Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168071.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_32, whole genome shotgun sequence
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: 761692
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.42
Warning! 1000 characters in sequence are not A, C, G, or T
File 16 of 17
Found at i:606421 original size:28 final size:27
Alignment explanation
Indices: 606382--606438 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
606372 AAAATATATA
*
606382 ATTTATTCATAAAATAAATATTATAATT
1 ATTTATTCAT-AAATAAATATTAAAATT
* * *
606410 ATTTATTTATAATTTAATATTAAAATT
1 ATTTATTCATAAATAAATATTAAAATT
606437 AT
1 AT
606439 AAGTAATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTTATTCATAAATAAATATTAAAATT
Found at i:606439 original size:33 final size:35
Alignment explanation
Indices: 606396--606462 Score: 86
Period size: 33 Copynumber: 2.0 Consensus size: 35
606386 ATTCATAAAA
* *
606396 TAAATATTATAATTATTTATTTA-TAAT-TTAATAT
1 TAAATATTATAAGTAATTA-TTAGTAATATTAATAT
606430 TAAA-ATTATAAGTAATTATTAGTAATATTAATA
1 TAAATATTATAAGTAATTATTAGTAATATTAATA
606463 ATTGTATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 3 0.10
33 16 0.55
34 10 0.34
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (35 bp):
TAAATATTATAAGTAATTATTAGTAATATTAATAT
Found at i:606669 original size:28 final size:27
Alignment explanation
Indices: 606615--606669 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
606605 AAAAATTATA
* *
606615 ACTTATAATAGTTAAATATAATTTATT
1 ACTTATAATAGTTAAAAATAATATATT
606642 ACTTATAAATTAG-TAAAAATAATATATT
1 ACTTAT-AA-TAGTTAAAAATAATATATT
606670 GAAATTCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.25
28 15 0.62
29 3 0.12
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
ACTTATAATAGTTAAAAATAATATATT
Found at i:606791 original size:18 final size:18
Alignment explanation
Indices: 606768--606818 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
606758 AACTATAATA
606768 TAATAATATTATAAGATT
1 TAATAATATTATAAGATT
*
606786 TAATAA-ATATATAA-AAT
1 TAATAATAT-TATAAGATT
*
606803 TAATAAT-TAATAAGAT
1 TAATAATATTATAAGAT
606819 ATTATATTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 7
0.73 0.08 0.19
Matches are distributed among these distances:
16 4 0.15
17 12 0.44
18 11 0.41
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
TAATAATATTATAAGATT
Found at i:606853 original size:24 final size:22
Alignment explanation
Indices: 606805--606858 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 22
606795 TATAAAATTA
606805 ATAATTAATAAGATATTATATTT
1 ATAATTAATAAGATATTATA-TT
606828 ATTAATTAATAA-ATTAATTATATT
1 A-TAATTAATAAGA-T-ATTATATT
606852 ATAATTA
1 ATAATTA
606859 TAATATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 8 0.29
24 14 0.50
25 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (22 bp):
ATAATTAATAAGATATTATATT
Found at i:606865 original size:39 final size:39
Alignment explanation
Indices: 606822--606913 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 39
606812 ATAAGATATT
606822 ATATTTATTAATTAATAAAT-TAATTATATTATAATTATA
1 ATATTTATTAATTAATAAATATAATT-TATTATAATTATA
* * *
606861 ATATTTGTT-ATAAAATAATTATAATTTATTATAATTATA
1 ATATTTATTAAT-TAATAAATATAATTTATTATAATTATA
*
606900 ATATTATTTTAATT
1 ATATT-TATTAATT
606914 GTTCAAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 2 0.05
39 32 0.73
40 8 0.18
41 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (39 bp):
ATATTTATTAATTAATAAATATAATTTATTATAATTATA
Found at i:606871 original size:23 final size:21
Alignment explanation
Indices: 606818--606901 Score: 69
Period size: 23 Copynumber: 3.7 Consensus size: 21
606808 ATTAATAAGA
606818 TATTATATTTATTAATTAATAAATT
1 TATTATA-TTA-TAATT-AT-AATT
*
606843 AATTATATTATAATTATAATATT
1 TATTATATTATAATTAT-A-ATT
* **
606866 TGTTATAAAATAATTATAATT
1 TATTATATTATAATTATAATT
606887 TATTATAATTATAAT
1 TATTAT-ATTATAAT
606902 ATTATTTTAA
Statistics
Matches: 49, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
21 8 0.16
22 11 0.22
23 21 0.43
24 3 0.06
25 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
TATTATATTATAATTATAATT
Found at i:606896 original size:16 final size:17
Alignment explanation
Indices: 606875--606913 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
606865 TTGTTATAAA
606875 ATAATTATAAT-TTATT
1 ATAATTATAATATTATT
606891 ATAATTATAATATTATT
1 ATAATTATAATATTATT
*
606908 TTAATT
1 ATAATT
606914 GTTCAAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAATTATAATATTATT
Found at i:606908 original size:21 final size:21
Alignment explanation
Indices: 606817--606908 Score: 63
Period size: 21 Copynumber: 4.4 Consensus size: 21
606807 AATTAATAAG
*
606817 ATATTATAT-TTATTAATTAATA
1 ATATTATTTATTA-TAATT-ATA
606839 A-ATTAATTATATTATAATTATA
1 ATATT-ATT-TATTATAATTATA
606861 ATATT-TGTTA-TA-AA--ATA
1 ATATTAT-TTATTATAATTATA
*
606878 ATTATAATTTATTATAATTATA
1 A-TATTATTTATTATAATTATA
606900 ATATTATTT
1 ATATTATTT
606909 TAATTGTTCA
Statistics
Matches: 56, Mismatches: 3, Indels: 23
0.68 0.04 0.28
Matches are distributed among these distances:
17 4 0.07
18 6 0.11
19 5 0.09
20 4 0.07
21 13 0.23
22 12 0.21
23 9 0.16
24 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (21 bp):
ATATTATTTATTATAATTATA
Found at i:607400 original size:182 final size:178
Alignment explanation
Indices: 607023--607459 Score: 479
Period size: 182 Copynumber: 2.4 Consensus size: 178
607013 TTAATAATTG
**
607023 TAATAGAA-TTATTTTTTAAATCTCTTACTTATTAAATTTTGAAATATTAATAAATTAATACAAT
1 TAATA-AATTTATTTTTTAAATCTC-TA-TTA-TAAATTTTGAAATATTAATAAATTAATATTAT
* ** ** * *
607087 TTTATTTCGAATAAACTTGTATGAGTTGAAATAATTATTTTATGACAAAACAAAATGTCATAACG
62 TTTATTTCAAATAAACTTGTAAAACATGAAATAATTATTTTATGACAAAACAAAAGGTCATAACA
* * *
607152 ATTTGAAATAAATAATTATTCAAATAGTCTTAACTATTTGAACTGGTTTAAA
127 ATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAAA
* *** * * * *
607204 AAACGTATTTATTTTTTAAATCTCATAGTTATGAATTTTCTAAATATTATTAAATTAGTATTATT
1 TAATAAATTTATTTTTTAAATCTC-TA-TTATAAATTTT-GAAATATTAATAAATTAATATTATT
* * * * *
607269 TTATTCCAAATAAACTTGTACAAACAT-AAATAATTGCTTTTATGATAGAATAAAAGG-CTATAA
63 TTATTTCAAATAAACTTGTA-AAACATGAAATAATT-ATTTTATGACAAAACAAAAGGTC-ATAA
* *
607332 CAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAAT
125 CAATTTGAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAAA
* *
607386 TAATAAATTTATTTTTTAAATCTC--TTATTAATTCTAGAAATATTAATAAATTAATATTATTTT
1 TAATAAATTTATTTTTTAAATCTCTATTATAAATT-TTGAAATATTAATAAATTAATATTATTTT
607449 ATTTCAAATAA
65 ATTTCAAATAA
607460 GTTTGTATGT
Statistics
Matches: 211, Mismatches: 39, Indels: 15
0.80 0.15 0.06
Matches are distributed among these distances:
178 42 0.20
179 1 0.00
180 8 0.04
181 70 0.33
182 90 0.43
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.43
Consensus pattern (178 bp):
TAATAAATTTATTTTTTAAATCTCTATTATAAATTTTGAAATATTAATAAATTAATATTATTTTA
TTTCAAATAAACTTGTAAAACATGAAATAATTATTTTATGACAAAACAAAAGGTCATAACAATTT
GAAATAAATAATTATTCAAATAGTCATAACTATTTGAACTAGTTCAAA
Found at i:607615 original size:25 final size:27
Alignment explanation
Indices: 607568--607626 Score: 79
Period size: 25 Copynumber: 2.3 Consensus size: 27
607558 ACAAATATTA
607568 TAATTATAATATAATTAATTTATTAAT
1 TAATTATAATATAATTAATTTATTAAT
607595 TAATTA-AATATAA-T-ATCTTATTAAT
1 TAATTATAATATAATTAAT-TTATTAAT
*
607620 TATTTAT
1 TAATTAT
607627 TTTTATATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 14 0.48
26 7 0.24
27 6 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.53
Consensus pattern (27 bp):
TAATTATAATATAATTAATTTATTAAT
Found at i:608563 original size:34 final size:34
Alignment explanation
Indices: 608534--608601 Score: 104
Period size: 34 Copynumber: 2.0 Consensus size: 34
608524 TTATTAATCT
608534 AATATTAAGT-AT-ATTATTTTATATGTATTATATA
1 AATATTAAGTAATAATTATTTTA-AT-TATTATATA
608568 AATATTAAGTAATAATTATTTTAATTATTATATA
1 AATATTAAGTAATAATTATTTTAATTATTATATA
608602 TTTATAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
34 19 0.59
35 4 0.12
36 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (34 bp):
AATATTAAGTAATAATTATTTTAATTATTATATA
Found at i:609638 original size:17 final size:16
Alignment explanation
Indices: 609600--609645 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 16
609590 TATTAATATA
609600 ATAAATTATTATAA-TT
1 ATAAA-TATTATAATTT
609616 AT-AATATTATAATTT
1 ATAAATATTATAATTT
609631 AGTAAATATT-TAATT
1 A-TAAATATTATAATT
609646 AAATATTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 8 0.30
15 5 0.19
16 8 0.30
17 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (16 bp):
ATAAATATTATAATTT
Found at i:609665 original size:12 final size:12
Alignment explanation
Indices: 609560--609691 Score: 57
Period size: 12 Copynumber: 11.0 Consensus size: 12
609550 TTACTAAATC
609560 TTATAA-AATTAA
1 TTATAATAATT-A
*
609572 TAATAAT-ATGTA
1 TTATAATAAT-TA
*
609584 TTATTAT-ATTA
1 TTATAATAATTA
*
609595 ATATAATAAATTA
1 TTATAAT-AATTA
*
609608 TTATAATTATAATA
1 TTATAA-TA-ATTA
609622 TTATAAT--TTA
1 TTATAATAATTA
* *
609632 GTA-AATATTTAA
1 TTATAATAATT-A
609644 TTA-AAT-ATTA
1 TTATAATAATTA
609654 TTATAATAATTA
1 TTATAATAATTA
609666 TTAGTTAATAATTGA
1 TTA--TAATAATT-A
*
609681 -TATAAAAATTA
1 TTATAATAATTA
609692 ATTAATAAAT
Statistics
Matches: 94, Mismatches: 12, Indels: 29
0.70 0.09 0.21
Matches are distributed among these distances:
9 3 0.03
10 8 0.09
11 15 0.16
12 35 0.37
13 12 0.13
14 20 0.21
15 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (12 bp):
TTATAATAATTA
Found at i:610291 original size:179 final size:178
Alignment explanation
Indices: 609834--610322 Score: 530
Period size: 174 Copynumber: 2.7 Consensus size: 178
609824 CAAATTCTTT
* * *
609834 TTTTTTAATTCTCTTACTCATTAATTTTTAGAATATTAATAAATTAGTATTATTTTACTTCAAAT
1 TTTTTTAAATCTTTTACTTATTAATTTTT--AATATTAATAAATTAGTATTATTTTA-TTCAAAT
* ** * * * * * * *
609899 GAGCTTGTATGAATTG-AAATAATTCTTTTATTACAAAAGAAAATGTCATAATAATTTGAAATAG
63 AAGCTTGTATGAACAGAAAAT-ATTATTTTATGACAAAACAAAAAGTCATAGTAATTTCAAATAA
** * * * * *
609963 ATAATTATTTAAATGGTCATCACTATTTGAACTTGTTTCGTAAACATATTTA
127 ATAATTGCTTAAATAGTCATAACGATTTGAACTTGTTTAGTAAACAAATTTA
* * ** *
610015 TTTTTTAAATCTTTTACTTATTAA-----AATATTAATAAATTAATATTATTTCAACCTGAATAA
1 TTTTTTAAATCTTTTACTTATTAATTTTTAATATTAATAAATTAGTATTATTTTATTC-AAATAA
* * *
610075 ACTTGTATGAACATAAACA-ATTATTTTATGACAAAACAAAAAGTCATAGCAAGTTT-AAATAAA
65 GCTTGTATGAACAGAAA-ATATTATTTTATGACAAAACAAAAAGTCATAGTAA-TTTCAAATAAA
610138 TAATTGCTTAAATAGTCATAACGATTTGAACTTGTTTAGTAAACAAATTTA
128 TAATTGCTTAAATAGTCATAACGATTTGAACTTGTTTAGTAAACAAATTTA
610189 -TTTTTAAATCTTTTACTTATTAATTGTCTTAATATTAATAAATT-GTATTATTTTATTCAAAAT
1 TTTTTTAAATCTTTTACTTATTAATT-T-TTAATATTAATAAATTAGTATTATTTTATTC-AAAT
* * * *
610252 AAGCTTGTATGAACAGAAAATTTTATTTTATGACAAAACAAAAGGTTATAGTGATTTCAAATAAA
63 AAGCTTGTATGAACAGAAAATATTATTTTATGACAAAACAAAAAGTCATAGTAATTTCAAATAAA
610317 TAATTG
128 TAATTG
610323 TTTAGTAAAT
Statistics
Matches: 255, Mismatches: 40, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
173 24 0.09
174 115 0.45
175 5 0.02
176 1 0.00
178 4 0.02
179 71 0.28
180 14 0.05
181 21 0.08
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (178 bp):
TTTTTTAAATCTTTTACTTATTAATTTTTAATATTAATAAATTAGTATTATTTTATTCAAATAAG
CTTGTATGAACAGAAAATATTATTTTATGACAAAACAAAAAGTCATAGTAATTTCAAATAAATAA
TTGCTTAAATAGTCATAACGATTTGAACTTGTTTAGTAAACAAATTTA
Found at i:610406 original size:153 final size:151
Alignment explanation
Indices: 610169--610454 Score: 371
Period size: 153 Copynumber: 1.9 Consensus size: 151
610159 CGATTTGAAC
* *
610169 TTGTTTAGTAAACAAATTTATTTTTAAATCTTTTACTTATTAATTGTCTTAATATTAATAAATTG
1 TTGTTTAGTAAACAAATTCATTTTTAAATCTTTTACTCATTAATTGTCTTAATATTAATAAATTG
* * **
610234 TATTATTTTATTCAAAATAAGCTTGTATGAACAGAAAATTTTATTTTATGACAAAACAAAAGGTT
66 TATTAATTTATTCAAAATAAGCTTATATGAACAGAAAAGATTATTTTATGACAAAACAAAAGGTT
610299 ATAGTGATTTCAAATAAATAA
131 ATAGTGATTTCAAATAAATAA
* * *
610320 TTGTTTAGTAAATAGATTCATTTTTAAAATATTTTTA-TCATTAATT-T-TTAGATTATTAATAA
1 TTGTTTAGTAAACAAATTCATTTTT-AAAT-CTTTTACTCATTAATTGTCTTA-A-TATTAATAA
*** * * *
610382 ATTAGTATTAATTTATTTTGAATAAGCTTATATGAACTGAAACGATTCTTTTATGACAAAACAAA
62 ATT-GTATTAATTTATTCAAAATAAGCTTATATGAACAGAAAAGATTATTTTATGACAAAACAAA
610447 AGGTTATA
126 AGGTTATA
610455 ACAATTTGAA
Statistics
Matches: 115, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
150 3 0.03
151 24 0.21
152 24 0.21
153 64 0.56
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.44
Consensus pattern (151 bp):
TTGTTTAGTAAACAAATTCATTTTTAAATCTTTTACTCATTAATTGTCTTAATATTAATAAATTG
TATTAATTTATTCAAAATAAGCTTATATGAACAGAAAAGATTATTTTATGACAAAACAAAAGGTT
ATAGTGATTTCAAATAAATAA
Found at i:610987 original size:19 final size:18
Alignment explanation
Indices: 610963--611009 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
610953 TGTTTACAAA
610963 ACTATTTCAAATAATTAT
1 ACTATTTCAAATAATTAT
*
610981 GACTATTT-GAATAATTAT
1 -ACTATTTCAAATAATTAT
610999 -CTATTTCAAAT
1 ACTATTTCAAAT
611010 TGTTATTACC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 3 0.12
18 9 0.36
19 7 0.28
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (18 bp):
ACTATTTCAAATAATTAT
Found at i:611250 original size:162 final size:162
Alignment explanation
Indices: 610982--611437 Score: 393
Period size: 162 Copynumber: 2.8 Consensus size: 162
610972 AATAATTATG
* * * * *
610982 ACTATTTGAATAATTATCTATTTCAAATTGTTATTACCTTTTGTTTTGTCATAAAACAAATGTTT
1 ACTATTTGAACAAATATCTATTTCAAATTGTTATGACCATTTGTTTTATCATAAAACAAATGTTT
* * * * * * * *
611047 TTGTTCATATAAGTTTGTTTGGAATAAAATAATATTAATTTATTAATATTTCAAAAATTAATATG
66 CTATTAATATAAGTTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
*
611112 TAA-GAGATTTATAAAATAAATCTATTTGCCAT
131 TAATG-GATTTAGAAAATAAATCTATTTGCCAT
* * * * *
611144 ACTATTTGACCAAATATTTATTTTAAATTGTTATGACCATTTGTTTTATTATAAAACAATTGTTT
1 ACTATTTGAACAAATATCTATTTCAAATTGTTATGACCATTTGTTTTATCATAAAACAAATGTTT
* * * **
611209 CTATTAATATAA-TCTTATTCGAAATAAAGTTATGCTAATTTATTAATATTTTGAAAATTAATAA
66 CTATTAATATAAGT-TTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAA
** * *
611273 GTAATGGATTTAGAAAATGTATCT-TTTGGCTT
130 GTAATGGATTTAGAAAATAAATCTATTTGCCAT
* * * * * * * * * * *
611305 GACCA-GTGCAAACAATTATCTAATTCAAATTATTATGACCTTTTGTTTTCTCACAAAATAATTA
1 -ACTATTTG--AACAAATATCTATTTCAAATTGTTATGACCATTTGTTTTATCATAAAACAAATG
* ** * * * *
611369 TATT-TGTTCGTACAAGCTTATTC-AGAATAACATAATTCTAATTTATTAATATTTCAAAAATTA
63 T-TTCTATTAATATAAGTTTATTCGA-AATAAAATAATACTAATTTATTAATATTTCAAAAATTA
611432 ATAAGT
126 ATAAGT
611438 GAGAGATTCA
Statistics
Matches: 233, Mismatches: 53, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
161 9 0.04
162 127 0.55
163 95 0.41
164 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (162 bp):
ACTATTTGAACAAATATCTATTTCAAATTGTTATGACCATTTGTTTTATCATAAAACAAATGTTT
CTATTAATATAAGTTTATTCGAAATAAAATAATACTAATTTATTAATATTTCAAAAATTAATAAG
TAATGGATTTAGAAAATAAATCTATTTGCCAT
Found at i:611949 original size:179 final size:181
Alignment explanation
Indices: 611598--611963 Score: 468
Period size: 179 Copynumber: 2.0 Consensus size: 181
611588 AATAATTTTG
* * ***
611598 AATAGTTATAACTATTGAAATAATTATTTATTTCAAATCATTATGACCTTTTGTTTTGTCATAAA
1 AATAGTAATAACTATTGAAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTCACCATAAA
* * *** * * * * *
611663 ATAATTATTTTTGTTCATATTAGCTTATTCGAATTAAAATAATATTAATTTATTAATATTTCAAC
66 ACAATTATATCAATTCATATTAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAA
*
611728 AATTACTAAGTAAAAGACTTAAAAAATAAATATGTTTACCAAACAAGTTCA
131 AATTACTAAGTAAAAGACTTAAAAAATAAATATATTTACCAAACAAGTTCA
*
611779 AATAGTAATAACTGTCTG-AATAATTATCTATTTCAAATC-TTATGACCTTTTGTTTCACCATAA
1 AATAGTAATAACTAT-TGAAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTCACCATAA
* *
611842 AACAATTATATCAATTCATA-TGGCTTATTCGAAATAAAATAATACTAACTTATTACTATTCCAA
65 AACAATTATATCAATTCATATTAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAA
* * * * * * *
611906 AAATTAGTGAGTAAGAGATTTAAACAATGAATCTATTTACCAAACAAGTTCA
130 AAATTACTAAGTAAAAGACTTAAAAAATAAATATATTTACCAAACAAGTTCA
611958 AATAGT
1 AATAGT
611964 TTATTAATAT
Statistics
Matches: 158, Mismatches: 26, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
179 87 0.55
180 36 0.23
181 33 0.21
182 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.39
Consensus pattern (181 bp):
AATAGTAATAACTATTGAAATAATTATCTATTTCAAATCATTATGACCTTTTGTTTCACCATAAA
ACAATTATATCAATTCATATTAGCTTATTCGAAATAAAATAATACTAACTTATTAATATTCCAAA
AATTACTAAGTAAAAGACTTAAAAAATAAATATATTTACCAAACAAGTTCA
Found at i:612845 original size:18 final size:17
Alignment explanation
Indices: 612824--612881 Score: 57
Period size: 16 Copynumber: 3.5 Consensus size: 17
612814 AAATTTTTAA
612824 TATAATAATAATTGATAT
1 TATAATAATAATT-ATAT
* *
612842 TATATTAAT-ATCATAT
1 TATAATAATAATTATAT
* *
612858 AATAA-AATAATTTTAT
1 TATAATAATAATTATAT
612874 TATAATAA
1 TATAATAA
612882 ATTCTAAATC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
15 3 0.10
16 16 0.52
17 4 0.13
18 8 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TATAATAATAATTATAT
Found at i:613841 original size:12 final size:13
Alignment explanation
Indices: 613826--613855 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
613816 ATAAACAAGA
613826 ATATAAATTA-TT
1 ATATAAATTATTT
613838 ATATAAATTATTT
1 ATATAAATTATTT
613851 ATATA
1 ATATA
613856 TTTAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATATAAATTATTT
Found at i:613900 original size:25 final size:24
Alignment explanation
Indices: 613838--613909 Score: 65
Period size: 25 Copynumber: 2.8 Consensus size: 24
613828 ATAAATTATT
*
613838 ATATAAATTATTTATATATTTAATAA
1 ATAT-AATAATTTATA-ATTTAATAA
*
613864 ATATAATTATTTATAATTATAACTAA
1 ATATAATAATTTATAATT-TAA-TAA
*
613890 TTAT-ATAATTTATTAATTTA
1 ATATAATAATTTA-TAATTTA
613910 TATTATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
24 3 0.07
25 23 0.56
26 15 0.37
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (24 bp):
ATATAATAATTTATAATTTAATAA
Found at i:613958 original size:20 final size:19
Alignment explanation
Indices: 613933--613978 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
613923 AGTATAATAT
*
613933 ATAATATTTATAATTATTTA
1 ATAATAATTATAATTA-TTA
*
613953 ATAATAATTATTATTATTA
1 ATAATAATTATAATTATTA
613972 AT-ATAAT
1 ATAATAAT
613979 GAATTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 5 0.21
20 14 0.58
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATAATTATAATTATTA
Found at i:614021 original size:27 final size:25
Alignment explanation
Indices: 613925--614022 Score: 71
Period size: 27 Copynumber: 3.8 Consensus size: 25
613915 TAAATACAAG
*
613925 TATAATATATAATATTTATAATT-AT
1 TATAATA-ATAATATTTATTATTAAT
613950 T-TAATAATAAT-TATTATTATTAA-
1 TATAATAATAATAT-TTATTATTAAT
613973 TATAATGAATTGAA-ATTATATTATTTAAT
1 TATAAT-AA-T-AATATT-TATTA-TTAAT
*
614002 TATAATATATTATATTTATTA
1 TATAATA-ATAATATTTATTA
614023 ATATACAATT
Statistics
Matches: 59, Mismatches: 2, Indels: 22
0.71 0.02 0.27
Matches are distributed among these distances:
22 1 0.02
23 13 0.22
24 10 0.17
25 3 0.05
26 2 0.03
27 14 0.24
28 9 0.15
29 7 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TATAATAATAATATTTATTATTAAT
Found at i:614495 original size:27 final size:27
Alignment explanation
Indices: 614431--614513 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
614421 TTTCAACAAT
*
614431 TATTA-ATTAATCAAATAGTAAAATAA
1 TATTATATTATTCAAATAGTAAAATAA
*
614457 TGTTATATTATTCAAATA-TATAAATATA
1 TATTATATTATTCAAATAGTA-AAATA-A
* *
614485 TATTATA-TATT--ATTTGTAAAATAA
1 TATTATATTATTCAAATAGTAAAATAA
614509 TATTA
1 TATTA
614514 AATATTTATT
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
24 6 0.12
25 7 0.15
26 8 0.17
27 20 0.42
28 7 0.15
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (27 bp):
TATTATATTATTCAAATAGTAAAATAA
Found at i:614809 original size:23 final size:23
Alignment explanation
Indices: 614774--614825 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
614764 TTTTTTAAAA
*
614774 TATTAATAAAATAATATTA-TAAT
1 TATTATTAAAATAA-ATTAGTAAT
*
614797 TATTATTATAATAAATTAGTAAT
1 TATTATTAAAATAAATTAGTAAT
614820 TATTAT
1 TATTAT
614826 AATTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 4 0.15
23 22 0.85
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (23 bp):
TATTATTAAAATAAATTAGTAAT
Found at i:614928 original size:13 final size:13
Alignment explanation
Indices: 614906--614950 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
614896 TTTATATTAG
614906 TAAT-ATATTAAA
1 TAATAATATTAAA
*
614918 TAATAATATTAAT
1 TAATAATATTAAA
614931 TATATAAT-TTAAA
1 TA-ATAATATTAAA
614944 T-ATAATA
1 TAATAATA
614951 CTATAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 5 0.18
12 4 0.14
13 14 0.50
14 5 0.18
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAATATTAAA
Found at i:615064 original size:18 final size:18
Alignment explanation
Indices: 615033--615124 Score: 66
Period size: 18 Copynumber: 4.9 Consensus size: 18
615023 TAAAATACTC
615033 TAATTATATCATATTTATA
1 TAATTATAT-ATATTTATA
615052 -AATTATACTATATAATTATA
1 TAATTATA-TATAT--TTATA
615072 TAATATATAATATATTTAT-
1 TAAT-TAT-ATATATTTATA
*
615091 TATTTATATA-ATATTA-A
1 TAATTATATATAT-TTATA
*
615108 TAACTATTATATATTTA
1 TAATTA-TATATATTTA
615125 AGTTATTTAT
Statistics
Matches: 60, Mismatches: 3, Indels: 21
0.71 0.04 0.25
Matches are distributed among these distances:
16 2 0.03
17 10 0.17
18 21 0.35
19 6 0.10
20 9 0.15
21 3 0.05
22 8 0.13
23 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTATATATATTTATA
Found at i:615084 original size:20 final size:20
Alignment explanation
Indices: 615061--615104 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
615051 AAATTATACT
615061 ATATAATTA-TATAATATATA
1 ATATAATTATTAT-ATATATA
* *
615081 ATATATTTATTATTTATATA
1 ATATAATTATTATATATATA
615101 ATAT
1 ATAT
615105 TAATAACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATAATTATTATATATATA
Found at i:615117 original size:27 final size:28
Alignment explanation
Indices: 615060--615124 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
615050 TAAATTATAC
*
615060 TATATAATTATATAATATATAATATATT
1 TATATATTTATATAATATATAATATATT
615088 TAT-TATTTATATAATAT-TAATA-ACTAT
1 TATATATTTATATAATATATAATATA-T-T
615115 TATATATTTA
1 TATATATTTA
615125 AGTTATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 1 0.03
26 6 0.18
27 17 0.52
28 9 0.27
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (28 bp):
TATATATTTATATAATATATAATATATT
Found at i:615120 original size:35 final size:37
Alignment explanation
Indices: 615060--615145 Score: 99
Period size: 35 Copynumber: 2.4 Consensus size: 37
615050 TAAATTATAC
615060 TATATAATTATATAATATATAATATATTT-A-TTATT
1 TATATAATTATATAATATATAATATATTTAAGTTATT
*
615095 TATATAA-TAT-TAATAACTATTATATATTTAAGTTATT
1 TATATAATTATATAAT-A-TATAATATATTTAAGTTATT
*
615132 TATAATTATTATAT
1 TAT-ATAATTATAT
615146 TTATTTTAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
33 4 0.10
34 4 0.10
35 18 0.43
36 1 0.02
37 8 0.19
38 3 0.07
39 3 0.07
40 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (37 bp):
TATATAATTATATAATATATAATATATTTAAGTTATT
Found at i:615143 original size:9 final size:9
Alignment explanation
Indices: 615062--615168 Score: 54
Period size: 9 Copynumber: 12.3 Consensus size: 9
615052 AATTATACTA
615062 TATAATTA-
1 TATAATTAT
615070 TATAA-TA-
1 TATAATTAT
615077 TATAATATAT
1 TATAAT-TAT
615087 T-T-ATTATT
1 TATAATTA-T
*
615095 TATATAATAT
1 TATA-ATTAT
*
615105 TAATAACTAT
1 T-ATAATTAT
615115 TAT-A-TAT
1 TATAATTAT
615122 T-TAAGTTATT
1 TATAA-TTA-T
615132 TATAATTAT
1 TATAATTAT
*
615141 TATATTTAT
1 TATAATTAT
*
615150 TTTAATTAT
1 TATAATTAT
615159 T-T-ATTAT
1 TATAATTAT
615166 TAT
1 TAT
615169 TTTAATGATT
Statistics
Matches: 80, Mismatches: 5, Indels: 28
0.71 0.04 0.25
Matches are distributed among these distances:
6 1 0.01
7 20 0.25
8 12 0.15
9 25 0.31
10 13 0.16
11 9 0.11
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (9 bp):
TATAATTAT
Found at i:615168 original size:19 final size:19
Alignment explanation
Indices: 615127--615179 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
615117 TATATTTAAG
615127 TTATTTATAATTA-TTATAT
1 TTATTT-TAATTATTTATAT
615146 TTATTTTAATTATTTAT-T
1 TTATTTTAATTATTTATAT
*
615164 ATTATTTTAATGATTT
1 -TTATTTTAATTATTT
615180 GAATTAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 7 0.23
19 24 0.77
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTATTTTAATTATTTATAT
Found at i:615179 original size:28 final size:28
Alignment explanation
Indices: 615121--615185 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 28
615111 CTATTATATA
* *
615121 TTTAAGTTATTTATAATTATTATATTTAT
1 TTTAA-TTATTTATAATTATTATAATGAT
* *
615150 TTTAATTATTTATTATTATTTTAATGAT
1 TTTAATTATTTATAATTATTATAATGAT
*
615178 TTGAATTA
1 TTTAATTA
615186 AATAATTATT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 26 0.84
29 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.62
Consensus pattern (28 bp):
TTTAATTATTTATAATTATTATAATGAT
Found at i:615436 original size:24 final size:24
Alignment explanation
Indices: 615409--615457 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
615399 TTTTAATGTG
615409 TTATAAATAATATATTA-TA-AATTA
1 TTAT-AATAATA-ATTATTACAATTA
615433 TTATAATAATAATTATTACAATTA
1 TTATAATAATAATTATTACAATTA
615457 T
1 T
615458 CTTAGTTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 4 0.17
23 9 0.39
24 10 0.43
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATAATAATAATTATTACAATTA
Found at i:615889 original size:20 final size:19
Alignment explanation
Indices: 615852--615900 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
615842 TTCTAACTAA
*
615852 TATATTATT-AATTATAATAT
1 TATAATATTAAATTAT-A-AT
615872 TATAATATTAAATT-TAAT
1 TATAATATTAAATTATAAT
615890 TATAA-ATTAAA
1 TATAATATTAAA
615901 ATTCTATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 6 0.22
18 7 0.26
19 1 0.04
20 9 0.33
21 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATAATATTAAATTATAAT
Found at i:616005 original size:21 final size:21
Alignment explanation
Indices: 615957--616005 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
615947 TTTATTATAC
* *
615957 AATTATAATTTAATATTTAAT
1 AATTATTATTTAATAGTTAAT
*
615978 AATTATTATTTTATAGTTAAT
1 AATTATTATTTAATAGTTAAT
615999 AATTATT
1 AATTATT
616006 TGATATAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
AATTATTATTTAATAGTTAAT
Found at i:616408 original size:11 final size:11
Alignment explanation
Indices: 616394--616435 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
616384 TAGATTATCA
616394 ATAATATAATT
1 ATAATATAATT
*
616405 ATAATATATTT
1 ATAATATAATT
* *
616416 ACAATATAAAT
1 ATAATATAATT
616427 ATAATATAA
1 ATAATATAA
616436 GGTAATTTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATATAATT
Found at i:616647 original size:13 final size:12
Alignment explanation
Indices: 616629--616694 Score: 73
Period size: 13 Copynumber: 5.4 Consensus size: 12
616619 CTTGTTAAAA
616629 TAATTAACATTAT
1 TAATTAA-ATTAT
*
616642 TAATT-AATTAA
1 TAATTAAATTAT
616653 TAATTAACATTAT
1 TAATTAA-ATTAT
*
616666 TAATT-AATTAA
1 TAATTAAATTAT
616677 TAATTAATATTAT
1 TAATTAA-ATTAT
616690 TAATT
1 TAATT
616695 GATAATTATG
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 18 0.40
12 4 0.09
13 23 0.51
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATTAAATTAT
Found at i:616649 original size:4 final size:4
Alignment explanation
Indices: 616640--616694 Score: 53
Period size: 4 Copynumber: 13.8 Consensus size: 4
616630 AATTAACATT
*
616640 ATTA ATTA ATTA A-TA ATTAA CATT- ATTA ATTA ATTA A-TA ATTA ATATT
1 ATTA ATTA ATTA ATTA ATT-A -ATTA ATTA ATTA ATTA ATTA ATTA AT-TA
616688 ATTA ATT
1 ATTA ATT
616695 GATAATTATG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
3 9 0.21
4 27 0.63
5 4 0.09
6 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:616654 original size:24 final size:24
Alignment explanation
Indices: 616627--616694 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
616617 AACTTGTTAA
616627 AATAATTAACATTATTAATTAATT
1 AATAATTAACATTATTAATTAATT
616651 AATAATTAACATTATTAATTAATT
1 AATAATTAACATTATTAATTAATT
*
616675 AATAATTAATATTATTAATT
1 AATAATTAACATTATTAATT
616695 GATAATTATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (24 bp):
AATAATTAACATTATTAATTAATT
Found at i:616669 original size:20 final size:22
Alignment explanation
Indices: 616627--616702 Score: 93
Period size: 24 Copynumber: 3.4 Consensus size: 22
616617 AACTTGTTAA
616627 AATAATTAACATTATTAATTAATT
1 AATAATTAAC--TATTAATTAATT
616651 AATAATTAACATTATTAATTAATT
1 AATAATTAAC--TATTAATTAATT
616675 AATAATTAA-TATT-ATTAATT
1 AATAATTAACTATTAATTAATT
*
616695 GATAATTA
1 AATAATTA
616703 TGATAATATA
Statistics
Matches: 51, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
20 14 0.27
21 4 0.08
24 33 0.65
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.46
Consensus pattern (22 bp):
AATAATTAACTATTAATTAATT
Found at i:616759 original size:22 final size:21
Alignment explanation
Indices: 616731--616797 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 21
616721 AATGTTTCCA
616731 TAATAATTTAATAATATAAAT
1 TAATAATTTAATAATATAAAT
* * *
616752 TAATTAATATACTAATAT---C
1 TAA-TAATTTAATAATATAAAT
*
616771 TAATAATTTAATATTATAAAT
1 TAATAATTTAATAATATAAAT
616792 T-ATAAT
1 TAATAAT
616798 AAACAATATC
Statistics
Matches: 35, Mismatches: 7, Indels: 9
0.69 0.14 0.18
Matches are distributed among these distances:
18 11 0.31
19 3 0.09
20 5 0.14
21 4 0.11
22 12 0.34
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATAATTTAATAATATAAAT
Found at i:616781 original size:40 final size:37
Alignment explanation
Indices: 616731--616816 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 37
616721 AATGTTTCCA
*
616731 TAATAATTTAATAATATAAATTAATTAATATACTAATATC
1 TAATAATTTAATAATATAAATT-A-TAATAAAC-AATATC
*
616771 TAATAATTTAATATTATAAATTATAATAAACAATATC
1 TAATAATTTAATAATATAAATTATAATAAACAATATC
*
616808 -AATTATTTA
1 TAATAATTTA
616817 TCATTAATTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
36 8 0.19
37 6 0.14
38 7 0.16
39 1 0.02
40 21 0.49
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (37 bp):
TAATAATTTAATAATATAAATTATAATAAACAATATC
Found at i:616865 original size:16 final size:16
Alignment explanation
Indices: 616803--616866 Score: 51
Period size: 16 Copynumber: 4.1 Consensus size: 16
616793 ATAATAAACA
*
616803 ATATCAATTATT-TAT
1 ATATAAATTATTATAT
* *
616818 CAT-TAATTTATGATAT
1 -ATATAAATTATTATAT
* * *
616834 ATATTAACTATCATAT
1 ATATAAATTATTATAT
616850 ATATAAATTATTATAT
1 ATATAAATTATTATAT
616866 A
1 A
616867 AAATTATAAG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
15 8 0.22
16 28 0.78
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATAAATTATTATAT
Found at i:617084 original size:14 final size:14
Alignment explanation
Indices: 617065--617092 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
617055 TAAATAATTA
617065 ATTATATAATATTT
1 ATTATATAATATTT
617079 ATTATATAATATTT
1 ATTATATAATATTT
617093 TAATAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
ATTATATAATATTT
Found at i:617767 original size:24 final size:24
Alignment explanation
Indices: 617722--617800 Score: 76
Period size: 24 Copynumber: 3.2 Consensus size: 24
617712 TAAGTAATTA
*
617722 AATTATTAATTAAT-AATGATTATT
1 AATTATT-ATTAATAAATTATTATT
617746 AATTATTATT-ATAAATATATTATT
1 AATTATTATTAATAAAT-TATTATT
617770 CAA-TA-TATTAATAAATTATATACTT
1 -AATTATTATTAATAAATTAT-TA-TT
617795 AATTAT
1 AATTAT
617801 AATTTAGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
22 2 0.04
23 13 0.28
24 25 0.54
25 6 0.13
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (24 bp):
AATTATTATTAATAAATTATTATT
Found at i:618149 original size:18 final size:18
Alignment explanation
Indices: 618126--618160 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
618116 GTCCAATTAA
618126 ATTATATAATAAATAATT
1 ATTATATAATAAATAATT
*
618144 ATTATATAATATATAAT
1 ATTATATAATAAATAAT
618161 ATACAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTATATAATAAATAATT
Found at i:618301 original size:18 final size:19
Alignment explanation
Indices: 618278--618313 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
618268 AATTATTATA
618278 ATAAATAGTAA-TAATATT
1 ATAAATAGTAACTAATATT
*
618296 ATAAATATTAACTAATAT
1 ATAAATAGTAACTAATAT
618314 ATGACTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
ATAAATAGTAACTAATATT
Found at i:619074 original size:22 final size:21
Alignment explanation
Indices: 619033--619075 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
619023 AATTTATTAG
**
619033 TAATTTATTAATAAGTAAAAT
1 TAATTTATTAATAACAAAAAT
619054 TAATATTATTAATAACAAAAAT
1 TAAT-TTATTAATAACAAAAAT
619076 ATTTGTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (21 bp):
TAATTTATTAATAACAAAAAT
Found at i:619801 original size:30 final size:27
Alignment explanation
Indices: 619758--619817 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
619748 TAATATCTAC
619758 TTATTATTATTAGTATACTAATAACAAT
1 TTATTATTATTAGTATACT-ATAACAAT
*
619786 TTATTAATATATTAGTATACTATAATAAT
1 TTATT-AT-TATTAGTATACTATAACAAT
619815 TTA
1 TTA
619818 ATAAATTATA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 5 0.17
29 12 0.41
30 12 0.41
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.48
Consensus pattern (27 bp):
TTATTATTATTAGTATACTATAACAAT
Found at i:620084 original size:13 final size:14
Alignment explanation
Indices: 620063--620125 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 14
620053 TATAAATAAA
620063 TTAATATTATTAAT
1 TTAATATTATTAAT
620077 TTAA-ATTATTAA-
1 TTAATATTATTAAT
620089 -T-ATATTAATTAA-
1 TTAATATT-ATTAAT
620101 -TAATATTATT-AT
1 TTAATATTATTAAT
* *
620113 TTGATAATATTAA
1 TTAATATTATTAA
620126 CTATAATAGT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
10 1 0.02
11 5 0.12
12 9 0.22
13 21 0.51
14 5 0.12
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TTAATATTATTAAT
Found at i:620119 original size:16 final size:16
Alignment explanation
Indices: 620061--620124 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
620051 AATATAAATA
*
620061 AATTAATATTATTAATTT
1 AATTAATAATATT-A-TT
*
620079 AAATTATTAATA-TATT
1 -AATTAATAATATTATT
620095 AATTAATAATATTATT
1 AATTAATAATATTATT
* *
620111 ATTTGATAATATTA
1 AATTAATAATATTA
620125 ACTATAATAG
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
15 10 0.26
16 18 0.46
17 1 0.03
18 1 0.03
19 9 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
AATTAATAATATTATT
Found at i:620282 original size:17 final size:18
Alignment explanation
Indices: 620262--620304 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
620252 TAATAATTAA
620262 TTATTATTAATTAAT-AT
1 TTATTATTAATTAATAAT
* *
620279 TTATAATTAATTTATAAT
1 TTATTATTAATTAATAAT
620297 TTA-TATTA
1 TTATTATTA
620305 TAAATTATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTATTAATTAATAAT
Found at i:621028 original size:19 final size:20
Alignment explanation
Indices: 621006--621054 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
620996 ACTTAATTAC
*
621006 AATATAATTAT-TTAATGTT
1 AATATAATTATATTAATATT
621025 -A-ATAATTATATTAATATT
1 AATATAATTATATTAATATT
621043 AATA-AATTATAT
1 AATATAATTATAT
621055 ATTAATTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 9 0.35
20 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
AATATAATTATATTAATATT
Found at i:621082 original size:18 final size:18
Alignment explanation
Indices: 621026--621104 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
621016 TTTAATGTTA
*
621026 ATAATTATATTAATATTAAT
1 ATAATT-TA-TAATAATAAT
*
621046 A-AA-TTAT-ATATTAATT
1 ATAATTTATAATAATAA-T
*
621062 ATAATTTATAATAATTAT
1 ATAATTTATAATAATAAT
* * *
621080 ATACTATATTATAATAAT
1 ATAATTTATAATAATAAT
621098 ATAATTT
1 ATAATTT
621105 TCCTCAACCT
Statistics
Matches: 47, Mismatches: 8, Indels: 10
0.72 0.12 0.15
Matches are distributed among these distances:
15 7 0.15
16 3 0.06
17 4 0.09
18 25 0.53
19 7 0.15
20 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (18 bp):
ATAATTTATAATAATAAT
Found at i:621446 original size:21 final size:22
Alignment explanation
Indices: 621420--621474 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
621410 ATTTATAACA
621420 AACAATAATTTATGATA-TTCAT
1 AACAATAATTTATGATACTT-AT
* *
621442 -GCAAT-ATTTATTATACTTAT
1 AACAATAATTTATGATACTTAT
621462 AACAATAATTTAT
1 AACAATAATTTAT
621475 ATAATAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 11 0.41
21 10 0.37
22 6 0.22
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.44
Consensus pattern (22 bp):
AACAATAATTTATGATACTTAT
Found at i:621477 original size:21 final size:21
Alignment explanation
Indices: 621420--621477 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
621410 ATTTATAACA
621420 AACAATAATTTATGATATTCAT
1 AACAATAATTTAT-ATATTCAT
*
621442 -GCAAT-ATTTATTATACTT-AT
1 AACAATAATTTA-TATA-TTCAT
621462 AACAATAATTTATATA
1 AACAATAATTTATATA
621478 ATAAACTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 10 0.33
21 15 0.50
22 5 0.17
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (21 bp):
AACAATAATTTATATATTCAT
Found at i:621637 original size:13 final size:14
Alignment explanation
Indices: 621618--621656 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
621608 GTATATTAGT
621618 TTTAATATTTAAAA
1 TTTAATATTTAAAA
621632 -TTAATATTTAAAA
1 TTTAATATTTAAAA
621645 TTTAAATATTTA
1 TTT-AATATTTA
621657 TATTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 13 0.57
14 2 0.09
15 8 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TTTAATATTTAAAA
Found at i:622629 original size:23 final size:25
Alignment explanation
Indices: 622581--622630 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
622571 TTAATTAAAA
*
622581 TATAAATATTTAATTAAATTATTAT
1 TATAAATACTTAATTAAATTATTAT
*
622606 TATAAATACTT-A-TAATTTATTAT
1 TATAAATACTTAATTAAATTATTAT
622629 TA
1 TA
622631 ATTATCTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 1 0.04
25 10 0.43
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATAAATACTTAATTAAATTATTAT
Found at i:623565 original size:167 final size:167
Alignment explanation
Indices: 623289--623623 Score: 406
Period size: 167 Copynumber: 2.0 Consensus size: 167
623279 TTATATGACC
* * *
623289 AAACAAAAGGTAATATTGATTTCAAATAGATAATTGTTGAAATAGCCATAATTATTTGAACAAAT
1 AAACAAAAGGTAATAATGATTTCAAATAGATAATTGTTCAAATAGCCATAACTATTTGAACAAAT
** * *
623354 TTGGCAAACATAATTATTTTTTAAATCACTTACTTATTAATTTTTGGAATATTAATAAATTACTA
66 TCAGCAAACATAATTATTTTTTAAATCACTTACTTATTAATTTTTGAAATATTAAGAAATTACTA
* *
623419 TTATTTTATTTCAAATAAGCTTGTATGAACTGAAACA
131 GTATTTTATTTCAAATAAGCTTGTATGAAATGAAACA
* * ****
623456 AAACAAAAGGTCATAATGATTTTC-AATAGATAATTGTTCAAATAGTCATAACTATTTGAATTTG
1 AAACAAAAGGTAATAATGA-TTTCAAATAGATAATTGTTCAAATAGCCATAACTATTTGAACAAA
* * *
623520 TTCAGTAAACA-AATTAATTTTTTTAAA-CTCTTGCTTATTAATTTTTGAAATATTAAGAAATTA
65 TTCAGCAAACATAATT-A-TTTTTTAAATCACTTACTTATTAATTTTTGAAATATTAAGAAATTA
* *** * *
623583 GTAGTATTTTATTTTGGATAAGCTTTTATGAAATGACACA
128 CTAGTATTTTATTTCAAATAAGCTTGTATGAAATGAAACA
623623 A
1 A
623624 TTGTTTTTTG
Statistics
Matches: 141, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
166 4 0.03
167 124 0.88
168 13 0.09
ACGTcount: A:0.41, C:0.09, G:0.10, T:0.40
Consensus pattern (167 bp):
AAACAAAAGGTAATAATGATTTCAAATAGATAATTGTTCAAATAGCCATAACTATTTGAACAAAT
TCAGCAAACATAATTATTTTTTAAATCACTTACTTATTAATTTTTGAAATATTAAGAAATTACTA
GTATTTTATTTCAAATAAGCTTGTATGAAATGAAACA
Found at i:623882 original size:23 final size:24
Alignment explanation
Indices: 623855--623900 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
623845 CTAATCTTTT
623855 AAATT-ATAAATAA-TTTAAATAAA
1 AAATTAAT-AATAATTTTAAATAAA
623878 AAATTAATAATAATTTTAAATAA
1 AAATTAATAATAATTTTAAATAA
623901 TTAATTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
AAATTAATAATAATTTTAAATAAA
Found at i:623906 original size:24 final size:23
Alignment explanation
Indices: 623855--623913 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
623845 CTAATCTTTT
623855 AAATTATA-AATAATTTAAATAAA
1 AAATTA-ACAATAATTTAAATAAA
* *
623878 AAATTAATAATAATTTTAAATAAT
1 AAATTAACAATAA-TTTAAATAAA
*
623902 TAATTAACAATA
1 AAATTAACAATA
623914 GATATTTATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
22 1 0.03
23 11 0.35
24 19 0.61
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATTAACAATAATTTAAATAAA
Found at i:623990 original size:19 final size:19
Alignment explanation
Indices: 623951--623993 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
623941 ATTTATTTGG
623951 TAAT-AAATATAATTACTAA
1 TAATAAAATATAATTAC-AA
623970 TAATAAAATATAATCTA-AA
1 TAATAAAATATAAT-TACAA
623989 TAATA
1 TAATA
623994 TTTAATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.50
20 9 0.41
21 2 0.09
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAATAAAATATAATTACAA
Found at i:624052 original size:26 final size:27
Alignment explanation
Indices: 623985--624052 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 27
623975 AAATATAATC
623985 TAAATAATATT-TAATTATATAAATAT
1 TAAATAATATTATAATTATATAAATAT
624011 TAAAT-ATAATTA-AATTAT-T-AAT-T
1 TAAATAAT-ATTATAATTATATAAATAT
624034 TCAAATAATATTTATAATT
1 T-AAATAATA-TTATAATT
624053 TAAACTTATA
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
23 2 0.06
24 8 0.22
25 8 0.22
26 18 0.50
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
TAAATAATATTATAATTATATAAATAT
Found at i:624582 original size:26 final size:26
Alignment explanation
Indices: 624553--624655 Score: 63
Period size: 27 Copynumber: 3.9 Consensus size: 26
624543 GTATAAATCA
624553 TATTAATTATATTATTAATATT-TAT
1 TATTAATTATATTATTAATATTATAT
* *
624578 GTATTGTAATTATAAT-TTAAAATTATAT
1 -TA-T-TAATTATATTATTAATATTATAT
* *
624606 AATTAATATACTATTATTAAT-TAATA-
1 TATTAAT-TA-TATTATTAATATTATAT
*
624632 T-TTAATTATAATATTTAAATATTA
1 TATTAATTATATTA-TT-AATATTA
624656 GAATTGTTTA
Statistics
Matches: 59, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
23 4 0.07
24 4 0.07
25 12 0.20
26 7 0.12
27 16 0.27
28 16 0.27
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (26 bp):
TATTAATTATATTATTAATATTATAT
Found at i:624639 original size:18 final size:20
Alignment explanation
Indices: 624598--624641 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
624588 TATAATTTAA
624598 AATTATATAATTAATATACT
1 AATTATATAATTAATATACT
*
624618 -ATTAT-TAATTAATAT-TT
1 AATTATATAATTAATATACT
624635 AATTATA
1 AATTATA
624642 ATATTTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
17 1 0.05
18 15 0.71
19 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (20 bp):
AATTATATAATTAATATACT
Found at i:624864 original size:12 final size:13
Alignment explanation
Indices: 624839--624868 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
624829 TATTATTAAT
624839 ATTATCTAATATA
1 ATTATCTAATATA
624852 ATTATCT-ATATA
1 ATTATCTAATATA
624864 ATTAT
1 ATTAT
624869 AAATAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.59
13 7 0.41
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATCTAATATA
Found at i:625351 original size:27 final size:27
Alignment explanation
Indices: 625321--625408 Score: 74
Period size: 27 Copynumber: 3.3 Consensus size: 27
625311 ATTTAGATAT
625321 TAAATATTATTAATAATTATATTATTA
1 TAAATATTATTAATAATTATATTATTA
* *
625348 TAAAT-TAATAAAATAATTA-ATATATTA
1 TAAATATTAT-TAATAATTATAT-TATTA
* * * *
625375 TAATAAATTGTT-ATTATTATAATATTA
1 TAA-ATATTATTAATAATTATATTATTA
625402 TAAATAT
1 TAAATAT
625409 AACATTATAT
Statistics
Matches: 47, Mismatches: 9, Indels: 11
0.70 0.13 0.16
Matches are distributed among these distances:
26 8 0.17
27 35 0.74
28 2 0.04
29 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (27 bp):
TAAATATTATTAATAATTATATTATTA
Found at i:626244 original size:9 final size:9
Alignment explanation
Indices: 626230--626378 Score: 55
Period size: 9 Copynumber: 16.0 Consensus size: 9
626220 TTATTTAAAA
626230 TAATTATAT
1 TAATTATAT
626239 TAATTATAT
1 TAATTATAT
*
626248 T-ATAAATAT
1 TAAT-TATAT
626257 TAATTATTATTT
1 TAATTA-TA--T
626269 GTAATTATAT
1 -TAATTATAT
626279 TAGA-T-TAT
1 TA-ATTATAT
*
626287 TAGAATATAAT
1 TA-ATTAT-AT
*
626298 TTA-TAGTAT
1 TAATTA-TAT
626307 TAATTATAT
1 TAATTATAT
*
626316 TATATATTTAT
1 TA-AT-TATAT
626327 T-ATTATAT
1 TAATTATAT
*
626335 TATTTGA-AT
1 TAATT-ATAT
626344 T-ATTA-AT
1 TAATTATAT
626351 ATAATTATAAT
1 -TAATTAT-AT
*
626362 TAATTATAA
1 TAATTATAT
626371 T-ATTATAT
1 TAATTATAT
626379 AACTATTAAT
Statistics
Matches: 110, Mismatches: 10, Indels: 41
0.68 0.06 0.25
Matches are distributed among these distances:
7 3 0.03
8 23 0.21
9 44 0.40
10 21 0.19
11 10 0.09
12 3 0.03
13 6 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (9 bp):
TAATTATAT
Found at i:626280 original size:18 final size:19
Alignment explanation
Indices: 626229--626338 Score: 68
Period size: 19 Copynumber: 5.7 Consensus size: 19
626219 TTTATTTAAA
626229 ATAATTATATTAATTATATT
1 ATAATTATATT-ATTATATT
*
626249 ATAAATATTAATTATTAT-TT
1 ATAATTA-T-ATTATTATATT
* *
626269 GTAATTATATTA-GATTATT
1 ATAATTATATTATTA-TATT
* * *
626288 AGAA-TATAAT-TTATAGT
1 ATAATTATATTATTATATT
626305 ATTAATTATATTA-TATATTT
1 A-TAATTATATTATTATA-TT
*
626325 ATTATTATATTATT
1 ATAATTATATTATT
626339 TGAATTATTA
Statistics
Matches: 67, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
17 5 0.07
18 13 0.19
19 24 0.36
20 16 0.24
21 6 0.09
22 3 0.04
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (19 bp):
ATAATTATATTATTATATT
Found at i:626328 original size:16 final size:17
Alignment explanation
Indices: 626236--626329 Score: 56
Period size: 16 Copynumber: 5.6 Consensus size: 17
626226 AAAATAATTA
*
626236 TATTAATTATATTATAAA
1 TATTAATTATATTAT-AG
626254 TATTAA-T-TATTAT--
1 TATTAATTATATTATAG
* *
626267 T-TGTAATTATATTAGAT
1 TAT-TAATTATATTATAG
*
626284 TATTAGAATATAATTTATAG
1 TATTA-ATTAT-A-TTATAG
626304 TATTAATTATATTATA-
1 TATTAATTATATTATAG
*
626320 TATTTATTAT
1 TATTAATTAT
626330 TATATTATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
12 1 0.02
13 4 0.07
14 1 0.02
15 5 0.08
16 15 0.25
17 9 0.15
18 12 0.20
19 5 0.08
20 9 0.15
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (17 bp):
TATTAATTATATTATAG
Found at i:626333 original size:12 final size:13
Alignment explanation
Indices: 626232--626378 Score: 64
Period size: 12 Copynumber: 11.5 Consensus size: 13
626222 ATTTAAAATA
626232 ATTATATTAATTAT
1 ATTATATT-ATTAT
*
626246 ATTATAAATATTA-
1 ATTAT-ATTATTAT
626259 ATTATTATT-TGTA-
1 ATTA-TATTAT-TAT
*
626272 ATTATATTA-GATT
1 ATTATATTATTA-T
* * *
626285 ATTAGAATATAAT
1 ATTATATTATTAT
*
626298 -TTATAGTATTA-
1 ATTATATTATTAT
626309 ATTATATTA-TAT
1 ATTATATTATTAT
626321 ATT-TATTATTAT
1 ATTATATTATTAT
626333 ATTAT-TTGAATTAT
1 ATTATATT--ATTAT
* *
626347 -TAATATAATTAT
1 ATTATATTATTAT
*
626359 AATTA-ATTATAAT
1 -ATTATATTATTAT
626372 ATTATAT
1 ATTATAT
626379 AACTATTAAT
Statistics
Matches: 101, Mismatches: 15, Indels: 35
0.67 0.10 0.23
Matches are distributed among these distances:
11 8 0.08
12 40 0.40
13 32 0.32
14 19 0.19
15 2 0.02
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (13 bp):
ATTATATTATTAT
Found at i:626366 original size:68 final size:67
Alignment explanation
Indices: 626235--626375 Score: 162
Period size: 68 Copynumber: 2.1 Consensus size: 67
626225 TAAAATAATT
* *
626235 ATATTAATTATATTATAAATATTAATTATTATTTGTAATTATATTAGATTATTAGAATATAATTT
1 ATATTAATTATATTATAAATATTAATTATTATTTGTAATTATATAAGATAATTAGAATATAA-TT
626300 ATA
65 ATA
* * * * *
626303 GTATTAATTATATTATATATTTATTATTATATTATTTG-AATTAT-TAATATAATTATAAT-TAA
1 ATATTAATTATATTATA-A-ATATTAAT-TATTATTTGTAATTATATAAGATAATTAGAATATAA
626365 TTATA
63 TTATA
626370 ATATTA
1 ATATTA
626376 TATAACTATT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
67 10 0.16
68 19 0.31
69 12 0.19
70 12 0.19
71 9 0.15
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (67 bp):
ATATTAATTATATTATAAATATTAATTATTATTTGTAATTATATAAGATAATTAGAATATAATTA
TA
Found at i:626367 original size:10 final size:11
Alignment explanation
Indices: 626341--626373 Score: 50
Period size: 10 Copynumber: 3.0 Consensus size: 11
626331 ATATTATTTG
626341 AATTATTAATAT
1 AATTA-TAATAT
626353 AATTATAAT-T
1 AATTATAATAT
626363 AATTATAATAT
1 AATTATAATAT
626374 TATATAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.50
11 5 0.25
12 5 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
AATTATAATAT
Found at i:627059 original size:16 final size:15
Alignment explanation
Indices: 627030--627064 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
627020 ATTATTCACA
627030 TATACATTTAATTAT
1 TATACATTTAATTAT
*
627045 TATACTATTTGATTAT
1 TATAC-ATTTAATTAT
627061 TATA
1 TATA
627065 AAATTATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (15 bp):
TATACATTTAATTAT
Found at i:627234 original size:17 final size:18
Alignment explanation
Indices: 627202--627235 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
627192 AAATTAATAT
627202 AATAATTTAATCTATTAA
1 AATAATTTAATCTATTAA
*
627220 AATAA-TTAATTTATTA
1 AATAATTTAATCTATTA
627236 TAACTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
AATAATTTAATCTATTAA
Found at i:627678 original size:21 final size:21
Alignment explanation
Indices: 627654--627700 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
627644 AACTTATTTG
627654 TTATTATTAATAATTTAATAA
1 TTATTATTAATAATTTAATAA
* * * *
627675 TTATTGTTAGTTATTTGATAA
1 TTATTATTAATAATTTAATAA
627696 TTATT
1 TTATT
627701 CAAATATTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.57
Consensus pattern (21 bp):
TTATTATTAATAATTTAATAA
Found at i:628045 original size:16 final size:16
Alignment explanation
Indices: 628024--628058 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
628014 ATTTACAATA
* *
628024 ATTAATATATTAGTTT
1 ATTAATAGATTAATTT
628040 ATTAATAGATTAATTT
1 ATTAATAGATTAATTT
628056 ATT
1 ATT
628059 GCATTAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
ATTAATAGATTAATTT
Found at i:629696 original size:180 final size:180
Alignment explanation
Indices: 629381--629826 Score: 522
Period size: 180 Copynumber: 2.5 Consensus size: 180
629371 AACTTGTATA
* * * * *
629381 AATAGAAACAATTGTTTTATAATAAAACAAAAGATCATAATGATTTGAAATAAATAATTATTCAA
1 AATAGAAACAATTGTTTTATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATTATTCAA
* * * * *
629446 ACAATCATAACTATTTGAACTCACTCGATAAACAAATTTATTTTTTAAATCTTTTACTTATTAAT
66 ATAGTCATAACTATTTGAACTCACTCGATAAACAAATTTATTTTCTAAATATTATACTTATTAAT
* * **
629511 TTTGGAATATTAATTAATTAAAATTATTTTATTCCAAATAAGCTTGTTTC
131 TTTGGAATATTAATAAATTAAAATTATTTTATTCAAAATAAGCTTGCATC
* *
629561 AATAGAAACAATTGGTTTATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATTGTTCAA
1 AATAGAAACAATTGTTTTATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATTATTCAA
*** ****
629626 ATAGTCATAACTATTTGAA-TGTGTTCAGA-AAATTGCTTTATTTTCTAAA-ATTATACTTATTA
66 ATAGTCATAACTATTTGAACT-CACTC-GATAAACAAATTTATTTTCTAAATATTATACTTATTA
* * * * *
629688 ATTTTTGGAATATTTATAAATTTATATTATTTTATTCAAAATACGCTTGCATG
129 A-TTTTGGAATATTAATAAATTAAAATTATTTTATTCAAAATAAGCTTGCATC
* * * *
629741 AACAGAACCAATTGTTTTATGACAAAACAAAAT-GTCATAATGTTTTGAAATAGATAATTATTTA
1 AATAGAAACAATTGTTTTATGACAAAAC-AAATGGTCATAATGATTTGAAATAGATAATTATTCA
* *
629805 GATAGTCATAACTATTTCAACT
65 AATAGTCATAACTATTTGAACT
629827 TGATCGATAA
Statistics
Matches: 225, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
179 13 0.06
180 205 0.91
181 7 0.03
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (180 bp):
AATAGAAACAATTGTTTTATGACAAAACAAATGGTCATAATGATTTGAAATAGATAATTATTCAA
ATAGTCATAACTATTTGAACTCACTCGATAAACAAATTTATTTTCTAAATATTATACTTATTAAT
TTTGGAATATTAATAAATTAAAATTATTTTATTCAAAATAAGCTTGCATC
Found at i:630213 original size:16 final size:15
Alignment explanation
Indices: 630174--630226 Score: 52
Period size: 18 Copynumber: 3.3 Consensus size: 15
630164 ATTATTTAAA
*
630174 TTATATAAATATTAAT
1 TTATATAAATA-AAAT
*
630190 TTAAATATAAATTAATAT
1 TT--ATATAAA-TAAAAT
630208 TTATATAAATAAAAT
1 TTATATAAATAAAAT
630223 TTAT
1 TTAT
630227 CTTATATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 9 0.29
16 9 0.29
18 11 0.35
19 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATATAAATAAAAT
Found at i:630216 original size:22 final size:22
Alignment explanation
Indices: 630181--630257 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
630171 AAATTATATA
* *
630181 AATATTAATTTAAATATAAATT
1 AATATTTATATAAATATAAATT
630203 AATATTTATATAAATA-AAATT
1 AATATTTATATAAATATAAATT
*
630224 --TATCTTATATAATTAATTAAATT
1 AATAT-TTATATAAAT-A-TAAATT
*
630247 AATAATTATAT
1 AATATTTATAT
630258 TTATATAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
19 3 0.07
20 9 0.20
21 6 0.13
22 14 0.31
23 5 0.11
24 6 0.13
25 2 0.04
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (22 bp):
AATATTTATATAAATATAAATT
Found at i:630264 original size:30 final size:28
Alignment explanation
Indices: 630213--630269 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 28
630203 AATATTTATA
630213 TAAATAAAATTTATCTTATATAATTAAT
1 TAAATAAAATTTATCTTATATAATTAAT
630241 TAAATTAATAATTATAT-TTATATAATTAA
1 TAAA-TAA-AATT-TATCTTATATAATTAA
630270 ATACTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 4 0.15
29 3 0.12
30 16 0.62
31 3 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
TAAATAAAATTTATCTTATATAATTAAT
Found at i:630308 original size:48 final size:49
Alignment explanation
Indices: 630202--630314 Score: 124
Period size: 48 Copynumber: 2.3 Consensus size: 49
630192 AAATATAAAT
* * *
630202 TAATATTTATATAAATAAAATTTATCTTATATAATTAATTAAATTAATAA
1 TAATATTTATATAATTAAAACTTATCTTATAT-ATTAATAAAATTAATAA
* * *
630252 TTATATTTATATAATTAAATACTTAT-TTA-AT-TTAATAACAATTATTAC
1 TAATATTTATATAATTAAA-ACTTATCTTATATATTAATAA-AATTAATAA
630300 TAATATTTATATAAT
1 TAATATTTATATAAT
630315 ATTTAATAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
47 6 0.11
48 21 0.39
49 2 0.04
50 20 0.37
51 5 0.09
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.49
Consensus pattern (49 bp):
TAATATTTATATAATTAAAACTTATCTTATATATTAATAAAATTAATAA
Found at i:630564 original size:14 final size:15
Alignment explanation
Indices: 630526--630581 Score: 55
Period size: 14 Copynumber: 3.8 Consensus size: 15
630516 GACTAGAATA
*
630526 ATATAA-TATATTATG
1 ATATAATTA-ATTATT
630541 ATAATAATTAATTATT
1 AT-ATAATTAATTATT
630557 AT-TAATTAA-TATT
1 ATATAATTAATTATT
*
630570 TTATAATTAATT
1 ATATAATTAATT
630582 TATAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
13 5 0.14
14 14 0.40
15 3 0.09
16 11 0.31
17 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATATAATTAATTATT
Found at i:630573 original size:18 final size:19
Alignment explanation
Indices: 630542--630602 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
630532 TATATTATGA
630542 TAATAATTAATTATTATTAAT
1 TAATAATT--TTATTATTAAT
*
630563 TAAT-ATTTTATAATTAAT
1 TAATAATTTTATTATTAAT
* *
630581 TTATAATTTATATTATAAAT
1 TAATAATTT-TATTATTAAT
630601 TA
1 TA
630603 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 13 0.39
19 4 0.12
20 12 0.36
21 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (19 bp):
TAATAATTTTATTATTAAT
Found at i:630621 original size:28 final size:26
Alignment explanation
Indices: 630589--630641 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
630579 ATTTATAATT
630589 TATATTATAAATTATTAAATAAATATAG
1 TATATTATAAATTATT-AAT-AATATAG
* *
630617 TATATTATGATTTATTAATAATATA
1 TATATTATAAATTATTAATAATATA
630642 ATTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.26
27 3 0.13
28 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (26 bp):
TATATTATAAATTATTAATAATATAG
Found at i:630680 original size:16 final size:17
Alignment explanation
Indices: 630638--630684 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
630628 TTATTAATAA
630638 TATAATTAA-AA-TA-T
1 TATAATTAATAATTAGT
630652 T-TAATTAATAATTAGT
1 TATAATTAATAATTAGT
630668 TATAATT-ATAATTAGT
1 TATAATTAATAATTAGT
630684 T
1 T
630685 TTATGAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.24
14 3 0.10
15 2 0.07
16 12 0.41
17 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
TATAATTAATAATTAGT
Found at i:630770 original size:19 final size:20
Alignment explanation
Indices: 630727--630770 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
630717 TATACTAGAA
* *
630727 TATACATTATTTGAATAGTT
1 TATAAATTATTAGAATAGTT
*
630747 TATAAATTATTAGATTAG-T
1 TATAAATTATTAGAATAGTT
630766 TATAA
1 TATAA
630771 TCGATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (20 bp):
TATAAATTATTAGAATAGTT
Found at i:631305 original size:19 final size:19
Alignment explanation
Indices: 631281--631319 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
631271 GCCTTTCCAA
631281 TTAAA-TATTTATATTATAT
1 TTAAATTATTTATA-TATAT
*
631300 TTAAATTATTTTTATATAT
1 TTAAATTATTTATATATAT
631319 T
1 T
631320 AATTAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAAATTATTTATATATAT
Found at i:631337 original size:17 final size:17
Alignment explanation
Indices: 631317--631389 Score: 55
Period size: 17 Copynumber: 4.4 Consensus size: 17
631307 ATTTTTATAT
631317 ATTAATTAATTTAAATA
1 ATTAATTAATTTAAATA
*
631334 ATTAA-TAA-TGAATATTA
1 ATTAATTAATTTAA-A-TA
*
631351 ATT-ATTAAGTTCAAATA
1 ATTAATTAA-TTTAAATA
* *
631368 TTTAATTAATATAAA-A
1 ATTAATTAATTTAAATA
631384 ATTAAT
1 ATTAAT
631390 ATTAATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
15 3 0.07
16 11 0.25
17 21 0.48
18 6 0.14
19 3 0.07
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (17 bp):
ATTAATTAATTTAAATA
Found at i:632605 original size:15 final size:15
Alignment explanation
Indices: 632585--632616 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
632575 AATATATCAA
*
632585 TATTCATTAATTAAT
1 TATTCATTAAATAAT
632600 TATTCATTAAATAAT
1 TATTCATTAAATAAT
632615 TA
1 TA
632617 AAATTATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTCATTAAATAAT
Found at i:633110 original size:22 final size:22
Alignment explanation
Indices: 633082--633162 Score: 76
Period size: 22 Copynumber: 3.7 Consensus size: 22
633072 TATAGTTAAT
633082 AATTTAATAAATTAAATTATTA
1 AATTTAATAAATTAAATTATTA
* * *
633104 AATTTAACAATTTATA-TATTA
1 AATTTAATAAATTAAATTATTA
* *
633125 TATTATAATAATTTAAATATATTA
1 AATT-TAATAAATTAAAT-TATTA
*
633149 TATTT-ATAAATTAA
1 AATTTAATAAATTAA
633163 TATAATATTT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
21 8 0.16
22 31 0.63
23 1 0.02
24 9 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTTAATAAATTAAATTATTA
Found at i:633169 original size:35 final size:36
Alignment explanation
Indices: 633113--633181 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
633103 AAATTTAACA
*
633113 ATTTATATATTATATTATAATAATTTA-AATATATTAT
1 ATTTATAAATTATATTATAAT-ATTTATAAT-TATTAT
633150 ATTTATAAATTA-A-TATAATATTTATAATTATT
1 ATTTATAAATTATATTATAATATTTATAATTATT
633182 TAATTTTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 9 0.30
35 9 0.30
36 1 0.03
37 11 0.37
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (36 bp):
ATTTATAAATTATATTATAATATTTATAATTATTAT
Found at i:634067 original size:12 final size:11
Alignment explanation
Indices: 634049--634105 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 11
634039 ATTTAATTGT
634049 AATTATTATTA
1 AATTATTATTA
634060 AGATTATTATATA
1 A-ATTATTAT-TA
*
634073 AATTAATATTA
1 AATTATTATTA
*
634084 ATATAATTATTATA
1 A-ATTATTA-T-TA
634098 AATTATTA
1 AATTATTA
634106 ACAAATTGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
11 4 0.11
12 20 0.54
13 10 0.27
14 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (11 bp):
AATTATTATTA
Found at i:634085 original size:40 final size:37
Alignment explanation
Indices: 634002--634105 Score: 113
Period size: 40 Copynumber: 2.7 Consensus size: 37
633992 GTATAACATA
*
634002 TTAATATAA-TATTATTAATTATTATTATGTAATTAATAT
1 TTAATATAATTATTA-TAA--ATTATTATATAATTAATAT
*
634041 TTAATTGTAATTATTATTAAGATTATTATATAAATTAATA-
1 TTAA-TATAATTATTA-TAA-ATTATTATAT-AATTAATAT
634081 TTAATATAATTATTATAAATTATTA
1 TTAATATAATTATTATAAATTATTA
634106 ACAAATTGTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
37 7 0.12
38 3 0.05
39 14 0.24
40 17 0.29
41 17 0.29
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (37 bp):
TTAATATAATTATTATAAATTATTATATAATTAATAT
Found at i:634095 original size:18 final size:17
Alignment explanation
Indices: 634008--634095 Score: 60
Period size: 18 Copynumber: 5.1 Consensus size: 17
633998 CATATTAATA
634008 TAATATT-ATTAATTAT
1 TAATATTAATTAATTAT
*
634024 TATTATGTAATTAA-TATT
1 TAATAT-TAATTAATTA-T
634042 TAAT-TGTAATT-ATTAT
1 TAATAT-TAATTAATTAT
* *
634058 TAAGATT-ATTATATAAAT
1 TAATATTAATTA-AT-TAT
634076 TAATATTAATATAATTAT
1 TAATATTAAT-TAATTAT
634094 TA
1 TA
634096 TAAATTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 18
0.70 0.08 0.22
Matches are distributed among these distances:
15 3 0.05
16 11 0.20
17 15 0.27
18 21 0.38
19 4 0.07
20 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TAATATTAATTAATTAT
Found at i:634122 original size:39 final size:39
Alignment explanation
Indices: 633999--634112 Score: 121
Period size: 41 Copynumber: 3.0 Consensus size: 39
633989 TATGTATAAC
* **
633999 ATATTAATATAA-TATTATTAATTATTATTAT-GTAATTA
1 ATATTAATATAATTATTATTAA-GATTATTATACAAATTA
* *
634037 ATATTTAATTGTAATTATTATTAAGATTATTATATAAATTA
1 ATA-TTAA-TATAATTATTATTAAGATTATTATACAAATTA
634078 ATATTAATATAATTATTA-TAA-ATTATTA-ACAAATT
1 ATATTAATATAATTATTATTAAGATTATTATACAAATT
634113 GTAACTATTA
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
36 6 0.09
37 7 0.11
38 6 0.09
39 14 0.21
40 16 0.24
41 17 0.26
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (39 bp):
ATATTAATATAATTATTATTAAGATTATTATACAAATTA
Found at i:634245 original size:22 final size:22
Alignment explanation
Indices: 634220--634285 Score: 59
Period size: 25 Copynumber: 3.0 Consensus size: 22
634210 TAAATATAAT
634220 ATTAATTTAATAAT-ATTAGAAA
1 ATTAATTTAATAATAATTA-AAA
634242 ATTAATAATTTAATAATAATTAAAA
1 A-T--TAATTTAATAATAATTAAAA
634267 ATT-A-TTAACT-ATAATTAAA
1 ATTAATTTAA-TAATAATTAAA
634286 TATGTATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 13 0.33
21 2 0.05
22 2 0.05
23 1 0.03
24 1 0.03
25 16 0.41
26 4 0.10
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTAATTTAATAATAATTAAAA
Found at i:634253 original size:25 final size:25
Alignment explanation
Indices: 634222--634270 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
634212 AATATAATAT
634222 TAATTTAATAAT-ATTAGAAAATTAA
1 TAATTTAATAATAATTA-AAAATTAA
634247 TAATTTAATAATAATTAAAAATTA
1 TAATTTAATAATAATTAAAAATTA
634271 TTAACTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (25 bp):
TAATTTAATAATAATTAAAAATTAA
Found at i:634561 original size:39 final size:39
Alignment explanation
Indices: 634505--634581 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
634495 TAACATAATT
* *
634505 AATAACTTAATTATTAATATTTATTAT-AATTTATATGG
1 AATAACTTAATTATTAATAATTATTATAAATTCATATGG
634543 AATAA-TTATATTATTTAATAATTATTATAAATTCATATG
1 AATAACTTA-ATTA-TTAATAATTATTATAAATTCATATG
634582 AACTATATCC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 3 0.09
38 9 0.26
39 13 0.38
40 9 0.26
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (39 bp):
AATAACTTAATTATTAATAATTATTATAAATTCATATGG
Found at i:635385 original size:31 final size:32
Alignment explanation
Indices: 635341--635482 Score: 109
Period size: 31 Copynumber: 4.5 Consensus size: 32
635331 TATTTGCAAA
* *
635341 ATAATTACAAATTTGTAAT-TATATTATATAT
1 ATAATTATAAATTTATAATATATATTATATAT
* *
635372 ATAATTATTAATTTAT-ATAAATATTA-AT-T
1 ATAATTATAAATTTATAATATATATTATATAT
* *
635401 ATAATTATAAATATTTTAATAATAAATTATATACT
1 ATAATTATAAAT-TTATAAT-ATATATTATATA-T
* *
635436 ATAATTAT-ATTATTATAATAT-TATAATATAT
1 ATAATTATAAAT-TTATAATATATATTATATAT
*
635467 -TATATAATAAATTTAT
1 ATA-ATTATAAATTTAT
635483 TTTTTAAATC
Statistics
Matches: 88, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
29 12 0.14
30 9 0.10
31 30 0.34
32 15 0.17
33 4 0.05
34 9 0.10
35 9 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (32 bp):
ATAATTATAAATTTATAATATATATTATATAT
Found at i:635390 original size:16 final size:16
Alignment explanation
Indices: 635369--635415 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
635359 TTATATTATA
*
635369 TATATAATTATTAATT
1 TATATAAATATTAATT
635385 TATATAAATATTAATT
1 TATATAAATATTAATT
635401 ATAATTATAAATATT
1 -T-A-TATAAATATT
635416 TTAATAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.56
17 1 0.04
18 1 0.04
19 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATAAATATTAATT
Found at i:635443 original size:13 final size:13
Alignment explanation
Indices: 635363--635479 Score: 72
Period size: 12 Copynumber: 9.2 Consensus size: 13
635353 TTGTAATTAT
635363 ATTATAT-ATATA
1 ATTATATAATATA
*
635375 ATTAT-TAATTTA
1 ATTATATAATATA
*
635387 TATAAATATTAATTATA
1 -AT-TATA-TAA-TATA
635404 ATTATA-AATAT-
1 ATTATATAATATA
*
635415 TTTA-ATAATA-A
1 ATTATATAATATA
*
635426 ATTATATACTATA
1 ATTATATAATATA
*
635439 ATTATATTATTATA
1 ATTATA-TAATATA
635453 A-TATTATAATAT-
1 ATTA-TATAATATA
635465 ATTATATAATA-A
1 ATTATATAATATA
635477 ATT
1 ATT
635480 TATTTTTTAA
Statistics
Matches: 82, Mismatches: 9, Indels: 28
0.69 0.08 0.24
Matches are distributed among these distances:
10 1 0.01
11 11 0.13
12 28 0.34
13 20 0.24
14 11 0.13
15 3 0.04
16 5 0.06
17 3 0.04
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTATATAATATA
Found at i:635799 original size:9 final size:9
Alignment explanation
Indices: 635785--635835 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
635775 AACTTATTAC
635785 TATATTTAA
1 TATATTTAA
635794 TATATTGTAA
1 TATATT-TAA
*
635804 TAAATTTAA
1 TATATTTAA
* *
635813 -ATAATATAT
1 TAT-ATTTAA
635822 TATATTTAA
1 TATATTTAA
635831 TATAT
1 TATAT
635836 AAATATAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
8 1 0.03
9 22 0.67
10 10 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (9 bp):
TATATTTAA
Found at i:635846 original size:25 final size:25
Alignment explanation
Indices: 635810--635901 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 25
635800 GTAATAAATT
635810 TAAATA-ATATATTATATTTAATATA
1 TAAATATA-ATATTATATTTAATATA
635835 TAAATATAATATT-T-TTATAATTATA
1 TAAATATAATATTATATT-TAA-TATA
*
635860 TAATTATAATTAATTATAATCATTAAT-TA
1 TAAATATAA-T-ATTAT-AT--TTAATATA
*
635889 TAAATTTAATATT
1 TAAATATAATATT
635902 TATAATATAG
Statistics
Matches: 54, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
23 2 0.04
24 4 0.07
25 23 0.43
26 2 0.04
27 6 0.11
28 2 0.04
29 9 0.17
30 2 0.04
31 3 0.06
32 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (25 bp):
TAAATATAATATTATATTTAATATA
Found at i:637057 original size:18 final size:17
Alignment explanation
Indices: 637036--637082 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
637026 CCCAATTAGC
637036 TTAAATAATTATAGCTA-T
1 TTAAATAATTAT--CTATT
*
637054 TTAAATAACTATCTATT
1 TTAAATAATTATCTATT
*
637071 TTAAATTATTAT
1 TTAAATAATTAT
637083 TACCTTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 11 0.44
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (17 bp):
TTAAATAATTATCTATT
Found at i:637164 original size:182 final size:176
Alignment explanation
Indices: 636857--637334 Score: 462
Period size: 182 Copynumber: 2.7 Consensus size: 176
636847 AATAAGTTCG
* * * *
636857 AATAATTATGGCTATTTGAACAATTATTTATTTAAAATAATTATGACCATTTGTTTTGTCATAAA
1 AATAATTAT-GCTATTTGAACAATTATCTATTTAAAATTATTATAACCTTTTGTTTTGTCATAAA
* * * * *
636922 ACAATTG-TTTTAGTTCATAAAAGTTTA-TCGGATATAAAATAATACTACTTTAGTAATATTTCA
65 ATAATTGTTTTTA--TCATACAAGCTTATTC-GAAATAAAATAATACTAATTTAGTAATATTTCA
* * *
636985 AAAATTAAAAAGTAACTAATTTAAAAGAATAAATTAAG-TTA-CCCAATTAGCTT-A
127 AAAATTAAAAAG--A-T-ATTTAAAA-AATAAATT-AGTTTATCCAAACTA-ATTCA
* * * * *
637039 AATAATTATAGCTATTTAAATAACTATCTATTTTAAATTATTATTACCTTTTGTTTTGTCATAAA
1 AATAATTAT-GCTATTTGAACAATTATCTATTTAAAATTATTATAACCTTTTGTTTTGTCATAAA
* * * * * *
637104 ATAATTGTTTTTCAACATACAAGCTTATTTGAAATAAAATAATACCAATTTATTAATATTTTAAG
65 ATAATTGTTTTT-ATCATACAAGCTTATTCGAAATAAAATAATACTAATTTAGTAATATTTCAAA
* **
637169 AATTAATAAGATATTTAAAAAATAAATTAGTTTATTTAAACTAATTCA
129 AATTAAAAAGATATTTAAAAAATAAATTAGTTTATCCAAACTAATTCA
* * * * * * * *
637217 AATAGTTATGACTATTTGAACAGTTTTCTATTTCAAATTGTTACAACCTTTTGTTCTATCATAAA
1 AATAATTATG-CTATTTGAACAATTATCTATTTAAAATTATTATAACCTTTTGTTTTGTCATAAA
* *
637282 ATAATTATTTCTATTCATACAAGCTTATTCGAAATAAAATAATACTAATTTAG
65 ATAATTGTTTTTA-TCATACAAGCTTATTCGAAATAAAATAATACTAATTTAG
637335 CAAAATTCTA
Statistics
Matches: 244, Mismatches: 44, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
176 2 0.01
177 15 0.06
178 109 0.45
179 1 0.00
180 1 0.00
182 110 0.45
183 5 0.02
184 1 0.00
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (176 bp):
AATAATTATGCTATTTGAACAATTATCTATTTAAAATTATTATAACCTTTTGTTTTGTCATAAAA
TAATTGTTTTTATCATACAAGCTTATTCGAAATAAAATAATACTAATTTAGTAATATTTCAAAAA
TTAAAAAGATATTTAAAAAATAAATTAGTTTATCCAAACTAATTCA
Found at i:637533 original size:27 final size:27
Alignment explanation
Indices: 637468--637533 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
637458 AGATATCTAT
637468 TAATTAATA-AAAATCAATAATTAAAA
1 TAATTAATATAAAATCAATAATTAAAA
* * *
637494 TATTTAA-ATTAAAATCAAT-ATTCAGA
1 TAATTAATA-TAAAATCAATAATTAAAA
637520 TAATTATATATAAA
1 TAATTA-ATATAAA
637534 TTTAATTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
25 1 0.03
26 16 0.50
27 14 0.44
28 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.36
Consensus pattern (27 bp):
TAATTAATATAAAATCAATAATTAAAA
Found at i:637781 original size:6 final size:6
Alignment explanation
Indices: 637770--637808 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
637760 AATAAAAAGC
* *
637770 TTAATA TTAATA TCAATA TTAA-A TTAGTA TTAATA TTAA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAA
637809 ACAATATTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (6 bp):
TTAATA
Found at i:637804 original size:17 final size:17
Alignment explanation
Indices: 637770--637809 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
637760 AATAAAAAGC
637770 TTAATATTAATATCAATA
1 TTAA-ATTAATATCAATA
* *
637788 TTAAATTAGTATTAATA
1 TTAAATTAATATCAATA
637805 TTAAA
1 TTAAA
637810 CAATATTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (17 bp):
TTAAATTAATATCAATA
Found at i:637955 original size:13 final size:13
Alignment explanation
Indices: 637914--637955 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
637904 TTACTTGAAA
637914 ATTAATTA-AAAT
1 ATTAATTATAAAT
*
637926 AATTAATTATAATT
1 -ATTAATTATAAAT
637940 ATTAATTATAAAT
1 ATTAATTATAAAT
637953 ATT
1 ATT
637956 TGTTTATGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 23 0.88
14 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTAATTATAAAT
Found at i:638479 original size:20 final size:21
Alignment explanation
Indices: 638442--638480 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
638432 GTATTAATAA
*
638442 ATTAGTTTTAATAGTAAATGT
1 ATTAGTTTTAATAATAAATGT
*
638463 ATTA-TTTTATTAATAAAT
1 ATTAGTTTTAATAATAAAT
638481 AACATTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (21 bp):
ATTAGTTTTAATAATAAATGT
Found at i:638653 original size:21 final size:21
Alignment explanation
Indices: 638614--638698 Score: 61
Period size: 21 Copynumber: 4.1 Consensus size: 21
638604 ATATTTTAAA
*
638614 TTATTATTAAATATTAATTAT
1 TTATTATTAAACATTAATTAT
638635 TTATT-TTAAACATTGAATT-T
1 TTATTATTAAACATT-AATTAT
* * * *
638655 TAATAATTATA-ATTAATAAT
1 TTATTATTAAACATTAATTAT
* *
638675 TATGTTATTAAA-ATTTATTAT
1 T-TATTATTAAACATTAATTAT
638696 TTA
1 TTA
638699 AAGTAATAAT
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
19 3 0.06
20 18 0.38
21 27 0.56
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.54
Consensus pattern (21 bp):
TTATTATTAAACATTAATTAT
Found at i:639569 original size:21 final size:22
Alignment explanation
Indices: 639517--639574 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
639507 TAATAGCATA
*
639517 ATAATATTAATAAGTATATAAT
1 ATAATATTAATAATTATATAAT
*
639539 ATATTATTAATAATTA-ATAAT
1 ATAATATTAATAATTATATAAT
639560 ATAA-ATTTAATAATT
1 ATAATA-TTAATAATT
639575 GTTTATAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 1 0.03
21 17 0.53
22 14 0.44
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (22 bp):
ATAATATTAATAATTATATAAT
Found at i:640168 original size:185 final size:185
Alignment explanation
Indices: 639920--640266 Score: 432
Period size: 185 Copynumber: 1.9 Consensus size: 185
639910 TTGTATGATC
* * * * * *
639920 AGAAACAATTATTTTATGAGAAAATAAAGATCATAATGATTTGATATTGATATTTGTTCAAATAG
1 AGAAACAATTATTTTATGACAAAAAAAAGATCATAATGATATGAAATAGATAATTGTTCAAATAG
* * * * * * * *
639985 TCGTAACTATTTGAA-TTGGTTTGGAAAACAACTTTAGT-TTTTAAATATTTTGCTTATTAATTT
66 ACATAACTATTTGAACTT-GTTCGGAAAACAAATTTA-TCTTTTAAATATTCTACATACTAATTT
640048 TT-GAAATATTAATAAAGTA-TATTATTTTATTTCAGATAAGTTTTTATCAACTAAAT
129 TTAG-AATATTAATAAAGTATTATTATTTTATTTCAGATAAGTTTTTATCAACTAAAT
* *
640104 AGAAATAATTATTTTATGACAAAACAAAAGGTCATAATGATATGAAATAGATAATTGTTCAAATA
1 AGAAACAATTATTTTATGACAAAA-AAAAGATCATAATGATATGAAATAGATAATTGTTCAAATA
* * * * *
640169 GACATGACTATTTGAACTTGTTCGGTAAATAAATTTATCTTTTCAATCTTCTACATACTAATTTT
65 GACATAACTATTTGAACTTGTTCGGAAAACAAATTTATCTTTTAAATATTCTACATACTAATTTT
*
640234 TAGAATATTAATAAATTATTATTATTTTATTTC
130 TAGAATATTAATAAAGTATTATTATTTTATTTC
640267 GAATATGCTT
Statistics
Matches: 136, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
184 23 0.17
185 96 0.71
186 17 0.12
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.43
Consensus pattern (185 bp):
AGAAACAATTATTTTATGACAAAAAAAAGATCATAATGATATGAAATAGATAATTGTTCAAATAG
ACATAACTATTTGAACTTGTTCGGAAAACAAATTTATCTTTTAAATATTCTACATACTAATTTTT
AGAATATTAATAAAGTATTATTATTTTATTTCAGATAAGTTTTTATCAACTAAAT
Found at i:640996 original size:178 final size:177
Alignment explanation
Indices: 640584--641073 Score: 538
Period size: 178 Copynumber: 2.8 Consensus size: 177
640574 GAACTTATAC
* ** * * * * *
640584 AATTATTTCATGATGAAACAAAAGGTCAAAACATTTTGAAATAGATAATTATTC-AA-A--TATA
1 AATTATTTTATGACAAAACAAAAAGTCATAACAATTTAAAATAAATAATTATTCAAATAGTTATA
* * * * ***
640645 ACTATTTAAACTTGTTCAATAAATATATTTATTTTTAAAATCTTTTACTTATTAATTGTCAAAAT
66 ACTATTTAAACTTATTCAGTAAACATA-TTATTTTTTAAATCTTTTACTTA-T-ATTGTTTGAAT
*
640710 ATTAATAAATTAATATTATTTTAATTTGAATAAACTTGTATGAACAAAAAT
128 ATTAATAAATTAATATTATTTTAA-TTGAATAAACTTATATGAACAAAAAT
* *
640761 AATTATTTTATGACAAAACAAAAAGTCATAACAATTTGAAATAAATAATTGTTCAAATAGTTATA
1 AATTATTTTATGACAAAACAAAAAGTCATAACAATTTAAAATAAATAATTATTCAAATAGTTATA
*
640826 ACTATTTGAACTTATTCAGTAAACATATTATTTTTTAAATCTTTTACTTATAGTTGTTTGAATAT
66 ACTATTTAAACTTATTCAGTAAACATATTATTTTTTAAATCTTTTACTTATA-TTGTTTGAATAT
** *
640891 TAATAAATTTGTATTATTTTAA-TGAAATAAGCTTATAT-AAGCAAAAA-
130 TAATAAATTAATATTATTTTAATTG-AATAAACTTATATGAA-CAAAAAT
* * *
640938 AATTATTTTATGACAAAACAAAAAAGTTATAGCAATTTAAAATAAATAATTATTCAAATAGTCAT
1 AATTATTTTATGACAAAAC-AAAAAGTCATAACAATTTAAAATAAATAATTATTCAAATAGTTAT
* * * *
641003 AACTAATTAAACTTATTC-GATAAACAGATTCAGTTTTTAAATCTCTTA-TTA-ATT-TTTGAA-
65 AACTATTTAAACTTATTCAG-TAAACATATT-ATTTTTTAAATCTTTTACTTATATTGTTTGAAT
641063 A-TAATAAATTA
128 ATTAATAAATTA
641074 GAATTATGTT
Statistics
Matches: 272, Mismatches: 31, Indels: 24
0.83 0.09 0.07
Matches are distributed among these distances:
173 9 0.03
174 1 0.00
175 6 0.02
176 2 0.01
177 71 0.26
178 88 0.32
179 46 0.17
180 22 0.08
181 27 0.10
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (177 bp):
AATTATTTTATGACAAAACAAAAAGTCATAACAATTTAAAATAAATAATTATTCAAATAGTTATA
ACTATTTAAACTTATTCAGTAAACATATTATTTTTTAAATCTTTTACTTATATTGTTTGAATATT
AATAAATTAATATTATTTTAATTGAATAAACTTATATGAACAAAAAT
Found at i:642116 original size:180 final size:180
Alignment explanation
Indices: 641487--643180 Score: 1192
Period size: 180 Copynumber: 9.5 Consensus size: 180
641477 TTTTAAATCT
* * * * *
641487 CTTATTAATTTTT-GAA-A-TAATAAATTAGAATTATGTTATTCTAAATTAGCTTGTATGAATAT
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAA-AT
* * * * * * * * * * * *
641549 AAACAATTGTTTTGTAACAAAATATAAGGTCACAACGCTTAAAAATAGATAATTGTACAAACAAT
65 AAACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATAGT
** * * * * *
641614 TTTAACTATTT-ATA-TTGGTCAAGCT-AACATATTCATTTTTTAAATC-CGTTA
130 CATAACTATTTGA-ACTTGTTC--GGTAAACAAATTTATTTTTTAAATCTC-CTA
* * * * * *
641665 CATATTAATTTTTAGAATATTAAT-AATTAGCATTACTTTATT-TCAAATAAGACTT-TATCAAT
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCT-GAATAAG-CTTGTATGAA-
* * * * *
641727 AGAAACAATTATTTTAAGACAAAAC-AAATGGTCATAATGATTTGAAATAAATCAATT-TT-AAA
63 ATAAACAATTGTTTTATGACAAAACAAAAT-GTCATAATGATTTAAAATAGAT-AATTGTTCAAA
* * * * ** * * *
641789 TTGTTATAACTAATTAAACTAATTTGGTAAATAGATTTATTTTTTAAATCT-C-A
126 TAGTCATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTCCTA
* * * * *
641842 --TATTAA---TTAAAATATTAATAAATTAATATTATTTTATTCTAAACT-AGATTATATGAACG
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAA-TAAGCTTGTATGAA--
* * * * * *
641901 A-AAAC-ATTCGTTTTACGATAAAACAAAATGTCATAATGATTTGAAATAAATAATTATTCATAT
63 ATAAACAATT-GTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAAT
* * * * *** **
641964 AGCCTTAACTATTTAAATTTGTTCAACAAACAAATTTATTTTTTAAATCTTTTA
127 AGTCATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTCCTA
* * * *
642018 GTTATTAATTTTCATAATATTATTATATTAGTATT-TTTTATTCTGAATAAGCTTGTATGAAGAT
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAA-AT
* * * * * *
642082 AAATAATTGTTCTATGACAAAACAAAAGGTCATAATGATTTGAAATATATAATTGTTCAAATAAT
65 AAACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* ** * * *
642147 CATAACTAGTTGAACCAGTTTGGTAAGCATATTTA-TTTTTAAATCTCCTA
130 CATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTCCTA
* *
642197 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTCTAAATAGGCTTGTATGATGA
1 CTTATTAATTTTT-ATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGA--A
* *
642261 A-AAACAATTGTTTTATGATAAAACAAAACT-TCATAATGATTTAAAATAGATAATTGTTTAAAT
63 ATAAACAATTGTTTTATGACAAAACAAAA-TGTCATAATGATTTAAAATAGATAATTGTTCAAAT
* * * * * *** *
642324 GGCCATAATTATTTTAAC-TGATTCTAG-AAATTGATTTATTTTTTAAATCTCCAA
127 AGTCATAACTATTTGAACTTG-TTC-GGTAAACAAATTTATTTTTTAAATCTCCTA
* * * * * * * * *
642378 CTTCTCAATTTTTGA-AATATTAATAAAATAATATTATTTTATTTTGGATAAGCTTTTGTGAACT
1 CTTATTAATTTTT-ATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAAAT
* * ** * *
642442 GAAACAATTATTTTAT----AAACAAAAGGTCATAACAATTTTAAATATATAATTGTTCAAATAG
65 -AAACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * * ** *
642503 TCATAACTATTTGAACTTGTTCGGTAAACATATTTAATTTTTAAAATTTTTTG
129 TCATAACTATTTGAACTTGTTCGGTAAACAAATTT-ATTTTTTAAATCTCCTA
* ** * * *
642556 CTAATTAATTTTT-TGAACGTTAATAAAATAGTATTATTTTATT-TCGAATAAGCATGTATGAAC
1 CTTATTAATTTTTAT-AATATTAATAAATTAGTATTATTTTATTCT-GAATAAGCTTGTATGAAA
* * * * * *
642619 TGAAACAATTATTTTATGACTAAATAAATTGTCAAAATGATTTAAAATAGATAATTGTTCTAATA
64 T-AAACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * * * *
642684 ATCTTAACTATTTGAACTGGTAT-GGCAAACACATTTATTTTTTAAATCTCTTA
128 GTCATAACTATTTGAACTTGT-TCGGTAAACAAATTTATTTTTTAAATCTCCTA
* * ** * * * * * * **
642737 CTTATTAATTTTTATAACATTATTAGTTTTGTAATATTTTACTCTAAATAAACTTATATGCACTT
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATG-AAAT
* * * * *
642802 AAACAATTGCTTTATGACAAAAC-AAATATCATAATGCTTTGAGATAGATAATTGTTCAAATAGT
65 AAACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * * *
642866 CATAACTATTTGAACTAGTTTGGTAAA-TAATTTAGTTTTTAAA--T-CT-
130 CATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTCCTA
* * * ** * *
642912 CTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAATTTTTTATGAATAA
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAA-AT
* * * *
642977 AAACAATTATTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATAGTTCACAT-GA
65 AAACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATAG-
* * * * * * * *
643041 ACATGACTATTTGAACTTGTTCGATAAATAGAGTTATTTTTCAAATCTCCAA
129 TCATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTCCTA
* * * **
643093 TTTATTAATTTTTAGAATATTAATAAATTAGTATTATTTTATTGTGAATAAAATTGTATGAATAT
1 CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAA-AT
643158 AAACAATTGTTTTATGACAAAAC
65 AAACAATTGTTTTATGACAAAAC
643181 GACAAAACAA
Statistics
Matches: 1194, Mismatches: 258, Indels: 125
0.76 0.16 0.08
Matches are distributed among these distances:
172 21 0.02
173 65 0.05
174 47 0.04
175 74 0.06
176 59 0.05
177 74 0.06
178 99 0.08
179 100 0.08
180 317 0.27
181 268 0.22
182 69 0.06
183 1 0.00
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.42
Consensus pattern (180 bp):
CTTATTAATTTTTATAATATTAATAAATTAGTATTATTTTATTCTGAATAAGCTTGTATGAAATA
AACAATTGTTTTATGACAAAACAAAATGTCATAATGATTTAAAATAGATAATTGTTCAAATAGTC
ATAACTATTTGAACTTGTTCGGTAAACAAATTTATTTTTTAAATCTCCTA
Found at i:642449 original size:181 final size:178
Alignment explanation
Indices: 641487--645533 Score: 1340
Period size: 181 Copynumber: 22.8 Consensus size: 178
641477 TTTTAAATCT
* * * * * * *
641487 CTTATTAATTTTTG-AA-A-TAATAAATTAGAATTATGTTATTCTAAATTAGCTTGTATGAATAT
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAAT-G
* * * * ** * * * * * * *
641549 AAACAATTGTTTTGTAACAAAATATAAGGTCACAACGCTTAAAAATAGATAATTGTACAAACAAT
65 AAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAGT
** * * * * *
641614 TTTAACTATTT-ATATTGGTCAAGCTAACAT-ATTCATTTTTTAAATC-CGTTA
130 CATAACTATTTGA-ACTGTTCTAG--AA-ATGATTTATTTTTTAAATCTC-CTA
* * * ** *
641665 CATATTAATTTTT-AGAATATTAAT-AATTAGCATTACTTTATTTCAAATAAGAC-TTTATCAAT
1 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAG-CTTTTATGAAT
* * * * *
641727 AGAAACAATTATTTTAAGACAAAAC-AAATGGTCATAATGATTTGAAATAAATCAATT-TT-AAA
64 -GAAACAATTGTTTTATGACAAAACAAAAT-ATCATAATGATTTAAAATAGAT-AATTGTTCAAA
* * * * * *
641789 TTGTTATAACTAATTAAACTAATT-TGGTAAATAGATTTATTTTTTAAATCT-C-A
126 TAGTCATAACTATTTGAACT-GTTCTAG-AAAT-GATTTATTTTTTAAATCTCCTA
* * * * * * *
641842 --TATTAA---TTAAAATATTAATAAATTAATATTATTTTATTCTAAACT-AGATTATATGAACG
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA-TAAGCTTTTATGAATG
* * * * * * *
641901 AAA-ACATTCGTTTTACGATAAAACAAAATGTCATAATGATTTGAAATAAATAATTATTCATATA
65 AAACA-ATT-GTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * * * * ** **
641965 GCCTTAACTATTTAAATTTGTTCAACAAACAAATTTATTTTTTAAATCTTTTA
128 GTCATAACTATTTGAA-CTGTTCTAGAAA-TGATTTATTTTTTAAATCTCCTA
* * * * * *
642018 GTTATTAA-TTTTCATAATATTATTATATTAGTATT-TTTTATTCTGAATAAGCTTGTATGAA-G
1 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATG
* * ** * *
642080 ATAAATAATTGTTCTATGACAAAACAAAAGGTCATAATGATTTGAAATATATAATTGTTCAAATA
65 --AAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * *
642145 ATCATAACTAGTTGAACCAGTT-TGGTAAGCAT-ATTTA-TTTTTAAATCTCCTA
128 GTCATAACTATTTGAA-CTGTTCTAG-AA--ATGATTTATTTTTTAAATCTCCTA
* * * *
642197 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTCTAAATAGGCTTGTATG-ATGA
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATG-
* * *
642261 AAAACAATTGTTTTATGATAAAACAAAACT-TCATAATGATTTAAAATAGATAATTGTTTAAATG
65 -AAACAATTGTTTTATGACAAAACAAAA-TATCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * *
642325 GCCATAATTATTTTAACTGATTCTAGAAATTGATTTATTTTTTAAATCTCCAA
128 GTCATAACTATTTGAACTG-TTCTAGAAA-TGATTTATTTTTTAAATCTCCTA
* * * * * *
642378 CTTCTCAATTTTTGAAATATTAATAAAATAATATTATTTTATTTTGGATAAGCTTTTGTGAACTG
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-TG
* ** ** * *
642443 AAACAATTATTTTAT----AAACAAAAGGTCATAACAATTTTAAATATATAATTGTTCAAATAGT
65 AAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * ** *
642504 CATAACTATTTGAACTTGTTCGGTA-AACAT-ATTTAATTTTTAAAATTTTTTG
130 CATAACTATTTGAAC-TGTTC--TAGAA-ATGATTT-ATTTTTTAAATCTCCTA
* ** * * * *
642556 CTAATTAATTTTTTG-AACGTTAATAAAATAGTATTATTTTATTTCGAATAAGCATGTATGAACT
1 CTTATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-T
* * * * * * * *
642620 GAAACAATTATTTTATGACTAAATAAATTGTCAAAATGATTTAAAATAGATAATTGTTCTAATAA
64 GAAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * * * ** *
642685 TCTTAACTATTTGAACTGGTATGGCAAACACATTTATTTTTTAAATCTCTTA
129 TCATAACTATTTGAACTGTTCTAG-AAA-TGATTTATTTTTTAAATCTCCTA
* * ** * * * * * * * *
642737 CTTATTAATTTTT-ATAACATTATTAGTTTTGTAATATTTTACTCTAAATAAACTTATATGCACT
1 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATG-AAT
* * * * *
642801 TAAACAATTGCTTTATGACAAAAC-AAATATCATAATGCTTTGAGATAGATAATTGTTCAAATAG
64 GAAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * *
642865 TCATAACTATTTGAACTAGTT-TGGTAAATAATTTAGTTTTTAAA--T-CT-
129 TCATAACTATTTGAACT-GTTCTAG-AAATGATTTATTTTTTAAATCTCCTA
* * ** *
642912 CTTATTAATTTTTAAAATATTAATAAATTAATATTATTTTATTTTGAATAATTTTTTATGAATAA
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAAT-G
* * *
642977 AAACAATTATTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATAGTTCACAT-GA
65 AAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAG-
* * * * * * *
643041 ACATGACTATTTGAACTTGTTCGATAAATAGAGTTATTTTTCAAATCTCCAA
129 TCATAACTATTTGAAC-TGTTCTAGAAAT-GATTTATTTTTTAAATCTCCTA
* * ** *
643093 TTTATTAATTTTT-AGAATATTAATAAATTAGTATTATTTTATTGTGAATAAAATTGTATGAATA
1 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAAT-
* * * ** **
643157 TAAACAATTGTTTTATGACAAAACGACAAA-A-CAAAATAACATAACAATTTATAA----T-AAA
64 GAAACAATTGTTTTATGACAAAAC-A-AAATATCATAATGATTTAA-AATAGATAATTGTTCAAA
* * ***** **
643215 TAATCATAACTATTTAAACTCG--CTAGGTAAATGATTTAAAAAATAAATCTTAATAA
126 TAGTCATAACTATTTGAACT-GTTCTA-G-AAATGATTTATTTTTTAAATC-TCCT-A
* * * * * * * ** ** **
643271 CTTAGT-ATTATTT----TATT-TTGAATAAG-CTTATATAAACTAAAATAATTTTTTTATGACA
1 CTTATTAATT-TTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAA-GCTTTTATGA-A
** * * * * **** * * * * * *
643329 T--AACAAAAG-GTCATAATAATTTGAAATA-AATATTTATTTAAATAGTCATGGCTATTTGATC
63 TGAAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAA-A-T-A--GATAATTGTTC
* * * ** * * * * *
643390 ---TAGTTCAGTAAATATATT-TA-T-TTTTA-AAATTTTTTACTTATTAATTGT-CAA
123 AAATAG-TCA-TAACTAT-TTGAACTGTTCTAGAAATGATTTATTTTTTAAATCTCCTA
** * * * * *
643441 GATATTAA----T--AA-A-T--T--A--A-TATTATTTTAATCTGAATAAGCTTGTACGAACAG
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-TG
* * * * * * * * *
643491 AAACTATTATTTTATAACGAAACAAAA-AGTCATAATAATTTGAAATAAATAATTGCTCAAATAA
65 AAACAATTGTTTTATGACAAAACAAAATA-TCATAATGATTTAAAATAGATAATTGTTCAAATAG
* **
643555 TCATAACTATTTGAACTGATT-TGATAAACAAATTTATTTTTTAAAT-T--T-
129 TCATAACTATTTGAACTG-TTCT-AGAAA-TGATTTATTTTTTAAATCTCCTA
* * * * * * * **
643603 CTTATTATTTTTTGAAATATTAATAGATTAAT-TTTTTTTATTTTGAAAAAACTTATATGAACAA
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-TG
* ** * * * * *
643667 AAACATTTGTTTTATGACAAAACAAAAGGTCATAACGATTTGAAATAGATAATTTTTAAAATAAT
65 AAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * * *
643732 CATAATTATTAGAACTAG-T-TAGGTAAATAGAATTATTTTTTAAATCTCTTA
130 CATAACTATTTGAACT-GTTCTA-G-AAAT-GATTTATTTTTTAAATCTCCTA
* * *
643783 CATATTAATTTTTGAAATATTAATAAATTCA-TTTTATTTTATTTTGAATAAG-TTAGTATGAAT
1 CTTATTAATTTTTGAAATATTAATAAATT-AGTATTATTTTATTTTGAATAAGCTT-TTATGAA-
* * * * * * * *
643846 TCAAAAAAAACTTATTTTAGGACAAAACAAAACATCATAACGATTTGAAATAGATAATTGTTCAT
63 T--GAAACAA-TTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAA
* * * * * ** * *
643911 ATAATCATAAATATTTAAACTAGTTCGACAAACAAATTTATTTTTTAATTCTCTTA
125 ATAGTCATAACTATTTGAACT-GTTCTAGAAA-TGATTTATTTTTTAAATCTCCTA
* * * * * * * * *
643967 GTTGTTAATTTTTGAAATATTATTAGATTATTATTATTTTATTTCGTATAAGCTTGTATGAATAA
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAAT-G
* * * * ** * * ** * *
644032 AAACAACTGTTTTATGATAGAACTAAAGGTTATAATGATTTAAAGTTTACAATTATTCAAATAGT
65 AAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAGT
* * *
644097 CATAACTATTTGAACTAGTTCGATA-AAAAGATTTATTTTTTAAATATCTTA
130 CATAACTATTTGAACT-GTTC--TAGAAATGATTTATTTTTTAAATCTCCTA
* * * ** * ** ** *
644148 CTAATTAATTTTTGAAAGATTAATAAGA-AAAAATTATTTCATTCCGAATAAGCTTGAATG-TTC
1 CTTATTAATTTTTGAAATATTAATAA-ATTAGTATTATTTTATTTTGAATAAGCTTTTATGAAT-
* * * * * ** * * * * * *
644211 AAATACAATTATTATATGGCCAAACAAAAGGTAATAATGATTTGAAATAGAAAATTGTTGACATT
64 GAA-ACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * * * * * * * *
644276 GCCATAATTATTTAAACTACTT-TGATAAACAGATTCACTTTTTAAATCACTTA
128 GTCATAACTATTTGAACT-GTTCT-AGAAA-TGATTTATTTTTTAAATCTCCTA
* * * * *
644329 CTTATTAAATTTT-AGAATATTAATAAATTAGTTTTATTTTATTTCGAATAAGCATGTATGAACT
1 CTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-T
* * * * * * * * *
644393 AAAATAATTATTTTATGATAAAATAAAAAATCATAATGATTTGAGATAGATAATTGTTCATATAG
64 GAAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * * * * * *
644458 TCTTAATTGTTTGAACTATTTTGATGAACA-AATTTATTTTTTAAATCTCTTA
129 TCATAACTATTTGAACTGTTCT-A-GAA-ATGATTTATTTTTTAAATCTCCTA
* * * ** *
644510 GTTATTAATTTTTGGAATA-TAATTAAATTAATATTATTTTATTCCGAATAAGCTTGTATGAACT
1 CTTATTAATTTTTGAAATATTAA-TAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-T
* * ** * * * *
644574 GAAACAATTATTTTATAACAAAACAAAAGGTTATAA-GAATTAAAATAGATAATTATTCAAACAG
64 GAAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* * *
644638 --A-AACTAGTT---C-G--GTA-AACA-GATTTCTTTTTTAAATCT-CTCA
129 TCATAACTATTTGAACTGTTCTAGAA-ATGATTTATTTTTTAAATCTCCT-A
* * * * * *
644678 CTTATTAATTTTTGAAATATTAATAAATAATGTATTAATTTA-TTCGAATAGGCTTGTATG-GTG
1 CTTATTAATTTTTGAAATATTAATAAATTA-GTATTATTTTATTTTGAATAAGCTTTTATGAATG
* * * * *
644741 AAAAACAATTGTTTTCATGA-AAAACAAAA-GTCTTTATAGA-TTGAAATACATAATTGTT--AA
65 --AAACAATTGTTTT-ATGACAAAACAAAATATCATAAT-GATTTAAAATAGATAATTGTTCAAA
** * * * * * *
644801 TAACCATAA-TTTTTGTAGCCGATTTTGATAAATTGA-CTA-TTTTTAAATCTCC-A
126 TAGTCATAACTATTTG-AACTG-TTCT-AGAAA-TGATTTATTTTTTAAATCTCCTA
* ** * * *
644854 CCTTATCAATTTTT-TTATA-TAATAAAGTACTATTATTTT-TATTTG-ATAAACTTTTATGAAC
1 -CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTAT-TTTGAATAAGCTTTTATGAA-
* * * * ** * * * * * *
644915 TGAAATTAA-T-ATTTAGGGATAAAAC-AGGT-TAATATTTATTTTTAATTAGAT-ATTGTTCCA
63 TGAAA-CAATTGTTTTA-TGACAAAACAAAATATCATAATGA-TTTAAAATAGATAATTGTTCAA
* * * * * **
644975 ATAAGTCATAACTATTTTAACATATCCATA-AACAT-ATTGA-TTCTTAAATCTTTTA
125 AT-AGTCATAACTATTTGAAC-TGTTC-TAGAA-ATGATTTATTTTTTAAATCTCCTA
** * * * * **
645030 CTTATT-ATTTGTCAAAATATTAATAAATTAATATTATTTTAATATGAATAAACTTGCATGAATA
1 CTTATTAATTT-TTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAAT-
* ** * * *
645094 GAAACAATTATTTTATGACAAAACAAAA-AGTCATAACAATTTGAAATAAATAATTGTTTAAATA
64 GAAACAATTGTTTTATGACAAAACAAAATA-TCATAATGATTTAAAATAGATAATTGTTCAAATA
** ** * * * ** * * **
645158 GAAATAAAAAATTGAACTTGTTTGATAAAAAAAAATTATTTTCTAAATCTTTTA
128 GTCATAACTATTTGAAC-TG-TT-CTAGAAATGATTTATTTTTTAAATCTCCTA
* * * * * *
645212 CTTATTAATTGTCTT--AATATTAATGAATTTGTCTTA-TTTAATTTGAAATAAGCCTGTATGAA
1 CTTATTAATT-T-TTGAAATATTAATAAATTAGTATTATTTTATTTTG-AATAAGCTTTTATGAA
* * * * ** * * *
645274 T-AAAAAATTATTTTATGACAAAACAAAATGTTATAGCGATTTCAAATAGATAATTATTGAAATA
63 TGAAACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATA
* * * * * * * *
645338 TTCACAATTATTTAAACTTGTTCGATAAATAGATTCA-TTTTTAAATCTCGTA
128 GTCATAACTATTTGAAC-TGTTCTAGAAAT-GATTTATTTTTTAAATCTCCTA
* * ** * *
645390 ATTATTAATTTTTGAAATATTAATAACTTAGTATTATTTTATTTCAAATAAGCTTATATGAATTA
1 CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAA-TG
* * ** * *
645455 AAATAATT-TTTTAATGACAAAATAAAAGGTCATAATGATTTAAAATAGATACTTATTCAAATAG
65 AAACAATTGTTTT-ATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAG
* *
645519 TCATGACTAGTTGAA
129 TCATAACTATTTGAA
645534 TAAATATCTA
Statistics
Matches: 2894, Mismatches: 724, Indels: 500
0.70 0.18 0.12
Matches are distributed among these distances:
159 10 0.00
160 13 0.00
161 18 0.01
162 14 0.00
163 14 0.00
164 14 0.00
165 12 0.00
166 8 0.00
167 6 0.00
168 106 0.04
169 29 0.01
170 13 0.00
171 9 0.00
172 38 0.01
173 107 0.04
174 93 0.03
175 116 0.04
176 206 0.07
177 169 0.06
178 197 0.07
179 150 0.05
180 532 0.18
181 725 0.25
182 133 0.05
183 18 0.01
184 140 0.05
185 3 0.00
186 1 0.00
ACGTcount: A:0.41, C:0.08, G:0.09, T:0.41
Consensus pattern (178 bp):
CTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATGA
AACAATTGTTTTATGACAAAACAAAATATCATAATGATTTAAAATAGATAATTGTTCAAATAGTC
ATAACTATTTGAACTGTTCTAGAAATGATTTATTTTTTAAATCTCCTA
Found at i:642593 original size:178 final size:181
Alignment explanation
Indices: 642397--642729 Score: 433
Period size: 182 Copynumber: 1.9 Consensus size: 181
642387 TTTTGAAATA
* * * * *
642397 TTAATAAAATAATATTATTTTATTTTGGATAAGCTTTTGTGAACTGAAACAATTATTTTAT-A-A
1 TTAATAAAATAATATTATTTTATTTCGAATAAGCATGTATGAACTGAAACAATTATTTTATGACA
* * * * *
642460 ACA-AAA-GGTCATAACAATTTTAAATATATAATTGTTCAAATAGTCATAACTATTTGAACTTGT
66 A-ATAAATGGTCAAAACAATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAACTGGT
* *
642523 -TCGGTAAACATATTTAATTTTTAAAATTTTTTGCTAATTAATTTTTTGAACG
130 AT-GGCAAACACATTTAATTTTTAAAATTTTTTGCTAATTAATTTTTTGAACG
*
642575 TTAATAAAATAGTATTATTTTATTTCGAATAAGCATGTATGAACTGAAACAATTATTTTATGACT
1 TTAATAAAATAATATTATTTTATTTCGAATAAGCATGTATGAACTGAAACAATTATTTTATGAC-
* ** * *
642640 AAATAAATTGTCAAAATGATTTAAAATAGATAATTGTTCTAATAATCTTAACTATTTGAACTGGT
65 AAATAAATGGTCAAAACAATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAACTGGT
*
642705 ATGGCAAACACATTTATTTTTTAAA
130 ATGGCAAACACATTTAATTTTTAAA
642730 TCTCTTACTT
Statistics
Matches: 130, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
178 55 0.42
179 1 0.01
180 1 0.01
181 5 0.04
182 67 0.52
183 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (181 bp):
TTAATAAAATAATATTATTTTATTTCGAATAAGCATGTATGAACTGAAACAATTATTTTATGACA
AATAAATGGTCAAAACAATTTAAAATAGATAATTGTTCAAATAATCATAACTATTTGAACTGGTA
TGGCAAACACATTTAATTTTTAAAATTTTTTGCTAATTAATTTTTTGAACG
Done.