Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 127 of 297
Found at i:44295943 original size:17 final size:17
Alignment explanation
Indices: 44295921--44296003 Score: 67
Period size: 17 Copynumber: 4.6 Consensus size: 17
44295911 CTATAAATAT
* *
44295921 TATTAAATTTTAATAAA
1 TATTAAATATTAAAAAA
44295938 TATTAAATATTAAAAAA
1 TATTAAATATTAAAAAA
* *
44295955 TGTATTAAAAAATAGAAAAAA
1 --TATT-AAATAT-TAAAAAA
* *
44295976 TATAAAAATCTTAAAAAA
1 TAT-TAAATATTAAAAAA
44295994 TATTAAATAT
1 TATTAAATAT
44296004 ATAGAAATAT
Statistics
Matches: 51, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
17 20 0.39
18 9 0.18
19 11 0.22
20 5 0.10
21 6 0.12
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (17 bp):
TATTAAATATTAAAAAA
Found at i:44295955 original size:10 final size:10
Alignment explanation
Indices: 44295942--44296000 Score: 61
Period size: 10 Copynumber: 6.0 Consensus size: 10
44295932 AATAAATATT
44295942 AAATATTAAA
1 AAATATTAAA
44295952 AAATGTATTAAA
1 AAA--TATTAAA
*
44295964 AAATA-GAAA
1 AAATATTAAA
44295973 AAATA-T-AA
1 AAATATTAAA
*
44295981 AAATCTTAAA
1 AAATATTAAA
44295991 AAATATTAAA
1 AAATATTAAA
44296001 TATATAGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
8 6 0.15
9 9 0.22
10 16 0.39
12 10 0.24
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATATTAAA
Found at i:44295955 original size:27 final size:27
Alignment explanation
Indices: 44295914--44296003 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
44295904 ATAAAAGCTA
** *
44295914 TAAATATTATTAAATTTTAATAAATAT
1 TAAATATTAAAAAATTTTAAAAAATAT
44295941 TAAATATTAAAAAATGTATTAAAAAATA-
1 TAAATATTAAAAAAT-T-TTAAAAAATAT
* * * *
44295969 GAAAAAATATAAAAATCTTAAAAAATAT
1 TAAATATTA-AAAAATTTTAAAAAATAT
44295997 TAAATAT
1 TAAATAT
44296004 ATAGAAATAT
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
27 23 0.47
28 11 0.22
29 15 0.31
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (27 bp):
TAAATATTAAAAAATTTTAAAAAATAT
Found at i:44296005 original size:27 final size:26
Alignment explanation
Indices: 44295914--44296020 Score: 81
Period size: 27 Copynumber: 3.9 Consensus size: 26
44295904 ATAAAAGCTA
* * *
44295914 TAAATATTATTAAATTTTAATAAATAT
1 TAAATA-TATAAAAATTTAAAAAATAT
*
44295941 TAAATAT-TAAAAAATGTATTAAAAAATAG
1 TAAATATAT-AAAAA--T-TTAAAAAATAT
* *
44295970 AAAAAATATAAAAATCTTAAAAAATAT
1 TAAATATATAAAAAT-TTAAAAAATAT
* *
44295997 TAAATATATAGAAATATAAAAAAT
1 TAAATATATAAAAATTTAAAAAAT
44296021 TATACAATTC
Statistics
Matches: 63, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
25 1 0.02
26 12 0.19
27 29 0.46
28 1 0.02
29 19 0.30
30 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.34
Consensus pattern (26 bp):
TAAATATATAAAAATTTAAAAAATAT
Found at i:44296024 original size:10 final size:9
Alignment explanation
Indices: 44295960--44296020 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
44295950 AAAAATGTAT
44295960 TAAAAAATA
1 TAAAAAATA
*
44295969 GAAAAAATA
1 TAAAAAATA
*
44295978 T-AAAAATCT
1 TAAAAAAT-A
44295987 TAAAAAATA
1 TAAAAAATA
* *
44295996 TTAAATATA
1 TAAAAAATA
*
44296005 T-AGAAATA
1 TAAAAAATA
44296013 TAAAAAAT
1 TAAAAAAT
44296021 TATACAATTC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
8 12 0.30
9 22 0.55
10 6 0.15
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (9 bp):
TAAAAAATA
Found at i:44296296 original size:19 final size:20
Alignment explanation
Indices: 44296259--44296298 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
44296249 TGTTAAAGGG
44296259 ATTTTTTAATGCATTTTATA
1 ATTTTTTAATGCATTTTATA
44296279 ATTTTTT-ATG-ATTATTATA
1 ATTTTTTAATGCATT-TTATA
44296298 A
1 A
44296299 AATTTTACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.16
19 9 0.47
20 7 0.37
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (20 bp):
ATTTTTTAATGCATTTTATA
Found at i:44296316 original size:18 final size:21
Alignment explanation
Indices: 44296293--44296337 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 21
44296283 TTTATGATTA
44296293 TTATAAAATT-TT-ACAA-TT
1 TTATAAAATTATTCACAATTT
44296311 TTAT--AATTATTCACAATTT
1 TTATAAAATTATTCACAATTT
44296330 TTATAAAA
1 TTATAAAA
44296338 ATAATTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
16 4 0.18
17 2 0.09
18 8 0.36
19 6 0.27
21 2 0.09
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATAAAATTATTCACAATTT
Found at i:44296372 original size:19 final size:19
Alignment explanation
Indices: 44296348--44296404 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
44296338 ATAATTTGAA
44296348 TAAAATTTTAAT-TTTTTAT
1 TAAAA-TTTAATATTTTTAT
44296367 TAAAATTTAATATTTTT-T
1 TAAAATTTAATATTTTTAT
44296385 CTAAAATTTAATATTTTTAT
1 -TAAAATTTAATATTTTTAT
44296405 ATATTTTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.20
19 27 0.77
20 1 0.03
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TAAAATTTAATATTTTTAT
Found at i:44300577 original size:21 final size:22
Alignment explanation
Indices: 44300551--44300597 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
44300541 CTCTGCTCAA
*
44300551 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
44300572 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
44300594 ACTC
1 ACTC
44300598 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:44304279 original size:251 final size:249
Alignment explanation
Indices: 44303837--44304290 Score: 630
Period size: 251 Copynumber: 1.8 Consensus size: 249
44303827 GCTGGTAAGC
* *
44303837 CTAAAATGAAAAATTTTCTATTTAAGTCATTTATAATTTATAAAATTTTAAATTAATAATGATAA
1 CTAAAATGAAAAATTATCTATTTAAGCCATTTATAATTTATAAAATTTTAAATTAATAATGATAA
* * *
44303902 AATTGTACTTTGACATTAAAAAAATAATAAAAAATGATTTCATCTAAAAATTATAAAGATATAAA
66 AATTGCACATTGACATCAAAAAAATAATAAAAAATGATTTCATCTAAAAATTATAAAGATATAAA
* * *
44303967 CTATAAAAATATACAATTTAATTCCGGCCTCATAAAATTTATTGGCTCTTAACCTTCCTAATAAG
131 CTATAAAAATATACAATTTAATTCCAGCCACATAAAATTTATTAGCTCTTAACCTTCCTAATAAG
44304032 TAAAAAGTTAGCCAATGATGGAGCTAGAGGTTGCTGGCAGGGGCCTCGACCTCT
196 TAAAAAGTTAGCCAATGATGGAGCTAGAGGTTGCTGGCAGGGGCCTCGACCTCT
44304086 CTAAAATGGAAAAATTATC-ATTTAAGCCATTTATAATTTATAAAATTTTAAATTAATAATGATA
1 CTAAAAT-GAAAAATTATCTATTTAAGCCATTTATAATTTATAAAATTTTAAATTAATAATGATA
* ** * * * * *
44304150 AGATTGCACATT-A-ATCCCAAAAATGATAAAAATCTGATTTAATTATTTAAAAATTATAAATAT
65 AAATTGCACATTGACATCAAAAAAATAATAAAAA-ATGA-TT--TCATCTAAAAATTATAAAGAT
* * * *
44304213 ATAGACTATAAAAATATACAATTTAA-TCCTAGTCACA-AAAATTTTCTTAGCTCTTAGCCTTCC
126 ATAAACTATAAAAATATACAATTTAATTCC-AGCCACATAAAA-TTTATTAGCTCTTAACCTTCC
44304276 TAATAAGTAAAAAGT
189 TAATAAGTAAAAAGT
44304291 AAATTTTGGT
Statistics
Matches: 178, Mismatches: 20, Indels: 12
0.85 0.10 0.06
Matches are distributed among these distances:
247 15 0.08
248 4 0.02
249 62 0.35
250 17 0.10
251 80 0.45
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (249 bp):
CTAAAATGAAAAATTATCTATTTAAGCCATTTATAATTTATAAAATTTTAAATTAATAATGATAA
AATTGCACATTGACATCAAAAAAATAATAAAAAATGATTTCATCTAAAAATTATAAAGATATAAA
CTATAAAAATATACAATTTAATTCCAGCCACATAAAATTTATTAGCTCTTAACCTTCCTAATAAG
TAAAAAGTTAGCCAATGATGGAGCTAGAGGTTGCTGGCAGGGGCCTCGACCTCT
Found at i:44304735 original size:4 final size:4
Alignment explanation
Indices: 44304726--44304752 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
44304716 AACGTATAGT
44304726 AATA AATA AATA AATA AATA AATA AAT
1 AATA AATA AATA AATA AATA AATA AAT
44304753 TAAGAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:44305059 original size:60 final size:61
Alignment explanation
Indices: 44304967--44305095 Score: 224
Period size: 60 Copynumber: 2.1 Consensus size: 61
44304957 TAAATTAAAA
*
44304967 TAAATATTTAATTAGGTACTTCAATATGAAGTAACCTCAATTTCTTTTT-AAAAAATAATTT
1 TAAA-ATTTAATTAGGTACTTCAAGATGAAGTAACCTCAATTTCTTTTTCAAAAAATAATTT
*
44305028 TAAAATTTAATTAGGTACTTCAAGATTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTT
1 TAAAATTTAATTAGGTACTTCAAGATGAAGTAACCTCAATTTCTTTTTCAAAAAATAATTT
44305089 TAAAATT
1 TAAAATT
44305096 ACTAAATCAC
Statistics
Matches: 65, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 42 0.65
61 23 0.35
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (61 bp):
TAAAATTTAATTAGGTACTTCAAGATGAAGTAACCTCAATTTCTTTTTCAAAAAATAATTT
Found at i:44321577 original size:61 final size:61
Alignment explanation
Indices: 44321482--44321727 Score: 370
Period size: 61 Copynumber: 4.0 Consensus size: 61
44321472 AAAAACAAAT
* * * *
44321482 ATTTAATTAGGTACTTCAATCTG-AAGTAACCTCAATTTCTTTTTTAAAATATAATTTTAAA
1 ATTTAATTAGGCACTTCAA-CAGTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
* *
44321543 ATTTAATTAGGTACTTCAACATTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
1 ATTTAATTAGGCACTTCAACAGTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
**
44321604 ATTTAATTAGGCACTTCAGTAGTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
1 ATTTAATTAGGCACTTCAACAGTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
** *
44321665 ATTTAATTAGGCACTTCAGTAGTAAGTAACCTCAAATT-TTTTTCAAAAAATAATTTTAAA
1 ATTTAATTAGGCACTTCAACAGTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
44321725 ATT
1 ATT
44321728 ACTACATCAC
Statistics
Matches: 175, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
60 26 0.15
61 149 0.85
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.41
Consensus pattern (61 bp):
ATTTAATTAGGCACTTCAACAGTAAGTAACCTCAATTTCTTTTTCAAAAAATAATTTTAAA
Found at i:44321872 original size:17 final size:16
Alignment explanation
Indices: 44321847--44321880 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44321837 TAAGAAAAGA
*
44321847 ATAATCCCCCCCCCCCN
1 ATAA-CCCCCCCCCCCC
44321864 ATAACCCCCCCCCCCC
1 ATAACCCCCCCCCCCC
44321880 A
1 A
44321881 CAAAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.21, C:0.68, G:0.00, T:0.09
Consensus pattern (16 bp):
ATAACCCCCCCCCCCC
Found at i:44321873 original size:16 final size:16
Alignment explanation
Indices: 44321847--44321880 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
44321837 TAAGAAAAGA
44321847 ATAATCCCCCCCCCCC
1 ATAATCCCCCCCCCCC
*
44321863 NATAACCCCCCCCCCCC
1 -ATAATCCCCCCCCCCC
44321880 A
1 A
44321881 CAAAAAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.21, C:0.68, G:0.00, T:0.09
Consensus pattern (16 bp):
ATAATCCCCCCCCCCC
Found at i:44326255 original size:19 final size:19
Alignment explanation
Indices: 44326231--44326275 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
44326221 ACTTATATAT
44326231 TTATTTAGATAGATAAATC
1 TTATTTAGATAGATAAATC
* *
44326250 TTATTTAGATAGATAAGTT
1 TTATTTAGATAGATAAATC
44326269 TTATTTA
1 TTATTTA
44326276 TTTTCTAGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.49
Consensus pattern (19 bp):
TTATTTAGATAGATAAATC
Found at i:44328290 original size:49 final size:49
Alignment explanation
Indices: 44328233--44328331 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
44328223 CTTATTAACA
* *
44328233 ACTACATATCTTATTAACTCCTTTTCGTCTTTCTAAAGATAATTTTCCT
1 ACTACATATCTTATGAACTCATTTTCGTCTTTCTAAAGATAATTTTCCT
*
44328282 ACTACATATCTTATGAACTCATTTTCGTCTTTTTAAAGATAATTTTCCT
1 ACTACATATCTTATGAACTCATTTTCGTCTTTCTAAAGATAATTTTCCT
44328331 A
1 A
44328332 ACTTTAAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.28, C:0.20, G:0.05, T:0.46
Consensus pattern (49 bp):
ACTACATATCTTATGAACTCATTTTCGTCTTTCTAAAGATAATTTTCCT
Found at i:44328925 original size:225 final size:225
Alignment explanation
Indices: 44328534--44328984 Score: 902
Period size: 225 Copynumber: 2.0 Consensus size: 225
44328524 TGAAACACAA
44328534 ACTTTATTTTGATTTTAATAATTAGGGAGGGAATTATAGTAAGGAAGATTCTATAATTGATCAAG
1 ACTTTATTTTGATTTTAATAATTAGGGAGGGAATTATAGTAAGGAAGATTCTATAATTGATCAAG
44328599 AAAAGACTAGGAATATACAACATATGGATTCTAATAATAGGGAAGGCGAATTTATGATTAACACA
66 AAAAGACTAGGAATATACAACATATGGATTCTAATAATAGGGAAGGCGAATTTATGATTAACACA
44328664 GAAATTAATGAAGTTAATGTTAATAAAAAGGAATATGAATGTGTAGAGTCTGATCATGAGAATAA
131 GAAATTAATGAAGTTAATGTTAATAAAAAGGAATATGAATGTGTAGAGTCTGATCATGAGAATAA
44328729 AGAACAAATAAATGAGTTAATTGTTTACTC
196 AGAACAAATAAATGAGTTAATTGTTTACTC
44328759 ACTTTATTTTGATTTTAATAATTAGGGAGGGAATTATAGTAAGGAAGATTCTATAATTGATCAAG
1 ACTTTATTTTGATTTTAATAATTAGGGAGGGAATTATAGTAAGGAAGATTCTATAATTGATCAAG
44328824 AAAAGACTAGGAATATACAACATATGGATTCTAATAATAGGGAAGGCGAATTTATGATTAACACA
66 AAAAGACTAGGAATATACAACATATGGATTCTAATAATAGGGAAGGCGAATTTATGATTAACACA
44328889 GAAATTAATGAAGTTAATGTTAATAAAAAGGAATATGAATGTGTAGAGTCTGATCATGAGAATAA
131 GAAATTAATGAAGTTAATGTTAATAAAAAGGAATATGAATGTGTAGAGTCTGATCATGAGAATAA
44328954 AGAACAAATAAATGAGTTAATTGTTTACTC
196 AGAACAAATAAATGAGTTAATTGTTTACTC
44328984 A
1 A
44328985 AGAAGAAATT
Statistics
Matches: 226, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
225 226 1.00
ACGTcount: A:0.43, C:0.07, G:0.19, T:0.31
Consensus pattern (225 bp):
ACTTTATTTTGATTTTAATAATTAGGGAGGGAATTATAGTAAGGAAGATTCTATAATTGATCAAG
AAAAGACTAGGAATATACAACATATGGATTCTAATAATAGGGAAGGCGAATTTATGATTAACACA
GAAATTAATGAAGTTAATGTTAATAAAAAGGAATATGAATGTGTAGAGTCTGATCATGAGAATAA
AGAACAAATAAATGAGTTAATTGTTTACTC
Found at i:44338170 original size:3 final size:3
Alignment explanation
Indices: 44338155--44338406 Score: 55
Period size: 3 Copynumber: 84.3 Consensus size: 3
44338145 TTTCCAATTA
* * *
44338155 ATT ATT TTT ATT ATT ATCT TTT ATT ATT A-T ATTT ATT A-T ATTT ACT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT A-TT ATT ATT A-TT ATT
* * * * * **
44338201 ATT ATT TTT ATT TTT ATT TTT ATT ACT CTT ACTT -TT ATT AAC A-T
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
* * * * * *
44338245 ATT ATT ACT ACT A-C ATT -CT ATCT ATT ATT ATT A-T CTT ATT -TAA
1 ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT AT-T
* * * *
44338288 AAT ATT ATT ATT ATT -TCC ATA ATT ATT ATT A-T ATT ATT ATT CTT
1 ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
44338332 ATT AGT ACGTT ATT ATT ATCT -TT -TCT ACCTT ATT ACT ATT ATT -GT
1 ATT ATT A--TT ATT ATT AT-T ATT AT-T A--TT ATT ATT ATT ATT ATT
* * *
44338377 ATT ATT ACT AAT ATT ATT ATC A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
44338407 GGCTAATTAA
Statistics
Matches: 177, Mismatches: 46, Indels: 52
0.64 0.17 0.19
Matches are distributed among these distances:
2 18 0.10
3 141 0.80
4 13 0.07
5 4 0.02
6 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:44338177 original size:34 final size:32
Alignment explanation
Indices: 44338151--44338218 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
44338141 TTATTTTCCA
* *
44338151 ATTAATTATTTTTATTATTATCTTTTATTATTAT
1 ATTAATTATATTTACTATTAT-TTTTATT-TTAT
*
44338185 ATTTATTATATTTACTATTATTTTTATTTT-T
1 ATTAATTATATTTACTATTATTTTTATTTTAT
44338216 ATT
1 ATT
44338219 TTTATTACTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 4 0.13
32 2 0.06
33 7 0.23
34 18 0.58
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (32 bp):
ATTAATTATATTTACTATTATTTTTATTTTAT
Found at i:44338187 original size:27 final size:26
Alignment explanation
Indices: 44338156--44338239 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
44338146 TTCCAATTAA
* *
44338156 TTATTTTTATTATTAT-CTTTTATTA
1 TTATTTTTATTATTATACTATTATTT
* *
44338181 TTATATTTATTATATTTACTATTATTT
1 TTATTTTTATTAT-TATACTATTATTT
* * *
44338208 TTATTTTTATTTTTATTACTCTTACTT
1 TTATTTTTATTATTA-TACTATTATTT
44338235 TTATT
1 TTATT
44338240 AACATATTAT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
25 12 0.26
26 3 0.06
27 32 0.68
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (26 bp):
TTATTTTTATTATTATACTATTATTT
Found at i:44338189 original size:12 final size:12
Alignment explanation
Indices: 44338155--44338225 Score: 85
Period size: 12 Copynumber: 6.1 Consensus size: 12
44338145 TTTCCAATTA
44338155 ATTATTTTTATT
1 ATTATTTTTATT
44338167 ATTATCTTTTATT
1 ATTAT-TTTTATT
*
44338180 ATTATATTTATT
1 ATTATTTTTATT
*
44338192 A-TA--TTTACT
1 ATTATTTTTATT
44338201 ATTATTTTTATT
1 ATTATTTTTATT
*
44338213 TTTATTTTTATT
1 ATTATTTTTATT
44338225 A
1 A
44338226 CTCTTACTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 6 0.12
10 2 0.04
11 2 0.04
12 28 0.56
13 12 0.24
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTATTTTTATT
Found at i:44338233 original size:33 final size:33
Alignment explanation
Indices: 44338166--44338239 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
44338156 TTATTTTTAT
*
44338166 TATTATCTTTTATTATTATATTTATTATATTTAC
1 TATTAT-TTTTATTATTATATTTATTATACTTAC
* *
44338200 TATTATTTTTATTTTTATTTTTATTACT-CTTAC
1 TATTATTTTTATTATTATATTTATTA-TACTTAC
*
44338233 TTTTATT
1 TATTATT
44338240 AACATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
33 28 0.80
34 7 0.20
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (33 bp):
TATTATTTTTATTATTATATTTATTATACTTAC
Found at i:44338394 original size:23 final size:22
Alignment explanation
Indices: 44338368--44338431 Score: 67
Period size: 23 Copynumber: 2.8 Consensus size: 22
44338358 ACCTTATTAC
*
44338368 TATTATTGTATTATTACTAATAT
1 TATTATTATATTATTACTAAT-T
*
44338391 TATTATCATATTATTAGGCTAATT
1 TATTATTATATTATTA--CTAATT
*
44338415 AATT-TTATATTATTACT
1 TATTATTATATTATTACT
44338432 TCATTATATG
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 2 0.06
23 24 0.69
24 4 0.11
25 5 0.14
ACGTcount: A:0.34, C:0.06, G:0.05, T:0.55
Consensus pattern (22 bp):
TATTATTATATTATTACTAATT
Found at i:44338503 original size:22 final size:21
Alignment explanation
Indices: 44338478--44338552 Score: 80
Period size: 22 Copynumber: 3.5 Consensus size: 21
44338468 TACTTATATC
*
44338478 ATCATTATTATTAATTTGTATT
1 ATCATTATTATT-ATTTGTACT
*
44338500 ATCATTATTATTATTTTTACT
1 ATCATTATTATTATTTGTACT
* *
44338521 ATTATTATT-TATATTCGTTACT
1 ATCATTATTAT-TATTTG-TACT
44338543 ATCATTATTA
1 ATCATTATTA
44338553 ATTTTATCTT
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.02
21 19 0.43
22 24 0.55
ACGTcount: A:0.31, C:0.08, G:0.03, T:0.59
Consensus pattern (21 bp):
ATCATTATTATTATTTGTACT
Found at i:44338639 original size:3 final size:3
Alignment explanation
Indices: 44338481--44338626 Score: 59
Period size: 3 Copynumber: 47.0 Consensus size: 3
44338471 TTATATCATC
* * *
44338481 ATT ATT ATT AATT -TGT ATT ATC ATT ATT ATT ATT TTT ACT ATT ATT
1 ATT ATT ATT -ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
44338527 ATT -TAT ATT CGTT ACT ATC ATT ATT AATT -TT ATCT -TT ATT -TT ATTT
1 ATT AT-T ATT -ATT ATT ATT ATT ATT -ATT ATT AT-T ATT ATT ATT A-TT
* * * * * *
44338573 ACT ATT ATT TTT ATT ATC ATT ATTT ATTT ATTT ATT ACT ACT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT A-TT A-TT ATT ATT ATT ATT ATT
44338621 ATT ATT
1 ATT ATT
44338627 GTCATGTTAT
Statistics
Matches: 108, Mismatches: 22, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
2 7 0.06
3 76 0.70
4 25 0.23
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:44339860 original size:25 final size:25
Alignment explanation
Indices: 44339832--44339903 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
44339822 AAGCTTTTTC
44339832 GAGCCATATAAT-GGGAAGCTCATAT
1 GAGCCATAT-ATCGGGAAGCTCATAT
** * *
44339857 GAGCTGTATATCGGGAAGCTCTTGT
1 GAGCCATATATCGGGAAGCTCATAT
* *
44339882 GAGCCAAATATCGAGAAGCTCA
1 GAGCCATATATCGGGAAGCTCA
44339904 AGAGAGCTGT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
24 2 0.05
25 35 0.95
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (25 bp):
GAGCCATATATCGGGAAGCTCATAT
Found at i:44339900 original size:50 final size:49
Alignment explanation
Indices: 44339804--44339903 Score: 114
Period size: 50 Copynumber: 2.0 Consensus size: 49
44339794 ATGTATGCTT
* * *
44339804 ATATGAGCTGTAAACAGGAAGCTTTTTCGAGCCATATAATGGGAAGCTC
1 ATATGAGCTGTAAACAGGAAGCTTTGTCGAGCCAAATAATGAGAAGCTC
* *
44339853 ATATGAGCTGTATATCGGGAAGCTCTTGT-GAGCCAAAT-ATCGAGAAGCTC
1 ATATGAGCTGTA-AACAGGAAGCT-TTGTCGAGCCAAATAAT-GAGAAGCTC
44339903 A
1 A
44339904 AGAGAGCTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
49 14 0.33
50 26 0.60
51 3 0.07
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
ATATGAGCTGTAAACAGGAAGCTTTGTCGAGCCAAATAATGAGAAGCTC
Found at i:44339911 original size:50 final size:50
Alignment explanation
Indices: 44339857--44339959 Score: 120
Period size: 50 Copynumber: 2.1 Consensus size: 50
44339847 AAGCTCATAT
* * *
44339857 GAGCTG-TATATCGGGAAGCTCTTGTGAGCCAAATATC-GAGAAGCTCAAGA
1 GAGCTGTTA-ATCAGGAAGCTCATGAGAGCCAAATATCTG-GAAGCTCAAGA
* * *
44339907 GAGCTGTTAATTAGGAAGCTCATGAGAGCTAAGTATCTGGAAGCTCAAGA
1 GAGCTGTTAATCAGGAAGCTCATGAGAGCCAAATATCTGGAAGCTCAAGA
44339957 GAG
1 GAG
44339960 TTGCGGTGTG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
50 42 0.93
51 3 0.07
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (50 bp):
GAGCTGTTAATCAGGAAGCTCATGAGAGCCAAATATCTGGAAGCTCAAGA
Found at i:44342905 original size:21 final size:21
Alignment explanation
Indices: 44342881--44342921 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44342871 AGCACAGGCA
*
44342881 TGTCTAAGGGTCACACGGGCG
1 TGTCCAAGGGTCACACGGGCG
**
44342902 TGTCCCTGGGTCACACGGGC
1 TGTCCAAGGGTCACACGGGC
44342922 ATGTGAGCCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.20
Consensus pattern (21 bp):
TGTCCAAGGGTCACACGGGCG
Found at i:44343708 original size:21 final size:21
Alignment explanation
Indices: 44343637--44343712 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
44343627 TTACAATAAG
*
44343637 AGAAAAATTAATATGAAAA-AA
1 AGAAAATTTAA-ATGAAAAGAA
* * *
44343658 ACGTAAATTAAAATGGAAAGAA
1 A-GAAAATTTAAATGAAAAGAA
*
44343680 AGATAATTTAAATGAAAAGAGA
1 AGAAAATTTAAATGAAAAGA-A
44343702 A-AAAA-TTAAAT
1 AGAAAATTTAAAT
44343713 TTAAATGAAA
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
20 6 0.14
21 25 0.58
22 12 0.28
ACGTcount: A:0.64, C:0.01, G:0.13, T:0.21
Consensus pattern (21 bp):
AGAAAATTTAAATGAAAAGAA
Found at i:44343719 original size:26 final size:26
Alignment explanation
Indices: 44343684--44343799 Score: 107
Period size: 26 Copynumber: 4.5 Consensus size: 26
44343674 AAAGAAAGAT
44343684 AATTTAAATGAAAAGAGAAAAAATTA
1 AATTTAAATGAAAAGAGAAAAAATTA
* *
44343710 AATTTAAATGAAATGAGAAAAAAATA
1 AATTTAAATGAAAAGAGAAAAAATTA
* * *
44343736 AATTAAAATG-GAA-AG-AAAGA-T-
1 AATTTAAATGAAAAGAGAAAAAATTA
* *
44343757 AATTTGAATGAAATGAGGACAAAAATTA
1 AATTTAAATGAAAAGA-GA-AAAAATTA
44343785 AATTTAAATTGAAAA
1 AATTTAAA-TGAAAA
44343800 AAATAATTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
21 8 0.12
22 2 0.03
23 5 0.07
24 3 0.04
25 1 0.01
26 37 0.54
27 1 0.01
28 7 0.10
29 5 0.07
ACGTcount: A:0.61, C:0.01, G:0.14, T:0.24
Consensus pattern (26 bp):
AATTTAAATGAAAAGAGAAAAAATTA
Found at i:44343745 original size:21 final size:21
Alignment explanation
Indices: 44343720--44343811 Score: 53
Period size: 20 Copynumber: 4.1 Consensus size: 21
44343710 AATTTAAATG
44343720 AAATGAGAAAAAAATAAATTA
1 AAATGAGAAAAAAATAAATTA
*
44343741 AAATG-GAAAGAAAGATAATTTGAA
1 AAATGAGAAA-AAA-ATAAATT--A
* *
44343765 TGAAATGAGGACAAAAATTAAATTT
1 --AAATGA-GA-AAAAAATAAATTA
* *
44343790 AAAT-TGAAAAAAATAATTTA
1 AAATGAGAAAAAAATAAATTA
44343810 AA
1 AA
44343812 TGAAATAAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 19
0.67 0.10 0.23
Matches are distributed among these distances:
20 16 0.30
21 10 0.19
22 6 0.11
23 4 0.07
24 1 0.02
26 5 0.09
27 5 0.09
28 5 0.09
29 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (21 bp):
AAATGAGAAAAAAATAAATTA
Found at i:44343761 original size:47 final size:46
Alignment explanation
Indices: 44343710--44343968 Score: 279
Period size: 47 Copynumber: 5.4 Consensus size: 46
44343700 GAAAAAATTA
44343710 AATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGAAAGAAAGAT
1 AATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGAAA-AAAGAT
* * * *
44343757 AATTTGAATGAAATGAGGACAAAAATTAAATTTAAATTGAAAAAA-AT
1 AATTTAAATGAAATGA-GA-AAAAAATAAATTAAAATGGAAAAAAGAT
* * *
44343804 AATTTAAATGAAATAAGATAAAAAATTTAAATTAAGATGGGAAGAAAGAT
1 AATTTAAATGAAATGAGA-AAAAAA--TAAATTAAAAT-GGAAAAAAGAT
* * * * *
44343854 AATTTAAATGAACTGAGAACAAAATTAGATTTAAATGGAAAAAAAAT
1 AATTTAAATGAAATGAGAA-AAAAATAAATTAAAATGGAAAAAAGAT
* *
44343901 AATTTAAATGAAATGACAAAAAAAATTAAATTAAAATGGGAATAAAGAT
1 AATTTAAATGAAATGA-GAAAAAAA-TAAATTAAAAT-GGAAAAAAGAT
44343950 AATTTAAATGAAATG-GAAA
1 AATTTAAATGAAATGAGAAA
44343969 TACAAATTAA
Statistics
Matches: 174, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
46 7 0.04
47 62 0.36
48 33 0.19
49 50 0.29
50 22 0.13
ACGTcount: A:0.59, C:0.02, G:0.14, T:0.25
Consensus pattern (46 bp):
AATTTAAATGAAATGAGAAAAAAATAAATTAAAATGGAAAAAAGAT
Found at i:44343851 original size:97 final size:94
Alignment explanation
Indices: 44343700--44343964 Score: 370
Period size: 97 Copynumber: 2.8 Consensus size: 94
44343690 AATGAAAAGA
* * *
44343700 GAAAAAATTAAATTTAAATGAAATGAGAAAAAAA-TAAATTAAAATGGAAAGAAAGATAATTTGA
1 GAAAAAAAT-AATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAA
* *
44343764 ATGAAATGAGGACAAAAATTAAATTTAAATT
65 ATGAAATGAGAAC-AAAATTAAATTTAAATG
* *
44343795 GAAAAAAATAATTTAAATGAAATAAGATAAAAAATTTAAATTAAGATGGGAAGAAAGATAATTTA
1 GAAAAAAATAATTTAAATGAAATGAGA-AAAAAA-TTAAATTAAAATGGGAAGAAAGATAATTTA
* *
44343860 AATGAACTGAGAACAAAATTAGATTTAAATG
64 AATGAAATGAGAACAAAATTAAATTTAAATG
* *
44343891 GAAAAAAAATAATTTAAATGAAATGACAAAAAAAATTAAATTAAAATGGGAATAAAGATAATTTA
1 G-AAAAAAATAATTTAAATGAAATGA-GAAAAAAATTAAATTAAAATGGGAAGAAAGATAATTTA
44343956 AATGAAATG
64 AATGAAATG
44343965 GAAATACAAA
Statistics
Matches: 151, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
94 17 0.11
95 14 0.09
96 52 0.34
97 67 0.44
98 1 0.01
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.25
Consensus pattern (94 bp):
GAAAAAAATAATTTAAATGAAATGAGAAAAAAATTAAATTAAAATGGGAAGAAAGATAATTTAAA
TGAAATGAGAACAAAATTAAATTTAAATG
Found at i:44344293 original size:11 final size:11
Alignment explanation
Indices: 44344277--44344306 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
44344267 ATTTTTAATT
44344277 AATATGAAATA
1 AATATGAAATA
44344288 AATATGAAATA
1 AATATGAAATA
44344299 AAT-TGAAA
1 AATATGAAA
44344307 AAAAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (11 bp):
AATATGAAATA
Found at i:44344403 original size:18 final size:18
Alignment explanation
Indices: 44344357--44344420 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 18
44344347 TTTGATTAAT
44344357 ATGAAAAAAAA-ATTGTATA
1 ATGAAAAAAAATATTG-A-A
* *
44344376 TTAGAAAAAAAATAAATTTAA
1 AT-GAAAAAAAAT--ATTGAA
44344397 ATGAAAAAAAATATTGAA
1 ATGAAAAAAAATATTGAA
44344415 ATGAAA
1 ATGAAA
44344421 TGTTAAATGA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 11 0.30
19 1 0.03
20 19 0.51
21 2 0.05
22 1 0.03
23 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (18 bp):
ATGAAAAAAAATATTGAA
Found at i:44344427 original size:30 final size:30
Alignment explanation
Indices: 44344385--44344461 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 30
44344375 ATTAGAAAAA
44344385 AAAT-AAAT-TTAAATGAAA-AAAAATATTG
1 AAATGAAATGTTAAATGAAACAAAAATA-TG
**
44344413 AAATGAAATGTTAAATGAAACATGAATATG
1 AAATGAAATGTTAAATGAAACAAAAATATG
44344443 AAATGAAATGTTAAATGAA
1 AAATGAAATGTTAAATGAA
44344462 TATGAAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
28 4 0.09
29 4 0.09
30 31 0.70
31 5 0.11
ACGTcount: A:0.58, C:0.01, G:0.13, T:0.27
Consensus pattern (30 bp):
AAATGAAATGTTAAATGAAACAAAAATATG
Found at i:44344495 original size:19 final size:19
Alignment explanation
Indices: 44344434--44344488 Score: 56
Period size: 23 Copynumber: 2.7 Consensus size: 19
44344424 TAAATGAAAC
*
44344434 ATGAATATGAAATGAAATG
1 ATGAATATGAAATAAAATG
44344453 TTAAATGAATATGAAATAAAATG
1 ----ATGAATATGAAATAAAATG
*
44344476 ATGATTATGAAAT
1 ATGAATATGAAAT
44344489 GGAATGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 12 0.40
23 18 0.60
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (19 bp):
ATGAATATGAAATAAAATG
Found at i:44344508 original size:22 final size:22
Alignment explanation
Indices: 44344482--44344532 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
44344472 AATGATGATT
*
44344482 ATGAAATGGAATGA-AAGTTTAA
1 ATGAAAT-AAATGATAAGTTTAA
*
44344504 ATGAAAATAAATTATAAGTTTAA
1 ATG-AAATAAATGATAAGTTTAA
44344527 ATGAAA
1 ATGAAA
44344533 ACAAAAACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (22 bp):
ATGAAATAAATGATAAGTTTAA
Found at i:44344611 original size:23 final size:22
Alignment explanation
Indices: 44344561--44344615 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
44344551 AATAAAAATT
44344561 TTGAAATG-AAAAATAATTAAA
1 TTGAAATGAAAAAATAATTAAA
*
44344582 TTTAAATAGAAAAAATAATTTAAA
1 TTGAAAT-GAAAAAATAA-TTAAA
44344606 -TGAAATGAAA
1 TTGAAATGAAA
44344616 TGGAAATGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 5 0.17
23 13 0.45
24 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (22 bp):
TTGAAATGAAAAAATAATTAAA
Found at i:44344613 original size:5 final size:5
Alignment explanation
Indices: 44344603--44344668 Score: 53
Period size: 5 Copynumber: 12.6 Consensus size: 5
44344593 AAAATAATTT
* * *
44344603 AAATG AAATG AAATGG AAATGG AAATGG AATTAC AAATG AAATG AAAGG
1 AAATG AAATG AAAT-G AAAT-G AAAT-G AAAT-G AAATG AAATG AAATG
*
44344652 GAA-G AAATG AAATG AAA
1 AAATG AAATG AAATG AAA
44344669 AAAAGAAAGA
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
4 3 0.06
5 29 0.57
6 19 0.37
ACGTcount: A:0.58, C:0.02, G:0.24, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:44344949 original size:20 final size:21
Alignment explanation
Indices: 44344915--44344954 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44344905 TTAATTAATA
44344915 TGAAAAAAATATGAAATGAAT
1 TGAAAAAAATATGAAATGAAT
*
44344936 TGAAAAAAAT-TGAATTGAA
1 TGAAAAAAATATGAAATGAA
44344955 AAAAGATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (21 bp):
TGAAAAAAATATGAAATGAAT
Found at i:44345019 original size:19 final size:20
Alignment explanation
Indices: 44344995--44345044 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
44344985 ATTAATATGA
44344995 AAAAAAATAATATATT-AA-G
1 AAAAAAATAATAT-TTAAATG
44345014 AAAAAAATAA-ATTTAAATG
1 AAAAAAATAATATTTAAATG
*
44345033 AAAAAATTAATA
1 AAAAAAATAATA
44345045 AAATGAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 2 0.07
18 4 0.15
19 20 0.74
20 1 0.04
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAAAAATAATATTTAAATG
Found at i:44345074 original size:6 final size:5
Alignment explanation
Indices: 44345045--44345110 Score: 60
Period size: 5 Copynumber: 11.6 Consensus size: 5
44345035 AAAATTAATA
44345045 AAATG AAATG TTAAATG AAATATG AATATG AAATG AAATG ATAAATG AATATG
1 AAATG AAATG --AAATG -AA-ATG AA-ATG AAATG AAATG --AAATG AA-ATG
44345098 AAATG AAATG AAA
1 AAATG AAATG AAA
44345111 GTTTAAATGG
Statistics
Matches: 54, Mismatches: 1, Indels: 12
0.81 0.01 0.18
Matches are distributed among these distances:
5 26 0.48
6 15 0.28
7 13 0.24
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.26
Consensus pattern (5 bp):
AAATG
Found at i:44345077 original size:81 final size:80
Alignment explanation
Indices: 44344991--44345254 Score: 220
Period size: 81 Copynumber: 3.2 Consensus size: 80
44344981 TGTGATTAAT
*
44344991 ATGAAA-AAAAATAATAT-ATTAAGAAAAAAATAAATTTAAAT-GAAAAAATTAATAAAATGAAA
1 ATGAAAGAAAAATAATATGAATAAGAAAAAAATAAATTTAAATGGAAAAAATTAATAAAATGAAA
44345053 TGTTAAATGAAATATGAA
66 TG--AAATGAAA-ATGAA
* * *
44345071 TATGAAATGAAATGATAA-ATGAATATGAAATGAAATGAAAGTTTAAATGGAAATAAATT-ATAA
1 -ATGAAA-GAAA-AATAATATGAATAAGAAA-AAAAT-AAA-TTTAAATGGAAA-AAATTAATAA
* * **
44345134 ATTTAAATGAAAACAAAAACTGAA
59 AATGAAATG-AAATGAAAA-TGAA
* * *
44345158 ATGAAA-AAAAA-AAT-TGAAATGAGAAATAAATAAATTTAAATGGAAAAAATTAAATGAAATAG
1 ATGAAAGAAAAATAATATG-AATAAGAAAAAAATAAATTTAAATGGAAAAAATT-AATAAAAT-G
44345220 AAATGGAAATGAAAATGAA
63 AAAT-GAAATGAAAATGAA
44345239 ATGAAAGGAAAAATAA
1 ATGAAA-GAAAAATAA
44345255 AAGTTGAAAG
Statistics
Matches: 146, Mismatches: 18, Indels: 35
0.73 0.09 0.18
Matches are distributed among these distances:
79 5 0.03
80 12 0.08
81 24 0.16
82 19 0.13
83 19 0.13
84 16 0.11
85 4 0.03
86 10 0.07
87 17 0.12
88 15 0.10
89 5 0.03
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (80 bp):
ATGAAAGAAAAATAATATGAATAAGAAAAAAATAAATTTAAATGGAAAAAATTAATAAAATGAAA
TGAAATGAAAATGAA
Found at i:44345080 original size:18 final size:17
Alignment explanation
Indices: 44345045--44345103 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
44345035 AAAATTAATA
*
44345045 AAATGAAATGTTAAATG
1 AAATGAAATGATAAATG
*
44345062 AAAT---ATGA-ATATG
1 AAATGAAATGATAAATG
44345075 AAATGAAATGATAAATG
1 AAATGAAATGATAAATG
44345092 AATATGAAATGA
1 AA-ATGAAATGA
44345104 AATGAAAGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
13 8 0.24
14 3 0.09
16 4 0.12
17 10 0.29
18 9 0.26
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (17 bp):
AAATGAAATGATAAATG
Found at i:44345092 original size:23 final size:23
Alignment explanation
Indices: 44345047--44345110 Score: 94
Period size: 23 Copynumber: 2.7 Consensus size: 23
44345037 AATTAATAAA
44345047 ATGAAATGTTAAATGAAATATGAAT
1 ATGAAATG--AAATGAAATATGAAT
44345072 ATGAAATGAAATGATAA-ATGAAT
1 ATGAAATGAAATGA-AATATGAAT
44345095 ATGAAATGAAATGAAA
1 ATGAAATGAAATGAAA
44345111 GTTTAAATGG
Statistics
Matches: 38, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.05
23 26 0.68
24 2 0.05
25 8 0.21
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.27
Consensus pattern (23 bp):
ATGAAATGAAATGAAATATGAAT
Found at i:44345103 original size:11 final size:10
Alignment explanation
Indices: 44345045--44345110 Score: 60
Period size: 12 Copynumber: 5.8 Consensus size: 10
44345035 AAAATTAATA
44345045 AAATGAAATG
1 AAATGAAATG
44345055 TTAAATGAAATATG
1 --AAATG-AA-ATG
44345069 AATATGAAATG
1 AA-ATGAAATG
44345080 AAATGATAAATG
1 AAATG--AAATG
44345092 AATATGAAATG
1 AA-ATGAAATG
44345103 AAATGAAA
1 AAATGAAA
44345111 GTTTAAATGG
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
10 9 0.19
11 12 0.25
12 16 0.33
13 8 0.17
14 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.17, T:0.26
Consensus pattern (10 bp):
AAATGAAATG
Found at i:44345123 original size:23 final size:23
Alignment explanation
Indices: 44345074--44345142 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
44345064 ATATGAATAT
*
44345074 GAAATGAAATGATAAA-TGAATAT-
1 GAAAT-AAATGATAAATTTAA-ATG
*
44345097 GAAATGAAATGA-AAGTTTAAATG
1 GAAAT-AAATGATAAATTTAAATG
*
44345120 GAAATAAATTATAAATTTAAATG
1 GAAATAAATGATAAATTTAAATG
44345143 AAAACAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 9 0.23
23 30 0.77
ACGTcount: A:0.55, C:0.00, G:0.16, T:0.29
Consensus pattern (23 bp):
GAAATAAATGATAAATTTAAATG
Found at i:44345161 original size:18 final size:18
Alignment explanation
Indices: 44345138--44345179 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44345128 TTATAAATTT
*
44345138 AAATGAAAACAAAAACTG
1 AAATGAAAAAAAAAACTG
*
44345156 AAATGAAAAAAAAAATTG
1 AAATGAAAAAAAAAACTG
44345174 AAATGA
1 AAATGA
44345180 GAAATAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.69, C:0.05, G:0.12, T:0.14
Consensus pattern (18 bp):
AAATGAAAAAAAAAACTG
Found at i:44346870 original size:39 final size:40
Alignment explanation
Indices: 44346827--44346909 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
44346817 TGATTGGGTG
* * * *
44346827 TTAATTAAATCTCCTT-ACTCTTTTTATATGTATCTAATT
1 TTAATCAAATCTCCTTAACACTTTTTATATATATATAATT
*
44346866 TTAATCAAATCTCCTTAACACTTTTTATATATTTATAATT
1 TTAATCAAATCTCCTTAACACTTTTTATATATATATAATT
44346906 TTAA
1 TTAA
44346910 CCTACCAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
39 15 0.39
40 23 0.61
ACGTcount: A:0.33, C:0.14, G:0.01, T:0.52
Consensus pattern (40 bp):
TTAATCAAATCTCCTTAACACTTTTTATATATATATAATT
Found at i:44347719 original size:14 final size:14
Alignment explanation
Indices: 44347700--44347730 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44347690 TTTGATTGGT
*
44347700 GGAAAATATTTTCC
1 GGAAAATATTTTAC
44347714 GGAAAATATTTTAC
1 GGAAAATATTTTAC
44347728 GGA
1 GGA
44347731 TTTTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (14 bp):
GGAAAATATTTTAC
Found at i:44348228 original size:27 final size:27
Alignment explanation
Indices: 44348141--44348239 Score: 96
Period size: 27 Copynumber: 3.6 Consensus size: 27
44348131 AAAGGTATAT
44348141 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
* * * *
44348168 TTTCTGGGT---TAGTTCCTTTATGTTATTGG
1 TTTCT-TGTCCATAG-T--TTTGTG-AATCGG
44348197 TTTCTTGTCCATAGTTTTGTGAATCGG
1 TTTCTTGTCCATAGTTTTGTGAATCGG
44348224 TTTCTTGTCCATAGTT
1 TTTCTTGTCCATAGTT
44348240 AGAAAGATTT
Statistics
Matches: 56, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.45
28 14 0.25
29 9 0.16
30 1 0.02
31 3 0.05
ACGTcount: A:0.13, C:0.14, G:0.21, T:0.52
Consensus pattern (27 bp):
TTTCTTGTCCATAGTTTTGTGAATCGG
Found at i:44350340 original size:26 final size:26
Alignment explanation
Indices: 44350311--44350368 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
44350301 CATCCTCAAA
44350311 CTATAATCTAGATATTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
*
44350337 CTATAATCTAGATTTTAAATTGGTCT
1 CTATAATCTAGATATTAAATTGGTCT
44350363 CTATAA
1 CTATAA
44350369 ATTTTGATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.43
Consensus pattern (26 bp):
CTATAATCTAGATATTAAATTGGTCT
Found at i:44350712 original size:14 final size:15
Alignment explanation
Indices: 44350690--44350766 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
44350680 CAATCAAACA
44350690 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
44350704 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
44350719 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
44350739 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
44350753 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
44350767 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:44350731 original size:20 final size:20
Alignment explanation
Indices: 44350706--44350745 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
44350696 AATATTTTCC
*
44350706 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
44350726 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
44350746 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:44350751 original size:34 final size:35
Alignment explanation
Indices: 44350694--44350760 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
44350684 CAAACACCAG
*
44350694 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
44350729 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
44350761 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:44350767 original size:14 final size:14
Alignment explanation
Indices: 44350729--44350768 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44350719 ACAGAAAAGT
*
44350729 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
44350743 AAATCATTTTACGG
1 AAAACATTTTACAG
44350757 AAAACATTTTAC
1 AAAACATTTTAC
44350769 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:44352215 original size:9 final size:9
Alignment explanation
Indices: 44352203--44352291 Score: 51
Period size: 9 Copynumber: 9.6 Consensus size: 9
44352193 AATAAAATTT
44352203 AAAATATTA
1 AAAATATTA
44352212 AAAATTTATTA
1 AAAA--TATTA
*
44352223 AAAAT-TAGA
1 AAAATAT-TA
44352232 AAAATA-TA
1 AAAATATTA
44352240 AAAATCA-T-
1 AAAAT-ATTA
44352248 AAAATATTA
1 AAAATATTA
44352257 TAAAATATATA
1 -AAAATAT-TA
* *
44352268 GAAATATAA
1 AAAATATTA
*
44352277 AAAAAATTA
1 AAAATATTA
44352286 TAAAAT
1 -AAAAT
44352292 TTTATAAAGT
Statistics
Matches: 62, Mismatches: 8, Indels: 19
0.70 0.09 0.21
Matches are distributed among these distances:
7 1 0.02
8 13 0.21
9 20 0.32
10 17 0.27
11 11 0.18
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAATATTA
Found at i:44352242 original size:8 final size:8
Alignment explanation
Indices: 44352221--44352279 Score: 55
Period size: 9 Copynumber: 6.8 Consensus size: 8
44352211 AAAAATTTAT
44352221 TAAAAATTA
1 TAAAAA-TA
*
44352230 GAAAAATA
1 TAAAAATA
44352238 TAAAAATCA
1 TAAAAAT-A
44352247 TAAAATATTA
1 TAAAA-A-TA
44352257 TAAAATATA
1 TAAAA-ATA
*
44352266 TAGAAATA
1 TAAAAATA
44352274 TAAAAA
1 TAAAAA
44352280 AAATTATAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
8 16 0.37
9 17 0.40
10 9 0.21
11 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (8 bp):
TAAAAATA
Found at i:44352243 original size:17 final size:17
Alignment explanation
Indices: 44352221--44352279 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
44352211 AAAAATTTAT
44352221 TAAAAATTAGAAAAATA
1 TAAAAATTAGAAAAATA
* *
44352238 TAAAAATCATAAAATATTA
1 TAAAAATTAGAAAA-A-TA
44352257 TAAAATATATAG--AAATA
1 TAAAA-AT-TAGAAAAATA
44352274 TAAAAA
1 TAAAAA
44352280 AAATTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
16 1 0.03
17 19 0.56
18 2 0.06
19 9 0.26
20 2 0.06
21 1 0.03
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (17 bp):
TAAAAATTAGAAAAATA
Found at i:44352260 original size:19 final size:18
Alignment explanation
Indices: 44352236--44352299 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 18
44352226 ATTAGAAAAA
44352236 TATAAAAATCATAAAATAT
1 TATAAAAAT-ATAAAATAT
44352255 TATAAAATATATAGAAATAT
1 TATAAAA-ATATA-AAATAT
* * *
44352275 AAAAAAAATTATAAAATTT
1 TATAAAAA-TATAAAATAT
44352294 TATAAA
1 TATAAA
44352300 GTCATAAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 20 0.54
20 17 0.46
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
TATAAAAATATAAAATAT
Found at i:44352261 original size:10 final size:10
Alignment explanation
Indices: 44352202--44352299 Score: 77
Period size: 10 Copynumber: 10.4 Consensus size: 10
44352192 TAATAAAATT
44352202 TAAAATATTA
1 TAAAATATTA
44352212 -AAAAT-TTA
1 TAAAATATTA
44352220 TTAAAA-ATTA
1 -TAAAATATTA
*
44352230 GAAAA-A-TA
1 TAAAATATTA
*
44352238 TAAAA-ATCA
1 TAAAATATTA
44352247 TAAAATATTA
1 TAAAATATTA
44352257 TAAAATA-TA
1 TAAAATATTA
44352266 TAGAAATA-TA
1 TA-AAATATTA
* *
44352276 AAAAAAATTA
1 TAAAATATTA
*
44352286 TAAAATTTTA
1 TAAAATATTA
44352296 TAAA
1 TAAA
44352300 GTCATAAAGA
Statistics
Matches: 72, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
8 10 0.14
9 24 0.33
10 38 0.53
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.33
Consensus pattern (10 bp):
TAAAATATTA
Found at i:44352797 original size:92 final size:91
Alignment explanation
Indices: 44352611--44352810 Score: 244
Period size: 92 Copynumber: 2.2 Consensus size: 91
44352601 GCTTAATTGC
* * * *
44352611 TTTTTTAAAAATTTTTGAGGGTCTTTTTGATGCATTTTGAAAGCTCAAGTACCCAATTGAGTGGA
1 TTTTTTAAAAAGTTTGGAGGGCCTTTTTGATGCATTTTGAAAGCTCAAGTACCCAATTGAGTGCA
* * *
44352676 AAAAAAGAGGCAATGGCTTAATTTCTT
66 AAAAAAAAGGCAAGGGCTTAATTT-AT
* * *
44352703 TTTTTTAAAGAAGTTTGGA-GGCCTTTTTGATGCATTTTGAAAGTTCAATTACTCAATTGAGTGC
1 TTTTTTAAA-AAGTTTGGAGGGCCTTTTTGATGCATTTTGAAAGCTCAAGTACCCAATTGAGTGC
44352767 AAAAAAAAAGG-AGAGGGACTTAA-TTAT
65 AAAAAAAAAGGCA-AGGG-CTTAATTTAT
44352794 TTTTTTAAAAAAGTTTG
1 TTTTTT-AAAAAGTTTG
44352811 ATGGCTTTTT
Statistics
Matches: 94, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
91 15 0.16
92 67 0.71
93 12 0.13
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.38
Consensus pattern (91 bp):
TTTTTTAAAAAGTTTGGAGGGCCTTTTTGATGCATTTTGAAAGCTCAAGTACCCAATTGAGTGCA
AAAAAAAAGGCAAGGGCTTAATTTAT
Found at i:44353446 original size:17 final size:17
Alignment explanation
Indices: 44353426--44353459 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44353416 AGGTTTAGGT
44353426 TTAAAAATTTTAATTAA
1 TTAAAAATTTTAATTAA
*
44353443 TTAAAATTTTTAATTAA
1 TTAAAAATTTTAATTAA
44353460 AAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAAAAATTTTAATTAA
Found at i:44359327 original size:158 final size:158
Alignment explanation
Indices: 44359039--44359354 Score: 632
Period size: 158 Copynumber: 2.0 Consensus size: 158
44359029 TGAAAAAAGT
44359039 GTGAATATTGAGTTAGAAGTTGACAGGGGCACATTAACAGTTAACATGAAATATATTGGACTAAT
1 GTGAATATTGAGTTAGAAGTTGACAGGGGCACATTAACAGTTAACATGAAATATATTGGACTAAT
44359104 ACGTCTTAATTCTGACCAGGTACTATATATTTTTTAAATTTTATTATTGTTCTAGGGTGATAAGA
66 ACGTCTTAATTCTGACCAGGTACTATATATTTTTTAAATTTTATTATTGTTCTAGGGTGATAAGA
44359169 ATAGAAAATATATTGTAATGTGTTCATA
131 ATAGAAAATATATTGTAATGTGTTCATA
44359197 GTGAATATTGAGTTAGAAGTTGACAGGGGCACATTAACAGTTAACATGAAATATATTGGACTAAT
1 GTGAATATTGAGTTAGAAGTTGACAGGGGCACATTAACAGTTAACATGAAATATATTGGACTAAT
44359262 ACGTCTTAATTCTGACCAGGTACTATATATTTTTTAAATTTTATTATTGTTCTAGGGTGATAAGA
66 ACGTCTTAATTCTGACCAGGTACTATATATTTTTTAAATTTTATTATTGTTCTAGGGTGATAAGA
44359327 ATAGAAAATATATTGTAATGTGTTCATA
131 ATAGAAAATATATTGTAATGTGTTCATA
44359355 TTTTAACATT
Statistics
Matches: 158, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 158 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (158 bp):
GTGAATATTGAGTTAGAAGTTGACAGGGGCACATTAACAGTTAACATGAAATATATTGGACTAAT
ACGTCTTAATTCTGACCAGGTACTATATATTTTTTAAATTTTATTATTGTTCTAGGGTGATAAGA
ATAGAAAATATATTGTAATGTGTTCATA
Found at i:44362795 original size:19 final size:19
Alignment explanation
Indices: 44362767--44362814 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
44362757 GTATATATTT
*
44362767 TAAA-TTTATTTAGGTAAA
1 TAAATTTTATTTAGATAAA
44362785 TAAATTTTATTTAGATAAA
1 TAAATTTTATTTAGATAAA
*
44362804 TAAGTTTTATT
1 TAAATTTTATT
44362815 CATATTCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (19 bp):
TAAATTTTATTTAGATAAA
Found at i:44364077 original size:129 final size:129
Alignment explanation
Indices: 44363847--44364104 Score: 489
Period size: 129 Copynumber: 2.0 Consensus size: 129
44363837 AAAAAAATAT
*
44363847 TGGCACACTCGAGAAACGTGTTGGAAGCTCTATAAGAAACTGACAAATGGAAGAAAAAAGAGTGG
1 TGGCACACTCGAGAAACGTGTTGGAAGCTCTATAAGAAACTGACAAATGGAAGAAAAAAGAGTGA
44363912 CAATGGTTGTGGTTCACAATTAGAGGATAGCAGAGCTTTCCAAACAACTAATGGAAATTATGAG
66 CAATGGTTGTGGTTCACAATTAGAGGATAGCAGAGCTTTCCAAACAACTAATGGAAATTATGAG
44363976 TGGCACACTCGAGAAACGTGTTGGAAGCTCTATAAGAAACTGACAAATGGAAGAAAAAAGAGTGA
1 TGGCACACTCGAGAAACGTGTTGGAAGCTCTATAAGAAACTGACAAATGGAAGAAAAAAGAGTGA
* *
44364041 TAATGGTTGTGGTTCACAATTAGGGGATAGCAGAGCTTTCCAAACAACTAATGGAAATTATGAG
66 CAATGGTTGTGGTTCACAATTAGAGGATAGCAGAGCTTTCCAAACAACTAATGGAAATTATGAG
44364105 GGCCAAAGTT
Statistics
Matches: 126, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.22
Consensus pattern (129 bp):
TGGCACACTCGAGAAACGTGTTGGAAGCTCTATAAGAAACTGACAAATGGAAGAAAAAAGAGTGA
CAATGGTTGTGGTTCACAATTAGAGGATAGCAGAGCTTTCCAAACAACTAATGGAAATTATGAG
Found at i:44368008 original size:11 final size:11
Alignment explanation
Indices: 44367994--44368033 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
44367984 GTTTTCTCCA
*
44367994 TATTTTGCTAC
1 TATTTTGCTAT
*
44368005 TATTTTACTAT
1 TATTTTGCTAT
*
44368016 TATGTTGCTAT
1 TATTTTGCTAT
44368027 TATTTTG
1 TATTTTG
44368034 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (11 bp):
TATTTTGCTAT
Found at i:44368970 original size:43 final size:43
Alignment explanation
Indices: 44368895--44369000 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 43
44368885 AATTACCGGG
* * *
44368895 ATGTGATTACATGTAAGATCATGTCTGAGACATAGGCATTG-T
1 ATGTGTTTACATATAAGACCATGTCTGAGACATAGGCATTGTT
* * *
44368937 ATTGTGTTTACATATAAGACCATTTCT-AGGACATCGGTATTGTT
1 A-TGTGTTTACATATAAGACCATGTCTGA-GACATAGGCATTGTT
*
44368981 ATGTGATTT-CGTATAAGACC
1 ATGTG-TTTACATATAAGACC
44369001 TTGCCTAGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
42 2 0.04
43 46 0.87
44 5 0.09
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (43 bp):
ATGTGTTTACATATAAGACCATGTCTGAGACATAGGCATTGTT
Found at i:44371617 original size:17 final size:17
Alignment explanation
Indices: 44371595--44371630 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
44371585 CTTAGGAAAT
*
44371595 CTAGGCGTTGTGGATTG
1 CTAGGCGTTGTGCATTG
44371612 CTAGGCGTTGTGCATTG
1 CTAGGCGTTGTGCATTG
44371629 CT
1 CT
44371631 CGATATTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.17, G:0.36, T:0.36
Consensus pattern (17 bp):
CTAGGCGTTGTGCATTG
Found at i:44373198 original size:16 final size:16
Alignment explanation
Indices: 44373160--44373198 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
44373150 AATTTGGGCG
*
44373160 GTAAAAAGAATGATTT
1 GTAAAAAAAATGATTT
*
44373176 TTGAAAAAAAATGATTT
1 GT-AAAAAAAATGATTT
44373193 GTAAAA
1 GTAAAA
44373199 TGTTTTGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (16 bp):
GTAAAAAAAATGATTT
Found at i:44375455 original size:46 final size:46
Alignment explanation
Indices: 44375388--44375527 Score: 271
Period size: 46 Copynumber: 3.0 Consensus size: 46
44375378 NNNNNNNNNN
44375388 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
1 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
*
44375434 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGC
1 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
44375480 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
1 CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
44375526 CA
1 CA
44375528 GGTCTTACAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (46 bp):
CATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGC
Found at i:44375541 original size:29 final size:29
Alignment explanation
Indices: 44375499--44375556 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
44375489 TTTCAACCAT
44375499 GGTCTTACACATTTCATATCAGGTTGCCA
1 GGTCTTACACATTTCATATCAGGTTGCCA
*
44375528 GGTCTTACACATTTCATATTAGGTTGCCA
1 GGTCTTACACATTTCATATCAGGTTGCCA
44375557 TGGTATCTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (29 bp):
GGTCTTACACATTTCATATCAGGTTGCCA
Found at i:44375541 original size:75 final size:75
Alignment explanation
Indices: 44375453--44375602 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
44375443 TTTCAACCAT
* *
44375453 GGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
*
44375518 CAGGTTGCCA
66 CACGTTGCCA
* *
44375528 GGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTGTTACACATTCCATAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
44375593 CACGTTGCCA
66 CACGTTGCCA
44375603 TGGTATCTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (75 bp):
GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
CACGTTGCCA
Found at i:44375585 original size:46 final size:46
Alignment explanation
Indices: 44375528--44375738 Score: 278
Period size: 46 Copynumber: 4.4 Consensus size: 46
44375518 CAGGTTGCCA
* *
44375528 GGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCAT
* *
44375574 GGTGTTACACATTCCATATCACGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCAT
*
44375620 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCAT
*
44375666 GGTCTTACACATTTCATGTTACGCTGCCATGGTTGCCATGGTATCTTTCAACCAT
1 GGTCTTACACATTTCA---TA---T--CA-CGTTGCCATGGTATCTTTCAACCAT
*
44375721 AGTCTTACACATTTCATA
1 GGTCTTACACATTTCATA
44375739 NAAAAAAACA
Statistics
Matches: 148, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
46 101 0.68
49 2 0.01
52 3 0.02
54 2 0.01
55 40 0.27
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (46 bp):
GGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCAT
Found at i:44375621 original size:121 final size:121
Alignment explanation
Indices: 44375407--44375648 Score: 448
Period size: 121 Copynumber: 2.0 Consensus size: 121
44375397 TTTCAACCAT
*
44375407 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
*
44375472 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
66 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
* *
44375528 GGTCTTACACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTGTTACACATTCCATAT
1 GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
44375593 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
66 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
44375649 TGGTATCTTT
Statistics
Matches: 117, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 117 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (121 bp):
GGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTCCATAT
CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCA
Found at i:44383116 original size:12 final size:12
Alignment explanation
Indices: 44383099--44383124 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44383089 AAAATAGGGC
44383099 TTTAGCGGCGTT
1 TTTAGCGGCGTT
44383111 TTTAGCGGCGTT
1 TTTAGCGGCGTT
44383123 TT
1 TT
44383125 ATCAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:44383196 original size:40 final size:42
Alignment explanation
Indices: 44383149--44383298 Score: 200
Period size: 41 Copynumber: 3.7 Consensus size: 42
44383139 ACAAAAATTA
* * *
44383149 TAAAAAACGGAGCAATAGCGGCG-TTTTACCAAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTACCAAAAACGCCGC
*
44383190 TAAAAA-CAGAGCATTAGCGGCG-TTTTACCAAAAATGCCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTACCAAAAACGCCGC
***
44383230 TAAAAACCAGAGCATTAGCGGCGCTTTT-GGTAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTACCAAAAACGCCGC
*
44383271 TAAAAACCAGAGCAGTAGCGGCGCTTTT
1 TAAAAACCAGAGCATTAGCGGCGCTTTT
44383299 GATTAAACGC
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 37 0.37
41 58 0.59
42 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (42 bp):
TAAAAACCAGAGCATTAGCGGCGCTTTTACCAAAAACGCCGC
Found at i:44383299 original size:41 final size:41
Alignment explanation
Indices: 44383180--44383316 Score: 181
Period size: 41 Copynumber: 3.4 Consensus size: 41
44383170 CGTTTTACCA
*
44383180 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCG-TTTT-ACCA
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGA--T
* *
44383220 AAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGAT
*
44383261 AAAACGCCGCTAAAAACCAGAGCAGTAGCGGCGCTTTTGAT
1 AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGAT
* *
44383302 TAAACGCTGCTAAAA
1 AAAACGCCGCTAAAA
44383317 GTCATATAAT
Statistics
Matches: 86, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
40 15 0.17
41 67 0.78
42 4 0.05
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGAT
Found at i:44383843 original size:7 final size:7
Alignment explanation
Indices: 44383833--44383876 Score: 61
Period size: 7 Copynumber: 6.3 Consensus size: 7
44383823 GGTTTAAGAT
*
44383833 TTAGGTG
1 TTAGGGG
44383840 TTAGGGG
1 TTAGGGG
44383847 TTAGGGG
1 TTAGGGG
44383854 TTAGGGG
1 TTAGGGG
*
44383861 TTAAGGG
1 TTAGGGG
*
44383868 TGAGGGG
1 TTAGGGG
44383875 TT
1 TT
44383877 CATGGTTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
TTAGGGG
Found at i:44385325 original size:138 final size:138
Alignment explanation
Indices: 44385077--44385348 Score: 474
Period size: 138 Copynumber: 2.0 Consensus size: 138
44385067 TAATAATGTA
* * *
44385077 TGGATGCTTTGTGGAGTCCCTGTTTTGAATTTTAGAATCATATGTAATCTCTTTAAAAATTGGCA
1 TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
44385142 TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
66 TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
44385207 TTAACGTC
131 TTAACGTC
* *
44385215 TGGATGCTTT-TAGGAGTACTTGTTTTGAATTTTAGAACCATATGTAATTTCCTTAAAAATTGGC
1 TGGATGCTTTGT-GGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGC
*
44385279 ATTAAATTGTTTTTAGGTTTTATATTAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
65 ATTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGA
44385344 TTTAA
130 TTTAA
44385349 AATTTTAAAA
Statistics
Matches: 127, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
137 1 0.01
138 126 0.99
ACGTcount: A:0.27, C:0.10, G:0.15, T:0.49
Consensus pattern (138 bp):
TGGATGCTTTGTGGAGTACCTGTTTTGAATTTTAGAACCATATGTAATCTCCTTAAAAATTGGCA
TTAAATTGTTTTTAGGTTTTATAATAACATTTCTCTTTGTTATGTTATTATGCAACTTATTTGAT
TTAACGTC
Found at i:44386497 original size:43 final size:43
Alignment explanation
Indices: 44386390--44386500 Score: 195
Period size: 43 Copynumber: 2.6 Consensus size: 43
44386380 AAATTTCATT
*
44386390 ACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTAAAG
1 ACCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTAAAG
*
44386433 ACCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTCAAG
1 ACCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTAAAG
*
44386476 ACCTCTAGCGGCGTTTGTGGGGAAA
1 ACCTTTAGCGGCGTTTGTGGGGAAA
44386501 CCTTTAGCGG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 65 1.00
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.22
Consensus pattern (43 bp):
ACCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGGTAAAG
Found at i:44386835 original size:102 final size:102
Alignment explanation
Indices: 44386691--44386895 Score: 401
Period size: 102 Copynumber: 2.0 Consensus size: 102
44386681 ATTCTATGAA
*
44386691 AGAAATTGAAAGTTTCTATGAATATGTTCTGCAAGTATATGATGATTTGGCATGGAAATAGAGCT
1 AGAAATTGAAAGATTCTATGAATATGTTCTGCAAGTATATGATGATTTGGCATGGAAATAGAGCT
44386756 TTAAATTGTTTATATGCTGATTTTATTGAAAGAATTG
66 TTAAATTGTTTATATGCTGATTTTATTGAAAGAATTG
44386793 AGAAATTGAAAGATTCTATGAATATGTTCTGCAAGTATATGATGATTTGGCATGGAAATAGAGCT
1 AGAAATTGAAAGATTCTATGAATATGTTCTGCAAGTATATGATGATTTGGCATGGAAATAGAGCT
44386858 TTAAATTGTTTATATGCTGATTTTATTGAAAGAATTG
66 TTAAATTGTTTATATGCTGATTTTATTGAAAGAATTG
44386895 A
1 A
44386896 ATAGAAAGTG
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 102 1.00
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (102 bp):
AGAAATTGAAAGATTCTATGAATATGTTCTGCAAGTATATGATGATTTGGCATGGAAATAGAGCT
TTAAATTGTTTATATGCTGATTTTATTGAAAGAATTG
Found at i:44390419 original size:19 final size:19
Alignment explanation
Indices: 44390373--44390420 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
44390363 GTATATATTT
44390373 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
44390391 TAAATCTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
44390410 TAAGTTTTATT
1 TAAATTTTATT
44390421 CTTATTCGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 4 0.15
19 22 0.85
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:44399085 original size:11 final size:11
Alignment explanation
Indices: 44399069--44399094 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
44399059 TTTAGTTAAG
44399069 ACATTAAGCAT
1 ACATTAAGCAT
44399080 ACATTAAGCAT
1 ACATTAAGCAT
44399091 ACAT
1 ACAT
44399095 GTTATCATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.19, G:0.08, T:0.27
Consensus pattern (11 bp):
ACATTAAGCAT
Found at i:44399582 original size:351 final size:347
Alignment explanation
Indices: 44398799--44399499 Score: 1028
Period size: 351 Copynumber: 2.0 Consensus size: 347
44398789 ACAATTTTTG
* * * * * **
44398799 GTGAATTTCCAAAGTCAAAACAGGGGATTCAGAAATCGCTCTGACCCTATTTCACAAAAATTTAA
1 GTGAATTACCAAAGCCAAAACA--GGATTCAGAAATCGATCTGACACAAAGTCACAAAAATTTAA
* **
44398864 ATATCTTATAAAATATAACTCATTTACCTGTTTAGTTTCTTCCATATGAAAATAGACTCATCAAG
64 ATACCACATAAAATATAACTCATTTACCTGTTTAGTTTCTTCCATATGAAAATAGACTCATCAAG
44398929 CTTTGATTCCATAACTTATTCATCATTTAATTCCATTTATTACTATTTTTAGTGATTTTTAAAAT
129 CTTTGATTCCATAACTTATTCATCATTTAATTCCATTTATTACTATTTTTAGTGATTTTTAAAAT
44398994 TCACGTCACTGCTGCTGTCTGATTCTGATTTGTGGCCAATTTTACCTTTCCAAGGATTTTCATGG
194 TCACGTCACTGCTGCTGTCTGATTCTGATTTGTGGCCAATTTTACCTTTCCAAGGATTTTCATGG
* * * * * *
44399059 TTTAGTTAAGACATTAAGCATACATTAAGCATACATGTTATCATATATAAACTTGACTAGCCATT
259 TTTAGTTAAGACATAAAGCATACATTAAGCATA-ATATAAACATATATAAACTTCAATAGCCATT
44399124 CCAATAGCTAATCATTTACAAACTT
323 CCAATAGCTAATCATTTACAAACTT
* * * * * **
44399149 GGTGAATTTCCAAAGTCAAAACAGGGGATTCAGAAATCGCTCTGACCCTATTTCACAAAAATTTA
1 -GTGAATTACCAAAGCCAAAACA--GGATTCAGAAATCGATCTGACACAAAGTCACAAAAATTTA
* **
44399214 AATATCTTATAAAATATAACTCATTTACCTGTTTAGTTTCTTCCATATGAAAATAGACTCATCAA
63 AATACCACATAAAATATAACTCATTTACCTGTTTAGTTTCTTCCATATGAAAATAGACTCATCAA
44399279 GCTTTGATTCCATAACTTATTCATCATTTAATTCCATTTATTACTATTTTTAGTGATTTTTAAAA
128 GCTTTGATTCCATAACTTATTCATCATTTAATTCCATTTATTACTATTTTTAGTGATTTTTAAAA
44399344 TTCACGTCACTGCTGCTGTCTGATTCTGATTTGTGGCCAATTTTACCTTTCCAAGGATTTTCATG
193 TTCACGTCACTGCTGCTGTCTGATTCTGATTTGTGGCCAATTTTACCTTTCCAAGGATTTTCATG
* * * *
44399409 GTTTAGTTAAGACATAAAGCATACATGTTATCAT-ATATAAACTTGAT-TAGACATTCCAATAGC
258 GTTTAGTTAAGACATAAAGCATACAT-TAAGCATAATATAAACAT-ATATAAAC-TT-CAATAGC
44399472 CATTCCAATAGCTAATCATTTACAAACT
319 CATTCCAATAGCTAATCATTTACAAACT
44399500 CTTTTCTTAC
Statistics
Matches: 336, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
350 10 0.03
351 288 0.86
352 38 0.11
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (347 bp):
GTGAATTACCAAAGCCAAAACAGGATTCAGAAATCGATCTGACACAAAGTCACAAAAATTTAAAT
ACCACATAAAATATAACTCATTTACCTGTTTAGTTTCTTCCATATGAAAATAGACTCATCAAGCT
TTGATTCCATAACTTATTCATCATTTAATTCCATTTATTACTATTTTTAGTGATTTTTAAAATTC
ACGTCACTGCTGCTGTCTGATTCTGATTTGTGGCCAATTTTACCTTTCCAAGGATTTTCATGGTT
TAGTTAAGACATAAAGCATACATTAAGCATAATATAAACATATATAAACTTCAATAGCCATTCCA
ATAGCTAATCATTTACAAACTT
Found at i:44402066 original size:87 final size:86
Alignment explanation
Indices: 44401974--44402173 Score: 287
Period size: 88 Copynumber: 2.3 Consensus size: 86
44401964 GTCCTCAATT
*
44401974 TTTTTCAAAAAAAGTAATTAAGCCCCTTCTTTTTTTGCATTAAATTGGGTACTT-AACTTTCAAA
1 TTTTTCAAAAAAAGTAATTAAGCCCCTT-TTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAA
44402038 ATACATCAAAAAGACCCTCAAAC
65 ATACATCAAAAAGACCCT-AAAC
* *
44402061 TTTTTCAAAAAAAAGTAATTAAGCCCATTTTTTTTTGCACTCAATTGGGTACTTGAACTTTCAAA
1 TTTTTC-AAAAAAAGTAATTAAGCCCCTTTTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAA
* *
44402126 ATGCATCAAAAAGACCCTTAAC
65 ATACATCAAAAAGACCCTAAAC
* * *
44402148 TTTTT-TAAAAAAGCAATTAAACCCCT
1 TTTTTCAAAAAAAGTAATTAAGCCCCT
44402174 CCCATTTTCA
Statistics
Matches: 102, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
85 17 0.17
87 37 0.36
88 48 0.47
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (86 bp):
TTTTTCAAAAAAAGTAATTAAGCCCCTTTTTTTTTGCACTAAATTGGGTACTTGAACTTTCAAAA
TACATCAAAAAGACCCTAAAC
Found at i:44402385 original size:28 final size:28
Alignment explanation
Indices: 44402353--44402410 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
44402343 TTAAATTATT
*
44402353 AAATTTTAATAAAAATAGAAAAAATATA
1 AAATTGTAATAAAAATAGAAAAAATATA
* * *
44402381 AAATTGTAATAAAATTATAAAAAATGTA
1 AAATTGTAATAAAAATAGAAAAAATATA
44402409 AA
1 AA
44402411 GAAATATAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (28 bp):
AAATTGTAATAAAAATAGAAAAAATATA
Found at i:44402443 original size:38 final size:36
Alignment explanation
Indices: 44402361--44402443 Score: 98
Period size: 38 Copynumber: 2.2 Consensus size: 36
44402351 TTAAATTTTA
44402361 ATAAAAATAGAAAAAATATAAAATTGTAATAAAATT
1 ATAAAAATAGAAAAAATATAAAATTGTAATAAAATT
*
44402397 ATAAAAA-ATGTAAAGAAATATAAGATTCGTAA-AAAATAT
1 ATAAAAATA-G-AAA-AAATATAAAATT-GTAATAAAAT-T
44402436 ATAAAAAT
1 ATAAAAAT
44402444 TATAGTATCA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
35 1 0.03
36 8 0.20
37 3 0.08
38 16 0.40
39 12 0.30
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (36 bp):
ATAAAAATAGAAAAAATATAAAATTGTAATAAAATT
Found at i:44402655 original size:19 final size:18
Alignment explanation
Indices: 44402631--44402680 Score: 64
Period size: 19 Copynumber: 2.7 Consensus size: 18
44402621 TTTATAATTT
44402631 TTTTATGATTTTTATAAAA
1 TTTTATGATTTTTAT-AAA
* *
44402650 TTTTATAATTTTTATATA
1 TTTTATGATTTTTATAAA
44402668 TTTTATTGATTTT
1 TTTTA-TGATTTT
44402681 ATTTTTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 7 0.26
19 20 0.74
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (18 bp):
TTTTATGATTTTTATAAA
Found at i:44403033 original size:90 final size:88
Alignment explanation
Indices: 44402780--44403032 Score: 271
Period size: 90 Copynumber: 2.8 Consensus size: 88
44402770 TCACGGGGCT
* * *
44402780 TTTTTGATGCACTTTGACAGTTCAAGTATCCAGTT-AGTGCAAAAAAAAAGTAGGGGGTTAATTG
1 TTTTTGATGCACTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAA-T-GGGGCTTAATTG
*
44402844 CATTTTTTTGAAAAAATTTGAGGACC
64 C-TTTTTTTTAAAAAATTTGAGGACC
* * * *
44402870 TTTTTAATGCATTTTGAATA-TTCAAGTACCCAATTGAGTGCAAAAAAAAAAGCAGAGGCTTAAT
1 TTTTTGATGCACTTTGAA-AGTTCAAGTATCCAATTGAGTGCAAAAAAAAATG--G-GGCTTAAT
* *
44402934 TAC-TTTTTTTAAAAAGTTTGA-GAGCC
62 TGCTTTTTTTTAAAAAATTTGAGGA-CC
* * * *
44402960 TTTTTGATACACCTTGAAAGTTCAGGTATCCAATTGAGTGCAAAAAAAAATGGGACTTAATTGCT
1 TTTTTGATGCACTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAATGGGGCTTAATTGCT
44403025 TTTCTTTT
66 TTT-TTTT
44403033 TTTAAGTTAA
Statistics
Matches: 135, Mismatches: 19, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
87 9 0.07
88 4 0.03
89 8 0.06
90 89 0.66
91 16 0.12
92 9 0.07
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (88 bp):
TTTTTGATGCACTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAATGGGGCTTAATTGCT
TTTTTTTAAAAAATTTGAGGACC
Found at i:44404743 original size:16 final size:18
Alignment explanation
Indices: 44404724--44404756 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
44404714 AATTTATTAA
44404724 AATAA-TAAAT-TATATT
1 AATAATTAAATATATATT
44404740 AATAATTAAATATATAT
1 AATAATTAAATATATAT
44404757 GTTTAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAATTAAATATATATT
Found at i:44404780 original size:51 final size:48
Alignment explanation
Indices: 44404708--44404824 Score: 121
Period size: 51 Copynumber: 2.4 Consensus size: 48
44404698 AATTGGAATA
* *
44404708 TTAAATAA-TTTATTAAA-ATAATAAATTATATTAATAATTAAATATATAT
1 TTAAATAATTTTA-AAAATATAATAAATTATACTAATAATTAAATAT-T-T
* ** *
44404757 GTTTAATAATTTTAAAAATATAATATTTTATACTAATATTTAAATATTT
1 -TTAAATAATTTTAAAAATATAATAAATTATACTAATAATTAAATATTT
*
44404806 TTAAATATTTTTAAAAATA
1 TTAAATAATTTTAAAAATA
44404825 AAAATAGAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
48 17 0.30
49 1 0.02
50 11 0.19
51 28 0.49
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (48 bp):
TTAAATAATTTTAAAAATATAATAAATTATACTAATAATTAAATATTT
Found at i:44404786 original size:25 final size:28
Alignment explanation
Indices: 44404747--44404800 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 28
44404737 ATTAATAATT
44404747 AAATATATATGTTTA-A-TAAT-TTTAA
1 AAATATATATGTTTATACTAATATTTAA
44404772 AAATATAATAT-TTTATACTAATATTTAA
1 AAATAT-ATATGTTTATACTAATATTTAA
44404800 A
1 A
44404801 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 4 0.16
28 6 0.24
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
AAATATATATGTTTATACTAATATTTAA
Found at i:44404810 original size:10 final size:10
Alignment explanation
Indices: 44404795--44404820 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
44404785 TATACTAATA
44404795 TTTAAATATT
1 TTTAAATATT
44404805 TTTAAATATT
1 TTTAAATATT
44404815 TTTAAA
1 TTTAAA
44404821 AATAAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
TTTAAATATT
Found at i:44416958 original size:19 final size:20
Alignment explanation
Indices: 44416873--44416958 Score: 60
Period size: 19 Copynumber: 4.5 Consensus size: 20
44416863 GATACACATA
44416873 TTTTTAT-AA-TTTATAATT
1 TTTTTATAAATTTTATAATT
* *
44416891 TCTTTTAT--ATTTTAAAAAT
1 T-TTTTATAAATTTTATAATT
* *
44416910 TTTATAT-ATTTTTATATATT
1 TTTTTATAAATTTTATA-ATT
44416930 TTCTTT-TAAATTTTA-AATT
1 TT-TTTATAAATTTTATAATT
44416949 TTTTTATAAA
1 TTTTTATAAA
44416959 AAAAATATAT
Statistics
Matches: 53, Mismatches: 8, Indels: 13
0.72 0.11 0.18
Matches are distributed among these distances:
18 10 0.19
19 29 0.55
20 6 0.11
21 8 0.15
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTTATAAATTTTATAATT
Found at i:44420641 original size:57 final size:55
Alignment explanation
Indices: 44420538--44420704 Score: 298
Period size: 55 Copynumber: 3.0 Consensus size: 55
44420528 ATTAATTGTG
* *
44420538 GTTAAATTTTTAACAATAATTTTTTTCCTTTTTTCCTTTATTTTCATTATTTCTT
1 GTTAAATTTGTAACAATAATTTTTTTTCTTTTTTCCTTTATTTTCATTATTTCTT
44420593 GTTAAATTTGTAACAATAATTTGTTTTTTCTTTTTTCCTTTATTTTCATTATTTCTT
1 GTTAAATTTGTAACAATAA-TT-TTTTTTCTTTTTTCCTTTATTTTCATTATTTCTT
44420650 GTTAAATTTGTAACAATAATTTTTTTTCTTTTTTCCTTTATTTTCATTATTTCTT
1 GTTAAATTTGTAACAATAATTTTTTTTCTTTTTTCCTTTATTTTCATTATTTCTT
44420705 CTTATTTTCT
Statistics
Matches: 108, Mismatches: 2, Indels: 4
0.95 0.02 0.04
Matches are distributed among these distances:
55 52 0.48
56 4 0.04
57 52 0.48
ACGTcount: A:0.22, C:0.11, G:0.04, T:0.63
Consensus pattern (55 bp):
GTTAAATTTGTAACAATAATTTTTTTTCTTTTTTCCTTTATTTTCATTATTTCTT
Found at i:44422086 original size:17 final size:17
Alignment explanation
Indices: 44422064--44422112 Score: 89
Period size: 17 Copynumber: 2.9 Consensus size: 17
44422054 TTTAGAATAC
44422064 AATAATACATTTGGTAT
1 AATAATACATTTGGTAT
*
44422081 AATAATATATTTGGTAT
1 AATAATACATTTGGTAT
44422098 AATAATACATTTGGT
1 AATAATACATTTGGT
44422113 CCTCAATACT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (17 bp):
AATAATACATTTGGTAT
Found at i:44423861 original size:17 final size:18
Alignment explanation
Indices: 44423841--44423874 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44423831 AAGTGAATTG
44423841 AAATTGC-GAAATTAAAT
1 AAATTGCAGAAATTAAAT
44423858 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
44423875 ATGAGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.56, C:0.06, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:44424611 original size:10 final size:10
Alignment explanation
Indices: 44424584--44424630 Score: 60
Period size: 10 Copynumber: 4.7 Consensus size: 10
44424574 TGAAATTCTA
44424584 AAAGATAAAT
1 AAAGATAAAT
44424594 ACAA-ATAAAT
1 A-AAGATAAAT
*
44424604 AAAGATAATT
1 AAAGATAAAT
*
44424614 AGAGATAAAT
1 AAAGATAAAT
44424624 AAAGATA
1 AAAGATA
44424631 GATGGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
9 2 0.06
10 27 0.87
11 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.11, T:0.21
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:44424641 original size:20 final size:20
Alignment explanation
Indices: 44424584--44424643 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
44424574 TGAAATTCTA
* *
44424584 AAAGATAAATACAAATAAAT
1 AAAGATAATTAGAAATAAAT
*
44424604 AAAGATAATTAGAGATAAAT
1 AAAGATAATTAGAAATAAAT
*
44424624 AAAGATAGA-TGGAAATAAAT
1 AAAGATA-ATTAGAAATAAAT
44424644 CCTAAAATTT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
20 33 0.97
21 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.13, T:0.22
Consensus pattern (20 bp):
AAAGATAATTAGAAATAAAT
Found at i:44425058 original size:5 final size:5
Alignment explanation
Indices: 44425051--44425091 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
44425041 TTCTGCTCTA
* *
44425051 TTTGA TTTGT TTTGT TTTGT TTTGC TTTGT TTTGT TTTGT T
1 TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT TTTGT T
44425092 CGATTTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.02, C:0.02, G:0.20, T:0.76
Consensus pattern (5 bp):
TTTGT
Found at i:44425079 original size:20 final size:20
Alignment explanation
Indices: 44425051--44425091 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
44425041 TTCTGCTCTA
44425051 TTTGATTTGTTTTGTTTTGT
1 TTTGATTTGTTTTGTTTTGT
*
44425071 TTTGCTTTGTTTTGTTTTGT
1 TTTGATTTGTTTTGTTTTGT
44425091 T
1 T
44425092 CGATTTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.02, C:0.02, G:0.20, T:0.76
Consensus pattern (20 bp):
TTTGATTTGTTTTGTTTTGT
Found at i:44425098 original size:15 final size:15
Alignment explanation
Indices: 44425064--44425101 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
44425054 GATTTGTTTT
*
44425064 GTTTTGTTTTGCTTT
1 GTTTTGTTTTGCTTC
44425079 GTTTTGTTTTG-TTC
1 GTTTTGTTTTGCTTC
44425093 GATTTTGTT
1 G-TTTTGTT
44425102 GCACTACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.03, C:0.05, G:0.21, T:0.71
Consensus pattern (15 bp):
GTTTTGTTTTGCTTC
Found at i:44425943 original size:18 final size:21
Alignment explanation
Indices: 44425899--44425938 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44425889 TTTAGTCACT
*
44425899 TAATTATTAATTTTTTCAATA
1 TAATTATTAAATTTTTCAATA
44425920 TAATTATTAAATTTTTCAA
1 TAATTATTAAATTTTTCAA
44425939 AATTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (21 bp):
TAATTATTAAATTTTTCAATA
Found at i:44425949 original size:22 final size:22
Alignment explanation
Indices: 44425898--44425949 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
44425888 TTTTAGTCAC
* *
44425898 TTAATTATTAATTTTTTCAATA
1 TTAATTATTAAATTTTTCAAAA
44425920 -TAATTATTAAATTTTTCAAAA
1 TTAATTATTAAATTTTTCAAAA
*
44425941 TTAAATATT
1 TTAATTATT
44425950 TTCGTCATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 19 0.73
22 7 0.27
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
TTAATTATTAAATTTTTCAAAA
Found at i:44426422 original size:5 final size:5
Alignment explanation
Indices: 44426393--44426486 Score: 58
Period size: 5 Copynumber: 19.8 Consensus size: 5
44426383 TCTTTTTCTT
* * * * * *
44426393 TTTTT TTTTA CTTTA GTTTA TTTT- TATTT- TTTTA TGTT- TTGTC TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA TTTTA
*
44426441 TCTTTA -TTTA -TTTA TTTT- GTTTA TTTTA TTTTA TTTTA -TTTA TTTT
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTT
44426487 TTATGATTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
4 21 0.30
5 46 0.65
6 4 0.06
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:44426440 original size:28 final size:27
Alignment explanation
Indices: 44426409--44426487 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 27
44426399 TTTACTTTAG
*
44426409 TTTATTTTTATTTTTTTATGTTTTGTCT
1 TTTATTTTTATTTTTTTAT-TTTTGTAT
* * *
44426437 TTTATCTTTATTTATTTATTTTGTTTAT
1 TTTATTTTTATTTTTTTATTTT-TGTAT
44426465 TTTA-TTTTATTTTATTTATTTTT
1 TTTATTTTTATTTT-TTTATTTTT
44426488 TATGATTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.26
28 32 0.74
ACGTcount: A:0.15, C:0.03, G:0.04, T:0.78
Consensus pattern (27 bp):
TTTATTTTTATTTTTTTATTTTTGTAT
Found at i:44426454 original size:14 final size:13
Alignment explanation
Indices: 44426398--44426486 Score: 65
Period size: 14 Copynumber: 6.3 Consensus size: 13
44426388 TTCTTTTTTT
44426398 TTTTACTTTAGTTTA
1 TTTTA-TTTA-TTTA
*
44426413 TTTTTATTTTTTTA
1 -TTTTATTTATTTA
44426427 TGTTT-TGTCT-TTTA
1 T-TTTAT-T-TATTTA
44426441 TCTTTATTTATTTA
1 T-TTTATTTATTTA
*
44426455 TTTTGTTTATTTTA
1 TTTTATTTA-TTTA
44426469 TTTTATTTTATTTA
1 TTTTA-TTTATTTA
44426483 TTTT
1 TTTT
44426487 TTATGATTAA
Statistics
Matches: 62, Mismatches: 4, Indels: 16
0.76 0.05 0.20
Matches are distributed among these distances:
13 10 0.16
14 38 0.61
15 9 0.15
16 5 0.08
ACGTcount: A:0.16, C:0.03, G:0.04, T:0.76
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:44426465 original size:9 final size:9
Alignment explanation
Indices: 44426443--44426486 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
44426433 GTCTTTTATC
44426443 TTTA-TTTA
1 TTTATTTTA
*
44426451 TTTATTTTG
1 TTTATTTTA
44426460 TTTATTTTA
1 TTTATTTTA
44426469 TTTTATTTTA
1 -TTTATTTTA
44426479 TTTATTTT
1 TTTATTTT
44426487 TTATGATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
8 4 0.12
9 19 0.59
10 9 0.28
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:44426582 original size:12 final size:12
Alignment explanation
Indices: 44426565--44426611 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
44426555 ATTTTTCTAA
44426565 ATTTTAAATATT
1 ATTTTAAATATT
*
44426577 ATTTTAAATTTT
1 ATTTTAAATATT
44426589 AAATTTTAAATA-T
1 --ATTTTAAATATT
44426602 ATTTTTAAAT
1 A-TTTTAAAT
44426612 GCTAAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 1 0.03
12 19 0.63
13 1 0.03
14 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTTAAATATT
Found at i:44426584 original size:19 final size:19
Alignment explanation
Indices: 44426546--44426592 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 19
44426536 ATATATATAT
44426546 TTTTAAATTATTTTTCTAAA
1 TTTTAAA-TATTTTTCTAAA
44426566 TTTTAAATATTATTT-TAAA
1 TTTTAAATATT-TTTCTAAA
44426585 TTTTAAAT
1 TTTTAAAT
44426593 TTTAAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAAATATTTTTCTAAA
Found at i:44426587 original size:7 final size:7
Alignment explanation
Indices: 44426562--44426599 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
44426552 ATTATTTTTC
44426562 TAAATTT
1 TAAATTT
*
44426569 TAAATAT
1 TAAATTT
44426576 T--ATTT
1 TAAATTT
44426581 TAAATTT
1 TAAATTT
44426588 TAAATTT
1 TAAATTT
44426595 TAAAT
1 TAAAT
44426600 ATATTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 4 0.15
7 23 0.85
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
TAAATTT
Found at i:44426594 original size:26 final size:26
Alignment explanation
Indices: 44426562--44426611 Score: 84
Period size: 26 Copynumber: 1.9 Consensus size: 26
44426552 ATTATTTTTC
44426562 TAAATTTTAAATAT-TATTTTAAATTT
1 TAAATTTTAAATATAT-TTTTAAATTT
44426588 TAAATTTTAAATATATTTTTAAAT
1 TAAATTTTAAATATATTTTTAAAT
44426612 GCTAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
TAAATTTTAAATATATTTTTAAATTT
Found at i:44426607 original size:19 final size:19
Alignment explanation
Indices: 44426585--44426657 Score: 58
Period size: 19 Copynumber: 3.7 Consensus size: 19
44426575 TTATTTTAAA
44426585 TTTTAAATTTTAAATATAT
1 TTTTAAATTTTAAATATAT
**
44426604 TTTTAAATGCTAAATA-AT
1 TTTTAAATTTTAAATATAT
* * *
44426622 ATTTAATATTTAAAAAATAAT
1 TTTTAA-ATTTTAAATAT-AT
*
44426643 GTTTAAAATTTTAAA
1 -TTTTAAATTTTAAA
44426658 AAAATATTTA
Statistics
Matches: 40, Mismatches: 10, Indels: 6
0.71 0.18 0.11
Matches are distributed among these distances:
18 7 0.17
19 20 0.50
21 9 0.22
22 4 0.10
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (19 bp):
TTTTAAATTTTAAATATAT
Found at i:44426617 original size:26 final size:26
Alignment explanation
Indices: 44426561--44426618 Score: 82
Period size: 26 Copynumber: 2.2 Consensus size: 26
44426551 AATTATTTTT
*
44426561 CTAAATTTTAAATATTATTTTAAATT
1 CTAAATTTTAAATATTATTTTAAATG
*
44426587 TTAAATTTTAAATA-TATTTTTAAATG
1 CTAAATTTTAAATATTA-TTTTAAATG
44426613 CTAAAT
1 CTAAAT
44426619 AATATTTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 26 0.93
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (26 bp):
CTAAATTTTAAATATTATTTTAAATG
Found at i:44426641 original size:21 final size:21
Alignment explanation
Indices: 44426615--44426715 Score: 100
Period size: 21 Copynumber: 4.8 Consensus size: 21
44426605 TTTAAATGCT
*
44426615 AAATAATATTTAATATTTAAA
1 AAATAATATTTAAAATTTAAA
* *
44426636 AAATAATGTTTAAAATTTTAA
1 AAATAATATTTAAAATTTAAA
*
44426657 AAA-AATATTTAAAAAATATTTAA
1 AAATAATATTT--AAAAT-TTAAA
44426680 AAA-AATATTTAAAATTTATAA
1 AAATAATATTTAAAATTTA-AA
*
44426701 AAATAAT-TTAAAAAT
1 AAATAATATTTAAAAT
44426716 ATATATTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
20 8 0.12
21 38 0.55
22 8 0.12
23 15 0.22
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
AAATAATATTTAAAATTTAAA
Found at i:44426667 original size:12 final size:12
Alignment explanation
Indices: 44426647--44426693 Score: 80
Period size: 12 Copynumber: 4.1 Consensus size: 12
44426637 AATAATGTTT
44426647 AAAAT-TTTAAA
1 AAAATATTTAAA
44426658 AAAATATTT-AA
1 AAAATATTTAAA
44426669 AAAATATTTAAA
1 AAAATATTTAAA
44426681 AAAATATTTAAA
1 AAAATATTTAAA
44426693 A
1 A
44426694 TTTATAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
11 16 0.47
12 18 0.53
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATATTTAAA
Done.