Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 192 of 292
Found at i:57325617 original size:16 final size:16
Alignment explanation
Indices: 57325596--57325626 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57325586 AACCCAACCC
*
57325596 ATGCAACATGTCATGT
1 ATGCAAAATGTCATGT
57325612 ATGCAAAATGTCATG
1 ATGCAAAATGTCATG
57325627 CCCATAATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.29
Consensus pattern (16 bp):
ATGCAAAATGTCATGT
Found at i:57326443 original size:27 final size:27
Alignment explanation
Indices: 57326384--57326458 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
57326374 CATATTCGTC
57326384 ATTTTACCATACAGGGGTATTACGGTT
1 ATTTTACCATACAGGGGTATTACGGTT
* *
57326411 ACTTTACCCTACAGGGGCT-TTACGGTCT
1 ATTTTACCATACAGGGG-TATTACGGT-T
*
57326439 -TTTTACC-TATTAGGGGTATT
1 ATTTTACCATA-CAGGGGTATT
57326459 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
26 3 0.08
27 35 0.88
28 2 0.05
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.39
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTT
Found at i:57326529 original size:27 final size:27
Alignment explanation
Indices: 57326499--57326633 Score: 96
Period size: 27 Copynumber: 4.9 Consensus size: 27
57326489 GTAAATCTAC
57326499 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
* *
57326526 AAACCAATGGTATTTTTA-TAATTTT-T
1 AAACCAAGGGTA-TTTCAGTAATTTTGT
* *
57326552 AAAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* ** **
57326582 AAATC-AGAGGTATTTTGGTAATTTTAC
1 AAACCAAG-GGTATTTCAGTAATTTTGT
** *
57326609 AAACTGAGGGTATTTCGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
57326634 ACAAACTAGT
Statistics
Matches: 87, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
26 3 0.03
27 54 0.62
28 15 0.17
29 14 0.16
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:57326634 original size:27 final size:26
Alignment explanation
Indices: 57326590--57326685 Score: 147
Period size: 27 Copynumber: 3.6 Consensus size: 26
57326580 GTAAATCAGA
57326590 GGTATTTTGGTAATTTTACAAACTGAG
1 GGTATTTTGGTAATTTTACAAACT-AG
*
57326617 GGTATTTCGGTAATTTTACAAACTAG
1 GGTATTTTGGTAATTTTACAAACTAG
*
57326643 TGGAATTTTGGTAATTTTACAAACTAGG
1 -GGTATTTTGGTAATTTTACAAACTA-G
57326671 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
57326686 CAACCCTATA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
26 2 0.03
27 60 0.95
28 1 0.02
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (26 bp):
GGTATTTTGGTAATTTTACAAACTAG
Found at i:57326651 original size:54 final size:54
Alignment explanation
Indices: 57326484--57326685 Score: 208
Period size: 54 Copynumber: 3.7 Consensus size: 54
57326474 TATAAGGGTG
* * * * * *
57326484 TTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACTAGTGGTA
** * * * *
57326538 TTTTTATAATTTTTAAAAAGTCAAGGGTATTTCTGTAATTTTGTAAA-TCAGAGGTA
1 TTTTGGTAA-TTTTACAAACT-AAGGGTATTTCGGTAATTTTGTAAACT-AGTGGTA
* ** *
57326594 TTTTGGTAATTTTACAAACTGAGGGTATTTCGGTAATTTTACAAACTAGTGGAA
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACTAGTGGTA
* *
57326648 TTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATT
1 TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATT
57326686 CAACCCTATA
Statistics
Matches: 120, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
54 68 0.57
55 16 0.13
56 36 0.30
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAACTAAGGGTATTTCGGTAATTTTGTAAACTAGTGGTA
Found at i:57326753 original size:27 final size:27
Alignment explanation
Indices: 57326716--57326780 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
57326706 GTAATTTCAC
* * *
57326716 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTCTATA
* *
57326743 AATCGATGGTAAAATAGTGATTCTATA
1 AATCGAGGGTAAAATAGTAATTCTATA
57326770 AATCGAGGGTA
1 AATCGAGGGTA
57326781 CTTTGGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTCTATA
Found at i:57327860 original size:55 final size:57
Alignment explanation
Indices: 57327744--57327893 Score: 232
Period size: 55 Copynumber: 2.6 Consensus size: 57
57327734 CTCATACAGA
* *
57327744 GTCTTACTCGTACACATATATCGGAATCACATATCGATGATGCCAACGTATTAAATGTG
1 GTCTTACTCGCACACATATATCGGAATCACATATC-A-GATGCCAACGTATTAAACGTG
*
57327803 GTCTTACTCGCACACATATATC-GAATCACATATC-GATGCCAACGTTTTAAACGTG
1 GTCTTACTCGCACACATATATCGGAATCACATATCAGATGCCAACGTATTAAACGTG
*
57327858 GTCTTACTTGCACACATATATCGGAATCACATATCA
1 GTCTTACTCGCACACATATATCGGAATCACATATCA
57327894 CAAGTCGAAG
Statistics
Matches: 85, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
55 40 0.47
56 12 0.14
58 12 0.14
59 21 0.25
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (57 bp):
GTCTTACTCGCACACATATATCGGAATCACATATCAGATGCCAACGTATTAAACGTG
Found at i:57345796 original size:53 final size:54
Alignment explanation
Indices: 57345716--57345817 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 54
57345706 TTTATAATGT
57345716 TAGGGTTGGCCATAGTCCTTATCCCTAGTTTGGCTGAC-GTTTTACATTAAAAA
1 TAGGGTTGGCCATAGTCCTTATCCCTAGTTTGGCTGACAGTTTTACATTAAAAA
* *
57345769 TAGGGTTGGTCATAGTCCTTATCCCTAGTTTGGCTGACATTTTTACATT
1 TAGGGTTGGCCATAGTCCTTATCCCTAGTTTGGCTGACAGTTTTACATT
57345818 GAAATACATT
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 37 0.80
54 9 0.20
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.39
Consensus pattern (54 bp):
TAGGGTTGGCCATAGTCCTTATCCCTAGTTTGGCTGACAGTTTTACATTAAAAA
Found at i:57350220 original size:46 final size:45
Alignment explanation
Indices: 57350145--57350273 Score: 170
Period size: 46 Copynumber: 2.8 Consensus size: 45
57350135 CATTAGGTGG
* *
57350145 TATGTGAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCACTT-
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CA-TTA
57350191 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGA
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATT-A
* * * *
57350237 GACGAGAGCTAGTGTAAGACATGTCTTGGACATGCAT
1 TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCAT
57350274 TAGCCTCGGG
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
44 2 0.03
45 2 0.03
46 71 0.95
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (45 bp):
TATGAGAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTA
Found at i:57350414 original size:49 final size:49
Alignment explanation
Indices: 57350342--57350468 Score: 130
Period size: 49 Copynumber: 2.6 Consensus size: 49
57350332 GTTTGTCAGC
* * *
57350342 GTAAGACCTGTCTAGGACATGGCATCGACAC-CGATAGATGAGAGCTAGT
1 GTAAGACCTATCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCTAGT
* * * * *
57350391 GTAAGACCTATCTGGGACGTGGCATTGGCCTCGATATATGAAAGTTAGT
1 GTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCTAGT
* * * *
57350440 GTAACACCTATATGGGACACGACATCGAC
1 GTAAGACCTATCTGGGACATGGCATCGAC
57350469 TTTAATGTCT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (49 bp):
GTAAGACCTATCTGGGACATGGCATCGACCTCGATAGATGAAAGCTAGT
Found at i:57350458 original size:142 final size:145
Alignment explanation
Indices: 57350197--57350509 Score: 320
Period size: 142 Copynumber: 2.2 Consensus size: 145
57350187 ACTTTATGAG
* * * ** *
57350197 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATTG--AGACGAGAGCTAGTGTAAGACA
1 AGCCAGCGTAAGACCATGTCTAGGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACA
* * * ** * * * *
57350258 TGTCTTGGACATGCATTAGCCTCGGGATATACAAGCTAGTGTAAGTCCTGTCTAGGACATGGCAT
66 TATCTGGGACATGCATTAGCCTCGAGATATACAAGCTAGTGTAACACCTATATAGGACACGACAT
*
57350323 CAAC-TTATTGT-TT
131 CAACTTTAATGTCTT
* *
57350336 -GTCAGCGTAAGACC-TGTCTAGGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACC
1 AGCCAGCGTAAGACCATGTCTAGGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACA
* * * * *
57350399 TATCTGGGACGTGGCATTGGCCTCGATATATGA-AAGTTAGTGTAACACCTATATGGGACACGAC
66 TATCTGGGACAT-GCATTAGCCTCGAGATAT-ACAAGCTAGTGTAACACCTATATAGGACACGAC
*
57350463 ATCGACTTTAATGTCTT
129 ATCAACTTTAATGTCTT
*
57350480 AGCCAGTGTAAGACCATGTCTAGGACATGG
1 AGCCAGCGTAAGACCATGTCTAGGACATGG
57350510 TGTCGGCATC
Statistics
Matches: 138, Mismatches: 26, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
138 21 0.15
139 10 0.07
141 29 0.21
142 43 0.31
143 7 0.05
144 2 0.01
145 12 0.09
146 14 0.10
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (145 bp):
AGCCAGCGTAAGACCATGTCTAGGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACA
TATCTGGGACATGCATTAGCCTCGAGATATACAAGCTAGTGTAACACCTATATAGGACACGACAT
CAACTTTAATGTCTT
Found at i:57352700 original size:15 final size:16
Alignment explanation
Indices: 57352665--57352708 Score: 63
Period size: 15 Copynumber: 2.7 Consensus size: 16
57352655 ATCTTCGTTG
57352665 AATCCCTAACAATCTTTA
1 AATCCCT-A-AATCTTTA
57352683 AATCCCTAAATC-TTA
1 AATCCCTAAATCTTTA
57352698 AATCCCTAAAT
1 AATCCCTAAAT
57352709 AGTTAGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 14 0.54
16 4 0.15
17 1 0.04
18 7 0.27
ACGTcount: A:0.41, C:0.27, G:0.00, T:0.32
Consensus pattern (16 bp):
AATCCCTAAATCTTTA
Found at i:57352825 original size:23 final size:24
Alignment explanation
Indices: 57352780--57352825 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
57352770 CCTATAAAAA
*
57352780 TTAGAAACAAAATCGTGAAATCCC
1 TTAGAAACAAAATCATGAAATCCC
* *
57352804 TTAG-AACCAAATCATGACATCC
1 TTAGAAACAAAATCATGAAATCC
57352826 TTATTCTTTC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.43, C:0.24, G:0.11, T:0.22
Consensus pattern (24 bp):
TTAGAAACAAAATCATGAAATCCC
Found at i:57353817 original size:22 final size:22
Alignment explanation
Indices: 57353787--57353828 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
57353777 TAAGCATATG
*
57353787 ATTTGGATAAATGTAATTTAAA
1 ATTTCGATAAATGTAATTTAAA
*
57353809 ATTTCGATAAATGTACTTTA
1 ATTTCGATAAATGTAATTTA
57353829 CAAAAGCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.43
Consensus pattern (22 bp):
ATTTCGATAAATGTAATTTAAA
Found at i:57356473 original size:27 final size:27
Alignment explanation
Indices: 57356346--57356497 Score: 182
Period size: 27 Copynumber: 5.7 Consensus size: 27
57356336 TTTGGTTTAC
*
57356346 AAAATTATCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
57356372 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
57356399 AAAATTACCAAAATACCCCTAGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
57356426 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
57356453 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* **
57356480 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
57356498 TCGACCTGTA
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
26 13 0.12
27 96 0.87
28 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:57356485 original size:81 final size:80
Alignment explanation
Indices: 57356340--57356497 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 80
57356330 AAATACTTTG
* * **
57356340 GTTTACAAAATTATCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATT
1 GTTTACAAAATTATCAAAATACCCTGCTTTGTAAAATTACCAAAATACCCCTAATTTATAAAATT
57356405 ACCAAAATACCCCTA
66 ACCAAAATACCCCTA
* * *
57356420 GTTTATAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCCCTAATTTGTGAAA
1 GTTTACAAAATTATCAAAATA-CCCT-GCTTTGTAAAATTACCAAAATACCCCTAATTTATAAAA
**
57356484 TTACTGAAATACCC
64 TTACCAAAATACCC
57356498 TCGACCTGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
80 20 0.30
81 46 0.69
82 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (80 bp):
GTTTACAAAATTATCAAAATACCCTGCTTTGTAAAATTACCAAAATACCCCTAATTTATAAAATT
ACCAAAATACCCCTA
Found at i:57356508 original size:54 final size:54
Alignment explanation
Indices: 57356346--57356541 Score: 184
Period size: 54 Copynumber: 3.6 Consensus size: 54
57356336 TTTGGTTTAC
* ** * * *
57356346 AAAATTATCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* * *
57356399 AAAATTACCAAAATACCCCTAGTTTATAAAATTA-TCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTCGA-TTTGT
* * **
57356453 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** *
57356507 AAAATTATTGAAATA-CCCTCGATTTGTAAAATTAC
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTAC
57356542 CGTTTTACCC
Statistics
Matches: 117, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
53 19 0.16
54 95 0.81
55 3 0.03
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:57356510 original size:81 final size:80
Alignment explanation
Indices: 57356346--57356542 Score: 209
Period size: 81 Copynumber: 2.4 Consensus size: 80
57356336 TTTGGTTTAC
* * * **
57356346 AAAATTATCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
* **
57356411 ATACCCCTAGTTTAT
66 ATACCCCGAGCCTAT
* * **
57356426 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
*
57356490 AAATACCCTCGA-CCTGT
64 AAATACCC-CGAGCCTAT
**
57356507 AAAATTATTGAAATACCCTCGATTTGTAAAATTACC
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACC
57356543 GTTTTACCCT
Statistics
Matches: 97, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
80 19 0.20
81 75 0.77
82 3 0.03
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
ATACCCCGAGCCTAT
Found at i:57356550 original size:27 final size:27
Alignment explanation
Indices: 57356520--57356894 Score: 441
Period size: 27 Copynumber: 13.9 Consensus size: 27
57356510 ATTATTGAAA
** *
57356520 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57356547 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
57356574 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
57356601 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
57356628 TACCCTTAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
57356655 TACCC-CTGATTTACATAATTATCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
57356682 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
57356709 TACCCACAATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57356736 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
57356763 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
57356790 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
57356817 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
57356844 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
57356871 TACCCTCGATTTACAAAATTACCG
1 TACCCTCGATTTACAGAATTACCG
57356895 AAATACCCTC
Statistics
Matches: 300, Mismatches: 42, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 295 0.98
28 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:57356901 original size:27 final size:27
Alignment explanation
Indices: 57356520--57356946 Score: 308
Period size: 27 Copynumber: 15.8 Consensus size: 27
57356510 ATTATTGAAA
** *
57356520 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * * *
57356547 TACCCTTGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* *
57356574 TACCCTC-AGTTTACAGAATTA-CTATTT
1 TACCCTCGA-TTTACAAAATTACCGA-TT
* * *
57356601 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
** * *
57356628 TACCCTTAATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* *
57356655 TACCC-CTGATTTACATAATTATC-ATTT
1 TACCCTC-GATTTACAAAATTACCGA-TT
* * *
57356682 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * * * *
57356709 TACCCACAATTTACATAATTATCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * *
57356736 TACCC-CTGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAAAATTACCGATT
* *
57356763 TACCCTCGACTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* *
57356790 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGATT
* * *
57356817 TACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTACAAAATTACCGA-TT
* * * *
57356844 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGATT
**
57356871 TACCCTCGATTTACAAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACCGATT
* ** * **
57356898 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACCGATT
* *
57356925 TACCCTTGATTTACAAAGTTAC
1 TACCCTCGATTTACAAAATTAC
57356947 AGAAATACCC
Statistics
Matches: 332, Mismatches: 56, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
26 4 0.01
27 324 0.98
28 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCGATT
Found at i:57357019 original size:27 final size:27
Alignment explanation
Indices: 57356341--57357011 Score: 143
Period size: 27 Copynumber: 24.8 Consensus size: 27
57356331 AATACTTTGG
* * *
57356341 TTTACAAAATTATCAAAATACCC-TGC
1 TTTACAAAATTACCGAAATACCCTTGA
** ** *
57356367 TTTGTAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACCGAAATACCCTTGA
* * *
57356394 TTTATAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACCGAAATACCCTTGA
* * * *
57356420 GTTTATAAAATTATCAAAATACCCCT-A
1 -TTTACAAAATTACCGAAATACCCTTGA
** * * *
57356447 GTTTGTAAAATTACCAAAATACCCCTAA
1 -TTTACAAAATTACCGAAATACCCTTGA
*** * *
57356475 TTTGTGAAATTACTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
** ** ** *
57356502 CCTGTAAAATTATTGAAATACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
** ***
57356529 TTTGTAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
57356556 TTTATAGAATTACCGTTTTACCC-TCA
1 TTTACAAAATTACCGAAATACCCTTGA
* * ** *
57356582 GTTTACAGAATTA-CTATTTTACCCTCGA
1 -TTTACAAAATTACCGA-AATACCCTTGA
* * *** *
57356610 TTTATAGAATTACCGTTTTACCCTTAA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
57356637 TTTACATAATTACCGTTTTACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * ** *
57356664 TTTACATAATTATC-ATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * *** ***
57356691 CTTACAGAATTACCGTTTTACCCACAA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
57356718 TTTACATAATTATCGTTTTACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
57356745 TTTACATAATTATCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
57356772 CTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
57356799 TTTACAGAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * **
57356826 TTTATAGAATTA-CTATTTTACCCTTGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * *** *
57356853 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
**
57356880 TTTACAAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** *
57356907 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *
57356934 TTTACAAAGTTACAGAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
** * * *
57356961 CTTTTTA-AAAATTATAGAAGTACCATTGG
1 ---TTTACAAAATTACCGAAATACCCTTGA
*
57356990 TTTACAAAATTACTGAAATACC
1 TTTACAAAATTACCGAAATACC
57357012 TTTGGTTTGT
Statistics
Matches: 527, Mismatches: 103, Indels: 29
0.80 0.16 0.04
Matches are distributed among these distances:
26 27 0.05
27 476 0.90
28 3 0.01
29 17 0.03
30 4 0.01
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTGA
Found at i:57357137 original size:27 final size:27
Alignment explanation
Indices: 57357073--57357137 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
57357063 ACCCCTAAAA
*
57357073 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
57357100 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
57357127 GGTAAAATGAC
1 GGTAAAATGAC
57357138 GAATATGCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.20, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:57358411 original size:20 final size:20
Alignment explanation
Indices: 57358386--57358444 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
57358376 TAAATATGGT
57358386 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
57358406 ATGTATGCTATGCACATGAT
1 ATGTATGATATGCACATGAA
57358426 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
57358445 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:57358522 original size:24 final size:24
Alignment explanation
Indices: 57358495--57358637 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
57358485 GAGGAAGTGA
57358495 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
57358519 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
57358543 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
57358566 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
57358590 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
57358614 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
57358638 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:57358588 original size:47 final size:47
Alignment explanation
Indices: 57358495--57358637 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
57358485 GAGGAAGTGA
57358495 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
57358543 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
57358590 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
57358638 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:57358611 original size:71 final size:72
Alignment explanation
Indices: 57358495--57358638 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
57358485 GAGGAAGTGA
*
57358495 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
57358558 CCAGTTAT
65 CCAGTTAT
** * *
57358566 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
57358631 CAGTTAT
66 CAGTTAT
57358638 A
1 A
57358639 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:57358864 original size:31 final size:31
Alignment explanation
Indices: 57358829--57358923 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
57358819 CGTTTACAGT
57358829 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57358860 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* *
57358891 AAATGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
57358922 AA
1 AA
57358924 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:57363437 original size:41 final size:43
Alignment explanation
Indices: 57363332--57363457 Score: 150
Period size: 41 Copynumber: 3.0 Consensus size: 43
57363322 ACACATATTG
** *
57363332 TACAATGCCAACATCCCAGACATGGTCTTACATGTAATCACAA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
** * * *
57363375 -ATTGATGCCACTGTCCTAGACAGGGTCTTACACG-AATCA-AA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
57363416 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
1 TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
57363458 TATCGAAAAT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
41 29 0.44
42 12 0.18
43 25 0.38
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (43 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAA
Found at i:57368231 original size:48 final size:48
Alignment explanation
Indices: 57368161--57368288 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 48
57368151 TAGCATATCT
* * *
57368161 GTGCCGAAGCCATGTCCCAGACATGGTCTTACGCTGGCACATCTATAC
1 GTGCCGAAGCCATGTCCCAGACATGATCTTACACTGACACATCTATAC
*
57368209 GTGCCGATGCCATGTCCCAGACATGATCTTACACTGACACATC--T-C
1 GTGCCGAAGCCATGTCCCAGACATGATCTTACACTGACACATCTATAC
* * *
57368254 GTAGCCGACG-CATATCCCGGACATG-TCTTACACTG
1 GT-GCCGAAGCCATGTCCCAGACATGATCTTACACTG
57368289 GCTTACATCA
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
44 10 0.14
45 16 0.22
46 7 0.10
48 39 0.54
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.23
Consensus pattern (48 bp):
GTGCCGAAGCCATGTCCCAGACATGATCTTACACTGACACATCTATAC
Found at i:57375913 original size:48 final size:43
Alignment explanation
Indices: 57375842--57376007 Score: 172
Period size: 48 Copynumber: 3.6 Consensus size: 43
57375832 TATCTGTGCT
57375842 GATGCCATGTCCCAGACATGGTCTTACATTGACACATCTATACGTTCC
1 GATG-CATGTCCCAGACAT-GTCTTACATTGACACATCTATA-G--CC
* *
57375890 GATGCCATGTCCCAGACATGGTCTTACACTGACACATCTGGTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACATTGACACATCT-ATAGCC
* * *
57375936 GACGCATGTCCCAGACATGTCTTACATTGGCTTACATC-ACAAGGCC
1 GATGCATGTCCCAGACATGTCTTACATTGAC--ACATCTA-TA-GCC
57375982 GATGCATGTCCCAGACATGTCTTACA
1 GATGCATGTCCCAGACATGTCTTACA
57376008 CTAGCTCTCG
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 38 0.36
48 39 0.37
49 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
GATGCATGTCCCAGACATGTCTTACATTGACACATCTATAGCC
Found at i:57375989 original size:46 final size:48
Alignment explanation
Indices: 57375842--57376103 Score: 176
Period size: 46 Copynumber: 5.6 Consensus size: 48
57375832 TATCTGTGCT
* * * * *
57375842 GATGCCATGTCCCAGACATGGTCTTACATTGAC--ACATCTATACGTTCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATC-ACAAG-GCC
* ***
57375890 GATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTGGTA-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATC-ACAAGGCC
* *
57375936 GACG-CATGTCCCAGACAT-GTCTTACATTGGCTTACATCACAAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCACAAGGCC
* * * *
57375982 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCT-CGTCTCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-TACATCACAAGGCC
* * * *
57376028 GATGTCATGTCCTAGACATGGTCTTACACTAG-TT-C-TCATAATGTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCACAA---GGCC
*
57376076 AATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
57376104 AGCTCACAAC
Statistics
Matches: 181, Mismatches: 24, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
44 11 0.06
45 19 0.10
46 67 0.37
47 28 0.15
48 56 0.31
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATCACAAGGCC
Found at i:57376084 original size:47 final size:47
Alignment explanation
Indices: 57375933--57376108 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 47
57375923 ACATCTGGTA
* * * * *
57375933 GCCGACGCATGTCCCAGACATGTCTTACATTGGCT-TACATCACAA-G
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAATG
57375979 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATG
*
57376025 GCCGATGTCATGTCCTAGACATGGTCTTACACTAG-T-TC-TCAT-AATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTC-TCAA--TG
*
57376073 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC
57376109 ACAACAAGTG
Statistics
Matches: 112, Mismatches: 8, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
45 4 0.04
46 60 0.54
47 30 0.27
48 18 0.16
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATG
Found at i:57386804 original size:29 final size:29
Alignment explanation
Indices: 57386705--57386822 Score: 98
Period size: 29 Copynumber: 4.1 Consensus size: 29
57386695 ACATACATGC
* *
57386705 ATATGGCCCACTT-GG-CCAAATCTCATTT
1 ATATGGCCCA-TTAGGCCCAAATCACCTTT
* * * * * *
57386733 ATATTGTCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATTAGGCCCAAATCACCTTT
57386762 ATATGGCCCATTAGGCCCAAATCACCTTT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
* * * *
57386791 ATATGGCTCGTTAGGCCGAAATAACC-TT
1 ATATGGCCCATTAGGCCCAAATCACCTTT
57386819 ATAT
1 ATAT
57386823 TCATGCTCAC
Statistics
Matches: 72, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
27 1 0.01
28 16 0.22
29 55 0.76
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACCTTT
Found at i:57387058 original size:16 final size:16
Alignment explanation
Indices: 57387034--57387076 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
57387024 GCCGCCAAAC
*
57387034 TTTCTACTTTTCGGCA
1 TTTCAACTTTTCGGCA
*
57387050 TTTCAACTTTTTGGCA
1 TTTCAACTTTTCGGCA
*
57387066 TTTCGACTTTT
1 TTTCAACTTTT
57387077 GCTAATCTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (16 bp):
TTTCAACTTTTCGGCA
Found at i:57388320 original size:16 final size:16
Alignment explanation
Indices: 57388299--57388330 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57388289 AAATTCAAGA
57388299 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
57388315 TTTCAAGATTTTTGGG
1 TTTCAAGATTTTTGGG
57388331 GCGCTACAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.06, G:0.25, T:0.50
Consensus pattern (16 bp):
TTTCAAGATTTTTGGG
Found at i:57394429 original size:18 final size:16
Alignment explanation
Indices: 57394387--57394432 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
57394377 AAATGCTAAC
*
57394387 GATTGAGGGATTTCAA
1 GATTTAGGGATTTCAA
*
57394403 GATTTAGGGATTTGAA
1 GATTTAGGGATTTCAA
57394419 GATTGTTAGGGATT
1 GA-T-TTAGGGATT
57394433 CAATGAAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 16 0.62
17 1 0.04
18 9 0.35
ACGTcount: A:0.28, C:0.02, G:0.33, T:0.37
Consensus pattern (16 bp):
GATTTAGGGATTTCAA
Found at i:57396618 original size:25 final size:25
Alignment explanation
Indices: 57396580--57396647 Score: 95
Period size: 23 Copynumber: 2.8 Consensus size: 25
57396570 AAATTTAAAG
* *
57396580 TTTACATATATTTAATAAAATAAGT
1 TTTATATATTTTTAATAAAATAAGT
57396605 TTTATATATTTTT-AT-AAATAAGT
1 TTTATATATTTTTAATAAAATAAGT
*
57396628 TTTATATATTTTTATTAAAA
1 TTTATATATTTTTAATAAAA
57396648 ATACCACATG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
23 21 0.55
24 3 0.08
25 14 0.37
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (25 bp):
TTTATATATTTTTAATAAAATAAGT
Found at i:57403225 original size:53 final size:53
Alignment explanation
Indices: 57403168--57403274 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
57403158 TGATCTTAAA
57403168 CGTACTTTATCTTATTATTGAAATATGCTGTAATGATCTCTTTCCATCTTGTC
1 CGTACTTTATCTTATTATTGAAATATGCTGTAATGATCTCTTTCCATCTTGTC
57403221 CGTACTTTATCTTATTATTGAAATATGCTGTAATGATCTCTTTCCATCTTGTC
1 CGTACTTTATCTTATTATTGAAATATGCTGTAATGATCTCTTTCCATCTTGTC
57403274 C
1 C
57403275 TATCTTTTAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (53 bp):
CGTACTTTATCTTATTATTGAAATATGCTGTAATGATCTCTTTCCATCTTGTC
Found at i:57407945 original size:32 final size:33
Alignment explanation
Indices: 57407909--57407970 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
57407899 AATATTCCCT
* *
57407909 TCAAAAATCTGTCAAATTTC-ATTAAAATTTTC
1 TCAAAAATCTATCAAATTTCTATCAAAATTTTC
*
57407941 TCAAAATTCTATCAAATTTCTATCAAAATT
1 TCAAAAATCTATCAAATTTCTATCAAAATT
57407971 CTTTGTTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 18 0.69
33 8 0.31
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.40
Consensus pattern (33 bp):
TCAAAAATCTATCAAATTTCTATCAAAATTTTC
Found at i:57407972 original size:11 final size:11
Alignment explanation
Indices: 57407909--57407972 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
57407899 AATATTCCCT
* *
57407909 TCAAAAATCTG
1 TCAAAATTCTA
*
57407920 TCAAATTTC-A
1 TCAAAATTCTA
* * *
57407930 TTAAAATTTTC
1 TCAAAATTCTA
57407941 TCAAAATTCTA
1 TCAAAATTCTA
*
57407952 TCAAATTTCTA
1 TCAAAATTCTA
57407963 TCAAAATTCT
1 TCAAAATTCT
57407973 TTGTTTAAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
10 6 0.15
11 34 0.85
ACGTcount: A:0.41, C:0.17, G:0.02, T:0.41
Consensus pattern (11 bp):
TCAAAATTCTA
Found at i:57409813 original size:18 final size:18
Alignment explanation
Indices: 57409790--57409832 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
57409780 TGCCAGGTGC
*
57409790 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
57409808 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
57409826 GTTTCCT
1 GTATCCT
57409833 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:57413925 original size:20 final size:20
Alignment explanation
Indices: 57413900--57413972 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
57413890 TCTTGTATGT
57413900 ATCAATTAACCTTAAATTTA
1 ATCAATTAACCTTAAATTTA
* * *
57413920 ATCAATTAACCCTAAACCCTAA
1 ATCAATTAACCTTAAA--TTTA
*
57413942 ATCAA-T--CCAT-AATTTA
1 ATCAATTAACCTTAAATTTA
57413958 ATCAATTAACCTTAA
1 ATCAATTAACCTTAA
57413973 TACTCTAAAC
Statistics
Matches: 40, Mismatches: 7, Indels: 12
0.68 0.12 0.20
Matches are distributed among these distances:
16 7 0.17
17 1 0.03
18 2 0.05
19 6 0.15
20 16 0.40
21 1 0.03
22 7 0.17
ACGTcount: A:0.45, C:0.22, G:0.00, T:0.33
Consensus pattern (20 bp):
ATCAATTAACCTTAAATTTA
Found at i:57414067 original size:15 final size:15
Alignment explanation
Indices: 57414047--57414076 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57414037 TTAATTATTT
57414047 TCCTAAAACCCTAAA
1 TCCTAAAACCCTAAA
*
57414062 TCCTAAAACCTTAAA
1 TCCTAAAACCCTAAA
57414077 CCCTTACAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (15 bp):
TCCTAAAACCCTAAA
Found at i:57417684 original size:44 final size:45
Alignment explanation
Indices: 57417578--57417711 Score: 144
Period size: 44 Copynumber: 3.0 Consensus size: 45
57417568 ACAGGACAGA
* *
57417578 ACAGAAATAAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* * * *
57417624 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATTGCATTGGAG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
** * * *
57417668 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATAAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
57417712 TAGGATATTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
44 35 0.49
45 1 0.01
46 35 0.49
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (45 bp):
ACAGGAATAAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:57423712 original size:18 final size:18
Alignment explanation
Indices: 57423686--57423720 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57423676 CTTAGGGGAT
* *
57423686 TTACCAAATTCTCTAAGA
1 TTACAAAATACTCTAAGA
57423704 TTACAAAATACTCTAAG
1 TTACAAAATACTCTAAG
57423721 GTTATAGAAT
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:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (18 bp):
TTACAAAATACTCTAAGA
Found at i:57425435 original size:17 final size:17
Alignment explanation
Indices: 57425406--57425438 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
57425396 ACTCATTTAA
57425406 ACACAGTTCCAAATCAT
1 ACACAGTTCCAAATCAT
57425423 ACACATGTT-CAAATCA
1 ACACA-GTTCCAAATCA
57425439 ATTTATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (17 bp):
ACACAGTTCCAAATCAT
Found at i:57428992 original size:3 final size:3
Alignment explanation
Indices: 57428986--57429019 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
57428976 ATTAATAATA
57428986 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG A
57429020 ATGCGATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
ATG
Found at i:57430712 original size:15 final size:14
Alignment explanation
Indices: 57430694--57430731 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
57430684 CCTATCTTAT
57430694 TTCCTTCTTTCTTTC
1 TTCCTTCTTTC-TTC
57430709 TTCCTTCCTTTCTTC
1 TTCCTT-CTTTCTTC
57430724 TT-CTTCTT
1 TTCCTTCTT
57430732 GCTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 3 0.14
15 11 0.50
16 5 0.23
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (14 bp):
TTCCTTCTTTCTTC
Found at i:57443940 original size:34 final size:34
Alignment explanation
Indices: 57443897--57443964 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
57443887 TGTACTAATG
57443897 TACTTGAAGATTTGAACTATGGAACGGGTTATCA
1 TACTTGAAGATTTGAACTATGGAACGGGTTATCA
57443931 TACTTGAAGATTTGAACTATGGAACGGGTTATCA
1 TACTTGAAGATTTGAACTATGGAACGGGTTATCA
57443965 ATCATTCTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (34 bp):
TACTTGAAGATTTGAACTATGGAACGGGTTATCA
Found at i:57446139 original size:168 final size:168
Alignment explanation
Indices: 57445925--57446229 Score: 522
Period size: 168 Copynumber: 1.8 Consensus size: 168
57445915 ACTTAATGAA
* * *
57445925 TTAACAATTACCGTTTCGTAAGGATCAAAATTTTAAATTTTGAAAAGTATAGGGACTAAATATAA
1 TTAAAAATTACCGTTTCGTAAGGATCAAAATTTTAAATTCTGAAAAGTACAGGGACTAAATATAA
57445990 CCAAATTAAAGTAGAGAAATAAAATCAATAACTTTTGCAAAGTATAGAGACTGTGGTAGAGTTTA
66 CCAAATTAAAGTAGAGAAATAAAATCAATAACTTTTGCAAAGTATAGAGACTGTGGTAGAGTTTA
57446055 ACCTTTTACATATTATAATATGCTTGACGTATCAAATT
131 ACCTTTTACATATTATAATATGCTTGACGTATCAAATT
*
57446093 TTAAAAATTCCCGTTT-GATAAGGATCAAAATTTTAAATTCTGAAAAGTACAGGGACTAAATATA
1 TTAAAAATTACCGTTTCG-TAAGGATCAAAATTTTAAATTCTGAAAAGTACAGGGACTAAATATA
* * * *
57446157 ACCAAATTGAAGTAGAGAGATTAAATCAATAACTTTTGCAAAGTATAGGGACTGTGGTAGAGTTT
65 ACCAAATTAAAGTAGAGAAATAAAATCAATAACTTTTGCAAAGTATAGAGACTGTGGTAGAGTTT
57446222 AACCTTTT
130 AACCTTTT
57446230 CTTTTATATT
Statistics
Matches: 128, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
167 1 0.01
168 127 0.99
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (168 bp):
TTAAAAATTACCGTTTCGTAAGGATCAAAATTTTAAATTCTGAAAAGTACAGGGACTAAATATAA
CCAAATTAAAGTAGAGAAATAAAATCAATAACTTTTGCAAAGTATAGAGACTGTGGTAGAGTTTA
ACCTTTTACATATTATAATATGCTTGACGTATCAAATT
Found at i:57447703 original size:28 final size:27
Alignment explanation
Indices: 57447672--57447734 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
57447662 TAAAATTTTG
57447672 ATTAAATATTTATTGGTAGAAAAAACTA
1 ATTAAATATTT-TTGGTAGAAAAAACTA
57447700 ATTAAATA--TTTGGTAGAAAAAACTA
1 ATTAAATATTTTTGGTAGAAAAAACTA
*
57447725 ATTAACTATT
1 ATTAAATATT
57447735 AAATGCGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 23 0.72
26 1 0.03
28 8 0.25
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (27 bp):
ATTAAATATTTTTGGTAGAAAAAACTA
Found at i:57450138 original size:47 final size:46
Alignment explanation
Indices: 57450073--57450333 Score: 244
Period size: 46 Copynumber: 5.6 Consensus size: 46
57450063 TGACCAATGC
*
57450073 CATGTCCCAGACATGGTCTTACACTGGCTCAT-ATCTCAAGTCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCAAGCCGATG
* * *
57450119 CCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCTGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTC-AAGCCGATG
* * * *
57450167 CATGTCCCAGACATGTCTTACACTGGCTTA-CGTCTCGAGGCAGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCATCATCTC-AAGCCGATG
* * * *
57450213 CATGTCCTAGACATGTCTTACACTAGCAC-TCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAA-GCCGATG
* * * ***
57450259 CCATGTCCTAGACATGGTCTTACACTAGCTC-TCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCATCAT-CTCAAGCCGATG
57450307 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
57450334 CAAAAATAAC
Statistics
Matches: 183, Mismatches: 23, Indels: 17
0.82 0.10 0.08
Matches are distributed among these distances:
45 1 0.01
46 76 0.42
47 75 0.41
48 30 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCATCATCTCAAGCCGATG
Found at i:57450203 original size:46 final size:47
Alignment explanation
Indices: 57450073--57450333 Score: 234
Period size: 47 Copynumber: 5.6 Consensus size: 47
57450063 TGACCAATGC
* * *
57450073 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTC-AAGTCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATG
* * *
57450119 CCATGTCCCAGACATGGTCTTACACTGAC-TATCATCTCGTAGCTGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTTA-CATCTCGAAGCCGATG
* * *
57450167 CATGTCCCAGACAT-GTCTTACACTGGCTTACGTCTCGAGGCAGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATG
* * * *
57450213 CATGTCCTAGACAT-GTCTTACACTAGCACT-CGTCTC-AATGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGC-TTACATCTCGAA-GCCGATG
* * * **
57450259 CCATGTCCTAGACATGGTCTTACACTAGCTCT-CATAAT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGGCT-TACAT-CTCGAAGCCGATG
57450307 CATGTCCCAGACAT-GTCTTACACTGGC
1 CATGTCCCAGACATGGTCTTACACTGGC
57450334 CAAAAATAAC
Statistics
Matches: 181, Mismatches: 23, Indels: 21
0.80 0.10 0.09
Matches are distributed among these distances:
45 1 0.01
46 74 0.41
47 76 0.42
48 29 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTGGCTTACATCTCGAAGCCGATG
Found at i:57450325 original size:140 final size:140
Alignment explanation
Indices: 57450073--57450333 Score: 368
Period size: 140 Copynumber: 1.9 Consensus size: 140
57450063 TGACCAATGC
* * *
57450073 CATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAGACATGGTC
* *
57450138 TTACACTGACTATCATCTCGTAGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
66 TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
57450203 GAGGCAGATG
131 GAGGCAGATG
* * *
57450213 CATGTCCTAGACAT-GTCTTACACTAGCAC-TCGTCTCAATGCCGATGCCATGTCCTAGACATGG
1 CATGTCCCAGACATGGTCTTACACTAGCACAT-ATCTCAA-GCCGATGCCATGTCCCAGACATGG
* *
57450276 TCTTACACT-AGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACTGGC
64 TCTTACACTGA-CTATCAT-ATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGC
57450334 CAAAAATAAC
Statistics
Matches: 107, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 85 0.79
141 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (140 bp):
CATGTCCCAGACATGGTCTTACACTAGCACATATCTCAAGCCGATGCCATGTCCCAGACATGGTC
TTACACTGACTATCATATCGTAGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTACGTCTC
GAGGCAGATG
Found at i:57453554 original size:32 final size:31
Alignment explanation
Indices: 57453517--57453585 Score: 77
Period size: 32 Copynumber: 2.2 Consensus size: 31
57453507 ACTTTTATAT
57453517 ATAATT-ATTTTACTTCATAAAAACTTAAATTC
1 ATAATTCATTTTAC-TCATAAAAAC-TAAATTC
* ** *
57453549 ATAATTCATTTTTCTCATACTAACTCAATTC
1 ATAATTCATTTTACTCATAAAAACTAAATTC
57453580 ATAATT
1 ATAATT
57453586 TAACTCATAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 12 0.38
32 14 0.44
33 6 0.19
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (31 bp):
ATAATTCATTTTACTCATAAAAACTAAATTC
Found at i:57455286 original size:5 final size:5
Alignment explanation
Indices: 57455276--57455308 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
57455266 TTTATATATA
57455276 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
57455309 CTTAATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:57461782 original size:25 final size:27
Alignment explanation
Indices: 57461745--57461798 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
57461735 TCAAACATGC
57461745 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
57461771 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
57461797 AT
1 AT
57461799 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:57463318 original size:26 final size:26
Alignment explanation
Indices: 57463282--57463391 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
57463272 CATGAAATTC
57463282 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
57463308 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
57463334 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
57463360 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
57463386 TTATCA
1 TTATCA
57463392 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:57464398 original size:18 final size:19
Alignment explanation
Indices: 57464365--57464401 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
57464355 GGAAAACTAT
57464365 CAAATCAAAATTGTAATTA
1 CAAATCAAAATTGTAATTA
*
57464384 CAAAT-AAACTTGTAATTA
1 CAAATCAAAATTGTAATTA
57464402 ATATATATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (19 bp):
CAAATCAAAATTGTAATTA
Found at i:57465091 original size:11 final size:11
Alignment explanation
Indices: 57465075--57465099 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
57465065 TGCCTATATG
57465075 AATTCTCAATT
1 AATTCTCAATT
57465086 AATTCTCAATT
1 AATTCTCAATT
57465097 AAT
1 AAT
57465100 ATGCAACTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTCTCAATT
Found at i:57466785 original size:38 final size:39
Alignment explanation
Indices: 57466733--57466920 Score: 310
Period size: 38 Copynumber: 4.9 Consensus size: 39
57466723 AATGTTCGAG
57466733 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
57466772 TGATA-CCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
57466810 TGATATCCGGGCTAA-CCCGAAGGCAATTGTGC-AGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
57466847 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
57466886 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
57466921 GGTTACCATA
Statistics
Matches: 141, Mismatches: 4, Indels: 7
0.93 0.03 0.05
Matches are distributed among these distances:
37 20 0.14
38 72 0.51
39 32 0.23
40 17 0.12
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:57474773 original size:39 final size:39
Alignment explanation
Indices: 57474719--57474909 Score: 301
Period size: 39 Copynumber: 4.9 Consensus size: 39
57474709 AATGTTCGAG
57474719 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
*
57474758 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
57474797 TGATATCCGGGCTAAACCCGAAGGCAATTGTGCAAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
57474836 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
57474875 TGATATCCGGGTTAAGTCCCGAAGGTATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
57474910 GGTTACCATA
Statistics
Matches: 140, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 124 0.89
40 16 0.11
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:57477505 original size:21 final size:21
Alignment explanation
Indices: 57477480--57477548 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 21
57477470 TATAATGATT
57477480 ATTATTATGGTTTTATATTAA
1 ATTATTATGGTTTTATATTAA
**
57477501 ATTATTATAATTATTA-ATT-A
1 ATTATTATGGTT-TTATATTAA
* *
57477521 A-CATTATGGTTTTATATTAG
1 ATTATTATGGTTTTATATTAA
57477541 ATTATTAT
1 ATTATTAT
57477549 TATTAGCATT
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
18 3 0.08
19 10 0.27
20 3 0.08
21 18 0.49
22 3 0.08
ACGTcount: A:0.36, C:0.01, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTATTATGGTTTTATATTAA
Found at i:57477561 original size:15 final size:14
Alignment explanation
Indices: 57477535--57477565 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
57477525 TATGGTTTTA
57477535 TATTAGATTATTAT
1 TATTAGATTATTAT
57477549 TATTAGCATTATTAT
1 TATTAG-ATTATTAT
57477564 TA
1 TA
57477566 AATAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.55
Consensus pattern (14 bp):
TATTAGATTATTAT
Found at i:57477903 original size:14 final size:14
Alignment explanation
Indices: 57477879--57477911 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
57477869 AAGAATTAAG
57477879 GAAACAAAGAAACA
1 GAAACAAAGAAACA
57477893 -AAACAAAAGAAACA
1 GAAAC-AAAGAAACA
57477907 GAAAC
1 GAAAC
57477912 GAAGTAGGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
GAAACAAAGAAACA
Found at i:57481722 original size:2 final size:2
Alignment explanation
Indices: 57481715--57481741 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
57481705 GAGGGAGGGG
57481715 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
57481742 TGTGTGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:57485139 original size:26 final size:25
Alignment explanation
Indices: 57485104--57485202 Score: 110
Period size: 26 Copynumber: 3.8 Consensus size: 25
57485094 TCCCCATTTT
57485104 AGATAGTCCTGACAGACTTCCACAA
1 AGATAGTCCTGACAGACTTCCACAA
* *
57485129 AGGATAGTCCTCACA-AGCTTCTACCAA
1 A-GATAGTCCTGACAGA-CTTCCA-CAA
*
57485156 AGATAGTCCTGACGGACTTCCACAAA
1 AGATAGTCCTGACAGACTTCCAC-AA
* *
57485182 AGATAGTCTTGACGGACTTCC
1 AGATAGTCCTGACAGACTTCC
57485203 CACATTATAG
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
25 3 0.05
26 55 0.87
27 5 0.08
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (25 bp):
AGATAGTCCTGACAGACTTCCACAA
Found at i:57486126 original size:23 final size:23
Alignment explanation
Indices: 57486074--57486119 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
57486064 ACAAGATTTC
57486074 CAATTTCTAAGACTTAGATCTTA
1 CAATTTCTAAGACTTAGATCTTA
57486097 CAATTTCTAAGACTTAGATCTTA
1 CAATTTCTAAGACTTAGATCTTA
57486120 GTCTTTCCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (23 bp):
CAATTTCTAAGACTTAGATCTTA
Found at i:57489018 original size:46 final size:46
Alignment explanation
Indices: 57488958--57489223 Score: 334
Period size: 46 Copynumber: 6.0 Consensus size: 46
57488948 TTTGACGTGA
* * * * * *
57488958 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * **
57489004 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACCT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
57489050 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
57489096 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
57489142 TGCCATGGTATCTTTCAACCATGGTCTTACACA---C--AT---GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
57489180 TGCCATGGTATCTTTTAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
57489224 AGAGCACACT
Statistics
Matches: 195, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
38 34 0.17
41 3 0.02
43 3 0.02
45 4 0.02
46 151 0.77
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:57489191 original size:38 final size:38
Alignment explanation
Indices: 57489140--57489212 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
57489130 TTCATATCAG
57489140 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
*
57489178 GTTGCCATGGTATCTTTTAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
57489213 TTTCATATCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAT
Found at i:57492543 original size:8 final size:8
Alignment explanation
Indices: 57492530--57492561 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
57492520 CTAGATCAAC
57492530 AAAAGCCG
1 AAAAGCCG
57492538 AAAAGCCG
1 AAAAGCCG
*
57492546 AAATGCCG
1 AAAAGCCG
57492554 AAAAGCCG
1 AAAAGCCG
57492562 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:57492847 original size:28 final size:28
Alignment explanation
Indices: 57492810--57492867 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
57492800 TACTAGAATA
*
57492810 CCCTATGTATGCAAAATTACCTTTATAC
1 CCCTATGTATGCAAAATGACCTTTATAC
57492838 CCCTATGTATGCAAAATGACCTTTATAC
1 CCCTATGTATGCAAAATGACCTTTATAC
57492866 CC
1 CC
57492868 TTAGGGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (28 bp):
CCCTATGTATGCAAAATGACCTTTATAC
Found at i:57493025 original size:27 final size:27
Alignment explanation
Indices: 57492976--57493064 Score: 117
Period size: 27 Copynumber: 3.2 Consensus size: 27
57492966 AGGAAGCGTC
*
57492976 CTGGTGG-CATGCCACAAATTATCTGTT
1 CTGGTGGCCCTGCCACAAA-TATCTGTT
*
57493003 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCCCTGCCACAAATATCTGTT
*
57493030 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCCCTGCCAC-AAATATCTGT-T
57493059 CTGGTG
1 CTGGTG
57493065 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
27 30 0.55
28 18 0.33
29 7 0.13
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (27 bp):
CTGGTGGCCCTGCCACAAATATCTGTT
Found at i:57493083 original size:55 final size:55
Alignment explanation
Indices: 57492976--57493089 Score: 151
Period size: 55 Copynumber: 2.1 Consensus size: 55
57492966 AGGAAGCGTC
* *
57492976 CTGGTGGCATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
57493030 CTGGTGGCACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
57493086 CTGG
1 CTGG
57493090 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
54 9 0.17
55 22 0.42
56 21 0.40
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (55 bp):
CTGGTGGCATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:57497015 original size:40 final size:39
Alignment explanation
Indices: 57496920--57497047 Score: 150
Period size: 40 Copynumber: 3.2 Consensus size: 39
57496910 TGCTGGAAAT
* * * *
57496920 TATATCCGGGTTAAGACCCGAAGGCAATGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
* *
57496959 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
57496999 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
57497039 TATATCCGG
1 TATATCCGG
57497048 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.35
40 48 0.62
41 2 0.03
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:57504147 original size:25 final size:26
Alignment explanation
Indices: 57504112--57504169 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
57504102 CACTTTTATC
57504112 TTTA-TTTATCTTC-TTTAAGTACT-T
1 TTTATTTTATCTTCATTTAA-TACTAT
57504136 TTTATTTTATCTTCATTTAATACTAT
1 TTTATTTTATCTTCATTTAATACTAT
*
57504162 TTCATTTT
1 TTTATTTT
57504170 TAGGTTTTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 4 0.13
25 13 0.43
26 13 0.43
ACGTcount: A:0.22, C:0.12, G:0.02, T:0.64
Consensus pattern (26 bp):
TTTATTTTATCTTCATTTAATACTAT
Found at i:57506258 original size:13 final size:13
Alignment explanation
Indices: 57506240--57506266 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57506230 GAAGAAATCG
57506240 CATACGGGCATGT
1 CATACGGGCATGT
57506253 CATACGGGCATGT
1 CATACGGGCATGT
57506266 C
1 C
57506267 CTTGTTGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.26, G:0.30, T:0.22
Consensus pattern (13 bp):
CATACGGGCATGT
Found at i:57513760 original size:47 final size:47
Alignment explanation
Indices: 57513705--57513835 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 47
57513695 CTCAACTGAA
*
57513705 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
* * * * *
57513752 GAGTACCTATACCATGGCTCGTAGCCAAATCAAGGTAACTCCTCTCT
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
* * **
57513799 AAATACCTATACCATGACCCGTATTCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
57513836 TTATTTGCAC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCG
Found at i:57524478 original size:40 final size:40
Alignment explanation
Indices: 57524397--57524580 Score: 209
Period size: 39 Copynumber: 4.7 Consensus size: 40
57524387 TCGAATGATG
* * *
57524397 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
57524436 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
57524476 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
57524515 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
57524556 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
57524581 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
39 64 0.49
40 64 0.49
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57524594 original size:40 final size:40
Alignment explanation
Indices: 57524398--57524599 Score: 116
Period size: 40 Copynumber: 5.1 Consensus size: 40
57524388 CGAATGATGT
** * *
57524398 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTA-AT
1 CCGGGCTAAGTCCCGAAGGCATTTGAAC-GAGCT-ACTATAA
* ** *
57524437 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* ** *
57524476 TCC-GACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AA
1 -CCGGGCTAAG-TCCCGAAGGCATTTGAACGAGCTACTATAA
* **
57524515 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
* * *
57524556 CCGGGCTATGTCCCGAAGGTATTTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTA-CTATAA
57524596 CCGG
1 CCGG
57524600 TTAAACTCCG
Statistics
Matches: 143, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
39 66 0.46
40 75 0.52
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAACGAGCTACTATAA
Found at i:57524602 original size:79 final size:79
Alignment explanation
Indices: 57524449--57524603 Score: 183
Period size: 79 Copynumber: 2.0 Consensus size: 79
57524439 GGACTAAGAT
* **
57524449 CCGAAGGCATTTGTGCGAGTTACTAAATCCGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
57524514 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* * *
57524528 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAG-TAG
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCC-GACTAAGAT-CCGAAGGCATTTGAACGAGTTA-
*
57524590 CTATATCC-GGTTAA
62 CTAAATCCGGGTTAA
57524604 ACTCCGAAGG
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
79 35 0.54
80 30 0.46
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGACTAAGATCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:57532540 original size:40 final size:40
Alignment explanation
Indices: 57532459--57532643 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
57532449 TCGAATGATG
* * *
57532459 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
57532498 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
57532538 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
** *
57532578 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
57532619 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGACTAAGTCCCGAAGGCATTTG
57532644 AACGAGTAGC
Statistics
Matches: 132, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
39 25 0.19
40 105 0.80
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:57532650 original size:80 final size:79
Alignment explanation
Indices: 57532511--57532666 Score: 192
Period size: 80 Copynumber: 2.0 Consensus size: 79
57532501 GGACTAAGAT
* **
57532511 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCT
57532575 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAGTC
* * *
57532591 CCGAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGTATTTGAACGAGTAGC
1 CCGAAGGCATTTGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGC
*
57532654 TATATCCGGTTAA
64 TAAATCCGGTTAA
57532667 ACTCCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
79 9 0.14
80 55 0.83
81 2 0.03
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAGTC
Found at i:57536941 original size:40 final size:40
Alignment explanation
Indices: 57536856--57537006 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
57536846 AATTGAATGA
* * *
57536856 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
57536896 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57536937 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57536976 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57537007 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57537020 original size:40 final size:40
Alignment explanation
Indices: 57536893--57537022 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
57536883 ATGCTGGAAA
* * * *
57536893 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
57536933 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
57536973 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
57537013 TTATATCCGG
1 TTATATCCGG
57537023 TTATGTTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:57542724 original size:55 final size:55
Alignment explanation
Indices: 57542620--57542727 Score: 126
Period size: 55 Copynumber: 2.0 Consensus size: 55
57542610 GGCTATGGGA
* * * **
57542620 AAACCTGCCAAAACAACACGGGCATGCGACACGTCCGTGCCTTGAAACCGTGGCC
1 AAACCTGCCAAAACAACACAGGCATGCAACACGCCCGTGCCAAGAAACCGTGGCC
* ** * *
57542675 AAACCTGTCAAATTAACACAGGCGTGCAACACGCCCGTGCCAAGCAACCGTGG
1 AAACCTGCCAAAACAACACAGGCATGCAACACGCCCGTGCCAAGAAACCGTGG
57542728 TCGAACATGT
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.31, C:0.33, G:0.23, T:0.13
Consensus pattern (55 bp):
AAACCTGCCAAAACAACACAGGCATGCAACACGCCCGTGCCAAGAAACCGTGGCC
Found at i:57542813 original size:13 final size:13
Alignment explanation
Indices: 57542795--57542821 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
57542785 AACGAAGACA
57542795 GACATGGCCGTGT
1 GACATGGCCGTGT
57542808 GACATGGCCGTGT
1 GACATGGCCGTGT
57542821 G
1 G
57542822 CACCAACACG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.22, G:0.41, T:0.22
Consensus pattern (13 bp):
GACATGGCCGTGT
Found at i:57543291 original size:23 final size:23
Alignment explanation
Indices: 57543265--57543311 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
57543255 CATTCTATTG
*
57543265 TCATACCCATGCCATTACTATGC
1 TCATACCCATGCCATTACCATGC
* * *
57543288 TCATTCTCATGCTATTACCATGC
1 TCATACCCATGCCATTACCATGC
57543311 T
1 T
57543312 AATGTCACGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (23 bp):
TCATACCCATGCCATTACCATGC
Found at i:57544662 original size:17 final size:17
Alignment explanation
Indices: 57544637--57544669 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
57544627 GATGATGATG
57544637 TTTAATTTTATTTTATC
1 TTTAATTTTATTTTATC
*
57544654 TTTATTTTTATTTTAT
1 TTTAATTTTATTTTAT
57544670 GTTTGTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTAATTTTATTTTATC
Found at i:57550744 original size:40 final size:40
Alignment explanation
Indices: 57550659--57550809 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
57550649 AATTGAATGA
* * *
57550659 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
57550699 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
57550740 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
57550779 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
57550810 ACGTGATTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:57550823 original size:40 final size:40
Alignment explanation
Indices: 57550695--57550825 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 40
57550685 TATGCTGGAA
* * *
57550695 ATTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
57550735 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
57550775 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
57550815 ATTATATCCGG
1 ATTATATCCGG
57550826 TTATATTCCG
Statistics
Matches: 73, Mismatches: 17, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:57558836 original size:40 final size:40
Alignment explanation
Indices: 57558708--57558838 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 40
57558698 TATGCTGGAA
* * * *
57558708 ATTATATCCGGGTTAAGACCCGAAGGCAATTGCGCTAGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
** * * **
57558748 GCTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGAC
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
*
57558788 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTG
1 ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTG
57558828 ATTATATCCGG
1 ATTATATCCGG
57558839 TTATATTCCG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
ATTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTG
Found at i:57560835 original size:40 final size:40
Alignment explanation
Indices: 57560765--57560942 Score: 261
Period size: 40 Copynumber: 4.5 Consensus size: 40
57560755 AAGCCAAGTA
* * * *
57560765 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
57560804 CCTTTGGGACATAGCCCGGATATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
57560844 CCTTCGGGACTTAGCCTGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57560884 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
57560924 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57560943 TTATCATCCG
Statistics
Matches: 125, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 11 0.09
40 114 0.91
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:57565809 original size:48 final size:49
Alignment explanation
Indices: 57565747--57565874 Score: 152
Period size: 48 Copynumber: 2.6 Consensus size: 49
57565737 ATTAAAGTCG
* * *
57565747 ATGCCGTGTCCCAGACGGGTCTTACACTGACTTTCATATATCGAG-GCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCG-GTGCCA
* * ***
57565796 ATGCCATGT-CCAGACAGGTCTTACACTGGCTCTCATCTATCGGTGTTG
1 ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCA
*
57565844 ATGCCATGTCCCAGACAGGTCTTAAACTGAC
1 ATGCCATGTCCCAGACAGGTCTTACACTGAC
57565875 ACACAACAAG
Statistics
Matches: 67, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
47 1 0.01
48 39 0.58
49 27 0.40
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (49 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGACTCTCATATATCGGTGCCA
Found at i:57565964 original size:48 final size:49
Alignment explanation
Indices: 57565893--57566056 Score: 133
Period size: 49 Copynumber: 3.4 Consensus size: 49
57565883 AGCTGACACT
* * *
57565893 ATGTCCCA-AGCAGGTCTTACACTAGAT-TGTAT-ATCCCGAGGCCGATGC
1 ATGTCCCAGA-CATGTCTTACACTAGATCT-CATCATCCCAAGGCCGATGC
* * * * *
57565941 ATGTCTCAGACATGTCTTACACTAGCTCTCATCGTCTCAATGCCGATGC
1 ATGTCCCAGACATGTCTTACACTAGATCTCATCATCCCAAGGCCGATGC
** * * ** *
57565990 ATGTCCCAGACATGTCTTACACCGGCTCTCATAAT---GTGGCTGATGC
1 ATGTCCCAGACATGTCTTACACTAGATCTCATCATCCCAAGGCCGATGC
57566036 ATGTCCCAGACATGTCTTACA
1 ATGTCCCAGACATGTCTTACA
57566057 TTGGCTCACA
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
46 28 0.29
48 24 0.25
49 44 0.46
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
ATGTCCCAGACATGTCTTACACTAGATCTCATCATCCCAAGGCCGATGC
Found at i:57568475 original size:17 final size:16
Alignment explanation
Indices: 57568448--57568482 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 16
57568438 TTACAATCAA
57568448 ACAAAACGTATATTCC
1 ACAAAACGTATATTCC
57568464 ACAAATACGTATATTCC
1 ACAAA-ACGTATATTCC
57568481 AC
1 AC
57568483 TTATTCTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.43, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
ACAAAACGTATATTCC
Found at i:57572517 original size:13 final size:13
Alignment explanation
Indices: 57572501--57572550 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
57572491 ATTAATATTA
57572501 TTACAAAAAAAGT
1 TTACAAAAAAAGT
57572514 TTACAAATGAAAAGT
1 TTACAAA--AAAAGT
*
57572529 TTACAAGAAAAGT
1 TTACAAAAAAAGT
57572542 TTA-AAAAAA
1 TTACAAAAAA
57572551 GAGGATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
12 5 0.15
13 16 0.48
15 12 0.36
ACGTcount: A:0.60, C:0.06, G:0.10, T:0.24
Consensus pattern (13 bp):
TTACAAAAAAAGT
Found at i:57573429 original size:22 final size:21
Alignment explanation
Indices: 57573391--57573435 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
57573381 TAATATAGTA
*
57573391 TTAATAATTACAGGAAAATCTT
1 TTAATAATTACAAGAAAAT-TT
57573413 TTAATAATTGA-AAGAAAATTT
1 TTAATAATT-ACAAGAAAATTT
57573434 TT
1 TT
57573436 GAACTACTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 4 0.19
22 16 0.76
23 1 0.05
ACGTcount: A:0.47, C:0.04, G:0.09, T:0.40
Consensus pattern (21 bp):
TTAATAATTACAAGAAAATTT
Found at i:57576527 original size:23 final size:23
Alignment explanation
Indices: 57576501--57576828 Score: 109
Period size: 23 Copynumber: 14.3 Consensus size: 23
57576491 ATAAAACATC
* *
57576501 TCAATTTTCAGCAACTAAACAAT
1 TCAATTTACAGCAACTAAACACT
* *
57576524 TCAATTTGCAG-TACTTAAAACACT
1 TCAATTTACAGCAAC-T-AAACACT
* **
57576548 TCAATTTACAACATTTAAACACT
1 TCAATTTACAGCAACTAAACACT
** * *
57576571 TCAATTTACAGCATTTTAACGCT
1 TCAATTTACAGCAACTAAACACT
* * **
57576594 TCAATTCACATCATTTAAACACT
1 TCAATTTACAGCAACTAAACACT
* * * *
57576617 TCAATTTGCAAC-ACTTTAGCACT
1 TCAATTTACAGCAAC-TAAACACT
* *
57576640 TCAATTTACAGC-ATTTAACACT
1 TCAATTTACAGCAACTAAACACT
* *
57576662 TCAATTTGCAGC-ACTTTAACA-T
1 TCAATTTACAGCAAC-TAAACACT
* * ** * *
57576684 CTCAATTAACAACATTTATACACC
1 -TCAATTTACAGCAACTAAACACT
* *
57576708 TCAA-TTATAGCGA-TAAA-ACAT
1 TCAATTTACAGCAACTAAACAC-T
* *
57576729 CTCAATTTCCAGCAACTAAACAAT
1 -TCAATTTACAGCAACTAAACACT
* * *
57576753 TCAACTTGCAG-TACTTAAAACACT
1 TCAATTTACAGCAAC-T-AAACACT
* * ** *
57576777 TCAATTTATAACATTTAAAAACT
1 TCAATTTACAGCAACTAAACACT
* *
57576800 TCAATTTGCAGC-ACTTTAACACT
1 TCAATTTACAGCAAC-TAAACACT
57576823 TCAATT
1 TCAATT
57576829 CACAACATTT
Statistics
Matches: 222, Mismatches: 66, Indels: 34
0.69 0.20 0.11
Matches are distributed among these distances:
20 2 0.01
21 3 0.01
22 32 0.14
23 149 0.67
24 35 0.16
25 1 0.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (23 bp):
TCAATTTACAGCAACTAAACACT
Found at i:57576610 original size:46 final size:45
Alignment explanation
Indices: 57576516--57576939 Score: 329
Period size: 46 Copynumber: 9.2 Consensus size: 45
57576506 TTTCAGCAAC
* * *
57576516 TAAACAATTCAATTTGCAGTACTTAAAACACTTCAATTTACAACATT
1 TAAACACTTCAATTTGCAGCACTT-TAAC-CTTCAATTTACAACATT
* * * *
57576563 TAAACACTTCAATTTACAGCATTTTAACGCTTCAATTCACATCATT
1 TAAACACTTCAATTTGCAGCACTTTAAC-CTTCAATTTACAACATT
* * *
57576609 TAAACACTTCAATTTGCAACACTTTAGCACTTCAATTTACAGCATT
1 TAAACACTTCAATTTGCAGCACTTTAAC-CTTCAATTTACAACATT
* *
57576655 T-AACACTTCAATTTGCAGCACTTTAACATCTCAATTAACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAACCT-TCAATTTACAACATT
* * ** * * * **
57576700 TATACACCTCAATTAT--AGCGA-TAAAACATCTCAATTTCCAGCAAC
1 TAAACACTTCAATT-TGCAGC-ACTTTAACCT-TCAATTTACAACATT
* * * * *
57576745 TAAACAATTCAACTTGCAGTACTTAAAACACTTCAATTTATAACATT
1 TAAACACTTCAATTTGCAGCACTT-TAAC-CTTCAATTTACAACATT
* *
57576792 TAAAAACTTCAATTTGCAGCACTTTAACACTTCAATTCACAACATT
1 TAAACACTTCAATTTGCAGCACTTTAAC-CTTCAATTTACAACATT
* ** * *
57576838 TAAACAGTACTTCAATGTGCAATACTTTAACACTTCAAATTAAAACATT
1 TAAAC---ACTTCAATTTGCAGCACTTTAAC-CTTCAATTTACAACATT
*
57576887 TAAACACTTCAATTTGTAGCACTTTAACATCTT-AA-TTAGCAACATT
1 TAAACACTTCAATTTGCAGCACTTTAAC--CTTCAATTTA-CAACATT
*
57576933 TATACAC
1 TAAACAC
57576940 CTGAATTACA
Statistics
Matches: 301, Mismatches: 62, Indels: 29
0.77 0.16 0.07
Matches are distributed among these distances:
44 2 0.01
45 72 0.24
46 128 0.43
47 58 0.19
48 1 0.00
49 40 0.13
ACGTcount: A:0.39, C:0.22, G:0.05, T:0.33
Consensus pattern (45 bp):
TAAACACTTCAATTTGCAGCACTTTAACCTTCAATTTACAACATT
Found at i:57576843 original size:23 final size:23
Alignment explanation
Indices: 57576541--57577104 Score: 250
Period size: 23 Copynumber: 24.5 Consensus size: 23
57576531 GCAGTACTTA
57576541 AAACACTTCAATTTACAACATTT
1 AAACACTTCAATTTACAACATTT
*
57576564 AAACACTTCAATTTACAGCATTT
1 AAACACTTCAATTTACAACATTT
* * * *
57576587 TAACGCTTCAATTCACATCATTT
1 AAACACTTCAATTTACAACATTT
*
57576610 AAACACTTCAATTTGCAACACTTT
1 AAACACTTCAATTTACAACA-TTT
* *
57576634 -AGCACTTCAATTTACAGCATTT
1 AAACACTTCAATTTACAACATTT
* *
57576656 -AACACTTCAATTTGCAGCACTTT
1 AAACACTTCAATTTACAACA-TTT
*
57576679 -AACA-TCTCAATTAACAACATTT
1 AAACACT-TCAATTTACAACATTT
* * * * *
57576701 ATACACCTCAA-TTATAGCGA-TA
1 AAACACTTCAATTTACAAC-ATTT
* * **
57576723 AAACA-TCTCAATTTCCAGCAACT
1 AAACACT-TCAATTTACAACATTT
* * * *
57576746 AAACAATTCAACTTGCAGTAC-TTA
1 AAACACTTCAATTTACA--ACATTT
*
57576770 AAACACTTCAATTTATAACATTT
1 AAACACTTCAATTTACAACATTT
* * *
57576793 AAAAACTTCAATTTGCAGCACTTT
1 AAACACTTCAATTTACAACA-TTT
*
57576817 -AACACTTCAATTCACAACATTT
1 AAACACTTCAATTTACAACATTT
* * *
57576839 AAACAGTACTTCAATGTGCAATACTTT
1 AAAC---ACTTCAATTTACAACA-TTT
* *
57576866 -AACACTTCAAATTAAAACATTT
1 AAACACTTCAATTTACAACATTT
** *
57576888 AAACACTTCAATTTGTAGCACTTT
1 AAACACTTCAATTTACAACA-TTT
57576912 -AACATCTT-AA-TTAGCAACATTT
1 AAACA-CTTCAATTTA-CAACATTT
* * * * * *
57576934 ATACACCTGAA-TTACAGCAATA
1 AAACACTTCAATTTACAACATTT
* **
57576956 AAACA-TCTCAATTT-CTAGCAACT
1 AAACACT-TCAATTTAC-AACATTT
* *
57576979 AAGCACTTCAATTTACAACATGT
1 AAACACTTCAATTTACAACATTT
** * *
57577002 GTACACTTCAATTTGCAGCACTTT
1 AAACACTTCAATTTACAACA-TTT
* *
57577026 -AACA-TCTCAATTAACAACGTTT
1 AAACACT-TCAATTTACAACATTT
* * * *
57577048 ATACACCTCAATTTACAGA-AATA
1 AAACACTTCAATTTACA-ACATTT
* **
57577071 AAACATTTCAATTT-CAAGCAACT
1 AAACACTTCAATTTACAA-CATTT
57577094 AAACACTTCAA
1 AAACACTTCAA
57577105 ATTGCAGTAC
Statistics
Matches: 402, Mismatches: 102, Indels: 74
0.70 0.18 0.13
Matches are distributed among these distances:
21 1 0.00
22 72 0.18
23 279 0.69
24 31 0.08
25 1 0.00
26 15 0.04
27 3 0.01
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (23 bp):
AAACACTTCAATTTACAACATTT
Found at i:57577625 original size:15 final size:15
Alignment explanation
Indices: 57577605--57577637 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
57577595 GTGTTTTAAG
57577605 ACAACATAAATACTT
1 ACAACATAAATACTT
*
57577620 ACAACATGAATACTT
1 ACAACATAAATACTT
57577635 ACA
1 ACA
57577638 TTTTAATCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.21, G:0.03, T:0.24
Consensus pattern (15 bp):
ACAACATAAATACTT
Found at i:57579354 original size:24 final size:24
Alignment explanation
Indices: 57579310--57579372 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
57579300 TCTCTGTGAG
* *
57579310 CTTCCTGATATGGTTCTTTATGAA
1 CTTCCCGATATGGCTCTTTATGAA
*
57579334 CTTCCCGATTATGGCTC-TTATGAG
1 CTTCCCGA-TATGGCTCTTTATGAA
**
57579358 CTTATCGATATGGCT
1 CTTCCCGATATGGCT
57579373 ATGTCTGAGC
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
23 7 0.21
24 19 0.58
25 7 0.21
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (24 bp):
CTTCCCGATATGGCTCTTTATGAA
Found at i:57589523 original size:8 final size:8
Alignment explanation
Indices: 57589510--57589536 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
57589500 GGAAATCGGC
57589510 AAAAGCCG
1 AAAAGCCG
57589518 AAAAGCCG
1 AAAAGCCG
57589526 AAAAGCCG
1 AAAAGCCG
57589534 AAA
1 AAA
57589537 CTTCGACATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.56, C:0.22, G:0.22, T:0.00
Consensus pattern (8 bp):
AAAAGCCG
Found at i:57590333 original size:23 final size:23
Alignment explanation
Indices: 57590280--57590335 Score: 94
Period size: 23 Copynumber: 2.4 Consensus size: 23
57590270 ACGTTTACCG
57590280 CTATTAGCAGCTTTGCTGTGTTA
1 CTATTAGCAGCTTTGCTGTGTTA
*
57590303 CTACTAGCAGCTTTGCTGTGTTA
1 CTATTAGCAGCTTTGCTGTGTTA
*
57590326 CTTTTAGCAG
1 CTATTAGCAG
57590336 TTACGCTGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (23 bp):
CTATTAGCAGCTTTGCTGTGTTA
Found at i:57591320 original size:21 final size:21
Alignment explanation
Indices: 57591279--57591322 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57591269 AAGTTGTTTA
*
57591279 TCTATCAAAAACTTTTCATTT
1 TCTATCAAAAACTTTTAATTT
*
57591300 TCTATCATAAA-TTTTAAATTT
1 TCTATCAAAAACTTTT-AATTT
57591321 TC
1 TC
57591323 AGCATATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (21 bp):
TCTATCAAAAACTTTTAATTT
Found at i:57596674 original size:2 final size:2
Alignment explanation
Indices: 57596667--57596695 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
57596657 AATTGAGTTG
57596667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
57596696 GTGTGTGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:57596700 original size:2 final size:2
Alignment explanation
Indices: 57596695--57596728 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57596685 TATATATATA
57596695 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
57596729 ATGCTAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:57596943 original size:44 final size:42
Alignment explanation
Indices: 57596890--57597038 Score: 156
Period size: 43 Copynumber: 3.5 Consensus size: 42
57596880 CGATATGTGT
*
57596890 TTTCGTGTAAGACCACGTCTAGGACATTGACATCGATTTATGA
1 TTTCGTGTAAGACCACGTCTAGGACATTGACATC-ATATATGA
* *
57596933 TTTACGTGTAAGACCATGTCTAGGACATTGGCATCATATATGA
1 TTT-CGTGTAAGACCACGTCTAGGACATTGACATCATATATGA
* * * * * *
57596976 TTTCGTGTAAGACC-CTGCCTGGGGCAGTGTCATCAATATTTGA
1 TTTCGTGTAAGACCAC-GTCTAGGACATTGACATC-ATATATGA
* *
57597019 TTACATGTAAGACCACGTCT
1 TTTCGTGTAAGACCACGTCT
57597039 GAGACGTTGG
Statistics
Matches: 89, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 24 0.27
43 35 0.39
44 30 0.34
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.32
Consensus pattern (42 bp):
TTTCGTGTAAGACCACGTCTAGGACATTGACATCATATATGA
Found at i:57603641 original size:43 final size:41
Alignment explanation
Indices: 57603573--57603720 Score: 163
Period size: 43 Copynumber: 3.5 Consensus size: 41
57603563 TGTGTTTTCG
*
57603573 TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGTGATTACA
1 TGTAAGACCATGTCTGGGAC-TTGGCATCGATTT-TGATTACA
* * * *
57603616 TGTAAGACCATGTCTAGGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTGGGAC-TTGGCATCGAT-TTTGATTACA
* **
57603658 TGTAAGACCCTGTCTGGGACTGTGTTATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACT-TGGCATCGAT-TTTGATTACA
57603701 TGTAAGACCATGTCTGGGAC
1 TGTAAGACCATGTCTGGGAC
57603721 GTTCACATTG
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 31 0.35
43 56 0.64
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (41 bp):
TGTAAGACCATGTCTGGGACTTGGCATCGATTTTGATTACA
Found at i:57613859 original size:138 final size:139
Alignment explanation
Indices: 57613692--57613949 Score: 351
Period size: 138 Copynumber: 1.9 Consensus size: 139
57613682 TTATGAGAGC
* ** *
57613692 CAGTGTAAGACCATGTTTGGGACATGGCATCGGCATTGAGACGAGTGCTACTTTAAGACATGTCT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCAGCACGGAGACGAGTGCTACTGTAAGACATGTCT
* * * * *
57613757 GGGACATGCAT-TGACCTCA-GGATGTAAGCCAGTGTAAGA-CATGTCTGGGACATGCATCGACT
66 AGGACATGCATCAG-CCACATCG-TGAAAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACT
57613819 ACGAGATGTGT
129 ACGAGATGTGT
* * * *
57613830 CAGTGTAAGACCATGTTTGGGACATGGCATCAGCACGGATATGTGTGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTTTGGGACATGGCATCAGCACGGAGACGAGTGCTACTGTAAGACATGTCT
*
57613895 AGGACATGCATCAGCCACATCGTGAAAGCTAGTGTAAGACCATGTCTGGGACATG
66 AGGACATGCATCAGCCACATCGTGAAAGCCAGTGTAAGACCATGTCTGGGACATG
57613950 GCTTGATATG
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
138 86 0.83
139 17 0.17
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (139 bp):
CAGTGTAAGACCATGTTTGGGACATGGCATCAGCACGGAGACGAGTGCTACTGTAAGACATGTCT
AGGACATGCATCAGCCACATCGTGAAAGCCAGTGTAAGACCATGTCTGGGACATGCATCGACTAC
GAGATGTGT
Found at i:57613907 original size:46 final size:44
Alignment explanation
Indices: 57613745--57613909 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 44
57613735 AGTGCTACTT
* * *
57613745 TAAGACATGTCTGGGACATGCATTGACCT-C-AGGATGTAAGCCAGTG
1 TAAGACATGTCTGGGACATGCA-TCAGCTACGA-GATGT--GTCAGTG
57613791 TAAGACATGTCTGGGACATGCATC-GACTACGAGATGTGTCAGTG
1 TAAGACATGTCTGGGACATGCATCAG-CTACGAGATGTGTCAGTG
* *
57613835 TAAGACCATGTTTGGGACATGGCATCAGC-ACGGATATGTGTGCTAGTG
1 TAAGA-CATGTCTGGGACAT-GCATCAGCTAC-GAGATGTGT-C-AGTG
*
57613883 TAAGACATGTCTAGGACATGCATCAGC
1 TAAGACATGTCTGGGACATGCATCAGC
57613910 CACATCGTGA
Statistics
Matches: 103, Mismatches: 7, Indels: 18
0.80 0.05 0.14
Matches are distributed among these distances:
44 11 0.11
45 18 0.17
46 50 0.49
47 15 0.15
48 9 0.09
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (44 bp):
TAAGACATGTCTGGGACATGCATCAGCTACGAGATGTGTCAGTG
Found at i:57623848 original size:40 final size:40
Alignment explanation
Indices: 57623799--57624006 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
57623789 TCTTCGGAAT
* * *
57623799 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
57623838 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
57623878 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
57623918 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
57623958 TTAGCCCGGATATAATCGCTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
57623998 TTAGCCCGG
1 TTAGCCCGG
57624007 GTATCATTCA
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:57635263 original size:40 final size:40
Alignment explanation
Indices: 57635214--57635421 Score: 249
Period size: 40 Copynumber: 5.2 Consensus size: 40
57635204 TCTTCGGAAT
* * *
57635214 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
57635253 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
57635293 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* *
57635333 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * *
57635373 TTAGCCCGGATATAATCGCTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
57635413 TTAGCCCGG
1 TTAGCCCGG
57635422 GTATCATTCA
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.02
40 141 0.97
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:57639654 original size:32 final size:32
Alignment explanation
Indices: 57639588--57639654 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
57639578 TTAAAAATCT
*
57639588 AAAGTTAAAATATATTATAATATTATTACTTA
1 AAAGTTAAAATATATTATAATATTATTACATA
*
57639620 AAAGTT-AAGTATATTATATATATTATATA-ATA
1 AAAGTTAAAATATATTATA-ATATTAT-TACATA
57639652 AAA
1 AAA
57639655 ACAAACAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
31 11 0.35
32 18 0.58
33 2 0.06
ACGTcount: A:0.52, C:0.01, G:0.04, T:0.42
Consensus pattern (32 bp):
AAAGTTAAAATATATTATAATATTATTACATA
Found at i:57640627 original size:25 final size:25
Alignment explanation
Indices: 57640599--57640733 Score: 133
Period size: 25 Copynumber: 5.6 Consensus size: 25
57640589 ACTTTAGCGC
*
57640599 GCTCTCTGATTATTAGTACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
57640624 GCTCTATGATTATTAGCACGCTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
57640649 GTTCTCCGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTTAGT
* *
57640674 GCTCTCT-A-T-TTAGCACATTCGT
1 GCTCTCTGATTATTAGCACGTTAGT
57640696 GCTCTCTG--TA-TAGCAC-TTCAGT
1 GCTCTCTGATTATTAGCACGTT-AGT
57640718 GCTCTCT-ATTCATTAG
1 GCTCTCTGATT-ATTAG
57640734 TGCATAATAA
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.02
22 34 0.37
23 2 0.02
24 2 0.02
25 51 0.56
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:57640689 original size:22 final size:22
Alignment explanation
Indices: 57640611--57640727 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 22
57640601 TCTCTGATTA
* *
57640611 TTAGTACGTTAGTGCTCTATGATT
1 TTAGCACGTTAGTGCTCTCT-A-T
* * *
57640635 ATTAGCACGCTAGTGTTCTCCGATT
1 -TTAGCACGTTAGTGCTCT-CTA-T
57640660 ATTAGCACGTTAGTGCTCTCTAT
1 -TTAGCACGTTAGTGCTCTCTAT
* * *
57640683 TTAGCACATTCGTGCTCTCTGT
1 TTAGCACGTTAGTGCTCTCTAT
*
57640705 ATAGCAC-TTCAGTGCTCTCTAT
1 TTAGCACGTT-AGTGCTCTCTAT
57640727 T
1 T
57640728 CATTAGTGCA
Statistics
Matches: 75, Mismatches: 15, Indels: 7
0.77 0.15 0.07
Matches are distributed among these distances:
21 2 0.03
22 35 0.47
23 1 0.01
24 2 0.03
25 35 0.47
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.40
Consensus pattern (22 bp):
TTAGCACGTTAGTGCTCTCTAT
Found at i:57640848 original size:31 final size:31
Alignment explanation
Indices: 57640811--57640873 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
57640801 AAGAATATGA
*
57640811 GATAGTGAATTGAAAATAGAAGGTGAAATAT
1 GATAGTGAATTGAAAATAGAAAGTGAAATAT
57640842 GATAGTGAATTGAAAATAGAAAGTGAAATAT
1 GATAGTGAATTGAAAATAGAAAGTGAAATAT
57640873 G
1 G
57640874 TTGTAAATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.25, T:0.25
Consensus pattern (31 bp):
GATAGTGAATTGAAAATAGAAAGTGAAATAT
Found at i:57640866 original size:18 final size:18
Alignment explanation
Indices: 57640814--57640868 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
57640804 AATATGAGAT
57640814 AGTGAATTGAAAATAG-A
1 AGTGAATTGAAAATAGAA
*
57640831 AG-G---TG-AAATATGAT
1 AGTGAATTGAAAATA-GAA
57640845 AGTGAATTGAAAATAGAA
1 AGTGAATTGAAAATAGAA
57640863 AGTGAA
1 AGTGAA
57640869 ATATGTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 13
0.66 0.05 0.30
Matches are distributed among these distances:
12 5 0.17
13 3 0.10
14 2 0.07
15 1 0.03
16 1 0.03
17 2 0.07
18 10 0.34
19 5 0.17
ACGTcount: A:0.51, C:0.00, G:0.25, T:0.24
Consensus pattern (18 bp):
AGTGAATTGAAAATAGAA
Found at i:57641421 original size:18 final size:19
Alignment explanation
Indices: 57641383--57641421 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
57641373 GACGATATGA
*
57641383 TTAAATTATGATGTGAATG
1 TTAAATAATGATGTGAATG
*
57641402 TTAAATAATTATGT-AATG
1 TTAAATAATGATGTGAATG
57641420 TT
1 TT
57641422 TGTATTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (19 bp):
TTAAATAATGATGTGAATG
Done.