation
Indices: 10279905--10280002 Score: 94
Period size: 22 Copynumber: 4.5 Consensus size: 22
10279895 TGTGCCGTAT
*
10279905 TTATGGCTCTGTGCCATTCTGA
1 TTATGGCTTTGTGCCATTCTGA
* *
10279927 TTATGGCTGTGTGCCATCCTG-
1 TTATGGCTTTGTGCCATTCTGA
* *
10279948 TTATGG-TTTATAACCATTCTGA
1 TTATGGCTTTGT-GCCATTCTGA
* *
10279970 TTATGGTTTTGTGCCGTTCT-A
1 TTATGGCTTTGTGCCATTCTGA
10279991 TCTATGGCTTTG
1 T-TATGGCTTTG
10280003 AGTCGTTCTG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
20 3 0.05
21 15 0.24
22 40 0.65
23 4 0.06
ACGTcount: A:0.14, C:0.18, G:0.22, T:0.45
Consensus pattern (22 bp):
TTATGGCTTTGTGCCATTCTGA
Found at i:10281755 original size:16 final size:16
Alignment explanation
Indices: 10281735--10281789 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
10281725 TGGAGTAAGG
*
10281735 CTGTAATGAAATAGAA
1 CTGTAATGGAATAGAA
*
10281751 ATGTAATGGAATA-AA
1 CTGTAATGGAATAGAA
10281766 GCTGTAATGGAATAGAA
1 -CTGTAATGGAATAGAA
10281783 CTGTAAT
1 CTGTAAT
10281790 CAGTAATTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.06
16 30 0.88
17 2 0.06
ACGTcount: A:0.45, C:0.05, G:0.22, T:0.27
Consensus pattern (16 bp):
CTGTAATGGAATAGAA
Found at i:10281770 original size:32 final size:32
Alignment explanation
Indices: 10281723--10281789 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
10281713 GGTTGGAGTG
* *
10281723 AATGGAGTAAGGCTGTAATGAAATAGAAATGT
1 AATGGAATAAAGCTGTAATGAAATAGAAATGT
* *
10281755 AATGGAATAAAGCTGTAATGGAATAGAACTGT
1 AATGGAATAAAGCTGTAATGAAATAGAAATGT
10281787 AAT
1 AAT
10281790 CAGTAATTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.45, C:0.04, G:0.25, T:0.25
Consensus pattern (32 bp):
AATGGAATAAAGCTGTAATGAAATAGAAATGT
Found at i:10282022 original size:62 final size:60
Alignment explanation
Indices: 10281956--10282210 Score: 250
Period size: 62 Copynumber: 4.3 Consensus size: 60
10281946 TTGTTATTAA
10281956 ATTTTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAATGTAAATAATTTAATCAT
1 ATTTTAATATA-ATTATTATTAAATATAATTTAATAAAAATAAAA--TAAATAATTTAATCAT
* * *
10282018 ATTTTAACATAATTATTATTAAATATAATTTAAT-AAAAT--AATATATAATTTAATAAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAATAAATAATTTAATCAT
* *
10282075 ATTCTTAATATAATTATTACTAAAATATGAA-TTAATAAAAATAAAA-AAATAATCTAATCAT
1 ATT-TTAATATAATTATTA-TTAAATAT-AATTTAATAAAAATAAAATAAATAATTTAATCAT
* * * *
10282136 ATTTTAACAT-A--ATTATT-AATACAATTTAAT-AAAATAATAT-ACT-ATTTAATAGCAT
1 ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAATAAATAATTTAAT--CAT
*
10282191 -TCTTAATATAATTATTATTA
1 ATTTTAATATAATTATTATTA
10282211 TTTTAGGTCC
Statistics
Matches: 162, Mismatches: 16, Indels: 34
0.76 0.08 0.16
Matches are distributed among these distances:
53 6 0.04
54 19 0.12
55 13 0.08
56 1 0.01
57 27 0.17
58 14 0.09
59 15 0.09
60 13 0.08
61 20 0.12
62 33 0.20
63 1 0.01
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (60 bp):
ATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAAAATAAATAATTTAATCAT
Found at i:10282193 original size:114 final size:117
Alignment explanation
Indices: 10281959--10282208 Score: 343
Period size: 114 Copynumber: 2.1 Consensus size: 117
10281949 TTATTAAATT
* *
10281959 TTAATA-AGATTATTATTAAATATAATTTAATAAAAATAAAATGTAAATAATTTAATCATATTTT
1 TTAATATA-ATTATTATAAAATATAATTTAATAAAAATAAAA--TAAATAATCTAATCATATTTT
* *
10282023 AACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAATATTC
63 AACATAA-TATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTC
10282079 TTAATATAATTATTACTAAAATATGAA-TTAATAAAAATAAAA-AAATAATCTAATCATATTTTA
1 TTAATATAATTATTA-TAAAATAT-AATTTAATAAAAATAAAATAAATAATCTAATCATATTTTA
*
10282142 ACAT-A-ATTATT-AATACAATTTAATAAAATAATATACT-ATTTAATAGCATTC
64 ACATAATATTATTAAATACAATTTAATAAAATAATATA-TAATTTAATAACATTC
10282193 TTAATATAATTATTAT
1 TTAATATAATTATTAT
10282209 TATTTTAGGT
Statistics
Matches: 121, Mismatches: 5, Indels: 15
0.86 0.04 0.11
Matches are distributed among these distances:
113 1 0.01
114 50 0.41
115 7 0.06
117 1 0.01
118 24 0.20
120 13 0.11
121 23 0.19
122 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
TTAATATAATTATTATAAAATATAATTTAATAAAAATAAAATAAATAATCTAATCATATTTTAAC
ATAATATTATTAAATACAATTTAATAAAATAATATATAATTTAATAACATTC
Found at i:10284299 original size:32 final size:32
Alignment explanation
Indices: 10284258--10284323 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
10284248 TTCTTAGAGA
10284258 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
1 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
10284290 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
1 TTGCTTGCAAGTCAAGTTAAACAAAATATATT
10284322 TT
1 TT
10284324 CTTTCTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (32 bp):
TTGCTTGCAAGTCAAGTTAAACAAAATATATT
Found at i:10286447 original size:18 final size:18
Alignment explanation
Indices: 10286424--10286489 Score: 69
Period size: 18 Copynumber: 3.4 Consensus size: 18
10286414 AAAAAAACAC
10286424 GAAAAACATATATTAATT
1 GAAAAACATATATTAATT
* **
10286442 GAAAAACACATAAAGAAACATT
1 G-AAAA-ACATATA-TTA-ATT
10286464 GAAAAACATATATTAATT
1 GAAAAACATATATTAATT
10286482 GAAAAACA
1 GAAAAACA
10286490 CGTAAAGAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
18 12 0.32
19 5 0.13
20 12 0.32
21 5 0.13
22 4 0.11
ACGTcount: A:0.61, C:0.09, G:0.08, T:0.23
Consensus pattern (18 bp):
GAAAAACATATATTAATT
Found at i:10286472 original size:40 final size:40
Alignment explanation
Indices: 10286424--10286511 Score: 167
Period size: 40 Copynumber: 2.2 Consensus size: 40
10286414 AAAAAAACAC
10286424 GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
1 GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
*
10286464 GAAAAACATATATTAATTGAAAAACACGTAAAGAAACATT
1 GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
10286504 GAAAAACA
1 GAAAAACA
10286512 GATAGTTCGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.60, C:0.10, G:0.09, T:0.20
Consensus pattern (40 bp):
GAAAAACATATATTAATTGAAAAACACATAAAGAAACATT
Found at i:10290275 original size:9 final size:10
Alignment explanation
Indices: 10290257--10290285 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
10290247 AAATCAGTAT
10290257 TTATTTATTA
1 TTATTTATTA
10290267 TTA-TTATTA
1 TTATTTATTA
10290276 TTATTTATTA
1 TTATTTATTA
10290286 AGTATTGGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTATTTATTA
Found at i:10291943 original size:38 final size:38
Alignment explanation
Indices: 10291896--10291968 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
10291886 CAAATGATTT
*
10291896 ATTTCCATTTTTGA-AAAACCATAATTCATTTCCAAGTC
1 ATTTCCATTTTGGAGAAAACCA-AATTCATTTCCAAGTC
* *
10291934 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAA
1 ATTTCCATTTTGGAGAAAACCAAATTCATTTCCAA
10291969 ATATTTCTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 24 0.77
39 7 0.23
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (38 bp):
ATTTCCATTTTGGAGAAAACCAAATTCATTTCCAAGTC
Found at i:10292930 original size:22 final size:21
Alignment explanation
Indices: 10292883--10292998 Score: 126
Period size: 21 Copynumber: 5.3 Consensus size: 21
10292873 CGCCCATGGG
* *
10292883 TTTAGGGTTTAAAGTTTTAAAGC
1 TTTAGGGTTT-AGGGTTT-AAGC
10292906 TTTAGGGTTTTAGGGTTTAAGC
1 TTTAGGG-TTTAGGGTTTAAGC
10292928 TTTAGGGTTTAGGGTTTATAG-
1 TTTAGGGTTTAGGGTTTA-AGC
* *
10292949 TTTAGGGTTTAGGGTTTTATGG
1 TTTAGGGTTTAGGG-TTTAAGC
* *
10292971 TTTAGGGTTTAGGGCTTAAGG
1 TTTAGGGTTTAGGGTTTAAGC
10292992 TTTAGGG
1 TTTAGGG
10292999 GACGCAAGGT
Statistics
Matches: 84, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
21 38 0.45
22 31 0.37
23 12 0.14
24 3 0.04
ACGTcount: A:0.20, C:0.03, G:0.33, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAGGGTTTAAGC
Found at i:10292938 original size:7 final size:7
Alignment explanation
Indices: 10292906--10292998 Score: 105
Period size: 7 Copynumber: 13.0 Consensus size: 7
10292896 GTTTTAAAGC
10292906 TTTAGGG
1 TTTAGGG
10292913 TTTTAGGG
1 -TTTAGGG
* *
10292921 TTTAAGC
1 TTTAGGG
10292928 TTTAGGG
1 TTTAGGG
10292935 TTTAGGG
1 TTTAGGG
**
10292942 TTTATAG
1 TTTAGGG
10292949 TTTAGGG
1 TTTAGGG
10292956 TTTAGGG
1 TTTAGGG
*
10292963 TTTTATGG
1 -TTTAGGG
10292971 TTTAGGG
1 TTTAGGG
10292978 TTTAGGG
1 TTTAGGG
* *
10292985 CTTAAGG
1 TTTAGGG
10292992 TTTAGGG
1 TTTAGGG
10292999 GACGCAAGGT
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
7 57 0.81
8 13 0.19
ACGTcount: A:0.17, C:0.02, G:0.35, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:10293702 original size:19 final size:19
Alignment explanation
Indices: 10293678--10293717 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10293668 TGTGTCAACA
*
10293678 TAAATTCATAGGCATAACT
1 TAAATTCATAGACATAACT
**
10293697 TAAATTTGTAGACATAACT
1 TAAATTCATAGACATAACT
10293716 TA
1 TA
10293718 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.35
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:10294992 original size:32 final size:31
Alignment explanation
Indices: 10294951--10295046 Score: 124
Period size: 32 Copynumber: 3.0 Consensus size: 31
10294941 CCCATCATAG
10294951 TATCAATTGGGCCTAGCCCATATCTGAATCAA
1 TATCAATTGGGCCTAGCCCATATC-GAATCAA
10294983 TATCAATTGGGCCTAGCCCATATC-ATATCCAA
1 TATCAATTGGGCCTAGCCCATATCGA-AT-CAA
*
10295015 TATCAATTGGG-CTAAGCCTATATCAGAATCAA
1 TATCAATTGGGCCT-AGCCCATATC-GAATCAA
10295047 ACCCGTATGA
Statistics
Matches: 58, Mismatches: 1, Indels: 10
0.84 0.01 0.14
Matches are distributed among these distances:
30 1 0.02
31 4 0.07
32 50 0.86
33 2 0.03
34 1 0.02
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (31 bp):
TATCAATTGGGCCTAGCCCATATCGAATCAA
Found at i:10295358 original size:26 final size:28
Alignment explanation
Indices: 10295323--10295374 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
10295313 AATCATAGAC
10295323 AAATCAGTCA-TTTACCCTTGAGGGGCA
1 AAATCAGTCATTTTACCCTTGAGGGGCA
*
10295350 AAAT-AGTCATTTTACCCTTTAGGGG
1 AAATCAGTCATTTTACCCTTGAGGGG
10295375 TATTTTGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (28 bp):
AAATCAGTCATTTTACCCTTGAGGGGCA
Found at i:10295475 original size:19 final size:19
Alignment explanation
Indices: 10295451--10295496 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
10295441 AGTGAAAATG
10295451 GGCCCAAGGCCCATTACTC
1 GGCCCAAGGCCCATTACTC
10295470 GGCCCAAGGCCCATTACTC
1 GGCCCAAGGCCCATTACTC
10295489 GGCCCAAG
1 GGCCCAAG
10295497 TGGGCCCACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.22, C:0.41, G:0.24, T:0.13
Consensus pattern (19 bp):
GGCCCAAGGCCCATTACTC
Found at i:10299983 original size:32 final size:32
Alignment explanation
Indices: 10299947--10300042 Score: 142
Period size: 32 Copynumber: 3.0 Consensus size: 32
10299937 CCCATCATAG
10299947 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
1 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
*
10299979 TATCAATTGGGCCTAGCCCATAC-CA-TATCCAA
1 TATCAATTGGGCCTAGCCCAT-CTCAGAAT-CAA
*
10300011 TATCAATTGGGCCTAGCCCATATCAGAATCAA
1 TATCAATTGGGCCTAGCCCATCTCAGAATCAA
10300043 ACCCATATGA
Statistics
Matches: 57, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
31 2 0.04
32 52 0.91
33 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (32 bp):
TATCAATTGGGCCTAGCCCATCTCAGAATCAA
Found at i:10311850 original size:40 final size:40
Alignment explanation
Indices: 10311767--10312011 Score: 249
Period size: 40 Copynumber: 6.1 Consensus size: 40
10311757 CGGGATTTAA
* * * * * *
10311767 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
10311807 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * *
10311847 CCGGATTTGGTAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* *
10311887 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTGGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
10311927 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
10311967 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
10312007 CCGGA
1 CCGGA
10312012 CATCATTCCA
Statistics
Matches: 176, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
39 2 0.01
40 174 0.99
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:10313974 original size:40 final size:40
Alignment explanation
Indices: 10313909--10314152 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
10313899 CGGAATACAA
* ** * * *
10313909 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
10313949 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
10313989 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
10314029 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
10314069 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
10314109 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
10314149 CCGG
1 CCGG
10314153 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:10314307 original size:64 final size:64
Alignment explanation
Indices: 10314239--10314427 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
10314229 GAACACAAAC
10314239 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
10314303 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
10314360 AC
63 AT
10314362 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
10314426 AT
1 AT
10314428 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:10314340 original size:123 final size:123
Alignment explanation
Indices: 10314121--10314459 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
10314111 GGATATAATT
* * * * * * *
10314121 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
10314186 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
10314244 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
10314309 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
10314367 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
10314432 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
10314460 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:10320403 original size:29 final size:28
Alignment explanation
Indices: 10320369--10320471 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
10320359 TACTCAATCA
*
10320369 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
10320398 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
10320427 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
10320456 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
10320472 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:10324581 original size:40 final size:40
Alignment explanation
Indices: 10324516--10324759 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
10324506 CGGAATACAA
* ** * * *
10324516 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
10324556 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
10324596 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
10324636 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
10324676 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
10324716 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
10324756 CCGG
1 CCGG
10324760 GTATCATTCA
Statistics
Matches: 182, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
40 181 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:10324945 original size:122 final size:123
Alignment explanation
Indices: 10324728--10325065 Score: 597
Period size: 122 Copynumber: 2.8 Consensus size: 123
10324718 GGATATAATT
* * * * * * *
10324728 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
10324793 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACAC-AACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
10324850 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
10324915 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
10324973 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
10325038 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
10325066 CACATAATTC
Statistics
Matches: 207, Mismatches: 8, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
122 107 0.52
123 100 0.48
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:10333380 original size:40 final size:40
Alignment explanation
Indices: 10333293--10333480 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
10333283 TTATAGTGAT
* * * ***
10333293 TCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGTAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
**
10333333 TTACACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* *
10333373 TCGCACGAATGCCTTCGGGTCTTGGCCTGGATATAACAAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
**
10333413 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAATTAC
1 TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
* * *
10333453 TAGCA-TAATTGCCTTCGGGACTTAGCCC
1 TCGCACGAA-TGCCTTCGGGTCTTAGCCC
10333481 AGACATCATT
Statistics
Matches: 128, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
39 2 0.02
40 126 0.98
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
TCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAACAAC
Found at i:10335606 original size:26 final size:26
Alignment explanation
Indices: 10335577--10335628 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10335567 CATATTCTTC
10335577 CATAACAA-ATATAAATTCTAACATTT
1 CATAACAATATATAAATT-TAACATTT
*
10335603 CATAACAATATATATATTTAACATTT
1 CATAACAATATATAAATTTAACATTT
10335629 AACTACTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.48, C:0.13, G:0.00, T:0.38
Consensus pattern (26 bp):
CATAACAATATATAAATTTAACATTT
Found at i:10339132 original size:21 final size:21
Alignment explanation
Indices: 10339094--10339141 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
10339084 GAATATGCTG
*
10339094 TAAATTGAAAGGTTTTGATAGA
1 TAAA-TGAAAGATTTTGATAGA
10339116 -AAATGAAAGATTATTGATAGA
1 TAAATGAAAGATT-TTGATAGA
10339137 TAAAT
1 TAAAT
10339142 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.19, T:0.33
Consensus pattern (21 bp):
TAAATGAAAGATTTTGATAGA
Found at i:10339794 original size:33 final size:31
Alignment explanation
Indices: 10339769--10339927 Score: 171
Period size: 33 Copynumber: 4.9 Consensus size: 31
10339759 AAAAGGTTAT
10339769 GTACACTTTGTGTATACCATATGAAAAGGAAAG
1 GTACACTTTGTGTATA-CAT-TGAAAAGGAAAG
*
10339802 GTATACTTTGTGTATACCATATGAAAAGGAAAAG
1 GTACACTTTGTGTATA-CAT-TGAAAAGG-AAAG
*
10339836 G-ATACTTTGTGTATACCACTTGAAAAGGAAAG
1 GTACACTTTGTGTATA-CA-TTGAAAAGGAAAG
10339868 GTACACTATATGTGTATAC-TTGAAAAGGAAAG
1 GTACACT-T-TGTGTATACATTGAAAAGGAAAG
*
10339900 GTACACTATATGTGTACAC-TTGAAAAGG
1 GTACACT-T-TGTGTATACATTGAAAAGG
10339928 TTATGTGCAC
Statistics
Matches: 118, Mismatches: 3, Indels: 11
0.89 0.02 0.08
Matches are distributed among these distances:
32 45 0.38
33 57 0.48
34 8 0.07
35 8 0.07
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (31 bp):
GTACACTTTGTGTATACATTGAAAAGGAAAG
Found at i:10339828 original size:66 final size:68
Alignment explanation
Indices: 10339771--10339927 Score: 195
Period size: 66 Copynumber: 2.4 Consensus size: 68
10339761 AAGGTTATGT
*
10339771 ACACTTTGTGTATACCA-TATGAAAAGGAAAGGTATACT-T-TGTGTATACCATATGAAAAGGAA
1 ACACTTTGTGTATACCACT-TGAAAAGGAAAGGTACACTATATGTGTATACCATATGAAAAGGAA
10339833 AAGG
65 AAGG
*
10339837 ATACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATATGTGTATA-C-T-TGAAAAGG-AA
1 ACACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATATGTGTATACCATATGAAAAGGAAA
10339898 AGG
66 AGG
* * *
10339901 TACACTATATGTGTA-CACTTGAAAAGG
1 -ACACTTTGTGTATACCACTTGAAAAGG
10339928 TTATGTGCAC
Statistics
Matches: 81, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
64 17 0.21
65 18 0.22
66 35 0.43
67 3 0.04
68 8 0.10
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (68 bp):
ACACTTTGTGTATACCACTTGAAAAGGAAAGGTACACTATATGTGTATACCATATGAAAAGGAAA
AGG
Found at i:10339959 original size:33 final size:32
Alignment explanation
Indices: 10339911--10339972 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
10339901 TACACTATAT
* * *
10339911 GTGTACACTTGAAAAGGTTATGTGCACTTTGA
1 GTGTACAATTGAAAAGGCTATGTACACTTTGA
10339943 GTGTACAAATTGAAAAGGCTATGTACACTT
1 GTGTAC-AATTGAAAAGGCTATGTACACTT
10339973 CATGTGTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 6 0.23
33 20 0.77
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (32 bp):
GTGTACAATTGAAAAGGCTATGTACACTTTGA
Found at i:10339978 original size:65 final size:65
Alignment explanation
Indices: 10339900--10340025 Score: 157
Period size: 65 Copynumber: 1.9 Consensus size: 65
10339890 AAAAGGAAAG
** * * *
10339900 GTACACTATATGTGTA-CACTTGAAAAGGTTATGTGCACTTTGAGTGTACAAATTGAAAAGGCTA
1 GTACACTATATGTGTACCACTTGAAAAGGGAATGTGCACCTCGA-TGTACAAATAGAAAAGGCTA
10339964 T
65 T
* *
10339965 GTACACT-TCATGTGTACCACTTGGAAAGGGAATGTGCACCTCGATGTACAACTAGAAAAGG
1 GTACACTAT-ATGTGTACCACTTGAAAAGGGAATGTGCACCTCGATGTACAAATAGAAAAGG
10340026 AAAAGTCCAT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
64 1 0.02
65 29 0.56
66 22 0.42
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (65 bp):
GTACACTATATGTGTACCACTTGAAAAGGGAATGTGCACCTCGATGTACAAATAGAAAAGGCTAT
Found at i:10339993 original size:33 final size:32
Alignment explanation
Indices: 10339853--10339993 Score: 108
Period size: 32 Copynumber: 4.3 Consensus size: 32
10339843 TGTGTATACC
** * *
10339853 ACTTGAAAAGGAAAGGTACACTATATGTGTA-T
1 ACTTGAAAAGGCTATGTACACT-TATGTGTACA
** *
10339885 ACTTGAAAAGGAAAGGTACACTATATGTGTAC-
1 ACTTGAAAAGGCTATGTACACT-TATGTGTACA
* *
10339917 ACTTGAAAAGGTTATGTGCACTT-TGAGTGTACA
1 ACTTGAAAAGGCTATGTACACTTAT--GTGTACA
* *
10339950 AATTGAAAAGGCTATGTACACTTCATGTGTACC
1 ACTTGAAAAGGCTATGTACACTT-ATGTGTACA
*
10339983 ACTTGGAAAGG
1 ACTTGAAAAGG
10339994 GAATGTGCAC
Statistics
Matches: 93, Mismatches: 10, Indels: 11
0.82 0.09 0.10
Matches are distributed among these distances:
30 1 0.01
31 1 0.01
32 55 0.59
33 35 0.38
35 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (32 bp):
ACTTGAAAAGGCTATGTACACTTATGTGTACA
Found at i:10343679 original size:31 final size:30
Alignment explanation
Indices: 10343636--10343721 Score: 127
Period size: 31 Copynumber: 2.8 Consensus size: 30
10343626 TCAATCTCAG
10343636 CATATACTGGGCCGAAGCCTTTACATTATT
1 CATATACTGGGCCGAAGCCTTTACATTATT
**
10343666 CATATCACTGGGCCGAAGCCTTTTGATTATT
1 CATAT-ACTGGGCCGAAGCCTTTACATTATT
*
10343697 CATATAACTAGGCCGAAGCCTTTAC
1 CATAT-ACTGGGCCGAAGCCTTTAC
10343722 TGTAACAATA
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTACATTATT
Found at i:10351937 original size:25 final size:26
Alignment explanation
Indices: 10351909--10351968 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 26
10351899 CTGGAGGCCT
10351909 AGCCTCTTTTAAT-AACTGAGGCAAA
1 AGCCTCTTTTAATAAACTGAGGCAAA
* * *
10351934 AGCC-CTTTTTGATAAACTGGGGCACA
1 AGCCTC-TTTTAATAAACTGAGGCAAA
10351960 AGCCT-TTTT
1 AGCCTCTTTT
10351969 CGGTAAACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
24 1 0.03
25 14 0.48
26 14 0.48
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (26 bp):
AGCCTCTTTTAATAAACTGAGGCAAA
Found at i:10351962 original size:26 final size:26
Alignment explanation
Indices: 10351922--10351992 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
10351912 CTCTTTTAAT
*
10351922 AACTGAGGCAAAAGCCCTTTTT-GATA
1 AACTGGGGC-AAAGCCCTTTTTCGATA
*
10351948 AACTGGGGCACAAG-CCTTTTTCGGTA
1 AACTGGGGCA-AAGCCCTTTTTCGATA
* *
10351974 AACTAGGGCATAGCCCTTT
1 AACTGGGGCAAAGCCCTTT
10351993 CGCACTTCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
25 10 0.26
26 28 0.74
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:10357024 original size:13 final size:13
Alignment explanation
Indices: 10357006--10357031 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10356996 TAATATTGCA
10357006 TGAAAATTTTTAT
1 TGAAAATTTTTAT
10357019 TGAAAATTTTTAT
1 TGAAAATTTTTAT
10357032 CAATTATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TGAAAATTTTTAT
Found at i:10357513 original size:20 final size:22
Alignment explanation
Indices: 10357483--10357530 Score: 64
Period size: 21 Copynumber: 2.2 Consensus size: 22
10357473 GAATATGCTG
*
10357483 TAAATTGAAAG-TTTTTGATAGA
1 TAAA-TGAAAGATTGTTGATAGA
10357505 -AAATGAAAGATTGTTGATAGA
1 TAAATGAAAGATTGTTGATAGA
10357526 TAAAT
1 TAAAT
10357531 CACTTTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (22 bp):
TAAATGAAAGATTGTTGATAGA
Found at i:10358240 original size:33 final size:33
Alignment explanation
Indices: 10358215--10358362 Score: 208
Period size: 33 Copynumber: 4.4 Consensus size: 33
10358205 AAAAGGTTAT
*
10358215 GTACACTTTTTGTATACCATATGAAAAGGAAAG
1 GTACACTTTGTGTATACCATATGAAAAGGAAAG
* * *
10358248 GTATACTTTGTGTATACCAAATGAAAAGGAAAT
1 GTACACTTTGTGTATACCATATGAAAAGGAAAG
*
10358281 GTATACTTTGTGTATACCATATGAAAAGGAAAG
1 GTACACTTTGTGTATACCATATGAAAAGGAAAG
*
10358314 GTATACTTTGTGTATACCACT-TGAAAAGGAAAG
1 GTACACTTTGTGTATACCA-TATGAAAAGGAAAG
10358347 GTACACTATATGTGTA
1 GTACACT-T-TGTGTA
10358363 CACTTGAAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
33 97 0.92
34 2 0.02
35 6 0.06
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.31
Consensus pattern (33 bp):
GTACACTTTGTGTATACCATATGAAAAGGAAAG
Found at i:10358273 original size:66 final size:66
Alignment explanation
Indices: 10358203--10358362 Score: 239
Period size: 66 Copynumber: 2.4 Consensus size: 66
10358193 TGGTACAACT
** *
10358203 TGAAAAGGTTATGTACACTTTTTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
1 TGAAAAGGAAATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
10358268 A
66 A
* *
10358269 TGAAAAGGAAATGTATACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAC
1 TGAAAAGGAAATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
*
10358334 T
66 A
*
10358335 TGAAAAGGAAAGGTACACTATATGTGTA
1 TGAAAAGGAAATGTACACT-T-TGTGTA
10358363 CACTTGAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
66 77 0.92
67 1 0.01
68 6 0.07
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (66 bp):
TGAAAAGGAAATGTACACTTTGTGTATACCATATGAAAAGGAAAGGTATACTTTGTGTATACCAA
A
Found at i:10358406 original size:33 final size:33
Alignment explanation
Indices: 10358358--10358473 Score: 135
Period size: 33 Copynumber: 3.5 Consensus size: 33
10358348 TACACTATAT
** *
10358358 GTGTAC-ACTTGAAAAGGTTATGTGCACTTTGA
1 GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
* * * *
10358390 GTGTACAAATTGAAAAGGGCATGTACACTTCGT
1 GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
* *
10358423 GTGTACCACTTGAAAAGGGAATGTGCACCTCGA
1 GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
*
10358456 GTGTACAACTAGAAAAGG
1 GTGTACAACTTGAAAAGG
10358474 AAAAATCCAT
Statistics
Matches: 69, Mismatches: 14, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
32 6 0.09
33 63 0.91
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (33 bp):
GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
Found at i:10366374 original size:14 final size:14
Alignment explanation
Indices: 10366355--10366386 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
10366345 TGGAATACGC
10366355 ATTCCTTGGAAATA
1 ATTCCTTGGAAATA
10366369 ATTCCTTGGAAATA
1 ATTCCTTGGAAATA
10366383 ATTC
1 ATTC
10366387 TACATTACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (14 bp):
ATTCCTTGGAAATA
Found at i:10369041 original size:18 final size:19
Alignment explanation
Indices: 10369018--10369056 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
10369008 ACGATGTTGA
10369018 TTTCTTTAAATTTTA-TTT
1 TTTCTTTAAATTTTAGTTT
10369036 TTTCTTTAAATTTTAGTTT
1 TTTCTTTAAATTTTAGTTT
10369055 TT
1 TT
10369057 AACATCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTCTTTAAATTTTAGTTT
Found at i:10369593 original size:11 final size:11
Alignment explanation
Indices: 10369569--10369608 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
10369559 TATTTTACTA
*
10369569 TTATTTCCATTT
1 TTATTTCTA-TT
*
10369581 TTATTTTTATT
1 TTATTTCTATT
10369592 TTATTTCTATT
1 TTATTTCTATT
10369603 TTATTT
1 TTATTT
10369609 AAAATTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.75
Consensus pattern (11 bp):
TTATTTCTATT
Found at i:10372733 original size:20 final size:20
Alignment explanation
Indices: 10372686--10372734 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
10372676 GTGTGGTCAC
* *
10372686 ACACGCCCGTGTGGCTTGGG
1 ACACGCTCGAGTGGCTTGGG
10372706 ACACGCTCGAGTGGCTTGGG
1 ACACGCTCGAGTGGCTTGGG
*
10372726 ACATGCTCG
1 ACACGCTCG
10372735 TGTCCTCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.14, C:0.29, G:0.37, T:0.20
Consensus pattern (20 bp):
ACACGCTCGAGTGGCTTGGG
Found at i:10375090 original size:44 final size:45
Alignment explanation
Indices: 10375022--10375115 Score: 172
Period size: 44 Copynumber: 2.1 Consensus size: 45
10375012 ATCCGTATAA
*
10375022 TCAATCATACAATTTATATCATAATAACAATAAAGCATTTAAAAT
1 TCAATCATACAATTTATATAATAATAACAATAAAGCATTTAAAAT
10375067 TCAA-CATACAATTTATATAATAATAACAATAAAGCATTTAAAAT
1 TCAATCATACAATTTATATAATAATAACAATAAAGCATTTAAAAT
10375111 TCAAT
1 TCAAT
10375116 TATAACATTG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 43 0.91
45 4 0.09
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (45 bp):
TCAATCATACAATTTATATAATAATAACAATAAAGCATTTAAAAT
Found at i:10378725 original size:27 final size:26
Alignment explanation
Indices: 10378673--10378732 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
10378663 ATATATATAT
*
10378673 ATATCTGTATTGGTGGCCTAGCCACA
1 ATATCTGTATTGGTGACCTAGCCACA
* * *
10378699 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTAT-TGGTGACCTAGCCACA
10378726 ATATCTG
1 ATATCTG
10378733 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTATTGGTGACCTAGCCACA
Found at i:10386142 original size:2 final size:2
Alignment explanation
Indices: 10386135--10386159 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10386125 TCATGACATG
10386135 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10386160 GACTAGTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10392371 original size:41 final size:40
Alignment explanation
Indices: 10392303--10392450 Score: 199
Period size: 41 Copynumber: 3.6 Consensus size: 40
10392293 AATTATTCCT
* * *
10392303 TGAATTGCACATACATGCTCC-TATTTGTACTTCGATACCTC
1 TGAATTGCACATACGTGC-CCTTGTTTGTACTTCGGTACC-C
10392344 TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
1 TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
* *
10392384 TTGAATTGCCCATACGTGCCCTTGTTTGTACTTTGGTACCC
1 -TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
* *
10392425 TGAATTGCACATAAGTGCCCCTGTTT
1 TGAATTGCACATACGTGCCCTTGTTT
10392451 ACACTTCAAT
Statistics
Matches: 97, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
40 26 0.27
41 71 0.73
ACGTcount: A:0.20, C:0.26, G:0.18, T:0.36
Consensus pattern (40 bp):
TGAATTGCACATACGTGCCCTTGTTTGTACTTCGGTACCC
Found at i:10395245 original size:30 final size:30
Alignment explanation
Indices: 10395171--10395248 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 30
10395161 CGACAACTAT
* * * *
10395171 CAAACTATGAAAAGGGATGGCTTCGGCTGT
1 CAAAATATGAAAAGGGATAGCTCCGGCTGG
* *
10395201 CAAAACATGGAAAGGGATAGCTCCGGC-GAG
1 CAAAATATGAAAAGGGATAGCTCCGGCTG-G
*
10395231 CAAATTATGAAAAGGGAT
1 CAAAATATGAAAAGGGAT
10395249 GGTGATGACC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.37, C:0.15, G:0.29, T:0.18
Consensus pattern (30 bp):
CAAAATATGAAAAGGGATAGCTCCGGCTGG
Found at i:10395269 original size:29 final size:29
Alignment explanation
Indices: 10395237--10395486 Score: 191
Period size: 29 Copynumber: 8.4 Consensus size: 29
10395227 CGAGCAAATT
*
10395237 ATGAAAAGGGATGGTGATGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
*
10395266 ATGAAAAGGCATGGTGACGACCATCAACA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* ** *
10395295 ATGAAAATGGATGGTGGTGACCATCAAAA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* *** **** *
10395324 TTATGAAAAGGGATCGCTTTTGTTGTTGAATC-
1 --ATGAAAAGGGAT-GGTGACGACCATCAA-CA
* * * *
10395356 ATGAAAAGGGATAGCT-CCGGCTATCAA-A
1 ATGAAAAGGGAT-GGTGACGACCATCAACA
*
10395384 TTATGAAAAGGGATGGAGACGACCATCAACA
1 --ATGAAAAGGGATGGTGACGACCATCAACA
*
10395415 ATGAAAAGGGATGGTGACGACCATCAAAA
1 ATGAAAAGGGATGGTGACGACCATCAACA
* *
10395444 ATGAAAAGGGATGGTGATGACCATCAAAA
1 ATGAAAAGGGATGGTGACGACCATCAACA
10395473 TTATGAAAAGGGAT
1 --ATGAAAAGGGAT
10395487 AGCTTTGGCT
Statistics
Matches: 177, Mismatches: 33, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
29 111 0.63
30 35 0.20
31 24 0.14
32 7 0.04
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.20
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAACA
Found at i:10395390 original size:30 final size:30
Alignment explanation
Indices: 10395356--10395576 Score: 101
Period size: 30 Copynumber: 7.4 Consensus size: 30
10395346 TTGTTGAATC
*
10395356 ATGAAAAGGGATAGCTCCGGCTATCAAATT
1 ATGAAAAGGGATAGCTACGGCTATCAAATT
* ** * *
10395386 ATGAAAAGGGATGGAGACGACCATCAACA--
1 ATGAAAAGGGATAGCTACGGCTATCAA-ATT
* * * *
10395415 ATGAAAAGGGAT-GGTGACGACCATCAAA-A
1 ATGAAAAGGGATAGCT-ACGGCTATCAAATT
* * * *
10395444 ATGAAAAGGGAT-GGTGATGACCATCAAAATT
1 ATGAAAAGGGATAGCT-ACGGCTATC-AAATT
** * * *
10395475 ATGAAAAGGGATAGCTTTGGCTGTTAAACT
1 ATGAAAAGGGATAGCTACGGCTATCAAATT
* * * * *
10395505 ATGGAAAGGGATGGCTTCGGCTGTCGAATT
1 ATGAAAAGGGATAGCTACGGCTATCAAATT
* * * * *
10395535 ATGAAAAGGTACAGCTTCCGCTATCGAATT
1 ATGAAAAGGGATAGCTACGGCTATCAAATT
*
10395565 ATAAAAAGGGAT
1 ATGAAAAGGGAT
10395577 GGTGTCAACA
Statistics
Matches: 153, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.01
29 47 0.31
30 85 0.56
31 17 0.11
32 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.22
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTACGGCTATCAAATT
Found at i:10395447 original size:149 final size:148
Alignment explanation
Indices: 10395176--10395543 Score: 529
Period size: 149 Copynumber: 2.5 Consensus size: 148
10395166 ACTATCAAAC
* * * * *
10395176 TATGAAAAGGGATGGCTTCGGCTGTCAAAACATGGAAAGGGATAGCTCCGGCGAGCAAATTATGA
1 TATGAAAAGGGATAGCTTTGGCTGT-TAAACATGGAAAGGGATAGCTCCGGCTATCAAATTATGA
* * * *
10395241 AAAGGGATGGTGATGACCATCAACAATGAAAAGGCATGGTGACGACCATCAACAATGAAAATGGA
65 AAAGGGATGGAGACGACCATCAACAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAAGGGA
*
10395306 TGGTGGTGACCATCAAAAT
130 TGGTGATGACCATCAAAAT
* * * * *
10395325 TATGAAAAGGGATCGCTTTTGTTGTTGAATCATGAAAAGGGATAGCTCCGGCTATCAAATTATGA
1 TATGAAAAGGGATAGCTTTGGCTGTT-AAACATGGAAAGGGATAGCTCCGGCTATCAAATTATGA
*
10395390 AAAGGGATGGAGACGACCATCAACAATGAAAAGGGATGGTGACGACCATCAAAAATGAAAAGGGA
65 AAAGGGATGGAGACGACCATCAACAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAAGGGA
10395455 TGGTGATGACCATCAAAAT
130 TGGTGATGACCATCAAAAT
* * * *
10395474 TATGAAAAGGGATAGCTTTGGCTGTTAAACTATGGAAAGGGATGGCTTCGGCTGTCGAATTATGA
1 TATGAAAAGGGATAGCTTTGGCTGTTAAAC-ATGGAAAGGGATAGCTCCGGCTATCAAATTATGA
10395539 AAAGG
65 AAAGG
10395544 TACAGCTTCC
Statistics
Matches: 193, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
148 3 0.02
149 190 0.98
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (148 bp):
TATGAAAAGGGATAGCTTTGGCTGTTAAACATGGAAAGGGATAGCTCCGGCTATCAAATTATGAA
AAGGGATGGAGACGACCATCAACAATGAAAAGGCATGGTGACGACCATCAAAAATGAAAAGGGAT
GGTGATGACCATCAAAAT
Found at i:10397296 original size:29 final size:29
Alignment explanation
Indices: 10397272--10397365 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
10397262 TCGCACACCC
* *
10397272 AGTGCCGTATTTTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
10397301 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
10397330 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
10397359 AGTGCCA
1 AGTGCCA
10397366 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 63 1.00
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.31
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:10397297 original size:58 final size:58
Alignment explanation
Indices: 10397235--10397365 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 58
10397225 ATTTAAGCCC
* * * * *
10397235 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTATTTTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
10397293 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
10397351 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
10397366 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
58 62 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:10404617 original size:57 final size:58
Alignment explanation
Indices: 10404556--10404685 Score: 165
Period size: 57 Copynumber: 2.3 Consensus size: 58
10404546 ATTTAAGCCC
* * * *
10404556 GCACACATAGTGCCATACCCTTCGAGC-TCGCACACCCAGTGCCGTAT-TTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCAT-GCACACCCAGTGCCATATATTTCCAGCAT
* * **
10404613 GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
10404671 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
10404686 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 37 0.59
58 26 0.41
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (58 bp):
GCACACTTAGTGCCATACACTTCCAGCATGCACACCCAGTGCCATATATTTCCAGCAT
Found at i:10404643 original size:29 final size:29
Alignment explanation
Indices: 10404593--10404685 Score: 170
Period size: 29 Copynumber: 3.2 Consensus size: 29
10404583 TCGCACACCC
*
10404593 AGTGCCGTAT-TTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
10404621 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
10404650 AGTGCCATATATTTCCAGCATGCACACTT
1 AGTGCCATATATTTCCAGCATGCACACTT
10404679 AGTGCCA
1 AGTGCCA
10404686 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
28 9 0.14
29 54 0.86
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
AGTGCCATATATTTCCAGCATGCACACTT
Found at i:10406832 original size:52 final size:52
Alignment explanation
Indices: 10406770--10406876 Score: 205
Period size: 52 Copynumber: 2.1 Consensus size: 52
10406760 TTGAATGTGG
10406770 TGATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAGTTGT
1 TGATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAGTTGT
*
10406822 TGATTTGGTACATTTATTATAAATGACATATATGGCTATTGGTGCTAGTTGT
1 TGATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAGTTGT
10406874 TGA
1 TGA
10406877 ATGGTACTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (52 bp):
TGATTTGGTACATTTATTATAAATGACATATATGGCTATTAGTGCTAGTTGT
Found at i:10408624 original size:40 final size:40
Alignment explanation
Indices: 10408579--10408809 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
10408569 GGATATAGCT
* * *
10408579 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
* *
10408619 ACTCGCACAATTGCCTTCGGGACTTAGCCAGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
10408659 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGCTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
10408699 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
** *
10408739 ACTCGCACAAATGCCTTCGGGACTT-GCCCGGAACTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
* * *
10408778 ACTAGCGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
10408810 TTATCATCCA
Statistics
Matches: 174, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
39 33 0.19
40 139 0.80
41 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:10414431 original size:16 final size:17
Alignment explanation
Indices: 10414391--10414432 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
10414381 CATCAAACAT
* *
10414391 TTCATAATCAATTATCA
1 TTCATAATCAATAACCA
10414408 TTCA-AATCAA-AACCA
1 TTCATAATCAATAACCA
10414423 TTCATAATCA
1 TTCATAATCA
10414433 TTCATATGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 7 0.32
16 11 0.50
17 4 0.18
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TTCATAATCAATAACCA
Found at i:10415117 original size:34 final size:34
Alignment explanation
Indices: 10415074--10415141 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
10415064 GTATGGTACT
10415074 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
1 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
10415108 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
1 AATAGGCATCTTAATTAGCCATTTAAAACTCATG
10415142 CCAAATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (34 bp):
AATAGGCATCTTAATTAGCCATTTAAAACTCATG
Found at i:10417750 original size:21 final size:21
Alignment explanation
Indices: 10417726--10417765 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10417716 CGATTTCTAT
10417726 CTATCA-GAAGCAGCTTTCAAA
1 CTATCACGAAGCA-CTTTCAAA
*
10417747 CTATCACGAATCACTTTCA
1 CTATCACGAAGCACTTTCA
10417766 CCTTCTCTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (21 bp):
CTATCACGAAGCACTTTCAAA
Found at i:10421632 original size:43 final size:43
Alignment explanation
Indices: 10421576--10421742 Score: 151
Period size: 43 Copynumber: 3.9 Consensus size: 43
10421566 AGCCTGTACA
* * *
10421576 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCACATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * * * *
10421618 ATGCCACTGTCCCAGACAAGGTCTTACACGTAATTGA-TTAACG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAA-TCACATATCG
** * * * *
10421661 ATGGAAATGTCTCAGACCTGGTCTTACAGGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
*
10421704 ATGCCAATGTCCCAGACATGGCCTTACATGTAATCACAT
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACAT
10421743 CTCGGTAACC
Statistics
Matches: 94, Mismatches: 26, Indels: 8
0.73 0.20 0.06
Matches are distributed among these distances:
42 8 0.09
43 84 0.89
44 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:10423778 original size:21 final size:21
Alignment explanation
Indices: 10423744--10423783 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10423734 AAACATAGAT
*
10423744 ATCCATCACTAAACTTTCATA
1 ATCCATCACTAAACATTCATA
10423765 ATCCATCA-TCAAACATTCA
1 ATCCATCACT-AAACATTCA
10423784 AAAACACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.40, C:0.30, G:0.00, T:0.30
Consensus pattern (21 bp):
ATCCATCACTAAACATTCATA
Found at i:10425320 original size:16 final size:16
Alignment explanation
Indices: 10425299--10425349 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
10425289 TAAAACATTT
10425299 TGATTTATTAAAATAA
1 TGATTTATTAAAATAA
* **
10425315 TGA--T-TTAACATTT
1 TGATTTATTAAAATAA
10425328 TGATTTATTAAAATAA
1 TGATTTATTAAAATAA
10425344 TGATTT
1 TGATTT
10425350 TGGTCTACGC
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 1 0.04
16 15 0.58
ACGTcount: A:0.41, C:0.02, G:0.08, T:0.49
Consensus pattern (16 bp):
TGATTTATTAAAATAA
Found at i:10425328 original size:29 final size:29
Alignment explanation
Indices: 10425292--10425349 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
10425282 ATTTTAATAA
10425292 AACATTTTGATTTATTAAAATAATGATTT
1 AACATTTTGATTTATTAAAATAATGATTT
10425321 AACATTTTGATTTATTAAAATAATGATTT
1 AACATTTTGATTTATTAAAATAATGATTT
10425350 TGGTCTACGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.48
Consensus pattern (29 bp):
AACATTTTGATTTATTAAAATAATGATTT
Found at i:10426216 original size:21 final size:22
Alignment explanation
Indices: 10426177--10426218 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10426167 TTTTAAGTAA
*
10426177 ATAATTTATGAAATCATTTAAG
1 ATAATATATGAAATCATTTAAG
*
10426199 ATAATATAT-AAATGATTTAA
1 ATAATATATGAAATCATTTAA
10426219 ACTAGATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.40
Consensus pattern (22 bp):
ATAATATATGAAATCATTTAAG
Found at i:10426225 original size:25 final size:25
Alignment explanation
Indices: 10426197--10426261 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
10426187 AAATCATTTA
*
10426197 AGATAATATATAAATGATTTAA-ACT
1 AGATAATATATAAAAGATTTAAGA-T
* *
10426222 AGATAATATAAAAAAGGTTTAAGAT
1 AGATAATATATAAAAGATTTAAGAT
*
10426247 ACATAATATATAAAA
1 AGATAATATATAAAA
10426262 AAATATTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (25 bp):
AGATAATATATAAAAGATTTAAGAT
Found at i:10426291 original size:12 final size:12
Alignment explanation
Indices: 10426251--10426291 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
10426241 TAAGATACAT
10426251 AATATATAAAAA
1 AATATATAAAAA
10426263 AATAT-TAAAGTAA
1 AATATATAAA--AA
10426276 AATATATAAAAA
1 AATATATAAAAA
10426288 AATA
1 AATA
10426292 AAATATACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.15
12 11 0.42
13 7 0.27
14 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (12 bp):
AATATATAAAAA
Found at i:10426375 original size:20 final size:19
Alignment explanation
Indices: 10426337--10426392 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 19
10426327 CAAGAAAGAA
10426337 TAAATAAAAAATAAATTAG
1 TAAATAAAAAATAAATTAG
10426356 TAAA-AAAAAATACAACTTAGG
1 TAAATAAAAAATA-AA-TTA-G
**
10426377 TATTTAAAAAATAAAT
1 TAAATAAAAAATAAAT
10426393 AAATAATGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 4 0.13
21 5 0.16
22 8 0.26
ACGTcount: A:0.64, C:0.04, G:0.05, T:0.27
Consensus pattern (19 bp):
TAAATAAAAAATAAATTAG
Found at i:10429840 original size:28 final size:28
Alignment explanation
Indices: 10429805--10429863 Score: 109
Period size: 28 Copynumber: 2.1 Consensus size: 28
10429795 CTAGGGTATA
*
10429805 TCGGTAATTTTGTTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
10429833 TCGGTAATTTTGCTCTTTAGGGGTAATT
1 TCGGTAATTTTGCTCTTTAGGGGTAATT
10429861 TCG
1 TCG
10429864 TGATCTACGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.17, C:0.10, G:0.25, T:0.47
Consensus pattern (28 bp):
TCGGTAATTTTGCTCTTTAGGGGTAATT
Found at i:10435483 original size:48 final size:48
Alignment explanation
Indices: 10435427--10435655 Score: 179
Period size: 48 Copynumber: 4.9 Consensus size: 48
10435417 ACACATGGTA
* * * *
10435427 AGATGCCAATTCCATATCCCAAATATGGTCTTACATGGGATCCCATAT
1 AGATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
* *
10435475 AGATGCCAATAT-CATGTCCTAGACATGGTCTTACATGGGA--ACGTAGGT
1 AGATGCCAAT-TCCATGTCCCAGACATGGTCTTACATGGGATCACATA--T
* * * *
10435523 CGATGCCAATGCAATGTCCCAGACATGGTCTTACATGAGATCACATAT
1 AGATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
* * * * * ** *
10435571 CGATG-C----CGATGGCCCA-ACTATGCTCATACATGAAATTACATAT
1 AGATGCCAATTCCATGTCCCAGAC-ATGGTCTTACATGGGATCACATAT
* *
10435614 CGATGCCAAATCCATGTCCCAGACATGGTCTTACATGGGATC
1 AGATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATC
10435656 GTACATAACC
Statistics
Matches: 143, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
42 2 0.01
43 33 0.23
44 1 0.01
46 3 0.02
47 1 0.01
48 96 0.67
49 3 0.02
50 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.26
Consensus pattern (48 bp):
AGATGCCAATTCCATGTCCCAGACATGGTCTTACATGGGATCACATAT
Found at i:10439329 original size:43 final size:42
Alignment explanation
Indices: 10439244--10439366 Score: 149
Period size: 43 Copynumber: 2.9 Consensus size: 42
10439234 AAATTATGAT
*
10439244 TTACGTGTAAGACCATGTCTGGGACGTTGACATCGTACTTGA
1 TTACATGTAAGACCATGTCTGGGACGTTGACATCGTACTTGA
** * * *
10439286 TTTTATGTAAGACCCTGTCTGGGACAG-TGGCATCGATATTTGA
1 TTACATGTAAGACCATGTCTGGGAC-GTTGACATCG-TACTTGA
* *
10439329 TTACATGTAAGACCATATCTGGGACGTTGACATTGTAC
1 TTACATGTAAGACCATGTCTGGGACGTTGACATCGTAC
10439367 GAGTTTTCTG
Statistics
Matches: 65, Mismatches: 13, Indels: 6
0.77 0.15 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACGTTGACATCGTACTTGA
Found at i:10444136 original size:41 final size:40
Alignment explanation
Indices: 10444071--10444223 Score: 182
Period size: 41 Copynumber: 3.8 Consensus size: 40
10444061 ATTATTCATT
* * *
10444071 GAATTGCACATACGTGCCCTTATTTTTACTTTGGTACCCTA
1 GAATTGCACATATGTACCC-TATTTGTACTTTGGTACCCTA
**
10444112 GAATTGCACATATGTACCTCTATTTGTACTTCAGTACCCCT-
1 GAATTGCACATATGTACC-CTATTTGTACTTTGGTA-CCCTA
* * *
10444153 GAATTGCACATATGTGCCCTGTTTGTACTTTGGTACCCCA
1 GAATTGCACATATGTACCCTATTTGTACTTTGGTACCCTA
*
10444193 GAATTGCACATATGTACCCCTTTTTGTACTT
1 GAATTGCACATATGTA-CCCTATTTGTACTT
10444224 CAATACCCCT
Statistics
Matches: 96, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 3 0.03
40 29 0.30
41 59 0.61
42 5 0.05
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (40 bp):
GAATTGCACATATGTACCCTATTTGTACTTTGGTACCCTA
Found at i:10444206 original size:81 final size:82
Alignment explanation
Indices: 10444070--10444295 Score: 305
Period size: 81 Copynumber: 2.8 Consensus size: 82
10444060 AATTATTCAT
* * * *
10444070 TGAATTGCACATACGTGCCCTTATTTTTACTTTGGTACCCTAGAATTGCACATATGTACCTCTAT
1 TGAATTGCACATATGTGCCCTTGTTTGTACTTTGGTACCCTAGAATTGCACATATGTACCCCTAT
*
10444135 TTGTACTTCAGTACCCC
66 TTGTACTTCAATACCCC
* *
10444152 TGAATTGCACATATGTGCCC-TGTTTGTACTTTGGTACCCCAGAATTGCACATATGTACCCCTTT
1 TGAATTGCACATATGTGCCCTTGTTTGTACTTTGGTACCCTAGAATTGCACATATGTACCCCTAT
10444216 TTGTACTTCAATACCCC
66 TTGTACTTCAATACCCC
* * * * *
10444233 TGAATTACACATATATGCCCTTGTTTGTA-TTTCGATACTCCTA-AATTGCACATAAGTGCCCCT
1 TGAATTGCACATATGTGCCCTTGTTTGTACTTT-GGTAC-CCTAGAATTGCACATATGTACCCCT
10444296 GTTTACACTC
Statistics
Matches: 128, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
81 76 0.59
82 49 0.38
83 3 0.02
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.37
Consensus pattern (82 bp):
TGAATTGCACATATGTGCCCTTGTTTGTACTTTGGTACCCTAGAATTGCACATATGTACCCCTAT
TTGTACTTCAATACCCC
Found at i:10444231 original size:41 final size:40
Alignment explanation
Indices: 10444071--10444295 Score: 173
Period size: 41 Copynumber: 5.5 Consensus size: 40
10444061 ATTATTCATT
* * * *** *
10444071 GAATTGCACATACGTGCCCTTATTTTTACTTTGGTACCCTA
1 GAATTGCACATATGTCCCCTT-TTTGTACTTCAATACCCCA
* * * *
10444112 GAATTGCACATATGTACCTCTATTTGTACTTCAGTACCCCT
1 GAATTGCACATATGT-CCCCTTTTTGTACTTCAATACCCCA
* * ***
10444153 GAATTGCACATATGTGCCCTGTTTGTACTTTGGTACCCCA
1 GAATTGCACATATGTCCCCTTTTTGTACTTCAATACCCCA
*
10444193 GAATTGCACATATGTACCCCTTTTTGTACTTCAATACCCCT
1 GAATTGCACATATGT-CCCCTTTTTGTACTTCAATACCCCA
* * * * * *
10444234 GAATTACACATATATGCCCTTGTTTGTATTTCGATACTCCTA
1 GAATTGCACATATGTCCCCTT-TTTGTACTTCAATAC-CCCA
*
10444276 -AATTGCACATAAGTGCCCCT
1 GAATTGCACATATGT-CCCCT
10444296 GTTTACACTC
Statistics
Matches: 147, Mismatches: 32, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
40 39 0.27
41 99 0.67
42 9 0.06
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (40 bp):
GAATTGCACATATGTCCCCTTTTTGTACTTCAATACCCCA
Found at i:10455087 original size:79 final size:82
Alignment explanation
Indices: 10454947--10455131 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
10454937 TCGAATGATG
* * *
10454947 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
10455011 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
10455027 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
10455089 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
10455107 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10455132 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:10455139 original size:40 final size:40
Alignment explanation
Indices: 10454948--10455139 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
10454938 CGAATGATGT
* * * * *
10454948 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
10454988 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
10455028 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
10455067 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
10455107 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
10455140 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:10455162 original size:79 final size:79
Alignment explanation
Indices: 10454947--10455164 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
10454937 TCGAATGATG
* * * * ** *
10454947 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
10455010 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
10455027 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
10455092 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
10455107 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
10455165 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:10463144 original size:79 final size:82
Alignment explanation
Indices: 10463004--10463188 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
10462994 TCGAATGATG
* * *
10463004 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
*
10463068 CGTGCGAGTTAATA-AA
66 CGTGCGAGTCAATATAA
* **
10463084 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
*
10463146 TCGTGCGAGTCACTATAA
65 TCGTGCGAGTCAATATAA
**
10463164 -CCGGGCTTCGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10463189 AGCGAGTCGT
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (82 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTCAATATAA
Found at i:10463196 original size:40 final size:40
Alignment explanation
Indices: 10463005--10463196 Score: 151
Period size: 40 Copynumber: 4.8 Consensus size: 40
10462995 CGAATGATGT
* * * * *
10463005 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAC
** * * * * *
10463045 CCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAAT
1 CCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTCACTAAAC
* * *
10463085 CCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAAC
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
*
10463124 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA-
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AAC
* *
10463164 CCGGGCTT-CGTCCCGAAGGCATTTGAGCGAGTC
1 CCGGG-TTAAGTCCCGAAGGCATTTGTGCGAGTC
10463197 GTTATATCCG
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
39 33 0.26
40 82 0.65
41 11 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAC
Found at i:10463219 original size:79 final size:79
Alignment explanation
Indices: 10463004--10463221 Score: 183
Period size: 79 Copynumber: 2.7 Consensus size: 79
10462994 TCGAATGATG
* * * * ** *
10463004 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAGGA-TCCGAAGGCAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGC-AAGTCACTAAACCCGGGTTA-AATTCCGAAGGCAT
*
10463067 TCGTGCGAGTTAATAAA
63 TCGTGCGAGTCAATAAA
* * * *
10463084 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
*
10463149 TGCGAGTCACTATAA
66 TGCGAGTCAATA-AA
** * ** * *
10463164 -CCGGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGTTATATCC-GGTTAAATTCCGAAGG
1 TCCGGGCTAAG-CCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGG
10463222 TACGTGATTC
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
79 69 0.61
80 44 0.39
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTAAACCCGGGTTAAATTCCGAAGGCATTCG
TGCGAGTCAATAAA
Found at i:10467625 original size:5 final size:5
Alignment explanation
Indices: 10467603--10467682 Score: 54
Period size: 5 Copynumber: 14.8 Consensus size: 5
10467593 CCTCCTATTT
*
10467603 TTTTA TTCTTA TTTTTA TTTTA TTTTA TTTTTA TTTTTC TTTTGA TTTTTA
1 TTTTA TT-TTA -TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTT-A -TTTTA
* * *
10467654 TTTTCA TTTCA ATTT- TCTTA TTTTA TTTT
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTT
10467683 GAAAGACATA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
4 2 0.03
5 31 0.52
6 21 0.35
7 6 0.10
ACGTcount: A:0.16, C:0.06, G:0.01, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:10467630 original size:22 final size:23
Alignment explanation
Indices: 10467603--10467651 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
10467593 CCTCCTATTT
10467603 TTTTATTCTTATTTTTATTTT-A
1 TTTTATTCTTATTTTTATTTTGA
* *
10467625 TTTTATTTTTATTTTTCTTTTGA
1 TTTTATTCTTATTTTTATTTTGA
10467648 TTTT
1 TTTT
10467652 TATTTTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTATTCTTATTTTTATTTTGA
Found at i:10467652 original size:7 final size:6
Alignment explanation
Indices: 10467602--10467662 Score: 72
Period size: 6 Copynumber: 10.5 Consensus size: 6
10467592 TCCTCCTATT
* * *
10467602 TTTTTA TTCTTA TTTTTA -TTTTA -TTTTA TTTTTA TTTTTC TTTTGA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
*
10467648 TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTT
10467663 CAATTTTCTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
5 10 0.21
6 37 0.79
ACGTcount: A:0.15, C:0.05, G:0.02, T:0.79
Consensus pattern (6 bp):
TTTTTA
Found at i:10474041 original size:64 final size:64
Alignment explanation
Indices: 10473960--10474143 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
10473950 AGACATTATG
* *
10473960 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * * * *
10474024 ATGTAGCTAGGTCGCATGCATGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
10474089 AA
63 AA
* * * *
10474091 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
10474144 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.20
64 20 0.21
65 8 0.08
66 15 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:10478194 original size:25 final size:25
Alignment explanation
Indices: 10478160--10478209 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10478150 CTTTGCTTGC
10478160 TCTGTTTCTTTTATATGAAAATAGA
1 TCTGTTTCTTTTATATGAAAATAGA
10478185 TCTGTTTCTTTTATATGAAAATAGA
1 TCTGTTTCTTTTATATGAAAATAGA
10478210 CTCATTAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (25 bp):
TCTGTTTCTTTTATATGAAAATAGA
Found at i:10478372 original size:2 final size:2
Alignment explanation
Indices: 10478365--10478391 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10478355 CATTTTAACT
10478365 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10478392 CACAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10489967 original size:38 final size:38
Alignment explanation
Indices: 10489913--10490284 Score: 251
Period size: 38 Copynumber: 9.1 Consensus size: 38
10489903 ACTTTTCAAA
* *
10489913 TTAACATGTATAACCGT-GTCATAGCCACTTAGCACCACG
1 TTAA-ATGTTTAACCGTGGT-ATATCCACTTAGCACCACG
*
10489952 TTAAATGTTTAACCGTGGTATATCCACTTAGCACCATG
1 TTAAATGTTTAACCGTGGTATATCCACTTAGCACCACG
* * * *
10489990 TTAATGAATCAATATATGTAACCGTGGCATGTCCATTTAGCACCACG
1 -T--T--A--AATGT-T-TAACCGTGGTATATCCACTTAGCACCACG
* *
10490037 TTACATGTTTAACCGTGGTATATCCACTTAGCACCATG
1 TTAAATGTTTAACCGTGGTATATCCACTTAGCACCACG
* * **
10490075 TTAATGAATCAATATATGTAACTGTGACATATCCACTTAGCACCACG
1 -T--T--A--AATGT-T-TAACCGTGGTATATCCACTTAGCACCACG
* *
10490122 TTACATGTTTAACCGTGGTATATCCACTTAGCACCATG
1 TTAAATGTTTAACCGTGGTATATCCACTTAGCACCACG
* **
10490160 TTAATGAATTAATATATGTAACCGTGACATATCCACTTAGCACCACG
1 -T--T--A--AATGT-T-TAACCGTGGTATATCCACTTAGCACCACG
* *
10490207 TTACATGTTTAACAGTGGTATATCCACTTAGCACCACG
1 TTAAATGTTTAACCGTGGTATATCCACTTAGCACCACG
* * * * *
10490245 TTACACGTATAATCATGGTATATCCACTTAGCACCACG
1 TTAAATGTTTAACCGTGGTATATCCACTTAGCACCACG
10490283 TT
1 TT
10490285 TTTTTTTCAT
Statistics
Matches: 264, Mismatches: 41, Indels: 57
0.73 0.11 0.16
Matches are distributed among these distances:
38 139 0.53
39 12 0.05
40 9 0.03
41 3 0.01
42 3 0.01
43 3 0.01
44 3 0.01
45 10 0.04
46 6 0.02
47 76 0.29
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (38 bp):
TTAAATGTTTAACCGTGGTATATCCACTTAGCACCACG
Found at i:10490015 original size:47 final size:47
Alignment explanation
Indices: 10489961--10490209 Score: 246
Period size: 47 Copynumber: 5.7 Consensus size: 47
10489951 GTTAAATGTT
* *
10489961 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
10490008 TAACCGTGGCATGTCCATTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
10490046 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATCAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
10490093 TAACTGTGACATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
10490131 TAACCGTGGTATATCCACTTAGCACCATGTTAATGAATTAATATATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
10490178 TAACCGTGACATATCCACTTAGCACCACGTTA
1 TAACCGTGGCATATCCACTTAGCACCACGTTA
10490210 CATGTTTAAC
Statistics
Matches: 160, Mismatches: 24, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
38 50 0.31
39 4 0.03
40 6 0.04
41 4 0.03
42 2 0.01
43 2 0.01
44 3 0.02
45 6 0.04
46 4 0.03
47 79 0.49
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.31
Consensus pattern (47 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:10490035 original size:85 final size:85
Alignment explanation
Indices: 10489923--10490247 Score: 560
Period size: 85 Copynumber: 3.8 Consensus size: 85
10489913 TTAACATGTA
* * *
10489923 TAACCGTGTCATAGCCACTTAGCACCACGTTAAATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
10489988 TGTTAATGAATCAATATATG
66 TGTTAATGAATCAATATATG
* * *
10490008 TAACCGTGGCATGTCCATTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
10490073 TGTTAATGAATCAATATATG
66 TGTTAATGAATCAATATATG
*
10490093 TAACTGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
10490158 TGTTAATGAATTAATATATG
66 TGTTAATGAATCAATATATG
*
10490178 TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACAGTGGTATATCCACTTAGCACCA
1 TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
*
10490243 CGTTA
66 TGTTA
10490248 CACGTATAAT
Statistics
Matches: 227, Mismatches: 13, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 227 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (85 bp):
TAACCGTGACATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
TGTTAATGAATCAATATATG
Found at i:10499386 original size:46 final size:46
Alignment explanation
Indices: 10499336--10499508 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
10499326 TGGTTGAGCA
*
10499336 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
10499382 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
10499429 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
10499475 CCCGAGCTTGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
10499509 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 15, Indels: 14
0.78 0.11 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 59 0.56
47 29 0.28
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:10499492 original size:93 final size:93
Alignment explanation
Indices: 10499333--10499503 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
10499323 GGATGGTTGA
* *
10499333 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
10499398 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
10499426 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
10499491 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
10499504 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10499770 original size:19 final size:20
Alignment explanation
Indices: 10499733--10499770 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
10499723 ATAAGGTGGT
10499733 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
10499753 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
10499771 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:10506607 original size:27 final size:27
Alignment explanation
Indices: 10506555--10506607 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
10506545 ATATCGTGTT
*
10506555 ATTTATTCAATCGAAATTTTTCAAAAC
1 ATTTATTCAATCGAAACTTTTCAAAAC
* *
10506582 ATTTCTTCAATCGGAAGCTTTT-AAAA
1 ATTTATTCAATC-GAAACTTTTCAAAA
10506608 TGGTTTGCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (27 bp):
ATTTATTCAATCGAAACTTTTCAAAAC
Found at i:10507842 original size:42 final size:42
Alignment explanation
Indices: 10507748--10507878 Score: 192
Period size: 42 Copynumber: 3.1 Consensus size: 42
10507738 TCATCGATCG
*
10507748 CACGCCTGTGTTAGAGCACACGGCCTACAACA-GGGTGACCA
1 CACGCCTATGTTAGAGCACACGGCCTACAACACGGGTGACCA
* *
10507789 CATGCCCATGTTAGAGCACACGGCCTACAACACGGGTGACCA
1 CACGCCTATGTTAGAGCACACGGCCTACAACACGGGTGACCA
* * * *
10507831 TACGCCTATGTTAGAGAACACGGCCTACCATACGGGTGACCA
1 CACGCCTATGTTAGAGCACACGGCCTACAACACGGGTGACCA
10507873 CACGCC
1 CACGCC
10507879 CGTGTGGCAT
Statistics
Matches: 79, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
41 29 0.37
42 50 0.63
ACGTcount: A:0.27, C:0.33, G:0.24, T:0.15
Consensus pattern (42 bp):
CACGCCTATGTTAGAGCACACGGCCTACAACACGGGTGACCA
Found at i:10511088 original size:30 final size:30
Alignment explanation
Indices: 10511053--10511110 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
10511043 TAGGCACTTC
10511053 CACATGGGT-GATCCACACGCCCATGTGTGA
1 CACATGGGTAGA-CCACACGCCCATGTGTGA
* *
10511083 CACATGGGTAGACCACATGCCCGTGTGT
1 CACATGGGTAGACCACACGCCCATGTGT
10511111 CATGGCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.22, C:0.29, G:0.28, T:0.21
Consensus pattern (30 bp):
CACATGGGTAGACCACACGCCCATGTGTGA
Found at i:10516207 original size:18 final size:18
Alignment explanation
Indices: 10516167--10516207 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10516157 AGGCCATTTT
10516167 TGGGCTTTGTGGGCCACA
1 TGGGCTTTGTGGGCCACA
*
10516185 CGGGC-TTGTGGGCCTACA
1 TGGGCTTTGTGGGCC-ACA
10516203 TGGGC
1 TGGGC
10516208 CCGTAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.10, C:0.24, G:0.41, T:0.24
Consensus pattern (18 bp):
TGGGCTTTGTGGGCCACA
Found at i:10516345 original size:27 final size:27
Alignment explanation
Indices: 10516315--10516598 Score: 300
Period size: 27 Copynumber: 10.5 Consensus size: 27
10516305 GAACTAGACC
*
10516315 CCCTTATGTGATAAAATGACTATTTTT
1 CCCTTATGTGATAAAATGACTATTTTG
* * *
10516342 CCCTCATGTGGTAAAATGACTGTTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* * *
10516369 CCCTTATATGGTAAAATGACTATTTTA
1 CCCTTATGTGATAAAATGACTATTTTG
10516396 CCCTTATGTGATAAAATGACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* * *
10516423 CTCTTATATGATAAAATAACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* *
10516450 CCCTTATATGATAAAATAACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* * *
10516477 CCCTTACGTGATAAAATGACTCTTTTT
1 CCCTTATGTGATAAAATGACTATTTTG
** * * *
10516504 CCCTTAAATGGTAAAATGATTGTTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* * *
10516531 CCCTCATATGATAAAATGTC-AGTTTTG
1 CCCTTATGTGATAAAATGACTA-TTTTG
* * *
10516558 CCCTTATGTGGTAAAAATGATTGTTTTG
1 CCCTTATGTGAT-AAAATGACTATTTTG
*
10516586 CCCCTATGTGATA
1 CCCTTATGTGATA
10516599 TATGTTTATA
Statistics
Matches: 214, Mismatches: 40, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
27 193 0.90
28 21 0.10
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACTATTTTG
Found at i:10516450 original size:81 final size:81
Alignment explanation
Indices: 10516315--10516573 Score: 349
Period size: 81 Copynumber: 3.2 Consensus size: 81
10516305 GAACTAGACC
* * *
10516315 CCCTTATGTGATAAAATGACTATTTTTCCCTCATGTGGTAAAATGACTGTTTTGCCCTTATATGG
1 CCCTTATGTGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGA
*
10516380 TAAAATGACTATTTTA
66 TAAAATGACTATTTTG
* * * * *
10516396 CCCTTATGTGATAAAATGACTATTTTGCTCTTATATGATAAAATAACTATTTTGCCCTTATATGA
1 CCCTTATGTGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGA
*
10516461 TAAAATAACTATTTTG
66 TAAAATGACTATTTTG
* * * * *
10516477 CCCTTACGTGATAAAATGACTCTTTTTCCCTTAAATGGTAAAATGATTGTTTTGCCCTCATATGA
1 CCCTTATGTGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGA
*
10516542 TAAAATGTC-AGTTTTG
66 TAAAATGACTA-TTTTG
*
10516558 CCCTTATGTGGTAAAA
1 CCCTTATGTGATAAAA
10516574 ATGATTGTTT
Statistics
Matches: 153, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
80 1 0.01
81 152 0.99
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (81 bp):
CCCTTATGTGATAAAATGACTATTTTTCCCTTATATGGTAAAATGACTGTTTTGCCCTTATATGA
TAAAATGACTATTTTG
Found at i:10516895 original size:18 final size:18
Alignment explanation
Indices: 10516872--10516908 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10516862 GGACTTGCAT
10516872 ACTGTTTA-TTATTACTGC
1 ACTGTTTACTT-TTACTGC
10516890 ACTGTTTACTTTTACTGC
1 ACTGTTTACTTTTACTGC
10516908 A
1 A
10516909 ATGGGCTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.22, C:0.19, G:0.11, T:0.49
Consensus pattern (18 bp):
ACTGTTTACTTTTACTGC
Found at i:10530183 original size:39 final size:39
Alignment explanation
Indices: 10530140--10530351 Score: 280
Period size: 39 Copynumber: 5.4 Consensus size: 39
10530130 ACCTTTAAGT
* * *
10530140 ATATATCACATTACACATATAATCACATAACATTTAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
* * * * * **
10530179 ATATACCATAACACTCATATATTCACATAACATTTAAAT
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
*
10530218 ATATATCACAATACTCATATAATCACATAACACTCAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
*
10530257 ATATATCACAATACTCATATAATCACGTAACATTCAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
* * *
10530296 ACATATCACAATACTTATATAATCACATTACATTCAAGC
1 ATATATCACAATACTCATATAATCACATAACATTCAAGC
*
10530335 ATATATCAGAATACTCA
1 ATATATCACAATACTCA
10530352 AATACATGTT
Statistics
Matches: 148, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 148 1.00
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (39 bp):
ATATATCACAATACTCATATAATCACATAACATTCAAGC
Found at i:10530209 original size:19 final size:19
Alignment explanation
Indices: 10530185--10530253 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
10530175 AAGCATATAC
10530185 CATAACACTCATATATTCA
1 CATAACACTCATATATTCA
* *
10530204 CATAACATTTAAATATATATCA
1 CATAACA-CT-CATATAT-TCA
* *
10530226 C--AATACTCATATAATCA
1 CATAACACTCATATATTCA
10530243 CATAACACTCA
1 CATAACACTCA
10530254 AGCATATATC
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.11
18 5 0.13
19 15 0.39
20 4 0.11
21 6 0.16
22 4 0.11
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (19 bp):
CATAACACTCATATATTCA
Found at i:10532330 original size:3 final size:3
Alignment explanation
Indices: 10532324--10532357 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
10532314 TGCCGTAACT
10532324 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
10532358 AATCTTTGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:10533436 original size:2 final size:2
Alignment explanation
Indices: 10533429--10533457 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10533419 AAGTATGCAT
10533429 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10533458 GTGCATGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10534336 original size:39 final size:39
Alignment explanation
Indices: 10534228--10534460 Score: 346
Period size: 39 Copynumber: 6.0 Consensus size: 39
10534218 TGAGGTCTGC
*
10534228 AGGC-TTTATGCTGGTATTATATCTGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
10534266 AGGC-TTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
10534304 AGGCATTTGTGATGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
10534343 AGGCATTTGTGCTGGTGTTATATTCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
*
10534382 AGGCATTTATGCTGGTATTATATCCGGGCTAAAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
10534422 AGGC-TTTATGCTGGTATTATATCCGGGCTTAAAGTCCCG
1 AGGCATTTATGCTGGTATTATATCCGGGC-T-AAGTCCCG
10534461 CATGCTTTTT
Statistics
Matches: 182, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.23
39 119 0.65
40 22 0.12
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:10534616 original size:18 final size:18
Alignment explanation
Indices: 10534593--10534628 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
10534583 AAGTTGGTCA
10534593 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
10534611 GGTATGTATTATATACTT
1 GGTATGTATTATATACTT
10534629 TTATATGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (18 bp):
GGTATGTATTATATACTT
Found at i:10537570 original size:40 final size:39
Alignment explanation
Indices: 10537525--10537723 Score: 219
Period size: 40 Copynumber: 5.1 Consensus size: 39
10537515 CGGGATTTAA
* * *
10537525 CCGGATATAGCT-ACTCGCTCGAATGCCTTCGAGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCG-GACTTAGC
* *
10537565 CCGGATGTAGTAACTCGCACAAATGCCTTCGGGCTTA-C
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
* *
10537603 CCGGATATAGTAACT--CACAAATGCCTTCGGGCTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
*
10537640 CCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTC-GGACTTAGC
* * *
10537680 CCGGA-ACTAGTCACTAGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTC-GGACTTAGC
10537720 CCGG
1 CCGG
10537724 TTATCATCCG
Statistics
Matches: 140, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
36 20 0.14
37 15 0.11
38 15 0.11
39 19 0.14
40 71 0.51
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGACTTAGC
Found at i:10537656 original size:75 final size:79
Alignment explanation
Indices: 10537546--10537717 Score: 228
Period size: 75 Copynumber: 2.2 Consensus size: 79
10537536 TACTCGCTCG
* * * * *
10537546 AATGCCTTCGAGACATAGCCCGGATGTAGTAACTCGCACAAATGCCTTCGGG-CTTA-CCCGGAT
1 AATGCCTTCGGGACTTAACCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-
10537609 A-TAGTAACT-CACA
65 ACTAGTAACTACACA
10537622 AATGCCTTCGGG-CTTAACCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
1 AATGCCTTCGGGACTTAACCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
* *
10537686 CTAGTCACTAGCGCA
66 CTAGTAACTA-CACA
10537701 AATGCCTTCGGGACTTA
1 AATGCCTTCGGGACTTA
10537718 GCCCGGTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 8
0.85 0.07 0.08
Matches are distributed among these distances:
75 35 0.42
76 16 0.19
77 13 0.16
79 15 0.18
80 4 0.05
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCAGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
CTAGTAACTACACA
Found at i:10545720 original size:40 final size:40
Alignment explanation
Indices: 10545650--10545904 Score: 324
Period size: 39 Copynumber: 6.5 Consensus size: 40
10545640 CAAGCCAGTA
* * * *
10545650 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
10545689 CCTTCGGGACATAGCCCGGATGTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
10545729 CCTTCGGGACTTAGCCCGGATATAGTAACTCTCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
10545769 CCTTCGGG-CTTAACCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
10545808 CCTTCGGG-CTTAACCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * * *
10545847 CCTTCTGGACTTAG-CCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
10545886 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
10545905 TTATCATCCG
Statistics
Matches: 193, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 1 0.01
39 119 0.62
40 73 0.38
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:10553585 original size:34 final size:34
Alignment explanation
Indices: 10553546--10553610 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
10553536 CGAAAAAGAG
*
10553546 AAAGAAAGGAAA-GGAGGAGGAATGAGG-GAGGAGA
1 AAAGAAA-GAAAGGGAGG-GGAAAGAGGAGAGGAGA
10553580 AAAGAAAGAAAGGGAGGGGAAAGAGGAGAGG
1 AAAGAAAGAAAGGGAGGGGAAAGAGGAGAGG
10553611 GGTGGTCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 12 0.43
34 16 0.57
ACGTcount: A:0.51, C:0.00, G:0.48, T:0.02
Consensus pattern (34 bp):
AAAGAAAGAAAGGGAGGGGAAAGAGGAGAGGAGA
Done.