Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 91
Found at i:6556099 original size:140 final size:143
Alignment explanation
Indices: 6555831--6556130 Score: 313
Period size: 140 Copynumber: 2.1 Consensus size: 143
6555821 GCAAAATTTT
* * *
6555831 GAGCCTCAAACATAGAGGACACACTCCATTAGTAGGTGAATCCTCAACCATAAAGGAAGCCGAAT
1 GAGCCTCAATCATAGAGGACACACT-CATTAGTAGGTGAATCCTCAACCATAAAGAAAGCCAAAT
* * * *** * * **
6555896 GCAACCATGAGCCTAAGTCATAGAGGACACCTTGTTATTAGGTTAATCCTCAACTATGGAGGAAG
65 ACAACCATGAGCCTAAGTCATAGAGGACACCCTGTTAGTAGACGAACCCTCAACCATCAAGGAAG
* *
6555961 CCGAACGCAACCTC
130 CCGAAAGCAACCAC
* * *
6555975 GAGCCTCAATCATAGAGGACAC-CAT-GTTAGTAGGTGAA-CCTCAACCATAGAGAAAGTCAAAT
1 GAGCCTCAATCATAGAGGACACAC-TCATTAGTAGGTGAATCCTCAACCATAAAGAAAGCCAAAT
* * *
6556037 ACAA-CTTCGAGCCTAA-TCATGGAGGACACCCTGTTGGTAGACGAACCCTCAACCATCAAGGAA
65 ACAACCAT-GAGCCTAAGTCATAGAGGACACCCTGTTAGTAGACGAACCCTCAACCATCAAGGAA
**
6556100 TTCGAAAGCAACCAC
129 GCCGAAAGCAACCAC
* *
6556115 GAACCTCATTCATAGA
1 GAGCCTCAATCATAGA
6556131 TGAAACCCTA
Statistics
Matches: 129, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
140 63 0.49
141 31 0.24
142 12 0.09
143 1 0.01
144 22 0.17
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (143 bp):
GAGCCTCAATCATAGAGGACACACTCATTAGTAGGTGAATCCTCAACCATAAAGAAAGCCAAATA
CAACCATGAGCCTAAGTCATAGAGGACACCCTGTTAGTAGACGAACCCTCAACCATCAAGGAAGC
CGAAAGCAACCAC
Found at i:6556402 original size:3 final size:3
Alignment explanation
Indices: 6556357--6556383 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6556347 ATATGTACAT
6556357 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
6556384 ATGCTATCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6564578 original size:23 final size:23
Alignment explanation
Indices: 6564545--6564607 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
6564535 AATCTTATAT
*
6564545 GGCACTACGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
* *
6564568 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
*
6564591 GGCACTTTGGTGCATTT
1 GGCACTTCGGTGCATTT
6564608 ATACAAGTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.16, C:0.25, G:0.27, T:0.32
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:6569410 original size:15 final size:16
Alignment explanation
Indices: 6569365--6569410 Score: 69
Period size: 15 Copynumber: 3.0 Consensus size: 16
6569355 CGTACAATAG
*
6569365 TAAATTAAT-ATTTTA
1 TAAATTAATAATTTTT
6569380 TAAATTAATAATTTTT
1 TAAATTAATAATTTTT
6569396 TAAA-TAATAATTTTT
1 TAAATTAATAATTTTT
6569411 CGTTTCGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 20 0.69
16 9 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAATTAATAATTTTT
Found at i:6574925 original size:20 final size:20
Alignment explanation
Indices: 6574897--6574934 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6574887 TAGGTTAGGG
*
6574897 TATCGATATTGGATGAACAC
1 TATCAATATTGGATGAACAC
6574917 TATCAATATTGGATGAAC
1 TATCAATATTGGATGAAC
6574935 TGTGTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (20 bp):
TATCAATATTGGATGAACAC
Found at i:6580909 original size:15 final size:15
Alignment explanation
Indices: 6580889--6580966 Score: 58
Period size: 15 Copynumber: 5.4 Consensus size: 15
6580879 AAATAATTAA
6580889 AATAATATATTTTAT
1 AATAATATATTTTAT
*
6580904 AATAATATATTTTGT
1 AATAATATATTTTAT
6580919 AAT--TAT-TTATTAT
1 AATAATATATT-TTAT
* ** *
6580932 ATTAA-A-ATGGTAA
1 AATAATATATTTTAT
6580945 AATTAATATATTTTAT
1 AA-TAATATATTTTAT
6580961 AATAAT
1 AATAAT
6580967 TTTTATATTT
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
12 2 0.04
13 11 0.24
14 5 0.11
15 22 0.48
16 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (15 bp):
AATAATATATTTTAT
Found at i:6580983 original size:21 final size:21
Alignment explanation
Indices: 6580948--6581006 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
6580938 ATGGTAAAAT
*
6580948 TAATATA-TTTT-ATAATAAT
1 TAATATATTTTTAATAATAAA
**
6580967 TTTTATATTTTTAATAAATAAA
1 TAATATATTTTTAAT-AATAAA
6580989 TAATATA-TTTTAATAATA
1 TAATATATTTTTAATAATA
6581007 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 5 0.16
20 8 0.25
21 9 0.28
22 10 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATATTTTTAATAATAAA
Found at i:6581015 original size:24 final size:22
Alignment explanation
Indices: 6580970--6581014 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
6580960 TAATAATTTT
6580970 TATATTTTTAATAAATAAATAA
1 TATATTTTTAATAAATAAATAA
6580992 TATA-TTTTAATAATATAAA-AA
1 TATATTTTTAATAA-ATAAATAA
6581013 TA
1 TA
6581015 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATATTTTTAATAAATAAATAA
Found at i:6583223 original size:60 final size:60
Alignment explanation
Indices: 6583158--6583274 Score: 153
Period size: 60 Copynumber: 1.9 Consensus size: 60
6583148 TAAGAAAATA
* * * * *
6583158 TTTCGATTATAGAGTATTAGTTTATTAATTCTCTTAACTATTAAAAGTTATAAAATGGTC
1 TTTCGATTATAAAATATTAGTTTATTAAGTCCCTCAACTATTAAAAGTTATAAAATGGTC
* * * *
6583218 TTTCGATTATAAAATGTTATTTTGTTGAGTCCCTCAACTATTAAAAGTTATAAAATG
1 TTTCGATTATAAAATATTAGTTTATTAAGTCCCTCAACTATTAAAAGTTATAAAATG
6583275 ATCACTAATT
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (60 bp):
TTTCGATTATAAAATATTAGTTTATTAAGTCCCTCAACTATTAAAAGTTATAAAATGGTC
Found at i:6584196 original size:100 final size:100
Alignment explanation
Indices: 6584023--6584225 Score: 406
Period size: 100 Copynumber: 2.0 Consensus size: 100
6584013 GTGTTTTTAA
6584023 ACTTGGTTGTAAATAAAACCGGTTTTATTGTTGATTATGAAGAGAAAAGGGACCAGGCGTGGAGT
1 ACTTGGTTGTAAATAAAACCGGTTTTATTGTTGATTATGAAGAGAAAAGGGACCAGGCGTGGAGT
6584088 TCATTGGTCCATTACGGTCAGGCGCAAACTGTTTG
66 TCATTGGTCCATTACGGTCAGGCGCAAACTGTTTG
6584123 ACTTGGTTGTAAATAAAACCGGTTTTATTGTTGATTATGAAGAGAAAAGGGACCAGGCGTGGAGT
1 ACTTGGTTGTAAATAAAACCGGTTTTATTGTTGATTATGAAGAGAAAAGGGACCAGGCGTGGAGT
6584188 TCATTGGTCCATTACGGTCAGGCGCAAACTGTTTG
66 TCATTGGTCCATTACGGTCAGGCGCAAACTGTTTG
6584223 ACT
1 ACT
6584226 GGGAAATCGC
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.30
Consensus pattern (100 bp):
ACTTGGTTGTAAATAAAACCGGTTTTATTGTTGATTATGAAGAGAAAAGGGACCAGGCGTGGAGT
TCATTGGTCCATTACGGTCAGGCGCAAACTGTTTG
Found at i:6587701 original size:94 final size:93
Alignment explanation
Indices: 6587540--6587726 Score: 347
Period size: 94 Copynumber: 2.0 Consensus size: 93
6587530 TTAATTCTGC
*
6587540 AACAAAATCAATTAGGCAAAACAGGAATATAGAATTCTTTATCCACCAAACGAGTCCCTAATACA
1 AACAAAATCAATTAGGCAAAACAGGAATACAGAATTCTTTATCCACCAAACGAGTCCCTAATACA
*
6587605 TGGAATGATTGTAAAATGATAGATCCAGG
66 TGGAATGATTGTAAAAGGATAGA-CCAGG
6587634 AACAAAATCAATTAGGCAAAACAGGAATACAGAATTCTTTATCCACCAAACGAGTCCCTAATACA
1 AACAAAATCAATTAGGCAAAACAGGAATACAGAATTCTTTATCCACCAAACGAGTCCCTAATACA
6587699 TGGAATGATTGTAAAAGGATAGACCAGG
66 TGGAATGATTGTAAAAGGATAGACCAGG
6587727 CAAGAAGTAA
Statistics
Matches: 91, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
93 5 0.05
94 86 0.95
ACGTcount: A:0.44, C:0.18, G:0.17, T:0.22
Consensus pattern (93 bp):
AACAAAATCAATTAGGCAAAACAGGAATACAGAATTCTTTATCCACCAAACGAGTCCCTAATACA
TGGAATGATTGTAAAAGGATAGACCAGG
Found at i:6589449 original size:18 final size:19
Alignment explanation
Indices: 6589426--6589468 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
6589416 CAGTAATTCT
6589426 ATTCC-CTAGTAATCTTAC
1 ATTCCACTAGTAATCTTAC
*
6589444 ATTCCCACTGGTAATCTTAC
1 ATT-CCACTAGTAATCTTAC
6589464 ATTCC
1 ATTCC
6589469 GTGAACCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 3 0.14
19 4 0.18
20 15 0.68
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (19 bp):
ATTCCACTAGTAATCTTAC
Found at i:6593827 original size:73 final size:73
Alignment explanation
Indices: 6593697--6593835 Score: 219
Period size: 73 Copynumber: 1.9 Consensus size: 73
6593687 CTTTAATGAT
*
6593697 CATTAATGTAGTTTAACCTTATAATAATGGGTAAATTATATAGATGATCTTTATATTTTTAGCCC
1 CATTAATGTAGTTTAACCTTATAATAATGGGTAAACTATATAGATGATCTTTATATTTTTAGCCC
6593762 AACCGAAC
66 AACCGAAC
* *
6593770 CATTAATGTAGTTTACCCTTGTAATAATGGGTAAACTATATAGATTG-TCCTTT-TATTTTTAGC
1 CATTAATGTAGTTTAACCTTATAATAATGGGTAAACTATATAGA-TGAT-CTTTATATTTTTAGC
6593833 CCA
64 CCA
6593836 TCCAATTTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
73 55 0.90
74 6 0.10
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.40
Consensus pattern (73 bp):
CATTAATGTAGTTTAACCTTATAATAATGGGTAAACTATATAGATGATCTTTATATTTTTAGCCC
AACCGAAC
Found at i:6597318 original size:22 final size:21
Alignment explanation
Indices: 6597293--6597355 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 21
6597283 TCGAATAACT
6597293 AAAGTGCCTTACACTAATATAG
1 AAAGTGCCTTACACTAATA-AG
*
6597315 AAAG-GACTTAACACTAATAAG
1 AAAGTGCCTT-ACACTAATAAG
* * *
6597336 GAAGTACGCTCACACTAATA
1 AAAGTGC-CTTACACTAATA
6597356 CTAAAGTGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
21 9 0.27
22 22 0.67
23 2 0.06
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.22
Consensus pattern (21 bp):
AAAGTGCCTTACACTAATAAG
Found at i:6597702 original size:18 final size:21
Alignment explanation
Indices: 6597682--6597722 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6597672 ATGGTATTGA
6597682 TACTACTCT-GAGTATCAATAC
1 TACTACT-TGGAGTATCAATAC
*
6597703 TCCTACTTGGAGTATCAATA
1 TACTACTTGGAGTATCAATA
6597723 TAACTCTCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (21 bp):
TACTACTTGGAGTATCAATAC
Found at i:6602280 original size:22 final size:21
Alignment explanation
Indices: 6602255--6602307 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
6602245 TGCCTAAAAA
6602255 TTATCTAAATAAGAAT-TAATCT
1 TTATCTAAATAA-AATATAA-CT
* *
6602277 TTATGTTAATAAAATATAACT
1 TTATCTAAATAAAATATAACT
6602298 TTATC-AAATA
1 TTATCTAAATA
6602308 TGAAACCAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 4 0.15
21 9 0.35
22 13 0.50
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.42
Consensus pattern (21 bp):
TTATCTAAATAAAATATAACT
Found at i:6607840 original size:37 final size:35
Alignment explanation
Indices: 6607765--6607869 Score: 153
Period size: 37 Copynumber: 3.0 Consensus size: 35
6607755 ACTAGAACCT
*
6607765 GACCCAAATATCACACTTAAAAAAACCCGACCC-A-
1 GACCCGAATATCACACTT-AAAAAACCCGACCCGAC
6607799 -ACCCGAATATCACACTTAAAAAACCCGACCCGACTC
1 GACCCGAATATCACACTTAAAAAACCCGACCCGA--C
6607835 GACCCGAATATCACACTTAAAAAACCCGACCCGAC
1 GACCCGAATATCACACTTAAAAAACCCGACCCGAC
6607870 CCGAAGAAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
32 14 0.22
33 17 0.26
35 1 0.02
37 33 0.51
ACGTcount: A:0.42, C:0.37, G:0.09, T:0.12
Consensus pattern (35 bp):
GACCCGAATATCACACTTAAAAAACCCGACCCGAC
Found at i:6607896 original size:31 final size:30
Alignment explanation
Indices: 6607858--6607968 Score: 105
Period size: 31 Copynumber: 3.4 Consensus size: 30
6607848 CACTTAAAAA
*
6607858 ACCCGACCCGACCCGAAGAAAATAAAGTTTC
1 ACCCGACCCGACCCGAACAAAATAAA-TTTC
* * *
6607889 ACCCGACCCGACCCGAATATATGAATTAGAAATCC
1 ACCCGACCCGACCCGAACA-A--AA-TA-AATTTC
*
6607924 GACCCGACCCGACCCGACCAAAATAAAATTTC
1 -ACCCGACCCGACCCGAACAAAAT-AAATTTC
6607956 ACCCGACCCGACC
1 ACCCGACCCGACC
6607969 TGAATATATG
Statistics
Matches: 66, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
31 31 0.47
32 6 0.09
33 3 0.05
34 2 0.03
35 5 0.08
36 19 0.29
ACGTcount: A:0.36, C:0.37, G:0.14, T:0.13
Consensus pattern (30 bp):
ACCCGACCCGACCCGAACAAAATAAATTTC
Found at i:6607947 original size:67 final size:67
Alignment explanation
Indices: 6607858--6607997 Score: 235
Period size: 67 Copynumber: 2.1 Consensus size: 67
6607848 CACTTAAAAA
* * *
6607858 ACCCGACCCGACCCGAAGAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAATC
1 ACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACC
6607923 CG
66 CG
* *
6607925 ACCCGACCCGACCCGACCAAAATAAAATTTCACCCGACCCGACCTGAATATATGAATTAGAAACC
1 ACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACC
6607990 CG
66 CG
6607992 ACCCGA
1 ACCCGA
6607998 AATAATAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.37, C:0.34, G:0.15, T:0.14
Consensus pattern (67 bp):
ACCCGACCCGACCCGAACAAAATAAAATTTCACCCGACCCGACCCGAATATATGAATTAGAAACC
CG
Found at i:6622503 original size:2 final size:2
Alignment explanation
Indices: 6622496--6622528 Score: 57
Period size: 2 Copynumber: 16.0 Consensus size: 2
6622486 TTATTATAGG
6622496 TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
6622529 ATTTTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6622633 original size:40 final size:36
Alignment explanation
Indices: 6622585--6622823 Score: 137
Period size: 35 Copynumber: 6.7 Consensus size: 36
6622575 ACGGCTTCCG
*
6622585 AAAA-TATATATATCATATAGCTTTTTAAAACGTTTTTC
1 AAAATTATATATAT-ATATAG-TTTTTAAAAC-ATTTTC
* *
6622623 AAAACTTATATATAATATATAGGTTTTAAAACATTTTG
1 AAAA-TTATATAT-ATATATAGTTTTTAAAACATTTTC
* *
6622661 AAAATTATATA-ATATATAGTTTTGAAATCATTTT-
1 AAAATTATATATATATATAGTTTTTAAAACATTTTC
* *
6622695 GAAA--ATATA-ATATATAGTTTTTAAAAACATTTTG
1 AAAATTATATATATATATAGTTTTT-AAAACATTTTC
* * * *
6622729 AAAACTT-TAAAAAATATATAG-TTTTAAAAAATGTTTTT
1 AAAA-TTAT-ATATATATATAGTTTTTAAAACA--TTTTC
*
6622767 AAAA--ACT-TATATA-ATA-TTTTTAAAATCATTTTTG
1 AAAATTA-TATATATATATAGTTTTTAAAA-CA-TTTTC
* *
6622801 AAAACTATACA-ATATATAGTTTT
1 AAAATTATATATATATATAGTTTT
6622824 GAAATTTTTT
Statistics
Matches: 161, Mismatches: 19, Indels: 43
0.72 0.09 0.19
Matches are distributed among these distances:
32 17 0.11
33 9 0.06
34 25 0.16
35 29 0.18
36 11 0.07
37 18 0.11
38 28 0.17
39 9 0.06
40 13 0.08
41 2 0.01
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (36 bp):
AAAATTATATATATATATAGTTTTTAAAACATTTTC
Found at i:6622783 original size:38 final size:36
Alignment explanation
Indices: 6622589--6622823 Score: 179
Period size: 33 Copynumber: 6.5 Consensus size: 36
6622579 CTTCCGAAAA
* * *
6622589 TATATATATCATATAGCTTTTTAAAACGTTTTTCAAAACTT
1 TATATA-AT-ATATAG-TTTTAAAAAC-ATTTTGAAAAC-T
6622630 ATATATAATATATAGGTTTT-AAAACATTTTGAAAA-T
1 -TATATAATATATA-GTTTTAAAAACATTTTGAAAACT
* *
6622666 TATATAATATATAGTTTTGAAATCATTTTG-AAA--
1 TATATAATATATAGTTTTAAAAACATTTTGAAAACT
6622699 -ATATAATATATAGTTTTTAAAAACATTTTGAAAACTT
1 TATATAATATATAG-TTTTAAAAACATTTTGAAAAC-T
* * *
6622736 TAAAAAATATATAGTTTTAAAAA-ATGTTTTTAAAAACT
1 TATATAATATATAGTTTTAAAAACA---TTTTGAAAACT
*
6622774 TATAT-A-ATAT--TTTTAAAATCATTTTTGAAAAC-
1 TATATAATATATAGTTTTAAAAACA-TTTTGAAAACT
*
6622806 TATACAATATATAGTTTT
1 TATATAATATATAGTTTT
6622824 GAAATTTTTT
Statistics
Matches: 164, Mismatches: 13, Indels: 38
0.76 0.06 0.18
Matches are distributed among these distances:
32 17 0.10
33 25 0.15
34 23 0.14
35 24 0.15
36 10 0.06
37 10 0.06
38 23 0.14
39 14 0.09
40 9 0.05
41 3 0.02
42 6 0.04
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (36 bp):
TATATAATATATAGTTTTAAAAACATTTTGAAAACT
Found at i:6622802 original size:105 final size:105
Alignment explanation
Indices: 6622590--6622823 Score: 246
Period size: 106 Copynumber: 2.2 Consensus size: 105
6622580 TTCCGAAAAT
* * * *
6622590 ATATATATCATATAGCTTTTTAAAACGTTTTTCAAAACTTATATATAATATATAGGTTTTAAAAC
1 ATATA-AT-ATATAG-TTTTTAAAACGATTTTCAAAACTTATAAAAAATATATAGGTTTTAAAAA
* *
6622655 ATTTTGAAAATTATATAATATATAGTTTTGAAATCATTTTGAAA
63 ATTTTAAAAATTATATAATATATA-TTTTAAAATCATTTTGAAA
*
6622699 ATATAATATATAGTTTTTAAAAAC-ATTTTGAAAACTT-TAAAAAATATATA-GTTTTAAAAAAT
1 ATATAATATATAGTTTTT-AAAACGATTTTCAAAACTTATAAAAAATATATAGGTTTTAAAAAA-
6622761 GTTTTTAAAAACTTATAT-A-ATAT-TTTTAAAATCATTTTTGAAA
64 --TTTTAAAAA-TTATATAATATATATTTTAAAATCA-TTTTGAAA
6622804 ACTATACAATATATAGTTTT
1 A-TAT--AATATATAGTTTT
6622824 GAAATTTTTT
Statistics
Matches: 109, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
104 20 0.18
105 20 0.18
106 23 0.21
107 20 0.18
108 21 0.19
109 5 0.05
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (105 bp):
ATATAATATATAGTTTTTAAAACGATTTTCAAAACTTATAAAAAATATATAGGTTTTAAAAAATT
TTAAAAATTATATAATATATATTTTAAAATCATTTTGAAA
Found at i:6622817 original size:70 final size:67
Alignment explanation
Indices: 6622632--6622852 Score: 218
Period size: 70 Copynumber: 3.2 Consensus size: 67
6622622 CAAAACTTAT
* * * * *
6622632 ATATAATATATAGGTTTTAAAACATTTTGAAAATTATATAATATATAGTTTTGAAATCATTTTGA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAACTATAAAATATATAGTTTTAAAATCATTTTAA
6622697 AA
66 AA
* **
6622699 ATATAATATATAGTTTTTAAAAACATTTTGAAAACTTTAAAAAATATATAGTTTTAAAAAATGTT
1 ATATAATATATAGTTTTT-AAAACATTTTGAAAAC--TATAAAATATATAGTTTT--AAAATCAT
6622764 TTTAAAA
61 TTTAAAA
* *
6622771 ACT-T-ATATAATA-TTTTTAAAATCATTTTTGAAAACTATACAATATATAGTTTTGAAAT--TT
1 A-TATAATAT-ATAGTTTTTAAAA-CA-TTTTGAAAACTATAAAATATATAGTTTTAAAATCATT
**
6622831 TTTTAA
62 TTAAAA
6622837 ATATAATATATAGTTT
1 ATATAATATATAGTTT
6622853 AAAAAATATT
Statistics
Matches: 129, Mismatches: 13, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
65 1 0.01
66 11 0.09
67 24 0.19
68 19 0.15
70 36 0.28
71 11 0.09
72 26 0.20
73 1 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (67 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAACTATAAAATATATAGTTTTAAAATCATTTTAA
AA
Found at i:6622865 original size:32 final size:31
Alignment explanation
Indices: 6622734--6622866 Score: 83
Period size: 30 Copynumber: 4.1 Consensus size: 31
6622724 TTTTGAAAAC
*
6622734 TTTAAA-A-AATATATAGTTTTAAAAAATGTT
1 TTTAAATATAATATATAG-TTTAAAAAATTTT
* * * *
6622764 TTTAAAAACTTATATAATATTTTTAAAATCATTTT
1 TTTAAATA-TAATAT-ATA-GTTTAAAA-AATTTT
** **
6622799 TGAAAACTATACAATATATAGTTT-TGAAATTTT
1 TTTAAA-TAT--AATATATAGTTTAAAAAATTTT
6622832 TTTAAATATAATATATAGTTTAAAAAATATTT
1 TTTAAATATAATATATAGTTTAAAAAAT-TTT
6622864 TTT
1 TTT
6622867 TGAAGTATAT
Statistics
Matches: 76, Mismatches: 16, Indels: 20
0.68 0.14 0.18
Matches are distributed among these distances:
30 18 0.24
31 5 0.07
32 9 0.12
33 13 0.17
34 11 0.14
35 12 0.16
36 4 0.05
37 4 0.05
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (31 bp):
TTTAAATATAATATATAGTTTAAAAAATTTT
Found at i:6622916 original size:3 final size:3
Alignment explanation
Indices: 6622890--6622941 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
6622880 ATATAGTCTA
* *
6622890 TAT TA- TAT AAT TAT TAG TATT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
6622935 TAT TAT T
1 TAT TAT T
6622942 TATTTTCATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:6624135 original size:15 final size:15
Alignment explanation
Indices: 6624112--6624153 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 15
6624102 TTGATTCCAC
*
6624112 TTTTGTATTATATAT
1 TTTTTTATTATATAT
6624127 TTTTTTATT-T-TA-
1 TTTTTTATTATATAT
6624139 TTTTTTATTATATAT
1 TTTTTTATTATATAT
6624154 ATATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
12 9 0.39
13 3 0.13
14 3 0.13
15 8 0.35
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTTATTATATAT
Found at i:6624204 original size:17 final size:17
Alignment explanation
Indices: 6624184--6624222 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
6624174 ATTTTAATCT
6624184 TTTTTATATTCTTTTTG
1 TTTTTATATTCTTTTTG
* * *
6624201 TTTTTTTGTTTTTTTTG
1 TTTTTATATTCTTTTTG
6624218 TTTTT
1 TTTTT
6624223 TAAACTAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.05, C:0.03, G:0.08, T:0.85
Consensus pattern (17 bp):
TTTTTATATTCTTTTTG
Found at i:6624213 original size:9 final size:9
Alignment explanation
Indices: 6624195--6624223 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6624185 TTTTATATTC
6624195 TTTTTG-TT
1 TTTTTGTTT
6624203 TTTTTGTTT
1 TTTTTGTTT
6624212 TTTTTGTTT
1 TTTTTGTTT
6624221 TTT
1 TTT
6624224 AAACTAACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.30
9 14 0.70
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:6624262 original size:18 final size:17
Alignment explanation
Indices: 6624239--6624272 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
6624229 AACCTTCTTA
*
6624239 TTATTTTTTATTATTTTG
1 TTATTTTCTATT-TTTTG
6624257 TTATTTTCTATTTTTT
1 TTATTTTCTATTTTTT
6624273 ATCAACTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
TTATTTTCTATTTTTTG
Found at i:6624329 original size:2 final size:2
Alignment explanation
Indices: 6624322--6624349 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6624312 TTTTATATTA
6624322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6624350 TTCTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6630189 original size:71 final size:71
Alignment explanation
Indices: 6630068--6630204 Score: 247
Period size: 71 Copynumber: 1.9 Consensus size: 71
6630058 GCGGAAAACA
6630068 TATGGTTAATCAAATTTATTTTCCTAGTCAACTGAAATTCATATGAATATTTTGGAAAATGATTC
1 TATGGTTAATCAAATTTATTTTCCTAGTCAACTGAAATTCATATGAATATTTTGGAAAATGATTC
6630133 AAACCT
66 AAACCT
* * *
6630139 TATGGTTAATCAAATTTATTTTCCTAGTCAACTGAATTTTATATGCATATTTTGGAAAATGATTC
1 TATGGTTAATCAAATTTATTTTCCTAGTCAACTGAAATTCATATGAATATTTTGGAAAATGATTC
6630204 A
66 A
6630205 TGGTTTGAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (71 bp):
TATGGTTAATCAAATTTATTTTCCTAGTCAACTGAAATTCATATGAATATTTTGGAAAATGATTC
AAACCT
Found at i:6630542 original size:9 final size:9
Alignment explanation
Indices: 6630520--6630550 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
6630510 TAACTTTTAA
6630520 TAATATAA-
1 TAATATAAT
6630528 TAATATAAT
1 TAATATAAT
6630537 TAATATAAT
1 TAATATAAT
6630546 TAATA
1 TAATA
6630551 GTATATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAATATAAT
Found at i:6630706 original size:18 final size:19
Alignment explanation
Indices: 6630679--6630716 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6630669 AACATAAATA
*
6630679 AAATATTATTATTT-TTAT
1 AAATAATATTATTTATTAT
6630697 AAATAATATTATTTATTAT
1 AAATAATATTATTTATTAT
6630716 A
1 A
6630717 TTGAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AAATAATATTATTTATTAT
Found at i:6630917 original size:23 final size:24
Alignment explanation
Indices: 6630886--6630932 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6630876 AGAAACGAAC
*
6630886 CCTAGAACACTAACATCATTAAAA
1 CCTAGAACAATAACATCATTAAAA
* *
6630910 CCTA-AACAATAACTTCTTTAAAA
1 CCTAGAACAATAACATCATTAAAA
6630933 GGGATTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (24 bp):
CCTAGAACAATAACATCATTAAAA
Found at i:6635586 original size:29 final size:28
Alignment explanation
Indices: 6635552--6635623 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
6635542 ATGACCCGAT
* *
6635552 TTTTTTTAATATATATTATCAAAGGTTTAA
1 TTTTTTCAATAT-TATTAT-AAAGGCTTAA
* *
6635582 TTTTTTCACTACTTATTATTAAGGCTTAA
1 TTTTTTCAATA-TTATTATAAAGGCTTAA
6635611 TTTTTTCAATATT
1 TTTTTTCAATATT
6635624 TGTTATAGGG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.06
29 18 0.50
30 15 0.42
31 1 0.03
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (28 bp):
TTTTTTCAATATTATTATAAAGGCTTAA
Found at i:6635754 original size:106 final size:107
Alignment explanation
Indices: 6635611--6635873 Score: 388
Period size: 112 Copynumber: 2.4 Consensus size: 107
6635601 TAAGGCTTAA
*
6635611 TTTTTTCAATATTTGTTA-TAGGGGTATACTTTTAAAATTTAATTTCTTTTCTAATATTTATTTG
1 TTTTTTCAATATTTGTTATTAGGGGTATACTTTTAAAATTTAATTTATTTTCTAATATTTATTTG
6635675 TTATTACGAG-A-TTTCAATACTTTTTTATTAGATGTGCAATC
66 TTATTACGAGTATTTTCAATAC-TTTTTATTAGATGTGCAATC
6635716 TTTTTTCAATATTTGTTATTAGGGGTATACTTTTAAAATTTAATTTATTTTCTAATATTTATTTG
1 TTTTTTCAATATTTGTTATTAGGGGTATACTTTTAAAATTTAATTTATTTTCTAATATTTATTTG
6635781 TTATTACGAGTCTATTTTTTTCAATACTTTTTATTAGATGTGCAATC
66 TTATTACGAG--TA---TTTTCAATACTTTTTATTAGATGTGCAATC
* * ** * *
6635828 TTTTTTCAATATTTGTTTTTATGAATATACTCTTAAATTTTAATTT
1 TTTTTTCAATATTTGTTATTAGGGGTATACTTTTAAAATTTAATTT
6635874 TTTAATATTT
Statistics
Matches: 143, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
105 18 0.13
106 55 0.38
109 1 0.01
112 60 0.42
113 9 0.06
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.56
Consensus pattern (107 bp):
TTTTTTCAATATTTGTTATTAGGGGTATACTTTTAAAATTTAATTTATTTTCTAATATTTATTTG
TTATTACGAGTATTTTCAATACTTTTTATTAGATGTGCAATC
Found at i:6636261 original size:2 final size:2
Alignment explanation
Indices: 6636254--6636297 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
6636244 ATCTTTTGTT
6636254 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
6636296 TA
1 TA
6636298 ATACAAAAGA
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:6645349 original size:57 final size:57
Alignment explanation
Indices: 6645146--6645367 Score: 172
Period size: 57 Copynumber: 4.0 Consensus size: 57
6645136 TACGTGATAT
* ** * * *
6645146 TTTCAAAAGA-TTTTTAAAGAAGTTAAGCCTGATTTTCAGGGGTTTCTTGATGATGA
1 TTTCCAAAGATTTTTTAAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGATTA
* * * * * * *
6645202 TTTTCAATGAATTTTTAAAAGAAACTAAGCCCAATTTT-TAGGGCTCTCTTGA--ACT-
1 TTTCCAAAG-ATTTTTTAAAGAAACTAAGCCTAATTTTCAAGGG-TTTCTTGATGATTA
* * *
6645257 TTT-CAATTAAAGTTTTT--AGAAACTAAGCCTGATTTTCAAGGGTTTCTTGATGATTA
1 TTTCCAA--AGATTTTTTAAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGATTA
* * * *
6645313 TTTCCAAAGATTTTTTTAAGAAGCTAAGCCTAATTTTTAGGGGTTTCTTGATGAT
1 TTTCCAAAGATTTTTTAAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGAT
6645368 AACAGAAAAT
Statistics
Matches: 126, Mismatches: 28, Indels: 23
0.71 0.16 0.13
Matches are distributed among these distances:
53 24 0.19
54 7 0.06
55 17 0.13
56 10 0.08
57 40 0.32
58 28 0.22
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (57 bp):
TTTCCAAAGATTTTTTAAAGAAACTAAGCCTAATTTTCAAGGGTTTCTTGATGATTA
Found at i:6645949 original size:40 final size:39
Alignment explanation
Indices: 6645846--6646020 Score: 226
Period size: 39 Copynumber: 4.5 Consensus size: 39
6645836 AGGGATCAAC
* * * *
6645846 ATCTCACTTGAGATAGTTTCACTCGAAATAGTAGATTGT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
6645885 ATCTCGCTTGAGATGGTTTCACTCGAAACAGAAGATTTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGA-TTTT
* * *
6645925 ATCTTGCTTGAGATAGTTTTACTCGAAATAGAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
*
6645964 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA-TTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
** *
6646002 ATCTTACTTGAGATTGTTT
1 ATCTCGCTTGAGATAGTTT
6646021 TTCTTAAGAC
Statistics
Matches: 119, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
38 19 0.16
39 66 0.55
40 34 0.29
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (39 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTTT
Found at i:6645983 original size:79 final size:77
Alignment explanation
Indices: 6645846--6646021 Score: 262
Period size: 79 Copynumber: 2.3 Consensus size: 77
6645836 AGGGATCAAC
* * * *
6645846 ATCTCACTTGAGATAGTTTCACTCGAAATAGTAGATTGTATCTCGCTTGAGATGGTTTCACTCGA
1 ATCTTACTTGAGATAGTTTTACTCGAAATAGAAGATTGTATCTCGCTTGAGATAGTTTCACTCGA
*
6645911 AACAGAAGATTTTT
66 AACAAAAGA--TTT
* *
6645925 ATCTTGCTTGAGATAGTTTTACTCGAAATAGAAGATTTTATCTCGCTTGAGATAGTTTCACTCGA
1 ATCTTACTTGAGATAGTTTTACTCGAAATAGAAGATTGTATCTCGCTTGAGATAGTTTCACTCGA
6645990 AACAAAAGATTT
66 AACAAAAGATTT
*
6646002 ATCTTACTTGAGATTGTTTT
1 ATCTTACTTGAGATAGTTTT
6646022 TCTTAAGACA
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
77 21 0.24
79 67 0.76
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.38
Consensus pattern (77 bp):
ATCTTACTTGAGATAGTTTTACTCGAAATAGAAGATTGTATCTCGCTTGAGATAGTTTCACTCGA
AACAAAAGATTT
Found at i:6647507 original size:21 final size:22
Alignment explanation
Indices: 6647483--6647526 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
6647473 TTAAATTTTA
6647483 ATTTATTT-TAATTTAGCCACT
1 ATTTATTTCTAATTTAGCCACT
* *
6647504 ATTTATTTCTGATTTAGCTACT
1 ATTTATTTCTAATTTAGCCACT
6647526 A
1 A
6647527 ACTTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (22 bp):
ATTTATTTCTAATTTAGCCACT
Found at i:6647676 original size:23 final size:22
Alignment explanation
Indices: 6647649--6647693 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
6647639 GTCCTTATGC
*
6647649 ATGTTTATTTTATTTTTATATTT
1 ATGTTTATTTTA-CTTTATATTT
6647672 ATGTTTATTTTACTTTATATTT
1 ATGTTTATTTTACTTTATATTT
6647694 TTATTATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (22 bp):
ATGTTTATTTTACTTTATATTT
Found at i:6651813 original size:59 final size:59
Alignment explanation
Indices: 6651407--6651805 Score: 629
Period size: 59 Copynumber: 6.8 Consensus size: 59
6651397 TTTCTCATAT
* * * *
6651407 GGAAATTCATACAGTTAGTATGGATTTCTTATCATTTTAGCACAC-AAGGTGCCCAATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCCTATAC
* * *
6651466 GAAAATTCATACACTTAGTATGAATTTCCTAACATTTTAGCACACAAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
6651525 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
* *
6651584 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCAAAAGAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
** * *
6651643 AAAAATTCATACAATTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
* * *
6651702 GGAAATCCATACCCTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCTATAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
*
6651761 GGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1 GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
6651806 TTAGTGCCAT
Statistics
Matches: 314, Mismatches: 25, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
59 312 0.99
60 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.32
Consensus pattern (59 bp):
GGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCTATAC
Found at i:6652164 original size:20 final size:21
Alignment explanation
Indices: 6652139--6652188 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
6652129 GTTCTTCAGA
*
6652139 ATCGATACT-CTTACCATGGT
1 ATCGATACTACATACCATGGT
*
6652159 ATCGATACTACCATACTATGGT
1 ATCGATACTA-CATACCATGGT
6652181 ATCGATAC
1 ATCGATAC
6652189 CCCATTCGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 9 0.35
22 17 0.65
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (21 bp):
ATCGATACTACATACCATGGT
Found at i:6652283 original size:95 final size:95
Alignment explanation
Indices: 6652142--6652358 Score: 285
Period size: 95 Copynumber: 2.3 Consensus size: 95
6652132 CTTCAGAATC
* *
6652142 GATACTCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCATTCGGGT-ATCGAT
1 GATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCATTCGAGTAAT-GAT
* * * *
6652206 ACCAAAATTATATTCGTTGTGGCCTGATATT
65 ACCAAAATTAGATTCGATGTGACATGATATT
* * *
6652237 GATACCCTTACCATGGTATCGATACTACTATACTATGGTA-CTGATACCCCCTTCTAGTAATGAT
1 GATACCCTTACCATGGTATCGATACTACCATACTATGGTATC-GATACCCCATTCGAGTAATGAT
* * * *
6652301 ACCAATATTGGGTTCGATGTTACATGATATT
65 ACCAAAATTAGATTCGATGTGACATGATATT
6652332 GATACCCTTACCATGGTATCGATACTA
1 GATACCCTTACCATGGTATCGATACTA
6652359 TCTCGTCGGT
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
94 1 0.01
95 104 0.97
96 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (95 bp):
GATACCCTTACCATGGTATCGATACTACCATACTATGGTATCGATACCCCATTCGAGTAATGATA
CCAAAATTAGATTCGATGTGACATGATATT
Found at i:6658628 original size:21 final size:23
Alignment explanation
Indices: 6658559--6658640 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 23
6658549 TTAGTGCAGA
* * *
6658559 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAT
6658581 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAT
*
6658604 GGGAACCGATTCCCTCTTTG-A-
1 GGGAACCGATTCCCCCTTTGAAT
* *
6658625 GGGAATCGATACCCCC
1 GGGAACCGATTCCCCC
6658641 ACGGGTTCTG
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
21 13 0.25
22 15 0.29
23 24 0.46
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.22
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAT
Found at i:6664541 original size:75 final size:74
Alignment explanation
Indices: 6664380--6664518 Score: 183
Period size: 74 Copynumber: 1.9 Consensus size: 74
6664370 CCATAGTACA
* *
6664380 AGTATCGATACCAGTAAACATCGAATCTAATTTTGGTATCGATACCTAAGGGGGTATCAATACCA
1 AGTATCGATACCAGCAAACATCGAAGCTAATTTTGGTATCGATACCTAAGGGGGTATCAATACCA
6664445 TATCATAGT
66 TATCATAGT
* * * *
6664454 GGTATCGATACCA-CACTACATCGAAGCTAATTTTGGTATTGATA-CTGGAAGGGGGTATCGATA
1 AGTATCGATACCAGCA-AACATCGAAGCTAATTTTGGTATCGATACCT--AAGGGGGTATCAATA
6664517 CC
63 CC
6664519 TTGGTAAGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
73 3 0.05
74 37 0.66
75 16 0.29
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (74 bp):
AGTATCGATACCAGCAAACATCGAAGCTAATTTTGGTATCGATACCTAAGGGGGTATCAATACCA
TATCATAGT
Found at i:6664555 original size:20 final size:21
Alignment explanation
Indices: 6664505--6664559 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
6664495 ATACTGGAAG
*
6664505 GGGGTATCGATACCTTGGTAA
1 GGGGTATCGATACCATGGTAA
*
6664526 GGTAGTATCGATACCATGGT-A
1 GG-GGTATCGATACCATGGTAA
6664547 GGGGTATCGATAC
1 GGGGTATCGATAC
6664560 TGAAAGGCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 10 0.33
21 5 0.17
22 15 0.50
ACGTcount: A:0.25, C:0.15, G:0.33, T:0.27
Consensus pattern (21 bp):
GGGGTATCGATACCATGGTAA
Found at i:6665072 original size:79 final size:79
Alignment explanation
Indices: 6664934--6665373 Score: 656
Period size: 79 Copynumber: 5.6 Consensus size: 79
6664924 AAACTAATGA
* * **
6664934 ATAAAAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTATATGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
*
6664999 GGTACATTATCGGC
66 GGTACATTATCGAC
* * *
6665013 ATAACAAAATAATGCATATGGGTGCATTAGTAGCATGAAATGATGCCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
* *
6665078 GGTACATTATTGGC
66 GGTACATTATCGAC
*
6665092 ATAACAGAATAATGTATATGGGTGCATTAGTGGCATGAAAGGATGCC-T---TGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
6665153 GGTACATTATCGAC
66 GGTACATTATCGAC
* * * *
6665167 ATAACAAAATAATGCATATAGGTGCATTAGTGACATGAAAGGATGACTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
*
6665232 GGTACATTATCGTC
66 GGTACATTATCGAC
* *
6665246 ATAACAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATAGGTATATG
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
6665311 GGTACATTATCGAC
66 GGTACATTATCGAC
* * *
6665325 ATAACAGAATAATGCATAT-GGTGCATTACTGGCATGGAAGCATGCCTTA
1 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTA
6665374 TGGGTACATT
Statistics
Matches: 329, Mismatches: 28, Indels: 9
0.90 0.08 0.02
Matches are distributed among these distances:
75 67 0.20
76 1 0.00
78 28 0.09
79 233 0.71
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (79 bp):
ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
GGTACATTATCGAC
Found at i:6665418 original size:34 final size:34
Alignment explanation
Indices: 6665306--6665425 Score: 113
Period size: 34 Copynumber: 3.6 Consensus size: 34
6665296 GCTGATAGGT
* *
6665306 ATATGGGTACATTATCGACATAACAGAATAATGC
1 ATATGGGTACATTATTGGCATAACAGAATAATGC
* * * **
6665340 ATAT-GGTGCATTACTGGCAT---GGAAGCATGCC
1 ATATGGGTACATTATTGGCATAACAGAATAATG-C
*
6665371 TTATGGGTACATTATTGGCATAACAGAATAATGC
1 ATATGGGTACATTATTGGCATAACAGAATAATGC
* *
6665405 ATATGGGTGCATTAGTGGCAT
1 ATATGGGTACATTATTGGCAT
6665426 GAAAGGATGC
Statistics
Matches: 65, Mismatches: 16, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
30 6 0.09
31 4 0.06
32 14 0.22
33 12 0.18
34 23 0.35
35 6 0.09
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (34 bp):
ATATGGGTACATTATTGGCATAACAGAATAATGC
Found at i:6665482 original size:223 final size:223
Alignment explanation
Indices: 6664934--6665597 Score: 979
Period size: 223 Copynumber: 2.9 Consensus size: 223
6664924 AAACTAATGA
* **
6664934 ATAAAAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTATATGATATGTATATG
1 ATAACAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
* * * *
6664999 GGTACATTATCGGCATAACAAAATAATGCATATGGGTGCATTAGTAGCATGAAATGATGCCTTAG
66 GGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAG
* *
6665064 CTGATATGTATATGGGTACATTATTGGCATAACAGAATAATGTATATGGGTGCATTAGTGGCATG
131 CTGATATGTATATGGGTACATTATCGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATG
6665129 AAAGGATGCCTTGATATGTATATGGGTACATTATCGAC
196 AAA-GATGCC--------T-TATGGGTACATTATCGAC
* * *
6665167 ATAACAAAATAATGCATATAGGTGCATTAGTGACATGAAAGGATGACTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
* *
6665232 GGTACATTATCGTCATAACAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAG
66 GGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAG
* * *
6665297 CTGATAGGTATATGGGTACATTATCGACATAACAGAATAATGCATAT-GGTGCATTACTGGCATG
131 CTGATATGTATATGGGTACATTATCGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATG
* * *
6665361 GAAGCATGCCTTATGGGTACATTATTGGC
196 AAAG-ATGCCTTATGGGTACATTATCGAC
*
6665390 ATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
1 ATAACAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
* *
6665455 GGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGCCATGAAAGGGTGCCTTAG
66 GGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAG
* * *
6665520 CTGATATGTTTATGGGTACATTATCGGCATAACAAAATAATACATATGGGTGCATTAGTGGCATG
131 CTGATATGTATATGGGTACATTATCGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATG
6665585 AAATGATGCCTTA
196 AAA-GATGCCTTA
6665598 GCTGATATGT
Statistics
Matches: 394, Mismatches: 34, Indels: 15
0.89 0.08 0.03
Matches are distributed among these distances:
223 180 0.46
224 27 0.07
225 1 0.00
231 1 0.00
232 23 0.06
233 162 0.41
ACGTcount: A:0.34, C:0.12, G:0.24, T:0.30
Consensus pattern (223 bp):
ATAACAGAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATATGTATATG
GGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGGCATGAAAGGATGCCTTAG
CTGATATGTATATGGGTACATTATCGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATG
AAAGATGCCTTATGGGTACATTATCGAC
Found at i:6665506 original size:79 final size:79
Alignment explanation
Indices: 6665372--6665708 Score: 478
Period size: 79 Copynumber: 4.3 Consensus size: 79
6665362 AAGCATGCCT
* * *
6665372 TATGGGTACATTATTGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
1 TATGGGTACATTATCGACATAACAAAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
6665437 TTAGCTGATATGTA
66 TTAGCTGATATGTA
* * *
6665451 TATGGGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGCCATGAAAGGGTGCC
1 TATGGGTACATTATCGACATAACAAAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
*
6665516 TTAGCTGATATGTT
66 TTAGCTGATATGTA
* * *
6665530 TATGGGTACATTATCGGCATAACAAAATAATACATATGGGTGCATTAGTGGCATGAAATGATGCC
1 TATGGGTACATTATCGACATAACAAAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
6665595 TTAGCTGATATGTA
66 TTAGCTGATATGTA
* * * *
6665609 TATGGGTACATTATCGACATAACAGAATAATGCATATGGGTACATTATTGGCATGAAAGAATG-C
1 TATGGGTACATTATCGACATAACAAAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
** * * *
6665673 AAAGTTGAAATGCA
66 TTAGCTGATATGTA
* *
6665687 TATGGGTGCATTATCAACATAA
1 TATGGGTACATTATCGACATAA
6665709 AAGTATGCTA
Statistics
Matches: 230, Mismatches: 28, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
78 30 0.13
79 200 0.87
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (79 bp):
TATGGGTACATTATCGACATAACAAAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
TTAGCTGATATGTA
Found at i:6665536 original size:302 final size:299
Alignment explanation
Indices: 6665074--6665672 Score: 1020
Period size: 302 Copynumber: 2.0 Consensus size: 299
6665064 CTGATATGTA
*
6665074 TATGGGTACATTATTGGCATAACAGAATAATGTATATGGGTGCATTAGTGGCATGAAAGGATGCC
1 TATGGGTACATTATTGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
6665139 TTGATATGTATATGGGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGACATG
66 TTGATATGTATATGGGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGACATG
* * *
6665204 AAAGGATGACTTAGCTGATATGTATATGGGTACATTATCGTCATAACAGAATAATGCATATAGGT
131 AAAGGATGACTTAGCTGATATGTATATGGGTACATTATCGGCATAACAAAATAATACATATAGGT
6665269 GCATTAGTGGCATGAAAGGATGCCTTAGCTGATAGGTATATGGGTACATTATCGACATAACAGAA
196 GCATTAGTGGCATGAAAGGATGCCTTAGCTGATAGGTATATGGGTACATTATCGACATAACAGAA
* * *
6665334 TAATGCATAT-GGTGCATTACTGGCATGGAAGCATGCCT
261 TAATGCATATGGGTACATTACTGGCATGAAAGAATGCCT
6665372 TATGGGTACATTATTGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
1 TATGGGTACATTATTGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
*
6665437 TTAGCTGATATGTATATGGGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGC
66 -T---TGATATGTATATGGGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGA
* * *
6665502 CATGAAAGGGTGCCTTAGCTGATATGTTTATGGGTACATTATCGGCATAACAAAATAATACATAT
127 CATGAAAGGATGACTTAGCTGATATGTATATGGGTACATTATCGGCATAACAAAATAATACATAT
* * *
6665567 GGGTGCATTAGTGGCATGAAATGATGCCTTAGCTGATATGTATATGGGTACATTATCGACATAAC
192 AGGTGCATTAGTGGCATGAAAGGATGCCTTAGCTGATAGGTATATGGGTACATTATCGACATAAC
*
6665632 AGAATAATGCATATGGGTACATTATTGGCATGAAAGAATGC
257 AGAATAATGCATATGGGTACATTACTGGCATGAAAGAATGC
6665673 AAAGTTGAAA
Statistics
Matches: 281, Mismatches: 15, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
298 64 0.23
299 1 0.00
302 194 0.69
303 22 0.08
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (299 bp):
TATGGGTACATTATTGGCATAACAGAATAATGCATATGGGTGCATTAGTGGCATGAAAGGATGCC
TTGATATGTATATGGGTACATTATCGACATAACAAAATAATGCATATAGGTGCATTAGTGACATG
AAAGGATGACTTAGCTGATATGTATATGGGTACATTATCGGCATAACAAAATAATACATATAGGT
GCATTAGTGGCATGAAAGGATGCCTTAGCTGATAGGTATATGGGTACATTATCGACATAACAGAA
TAATGCATATGGGTACATTACTGGCATGAAAGAATGCCT
Found at i:6670213 original size:59 final size:59
Alignment explanation
Indices: 6669803--6670205 Score: 603
Period size: 59 Copynumber: 6.8 Consensus size: 59
6669793 TATATTTTCC
* *** *
6669803 ATACGGAAATTCATACACTTAATATGAATTTCTCGTCATTTTAGCACAC-AAGGTGCCCA
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAA-GTGCCCT
* * *
6669862 ATAAC-GAAATTCATACACTTAGTACGAATTTCCTAACATTTTAGCACACGTAGTGCCCT
1 AT-ACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* *
6669921 ATATGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACAAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* * * * *
6669980 ATACAGAAATTCAAACACTTAGTATGAATTTCCTAACATTTTAGCACACAAAATGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
*
6670039 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTTCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
* *
6670098 ATACGAAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
*
6670157 ATACGGAAATCCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
1 ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACAC
6670206 TTAGTGCCAT
Statistics
Matches: 313, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 1 0.00
59 309 0.99
60 3 0.01
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (59 bp):
ATACGGAAATTCATACACTTAGTATGAATTTCTTAACATTTTAGCACACGAAGTGCCCT
Found at i:6670655 original size:20 final size:21
Alignment explanation
Indices: 6670630--6670684 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
6670620 CAATGTTGCT
6670630 TGGTATCGATACCCT-TA-TCA
1 TGGTATCGATACCCTATACT-A
*
6670650 TGGTATCGATACTACTATACTA
1 TGGTATCGATAC-CCTATACTA
6670672 TGGTATCGATACC
1 TGGTATCGATACC
6670685 AAAATTAGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 12 0.40
21 2 0.07
22 15 0.50
23 1 0.03
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (21 bp):
TGGTATCGATACCCTATACTA
Found at i:6670689 original size:76 final size:76
Alignment explanation
Indices: 6670597--6670740 Score: 225
Period size: 76 Copynumber: 1.9 Consensus size: 76
6670587 TCCCCCTTCC
* * * * *
6670597 GGTATCGATACCAAAATTAGATTCAATGTTGCTTGGTATCGATACCCTTATCATGGTATCGATAC
1 GGTATCGATACCAAAATTAGATTCAATGTTACCTGGTATCGATACACTTACCATGGTATCAATAC
6670662 TACTATACTAT
66 TACTATACTAT
* *
6670673 GGTATCGATACCAAAATTAGGTTCGATGTTACCTGGTATCGATACACTTACCATGGTATCAATAC
1 GGTATCGATACCAAAATTAGATTCAATGTTACCTGGTATCGATACACTTACCATGGTATCAATAC
6670738 TAC
66 TAC
6670741 CTCGTCGGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
76 61 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (76 bp):
GGTATCGATACCAAAATTAGATTCAATGTTACCTGGTATCGATACACTTACCATGGTATCAATAC
TACTATACTAT
Found at i:6674095 original size:335 final size:335
Alignment explanation
Indices: 6673485--6674159 Score: 1251
Period size: 335 Copynumber: 2.0 Consensus size: 335
6673475 AGGACGAATC
* *
6673485 CTTTTGAGGACTGGGGGAATGATACATGCATCGGAGTCTATAATTATAATACATGCTTCTTTGGA
1 CTTTTGAGGACTGGGGGAATGATACATGCACCGGAGTCCATAATTATAATACATGCTTCTTTGGA
*
6673550 CTAATGTTTCTACTCGAACCTATTAGAAGAACAAAGTCTCAAGGATTCAAAGCATATCTATTCGG
66 CTAATGTTTCTACTCGAACCTATTAGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGG
6673615 TAAGCATAATGTGAATGAATCATTAAACGATTCTAATGTTGCTCCCTTTAATGTTTCAGATTTGA
131 TAAGCATAATGTGAATGAATCATTAAACGATTCTAATGTTGCTCCCTTTAATGTTTCAGATTTGA
*
6673680 GGTCAATTTTTTTTGAAGAAAGGGAGGATGATACATGTATCACAAGGCTCACATAAAAGGAATAA
196 GGTCAAATTTTTTTGAAGAAAGGGAGGATGATACATGTATCACAAGGCTCACATAAAAGGAATAA
* *
6673745 GTAATAACTCTTCCAAATGATCCACTCGTCTAAGCCTTGGAAGAGAAGATCAGAACAGAAGCAGA
261 GTAATAACTCTTCCAAATGACCCACTCGTCTAAGCATTGGAAGAGAAGATCAGAACAGAAGCAGA
6673810 CTTGAAATGA
326 CTTGAAATGA
*
6673820 CTTTTGAGGAGTGGGGGAATGATACATGCACCGGAGTCCATAATTATAATACATGCTTCTTTGGA
1 CTTTTGAGGACTGGGGGAATGATACATGCACCGGAGTCCATAATTATAATACATGCTTCTTTGGA
6673885 CTAATGTTTCTACTCGAACCTATTAGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGG
66 CTAATGTTTCTACTCGAACCTATTAGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGG
*
6673950 TAAGCATAATGTGAATGAATCATTATACGATTCTAATGTTGCTCCCTTTAATGTTTCAGATTTGA
131 TAAGCATAATGTGAATGAATCATTAAACGATTCTAATGTTGCTCCCTTTAATGTTTCAGATTTGA
* *
6674015 GGTTAAATTTTTTTGAAGAAAGGGAGGATGATACATGTATCACAAGGCTCACATCAAAGGAATAA
196 GGTCAAATTTTTTTGAAGAAAGGGAGGATGATACATGTATCACAAGGCTCACATAAAAGGAATAA
*
6674080 GTAATAACTCTTCCAAATGACCCACTCGTCTGAGCATTGGAAGAGAAGATCAGAACAGAAGCAGA
261 GTAATAACTCTTCCAAATGACCCACTCGTCTAAGCATTGGAAGAGAAGATCAGAACAGAAGCAGA
6674145 CTTGAAATGA
326 CTTGAAATGA
6674155 CTTTT
1 CTTTT
6674160 TGAATGGGAT
Statistics
Matches: 329, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
335 329 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (335 bp):
CTTTTGAGGACTGGGGGAATGATACATGCACCGGAGTCCATAATTATAATACATGCTTCTTTGGA
CTAATGTTTCTACTCGAACCTATTAGAAGAACAAAGTCTCAAAGATTCAAAGCATATCTATTCGG
TAAGCATAATGTGAATGAATCATTAAACGATTCTAATGTTGCTCCCTTTAATGTTTCAGATTTGA
GGTCAAATTTTTTTGAAGAAAGGGAGGATGATACATGTATCACAAGGCTCACATAAAAGGAATAA
GTAATAACTCTTCCAAATGACCCACTCGTCTAAGCATTGGAAGAGAAGATCAGAACAGAAGCAGA
CTTGAAATGA
Found at i:6677356 original size:23 final size:23
Alignment explanation
Indices: 6677329--6677394 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
6677319 CCAAAAAGGA
6677329 AGAGA-AAAGCGTGCCACAAAAGC
1 AGAGATAAA-CGTGCCACAAAAGC
* *
6677352 AGAGATAAACGTGCCATAAAGGC
1 AGAGATAAACGTGCCACAAAAGC
* *
6677375 AGAGATAAACATGTCACAAA
1 AGAGATAAACGTGCCACAAA
6677395 GACATAATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 34 0.92
24 3 0.08
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (23 bp):
AGAGATAAACGTGCCACAAAAGC
Found at i:6684108 original size:28 final size:28
Alignment explanation
Indices: 6684068--6684121 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
6684058 CGCGAGAAGC
*
6684068 TAACCTGAAACACATTACCTCCCCAAAT
1 TAACCTAAAACACATTACCTCCCCAAAT
*
6684096 TAACCTAAAACACATTACCTTCCCAA
1 TAACCTAAAACACATTACCTCCCCAA
6684122 GTCAGCCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.41, C:0.35, G:0.02, T:0.22
Consensus pattern (28 bp):
TAACCTAAAACACATTACCTCCCCAAAT
Found at i:6684130 original size:28 final size:28
Alignment explanation
Indices: 6684069--6684131 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6684059 GCGAGAAGCT
* *
6684069 AACCTGAAACACATTACCTCCCCAAATT
1 AACCTAAAACACATTACCTCCCCAAATC
* *
6684097 AACCTAAAACACATTACCTTCCCAAGTC
1 AACCTAAAACACATTACCTCCCCAAATC
*
6684125 AGCCTAA
1 AACCTAA
6684132 GCCTGATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.35, G:0.05, T:0.21
Consensus pattern (28 bp):
AACCTAAAACACATTACCTCCCCAAATC
Found at i:6684810 original size:17 final size:17
Alignment explanation
Indices: 6684788--6684821 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
6684778 GAATCAAACA
6684788 GACATGATGAGTGAGCC
1 GACATGATGAGTGAGCC
6684805 GACATGATGAGTGAGCC
1 GACATGATGAGTGAGCC
6684822 TGGCCGATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.18
Consensus pattern (17 bp):
GACATGATGAGTGAGCC
Found at i:6686079 original size:41 final size:41
Alignment explanation
Indices: 6685976--6686079 Score: 113
Period size: 41 Copynumber: 2.5 Consensus size: 41
6685966 TTTCTTTATG
* *
6685976 AGTCCTTCGGGCCAT-CAGTAAGTCTTTCGAGCATGATGCTTA
1 AGTCCTTCGGG-CATCCA-TAAGTCTTTCGAGCAAGATGCATA
* * * *
6686018 AATCCTCCGGTCATCTATAAGTCTTTCGAGCAAGATG-ATA
1 AGTCCTTCGGGCATCCATAAGTCTTTCGAGCAAGATGCATA
6686058 AGTCCTTCGGGCAATCCATAAG
1 AGTCCTTCGGGC-ATCCATAAG
6686080 ACCTTCAGAA
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
40 11 0.22
41 30 0.60
42 9 0.18
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (41 bp):
AGTCCTTCGGGCATCCATAAGTCTTTCGAGCAAGATGCATA
Found at i:6686443 original size:277 final size:275
Alignment explanation
Indices: 6685662--6686488 Score: 1182
Period size: 272 Copynumber: 3.0 Consensus size: 275
6685652 CGAAAGATTT
* *
6685662 TAAGAAACTAAGCTTTATTTTCAAAGGG-TTCTTGATAAGTAAGTCCTTTGGGCCATCAGTAAGT
1 TAAGAAACTAAGCTTTATTTTC-AAGGGTTTCTTTAT-AGTAAGTCCTTCGGGCCATCAGTAAGT
* * *
6685726 CTTTCGAGCATGATGCTTAAATCTTTCATGTCATCTATATGTCTTTCGAGCAAGATGATAAGTCC
64 CTTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCC
* * *
6685791 TTCAAG-ATATCCATAAGACCTTCAGGTAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGTCTG
129 TTCAGGCA-ATCCATAAGACCTTCAGGAAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTG
* * ***
6685855 ATTTTCAGGGGTTTCTTGATGATTATATCCAAAAAAAAATTAAAGGAAGCTAAGCCTAATTTTTA
193 ATTTTCA-GGGTTTCATGATGATTATATCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTA
*
6685920 AGGGTTTCTTGATGACAAC
257 GGGGTTTCTTGATGACAAC
6685939 TAAGAAACTAAGCTTTATTTTCAAGGGTTTCTTTAT-G--AGTCCTTCGGGCCATCAGTAAGTCT
1 TAAGAAACTAAGCTTTATTTTCAAGGGTTTCTTTATAGTAAGTCCTTCGGGCCATCAGTAAGTCT
*
6686001 TTCGAGCATGATGCTTAAATCC-TCCGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTT
66 TTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTT
* * * * * * *
6686065 CGGGCAATCCATAAGACCTTCAGAAAGGATGTTCTCAAACGAGTTTTCAGAAACTAAACCTTATT
131 CAGGCAATCCATAAGACCTTCAGGAAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATT
* *
6686130 TTCAGGAGTTT-ATTGACGATTATCTCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGG
196 TTCAGG-GTTTCA-TGATGATTATATCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGG
*
6686194 GGTTTATTGATGACAAC
259 GGTTTCTTGATGACAAC
* * *
6686211 TAAGAAACTAAGCTTGATTTTCAAGGGTTTCTTTATGAGTAAGTCATTCGGGCCATCAGTAAGAC
1 TAAGAAACTAAGCTTTATTTTCAAGGGTTTCTTTAT-AGTAAGTCCTTCGGGCCATCAGTAAGTC
* **
6686276 TTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTCCGAGCAAGATGATAAGTTAT
65 TTTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCT
* * * *
6686341 TCAGGCCATCCATAAGACCTTCGGGCAGGATGTTTTCAAATGAGTTTTTAGAAAATAAGCCTGAT
130 TCAGGCAATCCATAAGACCTTCAGGAAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGAT
* * *
6686406 TTTCATGGGTTTCATGATGATTATTTCCAAGGAATTTTTAAAGGAAGCTTAGCCTAATTTTTAGG
195 TTTCA-GGGTTTCATGATGATTATATCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGG
*
6686471 GGTTCCTTGATGACAAC
259 GGTTTCTTGATGACAAC
6686488 T
1 T
6686489 GAAAAAGAAA
Statistics
Matches: 490, Mismatches: 49, Indels: 22
0.87 0.09 0.04
Matches are distributed among these distances:
271 2 0.00
272 195 0.40
273 46 0.09
274 1 0.00
275 1 0.00
276 50 0.10
277 192 0.39
278 3 0.01
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (275 bp):
TAAGAAACTAAGCTTTATTTTCAAGGGTTTCTTTATAGTAAGTCCTTCGGGCCATCAGTAAGTCT
TTCGAGCATGATGCTTAAATCCTTCAGGTCATCTATAAGTCTTTCGAGCAAGATGATAAGTCCTT
CAGGCAATCCATAAGACCTTCAGGAAGGATGTTTTCAAATGAGTTTTTAGAAACTAAGCCTGATT
TTCAGGGTTTCATGATGATTATATCCAAAGAATTTTTAAAGGAAGCTAAGCCTAATTTTTAGGGG
TTTCTTGATGACAAC
Found at i:6687234 original size:91 final size:90
Alignment explanation
Indices: 6687118--6687564 Score: 623
Period size: 91 Copynumber: 4.9 Consensus size: 90
6687108 GAGGGATTGC
** * *
6687118 CATTTCCAGTGAAGAATTCATAATGAGAATAACTCATCCAACGAGGGAGAAAAGGTTCATAATGA
1 CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAA-GTTCATAATGA
*
6687183 GAAGAA-TGTGTTTAACCTTGGATCAA
65 GAAGAACT-TGTTCAACCTTGGATCAA
* *
6687209 CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAATGAGGGAAAAAAAGTTCATAATGA
1 CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGG-AGAAAAGTTCATAATGA
6687274 GAAGAACTTGTTCAACCTTGGATCAA
65 GAAGAACTTGTTCAACCTTGGATCAA
*
6687300 CATTTCCAGTGGGGAGTTCGA-AATGAGAATAACTCATCCAACGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAGTGGGGAGTTC-ATAATGAGAAGAACTCATCCAACGAGGGAGAA-AAGTTCATAATG
* *
6687364 AGGAGAACTTGTTGAACCTTGGATCAA
64 AGAAGAACTTGTTCAACCTTGGATCAA
*
6687391 CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGA-CGAGAAGAAGTTCATAATGA
1 CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAA-AAGTTCATAATGA
* *
6687455 GAAAAACTTGTTCAACCTTGGCTCAA
65 GAAGAACTTGTTCAACCTTGGATCAA
* * * * * *
6687481 TATTTTCAGTGGAGAGTTCATAATGAGAAGAACTTA-CCTGATGAGGGAGAAAAAGTTCATAATG
1 CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCC-AACGAGGGAG-AAAAGTTCATAATG
6687545 AGAAGAACTTGTTCAACCTT
64 AGAAGAACTTGTTCAACCTT
6687565 AACTCGATTC
Statistics
Matches: 322, Mismatches: 26, Indels: 16
0.88 0.07 0.04
Matches are distributed among these distances:
89 2 0.01
90 80 0.25
91 231 0.72
92 9 0.03
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (90 bp):
CATTTCCAGTGGGGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAAAGTTCATAATGAG
AAGAACTTGTTCAACCTTGGATCAA
Found at i:6687752 original size:138 final size:137
Alignment explanation
Indices: 6687482--6687831 Score: 457
Period size: 138 Copynumber: 2.6 Consensus size: 137
6687472 TTGGCTCAAT
* *
6687482 ATTTTCAGTGGAGAGTTCATAATGAGAAGAACTTA-CCTGATGAGGGAGAAAAAGTTCATAATGA
1 ATTTCCAGTGGAGAGTT-AT-ATGAGAAGAACTAATCC-GATGAGGGAGAAAAAGTTCATAATGA
* * *
6687546 GAAGAACTTGTTCAACCTTAACTCGATTCATCGCATATGGAGTTGAATCAGCAACACCTCAGTTG
63 GAAGAACTTGTTCAACCTTAACTCGATTCATCGCATATGGAGTTAAATCAGAAACACATCAGTTG
6687611 AGGGATAAAC
128 AGGGATAAAC
*
6687621 ATTTCCAGTGGAGAGTTTATATGAGAAGAACAAATCCGATGAGGGAGAAAAAGTTCATAATGAGA
1 ATTTCCAGTGGAGAG-TTATATGAGAAGAACTAATCCGATGAGGGAGAAAAAGTTCATAATGAGA
* * * *
6687686 AGAAATTGTTTAACCTTAGCTCGATTCATTGCATATGGAGTTAAATCAGAAACACATCA-TTCGA
65 AGAACTTGTTCAACCTTAACTCGATTCATCGCATATGGAGTTAAATCAGAAACACATCAGTT-GA
*
6687750 GGGATCAAC
129 GGGATAAAC
* * * *
6687759 ATTTCTAGT---G-G--A-ATGAGAATAACTCATCCGATGAGGGAGAAGAAGTTCATAATGAGAA
1 ATTTCCAGTGGAGAGTTATATGAGAAGAACTAATCCGATGAGGGAGAAAAAGTTCATAATGAGAA
6687817 GAACTTGTTCAACCT
66 GAACTTGTTCAACCT
6687832 CAATAGTTGC
Statistics
Matches: 190, Mismatches: 18, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
130 55 0.29
131 1 0.01
134 1 0.01
135 1 0.01
137 2 0.01
138 110 0.58
139 18 0.09
140 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (137 bp):
ATTTCCAGTGGAGAGTTATATGAGAAGAACTAATCCGATGAGGGAGAAAAAGTTCATAATGAGAA
GAACTTGTTCAACCTTAACTCGATTCATCGCATATGGAGTTAAATCAGAAACACATCAGTTGAGG
GATAAAC
Found at i:6689499 original size:7 final size:7
Alignment explanation
Indices: 6689487--6689539 Score: 54
Period size: 7 Copynumber: 7.6 Consensus size: 7
6689477 TTTATGTTTA
6689487 TTTTATT
1 TTTTATT
6689494 TTTTATT
1 TTTTATT
* *
6689501 TTGTGTT
1 TTTTATT
*
6689508 TTTT-TG
1 TTTTATT
6689514 TTTTACTT
1 TTTTA-TT
*
6689522 ATTTATT
1 TTTTATT
6689529 TTTTATT
1 TTTTATT
6689536 TTTT
1 TTTT
6689540 TAATTAAGTT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
6 5 0.14
7 27 0.73
8 5 0.14
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (7 bp):
TTTTATT
Found at i:6689508 original size:23 final size:23
Alignment explanation
Indices: 6689472--6689541 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 23
6689462 AATTAGGTCC
6689472 TTATATTTATGTTTATTTTATTTT
1 TTATATTTATGTTT-TTTTATTTT
* *
6689496 TTAT-TTTGTGTTTTTTTGTTTT
1 TTATATTTATGTTTTTTTATTTT
* *
6689518 ACT-TATTTAT-TTTTTAT-TTTT
1 -TTATATTTATGTTTTTTTATTTT
6689539 TTA
1 TTA
6689542 ATTAAGTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
20 1 0.03
21 4 0.11
22 15 0.41
23 13 0.35
24 4 0.11
ACGTcount: A:0.16, C:0.01, G:0.06, T:0.77
Consensus pattern (23 bp):
TTATATTTATGTTTTTTTATTTT
Found at i:6689537 original size:28 final size:27
Alignment explanation
Indices: 6689487--6689540 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
6689477 TTTATGTTTA
* *
6689487 TTTTATTTTTTATTTTGTGTTTTTTTG
1 TTTTATTATTTATTTTGTATTTTTTTG
*
6689514 TTTTACTTATTTATTTTTTATTTTTTT
1 TTTTA-TTATTTATTTTGTATTTTTTT
6689541 AATTAAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.11, C:0.02, G:0.06, T:0.81
Consensus pattern (27 bp):
TTTTATTATTTATTTTGTATTTTTTTG
Found at i:6691877 original size:70 final size:70
Alignment explanation
Indices: 6691722--6691928 Score: 252
Period size: 70 Copynumber: 2.9 Consensus size: 70
6691712 TGAGACGGTA
* * * *
6691722 TTTTCAAGAGAAAATATCTCAAATGAGATACAATTTTTGTTTCAAGAGAAACTGTCTAGGGTGAG
1 TTTTCAAGAGAAAATATCTCAAATGAGATA-AA-ATTTGTTTCGAGAGAAACTGTCTCGAGTGAG
*
6691787 ATAAAAT
64 ACAAAAT
* * * * * *
6691794 TTTTCAAGTGAAAATATCTCAAGTGAGATAAAATTTGTTTTGAGTGAAACTATCTCGAGTGTGAC
1 TTTTCAAGAGAAAATATCTCAAATGAGATAAAATTTGTTTCGAGAGAAACTGTCTCGAGTGAGAC
*
6691859 AACAT
66 AAAAT
* * * *
6691864 TTTTTAAGAGAAAATATCTTAAATGAGATAAAATTTATTTCGAAAGAAACTGTCTCGAGTGAGAC
1 TTTTCAAGAGAAAATATCTCAAATGAGATAAAATTTGTTTCGAGAGAAACTGTCTCGAGTGAGAC
6691929 TAAACTCATT
Statistics
Matches: 113, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
70 83 0.73
71 2 0.02
72 28 0.25
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (70 bp):
TTTTCAAGAGAAAATATCTCAAATGAGATAAAATTTGTTTCGAGAGAAACTGTCTCGAGTGAGAC
AAAAT
Found at i:6691927 original size:36 final size:35
Alignment explanation
Indices: 6691722--6691932 Score: 149
Period size: 34 Copynumber: 5.9 Consensus size: 35
6691712 TGAGACGGTA
* * * *
6691722 TTTTCAAGAGAAAATATCTCAAATGAGATACAATTTT
1 TTTTCAAGAGAAACTATCTCGAGTGAGATA-AA-ATT
* * *
6691759 TGTTTCAAGAGAAACTGTCTAGGGTGAGATAAAA-T
1 T-TTTCAAGAGAAACTATCTCGAGTGAGATAAAATT
* * *
6691794 TTTTCAAGTGAAAATATCTCAAGTGAGATAAAATT
1 TTTTCAAGAGAAACTATCTCGAGTGAGATAAAATT
** * * * *
6691829 TGTTTTGAGTGAAACTATCTCGAGTGTGACAACATT
1 T-TTTCAAGAGAAACTATCTCGAGTGAGATAAAATT
* ** *
6691865 TTTT-AAGAGAAAATATCTTAAATGAGATAAAATT
1 TTTTCAAGAGAAACTATCTCGAGTGAGATAAAATT
*
6691899 TATTTCGAA-AGAAACTGTCTCGAGTGAGACTAAA
1 T-TTTC-AAGAGAAACTATCTCGAGTGAGA-TAAA
6691933 CTCATTTTAA
Statistics
Matches: 133, Mismatches: 34, Indels: 14
0.73 0.19 0.08
Matches are distributed among these distances:
34 48 0.36
35 10 0.08
36 43 0.32
37 9 0.07
38 23 0.17
ACGTcount: A:0.40, C:0.10, G:0.18, T:0.33
Consensus pattern (35 bp):
TTTTCAAGAGAAACTATCTCGAGTGAGATAAAATT
Found at i:6694912 original size:16 final size:18
Alignment explanation
Indices: 6694879--6694913 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6694869 GAAATGATGC
6694879 AAATGAAAATAAATACAA
1 AAATGAAAATAAATACAA
6694897 AAATGAAAA-AAA-ACAA
1 AAATGAAAATAAATACAA
6694913 A
1 A
6694914 GGAAACAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 3 0.18
18 9 0.53
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AAATGAAAATAAATACAA
Found at i:6701165 original size:12 final size:12
Alignment explanation
Indices: 6701148--6701173 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6701138 ATGGTGTTTG
6701148 TTGTGATAGCTA
1 TTGTGATAGCTA
6701160 TTGTGATAGCTA
1 TTGTGATAGCTA
6701172 TT
1 TT
6701174 AGAGAGGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (12 bp):
TTGTGATAGCTA
Found at i:6716667 original size:31 final size:31
Alignment explanation
Indices: 6716629--6716699 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
6716619 CACTGATGAC
* *
6716629 CACTGAAATTTCAGGATAATTTCATTTTGAT
1 CACTGAAATTTCAGGACAATTTCACTTTGAT
*
6716660 CACTGAAATTTTAGGACAATTTCACTTTGAT
1 CACTGAAATTTCAGGACAATTTCACTTTGAT
*
6716691 CACTAAAAT
1 CACTGAAAT
6716700 CAAATAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.38
Consensus pattern (31 bp):
CACTGAAATTTCAGGACAATTTCACTTTGAT
Found at i:6717282 original size:16 final size:16
Alignment explanation
Indices: 6717261--6717291 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6717251 TTGACGTATT
*
6717261 TTATAAAATATATTAA
1 TTATAAAATAAATTAA
6717277 TTATAAAATAAATTA
1 TTATAAAATAAATTA
6717292 TAACTTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TTATAAAATAAATTAA
Found at i:6727037 original size:26 final size:26
Alignment explanation
Indices: 6727008--6727057 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
6726998 ATAATTAGTA
* *
6727008 ATAATAATCTTATACAATAATATTAT
1 ATAATAATCTTACACAACAATATTAT
* *
6727034 ATAATTATTTTACACAACAATATT
1 ATAATAATCTTACACAACAATATT
6727058 TTCTAACTGC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (26 bp):
ATAATAATCTTACACAACAATATTAT
Found at i:6727247 original size:52 final size:52
Alignment explanation
Indices: 6727114--6727254 Score: 239
Period size: 53 Copynumber: 2.7 Consensus size: 52
6727104 TGTTCCTTGC
*
6727114 GTTTTTTTAACAAATAATATCTTCCAAATAATTTAATCTAAAAATAATCTAGT
1 GTTTTTTTAACAAATAAGATCTTCCAAATAATTTAATCTAAAAATAATCTA-T
*
6727167 GTTTTTTTAACAAATAAGATCTTCCAAATAATTTAATCTATAAATAATCT-T
1 GTTTTTTTAACAAATAAGATCTTCCAAATAATTTAATCTAAAAATAATCTAT
6727218 GTATTTTTTAACAAATAAGATCTTCCAAATAATTTAA
1 GT-TTTTTTAACAAATAAGATCTTCCAAATAATTTAA
6727255 CAATAATATT
Statistics
Matches: 85, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
51 3 0.04
52 34 0.40
53 48 0.56
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (52 bp):
GTTTTTTTAACAAATAAGATCTTCCAAATAATTTAATCTAAAAATAATCTAT
Found at i:6727253 original size:26 final size:26
Alignment explanation
Indices: 6727172--6727257 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
6727162 CTAGTGTTTT
6727172 TTTAACAAATAAGATCTTCCAAATAA
1 TTTAACAAATAAGATCTTCCAAATAA
** **
6727198 TTTAATCTATAA-ATA-ATCTT--GTATTT
1 TTTAA-C-A-AATA-AGATCTTCCAAATAA
6727224 TTTAACAAATAAGATCTTCCAAATAA
1 TTTAACAAATAAGATCTTCCAAATAA
6727250 TTTAACAA
1 TTTAACAA
6727258 TAATATTATC
Statistics
Matches: 44, Mismatches: 8, Indels: 16
0.65 0.12 0.24
Matches are distributed among these distances:
23 3 0.07
24 7 0.16
25 1 0.02
26 22 0.50
27 1 0.02
28 7 0.16
29 3 0.07
ACGTcount: A:0.45, C:0.13, G:0.03, T:0.38
Consensus pattern (26 bp):
TTTAACAAATAAGATCTTCCAAATAA
Found at i:6727821 original size:24 final size:24
Alignment explanation
Indices: 6727780--6727870 Score: 148
Period size: 24 Copynumber: 3.8 Consensus size: 24
6727770 GAAGGTTGAC
6727780 AGTTCAA-GTTAAAGAAAATAAGT
1 AGTTCAACGTTAAAGAAAATAAGT
*
6727803 AGTTCAACGTTGAAGAAAATAAGT
1 AGTTCAACGTTAAAGAAAATAAGT
*
6727827 AGTTCAACGTTGAAGAAAATAAGT
1 AGTTCAACGTTAAAGAAAATAAGT
*
6727851 AGTTCAGCGTTAAAGAAAAT
1 AGTTCAACGTTAAAGAAAAT
6727871 GGTAAAATGT
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
23 7 0.11
24 57 0.89
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (24 bp):
AGTTCAACGTTAAAGAAAATAAGT
Found at i:6729175 original size:23 final size:24
Alignment explanation
Indices: 6729149--6729196 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
6729139 GGCATATAAT
6729149 AATT-TTTATTTTATGTAT-ATTTA
1 AATTATTTA-TTTATGTATAATTTA
*
6729172 AATTATTTATTTATTTATAATTTA
1 AATTATTTATTTATGTATAATTTA
6729196 A
1 A
6729197 TTTAAGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (24 bp):
AATTATTTATTTATGTATAATTTA
Found at i:6732397 original size:36 final size:37
Alignment explanation
Indices: 6732327--6732399 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 37
6732317 TTGTCCTCCC
* * *
6732327 CACACTCATGACCGTAGACGCATGGAAAGTCATGCGA
1 CACACTCATAACCGAAGACACATGGAAAGTCATGCGA
6732364 CACACTC-TAACCGAAGACACAT-GAAACGTCATGCGA
1 CACACTCATAACCGAAGACACATGGAAA-GTCATGCGA
6732400 GATACACTCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 4 0.12
36 21 0.66
37 7 0.22
ACGTcount: A:0.36, C:0.29, G:0.21, T:0.15
Consensus pattern (37 bp):
CACACTCATAACCGAAGACACATGGAAAGTCATGCGA
Found at i:6736338 original size:3 final size:3
Alignment explanation
Indices: 6736332--6736441 Score: 123
Period size: 3 Copynumber: 36.0 Consensus size: 3
6736322 TTCCATTTGG
6736332 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA -TTA TTA
* * * * *
6736379 ATA ATA TTA TTA TTA -TA TTA TTA TTTA TTT TTA TTA TTA ATA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
* *
6736424 ATA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
6736442 CAGGTCTAAA
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
2 2 0.02
3 86 0.89
4 9 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6737633 original size:14 final size:14
Alignment explanation
Indices: 6737594--6737635 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
6737584 AATTAGTGTA
6737594 TTTAATTTTAAATGC
1 TTTAATTTT-AATGC
6737609 TTTATATTTTAAT-C
1 TTTA-ATTTTAATGC
6737623 TTGTAATTTTAAT
1 TT-TAATTTTAAT
6737636 TTTATTTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 11 0.44
15 9 0.36
16 5 0.20
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.60
Consensus pattern (14 bp):
TTTAATTTTAATGC
Found at i:6738137 original size:27 final size:27
Alignment explanation
Indices: 6738094--6738146 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
6738084 TATTTCTAAG
*
6738094 TAAATAAATATCTTATTTATAAAAATA
1 TAAATAAATATATTATTTATAAAAATA
6738121 TAAA-AAATATATATATTTATAAAAAT
1 TAAATAAATATAT-TATTTATAAAAAT
6738147 CAATATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (27 bp):
TAAATAAATATATTATTTATAAAAATA
Found at i:6742057 original size:15 final size:15
Alignment explanation
Indices: 6742037--6742068 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6742027 GATCAATACC
6742037 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
6742052 TTTTGCATACATTCA
1 TTTTGCATACATGCA
6742067 TT
1 TT
6742069 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:6745852 original size:24 final size:22
Alignment explanation
Indices: 6745807--6745867 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 22
6745797 CAAATGGCAA
*
6745807 TCATTCTTTATACTTCACATTTT
1 TCATTCTTTATA-TTCACATTTC
* *
6745830 TACATTATTTATATTCATTATTTC
1 T-CATTCTTTATATTCA-CATTTC
6745854 TCATTCTTTATATT
1 TCATTCTTTATATT
6745868 TATTTCATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 17 0.53
24 15 0.47
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (22 bp):
TCATTCTTTATATTCACATTTC
Found at i:6749779 original size:18 final size:18
Alignment explanation
Indices: 6749756--6749793 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6749746 CAAGTTTATC
6749756 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
6749774 TTTTCGAAATTCAATTTA
1 TTTTCGAAATTCAATTTA
6749792 TT
1 TT
6749794 CTTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.53
Consensus pattern (18 bp):
TTTTCGAAATTCAATTTA
Found at i:6749884 original size:3 final size:3
Alignment explanation
Indices: 6749878--6749966 Score: 112
Period size: 3 Copynumber: 30.0 Consensus size: 3
6749868 TTATTTGGTT
* *
6749878 TTA TTA TTA TTA TTA TT- TTA TTTA TTA ATA ATA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
*
6749922 TTA -TA TTA TTA TTAA TTA TTA TTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6749967 CAGGCCCAAA
Statistics
Matches: 77, Mismatches: 4, Indels: 10
0.85 0.04 0.11
Matches are distributed among these distances:
2 6 0.08
3 65 0.84
4 6 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:6749927 original size:16 final size:16
Alignment explanation
Indices: 6749876--6749962 Score: 77
Period size: 16 Copynumber: 5.1 Consensus size: 16
6749866 TTTTATTTGG
6749876 TTTTATTATTATTATTA
1 TTTTATTA-TATTATTA
*
6749893 TTTTATT-TATTAATAA
1 TTTTATTATATT-ATTA
* *
6749909 TATTATTATTTTATTA
1 TTTTATTATATTATTA
*
6749925 TATTATTATTAATTATTA
1 TTTTATTA-T-ATTATTA
6749943 TTATTATTAATATTATTA
1 TT-TTATT-ATATTATTA
6749961 TT
1 TT
6749963 ATTACAGGCC
Statistics
Matches: 58, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
15 4 0.07
16 20 0.34
17 11 0.19
18 16 0.28
19 6 0.10
20 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATTATATTATTA
Found at i:6751204 original size:3 final size:3
Alignment explanation
Indices: 6751190--6751254 Score: 57
Period size: 3 Copynumber: 22.7 Consensus size: 3
6751180 AAATTGAAAT
* * * *
6751190 TTA TTT TTA TTA TTA TT- CTA TTA TT- TTCA ATA -TA TT- TAA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA
6751232 TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TT
6751255 TAGTCATATA
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
2 6 0.12
3 43 0.86
4 1 0.02
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6751507 original size:2 final size:2
Alignment explanation
Indices: 6751500--6751528 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
6751490 TTTTATAAAT
6751500 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6751529 TAATTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6753039 original size:63 final size:63
Alignment explanation
Indices: 6752952--6753097 Score: 240
Period size: 63 Copynumber: 2.3 Consensus size: 63
6752942 CTATCATAGT
* * *
6752952 AAACAATAGTTGAAATACGCGTCATTCTGAGAGTTTGAAATTTTGACAATCTTATATCTGCAA
1 AAACAATAGCTGAAATACGCGTCATTCTAAGAGTTTGAAATATTGACAATCTTATATCTGCAA
*
6753015 AAACAATAGCT-AGAATACGTGTCATTCTAAGAGTTTGAAATATTGACAATCTTATATCTGCAA
1 AAACAATAGCTGA-AATACGCGTCATTCTAAGAGTTTGAAATATTGACAATCTTATATCTGCAA
6753078 AAACAATAGCTGAAATACGC
1 AAACAATAGCTGAAATACGC
6753098 CTAATTAAAT
Statistics
Matches: 76, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
62 1 0.01
63 74 0.97
64 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (63 bp):
AAACAATAGCTGAAATACGCGTCATTCTAAGAGTTTGAAATATTGACAATCTTATATCTGCAA
Found at i:6753380 original size:24 final size:24
Alignment explanation
Indices: 6753353--6753403 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
6753343 AATATCGTTC
6753353 GAACTGGTGAAACAAATATAGGAG
1 GAACTGGTGAAACAAATATAGGAG
* * *
6753377 GAACTTGTGAAGCAAATATATGAG
1 GAACTGGTGAAACAAATATAGGAG
6753401 GAA
1 GAA
6753404 TTGAATTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.45, C:0.08, G:0.27, T:0.20
Consensus pattern (24 bp):
GAACTGGTGAAACAAATATAGGAG
Found at i:6755503 original size:20 final size:18
Alignment explanation
Indices: 6755480--6755516 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
6755470 ATTTTTTCAA
6755480 ATAATCATATATAAAAAAAT
1 ATAAT-ATAT-TAAAAAAAT
6755500 ATAATATATTAAAAAAA
1 ATAATATATTAAAAAAA
6755517 ATTACCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (18 bp):
ATAATATATTAAAAAAAT
Found at i:6755569 original size:24 final size:24
Alignment explanation
Indices: 6755542--6755609 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
6755532 AAGATCGATC
*
6755542 GAACTAGTGAAGCAAATATAGGAG
1 GAACTGGTGAAGCAAATATAGGAG
6755566 GAACTGGTGAAGCAAATATAGGAG
1 GAACTGGTGAAGCAAATATAGGAG
6755590 GAACTGGTGAAGCAAATATA
1 GAACTGGTGAAGCAAATATA
6755610 TGACGAATTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.44, C:0.09, G:0.29, T:0.18
Consensus pattern (24 bp):
GAACTGGTGAAGCAAATATAGGAG
Found at i:6766882 original size:7 final size:7
Alignment explanation
Indices: 6766870--6766894 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6766860 TGCATCAATG
6766870 CACTGTT
1 CACTGTT
6766877 CACTGTT
1 CACTGTT
6766884 CACTGTT
1 CACTGTT
6766891 CACT
1 CACT
6766895 ATTAATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.32, G:0.12, T:0.40
Consensus pattern (7 bp):
CACTGTT
Found at i:6767807 original size:2 final size:2
Alignment explanation
Indices: 6767800--6767861 Score: 58
Period size: 2 Copynumber: 31.5 Consensus size: 2
6767790 AATTAGTACA
*
6767800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AA AT GAT CAT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT -AT AT AT
* *
6767843 A- AA AT AA AT AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
6767862 AAAAAATTTA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
1 3 0.06
2 43 0.86
3 4 0.08
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (2 bp):
AT
Found at i:6767922 original size:24 final size:24
Alignment explanation
Indices: 6767893--6767943 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
6767883 AAGATCGATC
6767893 GAACTGGTGAAACAAATATAGGAG
1 GAACTGGTGAAACAAATATAGGAG
*
6767917 GAACTGGTGAAGCAAATATAGGAG
1 GAACTGGTGAAACAAATATAGGAG
6767941 GAA
1 GAA
6767944 TTGAATTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.45, C:0.08, G:0.31, T:0.16
Consensus pattern (24 bp):
GAACTGGTGAAACAAATATAGGAG
Found at i:6774121 original size:20 final size:20
Alignment explanation
Indices: 6774077--6774138 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
6774067 TTTTATATCA
*
6774077 AAAAGGAAAATAAAAAAAATGAG
1 AAAAGGAAAA-AAACAAAA--AG
6774100 AAAAGGAAAAAAACAAAAAG
1 AAAAGGAAAAAAACAAAAAG
**
6774120 AAAAGTCAAAAAACAAAAA
1 AAAAGGAAAAAAACAAAAA
6774139 ACAAAAAATC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.53
22 7 0.19
23 10 0.28
ACGTcount: A:0.77, C:0.05, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAGGAAAAAAACAAAAAG
Found at i:6775503 original size:21 final size:21
Alignment explanation
Indices: 6775478--6775526 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
6775468 GAATTAGGCA
6775478 CTAACAATGACGAGTATGATG
1 CTAACAATGACGAGTATGATG
6775499 CTAACAATGACGAGTATGATG
1 CTAACAATGACGAGTATGATG
6775520 CTAACAA
1 CTAACAA
6775527 CGATTAATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.22
Consensus pattern (21 bp):
CTAACAATGACGAGTATGATG
Found at i:6775994 original size:16 final size:15
Alignment explanation
Indices: 6775973--6776011 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6775963 ATGTTCAAAA
*
6775973 TTGGGTACCCGTATTT
1 TTGGGTACCAGT-TTT
6775989 TTGGGTAACCAGTTTT
1 TTGGGT-ACCAGTTTT
6776005 TTGGGTA
1 TTGGGTA
6776012 GTATATTCGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 15 0.71
17 5 0.24
ACGTcount: A:0.15, C:0.13, G:0.28, T:0.44
Consensus pattern (15 bp):
TTGGGTACCAGTTTT
Found at i:6780377 original size:2 final size:2
Alignment explanation
Indices: 6780370--6780412 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6780360 AGGTTTAGTG
6780370 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6780411 AT
1 AT
6780413 TATGTAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6783868 original size:47 final size:48
Alignment explanation
Indices: 6783786--6783883 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 48
6783776 GAATAAATGT
** *
6783786 ATGTGAACTAGAGATCATGTAGTTAGGTTAATTTTTCTCAAA-TAAGC
1 ATGTGAACTAGAGATCATACAGTTAGGTTAATTTTTCTCAAACAAAGC
* * * *
6783833 ATGTGAATTAGATATCATACAGTTAGGATT-TTTTTTTTCAAACAAAGC
1 ATGTGAACTAGAGATCATACAGTTAGG-TTAATTTTTCTCAAACAAAGC
6783881 ATG
1 ATG
6783884 GGGGTAGATA
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
47 33 0.79
48 9 0.21
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (48 bp):
ATGTGAACTAGAGATCATACAGTTAGGTTAATTTTTCTCAAACAAAGC
Found at i:6788242 original size:13 final size:13
Alignment explanation
Indices: 6788224--6788275 Score: 68
Period size: 13 Copynumber: 4.0 Consensus size: 13
6788214 GTCATAAATC
6788224 TATGACGCGCATT
1 TATGACGCGCATT
* *
6788237 TATGACACACATT
1 TATGACGCGCATT
*
6788250 TATGACGTGCATT
1 TATGACGCGCATT
*
6788263 TATGATGCGCATT
1 TATGACGCGCATT
6788276 GAGCATTATT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:6788372 original size:2 final size:2
Alignment explanation
Indices: 6788365--6788390 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6788355 CGTAAATTAC
6788365 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6788391 TGTAGATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6788451 original size:2 final size:2
Alignment explanation
Indices: 6788444--6788505 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
6788434 ATAATACTAA
6788444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6788486 AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
6788506 AGCAATCCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6794789 original size:13 final size:13
Alignment explanation
Indices: 6794725--6794783 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
6794715 GTCATAAATC
6794725 TATGACGCGCATT
1 TATGACGCGCATT
* *
6794738 TATGACACACATT
1 TATGACGCGCATT
* * **
6794751 TATTACACATATT
1 TATGACGCGCATT
6794764 TATGACGCGCATT
1 TATGACGCGCATT
6794777 TATGACG
1 TATGACG
6794784 TTCATTGAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:6794941 original size:2 final size:2
Alignment explanation
Indices: 6794934--6794964 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
6794924 TTTCGTAAAT
6794934 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6794965 GTAGATTAAC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6798962 original size:30 final size:30
Alignment explanation
Indices: 6798928--6798999 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
6798918 AATGGAGTTG
* ** *
6798928 AAGATATTGGGATAGGAGAGGATATTGAGT
1 AAGATACTGGGATAGGAGAGGATAGCGAAT
6798958 AAGATACTGGGATAGGAGAGGATAGCGAAT
1 AAGATACTGGGATAGGAGAGGATAGCGAAT
6798988 AAGATACTGGGA
1 AAGATACTGGGA
6799000 CATATGAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.39, C:0.04, G:0.36, T:0.21
Consensus pattern (30 bp):
AAGATACTGGGATAGGAGAGGATAGCGAAT
Found at i:6799965 original size:8 final size:8
Alignment explanation
Indices: 6799950--6799995 Score: 65
Period size: 8 Copynumber: 5.8 Consensus size: 8
6799940 CACATGCTTC
6799950 CCCTTTTT
1 CCCTTTTT
*
6799958 CTCTTTTT
1 CCCTTTTT
*
6799966 CTCTTTTT
1 CCCTTTTT
*
6799974 ACCTTTTT
1 CCCTTTTT
6799982 CCCTTTTT
1 CCCTTTTT
6799990 CCCTTT
1 CCCTTT
6799996 GTCCAAAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.02, C:0.33, G:0.00, T:0.65
Consensus pattern (8 bp):
CCCTTTTT
Found at i:6805286 original size:13 final size:13
Alignment explanation
Indices: 6805270--6805337 Score: 100
Period size: 13 Copynumber: 5.2 Consensus size: 13
6805260 AATAACGGGC
*
6805270 AATGAGTGTCATA
1 AATGCGTGTCATA
*
6805283 AATGCGCGTCATA
1 AATGCGTGTCATA
6805296 AATGCGTGTCATA
1 AATGCGTGTCATA
6805309 AATGCGTGTCATA
1 AATGCGTGTCATA
**
6805322 AATGCACGTCATA
1 AATGCGTGTCATA
6805335 AAT
1 AAT
6805338 TTATGACGCA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (13 bp):
AATGCGTGTCATA
Found at i:6807861 original size:30 final size:29
Alignment explanation
Indices: 6807826--6807918 Score: 125
Period size: 30 Copynumber: 3.1 Consensus size: 29
6807816 GAAAAACAAG
6807826 AAAAAATGAAAAAAATGAA-AATGAAAAAAT
1 AAAAAATGAAAAAAA-GAAGAA-GAAAAAAT
*
6807856 AAAAAATGAAGAAGAAGAAGAAGAAAAAAT
1 AAAAAATGAA-AAAAAGAAGAAGAAAAAAT
*
6807886 GAAAAAATGAAAGAAAGAAGAAGAAAAAAT
1 -AAAAAATGAAAAAAAGAAGAAGAAAAAAT
6807916 AAA
1 AAA
6807919 TGAAAGGGAG
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
29 3 0.05
30 38 0.67
31 16 0.28
ACGTcount: A:0.75, C:0.00, G:0.16, T:0.09
Consensus pattern (29 bp):
AAAAAATGAAAAAAAGAAGAAGAAAAAAT
Found at i:6807915 original size:53 final size:52
Alignment explanation
Indices: 6807814--6807912 Score: 130
Period size: 53 Copynumber: 1.9 Consensus size: 52
6807804 GAAGAAGTAA
*
6807814 AAGAAAAACAAGAAAAAATGAAAAAAATGAAAATGAAAAAATAAAAAATGAAG
1 AAGAAAAACAAGAAAAAATGAAAAAAATGAAAA-GAAAAAAGAAAAAATGAAG
* * *
6807867 AAGAAGAAGAAGAAAAAATG-AAAAAATG-AAAGAAAGAAGAAGAAAA
1 AAGAAAAACAAGAAAAAATGAAAAAAATGAAAAGAAAAAAGAA-AAAA
6807913 AATAAATGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
50 8 0.20
51 7 0.17
52 8 0.20
53 18 0.44
ACGTcount: A:0.75, C:0.01, G:0.17, T:0.07
Consensus pattern (52 bp):
AAGAAAAACAAGAAAAAATGAAAAAAATGAAAAGAAAAAAGAAAAAATGAAG
Found at i:6809380 original size:82 final size:82
Alignment explanation
Indices: 6809243--6809840 Score: 714
Period size: 82 Copynumber: 7.3 Consensus size: 82
6809233 AAGATTTTTT
* *
6809243 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGACTTACAACATTGATTTGTCTACCCAA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACCCAA
*
6809308 AAAAGAGGCACGGATCA
66 AAAAGAGGCACAGATCA
* * * * * *
6809325 AGTCTAATTTCCCCTGAATGAATGATGGAGCAGGCACGTCTTACAATATTGATTTGTCTACCTAA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACC-CA
*
6809390 AAAAAGAGGCACATATCA
65 AAAAAGAGGCACAGATCA
* * * * * * * **
6809408 AGTCTGATTTCCCCTGAATGCATGGTGAAGCAGGCACATATTCCAACATGGATTTGTCTATCTGA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACCCAA
* *
6809473 AAATGAGGCACAGATCC
66 AAAAGAGGCACAGATCA
* *
6809490 AGTCTGATTTCCTCTGAATGAATGGTGGAGCAGACACGTCTTCCAATATTGATTTGTCTACCCGA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACCC-A
*
6809555 AAAAAGAGGCACAAATCA
65 AAAAAGAGGCACAGATCA
* * * * * * *
6809573 AGTCTGATTTCCCATGAATGCATGGTGGAGCAGATACGTATACCAACATGGATTTGTCTACCCGA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACCCAA
* * *
6809638 AAAAGAGGCATATATCC
66 AAAAGAGGCACAGATCA
* ** *
6809655 AGTCTGATTTTCCCTGAATGAATGGTAAAGCAGACACGTCTTCCAATATTGATTTGTCTACCCAA
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACCCAA
6809720 AAAAGAGGCACAGATCA
66 AAAAGAGGCACAGATCA
* * * * * * *
6809737 AGTTTGATTTTCCCTAAATGCATGGTGGAGTAGACACG-CATTCCAACATAGATTTGTCTACCCG
1 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTC-TTCCAACATTGATTTGTCTACCCA
* *
6809801 AAAAAGAGGTATAGATCA
65 AAAAAGAGGCACAGATCA
* *
6809819 AATCTGATTT-CCCTGAGTGAAT
1 AGTCTGATTTCCCCTGAATGAAT
6809841 AATGGAACCA
Statistics
Matches: 434, Mismatches: 79, Indels: 7
0.83 0.15 0.01
Matches are distributed among these distances:
81 10 0.02
82 285 0.66
83 139 0.32
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (82 bp):
AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAACATTGATTTGTCTACCCAA
AAAAGAGGCACAGATCA
Found at i:6809521 original size:165 final size:163
Alignment explanation
Indices: 6809243--6809840 Score: 775
Period size: 165 Copynumber: 3.6 Consensus size: 163
6809233 AAGATTTTTT
* * * * *
6809243 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGA-CTTACAACATTGATTTGTCTACCCA
1 AGTCTGATTTCCCCTGAATGCATGGTGGAGCAGACAC-ATATTCCAACATGGATTTGTCTACCCG
* * * * *
6809307 AAAAAGAGGCACGGATCAAGTCTAATTTCCCCTGAATGAATGATGGAGCAGGCACGTCTTACAAT
65 AAAAAGAGGCACAGATCAAGTCTGATTT-CCCTGAATGAATGGTGGAGCAGACACGTCTTCCAAT
*
6809372 ATTGATTTGTCTACCTAAAAAAAGAGGCACATATCA
129 ATTGATTTGTCTACC-AAAAAAAGAGGCACAAATCA
* * * *
6809408 AGTCTGATTTCCCCTGAATGCATGGTGAAGCAGGCACATATTCCAACATGGATTTGTCTATCTGA
1 AGTCTGATTTCCCCTGAATGCATGGTGGAGCAGACACATATTCCAACATGGATTTGTCTACCCGA
* *
6809473 AAATGAGGCACAGATCCAGTCTGATTTCCTCTGAATGAATGGTGGAGCAGACACGTCTTCCAATA
66 AAAAGAGGCACAGATCAAGTCTGATTTCC-CTGAATGAATGGTGGAGCAGACACGTCTTCCAATA
*
6809538 TTGATTTGTCTACCCGAAAAAAGAGGCACAAATCA
130 TTGATTTGTCTA-CCAAAAAAAGAGGCACAAATCA
* * * *
6809573 AGTCTGATTTCCCATGAATGCATGGTGGAGCAGATACGTATACCAACATGGATTTGTCTACCCGA
1 AGTCTGATTTCCCCTGAATGCATGGTGGAGCAGACACATATTCCAACATGGATTTGTCTACCCGA
* * * **
6809638 AAAAGAGGCATATATCCAGTCTGATTTTCCCTGAATGAATGGTAAAGCAGACACGTCTTCCAATA
66 AAAAGAGGCACAGATCAAGTCTGA-TTTCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAATA
* *
6809703 TTGATTTGTCTACCCAAAAAAGAGGCACAGATCA
130 TTGATTTGTCTACCAAAAAAAGAGGCACAAATCA
* * * * ** *
6809737 AGTTTGATTTTCCCTAAATGCATGGTGGAGTAGACACGCATTCCAACATAGATTTGTCTACCCGA
1 AGTCTGATTTCCCCTGAATGCATGGTGGAGCAGACACATATTCCAACATGGATTTGTCTACCCGA
* * * *
6809802 AAAAGAGGTATAGATCAAATCTGATTTCCCTGAGTGAAT
66 AAAAGAGGCACAGATCAAGTCTGATTTCCCTGAATGAAT
6809841 AATGGAACCA
Statistics
Matches: 382, Mismatches: 47, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
163 14 0.04
164 99 0.26
165 262 0.69
166 7 0.02
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (163 bp):
AGTCTGATTTCCCCTGAATGCATGGTGGAGCAGACACATATTCCAACATGGATTTGTCTACCCGA
AAAAGAGGCACAGATCAAGTCTGATTTCCCTGAATGAATGGTGGAGCAGACACGTCTTCCAATAT
TGATTTGTCTACCAAAAAAAGAGGCACAAATCA
Found at i:6809711 original size:247 final size:246
Alignment explanation
Indices: 6809243--6809846 Score: 750
Period size: 247 Copynumber: 2.4 Consensus size: 246
6809233 AAGATTTTTT
*
6809243 AGTCTGATTTCCCCTGAATGAATGGTGGAGCAGACACGACTTACAACATTGATTTGTCTACCC-A
1 AGTCTGATTT-CCCTGAATGAATGGTGGAGCAGACACG-CTTCCAACATTGATTTGTCTACCCGA
* * * * * *
6809307 AAAAAGAGGCACGGATCAAGTCTAATTTCCCCTGAATGAATGATGGAGCAGGCACGTCTTACAAT
64 AAAAAGAGGCACAGATCAAGTCTGATTTCCCATGAATGAATGATGGAGCAGACACGTCATACAAC
* * *
6809372 ATTGATTTGTCTACCTAAAAAAAGAGGCACATATCAAGTCTGATTTCCCCTGAATGCATGGTGAA
129 ATGGATTTGTCTACCTAAAAAAAGAGGCACATATCAAGTCTGATTTCCCCTGAATGAATGGTAAA
* * ** * *
6809437 GCAGGCACATATTCCAACATGGATTTGTCTATCTGAAAATGAGGCACAGATCC
194 GCAGACACATATTCCAACATGGATTTGTCTACCCAAAAAAGAGGCACAGATCA
*
6809490 AGTCTGATTTCCTCTGAATGAATGGTGGAGCAGACACGTCTTCCAATATTGATTTGTCTACCCGA
1 AGTCTGATTTCC-CTGAATGAATGGTGGAGCAGACACG-CTTCCAACATTGATTTGTCTACCCGA
* * * *
6809555 AAAAAGAGGCACAAATCAAGTCTGATTTCCCATGAATGCATGGTGGAGCAGATACGT-ATACCAA
64 AAAAAGAGGCACAGATCAAGTCTGATTTCCCATGAATGAATGATGGAGCAGACACGTCATA-CAA
** * * *
6809619 CATGGATTTGTCTACC-CGAAAAAGAGGCATATATCCAGTCTGATTTTCCCTGAATGAATGGTAA
128 CATGGATTTGTCTACCTAAAAAAAGAGGCACATATCAAGTCTGATTTCCCCTGAATGAATGGTAA
* * * *
6809683 AGCAGACACGTCTTCCAATATTGATTTGTCTACCCAAAAAAGAGGCACAGATCA
193 AGCAGACACATATTCCAACATGGATTTGTCTACCCAAAAAAGAGGCACAGATCA
* * * * *
6809737 AGTTTGATTTTCCCTAAATGCATGGTGGAGTAGACACGCATTCCAACATAGATTTGTCTACCCG-
1 AGTCTGA-TTTCCCTGAATGAATGGTGGAGCAGACACGC-TTCCAACATTGATTTGTCTACCCGA
* * * * *
6809801 AAAAAGAGGTATAGATCAAATCTGATTTCCC-TGAGTGAATAATGGA
64 AAAAAGAGGCACAGATCAAGTCTGATTTCCCATGAATGAATGATGGA
6809847 ACCATGTCTT
Statistics
Matches: 307, Mismatches: 45, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
245 11 0.04
246 30 0.10
247 194 0.63
248 72 0.23
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (246 bp):
AGTCTGATTTCCCTGAATGAATGGTGGAGCAGACACGCTTCCAACATTGATTTGTCTACCCGAAA
AAAGAGGCACAGATCAAGTCTGATTTCCCATGAATGAATGATGGAGCAGACACGTCATACAACAT
GGATTTGTCTACCTAAAAAAAGAGGCACATATCAAGTCTGATTTCCCCTGAATGAATGGTAAAGC
AGACACATATTCCAACATGGATTTGTCTACCCAAAAAAGAGGCACAGATCA
Found at i:6810257 original size:2 final size:2
Alignment explanation
Indices: 6810250--6810277 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6810240 CAATTAAATA
6810250 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6810278 TAATACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6824801 original size:37 final size:36
Alignment explanation
Indices: 6824760--6824847 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 36
6824750 CGTCTTGCTA
* *
6824760 GAGACAGTTTTTCT-AAAAAGCAAATTTTGTCTCACTT
1 GAGACAATTTTTCTCAAAAA--AAATTTCGTCTCACTT
* *
6824797 GAGACAATTTTTACTCATAAAAAATTTCGTTTCACTT
1 GAGACAATTTTT-CTCAAAAAAAATTTCGTCTCACTT
6824834 GAGACAATTTTTCT
1 GAGACAATTTTTCT
6824848 TTAAAATACA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 2 0.04
37 37 0.82
38 2 0.04
39 4 0.09
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (36 bp):
GAGACAATTTTTCTCAAAAAAAATTTCGTCTCACTT
Found at i:6824807 original size:20 final size:20
Alignment explanation
Indices: 6824782--6824844 Score: 53
Period size: 20 Copynumber: 3.3 Consensus size: 20
6824772 CTAAAAAGCA
6824782 AATTTTGTCTCACTTGAGAC
1 AATTTTGTCTCACTTGAGAC
* *
6824802 AATTTT-TACTCA--T-AAAA
1 AATTTTGT-CTCACTTGAGAC
* *
6824819 AATTTCGTTTCACTTGAGAC
1 AATTTTGTCTCACTTGAGAC
6824839 AATTTT
1 AATTTT
6824845 TCTTTAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 10
0.65 0.15 0.21
Matches are distributed among these distances:
17 10 0.32
18 2 0.06
19 2 0.06
20 17 0.55
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.43
Consensus pattern (20 bp):
AATTTTGTCTCACTTGAGAC
Found at i:6824966 original size:66 final size:65
Alignment explanation
Indices: 6824896--6825050 Score: 183
Period size: 66 Copynumber: 2.4 Consensus size: 65
6824886 AAAAAAAAAA
6824896 CTTTGAGTCTGTTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACAAT-TTCTCATGAA-ACACC
1 CTTTGAGTCTGTTTCTCTTGAAACAAATTTTGTCTCCCTTAAGAC-ATCTTCTCATGAAGA-A-C
6824959 CAT
63 CAT
* * * * * *
6824962 CTTTGAGAT-TGTTTCCCTTGAAACTAATTTTGTCTCTCTTGAGACATCTTCTCTTGAAGAATCA
1 CTTTGAG-TCTGTTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACATCTTCTCATGAAGAACCA
6825026 T
65 T
6825027 CTTTGAGTC-GATTTCTCTTGAAAC
1 CTTTGAGTCTG-TTTCTCTTGAAAC
6825051 CATTATCCCT
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
64 2 0.03
65 24 0.31
66 49 0.64
67 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.13, T:0.41
Consensus pattern (65 bp):
CTTTGAGTCTGTTTCTCTTGAAACAAATTTTGTCTCCCTTAAGACATCTTCTCATGAAGAACCAT
Done.