Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
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: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 166 of 208
Found at i:50624254 original size:798 final size:798
Alignment explanation
Indices: 50622718--50624314 Score: 2915
Period size: 798 Copynumber: 2.0 Consensus size: 798
50622708 AAAACTAAAA
*
50622718 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGTAAATGGTGCTTTAGTTGTTGAATCTGGG
1 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
*
50622783 AAAGATGCATTGGATTCGGGCCGTGTACTTGAGGAAAATTTGATTCATAATGGACCAAGTTTGGC
66 AAAGATGCATTGGATTCAGGCCGTGTACTTGAGGAAAATTTGATTCATAATGGACCAAGTTTGGC
50622848 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
131 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
* * * *
50622913 ACAGAAATAAGAGGTCAACTGCTAGGAAAAGGATGGCTGTTGGGGGAATAAACGTTCCAGGAGAA
196 ACAGAAATAAAAGGTCAACTGCTAGGAAAAAGATGGCTGATGGGGGAATAAACCTTCCAGGAGAA
* *
50622978 CATTCTGAATTGGAAACTAATAAACATAAAGATGTTGCTCACAAGGACCAGGAACATGAGTCAAA
261 CATTCTGAATTGGAAACTAATAAACATAAAAATGTTGCTCACAAGAACCAGGAACATGAGTCAAA
*
50623043 AGAAGATTCCTTTCAATCTCAGCCTGCATCGAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
326 AGAAGATTCCTTTCAATCTCAGCCTGCATCAAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
*
50623108 ATGACAATTCTTTAATAGAAAATGGAGAACAAGTTACTGATCTCAATACTGCAACCTCTGAGTGC
391 ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACTGCAACCTCTGAGTGC
* *
50623173 ACTTTAGGTCAGAAACTGGAAAATACGAGCGCTGTCGTAGACCCCTTGAATACTGAATCTGTAAA
456 ACTTTAGGTCAGAAACTGGAAAATACGAGCGCTGTCGTAGACCCCTTGAATACTAAATCGGTAAA
* *
50623238 ACAAAACCATTTGTCGACGGCCAATGCAAGCGGTGGGAAGAAGAACAGGAAAAGGCAAAAATCAA
521 ACAAAACCATTTGTCGACCGCCAATGCAAGCGGTGAGAAGAAGAACAGGAAAAGGCAAAAATCAA
*
50623303 ATCCTAGTCAAGTAGGTAGTGAAGTCTCTTCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
586 ATCCTAGTCAAGTAGGTAGTGAAGTCTCTGCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
50623368 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
651 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
*
50623433 TTCTGCAGGTGGAGAAATATCTGAACCTGGTCTGATCTCTTCAATGAAAATGCAGGAAGTTAGTG
716 TTCTGCAGGTGGAGAAATATCTGAACCTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
50623498 AAACAAATCAAGTGCCCC
781 AAACAAATCAAGTGCCCC
*
50623516 AGAGAAACAAATATGCCATCCACTATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
1 AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
* *
50623581 AAAGATGCGTTGGATTCAGGCTGTGTACTTGAGGAAAATTTGATTCATAATGGACCAAGTTTGGC
66 AAAGATGCATTGGATTCAGGCCGTGTACTTGAGGAAAATTTGATTCATAATGGACCAAGTTTGGC
* *
50623646 TTTGAATGATGCAAATCTGGGAAGCCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
131 TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
50623711 ACAGAAATAAAAGGTCAACTGCTAGGAAAAAGATGGCTGATGGGGGAATAAACCTTCCAGGAGAA
196 ACAGAAATAAAAGGTCAACTGCTAGGAAAAAGATGGCTGATGGGGGAATAAACCTTCCAGGAGAA
*
50623776 CATTCTGAATTGGAAACTAATAAACATAAAAATGTTGCTCACAAGAACCGGGAACATGAGTCAAA
261 CATTCTGAATTGGAAACTAATAAACATAAAAATGTTGCTCACAAGAACCAGGAACATGAGTCAAA
* *
50623841 AGAAGATTCCTTTCAATCTCGGCCTGTATCAAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
326 AGAAGATTCCTTTCAATCTCAGCCTGCATCAAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
* *
50623906 ATGACAATTCTTTAATAGAAAATGGAGAACACGCTACTGATCTCAATACTGCAACCTCTGAGTGT
391 ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACTGCAACCTCTGAGTGC
* * *
50623971 ACTTTAGGTCAGAAATTGGAAAATACGAGGGCTGTCGTAGACCCCTTGAATGCTAAATCGGTAAA
456 ACTTTAGGTCAGAAACTGGAAAATACGAGCGCTGTCGTAGACCCCTTGAATACTAAATCGGTAAA
50624036 ACAAAACCATTTGTCGACCGCCAATGCAAGCGGTGAGAAGAAGAACAGGAAAAGGCAAAAATCAA
521 ACAAAACCATTTGTCGACCGCCAATGCAAGCGGTGAGAAGAAGAACAGGAAAAGGCAAAAATCAA
50624101 ATCCTAGTCAAGTAGGTAGTGAAGTCTCTGCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
586 ATCCTAGTCAAGTAGGTAGTGAAGTCTCTGCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
*
50624166 GTAGAAGCCATTGAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
651 GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
50624231 TTCTGCAGGTGGAGAAATATCTGAACCTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
716 TTCTGCAGGTGGAGAAATATCTGAACCTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
*
50624296 AAACCAATCAAGTGCCCC
781 AAACAAATCAAGTGCCCC
50624314 A
1 A
50624315 CTCGGGGGGT
Statistics
Matches: 768, Mismatches: 31, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
798 768 1.00
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (798 bp):
AGAGAAACAAATATGCCATCCACCATGATTCTAAAGAAAATGGTGCTTTAGTTGTTGAATCTGGG
AAAGATGCATTGGATTCAGGCCGTGTACTTGAGGAAAATTTGATTCATAATGGACCAAGTTTGGC
TTTGAATGACGCAAATCTGGGAAACCAAATTCATGTGGATGAAACCTCTCGGAGTTTGTCTTCTG
ACAGAAATAAAAGGTCAACTGCTAGGAAAAAGATGGCTGATGGGGGAATAAACCTTCCAGGAGAA
CATTCTGAATTGGAAACTAATAAACATAAAAATGTTGCTCACAAGAACCAGGAACATGAGTCAAA
AGAAGATTCCTTTCAATCTCAGCCTGCATCAAAGAAAAAGCGCAAAGCCGAGAAGAAAGATGTTA
ATGACAATTCTTTAATAGAAAATGGAGAACAAGCTACTGATCTCAATACTGCAACCTCTGAGTGC
ACTTTAGGTCAGAAACTGGAAAATACGAGCGCTGTCGTAGACCCCTTGAATACTAAATCGGTAAA
ACAAAACCATTTGTCGACCGCCAATGCAAGCGGTGAGAAGAAGAACAGGAAAAGGCAAAAATCAA
ATCCTAGTCAAGTAGGTAGTGAAGTCTCTGCTGCAAAAGATGTTCATGTGGAAACTTTTCAGGCT
GTAGAAGCCATTAAAGACAAAGATTTGGGCAGTAAAGGTGATCCAGTTTCTTTTCTTGGAAAACG
TTCTGCAGGTGGAGAAATATCTGAACCTGGTCTGATCTCATCAATGAAAATGCAGGAAGTTAGTG
AAACAAATCAAGTGCCCC
Found at i:50628815 original size:24 final size:24
Alignment explanation
Indices: 50628784--50628829 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
50628774 CCCTTGTATA
50628784 AAATAATCTTAAAGTCTATACATT
1 AAATAATCTTAAAGTCTATACATT
50628808 AAATAATCTTAAAGTCTATACA
1 AAATAATCTTAAAGTCTATACA
50628830 AACAATTCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAATCTTAAAGTCTATACATT
Found at i:50631432 original size:133 final size:131
Alignment explanation
Indices: 50631130--50631987 Score: 1195
Period size: 133 Copynumber: 6.5 Consensus size: 131
50631120 ATAGGATTGG
* * * * * *
50631130 TGGCTTCAACGTACTCCACTGTAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
* * * * *
50631195 ACTGCT-T-AGGGAGACAAGATCTGAAATCTTCAATCTATT-CGCTGCTGCCCAGGGAAGTAGAA
66 -GT-CTATGAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTG-CCAGGGAAGTAGAA
*
50631257 TTAC
128 TTTC
* * * * * * *
50631261 CGGCTTCAATGTGCTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
* * * *
50631326 ACTGCT-TG-GGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGA
66 -GT-CTATGAGGAAGGCAAGATCTGAAATC-TTTAATCTATTCCACTGCTG-CCAGGGAAGTAGA
50631389 ATTTC
127 ATTTC
* *
50631394 TGGCTTCAATGTACTACACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
50631459 GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTG-CCAGGGAAGTAGAAT
50631524 TTC
129 TTC
*
50631527 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
*
50631592 GTTTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCTAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCC-AGGGAAGTAGAAT
50631657 TTC
129 TTC
* * *
50631660 TGGCTTTAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCATTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
*
50631725 GTTTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCTAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCC-AGGGAAGTAGAAT
50631790 TTC
129 TTC
* *
50631793 TGGCTTCAATGTACTCTACTGCAACTTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
*
50631858 GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCATTGCTGCCCAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTG-CCAGGGAAGTAGAAT
*
50631923 TAC
129 TTC
* * * *
50631926 TGGCTTCAATGTACTCCACTGCAACTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCC
50631988 ACTACTGCTT
Statistics
Matches: 678, Mismatches: 41, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
131 84 0.12
132 15 0.02
133 560 0.83
134 19 0.03
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (131 bp):
TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
GTCTATGAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCAGGGAAGTAGAATTT
C
Found at i:50633392 original size:49 final size:49
Alignment explanation
Indices: 50633327--50633431 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
50633317 CTTTGCGAGT
* * *
50633327 TTTCACCTTAGCCTCTCCATTTTTTTT-ACTCAAGGCTCCCTTTGTAGGG
1 TTTCACCCTAGCCTCTCCATTTTTTTTGACTCAA-GCGCCCTTTGTAGGC
* **
50633376 TTTCACCCTAGTCTCTCTTTTTTTTTTGACTCAAGCGCCCTTTGTAGGC
1 TTTCACCCTAGCCTCTCCATTTTTTTTGACTCAAGCGCCCTTTGTAGGC
50633425 TTTCACC
1 TTTCACC
50633432 TTGGTCCCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
49 43 0.88
50 6 0.12
ACGTcount: A:0.13, C:0.30, G:0.13, T:0.44
Consensus pattern (49 bp):
TTTCACCCTAGCCTCTCCATTTTTTTTGACTCAAGCGCCCTTTGTAGGC
Found at i:50633446 original size:50 final size:49
Alignment explanation
Indices: 50633346--50633446 Score: 123
Period size: 49 Copynumber: 2.0 Consensus size: 49
50633336 AGCCTCTCCA
* * * *
50633346 TTTTTTTTACTCAAGGCTCCCTTTGTAGGGTTTCACCCTAGTCTCTCTT
1 TTTTTTTTACTCAAGGCGCCCTTTGTAGGCTTTCACCCTAGTCCCCCTT
* *
50633395 TTTTTTTTGACTCAA-GCGCCCTTTGTAGGCTTTCACCTTGGTCCCACCTT
1 TTTTTTTT-ACTCAAGGCGCCCTTTGTAGGCTTTCACCCTAGTCCC-CCTT
50633445 TT
1 TT
50633447 AGAAAAGTAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
49 33 0.75
50 11 0.25
ACGTcount: A:0.12, C:0.28, G:0.15, T:0.46
Consensus pattern (49 bp):
TTTTTTTTACTCAAGGCGCCCTTTGTAGGCTTTCACCCTAGTCCCCCTT
Found at i:50636163 original size:19 final size:19
Alignment explanation
Indices: 50636139--50636184 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
50636129 AGAGGTGTTT
* *
50636139 AATGCATATG-ATGCAATG
1 AATGCAAATGCATGAAATG
50636157 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
50636177 AATGCAAA
1 AATGCAAA
50636185 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:50640270 original size:133 final size:132
Alignment explanation
Indices: 50639968--50640826 Score: 1192
Period size: 133 Copynumber: 6.5 Consensus size: 132
50639958 ATAGGATTGG
* * * * * *
50639968 TGGCTTCAACGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
* * * * *
50640033 ACTGCT-T-AGGGAGACAAGATCTGAAATCTTCAATCTATT-CGCTGCTGCCCAGGGAAGTAGAA
66 -GT-CTATGAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAA
*
50640095 TTAC
129 TTTC
* * * * * *
50640099 CGGCTTCAATGTGCTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
* * * * *
50640164 ACTGCT-TG-GGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGA
66 -GT-CTATGAGGAAGGCAAGATCTGAAATC-TTTAATCTATTCCACTGCTGCCCAGGGAAGTAGA
50640227 ATTTC
128 ATTTC
* *
50640232 TGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
* *
50640297 GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGACCAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
50640362 TTC
130 TTC
* *
50640365 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
*
50640430 GTTTATGCAGGAAGGCAAGATCTG-AATCTTT-ATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
50640493 TTC
130 TTC
* * * *
50640496 TGGCTTTAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCATTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
* *
50640561 GTTTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGACGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
50640626 TTC
130 TTC
* *
50640629 TGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
*
50640694 GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCATTGCTGCCCAGGGAAGTAGAAT
66 GTCTATG-AGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
*
50640759 TAC
130 TTC
* * * *
50640762 TGGCTTCAATGTACTCCACTGCAACTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
50640827 ACTGCTTAGG
Statistics
Matches: 674, Mismatches: 46, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
131 201 0.30
132 27 0.04
133 429 0.64
134 17 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (132 bp):
TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTCCACT
GTCTATGAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGAATT
TC
Found at i:50640492 original size:264 final size:265
Alignment explanation
Indices: 50639968--50640826 Score: 1223
Period size: 264 Copynumber: 3.2 Consensus size: 265
50639958 ATAGGATTGG
* * * * *
50639968 TGGCTTCAACGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACT
* * * * *
50640033 -AC--TGCTTAGGGAGACAAGATCTGAAATCTTCAATCTA-TTCGCTGCTGCCCAGGGAAGTAGA
66 GTCTATGC--AGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGCCCAGGGAAGTAGA
* * * * * *
50640094 ATTACCGGCTTCAATGTGCTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCT
129 ATTTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCT
* * * * * *
50640159 CCACTACTGCT-TG--GGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGA
194 CCGCT-GT-CTATGCAGGAAGGCAAGATCT-GAATC-TTTAATCTATTCCACTGCTGCCCAGGGA
50640221 AGTAGAATTTC
255 AGTAGAATTTC
* * *
50640232 TGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACT
*
50640297 GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGACCAGGGAAGTAGAAT
66 GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGCCCAGGGAAGTAGAAT
50640362 TTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
131 TTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
*
50640427 GCTGTTTATGCAGGAAGGCAAGATCTGAATCTTT-ATCTATTCCACTGCTGCCCAGGGAAGTAGA
196 GCTGTCTATGCAGGAAGGCAAGATCTGAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGA
50640491 ATTTC
261 ATTTC
* * *
50640496 TGGCTTTAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCATT-GATCTGCTCCGC
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATC-TTCGATCTGCTCCAC
* * *
50640560 TGTTTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGACGTAGAA
65 TGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGCCCAGGGAAGTAGAA
* *
50640625 TTTCTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTTGATCTGCTC
130 TTTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTC
*
50640690 CGCTGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCATTGCTGCCCAGGGAAGTA
195 CGCTGTCTATGCAGGAAGGCAAGATCTG-AATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTA
*
50640755 GAATTAC
259 GAATTTC
* * *
50640762 TGGCTTCAATGTACTCCACTGCAACTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACT
50640827 ACTGCTTAGG
Statistics
Matches: 539, Mismatches: 45, Indels: 20
0.89 0.07 0.03
Matches are distributed among these distances:
264 299 0.55
265 45 0.08
266 180 0.33
267 15 0.03
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (265 bp):
TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACT
GTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGCCCAGGGAAGTAGAAT
TTCTGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCC
GCTGTCTATGCAGGAAGGCAAGATCTGAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAGA
ATTTC
Found at i:50640650 original size:397 final size:397
Alignment explanation
Indices: 50639968--50640859 Score: 1263
Period size: 397 Copynumber: 2.2 Consensus size: 397
50639958 ATAGGATTGG
* * * *
50639968 TGGCTTCAACGTACTCCACTGTAACCTTAGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* * * *
50640033 ACTGCTTAGGGAGACAAGATCTGAAATCTTCAATCTATTCGCTGCTGCCCAGGGAAGTAGAATTA
66 ACTGATCAGGAAGACAAGATCTGAAATCTTCAATCTATTCACTGCTGCCCAGGGAAGTAGAATTA
* * * * *
50640098 CCGGCTTCAATGTGCTCCACTGTAACCACAGGGAGGTAAAATTCATCATCTTTGATCTGCTCCAC
131 CCGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCCACCATCATTGATCTGCTCCAC
*
50640163 TACTGCTTGGGGAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
196 TACTGCTTGGGAAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
*
50640228 TTTCTGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATTCACCATCTTTGATCTGCTC
261 TTTCTGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATCCACCATCTTTGATCTGCTC
*
50640293 CACTGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTTCACTGCTGACCAGGGAAGTA
326 CACTGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTA
*
50640358 GAATTTC
391 GAATTAC
* * * *
50640365 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCGCT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
** * * *
50640430 GTTTATGCAGGAAGGCAAGATCTG-AATCTT-TATCTATTCCACTGCTGCCCAGGGAAGTAGAAT
66 ACTGAT-CAGGAAGACAAGATCTGAAATCTTCAATCTATT-CACTGCTGCCCAGGGAAGTAGAAT
* * * **
50640493 TTCTGGCTTTAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCATTGATCTGCTCC
129 TACCGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCCACCATCATTGATCTGCTCC
* * * * * * *
50640558 GCT-GT-TTATGCAGGAAGGCAAGATCTGAAATC-TTTAATCTATTCCACTGCTGCCCAGGGACG
194 ACTACTGCT-TG--GGAAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAG
* *
50640620 TAGAATTTCTGGCTTCAATGTACTCCACTGCAACTTCAGGGAGGTAAAATCCACCATCTTTGATC
256 TAGAATTTCTGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATCCACCATCTTTGATC
* * *
50640685 TGCTCCGCTGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCATTGCTGCCCAGGG
321 TGCTCCACTGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGG
50640750 AAGTAGAATTAC
386 AAGTAGAATTAC
* *
50640762 TGGCTTCAATGTACTCCACTGCAACTTCATGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
1 TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
* * * *
50640827 ACTGCTTAGGGAGACAAGACCTGAAATCTTCAA
66 ACTGATCAGGAAGACAAGATCTGAAATCTTCAA
50640860 CCTGCTCCAC
Statistics
Matches: 430, Mismatches: 58, Indels: 13
0.86 0.12 0.03
Matches are distributed among these distances:
395 1 0.00
396 23 0.05
397 374 0.87
398 32 0.07
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (397 bp):
TGGCTTCAATGTACTCCACTGCAACCTCAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACT
ACTGATCAGGAAGACAAGATCTGAAATCTTCAATCTATTCACTGCTGCCCAGGGAAGTAGAATTA
CCGGCTTCAATGTACTCCACTGCAACCACAGGGAGGTAAAATCCACCATCATTGATCTGCTCCAC
TACTGCTTGGGAAGACAAGATCTAAAATCTTTTAATCTATTCCACTGCTGACCAGGGAAGTAGAA
TTTCTGGCTTCAATGTACTCCACTGCAACCTCAAGGAGGTAAAATCCACCATCTTTGATCTGCTC
CACTGTCTATGCAGGAAGGCAAGATCTGAAATCTTTAATCTATTCCACTGCTGACCAGGGAAGTA
GAATTAC
Found at i:50642227 original size:49 final size:49
Alignment explanation
Indices: 50642162--50642266 Score: 140
Period size: 49 Copynumber: 2.1 Consensus size: 49
50642152 CTTTGCGAGT
* * *
50642162 TTTCACCTTAGCCTCTCCATTTTTTTT-ACTCAAGGCTCCCTTTGTAGGG
1 TTTCACCCTAGCCTCT-CATTTTTTTTGACTCAAAGCGCCCTTTGTAGGG
* * *
50642211 TTTCACCCTAGTCTCTCTTTTTTTTTGACTCAAAGCGCCCTTTGTAGGT
1 TTTCACCCTAGCCTCTCATTTTTTTTGACTCAAAGCGCCCTTTGTAGGG
50642260 TTTCACC
1 TTTCACC
50642267 TTGGTCCCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
48 9 0.18
49 40 0.82
ACGTcount: A:0.14, C:0.29, G:0.13, T:0.44
Consensus pattern (49 bp):
TTTCACCCTAGCCTCTCATTTTTTTTGACTCAAAGCGCCCTTTGTAGGG
Found at i:50644983 original size:19 final size:19
Alignment explanation
Indices: 50644959--50645004 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
50644949 NNNNGTGTTT
* *
50644959 AATGCATATG-ATGCAATG
1 AATGCAAATGCATGAAATG
50644977 AAATGCAAATGCATGAAATG
1 -AATGCAAATGCATGAAATG
50644997 AATGCAAA
1 AATGCAAA
50645005 AAGAGACGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.48, C:0.11, G:0.20, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGAAATG
Found at i:50653491 original size:29 final size:29
Alignment explanation
Indices: 50653430--50653491 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
50653420 AAAATTATAT
** * *
50653430 TTAATAAAATAAAATATTTATTTGTTTTT
1 TTAATAAAATAAAATATTTATTTAATGTG
* *
50653459 TTAATATAATAAAATATTTTTTTAATGTG
1 TTAATAAAATAAAATATTTATTTAATGTG
50653488 TTAA
1 TTAA
50653492 AATTTTTTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (29 bp):
TTAATAAAATAAAATATTTATTTAATGTG
Found at i:50653492 original size:21 final size:20
Alignment explanation
Indices: 50653454--50653500 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
50653444 TATTTATTTG
50653454 TTTTTTTAATATAATAAAAT
1 TTTTTTTAATATAATAAAAT
* **
50653474 ATTTTTTTAATGTGTTAAAAT
1 -TTTTTTTAATATAATAAAAT
50653495 TTTTTT
1 TTTTTT
50653501 ATGTTAATCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTTTTAATATAATAAAAT
Found at i:50661094 original size:22 final size:22
Alignment explanation
Indices: 50661042--50661105 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
50661032 TATTTGGGAA
* * *
50661042 TTGGTATGAAACGGTAAGGGAT
1 TTGGTACGAAATGGTAATGGAT
**
50661064 TTGAAACGAAATGGTAATGGAT
1 TTGGTACGAAATGGTAATGGAT
*
50661086 TTGGTACGAAAATGGAAATG
1 TTGGTACG-AAATGGTAATG
50661106 TTTCAAAAAG
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
22 23 0.70
23 10 0.30
ACGTcount: A:0.38, C:0.05, G:0.31, T:0.27
Consensus pattern (22 bp):
TTGGTACGAAATGGTAATGGAT
Found at i:50664210 original size:16 final size:16
Alignment explanation
Indices: 50664189--50664219 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
50664179 TTAAAAATAA
50664189 AAATAATAATTTATAG
1 AAATAATAATTTATAG
50664205 AAATAATAATTTATA
1 AAATAATAATTTATA
50664220 AAAGGGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
AAATAATAATTTATAG
Found at i:50664393 original size:9 final size:9
Alignment explanation
Indices: 50664379--50664694 Score: 113
Period size: 10 Copynumber: 33.0 Consensus size: 9
50664369 AAATGACTTT
50664379 TTTTTATAA
1 TTTTTATAA
*
50664388 TTTTTAATAT
1 TTTTT-ATAA
*
50664398 TTTTTCTAA
1 TTTTTATAA
*
50664407 TTTATTAGAA
1 TTT-TTATAA
50664417 TTTATTAT-A
1 TTT-TTATAA
50664426 TTATTTATAA
1 TT-TTTATAA
*
50664436 TTTTTATGAT
1 TTTTTAT-AA
50664446 TTTTTATAA
1 TTTTTATAA
*
50664455 GTTTTAATGAA
1 -TTTTTAT-AA
*
50664466 ATTTTA-AA
1 TTTTTATAA
50664474 TATTTTAAATATA
1 T-TTTT--ATA-A
50664487 TTTTTATCAA
1 TTTTTAT-AA
50664497 -TTTTATAA
1 TTTTTATAA
**** *
50664505 AAAATATTA
1 TTTTTATAA
* *
50664514 TTATTAGAA
1 TTTTTATAA
* *
50664523 TTTTTTTAT
1 TTTTTATAA
50664532 TTTTTAATAA
1 TTTTT-ATAA
* *
50664542 TTTTAATGA
1 TTTTTATAA
* *
50664551 TATTTGTAA
1 TTTTTATAA
*
50664560 GTTTTTATGATT
1 -TTTTTAT-A-A
50664572 TTTTTATAA
1 TTTTTATAA
*
50664581 TTTTTAAAA
1 TTTTTATAA
*
50664590 GTTTATATCAA
1 -TTTTTAT-AA
*
50664601 TTTTAAT-A
1 TTTTTATAA
50664609 -TTTT-TAA
1 TTTTTATAA
*
50664616 TATTTAATAA
1 T-TTTTATAA
*
50664626 TTCTTTATTA
1 TT-TTTATAA
50664636 TTTTTAATAAA
1 TTTTT-AT-AA
*
50664647 TTTTTATGAT
1 TTTTTAT-AA
50664657 TTTTTATAA
1 TTTTTATAA
*
50664666 GTTTTTAAGAA
1 -TTTTT-ATAA
*
50664677 TTTTTATAT
1 TTTTTATAA
50664686 TTTTTATAA
1 TTTTTATAA
50664695 AATTTTAAAT
Statistics
Matches: 224, Mismatches: 54, Indels: 58
0.67 0.16 0.17
Matches are distributed among these distances:
6 1 0.00
7 4 0.02
8 5 0.02
9 85 0.38
10 99 0.44
11 23 0.10
12 5 0.02
13 2 0.01
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:50664577 original size:106 final size:104
Alignment explanation
Indices: 50664408--50664605 Score: 240
Period size: 106 Copynumber: 1.9 Consensus size: 104
50664398 TTTTTCTAAT
* *
50664408 TTATTAGAATTTATTATATTATTTATAATTTTTATGATTTTTTATAAGTTTTAATGAAATTTTA-
1 TTATTAGAATTTATTATATTATTTATAATTTTAATGATTATTTATAAGTTTTAATGAAATTTTAT
*
50664472 AATATTTTAAATATATTTTTATCAATTTTATAAAAAATATTA
66 AAT-TTTTAAA-A-ATTTATATCAATTTTATAAAAAATATTA
* * * * **
50664514 TTATTAGAATTT-TTTTATTTTTTAATAATTTTAATGA-TATTTGTAAGTTTTTATGATTTTTTT
1 TTATTAGAATTTATTATATTATTT-ATAATTTTAATGATTATTTATAAGTTTTAATGA-AATTTT
*
50664577 ATAATTTTTAAAAGTTTATATCAATTTTA
64 ATAATTTTTAAAAATTTATATCAATTTTA
50664606 ATATTTTTAA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
104 14 0.18
105 26 0.33
106 36 0.46
107 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (104 bp):
TTATTAGAATTTATTATATTATTTATAATTTTAATGATTATTTATAAGTTTTAATGAAATTTTAT
AATTTTTAAAAATTTATATCAATTTTATAAAAAATATTA
Found at i:50664592 original size:30 final size:28
Alignment explanation
Indices: 50664561--50664709 Score: 92
Period size: 28 Copynumber: 5.1 Consensus size: 28
50664551 TATTTGTAAG
50664561 TTTTTATGATTTTTTTATAATTTTTAAAA
1 TTTTTAT-ATTTTTTTATAATTTTTAAAA
* ** *
50664590 -GTTTATATCAATTTTA-ATATTTTTAATA
1 TTTTTATAT-TTTTTTATA-ATTTTTAAAA
* * * *
50664618 -TTTAATAATTCTTTATTATTTTTAATAAA
1 TTTTTATATTTTTTTATAATTTTT-A-AAA
50664647 TTTTTATGA-TTTTTTATAAGTTTTTAAGAA
1 TTTTTAT-ATTTTTTTATAA-TTTTTAA-AA
*
50664677 TTTTTATA-TTTTTTATAAAATTTTAAATA
1 TTTTTATATTTTTTTAT-AATTTTTAAA-A
50664706 TTTT
1 TTTT
50664710 AAATAAATTT
Statistics
Matches: 93, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
27 13 0.14
28 26 0.28
29 23 0.25
30 25 0.27
31 6 0.06
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (28 bp):
TTTTTATATTTTTTTATAATTTTTAAAA
Found at i:50664621 original size:27 final size:28
Alignment explanation
Indices: 50664580--50664644 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 28
50664570 TTTTTTTATA
*
50664580 ATTTTTAAAAGTTTATATCAA-T-TTTAAT
1 ATTTTTAATAGTTTA-AT-AATTCTTTAAT
*
50664608 ATTTTTAATA-TTTAATAATTCTTTATT
1 ATTTTTAATAGTTTAATAATTCTTTAAT
50664635 ATTTTTAATA
1 ATTTTTAATA
50664645 AATTTTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
25 2 0.06
26 3 0.09
27 19 0.58
28 9 0.27
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTTTTAATAGTTTAATAATTCTTTAAT
Found at i:50664709 original size:29 final size:30
Alignment explanation
Indices: 50664645--50664702 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
50664635 ATTTTTAATA
**
50664645 AATTTTTATGATTTTTTATAAGTTTTTAAG
1 AATTTTTATGATTTTTTATAAAATTTTAAG
50664675 AATTTTTAT-ATTTTTTATAAAATTTTAA
1 AATTTTTATGATTTTTTATAAAATTTTAA
50664703 ATATTTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (30 bp):
AATTTTTATGATTTTTTATAAAATTTTAAG
Found at i:50664715 original size:21 final size:21
Alignment explanation
Indices: 50664682--50664722 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
50664672 AAGAATTTTT
**
50664682 ATATTTTTTATAAAATTTTAA
1 ATATTTTAAATAAAATTTTAA
*
50664703 ATATTTTAAATAAATTTTTA
1 ATATTTTAAATAAAATTTTA
50664723 CTTTTATAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTAAATAAAATTTTAA
Found at i:50664874 original size:20 final size:19
Alignment explanation
Indices: 50664829--50664884 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
50664819 AAATTTTAAT
*
50664829 TTTTTTAAAAAATATTTTTA
1 TTTTTTAATAAAT-TTTTTA
**
50664849 AGTTTTAATAAATTTTCTTA
1 TTTTTTAATAAATTTT-TTA
*
50664869 TTTTTTAATCAATTTT
1 TTTTTTAATAAATTTT
50664885 ATGAGAAAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 3 0.10
20 26 0.90
ACGTcount: A:0.34, C:0.04, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTTAATAAATTTTTTA
Found at i:50667245 original size:2 final size:2
Alignment explanation
Indices: 50667238--50667264 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
50667228 TTTACATGTC
50667238 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
50667265 TAAGGAATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50667781 original size:24 final size:24
Alignment explanation
Indices: 50667754--50667802 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
50667744 CGAAAATTAC
50667754 TAGTTTCAGGATTTTAATTCGAGT
1 TAGTTTCAGGATTTTAATTCGAGT
*
50667778 TAGTTTCATGATTTTAATTCGAGT
1 TAGTTTCAGGATTTTAATTCGAGT
50667802 T
1 T
50667803 TAAATCATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.49
Consensus pattern (24 bp):
TAGTTTCAGGATTTTAATTCGAGT
Found at i:50667810 original size:24 final size:24
Alignment explanation
Indices: 50667763--50667814 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
50667753 CTAGTTTCAG
**
50667763 GATTTTAATTCGAGTTAGTTTCAT
1 GATTTTAATTCGAGTTAGAATCAT
50667787 GATTTTAATTCGAGTTTA-AATCAT
1 GATTTTAATTCGAG-TTAGAATCAT
50667811 -ATTT
1 GATTT
50667815 GGTTTGGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.16
24 18 0.72
25 3 0.12
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (24 bp):
GATTTTAATTCGAGTTAGAATCAT
Found at i:50667935 original size:17 final size:18
Alignment explanation
Indices: 50667909--50667942 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
50667899 TTAATAATTA
50667909 TTAAGCAGTTTAAGTTAT
1 TTAAGCAGTTTAAGTTAT
*
50667927 TTAAG-AGTTTATGTTA
1 TTAAGCAGTTTAAGTTA
50667943 GCAAGAAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.03, G:0.18, T:0.47
Consensus pattern (18 bp):
TTAAGCAGTTTAAGTTAT
Found at i:50669769 original size:16 final size:16
Alignment explanation
Indices: 50669735--50669773 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
50669725 GACATTGGTG
50669735 ATATA-TGTTATTTAT
1 ATATATTGTTATTTAT
50669750 ATATATTGTTAATTTAAT
1 ATATATTGTT-ATTT-AT
50669768 ATATAT
1 ATATAT
50669774 ATGTATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 4 0.19
18 8 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (16 bp):
ATATATTGTTATTTAT
Found at i:50674080 original size:14 final size:14
Alignment explanation
Indices: 50674057--50674083 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
50674047 ACAAAAATAA
50674057 ATAAACAAATAAAT
1 ATAAACAAATAAAT
50674071 ATAAACAAATAAA
1 ATAAACAAATAAA
50674084 CTAAACTGAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (14 bp):
ATAAACAAATAAAT
Found at i:50677256 original size:9 final size:10
Alignment explanation
Indices: 50677233--50677261 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
50677223 CCATAATTAT
50677233 TTTTTTAAAA
1 TTTTTTAAAA
50677243 TTTTTTAAAA
1 TTTTTTAAAA
50677253 TTTTTTAAA
1 TTTTTTAAA
50677262 GTCAGAACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTTTAAAA
Found at i:50677600 original size:23 final size:22
Alignment explanation
Indices: 50677557--50677600 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
50677547 TTCTAAGTCG
50677557 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT-CACACCT
50677580 ATATTCATTATTCAATT-ACAC
1 ATATTCA--ATTCAATTCACAC
50677601 TTAGTCAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.36, C:0.25, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATTCAATTCAATTCACACCT
Found at i:50677709 original size:45 final size:45
Alignment explanation
Indices: 50677645--50677733 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 45
50677635 AACATATACT
* *
50677645 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
*
50677690 CGGTGGAATCAGCACATAGCGACCACCTTACTAATCAATGATGT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
50677734 TCAGTTCACA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:50677838 original size:51 final size:50
Alignment explanation
Indices: 50677743--50677871 Score: 136
Period size: 51 Copynumber: 2.5 Consensus size: 50
50677733 TTCAGTTCAC
* *
50677743 ATAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCCGATCTACG
1 ATAGTAGCCTGCACATAGTACTACACACGTAACCATAACCATCCG--CTACG
*** * *
50677795 -TAGTAGCCTGCACATAGTACTACACACGTGATTGA-AACTATCCGGTACG
1 ATAGTAGCCTGCACATAGTACTACACACGT-AACCATAACCATCCGCTACG
*
50677844 CATAGTAGTCTGCACATAGTACTACACA
1 -ATAGTAGCCTGCACATAGTACTACACA
50677872 TGCGACTTAT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
49 4 0.06
51 60 0.91
52 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (50 bp):
ATAGTAGCCTGCACATAGTACTACACACGTAACCATAACCATCCGCTACG
Found at i:50677926 original size:101 final size:102
Alignment explanation
Indices: 50677742--50677926 Score: 261
Period size: 101 Copynumber: 1.8 Consensus size: 102
50677732 GTTCAGTTCA
* *
50677742 CATAGTAGCCTGCACATAGTACTACACATGTAACCATTACCATCCGATCTACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATTACCATCCGATCTACGTAGTAGCCTACA
50677807 CATAGTACTACACACGTGATTGAAACTATCCGGTACG
66 CATAGTACTACACACGTGATTGAAACTATCCGGTACG
* * * *
50677844 CATAGTAGTCTGCACATAGTACTACACATGCGA-C-TTATCATTCTGATAC-ACGTAGTA-CCTT
1 CATAGTAGCCTGCACATAGTACTACACATGCAACCATTACCA-TCCGAT-CTACGTAGTAGCC-T
50677905 ACACATAGTACTACACACGTGA
63 ACACATAGTACTACACACGTGA
50677927 CCATCACTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
100 7 0.09
101 36 0.49
102 31 0.42
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCAACCATTACCATCCGATCTACGTAGTAGCCTACA
CATAGTACTACACACGTGATTGAAACTATCCGGTACG
Found at i:50691903 original size:22 final size:22
Alignment explanation
Indices: 50691878--50691997 Score: 168
Period size: 22 Copynumber: 5.5 Consensus size: 22
50691868 TTTATTGTTC
*
50691878 AAACATGAGAGCTTAGTACGTG
1 AAACATGAGAGCTTAGTACGTT
50691900 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
**
50691922 AGCCATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
** * * *
50691944 AGCCATGAGGGTTTAGTTCGTT
1 AAACATGAGAGCTTAGTACGTT
50691966 AAACATGAGAGCTTAGTACGTT
1 AAACATGAGAGCTTAGTACGTT
50691988 AAACATGAGA
1 AAACATGAGA
50691998 AAGGGCGCTT
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 87 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (22 bp):
AAACATGAGAGCTTAGTACGTT
Found at i:50693601 original size:35 final size:35
Alignment explanation
Indices: 50693555--50693622 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
50693545 AAAGGTTGGA
*
50693555 AATCTAAGAAGGAAGAGTCTAAATTAAGACTATAT
1 AATCTAAGAAGGAAGAGTCAAAATTAAGACTATAT
*
50693590 AATCTAAGAAGGAAGAGTCAAAATTAAGGCTAT
1 AATCTAAGAAGGAAGAGTCAAAATTAAGACTAT
50693623 CTCTTTGGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.24
Consensus pattern (35 bp):
AATCTAAGAAGGAAGAGTCAAAATTAAGACTATAT
Found at i:50694776 original size:44 final size:44
Alignment explanation
Indices: 50694198--50694869 Score: 158
Period size: 44 Copynumber: 15.3 Consensus size: 44
50694188 ACCACAAATC
** * * **
50694198 CTTGCCTCATTGGGTTGCAGCGGAGCAGGTTGAAAATAATAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* **** * * * * * *
50694242 CTTGCCTTCCTGCACCGACAGTGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * *
50694286 CTTGCCTTCCTGGGTTGCAGTGGAGCAAGTTGAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * ***** * * * * * * *
50694330 ATTGTCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAG-C
1 CTTGCCTCCCTG-GGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * *
50694374 CTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * **** * * * * * * *
50694418 CTTGTCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA-AC
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * *
50694462 CTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* **** * * * * * * *
50694506 CTTGCCTTCCTGCACCGACAGCGAAACAGATCGAAGACA-CTAGCT
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTGAAGATAGC-AGAT
** *
50694551 -TTGCCTCTTTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* ***** * * * * * * *
50694594 CTTGCCTTCCTACACCGACAGCGAAGCAGATCGAAGACACCA-AC
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * *
50694638 CTTGTCTCCTTAGGTTACAGTGGAGCAGGTTGAAAATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * **** * * * * * *
50694682 CTAGCCTTCTTGCACCGACAGCGAAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTGAAGATAGC-AGAT
*
50694726 CTTGCCTCCCTGGGTTGCAGTGGAGTAGGTTGAAGATAGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* * * * * * *
50694770 CTTGCCTTCCTGTGTTGGCAGTGAAGCAGATCGAAGACA-CTAG-C
1 CTTGCCTCCCTGGGTT-GCAGTGGAGCAGGTTGAAGATAGC-AGAT
* ** *
50694814 CTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTGAAGATGGCAGAT
1 CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
* *
50694858 ATTGCCTTCCTG
1 CTTGCCTCCCTG
50694870 TATTGGGAGC
Statistics
Matches: 400, Mismatches: 208, Indels: 40
0.62 0.32 0.06
Matches are distributed among these distances:
43 117 0.29
44 166 0.41
45 117 0.29
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (44 bp):
CTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAGATAGCAGAT
Found at i:50694806 original size:45 final size:43
Alignment explanation
Indices: 50694704--50694913 Score: 140
Period size: 44 Copynumber: 4.8 Consensus size: 43
50694694 CACCGACAGC
*
50694704 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCAGT
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGTGTTGCAGT
* * * * * * *
50694747 GGAGTAGGTTGAAGATAGC-AGATCTTGCCTTCCTGTGTTGGCAGT
1 GAAGCAGATCGAAGACA-CTAG-CCTTGCCTCCCTGTGTT-GCAGT
50694792 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTAG-GTTGCAG-
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCT-GTGTTGCAGT
* * * ** ** * * * *
50694834 CAGAGCAGGTTGAAGATGGC-AGATATTGCCTTCCTGTATTGGGAGC
1 GA-AGCAGATCGAAGA-CACTAG-CCTTGCCTCCCTGTGTT-GCAGT
*
50694880 GAAGCAGATCGAAGACACCAGCCTTGCCTCCCTG
1 GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTG
50694914 GGTTACAGCG
Statistics
Matches: 122, Mismatches: 33, Indels: 23
0.69 0.19 0.13
Matches are distributed among these distances:
42 1 0.01
43 32 0.26
44 52 0.43
45 36 0.30
46 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.23
Consensus pattern (43 bp):
GAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGTGTTGCAGT
Found at i:50694960 original size:88 final size:88
Alignment explanation
Indices: 50694197--50694954 Score: 1003
Period size: 88 Copynumber: 8.6 Consensus size: 88
50694187 AACCACAAAT
** * **
50694197 CCTTGCCTCATTGGGTTGCAGCGGAGCAGGTTGAAAATAATAGATCTTGCCTTCCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
50694262 GTGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * * * *
50694285 CCTTGCCTTCCTGGGTTGCAGTGGAGCAAGTTGAAAATAGCAGATATTGTCTTCCTGCACCAACA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
50694350 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * *
50694373 CCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTAAAAATAGCAGATCTTGTCTTCCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
50694438 GCGAAGCAGATCGAAGACACCAA
66 GCGAAGCAGATCGAAGACACCAG
* *
50694461 CCTTGCCTCCCTGGGTTGTAGTGGAGTAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
* *
50694526 GCGAAACAGATCGAAGACACTAG
66 GCGAAGCAGATCGAAGACACCAG
* ** *
50694549 CTTTGCCTCTTTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTACACCGACA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
50694614 GCGAAGCAGATCGAAGACACCAA
66 GCGAAGCAGATCGAAGACACCAG
* * * * * *
50694637 CCTTGTCTCCTTAGGTTACAGTGGAGCAGGTTGAAAATAGCAGATCTAGCCTTCTTGCACCGACA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
*
50694702 GCGAAGCAGATCGAAGACACTAG
66 GCGAAGCAGATCGAAGACACCAG
* * **** *
50694725 CCTTGCCTCCCTGGGTTGCAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCCTGTGTTGGCA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
* *
50694790 GTGAAGCAGATCGAAGACACTAG
66 GCGAAGCAGATCGAAGACACCAG
* ** * * * * ** **
50694813 CCTTGCCTCCCTAGGTTGCAGCAGAGCAGGTTGAAGATGGCAGATATTGCCTTCCTGTATTGGGA
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
50694878 GCGAAGCAGATCGAAGACACCAG
66 GCGAAGCAGATCGAAGACACCAG
* * * ** *
50694901 CCTTGCCTCCCTGGGTTACAGCGGAGTAGGTTGAAAGCACCAGATCTTGCCTTC
1 CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTC
50694955 TTGTATAAGC
Statistics
Matches: 593, Mismatches: 77, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 593 1.00
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.23
Consensus pattern (88 bp):
CCTTGCCTCCCTGGGTTGCAGTGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCACCGACA
GCGAAGCAGATCGAAGACACCAG
Found at i:50695052 original size:44 final size:44
Alignment explanation
Indices: 50694987--50695283 Score: 317
Period size: 44 Copynumber: 6.8 Consensus size: 44
50694977 CGAAGCCAAT
* *
50694987 AATCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAGTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
50695031 AATCCTATCTCCCTGGTCAGCAGTAGAATA----GAAAATTGT-
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
50695070 AAGTCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAGATTGTG
1 AA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
*
50695115 AGTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * * * **
50695159 AGTCCTATCTCCCTAGACAGCAGAGGAATAGGTTGAAGATT-AC
1 AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
* *
50695202 AAGTCCTATCTCCCTAGAT-AGCAGTGAAATAGGTTGAAGATTGT-
1 AA-TCCTATCTCCCT-GGTCAGCAGTGGAATAGGTTGAAGATTGTG
* * *
50695246 AGA-CCTTATCTCCCTGAG-CAACAGCGGAGTAGGTTGAA
1 A-ATCC-TATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
50695284 AATTACAGAT
Statistics
Matches: 214, Mismatches: 26, Indels: 26
0.80 0.10 0.10
Matches are distributed among these distances:
39 2 0.01
40 33 0.15
43 4 0.02
44 173 0.81
45 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (44 bp):
AATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTG
Found at i:50695095 original size:84 final size:85
Alignment explanation
Indices: 50694989--50695197 Score: 312
Period size: 84 Copynumber: 2.4 Consensus size: 85
50694979 AAGCCAATAA
50694989 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
50695054 TAGAATA-GAAAATTGTAAG
66 TAGAATAGGAAAATTGTAAG
* * *
50695073 TCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
* * *
50695138 TGGAATAGGTTGAAGATTGTGAG
66 TAGAATA-G--GAAAATTGTAAG
* *
50695161 TCCTATCTCCCTAGACAGCAGAGGAATAGGTTGAAGA
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGA
50695198 TTACAAGTCC
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
84 68 0.61
88 44 0.39
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (85 bp):
TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
TAGAATAGGAAAATTGTAAG
Found at i:50695193 original size:88 final size:87
Alignment explanation
Indices: 50694989--50695283 Score: 359
Period size: 88 Copynumber: 3.4 Consensus size: 87
50694979 AAGCCAATAA
* *
50694989 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGAGTGTGAATCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAG
* *
50695054 TAGAATA----GAAAATTGTAAG
66 TGGAATAGGTTGAAGATTGT-AG
*
50695073 TCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAG
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAG
50695138 TGGAATAGGTTGAAGATTGTGAG
66 TGGAATAGGTTGAAGATTGT-AG
* * *** *
50695161 TCCTATCTCCCTAGACAGCAGAGGAATAGGTTGAAGATTACAAGTCCTATCTCCCTAGAT-AGCA
1 TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCT-GGTCAGCA
*
50695225 GTGAAATAGGTTGAAGATTGTAG
65 GTGGAATAGGTTGAAGATTGTAG
* * * *
50695248 ACCTTATCTCCCT-GAGCAACAGCGGAGTAGGTTGAA
1 TCC-TATCTCCCTGGA-CAGCAGTGGAATAGGTTGAA
50695284 AATTACAGAT
Statistics
Matches: 186, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
84 68 0.37
87 6 0.03
88 110 0.59
89 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (87 bp):
TCCTATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAGCAG
TGGAATAGGTTGAAGATTGTAG
Found at i:50695329 original size:132 final size:132
Alignment explanation
Indices: 50695070--50695329 Score: 276
Period size: 132 Copynumber: 2.0 Consensus size: 132
50695060 AGAAAATTGT
* * * * *
50695070 AAGTCCTATCTCCCTGGCCAGCAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTGGTCAG
1 AAGTCCTATCTCCCTAGACAGCAGTGAAATAGGTTGAAGATTGTGAGACCTATCTCCCTGGTCAA
* * ** * * * * *
50695135 CAGTGGAATAGGTTGAAGATTGTGAGTCCTATCTCCCTAGACAGCAGAGGAATAGGTTGAAGATT
66 CAGCGGAATAGGTTGAAAATTCAGAGTCCTATCTCCATAGACAACAGAGGAACAGATCGAAGATT
50695200 AC
131 AC
*
50695202 AAGTCCTATCTCCCTAGATAGCAGTGAAATAGGTTGAAGATTGT-AGACCTTATCTCCCTGAG-C
1 AAGTCCTATCTCCCTAGACAGCAGTGAAATAGGTTGAAGATTGTGAGACC-TATCTCCCTG-GTC
* * * * *
50695265 AACAGCGGAGTAGGTTGAAAATTACAGA-TCTTATCTCCATA-AGCAATAGTGGAGCAGATCGAA
64 AACAGCGGAATAGGTTGAAAATT-CAGAGTCCTATCTCCATAGA-CAACAGAGGAACAGATCGAA
50695328 GA
127 GA
50695330 CGTGAATTTT
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
131 5 0.05
132 96 0.92
133 3 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
AAGTCCTATCTCCCTAGACAGCAGTGAAATAGGTTGAAGATTGTGAGACCTATCTCCCTGGTCAA
CAGCGGAATAGGTTGAAAATTCAGAGTCCTATCTCCATAGACAACAGAGGAACAGATCGAAGATT
AC
Found at i:50695464 original size:88 final size:88
Alignment explanation
Indices: 50695361--50695746 Score: 495
Period size: 88 Copynumber: 4.4 Consensus size: 88
50695351 CGAAGTAGAT
* * *
50695361 ACTAGCCTTGCCTCCCTAGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
1 ACTAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCA-
50695426 CT-ACAGTGAAGCAGATCGAAGAC
65 CTGACAGTGAAGCAGATCGAAGAC
* * * * * ** *
50695449 ACTAGCATTGCCTCCCTGGGTTGTAGTGGAGCAGGCTGAAAATAGCAGATCTTATCTTCTTGCAC
1 ACTAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
* *
50695514 CGACAGCGAAGCAGATCGAAGAC
66 TGACAGTGAAGCAGATCGAAGAC
* * * * *
50695537 ACTAGCCTTGCCTCTTTGGGTTGCAGCGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTAT
1 ACTAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
*
50695602 TGACAGTGAAGCAGATCGAAAAC
66 TGACAGTGAAGCAGATCGAAGAC
* * * * * *
50695625 ACTAGCCTTGCCTCCTTAGGTTGCAGCAGAGCAGGTTGAAGATGGCAGATCTTGCCTTCCTGTAT
1 ACTAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
* *
50695690 TGGCAGTGAAACAGATCGAAGAC
66 TGACAGTGAAGCAGATCGAAGAC
* *
50695713 ACCAGCCTTGCCTCCTTGGGTTGTAGCGGAGCAG
1 ACTAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAG
50695747 TTGCAATAGA
Statistics
Matches: 258, Mismatches: 39, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
87 1 0.00
88 257 1.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
ACTAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCTGCAC
TGACAGTGAAGCAGATCGAAGAC
Found at i:50695723 original size:44 final size:44
Alignment explanation
Indices: 50695587--50695725 Score: 115
Period size: 44 Copynumber: 3.2 Consensus size: 44
50695577 GATAGCAAAT
* * *
50695587 CTTGCCTTCCTGTATTGACAGTGAAGCAGATCGAAAACACTAGC
1 CTTGCCTTCCTGTATTGGCAGTGAAGCAGATCGAAGACACCAGC
* * * *** *
50695631 CTTGCC-TCCT-TAGGTT-GCAG-CAGAGCAGGTTGAAGATGGCAGAT
1 CTTGCCTTCCTGTA--TTGGCAGTGA-AGCAGATCGAAGACACCAG-C
*
50695675 CTTGCCTTCCTGTATTGGCAGTGAAACAGATCGAAGACACCAGC
1 CTTGCCTTCCTGTATTGGCAGTGAAGCAGATCGAAGACACCAGC
50695719 CTTGCCT
1 CTTGCCT
50695726 CCTTGGGTTG
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
42 3 0.04
43 19 0.28
44 23 0.33
45 21 0.30
46 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGTATTGGCAGTGAAGCAGATCGAAGACACCAGC
Found at i:50695832 original size:43 final size:44
Alignment explanation
Indices: 50695768--50695850 Score: 132
Period size: 43 Copynumber: 1.9 Consensus size: 44
50695758 TGGACCGCAT
* *
50695768 CAGGTCTTATCTCCCTGAAGTTGCAGCGGGGCAGACTGAATAAG
1 CAGGTCTTATCCCCCTAAAGTTGCAGCGGGGCAGACTGAATAAG
*
50695812 CAGGT-TTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAA
1 CAGGTCTTATCCCCCTAAAGTTGCAGCGGGGCAGACTGAA
50695851 GATGGAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
43 31 0.86
44 5 0.14
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (44 bp):
CAGGTCTTATCCCCCTAAAGTTGCAGCGGGGCAGACTGAATAAG
Found at i:50695879 original size:45 final size:43
Alignment explanation
Indices: 50695772--50695925 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
50695762 CCGCATCAGG
* * * **
50695772 TCTTATCTCCCTGAAGTTGCAGCGGGGCAGACTGAATAAGCAGG
1 TCTTATCTCCCT-AAGTTGCAGTGGGGCAGACTGAAGAAGAAAA
* *
50695816 T-TTATCCCCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGAAAA
1 TCTTATCTCCCT-AAGTTGCAGTGGGGCAGACTGAAGA-AGAAAA
* * * * *
50695860 TCTTATCTCCCTAAGGTTGCAGTGGAGTAGATTAAAGCAA-ATAA
1 TCTTATCTCCCTAA-GTTGCAGTGGGGCAGACTGAAG-AAGAAAA
*
50695904 TCTTATCTCCTTGAAGTTGCAG
1 TCTTATCTCCCT-AAGTTGCAG
50695926 CAGAACAGAT
Statistics
Matches: 89, Mismatches: 16, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
43 32 0.36
44 27 0.30
45 29 0.33
46 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (43 bp):
TCTTATCTCCCTAAGTTGCAGTGGGGCAGACTGAAGAAGAAAA
Found at i:50696047 original size:44 final size:45
Alignment explanation
Indices: 50695980--50696077 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
50695970 CAGATCGCAT
* * * *
50695980 CAAGTCTTATCTCTCTGAGGTTGCAGCGGAGCAGACTGGGAA-AG
1 CAAGTCTTATCTCTCGGAAGTTGCAGCGGAGCAAACTGAGAATAG
* *
50696024 CAAGTCTTATC-CTTCGGAAGTTGCAGTGGAGGAAACTGAGAATAG
1 CAAGTCTTATCTC-TCGGAAGTTGCAGCGGAGCAAACTGAGAATAG
*
50696069 CAAATCTTA
1 CAAGTCTTA
50696078 CTTCCCTAGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.02
44 34 0.76
45 10 0.22
ACGTcount: A:0.30, C:0.18, G:0.28, T:0.24
Consensus pattern (45 bp):
CAAGTCTTATCTCTCGGAAGTTGCAGCGGAGCAAACTGAGAATAG
Found at i:50697006 original size:13 final size:13
Alignment explanation
Indices: 50696988--50697012 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50696978 TTTTGATTGT
50696988 AAAGAAAAGGAGA
1 AAAGAAAAGGAGA
50697001 AAAGAAAAGGAG
1 AAAGAAAAGGAG
50697013 GAGTTAGAAG
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:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (13 bp):
AAAGAAAAGGAGA
Found at i:50701179 original size:36 final size:38
Alignment explanation
Indices: 50701138--50701213 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 38
50701128 GGGCATTCCG
* *
50701138 TTTGTCAG--TTATACCAACTAGTGCTGGGCA-CATTTA
1 TTTGTCAGTCTTA-ACCAACCAGTGCAGGGCACCATTTA
*
50701174 TTTGTCAGTCTTAACCGACCAGTGCAGGGCACCATTTA
1 TTTGTCAGTCTTAACCAACCAGTGCAGGGCACCATTTA
50701212 TT
1 TT
50701214 ATTATGGATT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 8 0.24
37 15 0.44
38 11 0.32
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (38 bp):
TTTGTCAGTCTTAACCAACCAGTGCAGGGCACCATTTA
Found at i:50703078 original size:2 final size:2
Alignment explanation
Indices: 50703071--50703104 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
50703061 TACATTATGC
50703071 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50703105 TTTGAATAGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50704685 original size:17 final size:17
Alignment explanation
Indices: 50704663--50704724 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
50704653 TATATTTATT
50704663 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
** *
50704680 TTTTTACATACTTTTTTAATT
1 TTTTT--A-A-TTTTAAAATA
50704701 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
50704718 TTTTTAA
1 TTTTTAA
50704725 AATACTTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
17 19 0.54
18 1 0.03
19 2 0.06
20 1 0.03
21 12 0.34
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:50704735 original size:40 final size:40
Alignment explanation
Indices: 50704660--50704783 Score: 225
Period size: 40 Copynumber: 3.1 Consensus size: 40
50704650 AAATATATTT
*
50704660 ATTTTTTTAATTTTAAAATATTTTT-ACATAC-TTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50704698 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50704738 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
50704778 ATTTTT
1 ATTTTT
50704784 AAAAATTTTA
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
38 25 0.30
39 5 0.06
40 53 0.64
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
Found at i:50704777 original size:31 final size:31
Alignment explanation
Indices: 50704739--50704799 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
50704729 CTTTTTTTAA
*
50704739 TTTTTTTAA-TTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTTAAAA-ATTTTAAAAATAC
50704770 TTTTTTTAATTTTTAAAAATTTTAAAAATA
1 TTTTTTTAATTTTTAAAAATTTTAAAAATA
50704800 AAAATGGGCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 20 0.71
32 8 0.29
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTTTTAATTTTTAAAAATTTTAAAAATAC
Found at i:50705270 original size:7 final size:7
Alignment explanation
Indices: 50705240--50705287 Score: 51
Period size: 8 Copynumber: 6.1 Consensus size: 7
50705230 TTTCAAAATT
50705240 ATTAAAA
1 ATTAAAA
50705247 ATTTTAAAA
1 A--TTAAAA
50705256 ATTCAAAA
1 ATT-AAAA
50705264 ATTAAAAA
1 ATT-AAAA
50705272 ATTAAAA
1 ATTAAAA
50705279 ATTATAAA
1 ATTA-AAA
50705287 A
1 A
50705288 ATATAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
7 11 0.31
8 18 0.50
9 7 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (7 bp):
ATTAAAA
Found at i:50705270 original size:15 final size:14
Alignment explanation
Indices: 50705240--50705287 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 14
50705230 TTTCAAAATT
50705240 ATTAAAAATTTTAAAA
1 ATTAAAAA--TTAAAA
50705256 ATTCAAAAATTAAAAA
1 ATT-AAAAATT-AAAA
50705272 ATTAAAAATTATAAA
1 ATTAAAAATTA-AAA
50705287 A
1 A
50705288 ATATAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 1 0.03
15 13 0.45
16 10 0.34
17 5 0.17
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (14 bp):
ATTAAAAATTAAAA
Found at i:50705294 original size:17 final size:16
Alignment explanation
Indices: 50705240--50705304 Score: 78
Period size: 16 Copynumber: 3.9 Consensus size: 16
50705230 TTTCAAAATT
*
50705240 ATTAAAAATTTTAAAA
1 ATTAAAAATTATAAAA
50705256 ATTCAAAAATTA-AAAA
1 ATT-AAAAATTATAAAA
50705272 ATTAAAAATTATAAAA
1 ATTAAAAATTATAAAA
*
50705288 ATATAAATATTACTAAA
1 AT-TAAAAATTA-TAAA
50705305 TTATTACAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
15 8 0.19
16 16 0.37
17 15 0.35
18 4 0.09
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTAAAAATTATAAAA
Found at i:50711169 original size:14 final size:15
Alignment explanation
Indices: 50711150--50711190 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
50711140 GTTTGCCAGT
50711150 AAAATG-TTTACT-A
1 AAAATGATTTACTGA
50711163 GAAAATGATTT-CTGA
1 -AAAATGATTTACTGA
50711178 AAAATGATTTACT
1 AAAATGATTTACT
50711191 TTTTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (15 bp):
AAAATGATTTACTGA
Found at i:50722767 original size:19 final size:19
Alignment explanation
Indices: 50722727--50722769 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
50722717 AATTCCGTAG
*
50722727 AGAAATGAAAATAAATCTA
1 AGAAATGAAAATAAATCAA
*
50722746 AGAAATGAAGATAAAAT-AA
1 AGAAATGAAAAT-AAATCAA
50722765 AGAAA
1 AGAAA
50722770 GATGTAGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.14, T:0.16
Consensus pattern (19 bp):
AGAAATGAAAATAAATCAA
Found at i:50725824 original size:8 final size:8
Alignment explanation
Indices: 50725811--50725951 Score: 67
Period size: 8 Copynumber: 18.1 Consensus size: 8
50725801 AAAAACATAG
*
50725811 ATATATAC
1 ATATATAA
*
50725819 ATATATAT
1 ATATATAA
50725827 ATATATAA
1 ATATATAA
50725835 ATATA-AA
1 ATATATAA
* *
50725842 AAATATTCA
1 ATATA-TAA
* * *
50725851 TTAGAAAA
1 ATATATAA
50725859 ATATATAA
1 ATATATAA
**
50725867 ATATATTT
1 ATATATAA
* * *
50725875 ACATGTAC
1 ATATATAA
50725883 ATATATAA
1 ATATATAA
*
50725891 A-AAATAA
1 ATATATAA
*
50725898 ATATATAC
1 ATATATAA
50725906 ATATAT--
1 ATATATAA
50725912 ATATATAA
1 ATATATAA
50725920 AT-TATAA
1 ATATATAA
* *
50725927 AAAAATAA
1 ATATATAA
* * *
50725935 TTACATAT
1 ATATATAA
50725943 ATATATAA
1 ATATATAA
50725951 A
1 A
50725952 ATAATAATTA
Statistics
Matches: 94, Mismatches: 33, Indels: 12
0.68 0.24 0.09
Matches are distributed among these distances:
6 6 0.06
7 18 0.19
8 67 0.71
9 3 0.03
ACGTcount: A:0.58, C:0.04, G:0.01, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:50725933 original size:33 final size:33
Alignment explanation
Indices: 50725887--50725958 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
50725877 ATGTACATAT
50725887 ATAA-AAAATAAAT-ATATACATATATATATATAA
1 ATAATAAAATAAATAAT-TACATATATATATA-AA
*
50725920 ATTATAAAA-AAATAATTACATATATATATAAA
1 ATAATAAAATAAATAATTACATATATATATAAA
50725952 ATAATAA
1 ATAATAA
50725959 TTATTACATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
32 8 0.23
33 21 0.60
34 6 0.17
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (33 bp):
ATAATAAAATAAATAATTACATATATATATAAA
Found at i:50727713 original size:45 final size:45
Alignment explanation
Indices: 50727654--50727750 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
50727644 CTTTAGGGGG
* * *
50727654 ATAAGACTTGCTTTCTTGAGTGTGCTCCACTGCATCTTCAGGGAA
1 ATAAGACTCGCTTTCTTGAGTCTGCTCCACTACATCTTCAGGGAA
* * *
50727699 ATAATACTCGCTTTCTTGGGTCTGCTCCACTACATCTTCAGGGAG
1 ATAAGACTCGCTTTCTTGAGTCTGCTCCACTACATCTTCAGGGAA
50727744 ATAAGAC
1 ATAAGAC
50727751 CTGCTATGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (45 bp):
ATAAGACTCGCTTTCTTGAGTCTGCTCCACTACATCTTCAGGGAA
Found at i:50728011 original size:217 final size:218
Alignment explanation
Indices: 50727758--50728181 Score: 618
Period size: 217 Copynumber: 1.9 Consensus size: 218
50727748 GACCTGCTAT
* ** *
50727758 GATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCTTCTCCACTGTAACTTCA
1 GATCTGCTCTCGGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCA
*
50727823 AGGAGATAGGATTATTGGATTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCT
66 AGGAGATAGAATTATTGGATTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCT
* * * * * * *
50727888 TGGGTCTGCTCCACTACGACTTCA-GAAGGATAAAACTTGCTTACT-CAGTCTACTCCATTGCAA
131 TGAGTCTGCTCCACTACAACTTCAGGAA-AATAAAACCTGCTTACTCCAATCCACTCCACTGCAA
50727951 CTTCAAGGAGTTAAGACTAGGTGC
195 CTTCAAGGAGTTAAGACTAGGTGC
50727975 GATCTGCTCTCGGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCA
1 GATCTGCTCTCGGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCA
* * * * *
50728040 GGGAGATAGAATTATTTGCTTTAATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGCCATCT
66 AGGAGATAGAATTATTGGATTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCT
* * * * *
50728105 TTAGTCTGCTCCACTGCAATTTCAGGAAAATAAGACCTGCTTACTCCAATCCACTCCACTGTAAC
131 TGAGTCTGCTCCACTACAACTTCAGGAAAATAAAACCTGCTTACTCCAATCCACTCCACTGCAAC
*
50728170 TTTAAGGAGTTA
196 TTCAAGGAGTTA
50728182 GGATTCATGC
Statistics
Matches: 182, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
217 153 0.84
218 29 0.16
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (218 bp):
GATCTGCTCTCGGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCACTCCACTGCAACTTCA
AGGAGATAGAATTATTGGATTTAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCT
TGAGTCTGCTCCACTACAACTTCAGGAAAATAAAACCTGCTTACTCCAATCCACTCCACTGCAAC
TTCAAGGAGTTAAGACTAGGTGC
Found at i:50728123 original size:45 final size:45
Alignment explanation
Indices: 50727627--50728139 Score: 137
Period size: 44 Copynumber: 11.7 Consensus size: 45
50727617 GATAGGATTC
* * * * ** *
50727627 AGTCTGCCCCACTGTAACTTTAGGGGGATAAGACTT-GCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGCCATCTTT
* * * * * ** *
50727672 AGTGTGCTCCACTGCATCTTCAGGGAAATAATACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
* * * *
50727717 GGTCTGCTCCACTACATCTTCAGGGAGATAAGA----CC-TGCTAT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-CTTT
* * **
50727758 -GATCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTATCA-CTTT
1 AG-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATCTTT
* * * * * * *
50727801 AATCTTCTCCACTGTAACTTCAAGGAGATAGGATTATTG-GA--TTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TCGCCATCTTT
* * *
50727845 AATCTGCTCCACTGCAACCTCAGGGAGATAAGATTCGCCATCTTG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
* * * * * * *
50727890 GGTCTGCTCCACTACGACTTCA-GAAGGATAAAACTT-G-CTTAC-TC
1 AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGA-TTCGCCAT-CTTT
* * * * * * * *
50727934 AGTCTACTCCATTGCAACTTCAAGGAGTTAAGACTAG--GTGC--G
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCAT-CTTT
* * * **
50727976 A-TCTGCT-CTCGGCAACTTCAGAGAGATAAGA-TCTATCA-CTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-GCCATCTTT
* ** ***
50728018 AATCCACTCCACTGCAACTTCAGGGAGAT-AGAATT--ATTTGCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTCGCCAT-CTTT
* *
50728062 AATCTGCTCCATTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
* * *
50728107 AGTCTGCTCCACTGCAATTTCAGGAAAATAAGA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
50728140 CCTGCTTACT
Statistics
Matches: 341, Mismatches: 92, Indels: 70
0.68 0.18 0.14
Matches are distributed among these distances:
39 1 0.00
40 41 0.12
41 14 0.04
42 4 0.01
43 19 0.06
44 131 0.38
45 127 0.37
46 3 0.01
47 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTT
Found at i:50740051 original size:35 final size:35
Alignment explanation
Indices: 50740002--50740083 Score: 137
Period size: 35 Copynumber: 2.3 Consensus size: 35
50739992 TATTCATTAG
* * *
50740002 AAAATATATATAAATGTATTTACATGTACATATAT
1 AAAAAATAAATAAATATATTTACATGTACATATAT
50740037 AAAAAATAAATAAATATATTTACATGTACATATAT
1 AAAAAATAAATAAATATATTTACATGTACATATAT
50740072 AAAAAATAAATA
1 AAAAAATAAATA
50740084 TATACATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 44 1.00
ACGTcount: A:0.57, C:0.05, G:0.04, T:0.34
Consensus pattern (35 bp):
AAAAAATAAATAAATATATTTACATGTACATATAT
Found at i:50740119 original size:28 final size:27
Alignment explanation
Indices: 50740066--50740145 Score: 101
Period size: 28 Copynumber: 3.0 Consensus size: 27
50740056 TTACATGTAC
*
50740066 ATATATAAAAAATAAATAT-A-TACAT
1 ATATATAAAAAATAAAAATAATTACAT
**
50740091 ATATATAAATTATAAAAAATAATTACAT
1 ATATATAAAAAAT-AAAAATAATTACAT
*
50740119 ATATATAAAAAATAATAATAATTACAT
1 ATATATAAAAAATAAAAATAATTACAT
50740146 TCTTGAAATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
25 11 0.24
26 5 0.11
27 14 0.30
28 16 0.35
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (27 bp):
ATATATAAAAAATAAAAATAATTACAT
Found at i:50742556 original size:23 final size:22
Alignment explanation
Indices: 50742516--50742558 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
50742506 AAATTATAAA
*
50742516 ATATAAAAATATATATATGTAC
1 ATATAAAAAAATATATATGTAC
50742538 ATATAAGAAAAATATATATGT
1 ATATAA-AAAAATATATATGT
50742559 GTGTGAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
ATATAAAAAAATATATATGTAC
Found at i:50742643 original size:2 final size:2
Alignment explanation
Indices: 50742576--50742631 Score: 55
Period size: 2 Copynumber: 29.5 Consensus size: 2
50742566 TTATAAAAAA
* * * *
50742576 AT AT AT AA AT AT AC AT AT -T TT A- AT AT GT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50742615 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
50742632 AGTATGTATA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:50746075 original size:25 final size:25
Alignment explanation
Indices: 50746047--50746209 Score: 81
Period size: 24 Copynumber: 6.6 Consensus size: 25
50746037 ATCCGGGCAA
50746047 TATAATGGGAAGCTCACAAAGAGCC
1 TATAATGGGAAGCTCACAAAGAGCC
* *
50746072 TATAACGGGTAGCTC-CAAAGAG-C
1 TATAATGGGAAGCTCACAAAGAGCC
* * ** *
50746095 AATTAATGGGAAGCAC-CGGATAGCC
1 TA-TAATGGGAAGCTCACAAAGAGCC
* * **
50746120 ATATAATGGAAAGTTCA-AGCGAGCAC
1 -TATAATGGGAAGCTCACAAAGAGC-C
50746146 TA-ACA--GGAAGCTCACAAAGAGCC
1 TATA-ATGGGAAGCTCACAAAGAGCC
* * * *
50746169 TTTAATCGGAAAGCTCACGAAGAGTC
1 TATAAT-GGGAAGCTCACAAAGAGCC
*
50746195 -ATAATGGGATGCTCA
1 TATAATGGGAAGCTCA
50746210 TAAGAGCTGC
Statistics
Matches: 100, Mismatches: 27, Indels: 23
0.67 0.18 0.15
Matches are distributed among these distances:
23 12 0.12
24 36 0.36
25 35 0.35
26 17 0.17
ACGTcount: A:0.38, C:0.20, G:0.25, T:0.18
Consensus pattern (25 bp):
TATAATGGGAAGCTCACAAAGAGCC
Found at i:50756990 original size:20 final size:20
Alignment explanation
Indices: 50756952--50756991 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
50756942 TCTTTCTTTC
*
50756952 TTCTTTTATTTACTTAATTA
1 TTCTTTTATTTACTAAATTA
*
50756972 TTCTTTTATTTGCTAAATTA
1 TTCTTTTATTTACTAAATTA
50756992 CTACTTTGGC
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:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (20 bp):
TTCTTTTATTTACTAAATTA
Found at i:50759261 original size:13 final size:12
Alignment explanation
Indices: 50759238--50759271 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
50759228 ATTATTTGTG
50759238 AAAATATAAAAAT
1 AAAA-ATAAAAAT
50759251 ATAAAATAAAAAT
1 A-AAAATAAAAAT
50759264 AAAAATAA
1 AAAAATAA
50759272 TATATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 10 0.50
14 3 0.15
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:50759264 original size:6 final size:6
Alignment explanation
Indices: 50759238--50759271 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
50759228 ATTATTTGTG
50759238 AAAATAT AAAAAT ATAAAAT AAAAAT AAAAAT AA
1 AAAA-AT AAAAAT A-AAAAT AAAAAT AAAAAT AA
50759272 TATATTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 16 0.62
7 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAAAAT
Found at i:50760185 original size:3 final size:3
Alignment explanation
Indices: 50760177--50760205 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
50760167 AAATCTTATA
50760177 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
50760206 AACGATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:50760594 original size:23 final size:23
Alignment explanation
Indices: 50760568--50760611 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
50760558 TAAGCTCCTC
*
50760568 CGATTTCGATCGTCGGCGATCGG
1 CGATTGCGATCGTCGGCGATCGG
* *
50760591 CGATTGGGATCGTTGGCGATC
1 CGATTGCGATCGTCGGCGATC
50760612 AAGCGGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.36, T:0.27
Consensus pattern (23 bp):
CGATTGCGATCGTCGGCGATCGG
Found at i:50766129 original size:18 final size:19
Alignment explanation
Indices: 50766106--50766141 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
50766096 GGCCTGTATG
50766106 GCCCAAAACCAA-TAAACA
1 GCCCAAAACCAACTAAACA
*
50766124 GCCCAAACCCAACTAAAC
1 GCCCAAAACCAACTAAAC
50766142 CTAAACCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.39, G:0.06, T:0.06
Consensus pattern (19 bp):
GCCCAAAACCAACTAAACA
Found at i:50766497 original size:14 final size:14
Alignment explanation
Indices: 50766471--50766514 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
50766461 AGTTGTGCCG
50766471 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
50766484 TTTTTATTTATTTA
1 TTTTTATTTATTTA
**
50766498 TTTACATTTATTT-
1 TTTTTATTTATTTA
50766511 TTTT
1 TTTT
50766515 AAAAACAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 12 0.44
14 15 0.56
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:50766507 original size:18 final size:18
Alignment explanation
Indices: 50766473--50766515 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
50766463 TTGTGCCGTT
**
50766473 TTTATTT-TTTATTTTTA
1 TTTATTTATTTACATTTA
50766490 TTTATTTATTTACATTTA
1 TTTATTTATTTACATTTA
*
50766508 TTTTTTTA
1 TTTATTTA
50766516 AAAACAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTTATTTACATTTA
Found at i:50779590 original size:51 final size:50
Alignment explanation
Indices: 50779535--50779952 Score: 332
Period size: 51 Copynumber: 8.5 Consensus size: 50
50779525 TATTTCCTTG
* *
50779535 GCGTTGTAATGGAACAGATTAAAGCTGAAGGCAGAGAATCTTTTTTCCCTA
1 GCGTTGTAGTGG-ACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTA
** *
50779586 GCGTTACAGT----AGATTAAAGCTGAAGGCAGCGAATCTTTTTTTCCTTA
1 GCGTTGTAGTGGACAGATTAAAGCTGAAGGCAGCGAATC-TTTTTTCCCTA
* * * * *
50779633 GTGTTGCAGTAGGACAGATTAAAGTTGAAGGCAGCAAATC-TTTTTCCCTG
1 GCGTTGTAGT-GGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTA
*
50779683 GCGTTGTAGT----AGATTAAAGCTGAAGGCAGCGAATCTTACTTT-CCTA
1 GCGTTGTAGTGGACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTTCCCTA
* * * *
50779729 GCGTCGCT-GTGGAACAGATTAATGCTGAAGGTAGCGAATCTTATTTCCCTA
1 GCGTTG-TAGTGG-ACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTA
* ** * *
50779780 GCGTTGCAGTAGGACAGATTAAAATTGAAGGCAACGAATC-TTTTTCCCTG
1 GCGTTGTAGT-GGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTA
* * * *
50779830 GCGTTGCAGT----AGATTAAAGTTGAAGGCAGCGAATCTTACTTT-CTTA
1 GCGTTGTAGTGGACAGATTAAAGCTGAAGGCAGCGAATCTT-TTTTCCCTA
* * **
50779876 GCGTCGCT-GTGGAACAAATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTA
1 GCGTTG-TAGTGG-ACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTA
** *
50779927 GTATTGTAGTGGAATAGATTAAAGCT
1 GCGTTGTAGTGG-ACAGATTAAAGCT
50779953 ACAAGTTACG
Statistics
Matches: 293, Mismatches: 47, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
45 46 0.16
46 45 0.15
47 25 0.09
50 41 0.14
51 111 0.38
52 25 0.09
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (50 bp):
GCGTTGTAGTGGACAGATTAAAGCTGAAGGCAGCGAATCTTTTTTCCCTA
Found at i:50779711 original size:97 final size:96
Alignment explanation
Indices: 50779544--50779791 Score: 329
Period size: 97 Copynumber: 2.6 Consensus size: 96
50779534 GGCGTTGTAA
*
50779544 TGGAACAGATTAAAGCTGAAGGCAG-AGAATCTTTTTTCCCTAGCGTTACAGTAGATTAAAGCTG
1 TGGAACAGATTAAAGCTGAAGGCAGCA-AATC-TTTTTCCCTAGCGTTGCAGTAGATTAAAGCTG
** * *
50779608 AAGGCAGCGAATCTTTTTTTCCTTAGTGTTGCAG
64 AAGGCAGCGAATCTTACTTTCC-TAGCGTCGCAG
* * *
50779642 TAGG-ACAGATTAAAGTTGAAGGCAGCAAATCTTTTTCCCTGGCGTTGTAGTAGATTAAAGCTGA
1 T-GGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTCCCTAGCGTTGCAGTAGATTAAAGCTGA
*
50779706 AGGCAGCGAATCTTACTTTCCTAGCGTCGCTG
65 AGGCAGCGAATCTTACTTTCCTAGCGTCGCAG
* * *
50779738 TGGAACAGATTAATGCTGAAGGTAGCGAATCTTATTTCCCTAGCGTTGCAGTAG
1 TGGAACAGATTAAAGCTGAAGGCAGCAAATCTT-TTTCCCTAGCGTTGCAGTAG
50779792 GACAGATTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 9
0.85 0.10 0.06
Matches are distributed among these distances:
95 2 0.02
96 34 0.26
97 67 0.51
98 25 0.19
99 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (96 bp):
TGGAACAGATTAAAGCTGAAGGCAGCAAATCTTTTTCCCTAGCGTTGCAGTAGATTAAAGCTGAA
GGCAGCGAATCTTACTTTCCTAGCGTCGCAG
Found at i:50779820 original size:147 final size:147
Alignment explanation
Indices: 50779596--50779927 Score: 538
Period size: 147 Copynumber: 2.3 Consensus size: 147
50779586 GCGTTACAGT
* * * *
50779596 AGATTAAAGCTGAAGGCAGCGAATCTTTTTTTCCTTAGTGTTGCAGTAGGACAGATTAAAGTTGA
1 AGATTAAAGCTGAAGGCAGCGAATC-TTATTTCCCTAGCGTTGCAGTAGGACAGATTAAAATTGA
* *
50779661 AGGCAGCAAATCTTTTTCCCTGGCGTTGTAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTTTC
65 AGGCAACAAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTTTC
50779726 CTAGCGTCGCTGTGGAAC
130 CTAGCGTCGCTGTGGAAC
* *
50779744 AGATTAATGCTGAAGGTAGCGAATCTTATTTCCCTAGCGTTGCAGTAGGACAGATTAAAATTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTAGGACAGATTAAAATTGAA
* * *
50779809 GGCAACGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGTTGAAGGCAGCGAATCTTACTTTCT
66 GGCAACAAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTTTCC
50779874 TAGCGTCGCTGTGGAAC
131 TAGCGTCGCTGTGGAAC
* *
50779891 AAATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTAG
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAG
50779928 TATTGTAGTG
Statistics
Matches: 169, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
147 146 0.86
148 23 0.14
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.30
Consensus pattern (147 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTAGGACAGATTAAAATTGAA
GGCAACAAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTTTCC
TAGCGTCGCTGTGGAAC
Found at i:50779844 original size:96 final size:97
Alignment explanation
Indices: 50779744--50779925 Score: 226
Period size: 96 Copynumber: 1.9 Consensus size: 97
50779734 GCTGTGGAAC
* * * * *
50779744 AGATTAATGCTGAAGGTAGCGAATCTTA-TTTCCCTAGCGTTGCAGTAGG-ACAGATTAAAATTG
1 AGATTAAAGCTGAAGGCAGCGAATCTTACTTT-CCTAGCGTCGCAGT-GGAACAAATTAAAACTG
*
50779807 AAGGCAACGAATCT-TTTTCCCTGGCGTTGCAGT
64 AAGGCAACGAATCTAATTTCCCTGGCGTTGCAGT
* * * *
50779840 AGATTAAAGTTGAAGGCAGCGAATCTTACTTTCTTAGCGTCGCTGTGGAACAAATTAAAGCTGAA
1 AGATTAAAGCTGAAGGCAGCGAATCTTACTTTCCTAGCGTCGCAGTGGAACAAATTAAAACTGAA
*
50779905 GGCAGCGAATCTAATTTCCCT
66 GGCAACGAATCTAATTTCCCT
50779926 AGTATTGTAG
Statistics
Matches: 72, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
95 2 0.03
96 60 0.83
97 10 0.14
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (97 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTACTTTCCTAGCGTCGCAGTGGAACAAATTAAAACTGAA
GGCAACGAATCTAATTTCCCTGGCGTTGCAGT
Found at i:50780749 original size:14 final size:15
Alignment explanation
Indices: 50780725--50780761 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
50780715 GTGCCGTTTT
50780725 TATTT-TTTATTT-C
1 TATTTATTTATTTAC
50780738 TATTTATTTATTTAC
1 TATTTATTTATTTAC
50780753 -ATTTATTTA
1 TATTTATTTA
50780762 AAAAAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 16 0.73
15 1 0.05
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (15 bp):
TATTTATTTATTTAC
Found at i:50780820 original size:27 final size:26
Alignment explanation
Indices: 50780781--50780842 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
50780771 AAAATGAGAA
50780781 GTAAAAGATAAAAATCGTACCTTTTT
1 GTAAAAGATAAAAATCGTACCTTTTT
50780807 GTAAAAGATAAAAATCGTACCTTTTT
1 GTAAAAGATAAAAATCGTACCTTTTT
*
50780833 GTGAAAGATA
1 GTAAAAGATA
50780843 TGTCGATTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.32
Consensus pattern (26 bp):
GTAAAAGATAAAAATCGTACCTTTTT
Found at i:50785129 original size:47 final size:46
Alignment explanation
Indices: 50785069--50785159 Score: 128
Period size: 47 Copynumber: 2.0 Consensus size: 46
50785059 CACAAAAGAC
* *
50785069 AAAAAAAAGAAGCAATGTGAAAGCAACCACTACCAAGAAAAGATTA
1 AAAAAAAAGAAGCAACGTGAAAGCAACCACAACCAAGAAAAGATTA
* * *
50785115 AAAAAAAAGGAAGCAACGTGGAAGCAACCACAATCAAGACAAGAT
1 AAAAAAAA-GAAGCAACGTGAAAGCAACCACAACCAAGAAAAGAT
50785160 GTCATCATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
46 8 0.21
47 31 0.79
ACGTcount: A:0.57, C:0.16, G:0.18, T:0.09
Consensus pattern (46 bp):
AAAAAAAAGAAGCAACGTGAAAGCAACCACAACCAAGAAAAGATTA
Found at i:50786565 original size:71 final size:71
Alignment explanation
Indices: 50786449--50786584 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 71
50786439 GGTGAATGTT
* * * *
50786449 TAACCATGGTGAATAGCATTTCTAGGCGGACTCTAACATCAGACGCATGCCTTCTTCCTTAACCT
1 TAACCATGGCGAATAACATTTCTAGGCAGACTCTAACATCAGACGCATACCTTCTTCCTTAACCT
50786514 CGGGTG
66 CGGGTG
* * *
50786520 TAACCATGGCGGATAACATTTTTAGGCAGACTCTAACATCGGACGCATACCTTCTTCCTTAACCT
1 TAACCATGGCGAATAACATTTCTAGGCAGACTCTAACATCAGACGCATACCTTCTTCCTTAACCT
50786585 TAGGTGTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (71 bp):
TAACCATGGCGAATAACATTTCTAGGCAGACTCTAACATCAGACGCATACCTTCTTCCTTAACCT
CGGGTG
Found at i:50786902 original size:48 final size:48
Alignment explanation
Indices: 50786836--50786966 Score: 192
Period size: 48 Copynumber: 2.7 Consensus size: 48
50786826 TTATATATAA
* * *
50786836 CATATAACACACATAGAGTTCTATTAACTTACTTTTTTTGATACATAT
1 CATATATCACATATAGAGTTCTATTAACTTACTCTTTTTGATACATAT
* *
50786884 CATATATCACATACAGAGTCCTATTAACTTACTCTTTTTGATACATAT
1 CATATATCACATATAGAGTTCTATTAACTTACTCTTTTTGATACATAT
*
50786932 CATATATCACATATAGAG-TCATACTAACTTACTCT
1 CATATATCACATATAGAGTTC-TATTAACTTACTCT
50786967 ATTCGAATTC
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 1 0.01
48 73 0.99
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (48 bp):
CATATATCACATATAGAGTTCTATTAACTTACTCTTTTTGATACATAT
Found at i:50787298 original size:49 final size:48
Alignment explanation
Indices: 50787218--50787341 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 48
50787208 GGCTATCAAC
* * * * *
50787218 CTAGTTAACAACTAACATATCC-TACTAGTGGCCCAAT-AGACATGCCAAT
1 CTAGTTAGCAACTAACAT-GCCTTACCAGTGGCCC-ATCACAC-TACCAAT
* *
50787267 CTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACATCTACCATT
1 CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACA-CTACCAAT
*
50787316 CTAGTTTGCAACTAACATGCCTTACC
1 CTAGTTAGCAACTAACATGCCTTACC
50787342 GGTGACTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
48 4 0.06
49 58 0.92
50 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (48 bp):
CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACACTACCAAT
Found at i:50803723 original size:19 final size:19
Alignment explanation
Indices: 50803699--50803738 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
50803689 GTCATGATTA
50803699 AATCTCAAATTAATAACTC
1 AATCTCAAATTAATAACTC
50803718 AATCTCAAATTAATAACTC
1 AATCTCAAATTAATAACTC
50803737 AA
1 AA
50803739 AAATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (19 bp):
AATCTCAAATTAATAACTC
Found at i:50806179 original size:24 final size:25
Alignment explanation
Indices: 50806124--50806184 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 25
50806114 TAATTGTATA
* *
50806124 TATATATTATTATATTTTTATAATT
1 TATAAATTATAATATTTTTATAATT
50806149 TATAAATTATAAT-TTTTTATATATT
1 TATAAATTATAATATTTTTATA-ATT
*
50806174 TA-AAATAATAA
1 TATAAATTATAA
50806185 CCTAAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.50
25 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATAAATTATAATATTTTTATAATT
Found at i:50810082 original size:22 final size:19
Alignment explanation
Indices: 50810042--50810082 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
50810032 TTAATTAAGA
50810042 AATTAATTAAATTTATTTT
1 AATTAATTAAATTTATTTT
50810061 AATTAATATATAATATTATTTT
1 AATTAAT-TA-AAT-TTATTTT
50810083 TGGGAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 3 0.16
22 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTAATTAAATTTATTTT
Found at i:50812682 original size:25 final size:25
Alignment explanation
Indices: 50812654--50812705 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
50812644 AAGGATTCTA
50812654 ATGAGATAGTTTATTGCTATATCTT
1 ATGAGATAGTTTATTGCTATATCTT
50812679 ATGAGATAGTTTATTGCTATATCTT
1 ATGAGATAGTTTATTGCTATATCTT
50812704 AT
1 AT
50812706 CGAGTGTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.29, C:0.08, G:0.15, T:0.48
Consensus pattern (25 bp):
ATGAGATAGTTTATTGCTATATCTT
Found at i:50816593 original size:30 final size:32
Alignment explanation
Indices: 50816557--50816616 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
50816547 CCACAATATG
50816557 AATCTTTT-TT-GAAAGGTAAAATGACCAAGC
1 AATCTTTTATTCGAAAGGTAAAATGACCAAGC
*
50816587 AATCTTTTAATTCGAAAGGTACAATGACCA
1 AATCTTTT-ATTCGAAAGGTAAAATGACCA
50816617 TTTAACCCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 8 0.31
32 2 0.08
33 16 0.62
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (32 bp):
AATCTTTTATTCGAAAGGTAAAATGACCAAGC
Found at i:50822358 original size:27 final size:28
Alignment explanation
Indices: 50822324--50822382 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
50822314 CTCTTTTATC
*
50822324 TTGT-CCAATGGACTTA-CCCGAGTTTA
1 TTGTCCCAACGGACTTATCCCGAGTTTA
* * *
50822350 TTGTCCCAACGGGCTTATCTCGTGTTTA
1 TTGTCCCAACGGACTTATCCCGAGTTTA
50822378 TTGTC
1 TTGTC
50822383 TTGATGGACT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 10 0.37
28 13 0.48
ACGTcount: A:0.17, C:0.24, G:0.20, T:0.39
Consensus pattern (28 bp):
TTGTCCCAACGGACTTATCCCGAGTTTA
Found at i:50828654 original size:18 final size:18
Alignment explanation
Indices: 50828631--50828665 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50828621 TCAATTTTTA
50828631 AGTAAAGTATTATATTTG
1 AGTAAAGTATTATATTTG
* *
50828649 AGTAAATTATTCTATTT
1 AGTAAAGTATTATATTT
50828666 CTATTTACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
AGTAAAGTATTATATTTG
Found at i:50831304 original size:22 final size:22
Alignment explanation
Indices: 50831279--50831320 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50831269 ATAAATATGA
50831279 TATTTAATTTC-TTATACTAATT
1 TATTT-ATTTCATTATACTAATT
*
50831301 TATTTATTTCATTTTACTAA
1 TATTTATTTCATTATACTAA
50831321 CACATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTTATTTCATTATACTAATT
Found at i:50832741 original size:31 final size:31
Alignment explanation
Indices: 50832704--50832768 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
50832694 ATATTATGTA
50832704 TTATCATGACTAGTGTAGTATATAATTTCAT
1 TTATCATGACTAGTGTAGTATATAATTTCAT
50832735 TTATCATGACTAGTGTAGTATATAATTTCAT
1 TTATCATGACTAGTGTAGTATATAATTTCAT
50832766 TTA
1 TTA
50832769 AACTAACTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.32, C:0.09, G:0.12, T:0.46
Consensus pattern (31 bp):
TTATCATGACTAGTGTAGTATATAATTTCAT
Found at i:50835858 original size:11 final size:11
Alignment explanation
Indices: 50835842--50835871 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
50835832 ATTTTAAACC
50835842 TTATTCTTGAT
1 TTATTCTTGAT
50835853 TTATTCTTGAT
1 TTATTCTTGAT
50835864 TTATTCTT
1 TTATTCTT
50835872 TATGCATATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (11 bp):
TTATTCTTGAT
Found at i:50847142 original size:31 final size:31
Alignment explanation
Indices: 50847104--50847165 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
50847094 TATGAAAGAA
50847104 AGGATTAGTTCAAAAATTGTTACACGTTGTG
1 AGGATTAGTTCAAAAATTGTTACACGTTGTG
50847135 AGGATTAGTTCAAAAATTGTTACACGTTGTG
1 AGGATTAGTTCAAAAATTGTTACACGTTGTG
50847166 CGAGGAGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.35
Consensus pattern (31 bp):
AGGATTAGTTCAAAAATTGTTACACGTTGTG
Found at i:50853756 original size:71 final size:72
Alignment explanation
Indices: 50853615--50853838 Score: 290
Period size: 72 Copynumber: 3.1 Consensus size: 72
50853605 AACTCTTCTC
* * * * * * *
50853615 CCAAAAATATTAAACTATTTTATTCACACAAAAAAAATATTATAAAAATAAAAATGTTATTTTAT
1 CCAAAAATAATAAATTGTTTTATTCACA-AAAAATATTATTATAAAAATAAAATTATTATTTTAT
50853680 TATACATA
65 TATACATA
*
50853688 CCAAAAATAATAAATTGTTTTATTCACAAAAAATATTATTATAAAAATAAAATTATT-TTTTGTT
1 CCAAAAATAATAAATTGTTTTATTCACAAAAAATATTATTATAAAAATAAAATTATTATTTTATT
50853752 ATACATA
66 ATACATA
* * *
50853759 CCACAAATACTAAATTGTTTTATT-AAAAAAACATTATTATTATAAAAATAAAATTATTATTTTA
1 CCAAAAATAATAAATTGTTTTATTCACAAAAA-A-TATTATTATAAAAATAAAATTATTATTTTA
*
50853823 CTATACATA
64 TTATACATA
*
50853832 CAAAAAA
1 CCAAAAA
50853839 ATCAACATAC
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
70 6 0.05
71 36 0.27
72 49 0.37
73 42 0.32
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (72 bp):
CCAAAAATAATAAATTGTTTTATTCACAAAAAATATTATTATAAAAATAAAATTATTATTTTATT
ATACATA
Found at i:50853806 original size:20 final size:20
Alignment explanation
Indices: 50853782--50853819 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50853772 ATTGTTTTAT
*
50853782 TAAAAA-AACATTATTATTA
1 TAAAAATAAAATTATTATTA
50853801 TAAAAATAAAATTATTATT
1 TAAAAATAAAATTATTATT
50853820 TTACTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAATAAAATTATTATTA
Found at i:50854750 original size:21 final size:22
Alignment explanation
Indices: 50854706--50854764 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
50854696 TTTTATTTGA
*
50854706 AAATAA-AAAGTACATTTGAATT
1 AAATAATAAAGT-TATTTGAATT
50854728 AAATAATAAAGTTATTT-AATT
1 AAATAATAAAGTTATTTGAATT
*
50854749 AAA-AATTAAAGCTATT
1 AAATAA-TAAAGTTATT
50854765 CTGTATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 10 0.30
23 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATAATAAAGTTATTTGAATT
Found at i:50857347 original size:19 final size:18
Alignment explanation
Indices: 50857308--50857349 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
50857298 TGAATCACTG
*
50857308 AATTTTTAAAATATATCA
1 AATTTTTAAAATACATCA
50857326 AATTTTTGAAGAATACAT-A
1 AATTTTT-AA-AATACATCA
50857345 AATTT
1 AATTT
50857350 ATAATATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTTTTAAAATACATCA
Found at i:50861859 original size:21 final size:21
Alignment explanation
Indices: 50861835--50861876 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
50861825 AGGTAAATTG
*
50861835 ATAAAAAAAGTAATACTAATA
1 ATAAAAAAAGTAATAATAATA
* *
50861856 ATAACAATAGTAATAATAATA
1 ATAAAAAAAGTAATAATAATA
50861877 GTATTAAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (21 bp):
ATAAAAAAAGTAATAATAATA
Found at i:50862759 original size:18 final size:18
Alignment explanation
Indices: 50862732--50862766 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50862722 TTTGCTGCGT
*
50862732 CCTTTTTTGTTTCTTTGC
1 CCTTTGTTGTTTCTTTGC
*
50862750 CCTTTGTTGTTTGTTTG
1 CCTTTGTTGTTTCTTTG
50862767 TGTGCAGGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.17, T:0.66
Consensus pattern (18 bp):
CCTTTGTTGTTTCTTTGC
Found at i:50863612 original size:50 final size:50
Alignment explanation
Indices: 50863482--50863748 Score: 193
Period size: 50 Copynumber: 5.3 Consensus size: 50
50863472 GACTGTAATG
* * * *
50863482 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCATCGC
1 TCGGGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCAACTGCATC-A
* * * * * * *
50863533 TTGGGG-AGTAAGATTTA-CTATTGTAGCTTTAATCTTTTGAATTGCAAT-A
1 TCGGGGAAGTAAGATTCACCGA-TGTGGCTTTAATCTGTTCAACTGC-ATCA
* *
50863582 TCGGGGAAGTAAGATTCACCGATGTGGCTTTAATATGTTCCACTGCATCA
1 TCGGGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCAACTGCATCA
* * * *** * ** * * *
50863632 CCTGGGAGGTAAGATTCGTTGTTGTAACTTTAATCTTTTGAACTGCAAT-G
1 TCGGGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCAACTGC-ATCA
* *
50863682 TCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGA
1 TCGGGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCAACTGCATC-A
* *
50863733 T-TGGGAGGTAAGATTC
1 TCGGGGAAGTAAGATTC
50863749 GCTATCTTTA
Statistics
Matches: 157, Mismatches: 51, Indels: 17
0.70 0.23 0.08
Matches are distributed among these distances:
49 11 0.07
50 134 0.85
51 12 0.08
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (50 bp):
TCGGGGAAGTAAGATTCACCGATGTGGCTTTAATCTGTTCAACTGCATCA
Found at i:50863657 original size:100 final size:100
Alignment explanation
Indices: 50863473--50863753 Score: 404
Period size: 100 Copynumber: 2.8 Consensus size: 100
50863463 TTTCTGTCTG
* * * *
50863473 ACTGTAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGCTCCACTGCATCGCTTGGG
1 ACTGCAATATCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCACTTGGG
** *
50863538 -GAGTAAGATTTACTATTGTAGCTTTAATCTTTTGA
66 AG-GTAAGATTCGCTATTGTAACTTTAATCTTTTGA
* * * *
50863573 ATTGCAATATCGGGGAAGTAAGATTCACCGATGTGGCTTTAATATGTTCCACTGCATCACCTGGG
1 ACTGCAATATCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCACTTGGG
* *
50863638 AGGTAAGATTCGTTGTTGTAACTTTAATCTTTTGA
66 AGGTAAGATTCGCTATTGTAACTTTAATCTTTTGA
*
50863673 ACTGCAATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCGA-TTGG
1 ACTGCAATATCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATC-ACTTGG
50863737 GAGGTAAGATTCGCTAT
65 GAGGTAAGATTCGCTAT
50863754 CTTTACTAAT
Statistics
Matches: 159, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
100 157 0.99
101 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (100 bp):
ACTGCAATATCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCATCACTTGGG
AGGTAAGATTCGCTATTGTAACTTTAATCTTTTGA
Found at i:50865029 original size:17 final size:17
Alignment explanation
Indices: 50864989--50865035 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
50864979 TGGCTTCTCC
*
50864989 ATTTCCTTTTTCATTTTTT
1 ATTTTCTTTTTC--TTTTT
50865008 ATTTTCTATTTTCTTTTT
1 ATTTTCT-TTTTCTTTTT
50865026 -TTTTCTTTTT
1 ATTTTCTTTTT
50865036 ATTTGACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 4 0.15
17 6 0.23
18 5 0.19
19 6 0.23
20 5 0.19
ACGTcount: A:0.09, C:0.13, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTTCTTTTTCTTTTT
Found at i:50870928 original size:3 final size:3
Alignment explanation
Indices: 50870914--50870950 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
50870904 ATTGATAAAA
* *
50870914 AAT AAT ACT AAT AAT AAT AAT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
50870951 TTAAACTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:50871992 original size:25 final size:27
Alignment explanation
Indices: 50871961--50872013 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
50871951 TGGGGAACAC
* *
50871961 TTTGGGCT-GTGTT-GGGTTTGGGTAT
1 TTTGGGCTAGAGTTCGGGTTTAGGTAT
50871986 TTTGGGCTAGAGTTCGGGTTTAGGTAT
1 TTTGGGCTAGAGTTCGGGTTTAGGTAT
50872013 T
1 T
50872014 GTATTAGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 4 0.17
27 12 0.50
ACGTcount: A:0.09, C:0.06, G:0.40, T:0.45
Consensus pattern (27 bp):
TTTGGGCTAGAGTTCGGGTTTAGGTAT
Found at i:50876896 original size:30 final size:30
Alignment explanation
Indices: 50876860--50876916 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
50876850 AAAAAAAGAC
50876860 AAAGCATTCAATTAAGAAATCTAACCAAAT
1 AAAGCATTCAATTAAGAAATCTAACCAAAT
50876890 AAAGCATTCAATTAAGAAATCTAACCA
1 AAAGCATTCAATTAAGAAATCTAACCA
50876917 GCAGTGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.53, C:0.18, G:0.07, T:0.23
Consensus pattern (30 bp):
AAAGCATTCAATTAAGAAATCTAACCAAAT
Found at i:50882516 original size:31 final size:31
Alignment explanation
Indices: 50882481--50882540 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
50882471 AAAACTTCAA
* **
50882481 AATTTGAAAACTACAGTTACTAAAATTGACC
1 AATTTGAAAACTAAAGGGACTAAAATTGACC
*
50882512 AATTTGAAAAGTAAAGGGACTAAAATTGA
1 AATTTGAAAACTAAAGGGACTAAAATTGA
50882541 GCAAATTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (31 bp):
AATTTGAAAACTAAAGGGACTAAAATTGACC
Found at i:50888811 original size:22 final size:22
Alignment explanation
Indices: 50888771--50888812 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
50888761 AAGAAATATA
*
50888771 TAAAAATACATAAATATTTTTT
1 TAAAAATACATAAAAATTTTTT
50888793 TAAAAATA-ATAATAAATTTT
1 TAAAAATACATAA-AAATTTT
50888813 AAAAATATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAAAATACATAAAAATTTTTT
Found at i:50888828 original size:19 final size:19
Alignment explanation
Indices: 50888790--50888828 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
50888780 ATAAATATTT
*
50888790 TTTTAAAAATAATAATAAA
1 TTTTAAAAATAATAACAAA
50888809 TTTTAAAAAT-ATACACAAA
1 TTTTAAAAATAATA-ACAAA
50888828 T
1 T
50888829 AACAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTTAAAAATAATAACAAA
Found at i:50889108 original size:12 final size:12
Alignment explanation
Indices: 50889093--50889120 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50889083 TATATATTTT
50889093 TAAATATGAATA
1 TAAATATGAATA
50889105 TAAATATGAATA
1 TAAATATGAATA
50889117 TAAA
1 TAAA
50889121 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (12 bp):
TAAATATGAATA
Found at i:50889631 original size:48 final size:49
Alignment explanation
Indices: 50889579--50889677 Score: 146
Period size: 48 Copynumber: 2.0 Consensus size: 49
50889569 AAAATATTTT
*
50889579 TTTCAATTAAAATTATTCATTTGTTTTTGT-CAAAAACTAAAATACCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAAACTAAAATACCCA
** * *
50889627 TTTCAATTAAAATTATTTGTTTGTTTTTGTAAAAAAAGTAAATTACCCA
1 TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAAACTAAAATACCCA
50889676 TT
1 TT
50889678 ATTATTCATG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
48 28 0.62
49 17 0.38
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (49 bp):
TTTCAATTAAAATTATTCATTTGTTTTTGTAAAAAAACTAAAATACCCA
Found at i:50890367 original size:16 final size:16
Alignment explanation
Indices: 50890346--50890405 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
50890336 TTTTCTACTT
*
50890346 TATAATATATATTTTA
1 TATAATATATAATTTA
*
50890362 TATAATATGTAATTTA
1 TATAATATATAATTTA
* *
50890378 TATAAAAT-TAA-ATA
1 TATAATATATAATTTA
50890392 TATAATACTATAAT
1 TATAATA-TATAAT
50890406 GCAAACATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.22
15 4 0.11
16 24 0.67
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (16 bp):
TATAATATATAATTTA
Found at i:50892401 original size:39 final size:39
Alignment explanation
Indices: 50892266--50892401 Score: 184
Period size: 39 Copynumber: 3.5 Consensus size: 39
50892256 ATCCACTTTT
* *
50892266 AAGCATATATCACATTACACATATAATCACATAACA-TC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* * * *
50892304 TAAGCATATATCACAATAATCATATAATTACATAACGTTT
1 -AAGCATATATCACAATACTCATATAATCACATAACATTC
50892344 AAGCATATATCACAATACTCATATAATCACATAACATTC
1 AAGCATATATCACAATACTCATATAATCACATAACATTC
* *
50892383 AAGCATATGTCGCAATACT
1 AAGCATATATCACAATACT
50892402 AAAAAACATG
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 83 0.99
40 1 0.01
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATCACATAACATTC
Found at i:50894323 original size:39 final size:39
Alignment explanation
Indices: 50894280--50894356 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
50894270 TTAACTACTA
* * *
50894280 ATTTTGCTAGTTTATTG-CATATAAATTGTTGAAATATTG
1 ATTTTGCTAATTCATTGTC-TATAAATTGCTGAAATATTG
* *
50894319 ATTTTGTTAATTCATTGTCTATAAATTGCTGAACTATT
1 ATTTTGCTAATTCATTGTCTATAAATTGCTGAAATATT
50894357 AACTCTTAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 31 0.97
40 1 0.03
ACGTcount: A:0.30, C:0.08, G:0.13, T:0.49
Consensus pattern (39 bp):
ATTTTGCTAATTCATTGTCTATAAATTGCTGAAATATTG
Found at i:50898695 original size:22 final size:21
Alignment explanation
Indices: 50898670--50898710 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
50898660 TATCGAATAA
*
50898670 CAGATCATACTTTATCATATTT
1 CAGATCATAC-TGATCATATTT
50898692 CAGATCATACTGATCATAT
1 CAGATCATACTGATCATAT
50898711 AACATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (21 bp):
CAGATCATACTGATCATATTT
Found at i:50899633 original size:21 final size:22
Alignment explanation
Indices: 50899603--50899653 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
50899593 AATAAAATAA
*
50899603 AAATAAAAATAAA-AAATATTT
1 AAATATAAATAAACAAATATTT
*
50899624 AAATATAAATAAACACATATTT
1 AAATATAAATAAACAAATATTT
*
50899646 ATATATAA
1 AAATATAA
50899654 TGTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATAAATAAACAAATATTT
Found at i:50901595 original size:26 final size:26
Alignment explanation
Indices: 50901564--50901620 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
50901554 CCCATTTTTT
*
50901564 AATAAACACAAAAAAATTATTTTAAA
1 AATAAAAACAAAAAAATTATTTTAAA
*
50901590 AATAAAAAATAAAAAAATTATTTTAAA
1 AAT-AAAAACAAAAAAATTATTTTAAA
50901617 AATA
1 AATA
50901621 TTTTAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (26 bp):
AATAAAAACAAAAAAATTATTTTAAA
Done.