Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 181 of 313
Found at i:56010071 original size:18 final size:18
Alignment explanation
Indices: 56010030--56010071 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
56010020 CCAATGATCG
* *
56010030 CCACCACCTTCTTCTTCG
1 CCACCACATTCTTCTTCA
*
56010048 CAACCACATTCTTCTTCA
1 CCACCACATTCTTCTTCA
56010066 CCACCA
1 CCACCA
56010072 ACCATATCAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.48, G:0.02, T:0.29
Consensus pattern (18 bp):
CCACCACATTCTTCTTCA
Found at i:56010793 original size:12 final size:12
Alignment explanation
Indices: 56010674--56010837 Score: 60
Period size: 12 Copynumber: 13.7 Consensus size: 12
56010664 ATTTAACCAC
*
56010674 TAATCCTAATAA
1 TAATACTAATAA
*
56010686 CTAACAC-AATAA
1 -TAATACTAATAA
*
56010698 TAATATTAATAA
1 TAATACTAATAA
56010710 TTTTATATAC-AA-AA
1 ---TA-ATACTAATAA
56010724 TAATACTAACTAA
1 TAATACTAA-TAA
*
56010737 -AATTATTAATAA
1 TAA-TACTAATAA
*
56010749 CTAACTA-TAAAAA
1 -TAA-TACTAATAA
*
56010762 TAATACTAAT-T
1 TAATACTAATAA
** *
56010773 TTTTACTAACAA
1 TAATACTAATAA
56010785 TAATACTAACTAA
1 TAATACTAA-TAA
*
56010798 -CAT-C--ATAA
1 TAATACTAATAA
*
56010806 TAATAATAATAA
1 TAATACTAATAA
*
56010818 TAATAATAATAA
1 TAATACTAATAA
56010830 TAATACTA
1 TAATACTA
56010838 TAAAATTTTT
Statistics
Matches: 112, Mismatches: 21, Indels: 37
0.66 0.12 0.22
Matches are distributed among these distances:
8 3 0.03
9 3 0.03
10 4 0.04
11 18 0.16
12 53 0.47
13 18 0.16
14 6 0.05
15 4 0.04
16 3 0.03
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (12 bp):
TAATACTAATAA
Found at i:56010808 original size:3 final size:3
Alignment explanation
Indices: 56010802--56010834 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
56010792 AACTAACATC
56010802 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56010835 CTATAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56011168 original size:18 final size:18
Alignment explanation
Indices: 56011145--56011182 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
56011135 GAACCCTTGT
*
56011145 TTGGTGCCGCCAATAGTG
1 TTGGTGCCGCCAACAGTG
56011163 TTGGTGCCGCCAACAGTG
1 TTGGTGCCGCCAACAGTG
56011181 TT
1 TT
56011183 CCCTTCACCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.29
Consensus pattern (18 bp):
TTGGTGCCGCCAACAGTG
Found at i:56011471 original size:31 final size:31
Alignment explanation
Indices: 56011407--56011472 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
56011397 TTAGTAACTT
* * * *
56011407 AAATAAAAATATTTGAATAGTTAAATGATTA
1 AAATAAAAAAATTTCAATAGTTAAATAAATA
* *
56011438 AAATAAAAAAATTTCAATATTTTAATAAATA
1 AAATAAAAAAATTTCAATAGTTAAATAAATA
56011469 AAAT
1 AAAT
56011473 TTAAATTTAC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.35
Consensus pattern (31 bp):
AAATAAAAAAATTTCAATAGTTAAATAAATA
Found at i:56033062 original size:11 final size:11
Alignment explanation
Indices: 56033046--56033077 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
56033036 GACAAGGAAA
56033046 GAAACAAAATG
1 GAAACAAAATG
56033057 GAAACAAAATG
1 GAAACAAAATG
56033068 GAAACAAAAT
1 GAAACAAAAT
56033078 CAAAGATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.66, C:0.09, G:0.16, T:0.09
Consensus pattern (11 bp):
GAAACAAAATG
Found at i:56047554 original size:25 final size:25
Alignment explanation
Indices: 56047513--56047560 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
56047503 TGAATTTTTT
56047513 TGTTCTTGTAATACTTTATTCTTTGC
1 TGTTCTTGTAATACTTT-TTCTTTGC
56047539 TGTTCTTG-AATACTTTTTCTTT
1 TGTTCTTGTAATACTTTTTCTTT
56047561 TCAAGACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.27
25 8 0.36
26 8 0.36
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.60
Consensus pattern (25 bp):
TGTTCTTGTAATACTTTTTCTTTGC
Found at i:56048479 original size:44 final size:44
Alignment explanation
Indices: 56048407--56049119 Score: 653
Period size: 44 Copynumber: 16.2 Consensus size: 44
56048397 GCTGGTTAAA
* * *
56048407 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * * * *
56048451 AAGGTAGCAGATCCTGTCTTCCTATATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * ** *
56048496 AAGAT-GCAGAGCTTGTCTTCCCATGCTGGTG-GCAAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTG--AAGTAGATCG
* * * *
56048540 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * *
56048584 AAGATAGCAGGTCATGTCTTCCTATATT-G-GTAGAAAGTGGA-CG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGT-G-AAGTAGATCG
* * *
56048627 AAGAT-GCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * *
56048671 AAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * *** *
56048715 AAGATAGCAGGTCCTGTCTTCCTATATTGGTAAGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * *
56048759 AAGAT-GCAGATCTTGTCTTCAC-ATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTC-CTATATTGG-CGTGAAGTAGATCG
* * * *
56048803 AAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * * * *
56048847 AAGATAACAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
*
56048891 AAGAT-GCAGATCTTGTCTTCCCATACTAGTGGC--GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT-CC-TA-TATTGGCGTGAAGTAGATCG
* * * *
56048935 AA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCA
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
* * * * *
56048978 AAGATAGTAGATCCTGTTTTCCTATATTGGTAGTGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * * *
56049023 AAGATA-CAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGG-CGTGAAGTAGATCG
* * *
56049067 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
56049111 AAGATAGCA
1 AAGATAGCA
56049120 AATTTTATTC
Statistics
Matches: 533, Mismatches: 110, Indels: 52
0.77 0.16 0.07
Matches are distributed among these distances:
41 6 0.01
42 23 0.04
43 61 0.11
44 323 0.61
45 114 0.21
46 6 0.01
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGGCGTGAAGTAGATCG
Found at i:56048824 original size:132 final size:132
Alignment explanation
Indices: 56048407--56049119 Score: 1180
Period size: 132 Copynumber: 5.4 Consensus size: 132
56048397 GCTGGTTAAA
* *
56048407 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* * * *
56048472 CTATATTGGTAGCGAAGTGGATCGAAGATGCAGAGCTTGTCTTCCCATGCTGGTGGCAAAGTAGA
66 CTATATTGGTA-AGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
56048537 TCG
130 TCG
* *
56048540 AAGAAAACAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCATGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
*
56048605 CTATATTGGT-AGAAAGTGGA-CGAAGATGCAGATCTTGTCTTCCTATACTGGTGGCGAAGTAGA
66 CTATATTGGTAAG-AAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
56048668 TCG
130 TCG
* *
56048671 AAGAAAGCAGATCTTGTCTTCATATATTGGCGTGAAGTAGATCAAAGATAGCAGGTCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
*
56048736 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCACATACTGGTGGCGAAGTAGAT
66 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
56048801 CG
131 CG
* *
56048803 AAGAAATCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAACAGGTCCTGTCTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* *
56048868 CTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTAGTGGCGAAGTAGAT
66 CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
56048933 CG
131 CG
* * * *
56048935 AA-AAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGTAGATCCTGTTTTC
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
* *
56048999 CTATATTGGTAGTGAAGTGGATCGAAGATACAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
66 CTATATTGGTA-AGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGA
56049064 TCG
130 TCG
56049067 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
1 AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCA
56049120 AATTTTATTC
Statistics
Matches: 542, Mismatches: 33, Indels: 10
0.93 0.06 0.02
Matches are distributed among these distances:
131 188 0.35
132 235 0.43
133 119 0.22
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (132 bp):
AAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTGTCTTC
CTATATTGGTAAGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
CG
Found at i:56050528 original size:27 final size:27
Alignment explanation
Indices: 56050498--56050561 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
56050488 TATCTGTAAT
56050498 TATTTTTTATTTATATATACATATGTA
1 TATTTTTTATTTATATATACATATGTA
* * * *
56050525 TATTTGTTGTTTTTATATACATATTTA
1 TATTTTTTATTTATATATACATATGTA
*
56050552 TTTTTTTTAT
1 TATTTTTTAT
56050562 AAGTAATGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.66
Consensus pattern (27 bp):
TATTTTTTATTTATATATACATATGTA
Found at i:56057025 original size:20 final size:19
Alignment explanation
Indices: 56056987--56057038 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
56056977 GTAAAATTTC
*
56056987 TAAAAATAAATAAATAATA
1 TAAATATAAATAAATAATA
*
56057006 TAAATATAATATATATAATA
1 TAAATATAA-ATAAATAATA
*
56057026 AAAATATAAATAA
1 TAAATATAAATAA
56057039 TAAAAAACCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAATATAAATAAATAATA
Found at i:56057043 original size:15 final size:15
Alignment explanation
Indices: 56057013--56057044 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56057003 ATATAAATAT
*
56057013 AATATATATAATAAA
1 AATATAAATAATAAA
56057028 AATATAAATAATAAA
1 AATATAAATAATAAA
56057043 AA
1 AA
56057045 ACCAGTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATAAATAATAAA
Found at i:56060739 original size:24 final size:24
Alignment explanation
Indices: 56060709--56060767 Score: 82
Period size: 24 Copynumber: 2.5 Consensus size: 24
56060699 GCTATCTGGT
* *
56060709 GCTACCCGTTAATTGCTTTTCGGA
1 GCTACCCGTTAATTGCTCTTCAGA
*
56060733 GCTACCCATTAATTGCTCTTCAGA
1 GCTACCCGTTAATTGCTCTTCAGA
*
56060757 GCTACTCGTTA
1 GCTACCCGTTA
56060768 TAGGCTCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.36
Consensus pattern (24 bp):
GCTACCCGTTAATTGCTCTTCAGA
Found at i:56066780 original size:340 final size:336
Alignment explanation
Indices: 56066143--56066822 Score: 1229
Period size: 340 Copynumber: 2.0 Consensus size: 336
56066133 TGGTAGCCCC
56066143 TCTT-TCCCTTCCATTCCCCCTTTTTCCGAATTATGCTTCCCTTCTTCTTCTTTTTTTCTTGTTT
1 TCTTGTCCCTTCCATTCCCCCTTTTTCCGAATTATGCTTCCCTTCTTCTTCTTTTTTTCTTGTTT
*
56066207 ATTACAGAGAATTGAAGAAAAAAAACTTGAAATATTTTTGCATTGTGATTGTGCTCTTATCTCGT
66 ATTACAGAGAATTAAAGAAAAAAAACTTGAAATATTTTTGCATTGTGATTGTGCTCTTATCTCGT
56066272 TTTCTGGGTTTGCCTTGTTTTTTATATGTATTTTGTTCCACCGTTTTGTTTGTTTGATTGCCCCC
131 TTTCTGGGTTTGCCTTGTTTTTTATATGTATTTTGTTCCACCGTTTTGTTTGTTTGATTGCCCCC
* *
56066337 GATTTACTTTTGATGTACTGGTTAGTAGATAAACTGCTACAAGTTCTAGTGTCCAAAAGTAATCA
196 GATTTACTTTTGATGTACTGGTTAGCAGATAAACTGCTACAAGTTCTAGTGTCCAAAACTAATCA
*
56066402 ACATTTAGTCAAACATGGAATTATACAGTCTCCAAGGATTAAAGAGGCTGTTCTTCACAGAATAT
261 ACATTTAGTCAAACATGGAATTATACAGTCTCCAAGGATTAAAGAGACTGTTCTTCACAGAATAT
56066467 CACTACTTGCA
326 CACTACTTGCA
56066478 TCTTGNTCCCTTCCATTCCCCC-TTTTCCGAATTATGCTTCCCTTCTTCTTCTTCTTTTTTTCTT
1 TCTTG-TCCCTTCCATTCCCCCTTTTTCCGAATTATGCTT-CC--CTTCTTCTTCTTTTTTTCTT
*
56066542 GTTTATTGCAGAGAATTAAAGAAAAAAAAACTTGAAATATTTTTGCATTGTGATTGTGCTCTTAT
62 GTTTATTACAGAGAATTAAAG-AAAAAAAACTTGAAATATTTTTGCATTGTGATTGTGCTCTTAT
*
56066607 CTCGTTTTCTGGGTTTGTCTTGTTTTTTATATGTATTTTGTTCCACCGTTTTGTTTGTTTGATTG
126 CTCGTTTTCTGGGTTTGCCTTGTTTTTTATATGTATTTTGTTCCACCGTTTTGTTTGTTTGATTG
*
56066672 CCCCCGATTTACTTTTGATGTACTGGTTAGCAGATAAACTGCTACAAGTTCTAGTGTCCATAACT
191 CCCCCGATTTACTTTTGATGTACTGGTTAGCAGATAAACTGCTACAAGTTCTAGTGTCCAAAACT
56066737 AATCAACATTTAGTCAAACATGGAATTATACAGTCTCCAAGGATTAAAGAGACTGTTCTTCACAG
256 AATCAACATTTAGTCAAACATGGAATTATACAGTCTCCAAGGATTAAAGAGACTGTTCTTCACAG
*
56066802 AATCTCACTACTTGCA
321 AATATCACTACTTGCA
56066818 TCTTG
1 TCTTG
56066823 GTTGAATTGC
Statistics
Matches: 331, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
335 4 0.01
336 17 0.05
337 18 0.05
339 39 0.12
340 253 0.76
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (336 bp):
TCTTGTCCCTTCCATTCCCCCTTTTTCCGAATTATGCTTCCCTTCTTCTTCTTTTTTTCTTGTTT
ATTACAGAGAATTAAAGAAAAAAAACTTGAAATATTTTTGCATTGTGATTGTGCTCTTATCTCGT
TTTCTGGGTTTGCCTTGTTTTTTATATGTATTTTGTTCCACCGTTTTGTTTGTTTGATTGCCCCC
GATTTACTTTTGATGTACTGGTTAGCAGATAAACTGCTACAAGTTCTAGTGTCCAAAACTAATCA
ACATTTAGTCAAACATGGAATTATACAGTCTCCAAGGATTAAAGAGACTGTTCTTCACAGAATAT
CACTACTTGCA
Found at i:56070115 original size:15 final size:15
Alignment explanation
Indices: 56070081--56070156 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
56070071 TTAGATTTAG
*
56070081 ATTTTAGATTTT-AG
1 ATTTTAGATTTTAAA
56070095 ATTTTAGATTTTAAA
1 ATTTTAGATTTTAAA
* *
56070110 ATTTTATATTTGAAA
1 ATTTTAGATTTTAAA
*
56070125 CTTTT-G-TTTTATAA
1 ATTTTAGATTTTA-AA
*
56070139 ATTTATA-ATTTTCAA
1 ATTT-TAGATTTTAAA
56070154 ATT
1 ATT
56070157 CTCTGTAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
13 4 0.08
14 17 0.35
15 24 0.49
16 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.57
Consensus pattern (15 bp):
ATTTTAGATTTTAAA
Found at i:56070120 original size:7 final size:7
Alignment explanation
Indices: 56070064--56070107 Score: 74
Period size: 7 Copynumber: 6.6 Consensus size: 7
56070054 TGAATTTGAA
56070064 TTTAGA-
1 TTTAGAT
56070070 TTTAGA-
1 TTTAGAT
56070076 TTTAGAT
1 TTTAGAT
56070083 TTTAGAT
1 TTTAGAT
56070090 TTTAGAT
1 TTTAGAT
56070097 TTTAGAT
1 TTTAGAT
56070104 TTTA
1 TTTA
56070108 AAATTTTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 12 0.32
7 25 0.68
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.57
Consensus pattern (7 bp):
TTTAGAT
Found at i:56071464 original size:29 final size:29
Alignment explanation
Indices: 56071431--56071509 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
56071421 ATTCTTAAAT
*
56071431 GATAGTCGCTGTCAGACTCTTGTTTGGTA
1 GATAGTCACTGTCAGACTCTTGTTTGGTA
* * * *
56071460 GATAGTCATTGCCAGACTCTTATTTGGTG
1 GATAGTCACTGTCAGACTCTTGTTTGGTA
* *
56071489 GATATTCACTGT-GGACTCTTG
1 GATAGTCACTGTCAGACTCTTG
56071510 ATTTAAGATA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
28 7 0.17
29 33 0.82
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (29 bp):
GATAGTCACTGTCAGACTCTTGTTTGGTA
Found at i:56074650 original size:21 final size:21
Alignment explanation
Indices: 56074604--56074661 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
56074594 GAGTACATTG
56074604 TAAACAGAAGCCCA-AA-TGC
1 TAAACAGAAGCCCATAAGTGC
** *
56074623 TGCACAGAAGCACATAAGTGC
1 TAAACAGAAGCCCATAAGTGC
*
56074644 TAAACAGAAACCCATAAG
1 TAAACAGAAGCCCATAAG
56074662 GGTTGAACGG
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.47, C:0.24, G:0.17, T:0.12
Consensus pattern (21 bp):
TAAACAGAAGCCCATAAGTGC
Found at i:56074689 original size:21 final size:21
Alignment explanation
Indices: 56074621--56074691 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
56074611 AAGCCCAAAT
* *
56074621 GCTGCACAGAAGCACATAAGT
1 GCTGAACAGAAGCACATAAGA
* * * *
56074642 GCTAAACAGAAACCCATAAGG
1 GCTGAACAGAAGCACATAAGA
* * *
56074663 GTTGAACGGAAGCTCATAAGA
1 GCTGAACAGAAGCACATAAGA
56074684 GCTGAACA
1 GCTGAACA
56074692 AAAACCCAGA
Statistics
Matches: 37, Mismatches: 13, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (21 bp):
GCTGAACAGAAGCACATAAGA
Found at i:56074754 original size:42 final size:41
Alignment explanation
Indices: 56074629--56074764 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
56074619 ATGCTGCACA
* * * * *
56074629 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAACG
1 GAAGCTCATAAGAGCTGAACAGAAACCCATAA-GGTTAAACT
* *
56074671 GAAGCTCATAAGAGCTGAACAAAAACCCAGAAGGATTAAACT
1 GAAGCTCATAAGAGCTGAACAGAAACCCATAAGG-TTAAACT
*
56074713 GAAGCTCGA-AAGAGCTGAACTGAAACCCATTAAGGTTAAACT
1 GAAGCTC-ATAAGAGCTGAACAGAAACCCA-TAAGGTTAAACT
* *
56074755 AAAACTCATA
1 GAAGCTCATA
56074765 TGAGTTGATT
Statistics
Matches: 78, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.04
42 70 0.90
43 5 0.06
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (41 bp):
GAAGCTCATAAGAGCTGAACAGAAACCCATAAGGTTAAACT
Found at i:56083281 original size:41 final size:40
Alignment explanation
Indices: 56083217--56083328 Score: 127
Period size: 41 Copynumber: 2.7 Consensus size: 40
56083207 TTTTTAACCT
*
56083217 TTAGCGGCGTTTTTGTCAAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCTGT-TCA
* * * * *
56083258 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCGTTTTT-TCTAAGCGCCGCTAATGCTCTGTTCA
56083299 TTAGCGGCGTTTTTTGCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTT-CTAAGCGCCGCTAA
56083329 AGTTCGTGTT
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.02
41 56 0.95
42 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (40 bp):
TTAGCGGCGTTTTTTCTAAGCGCCGCTAATGCTCTGTTCA
Found at i:56083564 original size:82 final size:82
Alignment explanation
Indices: 56083468--56083644 Score: 336
Period size: 82 Copynumber: 2.2 Consensus size: 82
56083458 GTGTACTCTA
56083468 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
*
56083533 TTTCTGTAATTGAAAAT
66 TTTCTGTAATTGAAAAG
*
56083550 TTAGTGGCGTTTTAAGGTAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
1 TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
56083615 TTTCTGTAATTGAAAAG
66 TTTCTGTAATTGAAAAG
56083632 TTAGTGGCGTTTT
1 TTAGTGGCGTTTT
56083645 TTCCGGTAGC
Statistics
Matches: 93, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 93 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (82 bp):
TTAGTGGCGTTTTAAGGGAAAACGCCGCAAATATGTCTACAATTTTGTGAAAACGTCACCGTTTC
TTTCTGTAATTGAAAAG
Found at i:56084566 original size:8 final size:10
Alignment explanation
Indices: 56084544--56084580 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
56084534 TATTTTTACT
56084544 TATATATGGA
1 TATATATGGA
*
56084554 TATATATGAA
1 TATATATGGA
56084564 TATATATGGA
1 TATATATGGA
56084574 TATATAT
1 TATATAT
56084581 ATAGTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:56084689 original size:27 final size:27
Alignment explanation
Indices: 56084648--56084699 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56084638 AATAAACAAA
* *
56084648 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
56084675 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
56084700 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:56086032 original size:14 final size:14
Alignment explanation
Indices: 56086013--56086042 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
56086003 ATAAAAGGTT
56086013 TTTAGTTAATCATC
1 TTTAGTTAATCATC
56086027 TTTAGTTAATCATC
1 TTTAGTTAATCATC
56086041 TT
1 TT
56086043 GCTGTTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTTAGTTAATCATC
Found at i:56086606 original size:11 final size:11
Alignment explanation
Indices: 56086569--56086608 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
56086559 GAATATCTCA
56086569 AACT-ATGGGT
1 AACTAATGGGT
*
56086579 AACTAGTGGGT
1 AACTAATGGGT
56086590 AACTAATGGGT
1 AACTAATGGGT
56086601 AACTAATG
1 AACTAATG
56086609 TATTATCATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 4 0.15
11 23 0.85
ACGTcount: A:0.35, C:0.10, G:0.28, T:0.28
Consensus pattern (11 bp):
AACTAATGGGT
Found at i:56087972 original size:17 final size:17
Alignment explanation
Indices: 56087950--56088051 Score: 105
Period size: 17 Copynumber: 5.6 Consensus size: 17
56087940 TGTTAAATTT
56087950 ATTACTAAAATACATTA
1 ATTACTAAAATACATTA
56087967 ATTACTAAAATACATTA
1 ATTACTAAAATACATTA
* * *
56087984 CTTACTAAAATTTGTTTAAATTT
1 ATTACTAAAA------TACATTA
56088007 ATTACTAAAATACATTA
1 ATTACTAAAATACATTA
*
56088024 CTTACTAAAATACATTA
1 ATTACTAAAATACATTA
*
56088041 CTTACTAAAAT
1 ATTACTAAAAT
56088052 TTGTTTAAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
17 58 0.81
23 14 0.19
ACGTcount: A:0.47, C:0.13, G:0.01, T:0.39
Consensus pattern (17 bp):
ATTACTAAAATACATTA
Found at i:56088074 original size:13 final size:13
Alignment explanation
Indices: 56088056--56088126 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
56088046 TAAAATTTGT
56088056 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
56088069 TTAAATATGTTAC
1 TTAAATTTATTAC
56088082 TTAAATTTATTAC
1 TTAAATTTATTAC
* *
56088095 TTAAATATGTTAC
1 TTAAATTTATTAC
56088108 TTAAATTTATTAC
1 TTAAATTTATTAC
56088121 TTAAAT
1 TTAAAT
56088127 AATTATAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (13 bp):
TTAAATTTATTAC
Found at i:56088082 original size:57 final size:57
Alignment explanation
Indices: 56087942--56088084 Score: 250
Period size: 57 Copynumber: 2.5 Consensus size: 57
56087932 CGATTGAATG
*
56087942 TTAAATTTATTACTAAAATACATTAATTACTAAAATACATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
56087999 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
1 TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
* **
56088056 TTAAATTTATTACTTAAATATGTTACTTA
1 TTAAATTTATTACTAAAATACATTACTTA
56088085 AATTTATTAC
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 82 1.00
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (57 bp):
TTAAATTTATTACTAAAATACATTACTTACTAAAATACATTACTTACTAAAATTTGT
Found at i:56088092 original size:26 final size:26
Alignment explanation
Indices: 56088056--56088127 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
56088046 TAAAATTTGT
56088056 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
56088082 TTAAATTTATTACTTAAATATGTTAC
1 TTAAATTTATTACTTAAATATGTTAC
56088108 TTAAATTTATTACTTAAATA
1 TTAAATTTATTACTTAAATA
56088128 ATTATAAATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (26 bp):
TTAAATTTATTACTTAAATATGTTAC
Found at i:56088414 original size:19 final size:19
Alignment explanation
Indices: 56088390--56088616 Score: 100
Period size: 19 Copynumber: 12.5 Consensus size: 19
56088380 TATTAAATAA
56088390 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
56088409 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
*
56088427 TACAT--T-ACTTACATA-A
1 TACATAATAACTTACA-ACT
56088443 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
56088462 TACATAATACATTTAACTTACAACT
1 TAC---ATA-A--TAACTTACAACT
**
56088487 TACATAAT-ACATT-TGACT
1 TACATAATAAC-TTACAACT
* *
56088505 GACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* *
56088523 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
56088537 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* *
56088556 TACATAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
* *
56088575 TACA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
56088589 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
56088608 TACATAATA
1 TACATAATA
56088617 CATAATAACT
Statistics
Matches: 161, Mismatches: 19, Indels: 56
0.68 0.08 0.24
Matches are distributed among these distances:
14 8 0.05
15 10 0.06
16 14 0.09
17 11 0.07
18 43 0.27
19 52 0.32
21 1 0.01
22 6 0.04
23 1 0.01
25 15 0.09
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.33
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:56088428 original size:18 final size:18
Alignment explanation
Indices: 56088405--56088526 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
56088395 AATAACTTAC
56088405 AACTTACATAATACATTT
1 AACTTACATAATACATTT
*
56088423 AACTTACATTACTTACA--T
1 AACTTACA-TA-ATACATTT
*
56088441 AA--TACATAATA-ACTTAC
1 AACTTACATAATACA-TT-T
56088458 AACTTACATAATACATTTAACTT
1 AACTTACATAATACA--T---TT
56088481 ACAACTTACATAATACATTT
1 --AACTTACATAATACATTT
* *
56088501 GACTGACATAATACATTT
1 AACTTACATAATACATTT
56088519 AACTTACA
1 AACTTACA
56088527 ACTTACACAA
Statistics
Matches: 80, Mismatches: 9, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 2 0.03
16 4 0.05
17 2 0.03
18 33 0.41
19 11 0.14
20 7 0.09
21 1 0.01
23 1 0.01
24 1 0.01
25 15 0.19
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:56088469 original size:26 final size:26
Alignment explanation
Indices: 56088386--56088791 Score: 579
Period size: 26 Copynumber: 16.1 Consensus size: 26
56088376 ATTTTATTAA
56088386 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
56088412 ATAATACAT-TTAACTTACATTACTTAC
1 ATAATACATAATAACTTACA--ACTTAC
56088439 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
56088465 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
56088490 ATAATAC---AT---TT--GACTGAC
1 ATAATACATAATAACTTACAACTTAC
*
56088508 ATAATACATT-TAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
56088533 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
56088559 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
56088585 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
56088611 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
56088637 ATAATACAT-TTAACTTGCAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
56088662 ACAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
56088688 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
*
56088714 ATAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
* *
56088739 ACAATACAT-TTAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
56088764 ATAATACATAATAACTTACAACTTAC
1 ATAATACATAATAACTTACAACTTAC
56088790 AT
1 AT
56088792 TTAACTTACA
Statistics
Matches: 343, Mismatches: 23, Indels: 28
0.87 0.06 0.07
Matches are distributed among these distances:
18 12 0.03
20 3 0.01
23 3 0.01
25 113 0.33
26 188 0.55
27 15 0.04
28 9 0.03
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (26 bp):
ATAATACATAATAACTTACAACTTAC
Found at i:56088637 original size:19 final size:19
Alignment explanation
Indices: 56088563--56088693 Score: 65
Period size: 19 Copynumber: 7.5 Consensus size: 19
56088553 ACTTACATAA
56088563 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
* * *
56088582 TACACAAT-ACATAATAACT
1 TACATAATAAC-TTACAACT
*
56088601 TAC-----AACTTACATA-A
1 TACATAATAACTTACA-ACT
56088615 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
*
56088634 TACATAAT-ACATT-TAACT
1 TACATAATAAC-TTACAACT
* * *
56088652 TGCA-ACTTAC--ACAA--
1 TACATAATAACTTACAACT
56088666 TACATAATAACTTACAACT
1 TACATAATAACTTACAACT
56088685 TACATAATA
1 TACATAATA
56088694 CATAATAACT
Statistics
Matches: 81, Mismatches: 14, Indels: 34
0.63 0.11 0.26
Matches are distributed among these distances:
14 9 0.11
15 7 0.09
16 2 0.02
17 6 0.07
18 14 0.17
19 43 0.53
ACGTcount: A:0.48, C:0.21, G:0.01, T:0.31
Consensus pattern (19 bp):
TACATAATAACTTACAACT
Found at i:56088667 original size:77 final size:76
Alignment explanation
Indices: 56088510--56088791 Score: 492
Period size: 77 Copynumber: 3.7 Consensus size: 76
56088500 TGACTGACAT
* * *
56088510 AATACATTTAACTTACAACTTACACAATACATAATAACTTACAACTTACATAATACATAATAACT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACAT-TTAACT
56088575 TACAACTTACAC
65 TACAACTTACAC
56088587 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
*
56088652 TGCAACTTACAC
65 TACAACTTACAC
56088664 AATACATAATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
1 AATACAT-ATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACT
56088729 TACAACTTACAC
65 TACAACTTACAC
*
56088741 AATACATTTAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
1 AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACAT
56088792 TTAACTTACA
Statistics
Matches: 198, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
76 43 0.22
77 106 0.54
78 49 0.25
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.31
Consensus pattern (76 bp):
AATACATATAACTTACAACTTACATAATACATAATAACTTACAACTTACATAATACATTTAACTT
ACAACTTACAC
Found at i:56088799 original size:11 final size:10
Alignment explanation
Indices: 56088783--56088836 Score: 55
Period size: 9 Copynumber: 5.7 Consensus size: 10
56088773 AATAACTTAC
56088783 AACTTACATTT
1 AACTTACA-TT
56088794 AACTTACA-T
1 AACTTACATT
56088803 AA--TACATTT
1 AACTTACA-TT
56088812 AACTTACA-T
1 AACTTACATT
56088821 AACTTACA-T
1 AACTTACATT
56088830 AACTTAC
1 AACTTAC
56088837 CATTGCAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.10
9 23 0.59
11 12 0.31
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.37
Consensus pattern (10 bp):
AACTTACATT
Found at i:56088820 original size:18 final size:18
Alignment explanation
Indices: 56088757--56088822 Score: 89
Period size: 18 Copynumber: 3.6 Consensus size: 18
56088747 TTTAACTTAC
*
56088757 AACTTACATAATACATAAT
1 AACTTACATAATACAT-TT
*
56088776 AACTTACA-ACTTACATTT
1 AACTTACATA-ATACATTT
56088794 AACTTACATAATACATTT
1 AACTTACATAATACATTT
56088812 AACTTACATAA
1 AACTTACATAA
56088823 CTTACATAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 28 0.67
19 14 0.33
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (18 bp):
AACTTACATAATACATTT
Found at i:56088832 original size:18 final size:18
Alignment explanation
Indices: 56088672--56088836 Score: 69
Period size: 18 Copynumber: 9.5 Consensus size: 18
56088662 ACAATACATA
56088672 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
*
56088688 ATAATACATA-ATAACTTAC
1 AT-A-ACTTACATAACTTAC
56088707 --AACTTACATAA--TAC
1 ATAACTTACATAACTTAC
56088721 ATTTAACTTAC--AACTTAC
1 A--TAACTTACATAACTTAC
*
56088739 ACAA--TACATTTAACTTAC
1 ATAACTTACA--TAACTTAC
*
56088757 --AACTTACATAATACATA-
1 ATAACTTACAT-A-ACTTAC
56088774 ATAACTTAC--AACTTAC
1 ATAACTTACATAACTTAC
56088790 ATTTAACTTACATAA--TAC
1 A--TAACTTACATAACTTAC
56088808 ATTTAACTTACATAACTTAC
1 A--TAACTTACATAACTTAC
56088828 ATAACTTAC
1 ATAACTTAC
56088837 CATTGCAATT
Statistics
Matches: 116, Mismatches: 5, Indels: 54
0.66 0.03 0.31
Matches are distributed among these distances:
14 6 0.05
15 8 0.07
16 16 0.14
17 2 0.02
18 64 0.55
19 14 0.12
20 6 0.05
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (18 bp):
ATAACTTACATAACTTAC
Found at i:56094313 original size:21 final size:21
Alignment explanation
Indices: 56094287--56094357 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
56094277 CTACAACTTA
* *
56094287 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* *
56094308 AAGCAGCGACTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGGG
* * *
56094329 AAGCGGAGGCTGCAGCAAGAG
1 AAGCAGAGGCTGCAGCGAGGG
56094350 AAGCAGAG
1 AAGCAGAG
56094358 CAGAGCAAAA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGGG
Found at i:56094600 original size:14 final size:14
Alignment explanation
Indices: 56094581--56094614 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
56094571 ATTGCTATTG
56094581 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
56094595 GTTGCTTTTGAAAT
1 GTTGCTTTTGAAAT
*
56094609 TTTGCT
1 GTTGCT
56094615 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (14 bp):
GTTGCTTTTGAAAT
Found at i:56094781 original size:43 final size:42
Alignment explanation
Indices: 56094667--56095053 Score: 397
Period size: 42 Copynumber: 9.2 Consensus size: 42
56094657 CAAAAATAGT
* * *
56094667 GGCGTTTTTGTATAAAAGCGCCACTAAAGAACATGTTCTTTTGC
1 GGCGTTTTT-T-TAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
56094711 GGCG--TTTGTAAAAATGCCACTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
***** *
56094751 GGCGATTAGAAAAAAAACGCCGCTAAAGAACATGATCTTTAGC
1 GGCG-TTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
56094794 GGCGTTTTCCCTT--AAGCGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTT--TTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
56094836 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGT
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* *
56094878 GGCATTTTTTTACAAACGCCGCTAAAGAACATGTTCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
* * *
56094920 GGCGTTTTTTT-TAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * *
56094961 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
** * * *
56095003 GGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAAC
1 GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
56095045 GGCGTTTTT
1 GGCGTTTTT
56095054 GTTTGTAAAC
Statistics
Matches: 301, Mismatches: 34, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
40 35 0.12
41 38 0.13
42 192 0.64
43 32 0.11
44 4 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GGCGTTTTTTTAAAAACGCCGCTAAAGAACATGTTCTTTAGC
Found at i:56094832 original size:42 final size:42
Alignment explanation
Indices: 56094768--56095053 Score: 443
Period size: 42 Copynumber: 6.8 Consensus size: 42
56094758 AGAAAAAAAA
**
56094768 CGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTCCCTTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC-TAAG
*
56094810 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* * * *
56094852 CGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-AAA
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-CTAAG
*
56094894 CGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTT-TAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
56094935 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
56094977 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
* *
56095019 CGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
56095054 GTTTGTAAAC
Statistics
Matches: 226, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
41 38 0.17
42 182 0.81
43 6 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
Found at i:56094934 original size:125 final size:125
Alignment explanation
Indices: 56094765--56095053 Score: 463
Period size: 125 Copynumber: 2.3 Consensus size: 125
56094755 ATTAGAAAAA
* *
56094765 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTCCCTTAAGCGCCGCTAAAGAACATGTTC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TCTTAAGCGCCGCTAAAGAACATGATC
* *
56094830 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGGTCTTTAGTGGCATTTTTTTAC-
65 TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTT-CT
* *
56094891 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTTTTTTAAGCGCCGCTAAAGAACATGATCT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTAAGCGCCGCTAAAGAACATGATCT
*
56094956 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
66 TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
* * *
56095016 AAGCGCCGCTAAAGAACATGGTCTTTAACGGCGTTTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
56095054 GTTTGTAAAC
Statistics
Matches: 152, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
124 1 0.01
125 115 0.76
126 36 0.24
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (125 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTCTTAAGCGCCGCTAAAGAACATGATCT
TTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
Found at i:56095412 original size:25 final size:25
Alignment explanation
Indices: 56095372--56095430 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
56095362 TGAAAATGGG
*
56095372 GAGTTTTGGGTATTAGTTAAACGAT
1 GAGTTTTGGATATTAGTTAAACGAT
* * *
56095397 GAGTTTTGGATGTTAGTTAGACGGT
1 GAGTTTTGGATATTAGTTAAACGAT
56095422 GAGTTTTGG
1 GAGTTTTGG
56095431 GGTGTTAACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.22, C:0.03, G:0.34, T:0.41
Consensus pattern (25 bp):
GAGTTTTGGATATTAGTTAAACGAT
Found at i:56097503 original size:25 final size:25
Alignment explanation
Indices: 56097433--56097505 Score: 94
Period size: 25 Copynumber: 2.9 Consensus size: 25
56097423 GTTTTTCAGT
*
56097433 TAACACCTCAAAACTCACCGTCTAAC
1 TAACACC-CAAAACTCACCGTTTAAC
*
56097459 TAACATCCAAAACTCACCGTTTAAC
1 TAACACCCAAAACTCACCGTTTAAC
*
56097484 TAATACCCAAAACTTC-CCGTTT
1 TAACACCCAAAAC-TCACCGTTT
56097506 TCATTAACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
25 34 0.81
26 8 0.19
ACGTcount: A:0.37, C:0.34, G:0.04, T:0.25
Consensus pattern (25 bp):
TAACACCCAAAACTCACCGTTTAAC
Found at i:56106418 original size:3 final size:3
Alignment explanation
Indices: 56106355--56106403 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
56106345 ATTAATTGGT
56106355 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
56106403 T
1 T
56106404 ATGTACATTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:56117918 original size:49 final size:50
Alignment explanation
Indices: 56117827--56117925 Score: 146
Period size: 49 Copynumber: 2.0 Consensus size: 50
56117817 AAGGAGAAGG
* * *
56117827 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGATTTCTAAAAAA-AAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAAATAAAAA
* *
56117876 GACCAATGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAATAAAAA
1 GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAAATAAAAA
56117926 ATAAACCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 39 0.89
50 5 0.11
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.15
Consensus pattern (50 bp):
GACCAAGGTGAAAACCCGCAAAGGGCACTTTGAGTCCAAAAAAATAAAAA
Found at i:56119488 original size:132 final size:132
Alignment explanation
Indices: 56119344--56119796 Score: 631
Period size: 132 Copynumber: 3.4 Consensus size: 132
56119334 GATAGAAGAT
* * * *
56119344 ACCAACCTTATC-TCCTTGAGCAACAATAGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAG
1 ACCAGCCTTATCTTCC-TGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAG
** * *
56119408 CAGTAGTGGAGCAGATCAAAGACGGTGAATTTTATCTTCCCAAGGCAGTAGGGAAGTAGATTTAA
65 CAGTAGTGGAGCAGATCAAAGACGGAAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAA
56119473 GCC
130 GCC
* *
56119476 ACCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACACATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTTCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
* * *
56119541 AGTAGTGGAGCAGATCAAAGACGAAAAATTTTATCTTTCCAATGAAGTAGGGAAGCAGATTTAAG
66 AGTAGTGGAGCAGATCAAAGACGGAAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAAG
*
56119606 TC
131 CC
* * * *
56119608 ACTAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTAGAAAATTACAGATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTTCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
* * * *
56119673 AGTAGTGGAGCAGAT-AGAAGACGGCAAATCTTATCTTTCCAAGACAGTAGGGAAGCAGATTGAA
66 AGTAGTGGAGCAGATCA-AAGACGGAAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAA
56119737 GCC
130 GCC
* * * **
56119740 ACTAGCCTTATCTTCCTGAGCAACAGTGGAGTAGGTCGAAGATTGTAGATCTTATCT
1 ACCAGCCTTATCTTCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCT
56119797 TCCTGTACTG
Statistics
Matches: 287, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
131 1 0.00
132 283 0.99
133 3 0.01
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (132 bp):
ACCAGCCTTATCTTCCTGAGCAACAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCAAAGACGGAAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAAG
CC
Found at i:56119704 original size:44 final size:44
Alignment explanation
Indices: 56119394--56119708 Score: 142
Period size: 44 Copynumber: 7.2 Consensus size: 44
56119384 AATTACAGAC
***
56119394 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGACGGTGAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT-AGAAGACGACAAAT
* * ** * * **
56119438 TTTATCTTCCC-AAGGCAGTAG-GGAAGTAGATTTAAG-CCACCAGC
1 CTTATC-TCCCTAA-GCAGTAGTGG-AGCAGATAGAAGACGACAAAT
* * * * * * * ** *
56119482 CTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACACAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGACAAAT
*
56119526 CTTATCTCCCTAAGCAGTAGTGGAGCAGATCA-AAGACGAAAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGAT-AGAAGACGACAAAT
* * * ** * * **
56119570 TTTATCTTTCC-AATGAAGTAG-GGAAGCAGATTTAAGTC-ACTAGC
1 CTTATC-TCCCTAA-GCAGTAGTGG-AGCAGATAGAAGACGACAAAT
* * * * * ** *
56119614 CTTATCTCCCTGAGCAGCAGTGGAGTAGGTAGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGACAAAT
*
56119658 CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGGCAAAT
1 CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGACAAAT
56119702 CTTATCT
1 CTTATCT
56119709 TTCCAAGACA
Statistics
Matches: 189, Mismatches: 67, Indels: 30
0.66 0.23 0.10
Matches are distributed among these distances:
43 33 0.17
44 116 0.61
45 40 0.21
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.26
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGACAAAT
Found at i:56119878 original size:88 final size:87
Alignment explanation
Indices: 56119724--56119914 Score: 197
Period size: 88 Copynumber: 2.2 Consensus size: 87
56119714 AGACAGTAGG
* * * * * * * *
56119724 GAAGCAGATTGAAGCCACTAGCCTTATCTTCCTGAGCAACAGTGGAGTAGGTCGAAGATTGTAGA
1 GAAGCAGATCGAAG-CACCAGCCTTATCTCCCTGAGCAACAGCGAAGCAGGTCGAAGATAGCAGA
* * *
56119789 TCTT-ATCTTCCTGTACTGGCAGT
65 TCTTGCT-TTCCTGTACTGCCAAT
* *
56119812 GAAGCAGATCGGAAGCACCAGCCTTATCTCCCTGAGCAGCAGCGAAGCAGGTTGAA-AGTAGCAG
1 GAAGCAGATC-GAAGCACCAGCCTTATCTCCCTGAGCAACAGCGAAGCAGGTCGAAGA-TAGCAG
* *
56119876 ATCTTGCTTTCTTGTATTGCCAAT
64 ATCTTGCTTTCCTGTACTGCCAAT
56119900 GAAGCAGATCGAAGC
1 GAAGCAGATCGAAGC
56119915 CAATAATCCT
Statistics
Matches: 85, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
87 6 0.07
88 74 0.87
89 5 0.06
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.25
Consensus pattern (87 bp):
GAAGCAGATCGAAGCACCAGCCTTATCTCCCTGAGCAACAGCGAAGCAGGTCGAAGATAGCAGAT
CTTGCTTTCCTGTACTGCCAAT
Found at i:56124809 original size:61 final size:61
Alignment explanation
Indices: 56124653--56124791 Score: 278
Period size: 61 Copynumber: 2.3 Consensus size: 61
56124643 TTTCGCGATA
56124653 CTGAAGGTCGGATGTCGCAACACCAAAGATAGATTACTCTATTGACTCTAATGTTGCAACG
1 CTGAAGGTCGGATGTCGCAACACCAAAGATAGATTACTCTATTGACTCTAATGTTGCAACG
56124714 CTGAAGGTCGGATGTCGCAACACCAAAGATAGATTACTCTATTGACTCTAATGTTGCAACG
1 CTGAAGGTCGGATGTCGCAACACCAAAGATAGATTACTCTATTGACTCTAATGTTGCAACG
56124775 CTGAAGGTCGGATGTCG
1 CTGAAGGTCGGATGTCG
56124792 TGACACTAAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 78 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (61 bp):
CTGAAGGTCGGATGTCGCAACACCAAAGATAGATTACTCTATTGACTCTAATGTTGCAACG
Found at i:56127790 original size:25 final size:25
Alignment explanation
Indices: 56127762--56127868 Score: 110
Period size: 25 Copynumber: 4.3 Consensus size: 25
56127752 GGACACACCA
*
56127762 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCTGATATT
*
56127787 CAGCT-GACATGAGCTTCCTGTTATT
1 CAGCTCG-CATGAGCTTCCTGATATT
* *
56127812 TAGCTCGCATGAGCTTCC-CATTATT
1 CAGCTCGCATGAGCTTCCTGA-TATT
* * * *
56127837 CAGCTCGCATAAGATTCCCGTTATT
1 CAGCTCGCATGAGCTTCCTGATATT
56127862 CAGCTCG
1 CAGCTCG
56127869 GAAAAGCTGA
Statistics
Matches: 68, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.01
25 66 0.97
26 1 0.01
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCTGATATT
Found at i:56127840 original size:50 final size:50
Alignment explanation
Indices: 56127762--56127868 Score: 128
Period size: 50 Copynumber: 2.1 Consensus size: 50
56127752 GGACACACCA
* * * *
56127762 CAGCTCGCATGAGCTTCCTGATACTCAGCT-GACATGAGCTTCCTGTTATT
1 CAGCTCGCATGAGCTTCCTCATACTCAGCTCG-CATAAGATTCCCGTTATT
* *
56127812 TAGCTCGCATGAGCTTCC-CATTATTCAGCTCGCATAAGATTCCCGTTATT
1 CAGCTCGCATGAGCTTCCTCA-TACTCAGCTCGCATAAGATTCCCGTTATT
56127862 CAGCTCG
1 CAGCTCG
56127869 GAAAAGCTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.02
50 46 0.96
51 1 0.02
ACGTcount: A:0.21, C:0.29, G:0.19, T:0.32
Consensus pattern (50 bp):
CAGCTCGCATGAGCTTCCTCATACTCAGCTCGCATAAGATTCCCGTTATT
Found at i:56131782 original size:21 final size:21
Alignment explanation
Indices: 56131758--56131799 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56131748 CTAGTTTATT
56131758 TTGAATATAATTATATTTAAA
1 TTGAATATAATTATATTTAAA
*
56131779 TTGAATGTAATTATATTTAAA
1 TTGAATATAATTATATTTAAA
56131800 CTAGCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
TTGAATATAATTATATTTAAA
Found at i:56132783 original size:41 final size:41
Alignment explanation
Indices: 56132738--56132864 Score: 209
Period size: 41 Copynumber: 3.1 Consensus size: 41
56132728 TTTATTGTCA
* * *
56132738 GTGAAATAATTCAGACTTTATGTCTAACAGGCTTGATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
56132779 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
* *
56132820 GTGAAATTATTCAGACTATACGTCTAGCAGGCTTAATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
56132861 GTGA
1 GTGA
56132865 TACATTTCGG
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
Found at i:56148843 original size:44 final size:44
Alignment explanation
Indices: 56148795--56149098 Score: 136
Period size: 44 Copynumber: 6.9 Consensus size: 44
56148785 GTGGAATGGA
56148795 TTGAAGATAACCAG-CCTTATCTCCCTGAGCAGTAGTGGAGTAGG
1 TTGAAGATAA-CAGACCTTATCTCCCTGAGCAGTAGTGGAGTAGG
* * * * * * * * *
56148839 TTGAAGATAACAGATCTTGTTTTCCTGTA-CTAGAAGCGAATTAGA
1 TTGAAGATAACAGACCTTATCTCCCTG-AGC-AGTAGTGGAGTAGG
* * * * * *
56148884 TAGAAGATACCA-ACCTTATCTCCCTGAGTAGCAATAGAGTAGG
1 TTGAAGATAACAGACCTTATCTCCCTGAGCAGTAGTGGAGTAGG
* * * * **
56148927 TTGAAAATTACAGACCTTATCTCCCTAAGCAGTAGTGGAGCAAA
1 TTGAAGATAACAGACCTTATCTCCCTGAGCAGTAGTGGAGTAGG
** *** ** * *
56148971 TCAAAGACGGC-GAATTTTATCTTCCC-AAGGCAGTAG-GGAAGTAGA
1 TTGAAGATAACAG-ACCTTATC-TCCCTGA-GCAGTAGTGG-AGTAGG
* ** * * *
56149016 TTTAAGCCACCAG-CCTTATCTTCCTGAGCAGCAGTGGAGTAGG
1 TTGAAGATAACAGACCTTATCTCCCTGAGCAGTAGTGGAGTAGG
* * * *
56149059 TTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAG
1 TTGAAGATAACAGACCTTATCTCCCTGAGCAGTAGTGGAG
56149099 CAGATCAAAG
Statistics
Matches: 181, Mismatches: 66, Indels: 26
0.66 0.24 0.10
Matches are distributed among these distances:
43 41 0.23
44 98 0.54
45 41 0.23
46 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (44 bp):
TTGAAGATAACAGACCTTATCTCCCTGAGCAGTAGTGGAGTAGG
Found at i:56149033 original size:132 final size:132
Alignment explanation
Indices: 56148892--56149344 Score: 647
Period size: 132 Copynumber: 3.4 Consensus size: 132
56148882 GATAGAAGAT
* * * * *
56148892 ACCAACCTTATCTCCCTGAGTAGCAATAGAGTAGGTTGAAAATTACAGACCTTATCTCCCTAAGC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
* * * *
56148957 AGTAGTGGAGCAAATCAAAGACGGCGAATTTTATCTTCCCAAGGCAGTAGGGAAGTAGATTTAAG
66 AGTAGTGGAGCAGATCAAAGACGGCAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAAG
56149022 CC
131 CC
*
56149024 ACCAGCCTTATCTTCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
** * * *
56149089 AGTAGTGGAGCAGATCAAAGACGAAAAATTTTATCTTTCCAATGAAGTAAGGAAGCAGATTTAAG
66 AGTAGTGGAGCAGATCAAAGACGGCAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAAG
*
56149154 TC
131 CC
* * *
56149156 ACTAGCCTTATCTCCCTAAGCAGCAGTGGAGTAGGTAGAAAATTACAGATCTTATCTCCCTAAGC
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
* *
56149221 AGTAGTGGAGCAGAT-AGAAGACGGCAAATCTTATCTTTCCAAGACAGTAGGGAAGCAGATTTAA
66 AGTAGTGGAGCAGATCA-AAGACGGCAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAA
56149285 GCC
130 GCC
* * * * **
56149288 ACTAGCCTTATCTCCCTGAGCAACAGTGGAGTAGGTCGAAGATTGTAGATCTTATCT
1 ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCT
56149345 TCCTGTACTG
Statistics
Matches: 286, Mismatches: 34, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
131 1 0.00
132 285 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (132 bp):
ACCAGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGATCTTATCTCCCTAAGC
AGTAGTGGAGCAGATCAAAGACGGCAAATTTTATCTTTCCAAGGCAGTAGGGAAGCAGATTTAAG
CC
Found at i:56149252 original size:44 final size:44
Alignment explanation
Indices: 56149162--56149256 Score: 118
Period size: 44 Copynumber: 2.2 Consensus size: 44
56149152 AGTCACTAGC
* * ** *
56149162 CTTATCTCCCTAAGCAGCAGTGGAGTAGGTAGAAAATTACAGAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATAGAAAACGACAAAT
* * *
56149206 CTTATCTCCCTAAGCAGTAGTGGAGCAGATAGAAGACGGCAAAT
1 CTTATCTCCCTAAGCAGCAGTGGAGCAGATAGAAAACGACAAAT
56149250 CTTATCT
1 CTTATCT
56149257 TTCCAAGACA
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTAAGCAGCAGTGGAGCAGATAGAAAACGACAAAT
Found at i:56157270 original size:25 final size:25
Alignment explanation
Indices: 56157242--56157348 Score: 160
Period size: 25 Copynumber: 4.3 Consensus size: 25
56157232 GGACACACCA
* * *
56157242 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
56157267 CAGCTCGCATGAGCTTCCTGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
56157292 TAGCTCGCATGAGCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
*
56157317 CAGCTCGCATGAGATTCCCGTTATT
1 CAGCTCGCATGAGCTTCCCGTTATT
56157342 CAGCTCG
1 CAGCTCG
56157349 GAAAAGCTGA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 76 1.00
ACGTcount: A:0.18, C:0.30, G:0.21, T:0.32
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCCGTTATT
Found at i:56161262 original size:21 final size:21
Alignment explanation
Indices: 56161238--56161279 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56161228 CTAGTTTATT
56161238 TTGAATATAATTATATTTAAA
1 TTGAATATAATTATATTTAAA
*
56161259 TTGAATGTAATTATATTTAAA
1 TTGAATATAATTATATTTAAA
56161280 CTAGCTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (21 bp):
TTGAATATAATTATATTTAAA
Found at i:56162267 original size:41 final size:41
Alignment explanation
Indices: 56162222--56162348 Score: 218
Period size: 41 Copynumber: 3.1 Consensus size: 41
56162212 TTTATTGTCA
* *
56162222 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
56162263 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
* *
56162304 GTGAAATTATTCAGACTATACGTCTAGCAGGCTTAATGCCG
1 GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
56162345 GTGA
1 GTGA
56162349 TACATTTCGG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 82 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (41 bp):
GTGAAATTATTCAGACTATATGTCTAGCAGGCTTGATGCCG
Found at i:56162371 original size:82 final size:82
Alignment explanation
Indices: 56162222--56162377 Score: 199
Period size: 82 Copynumber: 1.9 Consensus size: 82
56162212 TTTATTGTCA
* * * * **
56162222 GTGAAATAATTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATTATTCAGACTATATGTC
1 GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATTATTCAGACAATAAATC
56162287 TAGCAGGCTTGATGCCG
66 TAGCAGGCTTGATGCCG
* *
56162304 GTGAAATTATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGATACA-T-TTCGGACAATAAA
1 GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGA-A-ATTATTCAGACAATAAA
*
56162367 TCTAGTAGGCT
64 TCTAGCAGGCT
56162378 AAAAGCCGGT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
82 60 0.95
83 2 0.03
84 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (82 bp):
GTGAAATAATTCAGACTATACGTCTAGCAGGCTTAATGCCGGTGAAATTATTCAGACAATAAATC
TAGCAGGCTTGATGCCG
Found at i:56171360 original size:804 final size:797
Alignment explanation
Indices: 56169777--56171374 Score: 2991
Period size: 804 Copynumber: 2.0 Consensus size: 797
56169767 TTTTATCCAT
* *
56169777 TAGGCACTAAATTGTAAAAAGTGTAAATGTTAGGGGAAAAAAGTGGTAATTTACCCATTTATGTG
1 TAGGCACTAAATTGTAAAAACTATAAATGTTAGGGGAAAAAAGTGGTAATTTACCCATTTATGTG
56169842 TTTTTGGATTAAATTGAATGTAATTATATTTAAACTAGCTTATTTTGAATATAATTAGATCAAGA
66 TTTTTGGATTAAATTGAATGTAATTATATTTAAACTAGCTTATTTTGAATATAATTAGATCAAGA
56169907 ACCGAAGAAATCAGAGTTGGATCGGGGAAAAACTAAAGTTGTCGATTAATCGTCTGGTTTCGACT
131 ACCGAAGAAATCAGAGTTGGATCGGGGAAAAACTAAAGTTGTCGATTAATCGTCTGGTTTCGACT
* * *
56169972 TTTCAACGTACGAGGTAAGTCCATTAGCAATTTGTGGTTTTTAAATTAGTATATATGCATGAATA
196 TTTCAACGTACGAGGTAAGTCCATTAGCAATTTGAGGTTATTAAATCAGTATATATGCATGAATA
*
56170037 TCTATTGTATTTTGGTGAGCTGAAATTGAAAGTATATGGATTGAATTTGGTTTAAATATGAATGA
261 TCTATTGTATTTTGATGAGCTGAAATTGAAAGTATATGGATTGAATTTGGTTTAAATATGAATGA
56170102 TATATATATATGTATCATGTTCGAAAATATATAAATGTATAAATACTTGTTTTTAATCAAAGGTA
326 TATATATATATGTATCATGTTCGAAAATATATAAATGTATAAATACTTGTTTTTAATCAAAGGTA
*
56170167 TTTATATATATAATATATATGTATACATAAGGTCTGAATATATATATAAGCATATACATGTATAA
391 TTTATATATATAATATATATGTATACATAAGGTCCGAATATATATATAAGCATATACATGTATAA
*
56170232 ACCTTTGGACTTGGTTAAAGGTATGAATGTGTATATATATGTACACGTGAGTTGTAATATATATG
456 ACCCTTGGACTTGGTTAAAGGTATGAATGTGTATATATATGTACACGTGAGTTGTAATATATATG
56170297 TATACTCATGAATAAGTCTTGAATATATTTAAAGGTATGAATCTTATGTATGTATATGTAATTTC
521 TATACTCATGAATAAGTCTTGAATATATTTAAAGGTATGAATCTTATGTATGTATATGTAATTTC
*
56170362 GAATATGTGTGTATATACATGTACAAATTTTTGTATTGAATTAAAGGTATGAAATTGTTAGCTTA
586 GAATATGTGTGTATATACATGTACAAATTTTTGTATTGAATTAAAGGTACGAAATTGTTAGCTTA
56170427 GATTATCTATAAGGTATTAGAATGTATGATATATATTTTCTTTGAATTGATTTTTTTTAATGTAA
651 GATTATCTATAAGGTATTAGAATGTATGATATATATTTTCTTTGAATTGATTTTTTTTAATGTAA
56170492 TGAAATATATATATATAAAAGTCATTCGATTAGTAAATGTATACTACTTAAGGTATGATATAAGT
716 TGAAATATATATATATAAAAGTCATTCGATTAGTAAATGTATACTACTTAAGGTATGATATAAGT
56170557 TAAATGATAAGATTCAA
781 TAAATGATAAGATTCAA
*
56170574 TAGGGACTAAATTGTAAAAACTATAAATGTTAGGGGAAAAAA-TGGTAATTTACCCATTTATGTG
1 TAGGCACTAAATTGTAAAAACTATAAATGTTAGGGGAAAAAAGTGGTAATTTACCCATTTATGTG
56170638 TTTTTGGATTAAATTGAATGTAATTATATTTAAACTAGCTTATTTTGAATATAATTAGATCAAGA
66 TTTTTGGATTAAATTGAATGTAATTATATTTAAACTAGCTTATTTTGAATATAATTAGATCAAGA
56170703 ACCGAAGAAATCAGAGTTGGATCGGGGAAAAACTAAAGTTGTCGATTAATCGTCTGGTTTCGACT
131 ACCGAAGAAATCAGAGTTGGATCGGGGAAAAACTAAAGTTGTCGATTAATCGTCTGGTTTCGACT
* *
56170768 TTTCAACGTACGAGGTAAGTCCATTAGCAATTTGAGGTTATTAAGTCAGTATATATGCATGTATA
196 TTTCAACGTACGAGGTAAGTCCATTAGCAATTTGAGGTTATTAAATCAGTATATATGCATGAATA
56170833 TCTATTGTATTTTGATGAGCTGAAATTGAAAGTATATGGATTGAATTTGGTTTAAGTATGAATGA
261 TCTATTGTATTTTGATGAGCTGAAATTGAAAGTATATGGATTGAATTTGGTTTAA--AT--ATGA
* *
56170898 TATGTATAAATATATATATGTATCATGTTTGAAAATATATATATGTATAAATACTTGTTTTTAAT
322 -ATG-AT--ATATATATATGTATCATGTTCGAAAATATATAAATGTATAAATACTTGTTTTTAAT
56170963 CAAAGGTATTTATATATATAATATATATGTATACATAAGGTCCGAATATATATATAAGCATATAC
383 CAAAGGTATTTATATATATAATATATATGTATACATAAGGTCCGAATATATATATAAGCATATAC
56171028 ATGTATAAACCCTTGGACTTGGTTAAAGGTATGAATGTGTATATATATGTACACGTGAGTTGTAA
448 ATGTATAAACCCTTGGACTTGGTTAAAGGTATGAATGTGTATATATATGTACACGTGAGTTGTAA
56171093 TATATATGTATACTCATGAATAAGTCTTGAATATATTTAAAGGTATGAATCTTATGTATGTATAT
513 TATATATGTATACTCATGAATAAGTCTTGAATATATTTAAAGGTATGAATCTTATGTATGTATAT
56171158 GTAATTTCGAATATGTGTGTATATACATGTACAAATTTTTGTATTGAATTAAAGGTACGAAATTG
578 GTAATTTCGAATATGTGTGTATATACATGTACAAATTTTTGTATTGAATTAAAGGTACGAAATTG
56171223 TTAGCTTAGATTATCTATAAGGTATTAGAATGTATGATATATATTTTCTTTGAATTGATTTTTTT
643 TTAGCTTAGATTATCTATAAGGTATTAGAATGTATGATATATATTTTCTTTGAATTGATTTTTTT
56171288 TAATGTAATGAAATATATATATATAAAAGTCATTCGATTAGTAAATGTATACTACTTAAGGTATG
708 TAATGTAATGAAATATATATATATAAAAGTCATTCGATTAGTAAATGTATACTACTTAAGGTATG
56171353 ATATAAGTTAAATGATAAGATT
773 ATATAAGTTAAATGATAAGATT
56171375 TTAATAGTAG
Statistics
Matches: 779, Mismatches: 14, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
796 266 0.34
797 39 0.05
798 2 0.00
800 4 0.01
801 3 0.00
802 2 0.00
804 463 0.59
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (797 bp):
TAGGCACTAAATTGTAAAAACTATAAATGTTAGGGGAAAAAAGTGGTAATTTACCCATTTATGTG
TTTTTGGATTAAATTGAATGTAATTATATTTAAACTAGCTTATTTTGAATATAATTAGATCAAGA
ACCGAAGAAATCAGAGTTGGATCGGGGAAAAACTAAAGTTGTCGATTAATCGTCTGGTTTCGACT
TTTCAACGTACGAGGTAAGTCCATTAGCAATTTGAGGTTATTAAATCAGTATATATGCATGAATA
TCTATTGTATTTTGATGAGCTGAAATTGAAAGTATATGGATTGAATTTGGTTTAAATATGAATGA
TATATATATATGTATCATGTTCGAAAATATATAAATGTATAAATACTTGTTTTTAATCAAAGGTA
TTTATATATATAATATATATGTATACATAAGGTCCGAATATATATATAAGCATATACATGTATAA
ACCCTTGGACTTGGTTAAAGGTATGAATGTGTATATATATGTACACGTGAGTTGTAATATATATG
TATACTCATGAATAAGTCTTGAATATATTTAAAGGTATGAATCTTATGTATGTATATGTAATTTC
GAATATGTGTGTATATACATGTACAAATTTTTGTATTGAATTAAAGGTACGAAATTGTTAGCTTA
GATTATCTATAAGGTATTAGAATGTATGATATATATTTTCTTTGAATTGATTTTTTTTAATGTAA
TGAAATATATATATATAAAAGTCATTCGATTAGTAAATGTATACTACTTAAGGTATGATATAAGT
TAAATGATAAGATTCAA
Found at i:56174230 original size:25 final size:25
Alignment explanation
Indices: 56174202--56174269 Score: 136
Period size: 25 Copynumber: 2.7 Consensus size: 25
56174192 GGACACACCA
56174202 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCTGATACT
56174227 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCTGATACT
56174252 CAGCTCGCATGAGCTTCC
1 CAGCTCGCATGAGCTTCC
56174270 CATTATTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.19, C:0.34, G:0.21, T:0.26
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCTGATACT
Found at i:56174283 original size:25 final size:25
Alignment explanation
Indices: 56174202--56174294 Score: 125
Period size: 25 Copynumber: 3.7 Consensus size: 25
56174192 GGACACACCA
*
56174202 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCTCATACT
*
56174227 CAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCTCATACT
*
56174252 CAGCTCGCATGAGCTTCC-CATTATT
1 CAGCTCGCATGAGCTTCCTCA-TACT
* *
56174277 CAACTCGCATGACCTTCC
1 CAGCTCGCATGAGCTTCC
56174295 CGTTATTCAG
Statistics
Matches: 63, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 1 0.02
25 62 0.98
ACGTcount: A:0.20, C:0.34, G:0.17, T:0.28
Consensus pattern (25 bp):
CAGCTCGCATGAGCTTCCTCATACT
Found at i:56174295 original size:25 final size:25
Alignment explanation
Indices: 56174255--56174303 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
56174245 TGATACTCAG
*
56174255 CTCGCATGAGCTTCCCATTATTCAA
1 CTCGCATGACCTTCCCATTATTCAA
*
56174280 CTCGCATGACCTTCCCGTTATTCA
1 CTCGCATGACCTTCCCATTATTCA
56174304 GCTCAGAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (25 bp):
CTCGCATGACCTTCCCATTATTCAA
Found at i:56174305 original size:50 final size:50
Alignment explanation
Indices: 56174202--56174320 Score: 134
Period size: 50 Copynumber: 2.4 Consensus size: 50
56174192 GGACACACCA
* * * *
56174202 CAGCTCGCATGAGCTTCCTGATACTCAGCTCGCATGAGCTTCCTGATACT
1 CAGCTCGCATGAGCTTCCTCATACTCAACTCGCATGACCTTCCCGATACT
* * *
56174252 CAGCTCGCATGAGCTTCC-CATTATTCAACTCGCATGACCTTCCCGTTATT
1 CAGCTCGCATGAGCTTCCTCA-TACTCAACTCGCATGACCTTCCCGATACT
*
56174302 CAGCTCAG-AAGAGCTTCCT
1 CAGCTC-GCATGAGCTTCCT
56174321 ATTTACAACT
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.02
50 56 0.97
51 1 0.02
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.29
Consensus pattern (50 bp):
CAGCTCGCATGAGCTTCCTCATACTCAACTCGCATGACCTTCCCGATACT
Found at i:56174318 original size:25 final size:25
Alignment explanation
Indices: 56174255--56174319 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
56174245 TGATACTCAG
*
56174255 CTCGCATGAGCTTCCCATTATTCAA
1 CTCGCAAGAGCTTCCCATTATTCAA
* * * *
56174280 CTCGCATGACCTTCCCGTTATTCAG
1 CTCGCAAGAGCTTCCCATTATTCAA
56174305 CTCAG-AAGAGCTTCC
1 CTC-GCAAGAGCTTCC
56174320 TATTTACAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 33 0.97
26 1 0.03
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (25 bp):
CTCGCAAGAGCTTCCCATTATTCAA
Found at i:56175290 original size:43 final size:43
Alignment explanation
Indices: 56175229--56175319 Score: 146
Period size: 43 Copynumber: 2.1 Consensus size: 43
56175219 TACATTTAGA
* * *
56175229 GACACGGGCATGTGTCTCATCCGTGTGTGACACACGGCTAGGT
1 GACACGGCCATGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
*
56175272 GACACGGCCGTGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
1 GACACGGCCATGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
56175315 GACAC
1 GACAC
56175320 AATCGTGTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.19, C:0.29, G:0.33, T:0.20
Consensus pattern (43 bp):
GACACGGCCATGTGTCTCAGCCGTGTGTGACACACGGCCAGGT
Found at i:56175327 original size:43 final size:43
Alignment explanation
Indices: 56175239--56175330 Score: 139
Period size: 43 Copynumber: 2.1 Consensus size: 43
56175229 GACACGGGCA
* * **
56175239 TGTGTCTCATCCGTGTGTGACACACGGCTAGGTGACACGGCCG
1 TGTGTCTCAGCCGTGTGTGACACACGGCCAGGTGACACAACCG
*
56175282 TGTGTCTCAGCCGTGTGTGACACACGGCCAGGTGACACAATCG
1 TGTGTCTCAGCCGTGTGTGACACACGGCCAGGTGACACAACCG
56175325 TGTGTC
1 TGTGTC
56175331 CTCTGTATCT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.17, C:0.27, G:0.32, T:0.24
Consensus pattern (43 bp):
TGTGTCTCAGCCGTGTGTGACACACGGCCAGGTGACACAACCG
Found at i:56176432 original size:76 final size:76
Alignment explanation
Indices: 56176276--56176470 Score: 175
Period size: 76 Copynumber: 2.6 Consensus size: 76
56176266 CAGATTTGAT
* * *
56176276 AAACCATCATTGCTGGGAAATTCAGGGTGGCAAGTCATCGTTGTCGGGCAACCCTAGATAACATG
1 AAACCATCATTGCTGGGAAATCCAGGGTGGCAAGTCATCATTGCCGGGCAACCCTAGATAACATG
*
56176341 AAAAAACTGAG
66 AAAAAACTGAA
* * *
56176352 AAACCATCATT-TTCGGGAAATCCGGGGTGGC-AGATCATCATTGCCGGGCAA-CCTGGGATAAC
1 AAACCATCATTGCT-GGGAAATCCAGGGTGGCAAG-TCATCATTGCCGGGCAACCCT-AGATAAC
* *
56176414 AT-AAATGAGCTGAA
63 ATGAAA-AAACTGAA
** * * * *
56176428 AAACCATTGTTGC-AGAACAATTCAGGGTGGCAAATCATCATTG
1 AAACCATCATTGCTGGGA-AATCCAGGGTGGCAAGTCATCATTG
56176471 TCAGACAACT
Statistics
Matches: 95, Mismatches: 17, Indels: 14
0.75 0.13 0.11
Matches are distributed among these distances:
75 11 0.12
76 83 0.87
77 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (76 bp):
AAACCATCATTGCTGGGAAATCCAGGGTGGCAAGTCATCATTGCCGGGCAACCCTAGATAACATG
AAAAAACTGAA
Found at i:56185043 original size:423 final size:423
Alignment explanation
Indices: 56184257--56185102 Score: 1692
Period size: 423 Copynumber: 2.0 Consensus size: 423
56184247 CCATCTATAT
56184257 CTCTCAAGTTCAAAACTTGTCTAAAAAGACTTAACATTATTATAAAATCAATATTCATCACAAGC
1 CTCTCAAGTTCAAAACTTGTCTAAAAAGACTTAACATTATTATAAAATCAATATTCATCACAAGC
56184322 ACAATTAAGTTTCATAATTTTATAGTCTCACGTAACTTTTCAACATTTTACAATTTAGTCTTTTT
66 ACAATTAAGTTTCATAATTTTATAGTCTCACGTAACTTTTCAACATTTTACAATTTAGTCTTTTT
56184387 CTCTACACATTTAATCATCTCAACAATAACCATAATCATTTACTACTTTCTTGAATTATTCACAC
131 CTCTACACATTTAATCATCTCAACAATAACCATAATCATTTACTACTTTCTTGAATTATTCACAC
56184452 ATTTATTAAGTTACATATACTTAATTCATGACCTTAACATGTTCTTTATTTTATAATTTTAATAA
196 ATTTATTAAGTTACATATACTTAATTCATGACCTTAACATGTTCTTTATTTTATAATTTTAATAA
56184517 AATCTAATTAGCTAAAAAAGAATTCTAAAGTACTTACAAATTTTAATTAGACTATACTTCCTTCA
261 AATCTAATTAGCTAAAAAAGAATTCTAAAGTACTTACAAATTTTAATTAGACTATACTTCCTTCA
56184582 AGTTTCATCCACTTCTTTCCCTTTGTGTACTCTTCCTCCATCTTCTTCCTTGTCTTTCTCTTCAT
326 AGTTTCATCCACTTCTTTCCCTTTGTGTACTCTTCCTCCATCTTCTTCCTTGTCTTTCTCTTCAT
56184647 TTCACATCAATTTCATAAAATATGAAAAATCAA
391 TTCACATCAATTTCATAAAATATGAAAAATCAA
56184680 CTCTCAAGTTCAAAACTTGTCTAAAAAGACTTAACATTATTATAAAATCAATATTCATCACAAGC
1 CTCTCAAGTTCAAAACTTGTCTAAAAAGACTTAACATTATTATAAAATCAATATTCATCACAAGC
56184745 ACAATTAAGTTTCATAATTTTATAGTCTCACGTAACTTTTCAACATTTTACAATTTAGTCTTTTT
66 ACAATTAAGTTTCATAATTTTATAGTCTCACGTAACTTTTCAACATTTTACAATTTAGTCTTTTT
56184810 CTCTACACATTTAATCATCTCAACAATAACCATAATCATTTACTACTTTCTTGAATTATTCACAC
131 CTCTACACATTTAATCATCTCAACAATAACCATAATCATTTACTACTTTCTTGAATTATTCACAC
56184875 ATTTATTAAGTTACATATACTTAATTCATGACCTTAACATGTTCTTTATTTTATAATTTTAATAA
196 ATTTATTAAGTTACATATACTTAATTCATGACCTTAACATGTTCTTTATTTTATAATTTTAATAA
56184940 AATCTAATTAGCTAAAAAAGAATTCTAAAGTACTTACAAATTTTAATTAGACTATACTTCCTTCA
261 AATCTAATTAGCTAAAAAAGAATTCTAAAGTACTTACAAATTTTAATTAGACTATACTTCCTTCA
56185005 AGTTTCATCCACTTCTTTCCCTTTGTGTACTCTTCCTCCATCTTCTTCCTTGTCTTTCTCTTCAT
326 AGTTTCATCCACTTCTTTCCCTTTGTGTACTCTTCCTCCATCTTCTTCCTTGTCTTTCTCTTCAT
56185070 TTCACATCAATTTCATAAAATATGAAAAATCAA
391 TTCACATCAATTTCATAAAATATGAAAAATCAA
56185103 TACACTTTAT
Statistics
Matches: 423, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
423 423 1.00
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (423 bp):
CTCTCAAGTTCAAAACTTGTCTAAAAAGACTTAACATTATTATAAAATCAATATTCATCACAAGC
ACAATTAAGTTTCATAATTTTATAGTCTCACGTAACTTTTCAACATTTTACAATTTAGTCTTTTT
CTCTACACATTTAATCATCTCAACAATAACCATAATCATTTACTACTTTCTTGAATTATTCACAC
ATTTATTAAGTTACATATACTTAATTCATGACCTTAACATGTTCTTTATTTTATAATTTTAATAA
AATCTAATTAGCTAAAAAAGAATTCTAAAGTACTTACAAATTTTAATTAGACTATACTTCCTTCA
AGTTTCATCCACTTCTTTCCCTTTGTGTACTCTTCCTCCATCTTCTTCCTTGTCTTTCTCTTCAT
TTCACATCAATTTCATAAAATATGAAAAATCAA
Found at i:56195678 original size:77 final size:77
Alignment explanation
Indices: 56195551--56195789 Score: 451
Period size: 77 Copynumber: 3.1 Consensus size: 77
56195541 TGAGACAATC
** *
56195551 TTAAAGTGTTATGTGAATAAAATTTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
56195616 CAAGTTCAATTA
66 CAAGTTCAATTA
56195628 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
56195693 CAAGTTCAATTA
66 CAAGTTCAATTA
56195705 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
1 TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
56195770 CAAGTTCAATTA
66 CAAGTTCAATTA
56195782 TTAAAGTG
1 TTAAAGTG
56195790 GACAAAAAAA
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
77 159 1.00
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (77 bp):
TTAAAGTGTTATGCCAATAAAATGTTATATATTTCAAGTTCAAAGATTAAAATATATCTAATTGT
CAAGTTCAATTA
Found at i:56196030 original size:9 final size:9
Alignment explanation
Indices: 56196012--56196102 Score: 80
Period size: 9 Copynumber: 10.3 Consensus size: 9
56196002 NNNNNNNNNN
56196012 GTTATGTAA
1 GTTATGTAA
*
56196021 GTTGTGTAA
1 GTTATGTAA
* * *
56196030 GCTATTTCA
1 GTTATGTAA
56196039 GTTATGTAA
1 GTTATGTAA
56196048 GCTT-TGT-A
1 G-TTATGTAA
56196056 -TTATGTAA
1 GTTATGTAA
*
56196064 GTTATGTAG
1 GTTATGTAA
*
56196073 GTTAAGTAA
1 GTTATGTAA
*
56196082 GTTGTGTAA
1 GTTATGTAA
*
56196091 ATTATGTAA
1 GTTATGTAA
56196100 GTT
1 GTT
56196103 CTTGTACATA
Statistics
Matches: 62, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
6 2 0.03
7 3 0.05
8 2 0.03
9 53 0.85
10 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.23, T:0.45
Consensus pattern (9 bp):
GTTATGTAA
Found at i:56196328 original size:13 final size:13
Alignment explanation
Indices: 56196312--56196401 Score: 76
Period size: 13 Copynumber: 6.8 Consensus size: 13
56196302 AATGCATCTG
*
56196312 AGTAACATATTTA
1 AGTAATATATTTA
*
56196325 AGTAATAAATTTA
1 AGTAATATATTTA
*
56196338 ACG-AA-ATTTTAGTA
1 A-GTAATATATT--TA
*
56196352 AGTAATGTATTTA
1 AGTAATATATTTA
*
56196365 AGTAATTTATTTA
1 AGTAATATATTTA
*
56196378 AGTAATATATTCA
1 AGTAATATATTTA
*
56196391 AGTCATATATT
1 AGTAATATATT
56196402 AAGAGTAAAT
Statistics
Matches: 62, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
12 3 0.05
13 50 0.81
14 6 0.10
15 3 0.05
ACGTcount: A:0.43, C:0.04, G:0.10, T:0.42
Consensus pattern (13 bp):
AGTAATATATTTA
Found at i:56196383 original size:53 final size:53
Alignment explanation
Indices: 56196247--56196384 Score: 204
Period size: 53 Copynumber: 2.6 Consensus size: 53
56196237 TTTATAGCGG
* *
56196247 GTAATGTATTTAAATAACATATTTAAGTAAAAAATTTAACCAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTTAGTAA
* * * *
56196300 GTAATGCATCTGAGTAACATATTTAAGTAATAAATTTAACGAAATTTTAGTAA
1 GTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTTAGTAA
**
56196353 GTAATGTATTTAAGTAATTTATTTAAGTAATA
1 GTAATGTATTTAAGTAACATATTTAAGTAATA
56196385 TATTCAAGTC
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 74 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (53 bp):
GTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAACCAAATTTTAGTAA
Found at i:56196602 original size:44 final size:43
Alignment explanation
Indices: 56196554--56196637 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 43
56196544 TTAAATTGTA
56196554 AAAATATAAACATATATATA-TTTTTAATATTAATAAGTTATGAT
1 AAAATAT-AACA-ATATATACTTTTTAATATTAATAAGTTATGAT
*
56196598 AAAATATATCAATATATACTTTTTTAATATTAATAAGTTA
1 AAAATATAACAATATATAC-TTTTTAATATTAATAAGTTA
56196638 AATAAAAACT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
42 7 0.19
43 3 0.08
44 27 0.73
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (43 bp):
AAAATATAACAATATATACTTTTTAATATTAATAAGTTATGAT
Found at i:56196997 original size:7 final size:7
Alignment explanation
Indices: 56196972--56197023 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
56196962 CACTTCATTC
56196972 AACAGAA
1 AACAGAA
*
56196979 AATAGCAA
1 AACAG-AA
56196987 AACAGAA
1 AACAGAA
*
56196994 AACAAAA
1 AACAGAA
*
56197001 AATAGAA
1 AACAGAA
56197008 AACAGAA
1 AACAGAA
56197015 AACAGAA
1 AACAGAA
56197022 AA
1 AA
56197024 TAAAGAAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
7 32 0.84
8 6 0.16
ACGTcount: A:0.73, C:0.12, G:0.12, T:0.04
Consensus pattern (7 bp):
AACAGAA
Found at i:56197001 original size:21 final size:21
Alignment explanation
Indices: 56196972--56197025 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
56196962 CACTTCATTC
56196972 AACAGAAAATAGCAAAACAGAA
1 AACAGAAAATAG-AAAACAGAA
*
56196994 AACAAAAAATAGAAAACAGAA
1 AACAGAAAATAGAAAACAGAA
56197015 AACAGAAAATA
1 AACAGAAAATA
56197026 AAGAAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 19 0.63
22 11 0.37
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (21 bp):
AACAGAAAATAGAAAACAGAA
Found at i:56199041 original size:48 final size:47
Alignment explanation
Indices: 56198944--56199040 Score: 131
Period size: 47 Copynumber: 2.1 Consensus size: 47
56198934 GTTTTGTTAA
* * **
56198944 TTTAGGTAATATTTAAAAAAATTAGATAAAATTATCAATTTCAGTTT
1 TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTCAGTTT
* * *
56198991 TTTAAGTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTT
1 TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTCAGTTT
56199038 TTT
1 TTT
56199041 TTATTTCTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.44
Consensus pattern (47 bp):
TTTAAGTAATATTTAAAAAAATTAGATAAAAATAAAAATTTCAGTTT
Found at i:56199060 original size:18 final size:18
Alignment explanation
Indices: 56199037--56199078 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
56199027 AATTTTAGTT
*
56199037 TTTTTTATTTCT-TTTTTA
1 TTTTTTATTT-TAATTTTA
56199055 TTTTTTATTTTAATTTTA
1 TTTTTTATTTTAATTTTA
56199073 TTTTTT
1 TTTTTT
56199079 GTAATTTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTATTTTAATTTTA
Found at i:56199093 original size:9 final size:9
Alignment explanation
Indices: 56199094--56199123 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56199084 TTTGACAATT
56199094 TTTTTACAA
1 TTTTTACAA
56199103 -TTTTACAA
1 TTTTTACAA
56199111 TTTTTACAA
1 TTTTTACAA
56199120 TTTT
1 TTTT
56199124 AAATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTACAA
Found at i:56199094 original size:19 final size:18
Alignment explanation
Indices: 56199072--56199115 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
56199062 TTTTAATTTT
56199072 ATTTTTTGT-AATTTTGACA
1 ATTTTTT-TAAATTTT-ACA
56199091 ATTTTTTTACAATTTTACA
1 ATTTTTTTA-AATTTTACA
56199110 ATTTTT
1 ATTTTT
56199116 ACAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 16 0.70
20 6 0.26
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (18 bp):
ATTTTTTTAAATTTTACA
Found at i:56199096 original size:20 final size:19
Alignment explanation
Indices: 56199081--56199128 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
56199071 TATTTTTTGT
56199081 AATTTTGACAATTTTTTTAC
1 AATTTT-ACAATTTTTTTAC
56199101 AATTTTACAA--TTTTTAC
1 AATTTTACAATTTTTTTAC
56199118 AATTTTA-AATT
1 AATTTTACAATT
56199129 ATTATATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
19 4 0.15
20 6 0.23
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTTACAATTTTTTTAC
Found at i:56199106 original size:8 final size:8
Alignment explanation
Indices: 56199095--56199128 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
56199085 TTGACAATTT
56199095 TTTTACAA
1 TTTTACAA
56199103 TTTTACAA
1 TTTTACAA
56199111 TTTTTACAA
1 -TTTTACAA
56199120 TTTTA-AA
1 TTTTACAA
56199127 TT
1 TT
56199129 ATTATATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTACAA
Found at i:56199142 original size:21 final size:20
Alignment explanation
Indices: 56199117--56199171 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
56199107 ACAATTTTTA
56199117 CAATTTTAAATTATT-ATATT
1 CAATTTTAAATTATTCATA-T
*
56199137 CAAATTATTATA-TATTGCATAT
1 C-AATT-TTAAATTATT-CATAT
56199159 CAATTTTAAATTA
1 CAATTTTAAATTA
56199172 ATAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 6 0.21
23 3 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
CAATTTTAAATTATTCATAT
Found at i:56199382 original size:89 final size:89
Alignment explanation
Indices: 56199220--56199394 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
56199210 TATAAAGAAC
** * *
56199220 TTATTTAATATATAAATTAAAAAGTACTAATTAATCCAAATCTTAAACCCTAACCCGACCCCAAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCGACCCCAAA
56199285 TCCCTAACCCCTAACCCCTAAATT
66 TCCCTAACCCCTAACCCCTAAATT
* * *
56199309 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCTTAAACCATAACCCGATCCCTAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCGACCCCAAA
* *
56199374 -CTCTTAACCCTTAACCCCTAA
66 TC-CCTAACCCCTAACCCCTAA
56199395 CCCCTAACCC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
88 1 0.01
89 75 0.99
ACGTcount: A:0.42, C:0.27, G:0.02, T:0.29
Consensus pattern (89 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCCAAACCTTAAACCATAACCCGACCCCAAA
TCCCTAACCCCTAACCCCTAAATT
Found at i:56199395 original size:14 final size:14
Alignment explanation
Indices: 56199378--56199414 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
56199368 CCCTAACTCT
56199378 TAACCCTTAACCCC
1 TAACCCTTAACCCC
*
56199392 TAACCCCTAACCCC
1 TAACCCTTAACCCC
*
56199406 TAAACCTTA
1 TAACCCTTA
56199415 TTTAATATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.46, G:0.00, T:0.22
Consensus pattern (14 bp):
TAACCCTTAACCCC
Found at i:56199411 original size:8 final size:7
Alignment explanation
Indices: 56199368--56199408 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
56199358 ATAACCCGAT
56199368 CCCTAAC
1 CCCTAAC
* *
56199375 TCTTAAC
1 CCCTAAC
*
56199382 CCTTAAC
1 CCCTAAC
56199389 CCCTAAC
1 CCCTAAC
56199396 CCCTAAC
1 CCCTAAC
56199403 CCCTAA
1 CCCTAA
56199409 ACCTTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.29, C:0.49, G:0.00, T:0.22
Consensus pattern (7 bp):
CCCTAAC
Found at i:56199525 original size:12 final size:12
Alignment explanation
Indices: 56199508--56199532 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56199498 CTCTTAACAT
56199508 CTAACCCCTAAC
1 CTAACCCCTAAC
56199520 CTAACCCCTAAC
1 CTAACCCCTAAC
56199532 C
1 C
56199533 CTATTTCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.52, G:0.00, T:0.16
Consensus pattern (12 bp):
CTAACCCCTAAC
Found at i:56199585 original size:9 final size:9
Alignment explanation
Indices: 56199586--56199615 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
56199576 TTTGACAATT
56199586 TTTTTACAA
1 TTTTTACAA
56199595 -TTTTACAA
1 TTTTTACAA
56199603 TTTTTACAA
1 TTTTTACAA
56199612 TTTT
1 TTTT
56199616 AAATTATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTACAA
Found at i:56199586 original size:19 final size:18
Alignment explanation
Indices: 56199564--56199607 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
56199554 TTTTAATTTT
56199564 ATTTTTTGT-AATTTTGACA
1 ATTTTTT-TAAATTTT-ACA
56199583 ATTTTTTTACAATTTTACA
1 ATTTTTTTA-AATTTTACA
56199602 ATTTTT
1 ATTTTT
56199608 ACAATTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 1 0.04
19 16 0.70
20 6 0.26
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (18 bp):
ATTTTTTTAAATTTTACA
Found at i:56199588 original size:20 final size:19
Alignment explanation
Indices: 56199573--56199620 Score: 66
Period size: 17 Copynumber: 2.6 Consensus size: 19
56199563 TATTTTTTGT
56199573 AATTTTGACAATTTTTTTAC
1 AATTTT-ACAATTTTTTTAC
56199593 AATTTTACAA--TTTTTAC
1 AATTTTACAATTTTTTTAC
56199610 AATTTTA-AATT
1 AATTTTACAATT
56199621 ATTATATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.08
17 14 0.54
19 4 0.15
20 6 0.23
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (19 bp):
AATTTTACAATTTTTTTAC
Found at i:56199598 original size:8 final size:8
Alignment explanation
Indices: 56199587--56199620 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
56199577 TTGACAATTT
56199587 TTTTACAA
1 TTTTACAA
56199595 TTTTACAA
1 TTTTACAA
56199603 TTTTTACAA
1 -TTTTACAA
56199612 TTTTA-AA
1 TTTTACAA
56199619 TT
1 TT
56199621 ATTATATTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 4 0.16
8 13 0.52
9 8 0.32
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (8 bp):
TTTTACAA
Found at i:56199634 original size:21 final size:20
Alignment explanation
Indices: 56199609--56199663 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 20
56199599 ACAATTTTTA
56199609 CAATTTTAAATTATT-ATATT
1 CAATTTTAAATTATTCATA-T
*
56199629 CAAATTATTATA-TATTGCATAT
1 C-AATT-TTAAATTATT-CATAT
56199651 CAATTTTAAATTA
1 CAATTTTAAATTA
56199664 ATAATCTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
20 5 0.18
21 14 0.50
22 6 0.21
23 3 0.11
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (20 bp):
CAATTTTAAATTATTCATAT
Found at i:56199834 original size:7 final size:7
Alignment explanation
Indices: 56199774--56199824 Score: 70
Period size: 7 Copynumber: 7.6 Consensus size: 7
56199764 CTCTTAACAT
56199774 CTAACCC
1 CTAACCC
56199781 CTAA--C
1 CTAACCC
56199786 CTAACCC
1 CTAACCC
56199793 CTAACCC
1 CTAACCC
*
56199800 TTAACCC
1 CTAACCC
*
56199807 CTAATCC
1 CTAACCC
56199814 CTAACCC
1 CTAACCC
56199821 CTAA
1 CTAA
56199825 TAACCCATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
5 5 0.13
7 33 0.87
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAACCC
Found at i:56199886 original size:14 final size:15
Alignment explanation
Indices: 56199864--56199897 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56199854 CTTAAACCAG
*
56199864 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
56199878 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
56199893 AATCT
1 AATCT
56199898 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:56200271 original size:114 final size:113
Alignment explanation
Indices: 56200051--56200728 Score: 866
Period size: 114 Copynumber: 6.0 Consensus size: 113
56200041 TTATATCATC
* * * *
56200051 CCTGAGTATTAGTGGCGCTT-CATAAAAATGCCACTAAATCCCCGAAAGCTCAGAAAACGGCATC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
56200115 GTTGGGCTGAAGTATTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
66 GTTGGGCTGAAGTA-TTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * * ** *
56200164 CTTGAGCATTAGCAGCGCTTACATAAAAACGCCACTAAATCCTTC-TCAGCTCAAAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCC-CCGAAAGCTCAGAAAACGGCGT
56200228 CGTTGGGCTGAAGTATTCTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
65 CGTTGGGCTGAAGTATT-TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * ** **
56200278 CCTGAGCTTTAGCGGCGCCTACATAAAAACGCCACTAAATCATTC-TCAGCTCAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATC-CCCGAAAGCTCAGAAAACGGCGT
* * *
56200342 CGTTGGGCTGAAGTATTGTTGTGGCGCTTTCCCACAAACGCCACTAAAG-
65 CGTTGGGCTGAAGTATT-TTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
56200391 CTCTGAGTATTAGCGGCGCTTTA-ATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGACG
1 C-CTGAGCATTAGCGGCGC-TTACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCG
* *
56200455 TCGTTGGGCTGAAGAACTTTTGCGGCGCTTTCCCAAAAACGCCGCTAAGGA
64 TCGTTGGGCTGAAGTA-TTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* *
56200506 CCTAAGCATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
* * * *
56200571 GTTGGACTGAAGTGTTTTTGCGGCGCTTTCCGAAAAATGCCGCTAAAGA
66 GTTGGGCTGAAGT-ATTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
* * ** * ** *
56200620 -CTGAGCATTAGCGGCGCTTTCGTAAAATTGCCACTAAATCCTTC-TCAGCTCAGAAAACAGCGT
1 CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCC-CCGAAAGCTCAGAAAACGGCGT
* *
56200683 TGTTGGGCTGAAGTCTTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
65 CGTTGGGCTGAAGTATTTTGCGGCGCTTTCCCAAAAACGCCGCTAA
56200729 TGCTTATTTT
Statistics
Matches: 497, Mismatches: 56, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
112 29 0.06
113 87 0.18
114 375 0.75
115 6 0.01
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (113 bp):
CCTGAGCATTAGCGGCGCTTACATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGCGTC
GTTGGGCTGAAGTATTTTGCGGCGCTTTCCCAAAAACGCCGCTAAAGA
Found at i:56204496 original size:6 final size:6
Alignment explanation
Indices: 56204485--56204511 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
56204475 GTTTCCTGTC
56204485 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
56204512 GCTATTTATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:56206115 original size:12 final size:14
Alignment explanation
Indices: 56206072--56206117 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 14
56206062 TTTAACTTCT
* *
56206072 TAAAATTAT-AATT
1 TAAAAATATAAATA
56206085 TAAAAATATAAATA
1 TAAAAATATAAATA
56206099 TAAAAATA-AAATA
1 TAAAAATATAAATA
56206112 -AAAAAT
1 TAAAAAT
56206118 TTTAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
12 6 0.20
13 13 0.43
14 11 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAAAAATATAAATA
Found at i:56207914 original size:20 final size:20
Alignment explanation
Indices: 56207891--56207988 Score: 94
Period size: 20 Copynumber: 4.9 Consensus size: 20
56207881 TTAAATAAGT
* *
56207891 TTTTAAGAATTTTTATAAAA
1 TTTTAATAATTTTTATATAA
* *
56207911 TTTTAA-ATATTTTTTTATAT
1 TTTTAATA-ATTTTTATATAA
*
56207931 TTTTTATAAGTTTTTAT-TAA
1 TTTTAATAA-TTTTTATATAA
*
56207951 TTTTAATAATTTTT-TGATAT
1 TTTTAATAATTTTTAT-ATAA
56207971 TTTTAATAATTTTTATAT
1 TTTTAATAATTTTTATAT
56207989 TTTTCTGATT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
18 1 0.02
19 6 0.09
20 49 0.77
21 8 0.12
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTAATAATTTTTATATAA
Found at i:56207933 original size:9 final size:9
Alignment explanation
Indices: 56207921--56207992 Score: 63
Period size: 10 Copynumber: 7.6 Consensus size: 9
56207911 TTTTAAATAT
56207921 TTTTTTATA
1 TTTTTTATA
56207930 TTTTTTATAA
1 TTTTTTAT-A
*
56207940 GTTTTTATTA
1 TTTTTTA-TA
* *
56207950 ATTTTAATAA
1 TTTTTTAT-A
56207960 TTTTTTGATA
1 TTTTTT-ATA
*
56207970 TTTTTAATA
1 TTTTTTATA
*
56207979 ATTTTTATA
1 TTTTTTATA
56207988 TTTTT
1 TTTTT
56207993 CTGATTTATT
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
9 23 0.46
10 24 0.48
11 3 0.06
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (9 bp):
TTTTTTATA
Found at i:56207973 original size:29 final size:29
Alignment explanation
Indices: 56207941--56207997 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
56207931 TTTTTATAAG
*
56207941 TTTTTATTAATTTTAATAATTTTT-TGATA
1 TTTTTAATAATTTTAAT-ATTTTTCTGATA
*
56207970 TTTTTAATAATTTTTATATTTTTCTGAT
1 TTTTTAATAATTTTAATATTTTTCTGAT
56207998 TTATTTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (29 bp):
TTTTTAATAATTTTAATATTTTTCTGATA
Found at i:56222884 original size:87 final size:87
Alignment explanation
Indices: 56222793--56223832 Score: 1915
Period size: 87 Copynumber: 12.0 Consensus size: 87
56222783 TATCTTCCTA
* * * *
56222793 TATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56222858 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56222880 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56222945 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56222967 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223032 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223054 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223119 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223141 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223206 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223228 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223293 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223315 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223380 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223402 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223467 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223489 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223554 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
56223576 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
56223641 AGAAAGCAGATCTTGTCTCATG
66 AGAAAGCAGATCTTGTCTCATG
* *
56223663 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGA
1 TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
*
56223728 AGAAAGCAAATCTTGTCTTCATG
66 AGAAAGCAGATCTTGTC-TCATG
* * * * *
56223751 TATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGG--AAGTGGATC
1 TATTGGCATGAAGTAGATCGAAGAT-GCAGATCTTGTCTTCCCATATTGGT-GGCAAAGTGGATC
*
56223814 GAAG-ATGCAGATCTTGTCT
64 GAAGAAAGCAGATCTTGTCT
56223833 TCCCATATCG
Statistics
Matches: 935, Mismatches: 15, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
86 1 0.00
87 870 0.93
88 40 0.04
89 22 0.02
90 2 0.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (87 bp):
TATTGGCATGAAGTAGATCGAAGATGCAGATCTTGTCTTCCCATATTGGTGGCAAAGTGGATCGA
AGAAAGCAGATCTTGTCTCATG
Found at i:56227811 original size:23 final size:23
Alignment explanation
Indices: 56227785--56227830 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
56227775 TATTGATCCC
56227785 AAAAATAAACTAATTTCGAGCCT
1 AAAAATAAACTAATTTCGAGCCT
56227808 AAAAATAAACTAATTTCGAGCCT
1 AAAAATAAACTAATTTCGAGCCT
56227831 CGTAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (23 bp):
AAAAATAAACTAATTTCGAGCCT
Found at i:56232413 original size:21 final size:20
Alignment explanation
Indices: 56232384--56232431 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
56232374 ATTAAATATA
*
56232384 TAATGATATAATAAACTAAAT
1 TAATAATATAAT-AACTAAAT
* *
56232405 TAATAATATTATAATTAAAT
1 TAATAATATAATAACTAAAT
56232425 TATATAA
1 TA-ATAA
56232432 ACTTCATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAATAATATAATAACTAAAT
Found at i:56234894 original size:29 final size:30
Alignment explanation
Indices: 56234835--56234892 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
56234825 TCCGAGCCTT
*
56234835 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
56234865 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
56234893 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:56257951 original size:19 final size:21
Alignment explanation
Indices: 56257929--56257971 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
56257919 CATTCTTGTA
56257929 TTATTATT-TTTAG-CATATT
1 TTATTATTATTTAGACATATT
*
56257948 TTATTATTATTTAGACATTTT
1 TTATTATTATTTAGACATATT
56257969 TTA
1 TTA
56257972 AATTAATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 5 0.24
21 8 0.38
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTATTATTATTTAGACATATT
Found at i:56258024 original size:20 final size:22
Alignment explanation
Indices: 56257985--56258025 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56257975 TAATATTACA
*
56257985 TATATATATTTTATAGTTGTTT
1 TATATATATTATATAGTTGTTT
56258007 TATATATATTAT-TA-TTGTT
1 TATATATATTATATAGTTGTT
56258026 CCTAATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.63
Consensus pattern (22 bp):
TATATATATTATATAGTTGTTT
Found at i:56261580 original size:23 final size:23
Alignment explanation
Indices: 56261526--56261586 Score: 94
Period size: 21 Copynumber: 2.8 Consensus size: 23
56261516 GGCACATAAA
56261526 GTGCCT-AAA-ACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
56261547 GTGCCTG--ATACGACACACGAG
1 GTGCCTGAAATACGACACACGAG
56261568 GTGCCTGAAATACGACACA
1 GTGCCTGAAATACGACACA
56261587 TAAAGTGCCT
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.03
21 25 0.69
23 10 0.28
ACGTcount: A:0.34, C:0.28, G:0.25, T:0.13
Consensus pattern (23 bp):
GTGCCTGAAATACGACACACGAG
Found at i:56261594 original size:23 final size:23
Alignment explanation
Indices: 56261512--56261598 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
56261502 CTTTATCAGT
* *
56261512 ATACGGCACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
56261534 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
56261554 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
56261577 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
56261599 TCGGTAAAGC
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.61
22 1 0.02
23 19 0.35
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:56261638 original size:55 final size:55
Alignment explanation
Indices: 56261554--56261663 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
56261544 GAGGTGCCTG
*
56261554 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATCGGTAAAGC
1 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATCGATAAAGC
56261609 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATCGATAAAGC
1 ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATCGATAAAGC
56261664 CGGCAAATCC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (55 bp):
ATACGACACACGAGGTGCCTGAAATACGACACATAAAGTGCCTGATCGATAAAGC
Found at i:56261649 original size:23 final size:23
Alignment explanation
Indices: 56261609--56261653 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
56261599 TCGGTAAAGC
* *
56261609 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
56261632 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
56261654 TCGATAAAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:56262053 original size:15 final size:15
Alignment explanation
Indices: 56262029--56262076 Score: 80
Period size: 15 Copynumber: 3.3 Consensus size: 15
56262019 TATATATTAC
56262029 ATAA-TTCAATCAAT
1 ATAATTTCAATCAAT
*
56262043 ATAATTTCAATCAAA
1 ATAATTTCAATCAAT
56262058 ATAATTTCAATCAAT
1 ATAATTTCAATCAAT
56262073 ATAA
1 ATAA
56262077 ATTCGATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
14 4 0.13
15 27 0.87
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (15 bp):
ATAATTTCAATCAAT
Found at i:56263354 original size:5 final size:5
Alignment explanation
Indices: 56263354--56263390 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
56263344 TCTTTAATTT
56263354 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
56263391 TAAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:56263426 original size:8 final size:8
Alignment explanation
Indices: 56263413--56263441 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
56263403 TATCTTTATT
56263413 ATATAATA
1 ATATAATA
56263421 ATATAATA
1 ATATAATA
56263429 ATATAATA
1 ATATAATA
56263437 ATATA
1 ATATA
56263442 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:56270439 original size:38 final size:37
Alignment explanation
Indices: 56270399--56270469 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
56270389 ATTAATTTTA
56270399 AAAATCATTGAAAATTAATAATT-TTT-TAAATAAATAT
1 AAAAT-ATTGAAAATT-ATAATTATTTGTAAATAAATAT
* *
56270436 AAAATATTTATAATTATAATTATTTGTAAATAAA
1 AAAATATTGAAAATTATAATTATTTGTAAATAAA
56270470 ATTGTCACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
35 6 0.20
36 11 0.37
37 13 0.43
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (37 bp):
AAAATATTGAAAATTATAATTATTTGTAAATAAATAT
Found at i:56270629 original size:11 final size:11
Alignment explanation
Indices: 56270584--56270632 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
56270574 AAAATGTTTG
56270584 ATTTTCATTATT
1 ATTTT-ATTATT
*
56270596 ATTTTATAATT
1 ATTTTATTATT
*
56270607 CAATTT-TTATT
1 -ATTTTATTATT
56270618 ATTTTATTATT
1 ATTTTATTATT
56270629 ATTT
1 ATTT
56270633 GATATTTACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
10 4 0.13
11 18 0.58
12 9 0.29
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (11 bp):
ATTTTATTATT
Found at i:56280386 original size:24 final size:24
Alignment explanation
Indices: 56280359--56280407 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
56280349 ATTAATAAAA
* * * *
56280359 TTAAAATTAATTATATTTTTATTT
1 TTAAAAATAATAAAATTTTGATTT
56280383 TTAAAAATAATAAAATTTTGATTT
1 TTAAAAATAATAAAATTTTGATTT
56280407 T
1 T
56280408 ATTTTTAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTAAAAATAATAAAATTTTGATTT
Found at i:56287559 original size:3 final size:3
Alignment explanation
Indices: 56287553--56287578 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56287543 ATTCTCTTTG
56287553 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
56287579 TTCAATTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Done.