Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 197 of 216
Found at i:61202081 original size:21 final size:20
Alignment explanation
Indices: 61202030--61202081 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
61202020 AATTTTTTAT
*
61202030 TTTTTATTTTTTATTATA-C
1 TTTTTATTTTTTATTATATA
*
61202049 TTTTTAGTTTTTTTTTTATATA
1 TTTTTA--TTTTTTATTATATA
61202071 TTTTCTATTTT
1 TTTT-TATTTT
61202082 GGTCAGAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 6 0.22
21 15 0.56
22 4 0.15
23 2 0.07
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (20 bp):
TTTTTATTTTTTATTATATA
Found at i:61202382 original size:23 final size:24
Alignment explanation
Indices: 61202322--61202384 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
61202312 TTATTGATAT
61202322 TGTTCGTGAACATGTTCAATTATA
1 TGTTCGTGAACATGTTCAATTATA
* *
61202346 TGTTCATGAACATGTTCATTTA-A
1 TGTTCGTGAACATGTTCAATTATA
* *
61202369 TGTTCGCGACCATGTT
1 TGTTCGTGAACATGTT
61202385 TGATTAAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 14 0.41
24 20 0.59
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.41
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCAATTATA
Found at i:61202934 original size:26 final size:27
Alignment explanation
Indices: 61202905--61202984 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 27
61202895 AGAATATCAT
*
61202905 TTAAAAATTATGAAACA-TTTAAAA-AA
1 TTAAAAATT-TGAAAAATTTTAAAATAA
* *
61202931 TTAAAAATTTTAAAAATTTTAAAATCA
1 TTAAAAATTTGAAAAATTTTAAAATAA
*
61202958 TTAAAAATTTAGAAAATTTTTGAAAAT
1 TTAAAAATTT-GAAAAATTTT-AAAAT
61202985 TCACAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
25 5 0.11
26 16 0.36
27 11 0.24
28 8 0.18
29 5 0.11
ACGTcount: A:0.56, C:0.03, G:0.04, T:0.38
Consensus pattern (27 bp):
TTAAAAATTTGAAAAATTTTAAAATAA
Found at i:61202954 original size:8 final size:9
Alignment explanation
Indices: 61202904--61202977 Score: 57
Period size: 8 Copynumber: 8.3 Consensus size: 9
61202894 CAGAATATCA
61202904 TTTAAAAAT
1 TTTAAAAAT
* *
61202913 TATGAAACA-
1 T-TTAAAAAT
61202922 TTTAAAAA-
1 TTTAAAAAT
*
61202930 ATTAAAAAT
1 TTTAAAAAT
61202939 TTTAAAAAT
1 TTTAAAAAT
61202948 TTT-AAAAT
1 TTTAAAAAT
*
61202956 CATTAAAAA-
1 -TTTAAAAAT
61202965 TTTAGAAAAT
1 TTTA-AAAAT
61202975 TTT
1 TTT
61202978 TGAAAATTCA
Statistics
Matches: 51, Mismatches: 8, Indels: 11
0.73 0.11 0.16
Matches are distributed among these distances:
8 20 0.39
9 19 0.37
10 12 0.24
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:61202967 original size:18 final size:19
Alignment explanation
Indices: 61202900--61202967 Score: 72
Period size: 18 Copynumber: 3.8 Consensus size: 19
61202890 ACATCAGAAT
* *
61202900 ATCATTTAAAAATTATGAA
1 ATCATTTAAAAATTTTAAA
* *
61202919 A-CATTTAAAAAATTAAAA
1 ATCATTTAAAAATTTTAAA
61202937 AT--TTTAAAAATTTTAAA
1 ATCATTTAAAAATTTTAAA
61202954 ATCA-TTAAAAATTT
1 ATCATTTAAAAATTT
61202968 AGAAAATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
17 15 0.38
18 24 0.60
19 1 0.03
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (19 bp):
ATCATTTAAAAATTTTAAA
Found at i:61204702 original size:21 final size:21
Alignment explanation
Indices: 61204597--61204710 Score: 84
Period size: 21 Copynumber: 5.4 Consensus size: 21
61204587 TTTAACTCAC
* *
61204597 ATGAGTTTCTGTTCAACCCTA
1 ATGAGTTTCCGTTCAACCCTT
* * * *
61204618 ATGGGTTTCCCTTCAGCTCTT
1 ATGAGTTTCCGTTCAACCCTT
* * ** *
61204639 TTGAGCTTATGTTTAACCCTT
1 ATGAGTTTCCGTTCAACCCTT
* * *
61204660 ATGGGTTTCCGTTCAGCTCTT
1 ATGAGTTTCCGTTCAACCCTT
*
61204681 ATGAGCTTCCGTTCAACCCTT
1 ATGAGTTTCCGTTCAACCCTT
*
61204702 ACGAGTTTC
1 ATGAGTTTC
61204711 AGTTTAGCAC
Statistics
Matches: 64, Mismatches: 29, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 64 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (21 bp):
ATGAGTTTCCGTTCAACCCTT
Found at i:61204710 original size:42 final size:42
Alignment explanation
Indices: 61204597--61204735 Score: 161
Period size: 42 Copynumber: 3.3 Consensus size: 42
61204587 TTTAACTCAC
* * *
61204597 ATGAGTTTCTGTTCAACCCTAATGGGTTTCCCTTCAGCTCTT
1 ATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
* * *
61204639 TTGAGCTTATGTTTAACCCTTATGGGTTTCCGTTCAGCTCTT
1 ATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
* * * * * *
61204681 ATGAGCTTCCGTTCAACCCTTACGAGTTTCAGTTTAGCACTT
1 ATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
*
61204723 ATGTGCTTCTGTT
1 ATGAGCTTCTGTT
61204736 TAGCCTTCAG
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 80 1.00
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (42 bp):
ATGAGCTTCTGTTCAACCCTTATGGGTTTCCGTTCAGCTCTT
Found at i:61208509 original size:20 final size:20
Alignment explanation
Indices: 61208463--61208509 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
61208453 TACGGACTAA
*
61208463 ATTGAAAAGATTTAAAATTT
1 ATTGAAAAAATTTAAAATTT
*
61208483 ATGGAAAAAATTCT-AAATTT
1 ATTGAAAAAATT-TAAAATTT
*
61208503 TTTGAAA
1 ATTGAAA
61208510 TACATGGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 21 0.95
21 1 0.05
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATTGAAAAAATTTAAAATTT
Found at i:61209154 original size:74 final size:74
Alignment explanation
Indices: 61209037--61209176 Score: 176
Period size: 74 Copynumber: 1.9 Consensus size: 74
61209027 CTCATGAGCA
* * * * *
61209037 TCTCGATATTTGGCTCTTATGAGCTTCCTATTATATGATTCTTACGAGCTTCCCGTTTACGGCTC
1 TCTCGATAATTGGCTCTTATGAGCTTCCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
61209102 TTCAGAGTT
66 TTCAGAGTT
* * *
61209111 TCTCGATAATTGGCTCTTCA-GAGCTTCCCGA-TAAATGGCTCTTATGAGCTTCCCGTTAATGGC
1 TCTCGATAATTGGCTCTT-ATGAGCTT-CCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGC
61209174 TCT
64 TCT
61209177 CTGGAGCTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
74 52 0.93
75 4 0.07
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.39
Consensus pattern (74 bp):
TCTCGATAATTGGCTCTTATGAGCTTCCGATTAAATGACTCTTACGAGCTTCCCGTTAACGGCTC
TTCAGAGTT
Found at i:61209174 original size:49 final size:48
Alignment explanation
Indices: 61209047--61209212 Score: 113
Period size: 49 Copynumber: 3.4 Consensus size: 48
61209037 TCTCGATATT
** ** **
61209047 TGGCTCTTATGAGCTTCCTATTATATGATTCTT-ACGAGCTTCCCGTTTA
1 TGGCTCTTATGAGCTTCCCGTTA-ATGGCTCTTCA-GAGCTTCCCGTAAA
* * * *
61209096 CGGCTCTTCA-GAGTTTCTCGATAATTGGCTCTTCAGAGCTTCCCGATAAA
1 TGGCTCTT-ATGAGCTTCCCGTTAA-TGGCTCTTCAGAGCTTCCCG-TAAA
* * *
61209146 TGGCTCTTATGAGCTTCCCGTTAATGGCTC-TCTGGAGCTTCCTGTTACA
1 TGGCTCTTATGAGCTTCCCGTTAATGGCTCTTC-AGAGCTTCCCG-TAAA
**
61209195 TGGCTCACATGAGCTTCC
1 TGGCTCTTATGAGCTTCC
61209213 TGCTATATGG
Statistics
Matches: 91, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
48 3 0.03
49 66 0.73
50 22 0.24
ACGTcount: A:0.18, C:0.26, G:0.20, T:0.36
Consensus pattern (48 bp):
TGGCTCTTATGAGCTTCCCGTTAATGGCTCTTCAGAGCTTCCCGTAAA
Found at i:61209208 original size:25 final size:24
Alignment explanation
Indices: 61209013--61209265 Score: 109
Period size: 25 Copynumber: 10.2 Consensus size: 24
61209003 CGAAAGACCA
* * *
61209013 TCCCGTTATTAGCTCTCATGAGCA
1 TCCCGTTAATGGCTCTCATGAGCT
* * * *
61209037 TCTCGATATTTGGCTCTTATGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
** ** * *
61209062 TCCTATTATATGATTCTTACGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
* * *
61209087 TCCCGTTTACGGCTCTTCA-GAGTT
1 TCCCGTTAATGGCTC-TCATGAGCT
* *
61209111 TCTCGATAATTGGCTCTTCA-GAGCT
1 TCCCGTTAA-TGGCTC-TCATGAGCT
* *
61209136 TCCCGATAAATGGCTCTTATGAGCT
1 TCCCG-TTAATGGCTCTCATGAGCT
61209161 TCCCGTTAATGGCTCTC-TGGAGCT
1 TCCCGTTAATGGCTCTCAT-GAGCT
* *
61209185 TCCTGTTACATGGCTCACATGAGCT
1 TCCCGTTA-ATGGCTCTCATGAGCT
* * * ** * *
61209210 TCCTGCTATATGGATCGAAAGAACT
1 TCCCGTTA-ATGGCTCTCATGAGCT
61209235 TCCCGTTAATGTGCTCAT-ATGAGCAT
1 TCCCGTTAATG-GCTC-TCATGAGC-T
61209261 TCCCG
1 TCCCG
61209266 AATATGAATT
Statistics
Matches: 171, Mismatches: 47, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
23 1 0.01
24 47 0.27
25 114 0.67
26 9 0.05
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.35
Consensus pattern (24 bp):
TCCCGTTAATGGCTCTCATGAGCT
Found at i:61213358 original size:18 final size:17
Alignment explanation
Indices: 61213325--61213363 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
61213315 TTGTATAAAT
61213325 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
61213343 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
61213360 TGTG
1 TGTG
61213364 GAAGGAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:61213495 original size:8 final size:8
Alignment explanation
Indices: 61213482--61213510 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
61213472 CACTAGAGAC
61213482 CAGTGTTA
1 CAGTGTTA
61213490 CAGTGTTA
1 CAGTGTTA
61213498 CAGTGTTA
1 CAGTGTTA
61213506 CAGTG
1 CAGTG
61213511 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:61213624 original size:23 final size:23
Alignment explanation
Indices: 61213597--61213669 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
61213587 AGTGTTATTG
61213597 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
61213620 TTCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61213643 ATCAGTGATAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
61213666 ATCA
1 ATCA
61213670 ATGTGGCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:61215256 original size:63 final size:62
Alignment explanation
Indices: 61215169--61215307 Score: 163
Period size: 62 Copynumber: 2.2 Consensus size: 62
61215159 CGGTCTGGGT
* * * *
61215169 ACACGCCTGTGTCCCTGAACGTGTGG-CTTTTATACCACAAACAGTGAGTTACACGGCCTCGAC
1 ACACGCCCGTGTCCCTGAACGTGTGGTCTTGT-T-CCACAAACAGTGAATTACACGGCCTAGAC
* * ** * *
61215232 ACTCGCTCGTGTCCCTGGCCGTGTGGTCTTGTTCCTCAAACAGTGAATTGCACGGCCTAGAC
1 ACACGCCCGTGTCCCTGAACGTGTGGTCTTGTTCCACAAACAGTGAATTACACGGCCTAGAC
61215294 ACACGCCCGTGTCC
1 ACACGCCCGTGTCC
61215308 GTTGCCTGTG
Statistics
Matches: 63, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 37 0.59
63 22 0.35
64 4 0.06
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.24
Consensus pattern (62 bp):
ACACGCCCGTGTCCCTGAACGTGTGGTCTTGTTCCACAAACAGTGAATTACACGGCCTAGAC
Found at i:61216249 original size:14 final size:13
Alignment explanation
Indices: 61216216--61216241 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61216206 AGACTTTAAA
61216216 CACAAAACCAGAG
1 CACAAAACCAGAG
61216229 CACAAAACCAGAG
1 CACAAAACCAGAG
61216242 ATACAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.15, T:0.00
Consensus pattern (13 bp):
CACAAAACCAGAG
Found at i:61220571 original size:30 final size:30
Alignment explanation
Indices: 61220535--61220794 Score: 307
Period size: 30 Copynumber: 8.7 Consensus size: 30
61220525 GTATATGTTT
*
61220535 TATATATTGTCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
61220565 TATATATTGCCGAATTAATTT-T-TAT--A
1 TATATATTGCCGAATTGATTTGTATATGGA
*
61220591 TATATA--GCCGAATTGATTTGTATGTGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* **
61220619 TATACATTGTTGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
61220649 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
*
61220679 TATACATTGCCGAATTGATTTGTATATGGA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * * *
61220709 TATACATTACCGAATTGATTTTTATATGTA
1 TATATATTGCCGAATTGATTTGTATATGGA
* * *
61220739 TATATATTGCCGAAATAATTTGTATATGTATACA
1 TATATATTGCCGAATTGATTTGTATATG----GA
61220773 TATATATTGCCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
61220795 AGCATTGGAT
Statistics
Matches: 199, Mismatches: 21, Indels: 16
0.84 0.09 0.07
Matches are distributed among these distances:
24 12 0.06
25 1 0.01
26 9 0.05
28 9 0.05
29 1 0.01
30 146 0.73
34 21 0.11
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.44
Consensus pattern (30 bp):
TATATATTGCCGAATTGATTTGTATATGGA
Found at i:61220595 original size:24 final size:24
Alignment explanation
Indices: 61220564--61220609 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
61220554 TTGTATATGG
*
61220564 ATATATATTGCCGAATTAATTTTT
1 ATATATATAGCCGAATTAATTTTT
*
61220588 ATATATATAGCCGAATTGATTT
1 ATATATATAGCCGAATTAATTT
61220610 GTATGTGGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.46
Consensus pattern (24 bp):
ATATATATAGCCGAATTAATTTTT
Found at i:61229415 original size:42 final size:43
Alignment explanation
Indices: 61229356--61229490 Score: 122
Period size: 42 Copynumber: 3.2 Consensus size: 43
61229346 ATACCAACGC
* *
61229356 CCCAGAC-GTGTTCTTACATGTAATCAATATCGATGCC-ACTGT
1 CCCAGACAGGGTT-TTACATGAAATCAATATCGATGCCAACTGT
* *
61229398 CCCAGACAGGGTTTTACACGAAATCAAATAT-GATGCCGA-TGT
1 CCCAGACAGGGTTTTACATGAAATC-AATATCGATGCCAACTGT
*
61229440 CCCAGACATGGTCTTATACAT-AAATCTCAA-ATCGATGCCAAC-GT
1 CCCAGACAGGGT-TT-TACATGAAA--TCAATATCGATGCCAACTGT
61229484 CCCAGAC
1 CCCAGAC
61229491 GTGGTCTTAC
Statistics
Matches: 78, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
42 37 0.47
43 17 0.22
44 22 0.28
45 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
CCCAGACAGGGTTTTACATGAAATCAATATCGATGCCAACTGT
Found at i:61229486 original size:44 final size:42
Alignment explanation
Indices: 61229377--61229499 Score: 117
Period size: 44 Copynumber: 2.8 Consensus size: 42
61229367 TCTTACATGT
*
61229377 AATCAATATCGATGCCACTGTCCCAGACAGGGT-TT-TACACGA
1 AATCAA-ATCGATGCCAC-GTCCCAGACATGGTCTTATACACGA
* * *
61229419 AATCAAATATGATGCCGATGTCCCAGACATGGTCTTATACA-TA
1 AATCAAAT-CGATGCC-ACGTCCCAGACATGGTCTTATACACGA
*
61229462 AATCTCAAATCGATGCCAACGTCCCAGACGTGGTCTTA
1 AA--TCAAATCGATGCC-ACGTCCCAGACATGGTCTTA
61229500 CACGATAACA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
41 2 0.03
42 25 0.37
43 6 0.09
44 28 0.42
45 6 0.09
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
AATCAAATCGATGCCACGTCCCAGACATGGTCTTATACACGA
Found at i:61230673 original size:14 final size:15
Alignment explanation
Indices: 61230654--61230682 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61230644 TCACGAAACT
61230654 TTCACACAT-ATAAA
1 TTCACACATAATAAA
61230668 TTCACACATAATAAA
1 TTCACACATAATAAA
61230683 CACAGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:61231390 original size:30 final size:30
Alignment explanation
Indices: 61231365--61231657 Score: 307
Period size: 30 Copynumber: 9.4 Consensus size: 30
61231355 ATATATTTTT
* **
61231365 GAATTGATTTGTATATGGATATATATATTTTC
1 GAATTGATTTGTATATGG--ATATACATTGCC
* * *
61231397 GAATTAATTTGTATATAGATAAATATATATATAGCC
1 GAATTGATTTGTATAT-G---GATATACAT-T-GCC
* ***
61231433 GAATTGATTTGTATATGAATATACATTATT
1 GAATTGATTTGTATATGGATATACATTGCC
*
61231463 GAATTGATTTGTTTATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
61231493 GAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
*
61231523 AAATTGATTTGTATATGGATATACATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
61231553 GAATTGATTTGTATATAGATATACATTACC
1 GAATTGATTTGTATATGGATATACATTGCC
* *
61231583 GAATTGATTTGTATATGTATATATATTGCC
1 GAATTGATTTGTATATGGATATACATTGCC
* * *
61231613 GAAATGATTTGTATATGTATACATATATATTGCC
1 GAATTGATTTGTATATG----GATATACATTGCC
61231647 GAATTGATTTG
1 GAATTGATTTG
61231658 AGCATTGGAT
Statistics
Matches: 225, Mismatches: 26, Indels: 18
0.84 0.10 0.07
Matches are distributed among these distances:
30 152 0.68
31 1 0.00
32 23 0.10
33 1 0.00
34 30 0.13
35 2 0.01
36 16 0.07
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (30 bp):
GAATTGATTTGTATATGGATATACATTGCC
Found at i:61237555 original size:24 final size:24
Alignment explanation
Indices: 61237526--61237581 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
61237516 TTATATAATA
*
61237526 GGAAGCTCATAAGAGCC-ATAATTG
1 GGAAGCTCATAAGAGCCTAT-ATCG
**
61237550 GGAAGCTCATGCGAGCCTATATCG
1 GGAAGCTCATAAGAGCCTATATCG
61237574 GGAAGCTC
1 GGAAGCTC
61237582 CAGGAGCCAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 26 0.93
25 2 0.07
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATAAGAGCCTATATCG
Found at i:61237745 original size:24 final size:24
Alignment explanation
Indices: 61237711--61237777 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 24
61237701 AAATTGGGAT
*
61237711 GCTCATAAGAGCTATTAAC-GAGAA
1 GCTCATGAGAGCTATTAACAG-GAA
* **
61237735 GCTCATGAGAGCTATATATCAGGGT
1 GCTCATGAGAGCTAT-TAACAGGAA
61237760 GCTCATGAGAGCTATTAA
1 GCTCATGAGAGCTATTAA
61237778 TGGGACGCTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 16 0.44
25 19 0.53
26 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (24 bp):
GCTCATGAGAGCTATTAACAGGAA
Found at i:61242374 original size:126 final size:126
Alignment explanation
Indices: 61242149--61242387 Score: 442
Period size: 126 Copynumber: 1.9 Consensus size: 126
61242139 TTCACAATCT
*
61242149 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATTTTAATAA
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
*
61242214 ATTAGCTCTTCTAGAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
66 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
* *
61242275 CAATATAAGATCCATTATAAATATCTTTTAAAACCAATGGATTAACCATTACAAGATATTAATAT
1 CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
61242340 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAG
66 ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAG
61242388 AATATATTTG
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
126 109 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.38
Consensus pattern (126 bp):
CAATATAAGATCCATTATAAATATATTTTAAAACCAATGGATTAACCATTACAAGATATTAATAA
ATTAGCTCTTCTAAAGCTTTCGACTAATTTTGTACTATCAAATATTAGTATCTTTTAAAAC
Found at i:61246472 original size:22 final size:22
Alignment explanation
Indices: 61246455--61246518 Score: 56
Period size: 22 Copynumber: 2.8 Consensus size: 22
61246445 ATATAATAAC
61246455 GAAATGACAACAAAATAAAAAAAAA
1 GAAATGACAACAAAAT---AAAAAA
* * * *
61246480 GAGATGACAACAAAACAACAAT
1 GAAATGACAACAAAATAAAAAA
*
61246502 GAAATGTCAACAAAATA
1 GAAATGACAACAAAATA
61246519 GAAAGTTTAG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
22 18 0.56
25 14 0.44
ACGTcount: A:0.66, C:0.12, G:0.11, T:0.11
Consensus pattern (22 bp):
GAAATGACAACAAAATAAAAAA
Found at i:61247591 original size:3 final size:3
Alignment explanation
Indices: 61247583--61247612 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61247573 AGTACAAATG
61247583 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
61247613 GACAGGTCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:61249341 original size:42 final size:42
Alignment explanation
Indices: 61249293--61249378 Score: 147
Period size: 42 Copynumber: 2.0 Consensus size: 42
61249283 AAGTTTAATG
*
61249293 TATATAC-CGTGGAAGAAGAGTAATACAAATTGTTTACAACTC
1 TATATACAC-TGGAAGAAGAGGAATACAAATTGTTTACAACTC
61249335 TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
1 TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
61249377 TA
1 TA
61249379 GGAAGTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
42 41 0.98
43 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (42 bp):
TATATACACTGGAAGAAGAGGAATACAAATTGTTTACAACTC
Found at i:61251288 original size:13 final size:14
Alignment explanation
Indices: 61251265--61251291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61251255 GGGAATTGAT
61251265 TTGGGGAAAAAAAG
1 TTGGGGAAAAAAAG
61251279 TTGGGGAAAAAAA
1 TTGGGGAAAAAAA
61251292 TAAAGGAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.33, T:0.15
Consensus pattern (14 bp):
TTGGGGAAAAAAAG
Found at i:61252774 original size:28 final size:28
Alignment explanation
Indices: 61252733--61252980 Score: 363
Period size: 28 Copynumber: 8.9 Consensus size: 28
61252723 GCTGTAACAA
* *
61252733 TGTGGGCCTGAGCCCAGTAACAGTA-CAG
1 TGTGGGCCTTAGCCCAAT-ACAGTATCAG
*
61252761 TGTGGGCCTTAGCCCAATACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* *
61252789 TGTGTGCCTTAGCCCAATACAATATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
*
61252817 TGTGGGCCTTAGCCTAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
61252845 TGTGGGCCTTAGCCCAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* *
61252873 TGTGGACTTTAGCCCAATACAGTATCAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
* * *
61252901 TGTGGGCTTTAGCCCAATACAATATTAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
*
61252929 TGTGGGCCTTAGCCCAATACAGTAACAG
1 TGTGGGCCTTAGCCCAATACAGTATCAG
*
61252957 TGTGGGCCTTAACCCAATACAGTA
1 TGTGGGCCTTAGCCCAATACAGTA
61252981 ACCAATACAG
Statistics
Matches: 200, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
27 6 0.03
28 194 0.97
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.25
Consensus pattern (28 bp):
TGTGGGCCTTAGCCCAATACAGTATCAG
Found at i:61253119 original size:26 final size:26
Alignment explanation
Indices: 61253089--61253152 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
61253079 AACACACTAA
*
61253089 TATCGCAGCATAACTGTCAGTAATAG
1 TATCGCAGCAAAACTGTCAGTAATAG
* *
61253115 TATCGCAACAAAACTGTCGGTAATAG
1 TATCGCAGCAAAACTGTCAGTAATAG
61253141 TATCGCAGCAAA
1 TATCGCAGCAAA
61253153 GCTGCCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (26 bp):
TATCGCAGCAAAACTGTCAGTAATAG
Found at i:61253370 original size:26 final size:27
Alignment explanation
Indices: 61253308--61253510 Score: 229
Period size: 27 Copynumber: 7.6 Consensus size: 27
61253298 GGTATAACAA
* *
61253308 TCATTTTA-CCTGATGGGGGTATTTCGG
1 TCATTTTACCCT-TTGGGGGTATTTCAG
**
61253335 TCATTTTACCCTTTGAAGGTATTTC-G
1 TCATTTTACCCTTTGGGGGTATTTCAG
* *
61253361 TCATTTTACCCTATGAGGGTATTTCAG
1 TCATTTTACCCTTTGGGGGTATTTCAG
61253388 TCATTTTA-CCTTATGGGGGTATTTCAG
1 TCATTTTACCCTT-TGGGGGTATTTCAG
* *
61253415 TCATTTTATCCTTTGGGGGTATTTCAA
1 TCATTTTACCCTTTGGGGGTATTTCAG
*
61253442 TCATTTTACCCTTTGGGGGTAGTTC-G
1 TCATTTTACCCTTTGGGGGTATTTCAG
* *
61253468 ATCATTTTACCATTT-GGGGAATTTCGAG
1 -TCATTTTACCCTTTGGGGGTATTTC-AG
61253496 -CATTTTACCCTTTGG
1 TCATTTTACCCTTTGG
61253511 CGACTTAGGT
Statistics
Matches: 153, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
26 47 0.31
27 98 0.64
28 8 0.05
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (27 bp):
TCATTTTACCCTTTGGGGGTATTTCAG
Found at i:61253370 original size:53 final size:53
Alignment explanation
Indices: 61253308--61253510 Score: 234
Period size: 53 Copynumber: 3.8 Consensus size: 53
61253298 GGTATAACAA
* **
61253308 TCATTTTA-CCTGATGGGGGTATTTCGGTCATTTTACCCTTTGAAGGTATTTCG
1 TCATTTTACCCT-ATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCG
*
61253361 TCATTTTACCCTATGAGGGTATTTCAGTCATTTTA-CCTTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTT-TGGGGGTATTTC-G
* * * *
61253415 TCATTTTATCCTTTGGGGGTATTTCAATCATTTTACCCTTTGGGGGTAGTTCG
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCG
* * *
61253468 ATCATTTTACCAT-TTGGGGAATTTCGAG-CATTTTACCCTTTGG
1 -TCATTTTACCCTATGGGGGTATTTC-AGTCATTTTACCCTTTGG
61253511 CGACTTAGGT
Statistics
Matches: 130, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
52 4 0.03
53 65 0.50
54 57 0.44
55 4 0.03
ACGTcount: A:0.18, C:0.17, G:0.21, T:0.43
Consensus pattern (53 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTTTGGGGGTATTTCG
Found at i:61253418 original size:80 final size:81
Alignment explanation
Indices: 61253307--61253509 Score: 254
Period size: 80 Copynumber: 2.5 Consensus size: 81
61253297 GGGTATAACA
* * *
61253307 ATCATTTTACCTGATGGGGGTATTTCGGTCATTTTACCCTTTGAAGGTATTTC-GTCATTTTACC
1 ATCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTACC
*
61253371 CTATGAGGGTATTTC-
66 CTATGAGGGTAGTTCG
* **
61253386 AGTCATTTTACCTTATGGGGGTATTTCAGTCATTTTATCCTTTGGGGGTATTTCAATCATTTTAC
1 A-TCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTAC
* *
61253451 CCTTTGGGGGTAGTTCG
65 CCTATGAGGGTAGTTCG
*
61253468 ATCATTTTACCATT-T-GGGGAATTTCGAG-CATTTTACCCTTTG
1 ATCATTTTACC-TTATGGGGGTATTTC-AGTCATTTTACCCTTTG
61253510 GCGACTTAGG
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
79 1 0.01
80 69 0.64
81 35 0.32
82 3 0.03
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (81 bp):
ATCATTTTACCTTATGGGGGTATTTCAGTCATTTTACCCTTTGAAGGTATTTCAATCATTTTACC
CTATGAGGGTAGTTCG
Found at i:61259233 original size:20 final size:22
Alignment explanation
Indices: 61259208--61259247 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
61259198 TAAATATATT
61259208 AATATATTAT-TT-TATTATAA
1 AATATATTATATTATATTATAA
61259228 AATATATTATATTATATTAT
1 AATATATTATATTATATTAT
61259248 TATGTAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATATTATATTATATTATAA
Found at i:61259240 original size:22 final size:20
Alignment explanation
Indices: 61259208--61259247 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
61259198 TAAATATATT
*
61259208 AATATATTATTTTATTATAA
1 AATATATTATTATATTATAA
61259228 AATATATTATATTATATTAT
1 AATATA-T-TATTATATTAT
61259248 TATGTAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
AATATATTATTATATTATAA
Found at i:61260528 original size:39 final size:39
Alignment explanation
Indices: 61260476--61260628 Score: 101
Period size: 39 Copynumber: 3.6 Consensus size: 39
61260466 AAGGCACTTA
* *
61260476 TGTGCCGACTACTGTTACTGTTACCAATTTGTCACTTTG
1 TGTGTCGAATACTGTTACTGTTACCAATTTGTCACTTTG
* **
61260515 TGTGTCGAATACTGTTTCTGTTA-CTGTTACTGATTCGATACTTTG
1 TGTGTCGAATACTGTTACTGTTACCAATT--TG--TC---ACTTTG
* *
61260560 TGTGTCGAATATTGTTACTGTTACTGTTACCAATTCGGCACTTTG
1 TGTGTCG-A-A----TACTGTTACTGTTACCAATTTGTCACTTTG
* *
61260605 TGTGTCGAATATTGTTACCGTTAC
1 TGTGTCGAATACTGTTACTGTTAC
61260629 TGATTACTGT
Statistics
Matches: 88, Mismatches: 12, Indels: 28
0.69 0.09 0.22
Matches are distributed among these distances:
38 3 0.03
39 33 0.38
40 2 0.02
42 2 0.02
43 1 0.01
44 1 0.01
45 26 0.30
46 1 0.01
47 1 0.01
48 1 0.01
50 1 0.01
51 13 0.15
52 3 0.03
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (39 bp):
TGTGTCGAATACTGTTACTGTTACCAATTTGTCACTTTG
Found at i:61260558 original size:45 final size:44
Alignment explanation
Indices: 61260485--61260635 Score: 203
Period size: 45 Copynumber: 3.3 Consensus size: 44
61260475 ATGTGCCGAC
* *
61260485 TACTGTTACTGTTACCAATTTGTCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACCAATTCGT-ACTTTGTGTGTCGAATATTGT
* **
61260530 TTCTGTTACTGTTACTGATTCGATACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCAATTCG-TACTTTGTGTGTCGAATATTGT
*
61260575 TACTGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCAATTC-GTACTTTGTGTGTCGAATATTGT
*
61260620 TACCGTTACTGATTAC
1 TACTGTTACTG-TTAC
61260636 TGTTTACTGG
Statistics
Matches: 93, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
45 87 0.94
46 6 0.06
ACGTcount: A:0.20, C:0.17, G:0.19, T:0.44
Consensus pattern (44 bp):
TACTGTTACTGTTACCAATTCGTACTTTGTGTGTCGAATATTGT
Found at i:61266664 original size:5 final size:5
Alignment explanation
Indices: 61266628--61266728 Score: 147
Period size: 5 Copynumber: 20.6 Consensus size: 5
61266618 ATGTTTTAAA
*
61266628 TATAT TA-A- TATAT TAT-T T-TAT TATAAAA TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TAT--AT TATAT TATAT TATAT TATAT
61266676 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
61266726 TAT
1 TAT
61266729 TATGTAAAAT
Statistics
Matches: 88, Mismatches: 2, Indels: 12
0.86 0.02 0.12
Matches are distributed among these distances:
3 3 0.03
4 6 0.07
5 75 0.85
7 4 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:61266968 original size:14 final size:14
Alignment explanation
Indices: 61266949--61266984 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
61266939 AACAGGGGAG
61266949 AAAGAAAGAAAGAA
1 AAAGAAAGAAAGAA
* *
61266963 AAAGAAAAAAAGAG
1 AAAGAAAGAAAGAA
61266977 AAAGAAAG
1 AAAGAAAG
61266985 GAAAAACTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (14 bp):
AAAGAAAGAAAGAA
Found at i:61268023 original size:33 final size:33
Alignment explanation
Indices: 61267976--61268052 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 33
61267966 CGACTACTGT
*
61267976 TACTGTTACCGATTCGGCACTTTGTGTGTCAAA
1 TACTGTTACTGATTCGGCACTTTGTGTGTCAAA
*
61268009 TACTGTTACTGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGATTCGGCACTTTGTGTGTCAAA
*
61268042 TATTGTTACTG
1 TACTGTTACTG
61268053 TTACTGTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (33 bp):
TACTGTTACTGATTCGGCACTTTGTGTGTCAAA
Found at i:61268060 original size:45 final size:45
Alignment explanation
Indices: 61268009--61268102 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
61267999 GTGTGTCAAA
* *
61268009 TACTGTTACTGATTCGGCACTTTGTGTGTCGAATATTGTTA-CTGT
1 TACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGTTATC-GT
61268054 TACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGTTATCGT
1 TACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGTTATCGT
61268099 TACT
1 TACT
61268103 TATTACTGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (45 bp):
TACTGTTACCGATTCGGCACTTTGTGTGTCAAATATTGTTATCGT
Found at i:61276391 original size:11 final size:12
Alignment explanation
Indices: 61276368--61276392 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61276358 CCAAGCCCCG
61276368 TTTTAATGTTTT
1 TTTTAATGTTTT
61276380 TTTTAATGTTTT
1 TTTTAATGTTTT
61276392 T
1 T
61276393 AGAGTCCTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTTTAATGTTTT
Found at i:61277165 original size:56 final size:50
Alignment explanation
Indices: 61277099--61277336 Score: 237
Period size: 50 Copynumber: 4.6 Consensus size: 50
61277089 AGGAATGAGA
* * * *
61277099 TCCCATGTAAGACCATGTCTGGTACATGGCATTGGCATTATTGAGGTTATGAGAAG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGC---ATTGA-G--ATGAGAGG
* * *
61277155 TCCCCTGTAAGACCATGTCTGGGACATGGCTTTGGCATCGAGATGAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* * *
61277205 TACCCTGTAAGACCATATCTGGGACATGGCATGGGCACTGAGATGAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* ** *
61277255 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCA--CCGATAAGAGG
1 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
* * *
61277303 ACTCCCATGTAAGACCATATCTGGGATATGGCAT
1 --TCCCCTGTAAGACCATGTCTGGGACATGGCAT
61277337 TAGCAGTACA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
48 8 0.05
50 113 0.71
52 1 0.01
53 4 0.03
56 33 0.21
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (50 bp):
TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATTGAGATGAGAGG
Found at i:61277267 original size:100 final size:99
Alignment explanation
Indices: 61277100--61277336 Score: 271
Period size: 100 Copynumber: 2.3 Consensus size: 99
61277090 GGAATGAGAT
* * * * *
61277100 CCCATGTAAGACCATGTCTGGTACATGGCATTGGCATTATTGAGGTTATGAGAAGTCCCCTGTAA
1 CCCATGTAAGACCATATCTGGGACATGGCATGGGC---ACTGA-G--ATGAGAAGTCCCCCGTAA
* * *
61277165 GACCATGTCTGGGACATGGCTTTGGCATCGAGATGAGAGGTA-
60 GACCATGTCTGGGACATGGCATGGGCA-C-AGATAAGAGG-AC
*
61277207 CCC-TGTAAGACCATATCTGGGACATGGCATGGGCACTGAGATGAGAGGTCCCCCGTAAGACCAT
1 CCCATGTAAGACCATATCTGGGACATGGCATGGGCACTGAGATGAGAAGTCCCCCGTAAGACCAT
*
61277271 GTCTGGGACATGGCATGGGCACCGATAAGAGGAC
66 GTCTGGGACATGGCATGGGCACAGATAAGAGGAC
*
61277305 TCCCATGTAAGACCATATCTGGGATATGGCAT
1 -CCCATGTAAGACCATATCTGGGACATGGCAT
61277337 TAGCAGTACA
Statistics
Matches: 116, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
97 1 0.01
98 8 0.07
99 4 0.03
100 67 0.58
102 1 0.01
103 4 0.03
106 28 0.24
107 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (99 bp):
CCCATGTAAGACCATATCTGGGACATGGCATGGGCACTGAGATGAGAAGTCCCCCGTAAGACCAT
GTCTGGGACATGGCATGGGCACAGATAAGAGGAC
Found at i:61277600 original size:20 final size:20
Alignment explanation
Indices: 61277575--61277613 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
61277565 TGAGTTATTT
61277575 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
61277595 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
61277614 GAACAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:61281826 original size:56 final size:57
Alignment explanation
Indices: 61281740--61281853 Score: 203
Period size: 56 Copynumber: 2.0 Consensus size: 57
61281730 ACCCGGGTAA
*
61281740 GGCAAACATTGTTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAA-TTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
*
61281796 GGCAAATATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
1 GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
61281853 G
1 G
61281854 AATACTAGTT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
56 51 0.93
57 4 0.07
ACGTcount: A:0.27, C:0.11, G:0.25, T:0.38
Consensus pattern (57 bp):
GGCAAACATTATTGCTGATGGCTTGAGTGGAAAGTCTTTATTTACATTGAGAACTTT
Found at i:61284582 original size:50 final size:50
Alignment explanation
Indices: 61284524--61284647 Score: 158
Period size: 50 Copynumber: 2.5 Consensus size: 50
61284514 AATTGAGGTT
* * * *
61284524 ATGAGAGGTCCCCTATAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
* * *
61284574 ATGAGAGGTCCCCCGTAAGACTATGTCTAGGACATGGCATGGGCACCGAT
1 ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
** *
61284624 ATGAGAACTCCCATGTAAGACCAT
1 ATGAGAGGTCCCCTGTAAGACCAT
61284648 ATTTGGGATA
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.20
Consensus pattern (50 bp):
ATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACCGAG
Found at i:61284934 original size:20 final size:20
Alignment explanation
Indices: 61284909--61284947 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
61284899 TGATTTATTT
61284909 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
61284929 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
61284948 GAAGAAAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:61291087 original size:15 final size:14
Alignment explanation
Indices: 61291059--61291089 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
61291049 AAAGATCAGT
61291059 TCTTAAAAATCAAA
1 TCTTAAAAATCAAA
61291073 TCTTAAAAATCCAAA
1 TCTTAAAAAT-CAAA
61291088 TC
1 TC
61291090 CACAGCCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.52, C:0.19, G:0.00, T:0.29
Consensus pattern (14 bp):
TCTTAAAAATCAAA
Found at i:61302801 original size:27 final size:27
Alignment explanation
Indices: 61302766--61302836 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
61302756 CCAAATTGAT
61302766 ATAAAATGACTGTTATGCCCCCACGTG
1 ATAAAATGACTGTTATGCCCCCACGTG
* * * *
61302793 ATAAAATGACTGTTATACCCCTATGTT
1 ATAAAATGACTGTTATGCCCCCACGTG
61302820 ATAAAATGACTG-TATGC
1 ATAAAATGACTGTTATGC
61302837 TTTATGTTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 4 0.10
27 35 0.90
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (27 bp):
ATAAAATGACTGTTATGCCCCCACGTG
Found at i:61304286 original size:23 final size:23
Alignment explanation
Indices: 61304261--61304303 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
61304251 TTTTTTTTTA
61304261 AAAAAAAGAGAAATC-GAATAAG
1 AAAAAAAGAGAAATCGGAATAAG
*
61304283 AAAAAAAGGGAAATCGGAATA
1 AAAAAAAGAGAAATCGGAATA
61304304 CAAAATCGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.65, C:0.05, G:0.21, T:0.09
Consensus pattern (23 bp):
AAAAAAAGAGAAATCGGAATAAG
Found at i:61304308 original size:22 final size:22
Alignment explanation
Indices: 61304261--61304308 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
61304251 TTTTTTTTTA
*
61304261 AAAAAAAGAGAAATCGAATAAG
1 AAAAAAAGAGAAATCGAATAAC
*
61304283 AAAAAAAGGGAAATCGGAAT-AC
1 AAAAAAAGAGAAATC-GAATAAC
61304305 AAAA
1 AAAA
61304309 TCGAAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.67, C:0.06, G:0.19, T:0.08
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAATAAC
Found at i:61305239 original size:3 final size:3
Alignment explanation
Indices: 61305231--61305295 Score: 67
Period size: 3 Copynumber: 20.7 Consensus size: 3
61305221 CATTTTGTTC
* * * *
61305231 TTA TTA TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
61305277 TTCA TTA TTA TTTA TTA TT
1 TT-A TTA TTA -TTA TTA TT
61305296 TAGTTTTTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
3 43 0.84
4 8 0.16
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:61305291 original size:24 final size:22
Alignment explanation
Indices: 61305231--61305304 Score: 85
Period size: 24 Copynumber: 3.1 Consensus size: 22
61305221 CATTTTGTTC
*
61305231 TTATTATTATTATTATTCTCATTA
1 TTATTATTATTATTATT-T-ATTT
*
61305255 TTATTATTGTTATTATTTATTT
1 TTATTATTATTATTATTTATTT
61305277 TTCATTATTATTTATTATTTAGTTT
1 TT-ATTATTA-TTATTATTTA-TTT
61305302 TTA
1 TTA
61305305 AAAATTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
22 5 0.11
23 7 0.16
24 27 0.61
25 5 0.11
ACGTcount: A:0.26, C:0.04, G:0.03, T:0.68
Consensus pattern (22 bp):
TTATTATTATTATTATTTATTT
Found at i:61305463 original size:15 final size:16
Alignment explanation
Indices: 61305445--61305474 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
61305435 CGTACATCAT
61305445 CGTTTCA-TTTTTATA
1 CGTTTCACTTTTTATA
61305460 CGTTTCACTTTTTAT
1 CGTTTCACTTTTTAT
61305475 TTTATTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.17, C:0.17, G:0.07, T:0.60
Consensus pattern (16 bp):
CGTTTCACTTTTTATA
Found at i:61314722 original size:44 final size:44
Alignment explanation
Indices: 61314659--61314743 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
61314649 AAAACAAAAA
*
61314659 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* * *
61314703 TTGAATTCAATCATGAGATCATCTTTGATCTTTCTCCAACT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACT
61314744 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:61314889 original size:14 final size:14
Alignment explanation
Indices: 61314870--61314898 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61314860 TCTTCTTATG
61314870 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
61314884 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
61314898 T
1 T
61314899 ATCAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGGAC
Found at i:61317319 original size:3 final size:3
Alignment explanation
Indices: 61317313--61317371 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
61317303 GTTCTTCTTC
* * * *
61317313 TTA TTA TTA TTC TCA TTA TTA TTA TTG TTA TTA TTTA TTT TTCA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TT-A TTA
61317360 TTA TTTA TTA TT
1 TTA -TTA TTA TT
61317372 TATTTTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
3 37 0.82
4 8 0.18
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:61332095 original size:45 final size:45
Alignment explanation
Indices: 61332027--61332979 Score: 1061
Period size: 45 Copynumber: 21.2 Consensus size: 45
61332017 TAAAAAACAA
* * * *
61332027 CAGATCTTATCTTCTTGTATTGGCAGCGAGGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
*
61332072 CA-AGTCTTGTCTTCCTGTGTTGGCAGCGAAGTAGA-CTAAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAG
* * * * * *
61332117 CAGATATTGTATTCTTGTATGGGCAGCGAAGTAGGTCGAAA-ACAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAG
* *
61332162 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* *
61332207 CA-AGTCTTGTCTTCTTGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAG
* * *
61332252 CAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * * * *
61332297 CAGATCTTATCTTCCTATATTGGCAGTGAGGTAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* *
61332342 CA-AGTCTTGTCTTCATGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAG
* *
61332387 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGGTCAAA-AGCAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGA-TAG
* * * *
61332432 CAGATCTTATCTTCCTATATTGGCAGCAAAATAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
*
61332477 CA-AGTCTTGTCTTCCTGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAG
* * * *
61332522 CAGATCTTGTCTTCCTATATGGGCAGCGAAGTAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * * *
61332567 CAGATCTTATCTTCCTGTATTGGCAAG-GAAATAGATAAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGC-AGCGAAGTAGATCAAAGATAG
* *
61332612 CA-AGTCTTGTCTTCTTGTATTGGCAGCGAAGTAGA-CTGAAGATAG
1 CAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGTAGATC-AAAGATAG
* * * * * *
61332657 CAGATCTTGTCTTCTTGTATGGGCAGCGAAGTAGGTCAAAAACAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * *
61332702 CAGATCTTATCTTCCTGTATTGGTAGCGAAATAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
** * * *
61332747 CAGATCTTGTCTTCCTGTATTGGCAGTAAAGTAAATCGAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * * *
61332792 CAGGTCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAAAATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * * * *
61332837 TAGATCTTATCTTCCTGTATTGGCAACGAAATAGATTAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* *
61332882 CAGATCTTGTCTTCCTGTATTGGCAGTGAAGTAAATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* *
61332927 CAGGTCTTGTCTTCCTGTATTGGCAGCGAAGT-GCATCAAAGATTG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAG-ATCAAAGATAG
61332972 CAGATCTT
1 CAGATCTT
61332980 ATCTCCCTAA
Statistics
Matches: 754, Mismatches: 128, Indels: 52
0.81 0.14 0.06
Matches are distributed among these distances:
44 14 0.02
45 724 0.96
46 16 0.02
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
Found at i:61332966 original size:135 final size:135
Alignment explanation
Indices: 61332027--61332983 Score: 1377
Period size: 135 Copynumber: 7.1 Consensus size: 135
61332017 TAAAAAACAA
* ** * *
61332027 CAGATCTTATCTTCTTGTATTGGCAGCGAGGTAGATCGAAGATAGCAAGTCTTGTCTTCCTGTGT
1 CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTAT
* * * * *
61332092 TGGCAGCGAAGTAGACTAAAGATAGCAGATATTGTATTCTTGTATGGGCAGCGAAGTAGGTCGAA
66 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAA
*
61332157 AACAG
131 AATAG
* * *
61332162 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGATAGCAAGTCTTGTCTTCTTGTAT
1 CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTAT
61332227 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAA
66 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAA
61332292 AATAG
131 AATAG
* * ** * *
61332297 CAGATCTTATCTTCCTATATTGGCAGTGAGGTAGATCGAAGATAGCAAGTCTTGTCTTCATGTAT
1 CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTAT
*
61332362 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGGTCAAA
66 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAA
**
61332427 AGCAG
131 AATAG
* *
61332432 CAGATCTTATCTTCCTATATTGGCAGCAAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTAT
1 CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTAT
*
61332497 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTATATGGGCAGCGAAGTAGGTCAAA
66 TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAA
61332562 AATAG
131 AATAG
* * *
61332567 CAGATCTTATCTTCCTGTATTGGCAAG-GAAATAGATAAAAGATAACAAGTCTTGTCTTCTTGTA
1 CAGATCTTATCTTCCTGTATTGGC-AGCGAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTA
*
61332631 TTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCTTGTATGGGCAGCGAAGTAGGTCAA
65 TTGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAA
* *
61332696 AAACAA
130 AAATAG
*
61332702 CAGATCTTATCTTCCTGTATTGGTAGCGAAATAGATCAAAGATAGC-AGATCTTGTCTTCCTGTA
1 CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAG-TCTTGTCTTCCTGTA
** * * *
61332766 TTGGCAGTAAAGTA-AATCGAAGATAACAGGTCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCA
65 TTGGCAGCGAAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCA
61332830 AAAATAG
129 AAAATAG
* * *
61332837 TAGATCTTATCTTCCTGTATTGGCAACGAAATAGATTAAAGATAGC-AGATCTTGTCTTCCTGTA
1 CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAG-TCTTGTCTTCCTGTA
* * * * * *
61332901 TTGGCAGTGAAGTA-AATCAAAGATAGCAGGTCTTGTCTTCCTGTATTGGCAGCGAAGT-GCATC
65 TTGGCAGCGAAGTAGACT-GAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAG-GTC
* *
61332964 AAAGATTG
128 AAAAATAG
61332972 CAGATCTTATCT
1 CAGATCTTATCT
61332984 CCCTAAGCAG
Statistics
Matches: 757, Mismatches: 60, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
134 7 0.01
135 748 0.99
136 2 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (135 bp):
CAGATCTTATCTTCCTGTATTGGCAGCGAAATAGATCAAAGATAGCAAGTCTTGTCTTCCTGTAT
TGGCAGCGAAGTAGACTGAAGATAGCAGATCTTGTCTTCCTGTATGGGCAGCGAAGTAGGTCAAA
AATAG
Found at i:61341671 original size:44 final size:44
Alignment explanation
Indices: 61341608--61341692 Score: 134
Period size: 44 Copynumber: 1.9 Consensus size: 44
61341598 AAAACAAAAA
*
61341608 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCGAACTCAT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
* * *
61341652 TTGAATTCAATCATGAGATCATCTTTGATCTTTCTCCAACT
1 TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACT
61341693 TATCTTTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.27, C:0.25, G:0.09, T:0.39
Consensus pattern (44 bp):
TTGAATTCAACCATGAGATCATCCTTCATCTTTCTCCAACTCAT
Found at i:61343749 original size:20 final size:20
Alignment explanation
Indices: 61343726--61343771 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
61343716 TTATTTATAA
* *
61343726 TAATTATAATTAATTAATAT
1 TAATTATAATTAAATAAAAT
*
61343746 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
61343766 T-ATTAT
1 TAATTAT
61343772 TTATAGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:61343961 original size:18 final size:19
Alignment explanation
Indices: 61343938--61343976 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
61343928 TAAAATTGAA
61343938 ATAATTAATTAATA-AAAT
1 ATAATTAATTAATAGAAAT
* *
61343956 ATAATTATTTTATAGAAAT
1 ATAATTAATTAATAGAAAT
61343975 AT
1 AT
61343977 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATAATTAATTAATAGAAAT
Found at i:61344956 original size:15 final size:14
Alignment explanation
Indices: 61344938--61344967 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
61344928 ATTCTGGCCA
61344938 AAATAAAATAATAAT
1 AAATAAAATAA-AAT
61344953 AAATAAAATAAAAT
1 AAATAAAATAAAAT
61344967 A
1 A
61344968 TTAAAGTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:61346488 original size:16 final size:16
Alignment explanation
Indices: 61346467--61346504 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
61346457 ACCGGCATGT
61346467 AGCCTGCTAGGCTTGA
1 AGCCTGCTAGGCTTGA
61346483 AGCCTGCTAGGCTTGA
1 AGCCTGCTAGGCTTGA
61346499 AGCCTG
1 AGCCTG
61346505 ATTCAGTACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.18, C:0.26, G:0.32, T:0.24
Consensus pattern (16 bp):
AGCCTGCTAGGCTTGA
Found at i:61346564 original size:41 final size:41
Alignment explanation
Indices: 61346514--61346620 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
61346504 GATTCAGTAC
*
61346514 ACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAAAATTTA
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAAAATTTA
* * * *
61346555 ACCGACATTAAGCCTACTAGACATAAAGTCTGAAATATTTC
1 ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAAAATTTA
*
61346596 ACCGGCATTAAGCTTGCTAGACATA
1 ACCGGCATTAAGCCTGCTAGACATA
61346621 GAGCCTGATT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.25
Consensus pattern (41 bp):
ACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAAAATTTA
Found at i:61348389 original size:21 final size:22
Alignment explanation
Indices: 61348354--61348400 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
61348344 TTTTTTTAAA
61348354 AAAAAAAGAGAAATCG-AATAC
1 AAAAAAAGAGAAATCGAAATAC
*
61348375 GAAAAAAAG-GCAATCGAAATAC
1 -AAAAAAAGAGAAATCGAAATAC
61348397 AAAA
1 AAAA
61348401 TCAAAAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.66, C:0.11, G:0.15, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAGAAATCGAAATAC
Found at i:61349354 original size:15 final size:14
Alignment explanation
Indices: 61349334--61349391 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 14
61349324 TGTTGTTGTT
61349334 ATTATTATTATTCTC
1 ATTATTATTATT-TC
*
61349349 ATTATTATTATTGTT
1 ATTATTATTATT-TC
*
61349364 AATATTTATT-TTTC
1 ATTA-TTATTATTTC
61349378 ATTATTATTTATTT
1 ATTATTA-TTATTT
61349392 TTTTATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.09
14 6 0.17
15 21 0.60
16 5 0.14
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (14 bp):
ATTATTATTATTTC
Found at i:61349399 original size:29 final size:31
Alignment explanation
Indices: 61349329--61349386 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
61349319 ACATTTGTTG
*
61349329 TTGTTATTA-TTATTATTCTCATTATTATTA
1 TTGTTAATATTTATTATTCTCATTATTATTA
61349359 TTGTTAATATTTATT-TT-TCATTATTATT
1 TTGTTAATATTTATTATTCTCATTATTATT
61349387 TATTTTTTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 10 0.38
31 5 0.19
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (31 bp):
TTGTTAATATTTATTATTCTCATTATTATTA
Found at i:61353999 original size:18 final size:18
Alignment explanation
Indices: 61353971--61354027 Score: 105
Period size: 18 Copynumber: 3.1 Consensus size: 18
61353961 AGTGAAATTT
61353971 ATTTGAAAATCCCTGAAGG
1 ATTT-AAAATCCCTGAAGG
61353990 ATTTAAAATCCCTGAAGG
1 ATTTAAAATCCCTGAAGG
61354008 ATTTAAAATCCCTGAAGG
1 ATTTAAAATCCCTGAAGG
61354026 AT
1 AT
61354028 ATAGAGTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 34 0.89
19 4 0.11
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (18 bp):
ATTTAAAATCCCTGAAGG
Found at i:61355918 original size:3 final size:3
Alignment explanation
Indices: 61355910--61356006 Score: 65
Period size: 3 Copynumber: 32.0 Consensus size: 3
61355900 TTTAGCAATC
* * * *
61355910 TTA TTA TTA TT- TTAA TTA TT- TTA ATA -TA TTA TCA TTTA TCA TTT
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
* * * *
61355954 TTG TTA TTA TTA TTA TTTA TAA TTA TTA TTA CTA CTA TTA TTAA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA
61356001 TTA TTA
1 TTA TTA
61356007 GTTTTATTTT
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
2 6 0.08
3 59 0.79
4 10 0.13
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:61355940 original size:22 final size:24
Alignment explanation
Indices: 61355914--61356006 Score: 68
Period size: 22 Copynumber: 3.8 Consensus size: 24
61355904 GCAATCTTAT
61355914 TATTATTTTAATTATT-TTAATA-
1 TATTATTTTAATTATTATTAATAC
* * * *
61355936 TATTATCATTTATCATTTTTGTTATTAT
1 TATTAT--TTTA--ATTATTATTAATAC
*
61355964 TATTATTTATAATTATTATTACTAC
1 TATTATTT-TAATTATTATTAATAC
61355989 TATTA--TTAATTATTATTA
1 TATTATTTTAATTATTATTA
61356007 GTTTTATTTT
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
22 18 0.31
23 1 0.02
24 4 0.07
25 15 0.26
26 7 0.12
27 7 0.12
28 6 0.10
ACGTcount: A:0.33, C:0.04, G:0.01, T:0.61
Consensus pattern (24 bp):
TATTATTTTAATTATTATTAATAC
Found at i:61355946 original size:25 final size:26
Alignment explanation
Indices: 61355911--61356012 Score: 93
Period size: 25 Copynumber: 3.9 Consensus size: 26
61355901 TTAGCAATCT
61355911 TATTATTATTT-TAATTATTTTAATA
1 TATTATTATTTATAATTATTTTAATA
* * *
61355936 TATTATCATTTATCATT-TTTGTTAT-
1 TATTATTATTTATAATTATTT-TAATA
*
61355961 TATTATTATTTATAATTATTATTACTA
1 TATTATTATTTATAATTATT-TTAATA
* *
61355988 CTATTATTAATTATTATTAGTTTTA
1 -TATTATTATTTATAATTA-TTTTA
61356013 TTTTCCTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
25 28 0.46
26 11 0.18
27 1 0.02
28 19 0.31
29 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (26 bp):
TATTATTATTTATAATTATTTTAATA
Found at i:61359531 original size:30 final size:31
Alignment explanation
Indices: 61359497--61359556 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
61359487 AAACCTTTTA
*
61359497 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
61359527 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
61359557 TCCCACCTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:61366395 original size:14 final size:14
Alignment explanation
Indices: 61366376--61366404 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
61366366 TCTTCTTATG
61366376 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
61366390 TTTTATGTTTGGAC
1 TTTTATGTTTGGAC
61366404 T
1 T
61366405 ATCAATAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.21, T:0.59
Consensus pattern (14 bp):
TTTTATGTTTGGAC
Found at i:61368329 original size:20 final size:20
Alignment explanation
Indices: 61368306--61368351 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
61368296 TTATTTATAA
* *
61368306 TAATTATAATTAATTAATAT
1 TAATTATAATTAAATAAAAT
*
61368326 TAATTATATTTAAATAAAAT
1 TAATTATAATTAAATAAAAT
61368346 T-ATTAT
1 TAATTAT
61368352 TTATGGGTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTATAATTAAATAAAAT
Found at i:61369116 original size:50 final size:50
Alignment explanation
Indices: 61369060--61369214 Score: 187
Period size: 50 Copynumber: 3.1 Consensus size: 50
61369050 TTATTATTTT
61369060 AATAAAATGTTTAAATTTTAGATGAAAAATTTATTAATCATATTTTATTA
1 AATAAAATGTTTAAATTTTAGATGAAAAATTTATTAATCATATTTTATTA
* * * *
61369110 AATAAAA-ATTTATTATTTTA-TTAATAAAATTTATTAA--ATTATTATT-TT-
1 AATAAAATGTTTA-AATTTTAGATGA-AAAATTTATTAATCA-TATT-TTATTA
*
61369158 AATAAAATGTTTAAATTTCAGATGAAAAATTTATTAATCATATTTTATTA
1 AATAAAATGTTTAAATTTTAGATGAAAAATTTATTAATCATATTTTATTA
61369208 AATAAAA
1 AATAAAA
61369215 ATAATATTTA
Statistics
Matches: 86, Mismatches: 9, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
48 27 0.31
49 24 0.28
50 35 0.41
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (50 bp):
AATAAAATGTTTAAATTTTAGATGAAAAATTTATTAATCATATTTTATTA
Found at i:61369140 original size:21 final size:23
Alignment explanation
Indices: 61369100--61369145 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
61369090 TTATTAATCA
61369100 TATTTTATTAAATAAAAATTTAT
1 TATTTTATTAAATAAAAATTTAT
61369123 TATTTTATT-AAT-AAAATTTAT
1 TATTTTATTAAATAAAAATTTAT
61369144 TA
1 TA
61369146 AATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 11 0.48
22 3 0.13
23 9 0.39
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TATTTTATTAAATAAAAATTTAT
Found at i:61369150 original size:26 final size:25
Alignment explanation
Indices: 61369085--61369165 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 25
61369075 TTTTAGATGA
61369085 AAAATTTATTAATCATATTTTATTAAAT
1 AAAATTTATTAAT--TATTTTATT-AAT
*
61369113 AAAA---ATTTATTATTTTATTAAT
1 AAAATTTATTAATTATTTTATTAAT
61369135 AAAATTTATTAAATTATTATT-TTAAT
1 AAAATTTATT-AATTATT-TTATTAAT
61369161 AAAAT
1 AAAAT
61369166 GTTTAAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
22 7 0.15
23 9 0.20
25 8 0.17
26 16 0.35
27 2 0.04
28 4 0.09
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (25 bp):
AAAATTTATTAATTATTTTATTAAT
Found at i:61369151 original size:21 final size:22
Alignment explanation
Indices: 61369104--61369153 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
61369094 TAATCATATT
**
61369104 TTATTAAATAAAAATTTATTATT
1 TTATT-AATAAAAATTTATTAAA
61369127 TTATTAAT-AAAATTTATTAAA
1 TTATTAATAAAAATTTATTAAA
61369148 TTATTA
1 TTATTA
61369154 TTTTAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 17 0.68
22 3 0.12
23 5 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTATTAATAAAAATTTATTAAA
Found at i:61369535 original size:25 final size:26
Alignment explanation
Indices: 61369507--61369558 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
61369497 TTATTTGATC
61369507 CTCACTTTCCTTTTTTAATA-AAATT
1 CTCACTTTCCTTTTTTAATATAAATT
* *
61369532 CTCACTTTCTTTTTTTGATATAAATT
1 CTCACTTTCCTTTTTTAATATAAATT
61369558 C
1 C
61369559 ATTATATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.25, C:0.19, G:0.02, T:0.54
Consensus pattern (26 bp):
CTCACTTTCCTTTTTTAATATAAATT
Found at i:61371598 original size:4 final size:4
Alignment explanation
Indices: 61371589--61371622 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
61371579 CATGAAAGTT
*
61371589 TTTA TTTA TTTA TTTA TTTA TGTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
61371623 CATTGATTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:61375862 original size:15 final size:15
Alignment explanation
Indices: 61375850--61375904 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
61375840 GTTTTTCTTC
61375850 TTATTATTATTCTCA
1 TTATTATTATTCTCA
* *
61375865 TTATTATTATTGTTA
1 TTATTATTATTCTCA
61375880 TTATTTATT-TT-TCA
1 TTA-TTATTATTCTCA
*
61375894 CTATTATTATT
1 TTATTATTATT
61375905 TTTAAAATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
13 5 0.15
14 6 0.18
15 18 0.53
16 5 0.15
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.65
Consensus pattern (15 bp):
TTATTATTATTCTCA
Found at i:61378044 original size:20 final size:20
Alignment explanation
Indices: 61378019--61378058 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
61378009 AATATTTTCC
*
61378019 AGTAAACCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
61378039 AGTAAAACATTTTTCAGAAA
1 AGTAAAACATTTTACAGAAA
61378059 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:61378064 original size:34 final size:35
Alignment explanation
Indices: 61378007--61378073 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
61377997 CAAACACCAG
*
61378007 AAAATATTTTCCAGTAAACCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
* * *
61378042 AAAACATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAACCATTTTACAGAAAA
61378074 TATTTTACTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAACCATTTTACAGAAAAGT
Found at i:61385738 original size:23 final size:23
Alignment explanation
Indices: 61385703--61385747 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
61385693 TGGAGTATAA
* *
61385703 AAGTTTTATATTTTTATATGTAC
1 AAGTTTTATATTTATACATGTAC
61385726 AAGTTTTGA-ATTTATACATGTA
1 AAGTTTT-ATATTTATACATGTA
61385748 TATACAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.33, C:0.04, G:0.11, T:0.51
Consensus pattern (23 bp):
AAGTTTTATATTTATACATGTAC
Found at i:61386468 original size:41 final size:42
Alignment explanation
Indices: 61386315--61386528 Score: 249
Period size: 42 Copynumber: 5.1 Consensus size: 42
61386305 TGAGATTTTA
61386315 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
* * * * *
61386357 GGTGAAATAATTTCAAACTTTACGTCTAGCAAGTTTAATGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
61386399 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
* * *
61386441 GGTGAAAC-ATTTCAGACTATATGTCTAGCAGGC-TAAGTGCC
1 GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAA-TGCC
* * * *
61386482 GGTG-TACTGA-ATCAGGCTTTAAGTCTAGCAGGC-TAAGTGCC
1 GGTGAAAC-AATATCAGACTTTACGTCTAGCAGGCTTAA-TGCC
*
61386523 AGTGAA
1 GGTGAA
61386529 TCTATTTAAA
Statistics
Matches: 148, Mismatches: 20, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
40 5 0.03
41 60 0.41
42 83 0.56
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (42 bp):
GGTGAAACAATATCAGACTTTACGTCTAGCAGGCTTAATGCC
Found at i:61388373 original size:14 final size:14
Alignment explanation
Indices: 61388354--61388394 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
61388344 ATGAAAAAAC
61388354 AAAAAAAAATC-AA
1 AAAAAAAAATCAAA
*
61388367 AATAAAAAA-CAAA
1 AAAAAAAAATCAAA
61388380 AAAGAAAAAATCAAA
1 AAA-AAAAAATCAAA
61388395 GTCAAAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 1 0.04
13 12 0.52
14 6 0.26
15 4 0.17
ACGTcount: A:0.83, C:0.07, G:0.02, T:0.07
Consensus pattern (14 bp):
AAAAAAAAATCAAA
Found at i:61388400 original size:33 final size:30
Alignment explanation
Indices: 61388347--61388408 Score: 88
Period size: 33 Copynumber: 2.0 Consensus size: 30
61388337 CAAAAAAATG
61388347 AAAAAACAAAAAAAAATCAAAATAAAAAAC
1 AAAAAACAAAAAAAAATCAAAATAAAAAAC
*
61388377 AAAAAAGAAAAAATCAAAGTCAAAATAAAAAA
1 AAAAAACAAAAAA--AAA-TCAAAATAAAAAA
61388409 TATGAAAATG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 12 0.43
32 3 0.11
33 13 0.46
ACGTcount: A:0.81, C:0.08, G:0.03, T:0.08
Consensus pattern (30 bp):
AAAAAACAAAAAAAAATCAAAATAAAAAAC
Found at i:61390850 original size:44 final size:44
Alignment explanation
Indices: 61390780--61390901 Score: 140
Period size: 44 Copynumber: 2.8 Consensus size: 44
61390770 AGATACCAAT
* * *
61390780 TCTATCTCCCTAGGCAGCAGTAGAATAGATTGAAGATTGTG-AG
1 TCTATCTCCCTAGGAAGCAGTGGAATAGATTGAAGATGGTGAAG
* * * * *
61390823 TCATATTTCCCT-GGTCAGTAGTGGAATAGGTTGAAGATGGTGAAT
1 TC-TATCTCCCTAGG-AAGCAGTGGAATAGATTGAAGATGGTGAAG
61390868 TCTATCTCCCTAGGAAGCAGTGGAATAGATTGAA
1 TCTATCTCCCTAGGAAGCAGTGGAATAGATTGAA
61390902 AATCACAGAT
Statistics
Matches: 65, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
43 4 0.06
44 56 0.86
45 5 0.08
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (44 bp):
TCTATCTCCCTAGGAAGCAGTGGAATAGATTGAAGATGGTGAAG
Found at i:61391007 original size:18 final size:18
Alignment explanation
Indices: 61390984--61391021 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
61390974 AGGGAAGCAG
61390984 ATTTAAGCCACAAGTCCT
1 ATTTAAGCCACAAGTCCT
61391002 ATTTAAGCCACAAGTCCT
1 ATTTAAGCCACAAGTCCT
61391020 AT
1 AT
61391022 CTCATTGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (18 bp):
ATTTAAGCCACAAGTCCT
Found at i:61391204 original size:34 final size:34
Alignment explanation
Indices: 61391156--61391223 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
61391146 ATCCTATCTC
61391156 CCTGGTCAGCAGTGGAATAGGTTGAAAATTACAG
1 CCTGGTCAGCAGTGGAATAGGTTGAAAATTACAG
* *
61391190 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAG
1 CCTGGTCAGCAGTGGAATAGGTTGAAAATTACAG
61391224 ATCTTATCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (34 bp):
CCTGGTCAGCAGTGGAATAGGTTGAAAATTACAG
Found at i:61391307 original size:165 final size:165
Alignment explanation
Indices: 61391035--61391354 Score: 514
Period size: 165 Copynumber: 1.9 Consensus size: 165
61391025 ATTGGTCAAC
* * *
61391035 AGTGGAATAGGTTGGAAATTATAGATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGG
1 AGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGAAGCAGATCGAAGACGG
* *
61391100 CGAATCTTATCTTCCCTAGGAGTAGGAAAGTAAAATTAAGCCACAAATCCTATCTCCCTGGTCAG
66 CGAATCTTATCTTCCCCAGGAGTAGGAAAGCAAAATTAAGCCACAAATCCTATCTCCCTGGTCAG
61391165 CAGTGGAATAGGTTGAAAATTACAGCCTGGTCAGT
131 CAGTGGAATAGGTTGAAAATTACAGCCTGGTCAGT
*
61391200 AGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGGAGCAGATCGAAGACGG
1 AGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGAAGCAGATCGAAGACGG
* * * * * *
61391265 TGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCTCTCTGGTCAG
66 CGAATCTTATCTTCCCCAGGAGTAGGAAAGCAAAATTAAGCCACAAATCCTATCTCCCTGGTCAG
* *
61391330 TAGTGGAATAGGTTGGAAATTACAG
131 CAGTGGAATAGGTTGAAAATTACAG
61391355 ATCTTATCTC
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
165 141 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (165 bp):
AGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGAAGCAGATCGAAGACGG
CGAATCTTATCTTCCCCAGGAGTAGGAAAGCAAAATTAAGCCACAAATCCTATCTCCCTGGTCAG
CAGTGGAATAGGTTGAAAATTACAGCCTGGTCAGT
Found at i:61391425 original size:131 final size:130
Alignment explanation
Indices: 61391190--61391541 Score: 598
Period size: 131 Copynumber: 2.7 Consensus size: 130
61391180 AAAATTACAG
* *
61391190 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGAAATAGTGGAGCAGA
1 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
61391255 TCGAAGACGGTGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
66 TCGAA-ACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
61391320 C
130 C
*
61391321 TCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
1 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
61391386 TCGAATACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
66 TCGAA-ACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCT
61391451 C
130 C
* * *
61391452 CCTGGTCAGCAGTGGAATAGGTTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGA
1 CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
*
61391517 TCGACAACAGCGAATCTTA-CTTCCC
66 TCGA-AACGGCGAATCTTATCTTCCC
61391542 AGGCGGTGTA
Statistics
Matches: 210, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
130 6 0.03
131 203 0.97
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (130 bp):
CCTGGTCAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGA
TCGAAACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCCACAAGTCCTATCTC
Found at i:61391510 original size:44 final size:44
Alignment explanation
Indices: 61391327--61391511 Score: 103
Period size: 44 Copynumber: 4.2 Consensus size: 44
61391317 TCTCTCTGGT
* * * *
61391327 CAGTAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAG
1 CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
* * * ** *
61391371 CAGTAGTGGAGCAGATCGAATACGGC-GAATCTTATCTTCCC-CAG
1 CAGTAGTGGAACAGATTGAAAACTACAG-ATCTTATC-TCCCTAAG
* * * * * *
61391415 GAGTAG-GGAAGCAGATT-TAAGCCACA-AGTCCTATCTCCCT-GG
1 CAGTAGTGGAA-CAGATTGAAAACTACAGA-TCTTATCTCCCTAAG
* * * *
61391457 TCAGCAGTGGAATAGGTTGAAAATTACAGATCTTATCTCCCTAAG
1 -CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
61391502 CAGTAGTGGA
1 CAGTAGTGGA
61391512 GTAGATCGAC
Statistics
Matches: 99, Mismatches: 31, Indels: 22
0.65 0.20 0.14
Matches are distributed among these distances:
42 6 0.06
43 21 0.21
44 66 0.67
45 6 0.06
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.25
Consensus pattern (44 bp):
CAGTAGTGGAACAGATTGAAAACTACAGATCTTATCTCCCTAAG
Found at i:61391615 original size:50 final size:49
Alignment explanation
Indices: 61391559--61391674 Score: 124
Period size: 50 Copynumber: 2.3 Consensus size: 49
61391549 GTAGTGGAAC
* * *
61391559 AGATTAAAGCCACAACGACAAATCTCACTTCCTCGATATTGCAGTTAAAA
1 AGATTAAAGCCACAACAACAAATCTCACTTCCT-GATAGTGCAGTGAAAA
* * * * * * * *
61391609 ATATTAAAGCTACAACAACGAATCTTATTTCCTGGTAGTGCAGTGGAAC
1 AGATTAAAGCCACAACAACAAATCTCACTTCCTGATAGTGCAGTGAAAA
61391658 AGATTAAAGCCACAACA
1 AGATTAAAGCCACAACA
61391675 GCCAATATTG
Statistics
Matches: 53, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
49 26 0.49
50 27 0.51
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.24
Consensus pattern (49 bp):
AGATTAAAGCCACAACAACAAATCTCACTTCCTGATAGTGCAGTGAAAA
Found at i:61391673 original size:49 final size:50
Alignment explanation
Indices: 61391520--61391786 Score: 213
Period size: 49 Copynumber: 5.4 Consensus size: 50
61391510 GAGTAGATCG
* *** * *
61391520 ACAACAGCGAATCTTACTTCC-CAGGCGGTGTAGTGGAACAGATTAAAGCC
1 ACAACAGCGAATCTTATTTCCTC-GATAGTGCAGTGGAACAGATTAAAGCT
* * * * ** * *
61391570 ACAAC-GACAAATCTCACTTCCTCGATATTGCAGTTAAAAATATTAAAGCT
1 ACAACAG-CGAATCTTATTTCCTCGATAGTGCAGTGGAACAGATTAAAGCT
* * *
61391620 ACAACAACGAATCTTATTTCCT-GGTAGTGCAGTGGAACAGATTAAAGCC
1 ACAACAGCGAATCTTATTTCCTCGATAGTGCAGTGGAACAGATTAAAGCT
* * ** * * * * *
61391669 ACAACAGCCAATATTGCTTCCTCGACATTGTAGT-TAA-AGATTAAAGTT
1 ACAACAGCGAATCTTATTTCCTCGATAGTGCAGTGGAACAGATTAAAGCT
*
61391717 ACAACAGCGAATCTTATTTCCTGGA-AGTGCAGTGGAACAGATTAAAGCT
1 ACAACAGCGAATCTTATTTCCTCGATAGTGCAGTGGAACAGATTAAAGCT
* *
61391766 ACAACGGCGAATCTTGTTTCC
1 ACAACAGCGAATCTTATTTCC
61391787 CCAACATTGC
Statistics
Matches: 165, Mismatches: 46, Indels: 13
0.74 0.21 0.06
Matches are distributed among these distances:
47 6 0.04
48 31 0.19
49 69 0.42
50 58 0.35
51 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.26
Consensus pattern (50 bp):
ACAACAGCGAATCTTATTTCCTCGATAGTGCAGTGGAACAGATTAAAGCT
Found at i:61391794 original size:97 final size:98
Alignment explanation
Indices: 61391520--61391809 Score: 339
Period size: 97 Copynumber: 2.9 Consensus size: 98
61391510 GAGTAGATCG
* * ** * * *
61391520 ACAACAGCGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTAAAGCCACAACGACAAATCTC
1 ACAACAGCGAATCTTA-TTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCAAATCTT
* * *
61391585 ACTTCCTCGATATTGCAGTTAAAAATATTAAAGCT
65 GCTTCCTCGACATTGCAGTT-AAAAGATTAAAGCT
* * * * *
61391620 ACAACAACGAATCTTATTTCCTGGTAGTGCAGTGGAACAGATTAAAGCCACAACAGCCAATATTG
1 ACAACAGCGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCAAATCTTG
* *
61391685 CTTCCTCGACATTGTAGTT-AAAGATTAAAGTT
66 CTTCCTCGACATTGCAGTTAAAAGATTAAAGCT
* *
61391717 ACAACAGCGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCTACAACGGCGAATCTTG
1 ACAACAGCGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCAAATCTTG
* * * *
61391782 TTTCCCCAACATTGCAATTAAATAGATT
66 CTTCCTCGACATTGCAGTTAAA-AGATT
61391810 GAAGACAGTA
Statistics
Matches: 161, Mismatches: 27, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
97 84 0.52
98 2 0.01
99 60 0.37
100 15 0.09
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (98 bp):
ACAACAGCGAATCTTATTTCCTGGAAGTGCAGTGGAACAGATTAAAGCCACAACGGCAAATCTTG
CTTCCTCGACATTGCAGTTAAAAGATTAAAGCT
Found at i:61392051 original size:48 final size:48
Alignment explanation
Indices: 61391994--61392089 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
61391984 GATGGTGAAT
*
61391994 CTTTTCTCCCTGAGTTTGTAGTAGAGCAGATTGAAGCCAGTAATCCTA
1 CTTTTCTCCCTGAGTTTGTAGTAGAGCAGATTGAAGACAGTAATCCTA
*
61392042 CTTTTCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGACAGTAATCCTA
1 CTTTTCTCCCTGAGTTTGTAGTAGAGCAGATTGAAGACAGTAATCCTA
61392090 TCTCCCTGAA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (48 bp):
CTTTTCTCCCTGAGTTTGTAGTAGAGCAGATTGAAGACAGTAATCCTA
Found at i:61392113 original size:44 final size:44
Alignment explanation
Indices: 61391805--61392596 Score: 292
Period size: 44 Copynumber: 18.1 Consensus size: 44
61391795 GCAATTAAAT
* * *
61391805 AGATTGAAGACAGTAATCCTATCTCTCTGAAGTTGCAGTGGAGT
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
61391849 GGATT-AAAATAATAGATCTTATCTCTCTGAAGTTGCAGT--AG-
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** *
61391890 AG-TAGATCACA-TCAAGTCTTATCTCCCTG-AGTTGCAGCGGAGC
1 AGATTGAAGACAGT-AA-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * *
61391933 AGACTG-AGAAAGCAAGT-TTATGC-CCCTGAAGTTACAATGG-GAC
1 AGATTGAAGACAGTAA-TCTTAT-CTCCCTGAAGTTGCAGTGGAG-C
* ** * * *
61391976 AGACTGAAGATGGTGAATCTTTTCTCCCTG-AGTTTGTAGTAGAGC
1 AGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * *
61392021 AGATTGAAGCCAGTAATCCTACTTTTCTCCCTG-AGTTTGTAGTGGAGC
1 AGATTGAAGACAGTAA---T-CTTATCTCCCTGAAG-TTGCAGTGGAGC
* *
61392069 AGATTGAAGACAGTAATCCTATCTCCCTGAAGTTGCAGTAGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * *
61392113 AAATTCAA-ATAATAGATCTTCTCTCTCTGAATTTGCAGT--A-C
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * *
61392154 AG-TGGATCG-CA-TAAGGTCTTATCTCCCTGAGGTTGCAGCGGAGC
1 AGATTGA-AGACAGTAA--TCTTATCTCCCTGAAGTTGCAGTGGAGC
** * * * * * *
61392198 AGA-CCAATAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGGT
1 AGATTGAAGACAGTAA-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* ** *
61392242 AGACTGAAGATGGTGAATCTTATCTCCTTG-AGTTTGCAGTGGAGC
1 AGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * *
61392287 AGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * ** *
61392331 AGATTCAA-ATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGT
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * *
61392375 GGATCGCA-TCAG--GTCTTATCTCCCTGAGGTTGCAGCGGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
** * * * * *
61392416 AGA-CCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCTGTGGGGC
1 AGATTGAAGACAGTAA-TCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * ** * *
61392460 ACACTGAATATGGTGAATCTTATCTCCCTG-AGTTTGTAGTGGAGT
1 AGATTGAAGACAGT-AATCTTATCTCCCTGAAG-TTGCAGTGGAGC
* * * * * *
61392505 AAATTGAGGCCAGTAATCCTATCTCCCTGAAGTTACAGTCGAGC
1 AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
* * * * * * * *
61392549 GGATT-AAAATAATAGATCTTATCTCTCTGAGGTTGCAGTAGAGT
1 AGATTGAAGACAGTA-ATCTTATCTCCCTGAAGTTGCAGTGGAGC
61392593 AGAT
1 AGAT
61392597 CGCATCAGAT
Statistics
Matches: 544, Mismatches: 156, Indels: 96
0.68 0.20 0.12
Matches are distributed among these distances:
39 1 0.00
40 17 0.03
41 66 0.12
42 15 0.03
43 42 0.08
44 255 0.47
45 101 0.19
46 5 0.01
47 1 0.00
48 41 0.08
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (44 bp):
AGATTGAAGACAGTAATCTTATCTCCCTGAAGTTGCAGTGGAGC
Found at i:61392318 original size:218 final size:218
Alignment explanation
Indices: 61392046--61392610 Score: 905
Period size: 218 Copynumber: 2.6 Consensus size: 218
61392036 ATCCTACTTT
* *
61392046 TCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGACAGTAATCCTATCTCCCTGAAGTTGCAGTAGA
1 TCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
* * * * *
61392111 GCAAATTCAAATAATAGATCTTCTCTCTCTGAATTTGCAGTACAGTGGATCGCATAAGGTCTTAT
66 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTAT
*
61392176 CTCCCTGAGGTTGCAGCGGAGCAGACCAATAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
131 CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
* *
61392241 TAGACTGAAGATGGTGAATCTTA
196 CACACTGAAGATGGTGAATCTTA
* * *
61392264 TCTCCTTGAGTTTGCAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTGGA
1 TCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
*
61392329 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGCAGAGTGGATCGCATCAGGTCTTAT
66 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTAT
*
61392394 CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCTGTGGGG
131 CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
*
61392459 CACACTGAATATGGTGAATCTTA
196 CACACTGAAGATGGTGAATCTTA
* * * *
61392482 TCTCCCTGAGTTTGTAGTGGAGTAAATTGAGGCCAGTAATCCTATCTCCCTGAAGTTACAGTCGA
1 TCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
* * * * *
61392547 GCGGATTAAAATAATAGATCTTATCTCTCTGAGGTTGCAGTAGAGTAGATCGCATCAGATCTTA
66 GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTA
61392611 CTTCCTAGAC
Statistics
Matches: 319, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
218 319 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (218 bp):
TCTCCCTGAGTTTGTAGTGGAGCAGATTGAAGCCAGTAATCCTATCTCCCTGAAGTTACAGTAGA
GCAGATTCAAATAATAGATCTTATCTCTCTGAAGTTGCAGTAGAGTGGATCGCATCAGGTCTTAT
CTCCCTGAGGTTGCAGCGGAGCAGACCAAGAAAGCAAGTCTTATCCCCCTGAAGTTGCAGTGGGG
CACACTGAAGATGGTGAATCTTA
Found at i:61392688 original size:50 final size:50
Alignment explanation
Indices: 61392634--61392772 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
61392624 GCAGTGGAAC
* * **
61392634 AGATTTAAGCTACAACGGCGAATCTTTCTTCCCCGACATTGTAGTTAAAA
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGTAGGGAAAA
* * * ** * *
61392684 AGATTGAAGCTACAACAGCGAATCATACTTCCCTGACGGTGTAGGGGAAC
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGTAGGGAAAA
* * *
61392734 AGATTGAAGTTACAATGGCGAATCTTGCTTCCCCGACAT
1 AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACAT
61392773 CACAGTTAAG
Statistics
Matches: 70, Mismatches: 19, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGACATTGTAGGGAAAA
Found at i:61394253 original size:20 final size:21
Alignment explanation
Indices: 61394230--61394268 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
61394220 CATATTAGTT
*
61394230 TATATATTTAC-TTATTTTCA
1 TATATATATACATTATTTTCA
61394250 TATATATATACATTATTTT
1 TATATATATACATTATTTT
61394269 ATTTTATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
TATATATATACATTATTTTCA
Found at i:61400283 original size:26 final size:25
Alignment explanation
Indices: 61400254--61400313 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
61400244 TATTAACACT
*
61400254 TATTTATAATAATTACAATTAATTAA
1 TATTTATAATAATTA-AATAAATTAA
* * *
61400280 TATTTACTTATATTTAAATAAATTAT
1 TATTTA-TAATAATTAAATAAATTAA
61400306 TATTTATA
1 TATTTATA
61400314 GATTTTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
25 1 0.04
26 20 0.71
27 7 0.25
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTATAATAATTAAATAAATTAA
Found at i:61400786 original size:17 final size:15
Alignment explanation
Indices: 61400751--61400789 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
61400741 TCTGTCTCTC
*
61400751 TAAAATATAAAATTT
1 TAAAATAAAAAATTT
61400766 TAAAATAAAATAATATT
1 TAAAATAAAA-AAT-TT
61400783 TAAAATA
1 TAAAATA
61400790 GTATATAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
16 3 0.14
17 9 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TAAAATAAAAAATTT
Found at i:61405154 original size:12 final size:12
Alignment explanation
Indices: 61405139--61405168 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
61405129 AATAATTAAA
61405139 TAAATTAGAAAT
1 TAAATTAGAAAT
*
61405151 TAAATTGGAAAT
1 TAAATTAGAAAT
61405163 TAAATT
1 TAAATT
61405169 CGAATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:61408299 original size:23 final size:23
Alignment explanation
Indices: 61408272--61408370 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
61408262 AGTGTTATTG
*
61408272 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61408295 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61408318 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61408341 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
61408364 ATCAGTG
1 ATCAGTG
61408371 TTGCACTTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:61415412 original size:18 final size:17
Alignment explanation
Indices: 61415379--61415417 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
61415369 TTTTATAAAT
61415379 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
61415397 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
61415414 TGTG
1 TGTG
61415418 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:61415669 original size:23 final size:23
Alignment explanation
Indices: 61415642--61415717 Score: 116
Period size: 23 Copynumber: 3.3 Consensus size: 23
61415632 AGTGTTATTG
* *
61415642 ATCAGTGGTAACTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61415665 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
61415688 AACAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
61415711 ATCAGTG
1 ATCAGTG
61415718 TTGCACTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:61419646 original size:24 final size:24
Alignment explanation
Indices: 61419619--61419718 Score: 130
Period size: 24 Copynumber: 4.1 Consensus size: 24
61419609 ATGCTTCCCA
61419619 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
61419643 TTAAGTGCTCTTCGGAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
* **
61419667 TTAATTGCTCTTCAAAGCTACCCG
1 TTAAGTGCTCTTCGGAGCTACCCG
* *
61419691 TTATAG-GCTCTTTGTGAGCTTCCCG
1 TTA-AGTGCTCTTCG-GAGCTACCCG
61419716 TTA
1 TTA
61419719 TTATGCTCGG
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 54 0.82
25 12 0.18
ACGTcount: A:0.18, C:0.27, G:0.21, T:0.34
Consensus pattern (24 bp):
TTAAGTGCTCTTCGGAGCTACCCG
Found at i:61419678 original size:48 final size:49
Alignment explanation
Indices: 61419550--61419718 Score: 136
Period size: 48 Copynumber: 3.5 Consensus size: 49
61419540 TCCAGACTAA
* * * *
61419550 AGGCTCTTTGTGAGCTTCCCGTT-AGTGCTCGCTT-GAA-CTTCCCGTTAT
1 AGGCTCTTCGTGAGCTACCCGTTAAGTGCT--CTTCAAAGCTACCCGTTAT
* * * **
61419598 ATGGCTATTC--GATGCTTCCCATTAAGTGCTCTTCGGAGCTACCCGTTA-
1 A-GGCTCTTCGTGA-GCTACCCGTTAAGTGCTCTTCAAAGCTACCCGTTAT
*
61419646 AGTGCTCTTCG-GAGCTACCCGTTAATTGCTCTTCAAAGCTACCCGTTAT
1 AG-GCTCTTCGTGAGCTACCCGTTAAGTGCTCTTCAAAGCTACCCGTTAT
* *
61419695 AGGCTCTTTGTGAGCTTCCCGTTA
1 AGGCTCTTCGTGAGCTACCCGTTA
61419719 TTATGCTCGG
Statistics
Matches: 99, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
47 6 0.06
48 56 0.57
49 37 0.37
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (49 bp):
AGGCTCTTCGTGAGCTACCCGTTAAGTGCTCTTCAAAGCTACCCGTTAT
Found at i:61419710 original size:73 final size:72
Alignment explanation
Indices: 61419549--61419718 Score: 177
Period size: 72 Copynumber: 2.3 Consensus size: 72
61419539 TTCCAGACTA
* * *
61419549 AAGGCTCTTTGTGAGCTTCCCGTT-AGTGCTCGCTTGAACTTCCCGTTATATGGCTATTCGATGC
1 AAGGCTCTTTGTGAGCTTCCCGTTAAGTGCTC-CTTGAACTACCCGTTATATGGCTATTCAAAGC
*
61419613 TTCCCATT
65 TACCCATT
* * * * *
61419621 AAGTGCTCTTCG-GAGCTACCCGTTAAGTGCT-CTTCGGAGCTACCCGTTA-ATTGCTCTTCAAA
1 AAG-GCTCTTTGTGAGCTTCCCGTTAAGTGCTCCTT--GAACTACCCGTTATATGGCTATTCAAA
*
61419683 GCTACCCGTT
63 GCTACCCATT
61419693 ATAGGCTCTTTGTGAGCTTCCCGTTA
1 A-AGGCTCTTTGTGAGCTTCCCGTTA
61419719 TTATGCTCGG
Statistics
Matches: 80, Mismatches: 12, Indels: 11
0.78 0.12 0.11
Matches are distributed among these distances:
71 3 0.04
72 39 0.49
73 38 0.47
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (72 bp):
AAGGCTCTTTGTGAGCTTCCCGTTAAGTGCTCCTTGAACTACCCGTTATATGGCTATTCAAAGCT
ACCCATT
Found at i:61425636 original size:34 final size:34
Alignment explanation
Indices: 61425593--61425787 Score: 282
Period size: 34 Copynumber: 5.7 Consensus size: 34
61425583 CATTATTTTG
61425593 TTGCAGGGAATCTCTCATGTTCACACATCATTTC
1 TTGCAGGGAATCTCTCATGTTCACACATCATTTC
* * * *
61425627 TTGCAGGGAATCTCTCTTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCATGTTCACACATCA-TTTC
*
61425662 TTGCAGGGAATCTCTCCTGTTCACACATCATTTC
1 TTGCAGGGAATCTCTCATGTTCACACATCATTTC
*
61425696 TTGCAGGGAATCTCTCCTGTTCACACATCATTTC
1 TTGCAGGGAATCTCTCATGTTCACACATCATTTC
** * *
61425730 TTGCAGGGAATCTCTCATGTTCATGCATTATGTTG
1 TTGCAGGGAATCTCTCATGTTCACACATCAT-TTC
61425765 TTGCAGGGAATCTCTCATGTTCA
1 TTGCAGGGAATCTCTCATGTTCA
61425788 TGTATCATTT
Statistics
Matches: 146, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
34 91 0.62
35 55 0.38
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCATGTTCACACATCATTTC
Found at i:61425669 original size:69 final size:69
Alignment explanation
Indices: 61425558--61425787 Score: 327
Period size: 69 Copynumber: 3.3 Consensus size: 69
61425548 TTGTCTTTTG
* * *
61425558 TTGCAGGGAATATTTCCTGTTAACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
61425623 TTTC
66 TTTC
* *
61425627 TTGCAGGGAATCTCTCTTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
61425692 TTTC
66 TTTC
* * * ** *
61425696 TTGCAGGGAATCTCTCCTGTTCACACATCA-TTTCTTGCAGGGAATCTCTCATGTTCATGCATTA
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
*
61425760 TGTTG
66 T-TTC
*
61425765 TTGCAGGGAATCTCTCATGTTCA
1 TTGCAGGGAATCTCTCCTGTTCA
61425788 TGTATCATTT
Statistics
Matches: 145, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
68 30 0.21
69 115 0.79
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (69 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACACATCA
TTTC
Found at i:61425733 original size:103 final size:104
Alignment explanation
Indices: 61425553--61425787 Score: 364
Period size: 103 Copynumber: 2.3 Consensus size: 104
61425543 CTCACTTGTC
* * * * * *
61425553 TTTTGTTGCAGGGAATATTTCCTGTTAACGCATTATTTTGTTGCAGGGAATCTCTCATGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTTTCTTGCAGGGAATCTCTCATGTTCACA
*
61425618 CATCATTTCTTGCAGGGAATCTCTCTTGTTCACGCATTA
66 CATCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
*
61425657 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTTTCTTGCAGGGAATCTCTCATGTTCACA
*
61425721 CATCATTTCTTGCAGGGAATCTCTCATGTTCATGCATTA
66 CATCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
* *
61425760 TGTTGTTGCAGGGAATCTCTCATGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCA
61425788 TGTATCATTT
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 90 0.75
104 30 0.25
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (104 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTTTCTTGCAGGGAATCTCTCATGTTCACA
CATCATTTCTTGCAGGGAATCTCTCATGTTCACGCATTA
Found at i:61430890 original size:111 final size:110
Alignment explanation
Indices: 61430670--61430975 Score: 442
Period size: 111 Copynumber: 2.8 Consensus size: 110
61430660 ATATTTGACA
* *
61430670 ATTTGGTTAAACGA-G-AAATCGAA-ACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAA
1 ATTTGGTTAAACGAGGAAAATC-AACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAA
* * * *
61430730 TGCAAAACATTGCCTTATTTTGAAATTTTTAGAAGGATATTAAGCC
65 CGCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
*
61430776 ATTTGGTTTAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTAAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
61430841 GCAAAACATTGCCTTATTCTTAAAAGTTTTAAAAGGATATTAAGCC
66 GCAAAACATTGCCTTATT-TTAAAAGTTTTAAAAGGATATTAAGCC
** *
61430887 ATTTGGTTGGACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
1 ATTTGGTTAAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
* * *
61430952 GCGAAATATTGCCTTACTTTAAAA
66 GCAAAACATTGCCTTATTTTAAAA
61430976 CATTTTCCTT
Statistics
Matches: 181, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
106 13 0.07
107 3 0.02
108 24 0.13
109 11 0.06
110 29 0.16
111 101 0.56
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (110 bp):
ATTTGGTTAAACGAGGAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAAC
GCAAAACATTGCCTTATTTTAAAAGTTTTAAAAGGATATTAAGCC
Found at i:61433540 original size:132 final size:132
Alignment explanation
Indices: 61433364--61433958 Score: 1073
Period size: 132 Copynumber: 4.5 Consensus size: 132
61433354 GCTTGGGGCG
* *
61433364 TAGGACTAATGGCTTAGATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTTGATC
1 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
* * * **
61433429 TGCTCCACTACTATTTAGGGTGACAGAATCTGTAATCTTCAACCTACTCCACTACTGTTTAGGGT
66 TGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
61433494 GA
131 GA
*
61433496 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTAGGAAGATAAGATTCACCATCTTCGATC
1 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
* *
61433561 TGCTCCACTACTACTTAGGGTGACAGGACCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
66 TGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
61433626 GA
131 GA
61433628 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
1 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
*
61433693 TGCTCCACTACTACTTAGGGTGACAGGATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
66 TGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
61433758 GA
131 GA
*
61433760 TAGGACTAATGGCTTAAATCTACTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
1 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
61433825 TGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
66 TGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
61433890 GA
131 GA
*
61433892 TAGGACTAATGGCTTAAATTTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
1 TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
61433957 TG
66 TG
61433959 TTCCGCTGCC
Statistics
Matches: 447, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
132 447 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
TAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCACCATCTTCGATC
TGCTCCACTACTACTTAGGGTGACAGAATCTGCAATCTTCATCCTACTCCACTACTGCATAGGGT
GA
Found at i:61433599 original size:44 final size:42
Alignment explanation
Indices: 61433551--61433898 Score: 153
Period size: 44 Copynumber: 7.9 Consensus size: 42
61433541 AAGATTCACC
*
61433551 ATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGGACCTGCA
1 ATCTTC-ATCTGCTCCACTACTACTTAGGGTGATAGGA-CTGCA
* * *
61433595 ATCTTCATCCTACTCCACTACTGCATAGGGTGATAGGACT--A
1 ATCTTCAT-CTGCTCCACTACTACTTAGGGTGATAGGACTGCA
* * * * *
61433636 ATGGCTTAAATCTGCTTCTCCACT-GTA-TT-GGGAAGATAAGA-TTCA
1 AT--CTT-CATCTG---CTCCACTACTACTTAGGG-TGATAGGACTGCA
*
61433681 CCATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGGATCTGCA
1 --ATCTTC-ATCTGCTCCACTACTACTTAGGGTGATAGGA-CTGCA
* * *
61433727 ATCTTCATCCTACTCCACTACTGCATAGGGTGATAGGACT--A
1 ATCTTCAT-CTGCTCCACTACTACTTAGGGTGATAGGACTGCA
* * * * * *
61433768 ATGGCTTAAATCTACTTCTCCACT-GTA-TT-GGGAAGATAAGA-TTCA
1 AT--CTT-CA--T-CTGCTCCACTACTACTTAGGG-TGATAGGACTGCA
* *
61433813 CCATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGAATCTGCA
1 --ATCTTC-ATCTGCTCCACTACTACTTAGGGTGATAGGA-CTGCA
* * *
61433859 ATCTTCATCCTACTCCACTACTGCATAGGGTGATAGGACT
1 ATCTTCAT-CTGCTCCACTACTACTTAGGGTGATAGGACT
61433899 AATGGCTTAA
Statistics
Matches: 226, Mismatches: 42, Indels: 73
0.66 0.12 0.21
Matches are distributed among these distances:
41 6 0.03
42 16 0.07
43 33 0.15
44 122 0.54
45 22 0.10
46 23 0.10
47 4 0.02
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (42 bp):
ATCTTCATCTGCTCCACTACTACTTAGGGTGATAGGACTGCA
Found at i:61435286 original size:10 final size:10
Alignment explanation
Indices: 61435271--61435324 Score: 69
Period size: 10 Copynumber: 5.5 Consensus size: 10
61435261 CCATTTTTAC
61435271 TTTTTCATTT
1 TTTTTCATTT
61435281 TTTTTCA---
1 TTTTTCATTT
61435288 TTTTTCATTT
1 TTTTTCATTT
61435298 TTTTTCATTCAT
1 TTTTTCATT--T
61435310 TTTTTCATTT
1 TTTTTCATTT
61435320 TTTTT
1 TTTTT
61435325 GTTTGACTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.18
10 22 0.56
12 10 0.26
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTTTCATTT
Done.