Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
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: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 7 of 13
Found at i:910602 original size:19 final size:19
Alignment explanation
Indices: 910557--910612 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
910547 TTGCTAGTTT
**
910557 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
910577 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
910596 CATGTATCGATACAATG
1 CATGTATCGATACAATG
910613 TATCAATAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:911200 original size:34 final size:34
Alignment explanation
Indices: 911157--911258 Score: 141
Period size: 34 Copynumber: 3.0 Consensus size: 34
911147 TAACGTTACA
* * *
911157 ACACTATCTTTTTAAAGGCTAAGATAGAATCTTT
1 ACACTATCTTTTCAAAGGCTAAGATAGAACCTCT
* * *
911191 TCTCTATCTTTTGAAAGGCTAAGATAGAACCTCT
1 ACACTATCTTTTCAAAGGCTAAGATAGAACCTCT
*
911225 ACACTATCTTTTCAAAAGCTAAGATAGAACCTCT
1 ACACTATCTTTTCAAAGGCTAAGATAGAACCTCT
911259 TAATCACTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (34 bp):
ACACTATCTTTTCAAAGGCTAAGATAGAACCTCT
Found at i:911849 original size:13 final size:13
Alignment explanation
Indices: 911831--911855 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
911821 ACATTATATT
911831 TGTATCGATACAA
1 TGTATCGATACAA
911844 TGTATCGATACA
1 TGTATCGATACA
911856 TTATAACTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:911851 original size:32 final size:33
Alignment explanation
Indices: 911810--911875 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
911800 ACTTTCACAT
*
911810 AATGTATCGATACATTAT-ATTTGTATCGATAC
1 AATGTATCGATACATTATAACTTGTATCGATAC
911842 AATGTATCGATACATTATAACTTGTATCGATAC
1 AATGTATCGATACATTATAACTTGTATCGATAC
911875 A
1 A
911876 TCTGCATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 18 0.56
33 14 0.44
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (33 bp):
AATGTATCGATACATTATAACTTGTATCGATAC
Found at i:914698 original size:3 final size:3
Alignment explanation
Indices: 914684--914732 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
914674 CACTTGGCAC
*
914684 TTA TTA TT- TTA TTA TTAA TTT TTA TTA GTTA -TA TTA TT- TTA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA
914728 TTA TT
1 TTA TT
914733 TTTTAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 6 0.15
3 27 0.69
4 6 0.15
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:914708 original size:13 final size:13
Alignment explanation
Indices: 914690--914737 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
914680 GCACTTATTA
914690 TTTTATTATTAAT
1 TTTTATTATTAAT
914703 TTTTATTAGTTATATT
1 TTTTATTA-TTA-A-T
*
914719 ATTTTATTATTATT
1 -TTTTATTATTAAT
914733 TTTTA
1 TTTTA
914738 ATTAAAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 13 0.43
14 4 0.13
15 1 0.03
16 4 0.13
17 8 0.27
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (13 bp):
TTTTATTATTAAT
Found at i:914741 original size:11 final size:11
Alignment explanation
Indices: 914684--914734 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
914674 CACTTGGCAC
914684 TTATTATTTTA
1 TTATTATTTTA
*
914695 TTATTAATTT-
1 TTATTATTTTA
*
914705 TTATTA-GTTA
1 TTATTATTTTA
914715 -TATTATTTTA
1 TTATTATTTTA
914725 TTATTATTTT
1 TTATTATTTT
914735 TTAATTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.21
10 9 0.26
11 18 0.53
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:916964 original size:19 final size:20
Alignment explanation
Indices: 916936--916974 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
916926 ATAAATTTGT
916936 AATCTACCAC-AATTACAAC
1 AATCTACCACAAATTACAAC
*
916955 AATCTCCCACTAAATTACAA
1 AATCTACCAC-AAATTACAA
916975 ATTCCAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
21 8 0.47
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (20 bp):
AATCTACCACAAATTACAAC
Found at i:918304 original size:632 final size:632
Alignment explanation
Indices: 917092--918349 Score: 2372
Period size: 632 Copynumber: 2.0 Consensus size: 632
917082 GCTAGTCGCT
* *
917092 TAAACCATTACTTTTGAGTTAGAACCGGATAAATTACACACATAACTATATTTAAAGAAAGAATA
1 TAAACCATTACTTTTGAGTTAGAACCGAATAAATTACACACATAACAATATTTAAAGAAAGAATA
* *
917157 AGAATTTTATATTGCTTTAGCATTATTATGGCCATATGCTTATCCTGGTTTCATGAATATTTACA
66 AGAATTTTATATTGCTTTAGCATTATTATGGCCATATGCTTATCCCGATTTCATGAATATTTACA
* *
917222 AGAGTAAAACCATTAAACTCTTGTTAGAAGTGGCACTACTTCTATATTCATATAGGTGAAATCTT
131 AGAGTAAAACCATTAAACTCTTGTTAGAAGCGACACTACTTCTATATTCATATAGGTGAAATCTT
917287 TATGGTAATATAATTATCGATCTATTAAGAGTTTAACTCATTCTCCTAAATGATTTAGCACTAAA
196 TATGGTAATATAATTATCGATCTATTAAGAGTTTAACTCATTCTCCTAAATGATTTAGCACTAAA
917352 TCTTGTTTTGTAGTACCTAGTCATTAAAGTAACTTATTATTACCCTTTAAATCTTGAAACTAATG
261 TCTTGTTTTGTAGTACCTAGTCATTAAAGTAACTTATTATTACCCTTTAAATCTTGAAACTAATG
* *
917417 ATTATAGAATAAGGTAGGGTTCCCGTTACTAATTACAATTTAATAAAGGTTTTAATCCCATTTTA
326 ATTATAGAATAAGGTAGGGTTCCCATTACTAATGACAATTTAATAAAGGTTTTAATCCCATTTTA
*
917482 GCAGCGGTATCTTTTACCATATCCCTTGATAGACCTTTTGTCAATGGGTCTGCTAAATTATTAGT
391 GCAGCAGTATCTTTTACCATATCCCTTGATAGACCTTTTGTCAATGGGTCTGCTAAATTATTAGT
*
917547 TGACTTAATATAGGTGGTGGTAATTATATCATCTCCTATTAATTGCCTTACATACTCATGTCTTA
456 TGACTTAACATAGGTGGTGGTAATTATATCATCTCCTATTAATTGCCTTACATACTCATGTCTTA
* * *
917612 AGCTAATGTGTCTAGACTTTCCATTGTAAACTTTTCTATAGGCTCGAGAGATGGTAGATTCACTA
521 AGCTAATGTGTCTAGACTTTCCATTGTAAACTTTGCTATAGGCTCGAGACATGATAGATTCACTA
917677 TCACAGAATATGGAAATGGCTGACATAGGTTGTGGCCACAAAATATG
586 TCACAGAATATGGAAATGGCTGACATAGGTTGTGGCCACAAAATATG
917724 TAAACCATTACTTTTGAGTTAGAACCGAATAAATTACACACATAACAATATTTAAAGAAAGAATA
1 TAAACCATTACTTTTGAGTTAGAACCGAATAAATTACACACATAACAATATTTAAAGAAAGAATA
917789 AGAATTTTATATTGCTTTAGCATTATTATGGCCATATGCTTATCCCGATTTCATGAATATTTACA
66 AGAATTTTATATTGCTTTAGCATTATTATGGCCATATGCTTATCCCGATTTCATGAATATTTACA
917854 AGAGTAAAACCATTAAACTCTTGTTAGAAGCGACACTACTTCTATATTCATATAGGTGAAATCTT
131 AGAGTAAAACCATTAAACTCTTGTTAGAAGCGACACTACTTCTATATTCATATAGGTGAAATCTT
917919 TATGGTAATATAATTATCGATCTATTAAGAGTTTAACTCATTCTCCTAAATGATTTAGCACTAAA
196 TATGGTAATATAATTATCGATCTATTAAGAGTTTAACTCATTCTCCTAAATGATTTAGCACTAAA
* *
917984 TCTTGTTTTGTAGTGCCTAGTCATTAAAGTAACTTGTTATTACCCTTTAAATCTTGAAACTAATG
261 TCTTGTTTTGTAGTACCTAGTCATTAAAGTAACTTATTATTACCCTTTAAATCTTGAAACTAATG
918049 ATTATAGAATAAGGTAGGGTTCCCATTACTAATGACAATTTAATAAAGGTTTTAATCCCATTTTA
326 ATTATAGAATAAGGTAGGGTTCCCATTACTAATGACAATTTAATAAAGGTTTTAATCCCATTTTA
918114 GCAGCAGTATCTTTTACCATATCCCTTGATAGACCTTTTGTCAATGGGTCTGCTAAATTATTAGT
391 GCAGCAGTATCTTTTACCATATCCCTTGATAGACCTTTTGTCAATGGGTCTGCTAAATTATTAGT
*
918179 TGACTTAACATAGGTGGTGGTAATTATATCATCTCCTATTAATTTCCTTACATACTCATGTCTTA
456 TGACTTAACATAGGTGGTGGTAATTATATCATCTCCTATTAATTGCCTTACATACTCATGTCTTA
918244 AGCTAATGTGTCTAGACTTTCCATTGTAAACTTTGCTATAGGCTCGAGACATGATAGATTCACTA
521 AGCTAATGTGTCTAGACTTTCCATTGTAAACTTTGCTATAGGCTCGAGACATGATAGATTCACTA
918309 TCACAGAATATGGAAATGGCTGACATAGGTTGTGGCCACAA
586 TCACAGAATATGGAAATGGCTGACATAGGTTGTGGCCACAA
918350 CTTAATATCT
Statistics
Matches: 610, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
632 610 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (632 bp):
TAAACCATTACTTTTGAGTTAGAACCGAATAAATTACACACATAACAATATTTAAAGAAAGAATA
AGAATTTTATATTGCTTTAGCATTATTATGGCCATATGCTTATCCCGATTTCATGAATATTTACA
AGAGTAAAACCATTAAACTCTTGTTAGAAGCGACACTACTTCTATATTCATATAGGTGAAATCTT
TATGGTAATATAATTATCGATCTATTAAGAGTTTAACTCATTCTCCTAAATGATTTAGCACTAAA
TCTTGTTTTGTAGTACCTAGTCATTAAAGTAACTTATTATTACCCTTTAAATCTTGAAACTAATG
ATTATAGAATAAGGTAGGGTTCCCATTACTAATGACAATTTAATAAAGGTTTTAATCCCATTTTA
GCAGCAGTATCTTTTACCATATCCCTTGATAGACCTTTTGTCAATGGGTCTGCTAAATTATTAGT
TGACTTAACATAGGTGGTGGTAATTATATCATCTCCTATTAATTGCCTTACATACTCATGTCTTA
AGCTAATGTGTCTAGACTTTCCATTGTAAACTTTGCTATAGGCTCGAGACATGATAGATTCACTA
TCACAGAATATGGAAATGGCTGACATAGGTTGTGGCCACAAAATATG
Found at i:922185 original size:20 final size:20
Alignment explanation
Indices: 922162--922215 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
922152 CACACTCAGA
922162 TGTATCGATACATGCTGCCT
1 TGTATCGATACATGCTGCCT
922182 TGTATCGATACATGCTGCCT
1 TGTATCGATACATGCTGCCT
922202 TGTATCGATACATG
1 TGTATCGATACATG
922216 TTAAGTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATGCTGCCT
Found at i:922325 original size:164 final size:164
Alignment explanation
Indices: 922054--922358 Score: 592
Period size: 164 Copynumber: 1.9 Consensus size: 164
922044 AAGAGTTTTC
*
922054 AAGTAAAACATGCTCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGG
1 AAGTAAAACATACTCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGG
*
922119 ATAAAAAGGTCAAAACCCTTGAATGTATCGATACACACTCAGATGTATCGATACATGCTGCCTTG
66 AGAAAAAGGTCAAAACCCTTGAATGTATCGATACACACTCAGATGTATCGATACATGCTGCCTTG
922184 TATCGATACATGCTGCCTTGTATCGATACATGTT
131 TATCGATACATGCTGCCTTGTATCGATACATGTT
922218 AAGTAAAACATACTCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGG
1 AAGTAAAACATACTCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGG
922283 AGAAAAAGGTCAAAACCCTTGAATGTATCGATACACACTCAGATGTATCGATACATGCTGCCTTG
66 AGAAAAAGGTCAAAACCCTTGAATGTATCGATACACACTCAGATGTATCGATACATGCTGCCTTG
922348 TATCGATACAT
131 TATCGATACAT
922359 TGTATCGATA
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
164 139 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (164 bp):
AAGTAAAACATACTCAAAGTATCGATACATAGGTAATTGTATCGATACATTATGGTTGACTTAGG
AGAAAAAGGTCAAAACCCTTGAATGTATCGATACACACTCAGATGTATCGATACATGCTGCCTTG
TATCGATACATGCTGCCTTGTATCGATACATGTT
Found at i:922363 original size:13 final size:13
Alignment explanation
Indices: 922345--922371 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
922335 ACATGCTGCC
922345 TTGTATCGATACA
1 TTGTATCGATACA
922358 TTGTATCGATACA
1 TTGTATCGATACA
922371 T
1 T
922372 GTTCAATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:922383 original size:19 final size:21
Alignment explanation
Indices: 922357--922412 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
922347 GTATCGATAC
**
922357 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
922377 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
922397 ATTGTATCGATACATG
1 ATTGTATCGATACATG
922413 AAATTGGCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:922478 original size:13 final size:13
Alignment explanation
Indices: 922457--922487 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
922447 TGATACATGG
*
922457 TACAATGTATCGA
1 TACATTGTATCGA
922470 TACATTGTATCGA
1 TACATTGTATCGA
922483 TACAT
1 TACAT
922488 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:928442 original size:19 final size:19
Alignment explanation
Indices: 928416--928456 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
928406 TTGATGTTTG
928416 TTATGTTGTATGAT-TGAA
1 TTATGTTGTATGATATGAA
*
928434 TTATGGTTGTTTGATATGAA
1 TTAT-GTTGTATGATATGAA
928454 TTA
1 TTA
928457 GGGTCTATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 4 0.20
19 9 0.45
20 7 0.35
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (19 bp):
TTATGTTGTATGATATGAA
Found at i:928753 original size:21 final size:21
Alignment explanation
Indices: 928729--928776 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
928719 AAATCTTTTA
928729 CAAAATTC-TT-ATTTTTCACTT
1 CAAAATTCTTTCATTTTTCA--T
*
928750 CAAAAATCTTTCATTTTTCAT
1 CAAAATTCTTTCATTTTTCAT
928771 CAAAAT
1 CAAAAT
928777 CATCAACAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.57
22 2 0.09
23 8 0.35
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.46
Consensus pattern (21 bp):
CAAAATTCTTTCATTTTTCAT
Found at i:929792 original size:20 final size:20
Alignment explanation
Indices: 929769--929841 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
929759 ACAATTCAAA
929769 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
929789 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
929810 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
929830 GTATCGATACAT
1 GTATCGATACAT
929842 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:929813 original size:21 final size:21
Alignment explanation
Indices: 929787--929862 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
929777 ACATGTTGCA
929787 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
929808 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
929828 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
929849 ATGTATCGATACAT
1 ATGTATCGATACAT
929863 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:929820 original size:41 final size:41
Alignment explanation
Indices: 929769--929862 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
929759 ACAATTCAAA
*
929769 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
929810 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
929851 GTATCGATACAT
1 GTATCGATACAT
929863 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:929919 original size:13 final size:13
Alignment explanation
Indices: 929901--929926 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
929891 TACAGCAAGT
929901 ATGTATCGATACA
1 ATGTATCGATACA
929914 ATGTATCGATACA
1 ATGTATCGATACA
929927 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:934006 original size:15 final size:15
Alignment explanation
Indices: 933986--934016 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
933976 TAAAAATGTC
*
933986 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
934001 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
934016 C
1 C
934017 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:936111 original size:20 final size:21
Alignment explanation
Indices: 936032--936110 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
936022 AATGTCCAAA
*
936032 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
936052 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
936077 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
936097 TTGTATCGATACAT
1 ATGTATCGATACAT
936111 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:936115 original size:13 final size:13
Alignment explanation
Indices: 936097--936135 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
936087 ACATTTTTCT
936097 TTGTATCGATACA
1 TTGTATCGATACA
936110 TTGTATCGATACA
1 TTGTATCGATACA
*
936123 CTGTATCGATACA
1 TTGTATCGATACA
936136 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:938597 original size:20 final size:20
Alignment explanation
Indices: 938574--938646 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
938564 ACAATTCAAA
938574 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
938594 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
938615 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
938635 GTATCGATACAT
1 GTATCGATACAT
938647 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:938618 original size:21 final size:21
Alignment explanation
Indices: 938592--938667 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
938582 ACATGTTGCA
938592 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
938613 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
938633 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
938654 ATGTATCGATACAT
1 ATGTATCGATACAT
938668 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:938625 original size:41 final size:41
Alignment explanation
Indices: 938574--938667 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
938564 ACAATTCAAA
*
938574 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
938615 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
938656 GTATCGATACAT
1 GTATCGATACAT
938668 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:938724 original size:13 final size:13
Alignment explanation
Indices: 938706--938731 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
938696 TACAGCAAGT
938706 ATGTATCGATACA
1 ATGTATCGATACA
938719 ATGTATCGATACA
1 ATGTATCGATACA
938732 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:940500 original size:22 final size:22
Alignment explanation
Indices: 940472--940523 Score: 74
Period size: 19 Copynumber: 2.5 Consensus size: 22
940462 TTTTTACATA
*
940472 AAGGGGGAGAAGATAATTGTTT
1 AAGGGGGAGAAGATAATCGTTT
940494 AA-GGGG-G-AGATAATCGTTT
1 AAGGGGGAGAAGATAATCGTTT
940513 AAGGGGGAGAA
1 AAGGGGGAGAA
940524 TTTTTAAAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
19 13 0.50
20 5 0.19
21 5 0.19
22 3 0.12
ACGTcount: A:0.37, C:0.02, G:0.40, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAGATAATCGTTT
Found at i:940506 original size:19 final size:19
Alignment explanation
Indices: 940482--940538 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 19
940472 AAGGGGGAGA
940482 AGATAATTGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
*
940501 AGATAATCGTTTAAGGGGG
1 AGATAATTGTTTAAGGGGG
*
940520 AG--AATT-TTTAAAGGGG
1 AGATAATTGTTTAAGGGGG
940536 AGA
1 AGA
940539 AAAACGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
16 11 0.32
17 3 0.09
19 20 0.59
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.28
Consensus pattern (19 bp):
AGATAATTGTTTAAGGGGG
Found at i:941063 original size:20 final size:20
Alignment explanation
Indices: 941038--941103 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
941028 AAACCCTTGA
941038 ATGTATCGATACACACTCAG
1 ATGTATCGATACACACTCAG
941058 ATGTATCGAT--ACA-T---
1 ATGTATCGATACACACTCAG
941072 -TGTATCGATACACACTCAG
1 ATGTATCGATACACACTCAG
941091 ATGTATCGATACA
1 ATGTATCGATACA
941104 TTGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.23
15 3 0.08
16 1 0.03
17 1 0.03
18 3 0.08
20 22 0.56
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (20 bp):
ATGTATCGATACACACTCAG
Found at i:941077 original size:13 final size:13
Alignment explanation
Indices: 941059--941117 Score: 55
Period size: 13 Copynumber: 4.0 Consensus size: 13
941049 CACACTCAGA
941059 TGTATCGATACAT
1 TGTATCGATACAT
941072 TGTATCGATACACACT
1 TGTATCGAT--ACA-T
941088 CAGATGTATCGATACAT
1 ----TGTATCGATACAT
941105 TGTATCGATACAT
1 TGTATCGATACAT
941118 GTTCAATGTA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 22 0.56
15 3 0.08
16 1 0.03
17 1 0.03
18 3 0.08
20 9 0.23
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:941081 original size:33 final size:33
Alignment explanation
Indices: 941039--941136 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
941029 AACCCTTGAA
941039 TGTATCGATACACACTCAGATGTATCGATACAT
1 TGTATCGATACACACTCAGATGTATCGATACAT
941072 TGTATCGATACACACTCAGATGTATCGATACAT
1 TGTATCGATACACACTCAGATGTATCGATACAT
***
941105 TGTATCGATACATGTTCA-ATGTATCGATACAT
1 TGTATCGATACACACTCAGATGTATCGATACAT
941137 GGACAAATTG
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 14 0.23
33 48 0.77
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (33 bp):
TGTATCGATACACACTCAGATGTATCGATACAT
Found at i:941129 original size:19 final size:21
Alignment explanation
Indices: 941103--941158 Score: 80
Period size: 19 Copynumber: 2.8 Consensus size: 21
941093 GTATCGATAC
**
941103 ATTGTATCGATACATGTTC-A
1 ATTGTATCGATACATGGACAA
941123 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGACAA
941143 ATTGTATCGATACATG
1 ATTGTATCGATACATG
941159 AAATTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 15 0.47
20 3 0.09
21 14 0.44
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
ATTGTATCGATACATGGACAA
Found at i:941150 original size:21 final size:20
Alignment explanation
Indices: 941103--941240 Score: 79
Period size: 20 Copynumber: 6.8 Consensus size: 20
941093 GTATCGATAC
**
941103 ATTGTATCGATACATGTTCA
1 ATTGTATCGATACATGGACA
941123 A-TGTATCGATACATGGACAA
1 ATTGTATCGATACATGGAC-A
941143 ATTGTATCGATACAT-GA-A
1 ATTGTATCGATACATGGACA
* * * *
941161 ATTGGCAGTAGCTACCCTAT-CACTA
1 ATT-GTA-TCGATA--C-ATGGAC-A
*
941186 TTTGTATCGATACATGGTACA
1 ATTGTATCGATACATGG-ACA
* *
941207 A-TGTATCGATACATGAAGA
1 ATTGTATCGATACATGGACA
*
941226 AATGTATCGATACAT
1 ATTGTATCGATACAT
941241 AGCTTGTAAG
Statistics
Matches: 92, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
18 4 0.04
19 20 0.22
20 38 0.41
21 15 0.16
22 3 0.03
23 7 0.08
24 2 0.02
25 3 0.03
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.32
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:944185 original size:11 final size:12
Alignment explanation
Indices: 944162--944199 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
944152 TATAAAAATG
944162 ATATAATTAAAA
1 ATATAATTAAAA
*
944174 ATGTAATTAAAA
1 ATATAATTAAAA
944186 ATATAATTAAAA
1 ATATAATTAAAA
944198 AT
1 AT
944200 GATATAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (12 bp):
ATATAATTAAAA
Found at i:944769 original size:128 final size:129
Alignment explanation
Indices: 944534--944781 Score: 347
Period size: 128 Copynumber: 1.9 Consensus size: 129
944524 TCATGTAGGT
* *
944534 ATAGAAATGTCAATTGGATAGGTCGAATTAATTTTAGGTGAGATTGATTTTTTGGTCAGGTCATT
1 ATAGAAATGTCAATTGGATAGGTCGAATTAATTTTAGGTGAGATTGA-TTTTTGGCCAAGTCATT
* * *
944599 TTAGGTTTTAAAATTTTTAAGCTATTTCAGTTTTAGTCATTTTAAGGTCAGGTTATTACATATGC
65 TTAGGTTTTAAAATTCTTAAGCTATTTCAATTTTAGTCATTTTAAGATCAGGTTATTACATATGC
* * * *
944664 ATAGAAATGTCAATTGGATGGGTTGAATTAGTTTTAGGTTAGATTGA-TTTTGGCCAAGTCATTT
1 ATAGAAATGTCAATTGGATAGGTCGAATTAATTTTAGGTGAGATTGATTTTTGGCCAAGTCATTT
* * * *
944728 TAGGTTTTAAAATTCTT-AGTTCGTTTCAATTTTAGTTATTTTGAGATCAGGTTA
66 TAGGTTTTAAAATTCTTAAGCT-ATTTCAATTTTAGTCATTTTAAGATCAGGTTA
944782 ATCGAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
127 3 0.03
128 58 0.56
130 43 0.41
ACGTcount: A:0.28, C:0.07, G:0.21, T:0.44
Consensus pattern (129 bp):
ATAGAAATGTCAATTGGATAGGTCGAATTAATTTTAGGTGAGATTGATTTTTGGCCAAGTCATTT
TAGGTTTTAAAATTCTTAAGCTATTTCAATTTTAGTCATTTTAAGATCAGGTTATTACATATGC
Found at i:944845 original size:16 final size:16
Alignment explanation
Indices: 944808--944860 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
944798 GAGTTGATCC
* *
944808 AATTCAAGTTATTTCAA
1 AATTCAAGTCATTT-TA
*
944825 AATTCGAGTCATTTTA
1 AATTCAAGTCATTTTA
944841 AATTCAAGTCATTTTA
1 AATTCAAGTCATTTTA
944857 AATT
1 AATT
944861 TAACATTCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 20 0.62
17 12 0.38
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (16 bp):
AATTCAAGTCATTTTA
Found at i:945312 original size:69 final size:69
Alignment explanation
Indices: 945223--945415 Score: 203
Period size: 71 Copynumber: 2.8 Consensus size: 69
945213 AAGCATGTTT
* * * *
945223 AAATAGTAGTCTCAACATGAATCAAGAGTTTAACTTAGTTGAATTATGTAGCTT-TTTCTAAACT
1 AAATAATAGTCTTAATATGAATCAAGAGTTTAACTTAGTTGAATTATATAGCTTCTTT-TAAACT
945287 TATTG
65 TATTG
* * *
945292 AAATAATAGTCTTAATATGAAAT-ACAGAATTTTAACTTATTTGAATTATATAGCTTCTTTTAAG
1 AAATAATAGTCTTAATATG-AATCA-AG-AGTTTAACTTAGTTGAATTATATAGCTTCTTTTAAA
*
945356 CTTGTTG
63 CTTATTG
* * * * *
945363 AAATGATAATCTTAATATGAACCCAGAGTTTAACTTAG-TAAGATTATATAGCT
1 AAATAATAGTCTTAATATGAATCAAGAGTTTAACTTAGTTGA-ATTATATAGCT
945416 ACAGTTAAGA
Statistics
Matches: 103, Mismatches: 15, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
68 2 0.02
69 38 0.37
70 9 0.09
71 51 0.50
72 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.39
Consensus pattern (69 bp):
AAATAATAGTCTTAATATGAATCAAGAGTTTAACTTAGTTGAATTATATAGCTTCTTTTAAACTT
ATTG
Found at i:946843 original size:20 final size:20
Alignment explanation
Indices: 946818--946858 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
946808 AAAATTCTAC
946818 TGGCAAATTTAATAAAGTAA
1 TGGCAAATTTAATAAAGTAA
946838 TGGCAAATTTAATAAAGTAA
1 TGGCAAATTTAATAAAGTAA
946858 T
1 T
946859 AGATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.32
Consensus pattern (20 bp):
TGGCAAATTTAATAAAGTAA
Found at i:947340 original size:18 final size:18
Alignment explanation
Indices: 947317--947352 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
947307 AATAATCCCG
*
947317 AGATATTAAGCCACCCTA
1 AGATATTAAGCCAACCTA
947335 AGATATTAAGCCAACCTA
1 AGATATTAAGCCAACCTA
947353 CCCTACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (18 bp):
AGATATTAAGCCAACCTA
Found at i:953844 original size:2 final size:2
Alignment explanation
Indices: 953837--953885 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
953827 AAAGGGTGGG
*
953837 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA TA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
953879 GA GA GA G
1 GA GA GA G
953886 TAGTCTAGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.02
Consensus pattern (2 bp):
GA
Found at i:959208 original size:55 final size:55
Alignment explanation
Indices: 959125--959235 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
959115 GAGCATATAA
* * *
959125 ATGCTTTTTGGCTCTTTTCCATCGTGGGAGGCCTCGCTAGGTCACACTTAGGCAT
1 ATGCTTTTTGGCTCTTTTCCATCATGGGAGGCCTCGCCACGTCACACTTAGGCAT
*
959180 ATGCTTTTTGGCTTTTTTCCATCATGGGAGGCCTCGCCACGTCACACTTAGGCAT
1 ATGCTTTTTGGCTCTTTTCCATCATGGGAGGCCTCGCCACGTCACACTTAGGCAT
959235 A
1 A
959236 AGAAATGCAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.34
Consensus pattern (55 bp):
ATGCTTTTTGGCTCTTTTCCATCATGGGAGGCCTCGCCACGTCACACTTAGGCAT
Found at i:962332 original size:23 final size:21
Alignment explanation
Indices: 962283--962337 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
962273 AAATTAAAGT
962283 TAATATATCAATACATTACTA
1 TAATATATCAATACATTACTA
* *
962304 TAATATATCGATACATTAGC-C
1 TAATATATCAATACATTA-CTA
962325 TAATATATCAATA
1 TAATATATCAATA
962338 TTGTCGCGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.45, C:0.15, G:0.04, T:0.36
Consensus pattern (21 bp):
TAATATATCAATACATTACTA
Found at i:974699 original size:42 final size:42
Alignment explanation
Indices: 974644--974762 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
974634 TTCTTCTCTC
* *
974644 CTCCTCCTGTCATCCCTCCTCTCTCTATTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
*
974686 CTCCTCCTATCATCCCTCCTATCTCTACTATCTCTCCTGTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
* *
974728 CTCCTCCTATCATCCCTCCTCTCTCTTCTTTCTCT
1 CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCT
974763 TTGAGGGCTA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.08, C:0.46, G:0.03, T:0.43
Consensus pattern (42 bp):
CTCCTCCTATCATCCCTCCTCTCTCTACTATCTCTCCTGTCT
Found at i:974703 original size:12 final size:11
Alignment explanation
Indices: 974677--974752 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
974667 TCTATTATCT
*
974677 CTCCTGTCTCTC
1 CTCCTATCTC-C
974689 CTCCTATCATCC
1 CTCCTATC-TCC
974701 CTCCTATCT--
1 CTCCTATCTCC
*
974710 CTACTATCT--
1 CTCCTATCTCC
*
974719 CTCCTGTCTCTC
1 CTCCTATCTC-C
974731 CTCCTATCATCC
1 CTCCTATC-TCC
*
974743 CTCCTCTCTC
1 CTCCTATCTC
974753 TTCTTTCTCT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 3 0.06
12 31 0.58
13 4 0.08
ACGTcount: A:0.09, C:0.49, G:0.03, T:0.39
Consensus pattern (11 bp):
CTCCTATCTCC
Found at i:974704 original size:24 final size:24
Alignment explanation
Indices: 974668--974753 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
974658 CCTCCTCTCT
* *
974668 CTATTATCTCTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
* *
974692 CTATCATCCCTCC--TATCT-CTA
1 CTATCATCCCTCCTGTCTCTCCTC
974713 CTATC-T--CTCCTGTCTCTCCTC
1 CTATCATCCCTCCTGTCTCTCCTC
*
974734 CTATCATCCCTCCTCTCTCT
1 CTATCATCCCTCCTGTCTCT
974754 TCTTTCTCTT
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 4 0.08
20 5 0.10
21 14 0.29
22 5 0.10
24 21 0.43
ACGTcount: A:0.10, C:0.45, G:0.02, T:0.42
Consensus pattern (24 bp):
CTATCATCCCTCCTGTCTCTCCTC
Found at i:974728 original size:18 final size:18
Alignment explanation
Indices: 974659--974729 Score: 52
Period size: 18 Copynumber: 3.6 Consensus size: 18
974649 CCTGTCATCC
* *
974659 CTCCTCTCTCTATTATCT
1 CTCCTGTCTCTACTATCT
*
974677 CTCCTGTCTCTCCTCCTATCAT
1 CTCCTG--TCT-CTACTATC-T
*
974699 CCCTCCTATCTCTACTATCT
1 --CTCCTGTCTCTACTATCT
974719 CTCCTGTCTCT
1 CTCCTGTCTCT
974730 CCTCCTATCA
Statistics
Matches: 41, Mismatches: 6, Indels: 12
0.69 0.10 0.20
Matches are distributed among these distances:
18 15 0.37
20 4 0.10
21 13 0.32
22 4 0.10
24 5 0.12
ACGTcount: A:0.10, C:0.44, G:0.03, T:0.44
Consensus pattern (18 bp):
CTCCTGTCTCTACTATCT
Found at i:977144 original size:45 final size:45
Alignment explanation
Indices: 977078--977533 Score: 394
Period size: 45 Copynumber: 10.3 Consensus size: 45
977068 GACCTAGATA
* * **
977078 TCAAACT-CTTT--TTTTTTGTTTGACGTAATGGTTCTGCTGTGG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* * *
977120 TCAAACTCCTTTCATTTTTTGTTTGACGTGATGGTTTTACCCTGG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* **
977165 TCAAACTCCTTTCATTTTTCATTTGAC-AAATGGTT-TGCCCTGG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* * * ** * *
977208 TCAAACCCCCTCCA-TCCTCGTTTAACGTGATGGTTTTGCCCTGG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* * * *
977252 TCAAACTCTTTTCATCTTTT--TTTGACGTGATGATTTTGTCCTGG
1 TCAAACTCCTTTCAT-TTTTCGTTTGACGTGATGGTTCTGCCCTGG
* * * * *
977296 TCAAAATCTTTTCATTTTTCATTTGACGTGATGGTTCTGCCTTGA
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
*** * *
977341 TCAAACTCCTTTCATCCCT-GTTTGACGTGATGGCTCTGTCCTGG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* * * * *
977385 TCAAACT-TTTGTCATTTTTTGTTTGATGTGAAGGTTCTGCCCTAG
1 TCAAACTCCTT-TCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* *** * * * *
977430 TCAAACTCCTTTTA-TACCCATTTGACTTAATGGTTCTACCCTGG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
* * *
977474 TCAAACTCCTTTTATTTTTCGTTTAACGTGATGGTTCTGCCCTAG
1 TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
977519 TCAAACTCCTTTCAT
1 TCAAACTCCTTTCAT
977534 CCCCGTTTAA
Statistics
Matches: 325, Mismatches: 76, Indels: 23
0.77 0.18 0.05
Matches are distributed among these distances:
42 15 0.05
43 34 0.10
44 124 0.38
45 148 0.46
46 4 0.01
ACGTcount: A:0.18, C:0.23, G:0.16, T:0.43
Consensus pattern (45 bp):
TCAAACTCCTTTCATTTTTCGTTTGACGTGATGGTTCTGCCCTGG
Found at i:977345 original size:89 final size:88
Alignment explanation
Indices: 977096--977535 Score: 381
Period size: 89 Copynumber: 5.0 Consensus size: 88
977086 TTTTTTTTTG
* * * * * *
977096 TTTGACGTAATGGTTCTG-CTGTGGTCAAACTCCTTTCATTTTTTGTTTGACGTGATGGTTTTAC
1 TTTGACGTGATGGTTCTGTC-CTGGTCAAACTCTTTTCATTTTTCGTTTGACGTGATGGTTCTGC
* **
977160 CCTGGTCAAACTCCTTTCATTTTTCA
65 CCTAGTCAAACTCCTTTCA-TCCT-A
** * * ** * ** * *
977186 TTTGAC-AAATGGTT-TGCCCTGGTCAAACCCCCTCCA-TCCTCGTTTAACGTGATGGTTTTGCC
1 TTTGACGTGATGGTTCTGTCCTGGTCAAACTCTTTTCATTTTTCGTTTGACGTGATGGTTCTGCC
* * * *
977248 CTGGTCAAACTCTTTTCATCTTTT
66 CTAGTCAAACTCCTTTCATC-CTA
* * * *
977272 TTTGACGTGATGATTTTGTCCTGGTCAAAATCTTTTCATTTTTCATTTGACGTGATGGTTCTG-C
1 TTTGACGTGATGGTTCTGTCCTGGTCAAACTCTTTTCATTTTTCGTTTGACGTGATGGTTCTGCC
* *
977336 CTTGATCAAACTCCTTTCATCCCTG
66 CTAG-TCAAACTCCTTTCAT-CCTA
* * * *
977361 TTTGACGTGATGGCTCTGTCCTGGTCAAACT-TTTGTCATTTTTTGTTTGATGTGAAGGTTCTGC
1 TTTGACGTGATGGTTCTGTCCTGGTCAAACTCTTT-TCATTTTTCGTTTGACGTGATGGTTCTGC
* *
977425 CCTAGTCAAACTCCTTTTATACCCA
65 CCTAGTCAAACTCCTTTCAT-CCTA
* * ** *
977450 TTTGACTTAATGGTTCTACCCTGGTCAAACTCCTTTT-ATTTTTCGTTTAACGTGATGGTTCTGC
1 TTTGACGTGATGGTTCTGTCCTGGTCAAACT-CTTTTCATTTTTCGTTTGACGTGATGGTTCTGC
977514 CCTAGTCAAACTCCTTTCATCC
65 CCTAGTCAAACTCCTTTCATCC
977536 CCGTTTAACA
Statistics
Matches: 285, Mismatches: 54, Indels: 24
0.79 0.15 0.07
Matches are distributed among these distances:
86 7 0.02
87 45 0.16
88 41 0.14
89 177 0.62
90 12 0.04
91 3 0.01
ACGTcount: A:0.18, C:0.23, G:0.17, T:0.42
Consensus pattern (88 bp):
TTTGACGTGATGGTTCTGTCCTGGTCAAACTCTTTTCATTTTTCGTTTGACGTGATGGTTCTGCC
CTAGTCAAACTCCTTTCATCCTA
Found at i:977561 original size:44 final size:44
Alignment explanation
Indices: 977417--977566 Score: 158
Period size: 44 Copynumber: 3.4 Consensus size: 44
977407 TTGATGTGAA
* * * * *
977417 GGTTCTGCCCTAGTCAAACTCCTTTTATACCCATTTGACTTAAT
1 GGTTCTACCCTAGTCAAACTCCTTTTATACCCGTTTAACATGAT
* *** *
977461 GGTTCTACCCTGGTCAAACTCCTTTTATTTTTCGTTTAACGTGAT
1 GGTTCTACCCTAGTCAAACTCCTTTTA-TACCCGTTTAACATGAT
* * *
977506 GGTTCTGCCCTAGTCAAACTCCTTTCATCCCCGTTTAACATGAT
1 GGTTCTACCCTAGTCAAACTCCTTTTATACCCGTTTAACATGAT
977550 GGTT-TCACCCTAGTCAA
1 GGTTCT-ACCCTAGTCAA
977567 TTTCTTTTAG
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
43 1 0.01
44 52 0.60
45 34 0.39
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (44 bp):
GGTTCTACCCTAGTCAAACTCCTTTTATACCCGTTTAACATGAT
Found at i:979056 original size:148 final size:153
Alignment explanation
Indices: 978708--979081 Score: 472
Period size: 156 Copynumber: 2.5 Consensus size: 153
978698 CATTAGATTA
* * * *
978708 AATTTTTTAAATTTATTAAATATTATTATTTAATTCATAGTAAATCATTTTTCAAAAATTCATTC
1 AATTTTTAAAATTTATAAAATATTATTATTTAATTCATATTAAATTATTTTTCAAAAATTCATTC
* **
978773 ATTTTTCATTTTTTTCTTAAAATTTTACTATTTTTGAAATACAGAATTTTCTACTTCGTAAATGT
66 ATTTTTCATTTTTTCCTTAAAATTCCACTATTTTTGAAATACAGAATTTTCTACTTC-T--ATGT
* **
978838 TTTTGGAAGGTTTTTTCTTGGTTTTT
128 TATCAGAAGGTTTTTTCTTGGTTTTT
* * * *
978864 AATTTCTAAAATTCATAAAATATTATTATTTAATTCATATTAAATTTTTTTTCAAAATTTCATTC
1 AATTTTTAAAATTTATAAAATATTATTATTTAATTCATATTAAATTATTTTTCAAAAATTCATTC
* *
978929 ATTTTTCATTTTTTCCTTAAAATTCCA-TAGTTTTTGAAATACGGAGTTTTCTAC-T-T-TG-TA
66 ATTTTTCATTTTTTCCTTAAAATTCCACTA-TTTTTGAAATACAGAATTTTCTACTTCTATGTTA
978989 TCAG-AGGTTTTTTCTTGGTTTTT
130 TCAGAAGGTTTTTTCTTGGTTTTT
* * * * * *
979012 AATTTTTAAAATTTATCAAATATTATTATTTAATTGATATTAAATTAGTTTTGAAAAATTAATTT
1 AATTTTTAAAATTTATAAAATATTATTATTTAATTCATATTAAATTATTTTTCAAAAATTCATTC
979077 ATTTT
66 ATTTT
979082 CATAAGTTTT
Statistics
Matches: 191, Mismatches: 26, Indels: 10
0.84 0.11 0.04
Matches are distributed among these distances:
148 79 0.41
149 3 0.02
150 2 0.01
153 1 0.01
155 3 0.02
156 103 0.54
ACGTcount: A:0.32, C:0.08, G:0.07, T:0.53
Consensus pattern (153 bp):
AATTTTTAAAATTTATAAAATATTATTATTTAATTCATATTAAATTATTTTTCAAAAATTCATTC
ATTTTTCATTTTTTCCTTAAAATTCCACTATTTTTGAAATACAGAATTTTCTACTTCTATGTTAT
CAGAAGGTTTTTTCTTGGTTTTT
Found at i:980282 original size:21 final size:21
Alignment explanation
Indices: 980253--980292 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
980243 AAATGCAAAC
* *
980253 TTTGGAAAGTTTAGGGATTAG
1 TTTGCAAAGTATAGGGATTAG
*
980274 TTTGCAAAGTATAGTGATT
1 TTTGCAAAGTATAGGGATT
980293 TGTAATTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.03, G:0.28, T:0.40
Consensus pattern (21 bp):
TTTGCAAAGTATAGGGATTAG
Found at i:981292 original size:154 final size:154
Alignment explanation
Indices: 981085--981406 Score: 414
Period size: 154 Copynumber: 2.1 Consensus size: 154
981075 CTCTGGGTTA
*
981085 GCTTTTATGCCGAAGGTGGGTATTTAGGACAGGTCCATTCCATCTATAATCC-TTTTTAAGTCCT
1 GCTTTTATGCCGAAGGTGGGTATTTAGGACAGGTCCATTCCATCCATAATCCTTTTTTAAGTCCT
* * * * *
981149 TTAGGGGTACTAGGCACTTCTAAGTTAAAAGTGTCCCTTAAGGGCATTTTCATAATTTTTTAAAA
66 TTAGGGGTACTAAGCACTTCTAAATCAAAAGTATCCCTTAAAGGCATTTTCATAA-TTTTTAAAA
* * *
981214 CCGAGTCCTAGGTTGTCACC-TGTCT
130 -CGAGCCCTAAGTTGTCACCAAGTCT
* * * * *
981239 GCTTTTATGCTGAAGGTGGGTATTTAGGATAGGTTCATTCCTTCCATATTCCTTTTTTAAGTCCT
1 GCTTTTATGCCGAAGGTGGGTATTTAGGACAGGTCCATTCCATCCATAATCCTTTTTTAAGTCCT
* * * ** * *
981304 TTAGGGGTATTAAGCATTTCTAAATCGAAAGTATCCCTTAAAGGCATTTTTGTAATTTTTCAAAG
66 TTAGGGGTACTAAGCACTTCTAAATCAAAAGTATCCCTTAAAGGCATTTTCATAATTTTTAAAAC
*
981369 GAGCCCTAAGTTGTCACCAAGTTT
131 GAGCCCTAAGTTGTCACCAAGTCT
981393 GCTTTTATGCCGAA
1 GCTTTTATGCCGAA
981407 AGTACATATT
Statistics
Matches: 143, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
153 16 0.11
154 70 0.49
155 57 0.40
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.38
Consensus pattern (154 bp):
GCTTTTATGCCGAAGGTGGGTATTTAGGACAGGTCCATTCCATCCATAATCCTTTTTTAAGTCCT
TTAGGGGTACTAAGCACTTCTAAATCAAAAGTATCCCTTAAAGGCATTTTCATAATTTTTAAAAC
GAGCCCTAAGTTGTCACCAAGTCT
Found at i:984472 original size:13 final size:13
Alignment explanation
Indices: 984454--984491 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
984444 ATAAACCTTT
*
984454 TGTATCGATACAC
1 TGTATCGATACAA
984467 TGTATCGATACAA
1 TGTATCGATACAA
984480 TGTATCGATACA
1 TGTATCGATACA
984492 GAGAATGCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:988739 original size:20 final size:19
Alignment explanation
Indices: 988714--988784 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 19
988704 AGACATAATG
988714 TATCGATACATTGAAGAATA
1 TATCGATACATTGAA-AATA
* *
988734 TATCGATACATTCATACATA
1 TATCGATACATTGA-AAATA
* *
988754 TATCGATATATTGAAAAATG
1 TATCGATACATTG-AAAATA
988774 TATCGATACAT
1 TATCGATACAT
988785 CTGGGTAAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
20 40 0.95
21 2 0.05
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (19 bp):
TATCGATACATTGAAAATA
Found at i:994170 original size:19 final size:20
Alignment explanation
Indices: 994125--994176 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
994115 TTACAAGCCA
*
994125 ATGTATCGATACATTTTGTG
1 ATGTATCGATACATATTGTG
994145 ATGTATCGATACATATTGTG
1 ATGTATCGATACATATTGTG
994165 -TGTATCGATACA
1 ATGTATCGATACA
994177 AATTTAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.39
20 19 0.61
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATATTGTG
Found at i:994235 original size:20 final size:20
Alignment explanation
Indices: 994210--994260 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
994200 CCAATGACCT
**
994210 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
994230 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
994250 GTATCGATACA
1 GTATCGATACA
994261 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:994266 original size:13 final size:13
Alignment explanation
Indices: 994248--994272 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
994238 ACATTTAGTC
994248 ATGTATCGATACA
1 ATGTATCGATACA
994261 ATGTATCGATAC
1 ATGTATCGATAC
994273 TGAGCAATCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:998257 original size:17 final size:17
Alignment explanation
Indices: 998235--998270 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
998225 ATCCAGTTAA
*
998235 ATTTTAGTGCACAGTCG
1 ATTTTAGTACACAGTCG
*
998252 ATTTTAGTACATAGTCG
1 ATTTTAGTACACAGTCG
998269 AT
1 AT
998271 GTGAGATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (17 bp):
ATTTTAGTACACAGTCG
Found at i:1003184 original size:52 final size:52
Alignment explanation
Indices: 1003036--1003164 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1003026 CAAAATATGA
1003036 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
1003088 AAATTTGCCTGCATGTATCGATACATTTTATAGTATATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1003140 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1003165 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1003191 original size:13 final size:13
Alignment explanation
Indices: 1003173--1003197 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003163 CAAAGATCAG
1003173 TGTATCGATACAA
1 TGTATCGATACAA
1003186 TGTATCGATACA
1 TGTATCGATACA
1003198 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1003277 original size:13 final size:13
Alignment explanation
Indices: 1003259--1003283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1003249 ACAAAACTTA
1003259 TGTATCGATACAT
1 TGTATCGATACAT
1003272 TGTATCGATACA
1 TGTATCGATACA
1003284 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1003279 original size:32 final size:33
Alignment explanation
Indices: 1003238--1003303 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
1003228 AGTAGCTTAT
1003238 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
1003270 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
1003303 A
1 A
1003304 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:1004359 original size:49 final size:49
Alignment explanation
Indices: 1004036--1004899 Score: 883
Period size: 49 Copynumber: 17.8 Consensus size: 49
1004026 CTTAGGAATG
* *
1004036 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
1004085 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
1004137 TTAAAGATGACAAAGGTGCAAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
1004189 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * * *
1004232 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGAAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
1004282 TT---G--G-AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
1004325 TTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
1004374 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAT
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
1004417 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * * * * *
1004466 TTAAAGGTGAAAAAAAGGATGTCAATGTACTGATTCAAAGCCAGCTACATTGAAC
1 TTAAAGATG-----AAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
1004521 TTAAAGATAGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
** *
1004573 TTAAAGAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
1004622 TTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGAT--G---AAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* * *
1004677 TTAAAGATGAAAGTGCCAATATGTTGATTCAAGGCCAG-TGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGAC
*
1004726 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
* *
1004769 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
*
1004818 -T-----TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
*
1004861 TTAAAGAT-AGAGGTACCAATATGCTGATTCAAGGCCAGC
1 TTAAAGATGA-AGGTGCCAATATGCTGATTCAAGGCCAGC
1004900 AATATTGGGC
Statistics
Matches: 688, Mismatches: 77, Indels: 100
0.80 0.09 0.12
Matches are distributed among these distances:
43 184 0.27
44 3 0.00
45 2 0.00
46 2 0.00
47 2 0.00
48 6 0.01
49 231 0.34
50 39 0.06
52 127 0.18
53 7 0.01
54 8 0.01
55 76 0.11
56 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGAC
Found at i:1004382 original size:92 final size:93
Alignment explanation
Indices: 1004096--1004899 Score: 722
Period size: 92 Copynumber: 8.3 Consensus size: 93
1004086 TAAAGATGAC
* * * *
1004096 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCAAATA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG---AAGGTGCCAATA
*
1004161 TGCTGATTCAAGGCCAGCGATATTGGACTT-
63 TGCTGATTCAAGGCCAGCGACATTGGACTTA
* * * * *
1004191 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAGATGAGGGTGCCAATATG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT-AAAGATGAAGGTGCCAATATG
* *
1004256 CTGATTCAAGGCCAGCGATATTGAACTT-
65 CTGATTCAAGGCCAGCGACATTGGACTTA
** * * *
1004284 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGATGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1004349 TGATTCAAGGCCAGCGATATTGGACTT-
66 TGATTCAAGGCCAGCGACATTGGACTTA
* *
1004376 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1004441 TGATTCAAGGCCAGCGATATTAGACTTAAAGGTGAAAA
66 TGATTCAAGGCCAGCGACATTGGAC-T-----T----A
* * * * *
1004479 AAAGGATGTCAATGTACTGATTCAAAGCCAGCTACATTGAACTTAAAGATAGAAAAGGTGCCAAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAAT
*
1004544 ATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAA
62 ATGCTGATTCAAGGCCAGCGACATTGGACTT-----A
* *
1004581 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--G---AAGG-TGCCA
* *
1004646 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
60 ATATGCTGATTCAAGGCCAGCGACATTGGACTTA
* *
1004680 AAGATGAAAGTGCCAATATGTTGATTCAAGGCCAG-TGATATTGGACTT----A--AAGGTGCCA
1 AA-A-G---GTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATGAAGGTGCCA
* *
1004738 ATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
60 ATATGCTGATTCAAGGCCAGCGACATTGGACTT--A
* * *
1004774 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TGAAGGTGCCAATG
1 -A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATA
*
1004833 TGCTGATTCAAGGCCAGCTACATTGGACTTAAA
63 TGCTGATTCAAGGCCAGCGACATTGGACTT--A
*
1004866 GATAGAGGTACCAATATGCTGATTCAAGGCCAGC
1 -A-A-AGGTGCCAATATGCTGATTCAAGGCCAGC
1004900 AATATTGGGC
Statistics
Matches: 628, Mismatches: 46, Indels: 73
0.84 0.06 0.10
Matches are distributed among these distances:
91 2 0.00
92 277 0.44
93 81 0.13
94 1 0.00
95 40 0.06
96 8 0.01
97 1 0.00
98 1 0.00
99 3 0.00
100 2 0.00
101 40 0.06
102 10 0.02
103 12 0.02
104 111 0.18
105 1 0.00
106 1 0.00
107 37 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (93 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGACATTGGACTTA
Found at i:1004623 original size:156 final size:153
Alignment explanation
Indices: 1004376--1004912 Score: 682
Period size: 156 Copynumber: 3.6 Consensus size: 153
1004366 TATTGGACTT
* * *
1004376 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* * * * *
1004441 TGATTCAAGGCCAGCGATATTAGACTTAAAGGTGAAAAAAAGGATGTCAATGTACTGATTCAAAG
66 TGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AAAAAAGGATGTCAATGTGCTGATTCAAGG
*
1004506 CCAGCTACATTGAACTTAAAGATAG
130 CCAGCTACATTGGACTTAAAGAT-G
*
1004531 AAAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGGTGCCAATATG
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
1004596 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAG
65 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGA-AAAAAGGATGTCAATGTGCTGATTCAAG
1004661 GCCAGCTACATTGGACTTAAAGATG
129 GCCAGCTACATTGGACTTAAAGATG
* * *
1004686 AAA-GTGCCAATATGTTGATTCAAGGCCAG-TGATATTGGAC-T-----TAAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ACATTGGACTTAAAGATAAAGGTGCCAATATG
* * *
1004743 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATG----AAGG-TGCCAATATGCTGATTCAAGG
65 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAAAAAGGATGTCAATGTGCTGATTCAAGG
* *
1004803 CCAGCGATATTGGAC-T-----TG
130 CCAGCTACATTGGACTTAAAGATG
* * *
1004821 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTACCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
* *
1004885 TGATTCAAGGCCAGCAATATTGGGCTTA
66 TGATTCAAGGCCAGCTATATTGGACTTA
1004913 GAAGGGTTGC
Statistics
Matches: 343, Mismatches: 28, Indels: 35
0.84 0.07 0.09
Matches are distributed among these distances:
134 2 0.01
135 34 0.10
136 2 0.01
140 1 0.00
141 71 0.21
142 4 0.01
147 48 0.14
152 2 0.01
153 33 0.10
154 3 0.01
155 2 0.01
156 141 0.41
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (153 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAAAAAGGATGTCAATGTGCTGATTCAAGGC
CAGCTACATTGGACTTAAAGATG
Found at i:1004747 original size:444 final size:435
Alignment explanation
Indices: 1004052--1004905 Score: 1304
Period size: 444 Copynumber: 1.9 Consensus size: 435
1004042 ATGAAGGTGC
* * *
1004052 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATT
1 CAATGTACTGATTCAAAGCCAGCGACATTGAACTTAAAGATGACAAAGGCGCCAATATGCTGATT
*
1004117 CAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGTGCAAATATGCTGATTCAAGGCCAGCGAT
66 CAAGGCCAGCGACATTGGACTTAAAGA-GACAAAGGTGCAAATATGCTGATTCAAGGCCAGCGAT
* **
1004182 ATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAAGATGAGGGT
130 ATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAGATGAAAGT
**
1004247 GCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTGGAGGTGCCAATGTGCTGATTCAAGGCC
195 GCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGGTGCCAATGTGCTGATTCAAGGCC
*
1004312 AGCTACATTAGACTTAAAGATGATGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
260 AGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
* *
1004377 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGATTTAAAGAT-GAAGGTGCCAATATGC
325 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAG-AGGTACCAATATGC
*
1004441 TGATTCAAGGCCAGCGATATTAGACTTAAAGGTGAAAAAAAGGATGT
389 TGATTCAAGGCCAGCAATATTAGACTTAAAGGTGAAAAAAAGGATGT
* *
1004488 CAATGTACTGATTCAAAGCCAGCTACATTGAACTTAAAGATAGA-AAAGGTGCCAATATGCTGAT
1 CAATGTACTGATTCAAAGCCAGCGACATTGAACTTAAAGAT-GACAAAGGCGCCAATATGCTGAT
* * *
1004552 TCAAGGCCAGCTACATTGGACTTAAAGA-A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCTAT
65 TCAAGGCCAGCGACATTGGACTTAAAGAGACAAAGGTGCAAATATGCTGATTCAAGGCCAGCGAT
* * *
1004615 ATTGGACTTAAAGATGAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT-
130 ATTGGAC-T-----T-----AAAGG-TGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTA
* * *
1004679 AAAGATGAAAGTGCCAATATGTTGATTCAAGGCCAGTGATATTGGACTTAAAGGTGCCAATGTGC
183 AAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGGTGCCAATGTGC
*
1004744 TGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
248 TGATTCAAGGCCAGCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCG
*
1004809 ATATTGGACTTGAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGG
313 ATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGG
1004874 TACCAATATGCTGATTCAAGGCCAGCAATATT
378 TACCAATATGCTGATTCAAGGCCAGCAATATT
1004906 GGGCTTAGAA
Statistics
Matches: 378, Mismatches: 26, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
433 39 0.10
434 2 0.01
436 82 0.22
437 2 0.01
439 1 0.00
444 217 0.57
445 35 0.09
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (435 bp):
CAATGTACTGATTCAAAGCCAGCGACATTGAACTTAAAGATGACAAAGGCGCCAATATGCTGATT
CAAGGCCAGCGACATTGGACTTAAAGAGACAAAGGTGCAAATATGCTGATTCAAGGCCAGCGATA
TTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAAGATGAAAGTG
CCAATATGCTGATTCAAGGCCAGCGATATTGAACTTAAAGGTGCCAATGTGCTGATTCAAGGCCA
GCTACATTAGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
AGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAGAGGTACCAATATGCTG
ATTCAAGGCCAGCAATATTAGACTTAAAGGTGAAAAAAAGGATGT
Found at i:1005002 original size:32 final size:33
Alignment explanation
Indices: 1004912--1005048 Score: 208
Period size: 32 Copynumber: 4.2 Consensus size: 33
1004902 TATTGGGCTT
1004912 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* * *
1004945 AGAATGGTTTCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1004978 AG-AGGGTTGCCACTGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1005009 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTA-
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1005041 AAAAGGGT
1 AGAAGGGT
1005049 GAAAGATGCC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
31 3 0.03
32 58 0.62
33 32 0.34
ACGTcount: A:0.20, C:0.17, G:0.34, T:0.29
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1005159 original size:31 final size:31
Alignment explanation
Indices: 1005123--1005443 Score: 121
Period size: 31 Copynumber: 10.0 Consensus size: 31
1005113 GGGAAAAAGA
* * * *
1005123 GTGCCATAGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACAGAGTCGCGGACTTTGAAAAGAAG
* *
1005154 GTGCCACGGAGTCGCGGACTTTGAAAGGAAG
1 GTGCCACAGAGTCGCGGACTTTGAAAAGAAG
* ** ** *
1005185 GTGCCACGGAGTCATGGACTTAAAAGGAATAAG
1 GTGCCACAGAGTCGCGGACTTTGAA--AAGAAG
* * *
1005218 GTGCCAC-GGGATTGTGGACTTT-AAAAGGGAAAAAG
1 GTGCCACAGAG-TCGCGGACTTTGAAAA--G---AAG
* * * * * *
1005253 AGTGCCACGGAGTTGTGGGCTTTGAAAAAAAT
1 -GTGCCACAGAGTCGCGGACTTTGAAAAGAAG
* ** ** *
1005285 GTGCCACGGAGTCATGGACTTAAAAGGAACAAG
1 GTGCCACAGAGTCGCGGACTTTGAA--AAGAAG
* * * *
1005318 GTGCCACGGAGTTGTGGACTTT-AAAAGGGAAAAATA
1 GTGCCACAGAGTCGCGGACTTTGAAAA--G---AA-G
* * * *
1005354 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACAGAGTCGCGGACTTTGAAAAGAAG
*
1005385 GTGCCACAGAGTCGCGGACTTTGAAAGGAAG
1 GTGCCACAGAGTCGCGGACTTTGAAAAGAAG
*
1005416 GTGCCACAGAGTCGTGGAC-TT-AAAAGAA
1 GTGCCACAGAGTCGCGGACTTTGAAAAGAA
1005444 ACAAAGTGTG
Statistics
Matches: 228, Mismatches: 42, Indels: 42
0.73 0.13 0.13
Matches are distributed among these distances:
29 6 0.03
30 6 0.03
31 110 0.48
32 10 0.04
33 42 0.18
35 6 0.03
36 38 0.17
37 10 0.04
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (31 bp):
GTGCCACAGAGTCGCGGACTTTGAAAAGAAG
Found at i:1005204 original size:131 final size:134
Alignment explanation
Indices: 1005063--1005575 Score: 508
Period size: 131 Copynumber: 3.9 Consensus size: 134
1005053 GATGCCACAA
*
1005063 AGTTGTGGAC-TTAAAA-GGAACAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGT
1 AGTTGTGGACTTTAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGT
* *
1005125 GCCATAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCC
66 GCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGGAAGGTGCC
1005190 ACGG
131 ACGG
** * *
1005194 AGTCATGGAC-TTAAAA-GGAATAAGGTGCCACGG-GATTGTGGACTTT-AAAAGGGAAAAAGAG
1 AGTTGTGGACTTTAAAAGGGAAAAAGGTGCCACGGAG-TTGTGGGCTTTGAAAAGGGAAAAAGAG
* * * * *
1005255 TGCCACGGAGTTGTGGGCTTTGAAAAAAATGTGCCACGGAGTCATGGAC-TTAAAAGGAACAAGG
65 TGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGG---AAGG
1005319 TGCCACGG
127 TGCCACGG
*
1005327 AGTTGTGGACTTTAAAAGGGAAAAATAGTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-G
1 AGTTGTGGACTTTAAAAGGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
* * * * * * **
1005386 TGCCACAGAGTCGCGGACTTTGAAAGGAAGGTGCCACAGAGTCGTGGACTTAAAAGAAACAAAGT
65 TGCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTT---TGAAAGGAAG-
*
1005451 GTGCCATGG
126 GTGCCACGG
* *
1005460 AGTTGTGGGCTTTAAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAAAA--G---AAG-G
1 AGTTGTGGACTTTAAAAGGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
* * * * *
1005519 TGCCACGGAGTTGTGGACTTTGAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTGA
65 TGCCACAGAGTTGTGGGCTTTG-AA--AAGAAGGTGCCACGGAGTCGTGGACTTTGA
1005576 TGCCACTGAG
Statistics
Matches: 322, Mismatches: 42, Indels: 34
0.81 0.11 0.09
Matches are distributed among these distances:
130 8 0.02
131 139 0.43
132 7 0.02
133 104 0.32
134 8 0.02
135 10 0.03
136 41 0.13
137 5 0.02
ACGTcount: A:0.32, C:0.14, G:0.34, T:0.21
Consensus pattern (134 bp):
AGTTGTGGACTTTAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGT
GCCACAGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTTTGAAAGGAAGGTGCC
ACGG
Found at i:1005258 original size:100 final size:100
Alignment explanation
Indices: 1005154--1005575 Score: 434
Period size: 100 Copynumber: 4.2 Consensus size: 100
1005144 TGAAAAGAAG
* * * * *
1005154 GTGCCACGGAGTCGCGGACTTTGAAAGGAAGGTGCCACGGAGTCATGGACTTAAAAGGAATAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGG
1005219 TGCCACGG-GATTGTGGACTTTAAAAGGGAAAAAGA
66 TGCCACGGAG-TTGTGGACTTTAAAAGGGAAAAAGA
* *
1005254 GTGCCACGGAGTTGTGGGCTTTGAAAAAAATGTGCCACGGAGTCATGGACTTAAAAGGAACAAGG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGG
*
1005319 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAATA
66 TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
* ** *
1005354 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTCGCGGACTTTGAAAGG---AAG
1 GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCATGGAC-TTAAAAGGAACAAG
* * * *
1005416 GTGCCACAGAGTCGTGGAC-TTAAAA-GAAACAAAGT
65 GTGCCACGGAGTTGTGGACTTTAAAAGGGAA-AAAGA
* * ** * **
1005451 GTGCCATGGAGTTGTGGGCTTT-AAAAGGGAAAAAGAGTGCCACTGAGTTGTGGGCTTTGAA--A
1 GTGCCACGGAGTTGTGGGCTTTGAAAA--G---AAG-GTGCCACGGAGTCATGGACTTAAAAGGA
* * *
1005513 AGAAGGTGCCACGGAGTTGTGGACTTTGAAA-GGAACAAG-
60 ACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
* *
1005552 GTGCCACGGGGTTGTGGACTTTGA
1 GTGCCACGGAGTTGTGGGCTTTGA
1005576 TGCCACTGAG
Statistics
Matches: 274, Mismatches: 34, Indels: 26
0.82 0.10 0.08
Matches are distributed among these distances:
96 7 0.03
97 30 0.11
98 21 0.08
100 135 0.49
101 34 0.12
102 39 0.14
103 8 0.03
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (100 bp):
GTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCATGGACTTAAAAGGAACAAGG
TGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGA
Found at i:1005523 original size:31 final size:31
Alignment explanation
Indices: 1005487--1006096 Score: 219
Period size: 31 Copynumber: 19.7 Consensus size: 31
1005477 GGGAAAAAGA
* *
1005487 GTGCCACTGAGTTGTGGGCTTTGAAAAGAAG
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* * *
1005518 GTGCCACGGAGTTGTGGACTTTGAAAGGAACAAG
1 GTGCCACTGAGTCGTGGACTTTG-AA--AAGAAG
* * *
1005552 GTGCCACGGGGTTGTGGACTTT-----G-A-
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
*
1005576 -TGCCACTGAGTCGTGGACTTTGAAAAGAAA
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* *
1005606 ATGCCACTGAGTCGTGGACTTTGGAAAG-AG
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* * * * ** * *
1005636 ATGCCACTGAATTGTGGACTTTTAGGACAAA
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* * *
1005667 ATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAG
1 GTGCCACTGAGTCGTGGACTTT--GAA-AAGAAG
* * *
1005701 GTGCCACGGAGTCATGGACTTTAGGACAA-AA-
1 GTGCCACTGAGTCGTGGACTTT--GAAAAGAAG
* * *
1005732 -TGCCACTGAATCGTGGGCTTTGAGAAG-AG
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* *
1005761 ATTGCCACTGAGTCGTGGACTTT-AAGAAGGAG
1 -GTGCCACTGAGTCGTGGACTTTGAA-AAGAAG
* * ** * * *
1005793 ATGCCACTGAATTATGGACTTT-AAGACAAA
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* * * *
1005823 ATGCCACTGAGTCATGGGCTTTGAGAAG-AG
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* * *
1005853 ATTGCCACTAAGTCGTGGACTTT-AAGAAGGAG
1 -GTGCCACTGAGTCGTGGACTTTGAA-AAGAAG
* * *
1005885 ATGCCACTGAATTGTGGACTTTAGGAAAA-AA-
1 GTGCCACTGAGTCGTGGACTTT--GAAAAGAAG
* * *
1005916 ATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAG
1 GTGCCACTGAGTCGTGGACTTT--GAA-AAGAAG
* * * *
1005950 GTACCACGGAGTCATGGACTTTAGGACAA-AA-
1 GTGCCACTGAGTCGTGGACTTT--GAAAAGAAG
* ** *
1005981 -TGCCACTGAATCGTGGGTTTTGAGAAAAAAAAG
1 GTGCCACTGAGTCGTGGACTTT--G-AAAAGAAG
* *
1006014 GTGCCACGGAGTCGTGGACTTTAGGATAA-AA-
1 GTGCCACTGAGTCGTGGACTTT--GAAAAGAAG
* * * *
1006045 -TGCCACTGATTCATGGGCTTTGAGAAG-AG
1 GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
* *
1006074 ATTGCCATTGAGTCGTGGACTTT
1 -GTGCCACTGAGTCGTGGACTTT
1006097 AAGAAGGTAT
Statistics
Matches: 436, Mismatches: 104, Indels: 78
0.71 0.17 0.13
Matches are distributed among these distances:
23 18 0.04
25 1 0.00
28 11 0.03
29 1 0.00
30 96 0.22
31 192 0.44
32 17 0.04
33 12 0.03
34 88 0.20
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (31 bp):
GTGCCACTGAGTCGTGGACTTTGAAAAGAAG
Found at i:1005653 original size:61 final size:62
Alignment explanation
Indices: 1005574--1006096 Score: 314
Period size: 61 Copynumber: 8.4 Consensus size: 62
1005564 TGTGGACTTT
1005574 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTT-GGAAAGA
1 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGGAAAGA
* * * ** * * *
1005635 GATGCCACTGAATTGTGGACTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAA
1 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTT-AG--GAAAGA
* * * ** * * *
1005700 GGTGCCACGGAGTCATGGACTTT-AGGACAAAATGCCACTGAATCGTGGGCTTT--GAGAAGA
1 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGGA-AAGA
* * * ** *
1005760 GATTGCCACTGAGTCGTGGACTTT-AAGAAGGAGATGCCACTGAATTATGGACTTTAAGACAA-A
1 GA-TGCCACTGAGTCGTGGACTTTGAA-AAGAAAATGCCACTGAGTCGTGGACTTTAGGA-AAGA
* * * * * * * *
1005823 -ATGCCACTGAGTCATGGGCTTTGAGAAGAGATTGCCACTAAGTCGTGGACTTTAAGAAGGA
1 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGGAAAGA
* * * * *
1005884 GATGCCACTGAATTGTGGACTTTAGGAAA-AAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAA
1 GATGCCACTGAGTCGTGGACTTT-GAAAAGAAAATGCCACTGAGTCGTGGACTTT-AG--GAAAG
1005948 A
62 A
* * * * ** * * ** * *
1005949 GGTACCACGGAGTCATGGACTTT-AGGACAAAATGCCACTGAATCGTGGGTTTTGAGAAAAAAAA
1 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTT-AG--GAAAGA
* * ** * * * *
1006013 GGTGCCACGGAGTCGTGGACTTT-AGGATAAAATGCCACTGATTCATGGGCTTT--GAGAAGA
1 GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGGA-AAGA
*
1006073 GATTGCCATTGAGTCGTGGACTTT
1 GA-TGCCACTGAGTCGTGGACTTT
1006097 AAGAAGGTAT
Statistics
Matches: 368, Mismatches: 75, Indels: 38
0.77 0.16 0.08
Matches are distributed among these distances:
59 3 0.01
60 9 0.02
61 130 0.35
62 62 0.17
63 7 0.02
64 113 0.31
65 44 0.12
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (62 bp):
GATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTTAGGAAAGA
Found at i:1005696 original size:92 final size:91
Alignment explanation
Indices: 1005575--1006097 Score: 431
Period size: 92 Copynumber: 5.6 Consensus size: 91
1005565 GTGGACTTTG
* *
1005575 ATGCCACTGAGTCGTGGACTTTGAAAAGAAAATGCCACTGAGTCGTGGACTTT-GGAAAGAGATG
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCCACTGAATCGTGGACTTTAGGAAA-A-ATG
* * * * *
1005639 CCACTGAATTGTGGACTTTTAGGACAAA
64 CCACTGAGTCGTGGGCTTTGAGGAGAAA
* * * *
1005667 ATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCATGGACTTTAGGACAAAA
1 ATGCCACTGAGTCGTGGACTTTGAGAAG-AAAA--TGCCACTGAATCGTGGACTTTAGGA-AAAA
* * *
1005732 TGCCACTGAATCGTGGGCTTTGAGAAGAGA
62 TGCCACTGAGTCGTGGGCTTTGAGGAGAAA
* * * * ** *
1005762 TTGCCACTGAGTCGTGGACTTTAAGAAGGAGATGCCACTGAATTATGGACTTTAAGACAAAATGC
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCCACTGAATCGTGGACTTTAGGA-AAAATGC
* * *
1005827 CACTGAGTCATGGGCTTTGAGAAGAGA
65 CACTGAGTCGTGGGCTTTGAGGAGAAA
* * * * * *
1005854 TTGCCACTAAGTCGTGGACTTTAAGAAGGAGATGCCACTGAATTGTGGACTTTAGGAAAAAAATG
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCCACTGAATCGTGGACTTTAGG--AAAAATG
*
1005919 CCACTGAGTCGTGGGCTTTGAGAAGAAAA
64 CCACTGAGTCGTGGGCTTTGAGGAG-AAA
* * * * * ** *
1005948 AGGTACCACGGAGTCATGGACTTT-AGGACAAAATGCCACTGAATCGTGGGTTTTGAGAAAAAAA
1 A--TGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCCACTGAATCGTGGACTTT-AG--GAAAA
* * *
1006012 AGGTGCCACGGAGTCGTGGACTTT-AGGATAAA
61 A--TGCCACTGAGTCGTGGGCTTTGAGGAGAAA
* * * * * * *
1006044 ATGCCACTGATTCATGGGCTTTGAGAAGAGATTGCCATTGAGTCGTGGACTTTA
1 ATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCCACTGAATCGTGGACTTTA
1006098 AGAAGGTATT
Statistics
Matches: 360, Mismatches: 55, Indels: 30
0.81 0.12 0.07
Matches are distributed among these distances:
92 133 0.37
93 34 0.09
94 23 0.06
95 114 0.32
96 32 0.09
97 5 0.01
98 19 0.05
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (91 bp):
ATGCCACTGAGTCGTGGACTTTGAGAAGAAAATGCCACTGAATCGTGGACTTTAGGAAAAATGCC
ACTGAGTCGTGGGCTTTGAGGAGAAA
Found at i:1005746 original size:64 final size:64
Alignment explanation
Indices: 1005650--1006072 Score: 395
Period size: 64 Copynumber: 6.7 Consensus size: 64
1005640 CACTGAATTG
*
1005650 TGGACTTTTAGGACAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCA
1 TGGAC-TTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCA
* * * *
1005715 TGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAG--AGA-TTGCCACTGAGTCG
1 TGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCA
* * ** * *
1005776 TGGACTTTAAGA-AGGAGATGCCACTGAATTATGGACTTT---AAGACAAAA--TGCCACTGAGT
1 TGGACTTTAGGACA--AAATGCCACTGAATCGTGGGCTTTGAGAAGA-AAAAGGTGCCACGGAGT
1005835 CA
63 CA
* * * * * * ** * * * *
1005837 TGGGCTTTGAGAAGAGATTGCCACT-AAGTCGTGGACTTT---AAGAAGGAGATGCCACTGAATT
1 TGGACTTT-AGGACAAAATGCCACTGAA-TCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTC
*
1005898 G
64 A
* * *
1005899 TGGACTTTAGGAAAAAAATGCCACTGAGTCGTGGGCTTTGAGAAGAAAAAGGTACCACGGAGTCA
1 TGGACTTTAGG-ACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCA
* * *
1005964 TGGACTTTAGGACAAAATGCCACTGAATCGTGGGTTTTGAGAAAAAAAAGGTGCCACGGAGTCG
1 TGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCA
* * *
1006028 TGGACTTTAGGATAAAATGCCACTGATTCATGGGCTTTGAGAAGA
1 TGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGA
1006073 GATTGCCATT
Statistics
Matches: 292, Mismatches: 51, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
59 3 0.01
60 5 0.02
61 63 0.22
62 63 0.22
63 2 0.01
64 125 0.43
65 31 0.11
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (64 bp):
TGGACTTTAGGACAAAATGCCACTGAATCGTGGGCTTTGAGAAGAAAAAGGTGCCACGGAGTCA
Found at i:1006102 original size:31 final size:30
Alignment explanation
Indices: 1005575--1006102 Score: 341
Period size: 31 Copynumber: 16.9 Consensus size: 30
1005565 GTGGACTTTG
1005575 ATGCCACTGAGTCGTGGACTTTGAA-AAGAAA
1 ATGCCACTGAGTCGTGGACTTT-AAGAAG-AA
* *
1005606 ATGCCACTGAGTCGTGGACTTT-GGAAAGAG
1 ATGCCACTGAGTCGTGGACTTTAAG-AAGAA
* * *
1005636 ATGCCACTGAATTGTGGACTTTTAGGACA-AA
1 ATGCCACTGAGTCGTGGAC-TTTAAGA-AGAA
* *
1005667 ATGCCACTGAGTCGTGGGCTTTGAGAAGAAAA
1 ATGCCACTGAGTCGTGGACTTTAAGAAG--AA
* * *
1005699 AGGTGCCACGGAGTCATGGACTTTAGGACA-AA
1 A--TGCCACTGAGTCGTGGACTTTAAGA-AGAA
* * *
1005731 ATGCCACTGAATCGTGGGCTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTAAGAAGA-A
* *
1005762 TTGCCACTGAGTCGTGGACTTTAAGAAGGAG
1 ATGCCACTGAGTCGTGGACTTTAAGAA-GAA
* **
1005793 ATGCCACTGAATTATGGACTTTAAGACA-AA
1 ATGCCACTGAGTCGTGGACTTTAAGA-AGAA
* * *
1005823 ATGCCACTGAGTCATGGGCTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTAAGAAGA-A
* * *
1005854 TTGCCACTAAGTCGTGGACTTTAAGAAGGAG
1 ATGCCACTGAGTCGTGGACTTTAAGAA-GAA
* * * *
1005885 ATGCCACTGAATTGTGGACTTTAGGAAAAAA
1 ATGCCACTGAGTCGTGGACTTTAAG-AAGAA
* *
1005916 ATGCCACTGAGTCGTGGGCTTTGAGAAGAAAA
1 ATGCCACTGAGTCGTGGACTTTAAGAAG--AA
* * * *
1005948 AGGTACCACGGAGTCATGGACTTTAGGACA-AA
1 A--TGCCACTGAGTCGTGGACTTTAAGA-AGAA
* ** * *
1005980 ATGCCACTGAATCGTGGGTTTTGAGAAAAAAA
1 ATGCCACTGAGTCGTGGACTTT-A-AGAAGAA
* *
1006012 AGGTGCCACGGAGTCGTGGACTTTAGGATA-AA
1 A--TGCCACTGAGTCGTGGACTTTAAGA-AGAA
* * * *
1006044 ATGCCACTGATTCATGGGCTTTGAGAAGAGA
1 ATGCCACTGAGTCGTGGACTTTAAGAAGA-A
* *
1006075 TTGCCATTGAGTCGTGGACTTTAAGAAG
1 ATGCCACTGAGTCGTGGACTTTAAGAAG
1006103 GTATTTGAAG
Statistics
Matches: 379, Mismatches: 86, Indels: 64
0.72 0.16 0.12
Matches are distributed among these distances:
29 4 0.01
30 104 0.27
31 181 0.48
32 30 0.08
33 2 0.01
34 56 0.15
35 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (30 bp):
ATGCCACTGAGTCGTGGACTTTAAGAAGAA
Found at i:1007097 original size:16 final size:15
Alignment explanation
Indices: 1007056--1007110 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
1007046 CCTTTCTTCT
* *
1007056 TTTTTTGTTTGTTTG
1 TTTTTTGTTTTTTTC
*
1007071 TTTCTTCGTTTTTTTCC
1 TTT-TTTGTTTTTTT-C
1007088 TTTTTTGTTTTGTTTC
1 TTTTTTGTTTT-TTTC
1007104 TTTTTTG
1 TTTTTTG
1007111 GAAAAGAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
15 3 0.09
16 24 0.73
17 6 0.18
ACGTcount: A:0.00, C:0.09, G:0.13, T:0.78
Consensus pattern (15 bp):
TTTTTTGTTTTTTTC
Found at i:1014346 original size:13 final size:13
Alignment explanation
Indices: 1014328--1014352 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1014318 CAAAGATCAG
1014328 TGTATCGATACAA
1 TGTATCGATACAA
1014341 TGTATCGATACA
1 TGTATCGATACA
1014353 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1014419 original size:19 final size:18
Alignment explanation
Indices: 1014395--1014492 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
1014385 TAGCTTATAT
1014395 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1014414 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1014427 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1014446 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1014459 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1014479 TGTATCGATACAAA
1 TGTATCGATACAAA
1014493 TCATTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1014432 original size:13 final size:13
Alignment explanation
Indices: 1014414--1014470 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1014404 ACAAAACTTA
1014414 TGTATCGATACAT
1 TGTATCGATACAT
1014427 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
1014445 ATGTATCGATACAT
1 -TGTATCGATACAT
1014459 TGTATCGATACA
1 TGTATCGATACA
1014471 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1014434 original size:32 final size:32
Alignment explanation
Indices: 1014393--1014490 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
1014383 AGTAGCTTAT
*
1014393 ATTGTATCGATACAAAACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
1014425 ATTGTATCGATACAACACTTATGTATCGATAC
1 ATTGTATCGATACAACACTTATGTATCGATAC
1014457 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAACAC-TTATGTATCGATAC
1014490 A
1 A
1014491 AATCATTGAA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
ATTGTATCGATACAACACTTATGTATCGATAC
Found at i:1015674 original size:43 final size:43
Alignment explanation
Indices: 1015590--1015674 Score: 100
Period size: 43 Copynumber: 2.0 Consensus size: 43
1015580 TATCTAATTA
* * * *
1015590 TTGACTTTTTATGAAAAATTATTTATTCTAAGAGCTTTGATTC
1 TTGACTCTTCATGAAAAACTATTTATTCTAAGAGCTATGATTC
* *
1015633 TTGACTCTTCATGAAAGACTATTTATTTTAAGAG-TGATGATT
1 TTGACTCTTCATGAAAAACTATTTATTCTAAGAGCT-ATGATT
1015675 TTTCATCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (43 bp):
TTGACTCTTCATGAAAAACTATTTATTCTAAGAGCTATGATTC
Found at i:1017476 original size:26 final size:26
Alignment explanation
Indices: 1017439--1017488 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
1017429 ATGAAGATAA
*
1017439 GATTGATGAAGTACAACTTTATTTAG
1 GATTGATAAAGTACAACTTTATTTAG
*
1017465 GATTGATAAAGTTCAACTTTATTT
1 GATTGATAAAGTACAACTTTATTT
1017489 GGAATTCTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.34, C:0.08, G:0.16, T:0.42
Consensus pattern (26 bp):
GATTGATAAAGTACAACTTTATTTAG
Found at i:1019163 original size:31 final size:31
Alignment explanation
Indices: 1019125--1019183 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1019115 AGGTTTGCAA
* *
1019125 TATTGAGTAAACAAGGATTGTTATGTGGCAG
1 TATTGAGTAAACAAGGATTATTAGGTGGCAG
1019156 TATTGAGTAAACAAGGATTATTAGGTGG
1 TATTGAGTAAACAAGGATTATTAGGTGG
1019184 AGCTGAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.32
Consensus pattern (31 bp):
TATTGAGTAAACAAGGATTATTAGGTGGCAG
Found at i:1020392 original size:13 final size:13
Alignment explanation
Indices: 1020374--1020398 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1020364 ATAATGCACA
1020374 GTATCGATACATT
1 GTATCGATACATT
1020387 GTATCGATACAT
1 GTATCGATACAT
1020399 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1020411 original size:20 final size:21
Alignment explanation
Indices: 1020386--1020438 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
1020376 ATCGATACAT
*
1020386 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
1020406 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
1020427 TGTATCGATACA
1 TGTATCGATACA
1020439 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:1020506 original size:13 final size:13
Alignment explanation
Indices: 1020488--1020513 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1020478 ACATACAAGA
1020488 TGTATCGATACAT
1 TGTATCGATACAT
1020501 TGTATCGATACAT
1 TGTATCGATACAT
1020514 GACCAAATGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1020534 original size:33 final size:32
Alignment explanation
Indices: 1020468--1020535 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 32
1020458 CCTTAACTGT
1020468 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
*
1020500 TTGTATCGATACATGACCAA-ATGTTTCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1020533 TTG
1 TTG
1020536 GCTTGTAACA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 14 0.42
33 16 0.48
34 3 0.09
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1026473 original size:8 final size:8
Alignment explanation
Indices: 1026460--1026490 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
1026450 ATTTGATTAA
1026460 ATTTTGTG
1 ATTTTGTG
1026468 ATTTTGTG
1 ATTTTGTG
1026476 ATTTTGTG
1 ATTTTGTG
1026484 ATGTTTG
1 AT-TTTG
1026491 ATGTTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.82
9 4 0.18
ACGTcount: A:0.13, C:0.00, G:0.26, T:0.61
Consensus pattern (8 bp):
ATTTTGTG
Found at i:1029128 original size:20 final size:19
Alignment explanation
Indices: 1029098--1029135 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1029088 AAAAGTCAAA
1029098 ACCTTAAATGTATCGATAT
1 ACCTTAAATGTATCGATAT
1029117 ACCTTCAAATGTATCGATA
1 ACCTT-AAATGTATCGATA
1029136 CATAATGCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (19 bp):
ACCTTAAATGTATCGATAT
Found at i:1029165 original size:13 final size:13
Alignment explanation
Indices: 1029147--1029171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1029137 ATAATGCACA
1029147 GTATCGATACATT
1 GTATCGATACATT
1029160 GTATCGATACAT
1 GTATCGATACAT
1029172 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1029168 original size:33 final size:33
Alignment explanation
Indices: 1029126--1029193 Score: 93
Period size: 33 Copynumber: 2.1 Consensus size: 33
1029116 TACCTTCAAA
* *
1029126 TGTATCGATACATAATGCACA-GTATCGATACAT
1 TGTATCGATACATAA-CCAAATGTATCGATACAT
*
1029159 TGTATCGATACATGACCAAATGTATCGATACAT
1 TGTATCGATACATAACCAAATGTATCGATACAT
1029192 TG
1 TG
1029194 GCTTGTAACA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATAACCAAATGTATCGATACAT
Found at i:1034553 original size:51 final size:51
Alignment explanation
Indices: 1034466--1034564 Score: 146
Period size: 51 Copynumber: 1.9 Consensus size: 51
1034456 TGGCTACGTC
* **
1034466 CAAATATATATTGCATGCATATATTAAATTAAAATATTTTAAATAAATGTT
1 CAAATATATATTACATGCATATACCAAATTAAAATATTTTAAATAAATGTT
*
1034517 CAAATATATATTACATGCATATACCAAA-TACGAATATTTTAAATAAAT
1 CAAATATATATTACATGCATATACCAAATTA-AAATATTTTAAATAAAT
1034565 AAAAATTTCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.37
Consensus pattern (51 bp):
CAAATATATATTACATGCATATACCAAATTAAAATATTTTAAATAAATGTT
Found at i:1041822 original size:19 final size:18
Alignment explanation
Indices: 1041798--1041858 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
1041788 ACCGTAAATT
1041798 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
1041817 TATCGAT--ATAA---TG
1 TATCGATACATAAGTTTG
1041830 TATCGATACATAAGTTTTG
1 TATCGATACATAAG-TTTG
1041849 TATCGATACA
1 TATCGATACA
1041859 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.25
15 4 0.11
17 4 0.11
19 19 0.53
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.38
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:1041839 original size:32 final size:32
Alignment explanation
Indices: 1041798--1041874 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
1041788 ACCGTAAATT
*
1041798 TATCGATACATAAGTGTTGTATCGATATAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
1041830 TATCGATACATAAGTTTTGTATCGATACAATG
1 TATCGATACATAAGTGTTGTATCGATACAATG
*
1041862 TATCGCTAC-TAAG
1 TATCGATACATAAG
1041875 CCACTGCCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 4 0.10
32 38 0.90
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTGTTGTATCGATACAATG
Found at i:1041908 original size:13 final size:13
Alignment explanation
Indices: 1041890--1041915 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1041880 GCCAAGGAAA
1041890 TGTATCGATACAT
1 TGTATCGATACAT
1041903 TGTATCGATACAT
1 TGTATCGATACAT
1041916 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1041927 original size:20 final size:20
Alignment explanation
Indices: 1041902--1041956 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1041892 TATCGATACA
1041902 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
1041922 TTGTATCGATACATCGATCT
1 TTGTATCGATACATCGATCT
1041942 TTGTATCGATACATC
1 TTGTATCGATACATC
1041957 TAGGAAGTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
TTGTATCGATACATCGATCT
Found at i:1049987 original size:13 final size:13
Alignment explanation
Indices: 1049969--1049993 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1049959 CAAAGATCAG
1049969 TGTATCGATACAA
1 TGTATCGATACAA
1049982 TGTATCGATACA
1 TGTATCGATACA
1049994 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1050061 original size:20 final size:19
Alignment explanation
Indices: 1050032--1050069 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
1050022 GTAGTAGCTT
1050032 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
1050051 AAATATGTATCGATACAAA
1 AAAT-TGTATCGATACAAA
1050070 TCGTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:1050701 original size:20 final size:22
Alignment explanation
Indices: 1050671--1050714 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
1050661 TGATTTCCCG
1050671 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
*
1050692 TGTG-ATGTATTGATACATATT
1 TGTGAATGTATCGATACATATT
1050713 TG
1 TG
1050715 AAAATATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1050787 original size:13 final size:13
Alignment explanation
Indices: 1050769--1050794 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1050759 AATTTTTTGG
1050769 TGTATCGATACAT
1 TGTATCGATACAT
1050782 TGTATCGATACAT
1 TGTATCGATACAT
1050795 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1051508 original size:59 final size:59
Alignment explanation
Indices: 1051436--1051566 Score: 174
Period size: 59 Copynumber: 2.2 Consensus size: 59
1051426 TTTTCTTATC
* ** *
1051436 TCTCCTCCTTAATCAAATATTTCTCCCCCTTAAT-AGGTAAATTTAACAAATTTGCACAT
1 TCTCCCCCTTAATCAAA-AAATCTCCCCCTTAATAAGGTAAATTTAACAAATTCGCACAT
* * *
1051495 TCTCCCCCTTAATCAAAAAATCTCCCCCTTAATAAGGTAATTTTAAGAAATTCGCGCAT
1 TCTCCCCCTTAATCAAAAAATCTCCCCCTTAATAAGGTAAATTTAACAAATTCGCACAT
*
1051554 TTTCCCCCTTAAT
1 TCTCCCCCTTAAT
1051567 TAATCATAAA
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 14 0.22
59 49 0.78
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (59 bp):
TCTCCCCCTTAATCAAAAAATCTCCCCCTTAATAAGGTAAATTTAACAAATTCGCACAT
Found at i:1053226 original size:21 final size:21
Alignment explanation
Indices: 1053202--1053248 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
1053192 TTTGAAGCTG
1053202 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
1053222 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
1053243 ATTTTG
1 ATTTTG
1053249 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:1053388 original size:13 final size:13
Alignment explanation
Indices: 1053370--1053408 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1053360 ATAATCCCCC
*
1053370 TGTATCGATACAG
1 TGTATCGATACAA
1053383 TGTATCGATACAA
1 TGTATCGATACAA
1053396 TGTATCGATACAA
1 TGTATCGATACAA
1053409 AGAAAGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1053420 original size:20 final size:20
Alignment explanation
Indices: 1053395--1053473 Score: 68
Period size: 20 Copynumber: 3.6 Consensus size: 20
1053385 TATCGATACA
1053395 ATGTATCGATACAAAGAAAG
1 ATGTATCGATACAAAGAAAG
**
1053415 ATGTATCGATACATTGAATTTTCCAG
1 ATGTATCGATACAAAGAA------AG
* *
1053441 ATGTATCGATACACAGAAAC
1 ATGTATCGATACAAAGAAAG
1053461 ATGTATCGATACA
1 ATGTATCGATACA
1053474 TTTTGGAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
20 30 0.62
26 18 0.38
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (20 bp):
ATGTATCGATACAAAGAAAG
Found at i:1053424 original size:46 final size:46
Alignment explanation
Indices: 1053370--1053473 Score: 129
Period size: 46 Copynumber: 2.3 Consensus size: 46
1053360 ATAATCCCCC
* *
1053370 TGTATCGATACAGTGTATCGATACA-ATGTATCGATACAAAGAAAGA
1 TGTATCGATACAGTGAAT-GATACAGATGTATCGATACAAAGAAACA
* ** * *
1053416 TGTATCGATACATTGAATTTTCCAGATGTATCGATACACAGAAACA
1 TGTATCGATACAGTGAATGATACAGATGTATCGATACAAAGAAACA
1053462 TGTATCGATACA
1 TGTATCGATACA
1053474 TTTTGGAAAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 3 0.06
46 47 0.94
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.29
Consensus pattern (46 bp):
TGTATCGATACAGTGAATGATACAGATGTATCGATACAAAGAAACA
Found at i:1061630 original size:51 final size:50
Alignment explanation
Indices: 1061565--1061959 Score: 219
Period size: 51 Copynumber: 7.6 Consensus size: 50
1061555 TTAAGTTTCT
*
1061565 CAATTGTT-CATAATCGGGGATACTCCAACCCCGGTTTTATTTCCAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAACAC
* *
1061615 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAACAC
* * * * * * **** * *
1061668 CAATTTTTCACAATTGAGGATACTCCAACCTCGTTATTTCATCGGGGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCG--ATTTTAT-TTCCAAACAC
* * * * * *
1061721 CAACCCCGTTACC-T-CTGAGGGGATACTCCAACCCTGACTTTATTTCCAAA-A-
1 CAA----TTTTCCATAAT-CGGGGATACTCCAACCCCGATTTTATTTCCAAACAC
* * *
1061772 TATTGATTTCTCATAATCGGGGATACTCCAACCCC-AGTTTTATTTCTAAAACAC
1 CAAT--TTTC-CATAATCGGGGATACTCCAACCCCGA-TTTTATTTC-CAAACAC
** * * **
1061826 TGATTTTCCACAATCGGGGATACTTCAACCCC-AGTTTTATTTTTAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGA-TTTTA-TTTCCAAACAC
* * *
1061877 CAATTTTCCTTTAATCAGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCC--AAACAC
* * *
1061930 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
1061960 TCGTTATATC
Statistics
Matches: 256, Mismatches: 63, Indels: 50
0.69 0.17 0.14
Matches are distributed among these distances:
49 5 0.02
50 8 0.03
51 104 0.41
52 68 0.27
53 39 0.15
54 13 0.05
55 1 0.00
56 15 0.06
57 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAACAC
Found at i:1061717 original size:28 final size:28
Alignment explanation
Indices: 1061685--1061754 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
1061675 TCACAATTGA
* ** *
1061685 GGATACTCCAACCTCGTTATTTCAT-CGG
1 GGATACTCCAACCCCGTTACCTC-TGAGG
1061713 GGATACTCCAACCCCGTTACCTCTGAGG
1 GGATACTCCAACCCCGTTACCTCTGAGG
1061741 GGATACTCCAACCC
1 GGATACTCCAACCC
1061755 TGACTTTATT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 1 0.03
28 36 0.97
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACCTCTGAGG
Found at i:1062040 original size:262 final size:261
Alignment explanation
Indices: 1061576--1062069 Score: 853
Period size: 262 Copynumber: 1.9 Consensus size: 261
1061566 AATTGTTCAT
* * *
1061576 AATCGGGGATACTCCAACCCCGGTTTTATTTCCAAACACCAATTTTCCTTTAATCGGGGATACTC
1 AATCGGGGATACTCCAACCCCAGTTTTATTTCAAAACACCAATTTTCCTTTAATCAGGGATACTC
* *
1061641 CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTCCAACCTCGTTATT
66 CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATA
* * *
1061706 TCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCCAACCCTGACTTTATTTCCAAA
131 TCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTACAACCCCGACTTTATTTCCAAA
1061771 ATATTGATTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTGATTTTCCA
196 ATATTGATTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTGATTTTCCA
1061836 C
261 C
* *
1061837 AATCGGGGATACTTCAACCCCAGTTTTATTTTTAAAACACCAATTTTCCTTTAATCAGGGATACT
1 AATCGGGGATACTCCAACCCCAGTTTTA-TTTCAAAACACCAATTTTCCTTTAATCAGGGATACT
1061902 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
65 CCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTAT
** *
1061967 ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTACAACCCCGGTTTTATTTTCAA
130 ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTACAACCCCGACTTTATTTCCAA
*
1062032 AATATTGATTTCTCATAATTGGGGATACTCCAACCCCA
195 AATATTGATTTCTCATAATCGGGGATACTCCAACCCCA
1062070 TTATTTCTGA
Statistics
Matches: 218, Mismatches: 14, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
261 26 0.12
262 192 0.88
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (261 bp):
AATCGGGGATACTCCAACCCCAGTTTTATTTCAAAACACCAATTTTCCTTTAATCAGGGATACTC
CAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGTTATA
TCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTACAACCCCGACTTTATTTCCAAA
ATATTGATTTCTCATAATCGGGGATACTCCAACCCCAGTTTTATTTCTAAAACACTGATTTTCCA
C
Found at i:1062127 original size:41 final size:41
Alignment explanation
Indices: 1062070--1062147 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
1062060 TCCAACCCCA
*
1062070 TTATTTCTGAGGGGATACTCCAATCTCGGTTTTATTTCCCG
1 TTATTTCTGAGGGGATACTCCAATCTCGATTTTATTTCCCG
*
1062111 TTATTTCTGAGGGGATACTCTAATCTCGATTTTATTT
1 TTATTTCTGAGGGGATACTCCAATCTCGATTTTATTT
1062148 TCTAATCATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.45
Consensus pattern (41 bp):
TTATTTCTGAGGGGATACTCCAATCTCGATTTTATTTCCCG
Found at i:1074216 original size:13 final size:13
Alignment explanation
Indices: 1074198--1074222 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1074188 ACACAAAGTA
1074198 TGTATCGATACAT
1 TGTATCGATACAT
1074211 TGTATCGATACA
1 TGTATCGATACA
1074223 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1074219 original size:32 final size:33
Alignment explanation
Indices: 1074178--1074245 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1074168 GTAGCCAAAC
*
1074178 TTGTATCGATACA-CA-AAGTATGTATCGATACA
1 TTGTATCGATACACCATAA-AATGTATCGATACA
1074210 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
1074243 TTG
1 TTG
1074246 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
32 13 0.39
33 18 0.55
34 2 0.06
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:1075831 original size:13 final size:13
Alignment explanation
Indices: 1075809--1075851 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
1075799 ATTCTTTTTC
1075809 AAAA-AAAACAAA
1 AAAACAAAACAAA
*
1075821 AAACCAAAACAAA
1 AAAACAAAACAAA
1075834 AAAACAAAACAAA
1 AAAACAAAACAAA
1075847 GAAAA
1 -AAAA
1075852 AAGAGAGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
12 3 0.11
13 20 0.74
14 4 0.15
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAACAAAACAAA
Found at i:1077006 original size:55 final size:54
Alignment explanation
Indices: 1076939--1077643 Score: 757
Period size: 55 Copynumber: 12.3 Consensus size: 54
1076929 TTCACCCTTT
*
1076939 AGTCCTCAAAGAGCGGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * *
1076994 AATCCTCAAAGAGTAAGACGCCTTTTTCTTTTAAAGCCCACACAAGTCGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCC--TTTC----AAAGCCCACACAAGTTGGTGGCA-TTTTC
*
1077055 AGTCCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCC--TTTC----AAAGCCCACACAAGTTGGTGGCATTTT-C
* * **
1077116 AGTCCTCAAAGAGTAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTC
* *
1077175 AGTCCTCAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTT
1 AGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * *
1077236 AGTCCTCAAAGAGTAGGATGCTTTTTCTCTTAAAGCCGACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGC--CTT-TC--AAAGCCCACACAAGTTGGTGGCATTTT-C
* *
1077296 AGTCCTCAAAGAGCAGGACGCCTTTCAAATCTCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* *
1077351 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* *
1077406 AGTCCTCAAAAAGCAGGACGCCTTTCAAAGCCTACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
*
1077461 AGTCCTCAAAGAGCAGGACGCCTTTCAAATCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-C
* * *
1077516 AATCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
* * * *
1077571 AGTCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTAGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC
1077626 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1077644 TGCACCTTAT
Statistics
Matches: 568, Mismatches: 55, Indels: 54
0.84 0.08 0.08
Matches are distributed among these distances:
54 7 0.01
55 291 0.51
56 10 0.02
57 8 0.01
58 4 0.01
59 22 0.04
60 102 0.18
61 118 0.21
64 4 0.01
65 2 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (54 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTC
Found at i:1077484 original size:165 final size:166
Alignment explanation
Indices: 1076939--1077643 Score: 835
Period size: 165 Copynumber: 4.1 Consensus size: 166
1076929 TTCACCCTTT
*
1076939 AGTCCTCAAAGAGCGGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAATCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCAATCCTCAAA
* * * **
1077004 GAGTAAGACGCCTTTTTCTTTTAAAGCCCACACAAGTCGGTGGCATTTTTCAGTCCTCAAAGAGC
65 GAGCAAGACACC----TC-TTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGC
*
1077069 AGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
125 AGGACGCC--TTTC---TAAAGCCCACACAAGTTGGTGGCATTTTCC
* * ** *
1077116 AGTCCTCAAAGAGTAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCAATCCT
* ** *
1077181 CAAAGAGCAAGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTTTAGTCCTCAAA
61 CAAAGAGCAAGAC-AC--CT-CTTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAA
* * * *
1077246 GAGTAGGATGCTTTTTCTCTTAAAGCCGACACAAGTTGGTGGCATTTTCC
121 GAGCAGGACGC--CTT-TC-TAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
1077296 AGTCCTCAAAGAGCAGGACGCCTTTCAAATCTCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAATCCTCAAA
* *
1077361 GAGCAGGACACCTC-TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGAC
65 GAGCAAGACACCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
*
1077425 GCCTTTC-AAAGCCTACACAAGTTGGTGGCATTTTCC
130 GCCTTTCTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
1077461 AGTCCTCAAAGAGCAGGACGCCTTTCAAATCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAA
1 AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CAATCCTCAAA
* *
1077526 GAGCAGGACACCTC-TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGAC
65 GAGCAAGACACCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC
* * *
1077590 GCCTTTC-AAAGCCCACACGAGTTAGTGGCACTTTT-T
130 GCCTTTCTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1077626 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1077644 TGCACCTTAT
Statistics
Matches: 476, Mismatches: 37, Indels: 42
0.86 0.07 0.08
Matches are distributed among these distances:
165 198 0.42
166 4 0.01
167 2 0.00
168 2 0.00
170 44 0.09
171 2 0.00
172 1 0.00
173 2 0.00
175 24 0.05
176 19 0.04
177 19 0.04
178 4 0.01
179 4 0.01
180 54 0.11
181 70 0.15
182 26 0.05
184 1 0.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (166 bp):
AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCAATCCTCAAAG
AGCAAGACACCTCTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG
CCTTTCTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:1078487 original size:19 final size:19
Alignment explanation
Indices: 1078463--1078512 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
1078453 AAACCGTAAA
1078463 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
1078482 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
1078501 TGTATCGATACA
1 TGTATCGATACA
1078513 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:1078583 original size:13 final size:13
Alignment explanation
Indices: 1078565--1078590 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1078555 ATTAAGGAAA
1078565 TGTATCGATACAT
1 TGTATCGATACAT
1078578 TGTATCGATACAT
1 TGTATCGATACAT
1078591 CGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1081016 original size:52 final size:52
Alignment explanation
Indices: 1080950--1081083 Score: 191
Period size: 52 Copynumber: 2.6 Consensus size: 52
1080940 TTAAGTTTCT
* * *
1080950 CAATTGTTCATAATCGGGGATACTCCAACCCCGGTTTTATTTCC-AAAACAC
1 CAATTTTTTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
*
1081001 CAATTTTCCTT-TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACAC
1 CAATTTT--TTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
*
1081054 CAATTTTTTATAATCGAGGATACTCCAACC
1 CAATTTTTTATAATCGGGGATACTCCAACC
1081084 TCGTTATTTC
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
51 8 0.11
52 50 0.68
53 15 0.21
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
CAATTTTTTATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:1081130 original size:28 final size:28
Alignment explanation
Indices: 1081099--1081170 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
1081089 ATTTCATCAA
1081099 GGATACTCCAACCCCGTTACCTCCGAGG
1 GGATACTCCAACCCCGTTACCTCCGAGG
*
1081127 GGATACTCCAACCCCGTTACCTCTGAGG
1 GGATACTCCAACCCCGTTACCTCCGAGG
1081155 GGATACTCCAACCCCG
1 GGATACTCCAACCCCG
1081171 GCTTTATTTC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.22, C:0.39, G:0.21, T:0.18
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTACCTCCGAGG
Found at i:1081228 original size:51 final size:51
Alignment explanation
Indices: 1081156--1081372 Score: 211
Period size: 51 Copynumber: 4.2 Consensus size: 51
1081146 CCTCTGAGGG
* * * * *
1081156 GATACTCCAACCCCGGCTTTATTTCCAAAATATTGA-TTTCTCATAATCGAC
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTC-CACAATCGAC
* * **
1081207 GATACTCCAACCCCAGTTTTATTTCTAAAACACTAATTTTCCACAATCGGG
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATCGAC
* * * ** **
1081258 GATACTTCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGG
1 GATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCC-ACAATCGAC
* * * * *
1081310 GATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAG
1 GATACTCCAACCCCGGTTTTATTTCC-AAAACACTAATTTTCCACAATCGAC
1081362 GATACTCCAAC
1 GATACTCCAAC
1081373 GTCGTTATTT
Statistics
Matches: 139, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
51 74 0.53
52 50 0.36
53 15 0.11
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (51 bp):
GATACTCCAACCCCGGTTTTATTTCCAAAACACTAATTTTCCACAATCGAC
Done.