Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 228 of 297
Found at i:77811876 original size:16 final size:16
Alignment explanation
Indices: 77811857--77811916 Score: 90
Period size: 15 Copynumber: 3.9 Consensus size: 16
77811847 AAAAAAGAAA
77811857 AGAAAAAGAGAAAAAG
1 AGAAAAAGAGAAAAAG
*
77811873 AGAAAAAAAGAAAAAG
1 AGAAAAAGAGAAAAAG
77811889 A-AAAAAGAGAAAAA-
1 AGAAAAAGAGAAAAAG
77811903 AGAAAAA-AGAAAAA
1 AGAAAAAGAGAAAAA
77811917 TGGAGAGGCC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.20
15 17 0.41
16 16 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAGAAAAAG
Found at i:77811881 original size:30 final size:30
Alignment explanation
Indices: 77811840--77811916 Score: 115
Period size: 29 Copynumber: 2.6 Consensus size: 30
77811830 CTATTTCAAA
*
77811840 AAAAAGGAAAAAAG-AAAAG-AAAAAGAGA
1 AAAAAGAAAAAAAGAAAAAGAAAAAAGAGA
77811868 AAAAGAGAAAAAAAGAAAAAGAAAAAAGAGA
1 AAAA-AGAAAAAAAGAAAAAGAAAAAAGAGA
77811899 AAAAAG-AAAAAAGAAAAA
1 AAAAAGAAAAAAAGAAAAA
77811917 TGGAGAGGCC
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.09
29 21 0.47
30 7 0.16
31 13 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (30 bp):
AAAAAGAAAAAAAGAAAAAGAAAAAAGAGA
Found at i:77812873 original size:44 final size:44
Alignment explanation
Indices: 77812813--77813224 Score: 286
Period size: 44 Copynumber: 9.4 Consensus size: 44
77812803 CAAAGAAACA
*
77812813 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * ** ***
77812857 AGATCTGACATTCCTGTGCTTACAGCAAAGCAGATCGAAGATTTT
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
*
77812902 AG--CATGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
77812945 AGATTTGGTATCCCTGTGTTTATAGGGAGCAGATCGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
** * * * ** * * **
77812989 AGATCTAACATTCCTGTGCTTACAACGAAGTAGATCAAAGATTTC
1 AGATCTGGCATCCCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* * *
77813034 AG--CATGGCATCCATGTGTTTATAGAGAACA-AGTTGAAGATAGC
1 AGATC-TGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* *
77813077 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAAC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
* * * * * ***
77813121 AGATCTGGCA-CTCATGTGCTTACAGTGAAGCAGATCGAGGATTTT
1 AGATCTGGCATC-CCTGTGTTTATAGGGAA-CAGATCGAAGATAGC
* *
77813166 AGAT-T-GTATCCCTGTGTTTATAGGGAACA-AGTTGAAGATAGC
1 AGATCTGGCATCCCTGTGTTTATAGGGAACAGA-TCGAAGATAGC
* * *
77813208 AAATTTGGCATCTCTGT
1 AGATCTGGCATCCCTGT
77813225 ATTGTCAGAG
Statistics
Matches: 272, Mismatches: 78, Indels: 36
0.70 0.20 0.09
Matches are distributed among these distances:
41 1 0.00
42 13 0.05
43 40 0.15
44 174 0.64
45 44 0.16
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (44 bp):
AGATCTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGC
Found at i:77813051 original size:132 final size:132
Alignment explanation
Indices: 77812813--77813224 Score: 637
Period size: 132 Copynumber: 3.1 Consensus size: 132
77812803 CAAAGAAACA
77812813 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
*
77812878 ACAGCAAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
77812943 GC
131 GC
* * *
77812945 AGATTTGGTATCCCTGTGTTTATAGGGAGCAGATCGAAGATAGCAGATCTAACATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * * * * *
77813010 ACAACGAAGTAGATCAAAGATTTCAGCATGGCATCCATGTGTTTATAGAGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
77813075 GC
131 GC
* * * *
77813077 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAACAGATCTGGCACTCATGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
* * * *
77813142 ACAGTGAAGCAGATCGAGGATTTTAG-ATTGTATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
77813206 GC
131 GC
* *
77813208 AAATTTGGCATCTCTGT
1 AGATTTGGCATCCCTGT
77813225 ATTGTCAGAG
Statistics
Matches: 251, Mismatches: 29, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
131 51 0.20
132 200 0.80
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.29
Consensus pattern (132 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTTAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GC
Found at i:77813264 original size:44 final size:44
Alignment explanation
Indices: 77813199--77813291 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
77813189 GGAACAAGTT
* * *
77813199 GAAGATAGCAAATTTGGCATCTCTGTATTGTCAGAGAGAAGATC
1 GAAGATACCAAATTTGACATCTCTGTATTGGCAGAGAGAAGATC
* *
77813243 GAAGATACCAGATTTGACATCTCTGTATTGGCAGAGAGCAGATC
1 GAAGATACCAAATTTGACATCTCTGTATTGGCAGAGAGAAGATC
*
77813287 AAAGA
1 GAAGA
77813292 CATAGCTGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (44 bp):
GAAGATACCAAATTTGACATCTCTGTATTGGCAGAGAGAAGATC
Found at i:77813640 original size:205 final size:205
Alignment explanation
Indices: 77813278--77813988 Score: 1244
Period size: 205 Copynumber: 3.5 Consensus size: 205
77813268 TATTGGCAGA
* * * * *
77813278 GAGCAGATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGTTGAAGCAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATTGAAACAAATCTAAGATGAT
77813343 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
*
77813408 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGGTGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
77813473 TGCTTACAAG
196 TGCTTACAAG
*
77813483 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACGTTGAAACAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATTGAAACAAATCTAAGATGAT
*
77813548 TTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
* * *
77813613 CACATAGCAGATCCAAACTTCAGATGTTTATACTGATGTAGATCCAAGATGGTTTGGCATCCTTA
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
77813678 TGCTTACAAG
196 TGCTTACAAG
* **
77813688 GAGCAAATCGAAGACATAGCTAATTTGGCTTTCACGTGCTTACATTGAAGTAAATCTAAGATGAT
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATTGAAACAAATCTAAGATGAT
* *
77813753 TTGGCATTTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGTAGA
66 TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
77813818 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
131 CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
*
77813883 TACTTACAAG
196 TGCTTACAAG
77813893 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATT-AAAGCAAATCTAAGATGA
1 GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATTGAAA-CAAATCTAAGATGA
*
77813957 TTTGGCATCTCTGTATTGTCAGGGAACAAATC
65 TTTGGCATCTCTGTATTGTCAGAGAACAAATC
77813989 GAAGAAGCAG
Statistics
Matches: 480, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
204 2 0.00
205 478 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
GAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCTTACATTGAAACAAATCTAAGATGAT
TTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCGACGGAGGGCAGA
CACATAGCAGATCCAACCTTCAGATGTTTATACTGAAGTAGATCCAAGATGGTTTGGCATCCTTG
TGCTTACAAG
Found at i:77814146 original size:45 final size:45
Alignment explanation
Indices: 77814086--77814177 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
77814076 GAAGAAGCAA
*
77814086 ATTTAGCGTCACTGTATTAGACGGGGAGCAGATCGAAGATAACAG
1 ATTTAGCGTCACTGTATTAGACGGGGAGCAGATCAAAGATAACAG
* * *
77814131 ATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCAAAGATAGCAG
1 ATTTAGCGTCACTGTATTAGACGGGGAGCAGATCAAAGATAACAG
77814176 AT
1 AT
77814178 ATCGCCTTCC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (45 bp):
ATTTAGCGTCACTGTATTAGACGGGGAGCAGATCAAAGATAACAG
Found at i:77814536 original size:19 final size:19
Alignment explanation
Indices: 77814512--77814609 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
77814502 GATCTTTAAG
77814512 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
77814531 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
77814550 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
77814567 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
77814586 GATGTGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
77814607 GAT
1 GAT
77814610 CTTGTAATCT
Statistics
Matches: 74, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
17 17 0.23
19 48 0.65
21 9 0.12
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:77814543 original size:36 final size:35
Alignment explanation
Indices: 77814503--77814587 Score: 113
Period size: 36 Copynumber: 2.4 Consensus size: 35
77814493 TGGAAATATG
77814503 ATCTTTAAGGATATG-CAATCTTAGATATGATATGCA
1 ATCTTT-A-GATATGACAATCTTAGATATGATATGCA
77814539 ATC-TTAGATATGATACAATCTTAGATATGATATGCA
1 ATCTTTAGATATG--ACAATCTTAGATATGATATGCA
77814575 ATC-TTAGATATGA
1 ATCTTTAGATATGA
77814588 TGTGCAATCT
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
33 6 0.13
34 2 0.04
35 2 0.04
36 36 0.78
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (35 bp):
ATCTTTAGATATGACAATCTTAGATATGATATGCA
Found at i:77814588 original size:36 final size:36
Alignment explanation
Indices: 77814518--77814588 Score: 142
Period size: 36 Copynumber: 2.0 Consensus size: 36
77814508 TAAGGATATG
77814518 CAATCTTAGATATGATATGCAATCTTAGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAGATATGATA
77814554 CAATCTTAGATATGATATGCAATCTTAGATATGAT
1 CAATCTTAGATATGATATGCAATCTTAGATATGAT
77814589 GTGCAATCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (36 bp):
CAATCTTAGATATGATATGCAATCTTAGATATGATA
Found at i:77824770 original size:62 final size:62
Alignment explanation
Indices: 77824693--77824814 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
77824683 ATTTCAAGTT
*
77824693 GATGACAAGGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAATC
1 GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAATC
77824755 GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAA
1 GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAA
77824815 GGGAAATTGA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (62 bp):
GATGACAAAGTATTCTTGAAAGTATCACCTTGGAAGAAAGTTCTTCGATTTGGCCGTAAATC
Found at i:77825593 original size:13 final size:14
Alignment explanation
Indices: 77825550--77825594 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
77825540 ACTAAATTGG
77825550 AAAG-TGATAAAATT
1 AAAGATGAT-AAATT
77825564 AAAGATGATAAAATT
1 AAAGATGAT-AAATT
77825579 AAAGATGAT-AATT
1 AAAGATGATAAATT
77825592 AAA
1 AAA
77825595 TTAAATAGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
15 19 0.63
ACGTcount: A:0.60, C:0.00, G:0.13, T:0.27
Consensus pattern (14 bp):
AAAGATGATAAATT
Found at i:77825599 original size:18 final size:15
Alignment explanation
Indices: 77825550--77825589 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
77825540 ACTAAATTGG
77825550 AAAG-TGATAAAATT
1 AAAGATGATAAAATT
77825564 AAAGATGATAAAATT
1 AAAGATGATAAAATT
77825579 AAAGATGATAA
1 AAAGATGATAA
77825590 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.16
15 21 0.84
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (15 bp):
AAAGATGATAAAATT
Found at i:77826590 original size:58 final size:57
Alignment explanation
Indices: 77826500--77826615 Score: 146
Period size: 58 Copynumber: 2.0 Consensus size: 57
77826490 CTATTGACCT
** *
77826500 TATTATAGAAAAGATTTAGCTTAGACTGGTAATCCTGATATAAGC-CTTCTTGAGCATA
1 TATTATAGAAAAGATTTAGCCCAGACTGGTAATCCTGAT-TAAGCTCTT-ATGAGCATA
* *
77826558 TATTATAGATAGGATTTAGCCCAGA-TGGGTAATCCTGATTAAGCTCTTATGAGCATA
1 TATTATAGAAAAGATTTAGCCCAGACT-GGTAATCCTGATTAAGCTCTTATGAGCATA
77826615 T
1 T
77826616 GTTGGAAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
57 15 0.29
58 36 0.71
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (57 bp):
TATTATAGAAAAGATTTAGCCCAGACTGGTAATCCTGATTAAGCTCTTATGAGCATA
Found at i:77829351 original size:43 final size:43
Alignment explanation
Indices: 77829263--77829367 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
77829253 GATGTGATTA
* * *
77829263 TGTAAGATCATGTCTGGGACATTGGCATTGTATTGTGGTTACG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACG
*
77829306 TGTAAGACCATGTCTGGGACATTGGCATTGTTATT-CGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTG-TATTGCGATTACG
* *
77829349 TGTAAGACCCTGTTTGGGA
1 TGTAAGACCATGTCTGGGA
77829368 TAGTGACATC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
43 51 0.93
44 4 0.07
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTATTGCGATTACG
Found at i:77829496 original size:63 final size:63
Alignment explanation
Indices: 77829397--77829521 Score: 232
Period size: 63 Copynumber: 2.0 Consensus size: 63
77829387 TAACATGTAA
77829397 GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTC
1 GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTC
* *
77829460 GACCATATTTGGGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTT
1 GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTT
77829522 TGAATGGTTC
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 60 1.00
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (63 bp):
GACCATATCTGAGATATGGCATTGTGCGAGCTTTATGTGATTCCGAGTATCCTTAACGATTTC
Found at i:77838785 original size:22 final size:21
Alignment explanation
Indices: 77838760--77838814 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
77838750 TTAGGGTTTT
*
77838760 TTAGGATTTAATT-GATTTAGGG
1 TTAGGATTT--TTAGATTTAAGG
77838782 TTAGGATTTTTAAGATTTAAGG
1 TTAGGATTTTT-AGATTTAAGG
77838804 TTAGGATTTTT
1 TTAGGATTTTT
77838815 TAGAGTTAGA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 2 0.07
22 28 0.93
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (21 bp):
TTAGGATTTTTAGATTTAAGG
Found at i:77838973 original size:15 final size:16
Alignment explanation
Indices: 77838940--77838973 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
77838930 GGATTAATTG
77838940 ATTAAATTAGAGATTA
1 ATTAAATTAGAGATTA
*
77838956 ATTAAATTA-AGGTTA
1 ATTAAATTAGAGATTA
77838971 ATT
1 ATT
77838974 GATTAAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (16 bp):
ATTAAATTAGAGATTA
Found at i:77838980 original size:19 final size:19
Alignment explanation
Indices: 77838933--77839015 Score: 100
Period size: 19 Copynumber: 4.5 Consensus size: 19
77838923 GGTATTTGGA
*
77838933 TTAATTGATTAAATTAGAG
1 TTAATTGATTAAATTAGGG
* *
77838952 ---ATTAATTAAATTAAGG
1 TTAATTGATTAAATTAGGG
77838968 TTAATTGATTAAATTTAGGG
1 TTAATTGATTAAA-TTAGGG
*
77838988 TTAATTGATTAATTTAGGG
1 TTAATTGATTAAATTAGGG
77839007 TTAATTGAT
1 TTAATTGAT
77839016 ACATAATCGT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
16 13 0.24
19 24 0.44
20 17 0.31
ACGTcount: A:0.39, C:0.00, G:0.17, T:0.45
Consensus pattern (19 bp):
TTAATTGATTAAATTAGGG
Found at i:77839399 original size:7 final size:7
Alignment explanation
Indices: 77839389--77839421 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
77839379 CTATTAATTT
77839389 TAAATAC
1 TAAATAC
77839396 TAAATAC
1 TAAATAC
77839403 TAAATAC
1 TAAATAC
77839410 TAAATAC
1 TAAATAC
77839417 TAAAT
1 TAAAT
77839422 TAGAGTTTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.30
Consensus pattern (7 bp):
TAAATAC
Found at i:77839787 original size:126 final size:126
Alignment explanation
Indices: 77839562--77840241 Score: 1119
Period size: 126 Copynumber: 5.4 Consensus size: 126
77839552 TTTTTGCAAG
* * * * * *
77839562 AATAATTTTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
77839627 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
77839688 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
77839753 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
77839814 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
77839879 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
77839940 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
1 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
* *
77840005 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
* * * * * * * * *
77840066 AATAATTTTGAGTAGACGTTTCTAAATAAATAGTGTCCAAAACGCTTCAAGCAAGATGCACTGTT
1 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
* * * *
77840131 AGCAAAATTTCT-AACAAAAGCTCCTACGTGGACGCTATTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTGAA-AAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
* * * *
77840192 AATAATTCTGAGTAAACGTTTTTGAACAAATAGTGTCGAAAACGCTTCAA
1 AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAA
77840242 ACGTTTTATG
Statistics
Matches: 528, Mismatches: 25, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
125 2 0.00
126 526 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAGTAGACATTTTTGAACAAATAGTGTCTAAAACACTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTGAAAAAAGCTCCCACGTGGATGCTCTTTTGCTACAATAGTTCGTAGAAA
Found at i:77842799 original size:18 final size:18
Alignment explanation
Indices: 77842773--77842813 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
77842763 GACTAGGAAA
* *
77842773 AGGAAACATATAAAGGTT
1 AGGATACATATAAAGGCT
*
77842791 AGGATACATATAAGGGCT
1 AGGATACATATAAAGGCT
77842809 AGGAT
1 AGGAT
77842814 TCGCACCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:77844568 original size:48 final size:47
Alignment explanation
Indices: 77844457--77844591 Score: 157
Period size: 48 Copynumber: 2.8 Consensus size: 47
77844447 ATGCAAACAT
* *
77844457 CATAAATGAAAAAAAAATCAAGCAGTATTGAAATTTTAATTATAATTA
1 CATAAATGAAAAAAATATCAAGTAGTATTGAAA-TTTAATTATAATTA
* *
77844505 CATAAATGAATAAAATATCAAGTAGTATTGCAAATTTAATTA-AATTTG
1 CATAAATGAAAAAAATATCAAGTAGTATTG-AAATTTAATTATAA-TTA
* *
77844553 CATAAATTAAAAAAATATCGAA-TAGAATTGAAAATTTAA
1 CATAAATGAAAAAAATATC-AAGTAGTATTG-AAATTTAA
77844592 AATTATCAAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.03
48 69 0.91
49 5 0.07
ACGTcount: A:0.53, C:0.06, G:0.09, T:0.32
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAGTAGTATTGAAATTTAATTATAATTA
Found at i:77844792 original size:20 final size:19
Alignment explanation
Indices: 77844760--77844798 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
77844750 AATTTCAATG
* *
77844760 AAATTTGATAGAATTTTGA
1 AAATTTGAAAGAATGTTGA
77844779 AAATATTGAAAGAATGTTGA
1 AAAT-TTGAAAGAATGTTGA
77844799 GAGTTATGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (19 bp):
AAATTTGAAAGAATGTTGA
Found at i:77845732 original size:18 final size:18
Alignment explanation
Indices: 77845695--77845732 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
77845685 AAAAAATCAC
*
77845695 ATTTTTTATATTTAATAT
1 ATTTTTTATATTTAAAAT
77845713 ATTTTTTA-ATTTCAAAAT
1 ATTTTTTATATTT-AAAAT
77845731 AT
1 AT
77845733 ATGGTGACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
ATTTTTTATATTTAAAAT
Found at i:77848656 original size:29 final size:30
Alignment explanation
Indices: 77848615--77848680 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
77848605 ATGGGGCAGG
*
77848615 CCGTGTGTCACACACGGCCTAGACACACGC
1 CCGTGTGTCACACACGACCTAGACACACGC
*
77848645 CCGTGT-TGACACACGACCTAGACACACGC
1 CCGTGTGTCACACACGACCTAGACACACGC
77848674 CCGTGTG
1 CCGTGTG
77848681 CCTACTCGTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 27 0.82
30 6 0.18
ACGTcount: A:0.23, C:0.38, G:0.24, T:0.15
Consensus pattern (30 bp):
CCGTGTGTCACACACGACCTAGACACACGC
Found at i:77848657 original size:16 final size:16
Alignment explanation
Indices: 77848634--77848679 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
77848624 ACACACGGCC
77848634 TAGACACACGCCCGTG
1 TAGACACACGCCCGTG
* *
77848650 TTGACACACGACC---
1 TAGACACACGCCCGTG
77848663 TAGACACACGCCCGTG
1 TAGACACACGCCCGTG
77848679 T
1 T
77848680 GCCTACTCGT
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
13 11 0.48
16 12 0.52
ACGTcount: A:0.26, C:0.37, G:0.22, T:0.15
Consensus pattern (16 bp):
TAGACACACGCCCGTG
Found at i:77849435 original size:47 final size:47
Alignment explanation
Indices: 77849374--77849538 Score: 194
Period size: 47 Copynumber: 3.5 Consensus size: 47
77849364 CTGCCAATGC
* * * *
77849374 CATGTCCCAGACATGGTTTTACATTGACTATCATCTCGTAGCTGATG
1 CATGTCCCAGACATGGTCTTACACTGACTCTCATCTCGTAGCCGATG
* *
77849421 CATGTCCCAGACAT-GTCTTACACT-AGCTCTCATCTCATTGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGA-CTCTCATCTCGTAGCCGATG
* * *
77849467 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGACTCTCAT-CTCGTAGCCGATG
77849515 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
77849539 AGCCCACAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
45 1 0.01
46 34 0.33
47 42 0.41
48 25 0.24
49 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.30
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGACTCTCATCTCGTAGCCGATG
Found at i:77849531 original size:94 final size:94
Alignment explanation
Indices: 77849365--77849541 Score: 266
Period size: 94 Copynumber: 1.9 Consensus size: 94
77849355 ATGGGTAAGC
* * * *
77849365 TGCCAATGCCATGTCCCAGACATGGTTTTACATTGACTATCATCTCGTAGCTGATGCATGTCCCA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCA
77849430 GACATGTCTTACACTAGCTCTCATCTCAT
66 GACATGTCTTACACTAGCTCTCATCTCAT
* * * *
77849459 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCC
1 TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATGCATGTCCC
77849523 AGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
77849542 CCACAAAGAA
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
94 73 0.99
95 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (94 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACACTGACTATCATATCGTAGCCGATGCATGTCCCA
GACATGTCTTACACTAGCTCTCATCTCAT
Found at i:77850094 original size:4 final size:4
Alignment explanation
Indices: 77850085--77850113 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
77850075 AGCAAATGTG
77850085 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A
77850114 TAGAAAAGGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:77852396 original size:30 final size:30
Alignment explanation
Indices: 77852362--77852419 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
77852352 AAATTCACAT
* *
77852362 CTTTGATAAAATGACCATTTTGCCCCTAGA
1 CTTTGACAAAATGACCATTTTACCCCTAGA
* *
77852392 CTTTGGCATAATGACCATTTTACCCCTA
1 CTTTGACAAAATGACCATTTTACCCCTA
77852420 TGCTCGAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.26, G:0.12, T:0.34
Consensus pattern (30 bp):
CTTTGACAAAATGACCATTTTACCCCTAGA
Found at i:77858439 original size:67 final size:67
Alignment explanation
Indices: 77858230--77858532 Score: 292
Period size: 67 Copynumber: 4.5 Consensus size: 67
77858220 GTAACAGGGT
* * * * **
77858230 TAATGTATAAGACCATAGCTCGGCTATGAAAACATAGAGAGTTTTCCAATACATTAAACATAGG-
1 TAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCTCCAGGACATTAAACAT-GGT
77858294 GTA
65 GTA
* * * * *
77858297 TATTGTGTAAGACCATAGCTTGACTAT-ATCAATATAGAGAG-TCTACAGGACATTAATCAT-GT
1 TAATGTGTAAGACCATAGCTCGACTATGA-CAACATAGAGAGTTCTCCAGGACATTAAACATGGT
77858359 GGTA
65 -GTA
* * * * * * *
77858363 TATTATGTAAGACCATAGGTCGACTGTGGCAACAGAGAGAGTCCTCCAGGACATTAAACATGGTG
1 TAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCTCCAGGACATTAAACATGGTG
77858428 TA
66 TA
* * * *
77858430 TAATGTGTAAGACCATAGCTC-AGCTATGACAACATAGTGAGTTTTCTAGGACATTAAACATGGG
1 TAATGTGTAAGACCATAGCTCGA-CTATGACAACATAGAGAGTTCTCCAGGACATTAAACATGGT
77858494 GTA
65 GTA
* * * * *
77858497 TGATGTGTAAAACCATATCTCAACTATGGCAACATA
1 TAATGTGTAAGACCATAGCTCGACTATGACAACATA
77858533 TGGAGTCAAC
Statistics
Matches: 192, Mismatches: 36, Indels: 16
0.79 0.15 0.07
Matches are distributed among these distances:
64 1 0.01
66 52 0.27
67 136 0.71
68 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (67 bp):
TAATGTGTAAGACCATAGCTCGACTATGACAACATAGAGAGTTCTCCAGGACATTAAACATGGTG
TA
Found at i:77859667 original size:17 final size:17
Alignment explanation
Indices: 77859647--77859685 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
77859637 CCCATGGAAA
* * *
77859647 ATACTGTCCGCCAGGTG
1 ATACTATCCACCACGTG
77859664 ATACTATCCACCACGTG
1 ATACTATCCACCACGTG
77859681 ATACT
1 ATACT
77859686 TATTCGCCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (17 bp):
ATACTATCCACCACGTG
Found at i:77859972 original size:34 final size:34
Alignment explanation
Indices: 77859929--77860002 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
77859919 CTTTTTGCCC
*
77859929 TTTGTATCTAGATTGGACAAAAGTATAATCATAG
1 TTTGTATCTAGATTGGACAAAAGTATAATCACAG
* *
77859963 TTTGTATCTAGATTGGACAGAAGTATAGTCACAG
1 TTTGTATCTAGATTGGACAAAAGTATAATCACAG
77859997 -TTGTAT
1 TTTGTAT
77860003 AGTCCAATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 6 0.16
34 31 0.84
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.36
Consensus pattern (34 bp):
TTTGTATCTAGATTGGACAAAAGTATAATCACAG
Found at i:77862439 original size:25 final size:27
Alignment explanation
Indices: 77862394--77862444 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
77862384 TTTTAACTAA
* *
77862394 AGTGTACATTTATATTGTAAA-AAAAT
1 AGTGTACATTAATATTATAAATAAAAT
77862420 AGTGTA-ATTAATATTATAAATAAAA
1 AGTGTACATTAATATTATAAATAAAA
77862445 CATGAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (27 bp):
AGTGTACATTAATATTATAAATAAAAT
Found at i:77867230 original size:27 final size:27
Alignment explanation
Indices: 77867200--77867377 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
77867190 ATATTGAGCC
* *
77867200 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
77867227 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
77867254 CGCACACTTAGTGCTACATAGTCAACCT
1 CGCACACTTAGTGCTACATAATCAA-CT
** ** *
77867282 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
77867309 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
77867336 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
77867363 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
77867378 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:77867339 original size:82 final size:81
Alignment explanation
Indices: 77867221--77867376 Score: 217
Period size: 82 Copynumber: 1.9 Consensus size: 81
77867211 TGCTATATAA
* *
77867221 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTC-AACCTCGC
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAA--TCGC
77867285 ACACTTAGTGCCGCATGG
64 ACACTTAGTGCCGCATGG
* * **
77867303 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
77867367 CACTTAGTGC
65 CACTTAGTGC
77867377 TGTACAATTT
Statistics
Matches: 66, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
81 16 0.24
82 48 0.73
83 2 0.03
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:77869343 original size:46 final size:45
Alignment explanation
Indices: 77869290--77869462 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 45
77869280 TGGTTGAGCA
77869290 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTATGGATGCAAATG
* * * * *
77869336 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAA--ATG
* * *
77869381 CATCCGAACTTGTTGAGTTGAGTCTGAGTTCCTTTATGGATGC-GATCG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCC-TTATGGATGCAAAT-G
*
77869429 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-CTTA
77869463 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 57 0.56
47 28 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCCTTATGGATGCAAATG
Found at i:77869446 original size:93 final size:93
Alignment explanation
Indices: 77869287--77869457 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
77869277 GGATGGTTGA
*
77869287 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
77869352 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
77869380 GCATCCGAACTTGTTGAGTTGAGTCTGAGTTC-CTTTATGGATGC-GATCGTCCGAGCTCGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TTATGGATGCAAAT-GTCCGAACTCGTTGA
77869443 GTTGAGTCCGAGTTC
64 GTTGAGTCCGAGTTC
77869458 ACTTAGGGGC
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
92 3 0.04
93 68 0.96
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:77869724 original size:19 final size:20
Alignment explanation
Indices: 77869687--77869724 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
77869677 ATAAGGTGGT
77869687 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
77869707 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
77869725 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:77871932 original size:32 final size:32
Alignment explanation
Indices: 77871886--77871949 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
77871876 TGCAGCCAGT
77871886 GTAGGGAATACGAGATTTGGTAAACCCAAGTG
1 GTAGGGAATACGAGATTTGGTAAACCCAAGTG
* *
77871918 GTAGGGAACT-CGAGATTTGTTAAACCCGAGTG
1 GTAGGGAA-TACGAGATTTGGTAAACCCAAGTG
77871950 CCAGCGGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 28 0.97
33 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.23
Consensus pattern (32 bp):
GTAGGGAATACGAGATTTGGTAAACCCAAGTG
Found at i:77877306 original size:19 final size:20
Alignment explanation
Indices: 77877269--77877306 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
77877259 ATAAGGTGGT
77877269 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
77877289 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
77877307 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:77884433 original size:29 final size:29
Alignment explanation
Indices: 77884367--77884462 Score: 149
Period size: 29 Copynumber: 3.3 Consensus size: 29
77884357 AAGTCTACAT
* *
77884367 ACATGCATATGGCCCACTAGGCCC-AATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
77884395 ATATTCATATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
*
77884424 ACATTCATATGGCCTATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCCAAATC
77884453 ACATTCATAT
1 ACATTCATAT
77884463 ACATGCTTTC
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
28 21 0.34
29 41 0.66
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCCAAATC
Found at i:77884696 original size:16 final size:16
Alignment explanation
Indices: 77884677--77884713 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
77884667 AAACTTTCAG
77884677 CTTTTCAGCATTTCGA
1 CTTTTCAGCATTTCGA
* *
77884693 CTTTTCGGCATTTCGG
1 CTTTTCAGCATTTCGA
77884709 CTTTT
1 CTTTT
77884714 GTTGATCTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.49
Consensus pattern (16 bp):
CTTTTCAGCATTTCGA
Found at i:77887953 original size:23 final size:23
Alignment explanation
Indices: 77887925--77887971 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
77887915 ATCTATTAAA
77887925 AAACTC-TATGAGCTTCCTGATTT
1 AAACTCTTATGAGCTTCCT-ATTT
*
77887948 AAACTCTTATGAGTTTCCTATTT
1 AAACTCTTATGAGCTTCCTATTT
77887971 A
1 A
77887972 GGCCGAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.43
Consensus pattern (23 bp):
AAACTCTTATGAGCTTCCTATTT
Found at i:77891272 original size:130 final size:130
Alignment explanation
Indices: 77891025--77891362 Score: 429
Period size: 130 Copynumber: 2.6 Consensus size: 130
77891015 TCCAACGAAA
* * * * * * * *
77891025 AAATCGAAACCCAGCA-AAGTAGGGCACGATTCCTCGAATTTCTAAACATCGGACATTGCCTT-A
1 AAATCGCAACCCAGCACGA-TAGGGCACGATTCC-CAAATTGCCAAACATCGAACATTACCTTCG
* *
77891088 TTTT--AGAA--TTTAGAGAACATGAGTGAAATTCTAAAGGAATATCCGATTATTTTGAACAAAC
64 TTTTAAAGAATTTTTAAAG-ACATGAGTGAAATTCCAAAGGAATATCCGATTATTTTGAACAAAC
77891149 AGG
128 AGG
77891152 AAATCGCAACCCAGCACGATAGGGCACGATTCCCCAAATTGCCAAACATC-AACATTACCTTCGT
1 AAATCGCAACCCAGCACGATAGGGCACGATT-CCCAAATTGCCAAACATCGAACATTACCTTCGT
* * * *
77891216 TTTGAAGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGG
65 TTTAAAGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATCCGATTATTTTGAACAAACAG
77891281 G
130 G
* * *
77891282 AAATCGCAACCCAGCACGATAGGGCACGATTCTCAAATTGCCAAACATCGAGCATTACCTTTGTT
1 AAATCGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAACATTACCTTCGTT
*
77891347 TTAAATAATTTTTAAA
66 TTAAAGAATTTTTAAA
77891363 TAAATAATTA
Statistics
Matches: 185, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
126 9 0.05
127 44 0.24
128 3 0.02
129 21 0.11
130 102 0.55
131 6 0.03
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.27
Consensus pattern (130 bp):
AAATCGCAACCCAGCACGATAGGGCACGATTCCCAAATTGCCAAACATCGAACATTACCTTCGTT
TTAAAGAATTTTTAAAGACATGAGTGAAATTCCAAAGGAATATCCGATTATTTTGAACAAACAGG
Found at i:77896094 original size:12 final size:12
Alignment explanation
Indices: 77896064--77896095 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
77896054 AATGCTATGG
*
77896064 CACACGACCTAC
1 CACACGGCCTAC
77896076 CACACGGCCTAC
1 CACACGGCCTAC
77896088 CACACGGC
1 CACACGGC
77896096 TGTGTGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.50, G:0.16, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:77905378 original size:21 final size:22
Alignment explanation
Indices: 77905349--77905400 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
77905339 ATTTGTTTTT
77905349 TTTAGTTTTAGATACTTATT-TA
1 TTTA-TTTTAGATACTTATTATA
** *
77905371 TTTATTTTATCTACTTATTATT
1 TTTATTTTAGATACTTATTATA
77905393 TTTATTTT
1 TTTATTTT
77905401 GCTTGGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTTTAGATACTTATTATA
Found at i:77907488 original size:17 final size:17
Alignment explanation
Indices: 77907466--77907498 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77907456 ATATGAGCCC
*
77907466 ACAAGCCCGTTGGGCCT
1 ACAAGCCCATTGGGCCT
77907483 ACAAGCCCATTGGGCC
1 ACAAGCCCATTGGGCC
77907499 CATACGGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.15
Consensus pattern (17 bp):
ACAAGCCCATTGGGCCT
Found at i:77908832 original size:39 final size:39
Alignment explanation
Indices: 77908773--77908851 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
77908763 TATAAATGTT
**
77908773 TAAAGTATGAAATAAATTATATGCCTGATATAGCTTGAA
1 TAAAGTATGAAATAAATTATATGCCCAATATAGCTTGAA
*
77908812 TAAATTATGAAATAAATTATATGCCCAATATAGCTTGAA
1 TAAAGTATGAAATAAATTATATGCCCAATATAGCTTGAA
77908851 T
1 T
77908852 TAATGTTAAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (39 bp):
TAAAGTATGAAATAAATTATATGCCCAATATAGCTTGAA
Found at i:77911777 original size:130 final size:130
Alignment explanation
Indices: 77911609--77912647 Score: 1981
Period size: 130 Copynumber: 8.0 Consensus size: 130
77911599 AATTTAGAGA
* * * *
77911609 ACATGAGTGAAATTCTAAAGGAATATCCGATTATTTTGAACAAACAGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77911674 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77911739 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77911804 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77911869 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77911934 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77911999 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77912064 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77912129 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77912194 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77912259 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77912324 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77912389 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
77912454 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
66 GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
77912519 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
* * * * *
77912584 GATAGGGCACGATT-CTCAAATTGCCAAACATCGAGCATTACCTTTGTTTTAAATAATTTTTAAA
66 GATAGGGCACGATTCCCCAAATTGCCAAACATC-AACATTACCTTCGTTTTGAAGAATTTTTAAA
77912648 TAAATAATTA
Statistics
Matches: 899, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
129 17 0.02
130 882 0.98
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (130 bp):
ACATGAGTGAAATTCCAAAGGAATATTCGATTGTTTTGAACAAACGGGAAATCGCAACCCAGCAC
GATAGGGCACGATTCCCCAAATTGCCAAACATCAACATTACCTTCGTTTTGAAGAATTTTTAAAG
Found at i:77917379 original size:12 final size:12
Alignment explanation
Indices: 77917349--77917380 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
77917339 AATGCTATGG
*
77917349 CACACGACCTAC
1 CACACGGCCTAC
77917361 CACACGGCCTAC
1 CACACGGCCTAC
77917373 CACACGGC
1 CACACGGC
77917381 TGTGTGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.28, C:0.50, G:0.16, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAC
Found at i:77926663 original size:21 final size:22
Alignment explanation
Indices: 77926634--77926685 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
77926624 ATTTGTTTTT
77926634 TTTAGTTTTAGATACTTATT-TA
1 TTTA-TTTTAGATACTTATTATA
** *
77926656 TTTATTTTATCTACTTATTATT
1 TTTATTTTAGATACTTATTATA
77926678 TTTATTTT
1 TTTATTTT
77926686 GCTTGGGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.23, C:0.06, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTATTTTAGATACTTATTATA
Found at i:77928773 original size:17 final size:17
Alignment explanation
Indices: 77928751--77928783 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
77928741 ATATGAGCCC
*
77928751 ACAAGCCCGTTGGGCCT
1 ACAAGCCCATTGGGCCT
77928768 ACAAGCCCATTGGGCC
1 ACAAGCCCATTGGGCC
77928784 CATACGGCCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.36, G:0.27, T:0.15
Consensus pattern (17 bp):
ACAAGCCCATTGGGCCT
Found at i:77932329 original size:42 final size:43
Alignment explanation
Indices: 77932261--77932341 Score: 128
Period size: 42 Copynumber: 1.9 Consensus size: 43
77932251 TCAGTCAGAA
77932261 CTTTCTTAAGCTTCTCAAAACATTCCTGCTGCTTATTAGAAAC
1 CTTTCTTAAGCTTCTCAAAACATTCCTGCTGCTTATTAGAAAC
* * *
77932304 CTTT-TTAAGTTTCTGAAAACTTTCCTGCTGCTTATTAG
1 CTTTCTTAAGCTTCTCAAAACATTCCTGCTGCTTATTAG
77932342 TCCAGTTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 31 0.89
43 4 0.11
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.42
Consensus pattern (43 bp):
CTTTCTTAAGCTTCTCAAAACATTCCTGCTGCTTATTAGAAAC
Found at i:77940305 original size:42 final size:42
Alignment explanation
Indices: 77940246--77940326 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 42
77940236 AAAAAGAGTT
*
77940246 ACACGACCTGGACACACACTCGTGTCCTTGCA-CGTGTGACTC
1 ACACGACCTGGACACACACCCGTGTCCTTG-ATCGTGTGACTC
* * *
77940288 ACACGGCCTGGGCACACACCCTTGTCCTTGATCGTGTGA
1 ACACGACCTGGACACACACCCGTGTCCTTGATCGTGTGA
77940327 TCTTAGGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.03
42 33 0.97
ACGTcount: A:0.20, C:0.35, G:0.23, T:0.22
Consensus pattern (42 bp):
ACACGACCTGGACACACACCCGTGTCCTTGATCGTGTGACTC
Found at i:77941881 original size:19 final size:20
Alignment explanation
Indices: 77941845--77941882 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
77941835 CTATGGAGAT
*
77941845 ACCTTCAGAAACACTTGATC
1 ACCTACAGAAACACTTGATC
77941865 ACCTACAGAAA-ACTTGAT
1 ACCTACAGAAACACTTGAT
77941883 ATCTTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (20 bp):
ACCTACAGAAACACTTGATC
Found at i:77948514 original size:29 final size:30
Alignment explanation
Indices: 77948481--77948543 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 30
77948471 ACACAAACAC
*
77948481 TTAATTACAACGAAAAACAACGGTTAAA-G
1 TTAATTACAACGAAAAACAACAGTTAAATG
** * *
77948510 TTAATTATGATGAAAAACAATAGTTAAATG
1 TTAATTACAACGAAAAACAACAGTTAAATG
77948540 TTAA
1 TTAA
77948544 AATTTTGGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 23 0.82
30 5 0.18
ACGTcount: A:0.51, C:0.08, G:0.13, T:0.29
Consensus pattern (30 bp):
TTAATTACAACGAAAAACAACAGTTAAATG
Found at i:77962890 original size:8 final size:8
Alignment explanation
Indices: 77962877--77962907 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
77962867 ATCGGTAAAA
77962877 GCCGAAAT
1 GCCGAAAT
77962885 GCCGAAAT
1 GCCGAAAT
77962893 GCCGAAAT
1 GCCGAAAT
77962901 GCCGAAA
1 GCCGAAA
77962908 AACCGGTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.10
Consensus pattern (8 bp):
GCCGAAAT
Found at i:77963183 original size:27 final size:26
Alignment explanation
Indices: 77963151--77963207 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
77963141 ATAGTTGAAC
*
77963151 TTACTAAAATACCCCTAAGTATGAAAA
1 TTACTAAAATACCCCTAAGTA-CAAAA
** *
77963178 TTACTACTATACCCCTAGGTACAAAA
1 TTACTAAAATACCCCTAAGTACAAAA
77963204 TTAC
1 TTAC
77963208 CATTATACCC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 8 0.31
27 18 0.69
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (26 bp):
TTACTAAAATACCCCTAAGTACAAAA
Found at i:77963214 original size:26 final size:27
Alignment explanation
Indices: 77963159--77963222 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
77963149 ACTTACTAAA
* * *
77963159 ATACCCCTAAGTATGAAAATTACTACT
1 ATACCCCTAGGTATCAAAATTACCACT
*
77963186 ATACCCCTAGGTA-CAAAATTACCATT
1 ATACCCCTAGGTATCAAAATTACCACT
77963212 ATACCCCTAGG
1 ATACCCCTAGG
77963223 GTTAGTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.38, C:0.27, G:0.09, T:0.27
Consensus pattern (27 bp):
ATACCCCTAGGTATCAAAATTACCACT
Found at i:77963385 original size:28 final size:28
Alignment explanation
Indices: 77963328--77963412 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
77963318 GGAAACGTTT
*
77963328 TGGTGGCTCTGCCACAAATATCT-AATTC
1 TGGTGGCTCTGCCACAAATATCTGTA-TC
*
77963356 TGGTGGCACTGCCACAAATATCTGTATC
1 TGGTGGCTCTGCCACAAATATCTGTATC
* *
77963384 TGGTGACTCTGTCAC-AATATCTGT-TC
1 TGGTGGCTCTGCCACAAATATCTGTATC
77963410 TGG
1 TGG
77963413 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 5 0.10
27 9 0.18
28 36 0.71
29 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (28 bp):
TGGTGGCTCTGCCACAAATATCTGTATC
Found at i:77965764 original size:40 final size:40
Alignment explanation
Indices: 77965526--77965750 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
77965516 TTGAATGATG
* * * *
77965526 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
77965566 TCCGGACTAAGAT-CCGAAGGCGTTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
77965606 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
77965645 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
77965685 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
77965726 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
77965751 ATCGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77965772 original size:119 final size:119
Alignment explanation
Indices: 77965526--77965783 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
77965516 TTGAATGATG
* * *
77965526 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCGTTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
77965591 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * **
77965645 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
77965708 TTGTGTGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAT-CGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTG-TGCGAGTTA-CTAAA
* *
77965765 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
77965784 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 3 0.03
119 82 0.69
120 32 0.27
121 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:77970176 original size:23 final size:23
Alignment explanation
Indices: 77970148--77970198 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
77970138 CAAATATAGT
77970148 TTTACATGTCCTTTTACTTTTAG
1 TTTACATGTCCTTTTACTTTTAG
77970171 TTTACATGTCCTTTTACTTTTAG
1 TTTACATGTCCTTTTACTTTTAG
77970194 TTTAC
1 TTTAC
77970199 CGTTGAAAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.08, T:0.57
Consensus pattern (23 bp):
TTTACATGTCCTTTTACTTTTAG
Found at i:77972378 original size:200 final size:200
Alignment explanation
Indices: 77972035--77972434 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
77972025 CCAAAGGCCG
77972035 GTAGCTCATTTATCAACTGAGAGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACG
1 GTAGCTCATTTATCAACTGAGAGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACG
77972100 AAACATACCTCAATGTTGGGATGTTTCAAGCGTATTAACTGAAACTTTTACAGCAAGATCATTCA
66 AAACATACCTCAATGTTGGGATGTTTCAAGCGTATTAACTGAAACTTTTACAGCAAGATCATTCA
77972165 TTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACA
131 TTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACA
77972230 TAGCC
196 TAGCC
*
77972235 GTAGCTCATTTATCAACTGAGCGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACG
1 GTAGCTCATTTATCAACTGAGAGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACG
77972300 AAACATACCTCAATGTTGGGATGTTTCAAGCGTATTAACTGAAACTTTTACAGCAAGATCATTCA
66 AAACATACCTCAATGTTGGGATGTTTCAAGCGTATTAACTGAAACTTTTACAGCAAGATCATTCA
77972365 TTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACA
131 TTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACA
77972430 TAGCC
196 TAGCC
77972435 CGGTTATAGT
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (200 bp):
GTAGCTCATTTATCAACTGAGAGAATACTTATTTGTAAGGGCTCAACTAATTCAAAGCACATACG
AAACATACCTCAATGTTGGGATGTTTCAAGCGTATTAACTGAAACTTTTACAGCAAGATCATTCA
TTCCCAAATCACGTACCTTCGGAATTTAACCGGATATAGCTACTCGTTCAAATGCCTTCGGGACA
TAGCC
Found at i:77972518 original size:40 final size:40
Alignment explanation
Indices: 77972413--77972558 Score: 181
Period size: 40 Copynumber: 3.6 Consensus size: 40
77972403 GCTACTCGTT
*
77972413 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
77972453 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
77972493 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
77972534 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
77972559 CATCATTCAA
Statistics
Matches: 93, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
39 3 0.03
40 77 0.83
41 13 0.14
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:77992159 original size:18 final size:18
Alignment explanation
Indices: 77992138--77992179 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
77992128 ATGATAAGTG
77992138 ACGTTTTGAAAATAAATA
1 ACGTTTTGAAAATAAATA
* *
77992156 ACGTTCTGAAAGTAAATA
1 ACGTTTTGAAAATAAATA
77992174 AC-TTTT
1 ACGTTTT
77992180 TAATGATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 3 0.14
18 18 0.86
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (18 bp):
ACGTTTTGAAAATAAATA
Found at i:77992486 original size:13 final size:13
Alignment explanation
Indices: 77992468--77992493 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
77992458 CACATAAAGT
77992468 GGAGAGCTTTGTA
1 GGAGAGCTTTGTA
77992481 GGAGAGCTTTGTA
1 GGAGAGCTTTGTA
77992494 CAACCCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.38, T:0.31
Consensus pattern (13 bp):
GGAGAGCTTTGTA
Found at i:77994723 original size:15 final size:15
Alignment explanation
Indices: 77994703--77994739 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
77994693 AAATTCTCCT
*
77994703 ATTTATTAATCACCA
1 ATTTATTAATAACCA
77994718 ATTTATTAATAACCA
1 ATTTATTAATAACCA
77994733 ATTTATT
1 ATTTATT
77994740 GAAAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTATTAATAACCA
Found at i:77997910 original size:55 final size:54
Alignment explanation
Indices: 77997810--77997983 Score: 210
Period size: 55 Copynumber: 3.2 Consensus size: 54
77997800 TTAAGGATTT
* * *
77997810 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTT-TCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGGCATGGC-ATTGGTAA-GTTCTATAAGGCAAGGATAC
* * * * *
77997865 CATCTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTT-CTATAAGGC-AAGGATAC
*
77997920 CATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGCAAGGATAC
77997973 CATGTAAGACC
1 CATGTAAGACC
77997984 GTTAGTTGTT
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
52 4 0.04
53 23 0.23
54 8 0.08
55 62 0.61
56 4 0.04
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTATAAGGCAAGGATAC
Found at i:78004902 original size:16 final size:16
Alignment explanation
Indices: 78004881--78004911 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
78004871 ATAAATTTGA
78004881 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
78004897 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
78004912 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:78007857 original size:79 final size:82
Alignment explanation
Indices: 78007746--78007930 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
78007736 GCTACTCGTT
* *
78007746 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
78007809 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
78007826 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
78007889 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
78007906 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
78007931 CATCATTCGA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:78007930 original size:40 final size:40
Alignment explanation
Indices: 78007727--78007930 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
78007717 CGGAATTTAA
** *
78007727 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78007767 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
78007807 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
78007846 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
78007886 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
78007926 CCGGA
1 CCGGA
78007931 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:78009127 original size:56 final size:56
Alignment explanation
Indices: 78009060--78009291 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
78009050 TATTAGTTTA
* *
78009060 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78009116 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78009172 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78009228 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
78009284 TTGCCCAT
1 TTGCCCAT
78009292 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:78027796 original size:30 final size:26
Alignment explanation
Indices: 78027740--78027789 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
78027730 TTAATCACAA
78027740 TAGCATGCATGTGTTAGAATAATTCT
1 TAGCATGCATGTGTTAGAATAATTCT
78027766 TAGCATGCATGTGTTAGAATAATT
1 TAGCATGCATGTGTTAGAATAATT
78027790 TTTTCTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
TAGCATGCATGTGTTAGAATAATTCT
Found at i:78043130 original size:20 final size:20
Alignment explanation
Indices: 78043086--78043146 Score: 58
Period size: 20 Copynumber: 3.1 Consensus size: 20
78043076 GTAAAAATAT
78043086 AAAAAGAAAA-ACAAAG-GA-
1 AAAAAGAAAAGA-AAAGAGAC
*
78043104 AATAAAGAACAAGGAAAGA-AC
1 AA-AAAGAA-AAGAAAAGAGAC
78043125 AAAAAGAAAAGAAAAGAGAC
1 AAAAAGAAAAGAAAAGAGAC
78043145 AA
1 AA
78043147 TAGAATTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
18 2 0.06
19 14 0.40
20 17 0.49
21 2 0.06
ACGTcount: A:0.74, C:0.07, G:0.18, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAGAAAAGAGAC
Found at i:78049834 original size:49 final size:50
Alignment explanation
Indices: 78049717--78049892 Score: 186
Period size: 49 Copynumber: 3.6 Consensus size: 50
78049707 TAATGCTGAA
* **
78049717 GCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--AT-CAAGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAAATCCGGGCCAAT
* *
78049764 GCCATGTCCCAGACATGGTCTTACACTGACTATCA-AAAT-TGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCCG-GGCCAAT
* * * * *
78049813 GCCATGTGCCAAACATGGTCTTACACT-ACCTCTCACATATCCGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGA-CTATCACAAATCCGGGCCAAT
78049863 GCCATGTCCCAGACATGGTCTTACACTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGAC
78049893 ACATCTCGTA
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
46 3 0.03
47 30 0.28
48 3 0.03
49 35 0.33
50 34 0.32
51 2 0.02
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTATCACAAATCCGGGCCAAT
Found at i:78049954 original size:46 final size:49
Alignment explanation
Indices: 78049717--78050074 Score: 279
Period size: 46 Copynumber: 7.6 Consensus size: 49
78049707 TAATGCTGAA
* * *
78049717 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCA--TC-AAGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTC-TACATCTCGATGCCGAT
* * * *
78049764 GCCATGTCCCAGACATGGTCTTACACTGACTATCAAAAT-T-GAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGC--TCTACATCTCGATGCCGAT
* * ** * *
78049813 GCCATGTGCCAAACATGGTCTTACACTACCTCTCACATATCCG-TGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCT-ACATCT-CGATGCCGAT
*
78049863 GCCATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCG-TAGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGAT-GCCGAT
* *
78049909 G-CATGTTCCAGACAT-GTCTTACACTGGCT-TACATCTCGAGGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGATGCCGAT
* * * * * *
78049955 -TCATGTCCTAGACAT-GTCTTACACTAGCTCT-CTTCTCAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGATGCCGAT
* * *
78050001 GCCATGTCCCAAACATGGTCTTACACTGGCTCT-CATAAT-GTTGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCTACAT-CTCGATGCCGAT
*
78050049 G-CATGTCCCAAACAT-GTCTTACACTG
1 GCCATGTCCCAGACATGGTCTTACACTG
78050075 ACACACAAAT
Statistics
Matches: 254, Mismatches: 39, Indels: 37
0.77 0.12 0.11
Matches are distributed among these distances:
44 10 0.04
45 17 0.07
46 72 0.28
47 58 0.23
48 29 0.11
49 37 0.15
50 30 0.12
51 1 0.00
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCTACATCTCGATGCCGAT
Found at i:78050065 original size:140 final size:142
Alignment explanation
Indices: 78049717--78050076 Score: 391
Period size: 140 Copynumber: 2.5 Consensus size: 142
78049707 TAATGCTGAA
*
78049717 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA--GCCAATGCCATGTCCCAGACAT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CAT-AAGTGCCGATG-CATGTCCCAGACAT
78049780 GGTCTTACACTGACTATCAAAATTGAGGCCGATGCCATGTGCCAAACATGGTCTTACACTACCTC
63 -GTCTTACACTGACTAT-AAAATTGAGGCCGATGCCATGTGCCAAACATGGTCTTACACTACCTC
**
78049845 TCACATATCCGTGCCAAT
126 T-ACATATCAATGCCAAT
* * * *
78049863 GCCATGTCCCAGACATGGTCTTACACTGACACATC-T-CGTAGCCGATGCATGTTCCAGACATGT
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGT-GCCGATGCATGTCCCAGACATGT
* * * * *
78049926 CTTACACTGGCT-T-ACATCTCGAGGCCGAT-TCATGT-CCTAGACAT-GTCTTACACTAGCTCT
65 CTTACACTGACTATAAAAT-T-GAGGCCGATGCCATGTGCC-AAACATGGTCTTACACTACCTCT
* *
78049986 -CTTCTCAATGCCAAT
127 ACATATCAATGCCAAT
* *
78050001 GCCATGTCCCAAACATGGTCTTACACTGGCTC-TCATAATGTTGCCGATGCATGTCCCAAACATG
1 GCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAA-G-TGCCGATGCATGTCCCAGACATG
78050065 TCTTACACTGAC
64 TCTTACACTGAC
78050077 ACACAAATAA
Statistics
Matches: 183, Mismatches: 21, Indels: 26
0.80 0.09 0.11
Matches are distributed among these distances:
137 2 0.01
138 41 0.22
140 52 0.28
141 12 0.07
142 10 0.05
143 13 0.07
144 14 0.08
145 7 0.04
146 32 0.17
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (142 bp):
GCCATGTCCCAGACATGGTCTTACACTGGCTCATCATAAGTGCCGATGCATGTCCCAGACATGTC
TTACACTGACTATAAAATTGAGGCCGATGCCATGTGCCAAACATGGTCTTACACTACCTCTACAT
ATCAATGCCAAT
Found at i:78056961 original size:46 final size:47
Alignment explanation
Indices: 78056820--78056983 Score: 201
Period size: 46 Copynumber: 3.5 Consensus size: 47
78056810 GTTGGCTAGC
* **
78056820 GTAAGACATGTCTGGGACATGCATTGGCCAT-ATTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATTGGCCTTGAACATGAGAGCCAGT
* * * * *
78056866 GTAAGATCATATCTAGGACATGGCATTGGCATTG-AGATGAGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATTGGCCTTGAACATGAGAGCCAGT
78056914 GTAAGACATGTCTGGGACATGCATTGGCCTTGAAACAT-A-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATTGGCCTTG-AACATGAGAGCCAGT
78056960 GTAAGACATGTCTGGGACATGCAT
1 GTAAGACATGTCTGGGACATGCAT
78056984 CGGCTACGAG
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
46 47 0.47
47 25 0.25
48 29 0.29
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (47 bp):
GTAAGACATGTCTGGGACATGCATTGGCCTTGAACATGAGAGCCAGT
Found at i:78057006 original size:46 final size:46
Alignment explanation
Indices: 78056820--78057074 Score: 207
Period size: 47 Copynumber: 5.5 Consensus size: 46
78056810 GTTGGCTAGC
* *
78056820 GTAAGACATGTCTGGGACATGCATTGGCCAT-ATTATGAGAGCCAGT
1 GTAAGACATGTCTGGGACATGCATTGGCTATGA-GATGAGAGCCAGT
* * *
78056866 GTAAGATCATATCTAGGACATGGCATTGGC-ATTGAGATGAGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATTGGCTA-TGAGATGAGAGCCAGT
*
78056914 GTAAGACATGTCTGGGACATGCATTGGCCT-TGAAACAT-A-AGCCAGT
1 GTAAGACATGTCTGGGACATGCATTGG-CTATG--AGATGAGAGCCAGT
* * * *
78056960 GTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTCAGT
1 GTAAGACATGTCTGGGACATGCATTGGCTATGAGATGAGAGCCAGT
* * **** * *
78057006 GTTAGACCATGTCTGGAACATGGCATCAAAT-TGAGATGTGAGCTAGT
1 GTAAGA-CATGTCTGGGACAT-GCATTGGCTATGAGATGAGAGCCAGT
*
78057053 GTAAGACCATGTCTAGGACATG
1 GTAAGA-CATGTCTGGGACATG
78057075 ACATCGGTGC
Statistics
Matches: 171, Mismatches: 25, Indels: 26
0.77 0.11 0.12
Matches are distributed among these distances:
44 3 0.02
45 3 0.02
46 60 0.35
47 69 0.40
48 35 0.20
49 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (46 bp):
GTAAGACATGTCTGGGACATGCATTGGCTATGAGATGAGAGCCAGT
Found at i:78057064 original size:140 final size:140
Alignment explanation
Indices: 78056820--78057074 Score: 336
Period size: 140 Copynumber: 1.8 Consensus size: 140
78056810 GTTGGCTAGC
* * * *
78056820 GTAAGACATGTCTGGGACATGCATTGGCCATATTATGAGAGCCAGTGTAAGATCATATCTAGGAC
1 GTAAGACATGTCTGGGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATATCTAGGAC
*** *
78056885 ATGGCATTGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTTGAAAC
66 ATGGCATTCAAATTGAGATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTTGAAAC
78056950 ATAAGCCAGT
131 ATAAGCCAGT
* * * * *
78056960 GTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTTAGACCATGTCT-GGA
1 GTAAGACATGTCTGGGACATGCATCGGCCA-GATGATGAGAGCCAGTGTAAGACCATATCTAGG-
*
78057023 ACATGGCA-TCAAATTGAGATGTGAGCTAGTGTAAGACCATGTCTAGGACATG
64 ACATGGCATTCAAATTGAGATGAGAGCTAGTGTAAGA-CATGTCTAGGACATG
78057075 ACATCGGTGC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
139 26 0.27
140 71 0.72
141 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.25
Consensus pattern (140 bp):
GTAAGACATGTCTGGGACATGCATCGGCCAGATGATGAGAGCCAGTGTAAGACCATATCTAGGAC
ATGGCATTCAAATTGAGATGAGAGCTAGTGTAAGACATGTCTAGGACATGCATTGGCCTTGAAAC
ATAAGCCAGT
Found at i:78059305 original size:13 final size:13
Alignment explanation
Indices: 78059287--78059314 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
78059277 CCTGACACAC
78059287 GCCCATGCCTATT
1 GCCCATGCCTATT
78059300 GCCCATGCCTATT
1 GCCCATGCCTATT
78059313 GC
1 GC
78059315 TCGTCTCCGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.39, G:0.18, T:0.29
Consensus pattern (13 bp):
GCCCATGCCTATT
Found at i:78060493 original size:48 final size:46
Alignment explanation
Indices: 78060335--78060650 Score: 202
Period size: 46 Copynumber: 6.7 Consensus size: 46
78060325 GTATAATGCT
* *
78060335 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG-AGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-A-C-ATATCGTA-GCC
** * * * *
78060384 GATGCCATGTTTCAAACATGGTCTTACGCTAGCTCTTACATATC-CATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-G-AC--ACATATCGTA-GCC
* *
78060434 GATACCATGTCCCAGATATGGTCTTACACTGACACCACTATACGTA-CC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACA-CA-TAT-CGTAGCC
* * * *
78060482 GATGCCATGTCCTAGACATGGTCTTATATTGACACATCTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTAGCC
* *
78060528 GATG-CATGTCCCAGACAT-GTCTTACACTGGATTACATCTCG-AGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACT-GA-CACATATCGTA-GCC
* * * * *
78060574 GATG-CATGTCCCAAACAT-GTCTTACACT-AGCTTTCATCTC-AATGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-C--ACATATCGTA-GCC
78060620 GATGCCATGTCCCAGACATGGTCTTACACTG
1 GATGCCATGTCCCAGACATGGTCTTACACTG
78060651 GCTCTCGCAA
Statistics
Matches: 216, Mismatches: 33, Indels: 36
0.76 0.12 0.13
Matches are distributed among these distances:
44 9 0.04
45 20 0.09
46 60 0.28
47 17 0.08
48 45 0.21
49 28 0.13
50 33 0.15
51 2 0.01
52 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACACATATCGTAGCC
Found at i:78060566 original size:46 final size:46
Alignment explanation
Indices: 78060476--78060697 Score: 179
Period size: 46 Copynumber: 4.8 Consensus size: 46
78060466 CACCACTATA
* * * *
78060476 CGTA-CCGATGCCATGTCCTAGACATGGTCTTATA-TTGA-CACATCT
1 CGTAGCCGATG-CATGTCCCAGACAT-GTCTTACACTGGATTACATCT
78060521 CGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGATTACATCT
1 CGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGATTACATCT
* * * *
78060567 CG-AGGCCGATGCATGTCCCAAACATGTCTTACACTAGCTTTCATCT
1 CGTA-GCCGATGCATGTCCCAGACATGTCTTACACTGGATTACATCT
* * * * *
78060613 C-AATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGCA-AT
1 CGTA-GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGAT-T-ACATCT
* * *
78060662 -GTGGCCGATGCATGTCCCAGACTTGTCTTTCACTGG
1 CGTAGCCGATGCATGTCCCAGACATGTCTTACACTGG
78060698 CACACAAATA
Statistics
Matches: 148, Mismatches: 19, Indels: 19
0.80 0.10 0.10
Matches are distributed among these distances:
44 7 0.05
45 21 0.14
46 71 0.48
47 26 0.18
48 19 0.13
49 2 0.01
50 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (46 bp):
CGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGATTACATCT
Found at i:78060672 original size:48 final size:47
Alignment explanation
Indices: 78060335--78060698 Score: 173
Period size: 46 Copynumber: 7.7 Consensus size: 47
78060325 GTATAATGCT
* * * *
78060335 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGA-AATCGAGGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ACAAT-G-TGCC
** * * * * *
78060384 GATGCCATGTTTCAAACATGGTCTTACGCTAGCTCTTACATATCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-AT--GTGCC
* * * * * *
78060434 GATACCATGTCCCAGATATGGTCTTACACTGACAC-CACTATACGTACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAC-A-ATGTGCC
* * * * * *
78060482 GATGCCATGTCCTAGACATGGTCTTATATTGACACATCTC---GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACAATGT-GCC
* * *
78060528 GATG-CATGTCCCAGACAT-GTCTTACACTGGAT-T-ACATCTCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACA-AT-G-TGCC
* * * *
78060574 GATG-CATGTCCCAAACAT-GTCTTACACTAGCTTTCATCTCAA--TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC--TC-TCACAATGTGCC
*
78060620 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGCAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGT-GCC
* *
78060668 GATG-CATGTCCCAGAC-TTGTCTTTCACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
78060699 ACACAAATAA
Statistics
Matches: 240, Mismatches: 52, Indels: 49
0.70 0.15 0.14
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
44 9 0.04
45 20 0.08
46 59 0.25
47 26 0.11
48 53 0.22
49 32 0.13
50 36 0.15
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGCC
Found at i:78062171 original size:25 final size:25
Alignment explanation
Indices: 78062135--78062197 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
78062125 TATCATTTAT
*
78062135 GCTCT-TTCGAGC-CATGATCAGTAA
1 GCTCTATT-GAGCTCATGAACAGTAA
* *
78062159 GCTCCTCTTGAGCTGATGAACAGTAA
1 GCT-CTATTGAGCTCATGAACAGTAA
78062185 GCTCTATTGAGCT
1 GCTCTATTGAGCT
78062198 AAGATGGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 15 0.45
26 15 0.45
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (25 bp):
GCTCTATTGAGCTCATGAACAGTAA
Found at i:78062182 original size:26 final size:25
Alignment explanation
Indices: 78062148--78062197 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
78062138 CTTTCGAGCC
* *
78062148 ATGATCAGTAAGCTCCTCTTGAGCTG
1 ATGAACAGTAAGCT-CTATTGAGCTG
78062174 ATGAACAGTAAGCTCTATTGAGCT
1 ATGAACAGTAAGCTCTATTGAGCT
78062198 AAGATGGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (25 bp):
ATGAACAGTAAGCTCTATTGAGCTG
Found at i:78065117 original size:40 final size:40
Alignment explanation
Indices: 78065062--78065187 Score: 252
Period size: 40 Copynumber: 3.1 Consensus size: 40
78065052 AAGGGAAGGG
78065062 ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
1 ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
78065102 ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
1 ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
78065142 ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
1 ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
78065182 ATACAA
1 ATACAA
78065188 CGACAACTTC
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 86 1.00
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.29
Consensus pattern (40 bp):
ATACAAAGCATAAAGCTTAGTAAGTTGCATATAAATATAT
Found at i:78065680 original size:47 final size:45
Alignment explanation
Indices: 78065481--78065698 Score: 153
Period size: 47 Copynumber: 4.7 Consensus size: 45
78065471 TCCATCGAGG
* *
78065481 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCA--TGTATA
1 CCGATG-CATGTCCCAGACATGGTCTTACACTGGCACTCACCT-TA-A
* * * ** *
78065527 CGTGCTGATGCATGTCCCAAACA-CGTCTTACACTAGCACGAAACTTAA
1 C---C-GATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTTAA
*
78065575 CCGATGCATGTCCCAGACA-CGTCTTACACTGGCTAACATCA--TTGAA
1 CCGATGCATGTCCCAGACATGGTCTTACACTGGC--AC-TCACCTT-AA
*
78065621 GCCGATGTATGTCCCAGACAT-GTCTTACACTGGCACTCACCTCTACA
1 -CCGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCT-TA-A
*
78065668 CCGATGCCATGTCCCAGACGTGGTCTTACAC
1 CCGATG-CATGTCCCAGACATGGTCTTACAC
78065699 GGGCCATCAT
Statistics
Matches: 142, Mismatches: 12, Indels: 34
0.76 0.06 0.18
Matches are distributed among these distances:
44 32 0.23
45 5 0.04
46 13 0.09
47 46 0.32
48 26 0.18
49 15 0.11
50 5 0.04
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.25
Consensus pattern (45 bp):
CCGATGCATGTCCCAGACATGGTCTTACACTGGCACTCACCTTAA
Found at i:78065727 original size:94 final size:93
Alignment explanation
Indices: 78065481--78065795 Score: 325
Period size: 94 Copynumber: 3.4 Consensus size: 93
78065471 TCCATCGAGG
* *
78065481 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCATGTATACGTGCTGATGCATGTCCC
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGC-CATCATG-ATGCG-GCTGATGCATGTCCC
* **
78065545 AAACACGTCTTACACTAGCACGAAACT-TAA
63 AGACACGTCTTACACTAGCACTCAACTCTAA
* * * * ** * *
78065575 CCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTAACATCATTGAAGCCGATGTATGTCCCAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCCATCATGA-TGCGGCTGATGCATGTCCCAG
* * *
78065638 ACATGTCTTACACTGGCACTCACCTCTACA
65 ACACGTCTTACACTAGCACTCAACTCTA-A
* * * *
78065668 CCGATGCCATGTCCCAGACGTGGTCTTACACGGGCCATCATGATGCGGCTAATGCATGTCCTAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCCATCATGATGCGGCTGATGCATGTCCCAGA
* * *
78065733 CACATCTTACACTAGCCCTCATCTC-AA
66 CACGTCTTACACTAGCACTCAACTCTAA
*
78065760 TCCGATGCCATGTCCCAGACATGGTCTTATACTGGC
1 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGC
78065796 TCTCACATAA
Statistics
Matches: 178, Mismatches: 36, Indels: 15
0.78 0.16 0.07
Matches are distributed among these distances:
91 35 0.20
92 19 0.11
93 53 0.30
94 54 0.30
95 17 0.10
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.25
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCCATCATGATGCGGCTGATGCATGTCCCAGA
CACGTCTTACACTAGCACTCAACTCTAA
Found at i:78066941 original size:9 final size:9
Alignment explanation
Indices: 78066927--78066951 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
78066917 ATATAACCTC
78066927 ATAAAAATA
1 ATAAAAATA
78066936 ATAAAAATA
1 ATAAAAATA
78066945 ATAAAAA
1 ATAAAAA
78066952 CCCCTTAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
ATAAAAATA
Found at i:78076665 original size:47 final size:44
Alignment explanation
Indices: 78076517--78076681 Score: 145
Period size: 47 Copynumber: 3.6 Consensus size: 44
78076507 TATACGTGCT
* * * * **
78076517 GATGGATGTCGCAGACATGTCTTACAATAGCACGAAACT-TAGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCAC-TCACTCTAGCC
* *
78076561 GATGCATGTCCCAGACACGTCTTACACTGGCTAACATCA-TCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC--AC-TCACTCTA-GCC
*
78076608 GATGCCTGTCCCAGACATGTCTTACACTGGCACTCACCTCTACGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCACTCA-CTCTA-GCC
*
78076654 GATGCTATGTCCCAGACGTGGTCTTACA
1 GATGC-ATGTCCCAGACAT-GTCTTACA
78076682 TGGGCTATCA
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
44 29 0.30
45 3 0.03
46 15 0.15
47 43 0.44
48 8 0.08
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCACTCACTCTAGCC
Found at i:78078283 original size:23 final size:23
Alignment explanation
Indices: 78078253--78078299 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
78078243 GTCATGTCCC
78078253 AGACAGGTCTTACACTAGCTTGT
1 AGACAGGTCTTACACTAGCTTGT
78078276 AGACAGGTCTTACACTAGCTTGT
1 AGACAGGTCTTACACTAGCTTGT
78078299 A
1 A
78078300 TATCCCGAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AGACAGGTCTTACACTAGCTTGT
Found at i:78083664 original size:17 final size:17
Alignment explanation
Indices: 78083642--78083675 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
78083632 CTCCTTTTAT
78083642 TTTTTGAAAAGAATGAA
1 TTTTTGAAAAGAATGAA
*
78083659 TTTTTGAAGAGAATGAA
1 TTTTTGAAAAGAATGAA
78083676 GTAAAAATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (17 bp):
TTTTTGAAAAGAATGAA
Found at i:78084166 original size:3 final size:3
Alignment explanation
Indices: 78084160--78084584 Score: 173
Period size: 3 Copynumber: 141.7 Consensus size: 3
78084150 CATCATCATC
* * *
78084160 ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ACT ATT TTT ATT ATC
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
** * * *
78084207 ATT ACC CTT AGT AAT -TT ATT ATT ATT ATT ATT ATT -TGCT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT
* * * * *
78084252 ATT AGTG ATCT ATT ACT ATT CTT ATT AGTGT ATT GTT ATTT CTT ATT
1 ATT A-TT AT-T ATT ATT ATT ATT ATT A-T-T ATT ATT A-TT ATT ATT
* * ** * * *
78084299 TTT CA-T ATT ATT GTT GCT ACT AGT ATAT ATT ATT ATT GTT -TCCT ATT
1 ATT -ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT AT--T ATT
* * * * * * * *
78084346 ATT ATT ACT ATT AAT ATC ACT ATT ATC ATT -TT TTT ATT ACT ATT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * *
78084393 ATT ACT ATT ATT ATT ATT ATT ATT -TT ATT -TT -TT ATT -TT TTT ACT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
78084437 ATCT AAT A-T ATT ATT A-T ACCTT TTT ATT ATT ATT ACT ATT -GT ATT
1 AT-T ATT ATT ATT ATT ATT A--TT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * *
78084482 ATT ACT ATT ATT ATT A-T ATT -TT CTT -TT TTT ATT ACT ATTT CTGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT AT-T
* * * * *
78084526 ATT ATT -TT ATT TTT ATT TTCT ATT ATT TTT ATC AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
78084571 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
78084585 CGTTTTCGTC
Statistics
Matches: 312, Mismatches: 77, Indels: 66
0.69 0.17 0.15
Matches are distributed among these distances:
2 29 0.09
3 258 0.83
4 20 0.06
5 5 0.02
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:78084384 original size:38 final size:36
Alignment explanation
Indices: 78084323--78084476 Score: 121
Period size: 41 Copynumber: 4.0 Consensus size: 36
78084313 TGCTACTAGT
**
78084323 ATATATTATTAT-TGTTTCCTATTATTATTACTATTA
1 ATATATTATTATAT-TTTTTTATTATTATTACTATTA
* *
78084359 ATATCACTATTATCATTTTTTTATTACTATTACTATTA
1 ATAT-ATTATTAT-ATTTTTTTATTATTATTACTATTA
* *
78084397 CTATTATTATTATTATTATTTTATTTTTTATTTTTTTACTATCTA
1 --A-TA-TATTATTA-TATTTT-TTTATTA--TTATTACTAT-TA
**
78084442 ATATATTATTATACCTTTTTATTATTATTACTATT
1 ATATATTATTATATTTTTTTATTATTATTACTATT
78084477 GTATTATTAC
Statistics
Matches: 94, Mismatches: 12, Indels: 24
0.72 0.09 0.18
Matches are distributed among these distances:
36 5 0.05
37 16 0.17
38 19 0.20
39 7 0.07
40 5 0.05
41 21 0.22
42 10 0.11
43 1 0.01
44 8 0.09
45 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.01, T:0.61
Consensus pattern (36 bp):
ATATATTATTATATTTTTTTATTATTATTACTATTA
Found at i:78084483 original size:14 final size:13
Alignment explanation
Indices: 78084463--78084502 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
78084453 TACCTTTTTA
78084463 TTATTATTACTAT
1 TTATTATTACTAT
78084476 TGTATTATTACTA-
1 T-TATTATTACTAT
78084489 TTATTATTA-TAT
1 TTATTATTACTAT
78084501 TT
1 TT
78084503 TCTTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 2 0.08
14 11 0.44
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (13 bp):
TTATTATTACTAT
Found at i:78084529 original size:44 final size:43
Alignment explanation
Indices: 78084347--78084584 Score: 145
Period size: 44 Copynumber: 5.4 Consensus size: 43
78084337 TTTCCTATTA
* * * *
78084347 TTATTACTATTAATATCACTATTATCATTTTTTTATTACTATTAC
1 TTATTACTATTATTATTA-TATTTTC-TTTTTTTATTACTATTTC
* *
78084392 -TATTACTATTATTATTATTATTATT-TTATTTT-TTA-T-TTTT
1 TTATTACTATTATTATTA-TATT-TTCTTTTTTTATTACTATTTC
* * * *
78084432 TTACTATCTAATATATTATTATACCTTTT-TATTATTATTACTATTGTA
1 TTATTA-CT-AT-TATTATTATA--TTTTCTTTTTTTATTACTATT-TC
78084480 TTATTACTATTATTATTATATTTTCTTTTTTTATTACTATTTC
1 TTATTACTATTATTATTATATTTTCTTTTTTTATTACTATTTC
* * * *
78084523 TGTATTA-TTTTATT-TT-TATTTTCTATTATTT-TTATCAATATTA
1 T-TATTACTATTATTATTATATTTTCT-TTTTTTATTA-CTAT-TTC
*
78084566 TTATTATTATTATTATTAT
1 TTATTACTATTATTATTAT
78084585 CGTTTTCGTC
Statistics
Matches: 153, Mismatches: 21, Indels: 38
0.72 0.10 0.18
Matches are distributed among these distances:
40 2 0.01
41 16 0.10
42 20 0.13
43 31 0.20
44 54 0.35
45 17 0.11
46 3 0.02
47 4 0.03
48 6 0.04
ACGTcount: A:0.28, C:0.08, G:0.01, T:0.64
Consensus pattern (43 bp):
TTATTACTATTATTATTATATTTTCTTTTTTTATTACTATTTC
Found at i:78084536 original size:22 final size:21
Alignment explanation
Indices: 78084487--78084580 Score: 70
Period size: 22 Copynumber: 4.5 Consensus size: 21
78084477 GTATTATTAC
78084487 TATTATTATTA-TATTTTCT-T
1 TATT-TTATTACTATTTTCTAT
*
78084507 T-TTTTATTACTATTTCTGTAT
1 TATTTTATTACTATTT-TCTAT
**
78084528 TATTTTATTTTTATTTTCTAT
1 TATTTTATTACTATTTTCTAT
* * *
78084549 TATTTTTATCAATATTAT-TAT
1 TA-TTTTATTACTATTTTCTAT
78084570 TATTATTATTA
1 TATT-TTATTA
78084581 TTATCGTTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
18 6 0.10
19 7 0.12
20 5 0.08
21 18 0.31
22 23 0.39
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (21 bp):
TATTTTATTACTATTTTCTAT
Found at i:78085557 original size:83 final size:83
Alignment explanation
Indices: 78085418--78085584 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
78085408 CATACATAAC
78085418 TGACTCCCGAACCTAGTTTTCTAAATTTTGCAGACCAAAATTGTTGTTTAAATAAATCAAATCAT
1 TGACTCCCGAACCTAGTTTTCTAAATTTTGCAGACCAAAATTGTTGTTTAAATAAATCAAATCAT
78085483 TTATTAAAAACAACCACT
66 TTATTAAAAACAACCACT
78085501 TGACTCCCGAACCTAGTTTTCTAAATTTTGCAGACCAAAATTGTTGTTTAAATAAATCAAATCAT
1 TGACTCCCGAACCTAGTTTTCTAAATTTTGCAGACCAAAATTGTTGTTTAAATAAATCAAATCAT
78085566 TTATTAAAAACAACCACT
66 TTATTAAAAACAACCACT
78085584 T
1 T
78085585 TTACGAGGTG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.38, C:0.19, G:0.08, T:0.34
Consensus pattern (83 bp):
TGACTCCCGAACCTAGTTTTCTAAATTTTGCAGACCAAAATTGTTGTTTAAATAAATCAAATCAT
TTATTAAAAACAACCACT
Found at i:78088538 original size:9 final size:9
Alignment explanation
Indices: 78088524--78088555 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
78088514 AACACCTTTT
78088524 TTGCATTCA
1 TTGCATTCA
78088533 TTGCATTCA
1 TTGCATTCA
78088542 TTGCATTCA
1 TTGCATTCA
78088551 -TGCAT
1 TTGCAT
78088556 CAGCATTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.22
9 18 0.78
ACGTcount: A:0.22, C:0.22, G:0.12, T:0.44
Consensus pattern (9 bp):
TTGCATTCA
Found at i:78096702 original size:88 final size:86
Alignment explanation
Indices: 78096598--78096935 Score: 453
Period size: 88 Copynumber: 3.8 Consensus size: 86
78096588 GGATTCGTAA
* * * * *
78096598 GCCTTAACCCCCTAAGCAGTAGGGTAGCAGGTTAAAAGTTACATATCTTGTCTCTCTAACCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTGAAAA-TTACAGATCTTGTCTCCCTAAGCAGTA
78096663 GTGGAGCAGATCGAAGACAGATG
65 GTGGAGCAGATCGAAGAC-GATG
* *
78096686 GCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTATAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAAC-AGGTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* *
78096751 GTGGAGCAGATCGAAGATGAAGG
65 GTGGAGCAGATCGAAGACG-ATG
* * * *
78096774 GCCTTAACCCCCTAAGCAATAAGTTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAGTAGGGTAACAGG-TGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *
78096839 ATGGAGCGGATCAAAGACGATGG
65 GTGGAGCAGATCGAAGACGAT-G
78096862 GCCTTAACCCCCTAAGCCA-TAGGGTAACAGGATGAAAATTACAGATCTTGTCTCCCTAAGCAGT
1 GCCTTAACCCCCTAAG-CAGTAGGGTAACAGG-TGAAAATTACAGATCTTGTCTCCCTAAGCAGT
78096926 AGTGGAGCAG
64 AGTGGAGCAG
78096936 GTTGAAATCA
Statistics
Matches: 219, Mismatches: 26, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
87 4 0.02
88 206 0.94
89 9 0.04
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (86 bp):
GCCTTAACCCCCTAAGCAGTAGGGTAACAGGTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACGATG
Found at i:78096900 original size:176 final size:176
Alignment explanation
Indices: 78096598--78096935 Score: 509
Period size: 176 Copynumber: 1.9 Consensus size: 176
78096588 GGATTCGTAA
* * * * * * *
78096598 GCCTTAACCCCCTAAGCAGTAGGGTAGCAGGTTAAAAGTTACATATCTTGTCTCTCTAACCAGTA
1 GCCTTAACCCCCTAAGCAATAAGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAACCAGTA
* * * *
78096663 GTGGAGCAGATCGAAGACAGATGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATTAT
66 ATGGAGCAGATCAAAGACAGATGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAAATTAC
78096728 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGG
131 AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGG
* *
78096774 GCCTTAACCCCCTAAGCAATAAGTTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCCCTAAGCAATAAGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAACCAGTA
* *
78096839 ATGGAGCGGATCAAAGAC-GATGGGCCTTAACCCCCTAAGCCA-TAGGGTAACAGGATGAAAATT
66 ATGGAGCAGATCAAAGACAGAT-GGCCTTAACCCCCTAAG-CAGTAGGGTAACAAGATGAAAATT
78096902 ACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
129 ACAGATCTTGTCTCCCTAAGCAGTAGTGGAGCAG
78096936 GTTGAAATCA
Statistics
Matches: 145, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
175 3 0.02
176 140 0.97
177 2 0.01
ACGTcount: A:0.33, C:0.22, G:0.23, T:0.22
Consensus pattern (176 bp):
GCCTTAACCCCCTAAGCAATAAGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAACCAGTA
ATGGAGCAGATCAAAGACAGATGGCCTTAACCCCCTAAGCAGTAGGGTAACAAGATGAAAATTAC
AGATCTTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGAAGG
Found at i:78096942 original size:44 final size:44
Alignment explanation
Indices: 78096607--78096942 Score: 127
Period size: 44 Copynumber: 7.6 Consensus size: 44
78096597 AGCCTTAACC
*
78096607 CCCTAAGCAGTAG-GGTAGCAGGTT-AAAAGTTACATATCTTGTCT
1 CCCTAAGCAGTAGTGG-AGCAGGTTGAAAA-TTACAGATCTTGTCT
* * * * * ** *
78096651 CTCTAACCAGTAGTGGAGCAGATCG--AA-GACAGATGGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGGTTGAAAATTACAGAT---CTTGTCT
* * * *
78096695 CCCTAAGCAGTAG-GGTAACAAGCTGAAAATTATAGATCTTGTCT
1 CCCTAAGCAGTAGTGG-AGCAGGTTGAAAATTACAGATCTTGTCT
* * * * ** ** *
78096739 CCCTAAGCAGTAGTGGAGCAGATCGAAGATGA-AGGGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGGTTGAAAATTACA-GATCTTGTCT
* * * * *
78096783 CCCTAAGCAATAAGT-TAACAGGCTAAAAATTACAGATCTTGTCT
1 CCCTAAGCAGT-AGTGGAGCAGGTTGAAAATTACAGATCTTGTCT
* * * ** ** ** ** *
78096827 CCCTAAGCAGTAATGGAGC-GGATCAAAGACGATGGGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAGGTTGAAA-ATTACAGATCTTGTCT
* *
78096871 CCCTAAGCCA-TAG-GGTAACAGGATGAAAATTACAGATCTTGTCT
1 CCCTAAG-CAGTAGTGG-AGCAGGTTGAAAATTACAGATCTTGTCT
78096915 CCCTAAGCAGTAGTGGAGCAGGTTGAAA
1 CCCTAAGCAGTAGTGGAGCAGGTTGAAA
78096943 TCATTAGTTC
Statistics
Matches: 196, Mismatches: 76, Indels: 40
0.63 0.24 0.13
Matches are distributed among these distances:
41 5 0.03
43 17 0.09
44 148 0.76
45 19 0.10
46 2 0.01
47 5 0.03
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (44 bp):
CCCTAAGCAGTAGTGGAGCAGGTTGAAAATTACAGATCTTGTCT
Found at i:78098584 original size:3 final size:3
Alignment explanation
Indices: 78098576--78098971 Score: 137
Period size: 3 Copynumber: 133.3 Consensus size: 3
78098566 ATCTAAGATG
* *
78098576 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *** * * * * *
78098624 TCA TTA CCC TTA GTA ATA -TA TTA TTA TTT TTA GTT- TTT TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * *
78098668 TTA TTA TTA GTGA TCTA TTA GTA TTC TTA TTA GTGTA TTG TTA TTTC
1 TTA TTA TTA -TTA T-TA TTA TTA TTA TTA TTA -T-TA TTA TTA -TTA
* * * * *
78098715 TTA TTT TTCA -TA TTA TTG TTG TTA TTA GTA TATA ATA TTA TTA TT-
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * * * *
78098760 TCCTA TTA TTA TTA TTA CTA CTA ATA TCA -CA TTA TCA TT- TT- TTA
1 T--TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
78098804 TTA CTA TTA TTA TTT TTA TT- TT- TTT TTA CTA TCTA ATA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * * *
78098847 TTA -TA CCTTT TTA TTA TTA TTA CTA TT- GTA TTA TTA CTA TTA TTA
1 TTA TTA --TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
78098892 TTA -TA TT- TTC TT- TT- TTA TTA CTA TT- TCTA -TA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
78098932 TTT TTA TTT TCTA TTA TTA TTA TCA ATA TTA TTA TT- TTA T
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
78098972 CGTTTTCGTC
Statistics
Matches: 292, Mismatches: 70, Indels: 62
0.69 0.17 0.15
Matches are distributed among these distances:
2 34 0.12
3 237 0.81
4 17 0.06
5 4 0.01
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:78098845 original size:28 final size:25
Alignment explanation
Indices: 78098790--78098952 Score: 86
Period size: 25 Copynumber: 6.4 Consensus size: 25
78098780 CTAATATCAC
*
78098790 ATTATCATTTTTTATTACTATTATT
1 ATTATTATTTTTTATTACTATTATT
* *
78098815 ATTTTTATTTTTTTTTACTATCTAATAT
1 ATTATTATTTTTTATTACTAT-T-AT-T
***
78098843 ATTATTATACCTT-TT--TATTATT
1 ATTATTATTTTTTATTACTATTATT
* *
78098865 ATTACTATTGTATTATTACTATTATT
1 ATTATTATT-TTTTATTACTATTATT
*
78098891 ATTATATTTTCTTTTTTATTACTATT-TCT
1 A-T-TA--TTATTTTTTATTACTATTAT-T
** *
78098920 A-TATTA-TTTTTATTTTTATTTTCT
1 ATTATTATTTTTTATTACTATTAT-T
78098944 ATTATTATT
1 ATTATTATT
78098953 ATCAATATTA
Statistics
Matches: 106, Mismatches: 17, Indels: 29
0.70 0.11 0.19
Matches are distributed among these distances:
22 8 0.08
23 16 0.15
24 9 0.08
25 26 0.25
26 12 0.11
27 5 0.05
28 13 0.12
29 14 0.13
30 3 0.03
ACGTcount: A:0.26, C:0.07, G:0.01, T:0.66
Consensus pattern (25 bp):
ATTATTATTTTTTATTACTATTATT
Found at i:78098880 original size:14 final size:13
Alignment explanation
Indices: 78098860--78098899 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
78098850 TACCTTTTTA
78098860 TTATTATTACTAT
1 TTATTATTACTAT
78098873 TGTATTATTACTA-
1 T-TATTATTACTAT
78098886 TTATTATTA-TAT
1 TTATTATTACTAT
78098898 TT
1 TT
78098900 TCTTTTTTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 2 0.08
12 10 0.40
13 2 0.08
14 11 0.44
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (13 bp):
TTATTATTACTAT
Found at i:78098882 original size:20 final size:20
Alignment explanation
Indices: 78098857--78098898 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
78098847 TTATACCTTT
* *
78098857 TTATTATTATTACTATTGTA
1 TTATTACTATTACTATTATA
*
78098877 TTATTACTATTATTATTATA
1 TTATTACTATTACTATTATA
78098897 TT
1 TT
78098899 TTCTTTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
TTATTACTATTACTATTATA
Found at i:78098909 original size:29 final size:29
Alignment explanation
Indices: 78098877--78098954 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
78098867 TACTATTGTA
78098877 TTATTACTATTATTATTATATTTTCT-TTT
1 TTATTACTATTATTATTATATTTT-TATTT
78098906 TTATTACTATT-TCTA-TATTATTTTTATTT
1 TTATTACTATTAT-TATTA-TATTTTTATTT
*
78098935 TTATTTTCTATTATTATTAT
1 TTA-TTACTATTATTATTAT
78098955 CAATATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
28 4 0.10
29 25 0.60
30 10 0.24
31 3 0.07
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (29 bp):
TTATTACTATTATTATTATATTTTTATTT
Found at i:78098926 original size:37 final size:37
Alignment explanation
Indices: 78098808--78098967 Score: 114
Period size: 37 Copynumber: 4.2 Consensus size: 37
78098798 TTTTTATTAC
* *
78098808 TATTATTATTTTTATTTTTTTTTACTATCTA--ATATAT
1 TATTATTATTTTTATTTTCTATTACTAT-TATCA-ATAT
* *
78098845 TATTA-TACCTTTTTATTAT-TATTACTATTGTATTATTACTAT
1 TATTATTA--TTTTTATTTTCTATTACTA-T-TATCA--A-TAT
* * *
78098887 TATTATTATATTTTCTTTTTTATTACTATT-TCTATAT
1 TATTATTAT-TTTTATTTTCTATTACTATTATCAATAT
* *
78098924 TATTTTTATTTTTATTTTCTATTATTATTATCAATAT
1 TATTATTATTTTTATTTTCTATTACTATTATCAATAT
78098961 TATTATT
1 TATTATT
78098968 TTATCGTTTT
Statistics
Matches: 99, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
36 19 0.19
37 35 0.35
38 13 0.13
40 2 0.02
41 4 0.04
42 16 0.16
43 10 0.10
ACGTcount: A:0.27, C:0.07, G:0.01, T:0.66
Consensus pattern (37 bp):
TATTATTATTTTTATTTTCTATTACTATTATCAATAT
Found at i:78098929 original size:23 final size:25
Alignment explanation
Indices: 78098903--78098952 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
78098893 TATATTTTCT
78098903 TTTTTATTACTA-TTTCTA-TATTA
1 TTTTTATTACTATTTTCTATTATTA
**
78098926 TTTTTATTTTTATTTTCTATTATTA
1 TTTTTATTACTATTTTCTATTATTA
78098951 TT
1 TT
78098953 ATCAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 10 0.43
24 6 0.26
25 7 0.30
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (25 bp):
TTTTTATTACTATTTTCTATTATTA
Found at i:78107302 original size:39 final size:39
Alignment explanation
Indices: 78107217--78107350 Score: 207
Period size: 39 Copynumber: 3.4 Consensus size: 39
78107207 ATGATAACCG
78107217 GGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATATCC
1 GGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATATCC
78107256 GGCCTAAGTCCCGAAGGCAATTGTGCTAGTT-CTATATCC
1 GG-CTAAGTCCCGAAGGCAATTGTGCTAGTTACTATATCC
* * *
78107295 AGGCTAAGTCCTGAAGGCATTTGTGCTAGTTGCTATATCC
1 -GGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATATCC
*
78107335 GGCTAATTCCCGAAGG
1 GGCTAAGTCCCGAAGG
78107351 TACTTGGGTT
Statistics
Matches: 88, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
39 50 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCAATTGTGCTAGTTACTATATCC
Found at i:78109104 original size:49 final size:49
Alignment explanation
Indices: 78109032--78109156 Score: 133
Period size: 49 Copynumber: 2.6 Consensus size: 49
78109022 AAGTCGATGT
* * * *
78109032 CATGTCCCAAACAAGTTTTACACTAACTTTCATATATCGAGGCCAATAA
1 CATGTCCCAAATAGGTCTTACACTAACTCTCATATATCGAGGCCAATAA
* * * ** * * **
78109081 CATGTCCCAGATAGGTCTTACACTAGCTCTCATCTATCGCTGTCGATGC
1 CATGTCCCAAATAGGTCTTACACTAACTCTCATATATCGAGGCCAATAA
78109130 CATGTCCCAAATAGGTCTTACACTAAC
1 CATGTCCCAAATAGGTCTTACACTAAC
78109157 ACACAACAAG
Statistics
Matches: 61, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
49 61 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (49 bp):
CATGTCCCAAATAGGTCTTACACTAACTCTCATATATCGAGGCCAATAA
Found at i:78111074 original size:8 final size:8
Alignment explanation
Indices: 78111057--78111131 Score: 80
Period size: 8 Copynumber: 9.4 Consensus size: 8
78111047 ATGAATCAGC
78111057 AAAAGCCG
1 AAAAGCCG
*
78111065 AAATGCCG
1 AAAAGCCG
*
78111073 AAAAGCCA
1 AAAAGCCG
78111081 AAAAGCCG
1 AAAAGCCG
*
78111089 AAATGCCG
1 AAAAGCCG
*
78111097 AAAAGCCA
1 AAAAGCCG
*
78111105 AAAAGTC-
1 AAAAGCCG
*
78111112 AAAATGCCA
1 AAAA-GCCG
78111121 AAAAGCCG
1 AAAAGCCG
78111129 AAA
1 AAA
78111132 GTTGGGCTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
7 4 0.07
8 47 0.85
9 4 0.07
ACGTcount: A:0.53, C:0.23, G:0.19, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:78111087 original size:24 final size:24
Alignment explanation
Indices: 78111057--78111127 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
78111047 ATGAATCAGC
78111057 AAAAGCCGAAATGCCGAAAAGCCA
1 AAAAGCCGAAATGCCGAAAAGCCA
78111081 AAAAGCCGAAATGCCGAAAAGCCA
1 AAAAGCCGAAATGCCGAAAAGCCA
* * *
78111105 AAAAGTCAAAATGCCAAAAAGCC
1 AAAAGCCGAAATGCCGAAAAGCC
78111128 GAAAGTTGGG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.52, C:0.24, G:0.18, T:0.06
Consensus pattern (24 bp):
AAAAGCCGAAATGCCGAAAAGCCA
Found at i:78111397 original size:29 final size:27
Alignment explanation
Indices: 78111350--78111461 Score: 91
Period size: 29 Copynumber: 4.0 Consensus size: 27
78111340 TGAGTATAAT
* *
78111350 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAGTGGGCCATATGA
*
78111377 AGGTGAATTGGGCCTAGTGGGCCATAAGAA
1 A--TGAATTGGGCCTAGTGGGCCATATG-A
** *
78111407 TATGAACCGGGCC-AGATGGGCCATTTGA
1 -ATGAATTGGGCCTAG-TGGGCCATATGA
* *
78111435 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAGTGGGCCATATG
78111462 CATTTATATA
Statistics
Matches: 66, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
27 4 0.06
28 18 0.27
29 42 0.64
30 1 0.02
31 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.25
Consensus pattern (27 bp):
ATGAATTGGGCCTAGTGGGCCATATGA
Found at i:78113304 original size:46 final size:45
Alignment explanation
Indices: 78113170--78113306 Score: 127
Period size: 46 Copynumber: 3.0 Consensus size: 45
78113160 GGTTATTGTG
* * * * *
78113170 AGCTAGTGTAAGACATGTCTAGGACATACATCGGCCAC-ATTATGA
1 AGCTAGTGTAAGACATGTCTAGGACATGCATCGACTACGA-GACGA
* * *
78113215 AGCCAGTGTAAGACCATGTCTGGGACATGGCA-CGA-TATTGAGACGA
1 AGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGACTA-CGAGACGA
*
78113261 ATGCTAGTGTAAGACATGTCTAGGACATGCATCAACTACGAGACGA
1 A-GCTAGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGA
78113307 TAGTCACTGT
Statistics
Matches: 73, Mismatches: 12, Indels: 13
0.74 0.12 0.13
Matches are distributed among these distances:
45 16 0.22
46 41 0.56
47 16 0.22
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.22
Consensus pattern (45 bp):
AGCTAGTGTAAGACATGTCTAGGACATGCATCGACTACGAGACGA
Found at i:78120761 original size:46 final size:45
Alignment explanation
Indices: 78120694--78120855 Score: 193
Period size: 46 Copynumber: 3.5 Consensus size: 45
78120684 ATTGTGAGCT
78120694 AGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCC
1 AGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCC
* * * * * *
78120739 AGTGTAAGACCATGTCTGGGACATGGCATCGG-TATCGA-GACGAATGCT
1 AGTGTAAGA-CATGTCTAGGACAT-ACATCGGCCA-C-ATTATGAA-GCC
78120787 AGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCC
1 AGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCC
*
78120832 AGTGTAAGACCATGTCTGGGACAT
1 AGTGTAAGA-CATGTCTAGGACAT
78120856 GGCATCGACA
Statistics
Matches: 96, Mismatches: 13, Indels: 15
0.77 0.10 0.12
Matches are distributed among these distances:
45 21 0.22
46 38 0.40
47 25 0.26
48 12 0.12
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (45 bp):
AGTGTAAGACATGTCTAGGACATACATCGGCCACATTATGAAGCC
Done.