Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 143 of 207
Found at i:43884399 original size:30 final size:30
Alignment explanation
Indices: 43884328--43884400 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
43884318 ATAGGCTAGG
*
43884328 ACACGACCATGTGTCCTTAGTTCGAAGGTT
1 ACACGACCATGTGTCCCTAGTTCGAAGGTT
* *
43884358 ACAC-AGTCATGTGTCCCTAGTTCGAATGTT
1 ACACGA-CCATGTGTCCCTAGTTCGAAGGTT
43884388 ACACGACCATGTG
1 ACACGACCATGTG
43884401 ACCCATGTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.03
30 35 0.95
31 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.22, T:0.29
Consensus pattern (30 bp):
ACACGACCATGTGTCCCTAGTTCGAAGGTT
Found at i:43890526 original size:24 final size:24
Alignment explanation
Indices: 43890490--43890537 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
43890480 AATAAAAACA
*
43890490 ATTAAAATCATATTTATATTAAAT
1 ATTAAAATCATATTAATATTAAAT
* * *
43890514 ATTAAATTTATATTAATGTTAAAT
1 ATTAAAATCATATTAATATTAAAT
43890538 GATAGTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTAAAATCATATTAATATTAAAT
Found at i:43895627 original size:21 final size:20
Alignment explanation
Indices: 43895591--43895640 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
43895581 TTAATATTGT
*
43895591 TATTATTATTGCTATTAATA
1 TATTATTATTACTATTAATA
* *
43895611 CTATTATTATTATTATTTATA
1 -TATTATTATTACTATTAATA
43895632 TATATATTA
1 TAT-TATTA
43895641 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 3 0.12
21 22 0.88
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TATTATTATTACTATTAATA
Found at i:43895747 original size:20 final size:20
Alignment explanation
Indices: 43895710--43895747 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
43895700 TTTATATTAT
*
43895710 TTTCATATATTATTATTTAA
1 TTTCATATATTATAATTTAA
43895730 TTTCATA-ATGTATAATTT
1 TTTCATATAT-TATAATTT
43895748 TATATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (20 bp):
TTTCATATATTATAATTTAA
Found at i:43897166 original size:4 final size:4
Alignment explanation
Indices: 43897159--43897184 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
43897149 AAAATGATAG
43897159 ATAA ATAA ATAA ATAA ATAA ATAA AT
1 ATAA ATAA ATAA ATAA ATAA ATAA AT
43897185 GAGATGTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
ATAA
Found at i:43910343 original size:27 final size:27
Alignment explanation
Indices: 43910266--43910344 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
43910256 TTCCTTTCCT
* * *
43910266 TAGATCGCTACAAAGGCTTCTATATCA
1 TAGATTGCTACAAAGGCTTCCATTTCA
*
43910293 TAGATTGCCACAAAGGCTTCCATTTCA
1 TAGATTGCTACAAAGGCTTCCATTTCA
* *
43910320 TAGGTTGCTACAAAGACTTCCATTT
1 TAGATTGCTACAAAGGCTTCCATTT
43910345 TCTAGCTTGT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (27 bp):
TAGATTGCTACAAAGGCTTCCATTTCA
Found at i:43924202 original size:27 final size:27
Alignment explanation
Indices: 43924164--43924217 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
43924154 GTATCTGAAT
*
43924164 TAGCCGCTCGGACTGACCATCGGTCTA
1 TAGCCACTCGGACTGACCATCGGTCTA
43924191 TAGCCACTCGGACTGACCATCGGTCTA
1 TAGCCACTCGGACTGACCATCGGTCTA
43924218 AGGATGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.33, G:0.24, T:0.22
Consensus pattern (27 bp):
TAGCCACTCGGACTGACCATCGGTCTA
Found at i:43928351 original size:20 final size:20
Alignment explanation
Indices: 43928328--43928366 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
43928318 TAAGAAAAAG
43928328 ATAGAAAAATTGGACTGCAA
1 ATAGAAAAATTGGACTGCAA
43928348 ATAGAAAAATTGGACTGCA
1 ATAGAAAAATTGGACTGCA
43928367 GGGGTCACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.49, C:0.10, G:0.21, T:0.21
Consensus pattern (20 bp):
ATAGAAAAATTGGACTGCAA
Found at i:43942971 original size:30 final size:30
Alignment explanation
Indices: 43942937--43942995 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
43942927 TTTTTCGTTA
* * *
43942937 TTCGATAATCAAAGTTATCCCTTTTCATAG
1 TTCGACAATCAAAGCTATCCCGTTTCATAG
* *
43942967 TTCGACATTCGAAGCTATCCCGTTTCATA
1 TTCGACAATCAAAGCTATCCCGTTTCATA
43942996 ATTTGATGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (30 bp):
TTCGACAATCAAAGCTATCCCGTTTCATAG
Found at i:43943017 original size:30 final size:30
Alignment explanation
Indices: 43942983--43943055 Score: 119
Period size: 30 Copynumber: 2.4 Consensus size: 30
43942973 ATTCGAAGCT
* *
43942983 ATCCCGTTTCATAATTTGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
*
43943013 ATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTCGATGGTCGTCACC
43943043 ATCCCTTTTCATA
1 ATCCCTTTTCATA
43943056 TATTGATAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.19, C:0.29, G:0.14, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATGGTCGTCACC
Found at i:43943062 original size:60 final size:59
Alignment explanation
Indices: 43942983--43943204 Score: 177
Period size: 60 Copynumber: 3.7 Consensus size: 59
43942973 ATTCGAAGCT
* * *
43942983 ATCCCGTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATAGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAA-TTGATAG-CGTAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
* * * * * * * *
43943043 ATCCCTTTTCATATATTGATAGCCG-AAGCTAACCATTTTTAGAGATT-GATAGCCG-AACCC
1 ATCCCTTTTCATA-ATTGATAG-CGTAAGCCATCCCTTTTCATAG-TTCGATGGTCGTCA-CC
* *
43943103 ATCCCTTTTCATAGATTGATAGC-TAAAGCCATCTCTTTTCATAGTTCGATGGTCATCACC
1 ATCCCTTTTCATA-ATTGATAGCGT-AAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
* * *
43943163 ATCCCTTTTCATAATCGATAGCCG-AAGCTATCCCTTTCCATA
1 ATCCCTTTTCATAATTGATAG-CGTAAGCCATCCCTTTTCATA
43943205 TCCGATAGCT
Statistics
Matches: 125, Mismatches: 27, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
59 27 0.22
60 94 0.75
61 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.35
Consensus pattern (59 bp):
ATCCCTTTTCATAATTGATAGCGTAAGCCATCCCTTTTCATAGTTCGATGGTCGTCACC
Found at i:43943195 original size:29 final size:30
Alignment explanation
Indices: 43943011--43943204 Score: 135
Period size: 30 Copynumber: 6.5 Consensus size: 30
43943001 ATGGTCGTCA
* * * *
43943011 CCATCCCTTTTCATAGTTCGATGGTCGTCA-
1 CCATCCCTTTTCATAGATCGATAGCCG-AAG
* *
43943041 CCATCCCTTTTCATATATTGATAGCCGAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* * * * * * *
43943071 CTAACCATTTTTAGAGATTGATAGCCGAAC
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* **
43943101 CCATCCCTTTTCATAGATTGATAGCTAAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* * * *
43943131 CCATCTCTTTTCATAGTTCGATGGTC-ATCA-
1 CCATCCCTTTTCATAGATCGATAGCCGA--AG
43943161 CCATCCCTTTTCATA-ATCGATAGCCGAAG
1 CCATCCCTTTTCATAGATCGATAGCCGAAG
* *
43943190 CTATCCCTTTCCATA
1 CCATCCCTTTTCATA
43943205 TCCGATAGCT
Statistics
Matches: 126, Mismatches: 33, Indels: 11
0.74 0.19 0.06
Matches are distributed among these distances:
28 1 0.01
29 22 0.17
30 102 0.81
31 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.13, T:0.34
Consensus pattern (30 bp):
CCATCCCTTTTCATAGATCGATAGCCGAAG
Found at i:43943210 original size:29 final size:29
Alignment explanation
Indices: 43943163--43943229 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
43943153 GGTCATCACC
* *
43943163 ATCCCTTTTCATAATCGATAGCCGAAGCT
1 ATCCCTTTCCATAATCGATAGCCGAACCT
*
43943192 ATCCCTTTCCAT-ATCCGATAGCTGAACCT
1 ATCCCTTTCCATAAT-CGATAGCCGAACCT
43943221 ATTCCCTTT
1 A-TCCCTTT
43943230 TATTCATCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
28 2 0.06
29 24 0.73
30 7 0.21
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.34
Consensus pattern (29 bp):
ATCCCTTTCCATAATCGATAGCCGAACCT
Found at i:43950868 original size:30 final size:29
Alignment explanation
Indices: 43950765--43950922 Score: 108
Period size: 30 Copynumber: 5.3 Consensus size: 29
43950755 ATGGTCGTCA
* **
43950765 CCATCCCTTTTCATAATGTGATACCCAAAG
1 CCATCCCTTTTCATAAT-TGATAGCTGAAG
* * * *
43950795 CTATCCATTTTTAGAGATTGATAG-TAGAAG
1 CCATCCCTTTTCATA-ATTGATAGCT-GAAG
43950825 CCATCCC-TTTCATATATTGATAGCTGAAG
1 CCATCCCTTTTCATA-ATTGATAGCTGAAG
* * *
43950854 CCATCCCTTTTCATATTTCGAT-GGTCGTCA-
1 CCATCCCTTTTCATAATT-GATAGCT-G-AAG
* *
43950884 CCATCCCTTTTCATAATCGATAGCCGAAG
1 CCATCCCTTTTCATAATTGATAGCTGAAG
*
43950913 CTATCCCTTT
1 CCATCCCTTT
43950923 CCGTATCCGA
Statistics
Matches: 98, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
28 1 0.01
29 41 0.42
30 53 0.54
31 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (29 bp):
CCATCCCTTTTCATAATTGATAGCTGAAG
Found at i:43953727 original size:48 final size:48
Alignment explanation
Indices: 43953671--43953765 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
43953661 CAAGAGTAGA
* *
43953671 AGCAACTAACTCTAGGTTGATTAATTGAAATCTCTTTCTTATTAAAAG
1 AGCAACTAACTCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAAG
*
43953719 AGCAACTAACTCTAGGTTGATTAATTAAAATCTTTTTCTAATTAAAA
1 AGCAACTAACTCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAA
43953766 CCCTATCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (48 bp):
AGCAACTAACTCTAGGTTGATTAATTAAAATCTCTTTCTAATTAAAAG
Found at i:43956490 original size:23 final size:23
Alignment explanation
Indices: 43956439--43956495 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
43956429 ATTCATAATC
* *
43956439 ATAAT-AAAAATAAAACTAAGTA
1 ATAATAAAAAATAAAAATAAGGA
43956461 ATAATAAAAAATAAAAATAAAGGA
1 ATAATAAAAAATAAAAAT-AAGGA
*
43956485 AT-ATAATAAAT
1 ATAATAAAAAAT
43956496 CAACAAAAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.17
23 19 0.63
24 6 0.20
ACGTcount: A:0.70, C:0.02, G:0.05, T:0.23
Consensus pattern (23 bp):
ATAATAAAAAATAAAAATAAGGA
Found at i:43956670 original size:17 final size:18
Alignment explanation
Indices: 43956625--43956671 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 18
43956615 AAAAAAATGA
43956625 AAATAAATATAATATAAAT
1 AAATAAA-ATAATATAAAT
*
43956644 AAGA-ATAATAA-ATAAAT
1 AA-ATAAAATAATATAAAT
43956661 AAATAAAATAA
1 AAATAAAATAA
43956672 GGAAGAAGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
16 1 0.04
17 14 0.58
18 4 0.17
19 4 0.17
20 1 0.04
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (18 bp):
AAATAAAATAATATAAAT
Found at i:43968313 original size:3 final size:3
Alignment explanation
Indices: 43968305--43968329 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
43968295 CTAATTTGGC
43968305 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
43968330 TTGTTCTTGT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:43976291 original size:55 final size:57
Alignment explanation
Indices: 43976231--43976341 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 57
43976221 CTAGCTATAT
* * *
43976231 AAAAAAAGTTGTTATATTGTATTTTACATCAATAATATA-CT-TATTTACAATCTAAG
1 AAAAAAAATT-TTATATTGTATTTCACATCAATAATATATATCTATTTACAATCTAAG
* * *
43976287 AAAAAAAATTTTGTATTTTATTTCATATCAATAATATATATCTATTTACAATCTA
1 AAAAAAAATTTTATATTGTATTTCACATCAATAATATATATCTATTTACAATCTA
43976342 CGAACTAAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
55 24 0.51
56 10 0.21
57 13 0.28
ACGTcount: A:0.43, C:0.09, G:0.05, T:0.43
Consensus pattern (57 bp):
AAAAAAAATTTTATATTGTATTTCACATCAATAATATATATCTATTTACAATCTAAG
Found at i:43983862 original size:9 final size:9
Alignment explanation
Indices: 43983838--43983880 Score: 61
Period size: 9 Copynumber: 4.7 Consensus size: 9
43983828 TATCAAAATT
43983838 ATAATATAA
1 ATAATATAA
43983847 CATAATATAA
1 -ATAATATAA
43983857 ATAATATAA
1 ATAATATAA
43983866 ATAATTATAA
1 ATAA-TATAA
43983876 A-AATA
1 ATAATA
43983881 GATATATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
8 2 0.06
9 15 0.47
10 15 0.47
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (9 bp):
ATAATATAA
Found at i:43983862 original size:19 final size:19
Alignment explanation
Indices: 43983838--43983880 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
43983828 TATCAAAATT
43983838 ATAATATAACATAA-TATAA
1 ATAATATAA-ATAATTATAA
43983857 ATAATATAAATAATTATAA
1 ATAATATAAATAATTATAA
43983876 A-AATA
1 ATAATA
43983881 GATATATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATAATATAAATAATTATAA
Found at i:43984825 original size:12 final size:12
Alignment explanation
Indices: 43984808--43984832 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43984798 AATTAATTAC
43984808 TTTAATATTAAA
1 TTTAATATTAAA
43984820 TTTAATATTAAA
1 TTTAATATTAAA
43984832 T
1 T
43984833 ATATTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:43988956 original size:15 final size:15
Alignment explanation
Indices: 43988936--43988965 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43988926 TGCTTTAGCA
*
43988936 AAGGCTTTGCGGCTG
1 AAGGCTTTGCAGCTG
43988951 AAGGCTTTGCAGCTG
1 AAGGCTTTGCAGCTG
43988966 CGGTAAGTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.20, G:0.37, T:0.27
Consensus pattern (15 bp):
AAGGCTTTGCAGCTG
Found at i:44008139 original size:26 final size:26
Alignment explanation
Indices: 44008110--44008160 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
44008100 ATTTTTTAAA
44008110 TTTAAATAAAGATTTAAACATAATTC
1 TTTAAATAAAGATTTAAACATAATTC
* *
44008136 TTTAAATAAATATTTTAACATAATT
1 TTTAAATAAAGATTTAAACATAATT
44008161 TTCTTCTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTAAATAAAGATTTAAACATAATTC
Found at i:44011131 original size:20 final size:20
Alignment explanation
Indices: 44011053--44011124 Score: 85
Period size: 20 Copynumber: 3.6 Consensus size: 20
44011043 AAAAATATAA
* *
44011053 ATTTTGAAAATTTTATAAA-T
1 ATTTTGAATATTTGA-AAATT
*
44011073 ATTTTGAAT-TTTAAAAATT
1 ATTTTGAATATTTGAAAATT
44011092 ATTTTGAATATTTGAAAATT
1 ATTTTGAATATTTGAAAATT
*
44011112 ATTTTGATTATTT
1 ATTTTGAATATTT
44011125 TGTAATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
18 3 0.07
19 14 0.30
20 29 0.63
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (20 bp):
ATTTTGAATATTTGAAAATT
Found at i:44013820 original size:18 final size:18
Alignment explanation
Indices: 44013788--44013834 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
44013778 AATTATATCA
*
44013788 TATAATTTA-TATTATTT
1 TATAATTCATTATTATTT
44013805 T-TAATATCATTATTATTT
1 TATAAT-TCATTATTATTT
44013823 TATAATTCATTA
1 TATAATTCATTA
44013835 AATTTTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 3 0.12
18 15 0.58
19 4 0.15
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (18 bp):
TATAATTCATTATTATTT
Found at i:44013839 original size:17 final size:19
Alignment explanation
Indices: 44013801--44013846 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
44013791 AATTTATATT
*
44013801 ATTTT-TAATATCATTATT
1 ATTTTATAATATCATTATA
44013819 ATTTTATAAT-TCATTA-A
1 ATTTTATAATATCATTATA
44013836 ATTTTAATAAT
1 ATTTT-ATAAT
44013847 CTAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 16 0.64
19 4 0.16
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTATAATATCATTATA
Found at i:44020513 original size:87 final size:87
Alignment explanation
Indices: 44020353--44020897 Score: 871
Period size: 87 Copynumber: 6.3 Consensus size: 87
44020343 AACAGATTAG
* *
44020353 TAAAGA-ATCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
*
44020417 CATCAGTTGCATTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
* * *
44020439 TAAAGATAGCAAATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGCCTTTCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
*
44020504 CATCGGTTGCAGTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
*
44020526 TAAAGA-AGCAGATCTTGCCTTCCTGTATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
44020590 CATCGGTTGCATTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
* *
44020612 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACGAAGCCTTGCATC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
44020677 CATCGGTTGCATTGGAGCTGGT
66 CATCGGTTGCATTGGAGCTGGT
44020699 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATC-AAGCCTTGCCT
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAA-CGAAGCCTTGCCT
* *
44020763 CCATCGGTTACAGTGGAGCTGGT
65 CCATCGGTTGCATTGGAGCTGGT
* *
44020786 TAAAGATAGCAGATCTTGCCTTTCTGCATTAACAGCGAAGTAGATCGAAAACGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
* * * ***
44020851 CATCGGTTGTAATAGAGCTAAC
66 CATCGGTTGCATTGGAGCTGGT
*
44020873 TAAAGATAGCAGATCTTACCTTCCT
1 TAAAGATAGCAGATCTTGCCTTCCT
44020898 AAGCACTAGT
Statistics
Matches: 427, Mismatches: 28, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
86 88 0.21
87 338 0.79
88 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (87 bp):
TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTC
CATCGGTTGCATTGGAGCTGGT
Found at i:44020920 original size:260 final size:258
Alignment explanation
Indices: 44020353--44020897 Score: 849
Period size: 260 Copynumber: 2.1 Consensus size: 258
44020343 AACAGATTAG
* * * * *
44020353 TAAAGA-ATCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAAATGAAGCCTTGCCTC
1 TAAAGATAGCAGATCTTACCTTCCTGCACTAA-A-CGAAGCAGATCGAAAACGAAGCCTTGCATC
44020417 CATCAGTTGCATTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCTGCATTAACAGCGAAGCAG
64 CATCAGTTGCATTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCTGCATTAACAGCGAAGCAG
* * *
44020482 ATCGAAAATGAAGCCTTTCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
129 ATCGAAAATCAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTT
* * * ***
44020547 CCTGTATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGCATTGGAGCTGGT
194 CCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGCAATAGAGCTAAC
* *
44020612 TAAAGATAGCAGATCTTGCCTTCCTGCATTAACAACGAAGCAGATCGAAAACGAAGCCTTGCATC
1 TAAAGATAGCAGATCTTACCTTCCTGCACT-A-AACGAAGCAGATCGAAAACGAAGCCTTGCATC
* *
44020677 CATCGGTTGCATTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTCCTGCATTAACAGCGAAGCAG
64 CATCAGTTGCATTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCTGCATTAACAGCGAAGCAG
44020742 ATCGAAAATCAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGATAGCAGATCTTGCCT
129 ATCGAAAATCAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGA-AGCAGATCTTGCCT
* * *
44020807 TTCTGCATTAACAGCGAAGTAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGTAATAGAGCTAA
193 TCCTGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGCAATAGAGCTAA
44020872 C
258 C
44020873 TAAAGATAGCAGATCTTACCTTCCT
1 TAAAGATAGCAGATCTTACCTTCCT
44020898 AAGCACTAGT
Statistics
Matches: 264, Mismatches: 18, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
259 6 0.02
260 160 0.61
261 97 0.37
262 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (258 bp):
TAAAGATAGCAGATCTTACCTTCCTGCACTAAACGAAGCAGATCGAAAACGAAGCCTTGCATCCA
TCAGTTGCATTGGAGCTGGTTAAAGATAGCAAATCTTGCCTTCCTGCATTAACAGCGAAGCAGAT
CGAAAATCAAGCCTTGCCTCCATCGGTTACAGTGGAGCTGGTTAAAGAAGCAGATCTTGCCTTCC
TGCATTAACAGCGAAGCAGATCGAAAACGAAGCCTTGCCTCCATCGGTTGCAATAGAGCTAAC
Found at i:44024494 original size:20 final size:20
Alignment explanation
Indices: 44024459--44024508 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
44024449 CTTTGCTACA
44024459 TGATTT-GTTGTTGTTTGAT
1 TGATTTAGTTGTTGTTTGAT
* *
44024478 TGATTTAGTTTTTGTTTGCT
1 TGATTTAGTTGTTGTTTGAT
44024498 TGATTTAGTTG
1 TGATTTAGTTG
44024509 CTGCAGCAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 6 0.22
20 21 0.78
ACGTcount: A:0.12, C:0.02, G:0.24, T:0.62
Consensus pattern (20 bp):
TGATTTAGTTGTTGTTTGAT
Found at i:44025214 original size:20 final size:19
Alignment explanation
Indices: 44025145--44025214 Score: 59
Period size: 20 Copynumber: 3.4 Consensus size: 19
44025135 TAAATATTTA
* * *
44025145 TTTTATTTTTTCTTTTTTA
1 TTTTCTTTTTTCCTTTTTC
*
44025164 TTTACTTTTTTCCTATTTTCCC
1 TTTTCTTTTTTCCT-TTTT--C
44025186 TTCTTCTTTTTTCCTTTTTC
1 TT-TTCTTTTTTCCTTTTTC
44025206 TTATTCTTT
1 TT-TTCTTT
44025215 CCCTTCCCAG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 11 0.27
20 13 0.32
22 6 0.15
23 11 0.27
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTCTTTTTTCCTTTTTC
Found at i:44026495 original size:19 final size:20
Alignment explanation
Indices: 44026467--44026505 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
44026457 TATTAGTGAT
*
44026467 TACATGTGTAAAT-TTAATA
1 TACATATGTAAATATTAATA
*
44026486 TACATATGTATATATTAATA
1 TACATATGTAAATATTAATA
44026506 AAATATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.44
Consensus pattern (20 bp):
TACATATGTAAATATTAATA
Found at i:44027601 original size:41 final size:41
Alignment explanation
Indices: 44027501--44027636 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
44027491 CGACTTCGAG
* * *
44027501 TCGATGAGGCACTAGGTGTCAA-TT--TACTTCG-GTTTAA
1 TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
* *
44027538 TCGATGAGACACTGGGTGTCAATTTACTACTTTGAATTTAT
1 TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
* *
44027579 TCGATGAGACACTAGGTATCAATCTACTACTTCGAA-TTAT
1 TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
* * *
44027619 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTAGGTG
44027637 CTAAACTGGT
Statistics
Matches: 82, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
37 20 0.24
38 2 0.02
40 24 0.29
41 36 0.44
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (41 bp):
TCGATGAGACACTAGGTGTCAATTTACTACTTCGAATTTAT
Found at i:44029024 original size:36 final size:36
Alignment explanation
Indices: 44028983--44029053 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
44028973 ACATGTATGA
44028983 GTTTAATTGACTTCTGACCTGAATATTATATGAGAT
1 GTTTAATTGACTTCTGACCTGAATATTATATGAGAT
44029019 GTTTAATTGACTTCTGACCTGAATATTATATGAGA
1 GTTTAATTGACTTCTGACCTGAATATTATATGAGA
44029054 CAAAATGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (36 bp):
GTTTAATTGACTTCTGACCTGAATATTATATGAGAT
Found at i:44029898 original size:20 final size:20
Alignment explanation
Indices: 44029853--44029933 Score: 92
Period size: 20 Copynumber: 4.0 Consensus size: 20
44029843 TACACCACAC
* *
44029853 CAGAGGCATCAAAGATGCGTAA
1 CAGAGGCACCAAAG-TGC-AAA
44029875 CAGAGGCACCAAAGTGCAAA
1 CAGAGGCACCAAAGTGCAAA
*
44029895 CAGAGGCA-CAAATGTGCAAT
1 CAGAGGCACCAAA-GTGCAAA
*
44029915 CATAGGCACCAAAGTGCAA
1 CAGAGGCACCAAAGTGCAA
44029934 TCCCGTACAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
19 4 0.08
20 29 0.55
21 7 0.13
22 13 0.25
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (20 bp):
CAGAGGCACCAAAGTGCAAA
Found at i:44037910 original size:10 final size:10
Alignment explanation
Indices: 44037895--44037927 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
44037885 AAGAAGAAAT
44037895 TTTTACTTTA
1 TTTTACTTTA
44037905 TTTTACTTTA
1 TTTTACTTTA
44037915 TTTT-CTTTTA
1 TTTTAC-TTTA
44037925 TTT
1 TTT
44037928 AATAAATTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 1 0.05
10 21 0.95
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTACTTTA
Found at i:44041934 original size:492 final size:491
Alignment explanation
Indices: 44041006--44041992 Score: 1724
Period size: 492 Copynumber: 2.0 Consensus size: 491
44040996 TTACATAAAC
*
44041006 AACCTTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
* *
44041071 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCCATTTAACC
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
44041136 AAAAACATAAGGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTT
131 AAAAACATAAGGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTT
*
44041201 CCAAACCGTGTGAGCTTCCGAATCACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGC
196 CCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGC
* **
44041266 TTAGTAAGTTCACATAACTGAATATATAACTTACCAATCAACCACAATTTAGGAGTGTAAATTAA
261 TTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAA
* * *
44041331 ATCATAATGCAACTCAATTTGGCCTCATTAGCCAAACACATAATCATCAGCAAAGTTAACTATGA
326 ATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTATGA
*
44041396 AATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTCCATATTG
391 AATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTCCATATCG
* * *
44041461 AGCTTATGCTCTCTCGTAACCACACTGTACTCGTTG
456 AACTTATACTCTCTCGTAACAACACTGTACTCGTTG
*
44041497 AACCGTTATTATAAACTTTAAAATTTACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
1 AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
44041562 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
66 TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAAC-
*
44041627 AAAAAACATAAGGTCTAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
130 AAAAAACATAAGGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACT
* *
44041692 TCCAAACTGTGTGAGCTTCCGAATAACTATAGAACACAG-AAAATTAAACGAAGTAAGCAATTAA
195 TCCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATT-AACAAAGTAAGCAATTAA
* *
44041756 GCTTAGTAAGTTCGCATAACTGAAAATATAACTTACCAATCAACCATAATTTAGGAAAGTAAATT
259 GCTTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATT
* *
44041821 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCTAACACATAATCACCAGCGAAGTTAACTAT
324 AAATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTAT
* *
44041886 GAAATCACATGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTTCATAT
389 GAAATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTCCATAT
*
44041951 CGAACTTATACTCTCTCGTAACAACACTGTGCTCGTTG
454 CGAACTTATACTCTCTCGTAACAACACTGTACTCGTTG
44041989 AACC
1 AACC
44041993 ATTTGGAATA
Statistics
Matches: 469, Mismatches: 25, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
491 132 0.28
492 337 0.72
ACGTcount: A:0.40, C:0.21, G:0.12, T:0.27
Consensus pattern (491 bp):
AACCGTTATTATAAACTTTAAAATTCACCCAATTCATGTCCAAGAATGTGCACTAACTTTATAAA
TGGCTAATTACAAGACCAAACATATAGGCTACATTAGCCAAAACACCTATACATGCAATTTAACA
AAAAACATAAGGTCCAAAAGTACCAAAATGAGAGTTTGATAGTGTGATGCAATCTCCGACAACTT
CCAAACCGTGTGAGCTTCCGAATAACTATAGAACACAGAAAAATTAACAAAGTAAGCAATTAAGC
TTAGTAAGTTCACATAACTGAAAATATAACTTACCAATCAACCACAATTTAGGAAAGTAAATTAA
ATCATAATGCAACTCAATTTCGCCTCAATAGCCAAACACATAATCACCAGCAAAGTTAACTATGA
AATCACAAGTCTCATAGATTCAATTACCACATGATTCACATACATACCTGTACTAGTCCATATCG
AACTTATACTCTCTCGTAACAACACTGTACTCGTTG
Found at i:44061272 original size:13 final size:13
Alignment explanation
Indices: 44061254--44061278 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44061244 TTCTTGCTAG
44061254 ATCTATCAATTAA
1 ATCTATCAATTAA
44061267 ATCTATCAATTA
1 ATCTATCAATTA
44061279 TTATTCTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
ATCTATCAATTAA
Found at i:44063800 original size:110 final size:110
Alignment explanation
Indices: 44063559--44064104 Score: 770
Period size: 110 Copynumber: 5.0 Consensus size: 110
44063549 TATACATAAT
* * * *
44063559 TTCATGTATCGTGATATGTCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* *
44063624 C-AACATATCATGCCATGGGTCTTAACCACATGGTCTTACATACG
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * * *
44063668 TTCATGTATCGTGACCTACCATTTCGATCCATACACTATTGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
44063733 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * * * *
44063778 TACATGTATCATGGTCTGCCATTTCGATTCATGCATTATCGAAGGCTACTCCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * **
44063843 CAGACATATCATGTCATGGGTCTTAACCACATGGTCTTACATGCA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* ** * * *
44063888 TTTATGTATTGTGATCTGCTATTTCAATTCATACACTATCGAAGGCTACTCCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* *
44063953 CAGACATATCATGTCATGGGTCTTAACCACATGGTCTTACACACA
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
* * **
44063998 TTTATGTATCATGATCTGCTATTTAAATTCATACACTATCGAAGGCTACACCATGAATATAAATA
1 TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
* * *
44064063 CAAGCATTTCATGCCATGGGTCTTAACCACATGGTTTTACAC
66 CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACAC
44064105 TTTTTTTCAT
Statistics
Matches: 393, Mismatches: 43, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
109 59 0.15
110 334 0.85
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (110 bp):
TTCATGTATCATGATCTGCCATTTCGATTCATACACTATCGAAGGCTACACCATGAATATAAATA
CAAACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACA
Found at i:44065816 original size:21 final size:21
Alignment explanation
Indices: 44065766--44065821 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
44065756 AAAGAACATG
44065766 AAAAAGAAAA-AGAAGGAAAAA
1 AAAAAGAAAATA-AAGGAAAAA
* *
44065787 GAAAGGAAAATAAA-GAAATAA
1 AAAAAGAAAATAAAGGAAA-AA
44065808 AAAAAGAAAATAAA
1 AAAAAGAAAATAAA
44065822 TATTTTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (21 bp):
AAAAAGAAAATAAAGGAAAAA
Found at i:44066202 original size:17 final size:18
Alignment explanation
Indices: 44066172--44066205 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44066162 ATTGTAAATA
*
44066172 TTTTGTTTTCTTATTTTT
1 TTTTATTTTCTTATTTTT
44066190 TTTTATTTT-TTATTTT
1 TTTTATTTTCTTATTTT
44066206 ATAACATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.85
Consensus pattern (18 bp):
TTTTATTTTCTTATTTTT
Found at i:44069286 original size:22 final size:20
Alignment explanation
Indices: 44069254--44069293 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
44069244 TGAAAATGAT
*
44069254 TATATAATAAATTTGTAAAA
1 TATATAATAAATATGTAAAA
44069274 TATATAAGTTAAATATGTAA
1 TATATAA--TAAATATGTAA
44069294 GTTGGGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
22 10 0.59
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (20 bp):
TATATAATAAATATGTAAAA
Found at i:44071097 original size:41 final size:41
Alignment explanation
Indices: 44071040--44071143 Score: 181
Period size: 41 Copynumber: 2.5 Consensus size: 41
44071030 ACGTCAACAA
* * *
44071040 ATCGCGCTGACGTGGACGTGATGTCTGACATGTACCCTGAC
1 ATCGCGCTGACGTGGACGCGATGTCTAACACGTACCCTGAC
44071081 ATCGCGCTGACGTGGACGCGATGTCTAACACGTACCCTGAC
1 ATCGCGCTGACGTGGACGCGATGTCTAACACGTACCCTGAC
44071122 ATCGCGCTGACGTGGACGCGAT
1 ATCGCGCTGACGTGGACGCGAT
44071144 TTCGCGGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.20, C:0.29, G:0.30, T:0.21
Consensus pattern (41 bp):
ATCGCGCTGACGTGGACGCGATGTCTAACACGTACCCTGAC
Found at i:44071678 original size:14 final size:16
Alignment explanation
Indices: 44071662--44071691 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44071652 TATCGAGTTT
44071662 AAATA-ATAATTTTTA
1 AAATATATAATTTTTA
44071677 AAATATATAATTTTT
1 AAATATATAATTTTT
44071692 TTTAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAATATATAATTTTTA
Found at i:44075891 original size:30 final size:30
Alignment explanation
Indices: 44075831--44075896 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
44075821 ATGGCCTAAG
*
44075831 ACACGGGCGTGTGTCTCAGTAATGTATGAC
1 ACACGGGCGTGTGTCTCAGCAATGTATGAC
* ** *
44075861 ACACGGGTGTGTGTCTCAGCCGTGTGTGAC
1 ACACGGGCGTGTGTCTCAGCAATGTATGAC
44075891 ACACGG
1 ACACGG
44075897 CCAGGTGACA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.24
Consensus pattern (30 bp):
ACACGGGCGTGTGTCTCAGCAATGTATGAC
Found at i:44090627 original size:17 final size:18
Alignment explanation
Indices: 44090595--44090629 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
44090585 TAGAATTATA
44090595 CATGTGGGCCCACACGCC
1 CATGTGGGCCCACACGCC
*
44090613 CATGT-GGCTCACACGCC
1 CATGTGGGCCCACACGCC
44090630 TAAATCGGCC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.17, C:0.43, G:0.26, T:0.14
Consensus pattern (18 bp):
CATGTGGGCCCACACGCC
Found at i:44092726 original size:27 final size:27
Alignment explanation
Indices: 44092696--44092753 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
44092686 ATCACTACCT
44092696 TTCATCTCTTCTCTTTAAAAGTTAAAG
1 TTCATCTCTTCTCTTTAAAAGTTAAAG
44092723 TTCATCTCTTCTCTTTAAAAGTTAAAG
1 TTCATCTCTTCTCTTTAAAAGTTAAAG
44092750 TTCA
1 TTCA
44092754 AAGTTGGCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.45
Consensus pattern (27 bp):
TTCATCTCTTCTCTTTAAAAGTTAAAG
Found at i:44093960 original size:46 final size:46
Alignment explanation
Indices: 44093904--44094038 Score: 153
Period size: 46 Copynumber: 2.9 Consensus size: 46
44093894 TATTATTCTG
* * *
44093904 TATTCTCCAGTTTGCAACAAATGCGAGAACTGGGAACCTAAATCCA
1 TATTCACCAGTCTGCAACAAATGCAAGAACTGGGAACCTAAATCCA
* ** * * * *
44093950 TATTCACCAGTCCGCAACATGTGAAAGCACTGGGAACCTAATTCCG
1 TATTCACCAGTCTGCAACAAATGCAAGAACTGGGAACCTAAATCCA
* * *
44093996 TATTCACCAATCTGCAAGAAATGCAAGAGCTGGGAACCTAAAT
1 TATTCACCAGTCTGCAACAAATGCAAGAACTGGGAACCTAAAT
44094039 TTGTATGCAC
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.22
Consensus pattern (46 bp):
TATTCACCAGTCTGCAACAAATGCAAGAACTGGGAACCTAAATCCA
Found at i:44098822 original size:41 final size:39
Alignment explanation
Indices: 44098776--44098860 Score: 120
Period size: 37 Copynumber: 2.2 Consensus size: 39
44098766 CATACTTTAA
*
44098776 ATTCATATCAATATGTATGTTGGTTATATAAACAAAATATT
1 ATTCATAT-AA-ATGAATGTTGGTTATATAAACAAAATATT
*
44098817 ATTC--ATAAATGAATTTTGGTTATATAAACAAAATATT
1 ATTCATATAAATGAATGTTGGTTATATAAACAAAATATT
44098854 ATTCATA
1 ATTCATA
44098861 ACATTTACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
37 31 0.77
38 2 0.05
39 3 0.08
41 4 0.10
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (39 bp):
ATTCATATAAATGAATGTTGGTTATATAAACAAAATATT
Found at i:44099358 original size:21 final size:21
Alignment explanation
Indices: 44099332--44099385 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
44099322 TGAATACACC
*
44099332 AACAGAAACTCGTAAGAACTG
1 AACAGAAGCTCGTAAGAACTG
* *
44099353 AACAGAAGCTCATAAGAGCTG
1 AACAGAAGCTCGTAAGAACTG
*
44099374 AATAGAAGCTCG
1 AACAGAAGCTCG
44099386 AAAGTTGAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAACTG
Found at i:44102763 original size:17 final size:17
Alignment explanation
Indices: 44102743--44102779 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
44102733 AAATCCAATT
44102743 CAAT-ATTATAATTCCAA
1 CAATAATTA-AATTCCAA
44102760 CAATAATTAAATTCCAA
1 CAATAATTAAATTCCAA
44102777 CAA
1 CAA
44102780 AACAATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.79
18 4 0.21
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (17 bp):
CAATAATTAAATTCCAA
Found at i:44104897 original size:18 final size:19
Alignment explanation
Indices: 44104858--44104897 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
44104848 ACATATTTAT
44104858 TTTGCTTGAACTTTCATTC
1 TTTGCTTGAACTTTCATTC
44104877 TTTGCTTTGAA-TTTC-TTC
1 TTTGC-TTGAACTTTCATTC
44104895 TTT
1 TTT
44104898 TCGTTCCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.30
19 9 0.45
20 5 0.25
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.60
Consensus pattern (19 bp):
TTTGCTTGAACTTTCATTC
Found at i:44113733 original size:13 final size:14
Alignment explanation
Indices: 44113715--44113748 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
44113705 GTGATCTGGG
44113715 TTTCTTTTT-TTTT
1 TTTCTTTTTCTTTT
44113728 TTTCTTTTTCTTTT
1 TTTCTTTTTCTTTT
44113742 TTT-TTTT
1 TTTCTTTT
44113749 GGCTTCTTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTCTTTTTCTTTT
Found at i:44114901 original size:21 final size:22
Alignment explanation
Indices: 44114875--44114939 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
44114865 CTATCTAATT
*
44114875 TTTCCTCTC-TAATCCTCTCAA
1 TTTCCTCTCAAAATCCTCTCAA
* *
44114896 TTTCCTTTCAAAATTCTCTCAA
1 TTTCCTCTCAAAATCCTCTCAA
*
44114918 TTTCCT-TCCAAAATTCTCTCAA
1 TTTCCTCT-CAAAATCCTCTCAA
44114940 ACTCATATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.23
22 30 0.77
ACGTcount: A:0.25, C:0.32, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTCCTCTCAAAATCCTCTCAA
Found at i:44114916 original size:22 final size:22
Alignment explanation
Indices: 44114889--44114939 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
44114879 CTCTCTAATC
*
44114889 CTCTCAATTTCCTTTCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44114911 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
44114933 CTCTCAA
1 CTCTCAA
44114940 ACTCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:44115028 original size:30 final size:31
Alignment explanation
Indices: 44114994--44115060 Score: 118
Period size: 31 Copynumber: 2.2 Consensus size: 31
44114984 CTCTCAAATC
44114994 TATTTTTT-AAAATAATTATAAATTTTTTTA
1 TATTTTTTAAAAATAATTATAAATTTTTTTA
*
44115024 TATTTTTTAAAAATAATTTTAAATTTTTTTA
1 TATTTTTTAAAAATAATTATAAATTTTTTTA
44115055 TATTTT
1 TATTTT
44115061 CATCAATGGC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 8 0.23
31 27 0.77
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TATTTTTTAAAAATAATTATAAATTTTTTTA
Found at i:44116832 original size:18 final size:18
Alignment explanation
Indices: 44116811--44116845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44116801 AGGTATGTTT
* *
44116811 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
44116829 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
44116846 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:44117273 original size:25 final size:26
Alignment explanation
Indices: 44117245--44117293 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
44117235 TTTAAATTTA
44117245 TTATTAGATGTAATA-AAATAGAAGT
1 TTATTAGATGTAATACAAATAGAAGT
* *
44117270 TTATTTGATGTAATACGAATAGAA
1 TTATTAGATGTAATACAAATAGAA
44117294 TTTTTTGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.45, C:0.02, G:0.16, T:0.37
Consensus pattern (26 bp):
TTATTAGATGTAATACAAATAGAAGT
Found at i:44117397 original size:18 final size:18
Alignment explanation
Indices: 44117334--44117397 Score: 55
Period size: 18 Copynumber: 3.7 Consensus size: 18
44117324 TATAATAAAA
*
44117334 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAACTTAAT
* * *
44117352 TGAAAACCCTAACCTAACC
1 TAAAAACCCTAACTTAA-T
44117371 T---AA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
44117385 TAAAAACCCTAAC
1 TAAAAACCCTAAC
44117398 CCTAACCTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
14 1 0.03
15 9 0.26
16 2 0.06
17 2 0.06
18 20 0.57
19 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.25
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:44117404 original size:29 final size:29
Alignment explanation
Indices: 44117364--44117802 Score: 603
Period size: 29 Copynumber: 14.8 Consensus size: 29
44117354 AAAACCCTAA
44117364 CCTAA-CCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
44117392 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
44117421 CCTAACCCTAACCTAACCTAAATAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
44117450 CCTAA-CCTAACCTAACTTAACCCTAAACCCTAAC
1 CCTAACCCTAACCTAACTTAA--TTAAA----AAC
* *
44117484 CTTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
44117513 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
44117542 CCTAACCCTAACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
44117571 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
44117600 CCTAACCCTAACCTAACCTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
44117629 CCTAACCCTGACCTAACTTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
*
44117658 CCTAACCCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAA-CCTAA-C----TTAATTAAAAAC
*
44117693 CCTAACCCTAACCTAAATTAATTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
44117722 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
* *
44117751 CCTAACCCTAACCTAAATTAACTAAAAAC
1 CCTAACCCTAACCTAACTTAATTAAAAAC
44117780 CCTAACCCTAACCTAACTTAATT
1 CCTAACCCTAACCTAACTTAATT
44117803 CGATAAATTT
Statistics
Matches: 372, Mismatches: 25, Indels: 27
0.88 0.06 0.06
Matches are distributed among these distances:
28 19 0.05
29 291 0.78
30 9 0.02
31 1 0.00
33 4 0.01
34 12 0.03
35 36 0.10
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (29 bp):
CCTAACCCTAACCTAACTTAATTAAAAAC
Found at i:44117429 original size:6 final size:6
Alignment explanation
Indices: 44117418--44117496 Score: 51
Period size: 6 Copynumber: 13.7 Consensus size: 6
44117408 ATTAATTAAA
****
44117418 AACCCT AACCCT AA-CCT AA-CCT AAATAA AAACCCT AA-CCT AA-CCT
1 AACCCT AACCCT AACCCT AACCCT AACCCT A-ACCCT AACCCT AACCCT
* *
44117463 AA-CTT AACCCT AAACCCT AACCTT AACCCT AACC
1 AACCCT AACCCT -AACCCT AACCCT AACCCT AACC
44117497 TAAATTAATT
Statistics
Matches: 58, Mismatches: 11, Indels: 8
0.75 0.14 0.10
Matches are distributed among these distances:
5 24 0.41
6 26 0.45
7 8 0.14
ACGTcount: A:0.42, C:0.39, G:0.00, T:0.19
Consensus pattern (6 bp):
AACCCT
Found at i:44117866 original size:56 final size:55
Alignment explanation
Indices: 44117804--44118128 Score: 469
Period size: 56 Copynumber: 5.9 Consensus size: 55
44117794 AACTTAATTC
44117804 GATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTT
1 GATAAATTTTACTAACCATTAACACAATTTTTGG-CTTAATAATTTTAGTTTATTT
* * **
44117860 CATAAATTTTACTAACCATTAATACAATTTTTGGCTTAATAATTTTA-CATATTTT
1 GATAAATTTTACTAACCATTAACACAATTTTTGGCTTAATAATTTTAGTTTA-TTT
* *
44117915 GAT-AATTTTACTAACAATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTT
1 GATAAATTTTACTAACCATTAACACAATTTTTGG-CTTAATAATTTTAGTTTATTT
* * **
44117970 CATAAATTTTACTAACCATTAATACAATTTTTGGCTTAATAATTTTA-CATATTTT
1 GATAAATTTTACTAACCATTAACACAATTTTTGGCTTAATAATTTTAGTTTA-TTT
44118025 GAT-AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTT
1 GATAAATTTTACTAACCATTAACACAATTTTTGG-CTTAATAATTTTAGTTTATTT
44118080 GATAAATTTTACTAACCATTAACACAATTTTTTTGGCTTAATAATTTTA
1 GATAAATTTTACTAACCATTAACACAA--TTTTTGGCTTAATAATTTTA
44118129 CATAATTTTA
Statistics
Matches: 239, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
54 60 0.25
55 73 0.31
56 86 0.36
57 13 0.05
58 7 0.03
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (55 bp):
GATAAATTTTACTAACCATTAACACAATTTTTGGCTTAATAATTTTAGTTTATTT
Found at i:44117929 original size:110 final size:110
Alignment explanation
Indices: 44117808--44118137 Score: 597
Period size: 110 Copynumber: 3.0 Consensus size: 110
44117798 TAATTCGATA
44117808 AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACT
1 AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACT
44117873 AACCATTAATACAATTTTTGGCTTAATAATTTTACATATTTTGAT
66 AACCATTAATACAATTTTTGGCTTAATAATTTTACATATTTTGAT
* *
44117918 AATTTTACTAACAATTAACACAATTTCTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACT
1 AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACT
44117983 AACCATTAATACAATTTTTGGCTTAATAATTTTACATATTTTGAT
66 AACCATTAATACAATTTTTGGCTTAATAATTTTACATATTTTGAT
*
44118028 AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTGATAAATTTTACT
1 AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACT
*
44118093 AACCATTAACACAATTTTTTTGGCTTAATAATTTTACATAATTTT
66 AACCATTAATACAA--TTTTTGGCTTAATAATTTTACAT-ATTTT
44118138 ACATAATGTT
Statistics
Matches: 211, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
110 183 0.87
112 23 0.11
113 5 0.02
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.47
Consensus pattern (110 bp):
AATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTAGTTTATTTCATAAATTTTACT
AACCATTAATACAATTTTTGGCTTAATAATTTTACATATTTTGAT
Found at i:44118135 original size:10 final size:10
Alignment explanation
Indices: 44118120--44118144 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44118110 TTTTGGCTTA
44118120 ATAATTTTAC
1 ATAATTTTAC
44118130 ATAATTTTAC
1 ATAATTTTAC
44118140 ATAAT
1 ATAAT
44118145 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:44121571 original size:125 final size:126
Alignment explanation
Indices: 44121252--44121605 Score: 606
Period size: 125 Copynumber: 2.8 Consensus size: 126
44121242 CTCAAACTTG
44121252 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
44121317 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAACAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACAAAAAAATTATTTCTTACATGAC
* * *
44121378 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGTATTCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
44121443 TAGAAACGATTTTATACTATTTGCTCAGAAACATCAGA-AAAAAAA-TATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACATCA-ACAAAAAAATTATTTCTTACATGAC
*
44121503 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
*
44121568 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAAC
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACATCAAC
44121606 TCGAAATAAT
Statistics
Matches: 214, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
124 1 0.00
125 108 0.50
126 104 0.49
127 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.29
Consensus pattern (126 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACATCAACAAAAAAATTATTTCTTACATGAC
Found at i:44123622 original size:21 final size:19
Alignment explanation
Indices: 44123598--44123678 Score: 58
Period size: 21 Copynumber: 4.1 Consensus size: 19
44123588 AAAAATCAAT
44123598 AAAATATATAAAATTTTAATA
1 AAAAT-TATAAAATTTT-ATA
** *
44123619 AAAATATATATAAATTAGAAAA
1 AAAAT-TATA-AAATT-TTATA
**
44123641 AAAATTA-AAAAAATTAT-
1 AAAATTATAAAATTTTATA
44123658 AAAATTATAAAATTTTATA
1 AAAATTATAAAATTTTATA
44123677 AA
1 AA
44123679 GTCGTAAGAA
Statistics
Matches: 46, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
17 7 0.15
18 9 0.20
19 5 0.11
20 1 0.02
21 12 0.26
22 12 0.26
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTATAAAATTTTATA
Found at i:44123709 original size:20 final size:20
Alignment explanation
Indices: 44123684--44123738 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 20
44123674 ATAAAGTCGT
44123684 AAGAAAAATATAAAAATATA
1 AAGAAAAATATAAAAATATA
*
44123704 AAG--AAATATAAAATTTATA
1 AAGAAAAATATAAAA-ATATA
*
44123723 AA-AACAATTATAAAAA
1 AAGAA-AAATATAAAAA
44123739 CTATTGTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
18 10 0.36
19 6 0.21
20 3 0.11
21 9 0.32
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (20 bp):
AAGAAAAATATAAAAATATA
Found at i:44123944 original size:19 final size:18
Alignment explanation
Indices: 44123911--44123991 Score: 60
Period size: 19 Copynumber: 4.3 Consensus size: 18
44123901 TAAAGGGTTT
44123911 TTTTTTATG-TATTTTATA
1 TTTTTTATGAT-TTTTATA
44123929 CTTTTTTATGATTTTTATAAAA
1 -TTTTTTATGATTTTTAT---A
* *
44123951 ATTTTCA--ATTTTTATA
1 TTTTTTATGATTTTTATA
*
44123967 GTTTTTTACGATTTTTATA
1 -TTTTTTATGATTTTTATA
44123986 TTTTTT
1 TTTTTT
44123992 TTCTAATTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 15
0.73 0.06 0.21
Matches are distributed among these distances:
16 1 0.02
17 5 0.10
18 6 0.12
19 32 0.63
20 1 0.02
21 5 0.10
22 1 0.02
ACGTcount: A:0.25, C:0.04, G:0.05, T:0.67
Consensus pattern (18 bp):
TTTTTTATGATTTTTATA
Found at i:44123992 original size:19 final size:19
Alignment explanation
Indices: 44123922--44123991 Score: 63
Period size: 19 Copynumber: 3.7 Consensus size: 19
44123912 TTTTTATGTA
* *
44123922 TTTTATACTTTTTTATGAT
1 TTTTATAATTTTTTACGAT
** *
44123941 TTTTATAAAAATTTT-CAAT
1 TTTTAT-AATTTTTTACGAT
*
44123960 TTTTATAGTTTTTTACGAT
1 TTTTATAATTTTTTACGAT
44123979 TTTTAT-ATTTTTT
1 TTTTATAATTTTTT
44123992 TTCTAATTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
18 11 0.28
19 23 0.59
20 5 0.13
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTACGAT
Found at i:44123994 original size:38 final size:39
Alignment explanation
Indices: 44123922--44124003 Score: 103
Period size: 38 Copynumber: 2.1 Consensus size: 39
44123912 TTTTTATGTA
*
44123922 TTTTATACTTTTTTATGATTTTTATAAAAATTTTC-AAT
1 TTTTATACTTTTTTACGATTTTTATAAAAATTTTCTAAT
* ****
44123960 TTTTATAGTTTTTTACGATTTTTATATTTTTTTTCTAAT
1 TTTTATACTTTTTTACGATTTTTATAAAAATTTTCTAAT
44123999 TTTTA
1 TTTTA
44124004 AATATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
38 29 0.78
39 8 0.22
ACGTcount: A:0.26, C:0.05, G:0.04, T:0.66
Consensus pattern (39 bp):
TTTTATACTTTTTTACGATTTTTATAAAAATTTTCTAAT
Found at i:44124000 original size:20 final size:19
Alignment explanation
Indices: 44123952--44124024 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
44123942 TTTATAAAAA
*
44123952 TTTTCAATTTTTATAGTTT
1 TTTTCAATTTTTATATTTT
* *
44123971 TTTACGATTTTTATATTTT
1 TTTTCAATTTTTATATTTT
44123990 TTTTCTAATTTTTAAATATTTT
1 TTTTC-AATTTTT--ATATTTT
*
44124012 TATT-AATTTTTAT
1 TTTTCAATTTTTAT
44124025 TAATATTTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.04
19 20 0.44
20 13 0.29
22 10 0.22
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTTCAATTTTTATATTTT
Found at i:44124065 original size:10 final size:10
Alignment explanation
Indices: 44123977--44124064 Score: 65
Period size: 10 Copynumber: 8.9 Consensus size: 10
44123967 GTTTTTTACG
44123977 ATTTTTA-TA
1 ATTTTTATTA
* *
44123986 TTTTTTTTCTA
1 ATTTTTAT-TA
*
44123997 ATTTTTA-AA
1 ATTTTTATTA
44124006 TATTTTTATTA
1 -ATTTTTATTA
44124017 ATTTTTATTA
1 ATTTTTATTA
* *
44124027 ATATTTAATA
1 ATTTTTATTA
*
44124037 ATATTTA-TA
1 ATTTTTATTA
* *
44124046 AATTTTATTT
1 ATTTTTATTA
44124056 ATTTTTATT
1 ATTTTTATT
44124065 TTTTATAATT
Statistics
Matches: 62, Mismatches: 12, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
9 13 0.21
10 41 0.66
11 8 0.13
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:44128679 original size:20 final size:21
Alignment explanation
Indices: 44128648--44128700 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
44128638 ATAATTACGT
*
44128648 TTATTTTCTTTAAATTAA-GAG
1 TTATTTT-TTTAAATTAATGAA
*
44128669 TTATTTTTTTAACTTAATGAA
1 TTATTTTTTTAAATTAATGAA
*
44128690 TTATTTATTTA
1 TTATTTTTTTA
44128701 TTTATTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.58
Consensus pattern (21 bp):
TTATTTTTTTAAATTAATGAA
Found at i:44131611 original size:43 final size:43
Alignment explanation
Indices: 44131493--44131616 Score: 144
Period size: 43 Copynumber: 2.9 Consensus size: 43
44131483 CTAAAAGTCG
* * * * * *
44131493 TGACCTTTAGTGGCGCTTTT-ACAAAAACGCCGCTAAAGGTCA
1 TGACTTTTAGCGGCGCTTTTGCCACAAACGCCGCTATAGATCA
* * *
44131535 TGACTTTTAGCGGCGC-TTAGCCCACGAATGCCGCTATAGATCA
1 TGACTTTTAGCGGCGCTTTTG-CCACAAACGCCGCTATAGATCA
44131578 TGACTTTTAGCGGCGCTTTTGCCACAAACGCCGCTATAG
1 TGACTTTTAGCGGCGCTTTTGCCACAAACGCCGCTATAG
44131617 GTTCCCACAA
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.03
42 14 0.21
43 48 0.72
44 3 0.04
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (43 bp):
TGACTTTTAGCGGCGCTTTTGCCACAAACGCCGCTATAGATCA
Found at i:44131672 original size:65 final size:65
Alignment explanation
Indices: 44131555--44131681 Score: 191
Period size: 65 Copynumber: 2.0 Consensus size: 65
44131545 CGGCGCTTAG
* * * * *
44131555 CCCACGAATGCCGCTATAGATCATGACTTTTAGCGGCGCTTTTGCCACAAACGCCGCTATAGGTT
1 CCCACAAACGCCGCTATAGATCATCACTTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGGTT
* *
44131620 CCCACAAACGCCGCTATAGATCATCACTTTTAGCAGCGTTTTTCCCATAAACGCCGCTATAG
1 CCCACAAACGCCGCTATAGATCATCACTTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAG
44131682 AACAGATCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 55 1.00
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (65 bp):
CCCACAAACGCCGCTATAGATCATCACTTTTAGCAGCGCTTTTCCCACAAACGCCGCTATAGGTT
Found at i:44131705 original size:43 final size:42
Alignment explanation
Indices: 44131618--44131739 Score: 131
Period size: 43 Copynumber: 2.8 Consensus size: 42
44131608 CCGCTATAGG
* *
44131618 TTCCCACAAACGCCGCTATAGATCATCACTTTTAGC-AGCGTTT
1 TTCCCACAAACGCCGCTATAGAACA-GAC-TTTAGCGAGCGTTT
*
44131661 TTCCCATAAACGCCGCTATAGAACAGATCTTTAGCGA-CGCTTT
1 TTCCCACAAACGCCGCTATAGAACAGA-CTTTAGCGAGCG-TTT
** *
44131704 TTCATACAAACGCTGCTATAGAACAGACCTTTAGCG
1 TTCCCACAAACGCCGCTATAGAACAGA-CTTTAGCG
44131740 GCACTTTCAC
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 9 0.13
43 59 0.87
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (42 bp):
TTCCCACAAACGCCGCTATAGAACAGACTTTAGCGAGCGTTT
Found at i:44131713 original size:108 final size:108
Alignment explanation
Indices: 44131517--44131724 Score: 249
Period size: 108 Copynumber: 1.9 Consensus size: 108
44131507 GCTTTTACAA
* * * * * *
44131517 AAACGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTAGCCCACGAATGCCGCTATAGATCATGAC
1 AAACGCCGCTAAAGATCATCACTTTTAGCAGCGCTTAGCCCACAAACGCCGCTATAGAACATGAC
*
44131582 TTTTAGCGGCGCTTTTGCCACAAACGCCGCTATAGGTTCCCAC
66 TTTTAGCGACGCTTTTGCCACAAACGCCGCTATAGGTTCCCAC
* * ** *
44131625 AAACGCCGCTATAGATCATCACTTTTAGCAGCGTTTTTCCCATAAACGCCGCTATAGAACA-GA-
1 AAACGCCGCTAAAGATCATCACTTTTAGCAGCGCTTAGCCCACAAACGCCGCTATAGAACATGAC
* * *
44131688 TCTTTAGCGACGCTTTTTCATACAAACGCTGCTATAG
66 T-TTTAGCGACGCTTTTGC-CACAAACGCCGCTATAG
44131725 AACAGACCTT
Statistics
Matches: 83, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
106 1 0.01
107 17 0.20
108 65 0.78
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (108 bp):
AAACGCCGCTAAAGATCATCACTTTTAGCAGCGCTTAGCCCACAAACGCCGCTATAGAACATGAC
TTTTAGCGACGCTTTTGCCACAAACGCCGCTATAGGTTCCCAC
Found at i:44136645 original size:6 final size:6
Alignment explanation
Indices: 44136612--44136653 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
44136602 AAAAATACAC
*
44136612 ATTTTA ATTTTT -TTTCTT ATTATTT ATTTTT ATTTTT ATTTT
1 ATTTTT ATTTTT ATTT-TT ATT-TTT ATTTTT ATTTTT ATTTT
44136654 GCAGGGAGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
5 3 0.09
6 21 0.66
7 7 0.22
8 1 0.03
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (6 bp):
ATTTTT
Found at i:44137464 original size:3 final size:3
Alignment explanation
Indices: 44137456--44137487 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44137446 TACACAAAAA
44137456 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
44137488 AAATAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:44139923 original size:19 final size:20
Alignment explanation
Indices: 44139886--44139925 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
44139876 ATTTGGAAGA
*
44139886 GATTTCGAAGGGGAGTTAGG
1 GATTTCGAAGGGGAATTAGG
*
44139906 GATTTGGAA-GGGAATTAGG
1 GATTTCGAAGGGGAATTAGG
44139925 G
1 G
44139926 CCTGGGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.28, C:0.03, G:0.45, T:0.25
Consensus pattern (20 bp):
GATTTCGAAGGGGAATTAGG
Found at i:44142021 original size:23 final size:23
Alignment explanation
Indices: 44141995--44142066 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
44141985 AGTGCCACAT
44141995 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
44142018 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
44142041 T-AAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
44142063 TGAT
1 TGAT
44142067 CAATAACACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 20 0.45
23 24 0.55
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:44142050 original size:22 final size:23
Alignment explanation
Indices: 44141999--44142065 Score: 109
Period size: 22 Copynumber: 3.0 Consensus size: 23
44141989 CCACATTGAT
*
44141999 ATGTAGCCGAAGCTACCACTGAT
1 ATGTAGCCGAAGCTACCACTGAA
*
44142022 ATGTAGCCGTAGCTACCACT-AA
1 ATGTAGCCGAAGCTACCACTGAA
44142044 ATGTAGCCGAAGCTACCACTGA
1 ATGTAGCCGAAGCTACCACTGA
44142066 TCAATAACAC
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
22 20 0.50
23 20 0.50
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (23 bp):
ATGTAGCCGAAGCTACCACTGAA
Found at i:44142166 original size:8 final size:8
Alignment explanation
Indices: 44142153--44142181 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
44142143 ACCCGGGGCT
44142153 CACTGTAA
1 CACTGTAA
44142161 CACTGTAA
1 CACTGTAA
44142169 CACTGTAA
1 CACTGTAA
44142177 CACTG
1 CACTG
44142182 GTCTCTAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.34, C:0.28, G:0.14, T:0.24
Consensus pattern (8 bp):
CACTGTAA
Found at i:44144064 original size:50 final size:50
Alignment explanation
Indices: 44143950--44144145 Score: 275
Period size: 50 Copynumber: 3.9 Consensus size: 50
44143940 GATCATAACA
* * * ** *
44143950 TGCCAAAGTCATGTCCCAGACATGGCCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * **
44144001 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44144051 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
44144101 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCAT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
44144146 GATCTCAAGG
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 98 0.76
51 31 0.24
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:44146275 original size:13 final size:13
Alignment explanation
Indices: 44146257--44146284 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44146247 ATCTCCAAAT
44146257 CCCAAACCCTAAA
1 CCCAAACCCTAAA
44146270 CCCAAACCCTAAA
1 CCCAAACCCTAAA
44146283 CC
1 CC
44146285 ATACACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.50, G:0.00, T:0.07
Consensus pattern (13 bp):
CCCAAACCCTAAA
Found at i:44146339 original size:21 final size:20
Alignment explanation
Indices: 44146313--44146351 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44146303 TCTAATCTGA
44146313 AACCCCAAACCCCAAACCTCT
1 AACCCCAAA-CCCAAACCTCT
*
44146334 AACCCCTAACCCAAACCT
1 AACCCCAAACCCAAACCT
44146352 TAAATCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.38, C:0.51, G:0.00, T:0.10
Consensus pattern (20 bp):
AACCCCAAACCCAAACCTCT
Found at i:44146364 original size:20 final size:20
Alignment explanation
Indices: 44146323--44146361 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44146313 AACCCCAAAC
*
44146323 CCCAAACCTCTAACCCCTAA
1 CCCAAACCTCTAAACCCTAA
*
44146343 CCCAAACCT-TAAATCCTAA
1 CCCAAACCTCTAAACCCTAA
44146362 ACCATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (20 bp):
CCCAAACCTCTAAACCCTAA
Found at i:44146647 original size:21 final size:21
Alignment explanation
Indices: 44146635--44146682 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
44146625 AACCCCTAAC
*
44146635 CCCTAACCCTTAAACCTTAAA
1 CCCTAACCCTTAAACCATAAA
44146656 TCCC-AACCCTTAAACCATAAA
1 -CCCTAACCCTTAAACCATAAA
44146677 CCCTAA
1 CCCTAA
44146683 ATCCATACTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 3 0.12
21 18 0.75
22 3 0.12
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.21
Consensus pattern (21 bp):
CCCTAACCCTTAAACCATAAA
Found at i:44146663 original size:28 final size:28
Alignment explanation
Indices: 44146632--44146686 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
44146622 TTTAACCCCT
* * *
44146632 AACCCCTAACCCTTAAACCTTAAATCCC
1 AACCCCTAAACCATAAACCCTAAATCCC
*
44146660 AACCCTTAAACCATAAACCCTAAATCC
1 AACCCCTAAACCATAAACCCTAAATCC
44146687 ATACTCCTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (28 bp):
AACCCCTAAACCATAAACCCTAAATCCC
Found at i:44147232 original size:41 final size:41
Alignment explanation
Indices: 44147084--44147402 Score: 284
Period size: 41 Copynumber: 7.8 Consensus size: 41
44147074 AAATGTTTTT
44147084 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * *
44147125 GCGGCG-TTTTCCAAGAAGCGCCACTATAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAA-AAACGCCGCTAAAGCCCCGAGCATTA
* * * *
44147166 GCGGC-ATTTTCCAAGAAGCGCCGCTATAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAA-AAACGCCGCTAAAGCCCCGAGCATTA
* * *
44147207 GCGGCGCTTTTTCAAAAACGTCGCTAAATCCTCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * * ** * *
44147248 ACAGCGTTTTTTTGGAAAATGCCGCTAAAGGCCCGAGCATTA
1 GCGGCG-CTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * ***
44147290 GTGGCGCTTTTTCAAAAACGTCGCTAAAGGATCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
** * * * * **
44147331 GCGGAACTTTTTTAAAAACACCACTAAAGACTGGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* *
44147372 GCGGCGC-TTTTCTAAAAGCGCCACTAAAGCC
1 GCGGCGCTTTTTC-AAAAACGCCGCTAAAGCC
44147403 TCGAAAGGTC
Statistics
Matches: 225, Mismatches: 48, Indels: 10
0.80 0.17 0.04
Matches are distributed among these distances:
40 11 0.05
41 177 0.79
42 37 0.16
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:44147342 original size:83 final size:83
Alignment explanation
Indices: 44147185--44147382 Score: 227
Period size: 83 Copynumber: 2.4 Consensus size: 83
44147175 TCCAAGAAGC
* * *
44147185 GCCGCTATAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAATCCTCGAGCATTAAC
1 GCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCATCGAGCATTAAC
***
44147250 AGCGTTTTTTTGGAAAAT
66 AGAACTTTTTTGGAAAAT
* * * *
44147268 GCCGCTAAAGGCCCGAGCATTAGTGGCGCTTTTTCAAAAACGTCGCTAAAGGATCGAGCATTAGC
1 GCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCATCGAGCATTAAC
* * *
44147333 GGAACTTTTTT-AAAAAC
66 AGAACTTTTTTGGAAAAT
* * * **
44147350 ACCACTAAAGACTGGAGCATTAGCGGCGCTTTT
1 GCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTT
44147383 CTAAAAGCGC
Statistics
Matches: 96, Mismatches: 19, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
82 31 0.32
83 65 0.68
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (83 bp):
GCCGCTAAAGCCCCGAGCATTAGCGGCGCTTTTTCAAAAACGTCGCTAAAGCATCGAGCATTAAC
AGAACTTTTTTGGAAAAT
Found at i:44148696 original size:3 final size:3
Alignment explanation
Indices: 44148688--44148712 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
44148678 GGCGATGGCA
44148688 ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG A
44148713 GCCGAAACCC
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:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:44149921 original size:45 final size:45
Alignment explanation
Indices: 44149857--44149948 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
44149847 CTACATACCC
44149857 ATATTAATAACATATTGTCGCTTCTCATCCTTGTGGAATTAGCCT
1 ATATTAATAACATATTGTCGCTTCTCATCCTTGTGGAATTAGCCT
44149902 ATATTAATAACATATTGTCGCTTCTCATCCTTGTGGAATTAGCCT
1 ATATTAATAACATATTGTCGCTTCTCATCCTTGTGGAATTAGCCT
44149947 AT
1 AT
44149949 GTAATTTGAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (45 bp):
ATATTAATAACATATTGTCGCTTCTCATCCTTGTGGAATTAGCCT
Found at i:44150323 original size:86 final size:86
Alignment explanation
Indices: 44150178--44150431 Score: 490
Period size: 86 Copynumber: 3.0 Consensus size: 86
44150168 CATCCTAGGC
44150178 CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAGTACCAAAATGCTTCAA
1 CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAGTACCAAAATGCTTCAA
44150243 TACATGACTTGAATGTCCAAA
66 TACATGACTTGAATGTCCAAA
*
44150264 CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAATACCAAAATGCTTCAA
1 CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAGTACCAAAATGCTTCAA
44150329 TACATGACTTGAATGTCCAAA
66 TACATGACTTGAATGTCCAAA
44150350 CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAGTACCAAAATGCTTCAA
1 CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAGTACCAAAATGCTTCAA
*
44150415 TACATTACTTGAATGTC
66 TACATGACTTGAATGTC
44150432 AAAAAAAGAC
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
86 165 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (86 bp):
CTATCTCTCGTACATGGATGTGCCATCAATTTGGACTATTAGCTTACAGTACCAAAATGCTTCAA
TACATGACTTGAATGTCCAAA
Found at i:44152385 original size:18 final size:18
Alignment explanation
Indices: 44152341--44152390 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
44152331 ATTATCGGTT
44152341 TCAACTTCCTCTTCGTTC
1 TCAACTTCCTCTTCGTTC
** *
44152359 TCATTTTCCTCTTTGTTC
1 TCAACTTCCTCTTCGTTC
*
44152377 TCAACTTCCCCTTC
1 TCAACTTCCTCTTC
44152391 ATTATCAACC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.10, C:0.38, G:0.04, T:0.48
Consensus pattern (18 bp):
TCAACTTCCTCTTCGTTC
Found at i:44161251 original size:18 final size:18
Alignment explanation
Indices: 44161230--44161265 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44161220 CGGTTCCATG
44161230 TCTATCCTAAGTTCTACA
1 TCTATCCTAAGTTCTACA
44161248 TCTATCCTAAGTTCTACA
1 TCTATCCTAAGTTCTACA
44161266 GGACGACGTT
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:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
TCTATCCTAAGTTCTACA
Found at i:44161634 original size:18 final size:18
Alignment explanation
Indices: 44161611--44161649 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
44161601 TTAAAAATAA
44161611 TTTATGTAGATCTGAATT
1 TTTATGTAGATCTGAATT
44161629 TTTATGTAGATCTGAATT
1 TTTATGTAGATCTGAATT
44161647 TTT
1 TTT
44161650 GTGATGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (18 bp):
TTTATGTAGATCTGAATT
Found at i:44161877 original size:19 final size:20
Alignment explanation
Indices: 44161855--44161901 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
44161845 AAAAAACTTA
44161855 TATATTAATTAA-AATTTAC
1 TATATTAATTAAGAATTTAC
* *
44161874 TATATTTATTAAGTATTTTAC
1 TATATTAATTAAG-AATTTAC
44161895 TATATTA
1 TATATTA
44161902 TTGAAGTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.48
21 12 0.52
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.53
Consensus pattern (20 bp):
TATATTAATTAAGAATTTAC
Found at i:44161902 original size:20 final size:22
Alignment explanation
Indices: 44161869--44161909 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44161859 TTAATTAAAA
44161869 TTTACTATATTTATT-AAGTAT
1 TTTACTATATTTATTGAAGTAT
44161890 TTTACTATA-TTATTGAAGTA
1 TTTACTATATTTATTGAAGTA
44161910 ATATGAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.05, G:0.07, T:0.54
Consensus pattern (22 bp):
TTTACTATATTTATTGAAGTAT
Found at i:44162210 original size:16 final size:17
Alignment explanation
Indices: 44162189--44162230 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
44162179 TAATTATAGC
44162189 TCTATTCCATCATAA-T
1 TCTATTCCATCATAACT
* *
44162205 TCTATTTCATTATAACT
1 TCTATTCCATCATAACT
44162222 T-TATTCCAT
1 TCTATTCCAT
44162231 TTAAGTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 20 0.91
17 2 0.09
ACGTcount: A:0.29, C:0.21, G:0.00, T:0.50
Consensus pattern (17 bp):
TCTATTCCATCATAACT
Found at i:44162231 original size:16 final size:16
Alignment explanation
Indices: 44162181--44162231 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
44162171 TGAATTAGTA
* *
44162181 ATTATAGCTCTATTCC
1 ATTATAACTTTATTCC
* *
44162197 ATCATAA-TTCTATTTC
1 ATTATAACTT-TATTCC
44162213 ATTATAACTTTATTCC
1 ATTATAACTTTATTCC
44162229 ATT
1 ATT
44162232 TAAGTAAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
15 1 0.04
16 24 0.89
17 2 0.07
ACGTcount: A:0.29, C:0.20, G:0.02, T:0.49
Consensus pattern (16 bp):
ATTATAACTTTATTCC
Found at i:44162480 original size:17 final size:18
Alignment explanation
Indices: 44162458--44162491 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
44162448 GTAGTTGATG
*
44162458 TAGATATTG-ATATTAAC
1 TAGATAATGAATATTAAC
44162475 TAGATAATGAATATTAA
1 TAGATAATGAATATTAA
44162492 TTAGGGTACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.12, T:0.38
Consensus pattern (18 bp):
TAGATAATGAATATTAAC
Found at i:44166203 original size:20 final size:20
Alignment explanation
Indices: 44166186--44166224 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44166176 TATTGATACT
*
44166186 TTTCTTAAAGTATCGATATA
1 TTTCCTAAAGTATCGATATA
*
44166206 TTTCCTAAGGTATCGATAT
1 TTTCCTAAAGTATCGATAT
44166225 TCCTGCTACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.44
Consensus pattern (20 bp):
TTTCCTAAAGTATCGATATA
Found at i:44181063 original size:51 final size:50
Alignment explanation
Indices: 44180943--44181122 Score: 177
Period size: 51 Copynumber: 3.6 Consensus size: 50
44180933 GATGGTCATG
* * * * * *
44180943 TGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAAAG-ATAGGT-AGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAT-GATCA-CA
*
44180993 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCT-TCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TAT-GATCACA
* * * *
44181044 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT-ATGATCACA
* *
44181095 TGTGTAGTACTATGTGTAGGATACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
44181123 TGAACATGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
50 36 0.33
51 71 0.65
52 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTATGATCACA
Found at i:44181199 original size:46 final size:44
Alignment explanation
Indices: 44181131--44181218 Score: 106
Period size: 46 Copynumber: 2.0 Consensus size: 44
44181121 TGTGAACATG
* *
44181131 TATCATTAATTATAAAGTGGTTGCTATGTTCTG-ATCTCACCGGA
1 TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATC-CACCGGA
* *
44181175 TATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAATCCACCG
1 TATCATTAATTACAAA--GTGGTTGCTATGTGCTGAATCCACCG
44181219 TGTATTTGTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 14 0.38
46 20 0.54
47 3 0.08
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (44 bp):
TATCATTAATTACAAAGTGGTTGCTATGTGCTGAATCCACCGGA
Found at i:44181394 original size:37 final size:38
Alignment explanation
Indices: 44181325--44181397 Score: 103
Period size: 37 Copynumber: 1.9 Consensus size: 38
44181315 ATGCGTGGAA
* * *
44181325 TTGAATTTAATATTGACTTGAAAATGACAAAGTGAATT
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
*
44181363 TTGAATTGAATAGTGA-TTGAAAGTGAAAAAGTGAA
1 TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAA
44181398 ATTATGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
37 17 0.55
38 14 0.45
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.33
Consensus pattern (38 bp):
TTGAATTGAATAGTGACTTGAAAATGAAAAAGTGAATT
Found at i:44186529 original size:51 final size:51
Alignment explanation
Indices: 44186392--44186542 Score: 169
Period size: 50 Copynumber: 3.0 Consensus size: 51
44186382 TGTGAAAGTG
*
44186392 AAAGTGATGGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAA
1 AAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAA
* * * * * * **
44186443 AAAG-AAAGGTCGCATTTGTAGTACTATGTACAGGCTACTACGTGTATCGG
1 AAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAA
* * * * *
44186493 ATAGTGATGGTCACATGTGTAGTACTATCTGTAGGCTACTATGTGAACCA
1 AAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCA
44186543 GTATCATTAA
Statistics
Matches: 78, Mismatches: 21, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
50 40 0.51
51 38 0.49
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (51 bp):
AAAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAA
Found at i:44193799 original size:29 final size:29
Alignment explanation
Indices: 44193756--44193815 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
44193746 TTTCAAATGA
44193756 AAGAATCTCTCCAGTCCTATCTCTCTTCC
1 AAGAATCTCTCCAGTCCTATCTCTCTTCC
*
44193785 AAGAATCTCTTCAGTCCTATCTCTCTTCC
1 AAGAATCTCTCCAGTCCTATCTCTCTTCC
44193814 AA
1 AA
44193816 TTCAGGGTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.35
Consensus pattern (29 bp):
AAGAATCTCTCCAGTCCTATCTCTCTTCC
Found at i:44196278 original size:28 final size:27
Alignment explanation
Indices: 44196221--44196372 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
44196211 TAAATTGTGC
*
44196221 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
44196248 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
44196276 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
44196303 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
44196331 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
44196358 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
44196373 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:44196285 original size:55 final size:55
Alignment explanation
Indices: 44196221--44196372 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
44196211 TAAATTGTGC
*
44196221 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
44196276 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
44196331 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
44196373 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:44200562 original size:28 final size:28
Alignment explanation
Indices: 44200531--44200650 Score: 98
Period size: 28 Copynumber: 4.2 Consensus size: 28
44200521 CTCGCCAAGT
* *
44200531 AGGCATCCTTTTAACAGAGTTTGCCAC-A
1 AGGCATCC-TTTAACAGAGATAGCCACAA
* * * *
44200559 AGGCATTCATTTAGCTGAGATAGGCACAA
1 AGGCA-TCCTTTAACAGAGATAGCCACAA
* *
44200588 AGGCATCCTTTAACAGAGATAGACATAA
1 AGGCATCCTTTAACAGAGATAGCCACAA
* * * *
44200616 AGACACCCTTTTAATAGAGATAGCTACAA
1 AGGCATCC-TTTAACAGAGATAGCCACAA
44200645 AGGCAT
1 AGGCAT
44200651 AATGTATTTG
Statistics
Matches: 70, Mismatches: 19, Indels: 5
0.74 0.20 0.05
Matches are distributed among these distances:
28 42 0.60
29 28 0.40
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (28 bp):
AGGCATCCTTTAACAGAGATAGCCACAA
Found at i:44200646 original size:29 final size:27
Alignment explanation
Indices: 44200575--44200646 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 27
44200565 TCATTTAGCT
* *
44200575 GAGATAGGCACAAAGGCATCCTTTAACA
1 GAGATA-GCACAAAGACACCCTTTAACA
* *
44200603 GAGATAGACATAAAGACACCCTTTTAATA
1 GAGATAG-CACAAAGACACCC-TTTAACA
44200632 GAGATAGCTACAAAG
1 GAGATAGC-ACAAAG
44200647 GCATAATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 17 0.47
29 18 0.50
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.19
Consensus pattern (27 bp):
GAGATAGCACAAAGACACCCTTTAACA
Found at i:44207586 original size:13 final size:13
Alignment explanation
Indices: 44207568--44207594 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44207558 ATCTCAGGTA
44207568 ATTCTCATAATTG
1 ATTCTCATAATTG
44207581 ATTCTCATAATTG
1 ATTCTCATAATTG
44207594 A
1 A
44207595 GGCTCAGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (13 bp):
ATTCTCATAATTG
Found at i:44228229 original size:20 final size:18
Alignment explanation
Indices: 44228201--44228255 Score: 69
Period size: 17 Copynumber: 3.0 Consensus size: 18
44228191 TAGTATTTTA
44228201 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAAGT
44228219 AATT-ATCTTAATATTAAA-T
1 --TTAAT-TTAATATTAAAGT
44228238 TTAATTTAATATTAAAGT
1 TTAATTTAATATTAAAGT
44228256 GTTTAAGTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
17 13 0.41
18 3 0.09
19 3 0.09
20 13 0.41
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (18 bp):
TTAATTTAATATTAAAGT
Found at i:44240822 original size:13 final size:15
Alignment explanation
Indices: 44240804--44240835 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
44240794 ACTACCCTAG
44240804 CTTTTAAC-T-GAAA
1 CTTTTAACATAGAAA
44240817 CTTTTAACATAGAAA
1 CTTTTAACATAGAAA
44240832 CTTT
1 CTTT
44240836 AGATTCGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 1 0.06
15 8 0.47
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.41
Consensus pattern (15 bp):
CTTTTAACATAGAAA
Found at i:44265535 original size:8 final size:8
Alignment explanation
Indices: 44265522--44265546 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
44265512 GTACCCCAAT
44265522 AATATATA
1 AATATATA
44265530 AATATATA
1 AATATATA
44265538 AATATATA
1 AATATATA
44265546 A
1 A
44265547 TATTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
AATATATA
Found at i:44268139 original size:21 final size:20
Alignment explanation
Indices: 44268097--44268139 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
44268087 CTCCAAGCAC
*
44268097 TTTTATTATATTTTTTTTAA
1 TTTTATTATATTTTTTTAAA
44268117 TTTT-TTATATTTTAGTTTAAA
1 TTTTATTATATTTT--TTTAAA
44268138 TT
1 TT
44268140 CAATAAAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 4 0.20
21 7 0.35
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (20 bp):
TTTTATTATATTTTTTTAAA
Found at i:44280045 original size:24 final size:24
Alignment explanation
Indices: 44280017--44280068 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44280007 TTTCTAGAAG
* *
44280017 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
44280041 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
44280065 ATTT
1 ATTT
44280069 GACTTACTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:44283134 original size:3 final size:3
Alignment explanation
Indices: 44283126--44283192 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
44283116 CTCTATGGGA
44283126 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
44283174 TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT T
44283193 TGGGATACTC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:44294836 original size:46 final size:45
Alignment explanation
Indices: 44294764--44294931 Score: 142
Period size: 46 Copynumber: 3.7 Consensus size: 45
44294754 AGGCTATGTG
* * * * *
44294764 TTGTGTAGGTTCAACCTTAATCGGTGACCAGACACAATTATCCGAT
1 TTGTGTAGTTTAAACCTTAATGGGTGACCAG-CACTATTATCCAAT
* *
44294810 TTGTGTATGTTTAAACC-TAATGGGTGACAAGGCACTATTATCAAAT
1 TTGTGTA-GTTTAAACCTTAATGGGTGACCA-GCACTATTATCCAAT
* * * *
44294856 TCT-TGTAGGTTCAACCTTAACGGGTGACCATGCACTATTATTCAAT
1 T-TGTGTAGTTTAAACCTTAATGGGTGACCA-GCACTATTATCCAAT
* * * *
44294902 TCGTGTAGGTTCAACCCTAATGGGTGACCA
1 TTGTGTAGTTTAAACCTTAATGGGTGACCA
44294932 ATACTACTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
45 7 0.07
46 84 0.84
47 9 0.09
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (45 bp):
TTGTGTAGTTTAAACCTTAATGGGTGACCAGCACTATTATCCAAT
Done.