Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 82 of 206
Found at i:23497904 original size:12 final size:12
Alignment explanation
Indices: 23497887--23497916 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23497877 TAAGGCTGTT
23497887 ACACGGCCTAGC
1 ACACGGCCTAGC
*
23497899 ACACGGCCTGGC
1 ACACGGCCTAGC
23497911 ACACGG
1 ACACGG
23497917 GCGTGTGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:23499096 original size:34 final size:34
Alignment explanation
Indices: 23499053--23499153 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
23499043 CTGCTATTAG
*
23499053 AGTTTTAAGTTTTATTATTTTTGTTTCATTTTGT
1 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
* *
23499087 AGTTTTAAGTCTTATTATATTTGTTTCATTTTTT
1 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
* * *
23499121 AGTTTTAAGCCTTATCATTTTTGTCTCATTTTG
1 AGTTTTAAGTCTTATTATTTTTGTTTCATTTTG
23499154 GTGAATATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 59 1.00
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (34 bp):
AGTTTTAAGTCTTATTATTTTTGTTTCATTTTGT
Found at i:23499560 original size:16 final size:16
Alignment explanation
Indices: 23499539--23499577 Score: 57
Period size: 13 Copynumber: 2.6 Consensus size: 16
23499529 CGAAAAAGAG
23499539 GAGGAAAGAAGAATTA
1 GAGGAAAGAAGAATTA
23499555 GAGG--A-AAGAATTA
1 GAGGAAAGAAGAATTA
23499568 GAGGAAAGAA
1 GAGGAAAGAA
23499578 TAAGATTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
13 12 0.60
14 1 0.05
15 1 0.05
16 6 0.30
ACGTcount: A:0.56, C:0.00, G:0.33, T:0.10
Consensus pattern (16 bp):
GAGGAAAGAAGAATTA
Found at i:23499563 original size:13 final size:13
Alignment explanation
Indices: 23499547--23499578 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
23499537 AGGAGGAAAG
23499547 AAGAATTAGAGGA
1 AAGAATTAGAGGA
23499560 AAGAATTAGAGGA
1 AAGAATTAGAGGA
23499573 AAGAAT
1 AAGAAT
23499579 AAGATTAGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.56, C:0.00, G:0.28, T:0.16
Consensus pattern (13 bp):
AAGAATTAGAGGA
Found at i:23502645 original size:20 final size:21
Alignment explanation
Indices: 23502620--23502659 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23502610 TTTTCAATGA
23502620 ATTTTTATTTATA-AAATTAG
1 ATTTTTATTTATATAAATTAG
*
23502640 ATTTTTATTTTTATAAATTA
1 ATTTTTATTTATATAAATTA
23502660 AATAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTTATTTATATAAATTAG
Found at i:23505521 original size:13 final size:13
Alignment explanation
Indices: 23505503--23505527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23505493 ATTCTTCATT
23505503 ACTTTTGAAAAGA
1 ACTTTTGAAAAGA
23505516 ACTTTTGAAAAG
1 ACTTTTGAAAAG
23505528 TGCTGTGAAA
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:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
ACTTTTGAAAAGA
Found at i:23513241 original size:24 final size:23
Alignment explanation
Indices: 23513197--23513241 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
23513187 ATGAAACATT
*
23513197 ATTCTTGCAAATCATGAATAGTA
1 ATTCTTGCAAATCATCAATAGTA
* *
23513220 ATTCTTGGCAAGTCATCTATAG
1 ATTCTT-GCAAATCATCAATAG
23513242 CGCAACATCT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (23 bp):
ATTCTTGCAAATCATCAATAGTA
Found at i:23513678 original size:200 final size:199
Alignment explanation
Indices: 23513335--23513734 Score: 692
Period size: 200 Copynumber: 2.0 Consensus size: 199
23513325 TTATATTTAA
* *
23513335 ATTTTTTGGGACCTAACTAGTACCTAAACTTAAAAATTGTAAGTTAACTTGATACTTTTTTTAAG
1 ATTTTTTGGGACCTAACTAGTACCTAAACTTAAAAATCGTAAGCTAACTTGATACTTTTTTTAAG
*
23513400 TACCTGACTAACACCATTAAAATATGTTGATATGGAACTGACGACCAATTAGCATGGTTACACAT
66 TACCTGACTAACACCATTAAAATATGTTGATATGGAACTGACGACCAATTAGCATGGTGACACAT
* * *
23513465 GTTAAGTTTGTAACGCCCTCAACCCGATTTAATTCGTCAGATCTGAATCTTAGGTGCTACAACTC
131 GTTAAGATTGTAACGCCCTCAACCCGATTCAATTCGCCAGATCTGAATCTTAGGTGCTACAACTC
23513530 GATT
196 GATT
23513534 ATTTTTTGGGACCTAACTAGTACCTAAACTTAAAAATCGTAAGCTAACTTGATACTTTTTTTTAA
1 ATTTTTTGGGACCTAACTAGTACCTAAACTTAAAAATCGTAAGCTAACTTGATAC-TTTTTTTAA
*
23513599 GTACTTGACTAACACCATTAAAATATGTTGATATGGAACTGACGACCAATTAGCATGGTGACACA
65 GTACCTGACTAACACCATTAAAATATGTTGATATGGAACTGACGACCAATTAGCATGGTGACACA
* * * *
23513664 TGTTAAGATTGTAACGCCTTCAACCCGATTCGATTCGCCAGATCTGAATCTTGGGTGTTACAACT
130 TGTTAAGATTGTAACGCCCTCAACCCGATTCAATTCGCCAGATCTGAATCTTAGGTGCTACAACT
23513729 CGATT
195 CGATT
23513734 A
1 A
23513735 CATACTTACT
Statistics
Matches: 189, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
199 53 0.28
200 136 0.72
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (199 bp):
ATTTTTTGGGACCTAACTAGTACCTAAACTTAAAAATCGTAAGCTAACTTGATACTTTTTTTAAG
TACCTGACTAACACCATTAAAATATGTTGATATGGAACTGACGACCAATTAGCATGGTGACACAT
GTTAAGATTGTAACGCCCTCAACCCGATTCAATTCGCCAGATCTGAATCTTAGGTGCTACAACTC
GATT
Found at i:23514528 original size:27 final size:27
Alignment explanation
Indices: 23514469--23514561 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
23514459 ATTTCTCTTA
*
23514469 GTGTTCACCATAAGTTCTATTCCTT-T
1 GTGTTCACCATAAGTACTATTCCTTCT
* * *
23514495 AGAGTTCGCCATATGTACTATTCCTTCT
1 -GTGTTCACCATAAGTACTATTCCTTCT
** * * * *
23514523 GTGTTCGTCATACGTATTATTCTTTCA
1 GTGTTCACCATAAGTACTATTCCTTCT
23514550 GTGTTCACCATA
1 GTGTTCACCATA
23514562 CTTACCATTT
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (27 bp):
GTGTTCACCATAAGTACTATTCCTTCT
Found at i:23514726 original size:27 final size:27
Alignment explanation
Indices: 23514668--23514740 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
23514658 TTCCATGATC
*
23514668 ACCACAAAGGC-TCTCATTTCACAGATT
1 ACCACAAAGGCTTC-CATTTCACAAATT
*
23514695 ACCACAAAGGCTTCCATTTCATAAATT
1 ACCACAAAGGCTTCCATTTCACAAATT
* * *
23514722 TCCACAAAGGTTTTCATTT
1 ACCACAAAGGCTTCCATTT
23514741 TCTGGCATGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 38 0.95
28 2 0.05
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.32
Consensus pattern (27 bp):
ACCACAAAGGCTTCCATTTCACAAATT
Found at i:23517308 original size:134 final size:134
Alignment explanation
Indices: 23517067--23517664 Score: 661
Period size: 134 Copynumber: 4.5 Consensus size: 134
23517057 GGATAAGTTA
* * * *
23517067 TAGAGTTCA-TCAATTTGCGATCGCAACTCCATTCAAATAGTTCGA-TGATTTACAATCACAACT
1 TAGAGTTCACT-AATTTACAATCACAACTCCATTCAAACAGTTC-ACTGATTTACAATCACAACT
* * * *
23517130 GATATTATCAAAGCTCATTGATTTA-TATTCATAGCTT-AGATTCATTGATTTACTATCATGAAC
64 GATATTATTAAAGCTCATTGATTTACGA-TCACAGCTTAAG-TTCATTGATTTACGATCATGAAC
*
23517193 GATTCACT
127 GGTTCACT
** * * * *
23517201 TAGAGTTCACCT-ATTTACAATTGCAACTCTATTCAAACATTTCACTAATTTACAATCACAATTG
1 TAGAGTTCA-CTAATTTACAATCACAACTCCATTCAAACAGTTCACTGATTTACAATCACAACTG
* * *
23517265 ATATTATTAAAGCTCATTGATTTACGTTCACAGGTTAAGTTCATTGATTTACGATCATGAATGGT
65 ATATTATTAAAGCTCATTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACGGT
23517330 TCACT
130 TCACT
* * *
23517335 TAGAGGTT-ACTAATTTACAATCACAACTCCATTCAAACAGTTAACTTATTTACGATCACAACTG
1 TAGA-GTTCACTAATTTACAATCACAACTCCATTCAAACAGTTCACTGATTTACAATCACAACTG
** * *
23517399 ATATTATTAAAGCTTGTTTATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAATGGT
65 ATATTATTAAAGCTCATTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACGGT
23517464 TCACT
130 TCACT
* ** ** * * *
23517469 TAGAGTTCACTGATTTACGTTTGCAACTCCGTTCAAACAGTTCATTGATTTACAATTACAACTGA
1 TAGAGTTCACTAATTTACAATCACAACTCCATTCAAACAGTTCACTGATTTACAATCACAACTGA
* * * * * * *
23517534 TATTATTAAAACTCGTTGATTTACGATCATAGCTTAAGTTCATTAATTTATGATCATAAAC-TTT
66 TATTATTAAAGCTCATTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACGGTT
23517598 CACT
131 CACT
* ** * * ** *
23517602 TAAAGTTCACCGATTTATAATCAAAACTTTATTCAAACAGTTCACTGATTTATAATCACAACT
1 TAGAGTTCACTAATTTACAATCACAACTCCATTCAAACAGTTCACTGATTTACAATCACAACT
23517665 TGTAACAGCC
Statistics
Matches: 393, Mismatches: 63, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
133 61 0.16
134 326 0.83
135 5 0.01
136 1 0.00
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (134 bp):
TAGAGTTCACTAATTTACAATCACAACTCCATTCAAACAGTTCACTGATTTACAATCACAACTGA
TATTATTAAAGCTCATTGATTTACGATCACAGCTTAAGTTCATTGATTTACGATCATGAACGGTT
CACT
Found at i:23518980 original size:24 final size:25
Alignment explanation
Indices: 23518904--23518974 Score: 67
Period size: 24 Copynumber: 2.9 Consensus size: 25
23518894 CAGCTCGAAA
* *
23518904 GAGCGTCCCGTTAT-TAGCCCTCT-C
1 GAGCTTCCCGTTATATAGCTCT-TGC
* * *
23518928 AAGCTTCCCGTTATATGGTTCTTGC
1 GAGCTTCCCGTTATATAGCTCTTGC
23518953 GAGCTTCCCGTTA-ATAGCTCTT
1 GAGCTTCCCGTTATATAGCTCTT
23518975 CGGAGCATCC
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 20 0.54
25 17 0.46
ACGTcount: A:0.15, C:0.30, G:0.20, T:0.35
Consensus pattern (25 bp):
GAGCTTCCCGTTATATAGCTCTTGC
Found at i:23519152 original size:24 final size:24
Alignment explanation
Indices: 23519124--23519171 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
23519114 TCTCGATATA
*
23519124 TGGCTATCCGGAGCT-CCTGATTAT
1 TGGCTATCCAGAGCTACCTG-TTAT
*
23519148 TGGCTATTCAGAGCTACCTGTTAT
1 TGGCTATCCAGAGCTACCTGTTAT
23519172 AAGCTCGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (24 bp):
TGGCTATCCAGAGCTACCTGTTAT
Found at i:23519260 original size:25 final size:25
Alignment explanation
Indices: 23519179--23519276 Score: 74
Period size: 25 Copynumber: 4.0 Consensus size: 25
23519169 TATAAGCTCG
* *
23519179 CATGAGCTTCCCAAT-TATGGCTCT
1 CATGAGCTTCCCAATATATGACTCA
* * ** *
23519203 TATGAGCTTCTCGTTATAT-AGCCCA
1 CATGAGCTTCCCAATATATGA-CTCA
* *
23519228 GATAAGCTTCCCAATATATGACTCA
1 CATGAGCTTCCCAATATATGACTCA
**
23519253 CATGAGCTTCCCGTTATATGACTC
1 CATGAGCTTCCCAATATATGACTC
23519277 GAGAAAATAC
Statistics
Matches: 54, Mismatches: 17, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
24 11 0.20
25 42 0.78
26 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.33
Consensus pattern (25 bp):
CATGAGCTTCCCAATATATGACTCA
Found at i:23540227 original size:17 final size:17
Alignment explanation
Indices: 23540205--23540244 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
23540195 TTAGAACCAT
23540205 GCTACTCACACTAAAAC
1 GCTACTCACACTAAAAC
23540222 GCTACTCACACTAAAAC
1 GCTACTCACACTAAAAC
23540239 GCTACT
1 GCTACT
23540245 AATCTACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.38, C:0.35, G:0.07, T:0.20
Consensus pattern (17 bp):
GCTACTCACACTAAAAC
Found at i:23542310 original size:31 final size:30
Alignment explanation
Indices: 23542209--23542310 Score: 88
Period size: 31 Copynumber: 3.5 Consensus size: 30
23542199 AAAGAAAATT
* **
23542209 ATAGTTGGGTGACCAAAACGGAAAAGGAGCA
1 ATAGTTGGATGACCAAAAAAGAAAAGGAG-A
**
23542240 ATAGTT-GAGTGACCAAAAAA-AAATTG-G-
1 ATAGTTGGA-TGACCAAAAAAGAAAAGGAGA
*
23542267 -TAGTTGGGTGACCAAAAAAGAAAAGGAGTA
1 ATAGTTGGATGACCAAAAAAGAAAAGGAG-A
23542297 ATAGTTGGATGACC
1 ATAGTTGGATGACC
23542311 TACAGTGTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
26 16 0.29
27 5 0.09
28 1 0.02
29 1 0.02
30 5 0.09
31 27 0.49
ACGTcount: A:0.43, C:0.10, G:0.28, T:0.19
Consensus pattern (30 bp):
ATAGTTGGATGACCAAAAAAGAAAAGGAGA
Found at i:23542624 original size:15 final size:16
Alignment explanation
Indices: 23542573--23542627 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
23542563 TAAAATTTTA
*
23542573 ATAAATA-AAAAAGAAT
1 ATAAATATAAATA-AAT
*
23542589 ATAAA-ATTAATAAAT
1 ATAAATATAAATAAAT
23542604 ATTAAATATAAAT-AAT
1 A-TAAATATAAATAAAT
23542620 ATAAATAT
1 ATAAATAT
23542628 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
15 12 0.36
16 16 0.48
17 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (16 bp):
ATAAATATAAATAAAT
Found at i:23543759 original size:110 final size:110
Alignment explanation
Indices: 23543621--23543842 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 110
23543611 AGACATGGAG
* * *
23543621 CCCATGTCTTGAGACTCGAGACCTCTAAAACCAAGTTTTGGCTACTGACTTCCATGTCCCTAGTC
1 CCCATGTCTTGAGACTCGAGACCTCTAAAACCAAATTTTGGCAACTGACTCCCATGTCCCTAGTC
23543686 ACTAGAGCCATGTCTTAAGACTTTACCCTGTATGTCTCTAGACAC
66 ACTAGAGCCATGTCTTAAGACTTTACCCTGTATGTCTCTAGACAC
*
23543731 CCCATGTCTTGAGACTCGAGACCTCTAAAACCAAATTTTGGCAACTGACTCCCATGTCCCTGGTC
1 CCCATGTCTTGAGACTCGAGACCTCTAAAACCAAATTTTGGCAACTGACTCCCATGTCCCTAGTC
*
23543796 ACTAGGGCCATGTCTTAAGACTTTACCCTGTATGTCTCTAGACAC
66 ACTAGAGCCATGTCTTAAGACTTTACCCTGTATGTCTCTAGACAC
23543841 CC
1 CC
23543843 ATGGTATGTC
Statistics
Matches: 107, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (110 bp):
CCCATGTCTTGAGACTCGAGACCTCTAAAACCAAATTTTGGCAACTGACTCCCATGTCCCTAGTC
ACTAGAGCCATGTCTTAAGACTTTACCCTGTATGTCTCTAGACAC
Found at i:23544204 original size:40 final size:40
Alignment explanation
Indices: 23544147--23544307 Score: 160
Period size: 40 Copynumber: 4.0 Consensus size: 40
23544137 ACAAATGTCG
* * **
23544147 CTATAGGTCGAGTATTAGCGGCGCTTTTTAAAAAACGCCA
1 CTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCA
* * ** * **
23544187 CTATAGATTGAGCATTAGTGATGCTTTTTGAAAAACGCTG
1 CTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCA
* * * *
23544227 CTATAGATCAAGCATTAGCGGTGCTTCTCGAAAAATGCCA
1 CTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCA
* * *
23544267 CTATAGAACGAGCATTAGTGGGGCTTTTCGAAAAACGCCA
1 CTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCA
23544307 C
1 C
23544308 AAAAAAGTTG
Statistics
Matches: 97, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
40 97 1.00
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (40 bp):
CTATAGATCGAGCATTAGCGGCGCTTTTCGAAAAACGCCA
Found at i:23544244 original size:80 final size:80
Alignment explanation
Indices: 23544146--23544304 Score: 201
Period size: 80 Copynumber: 2.0 Consensus size: 80
23544136 AACAAATGTC
* * * * * ** *
23544146 GCTATAGGTCGAGTATTAGCGGCGCTTTTTAAAAAACGCCACTATAGATTGAGCATTAGTGATGC
1 GCTATAGATCAAGCATTAGCGGCGCTTCTCAAAAAACGCCACTATAGAACGAGCATTAGTGAGGC
*
23544211 TTTTTGAAAAACGCT
66 TTTTCGAAAAACGCT
* * * *
23544226 GCTATAGATCAAGCATTAGCGGTGCTTCTCGAAAAATGCCACTATAGAACGAGCATTAGTGGGGC
1 GCTATAGATCAAGCATTAGCGGCGCTTCTCAAAAAACGCCACTATAGAACGAGCATTAGTGAGGC
23544291 TTTTCGAAAAACGC
66 TTTTCGAAAAACGC
23544305 CACAAAAAAG
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
80 66 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (80 bp):
GCTATAGATCAAGCATTAGCGGCGCTTCTCAAAAAACGCCACTATAGAACGAGCATTAGTGAGGC
TTTTCGAAAAACGCT
Found at i:23544394 original size:114 final size:115
Alignment explanation
Indices: 23544239--23544515 Score: 340
Period size: 114 Copynumber: 2.4 Consensus size: 115
23544229 ATAGATCAAG
* * ** * * **
23544239 CATTAGCGGTGCTTCTCGAAAAATGCCACTATAGAACGAGCATTAGTGGGGCTTTTCGAAAAACG
1 CATTAGCGGCGCTTTTTAAAAAATGCCACAATAGAACGAGCATTAGCGACGCTTTTCGAAAAACG
*
23544304 CCACAAAAAAGTTGAGCAAAAC-ACGACATTTGTTGTTGAGCTTTAGTGA
66 CCACAAAAAAGTTGAGCAAAACAACGACATTTGTTATTGAGCTTTAGTGA
* ** *
23544353 CATTAGCGGCGCTTTTTAAAAAATGTCACAATAGATTGAGCATTAGCGACGCTTTTTGAAAAACG
1 CATTAGCGGCGCTTTTTAAAAAATGCCACAATAGAACGAGCATTAGCGACGCTTTTCGAAAAACG
* * * *
23544418 CCGCAAAAAAGTTGAGCAAAACAACGTCGTTTGTTATTGAGCTTTAGTGG
66 CCACAAAAAAGTTGAGCAAAACAACGACATTTGTTATTGAGCTTTAGTGA
* ** * * *
23544468 CATTAGCAGCGCTTTTTAAAAAACACCGCAATAGATCGAGAATTAGCG
1 CATTAGCGGCGCTTTTTAAAAAATGCCACAATAGAACGAGCATTAGCG
23544516 GCACTTTGTC
Statistics
Matches: 138, Mismatches: 24, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
114 74 0.54
115 64 0.46
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (115 bp):
CATTAGCGGCGCTTTTTAAAAAATGCCACAATAGAACGAGCATTAGCGACGCTTTTCGAAAAACG
CCACAAAAAAGTTGAGCAAAACAACGACATTTGTTATTGAGCTTTAGTGA
Found at i:23544433 original size:41 final size:40
Alignment explanation
Indices: 23544353--23544435 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 40
23544343 GCTTTAGTGA
* * * * *
23544353 CATTAGCGGCGCTTTTTAAAAAATGTCACAATAGATTGAG
1 CATTAGCGACGCTTTTTAAAAAACGCCACAAAAAATTGAG
* *
23544393 CATTAGCGACGCTTTTTGAAAAACGCCGCAAAAAAGTTGAG
1 CATTAGCGACGCTTTTTAAAAAACGCCACAAAAAA-TTGAG
23544434 CA
1 CA
23544436 AAACAACGTC
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
40 28 0.80
41 7 0.20
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (40 bp):
CATTAGCGACGCTTTTTAAAAAACGCCACAAAAAATTGAG
Found at i:23544501 original size:115 final size:114
Alignment explanation
Indices: 23544289--23544515 Score: 328
Period size: 115 Copynumber: 2.0 Consensus size: 114
23544279 CATTAGTGGG
*
23544289 GCTTTTCGAAAAACGCCACAAAAAAGTTGAGCAAAACACGACATTTGTTGTTGAGCTTTAGTGAC
1 GCTTTTCGAAAAACGCCACAAAAAAGTTGAGCAAAACACGACATTTGTTATTGAGCTTTAGTGAC
* *** * *
23544354 ATTAGCGGCGCTTTTTAAAAAATGTCACAATAGATTGAGCATTAGCGAC
66 ATTAGCAGCGCTTTTTAAAAAACACCACAATAGATCGAGAATTAGCGAC
* * * * *
23544403 GCTTTTTGAAAAACGCCGCAAAAAAGTTGAGCAAAACAACGTCGTTTGTTATTGAGCTTTAGTGG
1 GCTTTTCGAAAAACGCCACAAAAAAGTTGAGCAAAAC-ACGACATTTGTTATTGAGCTTTAGTGA
*
23544468 CATTAGCAGCGCTTTTTAAAAAACACCGCAATAGATCGAGAATTAGCG
65 CATTAGCAGCGCTTTTTAAAAAACACCACAATAGATCGAGAATTAGCG
23544516 GCACTTTGTC
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
114 35 0.35
115 64 0.65
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.27
Consensus pattern (114 bp):
GCTTTTCGAAAAACGCCACAAAAAAGTTGAGCAAAACACGACATTTGTTATTGAGCTTTAGTGAC
ATTAGCAGCGCTTTTTAAAAAACACCACAATAGATCGAGAATTAGCGAC
Found at i:23544583 original size:156 final size:156
Alignment explanation
Indices: 23544354--23544795 Score: 604
Period size: 157 Copynumber: 2.8 Consensus size: 156
23544344 CTTTAGTGAC
* * * * * * *
23544354 ATTAGCGGCGCTTT-TTAAAAAATGTCACAATAGATTGAGCATTAGCGACGCTTTTTGAAAAACG
1 ATTAGCGGCACTTTGTTAAAAAATGCCGCTATAGATAGAGCATTAGCGGCGCTTTTCGAAAAACG
* *
23544418 CCGCAAAAAAGTTGAGCAAAACAACGTCGTTTGTTATTGAGCTTTAGTGGCATTAGCAGCGCTTT
66 CCACAAAAAAGTTGAGCAAAACAACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCAGCGCTTT
23544483 TTAAAAAACACCGCAATAGATCGAGA
131 TTAAAAAACACCGCAATAGATCGAGA
* *
23544509 ATTAGCGGCACTTTGTCAAAAAATGCCGCTATAGATAGAGCATTAGCGGTGCTTTTCGGAAAAAC
1 ATTAGCGGCACTTTGTTAAAAAATGCCGCTATAGATAGAGCATTAGCGGCGCTTTTC-GAAAAAC
*
23544574 GCCACAAAAAAGTTGAGCAAAACAACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCAGCACTT
65 GCCACAAAAAAGTTGAGCAAAACAACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCAGCGCTT
**
23544639 TTGTAAAAAATGCCGCAATAGATCGAGA
130 TT-TAAAAAACACCGCAATAGATCGAGA
* * * ** * * * *
23544667 ATTAGTGACAC-TTGTTGAAAAACACTGCTATAGATCGAGCATTAGCGGCGCTTTTCGCAAAATG
1 ATTAGCGGCACTTTGTTAAAAAATGCCGCTATAGATAGAGCATTAGCGGCGCTTTTCGAAAAACG
* * *
23544731 CCTCAAAAAAGTTGAG-AAAACGACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCGGCG-TTT
66 CCACAAAAAAGTTGAGCAAAACAACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCAGCGCTTT
23544794 TT
131 TT
23544796 GGTATAAATG
Statistics
Matches: 255, Mismatches: 29, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
153 1 0.00
154 4 0.02
155 54 0.21
156 55 0.22
157 109 0.43
158 32 0.13
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (156 bp):
ATTAGCGGCACTTTGTTAAAAAATGCCGCTATAGATAGAGCATTAGCGGCGCTTTTCGAAAAACG
CCACAAAAAAGTTGAGCAAAACAACGTCGTTTGTTGTTGAGCTTTAGTGGCATTAGCAGCGCTTT
TTAAAAAACACCGCAATAGATCGAGA
Found at i:23544848 original size:14 final size:14
Alignment explanation
Indices: 23544826--23544879 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 14
23544816 ATTATTTTAT
* *
23544826 TTTAGGGTTTAGTA
1 TTTAAGGTTTAGTG
*
23544840 TTTAAGGTTTAATG
1 TTTAAGGTTTAGTG
* *
23544854 TCTATGGTTTAGTG
1 TTTAAGGTTTAGTG
23544868 TTTAAAGGTTTA
1 TTT-AAGGTTTA
23544880 TGATATAATG
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTAGTG
Found at i:23544922 original size:14 final size:14
Alignment explanation
Indices: 23544905--23544948 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
23544895 TATTTTGGGA
23544905 TTAGAGTTT-TGAGT
1 TTAGAGTTTATG-GT
*
23544919 TTAGGGTTTATGGT
1 TTAGAGTTTATGGT
*
23544933 TTATAGTTTATGGT
1 TTAGAGTTTATGGT
23544947 TT
1 TT
23544949 GGGGTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 24 0.92
15 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (14 bp):
TTAGAGTTTATGGT
Found at i:23544940 original size:21 final size:21
Alignment explanation
Indices: 23544916--23544957 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
23544906 TAGAGTTTTG
*
23544916 AGTTTAGGGTTTATGGTTTAT
1 AGTTTAGGGTTTAGGGTTTAT
* *
23544937 AGTTTATGGTTTGGGGTTTAT
1 AGTTTAGGGTTTAGGGTTTAT
23544958 TATTTTATAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.00, G:0.31, T:0.52
Consensus pattern (21 bp):
AGTTTAGGGTTTAGGGTTTAT
Found at i:23544955 original size:14 final size:14
Alignment explanation
Indices: 23544917--23544957 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
23544907 AGAGTTTTGA
23544917 GTTTAGGGTTTATG
1 GTTTAGGGTTTATG
**
23544931 GTTTATAGTTTATG
1 GTTTAGGGTTTATG
*
23544945 GTTTGGGGTTTAT
1 GTTTAGGGTTTAT
23544958 TATTTTATAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.00, G:0.32, T:0.54
Consensus pattern (14 bp):
GTTTAGGGTTTATG
Found at i:23545132 original size:7 final size:7
Alignment explanation
Indices: 23545122--23545353 Score: 117
Period size: 7 Copynumber: 33.1 Consensus size: 7
23545112 GTAATATATA
23545122 TTTAGGG
1 TTTAGGG
*
23545129 TTTAAGG
1 TTTAGGG
23545136 TTTAGGG
1 TTTAGGG
*
23545143 TATA-GG
1 TTTAGGG
*
23545149 TTTATGG
1 TTTAGGG
23545156 TTTAGGG
1 TTTAGGG
**
23545163 TTTAATG
1 TTTAGGG
*
23545170 TTTAAGG
1 TTTAGGG
* *
23545177 TTTATGA
1 TTTAGGG
*
23545184 TTTAGTG
1 TTTAGGG
* *
23545191 TTAAGAG
1 TTTAGGG
*
23545198 TTTAGTG
1 TTTAGGG
* *
23545205 TTTATAGT
1 TTTA-GGG
23545213 TTTAGGG
1 TTTAGGG
*
23545220 TGTA-GG
1 TTTAGGG
*
23545226 TTTATGG
1 TTTAGGG
***
23545233 TTTAATC
1 TTTAGGG
*
23545240 TTTAGTG
1 TTTAGGG
23545247 TTTAGGG
1 TTTAGGG
*
23545254 TTTAGGA
1 TTTAGGG
*
23545261 TTTAGGA
1 TTTAGGG
*
23545268 TTTAAGG
1 TTTAGGG
**
23545275 TTTAGAA
1 TTTAGGG
*
23545282 TTTAGGT
1 TTTAGGG
23545289 TTTAGGG
1 TTTAGGG
**
23545296 TTTAAAG
1 TTTAGGG
**
23545303 TTTATAG
1 TTTAGGG
23545310 TTTAGGG
1 TTTAGGG
*
23545317 TTTAAAGG
1 TTT-AGGG
* *
23545325 CTTAGGA
1 TTTAGGG
*
23545332 TTTATGG
1 TTTAGGG
*
23545339 TTTAGTG
1 TTTAGGG
23545346 TTTAGGG
1 TTTAGGG
23545353 T
1 T
23545354 CTGATTTTAA
Statistics
Matches: 167, Mismatches: 54, Indels: 8
0.73 0.24 0.03
Matches are distributed among these distances:
6 10 0.06
7 148 0.89
8 9 0.05
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:23545152 original size:20 final size:21
Alignment explanation
Indices: 23545127--23545180 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
23545117 ATATATTTAG
23545127 GGTTTAAGGTTTAGGGTAT-A
1 GGTTTAAGGTTTAGGGTATAA
* *
23545147 GGTTTATGGTTTAGGGTTTAA
1 GGTTTAAGGTTTAGGGTATAA
*
23545168 TGTTTAAGGTTTA
1 GGTTTAAGGTTTA
23545181 TGATTTAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (21 bp):
GGTTTAAGGTTTAGGGTATAA
Found at i:23546041 original size:22 final size:23
Alignment explanation
Indices: 23546005--23546047 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
23545995 ACTCTTTTTC
*
23546005 AAAAGGTTGATGGTCAAATTTGA
1 AAAAGATTGATGGTCAAATTTGA
23546028 AAAAGATTGA-GGTCAAATTT
1 AAAAGATTGATGGTCAAATTT
23546048 AACTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.42, C:0.05, G:0.23, T:0.30
Consensus pattern (23 bp):
AAAAGATTGATGGTCAAATTTGA
Found at i:23546994 original size:19 final size:20
Alignment explanation
Indices: 23546970--23547010 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
23546960 CCTTTACATG
*
23546970 TTACATCCTT-TTGTCTTTT
1 TTACATACTTATTGTCTTTT
*
23546989 TTACATATTTATTGTCTTTT
1 TTACATACTTATTGTCTTTT
23547009 TT
1 TT
23547011 GGACATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.66
Consensus pattern (20 bp):
TTACATACTTATTGTCTTTT
Found at i:23549173 original size:41 final size:41
Alignment explanation
Indices: 23549100--23549179 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
23549090 CCATAAACGC
* * * *
23549100 CGCTAAATATCATGCTCTTTAGTGGCGGTTGTGAAAAAAAT
1 CGCTAAAAATCATGCGCTATAGCGGCGGTTGTGAAAAAAAT
* * *
23549141 CGCTAAAAATCATTCGCTATAGCGGCGTTTGTGATAAAA
1 CGCTAAAAATCATGCGCTATAGCGGCGGTTGTGAAAAAA
23549180 GCGCCGCTAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (41 bp):
CGCTAAAAATCATGCGCTATAGCGGCGGTTGTGAAAAAAAT
Found at i:23549190 original size:84 final size:85
Alignment explanation
Indices: 23549097--23549325 Score: 248
Period size: 86 Copynumber: 2.7 Consensus size: 85
23549087 TTTCCATAAA
* * * *
23549097 CGCCGCTAAATATCATGCTCTTTAGTGGCGGTTGTGA-AAAAAATCGCTAAAAATCAT-TCGCTA
1 CGCCGCTAAATGTCATGCTCTTTACTGGCGATTGTGATAAAAAATCGCTAAAGATCATGT-GCTA
*
23549160 TAGCGGCGTTTGTGATAAAAG
65 TAGCAGCGTTTGTGATAAAAG
* * * * * * *
23549181 CGCCGCTAAATGTCATGCTCTTTACCGGCGTTTGTGATAAAAGTACCGCTAAAGGTCATGTTCTT
1 CGCCGCTAAATGTCATGCTCTTTACTGGCGATTGTGATAAAA-AATCGCTAAAGATCATGTGCTA
*
23549246 TAGCAGTGTTTGTGATAAAAG
65 TAGCAGCGTTTGTGATAAAAG
* * * *
23549267 CACCACTAAAGGTCATGTTCTTTACTGGC-ATCTGTGATAAAAACATCGCTAAAGATCAT
1 CGCCGCTAAATGTCATGCTCTTTACTGGCGAT-TGTGATAAAAA-ATCGCTAAAGATCAT
23549326 ATTTTTTAGC
Statistics
Matches: 119, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
84 33 0.28
85 5 0.04
86 80 0.67
87 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (85 bp):
CGCCGCTAAATGTCATGCTCTTTACTGGCGATTGTGATAAAAAATCGCTAAAGATCATGTGCTAT
AGCAGCGTTTGTGATAAAAG
Found at i:23549210 original size:43 final size:43
Alignment explanation
Indices: 23549099--23549428 Score: 200
Period size: 43 Copynumber: 7.7 Consensus size: 43
23549089 TCCATAAACG
** * * *
23549099 CCGCTAAATATCATGCTCTTTAGTGGCGGTTGTGA-AAAA-AA
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGATAAAAGCA
* ** * * * *
23549140 TCGCTAAAAATCATTCGCTATAGCGGCGTTTGTGATAAAAGCG
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGATAAAAGCA
* * *
23549183 CCGCTAAATGTCATGCTCTTTACCGGCGTTTGTGATAAAAGTA
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGATAAAAGCA
* * *
23549226 CCGCTAAAGGTCATGTTCTTTAGCAGTGTTTGTGATAAAAGCA
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGATAAAAGCA
* * * * *
23549269 CCACTAAAGGTCATGTTCTTTA-CTGGCATCTGTGATAAAAACA
1 CCGCTAAAGGTCATGCTCTTTAGC-GGCGTTTGTGATAAAAGCA
* * ** * ** * **
23549312 TCGCTAAAGATCATATTTTTTAGCGATGTTTGTAGGT-AAAGTG
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGT-GATAAAAGCA
* * * * * * *
23549355 TCGCTAAAGGTCATGTTCTTTAGCAGCATTTTTTATAAAAGCG
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGATAAAAGCA
** * * * *
23549398 CCATTAAAGGTTATGTTCTATAACGGCGTTT
1 CCGCTAAAGGTCATGCTCTTTAGCGGCGTTT
23549429 TTTTCGCATA
Statistics
Matches: 221, Mismatches: 62, Indels: 10
0.75 0.21 0.03
Matches are distributed among these distances:
41 28 0.13
42 6 0.03
43 184 0.83
44 3 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (43 bp):
CCGCTAAAGGTCATGCTCTTTAGCGGCGTTTGTGATAAAAGCA
Found at i:23549362 original size:86 final size:86
Alignment explanation
Indices: 23549167--23549376 Score: 235
Period size: 86 Copynumber: 2.4 Consensus size: 86
23549157 CTATAGCGGC
* * * * * **
23549167 GTTTGTGATAAAAGCGCCGCTAAATGTCATGCTCTTTACCGGCGTTTGTGATAAAAGTACCGCTA
1 GTTTGTGATAAAAGCACCGCTAAAGGTCATGTTCTTTACCGGCATCTGTGATAAAAACACCGCTA
* *
23549232 AAGGTCATGTTCTTTAGCAGT
66 AAGATCATATTCTTTAGCAGT
* * *
23549253 GTTTGTGATAAAAGCACCACTAAAGGTCATGTTCTTTACTGGCATCTGTGATAAAAACATCGCTA
1 GTTTGTGATAAAAGCACCGCTAAAGGTCATGTTCTTTACCGGCATCTGTGATAAAAACACCGCTA
*
23549318 AAGATCATATTTTTTAGC-GAT
66 AAGATCATATTCTTTAGCAG-T
* ***
23549339 GTTTGTAGGT-AAAGTGTCGCTAAAGGTCATGTTCTTTA
1 GTTTGT-GATAAAAGCACCGCTAAAGGTCATGTTCTTTA
23549377 GCAGCATTTT
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
85 1 0.01
86 101 0.97
87 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (86 bp):
GTTTGTGATAAAAGCACCGCTAAAGGTCATGTTCTTTACCGGCATCTGTGATAAAAACACCGCTA
AAGATCATATTCTTTAGCAGT
Found at i:23552361 original size:26 final size:26
Alignment explanation
Indices: 23552325--23552379 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
23552315 TTCCAGCATA
23552325 CATTGTTTCTTAGCTCTTCATCTTCT
1 CATTGTTTCTTAGCTCTTCATCTTCT
23552351 CATTGTTTCTTAGCTCTTCATCTTCT
1 CATTGTTTCTTAGCTCTTCATCTTCT
23552377 CAT
1 CAT
23552380 CTTTGTTTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.13, C:0.27, G:0.07, T:0.53
Consensus pattern (26 bp):
CATTGTTTCTTAGCTCTTCATCTTCT
Found at i:23553543 original size:95 final size:95
Alignment explanation
Indices: 23553436--23553626 Score: 382
Period size: 95 Copynumber: 2.0 Consensus size: 95
23553426 TTAATCCCTG
23553436 TACTTTTTTTTGGGTCTTTTTTTGTCCAATGTACTTTCCAAATTTTAACATATTATCATATAATA
1 TACTTTTTTTTGGGTCTTTTTTTGTCCAATGTACTTTCCAAATTTTAACATATTATCATATAATA
23553501 TCATGTCAGCTTATTATTTCCATGTATTAC
66 TCATGTCAGCTTATTATTTCCATGTATTAC
23553531 TACTTTTTTTTGGGTCTTTTTTTGTCCAATGTACTTTCCAAATTTTAACATATTATCATATAATA
1 TACTTTTTTTTGGGTCTTTTTTTGTCCAATGTACTTTCCAAATTTTAACATATTATCATATAATA
23553596 TCATGTCAGCTTATTATTTCCATGTATTAC
66 TCATGTCAGCTTATTATTTCCATGTATTAC
23553626 T
1 T
23553627 TTTTAAAAAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 96 1.00
ACGTcount: A:0.25, C:0.16, G:0.08, T:0.51
Consensus pattern (95 bp):
TACTTTTTTTTGGGTCTTTTTTTGTCCAATGTACTTTCCAAATTTTAACATATTATCATATAATA
TCATGTCAGCTTATTATTTCCATGTATTAC
Found at i:23555607 original size:13 final size:13
Alignment explanation
Indices: 23555589--23555618 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
23555579 AATAAAATGG
*
23555589 ATATAAACCTTGA
1 ATATAAACCTTAA
23555602 ATATAAACCTTAA
1 ATATAAACCTTAA
23555615 ATAT
1 ATAT
23555619 TCTTACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.33
Consensus pattern (13 bp):
ATATAAACCTTAA
Found at i:23555796 original size:243 final size:243
Alignment explanation
Indices: 23555368--23555838 Score: 924
Period size: 243 Copynumber: 1.9 Consensus size: 243
23555358 CGGGTAACAT
23555368 TTAAATATTCTTACATTTCGAATAATTCGATTAATAGTAATTCAGTTCGAGTATTAATCAAATCG
1 TTAAATATTCTTACATTTCGAATAATTCGATTAATAGTAATTCAGTTCGAGTATTAATCAAATCG
23555433 ACTGTTTGAATACCCTTATATTTAATGCTTAACTAACAAGCCATGCGTACAGTGATAAGATACAT
66 ACTGTTTGAATACCCTTATATTTAATGCTTAACTAACAAGCCATGCGTACAGTGATAAGATACAT
23555498 TACACTTTTAAGGGAGATTGTAGATTCGAATCTTAAAAACGTTATTATTAGAAGAAACAACAATA
131 TACACTTTTAAGGGAGATTGTAGATTCGAATCTTAAAAACGTTATTATTAGAAGAAACAACAATA
*
23555563 AACCTTGAATATAAATAATAAAATGGATATAAACCTTGAATATAAACC
196 AACCTTGAATATAAACAATAAAATGGATATAAACCTTGAATATAAACC
*
23555611 TTAAATATTCTTACATTTCGAATAATTCGATTAATAGTAATTCGGTTCGAGTATTAATCAAATCG
1 TTAAATATTCTTACATTTCGAATAATTCGATTAATAGTAATTCAGTTCGAGTATTAATCAAATCG
23555676 ACTGTTTGAATACCCTTATATTTAATGCTTAACTAACAAGCCATGCGTACAGTGATAAGATACAT
66 ACTGTTTGAATACCCTTATATTTAATGCTTAACTAACAAGCCATGCGTACAGTGATAAGATACAT
23555741 TACACTTTTAAGGGAGATTGTAGATTCGAATCTTAAAAACGTTATTATTAGAAGAAACAACAATA
131 TACACTTTTAAGGGAGATTGTAGATTCGAATCTTAAAAACGTTATTATTAGAAGAAACAACAATA
23555806 AACCTTGAATATAAACAATAAAATGGATATAAA
196 AACCTTGAATATAAACAATAAAATGGATATAAA
23555839 GAATATAAAT
Statistics
Matches: 226, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
243 226 1.00
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (243 bp):
TTAAATATTCTTACATTTCGAATAATTCGATTAATAGTAATTCAGTTCGAGTATTAATCAAATCG
ACTGTTTGAATACCCTTATATTTAATGCTTAACTAACAAGCCATGCGTACAGTGATAAGATACAT
TACACTTTTAAGGGAGATTGTAGATTCGAATCTTAAAAACGTTATTATTAGAAGAAACAACAATA
AACCTTGAATATAAACAATAAAATGGATATAAACCTTGAATATAAACC
Found at i:23556119 original size:10 final size:10
Alignment explanation
Indices: 23556062--23556146 Score: 61
Period size: 9 Copynumber: 8.6 Consensus size: 10
23556052 CTTACACAGT
23556062 ATTATA-AAA
1 ATTATATAAA
* *
23556071 ATTTTAGAAA
1 ATTATATAAA
*
23556081 ACTATAGTAAA
1 ATTATA-TAAA
23556092 ATTATAT-AA
1 ATTATATAAA
23556101 ATTAT-TAAA
1 ATTATATAAA
*
23556110 ATTTTATAAAGA
1 ATTATAT-AA-A
23556122 ATTATA-AAA
1 ATTATATAAA
* *
23556131 ATAATAAAAA
1 ATTATATAAA
23556141 ATTATA
1 ATTATA
23556147 GAGAAAATTT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 1 0.02
9 24 0.40
10 19 0.32
11 10 0.17
12 6 0.10
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (10 bp):
ATTATATAAA
Found at i:23556179 original size:18 final size:19
Alignment explanation
Indices: 23556139--23556179 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23556129 AAATAATAAA
* *
23556139 AAATTATAGAGAAAATTTG
1 AAATTATAAAAAAAATTTG
23556158 AAATTATAAAAAAAATTT-
1 AAATTATAAAAAAAATTTG
23556176 AAAT
1 AAAT
23556180 AGCCGAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
AAATTATAAAAAAAATTTG
Found at i:23556802 original size:23 final size:24
Alignment explanation
Indices: 23556758--23556802 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 24
23556748 TTTTAATAAA
*
23556758 AATAAATATTTTAATCATATATTT
1 AATAAATATTTTAATCAAATATTT
* *
23556782 AATAAA-ATTTTCATTAAATAT
1 AATAAATATTTTAATCAAATAT
23556803 AATTTTTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 12 0.67
24 6 0.33
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
AATAAATATTTTAATCAAATATTT
Found at i:23556859 original size:61 final size:57
Alignment explanation
Indices: 23556723--23556885 Score: 138
Period size: 61 Copynumber: 2.8 Consensus size: 57
23556713 GTTATTAAAT
** * * *
23556723 TTTAATAGGATTATTATCAAATAT-ATTTTAATAAAAATAAATATTTTAATCATATA
1 TTTAATAAAATTATTATTAAATATAATTTTAATAAAAATAAATATTTTAATAACATA
**
23556779 TTTAATAAAATT-TTCATTAAATATAATTTTTTTAAAATATAATATATAATTTAATAACAT-
1 TTTAATAAAATTATT-ATTAAATATAATTTTAATAAAA-ATAA-ATAT--TTTAATAACATA
*
23556839 TCTTAATATAATTATTATTAAAATATGAA--TTAATAAAAATAATATAT
1 T-TTAATAAAATTATTATT-AAATAT-AATTTTAATAAAAATAA-ATAT
23556886 AGCCTACTTT
Statistics
Matches: 87, Mismatches: 10, Indels: 16
0.77 0.09 0.14
Matches are distributed among these distances:
55 2 0.02
56 18 0.21
57 10 0.11
58 4 0.05
59 4 0.05
60 10 0.11
61 29 0.33
62 8 0.09
63 2 0.02
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (57 bp):
TTTAATAAAATTATTATTAAATATAATTTTAATAAAAATAAATATTTTAATAACATA
Found at i:23574304 original size:16 final size:16
Alignment explanation
Indices: 23574283--23574315 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23574273 TTCGCTGTAT
23574283 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23574299 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
23574315 T
1 T
23574316 AGCAAATCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:23574390 original size:44 final size:45
Alignment explanation
Indices: 23574297--23574391 Score: 131
Period size: 44 Copynumber: 2.1 Consensus size: 45
23574287 ATAGAGGCGT
*
23574297 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGT
1 AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
* * *
23574342 AATGGAATAGAGGCGTAATAG-TATTC-TTGTGTTTGGTTGAATGG
1 AATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAATGG
23574386 AATGGA
1 AATGGA
23574392 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
43 1 0.02
44 23 0.51
45 21 0.47
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (45 bp):
AATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAATGG
Found at i:23574544 original size:16 final size:16
Alignment explanation
Indices: 23574523--23574555 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23574513 CTCGCTGTAT
23574523 TGGAATAGAAGCGTAA
1 TGGAATAGAAGCGTAA
*
23574539 TGGAATAGAGGCGTAA
1 TGGAATAGAAGCGTAA
23574555 T
1 T
23574556 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAAGCGTAA
Found at i:23574817 original size:18 final size:17
Alignment explanation
Indices: 23574794--23574830 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
23574784 AATTATTATT
23574794 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
23574810 AAATATATGATTTAATA
1 AAATATATGATTTAATA
23574827 AAAT
1 AAAT
23574831 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:23574899 original size:127 final size:125
Alignment explanation
Indices: 23574599--23574840 Score: 366
Period size: 127 Copynumber: 1.9 Consensus size: 125
23574589 TAGAGGCATA
* * * *
23574599 TTCTTATATG-AATTTACT-CAAATCATAATATATGATACTATAAAATATAATTTGAAATAATTA
1 TTCTTATATGTAATTTACTAAAAATCAAAATATAT-ATAATATAAAATATATTTTGAAATAATTA
*
23574662 TTATTAAATATATTTTAATTAAAATATATGTAATTTAAATAAAATTCTTAATAATCAATTAT
65 TTATTAAATATATTTTAATTAAAATATATG-AATTTAAATAAAATTCTTAATAATCAATAAT
* *
23574724 TTCTTATATGTAATTTACTAAAAATCATAATATATGATACTATAAAATATATTTTGAAATAATTA
1 TTCTTATATGTAATTTACTAAAAATCAAAATATAT-ATAATATAAAATATATTTTGAAATAATTA
23574789 TTATTAAATATATTTTAATTAAAATATATG-ATTT-AATAAAATTCTTAATAAT
65 TTATTAAATATATTTTAATTAAAATATATGAATTTAAATAAAATTCTTAATAAT
23574841 TATTACTAAT
Statistics
Matches: 113, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
124 18 0.16
125 14 0.12
126 8 0.07
127 73 0.65
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (125 bp):
TTCTTATATGTAATTTACTAAAAATCAAAATATATATAATATAAAATATATTTTGAAATAATTAT
TATTAAATATATTTTAATTAAAATATATGAATTTAAATAAAATTCTTAATAATCAATAAT
Found at i:23576228 original size:12 final size:12
Alignment explanation
Indices: 23576211--23576240 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23576201 TGGTTTCTCC
*
23576211 AGAAGCTTGAGA
1 AGAAGCTTGAAA
23576223 AGAAGCTTGAAA
1 AGAAGCTTGAAA
23576235 AGAAGC
1 AGAAGC
23576241 ATTTGATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.10, G:0.30, T:0.13
Consensus pattern (12 bp):
AGAAGCTTGAAA
Found at i:23579177 original size:35 final size:34
Alignment explanation
Indices: 23579129--23579286 Score: 106
Period size: 34 Copynumber: 4.5 Consensus size: 34
23579119 TCTACTCACT
*
23579129 AACAAATCAAGAACAATTTCCAGCAGACTATCAA
1 AACAAATCCAGAACAATTTCCAGCAGACTATCAA
* * * * * *
23579163 AACAATTTCCAGAACAA-ATCAAGAACAATATCAA
1 AACAA-ATCCAGAACAATTTCCAGCAGACTATCAA
* * *
23579197 AACAAATGC--AACAATTTCCAGTTTCATATTCTACTCACT
1 AACAAATCCAGAACAATTTCCAG---CAGA--CTA-TCA-A
*
23579236 AACAAATCAAGAACAATTTCCAGCAGACTATCAA
1 AACAAATCCAGAACAATTTCCAGCAGACTATCAA
*
23579270 AACAATTTCCAGAACAA
1 AACAA-ATCCAGAACAA
23579287 ATCAACAACA
Statistics
Matches: 91, Mismatches: 21, Indels: 23
0.67 0.16 0.17
Matches are distributed among these distances:
31 5 0.05
32 4 0.04
33 2 0.02
34 27 0.30
35 23 0.25
36 3 0.03
37 2 0.02
38 6 0.07
39 7 0.08
41 12 0.13
ACGTcount: A:0.48, C:0.23, G:0.07, T:0.22
Consensus pattern (34 bp):
AACAAATCCAGAACAATTTCCAGCAGACTATCAA
Found at i:23579189 original size:23 final size:24
Alignment explanation
Indices: 23579129--23579191 Score: 87
Period size: 23 Copynumber: 2.7 Consensus size: 24
23579119 TCTACTCACT
23579129 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAAGAACAATTTCCAGC
*
23579153 AGAC-TATCAA-AACAATTTCCAG-
1 A-ACAAATCAAGAACAATTTCCAGC
23579175 AACAAATCAAGAACAAT
1 AACAAATCAAGAACAAT
23579192 ATCAAAACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 2 0.06
22 6 0.18
23 18 0.53
24 6 0.18
25 2 0.06
ACGTcount: A:0.52, C:0.22, G:0.08, T:0.17
Consensus pattern (24 bp):
AACAAATCAAGAACAATTTCCAGC
Found at i:23579200 original size:22 final size:22
Alignment explanation
Indices: 23579158--23579203 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
23579148 CCAGCAGACT
* *
23579158 ATCAAAACAATTTCCAGAACAA
1 ATCAAAACAATATCCAAAACAA
23579180 ATCAAGAACAATAT-CAAAACAA
1 ATCAA-AACAATATCCAAAACAA
23579202 AT
1 AT
23579204 GCAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.59, C:0.20, G:0.04, T:0.17
Consensus pattern (22 bp):
ATCAAAACAATATCCAAAACAA
Found at i:23579219 original size:107 final size:107
Alignment explanation
Indices: 23579101--23579330 Score: 433
Period size: 107 Copynumber: 2.1 Consensus size: 107
23579091 ACTATACTTG
*
23579101 CAATTTCCAGTTTCATCTTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
*
23579166 AATTTCCAGAACAAATCAAGAACAATATCAAAACAAATGCAA
66 AATTTCCAGAACAAATCAACAACAATATCAAAACAAATGCAA
23579208 CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
1 CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
*
23579273 AATTTCCAGAACAAATCAACAACAATATCATAACAAATGCAA
66 AATTTCCAGAACAAATCAACAACAATATCAAAACAAATGCAA
23579315 CAATTTCCAGTTTCAT
1 CAATTTCCAGTTTCAT
23579331 TGAAAACAGC
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 120 1.00
ACGTcount: A:0.44, C:0.24, G:0.06, T:0.25
Consensus pattern (107 bp):
CAATTTCCAGTTTCATATTCTACTCACTAACAAATCAAGAACAATTTCCAGCAGACTATCAAAAC
AATTTCCAGAACAAATCAACAACAATATCAAAACAAATGCAA
Found at i:23579296 original size:23 final size:23
Alignment explanation
Indices: 23579236--23579324 Score: 80
Period size: 23 Copynumber: 4.0 Consensus size: 23
23579226 TCTACTCACT
*
23579236 AACAAATCAAGAACAATTTCCAG
1 AACAAATCAACAACAATTTCCAG
*
23579259 CAGAC-TATCAA-AACAATTTCCAG
1 -A-ACAAATCAACAACAATTTCCAG
* *
23579282 AACAAATCAACAACAATAT-CAT
1 AACAAATCAACAACAATTTCCAG
*
23579304 AACAAAT--GCAACAATTTCCAG
1 AACAAATCAACAACAATTTCCAG
23579325 TTTCATTGAA
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
20 8 0.15
21 4 0.07
22 15 0.28
23 19 0.35
24 6 0.11
25 2 0.04
ACGTcount: A:0.51, C:0.24, G:0.07, T:0.19
Consensus pattern (23 bp):
AACAAATCAACAACAATTTCCAG
Found at i:23581481 original size:20 final size:20
Alignment explanation
Indices: 23581438--23581483 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
23581428 CATGTTAGCA
*
23581438 AAAATTAAAAAATAAAACTC
1 AAAATTAAAAAATAAAAATC
*
23581458 AAAATTCAAAAAA-AAAAATT
1 AAAATT-AAAAAATAAAAATC
23581478 AAAATT
1 AAAATT
23581484 TCTTGTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.72, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATTAAAAAATAAAAATC
Found at i:23581616 original size:29 final size:25
Alignment explanation
Indices: 23581545--23581624 Score: 61
Period size: 26 Copynumber: 3.0 Consensus size: 25
23581535 ACTTAATTTT
* ** *
23581545 TTTTAAATTATAAAAAAATTAATTTA
1 TTTTAAATTTTAAAAATCTTAA-ATA
*
23581571 TTTTAAATTTTATAAATCTATAAATA
1 TTTTAAATTTTAAAAATCT-TAAATA
*
23581597 TTATTAGAATTTATAAAAATGTTAAATA
1 TT-TTA-AATTT-TAAAAATCTTAAATA
23581625 GATTTTTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
26 19 0.44
27 6 0.14
28 11 0.26
29 7 0.16
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (25 bp):
TTTTAAATTTTAAAAATCTTAAATA
Found at i:23582000 original size:37 final size:37
Alignment explanation
Indices: 23581928--23582000 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 37
23581918 CTTTTATTAG
**
23581928 GTTACACATAAAAGAAAATAATTGATAGACTTTTTTA
1 GTTACACATAAAAGAAAATAATTGATAGAAATTTTTA
** * *
23581965 GTTACACATGTAAGAAAATAATTTATATAAATTTTT
1 GTTACACATAAAAGAAAATAATTGATAGAAATTTTT
23582001 TAATTGGGAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (37 bp):
GTTACACATAAAAGAAAATAATTGATAGAAATTTTTA
Found at i:23582358 original size:22 final size:22
Alignment explanation
Indices: 23582333--23582379 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
23582323 AAAAAAAGTT
23582333 AAAAATATTTTTTATAATTTAA
1 AAAAATATTTTTTATAATTTAA
23582355 AAAAATATTTTTTATAATTTAA
1 AAAAATATTTTTTATAATTTAA
23582377 AAA
1 AAA
23582380 CTAAATCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AAAAATATTTTTTATAATTTAA
Found at i:23582485 original size:17 final size:17
Alignment explanation
Indices: 23582463--23582497 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
23582453 TGATGTGGCA
23582463 GTTCCATGTCAACAAAT
1 GTTCCATGTCAACAAAT
23582480 GTTCCATGTCAACAAAT
1 GTTCCATGTCAACAAAT
23582497 G
1 G
23582498 CCGCTAACGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (17 bp):
GTTCCATGTCAACAAAT
Found at i:23587172 original size:24 final size:24
Alignment explanation
Indices: 23587145--23587193 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
23587135 AGGATGTGTA
23587145 TCGATTAGTAATAGTTGAATAACC
1 TCGATTAGTAATAGTTGAATAACC
23587169 TCGATTAGTAATAGTTGAATAACC
1 TCGATTAGTAATAGTTGAATAACC
23587193 T
1 T
23587194 GACTGTGAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.35
Consensus pattern (24 bp):
TCGATTAGTAATAGTTGAATAACC
Found at i:23591001 original size:45 final size:45
Alignment explanation
Indices: 23590932--23591024 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
23590922 CTTCCAACCT
*
23590932 TAACAACCTTCCAAGTTACTATAAAACAGGGGAAATAAAACAGAG
1 TAACAACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
*
23590977 TAACGACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
1 TAACAACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
23591022 TAA
1 TAA
23591025 GCATTTAATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.18
Consensus pattern (45 bp):
TAACAACCTTCCAAGTTACTATAAAACAGAGGAAATAAAACAGAG
Found at i:23591451 original size:26 final size:26
Alignment explanation
Indices: 23591416--23591497 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
23591406 TATGCCCATA
23591416 CGAG-CATGTAATCGGGAAGCTCTTT
1 CGAGCCATGTAATCGGGAAGCTCTTT
* *
23591441 CGAGCCATGTAAT-AGGAAGCTCATGT
1 CGAGCCATGTAATCGGGAAGCTC-TTT
* *
23591467 -GA-CC-TGTATAACGGGAAGCTCTTG
1 CGAGCCATGTA-ATCGGGAAGCTCTTT
23591491 CGAGCCA
1 CGAGCCA
23591498 ATTATCGAGA
Statistics
Matches: 44, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
23 4 0.09
24 4 0.09
25 24 0.55
26 12 0.27
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (26 bp):
CGAGCCATGTAATCGGGAAGCTCTTT
Found at i:23598266 original size:25 final size:25
Alignment explanation
Indices: 23598223--23598344 Score: 95
Period size: 25 Copynumber: 4.9 Consensus size: 25
23598213 TATGCCCATA
* * *
23598223 CGAG-CATGTAATCGAGAAGCTCTTC
1 CGAGCCATGTAA-CGGGAAGCTCATG
23598248 CGAGCCATGTAACGGGAAGCTCATG
1 CGAGCCATGTAACGGGAAGCTCATG
* ** * * *
23598273 TGAGCTGTATAATGGGAAGCTCTTG
1 CGAGCCATGTAACGGGAAGCTCATG
* * * *
23598298 CGAGCCATTTATCGGGAAACTCATA
1 CGAGCCATGTAACGGGAAGCTCATG
*
23598323 CGAGCCAT-AAACGGGAAGCTCA
1 CGAGCCATGTAACGGGAAGCTCA
23598345 AGTGAGCTAA
Statistics
Matches: 75, Mismatches: 21, Indels: 3
0.76 0.21 0.03
Matches are distributed among these distances:
24 11 0.15
25 57 0.76
26 7 0.09
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (25 bp):
CGAGCCATGTAACGGGAAGCTCATG
Found at i:23598386 original size:24 final size:24
Alignment explanation
Indices: 23598233--23598391 Score: 90
Period size: 25 Copynumber: 6.5 Consensus size: 24
23598223 CGAGCATGTA
* * * *
23598233 ATCGAGAAGCTCTTCCGAGCCATGT
1 ATCGGGAAGCTCATGCGAGCCA-AT
* * **
23598258 AACGGGAAGCTCATGTGAGCTGTAT
1 ATCGGGAAGCTCATGCGAGC-CAAT
* *
23598283 AAT-GGGAAGCTCTTGCGAGCCATTT
1 -ATCGGGAAGCTCATGCGAGCCA-AT
* *
23598308 ATCGGGAAACTCATACGAGCC-AT
1 ATCGGGAAGCTCATGCGAGCCAAT
* * * *
23598331 AAACGGGAAGCTCAAGTGAGCTAA-
1 -ATCGGGAAGCTCATGCGAGCCAAT
*
23598355 ATTTGGGAAGCTCATGCGAGCCAAT
1 A-TCGGGAAGCTCATGCGAGCCAAT
23598380 ATCGGGAAGCTC
1 ATCGGGAAGCTC
23598392 CGGAGAGCCA
Statistics
Matches: 96, Mismatches: 30, Indels: 17
0.67 0.21 0.12
Matches are distributed among these distances:
23 2 0.02
24 44 0.46
25 49 0.51
26 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.21
Consensus pattern (24 bp):
ATCGGGAAGCTCATGCGAGCCAAT
Found at i:23599726 original size:13 final size:13
Alignment explanation
Indices: 23599708--23599734 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23599698 AGGACTCATG
23599708 TCTGTTTCTGTTC
1 TCTGTTTCTGTTC
23599721 TCTGTTTCTGTTC
1 TCTGTTTCTGTTC
23599734 T
1 T
23599735 GGTATACTGA
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:0.00, C:0.22, G:0.15, T:0.63
Consensus pattern (13 bp):
TCTGTTTCTGTTC
Found at i:23602012 original size:18 final size:19
Alignment explanation
Indices: 23601982--23602018 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
23601972 GTAACTACTC
23601982 ATTTTCCCTATTAT-AAAT
1 ATTTTCCCTATTATGAAAT
23602000 ATTTT-CCTCATTATGAAAT
1 ATTTTCCCT-ATTATGAAAT
23602019 TCTTTTTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.32, C:0.16, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTTCCCTATTATGAAAT
Found at i:23602337 original size:2 final size:2
Alignment explanation
Indices: 23602326--23602362 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23602316 TGTAATTATT
23602326 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23602363 AAAGTATGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:23603269 original size:20 final size:20
Alignment explanation
Indices: 23603241--23603292 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 20
23603231 ATAAAATTTA
23603241 ATTAGAATATATAAAT-TATATT
1 ATTA-AATAT-TAAATATA-ATT
23603263 -TTAAATACTTAAATATAATT
1 ATTAAATA-TTAAATATAATT
23603283 ATTAAATATT
1 ATTAAATATT
23603293 TATAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTAAATATTAAATATAATT
Found at i:23606678 original size:21 final size:21
Alignment explanation
Indices: 23606625--23606689 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 21
23606615 TTTTGATTTG
**
23606625 CTCTGCTTCCCTCGTTGCTG-
1 CTCTGCTTTACTCGTTGCTGC
* *
23606645 -TCTACTTTACTCGTTGTTGC
1 CTCTGCTTTACTCGTTGCTGC
*
23606665 CTCTGCTTTTCTCGTTGCTGC
1 CTCTGCTTTACTCGTTGCTGC
23606686 CTCT
1 CTCT
23606690 ATTTTAAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
19 15 0.42
21 21 0.58
ACGTcount: A:0.03, C:0.34, G:0.17, T:0.46
Consensus pattern (21 bp):
CTCTGCTTTACTCGTTGCTGC
Found at i:23611543 original size:22 final size:22
Alignment explanation
Indices: 23611518--23611559 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
23611508 TCTTCAATAT
23611518 TCTCTCTAACTCTTTTCAAAGC
1 TCTCTCTAACTCTTTTCAAAGC
* * *
23611540 TCTCTTTAATTTTTTTCAAA
1 TCTCTCTAACTCTTTTCAAA
23611560 AAATCTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (22 bp):
TCTCTCTAACTCTTTTCAAAGC
Found at i:23611598 original size:14 final size:15
Alignment explanation
Indices: 23611569--23611597 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23611559 AAAATCTAAT
23611569 TTTATTTTTTTAAAA
1 TTTATTTTTTTAAAA
23611584 TTTATTTTTTTAAA
1 TTTATTTTTTTAAA
23611598 TAAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTATTTTTTTAAAA
Found at i:23615646 original size:43 final size:43
Alignment explanation
Indices: 23615579--23615779 Score: 172
Period size: 43 Copynumber: 4.5 Consensus size: 43
23615569 AGATTTTATG
*
23615579 TTATGTATGTATGTGAGTTATGTAAGTAATGATCTGATATATAT
1 TTATGTAT-TATGTGAGTTATGTAAGTAATGATATGATATATAT
* * * *
23615623 TTATGTATTATGTAAGTTCTGTAAGTTATGGTATGATATATAT
1 TTATGTATTATGTGAGTTATGTAAGTAATGATATGATATATAT
* * * * * * *
23615666 AAATTATGAAGTTTTGTGAGTTATGATATGATATAT-ATAAGTTTTA-AG
1 ---TTATGTA-TTATGTGAGTTATG-TAAG-TA-ATGATATGATATATAT
*
23615714 TTATGTATGTATGTGAGTTATGTAAGTAATGATCTGATATATAT
1 TTATGTAT-TATGTGAGTTATGTAAGTAATGATATGATATATAT
* *
23615758 TTACGTATTATGTAAGTTATGT
1 TTATGTATTATGTGAGTTATGT
23615780 GTTTGTTTTG
Statistics
Matches: 121, Mismatches: 26, Indels: 21
0.72 0.15 0.12
Matches are distributed among these distances:
42 2 0.02
43 51 0.42
44 20 0.17
45 18 0.15
46 6 0.05
47 11 0.09
48 4 0.03
49 7 0.06
50 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.19, T:0.46
Consensus pattern (43 bp):
TTATGTATTATGTGAGTTATGTAAGTAATGATATGATATATAT
Found at i:23615688 original size:38 final size:39
Alignment explanation
Indices: 23615588--23615705 Score: 121
Period size: 38 Copynumber: 2.9 Consensus size: 39
23615578 GTTATGTATG
* * * * *
23615588 TATGTGAGTTATGTAAGTAATGATCTGATATATATTTATGTAT
1 TATGTAAGTTCTGTAAGTTATGATATGATATATA--TA--AAT
*
23615631 TATGTAAGTTCTGTAAGTTATGGTATGATATATATAAAT
1 TATGTAAGTTCTGTAAGTTATGATATGATATATATAAAT
* *
23615670 TATG-AAGTTTTGTGAGTTATGATATGATATATATAA
1 TATGTAAGTTCTGTAAGTTATGATATGATATATATAA
23615706 GTTTTAAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
38 29 0.44
39 6 0.09
41 2 0.03
43 29 0.44
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.45
Consensus pattern (39 bp):
TATGTAAGTTCTGTAAGTTATGATATGATATATATAAAT
Found at i:23615752 original size:54 final size:54
Alignment explanation
Indices: 23615688--23615845 Score: 151
Period size: 54 Copynumber: 2.9 Consensus size: 54
23615678 TTTGTGAGTT
23615688 ATGATATGATATATATAAGTTTTAAGTTATGTATGTATGTGAGTTATGTAAGTA
1 ATGATATGATATATATAAGTTTTAAGTTATGTATGTATGTGAGTTATGTAAGTA
* * * * * ** * *
23615742 ATGATCTGATATATATTTACGTATTATG-TAAGTTATG--TGTTTGTTTTGTAAGTT
1 ATGATATGATATATA--TAAGTTTTAAGTTATG-TATGTATGTGAGTTATGTAAGTA
* *
23615796 ATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTGAGTTATG
1 ATGATATGATATATATAAGTT-TTAAGTTATGTATG-TATGTGAGTTATG
23615846 ATATGATATA
Statistics
Matches: 77, Mismatches: 19, Indels: 14
0.70 0.17 0.13
Matches are distributed among these distances:
52 4 0.05
53 7 0.09
54 43 0.56
55 3 0.04
56 20 0.26
ACGTcount: A:0.32, C:0.01, G:0.20, T:0.47
Consensus pattern (54 bp):
ATGATATGATATATATAAGTTTTAAGTTATGTATGTATGTGAGTTATGTAAGTA
Found at i:23615779 original size:9 final size:9
Alignment explanation
Indices: 23615765--23615959 Score: 99
Period size: 9 Copynumber: 20.9 Consensus size: 9
23615755 TATTTACGTA
23615765 TTATGTAAG
1 TTATGTAAG
**
23615774 TTATGTGTTTG
1 TTA--TGTAAG
*
23615785 TTTTGTAAG
1 TTATGTAAG
*
23615794 TTATGGTATG
1 TTAT-GTAAG
*
23615804 ATATATATAAG
1 -T-TATGTAAG
23615815 TTAT-TAAG
1 TTATGTAAG
23615823 TTATGTAAG
1 TTATGTAAG
*
23615832 TTATGTGAG
1 TTATGTAAG
*
23615841 TTATGATATG
1 TTATG-TAAG
* *
23615851 ATATATATATG
1 -T-TATGTAAG
*
23615862 TTAT-TATG
1 TTATGTAAG
23615870 TTATGTAAG
1 TTATGTAAG
*
23615879 TTATGTGAG
1 TTATGTAAG
*
23615888 TTATGATATG
1 TTATG-TAAG
* * *
23615898 ATATAATATG
1 TTAT-GTAAG
*
23615908 TTAT-TATG
1 TTATGTAAG
23615916 TTATGTAAG
1 TTATGTAAG
*
23615925 TTATGTGAG
1 TTATGTAAG
* *
23615934 TTATATAAA
1 TTATGTAAG
*
23615943 TTATATAAG
1 TTATGTAAG
23615952 TTATGTAA
1 TTATGTAA
23615960 TTTTTGATAT
Statistics
Matches: 146, Mismatches: 27, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
8 24 0.16
9 81 0.55
10 20 0.14
11 15 0.10
12 6 0.04
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:23615865 original size:47 final size:47
Alignment explanation
Indices: 23615792--23615937 Score: 258
Period size: 47 Copynumber: 3.1 Consensus size: 47
23615782 TTGTTTTGTA
* * *
23615792 AGTTATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTG
1 AGTTATGATATGATATATATATGTTATTATGTTATGTAAGTTATGTG
23615839 AGTTATGATATGATATATATATGTTATTATGTTATGTAAGTTATGTG
1 AGTTATGATATGATATATATATGTTATTATGTTATGTAAGTTATGTG
23615886 AGTTATGATATGATATA-ATATGTTATTATGTTATGTAAGTTATGTG
1 AGTTATGATATGATATATATATGTTATTATGTTATGTAAGTTATGTG
23615932 AGTTAT
1 AGTTAT
23615938 ATAAATTATA
Statistics
Matches: 96, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 35 0.36
47 61 0.64
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.47
Consensus pattern (47 bp):
AGTTATGATATGATATATATATGTTATTATGTTATGTAAGTTATGTG
Found at i:23619336 original size:7 final size:7
Alignment explanation
Indices: 23619327--23619477 Score: 90
Period size: 7 Copynumber: 21.4 Consensus size: 7
23619317 CCCCAACCCT
*
23619327 TAAACCT
1 TAAACCA
23619334 TAAACCA
1 TAAACCA
*
23619341 TAAAGCA
1 TAAACCA
* *
23619348 TAATCCC
1 TAAACCA
23619355 TAAACTCA
1 TAAAC-CA
*
23619363 TAATCCA
1 TAAACCA
*
23619370 TAAACCT
1 TAAACCA
*
23619377 TAAA-TA
1 TAAACCA
*
23619383 GTATATCC-
1 -TA-AACCA
23619391 TAAACCA
1 TAAACCA
23619398 TAAACCA
1 TAAACCA
23619405 TAAACCA
1 TAAACCA
* *
23619412 TAATCCT
1 TAAACCA
*
23619419 TAAACCC
1 TAAACCA
* *
23619426 TAAATCT
1 TAAACCA
* *
23619433 TAAAACT
1 TAAACCA
23619440 TAAACCA
1 TAAACCA
** *
23619447 TATGCCT
1 TAAACCA
23619454 TAAACCA
1 TAAACCA
23619461 TAAACCA
1 TAAACCA
*
23619468 TAAACTA
1 TAAACCA
23619475 TAA
1 TAA
23619478 TGATAATTAA
Statistics
Matches: 108, Mismatches: 31, Indels: 10
0.72 0.21 0.07
Matches are distributed among these distances:
6 3 0.03
7 99 0.92
8 6 0.06
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCA
Found at i:23619424 original size:21 final size:21
Alignment explanation
Indices: 23619299--23619477 Score: 110
Period size: 21 Copynumber: 8.5 Consensus size: 21
23619289 CTCTAAATTC
* * *
23619299 TAAACCCTAAACCTTAAGCCC
1 TAAACCATAAACCTTAAACCA
* * *
23619320 CAACCCTTAAACCTTAAACCA
1 TAAACCATAAACCTTAAACCA
* * *
23619341 TAAAGCATAATCCCTAAACTCA
1 TAAACCATAAACCTTAAAC-CA
* *
23619363 TAATCCATAAACCTTAAA-TA
1 TAAACCATAAACCTTAAACCA
* *
23619383 GTATATCC-TAAACCATAAACCA
1 -TA-AACCATAAACCTTAAACCA
* *
23619405 TAAACCATAATCCTTAAACCC
1 TAAACCATAAACCTTAAACCA
* * *
23619426 TAAATCTTAAAACTTAAACCA
1 TAAACCATAAACCTTAAACCA
** * *
23619447 TATGCCTTAAACCATAAACCA
1 TAAACCATAAACCTTAAACCA
*
23619468 TAAACTATAA
1 TAAACCATAA
23619478 TGATAATTAA
Statistics
Matches: 117, Mismatches: 36, Indels: 10
0.72 0.22 0.06
Matches are distributed among these distances:
20 4 0.03
21 92 0.79
22 21 0.18
ACGTcount: A:0.46, C:0.28, G:0.02, T:0.24
Consensus pattern (21 bp):
TAAACCATAAACCTTAAACCA
Found at i:23619889 original size:116 final size:116
Alignment explanation
Indices: 23619754--23620007 Score: 336
Period size: 116 Copynumber: 2.2 Consensus size: 116
23619744 TCTTGCGGTG
* * **
23619754 TTTTTCAAAGAGCGTCGCTAATGCTCGACCTAT-AGCGGCGTTTTTTAAAAAGCGCTGCTAATGC
1 TTTTTCAAAGAGCGCCGCTAATGCTCGACCTATGA-CGGCGTTTTTCAAAAAGCGCCACTAATGC
*
23619818 CACTAAAGT-TCAACATAAAACGAGGTCATTGTGCTTAATTTTTTTTGCGGCA
65 CACTAAA-TCTCAACATAAAACGAGGCCATTGTGCTTAATTTTTTTTGCGGCA
* * *
23619870 TTTTTCAAAGGGTGCCGCTAATGCTCGACCTATGACGGCGTTTTTCAACAAGCGCCACTAATGCC
1 TTTTTCAAAGAGCGCCGCTAATGCTCGACCTATGACGGCGTTTTTCAAAAAGCGCCACTAATGCC
* * **
23619935 ACTAAATCTCAACATAAAACGATGCCGTTGTGCTTAA--TTTTTTGCGGTG
66 ACTAAATCTCAACATAAAACGAGGCCATTGTGCTTAATTTTTTTTGCGGCA
* *
23619984 TTTTTCAAAAAGCGTCGCTAATGC
1 TTTTTCAAAGAGCGCCGCTAATGC
23620008 CTCTAAAGCT
Statistics
Matches: 120, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
114 30 0.25
115 1 0.01
116 88 0.73
117 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (116 bp):
TTTTTCAAAGAGCGCCGCTAATGCTCGACCTATGACGGCGTTTTTCAAAAAGCGCCACTAATGCC
ACTAAATCTCAACATAAAACGAGGCCATTGTGCTTAATTTTTTTTGCGGCA
Found at i:23620039 original size:74 final size:74
Alignment explanation
Indices: 23619905--23620154 Score: 322
Period size: 74 Copynumber: 3.4 Consensus size: 74
23619895 CGACCTATGA
* * * * **
23619905 CGGCGTTTTTCAACAAGCGCCACTAATGCCACTAAATCTCAACATAAAACGATGCCGTTGTGCTT
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGATGTTGTGCTT
23619970 AATTTTTTG
66 AATTTTTTG
* * * *
23619979 CGGTGTTTTTCAAAAAGCGTCGCTAATGCCTCTAAAGCTCAACATAAAACAACGATGTTGTGCTT
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGATGTTGTGCTT
23620044 AATTTTTTG
66 AATTTTTTG
* * *
23620053 CGGCGTTTTTTAAAGAGCGCCGCTAATGCCACTAAAGCTTAACATAAAACGAC-AGTGTTGTGCT
1 CGGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGA-TGTTGTGCT
*
23620117 TAATTTTTTA
65 TAATTTTTTG
* * * *
23620127 TGGCTTTTTTCAAAGAGTGCCGCTAATG
1 CGGCGTTTTTCAAAAAGCGCCGCTAATG
23620155 TTCGACCTAT
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
73 1 0.01
74 152 0.99
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (74 bp):
CGGCGTTTTTCAAAAAGCGCCGCTAATGCCACTAAAGCTCAACATAAAACGACGATGTTGTGCTT
AATTTTTTG
Found at i:23620189 original size:40 final size:40
Alignment explanation
Indices: 23620132--23620216 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
23620122 TTTTATGGCT
*
23620132 TTTTTCAAAGAGTGCCGCTAATGTTCGACCTATAGCGGCG
1 TTTTTCAAAGAGTGCCGCTAATGCTCGACCTATAGCGGCG
* *
23620172 TTTTTCAAATA-TCGCCGCTAATGCTCGAGCTATAGCGGCG
1 TTTTTCAAAGAGT-GCCGCTAATGCTCGACCTATAGCGGCG
23620212 TTTTT
1 TTTTT
23620217 TGTCCAAACG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 1 0.02
40 40 0.98
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (40 bp):
TTTTTCAAAGAGTGCCGCTAATGCTCGACCTATAGCGGCG
Found at i:23621884 original size:54 final size:54
Alignment explanation
Indices: 23621826--23621938 Score: 190
Period size: 54 Copynumber: 2.1 Consensus size: 54
23621816 AGTTATGTCT
*
23621826 GTGTGTGCATGAATCACATGGTCGTGTGGTTAGGACGTGTAACCATTTGTGTTC
1 GTGTGTGCATGAATCACATGGTCATGTGGTTAGGACGTGTAACCATTTGTGTTC
* * *
23621880 GTGTGTGCGTGAGTCACATGGTTATGTGGTTAGGACGTGTAACCATTTGTGTTC
1 GTGTGTGCATGAATCACATGGTCATGTGGTTAGGACGTGTAACCATTTGTGTTC
23621934 GTGTG
1 GTGTG
23621939 AAAAATATGC
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.17, C:0.13, G:0.34, T:0.36
Consensus pattern (54 bp):
GTGTGTGCATGAATCACATGGTCATGTGGTTAGGACGTGTAACCATTTGTGTTC
Found at i:23626984 original size:28 final size:28
Alignment explanation
Indices: 23626950--23627003 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
23626940 TATCATATTT
23626950 ATAAATAAAGTTAATATTTTATTTTATA
1 ATAAATAAAGTTAATATTTTATTTTATA
23626978 ATAAATAAAGTTAATATTTTATTTTA
1 ATAAATAAAGTTAATATTTTATTTTA
23627004 ACTTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (28 bp):
ATAAATAAAGTTAATATTTTATTTTATA
Found at i:23634507 original size:13 final size:14
Alignment explanation
Indices: 23634487--23634527 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
23634477 ATGTGAAGAA
23634487 TATTATTTAAAATT
1 TATTATTTAAAATT
23634501 T-TTATTTTTAAAATT
1 TATTA--TTTAAAATT
23634516 TATTA-TTAAAAT
1 TATTATTTAAAAT
23634528 AAAATTGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTAAAATT
Found at i:23634512 original size:15 final size:17
Alignment explanation
Indices: 23634487--23634523 Score: 60
Period size: 15 Copynumber: 2.3 Consensus size: 17
23634477 ATGTGAAGAA
23634487 TATTATTTAAAATTT-T
1 TATTATTTAAAATTTAT
23634503 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
23634519 TATTA
1 TATTA
23634524 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:23635205 original size:11 final size:10
Alignment explanation
Indices: 23635170--23635232 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
23635160 ATTATTATTA
23635170 AATATAATTT
1 AATATAATTT
*
23635180 AATAAATAGTTT
1 AAT--ATAATTT
23635192 AATCATAATTT
1 AAT-ATAATTT
23635203 AATATAATTT
1 AATATAATTT
*
23635213 --T-T-ATTA
1 AATATAATTT
23635219 AATATAATTT
1 AATATAATTT
23635229 AATA
1 AATA
23635233 AAAATAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 12
0.71 0.08 0.20
Matches are distributed among these distances:
6 3 0.07
7 1 0.02
8 2 0.05
9 1 0.02
10 17 0.40
11 9 0.21
12 9 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (10 bp):
AATATAATTT
Found at i:23635226 original size:26 final size:24
Alignment explanation
Indices: 23635162--23635234 Score: 87
Period size: 23 Copynumber: 3.0 Consensus size: 24
23635152 TTAATAGGAT
23635162 TATTATTAAATATAATTTAATAAA
1 TATTATTAAATATAATTTAATAAA
*
23635186 TAGT-TT-AATCATAATTTAATATAA
1 TATTATTAAAT-ATAATTTAATA-AA
*
23635210 TTTTTATTAAATATAATTTAATAAA
1 -TATTATTAAATATAATTTAATAAA
23635235 AATAAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
22 3 0.07
23 13 0.32
24 5 0.12
25 4 0.10
26 13 0.32
27 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (24 bp):
TATTATTAAATATAATTTAATAAA
Found at i:23636173 original size:27 final size:27
Alignment explanation
Indices: 23636121--23636173 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
23636111 AATTCTCATA
*
23636121 ATCAAGTATAGAAGCAGAATAGAATAT
1 ATCAAGTATAGAAGCAGAATACAATAT
* *
23636148 ATCAAGTTTAGATA-CAGATTACAATA
1 ATCAAGTATAGA-AGCAGAATACAATA
23636174 GATACAGATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.26
Consensus pattern (27 bp):
ATCAAGTATAGAAGCAGAATACAATAT
Found at i:23636900 original size:63 final size:63
Alignment explanation
Indices: 23636827--23636967 Score: 194
Period size: 63 Copynumber: 2.3 Consensus size: 63
23636817 AATACCTCTC
* * * *
23636827 ACACGGCCTGGACACACGCCCGTGTCCCTAGTCCGTGTGACTCTAATTCCAAAAAAGTGAGTT
1 ACACGGCCTGGACACACGCCCGTGTCACTAGCCCGCGTGACTCTAATTCCAAAAAAGTGAGTA
* * * *
23636890 ACACGGCCTGGACACATGCCCGTGTCATTGGCCCGCGTGACTCTAATTCCAAAATAGTGAGTA
1 ACACGGCCTGGACACACGCCCGTGTCACTAGCCCGCGTGACTCTAATTCCAAAAAAGTGAGTA
*
23636953 ACACAGCCT-GACACA
1 ACACGGCCTGGACACA
23636968 TAGTCGTGTA
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
62 6 0.09
63 63 0.91
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (63 bp):
ACACGGCCTGGACACACGCCCGTGTCACTAGCCCGCGTGACTCTAATTCCAAAAAAGTGAGTA
Found at i:23645730 original size:15 final size:15
Alignment explanation
Indices: 23645710--23645738 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23645700 TTTATGCTAA
23645710 ATTGGAGATGTCAAT
1 ATTGGAGATGTCAAT
23645725 ATTGGAGATGTCAA
1 ATTGGAGATGTCAA
23645739 AAAATGATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.28, T:0.31
Consensus pattern (15 bp):
ATTGGAGATGTCAAT
Found at i:23648795 original size:45 final size:44
Alignment explanation
Indices: 23648739--23648863 Score: 144
Period size: 45 Copynumber: 2.8 Consensus size: 44
23648729 TTAGCTTGAG
* * * *
23648739 GAACGAGAAAGACCATGGTTGAAAGATATCATGGCATTATACCC
1 GAACAAGAAAGACCATAGTTGAAAGATATCATGGCATTAAACCA
*
23648783 GAAATAAGAAAGACCATAGTTGAAAGATA-CTATGGCATTAAACCA
1 G-AACAAGAAAGACCATAGTTGAAAGATATC-ATGGCATTAAACCA
* * * *
23648828 GAACAGGTAAGACCCTAGTTGAAAGATATTATGGCA
1 GAACAAGAAAGACCATAGTTGAAAGATATCATGGCA
23648864 CCACTTCGGG
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
44 31 0.46
45 37 0.54
ACGTcount: A:0.42, C:0.15, G:0.22, T:0.21
Consensus pattern (44 bp):
GAACAAGAAAGACCATAGTTGAAAGATATCATGGCATTAAACCA
Found at i:23656661 original size:50 final size:49
Alignment explanation
Indices: 23656607--23656729 Score: 133
Period size: 50 Copynumber: 2.5 Consensus size: 49
23656597 GAGGTTCCCC
*
23656607 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATA-TGAAAAC-TCCAAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCA--G-TACAGAAAACATCCAAT
* * * * * *
23656657 GTAAGACCATATCTGGGATATGACATTGGCAGTACAGGAAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGAAAACATCCAAT
*
23656706 GTAAGACCATGTCTGGGGCATGGC
1 GTAAGACCATGTCTGGGACATGGC
23656730 TTTGGCATGT
Statistics
Matches: 60, Mismatches: 11, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
47 2 0.03
48 6 0.10
49 25 0.42
50 27 0.45
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCAGTACAGAAAACATCCAAT
Found at i:23656735 original size:49 final size:49
Alignment explanation
Indices: 23656607--23656736 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
23656597 GAGGTTCCCC
* * *
23656607 GTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAAAACTCCAAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCA-CGACAGGAAAACTCCAAT
* * * *
23656657 GTAAGACCATATCTGGGATATGACATTGGCA-GTACAGG-AAACATCCCAT
1 GTAAGACCATGTCTGGGACATGGCATTGGCACG-ACAGGAAAAC-TCCAAT
* *
23656706 GTAAGACCATGTCTGGGGCATGGCTTTGGCA
1 GTAAGACCATGTCTGGGACATGGCATTGGCA
23656737 TGTTATTATC
Statistics
Matches: 66, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
48 5 0.08
49 34 0.52
50 27 0.41
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (49 bp):
GTAAGACCATGTCTGGGACATGGCATTGGCACGACAGGAAAACTCCAAT
Found at i:23656964 original size:20 final size:20
Alignment explanation
Indices: 23656939--23656987 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
23656929 TGAGTTATTT
23656939 AAGTAAGCAAGTAAGTAAAC
1 AAGTAAGCAAGTAAGTAAAC
*
23656959 AAGTAAG-AGAGTAAGTAAAG
1 AAGTAAGCA-AGTAAGTAAAC
23656979 AAG-AAGCAA
1 AAGTAAGCAA
23656988 AGACCATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.57, C:0.06, G:0.24, T:0.12
Consensus pattern (20 bp):
AAGTAAGCAAGTAAGTAAAC
Found at i:23660411 original size:12 final size:11
Alignment explanation
Indices: 23660384--23660421 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
23660374 GAAAATAGTC
23660384 AAAATTAATA-
1 AAAATTAATAT
23660394 AAAATTAACTAT
1 AAAATTAA-TAT
23660406 AAAATTAAT-T
1 AAAATTAATAT
23660416 AAAATT
1 AAAATT
23660422 CATCATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:23661223 original size:28 final size:31
Alignment explanation
Indices: 23661160--23661238 Score: 92
Period size: 33 Copynumber: 2.6 Consensus size: 31
23661150 TTTCGAGTGT
23661160 CAGTGTGGGCCTTAGCCCAATACAATATCAATA
1 CAGTGTGGGCCTTAGCCCAAT--AATATCAATA
* *
23661193 CAGTGCGGGCCTTAGCCCAAT-ATA-GAA-A
1 CAGTGTGGGCCTTAGCCCAATAATATCAATA
*
23661221 CAGTGTGGGCCTAAGCCC
1 CAGTGTGGGCCTTAGCCC
23661239 GTTACAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 17 0.40
29 2 0.05
30 3 0.07
33 20 0.48
ACGTcount: A:0.29, C:0.27, G:0.24, T:0.20
Consensus pattern (31 bp):
CAGTGTGGGCCTTAGCCCAATAATATCAATA
Found at i:23661608 original size:26 final size:26
Alignment explanation
Indices: 23661579--23661712 Score: 198
Period size: 26 Copynumber: 5.2 Consensus size: 26
23661569 TAACGGTCAT
* *
23661579 TTTACCCTTCGGGGGTATTTC-AGTAA
1 TTTACCCATCGAGGGTATTTCGA-TAA
* * *
23661605 TTTACCCATTGAGGCTATTTCGGTAA
1 TTTACCCATCGAGGGTATTTCGATAA
23661631 TTTACCCATCGAGGGTATTTCGATAA
1 TTTACCCATCGAGGGTATTTCGATAA
*
23661657 TTTACCCATCGAGGGTATTTCGATCA
1 TTTACCCATCGAGGGTATTTCGATAA
23661683 TTTACCCATCGAGGGTATTTCGATAA
1 TTTACCCATCGAGGGTATTTCGATAA
23661709 TTTA
1 TTTA
23661713 GGTCCATTAC
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
26 97 1.00
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (26 bp):
TTTACCCATCGAGGGTATTTCGATAA
Found at i:23668120 original size:21 final size:23
Alignment explanation
Indices: 23668094--23668139 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
23668084 TAAAGGGTAT
*
23668094 TTAC-AAATTAAATC-TCTAAGA
1 TTACAAAATCAAATCTTCTAAGA
*
23668115 TTACAAAATCATATCTTCTAAGA
1 TTACAAAATCAAATCTTCTAAGA
23668138 TT
1 TT
23668140 GCATATCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 8 0.38
23 9 0.43
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (23 bp):
TTACAAAATCAAATCTTCTAAGA
Found at i:23668130 original size:22 final size:21
Alignment explanation
Indices: 23668094--23668197 Score: 67
Period size: 19 Copynumber: 5.1 Consensus size: 21
23668084 TAAAGGGTAT
* *
23668094 TTACAAATTAAATCTCTAAGA
1 TTACAAATCATATCTCTAAGA
23668115 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATC-TCTAAGA
* *
23668138 TTGCATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
** *
23668157 TTTTATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
* *
23668176 TTGCATATCATA--TCTAAGA
1 TTACAAATCATATCTCTAAGA
23668195 TTA
1 TTA
23668198 TATATTATAT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
19 43 0.60
21 4 0.06
22 15 0.21
23 10 0.14
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
TTACAAATCATATCTCTAAGA
Found at i:23668138 original size:23 final size:22
Alignment explanation
Indices: 23668094--23668152 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
23668084 TAAAGGGTAT
* *
23668094 TTACAAATTAAATC-TCTAAGA
1 TTACAAATCATATCTTCTAAGA
23668115 TTACAAAATCATATCTTCTAAGA
1 TTAC-AAATCATATCTTCTAAGA
* *
23668138 TTGCATATCATATCT
1 TTACAAATCATATCT
23668153 AAGATTTTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 4 0.12
22 18 0.56
23 10 0.31
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.37
Consensus pattern (22 bp):
TTACAAATCATATCTTCTAAGA
Found at i:23668155 original size:19 final size:19
Alignment explanation
Indices: 23668131--23668241 Score: 168
Period size: 19 Copynumber: 5.8 Consensus size: 19
23668121 AATCATATCT
23668131 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
23668150 TCTAAGATTTTATATCATA
1 TCTAAGATTGCATATCATA
23668169 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
** *
23668188 TCTAAGATTATATATTATA
1 TCTAAGATTGCATATCATA
*
23668207 TCTAATATTGCATATCATA
1 TCTAAGATTGCATATCATA
23668226 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
23668242 CCTGAAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 80 1.00
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:23668747 original size:132 final size:132
Alignment explanation
Indices: 23668569--23669593 Score: 1646
Period size: 132 Copynumber: 7.8 Consensus size: 132
23668559 TAGGACTTAC
* * *
23668569 AATCTTCAACCTATTCCACTGCTGACCAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* * *
23668632 GTAACCACAGGGAGGTAAAATCTGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGAT
64 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
*
23668697 CTAA
129 CTGA
* *
23668701 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTGCTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
23668766 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
23668831 GA
131 GA
*
23668833 AATCTTCAATCTATTCCACTGTTGTCCAGGAAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
23668898 AACCACAGAGAGGTAAAATCCGCCATCTTCGATTTGCAT-CACTACTGCTTAGGGAGATAAGACC
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGC-TCCACTACTGCTTAGGGAGATAAGATC
23668962 TGA
130 TGA
23668965 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
23669030 AACCACAAGGAGGTAAAATCCACCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAG-TCC
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT-C
*
23669094 TAA
130 TGA
* *
23669097 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
*
23669162 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGAAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
23669227 GA
131 GA
* *
23669229 AATCTTCAATCTATTCCACTGTTGTTCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* * *
23669294 AACCACAGGGAGGTAAAATCCGCCATCTTTGATCTACACCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
23669359 GA
131 GA
* * *
23669361 AATCTTCAATCTACTCCACTGTTGCCCAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
* *
23669426 AACCACAGGGAGGTAAAATCCGCCATCTTCGACCTGCTCCACTACTGCTTAGGGAGAGAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
23669491 GA
131 GA
* * * *
23669493 AATCTTCAA-CATATTCCACTGTTGTCTAGGGAAATAGAATTACTAGCTCCAATGTACTCCACTG
1 AATCTTCAATC-TATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTG
* *
23669557 TAACCACAAGGAGGTAAAATCTGCCATCTTCGATCTG
65 TAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTG
23669594 TTTCGCTGTC
Statistics
Matches: 832, Mismatches: 54, Indels: 14
0.92 0.06 0.02
Matches are distributed among these distances:
131 3 0.00
132 825 0.99
133 4 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:23673593 original size:24 final size:24
Alignment explanation
Indices: 23673566--23673611 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
23673556 TCATTTGTCG
* *
23673566 TTGAAGCTGCTCTTGCATTTCCTT
1 TTGAAACTGCTCTAGCATTTCCTT
*
23673590 TTGAAACTGCTCTAGCTTTTCC
1 TTGAAACTGCTCTAGCATTTCC
23673612 ATCATTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (24 bp):
TTGAAACTGCTCTAGCATTTCCTT
Found at i:23675870 original size:31 final size:31
Alignment explanation
Indices: 23675832--23675904 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
23675822 TTCAGTCACC
*
23675832 TCTAAAAATTTGGGGTTACACCAGAAATACT
1 TCTAAAAATTTGGGGCTACACCAGAAATACT
23675863 TCTAAAAATTTGGGGCTACACCAGAAATACT
1 TCTAAAAATTTGGGGCTACACCAGAAATACT
23675894 TCTAAAAATTT
1 TCTAAAAATTT
23675905 CCACTCTATT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (31 bp):
TCTAAAAATTTGGGGCTACACCAGAAATACT
Found at i:23677143 original size:28 final size:31
Alignment explanation
Indices: 23677112--23677192 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 31
23677102 CCCTTTCCAG
*
23677112 TATCAGTGTGGGCCTTAGCCCAATA-CAATA
1 TATCAGTGTGGGCCTTAGCCCAATATAAATA
23677142 TCAATACAGTGTGGGCCTTAGCCCAATATAAA-A
1 T--AT-CAGTGTGGGCCTTAGCCCAATATAAATA
*
23677175 -AT-AGTGTGGGCCTAAGCC
1 TATCAGTGTGGGCCTTAGCC
23677193 TGTTACAGTA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 15 0.33
30 3 0.07
32 2 0.04
33 23 0.51
34 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (31 bp):
TATCAGTGTGGGCCTTAGCCCAATATAAATA
Found at i:23677390 original size:27 final size:27
Alignment explanation
Indices: 23677354--23677419 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
23677344 CAGCAGAGCT
23677354 ACCAGT-ACAGT-ATATGTGCCAAAGCC
1 ACCAGTAACAGTAAT-TGTGCCAAAGCC
** *
23677380 ACCAGTAACAGTAATTGTGGTAGAGCC
1 ACCAGTAACAGTAATTGTGCCAAAGCC
23677407 ACCAGTAACAGTA
1 ACCAGTAACAGTA
23677420 CTTTCTCCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 6 0.17
27 27 0.77
28 2 0.06
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (27 bp):
ACCAGTAACAGTAATTGTGCCAAAGCC
Found at i:23677683 original size:52 final size:52
Alignment explanation
Indices: 23677598--23677772 Score: 219
Period size: 52 Copynumber: 3.4 Consensus size: 52
23677588 CTGCCCTTCA
*
23677598 AAGG-TATTTCGATAATTTACCCATCAAGAGTATTTCGATAATTTACCCATC
1 AAGGCTATTTCGATAATTTACCCATCGAGAGTATTTCGATAATTTACCCATC
* * * *
23677649 GAGGCTCTTTCGATAATTTACCCATCGAGGGTATTTC-AGTAATTTACCTATC
1 AAGGCTATTTCGATAATTTACCCATCGAGAGTATTTCGA-TAATTTACCCATC
* * * * **
23677701 AAGGGTATTTTGGTAATTTACCCATCGAGAGTATTTCGGTAATTTAGGCATC
1 AAGGCTATTTCGATAATTTACCCATCGAGAGTATTTCGATAATTTACCCATC
*
23677753 AAGGTTATTTCGATAATTTA
1 AAGGCTATTTCGATAATTTA
23677773 GGCCCATTAC
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 4 0.04
52 99 0.96
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (52 bp):
AAGGCTATTTCGATAATTTACCCATCGAGAGTATTTCGATAATTTACCCATC
Found at i:23677729 original size:78 final size:78
Alignment explanation
Indices: 23677595--23677772 Score: 225
Period size: 78 Copynumber: 2.3 Consensus size: 78
23677585 ATTCTGCCCT
* *
23677595 TCAAAGGTATTTCGATAATTTACCCATCAAGAGTATTTCGATAATTTACCCATCGAG-GCTCTTT
1 TCAAGGGTATTTCGATAATTTACCCATCAAGAGTATTTCGATAATTTACCCATCGAGAG-TATTT
23677659 CGATAATTTACCCA
65 CGATAATTTACCCA
* * * * *
23677673 TCGAGGGTATTTC-AGTAATTTACCTATCAAGGGTATTTTGGTAATTTACCCATCGAGAGTATTT
1 TCAAGGGTATTTCGA-TAATTTACCCATCAAGAGTATTTCGATAATTTACCCATCGAGAGTATTT
* **
23677737 CGGTAATTTAGGCA
65 CGATAATTTACCCA
*
23677751 TCAAGGTTATTTCGATAATTTA
1 TCAAGGGTATTTCGATAATTTA
23677773 GGCCCATTAC
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
77 1 0.01
78 82 0.96
79 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (78 bp):
TCAAGGGTATTTCGATAATTTACCCATCAAGAGTATTTCGATAATTTACCCATCGAGAGTATTTC
GATAATTTACCCA
Found at i:23677775 original size:26 final size:25
Alignment explanation
Indices: 23677598--23677772 Score: 190
Period size: 26 Copynumber: 6.8 Consensus size: 25
23677588 CTGCCCTTCA
23677598 AAGGTATTTCGATAATTTACCCATC
1 AAGGTATTTCGATAATTTACCCATC
23677623 AAGAGTATTTCGATAATTTACCCATC
1 AAG-GTATTTCGATAATTTACCCATC
* *
23677649 GAGGCTCTTTCGATAATTTACCCATC
1 AAGG-TATTTCGATAATTTACCCATC
* *
23677675 GAGGGTATTTC-AGTAATTTACCTATC
1 -AAGGTATTTCGA-TAATTTACCCATC
* *
23677701 AAGGGTATTTTGGTAATTTACCCATC
1 AA-GGTATTTCGATAATTTACCCATC
* * **
23677727 GAGAGTATTTCGGTAATTTAGGCATC
1 AAG-GTATTTCGATAATTTACCCATC
23677753 AAGGTTATTTCGATAATTTA
1 AAGG-TATTTCGATAATTTA
23677773 GGCCCATTAC
Statistics
Matches: 126, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
25 8 0.06
26 116 0.92
27 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (25 bp):
AAGGTATTTCGATAATTTACCCATC
Found at i:23683780 original size:7 final size:7
Alignment explanation
Indices: 23683768--23683805 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
23683758 CTCATAAATA
23683768 TTATTAT
1 TTATTAT
23683775 TTATTAT
1 TTATTAT
23683782 TTATTAT
1 TTATTAT
23683789 TTATTAT
1 TTATTAT
23683796 TTATTAT
1 TTATTAT
23683803 TTA
1 TTA
23683806 CGAATCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
TTATTAT
Found at i:23688301 original size:17 final size:19
Alignment explanation
Indices: 23688265--23688302 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23688255 AAAATAAACC
23688265 AATTAAAAATAAATTTTAA
1 AATTAAAAATAAATTTTAA
*
23688284 AATTAAACA-AAA-TTTAA
1 AATTAAAAATAAATTTTAA
23688301 AA
1 AA
23688303 AAAGATCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AATTAAAAATAAATTTTAA
Found at i:23688303 original size:18 final size:19
Alignment explanation
Indices: 23688265--23688303 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23688255 AAAATAAACC
*
23688265 AATTAAAAATAAATTTTAA
1 AATTAAAAATAAATTTAAA
*
23688284 AATTAAACA-AAATTTAAA
1 AATTAAAAATAAATTTAAA
23688302 AA
1 AA
23688304 AAGATCTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTAAAAATAAATTTAAA
Found at i:23694128 original size:2 final size:2
Alignment explanation
Indices: 23694123--23694156 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
23694113 TATATATATA
23694123 TG TG TG TG TG TG TG TG TG TG TG TG TG TAG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T-G TG TG T
23694157 ACTAAGTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.03, C:0.00, G:0.47, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23694757 original size:42 final size:42
Alignment explanation
Indices: 23694696--23694922 Score: 239
Period size: 42 Copynumber: 5.5 Consensus size: 42
23694686 CAGTGCCTAT
* * *
23694696 CAGGTTTATTGCCAGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
23694738 TAGGCTTAATGCCGGTGAAATAATTTCAGACTTTATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
*
23694780 CAGGCTTAATGTCGGTGAAACAATATCAGACTTTACGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
23694822 CAGGCTTAATGCCGGTGAAA-TATTTCAGACTATATGTCTAG
1 CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
* * * *
23694863 CAGGC-TAAGTGCCGGTG-TACTGA-ATCAGGCTTTAAGTCTAG
1 CAGGCTTAA-TGCCGGTGAAAC-AATATCAGACTTTACGTCTAG
*
23694904 CAGGC-TAAGTGCCAGTGAA
1 CAGGCTTAA-TGCCGGTGAA
23694923 TCTGTTTAAA
Statistics
Matches: 156, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
40 4 0.03
41 60 0.38
42 92 0.59
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (42 bp):
CAGGCTTAATGCCGGTGAAACAATATCAGACTTTACGTCTAG
Found at i:23700486 original size:26 final size:26
Alignment explanation
Indices: 23700456--23700517 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
23700446 TTTCCCTAGC
23700456 AAAATTTTGACGATTTTGCCCCAAGT
1 AAAATTTTGACGATTTTGCCCCAAGT
*
23700482 AAAATTTTAACGATTTTGCCCCAAGT
1 AAAATTTTGACGATTTTGCCCCAAGT
23700508 AAAATTTTGA
1 AAAATTTTGA
23700518 AAAAATATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (26 bp):
AAAATTTTGACGATTTTGCCCCAAGT
Found at i:23705763 original size:28 final size:28
Alignment explanation
Indices: 23705708--23705761 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
23705698 TTAAAAAACC
*
23705708 ATAAATTTTTATAAAAAAATTATTTTTT
1 ATAAAGTTTTATAAAAAAATTATTTTTT
*
23705736 ATAAAGTTTTAT--AGAAATTATTTTTT
1 ATAAAGTTTTATAAAAAAATTATTTTTT
23705762 TTCTCATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
28 11 0.46
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
ATAAAGTTTTATAAAAAAATTATTTTTT
Found at i:23706137 original size:10 final size:9
Alignment explanation
Indices: 23706059--23706155 Score: 59
Period size: 10 Copynumber: 10.0 Consensus size: 9
23706049 TAATAAATTT
23706059 ATTTTTATA
1 ATTTTTATA
*
23706068 AATTTTATAA
1 ATTTTTAT-A
* *
23706078 AATTTTATG
1 ATTTTTATA
* *
23706087 GTTTTTCACTT
1 ATTTTT-A-TA
23706098 ATTTTTAATA
1 ATTTTT-ATA
*
23706108 ATTATTATGA
1 ATTTTTAT-A
* *
23706118 ATTCTAATA
1 ATTTTTATA
23706127 ATCTTTTATA
1 AT-TTTTATA
23706137 ATTTTTATA
1 ATTTTTATA
23706146 TATTTTTATA
1 -ATTTTTATA
23706156 TAATTTTAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
9 23 0.33
10 39 0.57
11 7 0.10
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (9 bp):
ATTTTTATA
Found at i:23706156 original size:10 final size:10
Alignment explanation
Indices: 23706130--23706163 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
23706120 TCTAATAATC
23706130 TTTTATA-AT
1 TTTTATATAT
23706139 TTTTATATAT
1 TTTTATATAT
*
23706149 TTTTATATAA
1 TTTTATATAT
23706159 TTTTA
1 TTTTA
23706164 AAATGAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTTATATAT
Found at i:23708029 original size:14 final size:14
Alignment explanation
Indices: 23707996--23708038 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
23707986 ATATAAAGAG
*
23707996 ATTAAATTCCAAAA
1 ATTAAATTCTAAAA
*
23708010 ATTTAAATTATAAAA
1 A-TTAAATTCTAAAA
23708025 ATTAAATTCTAAAA
1 ATTAAATTCTAAAA
23708039 CTAAGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (14 bp):
ATTAAATTCTAAAA
Done.