Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 174 of 322
Found at i:56883615 original size:39 final size:39
Alignment explanation
Indices: 56883549--56883772 Score: 313
Period size: 39 Copynumber: 5.7 Consensus size: 39
56883539 TGTGTGAGAT
*
56883549 TTATATCCGGGCTAAGTCTCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
56883588 TTATGTCTGGGATAAGTTCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
**
56883627 TTATATCCGGGAAAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * * *
56883666 TTATATCTGGGCTAAGTTCTGAAGGTATTCGTACTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
56883705 TTATAACCGGGCTAAGTCCCGAAGGTATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
56883744 TTATATCCGGGCTAAGTCCCGAAGGCATT
1 TTATATCCGGGCTAAGTCCCGAAGGCATT
56883773 TGTGTTGGAA
Statistics
Matches: 161, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 161 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:56895529 original size:6 final size:6
Alignment explanation
Indices: 56895518--56895549 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
56895508 CACGGTCATG
*
56895518 AGACCC AGACCC AGACCC AGACCT AGACCC AG
1 AGACCC AGACCC AGACCC AGACCC AGACCC AG
56895550 TCTCTGTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.34, C:0.44, G:0.19, T:0.03
Consensus pattern (6 bp):
AGACCC
Found at i:56898841 original size:17 final size:15
Alignment explanation
Indices: 56898819--56898852 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
56898809 AGGGGAGAAA
56898819 GAAAGAAAGGAAAAAGG
1 GAAAGAAA-G-AAAAGG
56898836 GAAAGAAAGAAAAGG
1 GAAAGAAAGAAAAGG
56898851 GA
1 GA
56898853 GAAATTGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 1 0.06
17 8 0.47
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
GAAAGAAAGAAAAGG
Found at i:56898856 original size:17 final size:18
Alignment explanation
Indices: 56898818--56898856 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
56898808 CAGGGGAGAA
56898818 AGAAAGAAAGGAAAAAGG
1 AGAAAGAAAGGAAAAAGG
*
56898836 -GAAAGAAA-GAAAAGGG
1 AGAAAGAAAGGAAAAAGG
56898852 AGAAA
1 AGAAA
56898857 TTGGGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAAGAAAGGAAAAAGG
Found at i:56899768 original size:40 final size:39
Alignment explanation
Indices: 56899712--56899827 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 39
56899702 CCTTCTCGAG
56899712 AATTAAAAGTGAATAGGATTGATTCCTGATTCACTAAAAGA
1 AATT-AAAGTGAATAGGATTGATTCCTGATTCACTAAAA-A
* *
56899753 AATTAAAGTGAATAGGATTTATTCCTGATTCACTAGAAA
1 AATTAAAGTGAATAGGATTGATTCCTGATTCACTAAAAA
* * *
56899792 TATATAAAGTGGATAGGATTTG-TTCCTAATTCACTA
1 AAT-TAAAGTGAATAGGA-TTGATTCCTGATTCACTA
56899828 TGGTAACTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
39 3 0.04
40 58 0.87
41 6 0.09
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (39 bp):
AATTAAAGTGAATAGGATTGATTCCTGATTCACTAAAAA
Found at i:56906731 original size:41 final size:40
Alignment explanation
Indices: 56906652--56906735 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
56906642 TAATATACAT
* *
56906652 ATATTAGTAATTATTATATATTTACTTATAATTTAAGTAA
1 ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
*
56906692 ATATTATTATATTATTATATTATATTAATTA-AA-TAAAGTAA
1 ATATTAGTA-ATTATTATA-TAT-TTAATTATAATTAAAGTAA
56906733 ATA
1 ATA
56906736 AATTAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
40 8 0.21
41 19 0.50
42 5 0.13
43 6 0.16
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (40 bp):
ATATTAGTAATTATTATATATTTAATTATAATTAAAGTAA
Found at i:56906959 original size:15 final size:15
Alignment explanation
Indices: 56906931--56906962 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56906921 GACAAAAAAA
56906931 GAAAGAAAAAAAAGG
1 GAAAGAAAAAAAAGG
*
56906946 GAAAGAAAGAAAAGG
1 GAAAGAAAAAAAAGG
56906961 GA
1 GA
56906963 GAAATTGGAG
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:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAAGAAAAAAAAGG
Found at i:56912289 original size:515 final size:516
Alignment explanation
Indices: 56911256--56912290 Score: 1874
Period size: 515 Copynumber: 2.0 Consensus size: 516
56911246 CAGAGGTATC
* * **
56911256 GATATTGGGCTTTAAAAATCGATACCTTTATGAATTAAAATGTACAAGAAACAGAATAGAGCTTT
1 GATATTGGGCTTTAAAAATCAATACCTCTATGAATTAAAACATACAAGAAACAGAATAGAGCTTT
*
56911321 GGTATCAATACAGATTAATCGTTTGAACGTAGTAAAACATGATCAATTTAACAATAGACGTTTCA
66 GGTATCAATACAGATTAATCATTTGAACGTAGTAAAACATGATCAATTTAACAATAGACGTTTCA
*
56911386 TTTATTGAATCTAAGCTTTCTGCTTAATGTAAATGAGACAAGACGGTGGTGTGGCATCCCGTATT
131 TTTATTGAATCTAAGCTTTCTACTTAATGTAAATGAGACAAGACGGTGGTGTGGCATCCCGTATT
*
56911451 TGGGCTTGGCGACCAAGCCGAGTATAGGGTGTTATGTAACAGCCTAATTTTTAGTGGTGTCGAAA
196 TGGGCTTGGCGACCAAGCCGAGTATAGGGTGTTATGTAACAGCCTAATTTTTAGTGGTGTCAAAA
56911516 ATAGTGATTCGAGATCACTAAATCTGACGAGTGAGTTCGAAAATTTTTTTAATCATTAATTATGA
261 ATAGTGATTCGAGATCACTAAATCTGACGAGTGAGTTCGAAAATTTTTTTAATCATTAATTATGA
*
56911581 GTTAAGTGTGATTTTAGACATATTCTTGAATTTGTGAATTTTGTGTTTTAAAAGAATTATTAGGT
326 GCTAAGTGTGATTTTAGACATATTCTTGAATTTGTGAATTTTGTGTTTTAAAAGAATTATTAGGT
* *
56911646 TAATTAGTTTCGAAAACGAGGTATCAAGACCTCGATTTCATAAATCGAGTCATAAATATTTTTAT
391 TAATTAGTTTCGAAAACAAGGTATCAAGACCTCAATTTCATAAATCGAGTCATAAATATTTTTAT
56911711 AAATATTTACAGAGTGCCATTAAATTAGTATTAAAGTTTCGTTAGAACATTTTAACATTTG
456 AAATATTTACAGAGTGCCATTAAATTAGTATTAAAGTTTCGTTAGAACATTTTAACATTTG
*
56911772 GATATTGGGCTTTAAAAATCAATACCTCTATGAATTAAAACATACAAGAAACAGAATTGAG-TTT
1 GATATTGGGCTTTAAAAATCAATACCTCTATGAATTAAAACATACAAGAAACAGAATAGAGCTTT
56911836 GGTATCAATACAGATTAATCATTTGAACGTAGTAAAACATGATCAATTTAACAATAGACGTTTCA
66 GGTATCAATACAGATTAATCATTTGAACGTAGTAAAACATGATCAATTTAACAATAGACGTTTCA
56911901 TTTATTGAATCTAAGCTTTCTACTTAATGTAAATGAGACAAGACGGTGGTGTGGCATCCCGTATT
131 TTTATTGAATCTAAGCTTTCTACTTAATGTAAATGAGACAAGACGGTGGTGTGGCATCCCGTATT
* *
56911966 TGGGCTTGGCGACCAAGCCGGGTATAGGGTGTTATGTAAGAGCCTAATTTTTAGTGGTGTCAAAA
196 TGGGCTTGGCGACCAAGCCGAGTATAGGGTGTTATGTAACAGCCTAATTTTTAGTGGTGTCAAAA
*
56912031 ATAGTGATTCGAGATCACTAAATCTGACGAGTGAGTTTGAAAATTTTTTTAATCATTAATTATGA
261 ATAGTGATTCGAGATCACTAAATCTGACGAGTGAGTTCGAAAATTTTTTTAATCATTAATTATGA
*
56912096 GCTAAGTGTGATTTTAGGCATATTCTTGAATTTGTGAATTTTGTGTTTTAAAAGAATTATTAGGT
326 GCTAAGTGTGATTTTAGACATATTCTTGAATTTGTGAATTTTGTGTTTTAAAAGAATTATTAGGT
* *
56912161 TAATTAGTTTTGAAAACAAGGTATCGAGACCTCAATTTCATAAATCGAGTCATAAATATTTTTAT
391 TAATTAGTTTCGAAAACAAGGTATCAAGACCTCAATTTCATAAATCGAGTCATAAATATTTTTAT
* * **
56912226 AAATATTTACAGAGTGTCATTAAGTTAGTATTAAAGTTTCGTTAGAACATTTTAATGTTTG
456 AAATATTTACAGAGTGCCATTAAATTAGTATTAAAGTTTCGTTAGAACATTTTAACATTTG
56912287 GATA
1 GATA
56912291 GTTAATTAAA
Statistics
Matches: 498, Mismatches: 21, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
515 442 0.89
516 56 0.11
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (516 bp):
GATATTGGGCTTTAAAAATCAATACCTCTATGAATTAAAACATACAAGAAACAGAATAGAGCTTT
GGTATCAATACAGATTAATCATTTGAACGTAGTAAAACATGATCAATTTAACAATAGACGTTTCA
TTTATTGAATCTAAGCTTTCTACTTAATGTAAATGAGACAAGACGGTGGTGTGGCATCCCGTATT
TGGGCTTGGCGACCAAGCCGAGTATAGGGTGTTATGTAACAGCCTAATTTTTAGTGGTGTCAAAA
ATAGTGATTCGAGATCACTAAATCTGACGAGTGAGTTCGAAAATTTTTTTAATCATTAATTATGA
GCTAAGTGTGATTTTAGACATATTCTTGAATTTGTGAATTTTGTGTTTTAAAAGAATTATTAGGT
TAATTAGTTTCGAAAACAAGGTATCAAGACCTCAATTTCATAAATCGAGTCATAAATATTTTTAT
AAATATTTACAGAGTGCCATTAAATTAGTATTAAAGTTTCGTTAGAACATTTTAACATTTG
Found at i:56915677 original size:23 final size:23
Alignment explanation
Indices: 56915588--56915677 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
56915578 TTTTTTAGTG
* * *
56915588 TTCGTGAACATTTTCATTTTAACG
1 TTCGCGAACATGTTCA-TTTAACA
* *
56915612 TTCGTGAACATGTTCGTTTAACGA
1 TTCGCGAACATGTTCATTTAAC-A
* *
56915636 -TCACGAACATGTTCGTTTAACA
1 TTCGCGAACATGTTCATTTAACA
*
56915658 TTTGCGAACATGTTCATTTA
1 TTCGCGAACATGTTCATTTA
56915678 TGTTCACAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.02
23 41 0.73
24 14 0.25
ACGTcount: A:0.27, C:0.18, G:0.16, T:0.40
Consensus pattern (23 bp):
TTCGCGAACATGTTCATTTAACA
Found at i:56922025 original size:28 final size:27
Alignment explanation
Indices: 56921993--56922046 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
56921983 ACAGTATTAG
* *
56921993 GTGGGCCTTAGCCCAATAACAGAATCAA
1 GTGGGCCTAAACCC-ATAACAGAATCAA
*
56922021 GTGGGCCTAAACCCATTACAGAATCA
1 GTGGGCCTAAACCCATAACAGAATCA
56922047 GCATCAGATG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (27 bp):
GTGGGCCTAAACCCATAACAGAATCAA
Found at i:56922494 original size:27 final size:27
Alignment explanation
Indices: 56922464--56922523 Score: 86
Period size: 27 Copynumber: 2.2 Consensus size: 27
56922454 GGGGATAATC
56922464 GTCATTCTA-CCATACAAGGGTATTACG
1 GTCATTCTATCC-TACAAGGGTATTACG
* *
56922491 GTCATTTTATCCTACAGGGGTATTACG
1 GTCATTCTATCCTACAAGGGTATTACG
56922518 GTCATT
1 GTCATT
56922524 TTACAAACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTCTATCCTACAAGGGTATTACG
Found at i:56922536 original size:27 final size:27
Alignment explanation
Indices: 56922481--56922541 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 27
56922471 TACCATACAA
**
56922481 GGGTATTACGGTCATTTTATCCTACAG
1 GGGTATTACGGTCATTTTATCAAACAG
56922508 GGGTATTACGGTCATTTTA-CAAACTAG
1 GGGTATTACGGTCATTTTATCAAAC-AG
56922535 GGGTATT
1 GGGTATT
56922542 TCAGTACTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
26 3 0.10
27 28 0.90
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (27 bp):
GGGTATTACGGTCATTTTATCAAACAG
Found at i:56928052 original size:22 final size:22
Alignment explanation
Indices: 56928027--56928079 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
56928017 ATGGATGAAA
*
56928027 TTCTTGGATTAGCGAGAGCGAG
1 TTCTTGGAATAGCGAGAGCGAG
56928049 TTCTTGGAATAGCGAGAGCGAG
1 TTCTTGGAATAGCGAGAGCGAG
56928071 TTCTTGGAA
1 TTCTTGGAA
56928080 ATAAAGCTGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (22 bp):
TTCTTGGAATAGCGAGAGCGAG
Found at i:56930580 original size:27 final size:27
Alignment explanation
Indices: 56930550--56930931 Score: 479
Period size: 27 Copynumber: 14.2 Consensus size: 27
56930540 AAAGTACTCC
56930550 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56930577 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
56930604 CGATTTTTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56930631 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
56930658 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
56930685 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
56930712 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
56930739 CGATTTACAGAATTACCAG-TTTACCCT
1 CGATTTACAGAATTACC-GTTTTACCCT
* *
56930766 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
56930793 TGATTTACAGAATTACCGTTTTACTCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
56930820 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
56930847 TGATTTACAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56930874 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
56930901 CGATTT-CAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56930927 TGATT
1 CGATT
56930932 GTGAAATTAC
Statistics
Matches: 302, Mismatches: 43, Indels: 21
0.83 0.12 0.06
Matches are distributed among these distances:
26 27 0.09
27 271 0.90
28 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.10, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:56930993 original size:27 final size:27
Alignment explanation
Indices: 56930936--56931023 Score: 106
Period size: 27 Copynumber: 3.3 Consensus size: 27
56930926 TTGATTGTGA
* * *
56930936 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCAAAATACCCTTGTAGGGTAG
*
56930963 -ATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
* * *
56930989 AATTACCGAGATACCCTTGTGGGGTAG
1 AATTACCAAAATACCCTTGTAGGGTAG
56931016 AATTACCA
1 AATTACCA
56931024 TTTTGCCCCT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 22 0.43
27 29 0.57
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.26
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGTAGGGTAG
Found at i:56931259 original size:27 final size:26
Alignment explanation
Indices: 56931221--56931300 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
56931211 CGGAGGAAGC
56931221 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
* *
56931248 GTTCTGGTGGCTCTGCCGCAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * *
56931274 GAATT-TGGTGACTCTGTCACAATATCT
1 G--TTCTGGTGGCTATGCCACAATATCT
56931301 ATTGACCGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 8 0.17
27 36 0.78
28 2 0.04
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:56931635 original size:27 final size:27
Alignment explanation
Indices: 56931613--56931686 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
56931603 TAGGTGGGTT
*
56931613 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
56931640 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
56931667 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
56931687 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:56931813 original size:6 final size:6
Alignment explanation
Indices: 56931804--56931935 Score: 85
Period size: 6 Copynumber: 21.8 Consensus size: 6
56931794 TTGCATTCAC
* * * *
56931804 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTTTG ATTCTG -TTACTA
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATT-CTG
* * *
56931853 ATACTG ATTCTG ATTCTG ATTCTG ATTTTG -TTACTA ATAT-TG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
* * *
56931901 GTTCTG ATTCTG -TTACTG ATTCTA ATTCTG GTTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
56931936 CATTTTGGTT
Statistics
Matches: 96, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 8 0.08
6 80 0.83
7 6 0.06
8 2 0.02
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:56931832 original size:25 final size:24
Alignment explanation
Indices: 56931804--56931870 Score: 98
Period size: 25 Copynumber: 2.8 Consensus size: 24
56931794 TTGCATTCAC
56931804 ATTCTGATTCTGATTCTGTCACGTA
1 ATTCTGATTCTGATTCTGTCAC-TA
* *
56931829 ATTCTGATTTTGATTCTGTTACTA
1 ATTCTGATTCTGATTCTGTCACTA
*
56931853 ATACTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
56931871 ATTCTGATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
24 18 0.47
25 20 0.53
ACGTcount: A:0.21, C:0.16, G:0.15, T:0.48
Consensus pattern (24 bp):
ATTCTGATTCTGATTCTGTCACTA
Found at i:56931859 original size:24 final size:25
Alignment explanation
Indices: 56931807--56931870 Score: 94
Period size: 24 Copynumber: 2.6 Consensus size: 25
56931797 CATTCACATT
*
56931807 CTGATTCTGATTCTGTCACGTAATT
1 CTGATTCTGATTCTGTCACGTAATA
* *
56931832 CTGATTTTGATTCTGTTAC-TAATA
1 CTGATTCTGATTCTGTCACGTAATA
56931856 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
56931871 ATTCTGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 18 0.51
25 17 0.49
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTGTCACGTAATA
Found at i:56931926 original size:36 final size:36
Alignment explanation
Indices: 56931829--56931912 Score: 132
Period size: 36 Copynumber: 2.3 Consensus size: 36
56931819 CTGTCACGTA
*
56931829 ATTCTGATTTTGATTCTGTTACTAATACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTG
* *
56931865 ATTCTGATTCTGATTTTGTTACTAATATTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTGATTCTG
*
56931901 GTTCTGATTCTG
1 ATTCTGATTCTG
56931913 TTACTGATTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.51
Consensus pattern (36 bp):
ATTCTGATTCTGATTCTGTTACTAATACTGATTCTG
Found at i:56931929 original size:30 final size:30
Alignment explanation
Indices: 56931804--56931935 Score: 133
Period size: 30 Copynumber: 4.4 Consensus size: 30
56931794 TTGCATTCAC
*
56931804 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
* ** *
56931835 ATTTTGATTCTG-TTACTAATACTGATTCTG
1 ATTCTGATTCTGATT-CTGTTACTAATTCTG
*
56931865 ATTCTGATTCTGATTTTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
* * *
56931895 ATTCTGGTTCTGATTCTGTTACTGATTCTA
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
56931925 ATTCTGGTTCT
1 ATTCTGATTCT
56931936 CATTTTGGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
29 1 0.01
30 64 0.77
31 18 0.22
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.50
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:56938993 original size:23 final size:23
Alignment explanation
Indices: 56938950--56938993 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
56938940 CCAATTCAAC
*
56938950 ATATTTTCAAGATAAATTCATGT
1 ATATTTTCAAGATAAAGTCATGT
*
56938973 ATATTTAT-AAGATAACGTCAT
1 ATATTT-TCAAGATAAAGTCAT
56938994 CACATACCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 17 0.94
24 1 0.06
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (23 bp):
ATATTTTCAAGATAAAGTCATGT
Found at i:56945667 original size:54 final size:54
Alignment explanation
Indices: 56945598--56945733 Score: 254
Period size: 54 Copynumber: 2.5 Consensus size: 54
56945588 ATTGTCGTTG
56945598 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
56945652 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
* *
56945706 CAGGGGATTTAGCCTAGACTAGTAATCC
1 CAGGGGATTTAGCCTGGACTGGTAATCC
56945734 TGCTATATGG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 80 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (54 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTA
Found at i:56946385 original size:14 final size:14
Alignment explanation
Indices: 56946362--56946391 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
56946352 TCGAAAATGT
56946362 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
56946376 GTTGATTTGGATTG
1 GTTGAATTGGATTG
56946390 GT
1 GT
56946392 CTCGGTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:56951327 original size:13 final size:13
Alignment explanation
Indices: 56951311--56951349 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
56951301 ATCTTGAAAT
*
56951311 ATTAAAAACAAGA
1 ATTAAGAACAAGA
*
56951324 ATTAAGAACACATA
1 ATTAAGAACA-AGA
56951338 ATTAAGAACAAG
1 ATTAAGAACAAG
56951350 TCAAATATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:56954892 original size:93 final size:93
Alignment explanation
Indices: 56954784--56954954 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
56954774 GCCCCTAAGT
* * * * * *
56954784 GAACTTGGACTCAACTCAACGCGCTCGGGCGTTTGCATCCATAAGTGAATTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56954849 CGAGTTCAGATGCCTAGTTACATTTCAC
66 CGAGTTCAGATGCCTAGTTACATTTCAC
* *
56954877 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
56954942 CGAGTTCGGATGC
66 CGAGTTCAGATGC
56954955 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:56954970 original size:46 final size:45
Alignment explanation
Indices: 56954877--56954962 Score: 120
Period size: 46 Copynumber: 1.9 Consensus size: 45
56954867 TACATTTCAC
* * *
56954877 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
56954923 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
56954963 CCTAGTGACA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 9 0.25
46 27 0.75
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:56955413 original size:30 final size:30
Alignment explanation
Indices: 56955379--56955438 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56955369 ATTTAATACG
56955379 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
56955409 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
56955439 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:56975504 original size:17 final size:17
Alignment explanation
Indices: 56975482--56975514 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56975472 CCTTAACACC
56975482 ATCCTCTTAGCTGCACA
1 ATCCTCTTAGCTGCACA
56975499 ATCCTCTTAGCTGCAC
1 ATCCTCTTAGCTGCAC
56975515 CTCTTTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.30
Consensus pattern (17 bp):
ATCCTCTTAGCTGCACA
Found at i:56977837 original size:64 final size:63
Alignment explanation
Indices: 56977733--56977940 Score: 211
Period size: 67 Copynumber: 3.2 Consensus size: 63
56977723 CATCATGTGT
*
56977733 ACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTACGAG--A-TA--ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
56977798 TAG
61 TAG
* * * * * *
56977801 ACAAGAGAGCTGCGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATA-ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
56977866 AG
62 AG
** * * *
56977868 ACAAGAGAGCTACGAGATAAACTAGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
56977930 TACAAGAGAGC
1 -ACAAGAGAGC
56977941 CAAAATTATG
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 26 0.22
65 2 0.02
66 26 0.22
67 29 0.25
68 14 0.12
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.23
Consensus pattern (63 bp):
ACAAGAGAGCTACGAGATAATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:56979509 original size:26 final size:26
Alignment explanation
Indices: 56979463--56979558 Score: 144
Period size: 26 Copynumber: 3.8 Consensus size: 26
56979453 CTCTTTTAAT
*
56979463 AACTCGGGCA-AA-CCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
56979487 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
56979513 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
56979539 AACTGGGGCAT-AGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
56979559 GCACTTTCTC
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.13
25 11 0.16
26 47 0.70
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:56979633 original size:20 final size:20
Alignment explanation
Indices: 56979608--56979674 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
56979598 TTATGAATTC
*
56979608 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
*
56979628 ATCATGTGCATATCATACCT
1 ATCATGTGCATATCATACAT
56979648 ATCATGTGCATATCATATCA-
1 ATCATGTGCATATCATA-CAT
56979668 ATCATGT
1 ATCATGT
56979675 ATCAAATTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.37
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56980516 original size:36 final size:38
Alignment explanation
Indices: 56980459--56980539 Score: 148
Period size: 36 Copynumber: 2.2 Consensus size: 38
56980449 AACAAAATGT
56980459 ATATACATATAAAAAAAAGGGGTAATGAATATGAAATA
1 ATATACATATAAAAAAAAGGGGTAATGAATATGAAATA
56980497 ATATA-ATAT-AAAAAAAGGGGTAATGAATATGAAATA
1 ATATACATATAAAAAAAAGGGGTAATGAATATGAAATA
56980533 ATATACA
1 ATATACA
56980540 CAAAGTTCAA
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
36 32 0.76
37 5 0.12
38 5 0.12
ACGTcount: A:0.58, C:0.02, G:0.15, T:0.25
Consensus pattern (38 bp):
ATATACATATAAAAAAAAGGGGTAATGAATATGAAATA
Found at i:56987133 original size:49 final size:48
Alignment explanation
Indices: 56987060--56987247 Score: 223
Period size: 49 Copynumber: 3.8 Consensus size: 48
56987050 TAGCCGAAGC
56987060 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * * * *
56987108 TAATCTGGTACACGTAGTAGCCTGCACTTAGTACTGCACACGTGATCACAG
1 T-ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAA
* * *
56987159 TTTTTGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TATCT-GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** **
56987208 TTATCCAGTACACATAGTAGCCTATACTTAGTACTACACA
1 -TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
56987248 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
48 1 0.01
49 71 0.62
50 6 0.05
51 37 0.32
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (48 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:56987179 original size:100 final size:100
Alignment explanation
Indices: 56987065--56987252 Score: 304
Period size: 100 Copynumber: 1.9 Consensus size: 100
56987055 GAAGCTATCT
** *
56987065 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACATAGTAGCC
* *
56987130 TGCACTTAGTACTGCACACGTGATCACAGTTTTTG
66 TACACTTAGTACTACACACGTGATCACAGTTTTTG
* *
56987165 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCAGTACACATAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACATAGTAGCC
*
56987230 TATACTTAGTACTACACACGTGA
66 TACACTTAGTACTACACACGTGA
56987253 CCTCACAATA
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCAGTACACATAGTAGCC
TACACTTAGTACTACACACGTGATCACAGTTTTTG
Found at i:56998810 original size:24 final size:24
Alignment explanation
Indices: 56998789--56998834 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
56998779 TCTCATGGTC
**
56998789 AGATATTGATAATTGTTGATGGCA
1 AGATATTGATAATAATTGATGGCA
*
56998813 ATATATTGATAATAATTGATGG
1 AGATATTGATAATAATTGATGG
56998835 AAATCTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (24 bp):
AGATATTGATAATAATTGATGGCA
Found at i:56999956 original size:31 final size:32
Alignment explanation
Indices: 56999921--56999997 Score: 79
Period size: 31 Copynumber: 2.5 Consensus size: 32
56999911 ATGACGCTAG
* *
56999921 AGATATTTTGCTATTTTA-TAAT-TATTTAATT
1 AGATATTTTACTATTTTATTAATAT-TTTAATA
**
56999952 AGATA-AATACTATTTTATTAATATTTTAATA
1 AGATATTTTACTATTTTATTAATATTTTAATA
*
56999983 AGATATTTTATTATT
1 AGATATTTTACTATT
56999998 ATTTTATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
30 9 0.25
31 20 0.56
32 7 0.19
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.55
Consensus pattern (32 bp):
AGATATTTTACTATTTTATTAATATTTTAATA
Found at i:56999978 original size:11 final size:11
Alignment explanation
Indices: 56999962--57000006 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
56999952 AGATAAATAC
56999962 TATTTTATTAA
1 TATTTTATTAA
*
56999973 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
56999986 TATTTTATTAT
1 TATTTTATTAA
56999997 TATTTTATTA
1 TATTTTATTA
57000007 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:57001895 original size:46 final size:46
Alignment explanation
Indices: 57001819--57002181 Score: 485
Period size: 46 Copynumber: 7.9 Consensus size: 46
57001809 GTTCTCTCTA
* *
57001819 ATATGAAACGTGTAAAACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
57001865 ATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
*
57001911 ATACGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* * * *
57001957 GTAGGAAATGTGTAAGAACATGGTTGAAAGATACCATGGAAACCTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
* *
57002003 ATATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** **
57002049 ATATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAATTG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** * *
57002095 ATATGAAATGAATAATACCATGGTTGAAAGATACCATGGCAACATG
1 ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
** * * * *
57002141 GCA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
57002182 TCATGTCAAA
Statistics
Matches: 288, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 287 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
Found at i:57011895 original size:177 final size:177
Alignment explanation
Indices: 57011649--57012331 Score: 888
Period size: 177 Copynumber: 3.9 Consensus size: 177
57011639 AATAGGACTG
* * *
57011649 GTGGCTTAAATCTGCTCCATT-TCCAATACATGGAGATAAGATTCGCCATCCTT-GATCTACTCC
1 GTGGCTAAAATCTGCTCCATTGT-CGATACATGGAGATAAGATTCGCCAT-CTTCGATCTGCTCC
* * * * *
57011712 ACAACTGCTTAGGGAGATAAGATTTTCAATCTTCAGTCTGCTTTCTTGTTACCTTAGGAAGATAA
64 ACAACTGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAA
* ** *
57011777 GACTACAATCTCCAACCTGCTCTCTTGCTACCTTGGAGAGATAAGGCTA
129 GACTACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATATGGCTA
* *
57011826 ATGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCTAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
* *
57011891 AACTGCTTAGGGAGATAAGATCTTCAATCCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
66 AACTGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* *
57011956 CTACAATCACCAACCTTCTCTCTTGCTACCTCAGAGAGACT-TGGGTA
131 CTACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGA-TATGGCTA
* * * * * * * *
57012003 GTCGCTAAAATCTGCTCTATTG-CTGATACATGAAAATAAAATTCGCCATCTTCGATTTTCCCCA
1 GTGGCTAAAATCTGCTCCATTGTC-GATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCA
* * * *
57012067 CAGCTGCTGAAGGAGATAAGATCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAA
65 CAACTGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * *
57012132 AGTACAATCACCAACCTGCTCTCTTGGTACCTCAAAGAGATATGGCTA
130 ACTACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATATGGCTA
* * * *
57012180 GTGGCTAAAATTTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTCCAC
1 GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
** * * * * * *
57012245 AGTTGCTCAAGGAGATAAAAACATCAATCTTCAGTATGCTTCCTTGCTACCTCAGGAAAATAAGA
66 AACTGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
*
57012310 CTACAATCGCCAACCTGCTCTC
131 CTACAATCACCAACCTGCTCTC
57012332 CTACTAGTGG
Statistics
Matches: 441, Mismatches: 59, Indels: 12
0.86 0.12 0.02
Matches are distributed among these distances:
176 5 0.01
177 433 0.98
178 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (177 bp):
GTGGCTAAAATCTGCTCCATTGTCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCAC
AACTGCTTAAGGAGATAAGATCTTCAATCTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
CTACAATCACCAACCTGCTCTCTTGCTACCTCAGAGAGATATGGCTA
Found at i:57012466 original size:158 final size:158
Alignment explanation
Indices: 57012177--57012469 Score: 385
Period size: 158 Copynumber: 1.9 Consensus size: 158
57012167 AGAGATATGG
* * * *
57012177 CTAGTGGCTAAAATTTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTGCTC
1 CTAGTGGCTAAAATCTACTCCATTACCGAAACATGGAGATAAGATTCACCATCTTCGATCTACTC
* * * *
57012242 CACAGTTGCTCAAGGAGATAAAAACATCAATCTTCAGTATGCTTCCTTGCTACCTCAGGAAAATA
66 CACAGCTGCTCAAGGAGATAAAAACATAAATCTTCAATATGCTTCCCTGCTACCTCAGGAAAATA
57012307 AGACTACAATCGCCAACCTGCTCTCCTA
131 AGACTACAATCGCCAACCTGCTCTCCTA
** *
57012335 CTAGTGGCTAAAATCTGGTCCATTACCGAAACATGGAGATAAGATTCGCCATCTTCGATCTACTC
1 CTAGTGGCTAAAATCTACTCCATTACCGAAACATGGAGATAAGATTCACCATCTTCGATCTACTC
* * * * * *
57012400 CACTA-CTGC-CTAGGGAGATAAGATCTGTAAAT-TTCAATTTGCTTCCCTGCTACCTCAGGAAG
66 CAC-AGCTGCTC-AAGGAGATAAAAAC-ATAAATCTTCAATATGCTTCCCTGCTACCTCAGGAAA
57012462 ATAAGACT
128 ATAAGACT
57012470 TGTATATTGA
Statistics
Matches: 115, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
157 1 0.01
158 109 0.95
159 5 0.04
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (158 bp):
CTAGTGGCTAAAATCTACTCCATTACCGAAACATGGAGATAAGATTCACCATCTTCGATCTACTC
CACAGCTGCTCAAGGAGATAAAAACATAAATCTTCAATATGCTTCCCTGCTACCTCAGGAAAATA
AGACTACAATCGCCAACCTGCTCTCCTA
Found at i:57012781 original size:45 final size:45
Alignment explanation
Indices: 57012701--57012828 Score: 143
Period size: 45 Copynumber: 2.8 Consensus size: 45
57012691 TTATTTATAA
* * *
57012701 CTTCTATCTATTCCACTACAACTTCAGGGAAATAAGATTCGCT-AT
1 CTTCGATCTACTCCACTGCAACTTCAGGGAAATAAGATTCG-TAAT
* * * *
57012746 CTTC-ATTCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAAT
1 CTTCGA-TCTACTCCACTGCAACTTCAGGGAAATAAGATTCGTAAT
* *
57012791 CTTCGATCTACTCTACTGCAACTTCAGAGAAATAAGAT
1 CTTCGATCTACTCCACTGCAACTTCAGGGAAATAAGAT
57012829 CTGACCTCAC
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
44 2 0.03
45 66 0.96
46 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (45 bp):
CTTCGATCTACTCCACTGCAACTTCAGGGAAATAAGATTCGTAAT
Found at i:57012996 original size:64 final size:64
Alignment explanation
Indices: 57012894--57013149 Score: 395
Period size: 64 Copynumber: 4.0 Consensus size: 64
57012884 TCCATGTATC
* * ** * *
57012894 ATGCTTATGCCAAATAATTAGGATACTATGATCAAAATGAATCAAATACTCCTAACCAGATGTG
1 ATGCTGATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* * *
57012958 ATGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTA
1 ATGCTGATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
57013022 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
1 ATGCTGATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
* *
57013086 ATGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCACATGCTCCTAACTAGATGTG
1 ATGCTGATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
57013150 TTATGAATGA
Statistics
Matches: 174, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 174 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (64 bp):
ATGCTGATGTCAAATAATTAGGACGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTG
Found at i:57013122 original size:128 final size:128
Alignment explanation
Indices: 57012894--57013148 Score: 456
Period size: 128 Copynumber: 2.0 Consensus size: 128
57012884 TCCATGTATC
57012894 ATGCTTATGCCAAATAATTAGGATACTATGATCAAAATGAATCAAATACTCCTAACCAGATGTGA
1 ATGCTTATGCCAAATAATTAGGATACTATGATCAAAATGAATCAAATACTCCTAACCAGATGTGA
57012959 TGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTA
66 TGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTA
* * * *
57013022 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGTGA
1 ATGCTTATGCCAAATAATTAGGATACTATGATCAAAATGAATCAAATACTCCTAACCAGATGTGA
* *
57013087 TGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCACATGCTCCTAACTAGATGT
66 TGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGT
57013149 GTTATGAATG
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
128 121 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (128 bp):
ATGCTTATGCCAAATAATTAGGATACTATGATCAAAATGAATCAAATACTCCTAACCAGATGTGA
TGCTGATGTCAAATAATTAGGACGCTATGATCGAAATGAATCAAATGCTCCTAACTAAATGTA
Found at i:57014291 original size:18 final size:18
Alignment explanation
Indices: 57014268--57014302 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57014258 TCTCCTTTTC
*
57014268 TTTTTTCTTTTTTTTTAT
1 TTTTTTCATTTTTTTTAT
*
57014286 TTTTTTGATTTTTTTTA
1 TTTTTTCATTTTTTTTA
57014303 AAATTTATCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (18 bp):
TTTTTTCATTTTTTTTAT
Found at i:57021137 original size:14 final size:14
Alignment explanation
Indices: 57021118--57021145 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
57021108 ATTGGACTTG
57021118 ATTATTTTAGTTTT
1 ATTATTTTAGTTTT
57021132 ATTATTTTAGTTTT
1 ATTATTTTAGTTTT
57021146 CTTTCTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (14 bp):
ATTATTTTAGTTTT
Found at i:57034231 original size:21 final size:21
Alignment explanation
Indices: 57034201--57034249 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
57034191 CACATAAGTG
* *
57034201 CCTGAAATGACACACGAGGTA
1 CCTGATATGACACACGAGATA
*
57034222 CCTGATATGACACACGAGATG
1 CCTGATATGACACACGAGATA
57034243 CCTGATA
1 CCTGATA
57034250 CACACATGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.18
Consensus pattern (21 bp):
CCTGATATGACACACGAGATA
Found at i:57034312 original size:23 final size:23
Alignment explanation
Indices: 57034247--57034313 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
57034237 GAGATGCCTG
* * *
57034247 ATAC-ACACATGAGGTGCCTAAA
1 ATACGACACATAAAGTGCCTGAA
57034269 ATACGACACATAAAGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
*
57034292 ATATGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
57034314 TCGGCAAAGC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
22 4 0.10
23 36 0.90
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:57036715 original size:43 final size:43
Alignment explanation
Indices: 57036618--57036780 Score: 152
Period size: 43 Copynumber: 3.8 Consensus size: 43
57036608 ACCGAGATGT
* * * * * *
57036618 GATTACATGTAAGACTATGTCTGGAACATTAGCATTGTATTTT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATC
*
57036661 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-TAATC
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT-ATC
* * * *
57036704 GATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATAT-C
* * * *
57036747 GATAACATGTAAAACCATATCTGGGATA-TGGCAT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCAT
57036781 TGTACGAGCT
Statistics
Matches: 99, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
42 9 0.09
43 90 0.91
ACGTcount: A:0.29, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCGTATATC
Found at i:57041554 original size:131 final size:130
Alignment explanation
Indices: 57041364--57041762 Score: 485
Period size: 131 Copynumber: 3.0 Consensus size: 130
57041354 GATGAGATCG
* * *
57041364 TTCATGATTTTAAATCGAATGAACTTAGGCTATAATATTAAATTAGCGAGCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAGCGAGCCTTAACATTATTAG
* * *
57041429 CTGTGATATTAAATCAGTGAGCTATTTAGAGTATCAATATTAAATCAACTAACTCAAATAAAATT
66 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAAAAAAATT
* * * * *
57041494 ATTTATGATATTGAATCGAATGAACTTGGGTTGTAATATTAAATC-GACGAGCCTTAACATTATC
1 -TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAG-CGAGCCTTAACATTATT
** * * * * * * *
57041558 AGCTGCAATATTAAATCAATAAGTTAATTAAAGTAGCGGTATTAAATCAACTAACTCAAAGAAAA
64 AGCTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAA-AAAA
57041623 ATT
128 ATT
* * * *
57041626 TTCATGATATTAAATTGAATGAACTTAGGCTGTGATTTTAAATCAGCGATCCTTAACATTATTAG
1 TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAGCGAGCCTTAACATTATTAG
* * * * * *
57041691 TTGTGATATTAAATCAGCGAACTATTTAGAGTAACGATATTAAATTAGCTAACTCAAAGAAAATT
66 CTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAAAAAAATT
57041756 GTTCATG
1 -TTCATG
57041763 TTAGATAAAC
Statistics
Matches: 221, Mismatches: 43, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
130 7 0.03
131 207 0.94
132 7 0.03
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (130 bp):
TTCATGATATTAAATCGAATGAACTTAGGCTGTAATATTAAATCAGCGAGCCTTAACATTATTAG
CTGTGATATTAAATCAGTGAGCTATTTAGAGTAACGATATTAAATCAACTAACTCAAAAAAAATT
Found at i:57047566 original size:25 final size:25
Alignment explanation
Indices: 57047516--57047566 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
57047506 GGTTCGCCTA
* *
57047516 CATGGTGATGCGAACTCACGTCGTG
1 CATGGTGATGCGAACCCACATCGTG
* *
57047541 CATGGTGGTGCGAACCCACATGGTG
1 CATGGTGATGCGAACCCACATCGTG
57047566 C
1 C
57047567 GATCCCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (25 bp):
CATGGTGATGCGAACCCACATCGTG
Found at i:57047718 original size:18 final size:18
Alignment explanation
Indices: 57047695--57047731 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
57047685 GAGTAAGATT
57047695 TTCAATGTCAATTATTTA
1 TTCAATGTCAATTATTTA
57047713 TTCAATGTCAATTATTTA
1 TTCAATGTCAATTATTTA
57047731 T
1 T
57047732 AGCAGTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (18 bp):
TTCAATGTCAATTATTTA
Found at i:57049436 original size:17 final size:16
Alignment explanation
Indices: 57049416--57049475 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 16
57049406 TGTTTAAACC
57049416 TATTTTTAATATAA-T
1 TATTTTTAATATAATT
* *
57049431 TATATTTAGT-TAATT
1 TATTTTTAATATAATT
57049446 CTCATTTTTAAATATAATT
1 -T-ATTTTT-AATATAATT
57049465 TATTTCTTAAT
1 TATTT-TTAAT
57049476 TTTTATTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
14 3 0.09
15 9 0.26
16 1 0.03
17 12 0.34
18 5 0.14
19 5 0.14
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (16 bp):
TATTTTTAATATAATT
Found at i:57049484 original size:31 final size:32
Alignment explanation
Indices: 57049416--57049484 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
57049406 TGTTTAAACC
*
57049416 TATTTTTAATATAATTATATTTAGTTAATTCT
1 TATTTTTAATATAATTATATTTACTTAATTCT
* *
57049448 CATTTTTAAATATAATT-TATTT-CTTAATTTT
1 TATTTTT-AATATAATTATATTTACTTAATTCT
57049479 TATTTT
1 TATTTT
57049485 ATATTTCCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 12 0.38
32 11 0.34
33 9 0.28
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.62
Consensus pattern (32 bp):
TATTTTTAATATAATTATATTTACTTAATTCT
Found at i:57061283 original size:29 final size:31
Alignment explanation
Indices: 57061220--57061286 Score: 102
Period size: 29 Copynumber: 2.2 Consensus size: 31
57061210 AAAATATAAT
57061220 GACTAAAATTAATCAATATGTAAAGTACAGA
1 GACTAAAATTAATCAATATGTAAAGTACAGA
* *
57061251 GACTAAAATTGATCAA-AT-TAAAGTACAGG
1 GACTAAAATTAATCAATATGTAAAGTACAGA
57061280 GACTAAA
1 GACTAAA
57061287 CTCACAACTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 17 0.50
30 2 0.06
31 15 0.44
ACGTcount: A:0.51, C:0.10, G:0.15, T:0.24
Consensus pattern (31 bp):
GACTAAAATTAATCAATATGTAAAGTACAGA
Found at i:57062399 original size:28 final size:28
Alignment explanation
Indices: 57062367--57062422 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
57062357 TAAGATAGAA
57062367 CTAAGATCTTATTAAATCAAGGGATGAT
1 CTAAGATCTTATTAAATCAAGGGATGAT
57062395 CTAAGATCTTATTAAATCAAGGGATGAT
1 CTAAGATCTTATTAAATCAAGGGATGAT
57062423 TCAACCTCCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (28 bp):
CTAAGATCTTATTAAATCAAGGGATGAT
Found at i:57115266 original size:26 final size:24
Alignment explanation
Indices: 57115222--57115271 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
57115212 ATTTGTTTTA
*
57115222 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
57115246 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
57115272 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:57118874 original size:10 final size:10
Alignment explanation
Indices: 57118861--57118916 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
57118851 ATAAATATAT
57118861 TAAAAAATCA
1 TAAAAAATCA
*
57118871 T-AAAAATTA
1 TAAAAAATCA
*
57118880 TCAAAAATCA
1 TAAAAAATCA
*
57118890 TAAAAATTAT-T
1 TAAAAA--ATCA
57118901 TAAAAAATCA
1 TAAAAAATCA
57118911 TAAAAA
1 TAAAAA
57118917 TTATAATATC
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
9 10 0.27
10 19 0.51
11 6 0.16
12 2 0.05
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATCA
Found at i:57118875 original size:9 final size:9
Alignment explanation
Indices: 57118863--57118922 Score: 57
Period size: 9 Copynumber: 6.2 Consensus size: 9
57118853 AAATATATTA
57118863 AAAAATCAT
1 AAAAATCAT
*
57118872 AAAAATTAT
1 AAAAATCAT
57118881 CAAAAATCAT
1 -AAAAATCAT
*
57118891 AAAAATTATTT
1 AAAAATCA--T
57118902 AAAAAATCAT
1 -AAAAATCAT
*
57118912 AAAAATTAT
1 AAAAATCAT
57118921 AA
1 AA
57118923 TATCATTTGG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 25 0.60
10 9 0.21
11 1 0.02
12 7 0.17
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (9 bp):
AAAAATCAT
Found at i:57118885 original size:19 final size:19
Alignment explanation
Indices: 57118861--57118922 Score: 97
Period size: 19 Copynumber: 3.2 Consensus size: 19
57118851 ATAAATATAT
57118861 TAAAAAATCATAAAAATTA
1 TAAAAAATCATAAAAATTA
*
57118880 TCAAAAATCATAAAAATTA
1 TAAAAAATCATAAAAATTA
57118899 TTTAAAAAATCATAAAAATTA
1 --TAAAAAATCATAAAAATTA
57118920 TAA
1 TAA
57118923 TATCATTTGG
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
19 21 0.54
21 18 0.46
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (19 bp):
TAAAAAATCATAAAAATTA
Found at i:57121075 original size:20 final size:21
Alignment explanation
Indices: 57121046--57121084 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
57121036 ATACATCATT
57121046 TTTTTATTTTATT-TTATTTA
1 TTTTTATTTTATTATTATTTA
*
57121066 TTTTTCTTTTATTATTATT
1 TTTTTATTTTATTATTATT
57121085 GCTTAGGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTTTATTTTATTATTATTTA
Found at i:57125940 original size:10 final size:10
Alignment explanation
Indices: 57125927--57125952 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
57125917 TACAAATAAA
57125927 TAAAGACAAT
1 TAAAGACAAT
57125937 TAAAGACAAT
1 TAAAGACAAT
57125947 TAAAGA
1 TAAAGA
57125953 TAAATGCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.62, C:0.08, G:0.12, T:0.19
Consensus pattern (10 bp):
TAAAGACAAT
Found at i:57132342 original size:71 final size:71
Alignment explanation
Indices: 57132259--57132400 Score: 248
Period size: 71 Copynumber: 2.0 Consensus size: 71
57132249 CAAACAATCC
* * *
57132259 CAAAATGTACAAACAGTCCAAAAATAACAAAACTCATAAAGTCAAAGCAAATAGAATAATTAACT
1 CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
57132324 AATTAA
66 AATTAA
*
57132330 CAAAATGTACAAATAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
1 CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
57132395 AATTAA
66 AATTAA
57132401 GTTTTAATCG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 67 1.00
ACGTcount: A:0.58, C:0.15, G:0.07, T:0.19
Consensus pattern (71 bp):
CAAAATGTACAAACAGTCCAAAAATAACAAAACCCATAAAGCCAAAGAAAATAGAATAATTAACT
AATTAA
Found at i:57138526 original size:6 final size:6
Alignment explanation
Indices: 57138517--57138563 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
57138507 GAAGTCTAAG
* *
57138517 AAAATA AAAATA AACATA GAAATA AAAAT- AAAAT- AAAAT- AAAATA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
57138562 AA
1 AA
57138564 TGGACTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
5 15 0.42
6 21 0.58
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:57138541 original size:18 final size:16
Alignment explanation
Indices: 57138517--57138563 Score: 69
Period size: 18 Copynumber: 2.9 Consensus size: 16
57138507 GAAGTCTAAG
57138517 AAAATAAAAATAAACAT
1 AAAATAAAAATAAA-AT
57138534 AGAAATAAAAATAAAAT
1 A-AAATAAAAATAAAAT
57138551 AAAAT-AAAATAAA
1 AAAATAAAAATAAA
57138564 TGGACTCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.28
16 4 0.14
17 4 0.14
18 13 0.45
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAATAAAAATAAAAT
Found at i:57138551 original size:5 final size:5
Alignment explanation
Indices: 57138517--57138563 Score: 58
Period size: 5 Copynumber: 8.6 Consensus size: 5
57138507 GAAGTCTAAG
57138517 AAAAT AAAAAT AAACAT AGAAAT AAAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT AAA-AT A-AAAT -AAAAT AAAAT AAAAT AAAAT AAA
57138564 TGGACTCAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.55
6 14 0.37
7 3 0.08
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:57142288 original size:6 final size:6
Alignment explanation
Indices: 57142258--57142388 Score: 81
Period size: 6 Copynumber: 21.3 Consensus size: 6
57142248 AAGAAACATT
* * * *
57142258 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGG ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * * *
57142307 ATCAGA ATCAGA ATCAGA ATCAAA ATTAG- GTGACAGA ATTAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA ATCAGA
* *
57142356 ATCAGT ATCAGATA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAG--A ATCAGA ATCAGA ATCAGA AT
57142389 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 19, Indels: 22
0.70 0.14 0.16
Matches are distributed among these distances:
5 6 0.06
6 77 0.81
7 8 0.08
8 4 0.04
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:57142314 original size:31 final size:31
Alignment explanation
Indices: 57142279--57142388 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
57142269 AATCAAAATG
*
57142279 AGAATCAGAATCAGGATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
57142310 AGAATCAGAATCAGAATCAAAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* * * *
57142347 AGAATCAGAATCAGTATCAGATAATAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
57142378 AAAATCAGAAT
1 AGAATCAGAAT
57142389 GTGAATGCAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
31 36 0.55
37 29 0.45
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:57142320 original size:37 final size:37
Alignment explanation
Indices: 57142267--57142367 Score: 139
Period size: 37 Copynumber: 2.7 Consensus size: 37
57142257 TATCAGAACT
* * *
57142267 AGAATCAAAATGAGAATCAGAATCAGGATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
57142304 AGAATCAGAATCAGAATCAGAATCAAAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
57142341 AGAATTAGAATCAGAATCAGTATCAGA
1 AGAATCAGAATCAGAATCAGAATCAGA
57142368 TAATAGAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.48, C:0.13, G:0.21, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:57142388 original size:37 final size:36
Alignment explanation
Indices: 57142242--57142388 Score: 101
Period size: 37 Copynumber: 4.2 Consensus size: 36
57142232 TAGCCCATTA
* * * *
57142242 CAGAATAAGAAACATTATCAGAACTAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
* * * *
57142278 GAGAATCAGAATCAGGATCAG--GT-G-A-CAGAAT
1 CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
* * *
57142309 CAGAATCAGAATCAGAATCA-AAATTAG-GTGACAGAAT
1 CAGAATCAGAATCAGTATCAGAAA-TAGAAT--CAAAAT
*
57142346 TAGAATCAGAATCAGTATCAGATAATAGAATCAAAAT
1 CAGAATCAGAATCAGTATCAGA-AATAGAATCAAAAT
57142383 CAGAAT
1 CAGAAT
57142389 GTGAATGCAA
Statistics
Matches: 85, Mismatches: 16, Indels: 19
0.71 0.13 0.16
Matches are distributed among these distances:
31 23 0.27
32 1 0.01
33 2 0.02
34 2 0.02
36 16 0.19
37 34 0.40
38 4 0.05
39 3 0.04
ACGTcount: A:0.50, C:0.13, G:0.18, T:0.20
Consensus pattern (36 bp):
CAGAATCAGAATCAGTATCAGAAATAGAATCAAAAT
Found at i:57142554 original size:27 final size:26
Alignment explanation
Indices: 57142506--57142563 Score: 80
Period size: 27 Copynumber: 2.2 Consensus size: 26
57142496 GCGAGGCTGC
*
57142506 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* *
57142533 CAGATATTGTGGCGGAGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
57142559 CAGAT
1 CAGAT
57142564 GTATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:57142654 original size:27 final size:26
Alignment explanation
Indices: 57142607--57142657 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
57142597 CGAGGTTGCT
*
57142607 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
57142633 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
57142658 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:57142923 original size:27 final size:27
Alignment explanation
Indices: 57142893--57143572 Score: 830
Period size: 27 Copynumber: 25.2 Consensus size: 27
57142883 AACACCCTAG
* *
57142893 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** * *
57142920 GGGTAAAACGGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57142947 GGGTAAAATTGTAATTTTTTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
57142974 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143001 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143028 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143055 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
57143082 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143109 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143136 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143163 GGGTAAAATAGTAATTCTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143190 GGGTAAAA-CGATAATTTTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
*
57143217 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143244 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57143271 GGATAAAATAGTAATTTTGTAGATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143298 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* * *
57143325 AGGTAAAA-CGATAATTTTTTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
** *
57143352 GGGTAAAACGGTAATTTTATAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143379 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143406 GGGTAAAATAGTAATTTTGTAATTC-A
1 GGGTAAAATAGTAATTTTGTAAATCGA
** *
57143432 TGGGTAAAACGGTAATTCTGTAAATCGA
1 -GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143460 GGGTAAAATTGTAATTTTTTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
*
57143487 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
* *
57143514 GGGTAAAA-CGATAATTCTGTAAATCGA
1 GGGTAAAATAG-TAATTTTGTAAATCGA
* * * *
57143541 TGGTAAAACAGTAATTCTGTAAATTGA
1 GGGTAAAATAGTAATTTTGTAAATCGA
57143568 GGGTA
1 GGGTA
57143573 CTTTGGTAAT
Statistics
Matches: 568, Mismatches: 75, Indels: 20
0.86 0.11 0.03
Matches are distributed among these distances:
26 5 0.01
27 558 0.98
28 5 0.01
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (27 bp):
GGGTAAAATAGTAATTTTGTAAATCGA
Found at i:57143583 original size:135 final size:135
Alignment explanation
Indices: 57142893--57143572 Score: 1053
Period size: 135 Copynumber: 5.0 Consensus size: 135
57142883 AACACCCTAG
* * * * * *
57142893 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATTG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
* *
57142958 TAATTTTTTAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
66 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
*
57143023 ATCGA
131 ATTGA
57143028 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
57143093 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
66 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
*
57143158 ATCGA
131 ATTGA
57143163 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
*
57143228 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAG
66 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
57143293 ATTGA
131 ATTGA
* * * *
57143298 GGGTAAAATAGTAATTCTGTAAATCGAAGGTAAAACGATAATTTTTTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
* *
57143363 TAATTTTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATAGTAATTTTGT-A
66 TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
*
57143427 ATTCA
131 ATTGA
** * * *
57143432 TGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATTG-TAATTTTTTAAATCGAGGGTAAAAT
1 -GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAA-CGATAATTTTGTAAATCGAGGGTAAAAT
* * * *
57143496 AGTAATTCTGTAAATCGAGGGTAAAAC-GATAATTCTGTAAATCGATGG-TAAAACAGTAATTCT
64 GGTAATTTTGTAAATCGAGGGTAAAACAG-TAATTCTGTAAATCGA-GGATAAAATAGTAATTTT
57143559 GTAAATTGA
127 GTAAATTGA
57143568 GGGTA
1 GGGTA
57143573 CTTTGGTAAT
Statistics
Matches: 511, Mismatches: 29, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
134 5 0.01
135 498 0.97
136 8 0.02
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (135 bp):
GGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAATGG
TAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAATAGTAATTTTGTAA
ATTGA
Found at i:57145221 original size:29 final size:29
Alignment explanation
Indices: 57145179--57145243 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
57145169 CTAGTACTCA
*
57145179 CCACAAAGGCTTTC-TTATCCAGAGTTGTG
1 CCACAAAAGCTTTCATT-TCCAGAGTTGTG
* *
57145208 CCACAAAAGCTTTCATTTCCGGAGTTTTG
1 CCACAAAAGCTTTCATTTCCAGAGTTGTG
57145237 CCACAAA
1 CCACAAA
57145244 GGTTGTCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (29 bp):
CCACAAAAGCTTTCATTTCCAGAGTTGTG
Found at i:57145484 original size:53 final size:53
Alignment explanation
Indices: 57145427--57145552 Score: 173
Period size: 53 Copynumber: 2.4 Consensus size: 53
57145417 TTAGTTGCAA
* * *
57145427 TCTTACATGATATGGTCTTTTTTCCATATGAT-TTCATAACCCATCAGTTACGG
1 TCTTACACGATATGGTCTTCTTTCCATATGATGTT-ATAACCCACCAGTTACGG
* * * *
57145480 TCTTACACAATATGGTATTCTTTCCATATGATGTTGTAACCCACCAGTTATGG
1 TCTTACACGATATGGTCTTCTTTCCATATGATGTTATAACCCACCAGTTACGG
57145533 TCTTACACGATATGGTCTTC
1 TCTTACACGATATGGTCTTC
57145553 AGCGTCATGG
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
53 61 0.97
54 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (53 bp):
TCTTACACGATATGGTCTTCTTTCCATATGATGTTATAACCCACCAGTTACGG
Found at i:57150110 original size:15 final size:15
Alignment explanation
Indices: 57150089--57150131 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
57150079 TATTTTACAA
57150089 CGTTATTATTATTGT
1 CGTTATTATTATTGT
*
57150104 TGTTATTATTATTGT
1 CGTTATTATTATTGT
*
57150119 CGTCATTATTATT
1 CGTTATTATTATT
57150132 ACCTTTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.21, C:0.07, G:0.12, T:0.60
Consensus pattern (15 bp):
CGTTATTATTATTGT
Found at i:57155138 original size:16 final size:16
Alignment explanation
Indices: 57155117--57155147 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
57155107 GTATAACATC
57155117 ATAACACACCAAAATA
1 ATAACACACCAAAATA
57155133 ATAACACACCAAAAT
1 ATAACACACCAAAAT
57155148 GCTATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.61, C:0.26, G:0.00, T:0.13
Consensus pattern (16 bp):
ATAACACACCAAAATA
Found at i:57163592 original size:17 final size:17
Alignment explanation
Indices: 57163571--57163610 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
57163561 TAAAGAAATA
57163571 ATATTATTAAAAATATTT
1 ATATTA-TAAAAATATTT
*
57163589 -TATTATATAAATATTT
1 ATATTATAAAAATATTT
57163605 ATATTA
1 ATATTA
57163611 AAGTATATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATTATAAAAATATTT
Found at i:57171620 original size:16 final size:16
Alignment explanation
Indices: 57171583--57171622 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
57171573 ATTTTGATGA
*
57171583 TATTTTTAATTATTTT
1 TATTTTTAATTATGTT
57171599 TATTTTTAATTAATGTT
1 TATTTTTAATT-ATGTT
57171616 T-TTTTTA
1 TATTTTTA
57171623 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 17 0.77
17 5 0.23
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TATTTTTAATTATGTT
Found at i:57171620 original size:22 final size:21
Alignment explanation
Indices: 57171553--57171629 Score: 70
Period size: 22 Copynumber: 3.7 Consensus size: 21
57171543 TGTTTCAAGC
57171553 TTTTTTTATTTTTAATTAATAT
1 TTTTTTTATTTTTAATTAAT-T
** * *
57171575 TTTGATGATATTT--TTAA-T
1 TTTTTTTATTTTTAATTAATT
*
57171593 TATTTTTATTTTTAATTAATGT
1 TTTTTTTATTTTTAATTAAT-T
57171615 TTTTTTTATTTTTAA
1 TTTTTTTATTTTTAA
57171630 ATTTTAACCA
Statistics
Matches: 41, Mismatches: 10, Indels: 8
0.69 0.17 0.14
Matches are distributed among these distances:
18 9 0.22
20 8 0.20
22 24 0.59
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (21 bp):
TTTTTTTATTTTTAATTAATT
Found at i:57174126 original size:13 final size:12
Alignment explanation
Indices: 57174092--57174134 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
57174082 GCCGAGGTAT
57174092 TTTTAATTTCTG
1 TTTTAATTTCTG
57174104 TTTTCCAATTTCTG
1 TTTT--AATTTCTG
*
57174118 CTTTTAATTTCTA
1 -TTTTAATTTCTG
57174131 TTTT
1 TTTT
57174135 TCAAAAATCA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
14 8 0.30
15 4 0.15
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.65
Consensus pattern (12 bp):
TTTTAATTTCTG
Found at i:57174196 original size:100 final size:101
Alignment explanation
Indices: 57174031--57174299 Score: 382
Period size: 100 Copynumber: 2.7 Consensus size: 101
57174021 TCAATTTTTG
* * *
57174031 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGGCACGCCGAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* * *
57174096 AATTTCTGTTTTCCAA-TTTCTGCTTTTAATTTCTA
66 AATTTCTGTTTTCCAATTTTCTCCTTATAAATTCTA
* * *
57174131 TTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCAGGGCACGCTAAGGTATTTTT
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
* * *
57174196 AATTTCTGTTTTTCAATTTTTTCCTTATAAATTCTG
66 AATTTCTGTTTTCCAATTTTCTCCTTATAAATTCTA
* * *
57174232 CTTTTC--AAATCAACTCATATTGCGAGAGGTGGGTTGAGCCTCAGGACACGCTGAGGTATTTTC
1 CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
57174295 AATTT
66 AATTT
57174300 TCATTTTTTT
Statistics
Matches: 150, Mismatches: 18, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
99 57 0.38
100 74 0.49
101 19 0.13
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (101 bp):
CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTT
AATTTCTGTTTTCCAATTTTCTCCTTATAAATTCTA
Found at i:57174501 original size:148 final size:148
Alignment explanation
Indices: 57174305--57175108 Score: 1127
Period size: 148 Copynumber: 5.4 Consensus size: 148
57174295 AATTTTCATT
* * * * *
57174305 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * *
57174369 CGCTGAAGTAATTTCAATTTTTGTTTGTCAAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
57174434 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
* *
57174452 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * * * *
57174517 CGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAG
66 CGCTGAGGTAATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
57174582 CCTCAGGACACGCTGAGGTA
129 CCTCAAGACACGTTGAGGTA
* * *
57174602 ATTTCAATTT-TGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGAC
1 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * * * *
57174664 ACGTTGAGGTATTTTCAATTTCTGTCTT-TAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
65 ACGCTGAGGTAATTTCAATTTTTGT-TTGT--CAAAAATCAACTCATATTGCGAGAGGTGAGTTG
*
57174728 AACCTCAAGACACGTTGAGGTA
127 AGCCTCAAGACACGTTGAGGTA
* * *
57174750 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
57174813 CGCAGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
57174878 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
* * *
57174896 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
57174961 CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
57175026 TCAAGACACGTTGAGGTA
131 TCAAGACACGTTGAGGTA
** * *
57175044 TTTTCAATTTCTGTCTTTAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGAC
1 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
57175109 GCTGAGATGT
Statistics
Matches: 584, Mismatches: 59, Indels: 26
0.87 0.09 0.04
Matches are distributed among these distances:
146 109 0.19
147 17 0.03
148 312 0.53
149 47 0.08
150 99 0.17
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (148 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCAAGACACGTTGAGGTA
Found at i:57174513 original size:75 final size:75
Alignment explanation
Indices: 57174305--57175138 Score: 1086
Period size: 75 Copynumber: 11.3 Consensus size: 75
57174295 AATTTTCATT
* * * * *
57174305 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* *
57174369 CGCTGAAGTA
66 CGTTGAGGTA
* * * * * *
57174379 ATTTCAATTTTTGTTTGTC--AAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
57174442 CGTTGAGGTA
66 CGTTGAGGTA
* *
57174452 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
57174517 CGTTGAGGTA
66 CGTTGAGGTA
* * *
57174527 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
57174592 CGCTGAGGTA
66 CGTTGAGGTA
* * *
57174602 ATTTCAATTT-TGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGAC
1 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
57174664 ACGTTGAGGTA
65 ACGTTGAGGTA
* * * *
57174675 TTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
57174740 CGTTGAGGTA
66 CGTTGAGGTA
* * *
57174750 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCAAG--A
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
**
57174813 CGCAGAGGTA
66 CGTTGAGGTA
* * * *
57174823 ATTTCAATTTTTGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
57174886 CGTTGAGGTA
66 CGTTGAGGTA
* * *
57174896 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
*
57174961 CGCTGAGGTA
66 CGTTGAGGTA
* *
57174971 ATTTCAATTT-TGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
57175033 ACGTTGAGGTA
65 ACGTTGAGGTA
** * *
57175044 TTTTCAATTTCTGTCTTTAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAG--
1 TTTTCAATTTCTGT-TTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
* * *
57175107 ACGCTGAGATG
65 ACGTTGAGGTA
* *
57175118 TTTTCCATTTCTGTTCTTCAA
1 TTTTCAATTTCTGTTTTTCAA
57175139 TTTCTGTGTT
Statistics
Matches: 666, Mismatches: 78, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
71 37 0.06
73 240 0.36
74 41 0.06
75 309 0.46
76 39 0.06
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGTTGAGGTA
Found at i:57174711 original size:223 final size:223
Alignment explanation
Indices: 57174305--57175138 Score: 1189
Period size: 223 Copynumber: 3.8 Consensus size: 223
57174295 AATTTTCATT
* * * *
57174305 TTTTTAATTTATGTTTCT-AAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* * * * * *
57174369 CGCTGAAGTAATTTCAATTTTTGTTTGTCAAAACTCAACTTATATTGCAAGAGGTGAGTTGAGCC
66 CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
57174434 TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGT
131 TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGT
57174499 GAGTTGAGCCTCAAGACACGTTGAGGTA
196 GAGTTGAGCCTCAAGACACGTTGAGGTA
* *
57174527 TTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGTGAGTTGAGCCTCAGGACA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
57174592 CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
66 CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
* * * * *
57174657 TCAAGACACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAATCAGCTCATATTGCGAGAGGT
131 TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGT
*
57174722 GAGTTGAACCTCAAGACACGTTGAGGTA
196 GAGTTGAGCCTCAAGACACGTTGAGGTA
* * * *
57174750 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCCATAGGTGAGTTGAACCTCA--AGA
1 TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
* *
57174813 CGCAGAGGTAATTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
66 CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
57174878 TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGT
131 TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGT
* *
57174943 GAGTTGAGCCTCAGGACACGCTGAGGTA
196 GAGTTGAGCCTCAAGACACGTTGAGGTA
* * *
57174971 ATTTCAATTT-TGGTTTGTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC
1 TTTTCAATTTCT-GTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
* * * *** * *
57175033 ACGTTGAGGTATTTTCAATTTCTGTCTTTAAAAAAAAATCAGCTCATATTGCGAGAGGTGAGTTG
65 ACGCTGAGGTAATTTCAATTT-TG-GTTT-GTCAAAAATCAACTCATATTGCGAGAGGTGAATTG
* * * * * *
57175098 AACCTCAAG--ACGCTGAGATGTTTTCCATTTCTGTTCTTCAA
127 AGCCTCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAA
57175139 TTTCTGTGTT
Statistics
Matches: 551, Mismatches: 54, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
219 36 0.07
220 1 0.00
221 184 0.33
222 43 0.08
223 249 0.45
224 38 0.07
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (223 bp):
TTTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGCTGAGGTAATTTCAATTTTGGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCC
TCAAGACACGTTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAATAAACTCATATTGCGATAGGT
GAGTTGAGCCTCAAGACACGTTGAGGTA
Found at i:57175245 original size:15 final size:14
Alignment explanation
Indices: 57175209--57175241 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
57175199 CGCTGAGGTA
*
57175209 TTTTCAAGTTTTGT
1 TTTTCAAATTTTGT
57175223 TTTTCAAATTTTGT
1 TTTTCAAATTTTGT
57175237 TTTTC
1 TTTTC
57175242 CAAAAAATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.09, T:0.67
Consensus pattern (14 bp):
TTTTCAAATTTTGT
Found at i:57175259 original size:91 final size:90
Alignment explanation
Indices: 57175107--57175587 Score: 311
Period size: 91 Copynumber: 5.2 Consensus size: 90
57175097 GAACCTCAAG
* * * * * * * * *
57175107 ACGCTGAGATGTTTTCCAT-TTCTGTTCTTCAATTTCTGTGTTTTAAAAAAATCAGCTCATATTG
1 ACGCTGAGGTATTTTCAATCTTTTGTTTTTCAATTTATGT-TTGTCAAAAAATCAACTCATATTG
*
57175171 CGAGTGGTGAGTTGAGCCTTGACTCAC
65 CGAGAGGTGAGTTGAGCCTTGA-TCAC
* *
57175198 ACGCTGAGGTATTTTCAA-GTTTTGTTTTTCAAATTT-TGTTTTTCCAAAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAATCTTTTGTTTTTC-AATTTATGTTTGT-CAAAAAATCAACTCATATT
* * **
57175261 GCGAGAGGTGAGTTCAGCC-TCAGGAC
64 GCGAGAGGTGAGTTGAGCCTTGATCAC
* *
57175287 ACGCTGAGATATTTTCAATTTCTTTTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATT
1 ACGCTGAGGTATTTTCAA--TCTTTTGTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATT
* *
57175352 GCAAGAGGTGAGTTGAGCCTCAGATCAC
64 GCGAGAGGTGAGTTGAGCCT-TGATCAC
* * * * *
57175380 ATGCCGAGGTATTTTCAATTGATTTTTATTTTTATTTTTTTTCAATTTATGCTT-TGC-AAAAAT
1 ACGCTGAGGTATTTTC-----A-----A-TCTT-TTGTTTTTCAATTTATGTTTGT-CAAAAAAT
* *
57175443 CAACTCATATTACGAGAGGTGAGTTGAG-CTTCGGGTCAC
53 CAACTCATATTGCGAGAGGTGAGTTGAGCCTT--GATCAC
** * ** * *
57175482 ATACCGAGGTATTTTCAA-AATCTGTTTTACAAATTT-TGTTT-T--AAAAATCAACTCATATTG
1 ACGCTGAGGTATTTTCAATCTTTTGTTTTTC-AATTTATGTTTGTCAAAAAATCAACTCATATTG
* *
57175542 CGAGAAGTGAGTTGAGCCTTGGCTCAC
65 CGAGAGGTGAGTTGAGCCTT-GATCAC
** *
57175569 GTGCTGAGCTATTTTCAAT
1 ACGCTGAGGTATTTTCAAT
57175588 TTCTATTTTT
Statistics
Matches: 319, Mismatches: 45, Indels: 55
0.76 0.11 0.13
Matches are distributed among these distances:
87 52 0.16
88 3 0.01
89 30 0.09
90 12 0.04
91 102 0.32
92 22 0.07
93 16 0.05
97 1 0.00
98 1 0.00
101 2 0.01
102 57 0.18
103 21 0.07
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (90 bp):
ACGCTGAGGTATTTTCAATCTTTTGTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGC
GAGAGGTGAGTTGAGCCTTGATCAC
Found at i:57175369 original size:182 final size:178
Alignment explanation
Indices: 57175065--57175397 Score: 445
Period size: 182 Copynumber: 1.8 Consensus size: 178
57175055 TGTCTTTAAA
* * * * *
57175065 AAAAAATCAGCTCATATTGCGAGAGGTGAGTTGAACCTCAAGACGCTGAGATGTTTTCCATTTCT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAATTTCT
* * * * * *
57175130 GTTCTTCAATTTCTGTGTTTTAAAAAAATCAGCTCATATTGCGAGTGGTGAGTTGAGCCT-TGAC
66 GTTCTTCAATTTATGTGTTGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGA-
*
57175194 TCACACGCTGAGGTATTTTCAAGTTTTGTTTTTCAAATTTTGTTTTTCC
130 TCACACGCCGAGGTATTTTCAAGTTTTGTTTTTCAAATTTTGTTTTTCC
*
57175243 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAGCCTCAGGACACGCTGAGATATTTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCA--ACACGCTGAGATATTTTCAATTT
* * *
57175308 CTTTTTTTTTTCAATTTATGT-TTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
64 C---TGTTCTTCAATTTATGTGTTGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCT
*
57175372 CAGATCACATGCCGAGGTATTTTCAA
126 CAGATCACACGCCGAGGTATTTTCAA
57175398 TTGATTTTTA
Statistics
Matches: 132, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
178 37 0.28
180 21 0.16
182 58 0.44
183 16 0.12
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (178 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTCAACCTCAACACGCTGAGATATTTTCAATTTCT
GTTCTTCAATTTATGTGTTGTAAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGAT
CACACGCCGAGGTATTTTCAAGTTTTGTTTTTCAAATTTTGTTTTTCC
Found at i:57175489 original size:102 final size:103
Alignment explanation
Indices: 57175311--57175499 Score: 301
Period size: 102 Copynumber: 1.8 Consensus size: 103
57175301 TCAATTTCTT
*
57175311 TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGA
1 TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGA
*
57175376 TCACATGCCGAGGTATTTTCAATTGATTTTTATTTTTA
66 TCACATACCGAGGTATTTTCAATTGATTTTTATTTTTA
* * *
57175414 TTTTTTTTCAATTTATGCTTTG-C-AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGG
1 TTTTTTTTCAATTTATG-TTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAG
*
57175477 GTCACATACCGAGGTATTTTCAA
65 ATCACATACCGAGGTATTTTCAA
57175500 AATCTGTTTT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
102 57 0.72
103 18 0.23
104 4 0.05
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (103 bp):
TTTTTTTTCAATTTATGTTTGTCAAAAAATCAACTCATATTACAAGAGGTGAGTTGAGCCTCAGA
TCACATACCGAGGTATTTTCAATTGATTTTTATTTTTA
Found at i:57175583 original size:87 final size:87
Alignment explanation
Indices: 57175437--57175664 Score: 230
Period size: 87 Copynumber: 2.6 Consensus size: 87
57175427 TATGCTTTGC
* * * *
57175437 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCTTCGGGTCACATACCGAGGTATTTTCAAAA
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGCTCACATACCGAGCTATTTTCAAAA
*
57175502 TCTGTTTTACAAAT-TTT-GTTTT
66 TCTATTTT--AAATGTTTAGTTTT
* * * *
57175524 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTT-GGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTCGGCTCACATACCGAGCTATTTTCAAA
* *
57175588 TTCTATTTTTAATGTTTAGTTTT
65 ATCTATTTTAAATGTTTAGTTTT
* * * * * *
57175611 AAAGAGTCAATTCATATTGCGAGAAATGAGTTAAGC-TCAGGATCACATGCCGAG
1 AAA-AATCAACTCATATTGCGAGAAGTGAGTTGAGCTTC-GGCTCACATACCGAG
57175665 TAAAGAATAA
Statistics
Matches: 117, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
85 3 0.03
86 4 0.03
87 68 0.58
88 42 0.36
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.34
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCTTCGGCTCACATACCGAGCTATTTTCAAAA
TCTATTTTAAATGTTTAGTTTT
Found at i:57179760 original size:16 final size:17
Alignment explanation
Indices: 57179732--57179770 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
57179722 AGGAGAAAAG
* *
57179732 AAAGAAAATGAAGGAGA
1 AAAGAAAATGAAGAACA
57179749 AAAGAAAA-GAAGAACA
1 AAAGAAAATGAAGAACA
57179765 AAAGAA
1 AAAGAA
57179771 GAAAAATGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (17 bp):
AAAGAAAATGAAGAACA
Found at i:57184465 original size:30 final size:30
Alignment explanation
Indices: 57184431--57184491 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
57184421 CCTTAACTCA
57184431 AAACTTTTGCAAAATTACAATTTTACCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
* * * *
57184461 AAACTTTTGCATATTTACAGTTTTTCCCCT
1 AAACTTTTGCAAAATTACAATTTTACCCCT
57184491 A
1 A
57184492 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACAATTTTACCCCT
Found at i:57189066 original size:29 final size:29
Alignment explanation
Indices: 57189023--57189095 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
57189013 GTATTTTAAG
* **
57189023 AAAATGATAAATAAAGACAAAAAGAAATGC
1 AAAATGAAAAATAAA-ACAAAAAGAAAAAC
*
57189053 AAAAT-AAAAATAAAATAAAAAGAAAAAC
1 AAAATGAAAAATAAAACAAAAAGAAAAAC
*
57189081 AAATTGAAAAATAAA
1 AAAATGAAAAATAAA
57189096 TGAACTTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 15 0.41
29 17 0.46
30 5 0.14
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (29 bp):
AAAATGAAAAATAAAACAAAAAGAAAAAC
Found at i:57198329 original size:40 final size:40
Alignment explanation
Indices: 57198275--57198392 Score: 209
Period size: 40 Copynumber: 3.0 Consensus size: 40
57198265 CGGATGTAAC
* *
57198275 AACCAGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
57198315 AACCCGCATGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
57198355 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATA
57198393 TTTTTTTTTC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.23
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:57199101 original size:18 final size:18
Alignment explanation
Indices: 57199078--57199113 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
57199068 ACCAAATAGA
57199078 TCATATGTGTATAACACT
1 TCATATGTGTATAACACT
57199096 TCATATGTGTATAACACT
1 TCATATGTGTATAACACT
57199114 ACTCATTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
TCATATGTGTATAACACT
Found at i:57203363 original size:63 final size:63
Alignment explanation
Indices: 57203276--57203398 Score: 167
Period size: 63 Copynumber: 2.0 Consensus size: 63
57203266 CACTTACCCG
* *
57203276 TGTGGTCCTAATGTACAAAAAGTGTGTTACATGGCCTAGACACAGGCCCGTGTCATTGGCCTA
1 TGTGGTCCTAATGTACAAAAAGTGTGTTACACGGCCTAGACACACGCCCGTGTCATTGGCCTA
** * * *
57203339 TGTGGTTCC-AATGTACAAGCAGTGTGTTACACGGCCTGGACACACGTCCGTGTCCTTGGC
1 TGTGG-TCCTAATGTACAAAAAGTGTGTTACACGGCCTAGACACACGCCCGTGTCATTGGC
57203399 TGGTGTGAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
63 49 0.94
64 3 0.06
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (63 bp):
TGTGGTCCTAATGTACAAAAAGTGTGTTACACGGCCTAGACACACGCCCGTGTCATTGGCCTA
Found at i:57203999 original size:17 final size:16
Alignment explanation
Indices: 57203973--57204052 Score: 74
Period size: 17 Copynumber: 4.9 Consensus size: 16
57203963 CAGAAGTAAG
57203973 AAAAAGGAAAGAAAAT
1 AAAAAGGAAAGAAAAT
57203989 AAAAGAGGAAAGAAAAT
1 AAAA-AGGAAAGAAAAT
* * *
57204006 AAGAA-CAAA-AGAAT
1 AAAAAGGAAAGAAAAT
* *
57204020 AAAAAGGAAGGAAAAA
1 AAAAAGGAAAGAAAAT
57204036 AAAAAGAGAAAAGAAAA
1 AAAAAG-G-AAAGAAAA
57204053 ACGGTTAAGA
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
14 8 0.16
15 5 0.10
16 14 0.28
17 16 0.32
18 7 0.14
ACGTcount: A:0.75, C:0.01, G:0.20, T:0.04
Consensus pattern (16 bp):
AAAAAGGAAAGAAAAT
Found at i:57204018 original size:33 final size:31
Alignment explanation
Indices: 57203980--57204053 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
57203970 AAGAAAAAGG
*
57203980 AAAGAAAATAAAAG-AGGAAAGAAAATAAGAACA
1 AAAGAAAA-AAAAGAAGGAAA-AAAAAAAG-ACA
* *
57204013 AAAGAATAAAAAGGAAGGAAAAAAAAAAGAGA
1 AAAGAA-AAAAAAGAAGGAAAAAAAAAAGACA
57204045 AAAGAAAAA
1 AAAGAAAAA
57204054 CGGTTAAGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 3 0.08
32 8 0.22
33 17 0.47
34 8 0.22
ACGTcount: A:0.76, C:0.01, G:0.19, T:0.04
Consensus pattern (31 bp):
AAAGAAAAAAAAGAAGGAAAAAAAAAAGACA
Found at i:57207804 original size:24 final size:24
Alignment explanation
Indices: 57207751--57207835 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 24
57207741 TGTAACTAAA
*
57207751 TATCAGGCTTTGTGTCAATGTTTATC
1 TATCAGGC-TTGTGCCAATG-TTATC
*
57207777 TATCAGGCTTGTGCCGATGTTATC
1 TATCAGGCTTGTGCCAATGTTATC
* * **
57207801 TATCAAGCCTTGTGCCAATATCGTC
1 TATC-AGGCTTGTGCCAATGTTATC
57207826 TATCAGGCTT
1 TATCAGGCTT
57207836 TGAGCCGGTG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
24 14 0.28
25 28 0.56
26 8 0.16
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (24 bp):
TATCAGGCTTGTGCCAATGTTATC
Found at i:57208046 original size:111 final size:111
Alignment explanation
Indices: 57207840--57208046 Score: 238
Period size: 111 Copynumber: 1.9 Consensus size: 111
57207830 AGGCTTTGAG
* ** * *
57207840 CCGGTGATACAAACTGTAGTGATGGCTTGACATCCTGCATGTGTTGCGGATTCTCTACAACTTGT
1 CCGGTGATACAAACCGTAGCAATAGCTTGACATCCTACATGTGTTGCGGATTCTCTACAACTTGT
** * **
57207905 GTGAGCAGCACTGGGAGTCGGTGATTATTTTACTAGGTATTATGTA
66 GTGAGCAGCACTGGGAGTCAATAAAAATTTTACTAGGTATTATGTA
* * * *
57207951 CCGGTGATACAGACCGTAGCAATAGCTTGAGATCCTACATGTGTTGCGGATTCTCTATAGCTTGT
1 CCGGTGATACAAACCGTAGCAATAGCTTGACATCCTACATGTGTTGCGGATTCTCTACAACTTGT
* *
57208016 GTGAGTAGTA-TCGTGG-GTCAATAAAAATTTT
66 GTGAGCAGCACT-G-GGAGTCAATAAAAATTTT
57208047 GAAGTTAACT
Statistics
Matches: 78, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
110 1 0.01
111 75 0.96
112 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.33
Consensus pattern (111 bp):
CCGGTGATACAAACCGTAGCAATAGCTTGACATCCTACATGTGTTGCGGATTCTCTACAACTTGT
GTGAGCAGCACTGGGAGTCAATAAAAATTTTACTAGGTATTATGTA
Found at i:57211724 original size:68 final size:64
Alignment explanation
Indices: 57211638--57211859 Score: 198
Period size: 67 Copynumber: 3.4 Consensus size: 64
57211628 TAATACGGGA
* * *
57211638 TGTATACCATGTGTACAAGAGAGCTTCGAGACATTATGAGGTAGCTAGGTCTCATGGGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCTCATGGGTGATACT
57211703 ATG
62 ATG
* * * * * *
57211706 TGTACACCATGTAG-ACAAGAAAGCTACGAGATAGATGTAGCTAGGT-TGCATGTGTGGTTCCAG
1 TGTACACCATGT-GTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCT-CATGGGTGATACTA-
57211769 GTG
63 -TG
* * ** * *
57211772 AAGGACACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCTCATGGGTGATACTATG
*
57211836 TGTACACCATCTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
57211860 CAAAATTATG
Statistics
Matches: 123, Mismatches: 24, Indels: 19
0.74 0.14 0.11
Matches are distributed among these distances:
63 20 0.16
64 24 0.20
65 2 0.02
66 23 0.19
67 28 0.23
68 25 0.20
69 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCTCATGGGTGATACTATG
Found at i:57211859 original size:63 final size:63
Alignment explanation
Indices: 57211610--57211859 Score: 189
Period size: 68 Copynumber: 3.8 Consensus size: 63
57211600 CAGATGGTAT
* * ** * *
57211610 GTAGCTAGGTCACATGTGTAATAC-GGGATGTATACCATGTGTACAAGAGAGCTTCGAGACATTA
1 GTAGCTAGGTCACATGGGTGATACTATG-TGTACACCATGTG-ACAAGAGAGCTACGAG--A-TA
*
57211674 TGAG
61 -GAA
* * *
57211678 GTAGCTAGGTCTCATGGGTGATACTATGTGTACACCATGTAGACAAGAAAGCTACGAGATAGAT
1 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGT-GACAAGAGAGCTACGAGATAGAA
** * * * * * * *
57211742 GTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAACAAGAGAGCTACGAGATA-
1 GTAGCTAGGTCACATGGGTGATACTA--TG-TGTACACCATGT-GACAAGAGAGCTACGAGATAG
57211806 AA
62 AA
* *
57211808 GTGGCTAGGTCACATGGGTGATACTATGTGTACACCATCTGTACAAGAGAGC
1 GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTG-ACAAGAGAGC
57211860 CAAAATTATG
Statistics
Matches: 145, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
63 19 0.13
64 24 0.17
65 2 0.01
66 23 0.16
67 29 0.20
68 46 0.32
69 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.24
Consensus pattern (63 bp):
GTAGCTAGGTCACATGGGTGATACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAGAA
Found at i:57214732 original size:46 final size:46
Alignment explanation
Indices: 57214676--57214825 Score: 130
Period size: 46 Copynumber: 3.2 Consensus size: 46
57214666 CCCAGACACG
*
57214676 GTCTTACACTGGCTTATATC-TCAAGTCGAAGCCATGTC-CAAGACAT
1 GTCTTACACTGGCTTACATCTTCAAGTCGAAG-CATGTCTC-AGACAT
* * * *
57214722 GTCTTACACTGGCTTACGTCTTGAGGTCGATGCATGTCTCAGACAT
1 GTCTTACACTGGCTTACATCTTCAAGTCGAAGCATGTCTCAGACAT
* * *
57214768 GTCTTACACTAGC--AC-TCGTCTCAATGCCGATGCCATGTCTCAGACAT
1 GTCTTACACTGGCTTACATC-T-TCAA-GTCGAAG-CATGTCTCAGACAT
57214815 GGTCTTACACT
1 -GTCTTACACT
57214826 AGCTCTCACA
Statistics
Matches: 88, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 2 0.02
46 48 0.55
47 23 0.26
48 10 0.11
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.30
Consensus pattern (46 bp):
GTCTTACACTGGCTTACATCTTCAAGTCGAAGCATGTCTCAGACAT
Found at i:57219627 original size:40 final size:40
Alignment explanation
Indices: 57219533--57219677 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
57219523 TACTCGAACG
*
57219533 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
57219574 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
57219614 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
57219654 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
57219678 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:57225350 original size:25 final size:25
Alignment explanation
Indices: 57225322--57225399 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
57225312 CTTCTCGATT
* *
57225322 ATGGCTCGGATGAGCTTCCCGTTAC
1 ATGGCTCGAATGAGCTTCCCATTAC
* *
57225347 ATGGCTC-ACATGAGCTTCCAATTAT
1 ATGGCTCGA-ATGAGCTTCCCATTAC
*
57225372 ATGGCTCGAAAGAGCTTCCCATTTAC
1 ATGGCTCGAATGAGCTTCCCA-TTAC
57225398 AT
1 AT
57225400 ATTTGCATGA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
25 37 0.86
26 6 0.14
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (25 bp):
ATGGCTCGAATGAGCTTCCCATTAC
Found at i:57226660 original size:22 final size:20
Alignment explanation
Indices: 57226609--57226660 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 20
57226599 GGTTGATCTT
**
57226609 AATTTTAAAAAATTTAAAGA
1 AATTTTAAAAAACATAAAGA
*
57226629 AATATATAAAAATACATAAAGAA
1 AAT-TTTAAAAA-ACATAAAG-A
57226652 AATTTTAAA
1 AATTTTAAA
57226661 TTTTAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 3 0.12
21 7 0.28
22 11 0.44
23 4 0.16
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (20 bp):
AATTTTAAAAAACATAAAGA
Found at i:57226678 original size:19 final size:19
Alignment explanation
Indices: 57226656--57226699 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
57226646 AAAGAAAATT
*
57226656 TTAAAT-TTTAAATTTTATA
1 TTAAATATTTAAA-TTCATA
57226675 TT-AATATTTAAATTCATA
1 TTAAATATTTAAATTCATA
57226693 TTAAATA
1 TTAAATA
57226700 AATATAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAATATTTAAATTCATA
Found at i:57234873 original size:20 final size:21
Alignment explanation
Indices: 57234845--57234892 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
57234835 AAAGATTAAT
* *
57234845 AAATAAATTTAACTTAAAATA
1 AAATAAATTCAAATTAAAATA
57234866 AAAT-AATTCAAATTAAAA-A
1 AAATAAATTCAAATTAAAATA
*
57234885 AATTAAAT
1 AAATAAAT
57234893 ATTGAGTCCT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 4 0.17
20 15 0.65
21 4 0.17
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATAAATTCAAATTAAAATA
Found at i:57239929 original size:12 final size:12
Alignment explanation
Indices: 57239912--57239936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
57239902 TAATTAGAAT
57239912 CCTTAAACTATC
1 CCTTAAACTATC
57239924 CCTTAAACTATC
1 CCTTAAACTATC
57239936 C
1 C
57239937 TAAAAAAGGA
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:0.36, G:0.00, T:0.32
Consensus pattern (12 bp):
CCTTAAACTATC
Found at i:57244550 original size:21 final size:21
Alignment explanation
Indices: 57244524--57244567 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
57244514 ATATATAAAT
57244524 TATATTTTAAATATTAAAAAA
1 TATATTTTAAATATTAAAAAA
57244545 TATATTTTAAATATTAAAAAA
1 TATATTTTAAATATTAAAAAA
57244566 TA
1 TA
57244568 ATCATTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATTTTAAATATTAAAAAA
Found at i:57244563 original size:19 final size:19
Alignment explanation
Indices: 57244499--57244563 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 19
57244489 TAATTATTTG
* * *
57244499 TAAAATTTAATTTGAATAT
1 TAAAATATATTTTAAATAT
*
57244518 ATAAATTATATTTTAAATAT
1 -TAAAATATATTTTAAATAT
57244538 TAAAAAATATATTTTAAATAT
1 T--AAAATATATTTTAAATAT
57244559 TAAAA
1 TAAAA
57244564 AATAATCATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
19 5 0.13
20 15 0.39
21 18 0.47
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.45
Consensus pattern (19 bp):
TAAAATATATTTTAAATAT
Found at i:57244575 original size:21 final size:21
Alignment explanation
Indices: 57244524--57244576 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
57244514 ATATATAAAT
*
57244524 TATATTTTAAATATTAAAAAA
1 TATATATTAAATATTAAAAAA
*
57244545 TATATTTTAAATATTAAAAAA
1 TATATATTAAATATTAAAAAA
57244566 TA-ATCATTAAA
1 TATAT-ATTAAA
57244577 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 2 0.07
21 28 0.93
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TATATATTAAATATTAAAAAA
Found at i:57244578 original size:22 final size:21
Alignment explanation
Indices: 57244524--57244584 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
57244514 ATATATAAAT
*
57244524 TATATTTTAAATATTAAAAAA
1 TATATTTAAAATATTAAAAAA
*
57244545 TATATTTTAAATATTAAAAAA
1 TATATTTAAAATATTAAAAAA
*
57244566 TA-ATCATTAAAATTTTAAA
1 TATAT--TTAAAATATTAAA
57244585 TATAAAATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 2 0.06
21 23 0.64
22 11 0.31
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
TATATTTAAAATATTAAAAAA
Found at i:57251686 original size:18 final size:17
Alignment explanation
Indices: 57251648--57251686 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
57251638 GGTTTAAAAA
57251648 TTTTAATTAATTAAATTT
1 TTTTAATTAA-TAAATTT
57251666 TTTTAATTAA-AAATTT
1 TTTTAATTAATAAATTT
57251682 ATTTT
1 -TTTT
57251687 CATCCCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 6 0.30
17 4 0.20
18 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAAATTT
Found at i:57260452 original size:21 final size:20
Alignment explanation
Indices: 57260426--57260476 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
57260416 TTTATTTTTA
57260426 TTAATTTAACCATTTTTAATT
1 TTAATTTAA-CATTTTTAATT
* **
57260447 TTAATTTTAATATTTTTGTTT
1 TTAA-TTTAACATTTTTAATT
57260468 TTAATTTAA
1 TTAATTTAA
57260477 TTGTTACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 5 0.19
21 16 0.62
22 5 0.19
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATTTAACATTTTTAATT
Found at i:57267106 original size:26 final size:26
Alignment explanation
Indices: 57267077--57267183 Score: 169
Period size: 26 Copynumber: 4.1 Consensus size: 26
57267067 TGGTACAAAT
**
57267077 TGATAATGGGTTAGAAAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
57267103 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57267129 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
57267155 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
57267181 TGA
1 TGA
57267184 CGGGCATTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:57268834 original size:27 final size:26
Alignment explanation
Indices: 57268804--57269052 Score: 291
Period size: 27 Copynumber: 9.2 Consensus size: 26
57268794 AGGAAGCGTC
*
57268804 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
* *
57268831 CTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* * *
57268858 CTAGTGGCTATGCCATGATTATCTGAT
1 CTGGTGGCTCTGCCA-CATTATCTGAT
*
57268885 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
57268912 CTGGTGGTTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
57268939 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
* *
57268966 CTGGTGGTTATGCCACGATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
57268993 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
*
57269020 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTG-AT
57269047 CTGGTG
1 CTGGTG
57269053 ACTTCGTCAC
Statistics
Matches: 188, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
26 14 0.07
27 168 0.89
28 6 0.03
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:57268889 original size:54 final size:54
Alignment explanation
Indices: 57268804--57269052 Score: 410
Period size: 54 Copynumber: 4.6 Consensus size: 54
57268794 AGGAAGCGTC
* *
57268804 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATTTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
57268858 CTAGTGGCTATGCCATGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
57268912 CTGGTGGTTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
*
57268966 CTGGTGGTTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
* *
57269020 CTGGTGGCTCTGCCAC-AATATCTGTATCTGGTG
1 CTGGTGGCTATGCCACGATTATCTG-ATCTGGTG
57269053 ACTTCGTCAC
Statistics
Matches: 184, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
53 7 0.04
54 177 0.96
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
Done.