Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 148 of 185
Found at i:44820557 original size:214 final size:215
Alignment explanation
Indices: 44820178--44820693 Score: 856
Period size: 214 Copynumber: 2.4 Consensus size: 215
44820168 GCTAATTGAT
* *
44820178 GCAATATTTAGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTC
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
*
44820243 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGGAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGAAGATT
44820308 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
*
44820373 TTTC-AATTTATAAAATGAG
196 TTTCAAAGTTATAAAATGAG
* * *
44820392 GCAATGTTTTGCGTTTGGAAATTCGAAGAACGTGCCCTAAGGTACTGGGTTGCGATTTCTCGTTA
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
*
44820457 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATGTTTTGCGTTTGAAGATT
66 AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGAAGATT
44820522 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
131 CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
44820587 TTTCAAAAGTTATAAAATGAG
196 TTTC-AAAGTTATAAAATGAG
* * * * * * *
44820608 GCAACATTTTGCGTTTGGAAATTCGAGGAACGTGCTCTAAGGTGTTGGGTTACAATTTCTTGTTT
1 GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
*
44820673 AACCAAATTG-TTAAATATCCT
66 AACCAAATGGCTT-AATATCCT
44820694 CTTGAATTTT
Statistics
Matches: 280, Mismatches: 19, Indels: 4
0.92 0.06 0.01
Matches are distributed among these distances:
214 192 0.69
215 2 0.01
216 86 0.31
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (215 bp):
GCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTGCTGGGTTGCGATTTCTCGTTA
AACCAAATGGCTTAATATCCTTTTCAAAAATCTCAAAATATGGCAATATTTTGCGTTTGAAGATT
CGAGATAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCTCGTTCAACCAAATAGCTAAATATCC
TTTCAAAGTTATAAAATGAG
Found at i:44826474 original size:18 final size:18
Alignment explanation
Indices: 44826448--44826482 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44826438 TCATCCATGT
*
44826448 TTTGAATGTTAATGTTGC
1 TTTGAATGTTAAGGTTGC
*
44826466 TTTGTATGTTAAGGTTG
1 TTTGAATGTTAAGGTTG
44826483 ATTTTGCATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.03, G:0.26, T:0.51
Consensus pattern (18 bp):
TTTGAATGTTAAGGTTGC
Found at i:44833461 original size:7 final size:7
Alignment explanation
Indices: 44833449--44833474 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
44833439 AAAGCAATTC
44833449 GAGGATA
1 GAGGATA
44833456 GAGGATA
1 GAGGATA
44833463 GAGGATA
1 GAGGATA
44833470 GAGGA
1 GAGGA
44833475 GAAGATCGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.46, T:0.12
Consensus pattern (7 bp):
GAGGATA
Found at i:44835316 original size:20 final size:20
Alignment explanation
Indices: 44835277--44835321 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
44835267 TATTAAATTG
*
44835277 TTTTATTTATAAGACCATTA
1 TTTTATTTATAAAACCATTA
**
44835297 TTTTATTTATAAAATTATTA
1 TTTTATTTATAAAACCATTA
44835317 TTTTA
1 TTTTA
44835322 ATAAATAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTTATTTATAAAACCATTA
Found at i:44835446 original size:12 final size:12
Alignment explanation
Indices: 44835429--44835453 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44835419 TTTTATCGAA
44835429 AAATAAATTTTT
1 AAATAAATTTTT
44835441 AAATAAATTTTT
1 AAATAAATTTTT
44835453 A
1 A
44835454 TTCTTAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AAATAAATTTTT
Found at i:44835462 original size:26 final size:22
Alignment explanation
Indices: 44835432--44835483 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 22
44835422 TATCGAAAAA
44835432 TAAATTTTTAAATAAATTTTTATTCT
1 TAAATTTTT-AA-AAA-TTTTATT-T
44835458 TAAATTTTTAAAAATTTTATTT
1 TAAATTTTTAAAAATTTTATTT
44835480 TAAA
1 TAAA
44835484 AATAAGACTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 5 0.19
23 7 0.27
24 3 0.12
25 2 0.08
26 9 0.35
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (22 bp):
TAAATTTTTAAAAATTTTATTT
Found at i:44839617 original size:6 final size:6
Alignment explanation
Indices: 44839606--44839634 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44839596 TTCATATCAC
44839606 TTATAT TTATAT TTATAT TTATAT TTATA
1 TTATAT TTATAT TTATAT TTATAT TTATA
44839635 CAAGAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TTATAT
Found at i:44840807 original size:6 final size:6
Alignment explanation
Indices: 44840796--44840825 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
44840786 CTCATCATTA
44840796 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
1 TCTTTC TCTTTC TCTTTC TCTTTC TCTTTC
44840826 AGAGTATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (6 bp):
TCTTTC
Found at i:44856220 original size:18 final size:17
Alignment explanation
Indices: 44856197--44856240 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
44856187 TGCTTTGAAG
*
44856197 TTTTTAATTGTTATAATA
1 TTTTTAATTATT-TAATA
44856215 TTTTTAATTATTTAATA
1 TTTTTAATTATTTAATA
44856232 TATTTTAAT
1 T-TTTTAAT
44856241 AGATTCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTAATTATTTAATA
Found at i:44863338 original size:166 final size:166
Alignment explanation
Indices: 44863064--44863398 Score: 661
Period size: 166 Copynumber: 2.0 Consensus size: 166
44863054 CAAACCGAAA
*
44863064 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCTAATTAGTTCAACTTGTTTACTTCTTT
1 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
44863129 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
66 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
44863194 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
131 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
44863230 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
1 TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
44863295 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
66 CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
44863360 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
131 TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
44863396 TTA
1 TTA
44863399 TTAAACATAC
Statistics
Matches: 168, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.41
Consensus pattern (166 bp):
TTAGCAATTTGCTTTGTTGAACAAGTGTTGCTTACATCCAATTAGTTCAACTTGTTTACTTCTTT
CAGTCACAAATCTTGCAGGCAGACATGGGATTTGGTCATTTGCTATTATTTGCTTGATTTCAGAT
TAACTTCCAGAGATCACTATTTATCTAAACCATTTT
Found at i:44867458 original size:24 final size:24
Alignment explanation
Indices: 44867431--44867481 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
44867421 TGTGTGAACT
* **
44867431 TTTAGTATTTATGAGTATAATATA
1 TTTAGCATTTATGAACATAATATA
*
44867455 TTTAGCATTTATTAACATAATATA
1 TTTAGCATTTATGAACATAATATA
44867479 TTT
1 TTT
44867482 GACTTTAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.04, G:0.08, T:0.51
Consensus pattern (24 bp):
TTTAGCATTTATGAACATAATATA
Found at i:44874568 original size:11 final size:11
Alignment explanation
Indices: 44874552--44874579 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
44874542 ACTATTGTCA
44874552 AATTTTTAAAT
1 AATTTTTAAAT
44874563 AATTTTTAAAT
1 AATTTTTAAAT
44874574 AATTTT
1 AATTTT
44874580 ATAATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
AATTTTTAAAT
Found at i:44874597 original size:22 final size:21
Alignment explanation
Indices: 44874555--44874634 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
44874545 ATTGTCAAAT
44874555 TTTTAAATAATTTTTAAATAA
1 TTTTAAATAATTTTTAAATAA
* **
44874576 TTTTATAATATTTTTTTCATAA
1 TTTTA-AATAATTTTTAAATAA
* *
44874598 TCATT-AATAATTAATTACAA-AA
1 T-TTTAAATAATT-TTTA-AATAA
44874620 -TTTAAATAATTTTTA
1 TTTTAAATAATTTTTA
44874635 CAACTTTTTA
Statistics
Matches: 44, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
20 5 0.11
21 18 0.41
22 18 0.41
23 3 0.07
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAAATAATTTTTAAATAA
Found at i:44874647 original size:20 final size:20
Alignment explanation
Indices: 44874550--44874653 Score: 57
Period size: 21 Copynumber: 4.9 Consensus size: 20
44874540 AAACTATTGT
*
44874550 CAAATTTTTAAATAATTTTTA
1 CAAAATTTT-AATAATTTTTA
* *
44874571 -AATAATTTTATAATATTTTTTT
1 CAA-AA-TTT-TAATAATTTTTA
* * *
44874593 CATAATCATTAATAATTAATTA
1 CAAAAT-TTTAATAATT-TTTA
*
44874615 CAAAATTTAAATAATTTTTA
1 CAAAATTTTAATAATTTTTA
**
44874635 CAACTTTTTAATAAATTTT
1 CAAAATTTTAAT-AATTTT
44874654 GTAATATCTT
Statistics
Matches: 61, Mismatches: 15, Indels: 14
0.68 0.17 0.16
Matches are distributed among these distances:
20 14 0.23
21 23 0.38
22 22 0.36
23 2 0.03
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (20 bp):
CAAAATTTTAATAATTTTTA
Found at i:44881258 original size:3 final size:3
Alignment explanation
Indices: 44881250--44881287 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
44881240 GTAGATCATT
44881250 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
44881288 GCAGATGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:44888739 original size:28 final size:28
Alignment explanation
Indices: 44888698--44888767 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 28
44888688 AGTATTAATA
* * *
44888698 ATTTTATAT-TTTTTTACACTTTTCTAT
1 ATTTTAAATATTTTTAACAATTTTCTAT
* *
44888725 ATTTTTAAATATTTTTAATAATTTTCTGT
1 A-TTTTAAATATTTTTAACAATTTTCTAT
44888754 ATTTTAAA-ATTTTT
1 ATTTTAAATATTTTT
44888768 GTATATTGAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 7 0.19
28 14 0.39
29 15 0.42
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (28 bp):
ATTTTAAATATTTTTAACAATTTTCTAT
Found at i:44888760 original size:18 final size:16
Alignment explanation
Indices: 44888737--44888771 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
44888727 TTTTAAATAT
44888737 TTTTAATAATTTTCTGTA
1 TTTTAA-AATTTT-TGTA
44888755 TTTTAAAATTTTTGTA
1 TTTTAAAATTTTTGTA
44888771 T
1 T
44888772 ATTGAATGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 6 0.35
18 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.06, T:0.63
Consensus pattern (16 bp):
TTTTAAAATTTTTGTA
Found at i:44905001 original size:25 final size:25
Alignment explanation
Indices: 44904973--44905020 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
44904963 TACAGCTCTT
44904973 ATGAGCTTACC-GTTACATGGCTCAC
1 ATGAGCTT-CCTGTTACATGGCTCAC
*
44904998 ATGAGCTTCCTGTTATATGGCTC
1 ATGAGCTTCCTGTTACATGGCTC
44905021 GAAAGAGAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCTGTTACATGGCTCAC
Found at i:44912242 original size:21 final size:23
Alignment explanation
Indices: 44912200--44912244 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
44912190 CTGCCACCGC
*
44912200 CTCTGACCAGCGCCGCACCTGCT
1 CTCTGACCAGCGCCGCAACTGCT
*
44912223 CTCTG-CCATCGCC-CAACTGCT
1 CTCTGACCAGCGCCGCAACTGCT
44912244 C
1 C
44912245 ACCTGCAAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 8 0.40
22 7 0.35
23 5 0.25
ACGTcount: A:0.13, C:0.49, G:0.18, T:0.20
Consensus pattern (23 bp):
CTCTGACCAGCGCCGCAACTGCT
Found at i:44913999 original size:110 final size:108
Alignment explanation
Indices: 44913800--44914096 Score: 452
Period size: 110 Copynumber: 2.7 Consensus size: 108
44913790 TACTTCAAAA
* *
44913800 TTAAAAATTTTAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACGTGCCCTAAGGTG
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAGAAAACGTGCCCTAAGGTG
* * * *
44913865 CTGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTC
65 CTGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATA-CC-CC
*
44913911 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGC
1 TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAAGGTGC
44913976 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCC
66 TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCC
* *
44914019 TTCAAAAATTTCAGAATAAGGCAATGTTTTGCGTTTGGAAATTTGAG-GAACGTGCCCTAAGGTG
1 TT-AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAAGGTG
* *
44914083 CTAGGTTTCGATTT
65 CTGGGTGTCGATTT
44914097 CTCATTTATC
Statistics
Matches: 173, Mismatches: 12, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
108 30 0.17
109 45 0.26
110 64 0.37
111 34 0.20
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (108 bp):
TTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACGTGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCATTCAACCAAATAGCTAAATACCCC
Found at i:44926187 original size:753 final size:753
Alignment explanation
Indices: 44924735--44926244 Score: 2957
Period size: 753 Copynumber: 2.0 Consensus size: 753
44924725 CAATGTCACT
44924735 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
1 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
44924800 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
66 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
44924865 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
131 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
44924930 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACGGTCACAT
196 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACGGTCACAT
*
44924995 ATACTTCTGAGGTTAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
261 ATACTTCTGAGGATAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
44925060 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTATGTCATCAAAAT
326 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTATGTCATCAAAAT
44925125 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCGATTAATTCTTTCTTTAA
391 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCGATTAATTCTTTCTTTAA
*
44925190 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTGTGAAAGCAACTTTACATAAT
456 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTCTGAAAGCAACTTTACATAAT
* *
44925255 CTGAGTATTTTTCAAAACTATCCAATATCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
521 CTGAGTATTTTTCAAAACCATCCAATACCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
*
44925320 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTTATAAG
586 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTCATAAG
44925385 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
651 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
44925450 AAACCTCAAATTTATCCTACACATAAATGCGCGTGACA
716 AAACCTCAAATTTATCCTACACATAAATGCGCGTGACA
44925488 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
1 CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
44925553 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
66 GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
44925618 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
131 AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
44925683 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACGGTCACAT
196 CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACGGTCACAT
44925748 ATACTTCTGAGGATAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
261 ATACTTCTGAGGATAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
*
44925813 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTCTGTCATCAAAAT
326 GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTATGTCATCAAAAT
44925878 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCGATTAATTCTTTCTTTAA
391 TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCGATTAATTCTTTCTTTAA
44925943 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTCTGAAAGCAACTTTACATAAT
456 ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTCTGAAAGCAACTTTACATAAT
44926008 CTGAGTATTTTTCAAAACCATCCAATACCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
521 CTGAGTATTTTTCAAAACCATCCAATACCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
44926073 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTCATAAG
586 ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTCATAAG
*
44926138 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTACTGATATGGGGGGTGAGTATAGT
651 CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
44926203 AAACCTCAAATTTATCCTACACATAAATGCGCGTGACA
716 AAACCTCAAATTTATCCTACACATAAATGCGCGTGACA
44926241 CATA
1 CATA
44926245 CTATCACAAA
Statistics
Matches: 750, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
753 750 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (753 bp):
CATAAATACTGGAATCTAAAGTAAAAGAGGCAATATAATCTTCACGTATATTCAACAGAACAATA
GCTAGTAGAAACAAAATATTAGCCTCACTCAGACTTTATAGTCGATTTTCATATTCACACAAGGG
AATAAATACCAGAAAAAGACATGGCAATGTCGAACATAACCCAAACAAACCAGTAATTCTTTCAT
CTATTAATATATTTAGCTAATGTTCTTATACGATAAGAATTCTTTTTGAAACTAAACGGTCACAT
ATACTTCTGAGGATAATTGTACACACAGAATGTCTAAAAGGAATCATAGTAATTAGCCCATTATA
GCTACTGTACTCAGCTATTAATACAATACAAACATTACTCAATTGTCTAATTATGTCATCAAAAT
TTTCACATTATCTTTTTACTAACAGAAATCGATCCAGACAAACTTCCGATTAATTCTTTCTTTAA
ATATCACACCTGAATAAATCATTTAATCAGATTTAACTTCTTTTCTGAAAGCAACTTTACATAAT
CTGAGTATTTTTCAAAACCATCCAATACCTCTCTCTCTTTTTATATTGTCTTCATTTGCTAATTC
ATTCACTTTTCCGACCACATTATTAATCTTCCGTACACAAACTTCTGTAACACTGCACTCATAAG
CTTATTCAACCAAAATTTTACAAATTTCATTGTAACATTTTAATGATATGGGGGGTGAGTATAGT
AAACCTCAAATTTATCCTACACATAAATGCGCGTGACA
Found at i:44930309 original size:50 final size:49
Alignment explanation
Indices: 44930242--44930338 Score: 158
Period size: 50 Copynumber: 2.0 Consensus size: 49
44930232 TTAACTATTA
* *
44930242 TCATTCGATACACGTAGTAGCCTTCACATAGTACTATACATGTGACCTT
1 TCATTCGATACACGTAGTAGCCTACACATAGTACTACACATGTGACCTT
*
44930291 TCATTCCGGTACACGTAGTAGCCTACACATAGTACTACACATGTGACC
1 TCATT-CGATACACGTAGTAGCCTACACATAGTACTACACATGTGACC
44930339 ATCACTTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 5 0.11
50 39 0.89
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (49 bp):
TCATTCGATACACGTAGTAGCCTACACATAGTACTACACATGTGACCTT
Found at i:44946068 original size:24 final size:24
Alignment explanation
Indices: 44945989--44946073 Score: 82
Period size: 24 Copynumber: 3.5 Consensus size: 24
44945979 TTGAGTCATT
* *
44945989 TAACGGGAAGCTCATGTGAGCCATG
1 TAACGGGAAGCTCATGAGAGCC-TA
* * * *
44946014 TAACGGGAAGCTTATAATAGTC-A
1 TAACGGGAAGCTCATGAGAGCCTA
44946037 TAATCGGGAAGCTCATGAGAGCCTA
1 TAA-CGGGAAGCTCATGAGAGCCTA
*
44946062 TAACGGGTAGCT
1 TAACGGGAAGCT
44946074 TCGAAGAGCC
Statistics
Matches: 47, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 3 0.06
24 23 0.49
25 21 0.45
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (24 bp):
TAACGGGAAGCTCATGAGAGCCTA
Found at i:44946089 original size:49 final size:49
Alignment explanation
Indices: 44945992--44946089 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
44945982 AGTCATTTAA
* * * * *
44945992 CGGGAAGCTCATGTGAGCCATGTAACGGGAAGCTTATAATAGTCATAAT
1 CGGGAAGCTCATGAGAGCCATATAACGGGAAGCTTAGAAGAGCCATAAT
* *
44946041 CGGGAAGCTCATGAGAGCC-TATAACGGGTAGCTTCGAAGAGCCAATAAT
1 CGGGAAGCTCATGAGAGCCATATAACGGGAAGCTTAGAAGAGCC-ATAAT
44946090 TAGGAGCTCT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 18 0.44
49 23 0.56
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (49 bp):
CGGGAAGCTCATGAGAGCCATATAACGGGAAGCTTAGAAGAGCCATAAT
Found at i:44949031 original size:51 final size:51
Alignment explanation
Indices: 44948911--44949037 Score: 138
Period size: 47 Copynumber: 2.5 Consensus size: 51
44948901 CGAATGTATA
* * * *
44948911 TATATAAATATATTTGTTATGCATGAAAATGAGTTAATCTATAGCTAAATG
1 TATATATATATATTTGTTATGCATGAAAATGAATTAAACTATAGCCAAATG
* * *
44948962 --TATATGTA-A-TTGTTATGCA-GAGAAATGAATTAAACTATGGCCGAATG
1 TATATATATATATTTGTTATGCATGA-AAATGAATTAAACTATAGCCAAATG
44949009 TATATATATATATTTGTTATGCATTGAAA
1 TATATATATATATTTGTTATGCA-TGAAA
44949038 TAAATTATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
46 2 0.03
47 30 0.49
48 1 0.02
49 13 0.21
50 1 0.02
51 10 0.16
52 2 0.03
53 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (51 bp):
TATATATATATATTTGTTATGCATGAAAATGAATTAAACTATAGCCAAATG
Found at i:44949207 original size:41 final size:40
Alignment explanation
Indices: 44949148--44949293 Score: 211
Period size: 41 Copynumber: 3.6 Consensus size: 40
44949138 TTTTGTAAGT
44949148 TCGGGCTTTATGCCTAGCAGGCTCTGTGCAGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTGC-GGTGAAATGTA
*
44949189 TTGGGCTTTATGCCTAGCAGGCTCTGTGTCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTG-CGGTGAAATGTA
* *
44949230 TCAGGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTA
1 TCGGGCTTTATGCCTAGCAGGCTCTGTG-CGGTGAAATGTA
* * *
44949271 TCGGGCTTTGTGTCTAGAAGGCT
1 TCGGGCTTTATGCCTAGCAGGCT
44949294 TTATGCCGGT
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
41 93 0.99
42 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.31, T:0.32
Consensus pattern (40 bp):
TCGGGCTTTATGCCTAGCAGGCTCTGTGCGGTGAAATGTA
Found at i:44949318 original size:82 final size:82
Alignment explanation
Indices: 44949151--44949323 Score: 211
Period size: 82 Copynumber: 2.1 Consensus size: 82
44949141 TGTAAGTTCG
* * * *
44949151 GGCTTTATGCCTAGCAGGCTCTGTGCAGGTGAAATGTATTGGGCTTTATGCCTAGCAGGCTCTGT
1 GGCTTTATGCCTAGCAAGCTCTGTGCAGGTGAAATGTATCGGGCTTTATGCCTAGAAGGCTCTAT
* * *
44949216 GTCGGTGAAATGTATCA
66 GCCGGTGAAATATATAA
* * * *
44949233 GGCTTTATGCCTAGCAAGCTCTGTGCCGGTGAAATGTATCGGGCTTTGTGTCTAGAAGGCTTTAT
1 GGCTTTATGCCTAGCAAGCTCTGTGCAGGTGAAATGTATCGGGCTTTATGCCTAGAAGGCTCTAT
***
44949298 GCCGGTGTTTTATATAA
66 GCCGGTGAAATATATAA
*
44949315 GGCTCTATG
1 GGCTTTATG
44949324 TTTAACAAGT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 76 1.00
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (82 bp):
GGCTTTATGCCTAGCAAGCTCTGTGCAGGTGAAATGTATCGGGCTTTATGCCTAGAAGGCTCTAT
GCCGGTGAAATATATAA
Found at i:44953054 original size:18 final size:18
Alignment explanation
Indices: 44953031--44953066 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
44953021 ACTATTTTAG
*
44953031 ATCAAGAAAAAGTGAAAA
1 ATCAAGAAAAAGAGAAAA
*
44953049 ATCAAGGAAAAGAGAAAA
1 ATCAAGAAAAAGAGAAAA
44953067 TTACAGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (18 bp):
ATCAAGAAAAAGAGAAAA
Found at i:44954855 original size:46 final size:44
Alignment explanation
Indices: 44954751--44954858 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
44954741 TGTCTTTGAC
** * * *
44954751 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
44954795 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
44954841 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
44954859 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:44962254 original size:46 final size:44
Alignment explanation
Indices: 44962150--44962257 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
44962140 TGTCTTTGAC
** * * *
44962150 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
44962194 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
44962240 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
44962258 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:44965834 original size:25 final size:24
Alignment explanation
Indices: 44965755--44965835 Score: 83
Period size: 24 Copynumber: 3.3 Consensus size: 24
44965745 TTTGTGAACC
* *
44965755 TCCCATTAAAGGCTTTTTGGAGCT
1 TCCCGTTAAAGGCTCTTTGGAGCT
* *
44965779 TCCCGTT-AAGTTCTCTTCGGAGCT
1 TCCCGTTAAAG-GCTCTTTGGAGCT
*
44965803 ACCCGTTAAAGGCTCTTTGTGAGCT
1 TCCCGTTAAAGGCTCTTTG-GAGCT
*
44965828 TCTCGTTA
1 TCCCGTTA
44965836 CATGCTCATA
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
23 3 0.07
24 28 0.62
25 14 0.31
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.37
Consensus pattern (24 bp):
TCCCGTTAAAGGCTCTTTGGAGCT
Found at i:44968519 original size:34 final size:35
Alignment explanation
Indices: 44968475--44968541 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
44968465 AAGTAAAATA
*
44968475 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
44968509 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
44968542 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:44968704 original size:53 final size:53
Alignment explanation
Indices: 44968632--44968741 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
44968622 TTACATATAT
44968632 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
1 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
44968685 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
1 TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
44968738 TGAT
1 TGAT
44968742 TTATTTATAA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (53 bp):
TGATATGTATTAATAAATTTTTATATTTTAAATTATTTTTACATATATTGCAA
Found at i:44970508 original size:18 final size:17
Alignment explanation
Indices: 44970472--44970523 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
44970462 TTAACATTAA
**
44970472 TAAATTTATAT-TTATT
1 TAAATTTATATAAAATT
*
44970488 TAATTTTAATATAAAATT
1 TAAATTT-ATATAAAATT
*
44970506 TAAATTTATATAATATT
1 TAAATTTATATAAAATT
44970523 T
1 T
44970524 CTAAATTGAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 14 0.48
18 9 0.31
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATATAAAATT
Found at i:44981888 original size:29 final size:29
Alignment explanation
Indices: 44981854--44981951 Score: 151
Period size: 29 Copynumber: 3.4 Consensus size: 29
44981844 TACATCTTGG
44981854 CCCTAACTTTTTATTATTTACATTTTGAC
1 CCCTAACTTTTTATTATTTACATTTTGAC
44981883 CCCTAACTTTTTATTATTTACATTTTGAC
1 CCCTAACTTTTTATTATTTACATTTTGAC
* * * *
44981912 CCTTAACATTTTACTATTTACATTTTGGC
1 CCCTAACTTTTTATTATTTACATTTTGAC
*
44981941 CCTTAACTTTT
1 CCCTAACTTTT
44981952 CTTAAAATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 64 1.00
ACGTcount: A:0.23, C:0.21, G:0.04, T:0.51
Consensus pattern (29 bp):
CCCTAACTTTTTATTATTTACATTTTGAC
Found at i:44981920 original size:15 final size:15
Alignment explanation
Indices: 44981902--44981951 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 15
44981892 TTTATTATTT
44981902 ACATTTTGACCCTTA
1 ACATTTTGACCCTTA
** *
44981917 ACATTTT-ACTATTT
1 ACATTTTGACCCTTA
*
44981931 ACATTTTGGCCCTTA
1 ACATTTTGACCCTTA
44981946 AC-TTTT
1 ACATTTT
44981952 CTTAAAATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.24, C:0.22, G:0.06, T:0.48
Consensus pattern (15 bp):
ACATTTTGACCCTTA
Found at i:44981932 original size:58 final size:57
Alignment explanation
Indices: 44981843--44981951 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 57
44981833 AAATTACTAA
* * *
44981843 TTACATCTTGGCCCTAACTTTTTATTATTTACATTTTGACCCCTAACTTTTTATTAT
1 TTACATCTTGACCCTAACATTTTACTATTTACATTTTGACCCCTAACTTTTTATTAT
* * *
44981900 TTACATTTTGACCCTTAACATTTTACTATTTACATTTTGGCCCTTAACTTTT
1 TTACATCTTGACCC-TAACATTTTACTATTTACATTTTGACCCCTAACTTTT
44981952 CTTAAAATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 12 0.27
58 33 0.73
ACGTcount: A:0.23, C:0.21, G:0.06, T:0.50
Consensus pattern (57 bp):
TTACATCTTGACCCTAACATTTTACTATTTACATTTTGACCCCTAACTTTTTATTAT
Found at i:44982535 original size:5 final size:5
Alignment explanation
Indices: 44982527--44982577 Score: 68
Period size: 5 Copynumber: 10.2 Consensus size: 5
44982517 ACAACAAAAC
* *
44982527 AGAAA AGAAGA A-AGA AGAGA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAA-A AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
44982577 A
1 A
44982578 AAGAAGACGA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 2 0.05
5 38 0.90
6 2 0.05
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:44982595 original size:20 final size:20
Alignment explanation
Indices: 44982527--44982595 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
44982517 ACAACAAAAC
*
44982527 AGAAAAGAAGAAAGAAG-AGA
1 AGAAAAG-AGAAAAAAGAAGA
*
44982547 AGAAAAGAAAAGAAAAGAA-A
1 AGAAAAGAGAA-AAAAGAAGA
44982567 AG-AAA-AGAAAAAAGAAGA
1 AGAAAAGAGAAAAAAGAAGA
*
44982585 CGAAAAGAGAA
1 AGAAAAGAGAA
44982596 GGGAGGAGAT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
17 7 0.17
18 5 0.12
19 9 0.22
20 18 0.45
21 1 0.03
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (20 bp):
AGAAAAGAGAAAAAAGAAGA
Found at i:44982699 original size:9 final size:10
Alignment explanation
Indices: 44982678--44982723 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
44982668 AGGGCTAGAG
44982678 AGAAAAAGAA
1 AGAAAAAGAA
44982688 AGAAAAAG-A
1 AGAAAAAGAA
*
44982697 AGAAATAAAAA
1 AGAAA-AAGAA
44982708 AGAAAAA-AA
1 AGAAAAAGAA
*
44982717 ATAAAAA
1 AGAAAAA
44982724 TAAAAAGGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
9 14 0.44
10 12 0.38
11 6 0.19
ACGTcount: A:0.83, C:0.00, G:0.13, T:0.04
Consensus pattern (10 bp):
AGAAAAAGAA
Found at i:44983006 original size:16 final size:17
Alignment explanation
Indices: 44982979--44983010 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44982969 AGCCCAAAAT
44982979 AAAAAGAGAAAAAGAAG
1 AAAAAGAGAAAAAGAAG
44982996 AAAAAGA-AAAAAGAA
1 AAAAAGAGAAAAAGAA
44983011 AAGTCCCGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAAGAGAAAAAGAAG
Found at i:44985783 original size:41 final size:41
Alignment explanation
Indices: 44985738--44985917 Score: 279
Period size: 41 Copynumber: 4.4 Consensus size: 41
44985728 GGCTCGATGC
* *
44985738 CTAGCAGGTTTAATGCTGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* * *
44985779 CTAGCAGGCTTAATGCCAGTGAGTTATTTCAGGCTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
* *
44985820 CTAGTAGGTTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
44985861 CTAACAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
1 CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
*
44985902 CTAGCAGGCTTCATGC
1 CTAGCAGGCTTAATGC
44985918 TAGTGTATTA
Statistics
Matches: 124, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 124 1.00
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (41 bp):
CTAGCAGGCTTAATGCCGGTGAATTATTTCAGACTTTATGT
Found at i:44985939 original size:82 final size:82
Alignment explanation
Indices: 44985738--44985953 Score: 229
Period size: 82 Copynumber: 2.6 Consensus size: 82
44985728 GGCTCGATGC
* ** ** * *
44985738 CTAGCAGGTTTAATGCTGGTGAATTATTTCAGACTTTATGTCTAGCAGGCTTAATGCCAGTGAGT
1 CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
*
44985803 TATTTCAGGCTTTATGT
66 TATTTCAGACTTTATGT
* * * ** *
44985820 CTAGTAGGTTTAATGCCGGTGAATTATTTCAGACTTTATGTCTAACAGGCTTAATGCCGGTGAAT
1 CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
44985885 TATTTCAGACTTTATGT
66 TATTTCAGACTTTATGT
* * * * *
44985902 CTAGCAGGCTTCATGCTAGTGTATTAAAGT-AGGCTTTA-GACCTAACAGGCTT
1 CTAGCAGGCTTAATGCCAGTGAATT-AAGTCAGACTTTATG-TCTAACAGGCTT
44985954 CGTGTCGGTG
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 113 0.97
83 2 0.02
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (82 bp):
CTAGCAGGCTTAATGCCAGTGAATTAAGTCAGACTTTATGTCTAACAGGCTTAATGCCAGTGAAT
TATTTCAGACTTTATGT
Found at i:44995178 original size:46 final size:46
Alignment explanation
Indices: 44995111--44995203 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
44995101 ACATTGCTAT
* *
44995111 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
44995157 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
44995203 A
1 A
44995204 CTTTGCCATG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Found at i:44996425 original size:17 final size:16
Alignment explanation
Indices: 44996403--44996450 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
44996393 AAATTCTTTT
44996403 TAAATCGCAAAATTCAC
1 TAAATCG-AAAATTCAC
*
44996420 TAAATCAGAAAATTGAC
1 TAAATC-GAAAATTCAC
*
44996437 TAATTCGAAAATTC
1 TAAATCGAAAATTC
44996451 TTCTAAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.26
17 19 0.70
18 1 0.04
ACGTcount: A:0.48, C:0.17, G:0.08, T:0.27
Consensus pattern (16 bp):
TAAATCGAAAATTCAC
Found at i:45005515 original size:76 final size:76
Alignment explanation
Indices: 45005299--45005904 Score: 770
Period size: 76 Copynumber: 7.9 Consensus size: 76
45005289 ATTGTTTTCT
* *
45005299 TTTTTCGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCGGGTCGCACGTCGA
1 TTTTT-GTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGA
45005364 GGTATTTTCCAA
65 GGTATTTTCCAA
* * * * * *
45005376 TTTCTT-TTTTTCAAAAAAATTAACTCATGATCCGAGAAGTGAGTTGAGCCTCGGGTTGTACGCC
1 TTT-TTGTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCC
45005440 GAGGTATTTTCCAA
63 GAGGTATTTTCCAA
* * * **
45005454 TTTTTGTTTTTTAAAGATCAACTCATAATCCGATAAGTGAGTTGAGCCTTAGGTCGCACGCCGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
45005519 TTA-TTTCCAA
66 GTATTTTCCAA
* * * *
45005529 TTTCTATTTTTCAAAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
1 TTTTTGTTTTTC--AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCG
45005594 AGGTATTTTCCAA
64 AGGTATTTTCCAA
* * *
45005607 TTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGTTCGCACGCCGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
45005672 TTATTTT-CAA
66 GTATTTTCCAA
* * * *
45005682 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCGCACGGCAAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
45005747 GTACTTTCCAA
66 GTATTTTCCAA
* * * * * * * *
45005758 TTTCTGTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTAAGCTTTGGGTAGCACACTGAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
45005823 CTATTTT-CAA
66 GTATTTTCCAA
* * *
45005833 TTTTTGTTTTTCAAAGGTCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCAAG
1 TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
*
45005898 ATATTTT
66 GTATTTT
45005905 TTTAAAAATT
Statistics
Matches: 452, Mismatches: 69, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
75 145 0.32
76 170 0.38
77 54 0.12
78 83 0.18
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (76 bp):
TTTTTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCCGAG
GTATTTTCCAA
Found at i:45005770 original size:151 final size:152
Alignment explanation
Indices: 45005301--45005904 Score: 791
Period size: 151 Copynumber: 4.0 Consensus size: 152
45005291 TGTTTTCTTT
* *
45005301 TTTC-GTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCGGGTCGCACGTCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * * * *
45005365 GTATTTTCCAATTTCTTTTTTTCAAAAAAATTAACTCATGATCCGAGAAGTGAGTTGAGCCTCGG
66 TTATTTT-CAATTTCTGTTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGG
* * *
45005430 GTTGTACGCCGAGGTATTTTCCAA
129 GTCGCACGCCAAGGTATTTTCCAA
* * * * * *
45005454 TTTTTGTTTTTTAAAGATCAACTCATAATCCGATAAGTGAGTTGAGCCTTAGGTCGCACGCCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * *
45005519 TTATTTCCAATTTCTATTTTTCAAAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGG
66 TTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGG
*
45005584 TCGCACGCCGAGGTATTTTCCAA
130 TCGCACGCCAAGGTATTTTCCAA
* * * *
45005607 TTTTTGTTTTTCAAAGATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCAGTTCGCACGCCGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* *
45005672 TTATTTTCAATTTCTGTTTTTC-AAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGT
66 TTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
* *
45005736 CGCACGGCAAGGTACTTTCCAA
131 CGCACGCCAAGGTATTTTCCAA
* * ** * * *
45005758 TTTCTGTTTTTCAAAGATCAACTCATAATCCAAGAGGTGAGTTAAGCTTTGGGTAGCACACTGAG
1 TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
* * ** *
45005823 CTATTTTCAATTTTTGTTTTTC-AAAGGTCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGT
66 TTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
*
45005887 CGCACGCCAAGATATTTT
131 CGCACGCCAAGGTATTTT
45005905 TTTAAAAATT
Statistics
Matches: 400, Mismatches: 50, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
151 186 0.47
153 156 0.39
154 58 0.14
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (152 bp):
TTTCTGTTTTTCAAAGATCAACTCATAATCCGAGAGGTGAGTTAAGCCTCAGGTCGCACGCCGAG
TTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGT
CGCACGCCAAGGTATTTTCCAA
Found at i:45006411 original size:23 final size:23
Alignment explanation
Indices: 45006385--45006433 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
45006375 TTGTTAGGGA
*
45006385 TTTAGCCCATTAGTGTTTTTGTT
1 TTTAGCCCATTAGTATTTTTGTT
45006408 TTTAGCCCATTAGTATTTTTGTT
1 TTTAGCCCATTAGTATTTTTGTT
45006431 TTT
1 TTT
45006434 GTTTTTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.14, C:0.12, G:0.14, T:0.59
Consensus pattern (23 bp):
TTTAGCCCATTAGTATTTTTGTT
Found at i:45006589 original size:29 final size:29
Alignment explanation
Indices: 45006501--45006581 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
45006491 AATACAAAAA
*
45006501 TTTACTAA-TTACATTTTTGCCCTTAACTT
1 TTTAC-AATTTACATTTTGGCCCTTAACTT
* * *
45006530 TTTACTATTTACATTTTGACCCTTAATTT
1 TTTACAATTTACATTTTGGCCCTTAACTT
*
45006559 TTTACAATTTATATTTTGGCCCT
1 TTTACAATTTACATTTTGGCCCT
45006582 CAAGTTTTCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.02
29 43 0.98
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (29 bp):
TTTACAATTTACATTTTGGCCCTTAACTT
Found at i:45007135 original size:7 final size:7
Alignment explanation
Indices: 45007125--45007197 Score: 56
Period size: 7 Copynumber: 9.4 Consensus size: 7
45007115 TTGAAAAAAT
45007125 AAAAGAA
1 AAAAGAA
45007132 AAAAGAA
1 AAAAGAA
45007139 AAAAGAA
1 AAAAGAA
45007146 AAGAAGAA
1 AA-AAGAA
45007154 AGAAGAGAGA
1 A-AA-AGA-A
*
45007164 AGAGAAGAG
1 A-A-AAGAA
*
45007173 AAGAGAA
1 AAAAGAA
45007180 TAAAAGAA
1 -AAAAGAA
*
45007188 GAAAGAA
1 AAAAGAA
45007195 AAA
1 AAA
45007198 TAATATAGAA
Statistics
Matches: 54, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
7 27 0.50
8 14 0.26
9 5 0.09
10 7 0.13
11 1 0.02
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (7 bp):
AAAAGAA
Found at i:45007141 original size:19 final size:19
Alignment explanation
Indices: 45007117--45007157 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
45007107 CCAGCCTCTT
*
45007117 GAAAAAATAAAAGAAAAAA
1 GAAAAAAGAAAAGAAAAAA
*
45007136 GAAAAAAGAAAAGAAGAAA
1 GAAAAAAGAAAAGAAAAAA
45007155 GAA
1 GAA
45007158 GAGAGAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (19 bp):
GAAAAAAGAAAAGAAAAAA
Found at i:45007615 original size:16 final size:17
Alignment explanation
Indices: 45007589--45007621 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
45007579 ACCCAAAATA
45007589 AAAAGAGAAAAAGAAAG
1 AAAAGAGAAAAAGAAAG
45007606 AAAA-AGAAAAAGAAAG
1 AAAAGAGAAAAAGAAAG
45007622 GGCCCGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
AAAAGAGAAAAAGAAAG
Found at i:45008406 original size:25 final size:27
Alignment explanation
Indices: 45008378--45008434 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
45008368 TACAACAATA
*
45008378 TTAAAAAA-A-TACCAAAATGGTATCT
1 TTAAAAAATAGTACCAAAATGGTATAT
45008403 TTAAAAAATTATGTACCAAAATGGTATAT
1 TTAAAAAA-TA-GTACCAAAATGGTATAT
45008432 TTA
1 TTA
45008435 GGGTAGTGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
25 8 0.30
27 1 0.04
29 18 0.67
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (27 bp):
TTAAAAAATAGTACCAAAATGGTATAT
Found at i:45008684 original size:3 final size:3
Alignment explanation
Indices: 45008676--45008709 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
45008666 AAAAGAGAGA
45008676 AAG AAG AAG AA- AAG AAG -AG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
45008710 GAGAGGGCGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.14
3 25 0.86
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:45008689 original size:11 final size:11
Alignment explanation
Indices: 45008675--45008708 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
45008665 CAAAAGAGAG
45008675 AAAGAAGAAGA
1 AAAGAAGAAGA
45008686 AAAGAAG-AGA
1 AAAGAAGAAGA
45008696 AGAAGAAGAAGA
1 A-AAGAAGAAGA
45008708 A
1 A
45008709 GGAGAGGGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.19
11 13 0.62
12 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (11 bp):
AAAGAAGAAGA
Found at i:45008690 original size:19 final size:19
Alignment explanation
Indices: 45008666--45008705 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
45008656 CCCCCTAGCC
45008666 AAAAG-AGAGAAAGAAGAAG
1 AAAAGAAGAG-AAGAAGAAG
45008685 AAAAGAAGAGAAGAAGAAG
1 AAAAGAAGAGAAGAAGAAG
45008704 AA
1 AA
45008706 GAAGGAGAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAGAAGAAGAAG
Found at i:45008743 original size:4 final size:4
Alignment explanation
Indices: 45008734--45008762 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
45008724 GGAAGGGAAT
45008734 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA A
45008763 GCAAAATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:45015674 original size:15 final size:15
Alignment explanation
Indices: 45015654--45015682 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45015644 TAAAAATAAA
45015654 TTTTCTTTCTTTCTC
1 TTTTCTTTCTTTCTC
45015669 TTTTCTTTCTTTCT
1 TTTTCTTTCTTTCT
45015683 TCTCTTCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTCTTTCTTTCTC
Found at i:45015701 original size:23 final size:19
Alignment explanation
Indices: 45015655--45015702 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
45015645 AAAAATAAAT
*
45015655 TTTCTTTCTTTCTCTTTTC
1 TTTCTTTCTTTCTCTTCTC
45015674 TTTCTTTC-TTCTCTTCTC
1 TTTCTTTCTTTCTCTTCTC
*
45015692 TCTCTCTTCTT
1 TTTCT-TTCTT
45015703 CTGCTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 13 0.52
19 11 0.44
20 1 0.04
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTCTTTCTTTCTCTTCTC
Found at i:45016884 original size:19 final size:19
Alignment explanation
Indices: 45016860--45016910 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
45016850 AATTAAACCA
45016860 TATTATATATTTAAATACT
1 TATTATATATTTAAATACT
* *
45016879 TATTATTTAGTTT-AATTCT
1 TATTATATA-TTTAAATACT
45016898 T-TTATATATTTAA
1 TATTATATATTTAA
45016911 TAGCAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
17 3 0.11
18 7 0.26
19 14 0.52
20 3 0.11
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (19 bp):
TATTATATATTTAAATACT
Found at i:45020856 original size:16 final size:17
Alignment explanation
Indices: 45020831--45020862 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45020821 CAAAAATTAT
45020831 AAAAATATTATAAAAAC
1 AAAAATATTATAAAAAC
45020848 AAAAA-ATTATAAAAA
1 AAAAATATTATAAAAA
45020863 AATTATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAAATATTATAAAAAC
Found at i:45020878 original size:27 final size:27
Alignment explanation
Indices: 45020792--45020878 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
45020782 TCAAAACAAA
**
45020792 GAAAAAATATT-T-AAAAAATTATTTTTT
1 GAAAAAA-ATTATAAAAAAATTA-TAATT
* * *
45020819 GACAAAAATTATAAAAATATTATAA-A
1 GAAAAAAATTATAAAAAAATTATAATT
*
45020845 AACAAAAAATTATAAAAAAATTATAATT
1 GA-AAAAAATTATAAAAAAATTATAATT
45020873 GAAAAA
1 GAAAAA
45020879 TCGAAGCATA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
26 4 0.09
27 33 0.72
28 9 0.20
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (27 bp):
GAAAAAAATTATAAAAAAATTATAATT
Found at i:45022793 original size:23 final size:22
Alignment explanation
Indices: 45022757--45022813 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
45022747 ACTTAGGAGT
45022757 AATTAAAATAATTAAATTCAAAAA
1 AATT-AAATAATTAAATT-AAAAA
* *
45022781 AATTAAATGATTAAATTTAAAA
1 AATTAAATAATTAAATTAAAAA
45022803 AATT-AATAATT
1 AATTAAATAATT
45022814 GAGTGAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.20
22 8 0.27
23 12 0.40
24 4 0.13
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
AATTAAATAATTAAATTAAAAA
Found at i:45024623 original size:19 final size:21
Alignment explanation
Indices: 45024596--45024636 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
45024586 CGAACACGCC
*
45024596 AACATAAGCTCG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
45024615 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
45024636 A
1 A
45024637 TCCATCCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
20 2 0.11
21 6 0.32
ACGTcount: A:0.41, C:0.20, G:0.24, T:0.15
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:45026340 original size:39 final size:40
Alignment explanation
Indices: 45026281--45026370 Score: 110
Period size: 39 Copynumber: 2.2 Consensus size: 40
45026271 AAAAATTATA
* * * * *
45026281 TTTAATACAATAAAGCATTTATTATATTTAT-TTGTGTTT
1 TTTAATATAATAAAACATTTATTATACTTATGTAGTATTT
*
45026320 TTTAATATAATAAAATATTTATTATACTTATGGTAGTATTT
1 TTTAATATAATAAAACATTTATTATACTTAT-GTAGTATTT
45026361 TTTAATATAA
1 TTTAATATAA
45026371 ATATTTTTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 27 0.63
41 16 0.37
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (40 bp):
TTTAATATAATAAAACATTTATTATACTTATGTAGTATTT
Found at i:45032369 original size:30 final size:31
Alignment explanation
Indices: 45032335--45032395 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
45032325 ATTAAAATAT
**
45032335 TATTATAA-AAGGATTGTAAAGTTGATTTGC
1 TATTATAAGAAGGATTACAAAGTTGATTTGC
*
45032365 TATTATAATGAAGGATTACAAAGTTGGTTTG
1 TATTATAA-GAAGGATTACAAAGTTGATTTG
45032396 TGCTTCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 8 0.31
32 18 0.69
ACGTcount: A:0.36, C:0.03, G:0.21, T:0.39
Consensus pattern (31 bp):
TATTATAAGAAGGATTACAAAGTTGATTTGC
Found at i:45041146 original size:23 final size:22
Alignment explanation
Indices: 45041101--45041147 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
45041091 CGAAAATATA
*
45041101 TTAAATATATATATTTTTATTT
1 TTAAATATATATAGTTTTATTT
*
45041123 TTAAA-ATATACTAGTTTTAGTT
1 TTAAATATATA-TAGTTTTATTT
45041145 TTA
1 TTA
45041148 TTTTAAGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.57
Consensus pattern (22 bp):
TTAAATATATATAGTTTTATTT
Found at i:45041274 original size:35 final size:35
Alignment explanation
Indices: 45041228--45041350 Score: 149
Period size: 35 Copynumber: 3.3 Consensus size: 35
45041218 ATATAATTTG
45041228 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAATTAATACAATTAACAATTA
* * *
45041263 ATAATTTTACTAACAAAATATTAGTAACAATTAATAATTTG
1 ATAATTTTACTAAC---A-ATTAAT-ACAATTAACAA-TTA
45041304 ATAATTTTAGC-AACAATTAATACAATTAACAATTA
1 ATAATTTTA-CTAACAATTAATACAATTAACAATTA
45041339 ATAATTTTACTA
1 ATAATTTTACTA
45041351 GCAAAATGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
34 1 0.01
35 26 0.35
36 10 0.14
37 5 0.07
38 2 0.03
39 5 0.07
40 10 0.14
41 14 0.19
42 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (35 bp):
ATAATTTTACTAACAATTAATACAATTAACAATTA
Found at i:45041296 original size:33 final size:34
Alignment explanation
Indices: 45041228--45041302 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
45041218 ATATAATTTG
*
45041228 ATAATTTTACTAACAATTAATACAATTAACAATTA
1 ATAATTTTACTAACAA-TAATACAAGTAACAATTA
**
45041263 ATAATTTTACTAACAA-AATATTAGTAACAATTA
1 ATAATTTTACTAACAATAATACAAGTAACAATTA
45041296 ATAATTT
1 ATAATTT
45041303 GATAATTTTA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 21 0.57
35 16 0.43
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (34 bp):
ATAATTTTACTAACAATAATACAAGTAACAATTA
Found at i:45041311 original size:76 final size:76
Alignment explanation
Indices: 45041220--45041362 Score: 252
Period size: 76 Copynumber: 1.9 Consensus size: 76
45041210 ATAATTTGAT
45041220 ATAATTTGATAATTTTA-CTAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATAT
1 ATAATTTGATAATTTTAGC-AACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATAT
45041284 TAGTAACAATTA
65 TAGTAACAATTA
* *
45041296 ATAATTTGATAATTTTAGCAACAATTAATACAATTAACAATTAATAATTTTACTAGCAAAATGTT
1 ATAATTTGATAATTTTAGCAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATATT
45041361 AG
66 AG
45041363 ATTTTATAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
76 63 0.98
77 1 0.02
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.38
Consensus pattern (76 bp):
ATAATTTGATAATTTTAGCAACAATTAATACAATTAACAATTAATAATTTTACTAACAAAATATT
AGTAACAATTA
Found at i:45044777 original size:19 final size:19
Alignment explanation
Indices: 45044750--45044825 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
45044740 TTTATACATG
45044750 TACATATTTATATTTTATA
1 TACATATTTATATTTTATA
* *
45044769 TATATATTTCTATAATTTATA
1 TACATA-TT-TATATTTTATA
* * *
45044790 TACATATCTATATATATCTA
1 TACATATTTATAT-TTTATA
* *
45044810 TACACATTTTTATTTT
1 TACATATTTATATTTT
45044826 CACGAATCTA
Statistics
Matches: 43, Mismatches: 11, Indels: 6
0.72 0.18 0.10
Matches are distributed among these distances:
19 11 0.26
20 17 0.40
21 15 0.35
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (19 bp):
TACATATTTATATTTTATA
Found at i:45044803 original size:21 final size:19
Alignment explanation
Indices: 45044750--45044801 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
45044740 TTTATACATG
*
45044750 TACATATTTATATTTTATA
1 TACATATTTATAATTTATA
*
45044769 TATATATTTCTATAATTTATA
1 TACATA-TT-TATAATTTATA
*
45044790 TACATATCTATA
1 TACATATTTATA
45044802 TATATCTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 9 0.33
20 3 0.11
21 15 0.56
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (19 bp):
TACATATTTATAATTTATA
Found at i:45046350 original size:25 final size:26
Alignment explanation
Indices: 45046299--45046354 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
45046289 AAAATAAATA
*
45046299 AATAAATAAAAATGGAATGTATATAT
1 AATAAATAAAAATGGAAAGTATATAT
*
45046325 AATAAAGTAAATAT-GAAAGTAT-TAT
1 AATAAA-TAAAAATGGAAAGTATATAT
45046350 AATAA
1 AATAA
45046355 TACTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.00, G:0.11, T:0.30
Consensus pattern (26 bp):
AATAAATAAAAATGGAAAGTATATAT
Found at i:45048185 original size:44 final size:44
Alignment explanation
Indices: 45048103--45048865 Score: 303
Period size: 44 Copynumber: 16.9 Consensus size: 44
45048093 TTTTAATCCA
* * ** *
45048103 CTCCATTGCAACTTTAGGGAGAT-AGAATTAATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAG-ATTGGTATCTTCAATCTG
* * *
45048147 CTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * *
45048191 CTCCAATGCAAC-T-ATGGAGATAAGGTTGGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAATCTG
* ** * **
45048234 CTCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATAAG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAATCTG
* * * * * ** *
45048284 AC-CTACCGCAACTTTAGAGG-CATAGGATTCATCAT-TTTAATCTG
1 -CTCCACTGCAACTTCAG-GGAGATAAGATTGGT-ATCTTCAATCTG
* * * * ** *
45048328 CTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * *
45048372 TTCCGCTGCAACTTCAGGGTGATAAGATTGGTATCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * * *
45048416 CTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCAATCTG
** * *
45048461 CTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAATCTG
* * * * *
45048511 AC-CTACTGCAACTTCAGAGG-CATAGGATT--TATCGTTTTAATCCG
1 -CTCCACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAATCTG
* * * * ** * *
45048555 CTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * *
45048599 CTCCGCTGCAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGG-TATCTTCAATCTG
* ** ** * *
45048644 CTTCACTGCAACTTCAATGAGATAAGACTTGTTATGGTAGATTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-----T-TGGTATCTTCAATCTG
* * * * ** * **
45048694 AC-CTATTGCAGCTTCAGAGG-CATTGGATT--TATCATTTTAATCCA
1 -CTCCACTGCAACTTCAG-GGAGATAAGATTGGTATC--TTCAATCTG
* * ** * * *
45048738 CTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTTAATATG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* * * *
45048782 CTCCACTGCAACTTCTGGGAGATAAGATTAGTATCTTCAACCTT
1 CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
* *
45048826 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTTCA
1 CTCCACTGCAACTTCAGGGAGATAA-GATTGGTATCTTCA
45048866 GTCTTGATCT
Statistics
Matches: 533, Mismatches: 139, Indels: 93
0.70 0.18 0.12
Matches are distributed among these distances:
42 18 0.03
43 31 0.06
44 290 0.54
45 97 0.18
46 6 0.01
49 1 0.00
50 76 0.14
51 14 0.03
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGGTATCTTCAATCTG
Found at i:45048270 original size:225 final size:226
Alignment explanation
Indices: 45048006--45048638 Score: 930
Period size: 227 Copynumber: 2.8 Consensus size: 226
45047996 TTGCTTCAAC
* * * * * *
45048006 CTGCTCCACTGCGACTTCAGAGAGATAAAACTCGTTATGGTAGATTTAATCCAACTTACTGTAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCAACCTACTGCAAC
* * * *
45048071 TTTAGAGGTATAGGATTCATCGTTTTAATCCACTCCATTGCAACTTTAGGGAGATAGAATTAATA
66 TTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATA
* *
45048136 GCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTACTCCAATGCA
131 GCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTACTCCAATACA
45048201 AC-TATG-GAGATAAGGTTGGTTATCTTCAGT
196 ACTTA-GAGAGATAAGGTTGGTTATCTTCAGT
* * *
45048231 CTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAAT-AAGACCTACCGCAA
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCA-ACCTACTGCAA
* *
45048295 CTTTAGAGGCATAGGATTCATCATTTTAATCTGCTCCATTACAACTTTAGGGAGATAGGATTAAT
65 CTTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAAT
* * * * *
45048360 AGCTTCAATCTGTTCCGCTGCAACTTCAGGGTGATAAGATTGGTATCTTCAACCTGCTCCACTAC
130 AGCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTACTCCAATAC
*
45048425 AACTTCAGAGAGATAAGGTTTGTTATCTTCAGT
195 AACTT-AGAGAGATAAGGTTGGTTATCTTCAGT
*
45048458 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCAACCTACTGCAAC
* * * * * *
45048523 TTCAGAGGCATAGGATTTATCGTTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATA
66 TTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATA
*
45048588 GCTTCAATTTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTTATCTTCA
131 GCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGG-TATCTTCA
45048639 GTCTGCTTCA
Statistics
Matches: 363, Mismatches: 39, Indels: 9
0.88 0.09 0.02
Matches are distributed among these distances:
224 1 0.00
225 173 0.48
226 2 0.01
227 179 0.49
228 8 0.02
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (226 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCAACCTACTGCAAC
TTTAGAGGCATAGGATTCATCGTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATA
GCTTCAATCTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTATCTTCAACCTACTCCAATACA
ACTTAGAGAGATAAGGTTGGTTATCTTCAGT
Found at i:45048485 original size:89 final size:88
Alignment explanation
Indices: 45048325--45048487 Score: 218
Period size: 89 Copynumber: 1.8 Consensus size: 88
45048315 TCATTTTAAT
* * * * *
45048325 CTGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGTTCCGCTGCAACTTCAGG
1 CTGCTCCACTACAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGG
*
45048390 GTGATAAGATTGGTATCTTCAAC
66 GAGATAAGATTGGTATCTTCAAC
* ** * *
45048413 CTGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
1 CTGCTCCACTACAACTTCAGAGAGAT-AGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAG
45048478 GGAGATAAGA
65 GGAGATAAGA
45048488 CTTGTTATGG
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 23 0.37
89 40 0.63
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (88 bp):
CTGCTCCACTACAACTTCAGAGAGATAGGATTAATAGCTTCAATCTGCTCCACTGCAACTTCAGG
GAGATAAGATTGGTATCTTCAAC
Found at i:45048533 original size:227 final size:227
Alignment explanation
Indices: 45047963--45048678 Score: 969
Period size: 225 Copynumber: 3.2 Consensus size: 227
45047953 GGTTTTAGTT
* * * ** *
45047963 TGCTCCACTGCAACATCA-ATAAGATAAGGCTTGTT-GCTTCAACCTGCTCCACTGCGACTTCAG
1 TGCTCCACTGCAACTTCAGA-GAGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
* * * * * * *
45048026 AGAGATAAAACTCGTTATGGTAGATTTAATCCAACTTACTGTAACTTTAGAGGTATAGGATTCAT
65 GGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCAT
* * * *
45048091 CGTTTTAATCCACTCCATTGCAACTTTAGGGAGATAGAATTAATAGCTTCAATCTGCTCCACTGC
130 CGTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGC
45048156 AACTTTAGGGAGATAAGATTGGTATCTTCAACC
195 AACTTTAGGGAGATAAGATTGGTATCTTCAACC
* * *
45048189 TACTCCAATGCAAC-T-ATG-GAGATAAGG-TTGGTTATCTTCAGTCTGCTCCACTGTAACTTCA
1 TGCTCCACTGCAACTTCA-GAGAGATAAGGCTT-GTTATCTTCAGTCTGCTCCACTGCAACTTCA
** *
45048250 GGGAGATAAGACTTGTTATGGTAGATTTAATAAGACCTACCGCAACTTTAGAGGCATAGGATTCA
64 GGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCA
* * *
45048315 TCATTTTAATCTGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGTTCCGCTG
129 TCGTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTG
* *
45048380 CAACTTCAGGGTGATAAGATTGGTATCTTCAACC
194 CAACTTTAGGGAGATAAGATTGGTATCTTCAACC
* *
45048414 TGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTCAGAGAGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* *
45048479 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCATC
* * * * *
45048544 GTTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATTTGCTCCGCTGCA
131 GTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGCA
**
45048609 ACTTTAGGGAGATAAGATTGGTTATCTTCAGTC
196 ACTTTAGGGAGATAAGATTGG-TATCTTCAACC
* *
45048642 TGCTTCACTGCAACTTCA-ATGAGATAAGACTTGTTAT
1 TGCTCCACTGCAACTTCAGA-GAGATAAGGCTTGTTAT
45048679 GGTAGATTTA
Statistics
Matches: 428, Mismatches: 52, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
223 2 0.00
224 12 0.03
225 179 0.42
226 14 0.03
227 179 0.42
228 42 0.10
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (227 bp):
TGCTCCACTGCAACTTCAGAGAGATAAGGCTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTTAGAGGCATAGGATTCATC
GTTTTAATCCGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTTCAATCTGCTCCGCTGCA
ACTTTAGGGAGATAAGATTGGTATCTTCAACC
Found at i:45048641 original size:183 final size:183
Alignment explanation
Indices: 45048414--45048860 Score: 655
Period size: 183 Copynumber: 2.4 Consensus size: 183
45048404 ATCTTCAACC
* * * * *
45048414 TGCTCCACTACAACTTCAGAGAGATAAGGTTTGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
45048479 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
* * *
45048544 GTTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATT
131 ATTTTAATCCACTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATA
* * * **
45048597 TGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCACTGCAACTTCAAT
1 TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
* * *
45048662 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTATTGCAGCTTCAGAGGCATTGGATTTATC
66 GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
* * *
45048727 ATTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTTAATA
131 ATTTTAATCCACTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATA
** *
45048780 TGCTCCACTGCAACTTCT-GGGAGATAAGATTAG-TATCTTCAACCTTCTCCACTGCAACTTCAG
1 TGCTCCACTGCAACTT-TAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAG
**
45048843 GGAGATAAGGTTTGTTAT
65 GGAGATAAGACTTGTTAT
45048861 CTTCAGTCTT
Statistics
Matches: 235, Mismatches: 28, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
182 40 0.17
183 194 0.83
184 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (183 bp):
TGCTCCACTGCAACTTTAGGGAGATAAGATTAGTTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCAGAGGCATAGGATTTATC
ATTTTAATCCACTCCACTACAACTTCAAGGAAATAGGATTAATAGCTTCAATA
Found at i:45048735 original size:227 final size:226
Alignment explanation
Indices: 45048010--45048869 Score: 717
Period size: 227 Copynumber: 3.8 Consensus size: 226
45048000 TTCAACCTGC
* * * * * * * * *
45048010 TCCACTGCGACTTCAGAGAGATAAAACTCGTTATGGTAGATTTAATCCAACTTACTGTAACTTTA
1 TCCACTGCAACTTCAGGGACATAAGACT-GTTAT-GCAGATTTAATCCGACCTACTGCAACTTCA
* * ** * * * *
45048075 GAGGTATAGGATTCATCGTTTTAATCCACTCCATTGCAACTTTAGGGAGATAGAATTAATAGCTT
64 GAGGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * * ** * * *
45048140 CAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTGG-TATCTTCAACCTACTCCAATGCAAC-
129 CAATTTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACT
* * **
45048203 T-ATG-GAGATAAG-GTTGGTTATCTTCAGTCTGC
194 TCA-GAGAGATAAGACTT-GTTATCGTCAGTCTAA
* * * ** * *
45048235 TCCACTGTAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATAAGACCTACCGCAACTTTA
1 TCCACTGCAACTTCAGGGACATAAGAC-TGTTAT-GCAGATTTAATCCGACCTACTGCAACTTCA
* * * *
45048300 GAGGCATAGGATTCATCATTTTAATCTGCTCCATTACAACTTTAGGGAGATAGGATTAATAGCTT
64 GAGGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * * **
45048365 CAATCTGTTCCGCTGCAACTTCAGGGTGATAAGATTGG-TATCTTCAACCTGCTCCACTACAACT
129 CAATTTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACT
** * **
45048429 TCAGAGAGATAAGGTTTGTTATCTTCAGTCTGC
194 TCAGAGAGATAAGACTTGTTATCGTCAGTCTAA
* *
45048462 TCCACTGCAACTTCAGGGAGATAAGACTTGTTATGGTAGATTTAATCCGACCTACTGCAACTTCA
1 TCCACTGCAACTTCAGGGACATAAGAC-TGTTAT-GCAGATTTAATCCGACCTACTGCAACTTCA
* * * *
45048527 GAGGCATAGGATTTATCGTTTTAATCCGCTCCACTACAACTTCAAGGAAATAGGATTAATAGCTT
64 GAGGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTT
* * *
45048592 CAATTTGCTCCGCTGCAACTTTAGGGAGATAAGATTGGTTATCTTCAGTCTGCTTCACTGCAACT
129 CAATTTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACT
* *
45048657 TCA-ATGAGATAAGACTTGTTATGGT-AGATTTAA
194 TCAGA-GAGATAAGACTTGTTATCGTCAG-TCTAA
* ** * * *
45048690 TCCGACCTATTGCAGCTTCAGAGG-CATTGGA-T-TTAT-CA-TTTTAATCC-ACTCCACTACAA
1 TCC-A-C---TGCAACTTCAG-GGACATAAGACTGTTATGCAGATTTAATCCGAC-CTACTGCAA
* * * * * * * *
45048749 CTTCAG-GGAGATAGGATTAATAGCTTTAATATGCTCCACTGCAACTTCTGGGAGATAAGATTAG
59 CTTCAGAGG-CATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAA
* * * * *
45048813 TATCTTCAACCTT-CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTATCTTCAGTCT
123 TAGCTTCAA-TTTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCT
45048870 TGATCTGCTT
Statistics
Matches: 541, Mismatches: 77, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
225 168 0.31
226 7 0.01
227 292 0.54
228 51 0.09
229 1 0.00
230 5 0.01
231 1 0.00
233 14 0.03
234 2 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (226 bp):
TCCACTGCAACTTCAGGGACATAAGACTGTTATGCAGATTTAATCCGACCTACTGCAACTTCAGA
GGCATAGGATTAATCGTTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTAATAGCTTCA
ATTTGCTCCGCTGCAACTTCAGGGAGATAAGATTGGTTATCTTCAGTCTGCTCCACTACAACTTC
AGAGAGATAAGACTTGTTATCGTCAGTCTAA
Found at i:45049673 original size:24 final size:24
Alignment explanation
Indices: 45049645--45049699 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
45049635 ATTTTCCCCT
*
45049645 CTGTAATCTTCTAGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
45049669 CTGTAATCTTCAAGGTTCAATCCA
1 CTGTAATCTTCAAGGTTCAATCCA
*
45049693 CTATAAT
1 CTGTAAT
45049700 TTTGGGACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (24 bp):
CTGTAATCTTCAAGGTTCAATCCA
Found at i:45050701 original size:25 final size:26
Alignment explanation
Indices: 45050673--45050722 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
45050663 TTTTTTTATC
45050673 ATTTTCA-TTTTTTTGAAATATTTTG
1 ATTTTCATTTTTTTTGAAATATTTTG
*
45050698 ATTTTGATTTTTTTTGAAATATTTT
1 ATTTTCATTTTTTTTGAAATATTTT
45050723 TTGATTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.24, C:0.02, G:0.08, T:0.66
Consensus pattern (26 bp):
ATTTTCATTTTTTTTGAAATATTTTG
Found at i:45055896 original size:26 final size:25
Alignment explanation
Indices: 45055867--45055922 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
45055857 AATAAAAATA
*
45055867 AATAAA-TAAAAATGGAATGTATATAT
1 AATAAAGTAAAAAT-GAAAGTAT-TAT
*
45055893 AATAAAGTAAACATGAAAGTATTAT
1 AATAAAGTAAAAATGAAAGTATTAT
45055918 AATAA
1 AATAA
45055923 TACTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.59, C:0.02, G:0.11, T:0.29
Consensus pattern (25 bp):
AATAAAGTAAAAATGAAAGTATTAT
Found at i:45057863 original size:10 final size:10
Alignment explanation
Indices: 45057836--45057939 Score: 73
Period size: 10 Copynumber: 10.9 Consensus size: 10
45057826 TTTAAAAAGG
45057836 TATATAAAATT
1 TATA-AAAATT
45057847 TATTAAAAATT
1 TA-TAAAAATT
45057858 TATAAAAATT
1 TATAAAAATT
45057868 TAT-AAAATT
1 TATAAAAATT
*
45057877 T-T--AAATA
1 TATAAAAATT
* *
45057884 TGTAAGAATT
1 TATAAAAATT
*
45057894 TAT-CAAATT
1 TATAAAAATT
45057903 TATTAAAAAATT
1 TA-T-AAAAATT
45057915 TATAAAAA--
1 TATAAAAATT
45057923 T-T-AAAATT
1 TATAAAAATT
45057931 TATAAAAAT
1 TATAAAAAT
45057940 ATTAATAATT
Statistics
Matches: 75, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
6 4 0.05
7 6 0.08
8 4 0.05
9 14 0.19
10 27 0.36
11 11 0.15
12 9 0.12
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (10 bp):
TATAAAAATT
Found at i:45057865 original size:21 final size:21
Alignment explanation
Indices: 45057821--45057924 Score: 80
Period size: 22 Copynumber: 5.2 Consensus size: 21
45057811 GGAAAACTAT
* **
45057821 AATTTTTTAAAAAGGTATATAA
1 AATTTATTAAAAATTTATA-AA
45057843 AATTTATTAAAAATTTATAAA
1 AATTTATTAAAAATTTATAAA
45057864 AATTTA-T-AAAATTT-T--A
1 AATTTATTAAAAATTTATAAA
* *
45057880 AA--TATGTAAGAATTTAT-CA
1 AATTTAT-TAAAAATTTATAAA
45057899 AATTTATTAAAAAATTTATAAA
1 AATTTATT-AAAAATTTATAAA
45057921 AATT
1 AATT
45057925 AAAATTTATA
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
14 2 0.03
16 4 0.06
17 6 0.09
18 2 0.03
19 10 0.15
20 2 0.03
21 20 0.30
22 21 0.31
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (21 bp):
AATTTATTAAAAATTTATAAA
Found at i:45057874 original size:9 final size:9
Alignment explanation
Indices: 45057838--45057937 Score: 73
Period size: 9 Copynumber: 10.8 Consensus size: 9
45057828 TAAAAAGGTA
45057838 TATAAAATT
1 TATAAAATT
45057847 TATTAAAAATT
1 TA-T-AAAATT
45057858 TATAAAAATT
1 TAT-AAAATT
45057868 TATAAAATT
1 TATAAAATT
*
45057877 T-TAAATATG
1 TATAAA-ATT
*
45057886 TA-AGAATT
1 TATAAAATT
*
45057894 TATCAAATT
1 TATAAAATT
45057903 TATTAAAAAATT
1 TA-T--AAAATT
*
45057915 TATAAAA-A
1 TATAAAATT
45057923 T-TAAAATT
1 TATAAAATT
45057931 TATAAAA
1 TATAAAA
45057938 ATATTAATAA
Statistics
Matches: 73, Mismatches: 8, Indels: 20
0.72 0.08 0.20
Matches are distributed among these distances:
7 5 0.07
8 10 0.14
9 29 0.40
10 13 0.18
11 9 0.12
12 7 0.10
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (9 bp):
TATAAAATT
Found at i:45057951 original size:18 final size:16
Alignment explanation
Indices: 45057909--45057939 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
45057899 AATTTATTAA
45057909 AAAATTTATAAAAATT
1 AAAATTTATAAAAATT
45057925 AAAATTTATAAAAAT
1 AAAATTTATAAAAAT
45057940 ATTAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATTTATAAAAATT
Found at i:45058178 original size:16 final size:17
Alignment explanation
Indices: 45058159--45058208 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
45058149 GAATTTGAAT
45058159 TTTTCATAATTTTA-AA
1 TTTTCATAATTTTATAA
45058175 TTTTCATAACATTTTATAA
1 TTTTCAT-A-ATTTTATAA
45058194 TTTT-AGTAATTTTAT
1 TTTTCA-TAATTTTAT
45058209 TAAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.23
17 8 0.27
18 8 0.27
19 7 0.23
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTCATAATTTTATAA
Found at i:45067695 original size:17 final size:17
Alignment explanation
Indices: 45067673--45067711 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
45067663 CTTGCCCGGT
*
45067673 GCCGCCACCATTCTGTC
1 GCCGCCACCATTCTGAC
*
45067690 GCCGCCACCGTTCTGAC
1 GCCGCCACCATTCTGAC
45067707 GCCGC
1 GCCGC
45067712 GCCGCACGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.10, C:0.49, G:0.23, T:0.18
Consensus pattern (17 bp):
GCCGCCACCATTCTGAC
Found at i:45068340 original size:37 final size:37
Alignment explanation
Indices: 45068296--45068369 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
45068286 AAACGAAGCT
45068296 GTTTTGGCCTTAATGCCCTTTTACCCGCATGTCGACC
1 GTTTTGGCCTTAATGCCCTTTTACCCGCATGTCGACC
*
45068333 GTTTTGGCCTTAATGCCCTTTTACCCGCGTGTCGACC
1 GTTTTGGCCTTAATGCCCTTTTACCCGCATGTCGACC
45068370 CGATCCGACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.12, C:0.32, G:0.20, T:0.35
Consensus pattern (37 bp):
GTTTTGGCCTTAATGCCCTTTTACCCGCATGTCGACC
Found at i:45068699 original size:12 final size:12
Alignment explanation
Indices: 45068682--45068721 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
45068672 TTATTTAACC
*
45068682 TTATTATTGCTA
1 TTATTATTACTA
45068694 TTATTATTACTA
1 TTATTATTACTA
*
45068706 TTATTAATTATTA
1 TTATT-ATTACTA
45068719 TTA
1 TTA
45068722 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:45073065 original size:22 final size:22
Alignment explanation
Indices: 45073023--45073067 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
45073013 AATGATTATT
*
45073023 TTTTATTCTTTCATCCAAATCA
1 TTTTATTCATTCATCCAAATCA
*
45073045 TTTT-TTCATTCATTCATAATCA
1 TTTTATTCATTCATCCA-AATCA
45073067 T
1 T
45073068 ACTGTGCAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (22 bp):
TTTTATTCATTCATCCAAATCA
Found at i:45073819 original size:25 final size:25
Alignment explanation
Indices: 45073791--45073859 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
45073781 ACTCAAAAAA
45073791 AAAAATAAAAAAAATCAAAAAAATC
1 AAAAATAAAAAAAATCAAAAAAATC
*
45073816 AAAAA-ATCAAAAAATCAAAAAAATC
1 AAAAATA-AAAAAAATCAAAAAAATC
45073841 AAAAATAAAAAAAATCAAA
1 AAAAATAAAAAAAATCAAA
45073860 GTCAAAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
24 1 0.03
25 38 0.95
26 1 0.03
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.12
Consensus pattern (25 bp):
AAAAATAAAAAAAATCAAAAAAATC
Found at i:45073855 original size:9 final size:8
Alignment explanation
Indices: 45073785--45073853 Score: 70
Period size: 9 Copynumber: 8.5 Consensus size: 8
45073775 GTTCAGACTC
45073785 AAAA-AAA
1 AAAATAAA
45073792 AAAATAAAA
1 AAAAT-AAA
45073801 AAAATCAAA
1 AAAAT-AAA
*
45073810 AAAATCAA
1 AAAATAAA
*
45073818 AAAATCAA
1 AAAATAAA
45073826 AAAATCAAA
1 AAAAT-AAA
*
45073835 AAAAT-CA
1 AAAATAAA
45073842 AAAATAAA
1 AAAATAAA
45073850 AAAA
1 AAAA
45073854 ATCAAAGTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
7 10 0.19
8 20 0.38
9 23 0.43
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAATAAA
Found at i:45073867 original size:16 final size:16
Alignment explanation
Indices: 45073791--45073859 Score: 95
Period size: 16 Copynumber: 4.2 Consensus size: 16
45073781 ACTCAAAAAA
45073791 AAAAATAAAAAAAATC
1 AAAAATAAAAAAAATC
45073807 AAAAA-AATCAAAAAATC
1 AAAAATAA--AAAAAATC
*
45073824 AAAAAATCAAAAAAATC
1 -AAAAATAAAAAAAATC
45073841 AAAAATAAAAAAAATC
1 AAAAATAAAAAAAATC
45073857 AAA
1 AAA
45073860 GTCAAAAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
15 2 0.04
16 23 0.49
17 16 0.34
18 5 0.11
19 1 0.02
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAATAAAAAAAATC
Found at i:45073889 original size:7 final size:6
Alignment explanation
Indices: 45073872--45073917 Score: 65
Period size: 6 Copynumber: 7.3 Consensus size: 6
45073862 CAAAAATAGG
*
45073872 AGAAAA AGAAAGA AGAAAAA AGAAAA AGAAAA AGAAAA AGATAA AG
1 AGAAAA AGAAA-A AG-AAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
45073918 GAGAGGTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 28 0.76
7 6 0.16
8 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (6 bp):
AGAAAA
Found at i:45074746 original size:16 final size:17
Alignment explanation
Indices: 45074728--45074771 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 17
45074718 AATGATGATG
45074728 AAAATGAAAAAAAATGA
1 AAAATGAAAAAAAATGA
45074745 AAAATG--AAAAAATGAA
1 AAAATGAAAAAAAATG-A
45074761 AAAATGAAAAA
1 AAAATGAAAAA
45074772 GTAAAAATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.33
16 7 0.29
17 6 0.25
18 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATGAAAAAAAATGA
Found at i:45074747 original size:8 final size:8
Alignment explanation
Indices: 45074736--45074771 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
45074726 TGAAAATGAA
45074736 AAAAAATG
1 AAAAAATG
45074744 -AAAAATG
1 AAAAAATG
45074751 AAAAAATG
1 AAAAAATG
45074759 AAAAAATG
1 AAAAAATG
45074767 AAAAA
1 AAAAA
45074772 GTAAAAATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAAATG
Found at i:45074778 original size:16 final size:16
Alignment explanation
Indices: 45074728--45074778 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
45074718 AATGATGATG
45074728 AAAATGAAAAAA-AATGA
1 AAAATGAAAAAATAA--A
*
45074745 AAAATGAAAAAATGAA
1 AAAATGAAAAAATAAA
*
45074761 AAAATGAAAAAGTAAA
1 AAAATGAAAAAATAAA
45074777 AA
1 AA
45074779 TAGAGAGGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 17 0.57
17 12 0.40
18 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAATGAAAAAATAAA
Found at i:45076094 original size:44 final size:44
Alignment explanation
Indices: 45076046--45076360 Score: 154
Period size: 44 Copynumber: 7.2 Consensus size: 44
45076036 AGATACAAAC
45076046 CTTGCCTCTCTCGATTGTAGCGGAGCTGGTTCAAGACAAAAGAT
1 CTTGCCTCTCTCGATTGTAGCGGAGCTGGTTCAAGACAAAAGAT
* * ** * * *
45076090 CTTGCCTTTCT-GCATTGACAGCAAAGCAGG-TCGAAGACAGAA-AC
1 CTTGCCTCTCTCG-ATTG-TAGCGGAGCTGGTTC-AAGACAAAAGAT
* * *
45076134 CTTGCCTCTCTCGGTTGT-GATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTCTCGATTGTAG-CGGAGCTGGTTCAAGACAAAAGAT
* * * * *
45076178 CTTGCCT-TC-CTGCATTGACAGCGAAGCAGG-TCGAAGACACAA-AC
1 CTTGCCTCTCTC-G-ATTG-TAGCGGAGCTGGTTC-AAGACAAAAGAT
* * *
45076222 CTTGCCTCTCTCGGTTGT-GATGGAGCTGGTTGAAGACAAAAGAT
1 CTTGCCTCTCTCGATTGTAG-CGGAGCTGGTTCAAGACAAAAGAT
* * * * * *
45076266 CTTGCCT-TC-CTGCATTGACAGCGAAGC-AGATCGAAGACACAA-AC
1 CTTGCCTCTCTC-G-ATTG-TAGCGGAGCTGGTTC-AAGACAAAAGAT
* * * *
45076310 CTTGCCTCTCTCGGTTGT-GATGGAGCTGGTTGAAGACAACAGAT
1 CTTGCCTCTCTCGATTGTAG-CGGAGCTGGTTCAAGACAAAAGAT
45076354 CTTGCCT
1 CTTGCCT
45076361 TCCTGTGTTA
Statistics
Matches: 192, Mismatches: 52, Indels: 54
0.64 0.17 0.18
Matches are distributed among these distances:
42 5 0.03
43 45 0.23
44 89 0.46
45 49 0.26
46 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (44 bp):
CTTGCCTCTCTCGATTGTAGCGGAGCTGGTTCAAGACAAAAGAT
Found at i:45076159 original size:88 final size:88
Alignment explanation
Indices: 45075998--45076413 Score: 642
Period size: 88 Copynumber: 4.7 Consensus size: 88
45075988 ATGAAGTTGC
* * * *
45075998 AGATCTTGCCTTTCTGCATTAACAGCGAAGCAGATCGAAGATACAAACCTTGCCTCTCTCGATTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
* *
45076063 T-AGCGGAGCTGGTTCAAGACAAA
66 TGA-TGGAGCTGGTTGAAGACAAA
* * * *
45076086 AGATCTTGCCTTTCTGCATTGACAGCAAAGCAGGTCGAAGACAGAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
45076151 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
*
45076174 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
45076239 TGATGGAGCTGGTTGAAGACAAA
66 TGATGGAGCTGGTTGAAGACAAA
45076262 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
*
45076327 TGATGGAGCTGGTTGAAGACAAC
66 TGATGGAGCTGGTTGAAGACAAA
** *
45076350 AGATCTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAA-A-ACAAAGCCTTGCCTC-CATCGGT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTC-TCGGT
45076412 TG
64 TG
45076414 CAGTGAAGCT
Statistics
Matches: 309, Mismatches: 16, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
86 6 0.02
87 17 0.06
88 285 0.92
89 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTCTCGGTTG
TGATGGAGCTGGTTGAAGACAAA
Found at i:45076546 original size:46 final size:45
Alignment explanation
Indices: 45076479--45076946 Score: 240
Period size: 44 Copynumber: 10.6 Consensus size: 45
45076469 TCGCACCAGG
* * *
45076479 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-ATTTCAGA
* * * *
45076525 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAT-TTCAGA
* * * **
45076569 TCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAAGA-TAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGATTTCA-GA
** * ** *
45076613 TCTTATCTCTTTGA-AGTTATAGCAGAGCAGATC---G-TATCA-A
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGATTTCAGA
* * * *
45076653 GTCTTATCTCCCTGAAATTACAGTGGGGCAGACCGAAAAATTTCAGA
1 -TCTTATCTCCCTGAGATTACAGTGGAGCAGATCG-AAGATTTCAGA
* * * *
45076700 TCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAGCTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAT-TTCAGA
* * * * * * **
45076744 TCCTATCTCTCTGAGATTATAGTGGAGCGGAT-TAA-AATAAAGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGATTTCA-GA
* ** * * * *
45076788 TCTTATCTCTCTGA-AGTTACAGCAGAGTAGATCG--CA--CCAGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGATTTCAGA
* * *
45076829 TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-ATTTCAGA
* ** * *
45076875 TCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAGCTAGT-A-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGAT-TTCAGA
*
45076919 TCCTATCTCCCTGAGATTACAGTGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
45076947 GGATTAAAAT
Statistics
Matches: 312, Mismatches: 81, Indels: 60
0.69 0.18 0.13
Matches are distributed among these distances:
40 1 0.00
41 50 0.16
42 7 0.02
43 7 0.02
44 136 0.44
45 8 0.03
46 102 0.33
47 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGATTTCAGA
Found at i:45076659 original size:175 final size:175
Alignment explanation
Indices: 45076432--45077040 Score: 945
Period size: 175 Copynumber: 3.5 Consensus size: 175
45076422 CTGATTGAAG
* *
45076432 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
45076497 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
66 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
*
45076562 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAGAT
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
* * * * * *
45076607 AAAGGATCTTATCTCTTTGAAGTTATAGCAGAGCAGATCGTATCAAGTCTTATCTCCCTGAAATT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
** * **
45076672 ACAGTGGGGCAGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAGTAGAGCAGATTGAAG
66 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
* *
45076737 CTAGTAATCCTATCTCTCTGAGATTATAGTGGAGCGGATTAAAAT
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
* *
45076782 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAGGTCTTATTTCCCTGAGATT
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
*
45076847 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAG
66 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
45076912 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
* * * * *
45076957 AAAGGATCTTATCTCTCTGAAGTTACAGTAAAGTAGATCGTATC-AGATCTTATCTCCCTAAGCA
1 AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAG-TCTTATCTCCCTGAG-A
* *
45077021 GT--AGTGGAACAGATCGAAGA
64 TTACAGTGGAACAGACCGAAGA
45077041 TGGCGGAATT
Statistics
Matches: 391, Mismatches: 41, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
174 18 0.05
175 371 0.95
176 2 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (175 bp):
AAAGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCACCAAGTCTTATCTCCCTGAGATT
ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAT
Found at i:45078528 original size:12 final size:12
Alignment explanation
Indices: 45078511--45078550 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
45078501 TTATTTAACC
*
45078511 TTATTATTGCTA
1 TTATTATTACTA
45078523 TTATTATTACTA
1 TTATTATTACTA
*
45078535 TTATTAATTATTA
1 TTATT-ATTACTA
45078548 TTA
1 TTA
45078551 GTTTTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.60
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:45079573 original size:108 final size:109
Alignment explanation
Indices: 45079442--45079750 Score: 491
Period size: 108 Copynumber: 2.9 Consensus size: 109
45079432 CTAAAAAAAT
45079442 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * **
45079507 TTTCTCGTTCAACCAAATGGCTTAATAT-CCTTTTAAAATTTTA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCCTTAAAAAATTTTA
*
45079550 AAATAAGGTAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
45079615 TTTCTCGTTCAACCAAATAGCTAAATATCCCTTAAAAAATTTTA
66 TTTCTCGTTCAACCAAATAGCTAAATATCCCTTAAAAAATTTTA
* * *
45079659 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
* * *
45079721 TTTCTCGTTTAACCAAATTGCCAAATATCC
66 TTTCTCGTTCAACCAAATAGCTAAATATCC
45079751 TCTTGAATTT
Statistics
Matches: 188, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
106 27 0.14
108 115 0.61
109 46 0.24
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATT
TTTCTCGTTCAACCAAATAGCTAAATATCCCTTAAAAAATTTTA
Found at i:45084404 original size:19 final size:19
Alignment explanation
Indices: 45084380--45084420 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
45084370 ATAATAGTAA
45084380 TATATAATATATTAATTAT
1 TATATAATATATTAATTAT
* * *
45084399 TATATATTATTTTTATTAT
1 TATATAATATATTAATTAT
45084418 TAT
1 TAT
45084421 CTTGATTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
TATATAATATATTAATTAT
Found at i:45090250 original size:3 final size:3
Alignment explanation
Indices: 45090244--45090268 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45090234 TTTTTTTTTT
45090244 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
45090269 AGGGATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:45091041 original size:37 final size:39
Alignment explanation
Indices: 45090989--45091064 Score: 95
Period size: 37 Copynumber: 2.0 Consensus size: 39
45090979 ATATGTTATT
* **
45090989 TTTATATATTATATATTTTATTATACATA-AAA-ATTAAA
1 TTTATATATAATATATAATATTATA-ATATAAATATTAAA
45091027 TTTATA-ATAATATATAATATTATAATATAAATATTAAA
1 TTTATATATAATATATAATATTATAATATAAATATTAAA
45091065 AAATTCTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 3 0.09
37 18 0.55
38 12 0.36
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (39 bp):
TTTATATATAATATATAATATTATAATATAAATATTAAA
Found at i:45091051 original size:15 final size:14
Alignment explanation
Indices: 45091033--45091062 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
45091023 TAAATTTATA
45091033 ATAATATATAATATT
1 ATAATATA-AATATT
45091048 ATAATATAAATATT
1 ATAATATAAATATT
45091062 A
1 A
45091063 AAAAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATAATATAAATATT
Found at i:45091058 original size:31 final size:32
Alignment explanation
Indices: 45091021--45091129 Score: 93
Period size: 31 Copynumber: 3.4 Consensus size: 32
45091011 ATACATAAAA
45091021 ATTAAATTTATAATAATATATAATATTATAAT
1 ATTAAATTTATAATAATATATAATATTATAAT
* * *
45091053 A-TAAATATTA-AAAAAT-TCTAAATATGAT-AT
1 ATTAAAT-TTATAATAATATAT-AATATTATAAT
45091083 ATTAAATTTTAATAAATAATATATAATTATTA-AAT
1 ATTAAA-TTT-AT-AATAATATATAA-TATTATAAT
*
45091118 ATTAAATCTATA
1 ATTAAATTTATA
45091130 TATTTATATA
Statistics
Matches: 60, Mismatches: 7, Indels: 20
0.69 0.08 0.23
Matches are distributed among these distances:
30 5 0.08
31 23 0.38
32 7 0.12
33 2 0.03
34 9 0.15
35 14 0.23
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (32 bp):
ATTAAATTTATAATAATATATAATATTATAAT
Found at i:45100764 original size:35 final size:34
Alignment explanation
Indices: 45100720--45101155 Score: 496
Period size: 35 Copynumber: 12.8 Consensus size: 34
45100710 TTCACTTGTC
* * *
45100720 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* * *
45100755 TTCTGTTGCAGGGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
*
45100788 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
*
45100822 TTTTGTTGCAGGGAATCTCTCCTGTTTACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* * * *
45100857 TTTTGTTGCAGGAAATCTTTCCTGTTGA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
*
45100890 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
45100924 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* * *
45100959 TTTTGTTGCAGTGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
*
45100992 -TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
*
45101026 TTTTGTTGCAGGGGATCTCTCCTGTTCACACATTA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCAC-CATTA
* * *
45101061 TTTTGTTGCAGTGAATCTTTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
* *
45101094 -TTTCTTGCAGGGAATCTCTCCTCCTGTTCA-CATCA
1 TTTTGTTGCAGGGAA--TCT-CTCCTGTTCACCATTA
*
45101129 -TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
45101156 TGTATTATTT
Statistics
Matches: 350, Mismatches: 39, Indels: 27
0.84 0.09 0.06
Matches are distributed among these distances:
32 93 0.27
33 19 0.05
34 15 0.04
35 223 0.64
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (34 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACCATTA
Found at i:45100901 original size:102 final size:102
Alignment explanation
Indices: 45100720--45101155 Score: 709
Period size: 102 Copynumber: 4.3 Consensus size: 102
45100710 TTCACTTGTC
* * * * * *
45100720 TTTTCTTGCAGGGAATATTTCCTGTTCACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACA
45100785 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
45100822 TTTTGTTGCAGGGAATCTCTCCTGTTTACACATTATTTTGTTGCAG-GAAATCTTTCCTGTTGAC
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTG-AATCTTTCCTGTTCAC
45100886 ATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
65 ATCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
45100924 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACA
45100989 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
66 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
*
45101026 TTTTGTTGCAGGGGATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACA
*
45101091 TCATTTCTTGCAGGGAATCTCTCCTCCTGTTCA--CATCA
66 TCATTTCTTGCAGGGAA--TCT-CTCCTGTTCACGCATTA
*
45101129 -TTTCTTGCAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
45101156 TGTATTATTT
Statistics
Matches: 316, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
101 1 0.00
102 297 0.94
103 5 0.02
104 3 0.01
105 10 0.03
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (102 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTGCAGTGAATCTTTCCTGTTCACA
TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:45109124 original size:25 final size:25
Alignment explanation
Indices: 45109045--45109124 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
45109035 ACACACCACA
* * *
45109045 GCTCTTATGAGCATCCCGATAATAG
1 GCTCTTATGAGCATCCCGTTATTTG
* * *
45109070 GCTCTCATGAGCTTCCCGTTATTTA
1 GCTCTTATGAGCATCCCGTTATTTG
*
45109095 ACTCTTATGAGCATCCCGTTATTTG
1 GCTCTTATGAGCATCCCGTTATTTG
45109120 GCTCT
1 GCTCT
45109125 CCGGAGCTTC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.36
Consensus pattern (25 bp):
GCTCTTATGAGCATCCCGTTATTTG
Found at i:45109131 original size:25 final size:25
Alignment explanation
Indices: 45109045--45109179 Score: 96
Period size: 25 Copynumber: 5.5 Consensus size: 25
45109035 ACACACCACA
* * * *
45109045 GCTCTTATGAGCATCCCGATAATAG
1 GCTCTCATGAGCATCCCGTTATTTG
* *
45109070 GCTCTCATGAGCTTCCCGTTATTTA
1 GCTCTCATGAGCATCCCGTTATTTG
* *
45109095 ACTCTTATGAGCATCCCGTTATTTG
1 GCTCTCATGAGCATCCCGTTATTTG
** * * *
45109120 GCTCTCCGGAGCTTCCTGATA-TTG
1 GCTCTCATGAGCATCCCGTTATTTG
* *
45109144 GCT-TGCATGAGCTTCCCG-AATTTG
1 GCTCT-CATGAGCATCCCGTTATTTG
*
45109168 GCTCTCTTGAGC
1 GCTCTCATGAGC
45109180 TTCTCGTTTA
Statistics
Matches: 85, Mismatches: 22, Indels: 7
0.75 0.19 0.06
Matches are distributed among these distances:
23 2 0.02
24 28 0.33
25 55 0.65
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.35
Consensus pattern (25 bp):
GCTCTCATGAGCATCCCGTTATTTG
Found at i:45109168 original size:24 final size:23
Alignment explanation
Indices: 45109128--45109233 Score: 63
Period size: 24 Copynumber: 4.4 Consensus size: 23
45109118 TGGCTCTCCG
*
45109128 GAGCTTCCTGATATTGGCTTGCAT
1 GAGCTTCCCGAT-TTGGCTTGCAT
*
45109152 GAGCTTCCCGAATTTGGCTCT-CTT
1 GAGCTTCCCG-ATTTGGCT-TGCAT
* * * *
45109176 GAGCTTCTCG-TTTACGACTCGTAT
1 GAGCTTCCCGATTT--GGCTTGCAT
* *
45109200 GAGCTTCCCGATATTTGGCTTGTAA
1 GAGCTTCCCG--ATTTGGCTTGCAT
45109225 GAGCTTCCC
1 GAGCTTCCC
45109234 ATTACATAGA
Statistics
Matches: 63, Mismatches: 11, Indels: 15
0.71 0.12 0.17
Matches are distributed among these distances:
22 3 0.05
24 39 0.62
25 18 0.29
27 3 0.05
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (23 bp):
GAGCTTCCCGATTTGGCTTGCAT
Found at i:45111126 original size:25 final size:25
Alignment explanation
Indices: 45111049--45111155 Score: 90
Period size: 25 Copynumber: 4.3 Consensus size: 25
45111039 ATATTCAGGA
* *
45111049 AAGCTCATACGAGCATGTA-AACGGG
1 AAGCTCATGCGAGC-TGAATAACGGG
* * * **
45111074 AAGCTCCTCCGAGCTGATTAACAAG
1 AAGCTCATGCGAGCTGAATAACGGG
*
45111099 AAGCTCATGTGAGCTGAATAACGGG
1 AAGCTCATGCGAGCTGAATAACGGG
* ** *
45111124 AAGCTTATGCGAGCCAAATATCGGG
1 AAGCTCATGCGAGCTGAATAACGGG
45111149 AAGCTCA
1 AAGCTCA
45111156 AGAGGGCCAA
Statistics
Matches: 63, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
24 2 0.03
25 61 0.97
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
AAGCTCATGCGAGCTGAATAACGGG
Found at i:45114272 original size:51 final size:50
Alignment explanation
Indices: 45114126--45114282 Score: 217
Period size: 51 Copynumber: 3.1 Consensus size: 50
45114116 TGATCAATGT
* *
45114126 TATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGATCAATA-
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-AC
* * * *
45114176 TCATTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGC
1 T-ATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA-C
45114228 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAAC
1 TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AAC
45114279 TATC
1 TATC
45114283 TTATACTCAT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
50 2 0.02
51 88 0.95
52 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (50 bp):
TATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAAC
Found at i:45114294 original size:51 final size:50
Alignment explanation
Indices: 45114132--45114299 Score: 196
Period size: 51 Copynumber: 3.3 Consensus size: 50
45114122 ATGTTATCCG
* *
45114132 GTACACATAGTAGCCTACACTTAGTACTACACATGTGATC-AA-TATCATT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACTATC-TT
* * * **
45114181 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAAGCTATCCG
1 --GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAA-CTATCTT
45114234 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCATAACTATCTT
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCA-AACTATCTT
* *
45114285 ATACTCATAGTAGCC
1 GTACACATAGTAGCC
45114300 CATATAATCC
Statistics
Matches: 99, Mismatches: 14, Indels: 8
0.82 0.12 0.07
Matches are distributed among these distances:
51 91 0.92
52 4 0.04
54 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCAAACTATCTT
Found at i:45115492 original size:16 final size:17
Alignment explanation
Indices: 45115463--45115494 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
45115453 AGAAATTTCA
45115463 AATATTTCATATCATAT
1 AATATTTCATATCATAT
45115480 AATATTT-ATATCATA
1 AATATTTCATATCATA
45115495 AACCAATGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATTTCATATCATAT
Found at i:45127764 original size:16 final size:16
Alignment explanation
Indices: 45127743--45127786 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
45127733 ATTCTAATTC
45127743 ATTTGATATATTTAAT
1 ATTTGATATATTTAAT
*
45127759 ATTTGATATATTAAAT
1 ATTTGATATATTTAAT
*
45127775 AATT-ATATATTT
1 ATTTGATATATTT
45127787 TTAAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
15 7 0.28
16 18 0.72
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTTGATATATTTAAT
Found at i:45133683 original size:49 final size:49
Alignment explanation
Indices: 45133626--45133725 Score: 200
Period size: 49 Copynumber: 2.0 Consensus size: 49
45133616 CCTTAATCGT
45133626 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
1 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
45133675 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
1 TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
45133724 TT
1 TT
45133726 CGGAATCAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (49 bp):
TTAAAATGAACTCATATTCGATCTTGCTATGTCTTTGCCCGTAGAACCA
Done.