Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 137 of 216
Found at i:43497797 original size:73 final size:73
Alignment explanation
Indices: 43497706--43497846 Score: 221
Period size: 73 Copynumber: 1.9 Consensus size: 73
43497696 ACAAAGATAA
* ** *
43497706 TAATTAGTGAATCTTTATTGTTTTTCCGTTCAAATATGTCTCAT-ACTCCTCTTATTAGCATTCT
1 TAATTAGTGAATCTTTATTATTTTTCAATTCAAATATGTCTC-TCACTCCTCTTATTAGCATACT
43497770 TACTAAGAC
65 TACTAAGAC
*
43497779 TAATTAGTGAATCTTTATTATTTTTCAATTTAAATATGTCTCTCACTCCTCTTATTAGCATACTT
1 TAATTAGTGAATCTTTATTATTTTTCAATTCAAATATGTCTCTCACTCCTCTTATTAGCATACTT
43497844 ACT
66 ACT
43497847 GAGAATAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
72 1 0.02
73 61 0.98
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.47
Consensus pattern (73 bp):
TAATTAGTGAATCTTTATTATTTTTCAATTCAAATATGTCTCTCACTCCTCTTATTAGCATACTT
ACTAAGAC
Found at i:43501243 original size:12 final size:11
Alignment explanation
Indices: 43501217--43501250 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
43501207 TAGACCCAGG
43501217 ATGAATTAATT
1 ATGAATTAATT
*
43501228 ATGAATTCATTT
1 ATGAATT-AATT
43501240 ATGAATTAATT
1 ATGAATTAATT
43501251 CACTTGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (11 bp):
ATGAATTAATT
Found at i:43505662 original size:21 final size:23
Alignment explanation
Indices: 43505636--43505682 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
43505626 AAAATGTATG
43505636 AATTGTACA-A-A-TTGATAGATA
1 AATTGTACAGATACTTG-TAGATA
43505657 AATTGTACAGATACTTGTAGATA
1 AATTGTACAGATACTTGTAGATA
43505680 AAT
1 AAT
43505683 AATGTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 9 0.39
22 1 0.04
23 10 0.43
24 3 0.13
ACGTcount: A:0.45, C:0.06, G:0.15, T:0.34
Consensus pattern (23 bp):
AATTGTACAGATACTTGTAGATA
Found at i:43512706 original size:72 final size:71
Alignment explanation
Indices: 43512246--43512717 Score: 421
Period size: 72 Copynumber: 6.6 Consensus size: 71
43512236 ACGAAAACCC
* ** * * * * * *
43512246 AAATAGTTAGCGAGATTTAAAAGCTCTCAACTGTCATTATTAATGCTCGCAAGTTCAATACCACA
1 AAATAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTACA
*
43512311 ACCCCA
66 ACCCCT
* * * * ** *
43512317 AAATAATTAGCGAGACTTAAAAGCTCTCATTTGTTATCGTTAAGGCTCGTAGGTTTAAAACCACA
1 AAATAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTACA
43512382 ACCCCCT
66 A-CCCCT
* * * * * * * **
43512389 AAATAGTTAGTGAGGGATAAAAGCTC-CTAGCTATCATAATTAAGGCTCGTAGGTTTAAAATTGT
1 AAATAGTTAGCGAGAGTTAAAAGCTCTC-AGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTAC
* *
43512453 AGCCCCCC
65 A-ACCCCT
* * * *
43512461 AAATAGTTACCGAGAGTTAAAAGCT-TCCAGCTGTCATCATTAAGGCTCGTAGGTTTAAAACCAC
1 AAATAGTTAGCGAGAGTTAAAAGCTCT-CAGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTAC
*
43512525 AACCCTCA
65 AACCC-CT
* * * * *
43512533 AAATAGTTAGCGAGAGTTAAAAGCTCCCAACTT-TCATTATTAAGGCTTGCAGGATTAAAACTAC
1 AAATAGTTAGCGAGAGTTAAAAGCTCTC-AGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTAC
*
43512597 AACCCCC
65 AACCCCT
* * * * **
43512604 AAATAGTTAACAAGAGTTAAAAGCTTTCAGTTGTCATTAATAAGGCTCGTAGGTTTAAAACTGTA
1 AAATAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTACA
* *
43512669 GTCTCCT
66 -ACCCCT
*
43512676 AAACAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTC-TTATTAA
1 AAATAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTCATTATTAA
43512718 AGCTTGCAAG
Statistics
Matches: 320, Mismatches: 71, Indels: 20
0.78 0.17 0.05
Matches are distributed among these distances:
70 3 0.01
71 115 0.36
72 199 0.62
73 3 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (71 bp):
AAATAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTCATTATTAAGGCTCGTAGGTTTAAAACTACA
ACCCCT
Found at i:43512746 original size:143 final size:142
Alignment explanation
Indices: 43512241--43512754 Score: 475
Period size: 143 Copynumber: 3.6 Consensus size: 142
43512231 GTTCAACGAA
* *
43512241 AACCC-AAATAGTTAGCGAGATTTAAAAGCTCTCAA-CTGTCATTATTAATGCTCGCAAGTTCAA
1 AACCCTAAATAGTTAGCGAGAGTTAAAAGCTCTCAAGCTGTCATTATTAAGGCTCGCAAGTTCAA
* * * * * * * * *
43512304 TACCACAACCCCAAAATAATTAGCGAGACTTAAAAGCTCTCATTTGTTATCGTTAAGGCTCGTAG
66 AACCACAACCCCCAAATAGTTAACGAGAGTTAAAAGCTTTCAGTTGTCATCATTAAGGCTCGTAG
43512369 GTTTAAAACCAC
131 GTTTAAAACCAC
* * * * * * * * *
43512381 AACCCCCTAAATAGTTAGTGAGGGATAAAAGCTC-CTAGCTATCATAATTAAGGCTCGTAGGTTT
1 AA--CCCTAAATAGTTAGCGAGAGTTAAAAGCTCTCAAGCTGTCATTATTAAGGCTCGCAAGTTC
**** * * * *
43512445 AAAATTGTAGCCCCCCAAATAGTTACCGAGAGTTAAAAGCTTCCAGCTGTCATCATTAAGGCTCG
64 AAAACCACA-ACCCCCAAATAGTTAACGAGAGTTAAAAGCTTTCAGTTGTCATCATTAAGGCTCG
43512510 TAGGTTTAAAACCAC
128 TAGGTTTAAAACCAC
* * * *
43512525 AACCCTCAAAATAGTTAGCGAGAGTTAAAAGCTCCCAA-CTTTCATTATTAAGGCTTGCAGGATT
1 AACCCT--AAATAGTTAGCGAGAGTTAAAAGCTCTCAAGCTGTCATTATTAAGGCTCGCAAG-TT
* * * *
43512589 -AAAACTACAACCCCCAAATAGTTAACAAGAGTTAAAAGCTTTCAGTTGTCATTAATAAGGCTCG
63 CAAAACCACAACCCCCAAATAGTTAACGAGAGTTAAAAGCTTTCAGTTGTCATCATTAAGGCTCG
***
43512653 TAGGTTTAAAACTGT
128 TAGGTTTAAAACCAC
* * * * *
43512668 AGTCTCCTAAACAGTTAGCGAGAGTTAAAAGCTCTC-AGTTGTC-TTATTAAAGCTTGCAAGTTC
1 A-AC-CCTAAATAGTTAGCGAGAGTTAAAAGCTCTCAAGCTGTCATTATTAAGGCTCGCAAGTTC
* * *
43512731 AATACCACAGCCCCCCAAACAGTT
64 AAAACCACA-ACCCCCAAATAGTT
43512755 GGAAAAATTT
Statistics
Matches: 301, Mismatches: 59, Indels: 25
0.78 0.15 0.06
Matches are distributed among these distances:
140 2 0.01
141 2 0.01
142 32 0.11
143 148 0.49
144 110 0.37
145 7 0.02
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (142 bp):
AACCCTAAATAGTTAGCGAGAGTTAAAAGCTCTCAAGCTGTCATTATTAAGGCTCGCAAGTTCAA
AACCACAACCCCCAAATAGTTAACGAGAGTTAAAAGCTTTCAGTTGTCATCATTAAGGCTCGTAG
GTTTAAAACCAC
Found at i:43512820 original size:215 final size:213
Alignment explanation
Indices: 43512243--43512821 Score: 572
Period size: 215 Copynumber: 2.7 Consensus size: 213
43512233 TCAACGAAAA
* * * *
43512243 CCCAAATAGTTAGCGAGATTTAAAAGCTCTCAACTGTCATTATTAATGCTCGCAAGTTCAATACC
1 CCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAGCTGTCATTATTAAAGCTCGCAAGTTCAATACC
* * * ** **
43512308 ACAACCCCAAAATAATTAGCGAGACTTAAAAGCTCTCATTTGTTATCGTTAAGGCTCGTAGGTTT
66 ACACCCCCAAAATAGTTAGCGAGACTTAAAAGCTCCCAAAT-TTATTATTAAGGCTCGTAGGTTT
* *** *
43512373 AAAACCACAACCCCCTAAATAGTTAGTGAGGGATAAAAGCTCCTAGCTATCATAATTAAGGCTCG
130 AAAACCAC-ACCCCCCAAATAGTTAACAAGAGATAAAAGCTCCTAGCTATCATAATTAAGGCTCG
*
43512438 TAGGTTTAAAATTGTAGCCC
194 TAGGTTTAAAACTGTAGCCC
* * * * * * * *
43512458 CCCAAATAGTTACCGAGAGTTAAAAGCT-TCCAGCTGTCATCATTAAGGCTCGTAGGTTTAAAAC
1 CCCAAACAGTTAGCGAGAGTTAAAAGCTCT-CAGCTGTCATTATTAAAGCTCGCAAGTTCAATAC
* * * * * *
43512522 CACAACCCTCAAAATAGTTAGCGAGAGTTAAAAGCTCCCAACTTTCATTATTAAGGCTTGCAGGA
65 CAC-ACCCCCAAAATAGTTAGCGAGACTTAAAAGCTCCCAAATTT-ATTATTAAGGCTCGTAGGT
* * * * * *
43512587 TTAAAACTACAACCCCCAAATAGTTAACAAGAGTTAAAAGCT-TTCAGTTGTCATTAA-TAAGGC
128 TTAAAACCACACCCCCCAAATAGTTAACAAGAGATAAAAGCTCCT-AGCTATCA-TAATTAAGGC
* *
43512650 TCGTAGGTTTAAAACTGTAGTCT
191 TCGTAGGTTTAAAACTGTAGCCC
* * *
43512673 CCTAAACAGTTAGCGAGAGTTAAAAGCTCTCAGTTGTC-TTATTAAAGCTTGCAAGTTCAATACC
1 CCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAGCTGTCATTATTAAAGCTCGCAAGTTCAATACC
* * * ** * * * *
43512737 ACAGCCCCCCAAACAGTTGGAAAAATTTAAAAGCTCCCAAATATTATTATTAAGACTCATAGGTT
66 ACA-CCCCCAAAATAGTTAGCGAGACTTAAAAGCTCCCAAAT-TTATTATTAAGGCTCGTAGGTT
*
43512802 TAGAACCACAGCCCCCCAAA
129 TAAAACCACA-CCCCCCAAA
43512822 CAGTCGGCGA
Statistics
Matches: 292, Mismatches: 63, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
213 1 0.00
214 75 0.26
215 157 0.54
216 59 0.20
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (213 bp):
CCCAAACAGTTAGCGAGAGTTAAAAGCTCTCAGCTGTCATTATTAAAGCTCGCAAGTTCAATACC
ACACCCCCAAAATAGTTAGCGAGACTTAAAAGCTCCCAAATTTATTATTAAGGCTCGTAGGTTTA
AAACCACACCCCCCAAATAGTTAACAAGAGATAAAAGCTCCTAGCTATCATAATTAAGGCTCGTA
GGTTTAAAACTGTAGCCC
Found at i:43513303 original size:27 final size:27
Alignment explanation
Indices: 43513219--43513306 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
43513209 CTACATTCTT
* * *
43513219 ATTCCCAGTAGGAAGAGTCACATTATC
1 ATTCTCAGTAGGAGGAGTCACATTGTC
* * * *
43513246 ATTCTCAGTAGGAGGGGCCACACTGTT
1 ATTCTCAGTAGGAGGAGTCACATTGTC
*
43513273 ATTCTC-GATAGGAGGAGTCACGTTGTC
1 ATTCTCAG-TAGGAGGAGTCACATTGTC
43513300 ATTCTCA
1 ATTCTCA
43513307 ACTGGGTCCT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (27 bp):
ATTCTCAGTAGGAGGAGTCACATTGTC
Found at i:43518920 original size:18 final size:19
Alignment explanation
Indices: 43518894--43518936 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
43518884 TTTCCCAAAA
43518894 TAAATATT-ATTTACTAAAT
1 TAAATATTAATTTACT-AAT
*
43518913 TAAA-ATTAATTTTCTAAT
1 TAAATATTAATTTACTAAT
43518931 TAAATA
1 TAAATA
43518937 ATTTTCTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATATTAATTTACTAAT
Found at i:43522255 original size:21 final size:20
Alignment explanation
Indices: 43522210--43522256 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
43522200 ATTAAAATAT
* *
43522210 AAAA-ATCAAAAAATTTTAT
1 AAAATATCAAAAAATTATAA
*
43522229 AGAATATCATAAAAATTATAA
1 AAAATATCA-AAAAATTATAA
43522250 AAAATAT
1 AAAATAT
43522257 TTTTAAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 3 0.14
20 4 0.18
21 15 0.68
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (20 bp):
AAAATATCAAAAAATTATAA
Found at i:43522563 original size:39 final size:37
Alignment explanation
Indices: 43522482--43522572 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 37
43522472 GAAAAGTGCA
**
43522482 AAAAATATAAAAAATAGAAAATTACAGTAATATTATT
1 AAAAATATAAAAAATAGAAAATTACAAAAATATTATT
*
43522519 AAAAATATTCAAAAAATATAAAATTACAAAAAGTA-TA-T
1 AAAAATA-T-AAAAAATAGAAAATTACAAAAA-TATTATT
43522557 ATAAAATATAAAAAAT
1 A-AAAATATAAAAAAT
43522573 GTCTATAATT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
37 14 0.30
38 4 0.09
39 27 0.57
40 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (37 bp):
AAAAATATAAAAAATAGAAAATTACAAAAATATTATT
Found at i:43522922 original size:47 final size:48
Alignment explanation
Indices: 43522864--43522985 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 48
43522854 TTTTTATGTT
43522864 TTTTATAATATTTTGT-TAATTTTATTAAAACTTTTAATA-ATTTTT-ATA
1 TTTTAT-ATATTTT-TATAATTTTATTAAAA-TTTTAATATATTTTTCATA
* **
43522912 TTTTATATATTTTTATAATTTT-TTACAATTTTTTTATATTTTTCATA
1 TTTTATATATTTTTATAATTTTATTAAAATTTTAATATATTTTTCATA
*
43522959 ATTTATATATTTTTTATAATTTATATT
1 TTTTATATA-TTTTTATAATTT-TATT
43522986 TATTTATAAT
Statistics
Matches: 64, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
45 6 0.09
46 12 0.19
47 25 0.39
48 18 0.28
49 1 0.02
50 2 0.03
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (48 bp):
TTTTATATATTTTTATAATTTTATTAAAATTTTAATATATTTTTCATA
Found at i:43522946 original size:38 final size:39
Alignment explanation
Indices: 43522904--43523012 Score: 120
Period size: 38 Copynumber: 2.9 Consensus size: 39
43522894 CTTTTAATAA
43522904 TTTTTATATTTTAT-ATATTTTTATAATTTTTTACAATT
1 TTTTTATATTTTATAATATTTTTATAATTTTTTACAATT
* * *
43522942 TTTTTATATTTT-TCATA-ATTTATATATTTTTTATAATT
1 TTTTTATATTTTATAATATTTTTATA-ATTTTTTACAATT
* *
43522980 TATATT-TA-TTTATAATATTTTTGTAATTTTTTA
1 T-TTTTATATTTTATAATATTTTTATAATTTTTTA
43523013 ATAAGATTTA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
37 10 0.17
38 42 0.70
39 8 0.13
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (39 bp):
TTTTTATATTTTATAATATTTTTATAATTTTTTACAATT
Found at i:43523103 original size:9 final size:9
Alignment explanation
Indices: 43522826--43523085 Score: 118
Period size: 9 Copynumber: 27.7 Consensus size: 9
43522816 TTTTCCAAAT
43522826 ATTTTTA-A
1 ATTTTTATA
*
43522834 ATATTTTATG
1 AT-TTTTATA
* *
43522844 CTTTTTATG
1 ATTTTTATA
* *
43522853 CTTTTTATG
1 ATTTTTATA
*
43522862 TTTTTTATA
1 ATTTTTATA
*
43522871 ATATTTTGTTA
1 AT-TTTT-ATA
*
43522882 ATTTTATTAAA
1 A-TTT-TTATA
*
43522893 ACTTTTAATA
1 A-TTTTTATA
43522903 ATTTTTAT-
1 ATTTTTATA
43522911 A-TTTTATA
1 ATTTTTATA
43522919 TATTTTTATA
1 -ATTTTTATA
*
43522929 ATTTTTTACA
1 A-TTTTTATA
*
43522939 ATTTTTTTA
1 ATTTTTATA
43522948 TATTTTTCATA
1 -ATTTTT-ATA
*
43522959 ATTTATATA
1 ATTTTTATA
*
43522968 TTTTTTATA
1 ATTTTTATA
43522977 A--TTTATA
1 ATTTTTATA
*
43522984 TTTATTTATAA
1 ATT-TTTAT-A
*
43522995 TATTTTTGTA
1 -ATTTTTATA
43523005 ATTTTTTAATA
1 A-TTTTT-ATA
**
43523016 AGATTTATA
1 ATTTTTATA
*
43523025 ATTTATATA
1 ATTTTTATA
*
43523034 ATTTTTTTCA
1 ATTTTTAT-A
* *
43523044 ATTATAATA
1 ATTTTTATA
* *
43523053 AATTTTACA
1 ATTTTTATA
43523062 ATTTTCTAT-
1 ATTTT-TATA
43523071 ATTTTTATA
1 ATTTTTATA
43523080 ATTTTT
1 ATTTTT
43523086 GCGCTTTATA
Statistics
Matches: 190, Mismatches: 40, Indels: 43
0.70 0.15 0.16
Matches are distributed among these distances:
7 12 0.06
8 6 0.03
9 90 0.47
10 57 0.30
11 20 0.11
12 5 0.03
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (9 bp):
ATTTTTATA
Found at i:43523274 original size:38 final size:38
Alignment explanation
Indices: 43523223--43523297 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
43523213 TGACTATTAG
43523223 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTAA
1 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTAA
43523261 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTA
1 CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTA
43523298 TCATTCGAGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.37
Consensus pattern (38 bp):
CTTTAATGGTAAAAGGGCTTAATTGATTGAAATGTTAA
Found at i:43533398 original size:23 final size:24
Alignment explanation
Indices: 43533340--43533399 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
43533330 AAGAAGTCAC
43533340 TACAATATACTTTTTTAAACATTG
1 TACAATATACTTTTTTAAACATTG
* *
43533364 TATAAATATACTTTTTCT-AATATTG
1 TA-CAATATACTTTTT-TAAACATTG
43533389 TACAAT-TACTT
1 TACAATATACTT
43533400 GATTATGATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.16
24 5 0.16
25 20 0.65
26 1 0.03
ACGTcount: A:0.37, C:0.12, G:0.03, T:0.48
Consensus pattern (24 bp):
TACAATATACTTTTTTAAACATTG
Found at i:43535513 original size:6 final size:6
Alignment explanation
Indices: 43535504--43535575 Score: 51
Period size: 6 Copynumber: 11.8 Consensus size: 6
43535494 TAATTTAGCC
* * *
43535504 ATTTTT ATTTTT ATTTTT A--TTT AATTTA ATTTTT AGTTTT AGTTTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A--TTTTT
*
43535552 CATTTTA ATTTTT -TCTTTT ATTTT
1 -ATTTTT ATTTTT AT-TTTT ATTTT
43535576 CTTCTGGCAA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
4 4 0.08
5 1 0.02
6 37 0.71
7 5 0.10
8 4 0.08
9 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (6 bp):
ATTTTT
Found at i:43535570 original size:13 final size:13
Alignment explanation
Indices: 43535528--43535580 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
43535518 TTTTATTTAA
**
43535528 TTTAATTTTTAGT
1 TTTAATTTTTTCT
*
43535541 TTTAGTTTTTTCAT
1 TTTAATTTTTTC-T
43535555 TTTAATTTTTTCT
1 TTTAATTTTTTCT
43535568 TTT-ATTTTCTTCT
1 TTTAATTTT-TTCT
43535581 GGCAAGTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 5 0.15
13 17 0.50
14 12 0.35
ACGTcount: A:0.15, C:0.08, G:0.04, T:0.74
Consensus pattern (13 bp):
TTTAATTTTTTCT
Found at i:43538607 original size:29 final size:29
Alignment explanation
Indices: 43538552--43538608 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
43538542 TGGGCATTTC
* *
43538552 CACACGGGCCGGCCACACGCCCGTGTGCG
1 CACACAGGCCGGCCACACGCCCATGTGCG
* * *
43538581 CACACAGGCTGGCCACATGCCTATGTGC
1 CACACAGGCCGGCCACACGCCCATGTGC
43538609 CAGCCCGTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.40, G:0.30, T:0.12
Consensus pattern (29 bp):
CACACAGGCCGGCCACACGCCCATGTGCG
Found at i:43540737 original size:47 final size:47
Alignment explanation
Indices: 43540672--43540848 Score: 158
Period size: 47 Copynumber: 3.8 Consensus size: 47
43540662 GGCAGATTAT
* * * **
43540672 CTGCTCGACCAGTGGTTTATCCACAATGTATTTTAGGCGGCAGTCAC
1 CTGCTCAACCAATAGTTTATCCACAATGTATTTTAGGCAACAGTCAC
* * ** * *
43540719 CTGCTTAACCAATAGTTTATCCACAATGTATCTTAGTTAACAGTTAT
1 CTGCTCAACCAATAGTTTATCCACAATGTATTTTAGGCAACAGTCAC
* * * *
43540766 CTGCTCGACCAATGGTTTATCCATAATGTATTTTAGTCAACAGTCAC
1 CTGCTCAACCAATAGTTTATCCACAATGTATTTTAGGCAACAGTCAC
* * * **
43540813 TTGCTCGACTAAT-GTTATATCCACAACATATTTTAG
1 CTGCTCAACCAATAGTT-TATCCACAATGTATTTTAG
43540849 CAGCTTTTAT
Statistics
Matches: 105, Mismatches: 24, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
46 3 0.03
47 102 0.97
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
CTGCTCAACCAATAGTTTATCCACAATGTATTTTAGGCAACAGTCAC
Found at i:43540834 original size:94 final size:94
Alignment explanation
Indices: 43540668--43540838 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 94
43540658 ATTTGGCAGA
* ** *
43540668 TTATCTGCTCGACCAGTGGTTTATCCACAATGTATTTTAGGCGGCAGTCACCTGCTTAACCAATA
1 TTATCTGCTCGACCAATGGTTTATCCACAATGTATTTTAGGCAACAGTCACCTGCTCAACCAATA
43540733 GTTTATCCACAATGTATCTTAGTTAACAG
66 GTTTATCCACAATGTATCTTAGTTAACAG
* * * * *
43540762 TTATCTGCTCGACCAATGGTTTATCCATAATGTATTTTAGTCAACAGTCACTTGCTCGACTAAT-
1 TTATCTGCTCGACCAATGGTTTATCCACAATGTATTTTAGGCAACAGTCACCTGCTCAACCAATA
43540826 GTTATATCCACAA
66 GTT-TATCCACAA
43540839 CATATTTTAG
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
93 3 0.04
94 64 0.96
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.35
Consensus pattern (94 bp):
TTATCTGCTCGACCAATGGTTTATCCACAATGTATTTTAGGCAACAGTCACCTGCTCAACCAATA
GTTTATCCACAATGTATCTTAGTTAACAG
Found at i:43542220 original size:21 final size:21
Alignment explanation
Indices: 43542183--43542225 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
43542173 CGTCTATCTT
43542183 TTTTATTTTCTTCTTTA-TTA
1 TTTTATTTTCTTCTTTACTTA
43542203 TTTTATTGTTCTAT-TTTACTTA
1 TTTTATT-TTCT-TCTTTACTTA
43542225 T
1 T
43542226 CTTAGTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.72
Consensus pattern (21 bp):
TTTTATTTTCTTCTTTACTTA
Found at i:43542263 original size:12 final size:13
Alignment explanation
Indices: 43542240--43542264 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43542230 GTTTATTTAT
43542240 TTCAATTTTTTTG
1 TTCAATTTTTTTG
43542253 TTCAATTTTTTT
1 TTCAATTTTTTT
43542265 ATCTGACTTG
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:0.16, C:0.08, G:0.04, T:0.72
Consensus pattern (13 bp):
TTCAATTTTTTTG
Found at i:43544928 original size:28 final size:25
Alignment explanation
Indices: 43544882--43544935 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 25
43544872 TTGATTATTA
43544882 TTCAACTTTTTTTTAAGTTTTCCTTT
1 TTCAACTTTTTTTTAAGTTTT-CTTT
*
43544908 TTCAACTATTTTTCTTGAGTTTTCTTT
1 TTCAACT-TTTTT-TTAAGTTTTCTTT
43544935 T
1 T
43544936 AGAATAGTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 7 0.28
27 10 0.40
28 8 0.32
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.65
Consensus pattern (25 bp):
TTCAACTTTTTTTTAAGTTTTCTTT
Found at i:43545487 original size:16 final size:18
Alignment explanation
Indices: 43545461--43545497 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
43545451 TGTTTTCTAT
43545461 ATATATTTTTAATTTT-A
1 ATATATTTTTAATTTTGA
43545478 ATAT-TTTTTAATTTTGA
1 ATATATTTTTAATTTTGA
43545495 ATA
1 ATA
43545498 AACATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATATATTTTTAATTTTGA
Found at i:43545811 original size:23 final size:22
Alignment explanation
Indices: 43545781--43545828 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
43545771 TATTATCAAT
43545781 TATTTTTTTAAATCTATAAAAAA
1 TATTTTTTTAAATC-ATAAAAAA
* *
43545804 TA-TTTTTTAATTCCTAAAAAA
1 TATTTTTTTAAATCATAAAAAA
43545825 TATT
1 TATT
43545829 AAGGGTACGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
21 9 0.41
22 11 0.50
23 2 0.09
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (22 bp):
TATTTTTTTAAATCATAAAAAA
Found at i:43545812 original size:22 final size:21
Alignment explanation
Indices: 43545784--43545828 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
43545774 TATCAATTAT
43545784 TTTTTTAAATCTATAAAAAATA
1 TTTTTTAAATC-ATAAAAAATA
* *
43545806 TTTTTTAATTCCTAAAAAATA
1 TTTTTTAAATCATAAAAAATA
43545827 TT
1 TT
43545829 AAGGGTACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTTTTAAATCATAAAAAATA
Found at i:43557804 original size:47 final size:46
Alignment explanation
Indices: 43557687--43557820 Score: 135
Period size: 47 Copynumber: 2.8 Consensus size: 46
43557677 TGCACCTTGT
* * * * *
43557687 CACATATCACACACCGAAGCCATAGCCCAGCA-ATTGTCTTATACGGAT
1 CACATAT--CACACCGATGCCATATCCCAG-ATATGGTCTTACACGGAG
* * * *
43557735 CACGTATCACACTGATGTCATATCCCAGATATGGTCTTACACAGTAG
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTACAC-GGAG
*
43557782 CACATATCACACCGATGCCATATCCCAAATATGGTCTTA
1 CACATATCACACCGATGCCATATCCCAGATATGGTCTTA
43557821 TACGAAAACT
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
45 1 0.01
46 27 0.38
47 37 0.52
48 6 0.08
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (46 bp):
CACATATCACACCGATGCCATATCCCAGATATGGTCTTACACGGAG
Found at i:43564756 original size:43 final size:43
Alignment explanation
Indices: 43564707--43565382 Score: 251
Period size: 44 Copynumber: 15.6 Consensus size: 43
43564697 GTTTTAATCC
* * *
43564707 GCTCCACTACAACATCAGGGAGATAAAATGGTTTCTTTTGTCT
1 GCTCCACTACAACTTCAGGGAGATAAAATGGCTTCTTATGTCT
* * * ** *
43564750 GCTCCACTACAACTTCAGAGAGATAAGACCTGTGGTT-TTAAATCC
1 GCTCCACTACAACTTCAGGGAGATAA-A-ATG-GCTTCTTATGTCT
* * * * *
43564795 GCTCCACTGCAACTTCAAGGAGATAGGATTGGCTTCTTCTGTCT
1 GCTCCACTACAACTTCAGGGAGATA-AAATGGCTTCTTATGTCT
* * * * *
43564839 GCTCCACTGCAACTTCAGGGAGATAAGACTGG-ATGTGA--TCT
1 GCTCCACTACAACTTCAGGGAGATAA-AATGGCTTCTTATGTCT
* * * ** *
43564880 GCTCTACTACAACTTCAGAGAGATAAGATATGTGGTT-TTAAATCC
1 GCTCCACTACAACTTCAGGGAGATAA-A-ATG-GCTTCTTATGTCT
** * *
43564925 GCTCCACTGTAACTTCAGGGAGATAGAATTGGCTTCTTCTGTCT
1 GCTCCACTACAACTTCAGGGAGATA-AAATGGCTTCTTATGTCT
* * *
43564969 GCTCCACTAC--CTTCAGGGAGATAAAATTGGATGC-GA--TCT
1 GCTCCACTACAACTTCAGGGAGATAAAA-TGGCTTCTTATGTCT
* * * * * * ** *
43565008 GCTCTACTGCAACTTTAGAGAGATAATATCTGTGGTT-TTAAATCC
1 GCTCCACTACAACTTCAGGGAGATAA-A-ATG-GCTTCTTATGTCT
* * * * * *
43565053 GCTCCACTGCAACTTCAGGGAGATAGGATTGGATTCTTCTATCT
1 GCTCCACTACAACTTCAGGGAGATA-AAATGGCTTCTTATGTCT
* * * * *
43565097 GCTCCACTGCAACTTCAGGGAGATAAGACTGGATGC-GA--TCT
1 GCTCCACTACAACTTCAGGGAGATAA-AATGGCTTCTTATGTCT
* * * *
43565138 GCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTT-TTAAAT-TC-
1 GCTCCACTACAACTTCAGGGAGATAA-A-ATG-GCTTCTT--ATGTCT
* * * *
43565183 GCTCCACTACAACTTCAAGGAGATAGGATTGGCTTCTTCTGTCT
1 GCTCCACTACAACTTCAGGGAGATA-AAATGGCTTCTTATGTCT
* * * * * *
43565227 ACTCCATTGCAACTTCAGGGAGATAAGACTGGATTC-GA--TCT
1 GCTCCACTACAACTTCAGGGAGATAA-AATGGCTTCTTATGTCT
* * ** * * **
43565268 GCTCTACTGCAACTTCAAAGAGATAAGATTTGTGGTT-TTAAATCT
1 GCTCCACTACAACTTCAGGGAGATAA-A-ATG-GCTTCTTATGTCT
* * * * *
43565313 GCTCCACTGCAACTTCAGGGAGATAGGATTGACTTCTTCTGTCT
1 GCTCCACTACAACTTCAGGGAGATA-AAATGGCTTCTTATGTCT
*
43565357 GCTCCACTGCAACTTCAGGGAGATAA
1 GCTCCACTACAACTTCAGGGAGATAA
43565383 GACTAGATGT
Statistics
Matches: 477, Mismatches: 113, Indels: 86
0.71 0.17 0.13
Matches are distributed among these distances:
39 11 0.02
41 97 0.20
42 28 0.06
43 54 0.11
44 154 0.32
45 127 0.27
46 6 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
GCTCCACTACAACTTCAGGGAGATAAAATGGCTTCTTATGTCT
Found at i:43564916 original size:130 final size:130
Alignment explanation
Indices: 43564747--43565641 Score: 1344
Period size: 130 Copynumber: 6.9 Consensus size: 130
43564737 GTTTCTTTTG
* * *
43564747 TCTGCTCCACTACAACTTCAGAGAGATAAGACCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* *
43564812 AGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGTGA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
* * *
43564877 TCTGCTCTACTACAACTTCAGAGAGATAAGATATGTGGTTTTAAATCCGCTCCACTGTAACTTCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* * * *
43564942 GGGAGATAGAATTGGCTTCTTCTGTCTGCTCCACT--ACCTTCAGGGAGATAAAATTGGATGCGA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
* *
43565005 TCTGCTCTACTGCAACTTTAGAGAGATAATATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* *
43565070 GGGAGATAGGATTGGATTCTTCTATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
* * *
43565135 TCTGCTCTACTGCAACTTCAGAGAGATAAGATATGTGGTTTTAAATTCGCTCCACTACAACTTCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* * * *
43565200 AGGAGATAGGATTGGCTTCTTCTGTCTACTCCATTGCAACTTCAGGGAGATAAGACTGGATTCGA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
* * *
43565265 TCTGCTCTACTGCAACTTCAAAGAGATAAGATTTGTGGTTTTAAATCTGCTCCACTGCAACTTCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* * *
43565330 GGGAGATAGGATTGACTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGTGA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
* * * * *
43565395 TATGCTTTACTGCAACTTTAGAGAGATAAGATCTGTGGTTTTAAATCCGATCCACTGCAACTTTA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* * * * *
43565460 GGGAGATAGGATTGGCTTCTTCTTTCTGCTCTACTGTAACTTCAGGGAGATAAGACTAGATGCAA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
** * * *
43565525 TCTGCTCTACTAAAATTTCAGAAAGATAAGATTTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
1 TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
* * * *
43565590 AGGAGATAGGATTGGCTTCTTTTGTCTGTTCCACTGCAACTTTAGGGAGATA
66 GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATA
43565642 GGATTATTGT
Statistics
Matches: 688, Mismatches: 75, Indels: 4
0.90 0.10 0.01
Matches are distributed among these distances:
128 116 0.17
130 572 0.83
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (130 bp):
TCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAAATCCGCTCCACTGCAACTTCA
GGGAGATAGGATTGGCTTCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGATGCGA
Found at i:43565625 original size:44 final size:44
Alignment explanation
Indices: 43565568--43565677 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
43565558 TGTGGTTTTA
* *
43565568 AATCCGCTCCACTGCAACTTCAAGGAGATAGGATTGGCT-TCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAGGATT-ACTGTCTTT
** * * * *
43565612 TGTCTGTTCCACTGCAACTTTAGGGAGATAGGATTATTGTCTTT
1 AATCTGCTCCACTGCAACTTCAAGGAGATAGGATTACTGTCTTT
43565656 AATCTGCTCCACTGCAACTTCA
1 AATCTGCTCCACTGCAACTTCA
43565678 TGGGAATAAA
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAAGGAGATAGGATTACTGTCTTT
Found at i:43571887 original size:17 final size:17
Alignment explanation
Indices: 43571862--43571894 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43571852 GTATATATAT
43571862 AATAATATTGTAAAAAA
1 AATAATATTGTAAAAAA
*
43571879 AATATTATTGTAAAAA
1 AATAATATTGTAAAAA
43571895 TCTTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (17 bp):
AATAATATTGTAAAAAA
Found at i:43574667 original size:25 final size:25
Alignment explanation
Indices: 43574639--43574700 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
43574629 TTACAGTTCT
43574639 TATGAGCTTCCCGATATACAACTCA
1 TATGAGCTTCCCGATATACAACTCA
* *
43574664 TATGAGCTTCCCGTTATACAGCTCA
1 TATGAGCTTCCCGATATACAACTCA
* *
43574689 GAAGAGCTTCCC
1 TATGAGCTTCCC
43574701 ATTTACATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (25 bp):
TATGAGCTTCCCGATATACAACTCA
Found at i:43582143 original size:50 final size:50
Alignment explanation
Indices: 43582062--43582169 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 50
43582052 ACAACTCTCT
** * * * * * *
43582062 TGAGCTTCCCGATATTTGGCTCGCATAAGCTTCTCAATTTACAGTTCTTA
1 TGAGCTTCCCGATAAATGGCCCACATAAGCTTCCCAATCTACAGCTCGTA
* *
43582112 TGAGCTTCCCGATAAATGGCCCACATGAGCTTCCCGATCTACAGCTCGTA
1 TGAGCTTCCCGATAAATGGCCCACATAAGCTTCCCAATCTACAGCTCGTA
43582162 TGAGCTTC
1 TGAGCTTC
43582170 TCGTTTACAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.22, C:0.28, G:0.19, T:0.31
Consensus pattern (50 bp):
TGAGCTTCCCGATAAATGGCCCACATAAGCTTCCCAATCTACAGCTCGTA
Found at i:43582164 original size:25 final size:25
Alignment explanation
Indices: 43582136--43582191 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
43582126 AATGGCCCAC
43582136 ATGAGCTTCCCGATCTACA-GCTCGT
1 ATGAGCTTCCCG-TCTACATGCTCGT
* *
43582161 ATGAGCTTCTCGTTTACATGCTCGT
1 ATGAGCTTCCCGTCTACATGCTCGT
43582186 ATGAGC
1 ATGAGC
43582192 ATACATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTCTACATGCTCGT
Found at i:43591706 original size:23 final size:24
Alignment explanation
Indices: 43591660--43591736 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 24
43591650 AGATATATAA
* **
43591660 AATAATACATAATAAA-TTTGAAT
1 AATAATACATGATAAACTTAAAAT
43591683 AATAATACATGA-AAACTTAAAAT
1 AATAATACATGATAAACTTAAAAT
* * **
43591706 AATTATATATGATAATTTTAAAAT
1 AATAATACATGATAAACTTAAAAT
43591730 AATAATA
1 AATAATA
43591737 TGCAATAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
22 3 0.07
23 26 0.59
24 15 0.34
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (24 bp):
AATAATACATGATAAACTTAAAAT
Found at i:43591744 original size:24 final size:24
Alignment explanation
Indices: 43591671--43591751 Score: 71
Period size: 24 Copynumber: 3.5 Consensus size: 24
43591661 ATAATACATA
* * *
43591671 ATAAATTT-GAATAATAATACATG
1 ATAAATTTAAAATAATTATATATG
*
43591694 A-AAACTTAAAATAATTATATATG
1 ATAAATTTAAAATAATTATATATG
*
43591717 ATAATTTTAAAATAA-TA-ATATG
1 ATAAATTTAAAATAATTATATATG
43591739 CAATAAATTTAAA
1 --ATAAATTTAAA
43591752 CAATATTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
22 10 0.21
23 16 0.34
24 21 0.45
ACGTcount: A:0.56, C:0.04, G:0.05, T:0.36
Consensus pattern (24 bp):
ATAAATTTAAAATAATTATATATG
Found at i:43593686 original size:79 final size:81
Alignment explanation
Indices: 43593550--43593734 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
43593540 TTGAATGATG
*
43593550 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
43593614 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43593629 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43593691 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
43593709 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43593735 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:43593748 original size:40 final size:40
Alignment explanation
Indices: 43593551--43593734 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
43593541 TGAATGATGT
* * * *
43593551 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43593591 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43593631 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43593669 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43593710 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43593735 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43593756 original size:79 final size:79
Alignment explanation
Indices: 43593603--43593767 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
43593593 GGACTAAGAT
* **
43593603 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43593668 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43593682 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
43593745 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43593761 CCGAAGG
1 CCGAAGG
43593768 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43601557 original size:79 final size:81
Alignment explanation
Indices: 43601422--43601605 Score: 216
Period size: 79 Copynumber: 2.3 Consensus size: 81
43601412 TGAATGATGT
*
43601422 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* *
43601486 GTGCGAGATACTA-ATT
66 GTACGAGATACTATA-A
* * * * **
43601502 TCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
43601564 TGTACGAGTTACTATAA
65 TGTACGAGATACTATAA
*
43601581 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43601606 AACGAGTAGC
Statistics
Matches: 88, Mismatches: 12, Indels: 8
0.81 0.11 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.64
80 31 0.35
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTACGAGATACTATAA
Found at i:43601611 original size:40 final size:40
Alignment explanation
Indices: 43601421--43601612 Score: 203
Period size: 40 Copynumber: 4.8 Consensus size: 40
43601411 TTGAATGATG
* * * * *
43601421 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAA
* * * *
43601461 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAA
* *
43601501 TTCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
*
43601540 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-AA
* *
43601581 -CCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
43601613 AGCTATATCT
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
39 34 0.26
40 86 0.66
41 10 0.08
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAA
Found at i:43601627 original size:79 final size:79
Alignment explanation
Indices: 43601474--43601638 Score: 183
Period size: 79 Copynumber: 2.1 Consensus size: 79
43601464 GGACTAAGAT
* ** **
43601474 CCGAAGGCATTTGTGCGAGATACTAATTTCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43601539 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43601553 CCGAAGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* * *
43601616 TATAT-CTGGTTAAATT
63 TAAATCCGGGTTAAATC
43601632 CCGAAGG
1 CCGAAGG
43601639 TACGTGATTT
Statistics
Matches: 72, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.65
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43604282 original size:44 final size:43
Alignment explanation
Indices: 43604229--43605330 Score: 574
Period size: 44 Copynumber: 24.8 Consensus size: 43
43604219 TCATCGTTTT
* * *
43604229 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGCAGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* * * *
43604273 AATCTGCTCCACTACAACTTCAAGGAGATAAGGTT-T-GATAT-
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCT-TC
* * *
43604314 GATC-GTCTCTACTGCAACTTCAGAGAGAGAAGATCTACA-ATTTATAGCTTC
1 AATCTG-CTCCACTGCAACTTC--AG-G-G-AGA--TA-AGA-TTGTAGCTTC
* * * ** * *
43604365 AACCTGTTCCACCGCAGTTTCAGGGAAATAAGATT-CA-CTATC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCT-TC
* *
43604407 ATTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TCGCTTC
1 A--A-TCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
* * * * *
43604452 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* * * * * * * *
43604496 AATCTACTCCACTACAAATTTAGAGAGATCAGATTTTCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGT--AGCTTC
* * * * * * **
43604541 AGTCTGCCCCAATGTAACTTTAGGGGGATAAGACTTGCTCTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAGCTTC
* *
43604586 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTAG-TTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAGCTTC
* * * * *
43604630 AATCTGCTCCACTGCAACTTCTGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* * * * *
43604674 AATCTGCTACACTACAACTTCAGGGTGATAAGATTTGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAGCTTC
* * * * **
43604719 AGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGCTCTCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTG-TAGCTTC
* * * * *
43604764 AGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * *
43604808 AATCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * * *
43604852 AATCCT-CTCCACCGCAACTTCAGGGAGATAGGATTATTGGCTTT
1 AAT-CTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
* * * * * * *
43604896 AACCTACTCCATTGCAACTTTAAGGAGATAAGATTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-G-TAGCTTC
* * * * * **
43604941 AGTCTACCCCACTGTAACTTTAGAGG-GATAAGACTTGCTTTCTTC
1 AATCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTG-TAGCTTC
* * * * * *
43604986 AGTCTGTTACACTGCAACTTTAGGGAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * *
43605030 AATATGCTCCACTGCAACTTCAGGGAGAT-AGAATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-ATT-GTAGCTTC
* * * * *
43605074 AATCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
*** *
43605118 AATCTGCTCCACTGCAACTTCAGGGAGATAAGAATCACCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAG-AT-TGTAGCTTC
* * * * **
43605163 AGTCTGCCCCACCGCAACTTCAAAGG-GATAAGACTTGCTTTCTTC
1 AATCTGCTCCACTGCAACTTC-AGGGAGATAAGA-TTG-TAGCTTC
* * * * *
43605208 AGTCTGCTCCATTGCAACTTCAGGAAGATAAGACTTGTAACTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTGTAGCTTC
* * * * * *
43605252 AATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-GTAGCTTC
*
43605296 AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
43605331 CATCATCTTC
Statistics
Matches: 826, Mismatches: 184, Indels: 96
0.75 0.17 0.09
Matches are distributed among these distances:
40 1 0.00
41 20 0.02
42 35 0.04
43 21 0.03
44 409 0.50
45 297 0.36
46 16 0.02
47 2 0.00
48 3 0.00
49 5 0.01
50 2 0.00
51 14 0.02
52 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (43 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTGTAGCTTC
Found at i:43604828 original size:222 final size:222
Alignment explanation
Indices: 43604412--43605330 Score: 1059
Period size: 222 Copynumber: 4.1 Consensus size: 222
43604402 CTATCATTAG
* * * * * *
43604412 TCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTCGCTTCAATCCGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAG
* * * * * * * * * * * * * **
43604475 GGAGATAGGATTATTGGC-T-TT-AATCTACTCCACTACAAATTTAGAGAGATCAGATTTTCCAT
66 GGAGATAAGA-T-TCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGAGGGATAAGACTTGCTTT
* * * * * ** * *
43604537 CTTCAGTCTGCCCCAATGTAACTTTAGGGGGATAAGACTTGCTCTCTTCAGTCTGCTCCACTGCA
129 CTTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTTG-TAACTTTAATCTGCTCCACTGCA
*
43604602 ACTTCAGGGAGATAAGACTTGTTAG-TTTAA
192 ACTTCAGGGAGATAAGACTTATTAGCTTTAA
* *
43604632 TCTGCTCCACTGCAACTTCT-GGGAGATAGGATTATTGGCTTTAATCTGCTACACTACAACTTCA
1 TCTGCTCCACTGCAACTT-TAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA
* * * * *
43604696 GGGTGATAAGATTTGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGCTCTC
65 GGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGAGGGATAAGACTTGCTTTC
* *
43604761 TTCAGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAACTTTAATCTGCTCCACTACAAC
130 TTCAGTCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAAC
* * *
43604826 TTCAGAGAGATAAGACTT-GTAACTTTAA
194 TTCAGGGAGATAAGACTTATTAGCTTTAA
* * * * * *
43604854 TCCT-CTCCACCGCAACTTCAGGGAGATAGGATTATTGGCTTTAACCTACTCCATTGCAACTTTA
1 T-CTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA
* * * *
43604918 AGGAGATAAGATTCGCCATCTTCAGTCTACCCCACTGTAACTTTAGAGGGATAAGACTTGCTTTC
65 GGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGAGGGATAAGACTTGCTTTC
* * * *
43604983 TTCAGTCTGTTACACTGCAACTTTAGGGAGATAAGACTTGTAACTTTAATATGCTCCACTGCAAC
130 TTCAGTCTGCTCCACTGCAACTTCA-GGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAAC
* *
43605048 TTCAGGGAGAT-AGAATTATTGGCTTTAA
194 TTCAGGGAGATAAGACTTATTAGCTTTAA
43605076 TCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAG
* * * *
43605141 GGAGATAAGAATCACCATCTTCAGTCTGCCCCACCGCAACTTCAAAGGGATAAGACTTGCTTTCT
66 GGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGAGGGATAAGACTTGCTTTCT
* *
43605206 TCAGTCTGCTCCATTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACT
131 TCAGTCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACT
* * *
43605271 TCAAGGAGATAGGA-TTATTGGCTTTAA
195 TCAGGGAGATAAGACTTATTAGCTTTAA
*
43605298 TCTGCTCCACTGCAACTTTAGGGAGATAAGATT
1 TCTGCTCCACTGCAACTTTAGGGAGATAGGATT
43605331 CATCATCTTC
Statistics
Matches: 594, Mismatches: 90, Indels: 28
0.83 0.13 0.04
Matches are distributed among these distances:
220 32 0.05
221 13 0.02
222 484 0.81
223 65 0.11
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (222 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAG
GGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGAGGGATAAGACTTGCTTTCT
TCAGTCTGCTCCACTGCAACTTCAGGAGATAAGACTTGTAACTTTAATCTGCTCCACTGCAACTT
CAGGGAGATAAGACTTATTAGCTTTAA
Found at i:43604854 original size:178 final size:178
Alignment explanation
Indices: 43604410--43605150 Score: 659
Period size: 178 Copynumber: 4.2 Consensus size: 178
43604400 CACTATCATT
* *
43604410 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCG---CTTCAATCCGCTCCACTGCAACTT
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTT-GTTACTTCAATCTGCTCCACTGCAACTT
* * ** * * * * * *
43604472 CAGGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAAATTTAGAGAGATCAGATTTTCCAT
65 CAGGGAGATAAGATTAGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCAT
*
43604537 CTTCAGTCTGCCCCAATGTAACTTTAGGGGGATAAGACTTGCTCTCTTC
130 CTTCAGTCTGCCCCAATGCAACTTTAGGGGGATAAGACTTGCTCTCTTC
* * *
43604586 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTAGTTTAATCTGCTCCACTGCAACTTC
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAACTTC
* * * ** * *
43604651 TGGGAGATAGGATTATTGGCTTTAATCTGCTACACTACAACTTCAGGGTGATAAGATTTGCCATC
66 AGGGAGATAAGATTAGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATC
* * *
43604716 TTCAGTCTGCCCCACTGCAACTTCAGGGGGATAAAACTTGCTCTCTTC
131 TTCAGTCTGCCCCAATGCAACTTTAGGGGGATAAGACTTGCTCTCTTC
* * * *
43604764 AGTCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAACTTTAATCTGCTCCACTACAACTTC
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAACTTC
* ** * *
43604829 AGAGAGATAAGACTT-GTAACTTTAATCCT-CTCCACCGCAACTTCAGGGAGATAGGATTATTGG
66 AGGGAGATAAGA-TTAGTAACTTTAAT-CTGCTCCACTACAACTTCAGGGAGATAAGA-T-TTGC
** * * * * *
43604892 C-T-TT-AACCTACTCCATTGCAACTTTAAGGAGATAAGA-TTCGC-CATCTTC
127 CATCTTCAGTCTGCCCCAATGCAACTTTAGGGGGATAAGACTT-GCTC-TCTTC
* * * * * * * * *
43604941 AGTCTACCCCACTGTAACTTTAGAGGGATAAGACTTGCTTTCTTCAGTCTGTTACACTGCAACTT
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTG-TTACTTCAATCTGCTCCACTGCAACTT
* * *
43605006 TAGGGAGATAAGACTT-GTAACTTTAATATGCTCCACTGCAACTTCAGGGAGAT-AGAATTATTG
65 CAGGGAGATAAGA-TTAGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAG-A-T-TTG
* * * * * * ** ** *
43605069 GC-T-TT-AATCTGCTCCACTGCAACTTTAGGGAGATAGGA-TTATTGGCTTT
126 CCATCTTCAGTCTGCCCCAATGCAACTTTAGGGGGATAAGACTTGCTCTCTTC
* *
43605118 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 AGTCTGCTCCACTGCAACTTCAGAGAGATAAGA
43605151 ATCACCATCT
Statistics
Matches: 475, Mismatches: 77, Indels: 25
0.82 0.13 0.04
Matches are distributed among these distances:
175 1 0.00
176 39 0.08
177 93 0.20
178 332 0.70
179 6 0.01
180 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (178 bp):
AGTCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGTTACTTCAATCTGCTCCACTGCAACTTC
AGGGAGATAAGATTAGTAACTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATC
TTCAGTCTGCCCCAATGCAACTTTAGGGGGATAAGACTTGCTCTCTTC
Found at i:43604971 original size:400 final size:399
Alignment explanation
Indices: 43604412--43605340 Score: 1264
Period size: 400 Copynumber: 2.3 Consensus size: 399
43604402 CTATCATTAG
*
43604412 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTCG---CTTCAATCCGCTCCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCA-GGAGATAAGACTT-GTAACTTTAATCCGCTCCACTGCAACTTCA
* * * **
43604474 GGGAGATAGGATTATTGGCTTTAATCTACTCCACTACAAATTT-AGAGAGATCAGATTTTCCATC
64 GGGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAAG-GAGATAAGATTCACCATC
* * *
43604538 TTCAGTCTGCCCCAATGTAACTTTAGGGGGATAAGACTTGCTCTCTTCAGTCTGCTCCACTGCAA
128 TTCAGTCTACCCCAATGTAACTTTAGAGGGATAAGACTTGCTCTCTTCAGTCTGCTACACTGCAA
* * * * *
43604603 CTTCAGGGAGATAAGACTTGTTAGTTTAATCTGCTCCACTGCAACTTCTGGGAGATAGGATTATT
193 CTTCAGGGAGATAAGACTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATT
* *
43604668 GGCTTTAATCTGCTACACTACAACTTCAGGGTGATAAGA-T-TTGCCATCTTCAGTCTGCCCCAC
258 GGCTTTAATCTGCTACACTACAACTTCAGGGAGATAAGATTATTGCC-T-TT-AATCTGCCCCAC
* ** * * *
43604731 TGCAACTTCAGGGGGATAA-AACTTGCTC-TCTTCAGTCTGCTCCACTACAACTTCAGAGAGATA
320 TGCAACTTCAGGGAGATAAGAA-TCAC-CATCTTCAGTCTGCCCCACCACAACTTCAAAGAGATA
*
43604794 AGACTTG-TAACTTTAA
383 AGACTTGCTAACTTCAA
* * *
43604810 TCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTAACTTTAATCCTCTCCACCGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAG-GAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAG
* * *
43604875 GGAGATAGGATTATTGGCTTTAACCTACTCCATTGCAACTTTAAGGAGATAAGATTCGCCATCTT
65 GGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTCACCATCTT
* * *
43604940 CAGTCTACCCCACTGTAACTTTAGAGGGATAAGACTTGCTTTCTTCAGTCTGTTACACTGCAACT
130 CAGTCTACCCCAATGTAACTTTAGAGGGATAAGACTTGCTCTCTTCAGTCTGCTACACTGCAACT
*
43605005 TTAGGGAGATAAGACTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGG
195 TCAGGGAGATAAGACTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGG
* * * * * *
43605070 CTTTAATCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAA
260 CTTTAATCTGCTACACTACAACTTCAGGGAGATAAGATTATTGCCTTTAATCTGCCCCACTGCAA
* *
43605135 CTTCAGGGAGATAAGAATCACCATCTTCAGTCTGCCCCACCGCAACTTCAAAGGGATAAGACTTG
325 CTTCAGGGAGATAAGAATCACCATCTTCAGTCTGCCCCACCACAACTTCAAAGAGATAAGACTTG
** *
43605200 CTTTCTTCAG
390 CTAACTTCAA
* *
43605210 TCTGCTCCATTGCAACTTCAGGAAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAA
1 TCTGCTCCACTGCAACTTCAGG-AGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAG
* * *
43605275 GGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCATCATCTT
65 GGAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTCACCATCTT
43605340 C
130 C
43605341 TTCAATTCAT
Statistics
Matches: 466, Mismatches: 54, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
397 2 0.00
398 32 0.07
399 68 0.15
400 356 0.76
401 4 0.01
402 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.30
Consensus pattern (399 bp):
TCTGCTCCACTGCAACTTCAGGAGATAAGACTTGTAACTTTAATCCGCTCCACTGCAACTTCAGG
GAGATAGGATTATTGGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTCACCATCTTC
AGTCTACCCCAATGTAACTTTAGAGGGATAAGACTTGCTCTCTTCAGTCTGCTACACTGCAACTT
CAGGGAGATAAGACTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGC
TTTAATCTGCTACACTACAACTTCAGGGAGATAAGATTATTGCCTTTAATCTGCCCCACTGCAAC
TTCAGGGAGATAAGAATCACCATCTTCAGTCTGCCCCACCACAACTTCAAAGAGATAAGACTTGC
TAACTTCAA
Found at i:43605218 original size:178 final size:177
Alignment explanation
Indices: 43604832--43605340 Score: 526
Period size: 178 Copynumber: 2.9 Consensus size: 177
43604822 CAACTTCAGA
* * * *
43604832 GAGATAAGACTTGTAACTTTAATCCT-CTCCACCGCAACTTCAGGGAGATAGGATTATTGGCTTT
1 GAGATAAGACTTGTAACTTCAAT-ATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTT
* * * * * * * * * *
43604896 AACCTACTCCATTGCAACTTTAAGGAGATAAGA-T-TCGCCATCTTCAGTCTACCCCACTGTAAC
65 AATCTGCTCCACTGCAACTTTAAGGAGATAGGATTATTGGC-T-TT-AATCTGCTCCACTGCAAC
* ** ** ** * * *
43604959 TTTAGAGG-GATAAGACTTGCTTTCTTCAGTCTGTTACACTGCAACTTTAGG
127 TTTAG-GGAGATAAGAATCACCATCTTCAGTCTGCCACACCGCAACTTAAAG
*
43605010 GAGATAAGACTTGTAACTTTAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTA
1 GAGATAAGACTTGTAACTTCAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTA
* *
43605075 ATCTGCTCCACTGCAACTTTAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA
66 ATCTGCTCCACTGCAACTTTAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTTA
*
43605140 GGGAGATAAGAATCACCATCTTCAGTCTGCCCCACCGCAACTTCAAAG
131 GGGAGATAAGAATCACCATCTTCAGTCTGCCACACCGCAACTT-AAAG
** * * * * * * **
43605188 G-GATAAGACTTGCTTTCTTCAGTCTGCTCCATTGCAACTTCAGGAAGATAAGACTT-GTAACTT
1 GAGATAAGACTTG-TAACTTCAATATGCTCCACTGCAACTTCAGGGAGAT-AGAATTATTGGCTT
* *
43605251 TAATCCGCTCCACTGCAACTTCAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTT
64 TAATCTGCTCCACTGCAACTTTAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTT
* *
43605316 TAGGGAGATAAGATTCATCATCTTC
129 TAGGGAGATAAGAATCACCATCTTC
43605341 TTCAATTCAT
Statistics
Matches: 281, Mismatches: 43, Indels: 14
0.83 0.13 0.04
Matches are distributed among these distances:
176 2 0.01
177 60 0.21
178 209 0.74
179 7 0.02
180 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (177 bp):
GAGATAAGACTTGTAACTTCAATATGCTCCACTGCAACTTCAGGGAGATAGAATTATTGGCTTTA
ATCTGCTCCACTGCAACTTTAAGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTTA
GGGAGATAAGAATCACCATCTTCAGTCTGCCACACCGCAACTTAAAG
Found at i:43605624 original size:24 final size:24
Alignment explanation
Indices: 43605588--43605634 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
43605578 GCCCCTACTA
*
43605588 TAATGTTCAAGGTTCAATCCACTG
1 TAATCTTCAAGGTTCAATCCACTG
*
43605612 TAATCTTCCAGGTTCAATCCACT
1 TAATCTTCAAGGTTCAATCCACT
43605635 ATACTTTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.34
Consensus pattern (24 bp):
TAATCTTCAAGGTTCAATCCACTG
Found at i:43610456 original size:24 final size:25
Alignment explanation
Indices: 43610429--43610479 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
43610419 ATCATATATG
* *
43610429 TATATACGTATAATATA-AATTGTA
1 TATATACATATAAAATATAATTGTA
*
43610453 TATATACATATAAAATATTATTGTA
1 TATATACATATAAAATATAATTGTA
43610478 TA
1 TA
43610480 GGAAAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 15 0.65
25 8 0.35
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (25 bp):
TATATACATATAAAATATAATTGTA
Found at i:43610639 original size:23 final size:22
Alignment explanation
Indices: 43610592--43610685 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 22
43610582 ATATTAATTT
* *
43610592 TACATAAAGATATATAA-AATAA
1 TACATAAAAATTTA-AATAATAA
43610614 TACATAATAAATTTAAATAATAA
1 TACATAA-AAATTTAAATAATAA
* *
43610637 TACATGAAAAATTAAAATAATTA
1 TACAT-AAAAATTTAAATAATAA
* *
43610660 TATATGACAAATTTAAAATAATAA
1 TACAT-AAAAATTT-AAATAATAA
43610684 TA
1 TA
43610686 TGCGATAAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
22 9 0.15
23 39 0.65
24 12 0.20
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (22 bp):
TACATAAAAATTTAAATAATAA
Found at i:43610680 original size:24 final size:23
Alignment explanation
Indices: 43610606--43610700 Score: 90
Period size: 24 Copynumber: 4.2 Consensus size: 23
43610596 TAAAGATATA
43610606 TAAAATAATACATA-AT--AAATT
1 TAAAATAATA-ATATATGAAAATT
* *
43610627 T-AAATAATAATACATGAAAAAT
1 TAAAATAATAATATATGAAAATT
*
43610649 TAAAATAATTATATATGACAAATT
1 TAAAATAATAATATATGA-AAATT
**
43610673 TAAAATAATAATATGCGATAAATT
1 TAAAATAATAATATATGA-AAATT
43610697 TAAA
1 TAAA
43610701 CAATATTAAT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.05
20 10 0.16
21 1 0.02
22 5 0.08
23 14 0.23
24 28 0.46
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.33
Consensus pattern (23 bp):
TAAAATAATAATATATGAAAATT
Found at i:43620570 original size:5 final size:5
Alignment explanation
Indices: 43620560--43620600 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
43620550 GCTTACATTA
43620560 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTA- TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TT
43620601 GCTTATTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:43620757 original size:15 final size:15
Alignment explanation
Indices: 43620737--43620770 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43620727 TTATCGTTGA
43620737 TTATTATTATTGTT-T
1 TTATTA-TATTGTTAT
43620752 TTATTATATTGTTAT
1 TTATTATATTGTTAT
43620767 TTAT
1 TTAT
43620771 ATCATTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTATTATATTGTTAT
Found at i:43621124 original size:107 final size:107
Alignment explanation
Indices: 43620993--43621433 Score: 609
Period size: 107 Copynumber: 4.1 Consensus size: 107
43620983 TATCCAAATA
* * * *
43620993 AAAATTTCAAAATAAGGTAATATTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTAG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
43621058 GTTTCGATTTTTCGTTTGACCAAATAGCTAAAATATCCTTTT
66 GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
43621100 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
*
43621165 TTTTCGATTTTTCGTTCGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGATTTTTCGTTCGACCAAATAGCT-AAAATATCCTTTT
* *
43621208 AAAATTTCAAAATAAGGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
43621273 GTTTCGATTTTTTTTTCATTCGATCAAATAGCTAAAATATCCTTCT
66 GTTTCGA----TTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
* * * * * * *
43621319 AAAATTTCAGAATAAGACAGTATTTTGCATGTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
* * * *
43621384 GTTTTGATTTCTCGTT-GAACCAAATAGC-CAAATATCCTCTT
66 GTTTCGATTTTTCGTTCG-ACCAAATAGCTAAAATATCCTTTT
43621425 -AAATTTCAA
1 AAAATTTCAA
43621434 TCCATGTCAT
Statistics
Matches: 299, Mismatches: 29, Indels: 14
0.87 0.08 0.04
Matches are distributed among these distances:
105 8 0.03
106 11 0.04
107 104 0.35
108 82 0.27
111 74 0.25
112 20 0.07
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (107 bp):
AAAATTTCAAAATAAGGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
Found at i:43621408 original size:219 final size:213
Alignment explanation
Indices: 43620993--43621433 Score: 609
Period size: 219 Copynumber: 2.0 Consensus size: 213
43620983 TATCCAAATA
* ** * *
43620993 AAAATTTCAAAATAAGGTAATATTTTGCGTTTGGAAGTTCGAGAAAACGTGCCCTAATGTGCTAG
1 AAAATTTCAAAATAAGGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTAG
* * * *
43621058 GTTTCGATTTTTCGTTTGACCAAATAGCTAAAATATCCTTTTAAAATTTCAAAATAAGGCAATAT
66 GTTTCGATTTTTCATTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAGACAATAT
* * * *
43621123 TTTACGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGGTTTTCGATTTTTCGTTCGACCAA
131 TTTACATGTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGTTTTCGATTTCTCGTTCGACCAA
*
43621188 ATAGCTAAAAATATCCTTTT
196 ATAGC--AAAATATCCTCTT
*
43621208 AAAATTTCAAAATAAGGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
1 AAAATTTCAAAATAAGGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTAG
* *
43621273 GTTTCGATTTTTTTTTCATTCGATCAAATAGCTAAAATATCCTTCTAAAATTTCAGAATAAGACA
66 GTTTCGA----TTTTTCATTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAGACA
* *
43621338 GTATTTTGCATGTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTT-GATTTCTCGTT-G
127 ATATTTTACATGTGGAAATTCGAGAAAACGTGCCCTAACGTGCT-GGTTTTCGATTTCTCGTTCG
*
43621401 AACCAAATAGCCAAATATCCTCTT
191 -ACCAAATAGCAAAATATCCTCTT
43621425 -AAATTTCAA
1 AAAATTTCAA
43621434 TCCATGTCAT
Statistics
Matches: 200, Mismatches: 20, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
215 66 0.33
216 9 0.05
217 11 0.05
218 1 0.00
219 107 0.54
220 6 0.03
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (213 bp):
AAAATTTCAAAATAAGGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTAG
GTTTCGATTTTTCATTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAGACAATAT
TTTACATGTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGTTTTCGATTTCTCGTTCGACCAA
ATAGCAAAATATCCTCTT
Found at i:43625032 original size:13 final size:13
Alignment explanation
Indices: 43625014--43625051 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
43625004 AGGATATCTG
*
43625014 TCAATATTAGGCC
1 TCAATATCAGGCC
43625027 TCAATATCAGGCC
1 TCAATATCAGGCC
43625040 TCAATATCAGGC
1 TCAATATCAGGC
43625052 TGGTGCCTCA
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:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (13 bp):
TCAATATCAGGCC
Found at i:43633083 original size:128 final size:128
Alignment explanation
Indices: 43632764--43633352 Score: 430
Period size: 128 Copynumber: 4.5 Consensus size: 128
43632754 GTCCTATTTT
* * * * * * ** * * *
43632764 CCTGAGCAACAGCGGAATAGGTCGAAGATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAACAG
1 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCT-AAGCAGTAGTGGAGCAG
* * *
43632829 ATCG-CATCAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACCAATCC-TATCTC
65 ATCGACATCAAATCTTATCTCCC-AAGCAATAGTGGAGCAGACGAAAGAAACCAAGCCTTGTCTC
** * * * ** * * * * *
43632892 CCTGAAGTTGCAGTGGTG-CGGATT-AAAACCACAGATCTTATCTCTCTGAAGTTA-CAGTAGAG
1 CCTG-AGCAGCAGTGGAGTAGG-TTGAAGATTATAGATCTTATCTCCCT-AAG-CAGTAGTGGAG
*
43632954 CAGATCG-CATCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGACGAAAGAAACCAAGCCTTGT
62 CAGATCGACATCAAATCTTATCTCCC-AAGCAATAGTGGAGCAGACGAAAGAAACCAAGCCTTGT
43633018 CTC
126 CTC
* *
43633021 CCTGAGCAACTGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* ** * *** **
43633086 CCGAAGACGGCAAATCTTATCTTTCCAAG--ATAGTGGGGAGCAGATTTAAGCCACCAA-CCTTG
66 TC---GACATCAAATCTTATC-TCCCAAGCAATAGT--GGAGCAGACGAAAGAAACCAAGCCTTG
43633148 TCTC
125 TCTC
* *
43633152 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCAGTAGTGCAGCAGA
1 CCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
* * * *** **
43633217 TCGAAGACGA-CAAATCTTATCCTTCCAAGGTAGTAG-GGAAGCAGATTTAAGCCACC-AGCCTT
66 TC---GAC-ATCAAATCTTAT-CTCCCAA-GCAATAGTGG-AGCAGACGAAAGAAACCAAGCCTT
43633279 GTCTC
124 GTCTC
* * * *
43633284 TCTAAGCAGCAGTGGAGTAGG-TGAAAGATTGTAGATCTTATCTCCCTAAGCAATAGTGGAGCAG
1 CCTGAGCAGCAGTGGAGTAGGTTG-AAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAG
43633348 ATCGA
65 ATCGA
43633353 AGACGACGAA
Statistics
Matches: 387, Mismatches: 52, Indels: 43
0.80 0.11 0.09
Matches are distributed among these distances:
127 1 0.00
128 118 0.30
129 40 0.10
130 5 0.01
131 99 0.26
132 118 0.30
133 3 0.01
134 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (128 bp):
CCTGAGCAGCAGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
TCGACATCAAATCTTATCTCCCAAGCAATAGTGGAGCAGACGAAAGAAACCAAGCCTTGTCTC
Found at i:43633103 original size:44 final size:44
Alignment explanation
Indices: 43632836--43633370 Score: 160
Period size: 44 Copynumber: 12.3 Consensus size: 44
43632826 CAGATCGCAT
*
43632836 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGA-AA
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGACGA
* * ** * * * * * *
43632879 CCAATCCTATCTCCCTGAAGTTGCAGTGGTGCGGAT-TAAAACCA
1 CAAATCTTATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGACGA
* * * * *
43632923 CAGATCTTATCTCTCTGAAGTTA-CAGTAGAGCAGATC---G-C-A
1 CAAATCTTATCTCCCT-AAG-CAGTAGTGGAGCAGATCGAAGACGA
* * *
43632963 TCAAGTCTTATCTCCCTAAGCAATAGTGGAGCAGA-CGAAAGA-AA
1 -CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGACGA
** * * * * * * **
43633007 CCAAGCCTTGTCTCCCTGAGCAACT-GTGGAGTAGGTTGAAGATTA
1 -CAAATCTTATCTCCCTAAGC-AGTAGTGGAGCAGATCGAAGACGA
* * * *
43633052 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGACCGAAGACGG
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
* ** *
43633096 CAAATCTTATCTTTCC-AAG-A-TAGTGGGGAGCAGATTTAAG-CCA
1 CAAATCTTATC-TCCCTAAGCAGTAGT--GGAGCAGATCGAAGACGA
* * * * * * * * *
43633139 CCAACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTG-
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGA-CGA
* * *
43633183 TAGATCTTATCTCCCTAAGCAGTAGTGCAGCAGATCGAAGACGA
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
* * ** *
43633227 CAAATCTTATCCTTCC-AAGGTAGTAG-GGAAGCAGATTTAAG-CCA
1 CAAATCTTAT-CTCCCTAA-GCAGTAGTGG-AGCAGATCGAAGACGA
* ** * * * * * *
43633271 CCAGCCTTGTCTCTCTAAGCAGCAGTGGAGTAGGT-GAAAGATTG-
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCG-AAGA-CGA
* * *
43633315 TAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGACGA
1 CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
*
43633359 CGAATCTTATCT
1 CAAATCTTATCT
43633371 TCCCAATGTA
Statistics
Matches: 341, Mismatches: 115, Indels: 71
0.65 0.22 0.13
Matches are distributed among these distances:
39 2 0.01
40 14 0.04
41 14 0.04
42 7 0.02
43 61 0.18
44 211 0.62
45 32 0.09
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (44 bp):
CAAATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGA
Found at i:43633167 original size:131 final size:131
Alignment explanation
Indices: 43633006--43633454 Score: 643
Period size: 132 Copynumber: 3.4 Consensus size: 131
43632996 GACGAAAGAA
* * *
43633006 ACCAAGCCTTGTCTCCCTGAGCAACTGTGGAGTAGGTTGAAGATTATAGATCTTATCTCCCTAAG
1 ACCAA-CCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAG
* * *
43633071 CAGTAGTGGAGCAGACCGAAGACGGCAAATCTTATCTTTCCAAGATAGT-GGGGAGCAGATTTAA
65 CAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAG-TAGTAGGGAAGCAGATTTAA
43633135 GCC
129 GCC
43633138 ACCAACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
1 ACCAACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
* *
43633203 AGTAGTGCAGCAGATCGAAGACGACAAATCTTATCCTTCCAAGGTAGTAGGGAAGCAGATTTAAG
66 AGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA-GTAGTAGGGAAGCAGATTTAAG
43633268 CC
130 CC
* * *
43633270 ACCAGCCTTGTCTCTCTAAGCAGCAGTGGAGTAGG-TGAAAGATTGTAGATCTTATCTCCCTAAG
1 ACCAACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTG-AAGATTGTAGATCTTATCTCCCTAAG
* * *
43633334 CAATAGTGGAGCAGATCGAAGACGACGAATCTTATCTTCCCAATGTAGTAGGGAAGCAGATTTAA
65 CAGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAA-GTAGTAGGGAAGCAGATTTAA
43633399 GCC
129 GCC
*** * * *
43633402 ACTGGTCC-TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGAATGTAGATCTT
1 AC-CAACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTT
43633455 GTCTTTCTGT
Statistics
Matches: 287, Mismatches: 25, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
131 101 0.35
132 182 0.63
133 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (131 bp):
ACCAACCTTGTCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCGAAGACGACAAATCTTATCTTTCCAAGTAGTAGGGAAGCAGATTTAAGC
C
Found at i:43634431 original size:21 final size:21
Alignment explanation
Indices: 43634391--43634463 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 21
43634381 ACCAGAAATT
43634391 TATTTTAAAAATTAAA--AAAAG
1 TATTTTAAAAA--AAATTAAAAG
43634412 TATTTTAAAAAAAATT-AAA-
1 TATTTTAAAAAAAATTAAAAG
43634431 -A--TTAAAAAAAATTTTAAAAG
1 TATTTTAAAAAAAA--TTAAAAG
43634451 TATTTTAAAAAAA
1 TATTTTAAAAAAA
43634464 TTTTCAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
16 10 0.23
18 3 0.07
19 6 0.14
20 3 0.07
21 12 0.28
23 9 0.21
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (21 bp):
TATTTTAAAAAAAATTAAAAG
Found at i:43634480 original size:39 final size:38
Alignment explanation
Indices: 43634392--43634488 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 38
43634382 CCAGAAATTT
*
43634392 ATTTTAAAAATTAAAAAAAGTATTTTAAAAAAAATTAAA
1 ATTTTAAAAATT-TAAAAAGTATTTTAAAAAAAATTAAA
** * * *
43634431 ATTAAAAAAAATTTTAAAAGTATTTTAAAAAAATTTTCAA
1 ATT-TTAAAAATTTAAAAAGTATTTTAAAAAAA-ATTAAA
43634471 ATTTTAAAAATTTAAAAA
1 ATTTTAAAAATTTAAAAA
43634489 ATATATTTTA
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
39 33 0.70
40 14 0.30
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (38 bp):
ATTTTAAAAATTTAAAAAGTATTTTAAAAAAAATTAAA
Found at i:43635822 original size:15 final size:15
Alignment explanation
Indices: 43635802--43635835 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43635792 TTATCGTTGA
43635802 TTATTATTATTGTT-T
1 TTATTA-TATTGTTAT
43635817 TTATTATATTGTTAT
1 TTATTATATTGTTAT
43635832 TTAT
1 TTAT
43635836 ATCATTAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (15 bp):
TTATTATATTGTTAT
Found at i:43636183 original size:107 final size:107
Alignment explanation
Indices: 43636056--43636497 Score: 638
Period size: 107 Copynumber: 4.1 Consensus size: 107
43636046 TATCCAAATA
* * *
43636056 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAGTTCGAGAAAACGTACCCTATCGTGCTGG
1 AAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
*
43636121 GTTTTGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
66 GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
*
43636163 AAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACATGCTGG
1 AAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
* *
43636228 GTTTCAATTTTTTGTTCGACCAAATAGCTAAAAATATCCTTTT
66 GTTTCGATTTTTCGTTCGACCAAATAGCT-AAAATATCCTTTT
* * *
43636271 AAAATTTCAAAATAAAGCAATATTTCATGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
*
43636336 GTTTCGATTTTTTTTTTCGTTCGACCAAATAGCTAAAATATCCTTCT
66 GTTTCGA-----TTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
* * * *
43636383 AAAATTTCAGAATAAGGCAATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
* * *
43636448 GTTTCGATTTCTCGTT-GAACCAAATAGC-CAAATATCCTCTT
66 GTTTCGATTTTTCGTTCG-ACCAAATAGCTAAAATATCCTTTT
43636489 -AAATTTCAA
1 AAAATTTCAA
43636498 TCCATGTCAT
Statistics
Matches: 304, Mismatches: 24, Indels: 16
0.88 0.07 0.05
Matches are distributed among these distances:
105 8 0.03
106 11 0.04
107 105 0.35
108 80 0.26
112 79 0.26
113 21 0.07
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (107 bp):
AAAATTTCAAAATAAAGCAATATTTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTT
Found at i:43636440 original size:220 final size:213
Alignment explanation
Indices: 43636056--43636497 Score: 636
Period size: 220 Copynumber: 2.0 Consensus size: 213
43636046 TATCCAAATA
* ** *
43636056 AAAATTTCAAAATAAGGCAATATTTTGCGTTTGGAAGTTCGAGAAAACGTACCCTATCGTGCTGG
1 AAAATTTCAAAATAAAGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
* *
43636121 GTTTTGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTTTAAAATTTCAAAATAAAGCAATAT
66 GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAAGCAATAT
* * *
43636186 TTTACGTTTGGAAGTTCGAGAAAACGTACCCTAACATGCTGGGTTTCAATTTTTTGTTCG-ACCA
131 TTTACGTTTGGAAATTCGAGAAAACGTACCCTAACATGCTGGGTTTCAATTTCTCGTT-GAACCA
*
43636250 AATAGCTAAAAATATCCTTTT
195 AATAGC--AAAATATCCTCTT
* *
43636271 AAAATTTCAAAATAAAGCAATATTTCATGTTTGGAAGTTCGAGAAAACGTGCCCTAACGTGCTGG
1 AAAATTTCAAAATAAAGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
* *
43636336 GTTTCGATTTTTTTTTTCGTTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAGAATAAGGC
66 GTTTCGA-----TTTTTCGTTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAAGC
* * *
43636401 AATATTTTACGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTGA
126 AATATTTTACGTTTGGAAATTCGAGAAAACGTACCCTAACATGCTGGGTTTCAATTTCTCGTTGA
*
43636466 ACCAAATAGCCAAATATCCTCTT
191 ACCAAATAGCAAAATATCCTCTT
43636489 -AAATTTCAA
1 AAAATTTCAA
43636498 TCCATGTCAT
Statistics
Matches: 203, Mismatches: 18, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
215 65 0.32
217 9 0.04
218 11 0.05
219 1 0.00
220 117 0.58
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (213 bp):
AAAATTTCAAAATAAAGCAATATTTCACGTTTGGAAGTTCGAGAAAACGTACCCTAACGTGCTGG
GTTTCGATTTTTCGTTCGACCAAATAGCTAAAATATCCTTCTAAAATTTCAAAATAAAGCAATAT
TTTACGTTTGGAAATTCGAGAAAACGTACCCTAACATGCTGGGTTTCAATTTCTCGTTGAACCAA
ATAGCAAAATATCCTCTT
Found at i:43637542 original size:21 final size:21
Alignment explanation
Indices: 43637479--43637623 Score: 94
Period size: 21 Copynumber: 7.0 Consensus size: 21
43637469 GAAGCTCATG
*
43637479 AGAGCTAAACGGAAACCCA-A
1 AGAGCTGAACGGAAACCCATA
* * * * *
43637499 AGGGTTGAACGGAAGCTCGTA
1 AGAGCTGAACGGAAACCCATA
43637520 AGAGCTGAACGGAAACCCATA
1 AGAGCTGAACGGAAACCCATA
* * * * * *
43637541 AGGGTTGAACTGAAGCTCAAA
1 AGAGCTGAACGGAAACCCATA
* **
43637562 AGAGCTAAACAAAAACCCATA
1 AGAGCTGAACGGAAACCCATA
* * * * * *
43637583 AGAGTTAAACTGAAGCTCAAA
1 AGAGCTGAACGGAAACCCATA
43637604 AGAGCTGAACGGAAACCCAT
1 AGAGCTGAACGGAAACCCAT
43637624 TAGGGTTGAA
Statistics
Matches: 87, Mismatches: 37, Indels: 1
0.70 0.30 0.01
Matches are distributed among these distances:
20 13 0.15
21 74 0.85
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (21 bp):
AGAGCTGAACGGAAACCCATA
Found at i:43637557 original size:42 final size:42
Alignment explanation
Indices: 43637460--43637643 Score: 219
Period size: 42 Copynumber: 4.4 Consensus size: 42
43637450 GAAGCCCGAA
**
43637460 GGTTGAA-TAGAAGCTCATGAGAGCTAAACGGAAACCCA-AAG
1 GGTTGAACT-GAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
* ** *
43637501 GGTTGAACGGAAGCTCGTAAGAGCTGAACGGAAACCCATAAG
1 GGTTGAACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
**
43637543 GGTTGAACTGAAGCTCAAAAGAGCTAAACAAAAACCCATAAG
1 GGTTGAACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
* * * *
43637585 AGTTAAACTGAAGCTCAAAAGAGCTGAACGGAAACCCATTAG
1 GGTTGAACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
* *
43637627 GGTTGAACAGAAACTCA
1 GGTTGAACTGAAGCTCA
43637644 TATGAGTTAA
Statistics
Matches: 121, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
41 33 0.27
42 88 0.73
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.15
Consensus pattern (42 bp):
GGTTGAACTGAAGCTCAAAAGAGCTAAACGGAAACCCATAAG
Found at i:43637757 original size:24 final size:24
Alignment explanation
Indices: 43637730--43637777 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
43637720 TACTTGGGTA
*
43637730 ATTTTCCGTCAAATCATCCTTTGC
1 ATTTACCGTCAAATCATCCTTTGC
*
43637754 ATTTACCGTCAATTCATCCTTTGC
1 ATTTACCGTCAAATCATCCTTTGC
43637778 CACAAAACGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.08, T:0.42
Consensus pattern (24 bp):
ATTTACCGTCAAATCATCCTTTGC
Found at i:43644419 original size:21 final size:21
Alignment explanation
Indices: 43644374--43644419 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
43644364 TCATCATATC
****
43644374 AAAACTATGGGAAATTATTGT
1 AAAACTATGGGAAATTAAAAA
43644395 AAAACTATGGGAAATTAAAAA
1 AAAACTATGGGAAATTAAAAA
43644416 AAAA
1 AAAA
43644420 AATGTAAGAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.57, C:0.04, G:0.15, T:0.24
Consensus pattern (21 bp):
AAAACTATGGGAAATTAAAAA
Found at i:43645265 original size:3 final size:3
Alignment explanation
Indices: 43645259--43645288 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
43645249 CTGCTGCTGC
43645259 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
43645289 CTTCAAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:43653459 original size:15 final size:16
Alignment explanation
Indices: 43653439--43653468 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
43653429 ATGTCAGAGC
43653439 AAATAAAAG-AGAAAA
1 AAATAAAAGAAGAAAA
43653454 AAATAAAAGAAGAAA
1 AAATAAAAGAAGAAA
43653469 TAAGAAGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.80, C:0.00, G:0.13, T:0.07
Consensus pattern (16 bp):
AAATAAAAGAAGAAAA
Found at i:43654787 original size:3 final size:3
Alignment explanation
Indices: 43654779--43654848 Score: 65
Period size: 3 Copynumber: 24.3 Consensus size: 3
43654769 AGAATTTTTC
* * * *
43654779 TCT TCT TC- TCC TCC TCT TCT TCT TAT T-T TCT TCT TCT TCT TCT TTT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
* *
43654825 TCT TTT TCT TC- TCT GCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
43654849 TTTATTTTAC
Statistics
Matches: 56, Mismatches: 8, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
2 6 0.11
3 50 0.89
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:43654824 original size:17 final size:17
Alignment explanation
Indices: 43654779--43654848 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
43654769 AGAATTTTTC
* *
43654779 TCTTCTTCTCCTCCTCT
1 TCTTCTTCTCTTCTTCT
* *
43654796 TCTTCTTATTTTCTTCT
1 TCTTCTTCTCTTCTTCT
43654813 TCTTCTTCT-TT-TTCT
1 TCTTCTTCTCTTCTTCT
* *
43654828 TTTTCTTCTCTGCTTCT
1 TCTTCTTCTCTTCTTCT
43654845 TCTT
1 TCTT
43654849 TTTATTTTAC
Statistics
Matches: 43, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.28
16 3 0.07
17 28 0.65
ACGTcount: A:0.01, C:0.31, G:0.01, T:0.66
Consensus pattern (17 bp):
TCTTCTTCTCTTCTTCT
Found at i:43654856 original size:26 final size:24
Alignment explanation
Indices: 43654793--43654856 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 24
43654783 CTTCTCCTCC
*
43654793 TCTTCTTCTTA-TTTTCTTCTTCT
1 TCTTCTTTTTATTTTTCTTCTTCT
*
43654816 TCTTCTTTTTCTTTTTCTTCTCTGCT
1 TCTTCTTTTTATTTTTCTTCT-T-CT
43654842 TCTTCTTTTTATTTT
1 TCTTCTTTTTATTTT
43654857 ACTGCCTAGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.26
24 9 0.26
25 1 0.03
26 16 0.46
ACGTcount: A:0.03, C:0.23, G:0.02, T:0.72
Consensus pattern (24 bp):
TCTTCTTTTTATTTTTCTTCTTCT
Found at i:43655676 original size:331 final size:323
Alignment explanation
Indices: 43654947--43655922 Score: 1810
Period size: 331 Copynumber: 3.0 Consensus size: 323
43654937 TAGAAAATGG
43654947 TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
1 TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
* * *
43655012 TATCAATTGCATCAAAGTTAAGTGACTGTCGGTGTAATTTACCCATTATTTTATTTATTTATATG
66 TATCAGTTGCATCAAAGTTGAGTGACTGTCGGTGTAATTTACCCATTATTTTAGTTATTTATATG
43655077 AAAAATCATATTAAATACTAGATGTTTAAAAATAATATTTTTTTTGAACTAATTAATAACAACAC
131 AAAAATCATATTAAATACTAGATGTTTAAAAATAATATTTTTTTTGAACTAATTAATAACAACAC
43655142 ATGAAATATATAATATTAAAATGAAAAATATTAGAAGCTTTATATATATATAGATGTGTGCGTGA
196 ATGAAATATATAATATTAAAATGAAAAATATTAGAAGCTTTATATATATATAGATGTGTGCGTGA
43655207 AAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAGTAAGCT
261 AAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAGTAAGCT
43655270 TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
1 TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
43655335 TATCAGTTGCATCAAAGTTGAGTGACTGTCGGTGTAATTTACCCATTATTTTAGTTATTTATATG
66 TATCAGTTGCATCAAAGTTGAGTGACTGTCGGTGTAATTTACCCATTATTTTAGTTATTTATATG
43655400 AAAAATCATATTAAATACTAGATGTTTAAAAATAATATTTTTTTTGAACTAATTAATAACAACAC
131 AAAAATCATATTAAATACTAGATGTTTAAAAATAATATTTTTTTTGAACTAATTAATAACAACAC
43655465 ATGAAATATATAATATTAAAATGAAAAATATTAGAAGCTTTATATATATATATATATATAGATGT
196 ATGAAATATATAATATTAAAATGAAAAATATTAGAAGC------T-T-TATATATATATAGATGT
43655530 GTGCGTGAAAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAG
253 GTGCGTGAAAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAG
43655595 TAAGCT
318 TAAGCT
43655601 TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
1 TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
*
43655666 TATTAGTTGCATCAAAGTTGAGTGACTGTCGGTGTAATTTACCCATTATTTTAGTTATTTATATG
66 TATCAGTTGCATCAAAGTTGAGTGACTGTCGGTGTAATTTACCCATTATTTTAGTTATTTATATG
*
43655731 AAAAATCATATTAAATACTAGATGTTTAAAAAT-ATTTTTTTTTTGAACTAATTAATAACAACAC
131 AAAAATCATATTAAATACTAGATGTTTAAAAATAATATTTTTTTTGAACTAATTAATAACAACAC
43655795 ATGAAATATATATAATATTAAAATGAAAAATATTAGAAGCTTTATATATATATAGATGTGTGCGT
196 ATG-AA-ATATATAATATTAAAATGAAAAATATTAGAAGCTTTATATATATATAGATGTGTGCGT
43655860 GAAAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAGTAAG
259 GAAAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAGTAAG
43655923 TATAGTTTGG
Statistics
Matches: 638, Mismatches: 5, Indels: 19
0.96 0.01 0.03
Matches are distributed among these distances:
323 230 0.36
324 86 0.13
325 1 0.00
326 1 0.00
329 1 0.00
330 34 0.05
331 252 0.39
332 33 0.05
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (323 bp):
TTAAAAGGACTGATTTATTATTTTTTGAAAGTTGAGTGACGGAATTGAAATCAGAATGACTGTTT
TATCAGTTGCATCAAAGTTGAGTGACTGTCGGTGTAATTTACCCATTATTTTAGTTATTTATATG
AAAAATCATATTAAATACTAGATGTTTAAAAATAATATTTTTTTTGAACTAATTAATAACAACAC
ATGAAATATATAATATTAAAATGAAAAATATTAGAAGCTTTATATATATATAGATGTGTGCGTGA
AAATTACTTATTTAGAATACAGAGTTGTGTTTAAAATTAACATACAATAAATAATAGTAAGCT
Found at i:43660277 original size:42 final size:42
Alignment explanation
Indices: 43660217--43660302 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
43660207 TATGTGATTG
**
43660217 ATATTGAAATGGCCAAGATGAGAAATGAATATGAAATAAGAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATAAGAA
* * *
43660259 ATATTGAATTGGAAAAGATGAGAAATGAATATGAGATGAGAA
1 ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATAAGAA
43660301 AT
1 AT
43660303 GTGATATGTA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.51, C:0.02, G:0.23, T:0.23
Consensus pattern (42 bp):
ATATTGAAATGGAAAAGATGAGAAATGAATATGAAATAAGAA
Found at i:43660841 original size:25 final size:22
Alignment explanation
Indices: 43660807--43660851 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 22
43660797 TAGTTGAGGC
43660807 AATGTTGGTATGGTAGCTTAGCAT
1 AATGTTGGTAT-GT-GCTTAGCAT
43660831 AATGCTTGGTATGTGCTTAGC
1 AATG-TTGGTATGTGCTTAGC
43660852 TTCAAATTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.22, C:0.11, G:0.29, T:0.38
Consensus pattern (22 bp):
AATGTTGGTATGTGCTTAGCAT
Found at i:43664858 original size:57 final size:57
Alignment explanation
Indices: 43664789--43664906 Score: 236
Period size: 57 Copynumber: 2.1 Consensus size: 57
43664779 TTTATCTTAA
43664789 TATTCCTTTAGGGGCGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGACCAATT
1 TATTCCTTTAGGGGCGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGACCAATT
43664846 TATTCCTTTAGGGGCGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGACCAATT
1 TATTCCTTTAGGGGCGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGACCAATT
43664903 TATT
1 TATT
43664907 ATGATTTAGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 61 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (57 bp):
TATTCCTTTAGGGGCGTCACTACCTAAGTTCTTAGTTCTATTCAAATTAGACCAATT
Found at i:43667377 original size:45 final size:45
Alignment explanation
Indices: 43667213--43667381 Score: 198
Period size: 45 Copynumber: 3.8 Consensus size: 45
43667203 ATTAGAAACG
*
43667213 AGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCA
1 AGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTATCA
* * **
43667258 AGTAACACCATGACTGAAAGATGTTATGGCATCACGATT-TCATTG
1 AGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCT-ATCA
* * * * *
43667303 AGTAAAACCATGAATGAAATAAGTTATGACATCACAATTCTATCA
1 AGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTATCA
* *
43667348 AGTAAGACCAT-AGCTGAAAGACGTCATGACATCA
1 AGTAAGACCATGA-CTGAAAGATGTTATGACATCA
43667382 TGAATTAAAG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
44 2 0.02
45 102 0.97
46 1 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATGACTGAAAGATGTTATGACATCACGATTCTATCA
Found at i:43667381 original size:90 final size:90
Alignment explanation
Indices: 43667212--43667381 Score: 234
Period size: 90 Copynumber: 1.9 Consensus size: 90
43667202 TATTAGAAAC
* * * * *
43667212 GAGTAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCAAGTAACACCATGACTGAAA
1 GAGTAAAACCATGAATGAAAGAAGTTATGACATCACAATTCTATCAAGTAACACCATGACTGAAA
* * *
43667277 GATGTTATGGCATCACGATTTCATT
66 GACGTCATGACATCACGATTTCATT
* *
43667302 GAGTAAAACCATGAATGAAATAAGTTATGACATCACAATTCTATCAAGTAAGACCAT-AGCTGAA
1 GAGTAAAACCATGAATGAAAGAAGTTATGACATCACAATTCTATCAAGTAACACCATGA-CTGAA
43667366 AGACGTCATGACATCA
65 AGACGTCATGACATCA
43667382 TGAATTAAAG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
89 1 0.01
90 68 0.99
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (90 bp):
GAGTAAAACCATGAATGAAAGAAGTTATGACATCACAATTCTATCAAGTAACACCATGACTGAAA
GACGTCATGACATCACGATTTCATT
Found at i:43667403 original size:90 final size:90
Alignment explanation
Indices: 43667215--43667403 Score: 211
Period size: 90 Copynumber: 2.1 Consensus size: 90
43667205 TAGAAACGAG
* * * * *
43667215 TAAGACCATGACTGAAAGATGTTATGGCATCACGATTCTATCAAGTAACACCATGACTGAAAGAT
1 TAAGACCATGAATGAAAGAAGTTATGACATCACAATTCTATCAAGTAACACCATGACTGAAAGAC
* * * ** *
43667280 GTTATGGCATCACGATTTCATTGAG
66 GTCATGACATCACGAATTCAAAGAA
* * *
43667305 TAAAACCATGAATGAAATAAGTTATGACATCACAATTCTATCAAGTAAGACCAT-AGCTGAAAGA
1 TAAGACCATGAATGAAAGAAGTTATGACATCACAATTCTATCAAGTAACACCATGA-CTGAAAGA
*
43667369 CGTCATGACATCATGAATT-AAAGAAA
65 CGTCATGACATCACGAATTCAAAG-AA
43667395 TAAGACCAT
1 TAAGACCAT
43667404 AGTTGAAAGA
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
89 3 0.04
90 78 0.96
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (90 bp):
TAAGACCATGAATGAAAGAAGTTATGACATCACAATTCTATCAAGTAACACCATGACTGAAAGAC
GTCATGACATCACGAATTCAAAGAA
Found at i:43667559 original size:45 final size:45
Alignment explanation
Indices: 43667392--43667560 Score: 194
Period size: 45 Copynumber: 3.7 Consensus size: 45
43667382 TGAATTAAAG
* * * *
43667392 AAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGAAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACG--AGAAT
* * * * *
43667439 GAATAAGAACATGGTTGAAAGATACTATGGAATCAAGACAAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAAT
* * * *
43667484 GAATAAAACCATGGCTGAAAGGCACTATGGCATCAAGACGAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAAT
*
43667529 AAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATAAGACCATGGTTGAAAGACACTATGGCA
43667561 CACTCCTATC
Statistics
Matches: 101, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
45 69 0.68
47 32 0.32
ACGTcount: A:0.47, C:0.15, G:0.21, T:0.17
Consensus pattern (45 bp):
AAATAAGACCATGGTTGAAAGACACTATGGCATCAAGACGAGAAT
Found at i:43670200 original size:75 final size:75
Alignment explanation
Indices: 43670076--43670283 Score: 380
Period size: 75 Copynumber: 2.8 Consensus size: 75
43670066 TAATCGTTAT
*
43670076 CGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
43670141 ATTTAAGATA
66 ATTTAAGATA
* * *
43670151 TGGTGGGTTCAACACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGGAACCCCTTTCAC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
43670216 ATTTAAGATA
66 ATTTAAGATA
43670226 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCC
1 CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCC
43670284 TTCGGGGGAA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 126 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (75 bp):
CGGTGGGTTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTCAC
ATTTAAGATA
Found at i:43670367 original size:102 final size:102
Alignment explanation
Indices: 43670186--43670385 Score: 339
Period size: 102 Copynumber: 2.0 Consensus size: 102
43670176 CCAATGAGTC
* * *
43670186 GGGGAATCAGCACTTAGGAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGATTCAGCACTTAGCAACCA
* *
43670251 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCTTCG
66 CCAATGAATAGGGGAATCAGCACTTAGCAACCCTTCG
43670288 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATT-AGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGG-ATTCAGCACTTAGCAACC
43670352 ACCAATGAATAGGGGAATCAGCACTTAGCAACCC
65 ACCAATGAATAGGGGAATCAGCACTTAGCAACCC
43670386 CTTTTTTATT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
102 90 0.98
103 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGATTCAGCACTTAGCAACCA
CCAATGAATAGGGGAATCAGCACTTAGCAACCCTTCG
Found at i:43677636 original size:33 final size:33
Alignment explanation
Indices: 43677590--43677708 Score: 96
Period size: 33 Copynumber: 3.3 Consensus size: 33
43677580 TTAACCGTTA
*
43677590 TCGGTGGATTCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* * *
43677624 TCGGGGAATCAGCACTTAACAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
*
43677663 ATACGTGGG-TTCAGCACTTAGCAACCACCAATGAG
1 -T-CG-GGGAATCAGCACTTAGCAACCACCAATGAG
43677698 TCGGGGAATCA
1 TCGGGGAATCA
43677709 CTAATGAGTC
Statistics
Matches: 66, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
32 3 0.05
33 24 0.36
34 5 0.08
35 3 0.05
36 2 0.03
37 2 0.03
38 2 0.03
39 3 0.05
40 1 0.02
41 18 0.27
42 3 0.05
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:43677809 original size:33 final size:33
Alignment explanation
Indices: 43677767--43677917 Score: 116
Period size: 33 Copynumber: 4.5 Consensus size: 33
43677757 TACGGTGGGT
43677767 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
*
43677800 TCAGCACTTAGCAACC-CC--T-CG--GGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* *
43677827 TCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-CGG-GGAA
* * *
43677869 TCAGCACTTAGCAACCACCAATGAATAGGAGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
*
43677902 TCAGTACTTAGCAACC
1 TCAGCACTTAGCAACC
43677918 CCTTTTTTAT
Statistics
Matches: 95, Mismatches: 8, Indels: 30
0.71 0.06 0.23
Matches are distributed among these distances:
27 20 0.21
28 2 0.02
29 2 0.02
30 1 0.01
31 1 0.01
32 2 0.02
33 34 0.36
34 2 0.02
35 1 0.01
36 3 0.03
37 1 0.01
38 1 0.01
39 2 0.02
41 5 0.05
42 18 0.19
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
Found at i:43677903 original size:102 final size:102
Alignment explanation
Indices: 43677719--43677920 Score: 332
Period size: 102 Copynumber: 2.0 Consensus size: 102
43677709 CTAATGAGTC
* * **
43677719 GGGGAATCAGCACTTAGGAACCCCTTTCACATTTAAGATACGGTGGGTTCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
* * *
43677784 CCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTCG
66 CCAATGAATAGGAGAATCAGCACTTAGCAACCCCTCG
43677821 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
*
43677886 CCAATGAATAGGAGAATCAGTACTTAGCAACCCCT
66 CCAATGAATAGGAGAATCAGCACTTAGCAACCCCT
43677921 TTTTTATTCA
Statistics
Matches: 92, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
102 92 1.00
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.20
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAATAGGAGAATCAGCACTTAGCAACCCCTCG
Found at i:43679610 original size:15 final size:15
Alignment explanation
Indices: 43679574--43679610 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
43679564 AGACACAGGC
* *
43679574 GTGTGTCTCAGTTGT
1 GTGTGTTTCAATTGT
43679589 GTGTGTTTCAATTGT
1 GTGTGTTTCAATTGT
43679604 GTGTGTT
1 GTGTGTT
43679611 CCCTATAGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.08, C:0.08, G:0.32, T:0.51
Consensus pattern (15 bp):
GTGTGTTTCAATTGT
Found at i:43680789 original size:24 final size:24
Alignment explanation
Indices: 43680757--43680802 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
43680747 GGGTGTGACA
43680757 TGAAATGTGGCACTTCAATGCATT
1 TGAAATGTGGCACTTCAATGCATT
*
43680781 TGAAATGTGGCACTTCAGTGCA
1 TGAAATGTGGCACTTCAATGCA
43680803 AATGAAAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (24 bp):
TGAAATGTGGCACTTCAATGCATT
Found at i:43680808 original size:24 final size:24
Alignment explanation
Indices: 43680756--43680809 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
43680746 GGGGTGTGAC
*
43680756 ATGAAATGTGGCACTTCAATGCAT
1 ATGAAATGTGGCACTTCAATGCAA
* *
43680780 TTGAAATGTGGCACTTCAGTGCAA
1 ATGAAATGTGGCACTTCAATGCAA
43680804 ATGAAA
1 ATGAAA
43680810 ATGGAACTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (24 bp):
ATGAAATGTGGCACTTCAATGCAA
Found at i:43681812 original size:29 final size:29
Alignment explanation
Indices: 43681780--43681841 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
43681770 CTTTGGTACC
*
43681780 TGTACTATT-TTTATTATCAGTTTGACCTT
1 TGTACT-TTATTTATTATCAGTTTGACATT
* * *
43681809 TGTAGTTTATTTTTTATTAGTTTGACATT
1 TGTACTTTATTTATTATCAGTTTGACATT
43681838 TGTA
1 TGTA
43681842 TTTTCATTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 2 0.07
29 26 0.93
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.58
Consensus pattern (29 bp):
TGTACTTTATTTATTATCAGTTTGACATT
Found at i:43684042 original size:37 final size:37
Alignment explanation
Indices: 43684000--43684070 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
43683990 ATAGTCAGTG
43684000 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTAGTA
1 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTAGTA
43684037 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTA
1 ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTA
43684071 CCATGTGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.44
Consensus pattern (37 bp):
ATCGAGTTTTAGGTCATCATTTGCGTTATGCTTAGTA
Found at i:43688174 original size:21 final size:20
Alignment explanation
Indices: 43688132--43688171 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
43688122 AGTTGATTAG
*
43688132 AAATATTTTGAATTTAAATT
1 AAATAATTTGAATTTAAATT
*
43688152 AAATAATTTGTATTTAAATT
1 AAATAATTTGAATTTAAATT
43688172 TAATTATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
AAATAATTTGAATTTAAATT
Found at i:43693871 original size:20 final size:20
Alignment explanation
Indices: 43693842--43693896 Score: 56
Period size: 21 Copynumber: 2.7 Consensus size: 20
43693832 TTAGAGGGGT
* * *
43693842 TGTACAGATACATTAGGAGA
1 TGTACTGATACATGAGGACA
*
43693862 TGTACTGATACTATGAGGCCA
1 TGTACTGATAC-ATGAGGACA
*
43693883 TGTATTGATACATG
1 TGTACTGATACATG
43693897 CCTCTCTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 13 0.45
21 16 0.55
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (20 bp):
TGTACTGATACATGAGGACA
Found at i:43694795 original size:16 final size:16
Alignment explanation
Indices: 43694774--43694825 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
43694764 TTTGGTTCGC
43694774 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
43694790 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* * *
43694806 TGTAATAGAATAGAGG
1 TGTATTGGATTAGAGG
43694822 TGTA
1 TGTA
43694826 ATAGCAAATC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:43694872 original size:45 final size:44
Alignment explanation
Indices: 43694806--43694903 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 44
43694796 GGATTAGAGG
*
43694806 TGTAATAGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* * ***
43694851 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
*
43694895 TGGAATAGA
1 TGTAATAGA
43694904 GGTGTAATAG
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 23 0.51
45 22 0.49
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.33
Consensus pattern (44 bp):
TGTAATAGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:43695082 original size:18 final size:17
Alignment explanation
Indices: 43695061--43695095 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
43695051 TTATTATTAA
*
43695061 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
43695079 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
43695096 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:43695161 original size:157 final size:156
Alignment explanation
Indices: 43694948--43695263 Score: 569
Period size: 157 Copynumber: 2.0 Consensus size: 156
43694938 TAGAATACCC
*
43694948 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
* * *
43695013 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
43695078 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAA-AA
* *
43695105 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
43695170 ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
43695235 TATATAATTTAATAAAATTCTTAAAA
131 TATATAATTTAATAAAATTCTTAAAA
43695261 TTA
1 TTA
43695264 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 5 0.03
157 148 0.97
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTATTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATAATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAAAA
Found at i:43695329 original size:66 final size:64
Alignment explanation
Indices: 43695245--43695454 Score: 185
Period size: 66 Copynumber: 3.4 Consensus size: 64
43695235 TATATAATTT
*
43695245 AATAAAATTCTTAA-AATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTA
1 AATAAAATT-TAAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TA
43695309 A
64 A
* ** * *
43695310 AATATAAA-TTAACATAATTATTATT-AAATAT--A-TTA-T--AAT--TAAAATAT-ATAATT-
1 AATA-AAATTTAA-ATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTTA
*
43695363 T
64 A
*
43695364 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATA
1 AATAAAATT-TAAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT-TA
43695429 A
64 A
*
43695430 AAGAAAATTTGAAATAATTAATATT
1 AATAAAATTT-AAATAATTAATATT
43695455 AAATATATTT
Statistics
Matches: 111, Mismatches: 16, Indels: 35
0.69 0.10 0.22
Matches are distributed among these distances:
53 3 0.03
54 16 0.14
55 7 0.06
56 4 0.04
57 8 0.07
58 3 0.03
59 4 0.04
61 4 0.04
62 3 0.03
63 8 0.07
64 6 0.05
65 12 0.11
66 33 0.30
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (64 bp):
AATAAAATTTAAATAATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTTAA
Found at i:43695345 original size:119 final size:121
Alignment explanation
Indices: 43695196--43695492 Score: 494
Period size: 120 Copynumber: 2.5 Consensus size: 121
43695186 ATTTAATCAT
* *
43695196 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
43695260 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
43695317 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
43695380 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* * *
43695436 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
43695493 TAAAATAATT
Statistics
Matches: 167, Mismatches: 6, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
119 60 0.36
120 104 0.62
121 3 0.02
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:43695365 original size:14 final size:15
Alignment explanation
Indices: 43695316--43695367 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
43695306 GTAAAATATA
43695316 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
43695331 TATTAAATATATTAT
1 AATTAAATATATTAT
43695346 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
43695359 AATTTAATA
1 AATTAAATA
43695368 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:43695577 original size:18 final size:19
Alignment explanation
Indices: 43695544--43695586 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
43695534 TAATTTAAAA
*
43695544 TAATAATTATTATATAATT
1 TAATAATTAATATATAATT
43695563 TAATAA-TAATATATAATT
1 TAATAATTAATATATAATT
*
43695581 TCATAA
1 TAATAA
43695587 AATTCTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (19 bp):
TAATAATTAATATATAATT
Found at i:43695612 original size:86 final size:87
Alignment explanation
Indices: 43695522--43695687 Score: 255
Period size: 88 Copynumber: 1.9 Consensus size: 87
43695512 AAATTATATT
* *
43695522 TATGAATTTGTATAATTTAAAATAA-TAATTATT-ATATAATTTAATAATAATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAATATAATTTAATAATAATATATAATTTCAT
*
43695585 AAAATTCTTGATAATTTTTCTTA
65 AAAATTCTTAATAATTTTTCTTA
* *
43695608 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATT-AATATAATTTAATAATAATATATAATTTCAT
43695673 AAAATTCTTAATAAT
65 AAAATTCTTAATAAT
43695688 AAAATGTTCT
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
86 27 0.38
87 3 0.04
88 42 0.58
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (87 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAATATAATTTAATAATAATATATAATTTCATA
AAATTCTTAATAATTTTTCTTA
Found at i:43700467 original size:23 final size:23
Alignment explanation
Indices: 43700407--43700469 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
43700397 TGTACTGACT
43700407 AACAAATCAAGAACAATTTCCAGC
1 AACAAATCAA-AACAATTTCCAGC
*
43700431 AGAC-AACCAAAACAATTTCCAG-
1 A-ACAAATCAAAACAATTTCCAGC
43700453 AACAAATCAATAACAAT
1 AACAAATCAA-AACAAT
43700470 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:0.54, C:0.24, G:0.06, T:0.16
Consensus pattern (23 bp):
AACAAATCAAAACAATTTCCAGC
Found at i:43716084 original size:25 final size:25
Alignment explanation
Indices: 43716056--43716120 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
43716046 ACGAACGATA
* *
43716056 AACGGTAAGCTCCTCCGAGCTGAA-T
1 AACGGTAAGCTCATACGAGCT-AAGT
*
43716081 AACGGCAAGCTCATACGAGCTAAGT
1 AACGGTAAGCTCATACGAGCTAAGT
*
43716106 ATCGGTAAGCTCATA
1 AACGGTAAGCTCATA
43716121 AAAGCTAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
24 2 0.06
25 32 0.94
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (25 bp):
AACGGTAAGCTCATACGAGCTAAGT
Found at i:43718833 original size:24 final size:24
Alignment explanation
Indices: 43718791--43718873 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 24
43718781 CACACCACAG
* * *
43718791 CTCGTTTGAGATTATCGATTTCAA
1 CTCGTATGAGCTTACCGATTTCAA
* *
43718815 CTCATATGAGCTTACCGATTTCAG
1 CTCGTATGAGCTTACCGATTTCAA
43718839 CTCGTGA-GAGCTTACCGATTTCAA
1 CTCGT-ATGAGCTTACCGATTTCAA
43718863 CTCGTATGAGC
1 CTCGTATGAGC
43718874 ATACATGTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
23 1 0.02
24 48 0.96
25 1 0.02
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (24 bp):
CTCGTATGAGCTTACCGATTTCAA
Found at i:43719045 original size:17 final size:16
Alignment explanation
Indices: 43719019--43719050 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
43719009 AGGTATATAT
43719019 ATGAATTACATGGTAA
1 ATGAATTACATGGTAA
43719035 ATGATATTACATGGTA
1 ATGA-ATTACATGGTA
43719051 TATAGGTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (16 bp):
ATGAATTACATGGTAA
Found at i:43723999 original size:17 final size:17
Alignment explanation
Indices: 43723969--43724001 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
43723959 ATGCGAACAT
43723969 AAAAATAAACTAAAATA
1 AAAAATAAACTAAAATA
43723986 AAAAACTAAA-TAAAAT
1 AAAAA-TAAACTAAAAT
43724002 TGTTTAAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.76, C:0.06, G:0.00, T:0.18
Consensus pattern (17 bp):
AAAAATAAACTAAAATA
Found at i:43733098 original size:210 final size:210
Alignment explanation
Indices: 43732613--43733173 Score: 620
Period size: 210 Copynumber: 2.7 Consensus size: 210
43732603 AGCCTTTATA
* * * * * *
43732613 ATATCATTTGGGAACATAAGCTCACGCTAACTGTTTTGGAGGCTATGGCATTGAACCTGCAAGCC
1 ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
* * * * * *
43732678 TTAAGATACCAACTAGGAGCGTAGGCTCGCACTAACTATTTTAGAGGTTGCAATATTAAACCTGC
66 TTAGGATATCAACTAGGAGCGTAGGCTTGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTGC
* * *
43732743 AAGCCTTAGGATACCAGTTGAGAGCATAGGCTCGCGCTAACTATTTTGAAGGCTACGATATTGAA
131 AAGCCTTAGGACACCAGCTGAGAGCATAGGCTCGCACTAACTATTTTGAAGGCTACGATATTGAA
**
43732808 CCTATGAGCCTTAAG
196 CCTACAAGCCTTAAG
* * * * * ** * * * *
43732823 ATACCAGCTGGGAGTATAAGCTCACGATAACTGTTTTGAAGGTTGCGGTGTTGTACTTACGAGTC
1 ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
* * * * * *
43732888 TTAGGATATCAATTGGGAGCGTAGGCTTGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTAC
66 TTAGGATATCAACTAGGAGCGTAGGCTTGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTGC
* * * * * * * **
43732953 GAGCCTTAGGACACCAGCTGGGAGCGTAGGCTTGCACTAATTATTTTGGAGGTTGTGATATTGAA
131 AAGCCTTAGGACACCAGCTGAGAGCATAGGCTCGCACTAACTATTTTGAAGGCTACGATATTGAA
43733018 CCTACAAGCCTTAAG
196 CCTACAAGCCTTAAG
* ** * * *
43733033 ATATCAGTTGGGAGCGTAAGCTCGTGTTAACTATTTTGGAGGCTATGGTATTAAACCTGCGAGTC
1 ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
* * * * *
43733098 TTAGGATATCAGCTAGGAGTGTA-GATTCGCGCTAACTATTTTGGAGGCTACGATATTAAACCTG
66 TTAGGATATCAACTAGGAGCGTAGGCTT-GCGCTAACTATTTTAGAGGCTGCGATATTAAACCTG
43733162 CAAGCCTTAGGA
130 CAAGCCTTAGGA
43733174 TATCAACTAG
Statistics
Matches: 278, Mismatches: 72, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
209 3 0.01
210 275 0.99
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (210 bp):
ATATCAGTTGGGAGCATAAGCTCACGATAACTGTTTTGGAGGCTATGGTATTGAACCTGCGAGTC
TTAGGATATCAACTAGGAGCGTAGGCTTGCGCTAACTATTTTAGAGGCTGCGATATTAAACCTGC
AAGCCTTAGGACACCAGCTGAGAGCATAGGCTCGCACTAACTATTTTGAAGGCTACGATATTGAA
CCTACAAGCCTTAAG
Found at i:43733198 original size:140 final size:140
Alignment explanation
Indices: 43732613--43733216 Score: 573
Period size: 140 Copynumber: 4.3 Consensus size: 140
43732603 AGCCTTTATA
* * * * * * * * *
43732613 ATATCATTTGGGAACATAAGCTCACGCTAACTGTTTTGGAGGCTATGGCATTGAACCTGCAAGCC
1 ATATCAATTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGGTATTGAACCTACGAGCC
* * * * *
43732678 TTAAGATACCAACTAGGAGCGTAGGCTCGCACTAACTATTTTAGAGGTTGCAATATTAAACCTGC
66 TTAAGATACCAGCTAGGAGCGTAGACTCGCACTAACTATTTTGGAGGTTGCGATATTAAACCTAC
43732743 AAGCCTTAGG
131 AAGCCTTAGG
* * * * * * * *
43732753 ATACCAGTTGAGAGCATAGGCTCGCGCTAACTATTTTGAAGGCTACGATATTGAACCTATGAGCC
1 ATATCAATTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGGTATTGAACCTACGAGCC
* ** * * * * * ** *
43732818 TTAAGATACCAGCTGGGAGTATA-AGCTCACGA-TAACTGTTTTGAAGGTTGCGGTGTTGTACTT
66 TTAAGATACCAGCTAGGAGCGTAGA-CTCGC-ACTAACTATTTTGGAGGTTGCGATATTAAACCT
* *
43732881 ACGAGTCTTAGG
129 ACAAGCCTTAGG
* * *
43732893 ATATCAATTGGGAGCGTAGGCTTGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCC
1 ATATCAATTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGGTATTGAACCTACGAGCC
* * * * * * * *
43732958 TTAGGACACCAGCTGGGAGCGTAGGCTTGCACTAATTATTTTGGAGGTTGTGATATTGAACCTAC
66 TTAAGATACCAGCTAGGAGCGTAGACTCGCACTAACTATTTTGGAGGTTGCGATATTAAACCTAC
*
43733023 AAGCCTTAAG
131 AAGCCTTAGG
* * * * * * *
43733033 ATATCAGTTGGGAGCGTAAGCTCGTGTTAACTATTTTGGAGGCTATGGTATTAAACCTGCGAGTC
1 ATATCAATTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGGTATTGAACCTACGAGCC
* * * * * * * *
43733098 TTAGGATATCAGCTAGGAGTGTAGATTCGCGCTAACTATTTTGGAGGCTACGATATTAAACCTGC
66 TTAAGATACCAGCTAGGAGCGTAGACTCGCACTAACTATTTTGGAGGTTGCGATATTAAACCTAC
43733163 AAGCCTTAGG
131 AAGCCTTAGG
* * * * *
43733173 ATATCAACTAGGAGTGTAGGTTCGTGCTAACTATTTTGGAGGCT
1 ATATCAATTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCT
43733217 GTGTGTAACA
Statistics
Matches: 367, Mismatches: 93, Indels: 8
0.78 0.20 0.02
Matches are distributed among these distances:
139 1 0.00
140 365 0.99
141 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (140 bp):
ATATCAATTGGGAGCGTAGGCTCGCGCTAACTATTTTGGAGGCTATGGTATTGAACCTACGAGCC
TTAAGATACCAGCTAGGAGCGTAGACTCGCACTAACTATTTTGGAGGTTGCGATATTAAACCTAC
AAGCCTTAGG
Found at i:43733215 original size:70 final size:70
Alignment explanation
Indices: 43732632--43733216 Score: 441
Period size: 70 Copynumber: 8.4 Consensus size: 70
43732622 GGGAACATAA
* * * ** * * * *
43732632 GCTCACGCTAACTGTTTTGGAGGCTATGGCATTGAACCTGCAAGCCTTAAGATACCAACTAGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
43732697 CGTAG
66 CGTAG
* * * * * * * * ** *
43732702 GCTCGCACTAACTATTTTAGAGGTTGCAATATTAAACCTGCAAGCCTTAGGATACCAGTTGAGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
*
43732767 CATAG
66 CGTAG
* ** * * *
43732772 GCTCGCGCTAACTATTTTGAAGGCTACGATATTGAACCTATGAGCCTTAAGATACCAGCTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
** *
43732837 TATAA
66 CGTAG
* * * * * * * * * * * * *
43732842 GCTCACGATAACTGTTTTGAAGGTTGCGGTGTTGTACTTACGAGTCTTAGGATATCAATTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
43732907 CGTAG
66 CGTAG
* * ** * * * * *
43732912 GCTTGCGCTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAGGACACCAGCTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
43732977 CGTAG
66 CGTAG
* * * * ** * **
43732982 GCTTGCACTAATTATTTTGGAGGTTGTGATATTGAACCTACAAGCCTTAAGATATCAGTTGGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
*
43733047 CGTAA
66 CGTAG
* * * * * * * * * *
43733052 GCTCGTGTTAACTATTTTGGAGGCTATGGTATTAAACCTGCGAGTCTTAGGATATCAGCTAGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
*
43733117 TGTAG
66 CGTAG
** * * *
43733122 ATTCGCGCTAACTATTTTGGAGGCTACGATATTAAACCTGCAAGCCTTAGGATATCAACTAGGAG
1 GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
*
43733187 TGTAG
66 CGTAG
* *
43733192 GTTCGTGCTAACTATTTTGGAGGCT
1 GCTCGCGCTAACTATTTTGGAGGCT
43733217 GTGTGTAACA
Statistics
Matches: 410, Mismatches: 105, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
70 410 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (70 bp):
GCTCGCGCTAACTATTTTGGAGGCTACGATATTGAACCTACAAGCCTTAGGATATCAACTGGGAG
CGTAG
Found at i:43733570 original size:13 final size:13
Alignment explanation
Indices: 43733554--43733583 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
43733544 CCTGTGTAAC
43733554 TCACTAAGTAGGG
1 TCACTAAGTAGGG
*
43733567 TCACTATGTAGGG
1 TCACTAAGTAGGG
43733580 TCAC
1 TCAC
43733584 ACGCCCGTAT
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:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (13 bp):
TCACTAAGTAGGG
Found at i:43734485 original size:40 final size:40
Alignment explanation
Indices: 43734426--43734592 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
43734416 TAAGGAACCA
* **
43734426 AAGTACAAA-AGGGGCATGTAGGTGCAATCAGGGGTACCG
1 AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
43734465 AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
1 AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
* * *
43734505 AAGTACAAAC-AGAGGCACGTATATGCAATCAGGCGTACTG
1 AAGTACAAACAAG-GGCATGTATATGCAATCAGGGGTACCG
* * * * * *
43734545 AAGTACAAAC-AGTGACACGTCTATGCAATCAGAGCTATCG
1 AAGTACAAACAAG-GGCATGTATATGCAATCAGGGGTACCG
43734585 AAGTACAA
1 AAGTACAA
43734593 TAATTTTCTA
Statistics
Matches: 112, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.10
40 101 0.90
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.17
Consensus pattern (40 bp):
AAGTACAAACAAGGGCATGTATATGCAATCAGGGGTACCG
Found at i:43736829 original size:51 final size:51
Alignment explanation
Indices: 43736757--43736862 Score: 194
Period size: 51 Copynumber: 2.1 Consensus size: 51
43736747 GTGCAGCAGT
* *
43736757 AACATTATCCAGTCCATCTGATGTTGCAAAATCACTAGCATATTCATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
43736808 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
1 AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
43736859 AACA
1 AACA
43736863 ACTTCACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.35, C:0.27, G:0.10, T:0.27
Consensus pattern (51 bp):
AACATTATCCACTCCATCTGATGTTGCAAAATCACCAGCATATTCATCAGC
Found at i:43737069 original size:33 final size:32
Alignment explanation
Indices: 43736987--43737100 Score: 111
Period size: 33 Copynumber: 3.5 Consensus size: 32
43736977 TACCTCTCCT
* * *
43736987 ACATCACCCTTCCCACCAAATTCTACCTTTTTC
1 ACATCACCCTCCCCATCAAATTCTACC-CTTTC
* ** *
43737020 AAATCACATTCACCATCAAATTCTACCCTTTC
1 ACATCACCCTCCCCATCAAATTCTACCCTTTC
* * *
43737052 ATCATCACCCTCCCCATCAACTTCCACCCCTTTA
1 A-CATCACCCTCCCCATCAAATTCTA-CCCTTTC
43737086 ACATCACCCTCCCCA
1 ACATCACCCTCCCCA
43737101 AAAGTCAACA
Statistics
Matches: 65, Mismatches: 14, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
32 5 0.08
33 53 0.82
34 7 0.11
ACGTcount: A:0.27, C:0.45, G:0.00, T:0.28
Consensus pattern (32 bp):
ACATCACCCTCCCCATCAAATTCTACCCTTTC
Found at i:43737920 original size:117 final size:117
Alignment explanation
Indices: 43737710--43737920 Score: 323
Period size: 117 Copynumber: 1.8 Consensus size: 117
43737700 GGTAACAAAA
* * * * * * * *
43737710 ATCAACATCATCGGGACCATTGTCGCATCACAAATCGACAAAAGAAACCCTACATTGTGGCACTT
1 ATCAACAACATCGGGACCACTATCACATCAAAAATCAACAAAACAAACCCTACATTGTGGCACTG
**
43737775 AAATTGCAATAATAAATCACAACTAACCATCTACAATTTTGACAACAGTTTT
66 AAATTGCAATAATAAATCACAAAAAACCATCTACAATTTTGACAACAGTTTT
*
43737827 ATCAACAACATTGGGACCACTATCACATCAAAAATCAACAAAACAAACCCTACATTGTGGCACTG
1 ATCAACAACATCGGGACCACTATCACATCAAAAATCAACAAAACAAACCCTACATTGTGGCACTG
43737892 AAATTGCAATAATAAATCACAAAAAACCA
66 AAATTGCAATAATAAATCACAAAAAACCA
43737921 ACACATCAAA
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
117 83 1.00
ACGTcount: A:0.44, C:0.24, G:0.10, T:0.22
Consensus pattern (117 bp):
ATCAACAACATCGGGACCACTATCACATCAAAAATCAACAAAACAAACCCTACATTGTGGCACTG
AAATTGCAATAATAAATCACAAAAAACCATCTACAATTTTGACAACAGTTTT
Found at i:43738126 original size:16 final size:16
Alignment explanation
Indices: 43738107--43738143 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
43738097 GAATGCTAAC
*
43738107 GATTTAAGGATTTCAA
1 GATTTAAGGATTTAAA
*
43738123 GATTTAGGGATTTAAA
1 GATTTAAGGATTTAAA
43738139 GATTT
1 GATTT
43738144 TAAAGATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (16 bp):
GATTTAAGGATTTAAA
Found at i:43742915 original size:67 final size:67
Alignment explanation
Indices: 43742820--43742979 Score: 223
Period size: 67 Copynumber: 2.4 Consensus size: 67
43742810 CATAGTTGGG
* *
43742820 CTATGGTCTTACACATTATACCCCATGTTTAATATCCTGGCAGACTCTCTATGTTGTCATAGTC-
1 CTATGGTCTTACACATTATACCCCATGTTTAATAGCCTAGCAGACTCTCTATGTTGTCATAG-CG
43742884 AAA
65 AAA
* * * * *
43742887 CTATGGTCTTACACATCATACCCTATGTTTAATGGCCTAGCGGACTCTCTATGTTGTCATAGCGG
1 CTATGGTCTTACACATTATACCCCATGTTTAATAGCCTAGCAGACTCTCTATGTTGTCATAGCGA
*
43742952 AG
66 AA
*
43742954 CTATGGTCTTACACGTTATACCCCAT
1 CTATGGTCTTACACATTATACCCCAT
43742980 TATAGCTTAT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
66 1 0.01
67 80 0.99
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.34
Consensus pattern (67 bp):
CTATGGTCTTACACATTATACCCCATGTTTAATAGCCTAGCAGACTCTCTATGTTGTCATAGCGA
AA
Found at i:43743786 original size:13 final size:13
Alignment explanation
Indices: 43743735--43743787 Score: 79
Period size: 13 Copynumber: 4.1 Consensus size: 13
43743725 AGTTTGGCAA
*
43743735 TGCTTTTGAAAAA
1 TGCTTTTGAAAAG
43743748 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
43743761 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
43743774 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
43743787 T
1 T
43743788 TTGGTTTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 35 1.00
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:43751196 original size:40 final size:40
Alignment explanation
Indices: 43751151--43751328 Score: 175
Period size: 40 Copynumber: 4.4 Consensus size: 40
43751141 ACTATGTTTA
*
43751151 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATATG
* * *
43751191 ACACTTAGTGTGCGA-TTGGGAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGCGATTTGAG-ATAGCTTCGGCTATATATG
* ** * *
43751231 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGCGA-TTTGAGATAGCTTCGGCTATATATG
43751272 GCACTTAGTGTGCGGGATTAT-A-ATAGCTTCGGCTATGCA-ATG
1 GCACTTAGTGTGC--GATT-TGAGATAGCTTCGGCTAT--ATATG
*
43751314 GCATTTAGTGTGCGA
1 GCACTTAGTGTGCGA
43751329 AACATTAAGT
Statistics
Matches: 113, Mismatches: 17, Indels: 16
0.77 0.12 0.11
Matches are distributed among these distances:
39 4 0.04
40 46 0.41
41 42 0.37
42 18 0.16
43 3 0.03
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.33
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTTGAGATAGCTTCGGCTATATATG
Found at i:43751266 original size:41 final size:41
Alignment explanation
Indices: 43751151--43751325 Score: 153
Period size: 41 Copynumber: 4.3 Consensus size: 41
43751141 ACTATGTTTA
* * *
43751151 GCACTTAGTGTGCGA-TTTGAGATAGCTTCGGCTATTTATG
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
* * * *
43751191 ACACTTA--GTGTGCGATTGGGAATAGCTTCAGCTATATATG
1 GCACTTAGTGTGTGAGATTGAG-ATAGCTTCGGCTATATATG
* * *
43751231 GCACTTAGTGTGTGAGACTGAGATAGCTTCGGCTATGTAAG
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
* * *
43751272 GCACTTAGTGTGCGGGATT-ATAATAGCTTCGGCTATGCA-ATG
1 GCACTTAGTGTGTGAGATTGA-GATAGCTTCGGCTAT--ATATG
*
43751314 GCATTTAGTGTG
1 GCACTTAGTGTG
43751326 CGAAACATTA
Statistics
Matches: 107, Mismatches: 21, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
38 4 0.04
39 4 0.04
40 30 0.28
41 46 0.43
42 23 0.21
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (41 bp):
GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATATG
Done.