Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006607.1 Hibiscus syriacus cultivar Beakdansim tig00016212_pilon, whole genome shotgun sequence
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: 1995858
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 8
Found at i:952831 original size:211 final size:211
Alignment explanation
Indices: 952467--952865 Score: 798
Period size: 211 Copynumber: 1.9 Consensus size: 211
952457 ACTCTCTTGG
952467 AGGTGACTTTGGCCTTCATCGAGCTTTTCCACTTCATGCCTGTGGATGTTGATATGGTCTGAGCC
1 AGGTGACTTTGGCCTTCATCGAGCTTTTCCACTTCATGCCTGTGGATGTTGATATGGTCTGAGCC
952532 ACAACAACATAAAAAATGACAAGGGGAACCTTCTTGATTGGTTCAAGCATGATTGTATCAAGATT
66 ACAACAACATAAAAAATGACAAGGGGAACCTTCTTGATTGGTTCAAGCATGATTGTATCAAGATT
952597 CTCCAAACTTTCCCTAGCACCGCCCATAGCAATATTAGGCGAGCTCTTAGGTTAACTCACATTAA
131 CTCCAAACTTTCCCTAGCACCGCCCATAGCAATATTAGGCGAGCTCTTAGGTTAACTCACATTAA
952662 CTTGATGTATCTCCTT
196 CTTGATGTATCTCCTT
952678 AGGTGACTTTGGCCTTCATCGAGCTTTTCCACTTCATGCCTGTGGATGTTGATATGGTCTGAGCC
1 AGGTGACTTTGGCCTTCATCGAGCTTTTCCACTTCATGCCTGTGGATGTTGATATGGTCTGAGCC
952743 ACAACAACATAAAAAATGACAAGGGGAACCTTCTTGATTGGTTCAAGCATGATTGTATCAAGATT
66 ACAACAACATAAAAAATGACAAGGGGAACCTTCTTGATTGGTTCAAGCATGATTGTATCAAGATT
952808 CTCCAAACTTTCCCTAGCACCGCCCATAGCAATATTAGGCGAGCTCTTAGGTTAACTC
131 CTCCAAACTTTCCCTAGCACCGCCCATAGCAATATTAGGCGAGCTCTTAGGTTAACTC
952866 CAAGTTAGTT
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
211 188 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (211 bp):
AGGTGACTTTGGCCTTCATCGAGCTTTTCCACTTCATGCCTGTGGATGTTGATATGGTCTGAGCC
ACAACAACATAAAAAATGACAAGGGGAACCTTCTTGATTGGTTCAAGCATGATTGTATCAAGATT
CTCCAAACTTTCCCTAGCACCGCCCATAGCAATATTAGGCGAGCTCTTAGGTTAACTCACATTAA
CTTGATGTATCTCCTT
Found at i:961350 original size:46 final size:44
Alignment explanation
Indices: 961288--961377 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 44
961278 TTGAAAAAGC
* *
961288 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGT-ATGT-CATCGATGCATAAAATGCA
* *
961334 CTGATTGCATCGATGCATGGTATGTCATTGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTATGTCATCGATGCATAAAATGCA
961378 TTCGATGTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 17 0.43
45 3 0.08
46 20 0.50
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (44 bp):
CTGAGTGCATCGATGCATGGTATGTCATCGATGCATAAAATGCA
Found at i:962361 original size:11 final size:11
Alignment explanation
Indices: 962347--962376 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
962337 ATAAAAAAAA
962347 TATTATTTTAT
1 TATTATTTTAT
962358 TATTATTTTAT
1 TATTATTTTAT
*
962369 TATCATTT
1 TATTATTT
962377 AATAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:972467 original size:18 final size:20
Alignment explanation
Indices: 972431--972469 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
972421 TTACTATGGT
972431 TTTTTATAAATAAAAATATG
1 TTTTTATAAATAAAAATATG
*
972451 TTTTTA-AAA-AAATATATG
1 TTTTTATAAATAAAAATATG
972469 T
1 T
972470 ATATTTTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTTATAAATAAAAATATG
Found at i:976452 original size:24 final size:24
Alignment explanation
Indices: 976412--976470 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
976402 CGATGTTAGT
* *
976412 TCTGTTCTGACAT-CTGATCTGAAA
1 TCTGTTCTGA-TTCCTGACCTGAAA
* * *
976436 TCTGTTTTGATTCCTGACCTGGAT
1 TCTGTTCTGATTCCTGACCTGAAA
976460 TCTGTTCTGAT
1 TCTGTTCTGAT
976471 ATGATTCTGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.44
Consensus pattern (24 bp):
TCTGTTCTGATTCCTGACCTGAAA
Found at i:976478 original size:16 final size:16
Alignment explanation
Indices: 976457--976488 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
976447 TCCTGACCTG
976457 GATTCTGTTCTGATAT
1 GATTCTGTTCTGATAT
976473 GATTCTGTTCTGATAT
1 GATTCTGTTCTGATAT
976489 CTGATCTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (16 bp):
GATTCTGTTCTGATAT
Found at i:978873 original size:19 final size:20
Alignment explanation
Indices: 978839--978893 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 20
978829 CCGACTGCGC
*
978839 GACTCGACCTGTTGACC-TGCT
1 GACT-GACC-GTTGACCACGCT
978860 GACTGACCGTTGACCACGCT
1 GACTGACCGTTGACCACGCT
*
978880 GAC-CACCGTTGACC
1 GACTGACCGTTGACC
978894 GTTGATCGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 17 0.55
20 10 0.32
21 4 0.13
ACGTcount: A:0.18, C:0.36, G:0.24, T:0.22
Consensus pattern (20 bp):
GACTGACCGTTGACCACGCT
Found at i:981348 original size:24 final size:24
Alignment explanation
Indices: 981271--981348 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
981261 TGTTCTGACA
* *
981271 TCTGATCTGAAATCTGTTTTGATT
1 TCTGATCTGAATTCTGTTTTGTTT
* * * * *
981295 TCTTACCTGGATTCTGTTATGATAT
1 TCTGATCTGAATTCTGTTTTG-TTT
*
981320 T-TGATCTGAATTATGTTTTGTTT
1 TCTGATCTGAATTCTGTTTTGTTT
981343 TCTGAT
1 TCTGAT
981349 ATCTCCGTTT
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
23 3 0.08
24 34 0.87
25 2 0.05
ACGTcount: A:0.19, C:0.12, G:0.17, T:0.53
Consensus pattern (24 bp):
TCTGATCTGAATTCTGTTTTGTTT
Found at i:981473 original size:55 final size:55
Alignment explanation
Indices: 981402--981511 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
981392 TGGAGGGTTT
* ** *
981402 ATATCTGCAGGTTCCTCATTTTTGTGCTCAGGGCCTTACTGTTGTGCAGGGGGTG
1 ATATATGCAGGTTCCTCAGCTTTGTGCTCAGGGCCTTACTGTTGTACAGGGGGTG
* * *
981457 ATATATGCATGTTCCTCGGCTTTGTGCTCAGGGCCTTACTGTTTTACAGGGGGTG
1 ATATATGCAGGTTCCTCAGCTTTGTGCTCAGGGCCTTACTGTTGTACAGGGGGTG
981512 TATGGTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.14, C:0.20, G:0.30, T:0.36
Consensus pattern (55 bp):
ATATATGCAGGTTCCTCAGCTTTGTGCTCAGGGCCTTACTGTTGTACAGGGGGTG
Found at i:987556 original size:20 final size:20
Alignment explanation
Indices: 987531--987575 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
987521 TCTACGTGCA
987531 TGCACATTACTTGCCAATCT
1 TGCACATTACTTGCCAATCT
987551 TGCACATTACTTGCCAATCT
1 TGCACATTACTTGCCAATCT
987571 TGCAC
1 TGCAC
987576 CCAAAGCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.33
Consensus pattern (20 bp):
TGCACATTACTTGCCAATCT
Found at i:998743 original size:43 final size:45
Alignment explanation
Indices: 998668--998763 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 45
998658 AGGATCAGAT
*
998668 TTATTATTTTATTAGGAATTAAGGTTGGGTTAAAACAATATTTAG-TTA
1 TTATTATTTTATTAGGAATTAA-G--GAGTTAAAAC-ATATTTAGTTTA
*
998716 TTATTATTTTATTAGGAATT-A-GAGTTAAAACATGTTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGGAGTTAAAACATATTTAGTTTA
998759 TTATT
1 TTATT
998764 TTTATTCTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
42 7 0.16
43 17 0.38
47 1 0.02
48 20 0.44
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (45 bp):
TTATTATTTTATTAGGAATTAAGGAGTTAAAACATATTTAGTTTA
Found at i:1003226 original size:16 final size:15
Alignment explanation
Indices: 1003180--1003226 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
1003170 TTTAAGGACT
1003180 AAATTTAACAAATATG
1 AAATTTAACAAAT-TG
*
1003196 AAA-TT-ACAAAATG
1 AAATTTAACAAATTG
1003209 AAATTTAAACAAATTG
1 AAATTT-AACAAATTG
1003225 AA
1 AA
1003227 TAACATACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 5 0.19
14 7 0.27
15 2 0.08
16 12 0.46
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.28
Consensus pattern (15 bp):
AAATTTAACAAATTG
Found at i:1008010 original size:3 final size:3
Alignment explanation
Indices: 1008002--1008042 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
1007992 AGGTTAATAA
1008002 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1008043 AGATTATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1010744 original size:87 final size:86
Alignment explanation
Indices: 1010601--1010780 Score: 202
Period size: 87 Copynumber: 2.1 Consensus size: 86
1010591 GACTCTCTTG
** * * * * *
1010601 TGAAGAGGGGTCAATCTTTTGATGTTATTCTTGACTTTCTCGTGAAGGGAAATCAATCTTTCA-A
1 TGAAGAGAAGTCAATCTTTTGATGTCATTCTGGAATTTCTAGTGAAGAGAAATCAATCTTTCAGA
*
1010665 -TGTTATTATTGACTTTCTCA
66 TTGTCATTATTGACTTTCTCA
* *
1010685 TGAAGAGAAGTCAATCTTTTGGTAATGTCATTCTGGAATTTCTAGTGAAGAGAAGTCAATCTTTT
1 TGAAGAGAAGTCAATCTTTT-G--ATGTCATTCTGGAATTTCTAGTGAAGAGAAATCAATCTTTC
* *
1010750 AGTATTGTCATTCTTGACTTTCTCG
63 AG-ATTGTCATTATTGACTTTCTCA
1010775 TGAAGA
1 TGAAGA
1010781 AGAGTTGATA
Statistics
Matches: 78, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
84 18 0.23
85 1 0.01
87 35 0.45
89 1 0.01
90 23 0.29
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.40
Consensus pattern (86 bp):
TGAAGAGAAGTCAATCTTTTGATGTCATTCTGGAATTTCTAGTGAAGAGAAATCAATCTTTCAGA
TTGTCATTATTGACTTTCTCA
Found at i:1010885 original size:45 final size:45
Alignment explanation
Indices: 1010591--1011417 Score: 526
Period size: 45 Copynumber: 18.7 Consensus size: 45
1010581 CCTTCAACTA
* * *
1010591 GACTCTCTTGTGAAGAGGGGTCAATC-TTT--TGATGTTATTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
* * *
1010633 GACTTTCTCGTGAAG-GGAAATCAATCTTTCA---ATGTTATTATT
1 GACTTTCTCGTGAAGAGG-AGTCAATCTTTTAGTGATGTTATTCTT
* * * * * *
1010675 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTAATGTCATTCTG
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
* * * *
1010720 GAATTTCTAGTGAAGAGAAGTCAATCTTTTAGT-ATTGTCATTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGA-TGTTATTCTT
* ** * * * *
1010765 GACTTTCTCGTGAAGAAGAGTTGATATTTTGGTGTTGTTA-T-TA
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
* * *
1010808 G-CTTTCTCATGAAGA-AAGGTCAACCTTTTAGTGATGTTATTCTT
1 GACTTTCTCGTGAAGAGGA-GTCAATCTTTTAGTGATGTTATTCTT
* * *
1010852 GACTTTGTCGTGAAGAGGAGTCAATCTTGTAGTG-T-TATCTTCCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGT-TATT-CTT
*** * * *
1010897 GACTTTCTCACAAAGAGGATTCGATCTTTT-G-G-TGTTGTTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
* * ** * *
1010939 GGCTTTCTCATGAAGATAAGTCAACCTTTTAGTGATGTTGTTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
* * * * * * * *
1010984 GATTTTCTTGTGAAGAGAAGTTAATCGTTCA-TTATTGTCATTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGA-TGTTATTCTT
* * * *
1011029 GACTTTCTCATGAAGAGGAATCAATC-TTTATGTGTTGTCT-TCCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTA-GTGATGT-TATTCTT
* * * * *
1011074 GACTTTCTCGTGAAGAGAAGTTAA-CATTTTATTGGTGTTGTTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATC-TTTTAGTGATGTTATTCTT
* * * *
1011119 GACTTTTTCATGAAGAGAAGTCAACCTTTTAGTGATGTCT-TTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGT-TATTCTT
* ** * *
1011164 AACTTTCTTATGAAGAGGAGTCAATCTTTTAGTGTTGTCT-TCCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGT-TATTCTT
* * * *
1011209 GACTTTTTTGTGAAGAGGAGTCAATCTTTTAGTGTTGTCT-TCCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGT-TATTCTT
* * *
1011254 GACTTTCAT-ATGAAGAGGAGTCAATCTTATAGTGTTGTCT-TTCTT
1 GACTTTC-TCGTGAAGAGGAGTCAATCTTTTAGTGATGT-TATTCTT
** * * *
1011299 GACTTTCTCGCAAAGAGGGGTCAATCTTTTAGTGTTGTCCTAAT-TT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGT--TATTCTT
* * * * *
1011345 -ACTTCCTCGTGAAGAGAAGTCAACCTTTTAATGGTGTTATTCTT
1 GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
*
1011389 GACTTTCTCGT-AGAGAGGATTCAA-CTTTT
1 GACTTTCTCGTGA-AGAGGAGTCAATCTTTT
1011418 CAATAGTATC
Statistics
Matches: 621, Mismatches: 128, Indels: 70
0.76 0.16 0.09
Matches are distributed among these distances:
41 3 0.00
42 106 0.17
43 16 0.03
44 27 0.04
45 455 0.73
46 13 0.02
47 1 0.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (45 bp):
GACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGATGTTATTCTT
Found at i:1011407 original size:135 final size:133
Alignment explanation
Indices: 1010628--1011399 Score: 675
Period size: 135 Copynumber: 5.8 Consensus size: 133
1010618 TTTGATGTTA
* * * * * * *
1010628 TTCTTGACTTTCTCGTGAAG-GGAAATCAATCTTTCAATGTTAT-TATTGACTTTCTCATGAAGA
1 TTCTTGACTTTCTCATGAAGAGG-AGTCAATCTTTTAGTGTTGTCTCTTGACTTTCTCGTGAAGA
* * * * * * * * *
1010691 GAAGTCAATCTTTTGGTAATGTCATTCTGGAATTTCTAGTGAAGAGAAGTCAATCTTTTAGTATT
65 GAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTATAGTGTT
*
1010756 GTCA
130 GTCT
* * ** * * * *
1010760 TTCTTGACTTTCTCGTGAAGAAGAGTTGATATTTTGGTGTTGT-TATT-AGCTTTCTCATGAAGA
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTGTCTCTTGA-CTTTCTCGTGAAGA
* * *
1010823 -AAGGTCAACCTTTTAGTGATGTTATTCTTGACTTTGTCGTGAAGAGGAGTCAATCTTGTAGTGT
65 GAA-GTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTATAGTGT
*
1010887 TATCT
129 TGTCT
* ** * * * * * *
1010892 TCCTTGACTTTCTCACAAAGAGGATTCGATCTTTTGGTGTTGT-TCTTGGCTTTCTCATGAAGAT
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTGTCTCTTGACTTTCTCGTGAAGAG
* * * * *
1010956 AAGTCAACCTTTTAGTGATGTTGTTCTTGATTTTCTTGTGAAGAGAAGTTAATCGTTCAT--TAT
66 AAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATC-TT-ATAGTGT
*
1011019 TGTCA
129 TGTCT
*
1011024 TTCTTGACTTTCTCATGAAGAGGAATCAATC-TTTATGTGTTGTCTTCCTTGACTTTCTCGTGAA
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTTA-GTGTTGTC-T-CTTGACTTTCTCGTGAA
* * * * * * * * *
1011088 GAGAAGTTAACATTTTATTGGTGTTGTTCTTGACTTTTTCATGAAGAGAAGTCAACCTTTTAGTG
63 GAGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTATAGTG
*
1011153 ATGTCT
128 TTGTCT
* * * *
1011159 TTCTTAACTTTCTTATGAAGAGGAGTCAATCTTTTAGTGTTGTCTTCCTTGACTTTTTTGTGAAG
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTGTC-T-CTTGACTTTCTCGTGAAG
* * * * * *
1011224 AGGAGTCAATCTTTTAGTGTTGTCT-TCCTTGACTTTCAT-ATGAAGAGGAGTCAATCTTATAGT
64 AGAAGTCAACCTTTTAGTGATGT-TATTCTTGACTTTC-TCGTGAAGAGAAGTCAATCTTATAGT
1011287 GTTGTCT
127 GTTGTCT
*** * * * *
1011294 TTCTTGACTTTCTCGCAAAGAGGGGTCAATCTTTTAGTGTTGTCCTAATTTACTTCCTCGTGAAG
1 TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTGT-CT-CTTGACTTTCTCGTGAAG
* *
1011359 AGAAGTCAACCTTTTAATGGTGTTATTCTTGACTTTCTCGT
64 AGAAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGT
1011400 AGAGAGGATT
Statistics
Matches: 521, Mismatches: 100, Indels: 35
0.79 0.15 0.05
Matches are distributed among these distances:
131 6 0.01
132 239 0.46
133 6 0.01
134 6 0.01
135 257 0.49
136 7 0.01
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.42
Consensus pattern (133 bp):
TTCTTGACTTTCTCATGAAGAGGAGTCAATCTTTTAGTGTTGTCTCTTGACTTTCTCGTGAAGAG
AAGTCAACCTTTTAGTGATGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCTTATAGTGTTG
TCT
Found at i:1012539 original size:134 final size:134
Alignment explanation
Indices: 1012189--1012518 Score: 446
Period size: 134 Copynumber: 2.5 Consensus size: 134
1012179 TTTTTCCTAT
*
1012189 ATTTGGTCTTCCTGAAGAGCAGCGAATCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTG
1 ATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTG
* * * **
1012254 AAGTGGATCAAACTTTTCTCGAGTTTGATCTCCCCTAAAGAGTAGTGGAGAAGATTATTCTTCTT
66 AAGTGAATCAAAATTTTCTCGAATTTGATCTCCCCTAAAGAGTAGTAAAGAAGATTATTCTTCTT
1012319 TCAG
131 TCAG
* * * ** * * *
1012323 ATTTGGTTTTCTTGAAGAGAAATGAAGCAAATCAAATTTGATTCAATCTTCCTTGAAGAGTAGTG
1 ATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTG
* ** * *
1012388 AAGTGAATTAAAATTTTCTCGAATTTGATCTCCCCTAAAGAGTAGTAAAGCGGATTCTTTTTCTT
66 AAGTGAATCAAAATTTTCTCGAATTTGATCTCCCCTAAAGAGTAGTAAAGAAGATTATTCTTCTT
1012453 TCAG
131 TCAG
* * *
1012457 ATTTGGTCTTCCTGAAAAGCAGCAAAGCAAATCAAGTTCGATTCAATCTTCCCT-ATAGAGCA
1 ATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAATCTTCCCTGA-AGAGCA
1012519 TCAAAGTAAA
Statistics
Matches: 165, Mismatches: 30, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
133 1 0.01
134 164 0.99
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (134 bp):
ATTTGGTCTTCCTGAAGAGCAGCGAAGCAAATCAAATTCGATTCAATCTTCCCTGAAGAGCAGTG
AAGTGAATCAAAATTTTCTCGAATTTGATCTCCCCTAAAGAGTAGTAAAGAAGATTATTCTTCTT
TCAG
Found at i:1016059 original size:4 final size:4
Alignment explanation
Indices: 1016050--1016104 Score: 74
Period size: 4 Copynumber: 13.8 Consensus size: 4
1016040 ATCATTAATT
* * * *
1016050 CATA CATA CATA CATA CATA CATA CATA CATG CATG CATA AAAA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1016098 CATA CAT
1 CATA CAT
1016105 TTTTACATGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.49, C:0.24, G:0.04, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:1016892 original size:46 final size:46
Alignment explanation
Indices: 1016825--1017099 Score: 388
Period size: 46 Copynumber: 6.0 Consensus size: 46
1016815 TGAGTGACAC
*
1016825 CATCCTTTCATGCCGATAATGCAACGTTATGCATTTTCATTTGTGG
1 CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
** *
1016871 CATCCTTTCATGCCGATAATGCACCGTTACACATTTTTATTTGTGG
1 CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* *
1016917 TATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTTGTGG
1 CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * * * *
1016963 CATCCTTTCATGTCGATAATGCACCATTATGTATTTTCATTTATGA
1 CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1017009 CATTCTCTTCATGCCGTTAATGCACTGTTATGCATTTTCATTTGTGG
1 CATCCT-TTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1017056 CATCCTTTCATACCGATAATGCACCATTATACATTTTCATTTGT
1 CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGT
1017100 TCATTCATTT
Statistics
Matches: 198, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
46 160 0.81
47 38 0.19
ACGTcount: A:0.22, C:0.22, G:0.14, T:0.42
Consensus pattern (46 bp):
CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
Found at i:1023331 original size:27 final size:26
Alignment explanation
Indices: 1023274--1023338 Score: 121
Period size: 26 Copynumber: 2.5 Consensus size: 26
1023264 AATTTTGTTT
*
1023274 CAAAATTAAAACAAAATATTTTAGTA
1 CAAAAATAAAACAAAATATTTTAGTA
1023300 CAAAAATAAAACAAAATATTTTAGTA
1 CAAAAATAAAACAAAATATTTTAGTA
1023326 CAAAAATAAAACA
1 CAAAAATAAAACA
1023339 TTCATTGAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.63, C:0.09, G:0.03, T:0.25
Consensus pattern (26 bp):
CAAAAATAAAACAAAATATTTTAGTA
Found at i:1023938 original size:46 final size:46
Alignment explanation
Indices: 1023870--1024127 Score: 338
Period size: 46 Copynumber: 5.6 Consensus size: 46
1023860 TTTATGTTGT
* * *
1023870 TAATGCATCGTTATGCATTTTCATTTGTGCCATCATTTCATGCCAA
1 TAATGCATCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * * *
1023916 TAATGCA-CTGTTATGCACTTTCATTTGTGGTATCCTTTCACGCTGA
1 TAATGCATC-GTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* *
1023962 TAATGCATCGTTATGCATTTTTATTTGTGGCATACTTTCATGCCGA
1 TAATGCATCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * * *
1024008 TAAAGCATAGTTATGCATTTTCATTTGTGTCATCCTTTCATGACGA
1 TAATGCATCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
* * * *
1024054 TAATGCACCGTTATGCATTTTCATTTGTGGCATCCTTTTATGTCAA
1 TAATGCATCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
*
1024100 TAATGCATCGCTATGCATTTTCATTTGT
1 TAATGCATCGTTATGCATTTTCATTTGT
1024128 TCATTCATTT
Statistics
Matches: 182, Mismatches: 28, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
45 1 0.01
46 180 0.99
47 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (46 bp):
TAATGCATCGTTATGCATTTTCATTTGTGGCATCCTTTCATGCCGA
Found at i:1024127 original size:138 final size:138
Alignment explanation
Indices: 1023874--1024127 Score: 375
Period size: 138 Copynumber: 1.8 Consensus size: 138
1023864 TGTTGTTAAT
* * *
1023874 GCATCGTTATGCATTTTCATTTGTGCCATCATTTCATGCCAATAATGCACTGTTATGCACTTTCA
1 GCATAGTTATGCATTTTCATTTGTGCCATCATTTCATGACAATAATGCACCGTTATGCACTTTCA
* * * *
1023939 TTTGTGGTATCCTTTCACGCTGATAATGCATCGTTATGCATTTTTATTTGTGGCATACTTTCATG
66 TTTGTGGCATCCTTTCACGCTAATAATGCATCGCTATGCATTTTCATTTGTGGCATACTTTCATG
1024004 CCGATAAA
131 CCGATAAA
* * * *
1024012 GCATAGTTATGCATTTTCATTTGTGTCATCCTTTCATGACGATAATGCACCGTTATGCATTTTCA
1 GCATAGTTATGCATTTTCATTTGTGCCATCATTTCATGACAATAATGCACCGTTATGCACTTTCA
* *
1024077 TTTGTGGCATCCTTTTATG-TCAATAATGCATCGCTATGCATTTTCATTTGT
66 TTTGTGGCATCCTTTCACGCT-AATAATGCATCGCTATGCATTTTCATTTGT
1024128 TCATTCATTT
Statistics
Matches: 102, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
137 1 0.01
138 101 0.99
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (138 bp):
GCATAGTTATGCATTTTCATTTGTGCCATCATTTCATGACAATAATGCACCGTTATGCACTTTCA
TTTGTGGCATCCTTTCACGCTAATAATGCATCGCTATGCATTTTCATTTGTGGCATACTTTCATG
CCGATAAA
Found at i:1025483 original size:2 final size:2
Alignment explanation
Indices: 1025476--1025516 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
1025466 GGGGTATTAT
1025476 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1025517 TACATGTGTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1025656 original size:4 final size:4
Alignment explanation
Indices: 1025647--1025816 Score: 67
Period size: 4 Copynumber: 41.5 Consensus size: 4
1025637 CATTTATATG
* * ** * * *
1025647 TACA TACA TACA TATA TATA TATG TCCA TACA TATCA TTCA TTCA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA
* ** *
1025696 TACA TTTCA TTTA TTA-A T-CA TTCA TACA TACA TACA TACA TATCA GT-CA
1 TACA -TACA TACA -TACA TACA TACA TACA TACA TACA TACA TA-CA -TACA
* * * * * * * *
1025745 TTCA TATA TATA TATA TACA TACA TATAA TTCA TTCA TACA TACA TATTA
1 TACA TACA TACA TACA TACA TACA TA-CA TACA TACA TACA TACA TA-CA
* *
1025795 TTCA TACA TACA TACC TACA TA
1 TACA TACA TACA TACA TACA TA
1025817 TAATTCATAC
Statistics
Matches: 131, Mismatches: 25, Indels: 20
0.74 0.14 0.11
Matches are distributed among these distances:
3 4 0.03
4 113 0.86
5 13 0.10
6 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.38
Consensus pattern (4 bp):
TACA
Found at i:1025695 original size:17 final size:17
Alignment explanation
Indices: 1025673--1025804 Score: 83
Period size: 17 Copynumber: 7.5 Consensus size: 17
1025663 TATATATGTC
1025673 CATACATATCATTCATT
1 CATACATATCATTCATT
1025690 CATACATA-CATTTCATT
1 CATACATATCA-TTCATT
* * *
1025707 TATTAATCATTCATACATACATA
1 CA-T-A-CA-T-AT-CATTCATT
*
1025730 CATACATATCAGTCATT
1 CATACATATCATTCATT
* *
1025747 CATATATAT-ATAT-ATA
1 CATACATATCAT-TCATT
*
1025763 CATACATATAATTCATT
1 CATACATATCATTCATT
*
1025780 CATACATA-CATATTATT
1 CATACATATCAT-TCATT
1025797 CATACATA
1 CATACATA
1025805 CATACCTACA
Statistics
Matches: 89, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
16 16 0.18
17 53 0.60
18 3 0.03
19 2 0.02
20 4 0.04
21 2 0.02
22 2 0.02
23 5 0.06
24 2 0.02
ACGTcount: A:0.41, C:0.19, G:0.01, T:0.39
Consensus pattern (17 bp):
CATACATATCATTCATT
Found at i:1025699 original size:21 final size:21
Alignment explanation
Indices: 1025673--1025809 Score: 86
Period size: 21 Copynumber: 6.4 Consensus size: 21
1025663 TATATATGTC
1025673 CATACATATCAT-TCATTCATA
1 CATACATA-CATATCATTCATA
* * * *
1025694 CATACATTTCATTTATTAATCATT
1 CATACA-TACA--TATCATTCATA
*
1025718 CATACATACATA-CATACATA
1 CATACATACATATCATTCATA
*
1025738 TCAGT-CATTCATAT-ATAT-ATA
1 -CA-TACATACATATCAT-TCATA
* * *
1025759 TATACATACATATAATTCATT
1 CATACATACATATCATTCATA
*
1025780 CATACATACATATTATTCATA
1 CATACATACATATCATTCATA
1025801 CATACATAC
1 CATACATAC
1025810 CTACATATAA
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
19 1 0.01
20 14 0.16
21 55 0.62
22 2 0.02
23 4 0.05
24 12 0.14
ACGTcount: A:0.41, C:0.20, G:0.01, T:0.39
Consensus pattern (21 bp):
CATACATACATATCATTCATA
Found at i:1025700 original size:49 final size:48
Alignment explanation
Indices: 1025613--1025790 Score: 156
Period size: 49 Copynumber: 3.8 Consensus size: 48
1025603 TGAATGAAGG
* * * * ** *
1025613 ATATGTATGTCCATACATATCTTTCATTTATATGTACATACATACATAT
1 ATATATATATCCATACATATCATTCATTCATACATACAT-CATTCATAT
*
1025662 ATATATATGTCCATACATATCATTCATTCATACATACAT--TTCAT-T
1 ATATATATATCCATACATATCATTCATTCATACATACATCATTCATAT
* * *
1025707 -TAT-TA-AT-CATTCATA-CATACATACATACATATCAGTCATTCATAT
1 ATATATATATCCATACATATCATTCATTCATACATA-CA-TCATTCATAT
* *
1025752 ATATATATATACATACATATAATTCATTCATACATACAT
1 ATATATATATCCATACATATCATTCATTCATACATACAT
1025791 ATTATTCATA
Statistics
Matches: 105, Mismatches: 14, Indels: 21
0.75 0.10 0.15
Matches are distributed among these distances:
40 14 0.13
41 9 0.09
42 2 0.02
43 2 0.02
44 8 0.08
45 2 0.02
46 7 0.07
47 2 0.02
48 3 0.03
49 43 0.41
50 13 0.12
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.40
Consensus pattern (48 bp):
ATATATATATCCATACATATCATTCATTCATACATACATCATTCATAT
Found at i:1025769 original size:33 final size:34
Alignment explanation
Indices: 1025713--1025804 Score: 107
Period size: 33 Copynumber: 2.8 Consensus size: 34
1025703 CATTTATTAA
* * *
1025713 TCATTCATACATA-CATACATACATATCAGTCAT
1 TCATACATACATATTATACATACATATAAGTCAT
* * *
1025746 TCATATATATATA-TATACATACATATAATTCAT
1 TCATACATACATATTATACATACATATAAGTCAT
*
1025779 TCATACATACATATTATTCATACATA
1 TCATACATACATATTATACATACATA
1025805 CATACCTACA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 38 0.78
34 11 0.22
ACGTcount: A:0.42, C:0.18, G:0.01, T:0.38
Consensus pattern (34 bp):
TCATACATACATATTATACATACATATAAGTCAT
Found at i:1025822 original size:25 final size:24
Alignment explanation
Indices: 1025760--1025828 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 24
1025750 ATATATATAT
1025760 ATACATACATATAATTCAT---TC
1 ATACATACATATAATTCATACATC
*
1025781 ATACATACATATTATTCATACATAC
1 ATACATACATATAATTCATACAT-C
*
1025806 ATACCTACATATAATTCATACAT
1 ATACATACATATAATTCATACAT
1025829 TACGTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 18 0.44
24 1 0.02
25 22 0.54
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (24 bp):
ATACATACATATAATTCATACATC
Found at i:1025825 original size:21 final size:21
Alignment explanation
Indices: 1025760--1025828 Score: 84
Period size: 21 Copynumber: 3.1 Consensus size: 21
1025750 ATATATATAT
*
1025760 ATACATACATATAATTCATTC
1 ATACATACATATAATTCATAC
*
1025781 ATACATACATATTATTCATAC
1 ATACATACATATAATTCATAC
1025802 ATACATACCTACATATAATTCATAC
1 ATAC--A--TACATATAATTCATAC
1025827 AT
1 AT
1025829 TACGTATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
21 23 0.56
23 1 0.02
25 17 0.41
ACGTcount: A:0.43, C:0.20, G:0.00, T:0.36
Consensus pattern (21 bp):
ATACATACATATAATTCATAC
Found at i:1028526 original size:196 final size:191
Alignment explanation
Indices: 1028029--1028536 Score: 523
Period size: 193 Copynumber: 2.6 Consensus size: 191
1028019 TTTTTGTGTT
*
1028029 TTTTTTTTATCAAAACACAAAATCCTAAAGAATTTCTTCATTAGTTCTTCATCATTTTCTTTC-T
1 TTTTTTTTATCAAAACA-AAAAACCTAAA-AATTTCTTCATTAGTTCTTCATCATTTTCTTTCTT
* * * *
1028093 CAGATCCAAATAAACAC-AAATATTTTTTTCTTGTTTTGTTTTAGATCAAACCCAAACATTCATC
64 C-GATCCAAATAAACACTAAA-A-CTATTCCTTGTTTTTTTTTAGATCAAACCCAAACATTCATC
* * **
1028157 CCATGTTCTTCGGCTGTTCATCCCAAAAAAAATATATCTCTGGTCCAAAATATCAGATTAACTTC
126 CCATGTTCTTCGGCTGTTCATCCC---AAAAATATATCTCTGATCCAAAATA-CACATTAAAATC
1028222 ATTCC
187 ATTCC
* * * * * *
1028227 TTTTTTTTATCAAAATAAAAAACTTTAAAAATTTCTTCATCAATTATTCATCCTTTTCTTTCTTC
1 TTTTTTTTATCAAAACAAAAAAC-CTAAAAATTTCTTCATTAGTTCTTCATCATTTTCTTTCTTC
* * * *
1028292 AATCCAAATAAACACTAAAAACTATTCCTT-TCTTTTTTTAGATCAAACTCAAACATTCATCCCT
65 GATCCAAATAAACACT-AAAACTATTCCTTGTTTTTTTTTAGATCAAACCCAAACATTCATCCCA
* * **
1028356 TGTTCTTCGTCTGTTCATCCC-AAAATCTAT-TC-GATCCAAAA-A-ACATTAAAATCATTATTT
129 TGTTCTTCGGCTGTTCATCCCAAAAATATATCTCTGATCCAAAATACACATTAAAATCA-T-TCC
* *
1028416 TTCATTTTTTAGATCAAAACAAAAAACCTAAAAATATTCTTCATTTGTTCTTCATCAATTTCTTT
1 TT--TTTTTT--ATCAAAACAAAAAACCTAAAAAT-TTCTTCATTAGTTCTTCATCATTTTCTTT
*
1028481 CTTCGATCCAAATAAAAACCTAAAACTAATGTCCTTGTTTTTTTTT--ATCAAACCCA
61 CTTCGATCCAAATAAACA-CTAAAACT-AT-TCCTTGTTTTTTTTTAGATCAAACCCA
1028537 CAAAATCACC
Statistics
Matches: 260, Mismatches: 35, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
187 9 0.03
188 1 0.00
189 4 0.02
190 8 0.03
191 8 0.03
192 15 0.06
193 59 0.23
194 13 0.05
195 5 0.02
196 58 0.22
197 54 0.21
198 23 0.09
199 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (191 bp):
TTTTTTTTATCAAAACAAAAAACCTAAAAATTTCTTCATTAGTTCTTCATCATTTTCTTTCTTCG
ATCCAAATAAACACTAAAACTATTCCTTGTTTTTTTTTAGATCAAACCCAAACATTCATCCCATG
TTCTTCGGCTGTTCATCCCAAAAATATATCTCTGATCCAAAATACACATTAAAATCATTCC
Found at i:1030370 original size:2 final size:2
Alignment explanation
Indices: 1030363--1030440 Score: 156
Period size: 2 Copynumber: 39.0 Consensus size: 2
1030353 TTTGTTAATG
1030363 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1030405 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1030441 AAATATGCAC
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1030581 original size:9 final size:9
Alignment explanation
Indices: 1030567--1030615 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
1030557 TTTCATAATC
1030567 TTAATTATT
1 TTAATTATT
*
1030576 TTAATTATA
1 TTAATTATT
*
1030585 TTATTCTATT
1 TTAAT-TATT
* *
1030595 TTCATAATT
1 TTAATTATT
1030604 TTAATTATT
1 TTAATTATT
1030613 TTA
1 TTA
1030616 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
9 25 0.81
10 6 0.19
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (9 bp):
TTAATTATT
Found at i:1030587 original size:14 final size:14
Alignment explanation
Indices: 1030570--1030620 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
1030560 CATAATCTTA
1030570 ATTATTTTAATTAT
1 ATTATTTTAATTAT
* *
1030584 ATTATTCT-ATTTT
1 ATTATTTTAATTAT
*
1030597 CATAATTTTAATTAT
1 -ATTATTTTAATTAT
*
1030612 TTTATTTTA
1 ATTATTTTA
1030621 TTTTTCTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
13 4 0.14
14 20 0.71
15 4 0.14
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (14 bp):
ATTATTTTAATTAT
Found at i:1030599 original size:37 final size:35
Alignment explanation
Indices: 1030557--1030633 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 35
1030547 TCAGGTCAAA
1030557 TTTCATAATCTTAATTATTTTAATTATATTATTCTAT
1 TTTCATAATCTTAATTATTTT-ATTATATTATTCT-T
* * *
1030594 TTTCATAATTTTAATTATTTTATTTTATTTTTCTT
1 TTTCATAATCTTAATTATTTTATTATATTATTCTT
1030629 TTTCA
1 TTTCA
1030634 GAATTTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 6 0.16
36 11 0.30
37 20 0.54
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (35 bp):
TTTCATAATCTTAATTATTTTATTATATTATTCTT
Found at i:1047565 original size:15 final size:15
Alignment explanation
Indices: 1047545--1047574 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1047535 TTTGTTCTCT
1047545 TGTTCGAAGGTTAGA
1 TGTTCGAAGGTTAGA
*
1047560 TGTTCGGAGGTTAGA
1 TGTTCGAAGGTTAGA
1047575 CTAGCATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.37, T:0.33
Consensus pattern (15 bp):
TGTTCGAAGGTTAGA
Found at i:1049203 original size:12 final size:12
Alignment explanation
Indices: 1049186--1049212 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1049176 CGCTTCCAAG
1049186 GAGTTAGAATTA
1 GAGTTAGAATTA
1049198 GAGTTAGAATTA
1 GAGTTAGAATTA
1049210 GAG
1 GAG
1049213 GAAGAAGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (12 bp):
GAGTTAGAATTA
Found at i:1050503 original size:6 final size:6
Alignment explanation
Indices: 1050492--1050530 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
1050482 AAAAACCTTC
* *
1050492 AAAGAA AAAGAA AAATAA AAATAA AAAGAA AAAGAA AAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAA
1050531 AATAAACAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:1055117 original size:164 final size:164
Alignment explanation
Indices: 1054846--1055173 Score: 640
Period size: 164 Copynumber: 2.0 Consensus size: 164
1054836 CACTCATAGA
1054846 GGATCTTCCAACTCAAAACATAAAGCCAAAGGTGGAGATAAGGAGAAGCCATTCAAAGGAAAAAT
1 GGATCTTCCAACTCAAAACATAAAGCCAAAGGTGGAGATAAGGAGAAGCCATTCAAAGGAAAAAT
1054911 GGAAAAAGAACCAAGTGGTCTTGGAAAGCCATCAAATAACAGAACCCAACAAAGGGAAAAGTG-G
66 GGAAAAAGAACCAAGTGGTCTTGGAAAGCCATCAAATAACAGAACCCAACAAAGGGAAAAGTGAG
1054975 AAAAAACAACCCATCCAATACTACAATTGCAAGGG
131 -AAAAACAACCCATCCAATACTACAATTGCAAGGG
1055010 GGATCTTCCAACTCAAAACATAAAGCCAAAGGTGGAGATAAGGAGAAGCCATTCAAAGGAAAAAT
1 GGATCTTCCAACTCAAAACATAAAGCCAAAGGTGGAGATAAGGAGAAGCCATTCAAAGGAAAAAT
1055075 GGAAAAAGAACCAAGTGGTCTTGGAAAGCCATCAAATAACAGAACCCAACAAAGGGAAAAGTGAG
66 GGAAAAAGAACCAAGTGGTCTTGGAAAGCCATCAAATAACAGAACCCAACAAAGGGAAAAGTGAG
1055140 AAAAACAACCCATCCAATACTACAATTGCAAGGG
131 AAAAACAACCCATCCAATACTACAATTGCAAGGG
1055174 ACTGGGACAC
Statistics
Matches: 163, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
164 162 0.99
165 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (164 bp):
GGATCTTCCAACTCAAAACATAAAGCCAAAGGTGGAGATAAGGAGAAGCCATTCAAAGGAAAAAT
GGAAAAAGAACCAAGTGGTCTTGGAAAGCCATCAAATAACAGAACCCAACAAAGGGAAAAGTGAG
AAAAACAACCCATCCAATACTACAATTGCAAGGG
Found at i:1059682 original size:29 final size:29
Alignment explanation
Indices: 1059586--1059671 Score: 145
Period size: 29 Copynumber: 2.9 Consensus size: 29
1059576 ATTTAAGGCG
* *
1059586 AAATGTTTTTGGACTTGAATTGAATTTACA
1 AAATATTTTTGAACTT-AATTGAATTTACA
1059616 AAATATTTTTGAACTTAATTGAATTTACA
1 AAATATTTTTGAACTTAATTGAATTTACA
1059645 AAATATTTTTGAACTTAATTGAATTTA
1 AAATATTTTTGAACTTAATTGAATTTA
1059672 TTCAAAGTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
29 40 0.74
30 14 0.26
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.45
Consensus pattern (29 bp):
AAATATTTTTGAACTTAATTGAATTTACA
Found at i:1059778 original size:21 final size:21
Alignment explanation
Indices: 1059752--1059807 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
1059742 AGGGTGTCAA
1059752 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
* *
1059773 AGTGCATCCTTGCATCTCTGC
1 AGTGCATCCATGCATCCCTGC
1059794 AGTGCATCCATGCA
1 AGTGCATCCATGCA
1059808 CCTACACTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.27
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:1063057 original size:29 final size:30
Alignment explanation
Indices: 1062988--1063046 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
1062978 CAATTTAAGG
1062988 CAAAATATTTTTGGACTTGAATTGAATTTA
1 CAAAATATTTTTGGACTTGAATTGAATTTA
1063018 CAAAATATTTTTGGACTTG-ATTGAATTTA
1 CAAAATATTTTTGGACTTGAATTGAATTTA
1063047 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
CAAAATATTTTTGGACTTGAATTGAATTTA
Found at i:1063226 original size:20 final size:20
Alignment explanation
Indices: 1063201--1063274 Score: 121
Period size: 20 Copynumber: 3.7 Consensus size: 20
1063191 ATGCACTTAG
*
1063201 TGCATCGATGCATCCTACCA
1 TGCATCGATGCATCCTGCCA
1063221 TGCATCGATGCATCCTGCCA
1 TGCATCGATGCATCCTGCCA
*
1063241 TCCATCGATGCATCCTGCCA
1 TGCATCGATGCATCCTGCCA
*
1063261 TGCATCCATGCATC
1 TGCATCGATGCATC
1063275 AAGGCTACAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (20 bp):
TGCATCGATGCATCCTGCCA
Found at i:1066167 original size:32 final size:32
Alignment explanation
Indices: 1066126--1066189 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
1066116 GTTCAAGGAG
1066126 CTTATCGCCAAATTATGGATTCCAAATTCATT
1 CTTATCGCCAAATTATGGATTCCAAATTCATT
* *
1066158 CTTATCGCCAGATTATGGATTCCATATTCATT
1 CTTATCGCCAAATTATGGATTCCAAATTCATT
1066190 TGAACTCCAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (32 bp):
CTTATCGCCAAATTATGGATTCCAAATTCATT
Found at i:1069571 original size:34 final size:34
Alignment explanation
Indices: 1069530--1069611 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
1069520 TGCACAATAT
1069530 AAAGAAAGAAATGATTAAATGGAAATAAGAAATG
1 AAAGAAAGAAATGATTAAATGGAAATAAGAAATG
1069564 AAAGAAAGAAATGATTAAATGGAAATAAGAAATG
1 AAAGAAAGAAATGATTAAATGGAAATAAGAAATG
1069598 AAAGAAAGAAATGA
1 AAAGAAAGAAATGA
1069612 AAGGGATAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (34 bp):
AAAGAAAGAAATGATTAAATGGAAATAAGAAATG
Found at i:1069583 original size:21 final size:21
Alignment explanation
Indices: 1069559--1069598 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1069549 TGGAAATAAG
1069559 AAAT-GAAAGAAAGAAATGATT
1 AAATGGAAA-AAAGAAATGATT
*
1069580 AAATGGAAATAAGAAATGA
1 AAATGGAAAAAAGAAATGA
1069599 AAGAAAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (21 bp):
AAATGGAAAAAAGAAATGATT
Found at i:1077749 original size:5 final size:5
Alignment explanation
Indices: 1077741--1077793 Score: 106
Period size: 5 Copynumber: 10.6 Consensus size: 5
1077731 GAAAGAAAAG
1077741 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
1 GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT GAAAT
1077791 GAA
1 GAA
1077794 GAGAAAAATG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.60, C:0.00, G:0.21, T:0.19
Consensus pattern (5 bp):
GAAAT
Found at i:1078029 original size:13 final size:13
Alignment explanation
Indices: 1078008--1078048 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
1077998 TGTAGGAGTC
1078008 TTTTCTTTTTCTT
1 TTTTCTTTTTCTT
*
1078021 TTTTATTTTTCTT
1 TTTTCTTTTTCTT
* *
1078034 CTTTCTTTTGCTT
1 TTTTCTTTTTCTT
1078047 TT
1 TT
1078049 GTTGCAGCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.02, C:0.15, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTTCTTTTTCTT
Found at i:1081190 original size:22 final size:20
Alignment explanation
Indices: 1081143--1081190 Score: 53
Period size: 19 Copynumber: 2.3 Consensus size: 20
1081133 GTAAATTTGT
1081143 TGTTTTAATTAAAATCAATA
1 TGTTTTAATTAAAATCAATA
*
1081163 T-TTTTTATTAAAATGACAAATA
1 TGTTTTAATTAAAAT--C-AATA
1081185 TGTTTT
1 TGTTTT
1081191 TGGGTGTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 12 0.52
20 1 0.04
21 1 0.04
22 5 0.22
23 4 0.17
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (20 bp):
TGTTTTAATTAAAATCAATA
Found at i:1091678 original size:21 final size:21
Alignment explanation
Indices: 1091668--1091730 Score: 117
Period size: 21 Copynumber: 3.0 Consensus size: 21
1091658 ATCAGTACCA
1091668 CCTTGGGGGGAATCGATTCCC
1 CCTTGGGGGGAATCGATTCCC
1091689 CCTTGGGGGGAATCGATTCCC
1 CCTTGGGGGGAATCGATTCCC
*
1091710 CCTTGGGGGGAATCGGTTCCC
1 CCTTGGGGGGAATCGATTCCC
1091731 TCTGGACAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.13, C:0.29, G:0.35, T:0.24
Consensus pattern (21 bp):
CCTTGGGGGGAATCGATTCCC
Found at i:1095054 original size:18 final size:18
Alignment explanation
Indices: 1095028--1095062 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1095018 TATTTCATTC
*
1095028 TAAAATTCATTAATAATT
1 TAAAATTCATGAATAATT
*
1095046 TAAATTTCATGAATAAT
1 TAAAATTCATGAATAAT
1095063 GATAAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
TAAAATTCATGAATAATT
Found at i:1097577 original size:6 final size:6
Alignment explanation
Indices: 1097568--1098003 Score: 827
Period size: 6 Copynumber: 72.7 Consensus size: 6
1097558 AATATATGTA
1097568 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
*
1097616 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCA
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
* * *
1097664 TAGGCG TATGCG TATGCG TATGCG TATACG TATGCG TATGCG TATGCA
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1097712 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
*
1097760 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATACG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1097808 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1097856 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1097904 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1097952 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1 TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG TATGCG
1098000 TATG
1 TATG
1098004 TGTCACATAC
Statistics
Matches: 420, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 420 1.00
ACGTcount: A:0.18, C:0.17, G:0.33, T:0.33
Consensus pattern (6 bp):
TATGCG
Found at i:1098016 original size:6 final size:6
Alignment explanation
Indices: 1098007--1098222 Score: 236
Period size: 6 Copynumber: 35.2 Consensus size: 6
1097997 GCGTATGTGT
1098007 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
* * **** * * * * * **
1098055 CACATA CACATA CACATA CACATA CTCCCTA GTTTGTT CTTTCTTTG GA-GGA
1 CACATA CACATA CACATA CACATA C-ACATA -CACATA C--AC-ATA CACATA
* *
1098107 CAAAGA GCACATA CACATA CACATA CACATA CACATA CACATA CACATA
1 CACATA -CACATA CACATA CACATA CACATA CACATA CACATA CACATA
1098156 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
1 CACATA CACATA CACATA CACATA CACATA CACATA CACATA CACATA
1098204 CACATA CACATA CACATA C
1 CACATA CACATA CACATA C
1098223 TCCCTAGTTT
Statistics
Matches: 183, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
5 1 0.01
6 172 0.94
7 8 0.04
8 1 0.01
9 1 0.01
ACGTcount: A:0.45, C:0.31, G:0.04, T:0.20
Consensus pattern (6 bp):
CACATA
Found at i:1098769 original size:21 final size:21
Alignment explanation
Indices: 1098715--1098770 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
1098705 CCATTCAGGA
* * *
1098715 GGGAATCAGTACCACCTTGGG
1 GGGAATCGGTTCCCCCTTGGG
*
1098736 GGGAATCGATTCCCCCTTGGG
1 GGGAATCGGTTCCCCCTTGGG
1098757 GGGAATCGGTTCCC
1 GGGAATCGGTTCCC
1098771 TCTGGACAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.18, C:0.27, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGAATCGGTTCCCCCTTGGG
Found at i:1102099 original size:18 final size:18
Alignment explanation
Indices: 1102073--1102107 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1102063 TATTTCATTC
*
1102073 TAAAATTCATTAATAATT
1 TAAAATTCATGAATAATT
*
1102091 TAAATTTCATGAATAAT
1 TAAAATTCATGAATAAT
1102108 GATAAAATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (18 bp):
TAAAATTCATGAATAATT
Found at i:1104504 original size:2 final size:2
Alignment explanation
Indices: 1104497--1104540 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
1104487 AATTTAAAGT
1104497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1104539 TA
1 TA
1104541 ATCATATGTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1104586 original size:31 final size:31
Alignment explanation
Indices: 1104528--1104604 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
1104518 ATATATATAT
***
1104528 ATATATATATATAATCATATGTGCATTAC-AC
1 ATATATATATATAAT-ATATAACCATTACAAC
1104559 ATATATATATATAATAGTATAACCATTACAAC
1 ATATATATATATAATA-TATAACCATTACAAC
1104591 ATATAT-T-TATAATA
1 ATATATATATATAATA
1104605 ACAATAATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 8 0.20
31 25 0.61
32 8 0.20
ACGTcount: A:0.47, C:0.10, G:0.04, T:0.39
Consensus pattern (31 bp):
ATATATATATATAATATATAACCATTACAAC
Found at i:1104638 original size:6 final size:6
Alignment explanation
Indices: 1104627--1106433 Score: 3495
Period size: 6 Copynumber: 301.5 Consensus size: 6
1104617 TATAATAATA
1104627 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1104675 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1104723 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1104771 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1104819 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1104867 TATGTG TATGTG TATGTG TATGTGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TA--TGTG TATGTG TATGTG TATGTG TATGTG
1104917 TATGTG TATGTG TATGTG --TGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1104963 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105011 TATGTG TATGTG TA--TG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105057 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105105 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105153 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105201 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105249 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105297 TATGTGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TA--TGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105347 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105395 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105443 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105491 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105539 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105587 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105635 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105683 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105731 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105779 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105827 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105875 TATGTG TATGTG TATGTG TA--TG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105921 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1105969 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106017 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106065 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106113 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106161 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106209 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106257 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106305 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1106353 TA--TG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
1 TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG TATGTG
*
1106399 TATGTG TATGTG TATGTG TGTGTATG TATGTG TAT
1 TATGTG TATGTG TATGTG TATG--TG TATGTG TAT
1106434 TTTATATTAT
Statistics
Matches: 1785, Mismatches: 2, Indels: 28
0.98 0.00 0.02
Matches are distributed among these distances:
4 16 0.01
6 1752 0.98
8 17 0.01
ACGTcount: A:0.17, C:0.00, G:0.33, T:0.50
Consensus pattern (6 bp):
TATGTG
Found at i:1107817 original size:29 final size:30
Alignment explanation
Indices: 1107782--1107840 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1107772 AGGGCTGTAA
1107782 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
1107811 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
1107841 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:1113237 original size:7 final size:7
Alignment explanation
Indices: 1113225--1113295 Score: 65
Period size: 8 Copynumber: 9.7 Consensus size: 7
1113215 ATACTTGAAA
1113225 AAAAAGG
1 AAAAAGG
1113232 AAAAAGG
1 AAAAAGG
1113239 AAAGAA--
1 AAA-AAGG
*
1113245 AAAAAGAA
1 AAAAAG-G
1113253 AAAAATGG
1 AAAAA-GG
1113261 AAAAAGG
1 AAAAAGG
1113268 AAAAAAGG
1 -AAAAAGG
1113276 AAAAAAGG
1 -AAAAAGG
*
1113284 AAAAAAG
1 AAAAAGG
1113291 AAAAA
1 AAAAA
1113296 AATTGAACCA
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
5 2 0.04
6 3 0.05
7 23 0.41
8 27 0.48
9 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.01
Consensus pattern (7 bp):
AAAAAGG
Found at i:1113250 original size:8 final size:8
Alignment explanation
Indices: 1113239--1113297 Score: 66
Period size: 8 Copynumber: 7.4 Consensus size: 8
1113229 AGGAAAAAGG
1113239 AAAGAAAA
1 AAAGAAAA
1113247 AAAGAAAA
1 AAAGAAAA
*
1113255 AAATG-GAA
1 AAA-GAAAA
*
1113263 AAAGGAAA
1 AAAGAAAA
*
1113271 AAAGGAAA
1 AAAGAAAA
*
1113279 AAAGGAAA
1 AAAGAAAA
1113287 AAAGAAAA
1 AAAGAAAA
1113295 AAA
1 AAA
1113298 TTGAACCAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
7 1 0.02
8 44 0.96
9 1 0.02
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:1113296 original size:7 final size:7
Alignment explanation
Indices: 1113224--1113296 Score: 58
Period size: 7 Copynumber: 9.9 Consensus size: 7
1113214 CATACTTGAA
1113224 AAAAAAG
1 AAAAAAG
*
1113231 GAAAAAG
1 AAAAAAG
* *
1113238 GAAAGA-
1 AAAAAAG
1113244 AAAAAAG
1 AAAAAAG
1113251 AAAAAAATGG
1 -AAAAAA--G
*
1113261 AAAAAGG
1 AAAAAAG
1113268 AAAAAAGG
1 AAAAAA-G
1113276 AAAAAAGG
1 AAAAAA-G
1113284 AAAAAAG
1 AAAAAAG
1113291 AAAAAA
1 AAAAAA
1113297 ATTGAACCAA
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
6 4 0.07
7 24 0.44
8 21 0.38
9 5 0.09
10 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:1113296 original size:16 final size:16
Alignment explanation
Indices: 1113239--1113297 Score: 75
Period size: 16 Copynumber: 3.7 Consensus size: 16
1113229 AGGAAAAAGG
*
1113239 AAAGAAAAAAAGAAAA
1 AAAGAAAAAAAGGAAA
*
1113255 AAATG-GAAAAAGGAAA
1 AAA-GAAAAAAAGGAAA
*
1113271 AAAGGAAAAAAGGAAA
1 AAAGAAAAAAAGGAAA
1113287 AAAGAAAAAAA
1 AAAGAAAAAAA
1113298 TTGAACCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
15 1 0.03
16 35 0.95
17 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.19, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAAAGGAAA
Found at i:1113921 original size:32 final size:32
Alignment explanation
Indices: 1113885--1113946 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
1113875 GTTAGACACA
*
1113885 AGAAGTATCTCTACGAGATGAGCATAACAACG
1 AGAAGTATCTCTACAAGATGAGCATAACAACG
1113917 AGAAGTATCTCTACAAGATGAGCATAACAA
1 AGAAGTATCTCTACAAGATGAGCATAACAA
1113947 TTATTTCTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (32 bp):
AGAAGTATCTCTACAAGATGAGCATAACAACG
Found at i:1116668 original size:76 final size:75
Alignment explanation
Indices: 1116513--1116675 Score: 175
Period size: 76 Copynumber: 2.2 Consensus size: 75
1116503 ATGGAGCATG
* ** * *
1116513 CTGAAAGCCCATTTCAATCATAATCAGGAATATTGACACATTTTGAATGTTTGTATTAGCCAATG
1 CTGAAAGCCCATTTCAATCAGAATCAGGAATATTGACACATTTTGAATGTTCATATAAGCAAATG
**
1116578 CTGGGGAATG
66 CTGGGGAACA
* * ***
1116588 CTGAAAGCCCCTTTCAATCAAGAATCAGGAATGTTGGTGCATTTTGAATGTTCATATAAGCAAAT
1 CTGAAAGCCCATTTCAATC-AGAATCAGGAATATTGACACATTTTGAATGTTCATATAAGCAAAT
*
1116653 G-TCGGGGCACA
65 GCT-GGGGAACA
*
1116664 CTGAAGGCCCAT
1 CTGAAAGCCCAT
1116676 ATCATCTTAT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
75 19 0.27
76 52 0.73
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (75 bp):
CTGAAAGCCCATTTCAATCAGAATCAGGAATATTGACACATTTTGAATGTTCATATAAGCAAATG
CTGGGGAACA
Found at i:1118535 original size:24 final size:23
Alignment explanation
Indices: 1118492--1118536 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
1118482 GTTCATAATG
*
1118492 AGAAGAACTCATATGAAGAAGGA
1 AGAAGAAATCATATGAAGAAGGA
1118515 AGAAGAAGATCATAATG-AGAAG
1 AGAAGAA-ATCAT-ATGAAGAAG
1118537 AGCTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 9 0.47
25 3 0.16
ACGTcount: A:0.53, C:0.07, G:0.27, T:0.13
Consensus pattern (23 bp):
AGAAGAAATCATATGAAGAAGGA
Found at i:1118657 original size:113 final size:113
Alignment explanation
Indices: 1118445--1119018 Score: 658
Period size: 113 Copynumber: 5.0 Consensus size: 113
1118435 TAGCAAAGAT
* * * *
1118445 TCAAATCCATCAC--AATGGATCAACATTTCCAGA-AGGAGTTCATAATGAGAAGAACTCATATG
1 TCAAATCCATCACTTGATGGATCAACATTTTCAGAGA-AAGTTCATAATGAGAAGAACTCATCTG
*
1118507 AAGAAGGAAGAAGAAGATCATAATGAGAAGAGCTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1118556 TCAAATCCATCACTTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
** *
1118621 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * ** * *
1118669 TTGAATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCTG
1 TCAAATCCATCACTTGATGGATCAACATTTTCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
* ** *
1118733 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGT
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
** * * ** *
1118782 TTGAATTCATCAGTCAATGGATCAA-TTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATGGATCAACATTTT-CAGAGAAAGTTCATAATGAGAAGAACTCATCTG
1118846 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT--
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
* * ** *
1118893 TCATGACTCTATCACAGAAGGAGATAGATCAGCATCAATATTTCCAGAGAAAGTTCATAATGAGA
1 TCA--AATCCATCAC-----TTGATGGATCA--A-C-AT-TTT-CAGAGAAAGTTCATAATGAGA
*
1118958 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGACAAGAGCTTGTTCAACCTTTTGC
53 AGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
1119019 ATGACTCTAT
Statistics
Matches: 402, Mismatches: 40, Indels: 27
0.86 0.09 0.06
Matches are distributed among these distances:
111 14 0.03
112 3 0.01
113 291 0.72
114 2 0.00
118 7 0.02
120 1 0.00
123 1 0.00
124 83 0.21
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
TCAAATCCATCACTTGATGGATCAACATTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTTGC
Found at i:1119022 original size:124 final size:122
Alignment explanation
Indices: 1118801--1119095 Score: 436
Period size: 124 Copynumber: 2.4 Consensus size: 122
1118791 TCAGTCAATG
*
1118801 GATCAATTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
1 GATCAATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
* * * * *
1118866 TAATGAGAAGAGCTTGTTCAACCTTTTTCATGACTCTATCACAGAAGGAGATAGATCA
66 TAATGACAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGAAGATAAAT-A
1118924 GCATCAATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
1 G-ATCAATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
*
1118989 ATAATGACAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGAAGATAAATT
65 ATAATGACAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGAAGATAAATA
** *
1119047 G-TC---ATCCCCAGTGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1 GATCAATATTTCCA--GAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG
1119096 TAGGAGAATT
Statistics
Matches: 159, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
118 5 0.03
120 36 0.23
121 2 0.01
123 2 0.01
124 114 0.72
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (122 bp):
GATCAATATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCA
TAATGACAAGAGCTTGTTCAACCTTTTGCATGACTCTATCACAAAAGAAGATAAATA
Found at i:1119357 original size:3 final size:3
Alignment explanation
Indices: 1119349--1119395 Score: 57
Period size: 3 Copynumber: 17.0 Consensus size: 3
1119339 TTTGTTTTAT
*
1119349 TTA TTA TTA TTA TT- TTG TT- TTA TTA TTA -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1119393 TTA
1 TTA
1119396 AATAATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
2 8 0.20
3 32 0.80
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1119363 original size:13 final size:13
Alignment explanation
Indices: 1119345--1119395 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
1119335 TTCATTTGTT
1119345 TTATTTATTATTA
1 TTATTTATTATTA
*
1119358 TTATTT-TGTTTTA
1 TTATTTAT-TATTA
1119371 TTATTATATTA-TA
1 TTATT-TATTATTA
1119384 TTA-TTATTATTA
1 TTATTTATTATTA
1119396 AATAATTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
11 5 0.16
12 4 0.12
13 20 0.62
14 2 0.06
15 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TTATTTATTATTA
Found at i:1119372 original size:19 final size:18
Alignment explanation
Indices: 1119348--1119395 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
1119338 ATTTGTTTTA
* *
1119348 TTTATTATTATTATTTTGT
1 TTTATTATTA-TATTATAT
1119367 TTTATTATTATATTATAT
1 TTTATTATTATATTATAT
1119385 TATTATTATTA
1 T-TTATTATTA
1119396 AATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 7 0.27
19 19 0.73
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATTATTATATTATAT
Found at i:1119373 original size:16 final size:16
Alignment explanation
Indices: 1119350--1119394 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1119340 TTGTTTTATT
*
1119350 TATTATTATTATTTTG
1 TATTATTATTATTTTA
* *
1119366 TTTTATTATTATATTA
1 TATTATTATTATTTTA
1119382 TATTATTATTATT
1 TATTATTATTATT
1119395 AAATAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (16 bp):
TATTATTATTATTTTA
Found at i:1119385 original size:23 final size:23
Alignment explanation
Indices: 1119339--1119382 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1119329 TTTTATTTCA
1119339 TTTGTTTTATTTATTATTATTAT
1 TTTGTTTTATTTATTATTATTAT
1119362 TTTGTTTTA-TTATTA-TATTAT
1 TTTGTTTTATTTATTATTATTAT
1119383 ATTATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 6 0.29
23 9 0.43
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTGTTTTATTTATTATTATTAT
Found at i:1120706 original size:29 final size:30
Alignment explanation
Indices: 1120673--1120731 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
1120663 AGGGCTGTAA
1120673 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
1120702 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
1120732 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:1121109 original size:19 final size:19
Alignment explanation
Indices: 1121064--1121117 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
1121054 TTATTTTCTG
1121064 ATATTTTTAAATAAA-TATT
1 ATATTTTT-AATAAATTATT
1121083 ATACTTTTT-ATAAATTATAT
1 ATA-TTTTTAATAAATTAT-T
1121103 ATATTTTTAATAAAT
1 ATATTTTTAATAAAT
1121118 GTTTTATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTTTAATAAATTATT
Found at i:1121639 original size:6 final size:6
Alignment explanation
Indices: 1121628--1122756 Score: 2040
Period size: 6 Copynumber: 191.8 Consensus size: 6
1121618 GGTTACGACA
1121628 ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121674 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATG-
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121719 -TATGT ATATGT ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121764 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121812 ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121858 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121906 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1121954 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122002 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122050 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122098 ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGTAT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG--T ATATGT
1122146 ATATGT ATATG- -TATGT ATATGT ATATG- -TATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122190 ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122236 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122282 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122330 ATATGTAT ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT
1 ATATG--T ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122378 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122426 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122474 ATATGT ATATG- -TATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122520 ATATGT ATATGT ATATGT ATATGT ATATG- -TATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122566 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122614 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122662 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT
1122710 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATGT ATATG
1122757 GACACACCCT
Statistics
Matches: 1093, Mismatches: 0, Indels: 60
0.95 0.00 0.05
Matches are distributed among these distances:
4 52 0.05
6 1029 0.94
8 12 0.01
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:1132370 original size:18 final size:20
Alignment explanation
Indices: 1132336--1132375 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
1132326 GGGCAATAAA
1132336 AAATGGCTGTAATAGA-GAT
1 AAATGGCTGTAATAGAGGAT
*
1132355 AAATGGTTGT-ATAGAGGAT
1 AAATGGCTGTAATAGAGGAT
1132374 AA
1 AA
1132376 CTTAGTAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (20 bp):
AAATGGCTGTAATAGAGGAT
Found at i:1147003 original size:11 final size:11
Alignment explanation
Indices: 1146987--1147016 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1146977 GATAAAAAAA
1146987 TATTATTTTAT
1 TATTATTTTAT
1146998 TATTATTTTAT
1 TATTATTTTAT
*
1147009 TATCATTT
1 TATTATTT
1147017 AATAATATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:1153980 original size:21 final size:21
Alignment explanation
Indices: 1153951--1153991 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1153941 ATCGGAAGTA
1153951 TTGTCGGTTTTAATTCAATTT
1 TTGTCGGTTTTAATTCAATTT
* **
1153972 TTGTTGGTTTTCCTTCAATT
1 TTGTCGGTTTTAATTCAATT
1153992 CACGTCGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.59
Consensus pattern (21 bp):
TTGTCGGTTTTAATTCAATTT
Found at i:1156797 original size:24 final size:23
Alignment explanation
Indices: 1156701--1156797 Score: 70
Period size: 24 Copynumber: 4.0 Consensus size: 23
1156691 GAATATTTTA
* * *
1156701 TCTGATTTTCGATTTGAGTTCTGT
1 TCTGAATTT-GATCTGAATTCTGT
* *
1156725 TCTGACATCTGATCTGAAATCTGT
1 TCTGA-ATTTGATCTGAATTCTGT
* *
1156749 TCT-AATTCCTGACCTGGATTCTGT
1 TCTGAATT--TGATCTGAATTCTGT
*
1156773 TCTGATATTTGATCTGAATTATGT
1 TCTGA-ATTTGATCTGAATTCTGT
1156797 T
1 T
1156798 TTGTTTTCTG
Statistics
Matches: 56, Mismatches: 12, Indels: 10
0.72 0.15 0.13
Matches are distributed among these distances:
22 2 0.04
23 1 0.02
24 47 0.84
25 3 0.05
26 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.18, T:0.46
Consensus pattern (23 bp):
TCTGAATTTGATCTGAATTCTGT
Found at i:1156967 original size:54 final size:54
Alignment explanation
Indices: 1156863--1156968 Score: 131
Period size: 54 Copynumber: 2.0 Consensus size: 54
1156853 TGAAGGGTTT
* ** * *
1156863 ATATATGCAGGTTCCTCGACTTTGTGCTCTGAGCCTTGTTGTTGTTCAGGGGTG
1 ATATATGCAGGTTCCTCGACTTTGTGCTCAGAGCCTTACTGTCGTGCAGGGGTG
* * * *
1156917 ATATATGCATGTTCCTTGGCTTTGTGCTCAGGGCCTTACTGTCGTGCAGGGG
1 ATATATGCAGGTTCCTCGACTTTGTGCTCAGAGCCTTACTGTCGTGCAGGGG
1156969 GTTTATGGTT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.13, C:0.20, G:0.30, T:0.37
Consensus pattern (54 bp):
ATATATGCAGGTTCCTCGACTTTGTGCTCAGAGCCTTACTGTCGTGCAGGGGTG
Found at i:1161364 original size:48 final size:48
Alignment explanation
Indices: 1161312--1161469 Score: 129
Period size: 60 Copynumber: 3.0 Consensus size: 48
1161302 ATATTTTATC
1161312 TGATTTCCGATTTGAGTTATGTTCTGATATCTGATCTGAAATCTGTTT
1 TGATTTCCGATTTGAGTTATGTTCTGATATCTGATCTGAAATCTGTTT
1161360 TGATTTCTTACCTGGATTCTGTTCTGAGTTATGTTCTGATATCTGATCTGAAATCTGTTT
1 TGA--T-TT-CC--GA-----TT-TGAGTTATGTTCTGATATCTGATCTGAAATCTGTTT
** ** * * *
1161420 TGATTTCTTACCTG-GATTCTGTTCTGATATCTGATCTGAATTATGTTT
1 TGATTTCCGATTTGAG-TTATGTTCTGATATCTGATCTGAAATCTGTTT
1161468 TG
1 TG
1161470 TTTTTTGATA
Statistics
Matches: 90, Mismatches: 7, Indels: 26
0.73 0.06 0.21
Matches are distributed among these distances:
47 1 0.01
48 36 0.40
50 1 0.01
51 2 0.02
52 2 0.02
54 3 0.03
56 1 0.01
57 2 0.02
58 1 0.01
59 2 0.02
60 39 0.43
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (48 bp):
TGATTTCCGATTTGAGTTATGTTCTGATATCTGATCTGAAATCTGTTT
Found at i:1161409 original size:12 final size:12
Alignment explanation
Indices: 1161334--1161458 Score: 58
Period size: 12 Copynumber: 10.4 Consensus size: 12
1161324 TGAGTTATGT
1161334 TCTGATATCTGA
1 TCTGATATCTGA
* *
1161346 TCTGAAATCTGT
1 TCTGATATCTGA
* * *
1161358 TTTGATTTCTTA
1 TCTGATATCTGA
* *
1161370 CCTGGAT-TCTGT
1 TCT-GATATCTGA
* *
1161382 TCTGAGT-TATGT
1 TCTGA-TATCTGA
1161394 TCTGATATCTGA
1 TCTGATATCTGA
* *
1161406 TCTGAAATCTGT
1 TCTGATATCTGA
* * *
1161418 TTTGATTTCTTA
1 TCTGATATCTGA
* *
1161430 CCTGGAT-TCTGT
1 TCT-GATATCTGA
1161442 TCTGATATCTGA
1 TCTGATATCTGA
1161454 TCTGA
1 TCTGA
1161459 ATTATGTTTT
Statistics
Matches: 80, Mismatches: 28, Indels: 10
0.68 0.24 0.08
Matches are distributed among these distances:
11 6 0.08
12 68 0.85
13 6 0.08
ACGTcount: A:0.19, C:0.16, G:0.18, T:0.47
Consensus pattern (12 bp):
TCTGATATCTGA
Found at i:1161417 original size:60 final size:60
Alignment explanation
Indices: 1161324--1161446 Score: 246
Period size: 60 Copynumber: 2.0 Consensus size: 60
1161314 ATTTCCGATT
1161324 TGAGTTATGTTCTGATATCTGATCTGAAATCTGTTTTGATTTCTTACCTGGATTCTGTTC
1 TGAGTTATGTTCTGATATCTGATCTGAAATCTGTTTTGATTTCTTACCTGGATTCTGTTC
1161384 TGAGTTATGTTCTGATATCTGATCTGAAATCTGTTTTGATTTCTTACCTGGATTCTGTTC
1 TGAGTTATGTTCTGATATCTGATCTGAAATCTGTTTTGATTTCTTACCTGGATTCTGTTC
1161444 TGA
1 TGA
1161447 TATCTGATCT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (60 bp):
TGAGTTATGTTCTGATATCTGATCTGAAATCTGTTTTGATTTCTTACCTGGATTCTGTTC
Found at i:1161466 original size:24 final size:24
Alignment explanation
Indices: 1161377--1161466 Score: 90
Period size: 24 Copynumber: 3.8 Consensus size: 24
1161367 TTACCTGGAT
* *
1161377 TCTGTTCTGAGTTATGTTCTGATA
1 TCTGATCTGAATTATGTTCTGATA
* * * *
1161401 TCTGATCTGAAATCTGTTTTGATT
1 TCTGATCTGAATTATGTTCTGATA
* * * *
1161425 TCTTACCTGGATTCTGTTCTGATA
1 TCTGATCTGAATTATGTTCTGATA
1161449 TCTGATCTGAATTATGTT
1 TCTGATCTGAATTATGTT
1161467 TTGTTTTTTG
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
24 50 1.00
ACGTcount: A:0.19, C:0.14, G:0.18, T:0.49
Consensus pattern (24 bp):
TCTGATCTGAATTATGTTCTGATA
Found at i:1161603 original size:55 final size:55
Alignment explanation
Indices: 1161532--1161641 Score: 157
Period size: 55 Copynumber: 2.0 Consensus size: 55
1161522 TGGAGGGTTT
* * *
1161532 ATATCTGCAGGTTCCTCATTTTTGTGCTCAGGGCCTTACTGTTGTGCAGGGGGTG
1 ATATATGCAGGTTCCTCAGTTTTGTGCTCAGGGCCTTACTATTGTGCAGGGGGTG
* * * *
1161587 ATATATGCATGTTCCTCGGTTTTGTGCTCAGGGCCTTATTATTTTGCAGGGGGTG
1 ATATATGCAGGTTCCTCAGTTTTGTGCTCAGGGCCTTACTATTGTGCAGGGGGTG
1161642 TATGGTTTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.14, C:0.18, G:0.30, T:0.38
Consensus pattern (55 bp):
ATATATGCAGGTTCCTCAGTTTTGTGCTCAGGGCCTTACTATTGTGCAGGGGGTG
Found at i:1163635 original size:191 final size:191
Alignment explanation
Indices: 1163304--1163686 Score: 750
Period size: 191 Copynumber: 2.0 Consensus size: 191
1163294 ATAAGGAAAC
1163304 TGAAATGAAAACGTAGAAAGGGAGTGGAATTTGTGGGGCTGCCATGGAAGTGCTAACAAGCTACT
1 TGAAATGAAAACGTAGAAAGGGAGTGGAATTTGTGGGGCTGCCATGGAAGTGCTAACAAGCTACT
1163369 CTGCTACTTCTTCATATCCTCGTTTCGCTTTGTATAACCCCAATAAGCCATCTTCTTAACATTCA
66 CTGCTACTTCTTCATATCCTCGTTTCGCTTTGTATAACCCCAATAAGCCATCTTCTTAACATTCA
1163434 AGCCCATCATCATTTCTCCGGTAAAG-TTTCATCTTTACGAGGAATATCCAATCGCTGCTT
131 AGCCCATCATCATTTCTCCGGTAAAGTTTTCATCTTTACGAGGAATATCCAATCGCTGCTT
1163494 TGAAATGAAAAACGTAGAAAGGGAGTGGAATTTGTGGGGCTGCCATGGAAGTGCTAACAAGCTAC
1 TGAAATG-AAAACGTAGAAAGGGAGTGGAATTTGTGGGGCTGCCATGGAAGTGCTAACAAGCTAC
1163559 TCTGCTACTTCTTCATATCCTCGTTTCGCTTTGTATAACCCCAATAAGCCATCTTCTTAACATTC
65 TCTGCTACTTCTTCATATCCTCGTTTCGCTTTGTATAACCCCAATAAGCCATCTTCTTAACATTC
1163624 AAGCCCATCATCATTTCTCCGGTAAAGTTTTCATCTTTACGAGGAATATCCAATCGCTGCTT
130 AAGCCCATCATCATTTCTCCGGTAAAGTTTTCATCTTTACGAGGAATATCCAATCGCTGCTT
1163686 T
1 T
1163687 CTTATGTAGA
Statistics
Matches: 191, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
190 7 0.04
191 149 0.78
192 35 0.18
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (191 bp):
TGAAATGAAAACGTAGAAAGGGAGTGGAATTTGTGGGGCTGCCATGGAAGTGCTAACAAGCTACT
CTGCTACTTCTTCATATCCTCGTTTCGCTTTGTATAACCCCAATAAGCCATCTTCTTAACATTCA
AGCCCATCATCATTTCTCCGGTAAAGTTTTCATCTTTACGAGGAATATCCAATCGCTGCTT
Found at i:1166576 original size:17 final size:17
Alignment explanation
Indices: 1166554--1166591 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
1166544 TAAGTTAAAC
1166554 TCTTGAAAGGGAACGGT
1 TCTTGAAAGGGAACGGT
1166571 TCTTGAAAGGGAACGGT
1 TCTTGAAAGGGAACGGT
1166588 TCTT
1 TCTT
1166592 TTATCCATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (17 bp):
TCTTGAAAGGGAACGGT
Found at i:1171796 original size:13 final size:14
Alignment explanation
Indices: 1171778--1171818 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
1171768 TCGTTTAGAT
1171778 TGAAGAG-AGAAAA
1 TGAAGAGAAGAAAA
1171791 TGAAGAGAAGAAAGA
1 TGAAGAGAAGAAA-A
*
1171806 AGAA-AGAAGAAAA
1 TGAAGAGAAGAAAA
1171819 AGAATAAAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 8 0.32
14 13 0.52
15 4 0.16
ACGTcount: A:0.66, C:0.00, G:0.29, T:0.05
Consensus pattern (14 bp):
TGAAGAGAAGAAAA
Found at i:1171808 original size:7 final size:7
Alignment explanation
Indices: 1171796--1171837 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
1171786 GAAAATGAAG
1171796 AGAAGAA
1 AGAAGAA
1171803 AGAAGAA
1 AGAAGAA
1171810 AGAAGAAAA
1 AGAAG--AA
*
1171819 AGAATAA
1 AGAAGAA
1171826 AGAAGAA
1 AGAAGAA
1171833 AGAAG
1 AGAAG
1171838 GAAATATTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 25 0.81
9 6 0.19
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.02
Consensus pattern (7 bp):
AGAAGAA
Found at i:1176148 original size:23 final size:23
Alignment explanation
Indices: 1176121--1176219 Score: 71
Period size: 23 Copynumber: 4.4 Consensus size: 23
1176111 ATGTCGAGGG
1176121 TTCTATGTGGTCCTTCGAGACAA
1 TTCTATGTGGTCCTTCGAGACAA
* ***
1176144 TTCTACGTGGTCCTTC-AGGATGT
1 TTCTATGTGGTCCTTCGA-GACAA
* * *
1176167 TTCTATGCGGTCCTTTGGGAC-A
1 TTCTATGTGGTCCTTCGAGACAA
* **
1176189 -TATATGTGGTCCTTCG-GGTAA
1 TTCTATGTGGTCCTTCGAGACAA
1176210 TTCTATGTGG
1 TTCTATGTGG
1176220 CACTTCGGTG
Statistics
Matches: 56, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
20 1 0.02
21 14 0.25
22 9 0.16
23 32 0.57
ACGTcount: A:0.16, C:0.19, G:0.26, T:0.38
Consensus pattern (23 bp):
TTCTATGTGGTCCTTCGAGACAA
Found at i:1185613 original size:3 final size:3
Alignment explanation
Indices: 1185605--1185633 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1185595 CATTTATCTT
1185605 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CAC CA
1185634 TCATCGTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.66, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:1187482 original size:65 final size:66
Alignment explanation
Indices: 1187330--1187492 Score: 176
Period size: 65 Copynumber: 2.5 Consensus size: 66
1187320 AATAGTCGGG
* * * * ** *
1187330 GTGCATCGATGCATGG-CTTGTGCATCGGTGCATTGAATGCATTCGATGTTTCTATTTGTTCAAG
1 GTGCATCGATGCAAGGACTAGTGCATCGGTACATTGAATGCATTCGATGATTAAATTTATTCAAG
1187394 A
66 A
*
1187395 GTGCATCGATGCATA-GA-GAGTGCATCGGTACACTT-AATGCATTCGA-GATTAAATTTAATT-
1 GTGCATCGATGCA-AGGACTAGTGCATCGGTACA-TTGAATGCATTCGATGATTAAATTT-ATTC
*
1187455 GAGA
63 AAGA
1187459 GTGCATCGATGCAAGGACTAGTGCATCGGTACAT
1 GTGCATCGATGCAAGGACTAGTGCATCGGTACAT
1187493 CTCTTTGAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
63 1 0.01
64 26 0.32
65 53 0.65
66 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (66 bp):
GTGCATCGATGCAAGGACTAGTGCATCGGTACATTGAATGCATTCGATGATTAAATTTATTCAAG
A
Found at i:1193753 original size:90 final size:89
Alignment explanation
Indices: 1193636--1193812 Score: 300
Period size: 90 Copynumber: 2.0 Consensus size: 89
1193626 TAATCGTGAA
* * *
1193636 TATTTAATTTCAATTAATTAAGTATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGAT
1193701 TAGGGTAACTTGGATATAAAAGGAT
65 TAGGGTAACTTGGATATAAAAGGAT
1193726 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
* *
1193791 AGGGTAATTTGGCTATAAAAGG
66 AGGGTAACTTGGATATAAAAGG
1193813 GTGTGTTAGG
Statistics
Matches: 82, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 33 0.40
90 49 0.60
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATT
AGGGTAACTTGGATATAAAAGGAT
Found at i:1200395 original size:90 final size:89
Alignment explanation
Indices: 1200284--1200447 Score: 283
Period size: 90 Copynumber: 1.8 Consensus size: 89
1200274 TTAATTTCAA
*
1200284 TTAATTAAATATAGATTTAATTAATATGAAATAATAAAATCCCTAATATGATTAGGGTAAATTGG
1 TTAAATAAATATAGATTTAATTAATATGAAATAATAAAA-CCCTAATATGATTAGGGTAAATTGG
1200349 ATATAAAAGGATTATTAAATTCCAT
65 ATATAAAAGGATTATTAAATTCCAT
* * *
1200374 TTAAATAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGATTAGGGTAACTTGGC
1 TTAAATAAATATAGATTTAATTAATATGAAATAATAAAACCCTAATATGATTAGGGTAAATTGGA
1200439 TATAAAAGG
66 TATAAAAGG
1200448 GTGTGTTAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
89 33 0.47
90 37 0.53
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.35
Consensus pattern (89 bp):
TTAAATAAATATAGATTTAATTAATATGAAATAATAAAACCCTAATATGATTAGGGTAAATTGGA
TATAAAAGGATTATTAAATTCCAT
Found at i:1202627 original size:8 final size:8
Alignment explanation
Indices: 1202614--1202640 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
1202604 TTGGATGTAG
1202614 CCAACGAT
1 CCAACGAT
1202622 CCAACGAT
1 CCAACGAT
1202630 CCAACGAT
1 CCAACGAT
1202638 CCA
1 CCA
1202641 GCTTCAGTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.41, G:0.11, T:0.11
Consensus pattern (8 bp):
CCAACGAT
Found at i:1222588 original size:45 final size:45
Alignment explanation
Indices: 1222450--1223282 Score: 363
Period size: 45 Copynumber: 18.8 Consensus size: 45
1222440 CCTTCAACTA
* ** * *
1222450 GACTATCTCGTGAAGAGGGGTCAATCTTT---TGATGTTATTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* * *
1222492 GACTTTCTCGTGAAGAGAAATCAATATATT---TCAATGTTATTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCT-TTCAGT-AATGTCATTCTT
* * *
1222536 GACTTTCTCATGAAGAGAAGTCAATCTTTCGGTAATGTCATTCTG
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* * * * *
1222581 GAATTTCTCGTGAAGAGAGGTAAATCTTTTAGTATTGTCATTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* * * * ** ** * *
1222626 GACTTTCTTGTGAAGAGGAGTCGATATTTTGGTGTTGTTA-T-TA
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* * * *
1222669 G-CTTTCTCGTGAAGA-AAGGTCAACCTTTTAGTGATGTTATTCTT
1 GACTTTCTCGTGAAGAGAA-GTCAATCTTTCAGTAATGTCATTCTT
**
1222713 GA-TTTCTCGTGAAGATG-AGTCAATCTTGT-AGTGTTGTC-TTCCTT
1 GACTTTCTCGTGAAGA-GAAGTCAATCTT-TCAGTAATGTCATT-CTT
* * * * * ** **
1222757 GACTTCCTCATAAAGAGGATTCAATCTTT---TGGTGTTGTTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* * * * * * * *
1222799 GGCTTTCTCATAAAGATAAGTCAACCTTTTAGTGATGTTATTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* * * * *
1222844 GATTTTTTCGTGAAGAGAAGTCAATCGTTCATTATTGTCATTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* **
1222889 GACTTTCTCATGAAGAGGAA-TCAATCTTT-ATGTGTTGTC-TTCCTT
1 GACTTTCTCGTGAAGA-GAAGTCAATCTTTCA-GTAATGTCATT-CTT
* * * * ** **
1222934 GACTTTCTCGTGAAGAGAAATTAA-CATTTTATTGGTGTTGTTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATC-TTTCAGTAATGTCATTCTT
* * * * *
1222979 GACTTTTTCATGAAGAGAAGTCAACCTTTTAGTGATGT-ATTTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCA-TTCTT
* * * **
1223024 AACTTTCTCGTGAAGAGGAGTCAATCTTTTAGTGTTGTC-TTCCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATT-CTT
* * * * **
1223069 GACTTTCTTGTGAAGAGGAGTCAATATTTTAGTGTTGTC-TTCCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATT-CTT
* * ** * *
1223114 GACTTTCTCATGAAGAGGAGTCAATCTTAT-AGTGTTTTCTTTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTT-TCAGTAATGTCATTCTT
** ** * * **
1223159 GACTTTCTCGCAAAGAGGGGTCGATCTTTTAGTGTTGTC-TTACTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATT-CTT
* * * * * * ** *
1223204 TACTTCCTCGAGAAGAGAAGTCAACCTTTTAATGGTGTTATTCTT
1 GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
* *
1223249 GACTTTCTCAT-AGAGAGAATTCAA-CTTTTCAGTA
1 GACTTTCTCGTGA-AGAGAAGTCAATC-TTTCAGTA
1223283 GTATCTTTCC
Statistics
Matches: 630, Mismatches: 124, Indels: 71
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.00
42 82 0.13
43 12 0.02
44 87 0.14
45 435 0.69
46 13 0.02
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (45 bp):
GACTTTCTCGTGAAGAGAAGTCAATCTTTCAGTAATGTCATTCTT
Found at i:1222641 original size:90 final size:90
Alignment explanation
Indices: 1222450--1223277 Score: 492
Period size: 90 Copynumber: 9.3 Consensus size: 90
1222440 CCTTCAACTA
* * ** * **
1222450 GACTATCTCGTGAAGAGGGGTCAATC-TTT--TGATGTTATTCTTGACTTTCTCGTGAAGAGAAA
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATTCTTGACTTTCTCGTGAAGAGAGG
* *
1222512 TCAATATATTTCA--A-TGTTATTCTT
66 TCAATCT-TTT-AGTATTGTCATTCTT
* * * *
1222536 GACTTTCTCATGAAGAGAAGTCAATCTTTCGGTAATGTCATTCTGGAATTTCTCGTGAAGAGAGG
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATTCTTGACTTTCTCGTGAAGAGAGG
*
1222601 TAAATCTTTTAGTATTGTCATTCTT
66 TCAATCTTTTAGTATTGTCATTCTT
** * * * * * * *
1222626 GACTTTCTTGTGAAGAGGAGTCGATATTTTGGTGTTGTTA-T-TAG-CTTTCTCGTGAAGAAAGG
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATTCTTGACTTTCTCGTGAAGAGAGG
* *
1222688 TCAACCTTTTAGTGA-TGTTATTCTT
66 TCAATCTTTTAGT-ATTGTCATTCTT
* * * * * *
1222713 GA-TTTCTCGTGAAGATG-AGTCAATCTTGTAGTGTTGTC-TTCCTTGACTTCCTCAT-AA-AGA
1 GACTTTCTCATGAAGA-GAAGTCAATCTTTTGGTGATGTCATT-CTTGACTTTCTCGTGAAGAGA
* *
1222773 GGATTCAATCTTTTGGTGTTG---TTCTT
64 GG--TCAATCTTTTAGTATTGTCATTCTT
* * * * * * * * *
1222799 GGCTTTCTCATAAAGATAAGTCAACCTTTTAGTGATGTTATTCTTGATTTTTTCGTGAAGAGAAG
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATTCTTGACTTTCTCGTGAAGAGAGG
* * *
1222864 TCAATCGTTCATTATTGTCATTCTT
66 TCAATCTTTTAGTATTGTCATTCTT
*
1222889 GACTTTCTCATGAAGAGGAA-TCAATCTTTAT-GTGTTGTC-TTCCTTGACTTTCTCGTGAAGAG
1 GACTTTCTCATGAAGA-GAAGTCAATCTTT-TGGTGATGTCATT-CTTGACTTTCTCGTGAAGAG
** * * ** **
1222951 AAATTAA-CATTTTATTGGTGTTGTTCTT
63 AGGTCAATC-TTTTAGTATTGTCATTCTT
* * * *
1222979 GACTTTTTCATGAAGAGAAGTCAACCTTTTAGTGATGT-ATTTCTTAACTTTCTCGTGAAGAG-G
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCA-TTCTTGACTTTCTCGTGAAGAGAG
*
1223042 AGTCAATCTTTTAGTGTTGTC-TTCCTT
65 -GTCAATCTTTTAGTATTGTCATT-CTT
** * * * * *
1223069 GACTTTCTTGTGAAGAGGAGTCAATATTTTAGTGTTGTC-TTCCTTGACTTTCTCATGAAGAG-G
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATT-CTTGACTTTCTCGTGAAGAGAG
* * * *
1223132 AGTCAATCTTATAGTGTTTTCTTTCTT
65 -GTCAATCTTTTAGTATTGTCATTCTT
*** ** * * * * * * *
1223159 GACTTTCTCGCAAAGAGGGGTCGATCTTTTAGTGTTGTC-TTACTTTACTTCCTCGAGAAGAGAA
1 GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATT-CTTGACTTTCTCGTGAAGAGAG
* * ** *
1223223 GTCAACCTTTTAATGGTGTTATTCTT
65 GTCAATCTTTTAGTATTGTCATTCTT
*
1223249 GACTTTCTCAT-AGAGAGAATTCAA-CTTTT
1 GACTTTCTCATGA-AGAGAAGTCAATCTTTT
1223278 CAGTAGTATC
Statistics
Matches: 581, Mismatches: 122, Indels: 75
0.75 0.16 0.10
Matches are distributed among these distances:
86 57 0.10
87 96 0.17
88 14 0.02
89 75 0.13
90 331 0.57
91 8 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (90 bp):
GACTTTCTCATGAAGAGAAGTCAATCTTTTGGTGATGTCATTCTTGACTTTCTCGTGAAGAGAGG
TCAATCTTTTAGTATTGTCATTCTT
Found at i:1222924 original size:132 final size:131
Alignment explanation
Indices: 1222455--1223282 Score: 658
Period size: 135 Copynumber: 6.2 Consensus size: 131
1222445 AACTAGACTA
** * *
1222455 TCTCGTGAAGAGGGGTCAATCTTTT-G-A-TGTTATTCTTGACTTTCTCGTGAAGAGAAATCAAT
1 TCTCGTGAAGAGAAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCGTGAAGAGGAATCAAT
* * * * ** * * *
1222517 ATATTTCAATGTTATTCTTGACTTTCTCATGAAGAGAAGTCAATCTTTCGGTAATGTCATTCTGG
66 CT-TTT-AGTGTTGTTCTTGACTTTCTCATGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTG
1222582 AATT
129 -ATT
* * * * *
1222586 TCTCGTGAAGAGAGGTAAATCTTTTAGTATTGTCATTCTTGACTTTCTTGTGAAGAGGAGTCGAT
1 TCTCGTGAAGAGAAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCGTGAAGAGGAATCAAT
* * * *
1222651 ATTTTGGTGTTGTTATT-AGCTTTCTCGTGAAGA-AAGGTCAACCTTTTAGTGATGTTATTCTTG
66 CTTTTAGTGTTGTTCTTGA-CTTTCTCATGAAGAGAA-GTCAACCTTTTAGTGATGTTATTCTTG
1222714 ATT
129 ATT
* * * * * *
1222717 TCTCGTGAAGATG-AGTCAATCTTGTAGTGTTGTC-TTCCTTGACTTCCTCATAAAGAGGATTCA
1 TCTCGTGAAGA-GAAGTCAATCTTTTAGTATTGTCATT-CTTGACTTTCTCGTGAAGAGGAATCA
* * * *
1222780 ATCTTTTGGTGTTGTTCTTGGCTTTCTCATAAAGATAAGTCAACCTTTTAGTGATGTTATTCTTG
64 ATCTTTTAGTGTTGTTCTTGACTTTCTCATGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTG
1222845 ATTT
129 A-TT
* * * * *
1222849 TTTCGTGAAGAGAAGTCAATCGTTCATTATTGTCATTCTTGACTTTCTCATGAAGAGGAATCAAT
1 TCTCGTGAAGAGAAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCGTGAAGAGGAATCAAT
* * * * * * *
1222914 C-TTTATGTGTTGTCTTCCTTGACTTTCTCGTGAAGAGAAATTAACATTTTATTGGTGTTGTTCT
66 CTTTTA-GTGTTG--TT-CTTGACTTTCTCATGAAGAGAAGTCAACCTTTTAGTGATGTTATTCT
1222978 TGACTT
127 TGA-TT
* * * * *
1222984 TTTCATGAAGAGAAGTCAACCTTTTAGTGA-TGT-ATTTCTTAACTTTCTCGTGAAGAGGAGTCA
1 TCTCGTGAAGAGAAGTCAATCTTTTAGT-ATTGTCA-TTCTTGACTTTCTCGTGAAGAGGAATCA
** * ** * *
1223047 ATCTTTTAGTGTTGTCTTCCTTGACTTTCTTGTGAAGAGGAGTCAATATTTTAGTGTTGTCT-TC
64 ATCTTTTAGTGTTG--TT-CTTGACTTTCTCATGAAGAGAAGTCAACCTTTTAGTGATGT-TATT
1223111 CTTGACTT
125 CTTGA-TT
* * * * * * ** ** *
1223119 TCTCATGAAGAGGAGTCAATCTTATAGTGTTTTCTTTCTTGACTTTCTCGCAAAGAGGGGTCGAT
1 TCTCGTGAAGAGAAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCGTGAAGAGGAATCAAT
* * * *
1223184 CTTTTAGTGTTGTCTTACTTTACTTCCTCGA-GAAGAGAAGTCAACCTTTTAATGGTGTTATTCT
66 CTTTTAGTGTTG--TT-CTTGACTTTCTC-ATGAAGAGAAGTCAACCTTTTAGTGATGTTATTCT
1223248 TGACTT
127 TGA-TT
* *
1223254 TCTCAT-AGAGAGAATTCAA-CTTTTCAGTA
1 TCTCGTGA-AGAGAAGTCAATCTTTT-AGTA
1223283 GTATCTTTCC
Statistics
Matches: 574, Mismatches: 97, Indels: 48
0.80 0.13 0.07
Matches are distributed among these distances:
130 2 0.00
131 138 0.24
132 106 0.18
133 6 0.01
134 41 0.07
135 275 0.48
136 6 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.42
Consensus pattern (131 bp):
TCTCGTGAAGAGAAGTCAATCTTTTAGTATTGTCATTCTTGACTTTCTCGTGAAGAGGAATCAAT
CTTTTAGTGTTGTTCTTGACTTTCTCATGAAGAGAAGTCAACCTTTTAGTGATGTTATTCTTGAT
T
Found at i:1224194 original size:134 final size:134
Alignment explanation
Indices: 1224045--1224369 Score: 418
Period size: 134 Copynumber: 2.4 Consensus size: 134
1224035 CATTTTTCCT
* * *
1224045 AGATTTGGTCTTCTTGAATAGCAGCGAAGCAAATCAAATTCGATTCATTCTTACCTGAAGAGCAG
1 AGATTTGGTCTTCTTGAAAAGCAGCGAAGCAAATCAAATTCGATTCAATCTTACCTAAAGAGCAG
* * * *
1224110 TGAAGTGGATCAAACTTTTCTCGAGTTTGATCTCCCCTAAAGAGTACTGGAGAAGATTC-TTCTT
66 TGAAGTGAATCAAA-ATTTCTCGAATCTGATCTCCCCTAAAGAGTACTGGAGAAGATTCTTTCTT
1224174 CTTTC
130 CTTTC
* ** * * * *
1224179 AGATTTGGTCTTCTTGAAGAGCAATGAAGTAAATCAAATTTGATTCAATCTTCCCTAAAGAGTAG
1 AGATTTGGTCTTCTTGAAAAGCAGCGAAGCAAATCAAATTCGATTCAATCTTACCTAAAGAGCAG
* * ** *
1224244 TGAAGTGAATTAAAATTTCTCGAATCTGATCTCCCCTAAAGAGTAGTGGAGCGGATTCTTTTTTC
66 TGAAGTGAATCAAAATTTCTCGAATCTGATCTCCCCTAAAGAGTACTGGAGAAGATTCTTTCTTC
1224309 TTTC
131 TTTC
* ** * *
1224313 AGATTTGGTCTTCCTGAAAAATAGCGAAGCAAATCAAGTTCGATTCAATCTTCCCTA
1 AGATTTGGTCTTCTTGAAAAGCAGCGAAGCAAATCAAATTCGATTCAATCTTACCTA
1224370 TACAACATCA
Statistics
Matches: 163, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
133 38 0.23
134 125 0.77
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (134 bp):
AGATTTGGTCTTCTTGAAAAGCAGCGAAGCAAATCAAATTCGATTCAATCTTACCTAAAGAGCAG
TGAAGTGAATCAAAATTTCTCGAATCTGATCTCCCCTAAAGAGTACTGGAGAAGATTCTTTCTTC
TTTC
Found at i:1228049 original size:46 final size:46
Alignment explanation
Indices: 1227978--1228252 Score: 376
Period size: 46 Copynumber: 6.0 Consensus size: 46
1227968 TGAGTGACAC
*
1227978 CATCCTTTCATGCCGATAATGCACCGTTATGCATTTTCATTTGTGG
1 CATCCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGG
* **
1228024 CATCCTTTCATGTCGATAATACACCGTTACACATTTTCATTTGTGG
1 CATCCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1228070 TATCATTTCCT-TCCGATAATGCACCGTTATGCATTTTCATTTGTGG
1 CATCCTTTCATGT-CGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1228116 CATCCTTTCATGTCGATAATGCACCATTATGTATTTTCATTTATGG
1 CATCCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGG
* * *
1228162 CATTCAC-TTCATGCCGATAATGCACTGTTATGTATTTTCATTTGTGG
1 CA-TC-CTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGG
1228209 CATCCTTTCATG-CTGATAATGCACCGTTATGCATTTTCATTTGT
1 CATCCTTTCATGTC-GATAATGCACCGTTATGCATTTTCATTTGT
1228253 TCATTCATTT
Statistics
Matches: 201, Mismatches: 22, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
45 3 0.01
46 156 0.78
47 41 0.20
48 1 0.00
ACGTcount: A:0.21, C:0.22, G:0.15, T:0.42
Consensus pattern (46 bp):
CATCCTTTCATGTCGATAATGCACCGTTATGCATTTTCATTTGTGG
Found at i:1234996 original size:46 final size:46
Alignment explanation
Indices: 1234910--1235186 Score: 403
Period size: 46 Copynumber: 6.0 Consensus size: 46
1234900 AATAATATGA
* * *
1234910 GTGGCA-CCTTTTATGTTGTTAATGCACCGTTATGCATTTTCATTT
1 GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
* * * *
1234955 GTGCCATCATTTCATGCCGATAATGCACTGTTATGCATTTTCATTT
1 GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
* *
1235001 GTGGTATCCTTTCATGCTGATAATGCATCGTTATGCATTTTCATTT
1 GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
* * *
1235047 GTGGCATACTTTCATGCTGATAATGCACCGTTATGTATTTTTATTT
1 GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
*
1235093 GTGGCATCCTTTCATGCTAATAATGCACCGTTATGCATTTTCATTT
1 GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
* * *
1235139 GTGGCATCCTTTCATGCCGATAATGCATCGCTATGCATTTTCATTT
1 GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
1235185 GT
1 GT
1235187 TCATTCATTT
Statistics
Matches: 205, Mismatches: 26, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
45 5 0.02
46 200 0.98
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (46 bp):
GTGGCATCCTTTCATGCTGATAATGCACCGTTATGCATTTTCATTT
Found at i:1236548 original size:4 final size:4
Alignment explanation
Indices: 1236539--1236569 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
1236529 ATTACAAATT
*
1236539 CATA CATA CATA CATA CATG CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CAT
1236570 GGATGTATGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:1236570 original size:12 final size:12
Alignment explanation
Indices: 1236539--1236602 Score: 56
Period size: 12 Copynumber: 5.3 Consensus size: 12
1236529 ATTACAAATT
*
1236539 CATACATACATA
1 CATACATGCATA
1236551 CATACATGCATA
1 CATACATGCATA
* *
1236563 CATACATGGATG
1 CATACATGCATA
* * *
1236575 TATGCATGCATG
1 CATACATGCATA
* *
1236587 CATATATACATA
1 CATACATGCATA
1236599 CATA
1 CATA
1236603 TCATTAATTC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.28
Consensus pattern (12 bp):
CATACATGCATA
Found at i:1236625 original size:29 final size:27
Alignment explanation
Indices: 1236592--1236686 Score: 104
Period size: 29 Copynumber: 3.4 Consensus size: 27
1236582 GCATGCATAT
* *
1236592 ATACATACATATCATTAATTCATGTATGC
1 ATACATACATATCACTCATTCAT-TAT-C
*
1236621 ATACATACTTATCACTCATTCA-TAT-
1 ATACATACATATCACTCATTCATTATC
*
1236646 ATACATACATATCACTCATTCATATTTAC
1 ATACATACATATCACTCATTCAT-TAT-C
1236675 ATACATACATAT
1 ATACATACATAT
1236687 ATAATATACG
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
25 21 0.37
27 5 0.09
29 31 0.54
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (27 bp):
ATACATACATATCACTCATTCATTATC
Found at i:1236639 original size:25 final size:25
Alignment explanation
Indices: 1236587--1236681 Score: 91
Period size: 25 Copynumber: 3.6 Consensus size: 25
1236577 TGCATGCATG
* * *
1236587 CATATATACATACATATCATTAATT
1 CATACATACATACATATCACTCATT
*
1236612 CATGTATGCATACATACTTATCACTCATT
1 CA--TA--CATACATACATATCACTCATT
*
1236641 CATATATACATACATATCACTCATT
1 CATACATACATACATATCACTCATT
**
1236666 CATATTTACATACATA
1 CATACATACATACATA
1236682 CATATATAAT
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
25 36 0.61
27 4 0.07
29 19 0.32
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (25 bp):
CATACATACATACATATCACTCATT
Found at i:1236740 original size:17 final size:17
Alignment explanation
Indices: 1236711--1236756 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1236701 TGTGTGTATA
*
1236711 AATGA-ATGAATGAAAG
1 AATGATATGTATGAAAG
*
1236727 TAATG-TATGTATGAATG
1 -AATGATATGTATGAAAG
1236744 AATGATATGTATG
1 AATGATATGTATG
1236757 GACATATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.43, C:0.00, G:0.24, T:0.33
Consensus pattern (17 bp):
AATGATATGTATGAAAG
Found at i:1236833 original size:2 final size:2
Alignment explanation
Indices: 1236826--1236856 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1236816 ATGTACATAT
1236826 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1236857 TATATATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1236916 original size:32 final size:32
Alignment explanation
Indices: 1236880--1236986 Score: 125
Period size: 28 Copynumber: 3.4 Consensus size: 32
1236870 GTCCATCCAT
*
1236880 ATCATTCATTTATACATACATTTCATTCATTA
1 ATCATTCATATATACATACATTTCATTCATTA
1236912 ATCATTC----ATACATACATTTCATTCATTA
1 ATCATTCATATATACATACATTTCATTCATTA
* * *
1236940 ATCATTCATACATACATACA-TACATGCATATA
1 ATCATTCATATATACATACATTTCATTCAT-TA
1236972 ACTCATTCATATATA
1 A-TCATTCATATATA
1236987 TATATATATA
Statistics
Matches: 66, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
28 28 0.42
31 7 0.11
32 19 0.29
33 12 0.18
ACGTcount: A:0.38, C:0.21, G:0.01, T:0.40
Consensus pattern (32 bp):
ATCATTCATATATACATACATTTCATTCATTA
Found at i:1236922 original size:28 final size:28
Alignment explanation
Indices: 1236885--1236956 Score: 135
Period size: 28 Copynumber: 2.6 Consensus size: 28
1236875 TCCATATCAT
*
1236885 TCATTTATACATACATTTCATTCATTAA
1 TCATTCATACATACATTTCATTCATTAA
1236913 TCATTCATACATACATTTCATTCATTAA
1 TCATTCATACATACATTTCATTCATTAA
1236941 TCATTCATACATACAT
1 TCATTCATACATACAT
1236957 ACATACATGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (28 bp):
TCATTCATACATACATTTCATTCATTAA
Found at i:1237000 original size:21 final size:21
Alignment explanation
Indices: 1236976--1237029 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
1236966 CATATAACTC
* *
1236976 ATTCATATATATATATATATA
1 ATTCATACATATATACATATA
**
1236997 ATTCATACATACCTACATATA
1 ATTCATACATATATACATATA
1237018 ATTCATACATAT
1 ATTCATACATAT
1237030 GTAGACATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (21 bp):
ATTCATACATATATACATATA
Found at i:1237016 original size:25 final size:25
Alignment explanation
Indices: 1236950--1237017 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
1236940 ATCATTCATA
**
1236950 CATACATACATACATGCATATAACT
1 CATACATACATACATATATATAACT
* * * *
1236975 CATTCATATATATATATATATAATT
1 CATACATACATACATATATATAACT
*
1237000 CATACATACCTACATATA
1 CATACATACATACATATA
1237018 ATTCATACAT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.35
Consensus pattern (25 bp):
CATACATACATACATATATATAACT
Found at i:1237028 original size:25 final size:23
Alignment explanation
Indices: 1236950--1237028 Score: 54
Period size: 25 Copynumber: 3.3 Consensus size: 23
1236940 ATCATTCATA
*
1236950 CATACATACATACATGCATATAACT
1 CATACATACATAC-TACATATAA-T
* * *
1236975 CATTCATATATA-TATATAT-AT
1 CATACATACATACTACATATAAT
* *
1236996 AATTCATACATACCTACATATAATT
1 CATACATACATA-CTACATATAA-T
1237021 CATACATA
1 CATACATA
1237029 TGTAGACATT
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
21 11 0.27
22 1 0.02
23 11 0.27
24 1 0.02
25 17 0.41
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.35
Consensus pattern (23 bp):
CATACATACATACTACATATAAT
Found at i:1240412 original size:586 final size:588
Alignment explanation
Indices: 1238830--1240846 Score: 3916
Period size: 586 Copynumber: 3.4 Consensus size: 588
1238820 CAATCCCAAC
1238830 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
1 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
1238895 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTT-AGGAACCTAA
66 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTTAAGGAACCTAA
1238959 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
131 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
*
1239024 GGATA-TTTTTTCACTATGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
196 GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
1239088 GAGTCTAACAATTACTACTAATGTTACAATAACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
261 GAGTCTAACAATTACTACTAATGTTACAATAACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
1239153 AAATACCAAACGAGTTATAACTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
326 AAATACCAAACGAGTTATAACTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
*
1239218 AATGTGAGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
391 AATGTGTGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
1239283 TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
456 TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
1239348 AGCATATAAGGTTTATGATGGTCTAGCAGCCATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
521 AGCATATAAGGTTTATGATGGTCTAGCAGCCATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
1239413 ATT
586 ATT
*
1239416 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGATTTCGA
1 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
*
1239481 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTCCAATGTTGTTTTTTAAGGAACCTAA
66 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTTAAGGAACCTAA
1239546 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
131 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
*
1239611 GGATATTTTTTTCACTATGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
196 GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
1239676 GAGTCTAACAATTACTACTAATGTTACAATAACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
261 GAGTCTAACAATTACTACTAATGTTACAATAACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
*
1239741 AAATACCAAACGAGTTATAATTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
326 AAATACCAAACGAGTTATAACTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
1239806 AATGTGTGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
391 AATGTGTGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
1239871 TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
456 TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
1239936 AGCATATAAGGTTTATGATGGTCTAGCAGCCATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
521 AGCATATAAGGTTTATGATGGTCTAGCAGCCATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
1240001 ATT
586 ATT
1240004 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
1 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
1240069 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATG-TG-TTTTTAAGGAACCTAA
66 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTTAAGGAACCTAA
1240132 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
131 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
1240197 GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
196 GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
*
1240262 GAGTCTAACAATTACTACTAATGTTACAATTACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
261 GAGTCTAACAATTACTACTAATGTTACAATAACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
1240327 AAATACCAAACGAGTTATAACTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
326 AAATACCAAACGAGTTATAACTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
1240392 AATGTGTGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
391 AATGTGTGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
1240457 TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
456 TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
*
1240522 AGCATATAAGGTTTATGATGGTCTAGCAGCTATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
521 AGCATATAAGGTTTATGATGGTCTAGCAGCCATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
1240587 ATT
586 ATT
*
1240590 TTTGACAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
1 TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
*
1240655 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTTTAGGAACCTAA
66 GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTTAAGGAACCTAA
1240720 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
131 GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
1240785 GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAA
196 GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAA
1240847 TTCTAGGTTA
Statistics
Matches: 1415, Mismatches: 12, Indels: 6
0.99 0.01 0.00
Matches are distributed among these distances:
586 696 0.49
587 84 0.06
588 635 0.45
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (588 bp):
TTTGAGAAGAGAGAAAAACTTTGCTCTCAACCGGGTGAACTGAGTAGAGGCCGAGACGGTTTCGA
GGAGGCTTAGGATTCACAGTTGTTCGTGACTGGATTGCTACAATGTTGTTTTTTAAGGAACCTAA
GGTAAATCTTGCATCTCTTCCTACCGAATATGTGGTTTCATACATGGATCCTTGGTGGGATCGTT
GGATATTTTTTTCACTACGCCATAGGGTGTACCTGCAATCCCAACAAATACTAGAGCCTTAAAGT
GAGTCTAACAATTACTACTAATGTTACAATAACCTACAGGTTCACACCCGAGGGTTGGAATGAGC
AAATACCAAACGAGTTATAACTGTGCAATTTGATTACACTTGAATTAAAATATGTACTTAAGATT
AATGTGTGCGTATGTAATTTTAATTATCATGTATATGTGTTAAATGAGTATTAAAAAGAATATAA
TTAATGTAATTATTTTATTTTTAATTAATAATTAGTAAAAAACCCTAAGGGTTAGGGAAAATAGT
AGCATATAAGGTTTATGATGGTCTAGCAGCCATTTTTATTCCTTTGGCCAAAATTTCTCAAAACA
ATT
Found at i:1241475 original size:38 final size:38
Alignment explanation
Indices: 1241425--1241518 Score: 118
Period size: 38 Copynumber: 2.4 Consensus size: 38
1241415 ATTCATACAT
*
1241425 TACATATATACATTCATGCATTAATAAATTATACACACA
1 TACATACATACATTCAT-CATTAATAAATTATACACACA
* * *
1241464 TAC-TACATACATTAAATCATTAATAAATTATATATACA
1 TACATACATACATT-CATCATTAATAAATTATACACACA
*
1241502 TACATATATACATTCAT
1 TACATACATACATTCAT
1241519 ACATATATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
38 33 0.70
39 14 0.30
ACGTcount: A:0.47, C:0.16, G:0.01, T:0.36
Consensus pattern (38 bp):
TACATACATACATTCATCATTAATAAATTATACACACA
Found at i:1241504 original size:4 final size:4
Alignment explanation
Indices: 1241497--1241578 Score: 51
Period size: 4 Copynumber: 20.5 Consensus size: 4
1241487 TAAATTATAT
* * * * * * * *
1241497 ATAC ATAC ATAT ATAC ATTC ATAC ATAT ATA- AAAT ATGTC ATGC ATAA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT-AC ATAC ATAC
*
1241545 ATGC AT-C AATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC A-TAC ATAC ATAC ATAC ATAC ATAC AT
1241579 TCATGCTTGC
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
3 4 0.07
4 52 0.87
5 4 0.07
ACGTcount: A:0.48, C:0.18, G:0.04, T:0.30
Consensus pattern (4 bp):
ATAC
Found at i:1241511 original size:16 final size:16
Alignment explanation
Indices: 1241492--1241527 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1241482 ATTAATAAAT
*
1241492 TATATATACATACATA
1 TATACATACATACATA
*
1241508 TATACATTCATACATA
1 TATACATACATACATA
1241524 TATA
1 TATA
1241528 AAATATGTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.39
Consensus pattern (16 bp):
TATACATACATACATA
Found at i:1241670 original size:4 final size:4
Alignment explanation
Indices: 1241656--1241693 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
1241646 TTATTTGATA
*
1241656 AAAT TAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
1241694 GCTGAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:1242468 original size:194 final size:196
Alignment explanation
Indices: 1242146--1242499 Score: 472
Period size: 194 Copynumber: 1.8 Consensus size: 196
1242136 CTTTTTGTGT
* * * * *
1242146 TTTTTTTATCAAACCACAAAATCCTAAAGAATTTCTTCATTAGTTCTTCATCATTTTCTTTCTCA
1 TTTTTTTATCAAAACACAAAACCCTAAAGAATTTCTTCATCAATTATTCATCATTTTCTTTCTCA
* **
1242211 GATCCAAATAAACAAAAAAATTTATTTTTTCTTGTTTTGTTTTAGATCAAATCCAAACATTCATC
66 GATCCAAATAAACAAAAAAATCTATCCTTTC-T-TTTTGTTTTAGATCAAATCCAAACATTCATC
1242276 CCATGTTCTTCGCCTGTTCATCCCAAAAAAATATATCTCCGGTCCAAAAAATCAGATTAACTTCA
129 CCATGTTCTTCGCCTGTTCATCCCAAAAAAATATATCTCCGGTCCAAAAAATCAGATTAACTTCA
1242341 TTC
194 TTC
*
1242344 TTTTTTTATCAAAACA-AAAACCCATAAA-AATTT-TGTCATCAATTATTCATCCTTTTCTTTCT
1 TTTTTTTATCAAAACACAAAACCC-TAAAGAATTTCT-TCATCAATTATTCATCATTTTCTTTC-
*
1242406 TCA-ATCCAAATAAACACTAAAAACTCT-TCCTTTC-TTTT-TTTTAGATCAAA-CTCAAACATT
63 TCAGATCCAAATAAACA--AAAAAATCTATCCTTTCTTTTTGTTTTAGATCAAATC-CAAACATT
* *
1242466 CATCCCTTGTTCTTCGTCTGTTCATCCCAAAAAA
125 CATCCCATGTTCTTCGCCTGTTCATCCCAAAAAA
1242500 TCTATTCGAT
Statistics
Matches: 138, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
193 1 0.01
194 52 0.38
195 4 0.03
196 1 0.01
197 46 0.33
198 27 0.20
199 7 0.05
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (196 bp):
TTTTTTTATCAAAACACAAAACCCTAAAGAATTTCTTCATCAATTATTCATCATTTTCTTTCTCA
GATCCAAATAAACAAAAAAATCTATCCTTTCTTTTTGTTTTAGATCAAATCCAAACATTCATCCC
ATGTTCTTCGCCTGTTCATCCCAAAAAAATATATCTCCGGTCCAAAAAATCAGATTAACTTCATT
C
Found at i:1242541 original size:194 final size:192
Alignment explanation
Indices: 1242044--1242617 Score: 475
Period size: 198 Copynumber: 2.9 Consensus size: 192
1242034 AATTCAAAAG
* * * * * * *
1242044 TTTTTTTAGATCAAATCCATAAAATTCATCTCTTGTTCCTCATTTATTCATCCCAAAAAATTCTC
1 TTTTTTTAGATCAAATCCA-AACATTCATCCCTTGTTCTTCGTCTGTTCATCCCAAAAAA-TCTA
** * * * *
1242109 TTCGATAAAAAAATACA-AAACTTCTTTCTTTTTGTGTTTTTTTTATCAAACCACAAAATCCTAA
64 TTCGATCCAAAAA-ACATAAA-TTC-AT-TTTTT-T-CTTTTTTTATCAAAACA-AAAACCCTAA
* * * * **
1242173 AGAATTTCTTCATTAGTTCTTCATCATTTTCTTTCTCAGATCCAAATAAACAAAAAAATTTATTT
122 AGAATTTCTTCATCAATTATTCATCATTTTCTTTCTCAGATCCAAATAAACAAAAAAATCTATCC
1242238 TTTCTTGT
187 TTTC-T-T
* * *
1242246 TTTGTTTTAGATCAAATCCAAACATTCATCCCATGTTCTTCGCCTGTTCATCCCAAAAAAATATA
1 TTT-TTTTAGATCAAATCCAAACATTCATCCCTTGTTCTTCGTCTGTTCATCCC-AAAAAATCTA
* * * * **
1242311 TCTCCGGTCC-AAAAA-ATCAGATTAACTTCATTCTTTTTTTATCAAAACAAAAACCCATAAA-A
64 T-T-CGATCCAAAAAACAT-AAATTCATTTTTTTCTTTTTTTATCAAAACAAAAACCC-TAAAGA
* *
1242373 ATTT-TGTCATCAATTATTCATCCTTTTCTTTCTTCA-ATCCAAATAAACACTAAAAACTCT-TC
125 ATTTCT-TCATCAATTATTCATCATTTTCTTTC-TCAGATCCAAATAAACA--AAAAAATCTATC
1242435 CTTTC-T
186 CTTTCTT
1242441 TTTTTTTAGATCAAA-CTCAAACATTCATCCCTTGTTCTTCGTCTGTTCATCCCAAAAAATCTAT
1 TTTTTTTAGATCAAATC-CAAACATTCATCCCTTGTTCTTCGTCTGTTCATCCCAAAAAATCTAT
* *
1242505 TCGATCCAAAAAACATTAAATTCATTATTTTTCTTTTTTTAGATCAAAACAAAAAAACCTAAAAA
65 TCGATCCAAAAAACA-TAAATTCATT-TTTTTCTTTTTTT--ATCAAAAC-AAAAACCCT-AAAG
* ** * * *
1242570 AAATTCTTCATCTGTTCTTCATTAATTTCTTTCTTC-GATCCAAATAAA
124 AATTTCTTCATCAATTATTCATCATTTTCTTTC-TCAGATCCAAATAAA
1242618 AACCAAAAAC
Statistics
Matches: 302, Mismatches: 47, Indels: 50
0.76 0.12 0.13
Matches are distributed among these distances:
191 5 0.02
192 6 0.02
193 18 0.06
194 58 0.19
195 4 0.01
196 10 0.03
197 56 0.19
198 65 0.22
199 9 0.03
200 3 0.01
201 1 0.00
202 35 0.12
203 29 0.10
204 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.05, T:0.40
Consensus pattern (192 bp):
TTTTTTTAGATCAAATCCAAACATTCATCCCTTGTTCTTCGTCTGTTCATCCCAAAAAATCTATT
CGATCCAAAAAACATAAATTCATTTTTTTCTTTTTTTATCAAAACAAAAACCCTAAAGAATTTCT
TCATCAATTATTCATCATTTTCTTTCTCAGATCCAAATAAACAAAAAAATCTATCCTTTCTT
Done.