Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 162 of 185
Found at i:49918594 original size:16 final size:16
Alignment explanation
Indices: 49918573--49918622 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 16
49918563 AATTTGCTAT
*
49918573 TACACCACTAATCCAA
1 TACACCTCTAATCCAA
*
49918589 TACACCTCTAATTTCAA
1 TACACCTCTAA-TCCAA
49918606 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
49918622 T
1 T
49918623 TCAGGGAACC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
16 15 0.50
17 15 0.50
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:49922560 original size:43 final size:43
Alignment explanation
Indices: 49922493--49922579 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
49922483 TCATGATGTA
* * *
49922493 CAAGATTTCCTTGAGTAAGTAAATGTATTATATCTTTTATTAC
1 CAAGATTTACTTGAGTAAGAAAATGCATTATATCTTTTATTAC
* * *
49922536 CAAGATTTACTTGATTAAGAAAATGCATTGTATGTTTTATTAC
1 CAAGATTTACTTGAGTAAGAAAATGCATTATATCTTTTATTAC
49922579 C
1 C
49922580 TTGCATATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (43 bp):
CAAGATTTACTTGAGTAAGAAAATGCATTATATCTTTTATTAC
Found at i:49923063 original size:43 final size:43
Alignment explanation
Indices: 49922835--49923038 Score: 275
Period size: 43 Copynumber: 4.7 Consensus size: 43
49922825 TATTTTTTTA
* * *
49922835 ATAGCGGCGTTTGTGGGAAAAGTGTCGCTAAAAGTGATGATCT
1 ATAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCT
* *
49922878 ATAGTGACGTTTGTGGGAAAAGCGTCGCTAAAAGTGATGATCT
1 ATAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCT
* *
49922921 ATAGCGACGTTTGTGGGAAAAGTGTCGTTAAAAGTCATGATCT
1 ATAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCT
* * * *
49922964 TTAGCGACGTTTGTGGGAAAAGCG-CTGCTAAAGGTCTTGTTCT
1 ATAGCGACGTTTGTGGGAAAAGCGTC-GCTAAAAGTCATGATCT
* *
49923007 ATAGCGGCGTTTGTGTGAAAAGCGTCGCTAAA
1 ATAGCGACGTTTGTGGGAAAAGCGTCGCTAAA
49923039 GGTCTTGTTC
Statistics
Matches: 143, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
42 1 0.01
43 141 0.99
44 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.29
Consensus pattern (43 bp):
ATAGCGACGTTTGTGGGAAAAGCGTCGCTAAAAGTCATGATCT
Found at i:49927217 original size:43 final size:43
Alignment explanation
Indices: 49927155--49927241 Score: 138
Period size: 43 Copynumber: 2.0 Consensus size: 43
49927145 AGCTTTTATC
*
49927155 TCACATTTAATAACACATTAAATCTGCCTAACTTTCATGCATT
1 TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
* * *
49927198 TCACATTTAATAACTCATTACATCTGACTAACTTTCTTGCATT
1 TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
49927241 T
1 T
49927242 AATTATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.40
Consensus pattern (43 bp):
TCACATTTAATAACACATTAAATCTGACTAACTTTCATGCATT
Found at i:49928254 original size:34 final size:34
Alignment explanation
Indices: 49928214--49928286 Score: 110
Period size: 34 Copynumber: 2.1 Consensus size: 34
49928204 TAAAAGATCC
* ***
49928214 TAAAAAATATTCAATTTATTTATACTAGTAACAA
1 TAAAAAATATTCAAATTAAGAATACTAGTAACAA
49928248 TAAAAAATATTCAAATTAAGAATACTAGTAACAA
1 TAAAAAATATTCAAATTAAGAATACTAGTAACAA
49928282 TAAAA
1 TAAAA
49928287 TATTTATACT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.32
Consensus pattern (34 bp):
TAAAAAATATTCAAATTAAGAATACTAGTAACAA
Found at i:49930532 original size:24 final size:24
Alignment explanation
Indices: 49930483--49930532 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
49930473 TAATATATAA
** * *
49930483 AATTTTTAAAAATTAGAAATTTTT
1 AATTTTTAAAAACCAGAAAATATT
49930507 AATTTTTAAAAACCAGAAAATATT
1 AATTTTTAAAAACCAGAAAATATT
49930531 AA
1 AA
49930533 AAATTAAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (24 bp):
AATTTTTAAAAACCAGAAAATATT
Found at i:49943918 original size:42 final size:43
Alignment explanation
Indices: 49943811--49943965 Score: 154
Period size: 43 Copynumber: 3.6 Consensus size: 43
49943801 CTCGTACAAT
* * * *
49943811 GCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATAACGAT
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGAC
* * * *
49943854 GCCACTGTCCCAGATAGGGTCTTACACGTAATCATAT-ACGAC
1 GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGAC
* *
49943896 GCCAATGTCCCAAACATGGTCTTACACGTAAATCTCAAAT--CGAT
1 GCCAATGTCCCAGACATGGTCTTACACGT-AA--TCAAATAACGAC
**
49943940 GCCAATGTCCCAGATGTGGTCTTACA
1 GCCAATGTCCCAGACATGGTCTTACA
49943966 TGATATAACA
Statistics
Matches: 92, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.32
43 32 0.35
44 26 0.28
45 5 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACATGGTCTTACACGTAATCAAATAACGAC
Found at i:49944531 original size:18 final size:20
Alignment explanation
Indices: 49944494--49944532 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
49944484 TTTCATTTTC
*
49944494 AATTCAACCCAAAATACTCA
1 AATTCAACCAAAAATACTCA
49944514 AATTC-ACCAAAAAT-CTCA
1 AATTCAACCAAAAATACTCA
49944532 A
1 A
49944533 TACAAAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 8 0.44
20 5 0.28
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (20 bp):
AATTCAACCAAAAATACTCA
Found at i:49947918 original size:19 final size:17
Alignment explanation
Indices: 49947896--49947931 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
49947886 AAGGATAGGC
49947896 AATCTTAGATATGATATGA
1 AATCTTAGA-A-GATATGA
49947915 AATCTTAGAAGATATGA
1 AATCTTAGAAGATATGA
49947932 TTTTGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGA
Found at i:49947930 original size:22 final size:23
Alignment explanation
Indices: 49947902--49947946 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49947892 AGGCAATCTT
49947902 AGATATGA-TATGAAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
* *
49947924 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
49947947 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGAAATCTTAGA
Found at i:49948166 original size:22 final size:23
Alignment explanation
Indices: 49948140--49948184 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49948130 TGTGGAGTTT
49948140 AGATATGA-TATGAAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
* *
49948162 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
49948185 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGAAATCTTAGA
Found at i:49948318 original size:238 final size:238
Alignment explanation
Indices: 49947900--49948372 Score: 919
Period size: 238 Copynumber: 2.0 Consensus size: 238
49947890 ATAGGCAATC
49947900 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
1 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
49947965 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
66 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
49948030 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
131 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
49948095 ACTCAAATTTCTCCCTCTCTTCTGCTCTTATTTTCTGTGGAGT
196 ACTCAAATTTCTCCCTCTCTTCTGCTCTTATTTTCTGTGGAGT
49948138 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
1 TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
49948203 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
66 CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
* *
49948268 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTGGAGCAATAATAATTCTTAAGAGTATCC
131 TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
*
49948333 ACTCAAATTTCTCCCTCTCTTCTGTTCTTATTTTCTGTGG
196 ACTCAAATTTCTCCCTCTCTTCTGCTCTTATTTTCTGTGG
49948373 CTTGTCCTTA
Statistics
Matches: 232, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
238 232 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.39
Consensus pattern (238 bp):
TTAGATATGATATGAAATCTTAGAAGATATGATTTTGTAATCTTAGAGATTTAATTTGTAGATAC
CCTTTAATCTTAGTCGTTGATGTAATTGATCTGTACTGTTGGATTTGGGGAGGCTCAACTATAAA
TAGAGGTCCCTCCCTTCATTGTAAAACACTGGAGTTTAGAGCAATAATAATTCTTAAGAGCATCC
ACTCAAATTTCTCCCTCTCTTCTGCTCTTATTTTCTGTGGAGT
Found at i:49955384 original size:44 final size:44
Alignment explanation
Indices: 49955312--49955767 Score: 380
Period size: 45 Copynumber: 10.2 Consensus size: 44
49955302 CGGTGAAACC
* * * *
49955312 ACAAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * **
49955356 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGGAGACTGAAGAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * * * * *
49955400 AGCAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATG
1 A-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* * * **
49955446 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAAA
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* * * * * *
49955491 ACAAGTCTTATC-CCCTTGAAGTTGCAGTGGGGCAAACTGAAAATGG
1 ACAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTAAAGT-T
* * * * **
49955537 A-AAATCTTATCTCCCTAAATTTGTAGTGGAACAGATTAAAGCC
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * *
49955580 A-ATAAT-TCTATCTCCCTGAAGTTGCAGTGTAGCGGGTTAAAGTT
1 ACA-AATCT-TATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* * * *
49955624 ACAAATCTTAACTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATG
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TT
* **
49955669 GCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTTATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
* *
49955713 ACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
*
49955757 ACAAGTCTTAT
1 ACAAATCTTAT
49955768 TGAAGAAAGC
Statistics
Matches: 328, Mismatches: 73, Indels: 22
0.78 0.17 0.05
Matches are distributed among these distances:
43 3 0.01
44 154 0.47
45 165 0.50
46 6 0.02
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTT
Found at i:49955483 original size:90 final size:89
Alignment explanation
Indices: 49955328--49955745 Score: 419
Period size: 90 Copynumber: 4.7 Consensus size: 89
49955318 CCTATCTCCT
* * * * * *
49955328 TGAAGTTACAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGGAGAC
1 TGAAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
49955393 TGAAGAAAGCAAGTCTTATCCCCC
66 TGAAGAAAGCAAGTCTTATCCCCC
* * * *
49955417 TAAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 TGAAGTTGCAGTGGAGCAGACTAAAG-TGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
* *
49955482 CTGAAGAAAACAAGTCTTATCCCCT
65 CTGAAGAAAGCAAGTCTTATCCCCC
* * * * * * *
49955507 TGAAGTTGCAGTGGGGCAAACTGAAAATGGA-AAATCTTATCTCCCTAAATTTGTAGTGGAACAG
1 TGAAGTTGCAGTGGAGCAGACT-AAAGT-GACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
* * * * * *
49955571 ATTAAAGCCAA-TAATTC-TATCTCCC
64 ACTGAAG-AAAGCAAGTCTTATCCCCC
* * ** * *
49955596 TGAAGTTGCAGTGTAGCGGGTTAAAGTTACAAATCTTAACTCCCTGAAGTTGCAGTGGAGCAGAC
1 TGAAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
** * *
49955661 TGAAGATGGCAAATCTTATCTCCC
66 TGAAGAAAGCAAGTCTTATCCCCC
** * * *
49955685 TGAAGTTGCAGTGGAGCTTATTAAAGTTACAAATCCTATCTCCCTGAAGTTGCAGTGGAGC
1 TGAAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGC
49955746 GGATTAAAGT
Statistics
Matches: 268, Mismatches: 54, Indels: 14
0.80 0.16 0.04
Matches are distributed among these distances:
87 1 0.00
88 41 0.15
89 105 0.39
90 116 0.43
91 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (89 bp):
TGAAGTTGCAGTGGAGCAGACTAAAGTGACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
TGAAGAAAGCAAGTCTTATCCCCC
Found at i:49955683 original size:89 final size:89
Alignment explanation
Indices: 49955313--49955745 Score: 442
Period size: 89 Copynumber: 4.9 Consensus size: 89
49955303 GGTGAAACCA
* * * * *
49955313 CAAATCCTATCTCCTTGAAGTTACAGTGGAGCGGATTAAAGTTACAAGTCTTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
*
49955378 TGCAGTGGAGGAGACTGAAGAAAG
66 TGCAGTGGAGCAGACTGAAGAAAG
* * * * * * **
49955402 CAAGTCTTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TTACAAATCTTATCTCCCTGAAG
*
49955467 TTGCAGTGGAGCAGACTGAAGAAAA
65 TTGCAGTGGAGCAGACTGAAGAAAG
* * * * * * *
49955492 CAAGTCTTATC-CCCTTGAAGTTGCAGTGGGGCAAACTGAAAATGGA-AAATCTTATCTCCCTAA
1 CAAATCTTATCTCCC-TGAAGTTGCAGTGGAGCAGA-TTAAAGT-TACAAATCTTATCTCCCTGA
* * * * * *
49955555 ATTTGTAGTGGAACAGATTAAAGCCAA-
63 AGTTGCAGTGGAGCAGACTGAAG-AAAG
* * * * * *
49955582 TAATTC-TATCTCCCTGAAGTTGCAGTGTAGCGGGTTAAAGTTACAAATCTTAACTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
**
49955646 TGCAGTGGAGCAGACTGAAGATGG
66 TGCAGTGGAGCAGACTGAAGAAAG
** *
49955670 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCTTATTAAAGTTACAAATCCTATCTCCCTGAAGT
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
49955735 TGCAGTGGAGC
66 TGCAGTGGAGC
49955746 GGATTAAAGT
Statistics
Matches: 278, Mismatches: 57, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
87 1 0.00
88 42 0.15
89 116 0.42
90 114 0.41
91 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.27
Consensus pattern (89 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTTACAAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGACTGAAGAAAG
Found at i:49956061 original size:44 final size:44
Alignment explanation
Indices: 49956006--49956186 Score: 118
Period size: 44 Copynumber: 4.1 Consensus size: 44
49955996 TTGTGGATCC
* * *
49956006 TATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGACGGTGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCT
* * ** * ** *
49956050 TATCTTCCTAAGATAGTAG-GGAAGCAGATTTAAG-CCACCAGTCT
1 TATCTCCCTAAG-CAGTAGTGG-AGCAGATCGAAGACGATGAATCT
* * * * * * * *
49956094 TATCTCCCTGACCAGCAGTGGAGTAGGTTGAAGA--TTGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATG-A-ATCT
*
49956138 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAACACGATGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCT
49956182 TATCT
1 TATCT
49956187 TCCCGAGGTA
Statistics
Matches: 97, Mismatches: 32, Indels: 16
0.67 0.22 0.11
Matches are distributed among these distances:
43 14 0.14
44 65 0.67
45 16 0.16
46 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGATGAATCT
Found at i:49956149 original size:132 final size:132
Alignment explanation
Indices: 49955976--49956367 Score: 538
Period size: 132 Copynumber: 3.0 Consensus size: 132
49955966 CTCTGAATTT
* * *
49955976 GCAGTAGAGTAGGTTGAAGATTGTGGATCCTATCTCTCTAAGCAGTAGTGGAGCAGATCAAAGAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
** *
49956041 GGTGAATCTTATCTTCCTAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
66 GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
49956106 CA
131 CA
* *
49956108 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAACAC
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
* * * * * * *
49956173 GATGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTATGCTACCAGTCCTATCTTCCTAAG
66 GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
49956237 CA
131 CA
* * * *
49956239 GTAGTGGGGTAGGTTGAAGATTGTATATCCTGTC-CCCTTAA-CAAGTAGTGGAGCAGATCAAAG
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCC-TAAGC-AGTAGTGGAGCAGATCAAAG
* * * *
49956302 AAGGCGAGTCTTATCTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACCAGTCTTATCTCCCTG
64 ACGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTG
49956367 A
129 A
49956368 TGTTGCAGTG
Statistics
Matches: 226, Mismatches: 31, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
130 4 0.02
131 109 0.48
132 113 0.50
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGAC
GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAC
CA
Found at i:49956286 original size:131 final size:132
Alignment explanation
Indices: 49955976--49956365 Score: 518
Period size: 131 Copynumber: 3.0 Consensus size: 132
49955966 CTCTGAATTT
* * *
49955976 GCAGTAGAGTAGGTTGAAGATTGTGGATCCTAT-CTCTCTAAGCAGTAGTGGAGCAGATCAAAGA
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCCCCT-TAAGCAGTAGTGGAGCAGATCAAAGA
** * *
49956040 CGGTGAATCTTATCTTCCTAAGATAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGA
65 CGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAA
49956105 CCA
130 CCA
* *
49956108 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCTCCC-TAAGCAGTAGTGGAGCAGATCGAACA
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATC-CCCTTAAGCAGTAGTGGAGCAGATCAAAGA
* * * * *
49956172 CGATGAATCTTATCTTCCCGAGGTAGTA-GGAAGCAGATTTATGCTACCAGTCCTATCTTCCTAA
65 CGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAA
*
49956236 GCA
130 CCA
* * * *
49956239 GTAGTGGGGTAGGTTGAAGATTGTATATCCTGTCCCCTTAA-CAAGTAGTGGAGCAGATCAAAGA
1 GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCCCCTTAAGC-AGTAGTGGAGCAGATCAAAGA
* * * *
49956303 AGGCGAGTCTTATCTTCCCGAGGTAGTAGGGAAGCAAATTTAAGCCACCAGTCTTATCTCCCT
65 CGGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCT
49956366 GATGTTGCAG
Statistics
Matches: 223, Mismatches: 30, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
130 4 0.02
131 109 0.49
132 108 0.48
134 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (132 bp):
GCAGTGGAGTAGGTTGAAGATTGTAGATCCTATCCCCTTAAGCAGTAGTGGAGCAGATCAAAGAC
GGTGAATCTTATCTTCCCGAGGTAGTAGGGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAC
CA
Found at i:49956843 original size:19 final size:17
Alignment explanation
Indices: 49956821--49956856 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
49956811 AAAGATAGGC
49956821 AATCTTAGATATGATATGA
1 AATCTTAGA-A-GATATGA
49956840 AATCTTAGAAGATATGA
1 AATCTTAGAAGATATGA
49956857 TTTTGTAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 1 0.06
19 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (17 bp):
AATCTTAGAAGATATGA
Found at i:49956855 original size:22 final size:23
Alignment explanation
Indices: 49956827--49956871 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
49956817 AGGCAATCTT
49956827 AGATATGA-TATGAAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
* *
49956849 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGAAATCTTAGA
49956872 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGAAATCTTAGA
Found at i:49956881 original size:22 final size:22
Alignment explanation
Indices: 49956840--49956885 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
49956830 TATGATATGA
*
49956840 AATCTTAGAAGATATGATTTTGT
1 AATCTTAGAAGATAT-AATTTGT
*
49956863 AATCTTAG-AGATTTAATTTGT
1 AATCTTAGAAGATATAATTTGT
49956884 AA
1 AA
49956886 ATACCCTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 5 0.24
23 8 0.38
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.43
Consensus pattern (22 bp):
AATCTTAGAAGATATAATTTGT
Found at i:49956884 original size:21 final size:23
Alignment explanation
Indices: 49956827--49956885 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
49956817 AGGCAATCTT
* *
49956827 AGATATG-ATATGAAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
49956849 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
49956871 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
49956886 ATACCCTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 9 0.29
22 11 0.35
23 11 0.35
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:49963228 original size:45 final size:45
Alignment explanation
Indices: 49963178--49963299 Score: 181
Period size: 45 Copynumber: 2.7 Consensus size: 45
49963168 TGTTAGTATA
*
49963178 GTGTGGATGAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
1 GTGTGGATAAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
* * *
49963223 GTGTGGATAAACCACTCATTGGTGCAGATAAAAGTTGCTAATATG
1 GTGTGGATAAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
* * *
49963268 GTGTGGGTAAACCACTCAACGGTGTAGATAAA
1 GTGTGGATAAACCACTCATCGGTGCAGATAAA
49963300 TTGCTCATAC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (45 bp):
GTGTGGATAAACCACTCATCGGTGCAGATAAAAGCTGCTAATACG
Found at i:49965357 original size:49 final size:49
Alignment explanation
Indices: 49965304--49965460 Score: 117
Period size: 48 Copynumber: 3.1 Consensus size: 49
49965294 AATCACTTAA
*
49965304 CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATTAAATAACTT
1 CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATAAAATAACTT
**** * * *
49965353 CAAAAC-A-TATTAAAAAACAACCATG--TCA-AATCCCTCATCAAAAATCACTT
1 CAAAACAAGT-TTGTTTAACAACCAAGATTAATAAT--CT-AT--AAAATAACTT
* *
49965403 AACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
1 --CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATAAAATAACTT
49965454 CAAAACA
1 CAAAACA
49965461 TATTCAAAAA
Statistics
Matches: 78, Mismatches: 17, Indels: 26
0.64 0.14 0.21
Matches are distributed among these distances:
45 3 0.04
46 2 0.03
47 3 0.04
48 14 0.18
49 13 0.17
50 8 0.10
51 8 0.10
52 6 0.08
53 13 0.17
54 3 0.04
55 2 0.03
56 3 0.04
ACGTcount: A:0.50, C:0.19, G:0.04, T:0.27
Consensus pattern (49 bp):
CAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATAAAATAACTT
Found at i:49965446 original size:53 final size:53
Alignment explanation
Indices: 49965288--49965447 Score: 133
Period size: 44 Copynumber: 3.1 Consensus size: 53
49965278 TTCAAAATTA
*
49965288 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAGATTAATAATCT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
* * * * * * *
49965341 AT--TAAATAACTT--CAAAAC-A---T-ATTAAAAAACAACCATGTCA-AATCCCT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAA-AAT-TAATAAT--CT
49965388 CATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
1 -ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
49965442 ATCAAA
1 ATCAAA
49965448 TAACTTCAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 30
0.64 0.11 0.25
Matches are distributed among these distances:
44 9 0.12
45 6 0.08
46 2 0.03
47 2 0.03
48 3 0.04
49 6 0.08
50 8 0.10
51 8 0.10
52 6 0.08
53 9 0.12
54 2 0.03
55 2 0.03
56 6 0.08
57 9 0.12
ACGTcount: A:0.51, C:0.19, G:0.04, T:0.27
Consensus pattern (53 bp):
ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCT
Found at i:49965463 original size:101 final size:101
Alignment explanation
Indices: 49965288--49965490 Score: 361
Period size: 101 Copynumber: 2.0 Consensus size: 101
49965278 TTCAAAATTA
* *
49965288 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAGATTAATAATCTATTAAATAACTT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
*
49965353 CAAAACATATTAAAAAACAACCATGTCAAATCCCTC
66 CAAAACATATTAAAAAACAACCATGGCAAATCCCTC
49965389 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
1 ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
* *
49965454 CAAAACATATTCAAAAACAACCATGGCAAGTCCCTC
66 CAAAACATATTAAAAAACAACCATGGCAAATCCCTC
49965490 A
1 A
49965491 ACCTTTAACA
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.49, C:0.21, G:0.04, T:0.26
Consensus pattern (101 bp):
ATCAAAAATCACTTAACAAAACAAGTTTGTTTAACAACCAAAATTAATAATCTATCAAATAACTT
CAAAACATATTAAAAAACAACCATGGCAAATCCCTC
Found at i:49965732 original size:20 final size:20
Alignment explanation
Indices: 49965687--49965733 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
49965677 CTTTCTTTTG
*
49965687 TATTTTATTTACTTAAATTT
1 TATTTTATTTACTTAAATTC
*
49965707 TCTTTTATTTAC-TAAATTAC
1 TATTTTATTTACTTAAATT-C
49965727 TATTTTA
1 TATTTTA
49965734 ACCTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATTTACTTAAATTC
Found at i:49966715 original size:18 final size:17
Alignment explanation
Indices: 49966676--49966717 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
49966666 TAGCTTTCAC
*
49966676 AATTTAAGTTTTCAAAC
1 AATTTAAGTTTTCAAAA
*
49966693 TATTTAAGTTTTTCAAAA
1 AATTTAAG-TTTTCAAAA
49966711 AATTTAA
1 AATTTAA
49966718 ATTTAAAACC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (17 bp):
AATTTAAGTTTTCAAAA
Found at i:49969001 original size:30 final size:31
Alignment explanation
Indices: 49968945--49969006 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
49968935 ATTTGATCAT
49968945 TGAACTATTAAAAAATTTTCATTTAAGTCAC
1 TGAACTATTAAAAAATTTTCATTTAAGTCAC
*
49968976 TGAACTATTCAAAAATTTT-ATTTAAGTCAC
1 TGAACTATTAAAAAATTTTCATTTAAGTCAC
49969006 T
1 T
49969007 AGGTTATTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 12 0.40
31 18 0.60
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (31 bp):
TGAACTATTAAAAAATTTTCATTTAAGTCAC
Found at i:49970158 original size:123 final size:124
Alignment explanation
Indices: 49969864--49970167 Score: 350
Period size: 123 Copynumber: 2.4 Consensus size: 124
49969854 TTGAAATTTT
* * *
49969864 AAAAGAAATACTCATTTGATTA-CAATGTAACATTCCTAAGTTAAGGTACGTTCAGTGCCCCAAA
1 AAAA-AAATACTCACTTGA-TAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCAGT--CACAAA
* * *
49969928 AGAGTCAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGTGTAGGTAGGGGGCTAGCAGG
62 ACAG-CAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGCGTAAGTAGGGGGCTAGCAGG
* * *
49969992 AAAAAAATACTTACTGGATAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCAGT-ACAAGAACC
1 AAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCAGTCACAA-AACA
* * *
49970056 G-A-TAGTTGTTAGACTAGCTTTGGCTTGATGGC-ATAGGCGTAATTAGGAGGGTTGGCAAGG
65 GCAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAAT-GGCGTAAGTAGG-GGGCTAGC-AGG
* * *
49970116 -AAAAAATACTCACTTGATAGCAATGTAACATTCCTAAATTAAGCTAGGTTCA
1 AAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCA
49970168 ATGTCTCAGA
Statistics
Matches: 154, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
121 2 0.01
122 39 0.25
123 54 0.35
124 6 0.04
125 3 0.02
126 2 0.01
127 44 0.29
128 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (124 bp):
AAAAAAATACTCACTTGATAGCAATGTAACATTCCTAAGTTAAGGTAAGTTCAGTCACAAAACAG
CAGTAGTTGTTAGACTAGCTTTGGCTTGATGGCAATGGCGTAAGTAGGGGGCTAGCAGG
Found at i:49976463 original size:13 final size:13
Alignment explanation
Indices: 49976445--49976475 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
49976435 AGCTAGCTGT
*
49976445 TGCTAGTAACTGC
1 TGCTAGTAACTAC
49976458 TGCTAGTAACTAC
1 TGCTAGTAACTAC
49976471 TGCTA
1 TGCTA
49976476 ACAACATAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (13 bp):
TGCTAGTAACTAC
Found at i:49977760 original size:6 final size:6
Alignment explanation
Indices: 49977749--49977776 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
49977739 AAATATTTTG
49977749 TTATAT TTATAT TTATAT TTATAT TTAT
1 TTATAT TTATAT TTATAT TTATAT TTAT
49977777 CATAATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:49978327 original size:11 final size:11
Alignment explanation
Indices: 49978311--49978335 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
49978301 GTATCGAACT
49978311 ATTATAAATGG
1 ATTATAAATGG
49978322 ATTATAAATGG
1 ATTATAAATGG
49978333 ATT
1 ATT
49978336 GTCTAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (11 bp):
ATTATAAATGG
Found at i:49978469 original size:34 final size:34
Alignment explanation
Indices: 49978423--49978504 Score: 155
Period size: 34 Copynumber: 2.4 Consensus size: 34
49978413 AACATTATAA
49978423 AATTTTGAAACTTACTAATATAATTGTGCACGATC
1 AATTTT-AAACTTACTAATATAATTGTGCACGATC
49978458 AATTTTAAACTTACTAATATAATTGTGCACGATC
1 AATTTTAAACTTACTAATATAATTGTGCACGATC
49978492 AATTTTAAACTTA
1 AATTTTAAACTTA
49978505 AATACTAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
34 41 0.87
35 6 0.13
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (34 bp):
AATTTTAAACTTACTAATATAATTGTGCACGATC
Found at i:49981939 original size:54 final size:54
Alignment explanation
Indices: 49981874--49981977 Score: 131
Period size: 54 Copynumber: 1.9 Consensus size: 54
49981864 TTAGAAGAGT
* * *
49981874 TAGCAAAAAAAAAAAATTAG-AGCTAACTAGAAGAGGTAAC-CAAAAAGGGAAGGC
1 TAGCAAAAAAAAAAAA-AAGAAGC-AACTAGAAGAGCTAACGAAAAAAGGGAAGGC
* *
49981928 TAGCCAAAAAAAAAAAAAGAAGCAATTAGAAGAGCTAACGAAAAAAGGGA
1 TAGCAAAAAAAAAAAAAAGAAGCAACTAGAAGAGCTAACGAAAAAAGGGA
49981978 GTTAGCCTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 16 0.37
54 27 0.63
ACGTcount: A:0.59, C:0.11, G:0.21, T:0.10
Consensus pattern (54 bp):
TAGCAAAAAAAAAAAAAAGAAGCAACTAGAAGAGCTAACGAAAAAAGGGAAGGC
Found at i:49982005 original size:27 final size:28
Alignment explanation
Indices: 49981969--49982058 Score: 103
Period size: 28 Copynumber: 3.2 Consensus size: 28
49981959 GAGCTAACGA
* *
49981969 AAAAAGGGAGTTAGCCTGATGAGTTG-CT
1 AAAAA-GGAGTTAGCCAGAAGAGTTGACT
* *
49981997 AAAAAGGAGTTAGCCAGAAGAGTTTGCCA
1 AAAAAGGAGTTAGCCAGAAGAG-TTGACT
49982026 AAAAAGG-GTTAGCCAGAAGAGTTAGACT
1 AAAAAGGAGTTAGCCAGAAGAGTT-GACT
49982054 AAAAA
1 AAAAA
49982059 AAAGGCTAGC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
27 17 0.31
28 29 0.54
29 8 0.15
ACGTcount: A:0.42, C:0.11, G:0.28, T:0.19
Consensus pattern (28 bp):
AAAAAGGAGTTAGCCAGAAGAGTTGACT
Found at i:49982025 original size:13 final size:13
Alignment explanation
Indices: 49982003--49982050 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
49981993 TGCTAAAAAG
49982003 GAGTTAGCCAGAA
1 GAGTTAGCCAGAA
* *
49982016 GAGTTTGCCAAAAAA
1 GAGTTAGCC--AGAA
*
49982031 GGGTTAGCCAGAA
1 GAGTTAGCCAGAA
49982044 GAGTTAG
1 GAGTTAG
49982051 ACTAAAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
13 17 0.63
15 10 0.37
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (13 bp):
GAGTTAGCCAGAA
Found at i:49982085 original size:28 final size:28
Alignment explanation
Indices: 49982007--49982086 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 28
49981997 AAAAAGGAGT
* * *
49982007 TAGCCAGAAGAGTTTGCCAAAAAAGGGT
1 TAGCCAGAAGAGTTTGCAAAAAAAAGGC
*
49982035 TAGCCAGAAGAGTTAGACTAAAAAAAAGGC
1 TAGCCAGAAGAGTTTG-C-AAAAAAAAGGC
*
49982065 TAGCTAGAAGAGTTTGCAAAAA
1 TAGCCAGAAGAGTTTGCAAAAA
49982087 TGGGAGTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
28 20 0.45
29 2 0.05
30 22 0.50
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.17
Consensus pattern (28 bp):
TAGCCAGAAGAGTTTGCAAAAAAAAGGC
Found at i:49982116 original size:58 final size:58
Alignment explanation
Indices: 49982007--49982116 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 58
49981997 AAAAAGGAGT
*
49982007 TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCCAGAAGAGTTAGACTAAAAAAAAGGC
1 TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCAAGAAGAGTTAGACTAAAAAAAAGGC
* * * *
49982065 TAGCTAGAAGAGTTTG-CAAAAATGGGAGTTAGTAAGAATAGTTAGAC-AAAAA
1 TAGCCAGAAGAGTTTGCCAAAAA-AGG-GTTAGCAAGAAGAGTTAGACTAAAAA
49982117 GGAGGTAACA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
57 6 0.13
58 22 0.49
59 17 0.38
ACGTcount: A:0.45, C:0.10, G:0.25, T:0.19
Consensus pattern (58 bp):
TAGCCAGAAGAGTTTGCCAAAAAAGGGTTAGCAAGAAGAGTTAGACTAAAAAAAAGGC
Found at i:49983771 original size:51 final size:51
Alignment explanation
Indices: 49983706--49983806 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
49983696 TTTTTTTACA
* *
49983706 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTGGAATTTTTTTTGTT
1 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTGTT
49983757 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTGT
1 ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTGT
49983807 CCAAAAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (51 bp):
ATTTTAACATTTATTTTGAATAAACCATTCTTGTTTAGAATATTTTTTGTT
Found at i:49984808 original size:21 final size:21
Alignment explanation
Indices: 49984784--49984856 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
49984774 CCGTAAGGGT
49984784 TGAACGAAAGCTCATAAGAGC
1 TGAACGAAAGCTCATAAGAGC
* * * *
49984805 TGAACGAAAACCCATAAGGGT
1 TGAACGAAAGCTCATAAGAGC
* *
49984826 TAAAC-ACAAGCTCAAAAGAGC
1 TGAACGA-AAGCTCATAAGAGC
49984847 TGAACAGAAA
1 TGAAC-GAAA
49984857 CCCATTAGGG
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.89
22 2 0.05
23 1 0.03
ACGTcount: A:0.48, C:0.19, G:0.21, T:0.12
Consensus pattern (21 bp):
TGAACGAAAGCTCATAAGAGC
Found at i:49984816 original size:42 final size:41
Alignment explanation
Indices: 49984755--49984883 Score: 136
Period size: 42 Copynumber: 3.1 Consensus size: 41
49984745 AAAGAAGTAT
* * * *
49984755 ATAAGTGCTAAACAAAAACCCGTAAGGGTTGAACGAAAGCTC
1 ATAAGAGCTGAAC-AAAACCCATAAGGGTTAAACGAAAGCTC
49984797 ATAAGAGCTGAACGAAAACCCATAAGGGTTAAAC-ACAAGCTC
1 ATAAGAGCTGAAC-AAAACCCATAAGGGTTAAACGA-AAGCTC
* * *
49984839 AAAAGAGCTGAACAGAAACCCATTAGGGTTTAACAGAAA-CTC
1 ATAAGAGCTGAACA-AAACCCATAAGGGTTAAAC-GAAAGCTC
49984881 ATA
1 ATA
49984884 TAAGTTAAAC
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
41 2 0.03
42 69 0.93
43 2 0.03
44 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.19, T:0.16
Consensus pattern (41 bp):
ATAAGAGCTGAACAAAACCCATAAGGGTTAAACGAAAGCTC
Found at i:49984913 original size:21 final size:21
Alignment explanation
Indices: 49984870--49984919 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
49984860 ATTAGGGTTT
*
49984870 AACAGAAACTCATATAAGTTA
1 AACAGAAACTCATATAAGCTA
*
49984891 AACAGAAGCTCATGA-AAGCTA
1 AACAGAAACTCAT-ATAAGCTA
*
49984912 AACGGAAA
1 AACAGAAA
49984920 GTAAACACGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 23 0.96
22 1 0.04
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (21 bp):
AACAGAAACTCATATAAGCTA
Found at i:49989658 original size:862 final size:862
Alignment explanation
Indices: 49987995--49990583 Score: 4971
Period size: 862 Copynumber: 3.0 Consensus size: 862
49987985 TCTCACCATA
49987995 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
1 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
*
49988060 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTACACCAAT
66 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
*
49988125 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACTAGATTCTGGCCG
131 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
49988190 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
196 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
49988255 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
261 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
*
49988320 TTGACAAAACGCCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
326 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
*
49988385 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCAAGTCCCTTCAGCTGATACAA
391 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
* *
49988450 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCTTTCTTCAAACCGAATGCACATTTT
456 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
49988515 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
521 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
49988580 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
586 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
*
49988645 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAT
651 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
*
49988710 AGCCACTATTGTTGACCACCAATTATAAGCTTCTTCTTTCACTAATGAAACAGCACATCTCAGAT
716 AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAGCACATCTCAGAT
49988775 AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
781 AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
49988840 TTGACTGGGTCATCATC
846 TTGACTGGGTCATCATC
49988857 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
1 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
*
49988922 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCTACTACCTTTCCTGGCTGCACCAAT
66 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
49988987 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
131 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
49989052 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
196 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
49989117 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
261 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
49989182 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
326 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
* * *
49989247 AGTCTTCCAATTTACCACTACAGATAATTTTCTCAGATTAACTCGAGTCTCTTCAGCTGATATAA
391 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
49989312 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
456 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
*
49989377 TTCTTCGGGTGGTACAATTTCTTGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
521 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
*
49989442 CCACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
586 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
49989507 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
651 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
49989572 AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAGCACATCTCAGAT
716 AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAGCACATCTCAGAT
49989637 AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
781 AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
49989702 TTGACTGGGTCATCATC
846 TTGACTGGGTCATCATC
49989719 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
1 TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
*
49989784 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCTTGGCTGCACCAAT
66 AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
49989849 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
131 ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
*
49989914 AGTCAAGACCAGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
196 AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
*
49989979 ACCAAACAAATTGAACATTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
261 ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
49990044 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
326 TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
*
49990109 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTAATACAA
391 AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
49990174 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
456 TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
*
49990239 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGTCTCTCATACTCGG
521 TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
* *
49990304 CTACCGATCTATTTCCTTGGCGCGAGTTAATAAATTCCCTCTTTTTCTTATCTAAATACCTCTTG
586 CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
49990369 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
651 TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
*
49990434 AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAACACATCTCAGAT
716 AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAGCACATCTCAGAT
*
49990499 AATCATCGAGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
781 AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
49990564 TTGACTGGGTCATCATC
846 TTGACTGGGTCATCATC
49990581 TAA
1 TAA
49990584 CCTACCCCGA
Statistics
Matches: 1698, Mismatches: 29, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
862 1698 1.00
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (862 bp):
TAAGAAATGTCTCCAAGTCTTCAAAGCAAATACGATTGTAGCCAACTCAAGATCATCTGTATGAT
AATTCTTCTCGTGTGGCTTTAATTGTCGAGAAGCATAGGCCACTACCTTTCCTGGCTGCACCAAT
ACATAACCCAAACTATTCAGAGATGCATCACTATAAACAACATATGGTACACCAGATTCTGGCCG
AGTCAAGACCGGAGCTTCTGTCAACATCTTTTTCAACTGATCAAAACTCTGCTGACACTCATCAG
ACCAAACAAATTGAACGTTTTTCTGTAACAATCAGGTCAACGGCGAACCAATCATCGAAAAGTTC
TTGACAAAACGTCTGTAATAACCTGCTAGAGCCAGAAAACTTCGCACTTCTGAAACATTTTTCGG
AGTCTTCCAATTTACCACTACAGATACTTTTCTCAGATTAACTCGAGTCCCTTCAGCTGATACAA
TGTGACCCAAAAATCCCACCTCATGAATCCAGAATCAACCCTTCTTCAAACCGAATGCACATTTC
TTCTTCGGGTGGTACAATTTCTCGGGCATATTTACTGAGGTATACAAATTGCCTCTCATACTCGG
CTACCGATCTATTTCCTTGGCGCGAGTTAAGAAATTCCCTCTTTTTCTTGTCTAAATACCTCTTG
TCGACATATTTCTTTTTAAATTCGCTTTAGAAGAATTCCCATGAGATTTTTTCTTTTAGCACTAC
AGCCACTATTGTTGACCACCAATTATAAGCTTCCTCTTTCACTAATGAAACAGCACATCTCAGAT
AATCATCGGGAGAACAAGCTATTTCTTCAAAAACTCTTATTGTATTATGAAGCCAATATTCAGCT
TTGACTGGGTCATCATC
Found at i:49991680 original size:13 final size:13
Alignment explanation
Indices: 49991654--49991688 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
49991644 ACTATCTATT
49991654 TAAATGCATGTGCA
1 TAAATGC-TGTGCA
49991668 TAAATGCTGTGCA
1 TAAATGCTGTGCA
49991681 TAAATGCT
1 TAAATGCT
49991689 CATGCTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.67
14 7 0.33
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.31
Consensus pattern (13 bp):
TAAATGCTGTGCA
Found at i:49992743 original size:43 final size:43
Alignment explanation
Indices: 49992657--49992813 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
49992647 AGTCTGTAAA
* *** *
49992657 ATGCCAACGTCCC-GAC-GTGGTCTTACATGTATTTACAAATCG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCG
* *
49992699 ATGTC-ACTGTCCTAGACAGGGTCTTACACGTAAACACAAGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAACACAAGTCG
*
49992742 ATGCCAACGTCCCAGACATGGTCTTACACGTAAACACAAGTCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAGTCG
* *
49992785 ATGCCAACGTCTCAGGC-GTGGTCTTACAC
1 ATGCCAACGTCCCAGACAG-GGTCTTACAC
49992814 AAAATCACAT
Statistics
Matches: 97, Mismatches: 13, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 84 0.87
44 3 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAACACAAGTCG
Found at i:49993826 original size:51 final size:51
Alignment explanation
Indices: 49993691--49993841 Score: 195
Period size: 49 Copynumber: 3.0 Consensus size: 51
49993681 AAACATATAC
49993691 TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
1 TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
* * * *
49993742 CAT-A-TATATAA--GGCTATATTTTATATAA-ATTTATATAAATATATACACA
1 TATAATTA-ATAATTGG-TTTACTTTAT-TAACCTTTATATAAATATATACACA
*
49993791 TATAATTAATAATTAGTTTACTTTATTAACCTTTATATAAATATATACACA
1 TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
49993842 CATATATATA
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
48 2 0.02
49 32 0.39
50 16 0.19
51 32 0.39
52 1 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (51 bp):
TATAATTAATAATTGGTTTACTTTATTAACCTTTATATAAATATATACACA
Found at i:49995811 original size:21 final size:21
Alignment explanation
Indices: 49995787--49995860 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
49995777 TCATAAGAGC
49995787 TAAACGGAAACCCATAAAGGT
1 TAAACGGAAACCCATAAAGGT
* * *
49995808 TAAACAGAAACTCA-AAAGAGA
1 TAAACGGAAACCCATAAAG-GT
* *
49995829 TGAA-GAGAAACCCATTAAGGT
1 TAAACG-GAAACCCATAAAGGT
*
49995850 TGAACGGAAAC
1 TAAACGGAAAC
49995861 TTATATGAGT
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 4 0.10
21 33 0.80
22 4 0.10
ACGTcount: A:0.50, C:0.16, G:0.20, T:0.14
Consensus pattern (21 bp):
TAAACGGAAACCCATAAAGGT
Found at i:49995839 original size:42 final size:42
Alignment explanation
Indices: 49995750--49995861 Score: 120
Period size: 42 Copynumber: 2.6 Consensus size: 42
49995740 AGTGCGAAAT
* * * *
49995750 AGAAACCCGTAAGGGTTGAACGAAAGCTCATAAGAGCTAAACG
1 AGAAACCCATAAAGGTTGAACGAAA-CTCAAAAGAGATAAACG
* *
49995793 -GAAACCCATAAAGGTTAAACAGAAACTCAAAAGAGATGAA-G
1 AGAAACCCATAAAGGTTGAAC-GAAACTCAAAAGAGATAAACG
*
49995834 AGAAACCCATTAAGGTTGAACGGAAACT
1 AGAAACCCATAAAGGTTGAAC-GAAACT
49995862 TATATGAGTT
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 1 0.02
42 53 0.91
43 4 0.07
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (42 bp):
AGAAACCCATAAAGGTTGAACGAAACTCAAAAGAGATAAACG
Found at i:50006577 original size:24 final size:24
Alignment explanation
Indices: 50006550--50006644 Score: 72
Period size: 24 Copynumber: 4.0 Consensus size: 24
50006540 TTCATTGATT
50006550 CTTCAGAGGATAAGATTTCACATC
1 CTTCAGAGGATAAGATTTCACATC
50006574 CTTCATG-GGAT---ATTATCATTCATC
1 CTTCA-GAGGATAAGATT-TCA--CATC
* *
50006598 CATCAGGGGATAAGATTTCACATC
1 CTTCAGAGGATAAGATTTCACATC
* * * *
50006622 CCTCAAAGGATCATATTTCACAT
1 CTTCAGAGGATAAGATTTCACAT
50006645 TCTTAAGGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
21 3 0.05
22 3 0.05
23 1 0.02
24 43 0.75
25 1 0.02
26 3 0.05
27 3 0.05
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.32
Consensus pattern (24 bp):
CTTCAGAGGATAAGATTTCACATC
Found at i:50007505 original size:31 final size:31
Alignment explanation
Indices: 50007467--50007529 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
50007457 GCCTAAGAAG
50007467 TAAGTAAATATATTTCAGAATTTATTAGAGC
1 TAAGTAAATATATTTCAGAATTTATTAGAGC
50007498 TAAGTAAATATATTTCAGAATTTATTAGAGC
1 TAAGTAAATATATTTCAGAATTTATTAGAGC
50007529 T
1 T
50007530 TGATAGACTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.41, C:0.06, G:0.13, T:0.40
Consensus pattern (31 bp):
TAAGTAAATATATTTCAGAATTTATTAGAGC
Found at i:50012901 original size:2 final size:2
Alignment explanation
Indices: 50012894--50012925 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
50012884 CTACCTCAGA
50012894 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
50012926 GAATCTAGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:50013969 original size:11 final size:11
Alignment explanation
Indices: 50013955--50013980 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50013945 TTTTTTTGAA
50013955 TTTTAAAATAC
1 TTTTAAAATAC
50013966 TTTTAAAATAC
1 TTTTAAAATAC
50013977 TTTT
1 TTTT
50013981 TTTAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:50013982 original size:42 final size:42
Alignment explanation
Indices: 50013936--50014041 Score: 136
Period size: 42 Copynumber: 2.6 Consensus size: 42
50013926 TAATTTTTTA
*
50013936 TTTTTTT-TATTTTTTTGAATTTT-AAAATACTTTT-AAAATAC
1 TTTTTTTAAATTTTTTT-AATTTTAAAAATA-TTTTAAAAATAC
50013977 TTTTTTTAAATTTTTTTAATTTTAAAAATATTTTAAAAATAC
1 TTTTTTTAAATTTTTTTAATTTTAAAAATATTTTAAAAATAC
50014019 ---TTTT-AATTTTTTTAATTTTAAAA
1 TTTTTTTAAATTTTTTTAATTTTAAAA
50014042 TAATTTTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 9
0.86 0.01 0.13
Matches are distributed among these distances:
38 19 0.31
39 4 0.07
41 17 0.28
42 21 0.34
ACGTcount: A:0.36, C:0.03, G:0.01, T:0.60
Consensus pattern (42 bp):
TTTTTTTAAATTTTTTTAATTTTAAAAATATTTTAAAAATAC
Found at i:50014022 original size:12 final size:11
Alignment explanation
Indices: 50013995--50014024 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
50013985 AATTTTTTTA
50013995 ATTTTAAAAAT
1 ATTTTAAAAAT
50014006 ATTTTAAAAAT
1 ATTTTAAAAAT
50014017 ACTTTTAA
1 A-TTTTAA
50014025 TTTTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.67
12 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:50014052 original size:41 final size:41
Alignment explanation
Indices: 50013938--50014050 Score: 121
Period size: 38 Copynumber: 2.8 Consensus size: 41
50013928 ATTTTTTATT
* *
50013938 TTTTTTATTTTTTTGAATTTTAAAAT-A-CTTTT-AAAATAC
1 TTTTTAATTTTTTT-AATTTTAAAATAATATTTTAAAAATAC
50013977 TTTTTTTAAATTTTTTTAATTTT-AAA-AATATTTTAAAAATAC
1 --TTTTT-AATTTTTTTAATTTTAAAATAATATTTTAAAAATAC
*
50014019 -TTTTAATTTTTTTAATTTTAAAATAATTTTTT
1 TTTTTAATTTTTTTAATTTTAAAATAATATTTT
50014051 TATTTTTGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
38 15 0.24
39 7 0.11
40 11 0.17
41 15 0.24
42 15 0.24
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (41 bp):
TTTTTAATTTTTTTAATTTTAAAATAATATTTTAAAAATAC
Found at i:50014065 original size:20 final size:20
Alignment explanation
Indices: 50014019--50014069 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
50014009 TTAAAAATAC
50014019 TTTTAATTTTTTTAATTTTA
1 TTTTAATTTTTTTAATTTTA
*** * *
50014039 AAATAATTTTTTTATTTTTG
1 TTTTAATTTTTTTAATTTTA
50014059 TTTTAATTTTT
1 TTTTAATTTTT
50014070 AAAATAAAAT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (20 bp):
TTTTAATTTTTTTAATTTTA
Found at i:50015205 original size:22 final size:22
Alignment explanation
Indices: 50015174--50015216 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
50015164 TGAATATATA
*
50015174 TAATATAAT-AATAAAGTAAATT
1 TAATAAAATAAAT-AAGTAAATT
50015196 TAATAAAATAAATAAGTAAAT
1 TAATAAAATAAATAAGTAAAT
50015217 GAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
TAATAAAATAAATAAGTAAATT
Found at i:50015222 original size:22 final size:21
Alignment explanation
Indices: 50015187--50015228 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
50015177 TATAATAATA
**
50015187 AAGTAAATTTAATAAAATAAAT
1 AAGTAAATGAAAT-AAATAAAT
50015209 AAGTAAATGAAATAAATAAA
1 AAGTAAATGAAATAAATAAA
50015229 GAATAGAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (21 bp):
AAGTAAATGAAATAAATAAAT
Found at i:50016209 original size:41 final size:39
Alignment explanation
Indices: 50016152--50016287 Score: 127
Period size: 41 Copynumber: 3.5 Consensus size: 39
50016142 TGACTTCGAG
50016152 TCGATGAGACACTGGGTGTCAATTTATTGCTTCGGATATAT
1 TCGATGAGACACTGGGTGTCAATTTATT-CTTCGGAT-TAT
* * *
50016193 TCGATGAGGCACTGGGTGCCAATTTA--CTTCGGTTTA-
1 TCGATGAGACACTGGGTGTCAATTTATTCTTCGGATTAT
* *
50016229 GCTGATGAGACACTGGGTGTCAAATTT-TTACTTCGAATTAT
1 TC-GATGAGACACTGGGTGTC-AATTTATT-CTTCGGATTAT
* * *
50016270 CCGATGAGGCATTGGGTG
1 TCGATGAGACACTGGGTG
50016288 CCAAACTAGT
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
36 1 0.01
37 18 0.23
38 12 0.15
40 22 0.28
41 25 0.32
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.34
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATTCTTCGGATTAT
Found at i:50016276 original size:40 final size:40
Alignment explanation
Indices: 50016153--50016292 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
50016143 GACTTCGAGT
* *
50016153 CGATGAGACACTGGGTGTC-AATTTATTGCTTCGGATATATT
1 CGATGAGACACTGGGTGTCAAATTT-TTACTTCGGAT-TATC
* * * *
50016194 CGATGAGGCACTGGGTG-CCAA--TTTACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
* *
50016231 TGATGAGACACTGGGTGTCAAATTTTTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
* * *
50016271 CGATGAGGCATTGGGTGCCAAA
1 CGATGAGACACTGGGTGTCAAA
50016293 CTAGTGTGTT
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
37 17 0.21
38 12 0.15
39 1 0.01
40 32 0.40
41 18 0.22
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTTTTACTTCGGATTATC
Found at i:50021469 original size:43 final size:41
Alignment explanation
Indices: 50021403--50021530 Score: 134
Period size: 43 Copynumber: 3.0 Consensus size: 41
50021393 AGCTTGTACA
* *
50021403 ATGCCAAC-ATCCCAGACTTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACTATCCCAGAC-GGGTCTTACACGTAA-CACATATCG
50021446 ATGCCACTATCCCAGACAGGGTCTTACACGTAAACACA-AGTCG
1 ATGCCACTATCCCAGAC-GGGTCTTACACGT-AACACATA-TCG
* *
50021489 ATGCCAATGTCCCAGACGTGGTCTTACACGATAACACATATC
1 ATGCCACTATCCCAGACG-GGTCTTACACG-TAACACATATC
50021531 AGAAGTCCTA
Statistics
Matches: 74, Mismatches: 5, Indels: 12
0.81 0.05 0.13
Matches are distributed among these distances:
42 4 0.05
43 66 0.89
44 4 0.05
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.23
Consensus pattern (41 bp):
ATGCCACTATCCCAGACGGGTCTTACACGTAACACATATCG
Found at i:50025833 original size:25 final size:25
Alignment explanation
Indices: 50025805--50025944 Score: 60
Period size: 25 Copynumber: 5.6 Consensus size: 25
50025795 AATAACGGGT
50025805 AGCTCTAAAGAGCCATTAATCAGGA
1 AGCTCTAAAGAGCCATTAATCAGGA
* * *
50025830 AGCTCCAGATAGCCA-TATATC-GAGA
1 AGCTCTAAAGAGCCATTA-ATCAG-GA
*
50025855 AG-T-TCAAGCAAGCCA-T-ATCAGGA
1 AGCTCTAAAG--AGCCATTAATCAGGA
* *** * *
50025878 AGCTGTGGGGAGCTATTAATTAGGA
1 AGCTCTAAAGAGCCATTAATCAGGA
* *
50025903 AGCTCATAAAAAGCCTTTAATC-GAGA
1 AGCTC-TAAAGAGCCATTAATCAG-GA
*
50025929 AGCTCCAAAGAGCCAT
1 AGCTCTAAAGAGCCAT
50025945 ATATCGGGAC
Statistics
Matches: 81, Mismatches: 23, Indels: 22
0.64 0.18 0.17
Matches are distributed among these distances:
23 12 0.15
24 7 0.09
25 46 0.57
26 16 0.20
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (25 bp):
AGCTCTAAAGAGCCATTAATCAGGA
Found at i:50033750 original size:24 final size:24
Alignment explanation
Indices: 50033723--50033771 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
50033713 AAAAGAAGTT
50033723 GTTGCTGAAGAA-GAAAAAGAAAAA
1 GTTGCTGAA-AATGAAAAAGAAAAA
*
50033747 GTTGCTGAAAATGAGAAAGAAAAA
1 GTTGCTGAAAATGAAAAAGAAAAA
50033771 G
1 G
50033772 AAGAAGAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 2 0.09
24 21 0.91
ACGTcount: A:0.55, C:0.04, G:0.27, T:0.14
Consensus pattern (24 bp):
GTTGCTGAAAATGAAAAAGAAAAA
Found at i:50037056 original size:15 final size:16
Alignment explanation
Indices: 50037022--50037058 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
50037012 TGGGTGAAAG
*
50037022 AAAATATTTTATGTTA
1 AAAATATTTGATGTTA
*
50037038 AAAATATTTGATTTTA
1 AAAATATTTGATGTTA
50037054 AAAAT
1 AAAAT
50037059 GATTCAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (16 bp):
AAAATATTTGATGTTA
Found at i:50037121 original size:35 final size:35
Alignment explanation
Indices: 50037082--50037152 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
50037072 ATATAGGTGG
50037082 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
1 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
50037117 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
1 AGCACTAATGAATTTGTATTTCAATACTATTGAAT
50037152 A
1 A
50037153 TGTGTTCAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.39
Consensus pattern (35 bp):
AGCACTAATGAATTTGTATTTCAATACTATTGAAT
Found at i:50042240 original size:20 final size:21
Alignment explanation
Indices: 50042208--50042247 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
50042198 TCTTTGCTAA
50042208 GTTGAGCAAATGTGAATTTTG
1 GTTGAGCAAATGTGAATTTTG
*
50042229 GTTGAG-AAATGTGAGTTTT
1 GTTGAGCAAATGTGAATTTT
50042248 CTAGGGCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.28, C:0.03, G:0.30, T:0.40
Consensus pattern (21 bp):
GTTGAGCAAATGTGAATTTTG
Found at i:50047035 original size:17 final size:17
Alignment explanation
Indices: 50047015--50047047 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
50047005 ATTTAATATA
50047015 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
50047032 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
50047048 TAAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:50052767 original size:15 final size:15
Alignment explanation
Indices: 50052742--50052776 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50052732 AACTCTATTT
*
50052742 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
50052756 TAATTAATATTAAGA
1 TAATTAATATTAAGA
50052771 TAATTA
1 TAATTA
50052777 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:50054418 original size:4 final size:4
Alignment explanation
Indices: 50054409--50054484 Score: 54
Period size: 4 Copynumber: 19.0 Consensus size: 4
50054399 CAACCCAATT
*
50054409 TTTA TTTA TTTA TTTA -TTA -TTA TTTTA TTTTC TTTA CTTTA TTTA -TTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA TTTA -TTTA TTTA TTTA
*
50054457 CTTTA TTT- TATTA TTTA -TTA CTTA TTTA
1 -TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
50054485 GATATTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 16
0.76 0.04 0.20
Matches are distributed among these distances:
3 13 0.21
4 33 0.54
5 15 0.25
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:50055704 original size:20 final size:19
Alignment explanation
Indices: 50055681--50055730 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
50055671 TTCCTAAAGC
50055681 ATAAAAAATATAAAT---A
1 ATAAAAAATATAAATAAAA
*
50055697 ATAAATAAATATAAATCAAA
1 ATAAA-AAATATAAATAAAA
50055717 ATAAAAAAATATAA
1 AT-AAAAAATATAA
50055731 TTTTGGGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
16 5 0.17
17 10 0.34
20 11 0.38
21 3 0.10
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAAAAAATATAAATAAAA
Found at i:50055708 original size:17 final size:17
Alignment explanation
Indices: 50055681--50055721 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
50055671 TTCCTAAAGC
50055681 ATAAA-AAATATAAATA
1 ATAAATAAATATAAATA
*
50055697 ATAAATAAATATAAATC
1 ATAAATAAATATAAATA
50055714 A-AAATAAA
1 ATAAATAAA
50055722 AAAATATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAATAAATATAAATA
Found at i:50056305 original size:15 final size:15
Alignment explanation
Indices: 50056280--50056314 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50056270 AACTCTATTT
*
50056280 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
50056294 TAATTAATATTAAGA
1 TAATTAATATTAAGA
50056309 TAATTA
1 TAATTA
50056315 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:50057075 original size:21 final size:20
Alignment explanation
Indices: 50057028--50057075 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 20
50057018 CTCAACTCTA
*
50057028 TTTTTAATTTCTTGAATTTT
1 TTTTTAATTTCTTGAATTTG
50057048 TTATTTAATATTCTT-AATTCTG
1 TT-TTTAAT-TTCTTGAATT-TG
50057070 TTTTTA
1 TTTTTA
50057076 TTTTAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 2 0.08
21 14 0.58
22 8 0.33
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTTAATTTCTTGAATTTG
Found at i:50061521 original size:26 final size:26
Alignment explanation
Indices: 50061492--50061560 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
50061482 CTAATTCTAA
50061492 AAATTTTTAAAAATATATA-AATACAT
1 AAATTTTTAAAAATATATATAATA-AT
* *
50061518 AAATATTTTCAAAAAAATATATGATAAT
1 AAAT-TTTT-AAAAATATATATAATAAT
*
50061546 AAATTTTAAAAAATA
1 AAATTTTTAAAAATA
50061561 ATTTTAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 10 0.28
27 7 0.19
28 16 0.44
29 3 0.08
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATTTTTAAAAATATATATAATAAT
Found at i:50061576 original size:14 final size:14
Alignment explanation
Indices: 50061543--50061576 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
50061533 AATATATGAT
50061543 AATA-AATTTTAAA
1 AATATAATTTTAAA
50061556 AA-ATAATTTTAAA
1 AATATAATTTTAAA
50061569 AATATAAT
1 AATATAAT
50061577 AATAATTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 1 0.05
13 13 0.68
14 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATAATTTTAAA
Found at i:50061605 original size:6 final size:6
Alignment explanation
Indices: 50061594--50061618 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50061584 TTAAAATTTT
50061594 ATATTA ATATTA ATATTA ATATTA A
1 ATATTA ATATTA ATATTA ATATTA A
50061619 AATAAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
ATATTA
Found at i:50061626 original size:5 final size:5
Alignment explanation
Indices: 50061616--50061640 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
50061606 ATATTAATAT
50061616 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
50061641 ATCTCTCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:50065259 original size:20 final size:20
Alignment explanation
Indices: 50065230--50065269 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50065220 TGAACAGAAT
* *
50065230 AGAACGGAACGGAGCAAAAC
1 AGAACAGAACAGAGCAAAAC
50065250 AGAACAGAACAGAGCAAAAC
1 AGAACAGAACAGAGCAAAAC
50065270 GAAGCATGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.20, G:0.25, T:0.00
Consensus pattern (20 bp):
AGAACAGAACAGAGCAAAAC
Found at i:50065644 original size:104 final size:104
Alignment explanation
Indices: 50065464--50065707 Score: 301
Period size: 104 Copynumber: 2.3 Consensus size: 104
50065454 TTATCAACAT
* * * * * * *
50065464 GGCCTGGTCACACGCCCATGTTCTTACCTGTGTGTCTCACACAGCCTAAGCACACCCCCATGTCC
1 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCACACACAGCCTAAGCACACACCCATGTCC
** * * *
50065529 CTAGCTGTGTGGTTTTAAAGTGTAAACAGTGAGTTATAC
66 CTAGCCATGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
*
50065568 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCACACACAGCCTAGGCACACACCCATGTCC
1 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCACACACAGCCTAAGCACACACCCATGTCC
* *
50065633 CT-GACCATGTGGTTCTAAAGCGTAAATAGTGAGTTACCC
66 CTAG-CCATGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
* ** *
50065672 GGCCTGGACACATGTTCATGTCCTTGCCCATGTGGC
1 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGC
50065708 TTATACAGTC
Statistics
Matches: 120, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
103 1 0.01
104 119 0.99
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (104 bp):
GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCACACACAGCCTAAGCACACACCCATGTCC
CTAGCCATGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
Found at i:50065748 original size:104 final size:104
Alignment explanation
Indices: 50065464--50065748 Score: 284
Period size: 104 Copynumber: 2.7 Consensus size: 104
50065454 TTATCAACAT
* * * ** * * * **
50065464 GGCCTGGTCACACGCCCATGTTCTTACCTGTGTGTCTCACACAGCCTAAGCACACCCCCATGTCC
1 GGCCTGGACACACGCCCATGTCCTTGCCCATGTGGCACACACAGCCTAGGCACACAACCATGTCC
* * * *
50065529 CT-AGCTGTGTGGTTTTAAAGTGTAAACAGTGAGTTATAC
66 CTGA-CCGTGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
* *
50065568 GGCCTGGACACACGCCCATGTCCTTGCCCGTGTGGCACACACAGCCTAGGCACACACCCATGTCC
1 GGCCTGGACACACGCCCATGTCCTTGCCCATGTGGCACACACAGCCTAGGCACACAACCATGTCC
* * *
50065633 CTGACCATGTGGTTCTAAAGCGTAAATAGTGAGTTACCC
66 CTGACCGTGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
* ** ** * * * *
50065672 GGCCTGGACACATGTTCATGTCCTTGCCCATGTGGCTTATACAGTCTGGGCACACAACTATGTCC
1 GGCCTGGACACACGCCCATGTCCTTGCCCATGTGGCACACACAGCCTAGGCACACAACCATGTCC
* *
50065737 TTGCCCGTGTGG
66 CTGACCGTGTGG
50065749 CTCACACGAC
Statistics
Matches: 151, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
104 150 0.99
105 1 0.01
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (104 bp):
GGCCTGGACACACGCCCATGTCCTTGCCCATGTGGCACACACAGCCTAGGCACACAACCATGTCC
CTGACCGTGTGGTTCTAAAGCGTAAACAGTGAGTTACAC
Found at i:50065767 original size:42 final size:42
Alignment explanation
Indices: 50065689--50065768 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
50065679 ACACATGTTC
* * * *
50065689 ATGTCCTTGCCCATGTGGCTTATACAGTCTGGGCACACAACT
1 ATGTCCTTGCCCATGTGGCTCACACAGCCTGAGCACACAACT
*
50065731 ATGTCCTTGCCCGTGTGGCTCACAC-GACCTGAGCACAC
1 ATGTCCTTGCCCATGTGGCTCACACAG-CCTGAGCACAC
50065769 GCCCATGTCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.03
42 31 0.97
ACGTcount: A:0.20, C:0.33, G:0.23, T:0.25
Consensus pattern (42 bp):
ATGTCCTTGCCCATGTGGCTCACACAGCCTGAGCACACAACT
Found at i:50065767 original size:146 final size:145
Alignment explanation
Indices: 50065583--50065921 Score: 387
Period size: 146 Copynumber: 2.3 Consensus size: 145
50065573 GGACACACGC
* * * *
50065583 CCATGTCCTTGCCCGTGTGGCACACAC-AGCCT-AGGCACACACCCATGTCCCTGACCATGTGGT
1 CCATGTCCTTGCCCGTGTGGCTCACACGA-CCTGA-GCACACGCCCATGTCCCTGACCATATGAT
* * * * * *
50065646 TCTAAAGCGTAAATAGTGAGTTACCCGGCCTGGACACATGTTCATGTCCTTGCCCATGTGGCTTA
64 TCTAAAGCATAAACAGTGAGTTACACGGCCTGGACACATGCTCATGTCCTTACCCATGTGGCTCA
* * *
50065711 TACAGTCTGGGCACACAA
129 CAC-GGCTGGGAACACAA
* * ** *
50065729 CTATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTCCTTGGTCGTATGATTC
1 CCATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTCCCTGACCATATGATTC
* **
50065794 TAAAGCATAAACAGTGAGTTACACGGTCTGGACACATGCTCATGTCCTTACCTGTGTGGCTCACA
66 TAAAGCATAAACAGTGAGTTACACGGCCTGGACACATGCTCATGTCCTTACCCATGTGGCTCACA
**
50065859 CGGCTGGGAACACGC
131 CGGCTGGGAACACAA
* * * *
50065874 CCATGTCCTTGCCC-TATGGCTCACACGGCCTGGGCACACGCTCATGTC
1 CCATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTC
50065922 ACTAGCCGTG
Statistics
Matches: 163, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
144 30 0.18
145 23 0.14
146 108 0.66
147 2 0.01
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.24
Consensus pattern (145 bp):
CCATGTCCTTGCCCGTGTGGCTCACACGACCTGAGCACACGCCCATGTCCCTGACCATATGATTC
TAAAGCATAAACAGTGAGTTACACGGCCTGGACACATGCTCATGTCCTTACCCATGTGGCTCACA
CGGCTGGGAACACAA
Found at i:50065880 original size:41 final size:41
Alignment explanation
Indices: 50065834--50065921 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
50065824 GACACATGCT
* *
50065834 CATGTCCTTACCTGTGTGGCTCACACGG-CTGGGAACACGCC
1 CATGTCCTTACC-CTATGGCTCACACGGCCTGGGAACACGCC
* * *
50065875 CATGTCCTTGCCCTATGGCTCACACGGCCTGGGCACACGCT
1 CATGTCCTTACCCTATGGCTCACACGGCCTGGGAACACGCC
50065916 CATGTC
1 CATGTC
50065922 ACTAGCCGTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 13 0.32
41 28 0.68
ACGTcount: A:0.16, C:0.36, G:0.25, T:0.23
Consensus pattern (41 bp):
CATGTCCTTACCCTATGGCTCACACGGCCTGGGAACACGCC
Found at i:50068074 original size:5 final size:5
Alignment explanation
Indices: 50068059--50068091 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
50068049 ATATAAATAG
50068059 TTATAT TTATT TTATT TTATT TTATT TTATT TT
1 TTAT-T TTATT TTATT TTATT TTATT TTATT TT
50068092 TATGAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Found at i:50069764 original size:124 final size:125
Alignment explanation
Indices: 50069371--50069782 Score: 583
Period size: 125 Copynumber: 3.3 Consensus size: 125
50069361 ATTTATTAAG
* * * * *
50069371 GAAACCGCTCCCATGTGGACGCGCTGTTGCTACAGTAGGTCCTGAATAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
50069436 GTTTCTGAGCAAATAGTATAAAAAACGCTTCTAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
* * * * * * * *
50069496 GAAATCACTCCTATGTGGAAGAGCTTTTGCTACAGTAGGTCTTGAAAAAATAATTTCGACTTAAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
50069561 GTTTCTGAGCAAATAGTATAAAAAATGCTTGAAGTAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
* * * * *
50069621 AAAATTGCTCCTACGTGGACGCGCTTTTGCTACAATAGATCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
50069686 GTTTTTGAGCAAATAGTAT-AAAAACGCTTCAAGTAGGATGCTTTATCAGAAGACTTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
* *
50069745 GAAATCGCTCCCACGTGGACGTGTTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
50069783 CATGATTGGG
Statistics
Matches: 251, Mismatches: 36, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
124 69 0.27
125 182 0.73
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
Found at i:50073028 original size:49 final size:49
Alignment explanation
Indices: 50072975--50073192 Score: 375
Period size: 49 Copynumber: 4.5 Consensus size: 49
50072965 TAAGAATATT
* *
50072975 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
50073024 AACTATTTTGTATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
50073073 AACTATTTTGTATTTTATTACATCAAATAATATCAAAAT-TTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
* *
50073121 AACTATTTTATATTTTATTACATCAAATAATATCAAATTATTCAAAATA
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
*
50073170 AACTATTTTGTATTGTATTACAT
1 AACTATTTTGTATTTTATTACAT
50073193 TAATATAAAC
Statistics
Matches: 160, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 46 0.29
49 114 0.71
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (49 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATA
Found at i:50073051 original size:29 final size:29
Alignment explanation
Indices: 50073019--50073102 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
50073009 AAAATATTCA
50073019 AAATAAACTATTTTGTATTTTATTACATC
1 AAATAAACTATTTTGTATTTTATTACATC
* **
50073048 AAAT-AA-TA---T-CAAATTATT-CA--
1 AAATAAACTATTTTGTATTTTATTACATC
50073068 AAATAAACTATTTTGTATTTTATTACATC
1 AAATAAACTATTTTGTATTTTATTACATC
50073097 AAATAA
1 AAATAA
50073103 TATCAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 4 0.10
21 2 0.05
22 4 0.10
23 6 0.15
24 1 0.03
25 1 0.03
26 6 0.15
27 4 0.10
28 2 0.05
29 10 0.25
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (29 bp):
AAATAAACTATTTTGTATTTTATTACATC
Found at i:50073147 original size:97 final size:98
Alignment explanation
Indices: 50072975--50073192 Score: 393
Period size: 97 Copynumber: 2.2 Consensus size: 98
50072965 TAAGAATATT
* * *
50072975 AACTATTTTGTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTTGTATTTT
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTATATTTT
50073040 ATTACATCAAATAATATCAAATTATTCAAAATA
66 ATTACATCAAATAATATCAAATTATTCAAAATA
50073073 AACTATTTTGTATTTTATTACATCAAATAATATCAAAAT-TTCAAAATAAACTATTTTATATTTT
1 AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTATATTTT
50073137 ATTACATCAAATAATATCAAATTATTCAAAATA
66 ATTACATCAAATAATATCAAATTATTCAAAATA
*
50073170 AACTATTTTGTATTGTATTACAT
1 AACTATTTTGTATTTTATTACAT
50073193 TAATATAAAC
Statistics
Matches: 116, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
97 79 0.68
98 37 0.32
ACGTcount: A:0.45, C:0.09, G:0.03, T:0.43
Consensus pattern (98 bp):
AACTATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAACTATTTTATATTTT
ATTACATCAAATAATATCAAATTATTCAAAATA
Found at i:50073618 original size:18 final size:18
Alignment explanation
Indices: 50073592--50073634 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
50073582 TACTAGAAAA
* *
50073592 AGGAAACATATAAGGGAT
1 AGGATACATAAAAGGGAT
* *
50073610 AGGATACATAAAATGGCT
1 AGGATACATAAAAGGGAT
50073628 AGGATAC
1 AGGATAC
50073635 GCACTTGGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.09, G:0.26, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGAT
Found at i:50075483 original size:11 final size:11
Alignment explanation
Indices: 50075467--50075520 Score: 58
Period size: 11 Copynumber: 4.9 Consensus size: 11
50075457 TTTAAATAGA
50075467 AATTTGAGAGG
1 AATTTGAGAGG
*
50075478 AATTTGATAGG
1 AATTTGAGAGG
50075489 AATTTGAGA-G
1 AATTTGAGAGG
50075499 AATATT-AGAGAG
1 AAT-TTGAGAG-G
*
50075511 AAATTGAGAG
1 AATTTGAGAG
50075521 AAAAGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
10 7 0.19
11 22 0.61
12 7 0.19
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.28
Consensus pattern (11 bp):
AATTTGAGAGG
Found at i:50078310 original size:27 final size:27
Alignment explanation
Indices: 50078229--50078313 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
50078219 GTATGGGGTA
* * *
50078229 GGTGGCGCCTATCTGACAAGCGTGACT
1 GGTGGAGCTTATCTGACAGGCGTGACT
* *
50078256 AGTGGAGCTTATCTGACAGGCGCGACT
1 GGTGGAGCTTATCTGACAGGCGTGACT
*
50078283 GGTGGAGCTTATCTAACAGGCGTGACT
1 GGTGGAGCTTATCTGACAGGCGTGACT
50078310 GGTG
1 GGTG
50078314 CTTAATTTTC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.20, C:0.21, G:0.35, T:0.24
Consensus pattern (27 bp):
GGTGGAGCTTATCTGACAGGCGTGACT
Found at i:50082140 original size:27 final size:27
Alignment explanation
Indices: 50082110--50082288 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
50082100 ATATTGAGCC
* * * *
50082110 CGCACACTCAGTGCTATATAATCATCT
1 CGCACACTTAGTGCTACATAGTCATAT
* * *
50082137 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCATAT
*
50082164 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCATA-T
** *
50082192 CGCACACTTAGTGCCGCATGGTCA-ATT
1 CGCACACTTAGTGCTACATAGTCATA-T
* *
50082219 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCATAT
*
50082246 CGCACACTTAGTGCAACATAGTCATAT
1 CGCACACTTAGTGCTACATAGTCATAT
50082273 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
50082289 TACAATTTAA
Statistics
Matches: 130, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 107 0.82
28 23 0.18
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCATAT
Found at i:50082249 original size:82 final size:81
Alignment explanation
Indices: 50082136--50082286 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
50082126 TATAATCATC
* *
50082136 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
50082201 AGTGCCGCATGGTCAAT
65 AGTGCCGCATGGTCAAT
* ** *
50082218 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
50082282 AGTGC
65 AGTGC
50082287 TATACAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 16 0.26
82 46 0.74
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAAT
Found at i:50082854 original size:13 final size:13
Alignment explanation
Indices: 50082836--50082860 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50082826 TACTAAATTT
50082836 TCATGGATTCAAG
1 TCATGGATTCAAG
50082849 TCATGGATTCAA
1 TCATGGATTCAA
50082861 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:50097092 original size:33 final size:33
Alignment explanation
Indices: 50097032--50097157 Score: 114
Period size: 33 Copynumber: 3.8 Consensus size: 33
50097022 AACTTGAGCT
* *
50097032 GAGAGGAGTGGAGTACGACAGTAGATACGGGCC
1 GAGAGGAGTGGAGTACGACGGTGGATACGGGCC
* * * *
50097065 GAGATGAGTGAAGTACGATGGTGGATACAGGCC
1 GAGAGGAGTGGAGTACGACGGTGGATACGGGCC
* *
50097098 -AGGAGGAGTGGAGTACGACGTTGGATATGGGCC
1 GA-GAGGAGTGGAGTACGACGGTGGATACGGGCC
* *
50097131 TGA-ATGAGCGGAGTACTGA-GGTGGATA
1 -GAGAGGAGTGGAGTAC-GACGGTGGATA
50097158 TGAGCCGGGA
Statistics
Matches: 74, Mismatches: 15, Indels: 8
0.76 0.15 0.08
Matches are distributed among these distances:
32 1 0.01
33 70 0.95
34 2 0.03
35 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.42, T:0.17
Consensus pattern (33 bp):
GAGAGGAGTGGAGTACGACGGTGGATACGGGCC
Found at i:50097146 original size:66 final size:66
Alignment explanation
Indices: 50097034--50097157 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
50097024 CTTGAGCTGA
*
50097034 GAGGAGTGGAGTACGACAGTAGATACGGGCCGAGATGAGTGAAGTAC-GATGGTGGATACAGGCC
1 GAGGAGTGGAGTACGACAGTAGATACGGGCCGAGATGAGCGAAGTACTGA-GGTGGATACAGGCC
50097098 AG
65 AG
* * *
50097100 GAGGAGTGGAGTACGAC-GTTGGATATGGGCCTGA-ATGAGCGGAGTACTGAGGTGGATA
1 GAGGAGTGGAGTACGACAG-TAGATACGGGCC-GAGATGAGCGAAGTACTGAGGTGGATA
50097158 TGAGCCGGGA
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
65 1 0.02
66 46 0.90
67 4 0.08
ACGTcount: A:0.28, C:0.12, G:0.42, T:0.18
Consensus pattern (66 bp):
GAGGAGTGGAGTACGACAGTAGATACGGGCCGAGATGAGCGAAGTACTGAGGTGGATACAGGCCA
G
Found at i:50097158 original size:33 final size:33
Alignment explanation
Indices: 50097106--50097199 Score: 88
Period size: 33 Copynumber: 2.9 Consensus size: 33
50097096 CCAGGAGGAG
*
50097106 TGGAGTAC-GACGTTGGATATGGGCCTGAATGAGC
1 TGGAGTACTGA-GGTGGATATGGGCCTGAATG-GC
* * *
50097140 -GGAGTACTGAGGTGGATATGAGCCGGGATGGC
1 TGGAGTACTGAGGTGGATATGGGCCTGAATGGC
*
50097172 TGGAGTACTGGGGTGG-TAGTGGG-CTGAA
1 TGGAGTACTGAGGTGGATA-TGGGCCTGAA
50097200 GATATCAAAC
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
32 7 0.14
33 40 0.82
34 2 0.04
ACGTcount: A:0.21, C:0.12, G:0.45, T:0.22
Consensus pattern (33 bp):
TGGAGTACTGAGGTGGATATGGGCCTGAATGGC
Found at i:50098274 original size:18 final size:17
Alignment explanation
Indices: 50098244--50098279 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
50098234 ATCAACATTT
*
50098244 TTATAAATCAATAAAAA
1 TTATAAATAAATAAAAA
50098261 TTATCAAATAAATAAAAA
1 TTAT-AAATAAATAAAAA
50098279 T
1 T
50098280 CAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.31
Consensus pattern (17 bp):
TTATAAATAAATAAAAA
Found at i:50098289 original size:28 final size:26
Alignment explanation
Indices: 50098248--50098306 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 26
50098238 ACATTTTTAT
50098248 AAATC-AATAAAAATTATCAAATAAATAA
1 AAATCAAATAAAAATTA-C-AATAAA-AA
*
50098276 AAATCAAAT-AAAATTACATTAAAAA
1 AAATCAAATAAAAATTACAATAAAAA
50098301 AAATCA
1 AAATCA
50098307 CAAAACACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.28
26 5 0.17
27 1 0.03
28 12 0.41
29 3 0.10
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (26 bp):
AAATCAAATAAAAATTACAATAAAAA
Found at i:50098423 original size:102 final size:102
Alignment explanation
Indices: 50098285--50098540 Score: 417
Period size: 102 Copynumber: 2.5 Consensus size: 102
50098275 AAAATCAAAT
*
50098285 AAAATTACATTA-AAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAATC
1 AAAATTACATTACTAAAAAATCACAAAACACT-AACTAAACACTAACAATTTATATAACCTAATC
50098349 ATAAATTACTAACAAAATAACTAT-AAATTTTTTTTTA
65 ATAAATTACTAACAAAATAACTATAAAATTTTTTTTTA
* * *
50098386 AAAAATACATTACTAAAAAATCACAAAACACATAACTAAACCCTAACAATTTATATAACCTACTC
1 AAAATTACATTACTAAAAAATCACAAAACAC-TAACTAAACACTAACAATTTATATAACCTAATC
*
50098451 ATAAATTATTAACAAAATAACTATAAAATTTTTTTTTA
65 ATAAATTACTAACAAAATAACTATAAAATTTTTTTTTA
*
50098489 AAAATTACATTACTAAAAAATCACAAAACCCTATACTAAACACTAACAATTT
1 AAAATTACATTACTAAAAAATCACAAAACACTA-ACTAAACACTAACAATTT
50098541 GTAACATAAT
Statistics
Matches: 143, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
101 11 0.08
102 72 0.50
103 60 0.42
ACGTcount: A:0.54, C:0.17, G:0.00, T:0.30
Consensus pattern (102 bp):
AAAATTACATTACTAAAAAATCACAAAACACTAACTAAACACTAACAATTTATATAACCTAATCA
TAAATTACTAACAAAATAACTATAAAATTTTTTTTTA
Found at i:50098561 original size:103 final size:103
Alignment explanation
Indices: 50098285--50098573 Score: 419
Period size: 103 Copynumber: 2.8 Consensus size: 103
50098275 AAAATCAAAT
* *
50098285 AAAATTACATTA-AAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACCTAAT-
1 AAAATTACATTACTAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATC
*
50098348 CATAAATTACTAACAAAATAACTATAAATTTTTTTTTA
66 CATAAATTATTAACAAAATAACTATAAATTTTTTTTTA
* * *
50098386 AAAAATACATTACTAAAAAATCACAAAACAC-ATAACTAAACCCTAACAATTTATATAACCTACT
1 AAAATTACATTACTAAAAAATCACAAAACACTAT-ACTAAACACTAACAATTTATATAACCTAAT
50098450 -CATAAATTATTAACAAAATAACTATAAAATTTTTTTTTA
65 CCATAAATTATTAACAAAATAACTAT-AAATTTTTTTTTA
* * *
50098489 AAAATTACATTACTAAAAAATCACAAAACCCTATACTAAACACTAACAA-TT-TGTAACATAATC
1 AAAATTACATTACTAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAAT-
*
50098552 CCATTAATTATTAACAAAATAA
65 CCATAAATTATTAACAAAATAA
50098574 ATAACTATAA
Statistics
Matches: 169, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
101 20 0.12
102 71 0.42
103 76 0.45
104 2 0.01
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (103 bp):
AAAATTACATTACTAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATC
CATAAATTATTAACAAAATAACTATAAATTTTTTTTTA
Found at i:50098840 original size:60 final size:60
Alignment explanation
Indices: 50098768--50098889 Score: 217
Period size: 60 Copynumber: 2.0 Consensus size: 60
50098758 AACTAAGCAT
* *
50098768 AACAATTTATAACATAATCCTAAATTACTAATAAATTAATTTTAAAATAATTACAAACAC
1 AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAAC
*
50098828 AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTATAAAAAC
1 AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAAC
50098888 AA
1 AA
50098890 AAAAATTACA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (60 bp):
AACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTACAAAAAC
Found at i:50099066 original size:17 final size:17
Alignment explanation
Indices: 50099044--50099078 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
50099034 TACATTACCT
50099044 TTTTTCTTTCTTTCTTC
1 TTTTTCTTTCTTTCTTC
*
50099061 TTTTTCTTTTTTTCTTC
1 TTTTTCTTTCTTTCTTC
50099078 T
1 T
50099079 CCTTTCTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTCTTTCTTTCTTC
Found at i:50099093 original size:27 final size:25
Alignment explanation
Indices: 50099043--50099105 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 25
50099033 ATACATTACC
*
50099043 TTTTTTCTTTCTTTCTTCTTTTTCT
1 TTTTTTCTTTCTTTCTTCTCTTTCT
50099068 TTTTTTCTTCTCCTTTC-TCTCCTTTCT
1 TTTTTTCTT-T-CTTTCTTCT-CTTTCT
* *
50099095 TTCTCTCTTTC
1 TTTTTTCTTTC
50099106 GGTGCTTGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 10 0.31
26 5 0.16
27 17 0.53
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (25 bp):
TTTTTTCTTTCTTTCTTCTCTTTCT
Found at i:50099098 original size:13 final size:12
Alignment explanation
Indices: 50099048--50099105 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 12
50099038 TTACCTTTTT
50099048 TCTTTCTTTCTTC
1 TCTTTCTTTC-TC
* * *
50099061 TTTTTCTTTTTT
1 TCTTTCTTTCTC
50099073 TCTTCTCCTTTCTC
1 TCTT-T-CTTTCTC
50099087 TCCTTTCTTTCTC
1 T-CTTTCTTTCTC
50099100 TCTTTC
1 TCTTTC
50099106 GGTGCTTGAA
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
12 9 0.25
13 17 0.47
14 7 0.19
15 3 0.08
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TCTTTCTTTCTC
Found at i:50099261 original size:27 final size:27
Alignment explanation
Indices: 50099226--50099334 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
50099216 AGGGGGTAGG
* * *
50099226 CAGTGGCGCCTACCTGTCAGGCGCAAC
1 CAGTTGCGCCTACCTGACAGGCGCGAC
* *
50099253 TAGTTGCGCTTACCTGACAGGCGCGAC
1 CAGTTGCGCCTACCTGACAGGCGCGAC
*
50099280 CAGTTGCGCCTATCTGACAGGCGCGAC
1 CAGTTGCGCCTACCTGACAGGCGCGAC
*
50099307 CAGTTGCGCCTATCTGACAGGCGCGAC
1 CAGTTGCGCCTACCTGACAGGCGCGAC
50099334 C
1 C
50099335 TGTCTCGAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 74 1.00
ACGTcount: A:0.18, C:0.34, G:0.29, T:0.18
Consensus pattern (27 bp):
CAGTTGCGCCTACCTGACAGGCGCGAC
Found at i:50109970 original size:26 final size:26
Alignment explanation
Indices: 50109927--50109987 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 26
50109917 GGCAAAAAAT
* * *
50109927 TAAAAATAAAATATTATTAAATTTTAA
1 TAAAAATATAACATTATTAAATATT-A
50109954 TAAAAATATAACA-TATTAAATATTA
1 TAAAAATATAACATTATTAAATATTA
50109979 TAAAAATAT
1 TAAAAATAT
50109988 TATAAAAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 10 0.32
26 10 0.32
27 11 0.35
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (26 bp):
TAAAAATATAACATTATTAAATATTA
Found at i:50109987 original size:11 final size:11
Alignment explanation
Indices: 50109971--50109996 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
50109961 ATAACATATT
50109971 AAATATTATAA
1 AAATATTATAA
50109982 AAATATTATAA
1 AAATATTATAA
50109993 AAAT
1 AAAT
50109997 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATATTATAA
Found at i:50110019 original size:27 final size:28
Alignment explanation
Indices: 50109981--50110035 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
50109971 AAATATTATA
*
50109981 AAAATATTATAAAAATCGTA-AAAAAAT
1 AAAATATTATAAAAATCATACAAAAAAT
*
50110008 AAAATTTTATAAAAATCATACAAAAAAT
1 AAAATATTATAAAAATCATACAAAAAAT
50110036 TATAAAATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 18 0.72
28 7 0.28
ACGTcount: A:0.65, C:0.05, G:0.02, T:0.27
Consensus pattern (28 bp):
AAAATATTATAAAAATCATACAAAAAAT
Found at i:50117639 original size:19 final size:20
Alignment explanation
Indices: 50117615--50117653 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50117605 TTAATTTCTT
50117615 TTAAAATTTA-AAAACATTA
1 TTAAAATTTATAAAACATTA
*
50117634 TTAAAATTTATAAAATATTA
1 TTAAAATTTATAAAACATTA
50117654 AATAAAGTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAATTTATAAAACATTA
Found at i:50122202 original size:38 final size:38
Alignment explanation
Indices: 50122160--50122273 Score: 138
Period size: 38 Copynumber: 3.0 Consensus size: 38
50122150 ATTGATGATT
* * *
50122160 GCATGCCTATTGTTACTGTTGAATTAAATACATGTTAA
1 GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
* * **
50122198 GCATGTCTACTATTACTACTGAACTGAATACATGTTAA
1 GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
* * *
50122236 GAATGTCTATTGTTATTGTTGAACCGAATACATGTTAA
1 GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
50122274 ACATATTTAC
Statistics
Matches: 62, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (38 bp):
GCATGTCTATTGTTACTGTTGAACTGAATACATGTTAA
Found at i:50122995 original size:54 final size:54
Alignment explanation
Indices: 50122935--50123055 Score: 206
Period size: 54 Copynumber: 2.2 Consensus size: 54
50122925 TTTATATTGC
*
50122935 ATGCATGACATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
1 ATGCATGAAATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
* **
50122989 ATGCATGAGATTTAATTTGAATATAGGATATTGAAATATGGATATTAATTAATT
1 ATGCATGAAATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
50123043 ATGCATGAAATTT
1 ATGCATGAAATTT
50123056 TGGTCTTTAC
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 63 1.00
ACGTcount: A:0.42, C:0.03, G:0.14, T:0.40
Consensus pattern (54 bp):
ATGCATGAAATTTAATTTGAATATAGGATATTGAAATATAAATATTAATTAATT
Found at i:50132686 original size:13 final size:13
Alignment explanation
Indices: 50132670--50132702 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
50132660 TGTGGAAAAG
50132670 TGCTTTTAAGAAA
1 TGCTTTTAAGAAA
50132683 TGCTTTTAAGAAA
1 TGCTTTTAAGAAA
50132696 TGCTTTT
1 TGCTTTT
50132703 GAAAATTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.15, T:0.45
Consensus pattern (13 bp):
TGCTTTTAAGAAA
Found at i:50132975 original size:8 final size:8
Alignment explanation
Indices: 50132962--50132989 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
50132952 TATATAAACT
50132962 ATATTTAA
1 ATATTTAA
50132970 ATATTTAA
1 ATATTTAA
50132978 ATATTTAA
1 ATATTTAA
50132986 ATAT
1 ATAT
50132990 AATAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
ATATTTAA
Found at i:50135316 original size:72 final size:73
Alignment explanation
Indices: 50135226--50135400 Score: 230
Period size: 72 Copynumber: 2.4 Consensus size: 73
50135216 AAAATCACAT
* * *
50135226 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
*
50135290 GACCAAAC
66 AACCAAAC
* * *
50135298 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAA
*
50135361 AAATCAAAC
65 AAACCAAAC
* *
50135370 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
50135401 TTGTTGTTTA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
71 1 0.01
72 83 0.95
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATCCAAA
AACCAAAC
Found at i:50138645 original size:25 final size:25
Alignment explanation
Indices: 50138597--50138645 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
50138587 AACAAAGAAG
*
50138597 CAGCAGAAGAACAAAGAACCAGCAC
1 CAGCAGAAGAACAAAGAACAAGCAC
* *
50138622 CAGCAGAGGAACAAAGAATAAGCA
1 CAGCAGAAGAACAAAGAACAAGCA
50138646 GAGGAACAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.53, C:0.22, G:0.22, T:0.02
Consensus pattern (25 bp):
CAGCAGAAGAACAAAGAACAAGCAC
Found at i:50143952 original size:3 final size:3
Alignment explanation
Indices: 50143944--50143983 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
50143934 ATGTGCTTTT
50143944 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
50143984 CCTTTTCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50151866 original size:3 final size:3
Alignment explanation
Indices: 50151852--50151893 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
50151842 TACTATGATT
* *
50151852 TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TAA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
50151894 ACATACATGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:50153808 original size:46 final size:46
Alignment explanation
Indices: 50153730--50154006 Score: 419
Period size: 46 Copynumber: 6.0 Consensus size: 46
50153720 ACAATGCTAT
* *
50153730 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
50153776 AACTCAGTATGGTTTTCTTTACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
50153822 AACTCAGTATGGTTTTCTTTACCGAAACACCATATCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* *
50153868 AACTCAGTATGGTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* * * *
50153914 AACTCAATATGGTTTTCTTTACCGAAATAACATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
* **
50153960 AACTCAATATGGTTTTCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
50154006 A
1 A
50154007 CTTTGCCATG
Statistics
Matches: 213, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 213 1.00
ACGTcount: A:0.30, C:0.26, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
Done.