Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 132 of 235
Found at i:44774943 original size:27 final size:27
Alignment explanation
Indices: 44774913--44774988 Score: 65
Period size: 26 Copynumber: 3.0 Consensus size: 27
44774903 TTAGATGAGT
* *
44774913 AATATATGTAAAAA-CACGTTTAAAATA
1 AATATATGCAAAAAGCA-ATTTAAAATA
*
44774940 AATAT-TACAAAAAGCAATTTAAAATA
1 AATATATGCAAAAAGCAATTTAAAATA
44774966 AATAGTATG---AAA-CAATTTAAAAT
1 AATA-TATGCAAAAAGCAATTTAAAAT
44774989 CATCAATGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
24 11 0.26
25 3 0.07
26 19 0.45
27 8 0.19
28 1 0.02
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.29
Consensus pattern (27 bp):
AATATATGCAAAAAGCAATTTAAAATA
Found at i:44774986 original size:24 final size:26
Alignment explanation
Indices: 44774931--44774988 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
44774921 TAAAAACACG
*
44774931 TTTAAAATAAATATTACAAAAAGCAA
1 TTTAAAATAAATAGTACAAAAAGCAA
**
44774957 TTTAAAATAAATAGTA-TGAAA-CAA
1 TTTAAAATAAATAGTACAAAAAGCAA
44774981 TTTAAAAT
1 TTTAAAAT
44774989 CATCAATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 11 0.38
25 3 0.10
26 15 0.52
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (26 bp):
TTTAAAATAAATAGTACAAAAAGCAA
Found at i:44778618 original size:20 final size:20
Alignment explanation
Indices: 44778593--44778631 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44778583 TCCCATTTTC
*
44778593 ATTTTCAAAATAAAAAGTTG
1 ATTTTCAAAAAAAAAAGTTG
44778613 ATTTTCAAAAAAAAAAGTT
1 ATTTTCAAAAAAAAAAGTT
44778632 TCGACAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.08, T:0.33
Consensus pattern (20 bp):
ATTTTCAAAAAAAAAAGTTG
Found at i:44781068 original size:60 final size:59
Alignment explanation
Indices: 44780993--44781126 Score: 144
Period size: 60 Copynumber: 2.2 Consensus size: 59
44780983 TATTTGTGAA
* * * *
44780993 AAAAATATATTTTTTTTAAAAAT-ACAAATGGGGTGTCGGCCACCTAGTACACGACACCCCC
1 AAAAA-ATATTTTTTTGAAAAATGACAAA-GAGGTGTCGACCACCTACTACACGACA-CCCC
* * *** *
44781054 AAAAGATTTTTTTTTGAATTCTGACAAAGAGGTGTCGACCATCTACTACACGACACCCC
1 AAAAAATATTTTTTTGAAAAATGACAAAGAGGTGTCGACCACCTACTACACGACACCCC
44781113 AAAAAATATTTTTT
1 AAAAAATATTTTTT
44781127 ATACAGATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
59 16 0.27
60 35 0.58
61 9 0.15
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (59 bp):
AAAAAATATTTTTTTGAAAAATGACAAAGAGGTGTCGACCACCTACTACACGACACCCC
Found at i:44781587 original size:29 final size:30
Alignment explanation
Indices: 44781533--44781589 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
44781523 TTTCATTATT
*
44781533 AATTTCAGGTCATTTTAATAATTATTTTTG
1 AATTTCAGGTCATTTTAATAAATATTTTTG
*
44781563 AATTT-AGGTCATTGTT-GTAAATATTTT
1 AATTTCAGGTCATT-TTAATAAATATTTT
44781590 ATTTTTGGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (30 bp):
AATTTCAGGTCATTTTAATAAATATTTTTG
Found at i:44784984 original size:23 final size:24
Alignment explanation
Indices: 44784958--44785009 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
44784948 AAATTTTAAA
*
44784958 TTAATAATA-ATAAAAT-TAAAATT
1 TTAATAATATA-AAAATATAAAAAT
*
44784981 TTAAAAATATAAAAATATAAAAAT
1 TTAATAATATAAAAATATAAAAAT
44785005 TTAAT
1 TTAAT
44785010 TTAATTTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (24 bp):
TTAATAATATAAAAATATAAAAAT
Found at i:44785001 original size:16 final size:15
Alignment explanation
Indices: 44784955--44785005 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
44784945 ATAAAATTTT
*
44784955 AAATTAATAATA-ATA
1 AAATTAAAAATATA-A
* *
44784970 AAATTAAAATTTTAA
1 AAATTAAAAATATAA
44784985 AAATATAAAAATATAA
1 AAAT-TAAAAATATAA
44785001 AAATT
1 AAATT
44785006 TAATTTAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 15 0.52
16 14 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAAAAATATAA
Found at i:44788521 original size:18 final size:18
Alignment explanation
Indices: 44788494--44788550 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
44788484 TACGACCGTT
44788494 TACGGTACTATTCACGTA
1 TACGGTACTATTCACGTA
*
44788512 TACGGCACTATTCACGTA
1 TACGGTACTATTCACGTA
*
44788530 TACGGTACTGTTCACGTA
1 TACGGTACTATTCACGTA
44788548 TAC
1 TAC
44788551 AGTAGTTGGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (18 bp):
TACGGTACTATTCACGTA
Found at i:44793687 original size:27 final size:27
Alignment explanation
Indices: 44793649--44793730 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
44793639 GTGAGTCTCC
*
44793649 TAACTGCACACAGAAACCTGAAAATGA
1 TAACTGCACACAGAAACCTGAAACTGA
44793676 TAACTGCACACAGAAACCTGAAACTGA
1 TAACTGCACACAGAAACCTGAAACTGA
*
44793703 TAACTGCACACAGAAACTTGAAACTGA
1 TAACTGCACACAGAAACCTGAAACTGA
44793730 T
1 T
44793731 CTTCTTGACA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.45, C:0.23, G:0.15, T:0.17
Consensus pattern (27 bp):
TAACTGCACACAGAAACCTGAAACTGA
Found at i:44798442 original size:23 final size:23
Alignment explanation
Indices: 44798388--44798442 Score: 55
Period size: 23 Copynumber: 2.4 Consensus size: 23
44798378 TTTATTGTAA
44798388 TTTTCT-TTTCTCGTTTTTTTCT
1 TTTTCTATTTCTCGTTTTTTTCT
44798410 TTTT-TGATTTC-CTGTTTTTATT-T
1 TTTTCT-ATTTCTC-GTTTTT-TTCT
44798433 TTTTCTATTT
1 TTTTCTATTT
44798443 TGAGTCCATT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
22 5 0.18
23 19 0.68
24 3 0.11
ACGTcount: A:0.05, C:0.13, G:0.05, T:0.76
Consensus pattern (23 bp):
TTTTCTATTTCTCGTTTTTTTCT
Found at i:44799629 original size:49 final size:51
Alignment explanation
Indices: 44799556--44799654 Score: 132
Period size: 49 Copynumber: 2.0 Consensus size: 51
44799546 TTTTAAGTTT
*
44799556 TTTATATTTACTATTTATTTTTAAACCATTATAC-ATATTATCTATTTTGA
1 TTTATATATACTATTTATTTTTAAACCATTATACAATATTATCTATTTTGA
* *
44799606 TTTATATATA-TATTTCA-TTTTAAACTATTTTACATATATTATCTATTTT
1 TTTATATATACTATTT-ATTTTTAAACCATTATACA-ATATTATCTATTTT
44799655 CAAATGTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
49 19 0.44
50 10 0.23
51 14 0.33
ACGTcount: A:0.32, C:0.09, G:0.01, T:0.58
Consensus pattern (51 bp):
TTTATATATACTATTTATTTTTAAACCATTATACAATATTATCTATTTTGA
Found at i:44803641 original size:14 final size:14
Alignment explanation
Indices: 44803618--44803647 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44803608 TTGAAAATAT
44803618 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
44803632 GTTGATTTGGATTG
1 GTTGAATTGGATTG
44803646 GT
1 GT
44803648 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:44804987 original size:259 final size:259
Alignment explanation
Indices: 44804528--44805046 Score: 1011
Period size: 259 Copynumber: 2.0 Consensus size: 259
44804518 TATAAATATC
44804528 ACATCCAGCATATTTGGACACGATACTCTTAAACTTTCGTAACTGAAATCATCTTGAGATTTTCA
1 ACATCCAGCATATTTGGACACGATACTCTTAAACTTTCGTAACTGAAATCATCTTGAGATTTTCA
44804593 AAACTTATTTAGAAGGATATTTTAGGCTTTTAGACAAACAGGAAATCGCAACCCAGCATGTTAGG
66 AAACTTATTTAGAAGGATATTTTAGGCTTTTAGACAAACAGGAAATCGCAACCCAGCATGTTAGG
44804658 GCACTATTTCCCGAATTCCCTAGTACCAAAAACATTGCCTTGTTTTTTAATTCCTTTGGATCAAA
131 GCACTATTTCCCGAATTCCCTAGTACCAAAAACATTGCCTTGTTTTTTAATTCCTTTGGATCAAA
44804723 TGAAATAATTTTTAAAGCAATGATATATTTAACATATTACAAAAGATTAATATTAAATAAACTA
196 TGAAATAATTTTTAAAGCAATGATATATTTAACATATTACAAAAGATTAATATTAAATAAACTA
*
44804787 ACATCCAGCATGTTTGGACACGATACTCTTAAACTTTCGTAACTGAAATCATCTTGAGATTTTCA
1 ACATCCAGCATATTTGGACACGATACTCTTAAACTTTCGTAACTGAAATCATCTTGAGATTTTCA
*
44804852 AAACTTATTTAGAAGGATATTTTAGGCTTTTAGACAAACAGGAAATCGCAACCCAGCTTGTTAGG
66 AAACTTATTTAGAAGGATATTTTAGGCTTTTAGACAAACAGGAAATCGCAACCCAGCATGTTAGG
*
44804917 GCACTATTTCCCGAATTCCCTAGTACCAAAAACATTGCCTTGTTTTTTAATTCCTTTGGATCGAA
131 GCACTATTTCCCGAATTCCCTAGTACCAAAAACATTGCCTTGTTTTTTAATTCCTTTGGATCAAA
44804982 TGAAATAATTTTTAAAGCAATGATATATTTAACATATTACAAAAGATTAATATTAAATAAACTA
196 TGAAATAATTTTTAAAGCAATGATATATTTAACATATTACAAAAGATTAATATTAAATAAACTA
44805046 A
1 A
44805047 GCTATATGAT
Statistics
Matches: 257, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
259 257 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.34
Consensus pattern (259 bp):
ACATCCAGCATATTTGGACACGATACTCTTAAACTTTCGTAACTGAAATCATCTTGAGATTTTCA
AAACTTATTTAGAAGGATATTTTAGGCTTTTAGACAAACAGGAAATCGCAACCCAGCATGTTAGG
GCACTATTTCCCGAATTCCCTAGTACCAAAAACATTGCCTTGTTTTTTAATTCCTTTGGATCAAA
TGAAATAATTTTTAAAGCAATGATATATTTAACATATTACAAAAGATTAATATTAAATAAACTA
Found at i:44805632 original size:21 final size:21
Alignment explanation
Indices: 44805579--44805633 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
44805569 AAATAGGAAC
*
44805579 ATATATAAATATAGTAAAATAA
1 ATATAT-AATAAAGTAAAATAA
**
44805601 ATA-ATATATAAAGTAAAATGT
1 ATATATA-ATAAAGTAAAATAA
44805622 ATATATAATAAA
1 ATATATAATAAA
44805634 AATTTATAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 1 0.04
21 21 0.75
22 6 0.21
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (21 bp):
ATATATAATAAAGTAAAATAA
Found at i:44805669 original size:28 final size:29
Alignment explanation
Indices: 44805596--44805670 Score: 75
Period size: 28 Copynumber: 2.6 Consensus size: 29
44805586 AATATAGTAA
*
44805596 AATAA-ATAATATATAAAGTAAAATGTATAT
1 AATAATATAATATAT-AAG-AAAACGTATAT
* *
44805626 -ATAATAAAAATTTATAAG-AAACGTATAT
1 AATAAT-ATAATATATAAGAAAACGTATAT
44805654 AATAATATAATATATAA
1 AATAATATAATATATAA
44805671 ATAAAAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
28 18 0.49
29 9 0.24
30 3 0.08
31 7 0.19
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.33
Consensus pattern (29 bp):
AATAATATAATATATAAGAAAACGTATAT
Found at i:44807486 original size:44 final size:44
Alignment explanation
Indices: 44807401--44808271 Score: 981
Period size: 44 Copynumber: 19.9 Consensus size: 44
44807391 TCAGAGCTGC
** * *
44807401 TATCTTCGATCTGCTC-CACATCTAACACAGAGACGCAAAATCTGT
1 TATCTTCGATCTGCTCTC-TGTC-AATACAGAGACGCCAAATCTGT
* * * *
44807446 TATTTTCAATCTGCTCTTTGTCAATACTA-AGACGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGTCAATAC-AGAGACGCCAAATCTGT
* * *
44807490 TATCTTTGATCTGCTCTCTGTCAATACAGAGATGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * *
44807534 TATCTTCGATCTGCTCTCCGTCAATACAGAAATGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* ** * *
44807578 TATTTTCGATCTGCTCTCCATCAAT----ATA-G--AAATCTGC
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * *
44807615 TATCTTTGATCTGCTCTCTGTCAATACAGAGATGCAAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* ** * *
44807659 TATATTTAATATGCTCTCTGTCAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
*
44807703 TATCTTCGATCTGCTCT-TCGTCAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCTCT-GTCAATACAGAGACGCCAAATCTGT
* * *
44807747 TATCTTTGATCTGCTCTCTGTCAACACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* *
44807791 TATCTTCGATCTGTTCGT-TGACAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTC-TCTGTCAATACAGAGACGCCAAATCTGT
* * *
44807835 CATCTTCGATCTGCTCTCTGTCAACACAGAGACGCCAAATCTAT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * *
44807879 TATCTTAGATATGCTCTCTGACAATACAGAGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * *
44807923 CATATTCGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * *
44807967 CATCTTTGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * *
44808011 CATCTTTGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * *
44808055 CATCTTTGATCTGCTCTCTGACAATACAGGGACGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * * *
44808099 CATCTTCGATCTGCACTCTGTCAACACAGAGATGTCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * *
44808143 TATCTTCGATCTGCTTTCTGACAATACAGAGATGCCAAATCTGT
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* *
44808187 CATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGC
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
* * * * *
44808231 TATCTTCAATTTGCTCTCTGACAATAAAGAGATGCCAAATC
1 TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATC
44808272 AGCTATCGGT
Statistics
Matches: 726, Mismatches: 86, Indels: 29
0.86 0.10 0.03
Matches are distributed among these distances:
37 29 0.04
39 1 0.00
40 2 0.00
41 2 0.00
42 1 0.00
43 3 0.00
44 669 0.92
45 19 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (44 bp):
TATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGT
Found at i:44808973 original size:25 final size:25
Alignment explanation
Indices: 44808939--44808987 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
44808929 TGTACACAAA
44808939 TTCCATAAAGACTATTTTGAGTTTT
1 TTCCATAAAGACTATTTTGAGTTTT
44808964 TTCCATAAAGACTATTTTGAGTTT
1 TTCCATAAAGACTATTTTGAGTTT
44808988 AACATGTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (25 bp):
TTCCATAAAGACTATTTTGAGTTTT
Found at i:44812518 original size:16 final size:17
Alignment explanation
Indices: 44812489--44812529 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
44812479 TTATATATAT
*
44812489 AAAGTAAAAGGAATA-AA
1 AAAG-AAAAAGAATAGAA
44812506 AAAGAAAAAGAATAGAA
1 AAAGAAAAAGAATAGAA
44812523 AAAGAAA
1 AAAGAAA
44812530 GAAAGGATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.76, C:0.00, G:0.17, T:0.07
Consensus pattern (17 bp):
AAAGAAAAAGAATAGAA
Found at i:44823089 original size:28 final size:29
Alignment explanation
Indices: 44823015--44823090 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 29
44823005 AAATATAGTA
*
44823015 AAATAAATAATATATAAAGTAAAATGTATAT
1 AAATAAATAATATAT-AAG-AAAACGTATAT
*
44823046 ACAATAAA-AATTTATAAG-AAACGTATAT
1 A-AATAAATAATATATAAGAAAACGTATAT
44823074 -AATAATATAATATATAA
1 AAATAA-ATAATATATAA
44823091 ATAAAAATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 5 0.13
27 1 0.03
28 17 0.44
30 3 0.08
31 7 0.18
32 6 0.15
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.32
Consensus pattern (29 bp):
AAATAAATAATATATAAGAAAACGTATAT
Found at i:44828509 original size:21 final size:21
Alignment explanation
Indices: 44828468--44828511 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44828458 AAGCTTATAT
* **
44828468 AACTTATTAATTACGGGAAAA
1 AACTTATTAATTAAGAAAAAA
44828489 AACTTATTAATTAAGAAAAAA
1 AACTTATTAATTAAGAAAAAA
44828510 AA
1 AA
44828512 TCATATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.57, C:0.07, G:0.09, T:0.27
Consensus pattern (21 bp):
AACTTATTAATTAAGAAAAAA
Found at i:44832121 original size:13 final size:13
Alignment explanation
Indices: 44832103--44832128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44832093 TTGAGAAAAT
44832103 AGAAAAAAAAGAA
1 AGAAAAAAAAGAA
44832116 AGAAAAAAAAGAA
1 AGAAAAAAAAGAA
44832129 CGGCAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAAAGAA
Found at i:44841501 original size:21 final size:23
Alignment explanation
Indices: 44841465--44841507 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
44841455 TTAACATAAT
44841465 TATTTTTAATGTATTATTATTAC
1 TATTTTTAATGTATTATTATTAC
44841488 TATTTTT-A-GTATTATTATTA
1 TATTTTTAATGTATTATTATTA
44841508 TATGTAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 12 0.60
22 1 0.05
23 7 0.35
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (23 bp):
TATTTTTAATGTATTATTATTAC
Found at i:44841825 original size:15 final size:15
Alignment explanation
Indices: 44841805--44841838 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
44841795 ATACTTTTAC
44841805 TATTATTGTTATTAA
1 TATTATTGTTATTAA
* *
44841820 TATTATTTTTATTAT
1 TATTATTGTTATTAA
44841835 TATT
1 TATT
44841839 TTTTGTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (15 bp):
TATTATTGTTATTAA
Found at i:44841902 original size:12 final size:12
Alignment explanation
Indices: 44841863--44841916 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
44841853 AATATTCATG
44841863 CTATCATTATTA
1 CTATCATTATTA
*
44841875 -TATTATT-TT-
1 CTATCATTATTA
*
44841884 -TACCATTATTA
1 CTATCATTATTA
*
44841895 GTATCATTATTA
1 CTATCATTATTA
44841907 CTATCATTAT
1 CTATCATTAT
44841917 CATTATTAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 5 0.15
10 4 0.12
11 6 0.18
12 19 0.56
ACGTcount: A:0.31, C:0.13, G:0.02, T:0.54
Consensus pattern (12 bp):
CTATCATTATTA
Found at i:44843345 original size:21 final size:21
Alignment explanation
Indices: 44843319--44843371 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
44843309 TGCAGGGGTC
* *
44843319 ACACGCTCGTGTGGAC-AGGGG
1 ACACGCCCGTGT-GACTAAGGG
44843340 ACACGCCCGTGTGACTAAGGG
1 ACACGCCCGTGTGACTAAGGG
44843361 ACACGCCCGTG
1 ACACGCCCGTG
44843372 CTATAGGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.21, C:0.30, G:0.36, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTGACTAAGGG
Found at i:44845283 original size:46 final size:46
Alignment explanation
Indices: 44845216--44845307 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
44845206 CACTATTCAT
* *
44845216 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
44845262 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
44845308 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:44845300 original size:31 final size:31
Alignment explanation
Indices: 44845262--44845320 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
44845252 AAGTAGCCGA
44845262 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
44845293 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
44845321 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:44845394 original size:50 final size:50
Alignment explanation
Indices: 44845300--44845476 Score: 291
Period size: 50 Copynumber: 3.5 Consensus size: 50
44845290 CATTGATCAG
* * * *
44845300 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
*
44845351 GTAGCTGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
*
44845401 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
44845451 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
44845477 GTTGCCATGG
Statistics
Matches: 119, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
50 97 0.82
51 22 0.18
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:44848431 original size:25 final size:25
Alignment explanation
Indices: 44848401--44848470 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
44848391 AAGCGACAAA
*
44848401 CGGTAAGCTCATCCGAGCTGAATAT
1 CGGTAAGCTCATACGAGCTGAATAT
44848426 CGGTAAGCTCATACGAGCTGAATAT
1 CGGTAAGCTCATACGAGCTGAATAT
* *
44848451 CGATAAGCTCATATGAGCTG
1 CGGTAAGCTCATACGAGCTG
44848471 TGGTGGGTCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
CGGTAAGCTCATACGAGCTGAATAT
Found at i:44851036 original size:42 final size:42
Alignment explanation
Indices: 44850979--44851060 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
44850969 ACACATAGCT
**
44850979 TGGCACACAACCGTGT-AGGGCAACTCAGAGAGTTACACAGCC
1 TGGCACACAACCGTGTGA-CCCAACTCAGAGAGTTACACAGCC
* * *
44851021 TGGCACACGAGCGTGTGACCCTACTCAGAGAGTTACACAG
1 TGGCACACAACCGTGTGACCCAACTCAGAGAGTTACACAG
44851061 GTGAGGGTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 33 0.97
43 1 0.03
ACGTcount: A:0.29, C:0.28, G:0.27, T:0.16
Consensus pattern (42 bp):
TGGCACACAACCGTGTGACCCAACTCAGAGAGTTACACAGCC
Found at i:44853091 original size:16 final size:16
Alignment explanation
Indices: 44853053--44853091 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
44853043 AACTTATCCA
*
44853053 AAATATAATATTATTT
1 AAATATAATATTATTG
**
44853069 ACTTATAATATTATTG
1 AAATATAATATTATTG
44853085 AAATATA
1 AAATATA
44853092 TTATCATTTT
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (16 bp):
AAATATAATATTATTG
Found at i:44856847 original size:45 final size:44
Alignment explanation
Indices: 44856774--44856990 Score: 182
Period size: 45 Copynumber: 4.9 Consensus size: 44
44856764 CCCGTTCACA
* * * * *
44856774 CACCACCA-CAACAAGTTCTCTCCACTCCACCACCCGTCT-ACT
1 CACCACCACCCACCAGTTCGCTCCCCTCCACCACCCGTCTCAAT
* *
44856816 CACCACCACCACAACCTGTTCGCTCCCCTCCACCTCCACCAGT-TCAAT
1 CACCACCACC-C-ACCAGTTCGCTCCCCTCCA---CCACCCGTCTCAAT
* *
44856864 CTCCACCA-CCACCAGTTCGCTCCCCTCCACCTCCACCAGT-TCAAT
1 CACCACCACCCACCAGTTCGCTCCCCTCCA---CCACCCGTCTCAAT
44856909 CACCACCA-CCACCAGTTCGCTCCCCTCCACCACCCGTCT-ACA-
1 CACCACCACCCACCAGTTCGCTCCCCTCCACCACCCGTCTCA-AT
* * *
44856951 CTCCACC-TCCACCAGTTCTCTCCCCTCCACCACCCGTCTC
1 CACCACCACCCACCAGTTCGCTCCCCTCCACCACCCGTCTC
44856991 CTTTCCACCT
Statistics
Matches: 151, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
42 52 0.34
43 3 0.02
45 77 0.51
46 1 0.01
47 2 0.01
48 16 0.11
ACGTcount: A:0.21, C:0.54, G:0.06, T:0.19
Consensus pattern (44 bp):
CACCACCACCCACCAGTTCGCTCCCCTCCACCACCCGTCTCAAT
Found at i:44856848 original size:24 final size:24
Alignment explanation
Indices: 44856821--44857047 Score: 136
Period size: 24 Copynumber: 10.3 Consensus size: 24
44856811 CTACTCACCA
* *
44856821 CCACCACAACCTGTTCGCTCCCCT
1 CCACCACCACCAGTTCGCTCCCCT
* **
44856845 CCACCTCCACCAGTTCAAT---CT
1 CCACCACCACCAGTTCGCTCCCCT
44856866 CCACCACCACCAGTTCGCTCCCCT
1 CCACCACCACCAGTTCGCTCCCCT
* ** *
44856890 CCACCTCCACCAGTTCAAT---CA
1 CCACCACCACCAGTTCGCTCCCCT
44856911 CCACCACCACCAGTTCGCTCCCCT
1 CCACCACCACCAGTTCGCTCCCCT
* *
44856935 CCACCA-C-CC-G-T--CTACACT
1 CCACCACCACCAGTTCGCTCCCCT
* *
44856953 CCACCTCCACCAGTTCTCTCCCCT
1 CCACCACCACCAGTTCGCTCCCCT
**
44856977 CCACCA-C-CC-G-T--CTCCTTT
1 CCACCACCACCAGTTCGCTCCCCT
* **
44856995 CCACCTCCACCAGTTCAAT---CT
1 CCACCACCACCAGTTCGCTCCCCT
*
44857016 CCACCACCACCAGTTCTCTCCCCT
1 CCACCACCACCAGTTCGCTCCCCT
44857040 CCACCACC
1 CCACCACC
44857048 CGTCTCCTTC
Statistics
Matches: 152, Mismatches: 30, Indels: 42
0.68 0.13 0.19
Matches are distributed among these distances:
18 20 0.13
19 2 0.01
20 6 0.04
21 56 0.37
22 6 0.04
23 2 0.01
24 60 0.39
ACGTcount: A:0.19, C:0.55, G:0.06, T:0.20
Consensus pattern (24 bp):
CCACCACCACCAGTTCGCTCCCCT
Found at i:44856867 original size:21 final size:21
Alignment explanation
Indices: 44856843--44857116 Score: 144
Period size: 21 Copynumber: 13.0 Consensus size: 21
44856833 GTTCGCTCCC
44856843 CTCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCAAT
* **
44856864 CTCCACCACCACCAGTTCGCT
1 CTCCACCTCCACCAGTTCAAT
44856885 CCCCTCCACCTCCACCAGTTCAAT
1 ---CTCCACCTCCACCAGTTCAAT
* * **
44856909 CACCACCACCACCAGTTCGCT
1 CTCCACCTCCACCAGTTCAAT
* * * *
44856930 CCCCTCCACCACCCG-TCTACA-
1 CTCCACCTCCACCAGTTC-A-AT
44856951 CTCCACCTCCACCAGTTC--T
1 CTCCACCTCCACCAGTTCAAT
*
44856970 CTCC-CCTCCACCACCCGTCTC-CT
1 CTCCACCTCCACCA---GT-TCAAT
*
44856993 TTCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCAAT
*
44857014 CTCCACCACCACCAGTTC--T
1 CTCCACCTCCACCAGTTCAAT
**
44857033 CTCC-CCTCCACCACCCGTCTCCTT
1 CTCCACCTCCACCA---GT-TCAAT
44857057 C-CCACCTCCACCAGTTCAA-
1 CTCCACCTCCACCAGTTCAAT
* * *
44857076 -T-CACCACCACCCG-TCTATT
1 CTCCACCTCCACCAGTTC-AAT
*
44857095 CTCCACATCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCAAT
44857116 C
1 C
44857117 ACAACCACCA
Statistics
Matches: 193, Mismatches: 33, Indels: 54
0.69 0.12 0.19
Matches are distributed among these distances:
17 2 0.01
18 28 0.15
19 9 0.05
20 7 0.04
21 95 0.49
22 8 0.04
23 6 0.03
24 38 0.20
ACGTcount: A:0.20, C:0.53, G:0.05, T:0.22
Consensus pattern (21 bp):
CTCCACCTCCACCAGTTCAAT
Found at i:44856981 original size:63 final size:63
Alignment explanation
Indices: 44856888--44857083 Score: 209
Period size: 63 Copynumber: 3.1 Consensus size: 63
44856878 GTTCGCTCCC
** * * * *
44856888 CTCCACCTCCACCAGTTCAATCACCACCACCACCAGT-TCGCTCCCCTCCACCACCCG-TCTACA
1 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTC-CTCCCCACCACCACCAGTTC-A-A
44856951 -
63 T
* ** *
44856951 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTCCTCCCCACCACCACCAGTTCAAT
* * * *
44857014 CTCCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTCCCACCTCCACCAGTTCAAT
1 CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTCCTCCCCACCACCACCAGTTCAAT
*
44857077 CACCACC
1 CTCCACC
44857084 ACCCGTCTAT
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
62 1 0.01
63 112 0.96
64 4 0.03
ACGTcount: A:0.19, C:0.55, G:0.05, T:0.21
Consensus pattern (63 bp):
CTCCACCTCCACCAGTTCTCTCCCCTCCACCACCAGTCTCCTCCCCACCACCACCAGTTCAAT
Found at i:44857083 original size:39 final size:39
Alignment explanation
Indices: 44857040--44857125 Score: 129
Period size: 39 Copynumber: 2.2 Consensus size: 39
44857030 TCTCTCCCCT
* *
44857040 CCACCACCCGTCTCCTTC-CCACCTCCACCAGTTCAATCA
1 CCACCACCCGTCT-ATTCTCCACATCCACCAGTTCAATCA
44857079 CCACCACCCGTCTATTCTCCACATCCACCAGTTCAATCA
1 CCACCACCCGTCTATTCTCCACATCCACCAGTTCAATCA
*
44857118 CAACCACC
1 CCACCACC
44857126 ACCAACTTCA
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
38 3 0.07
39 40 0.93
ACGTcount: A:0.24, C:0.51, G:0.05, T:0.20
Consensus pattern (39 bp):
CCACCACCCGTCTATTCTCCACATCCACCAGTTCAATCA
Found at i:44857084 original size:63 final size:63
Alignment explanation
Indices: 44856953--44857086 Score: 241
Period size: 63 Copynumber: 2.1 Consensus size: 63
44856943 CGTCTACACT
* * *
44856953 CCACCTCCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTTCCACCTCCACCAGTTCAATCT
1 CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTCCCACCTCCACCAGTTCAATCA
44857016 CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTCCCACCTCCACCAGTTCAATCA
1 CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTCCCACCTCCACCAGTTCAATCA
44857079 CCACCACC
1 CCACCACC
44857087 CGTCTATTCT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.18, C:0.56, G:0.04, T:0.22
Consensus pattern (63 bp):
CCACCACCACCAGTTCTCTCCCCTCCACCACCCGTCTCCTTCCCACCTCCACCAGTTCAATCA
Found at i:44857086 original size:42 final size:43
Alignment explanation
Indices: 44856821--44857129 Score: 192
Period size: 42 Copynumber: 7.3 Consensus size: 43
44856811 CTACTCACCA
* *
44856821 CCACCACAACCTGTTCGCTCCCCTCCACCTCCACCAGTTCAATCT
1 CCACCACCACCAGTTCGCT--CCTCCACCTCCACCAGTTCAATCT
*
44856866 CCACCACCACCAGTTCGCTCCCCTCCACCTCCACCAGTTCAATCA
1 CCACCACCACCAGTTCGCT--CCTCCACCTCCACCAGTTCAATCT
* * *
44856911 CCACCACCACCAGTTCGCTCC-CCTCCACCACCCG-TCTACA-CT
1 CCACCACCACCAGTTCGCTCCTCCACCTCCACCAGTTC-A-ATCT
* * * * * * *
44856953 CCACCTCCACCAGTTCTCTCC-CCTCCACCACCCGTCTC-CTTT
1 CCACCACCACCAGTTCGCTCCTCCACCTCCACCAGT-TCAATCT
* ** * ** *
44856995 CCACCTCCACCAGTTCAAT-CTCCACCACCACCAGTTCTCTCC
1 CCACCACCACCAGTTCGCTCCTCCACCTCCACCAGTTCAATCT
* * *
44857037 CCTCCACCACCCGTCTC-CTTC-CCACCTCCACCAGTTCAA--T
1 CCACCACCACCAGT-TCGCTCCTCCACCTCCACCAGTTCAATCT
* ** * * *
44857077 -CACCACCACCCG-TCTATTCTCCACATCCACCAGTTCAATCA
1 CCACCACCACCAGTTCGCTCCTCCACCTCCACCAGTTCAATCT
*
44857118 CAACCACCACCA
1 CCACCACCACCA
44857130 ACTTCACCTC
Statistics
Matches: 219, Mismatches: 31, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
37 2 0.01
38 3 0.01
39 28 0.13
41 5 0.02
42 112 0.51
43 6 0.03
44 2 0.01
45 61 0.28
ACGTcount: A:0.21, C:0.53, G:0.06, T:0.20
Consensus pattern (43 bp):
CCACCACCACCAGTTCGCTCCTCCACCTCCACCAGTTCAATCT
Found at i:44858375 original size:30 final size:29
Alignment explanation
Indices: 44858341--44858407 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 29
44858331 GATAGTTGAA
* ** *
44858341 TTTTAAATTTTTGTAATTTTTTTATATATT
1 TTTTAAATTTTTATAAGATTTTTAGAT-TT
*
44858371 TTTTAAAATTTTATAAGATTTTTAGATTT
1 TTTTAAATTTTTATAAGATTTTTAGATTT
44858400 TTTTAAAT
1 TTTTAAAT
44858408 AATATTTTAG
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (29 bp):
TTTTAAATTTTTATAAGATTTTTAGATTT
Found at i:44858403 original size:41 final size:41
Alignment explanation
Indices: 44858356--44858434 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
44858346 AATTTTTGTA
* * *
44858356 ATTTTTTTATAT-ATTTTTTAAAATTTTATAAGATTTTTAG
1 ATTTTTTTAAATAATATTTTAAAATTTTACAAGATTTTTAG
* *
44858396 ATTTTTTTAAATAATATTTTAGAATTTTACAATATTTTT
1 ATTTTTTTAAATAATATTTTAAAATTTTACAAGATTTTT
44858435 TTTGTATTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 11 0.33
41 22 0.67
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.61
Consensus pattern (41 bp):
ATTTTTTTAAATAATATTTTAAAATTTTACAAGATTTTTAG
Found at i:44858577 original size:15 final size:15
Alignment explanation
Indices: 44858542--44858588 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
44858532 ACTTTAATTT
44858542 TTTTTAGAATTTATCTA
1 TTTTTAGAATTT-T-TA
*
44858559 TTTTTAAAATTTTTA
1 TTTTTAGAATTTTTA
*
44858574 TTTTTTGAATTTTTA
1 TTTTTAGAATTTTTA
44858589 ATGTACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
15 15 0.56
16 1 0.04
17 11 0.41
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTTTAGAATTTTTA
Found at i:44861751 original size:37 final size:38
Alignment explanation
Indices: 44861690--44861764 Score: 109
Period size: 37 Copynumber: 2.0 Consensus size: 38
44861680 CTGCTGCTTG
* *
44861690 ATTTTGTGCTTCCATTGTCTAA-TTTCCTTCTATTTTCT
1 ATTTTGTGCTTCCATTGTATAATTTTCC-TCAATTTTCT
44861728 ATTTTGTGCTT-CATTGTATAATTTTCCTCAATTTTCT
1 ATTTTGTGCTTCCATTGTATAATTTTCCTCAATTTTCT
44861765 CCTGATGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
37 18 0.53
38 16 0.47
ACGTcount: A:0.16, C:0.19, G:0.08, T:0.57
Consensus pattern (38 bp):
ATTTTGTGCTTCCATTGTATAATTTTCCTCAATTTTCT
Found at i:44864005 original size:13 final size:13
Alignment explanation
Indices: 44863987--44864020 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
44863977 TAGATTTCAT
*
44863987 TGTTAAACTTGAA
1 TGTTAAACTGGAA
*
44864000 TGTTAATCTGGAA
1 TGTTAAACTGGAA
44864013 TGTTAAAC
1 TGTTAAAC
44864021 AAACCATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.38
Consensus pattern (13 bp):
TGTTAAACTGGAA
Found at i:44865432 original size:31 final size:30
Alignment explanation
Indices: 44865397--44865459 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
44865387 TAGTAATAGT
44865397 AAAATTGTACTTTAA-CCTTTCAAAAATGATA
1 AAAATT-TACTTTAACCCTTT-AAAAATGATA
** *
44865428 AAAATTTGGTTTAACCCTTTAAAAATTATA
1 AAAATTTACTTTAACCCTTTAAAAATGATA
44865458 AA
1 AA
44865460 GATATAGGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 17 0.61
31 11 0.39
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.37
Consensus pattern (30 bp):
AAAATTTACTTTAACCCTTTAAAAATGATA
Found at i:44866537 original size:25 final size:25
Alignment explanation
Indices: 44866509--44866573 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
44866499 GGCCAAACAA
*
44866509 AATATGCCACAAAGGTAACATATAG
1 AATATGCCACAAAGGTAACATACAG
*
44866534 AATATGCCACAAAGGTAGCATACAG
1 AATATGCCACAAAGGTAACATACAG
*
44866559 AATACGCCACAAAGG
1 AATATGCCACAAAGG
44866574 CTAATCAGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.15
Consensus pattern (25 bp):
AATATGCCACAAAGGTAACATACAG
Found at i:44866592 original size:23 final size:23
Alignment explanation
Indices: 44866539--44866649 Score: 100
Period size: 23 Copynumber: 4.7 Consensus size: 23
44866529 TATAGAATAT
*
44866539 GCCACAAAGG-TAGCATACAGAATAC
1 GCCACAAAGGCTA--AT-CAGAATTC
44866564 GCCACAAAGGCTAATCAGAATTC
1 GCCACAAAGGCTAATCAGAATTC
* * * *
44866587 GTCACAAATGTCAAAT-AGAATGC
1 GCCACAAA-GGCTAATCAGAATTC
* *
44866610 GCAACAAAGGCTAACCAGAATTC
1 GCCACAAAGGCTAATCAGAATTC
*
44866633 GCCACAAAGGCCAATCA
1 GCCACAAAGGCTAATCA
44866650 AAATGCCACA
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
22 4 0.06
23 46 0.67
24 7 0.10
25 10 0.14
26 2 0.03
ACGTcount: A:0.42, C:0.25, G:0.18, T:0.14
Consensus pattern (23 bp):
GCCACAAAGGCTAATCAGAATTC
Found at i:44866655 original size:46 final size:46
Alignment explanation
Indices: 44866567--44866655 Score: 117
Period size: 46 Copynumber: 1.9 Consensus size: 46
44866557 AGAATACGCC
* * * *
44866567 ACAAAGGCTAATCAGAATTCGTCACAAATGTCAAATAGAATGCGCA
1 ACAAAGGCTAACCAGAATTCGCCACAAATGGCAAATAAAATGCGCA
*
44866613 ACAAAGGCTAACCAGAATTCGCCACAAA-GGCCAATCAAAATGC
1 ACAAAGGCTAACCAGAATTCGCCACAAATGGCAAAT-AAAATGC
44866656 CACATAAACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 5 0.14
46 32 0.86
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.16
Consensus pattern (46 bp):
ACAAAGGCTAACCAGAATTCGCCACAAATGGCAAATAAAATGCGCA
Found at i:44872181 original size:23 final size:23
Alignment explanation
Indices: 44872155--44872211 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
44872145 GTGTACCCAG
* *
44872155 AATTCACCCCAATTATGATACAT
1 AATTCACCACAATTACGATACAT
*
44872178 AATTCACCACAATTGCGATACAT
1 AATTCACCACAATTACGATACAT
*
44872201 AATTTACCACA
1 AATTCACCACA
44872212 TAGACTTAGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.40, C:0.26, G:0.05, T:0.28
Consensus pattern (23 bp):
AATTCACCACAATTACGATACAT
Found at i:44872273 original size:25 final size:25
Alignment explanation
Indices: 44872245--44872311 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
44872235 AGGGCCAAAC
* *
44872245 AGAATATACCACAAAGGTAACATAT
1 AGAATATGCCACAAAGGTAACATAA
*
44872270 AGAATATGCCACAAAGGTAGCATAA
1 AGAATATGCCACAAAGGTAACATAA
44872295 AGAATATGCCACAAAGG
1 AGAATATGCCACAAAGG
44872312 CTAATCAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.49, C:0.16, G:0.18, T:0.16
Consensus pattern (25 bp):
AGAATATGCCACAAAGGTAACATAA
Found at i:44872327 original size:23 final size:23
Alignment explanation
Indices: 44872301--44872392 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
44872291 ATAAAGAATA
*
44872301 TGCCACAAAGGCTAATCAGAATT
1 TGCCACAAAGGCTAATCAAAATT
* * *
44872324 TGCCACAAATG-TCAAACAAAATG
1 TGCCACAAAGGCT-AATCAAAATT
* *
44872347 CGCCACAAAGGCTAACCAAAATT
1 TGCCACAAAGGCTAATCAAAATT
*
44872370 TGCCACAAAGGCCAATCAAAATT
1 TGCCACAAAGGCTAATCAAAATT
44872393 CCACCCAGGC
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 1 0.02
23 54 0.96
24 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.17
Consensus pattern (23 bp):
TGCCACAAAGGCTAATCAAAATT
Found at i:44872390 original size:46 final size:46
Alignment explanation
Indices: 44872302--44872391 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
44872292 TAAAGAATAT
* * * *
44872302 GCCACAAAGGCTAATCAGAATTTGCCACAAATGTCAAACAAAATGC
1 GCCACAAAGGCTAACCAAAATTTGCCACAAAGGCCAAACAAAATGC
*
44872348 GCCACAAAGGCTAACCAAAATTTGCCACAAAGGCCAATCAAAAT
1 GCCACAAAGGCTAACCAAAATTTGCCACAAAGGCCAAACAAAAT
44872392 TCCACCCAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.44, C:0.26, G:0.14, T:0.16
Consensus pattern (46 bp):
GCCACAAAGGCTAACCAAAATTTGCCACAAAGGCCAAACAAAATGC
Found at i:44873805 original size:12 final size:12
Alignment explanation
Indices: 44873782--44873812 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
44873772 CAAATGTCTT
44873782 TAAAAT-AATAA
1 TAAAATAAATAA
44873793 TAAAATAAATAA
1 TAAAATAAATAA
44873805 TAAAATAA
1 TAAAATAA
44873813 GTTTTATACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATAAATAA
Found at i:44873859 original size:22 final size:23
Alignment explanation
Indices: 44873829--44873880 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
44873819 TACAATATCT
44873829 CAACAATAACAACAAAATAGTAG
1 CAACAATAACAACAAAATAGTAG
* **
44873852 CAAC-ATAATAGTAAAATAGTAG
1 CAACAATAACAACAAAATAGTAG
44873874 CAA-AATA
1 CAACAATA
44873881 GGGAGAAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.60, C:0.13, G:0.10, T:0.17
Consensus pattern (23 bp):
CAACAATAACAACAAAATAGTAG
Found at i:44873880 original size:11 final size:11
Alignment explanation
Indices: 44873841--44873881 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
44873831 ACAATAACAA
44873841 CAAAATAGTAG
1 CAAAATAGTAG
* *
44873852 CAACATAATAG
1 CAAAATAGTAG
*
44873863 TAAAATAGTAG
1 CAAAATAGTAG
44873874 CAAAATAG
1 CAAAATAG
44873882 GGAGAAAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.56, C:0.10, G:0.15, T:0.20
Consensus pattern (11 bp):
CAAAATAGTAG
Found at i:44874504 original size:4 final size:4
Alignment explanation
Indices: 44874495--44874539 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
44874485 CTCACTTTGT
44874495 TTTA TTTA TTTA TTTA TTTCGA TTGT- TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTT--A TT-TA TTTA TTTA TTTA TTTA TTT
44874540 CGAGAAGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
3 1 0.03
4 32 0.86
6 3 0.08
7 1 0.03
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:44874520 original size:26 final size:26
Alignment explanation
Indices: 44874491--44874542 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
44874481 TCTACTCACT
44874491 TTGTTTTATTTATTTATTTATTTCGA
1 TTGTTTTATTTATTTATTTATTTCGA
44874517 TTGTTTTATTTATTTATTTATTTCGA
1 TTGTTTTATTTATTTATTTATTTCGA
44874543 GAAGTGTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.04, G:0.08, T:0.69
Consensus pattern (26 bp):
TTGTTTTATTTATTTATTTATTTCGA
Found at i:44875561 original size:24 final size:24
Alignment explanation
Indices: 44875509--44875566 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
44875499 ATGAACGAGT
*
44875509 CAATAAACGAACTTATAAAGTAGT
1 CAATAAACGAACTTATAAAGTAGC
* *
44875533 TAATAAATGAACTTATAAA-TGAGC
1 CAATAAACGAACTTATAAAGT-AGC
44875557 CAATAAACGA
1 CAATAAACGA
44875567 GCTTGTTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.24
Consensus pattern (24 bp):
CAATAAACGAACTTATAAAGTAGC
Found at i:44893382 original size:17 final size:16
Alignment explanation
Indices: 44893339--44893387 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
44893329 ATAATACCTC
*
44893339 ATAAATATATATACGTA
1 ATAAA-ATATATACATA
*
44893356 TTAAAA-ATATACATA
1 ATAAAATATATACATA
44893371 ATAATAATATATACATA
1 ATAA-AATATATACATA
44893388 CAAAGTACAC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 11 0.41
16 3 0.11
17 13 0.48
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (16 bp):
ATAAAATATATACATA
Found at i:44893444 original size:18 final size:19
Alignment explanation
Indices: 44893398--44893463 Score: 54
Period size: 18 Copynumber: 3.7 Consensus size: 19
44893388 CAAAGTACAC
*
44893398 TAATATTTAAAAATAATAA
1 TAATAGTTAAAAATAATAA
* *
44893417 TAATAG-TAAACATAATAT
1 TAATAGTTAAAAATAATAA
44893435 TAAT-GTT--AAATAA-AA
1 TAATAGTTAAAAATAATAA
44893450 CTAATA-TTAAAAAT
1 -TAATAGTTAAAAAT
44893464 TTAATTTGAG
Statistics
Matches: 37, Mismatches: 5, Indels: 11
0.70 0.09 0.21
Matches are distributed among these distances:
15 1 0.03
16 11 0.30
17 1 0.03
18 19 0.51
19 5 0.14
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
TAATAGTTAAAAATAATAA
Found at i:44898504 original size:25 final size:25
Alignment explanation
Indices: 44898475--44898529 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
44898465 GGGATTTTTA
44898475 TTTAATATTAATATATT-TATATTTC
1 TTTAATATTAAT-TATTATATATTTC
*
44898500 TTTAATATTAATTTTTATATATTTC
1 TTTAATATTAATTATTATATATTTC
44898525 TTTAA
1 TTTAA
44898530 ATTTTTTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 3 0.11
25 25 0.89
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (25 bp):
TTTAATATTAATTATTATATATTTC
Found at i:44907699 original size:31 final size:30
Alignment explanation
Indices: 44907663--44907734 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
44907653 GATTAAATCA
*
44907663 AAATTAAAGTTTCAAGTATACATTTGAACC
1 AAATTAAAGTTTCAAGTATACAATTGAACC
* * * * *
44907693 ACAATTAGAGTTTCACGTGTATAATTGCACC
1 A-AATTAAAGTTTCAAGTATACAATTGAACC
44907724 AAATTAAAGTT
1 AAATTAAAGTT
44907735 CATGTACGTA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCAAGTATACAATTGAACC
Found at i:44914269 original size:31 final size:31
Alignment explanation
Indices: 44914231--44914384 Score: 127
Period size: 31 Copynumber: 5.0 Consensus size: 31
44914221 GACATAGTCC
44914231 GCATGTATGATTTCGCCATATCTATGAATTA
1 GCATGTATGATTTCGCCATATCTATGAATTA
* * **
44914262 GCATGTATGAGTTT-ACTATATCTATGAATCC
1 GCATGTATGA-TTTCGCCATATCTATGAATTA
* *
44914293 GCTTGTATGAGTTT-GCCATATCTATGAATTT
1 GCATGTATGA-TTTCGCCATATCTATGAATTA
* * * * * *
44914324 GTATGTATAAGTTCACTATATCTATGAATCCA
1 GCATGTATGATTTCGCCATATCTATGAAT-TA
*
44914356 -CATGTATGA-GTCTGCCATATCTATGAATT
1 GCATGTATGATTTC-GCCATATCTATGAATT
44914385 TTCTACTATG
Statistics
Matches: 96, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
30 4 0.04
31 89 0.93
32 3 0.03
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.40
Consensus pattern (31 bp):
GCATGTATGATTTCGCCATATCTATGAATTA
Found at i:44914330 original size:62 final size:62
Alignment explanation
Indices: 44914228--44914385 Score: 237
Period size: 62 Copynumber: 2.5 Consensus size: 62
44914218 CGTGACATAG
* * *
44914228 TCCGCATGTATGA-TTTCGCCATATCTATGAATTAGCATGTATGAGTTTACTATATCTATGAA
1 TCCGCATGTATGAGTTT-GCCATATCTATGAATTTGCATGTATAAGTTCACTATATCTATGAA
* *
44914290 TCCGCTTGTATGAGTTTGCCATATCTATGAATTTGTATGTATAAGTTCACTATATCTATGAA
1 TCCGCATGTATGAGTTTGCCATATCTATGAATTTGCATGTATAAGTTCACTATATCTATGAA
* *
44914352 TCCACATGTATGAGTCTGCCATATCTATGAATTT
1 TCCGCATGTATGAGTTTGCCATATCTATGAATTT
44914386 TCTACTATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
62 84 0.97
63 3 0.03
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (62 bp):
TCCGCATGTATGAGTTTGCCATATCTATGAATTTGCATGTATAAGTTCACTATATCTATGAA
Found at i:44914394 original size:45 final size:45
Alignment explanation
Indices: 44914345--44914433 Score: 126
Period size: 45 Copynumber: 2.0 Consensus size: 45
44914335 TTCACTATAT
*
44914345 CTATGAATCCACATGTATG-AGTCTGCCATATCTATGAATTTTCTA
1 CTATGAATCCACATGTATGAAGTCT-CCACATCTATGAATTTTCTA
* * *
44914390 CTATGAATTCACATGTATGAATTCTCTACATCTATGAATTTTCT
1 CTATGAATCCACATGTATGAAGTCTCCACATCTATGAATTTTCT
44914434 TTTACGAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
45 35 0.90
46 4 0.10
ACGTcount: A:0.29, C:0.19, G:0.11, T:0.40
Consensus pattern (45 bp):
CTATGAATCCACATGTATGAAGTCTCCACATCTATGAATTTTCTA
Found at i:44916175 original size:19 final size:19
Alignment explanation
Indices: 44916149--44916193 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
44916139 TTGACTGGCT
44916149 TATATAATATACTGACCTA
1 TATATAATATACTGACCTA
* *
44916168 TTTATAATATATTGACCTA
1 TATATAATATACTGACCTA
44916187 TATATAA
1 TATATAA
44916194 ATCTACTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (19 bp):
TATATAATATACTGACCTA
Found at i:44917658 original size:38 final size:38
Alignment explanation
Indices: 44917616--44917690 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
44917606 CATACAATCT
* * *
44917616 TTTCTTACTATTCAATATATTCACAAGTTCAAGAAGCC
1 TTTCTCACCATTCAAAATATTCACAAGTTCAAGAAGCC
*
44917654 TTTCTCGCCATTCAAAATATTCACAAGTTCAAGAAGC
1 TTTCTCACCATTCAAAATATTCACAAGTTCAAGAAGC
44917691 TCAGAAGATC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (38 bp):
TTTCTCACCATTCAAAATATTCACAAGTTCAAGAAGCC
Found at i:44924723 original size:3 final size:3
Alignment explanation
Indices: 44924715--44924763 Score: 71
Period size: 3 Copynumber: 15.7 Consensus size: 3
44924705 TAGAAGTTTT
*
44924715 AAC AAC AAC AAC AAC AAAC AAC AAAC AAC AAC AAC AGC AAC AAC AAC
1 AAC AAC AAC AAC AAC -AAC AAC -AAC AAC AAC AAC AAC AAC AAC AAC
44924762 AA
1 AA
44924764 TAATAATAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 36 0.86
4 6 0.14
ACGTcount: A:0.67, C:0.31, G:0.02, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:44928111 original size:21 final size:22
Alignment explanation
Indices: 44928071--44928115 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
44928061 CGTCTTTGTG
44928071 TTGCATGGCTATGAAAAAAAGC
1 TTGCATGGCTATGAAAAAAAGC
44928093 TTGCATGGCTATGAAAAAAAGC
1 TTGCATGGCTATGAAAAAAAGC
44928115 T
1 T
44928116 GTGTTCCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (22 bp):
TTGCATGGCTATGAAAAAAAGC
Found at i:44931775 original size:16 final size:16
Alignment explanation
Indices: 44931754--44931799 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
44931744 TGTATATTAA
44931754 TTATAAACTCATTTAG
1 TTATAAACTCATTTAG
44931770 TTATAAACTCATTTAG
1 TTATAAACTCATTTAG
* *
44931786 TCATGAACTCATTT
1 TTATAAACTCATTT
44931800 CACTATAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (16 bp):
TTATAAACTCATTTAG
Found at i:44943595 original size:12 final size:12
Alignment explanation
Indices: 44943580--44943611 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
44943570 AACTAAAATA
44943580 GAAGAATTGTTC
1 GAAGAATTGTTC
44943592 GAAGAATTGTTC
1 GAAGAATTGTTC
44943604 GAAGAATT
1 GAAGAATT
44943612 CACGTAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (12 bp):
GAAGAATTGTTC
Found at i:44944441 original size:78 final size:78
Alignment explanation
Indices: 44944330--44944624 Score: 475
Period size: 78 Copynumber: 3.8 Consensus size: 78
44944320 CGAAGAAACA
** * *
44944330 GATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
44944395 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
44944408 GATTTGGCATCTCTGTATTAGACGGGGAACAGATCGAAGACACAGTAGATCTGACCTTCATTGAA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
44944473 GCAGATCCAAGAT
66 GCAGATCCAAGAT
*
44944486 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
*
44944550 AGCAGATCTAAGAT
65 AGCAGATCCAAGAT
* *
44944564 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTAACCTTCAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCAT
44944625 GTGTTTACAT
Statistics
Matches: 200, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
77 1 0.00
78 198 0.99
79 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:44944719 original size:45 final size:45
Alignment explanation
Indices: 44944641--44944837 Score: 252
Period size: 45 Copynumber: 4.4 Consensus size: 45
44944631 ACATCGAAGT
* *
44944641 AGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * * * * *
44944686 AAATCGGAGATAATAGATTTGGCATATCTGTATTAGACGGTGAGT
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* * *
44944731 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
**
44944775 AGATCGAAGATAACAGATTTGGTGTCTCTGTATTAGACGGGGAGC
1 AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
* *
44944820 AGATCAAAGATAGCAGAT
1 AGATCGAAGATAACAGAT
44944838 ATCACCTTCC
Statistics
Matches: 129, Mismatches: 22, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
44 37 0.29
45 92 0.71
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (45 bp):
AGATCGAAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGC
Found at i:44944774 original size:89 final size:90
Alignment explanation
Indices: 44944641--44944837 Score: 263
Period size: 89 Copynumber: 2.2 Consensus size: 90
44944631 ACATCGAAGT
* * *
44944641 AGATCCAAGAT-GACAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGGAGATAATAGATT
1 AGATCAAAGATAG-CAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATT
* *
44944705 TGGCATATCTGTATTAGACGGTGAGT
65 TGGCATATCTGTATTAGACGGGGAGC
** * *
44944731 AGATTGAAGA-AGCAGATTTGGCGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAACAGATTT
1 AGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTT
** *
44944795 GGTGTCTCTGTATTAGACGGGGAGC
66 GGCATATCTGTATTAGACGGGGAGC
44944820 AGATCAAAGATAGCAGAT
1 AGATCAAAGATAGCAGAT
44944838 ATCACCTTCC
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 76 0.83
90 16 0.17
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.26
Consensus pattern (90 bp):
AGATCAAAGATAGCAGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAGATTT
GGCATATCTGTATTAGACGGGGAGC
Found at i:44945428 original size:18 final size:18
Alignment explanation
Indices: 44945380--44945432 Score: 72
Period size: 17 Copynumber: 2.9 Consensus size: 18
44945370 ATAATCTTCA
*
44945380 ATGATATGCAATATTAGAT
1 ATGAT-TGCAATCTTAGAT
*
44945399 ATGA-TACAATCTTAGAT
1 ATGATTGCAATCTTAGAT
44945416 ATGATTGCAATCTTAGA
1 ATGATTGCAATCTTAGA
44945433 AGATATGATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 15 0.50
18 11 0.37
19 4 0.13
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (18 bp):
ATGATTGCAATCTTAGAT
Found at i:44961579 original size:49 final size:49
Alignment explanation
Indices: 44961507--44961604 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
44961497 TCCAAATACA
44961507 CTGCTCCTCTTCAAATAATGGCTGTAGATGTTTGGGGGCTAGCTTCAGT
1 CTGCTCCTCTTCAAATAATGGCTGTAGATGTTTGGGGGCTAGCTTCAGT
*
44961556 CTGCTCCTCTTCAATTAATGGCTGTAGATGTTTGGGGGCTAGCTTCAGT
1 CTGCTCCTCTTCAAATAATGGCTGTAGATGTTTGGGGGCTAGCTTCAGT
44961605 ATGTTCTAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.36
Consensus pattern (49 bp):
CTGCTCCTCTTCAAATAATGGCTGTAGATGTTTGGGGGCTAGCTTCAGT
Found at i:44965392 original size:22 final size:21
Alignment explanation
Indices: 44965345--44965398 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 21
44965335 TATTACGTTA
*
44965345 GTGCTCTCCGTTAGCACATTC
1 GTGCTCTCTGTTAGCACATTC
*
44965366 GTGCTCTCTGTATAGCACCTTAC
1 GTGCTCTCTGT-TAGCACATT-C
44965389 -TGCTCTCTGT
1 GTGCTCTCTGT
44965399 CCATTAGTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
22 18 0.62
23 1 0.03
ACGTcount: A:0.13, C:0.31, G:0.19, T:0.37
Consensus pattern (21 bp):
GTGCTCTCTGTTAGCACATTC
Found at i:44965900 original size:20 final size:22
Alignment explanation
Indices: 44965865--44965905 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
44965855 AAACTCAATC
*
44965865 TATTTTGGGTTTTTATTTGAAG
1 TATTTTGGGTTTTTATATGAAG
44965887 TATTTT-GG-TTTTATATGAA
1 TATTTTGGGTTTTTATATGAA
44965906 ATGATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 2 0.11
22 6 0.33
ACGTcount: A:0.22, C:0.00, G:0.20, T:0.59
Consensus pattern (22 bp):
TATTTTGGGTTTTTATATGAAG
Found at i:44965912 original size:21 final size:22
Alignment explanation
Indices: 44965865--44965912 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
44965855 AAACTCAATC
* *
44965865 TATTTTGGGTTTTTATTTGAAG
1 TATTTTGGGTTTTTATATGAAA
44965887 TATTTT-GG-TTTTATATGAAA
1 TATTTTGGGTTTTTATATGAAA
44965907 TGATTT
1 T-ATTT
44965913 ATTGAGGTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.48
21 6 0.26
22 6 0.26
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (22 bp):
TATTTTGGGTTTTTATATGAAA
Found at i:44972006 original size:38 final size:38
Alignment explanation
Indices: 44971957--44972050 Score: 97
Period size: 37 Copynumber: 2.5 Consensus size: 38
44971947 AATATAAAGA
* *
44971957 ATATATAAGTATGTATATG-ATGTA-AAATATGCATAAAT
1 ATATATAAGTATGTATAAGAAT-TAGAAATATG-AAAAAT
*
44971995 ATATGTAAGTA--TATAAGAATTATGAAATATGAAAAAT
1 ATATATAAGTATGTATAAGAATTA-GAAATATGAAAAAT
*
44972032 ATATTTAAGTATGTATAAG
1 ATATATAAGTATGTATAAG
44972051 TACGTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
36 7 0.15
37 17 0.36
38 17 0.36
39 6 0.13
ACGTcount: A:0.49, C:0.01, G:0.14, T:0.36
Consensus pattern (38 bp):
ATATATAAGTATGTATAAGAATTAGAAATATGAAAAAT
Found at i:44974001 original size:44 final size:42
Alignment explanation
Indices: 44973921--44974222 Score: 152
Period size: 44 Copynumber: 6.9 Consensus size: 42
44973911 GCTTCGCTAA
* * *
44973921 CAAATACAGGAAGGCAAGATCTGCAATCCTCAATCTA-TTCCACTGC
1 CAAATACAGG--GACAAGATCTGC-ATCTTCGATCTACTT-CAC-GC
*
44973967 CAAATACAGGGACAAGATCTGCTTTCTTCGATCTACTTCACGC
1 CAAATACAGGGACAAGATCTGC-ATCTTCGATCTACTTCACGC
* * * *
44974010 C-AATACATGAAGATAAGATCTGCATCTTCGATCCACTTC-CTAC
1 CAAATACA-G-GGACAAGATCTGCATCTTCGATCTACTTCAC-GC
** * * *
44974053 C-AATACAGGAAGACCGGACCTGTTACCTTCGATCTACTTCACGC
1 CAAATACAGG--GACAAGATCTG-CATCTTCGATCTACTTCACGC
* * * *
44974097 C-AATACATGAAGATAAGATCTGCATCTTCGATCCACTTC-CTAC
1 CAAATACA-G-GGACAAGATCTGCATCTTCGATCTACTTCAC-GC
* * * *
44974140 C-AATATAGGAAGATAGGATCTGATATCTTCGATCTACTTCACGC
1 CAAATACAGG--GACAAGATCTG-CATCTTCGATCTACTTCACGC
* *
44974184 C-AATACATGAAGACAAGATCTGCTTTCTTCGATCTACTT
1 CAAATACA-G-GGACAAGATCTGC-ATCTTCGATCTACTT
44974223 TGCCATCAAT
Statistics
Matches: 198, Mismatches: 40, Indels: 38
0.72 0.14 0.14
Matches are distributed among these distances:
42 10 0.05
43 64 0.32
44 108 0.55
45 6 0.03
46 10 0.05
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (42 bp):
CAAATACAGGGACAAGATCTGCATCTTCGATCTACTTCACGC
Found at i:44974094 original size:87 final size:88
Alignment explanation
Indices: 44973977--44974507 Score: 511
Period size: 87 Copynumber: 6.0 Consensus size: 88
44973967 CAAATACAGG
* *
44973977 GACAAGATCTGCTT-TCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGC-ATCTTCG
1 GACAGGATCTG-TTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCG
*
44974040 ATCCACTTCCTACCAATACAGGAA
65 ATCCACTTCCTACCAATATAGGAA
* * * *
44974064 GACCGGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAAGATAAGATCTGC-ATCTTCGA
1 GACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGA
44974128 TCCACTTCCTACCAATATAGGAA
66 TCCACTTCCTACCAATATAGGAA
* * *
44974151 GATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGA
1 GACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGA
* * *
44974216 TCTACTTTGCC-ATCAATATGGGAA
66 TCCAC-TT-CCTACCAATATAGGAA
* * * * * * * * * *
44974240 GACAAGATCTG-GATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGCTACCTTCG
1 GACAGGATCTGTTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTCG
** * * * *
44974303 ATCTTCTTCATGCCAATACATGAA
65 ATCCACTTCCTACCAATATAGGAA
* * * * * *** *
44974327 GACAAGATCTGCTT-TCTGCGATCTGCTTCGCCACCAATATGGGAAGACAAGATCTG-TATCTTT
1 GACAGGATCTG-TTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTATCTTC
44974390 GATCCACTTCCTACCAATATAGGAA
64 GATCCACTTCCTACCAATATAGGAA
* * * * * * *
44974415 GATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAAGACAATATCTGCTTTCTGCGA
1 GACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGA
* * *
44974480 TCTACTTCGCCACCAATATGGGAA
66 TCCACTTC-CTACCAATATAGGAA
44974504 GACA
1 GACA
44974508 AGATTTACAT
Statistics
Matches: 362, Mismatches: 69, Indels: 24
0.80 0.15 0.05
Matches are distributed among these distances:
86 3 0.01
87 172 0.48
88 126 0.35
89 58 0.16
90 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (88 bp):
GACAGGATCTGTTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGA
TCCACTTCCTACCAATATAGGAA
Found at i:44974257 original size:44 final size:43
Alignment explanation
Indices: 44973977--44974548 Score: 454
Period size: 44 Copynumber: 13.0 Consensus size: 43
44973967 CAAATACAGG
* * * *
44973977 GACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAA
* * *
44974021 GATAAGATCTGC-ATCTTCGATCCACTTCCTACCAATACAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAA
** * * * * * *
44974064 GACCGGACCTGTTACCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAA
* *
44974108 GATAAGATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAA
* * * * * *
44974151 GATAGGATCTGATATCTTCGATCTACTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAA
* * *
44974195 GACAAGATCTGCTTTCTTCGATCTACTTTGCCATCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTAC-TT-CCACCAATATAGGAA
* *
44974240 GACAAGATCTG-GATCTTCGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAA
* * * * * * *
44974283 GATAGGACCTGCTACCTTCGATCTTCTT-CATGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCCA--CCAATATAGGAA
* * * *
44974327 GACAAGATCTGCTTTCTGCGATCTGCTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAA
* *
44974372 GACAAGATCTG-TATCTTTGATCCACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAA
* * * * * * *
44974415 GATAGGATCTGCTACCTTCGATCTTCTTCACGCCAATACATGAA
1 GACAAGATCTGCTATCTTCGATCTACTTC-CACCAATATAGGAA
* * * *
44974459 GACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAA
1 GACAAGATCTGCTATCTTCGATCTACTT--CCACCAATATAGGAA
* * *
44974504 GACAAGATTTAC-ATCTTTGATCTACTTCCTACCAATATAGGAA
1 GACAAGATCTGCTATCTTCGATCTACTTCC-ACCAATATAGGAA
44974547 GA
1 GA
44974549 TAGGACCTAT
Statistics
Matches: 411, Mismatches: 96, Indels: 43
0.75 0.17 0.08
Matches are distributed among these distances:
42 9 0.02
43 123 0.30
44 211 0.51
45 64 0.16
46 2 0.00
47 2 0.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (43 bp):
GACAAGATCTGCTATCTTCGATCTACTTCCACCAATATAGGAA
Found at i:44974275 original size:132 final size:132
Alignment explanation
Indices: 44974105--44974553 Score: 736
Period size: 132 Copynumber: 3.4 Consensus size: 132
44974095 GCCAATACAT
* * *
44974105 GAAGATAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGATATCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
* * * *
44974170 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTTGCCATCAATAT
66 GATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
44974235 GG
131 GG
* *
44974237 GAAGACAAGATCTGGATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
* *
44974302 GATCTTCTTCATGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTGCTTCGCCACCAATAT
66 GATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
44974367 GG
131 GG
* *
44974369 GAAGACAAGATCTGTATCTTTGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
*
44974434 GATCTTCTTCACGCCAATACATGAAGACAATATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
66 GATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
44974499 GG
131 GG
* * * *
44974501 GAAGACAAGATTTACATCTTTGATCTACTTCCTACCAATATAGGAAGATAGGA
1 GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGA
44974554 CCTATTTACG
Statistics
Matches: 296, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 296 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
GAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTC
GATCTTCTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
GG
Found at i:44990403 original size:90 final size:90
Alignment explanation
Indices: 44990286--44990476 Score: 310
Period size: 90 Copynumber: 2.1 Consensus size: 90
44990276 TTTTTCAAGT
* * *
44990286 TGATTTCTTAATTATTTTATGACAATTCACTCCTATATTCTTATTTTGGTCAACCATACGTCTTA
1 TGATTTCTTAATCATTCTATGACAATTCACTCATATATTCTTATTTTGGTCAACCATACGTCTTA
*
44990351 GAATGCCCGAAAAACCTATAAATAG
66 GAATGCCCGAAAAACCTATAAATAA
* *
44990376 TGATTTCTTAATCATTCTATGACAATTCACTCATATCTTCTTATTTTGGTCAACCATATGTCTTA
1 TGATTTCTTAATCATTCTATGACAATTCACTCATATATTCTTATTTTGGTCAACCATACGTCTTA
*
44990441 GAATGCCGGAAAAACCTATAAATAA
66 GAATGCCCGAAAAACCTATAAATAA
*
44990466 TGATTTTTTAA
1 TGATTTCTTAA
44990477 AGTTGGGTGT
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
90 93 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (90 bp):
TGATTTCTTAATCATTCTATGACAATTCACTCATATATTCTTATTTTGGTCAACCATACGTCTTA
GAATGCCCGAAAAACCTATAAATAA
Found at i:44992020 original size:19 final size:19
Alignment explanation
Indices: 44991996--44992037 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
44991986 GATTAAACTT
44991996 TAATTAATT-ATAATTAAC
1 TAATTAATTAATAATTAAC
44992014 ATAATTAATTAATAATTAAC
1 -TAATTAATTAATAATTAAC
44992034 TAAT
1 TAAT
44992038 GTTAACCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
TAATTAATTAATAATTAAC
Found at i:44992456 original size:4 final size:4
Alignment explanation
Indices: 44992455--44992580 Score: 198
Period size: 4 Copynumber: 31.5 Consensus size: 4
44992445 ATATGCATGC
* * *
44992455 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGC ATGC
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* * *
44992503 ATGT ATGT ATGC ATGC ATGT ATAT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
44992551 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
44992581 ATTTGATTTC
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 116 1.00
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.46
Consensus pattern (4 bp):
ATGT
Found at i:44993740 original size:14 final size:14
Alignment explanation
Indices: 44993715--44993759 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
44993705 TCAGCTAACC
44993715 TGATTGTGCAAGTTG
1 TGATT-TGCAAGTTG
44993730 TGATTTGCAAGTTG
1 TGATTTGCAAGTTG
** *
44993744 CAATGTGCAAGTTG
1 TGATTTGCAAGTTG
44993758 TG
1 TG
44993760 CAAGTTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 20 0.80
15 5 0.20
ACGTcount: A:0.22, C:0.09, G:0.31, T:0.38
Consensus pattern (14 bp):
TGATTTGCAAGTTG
Found at i:44997632 original size:46 final size:45
Alignment explanation
Indices: 44997467--44997639 Score: 136
Period size: 46 Copynumber: 3.8 Consensus size: 45
44997457 GTAACCCGCC
* ** ** *
44997467 CCTAAGTGAACTCGGACTCAACTCAATGAGCCCGGGCGTTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
* * * *
44997512 CCATAAGTGAACTCAGACTCAACTCAATGAGTTCAGATGCCTAGTT-ACAT
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTC-GA--AC-A-TTCGCAT
* * * *
44997562 -CTCA-CGAACCCGAACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
44997605 CCGTAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CC-TAAGTGAACTCGGACTCAACTCAACGAGTTCG
44997640 GATGCTCAAC
Statistics
Matches: 99, Mismatches: 19, Indels: 19
0.72 0.14 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 55 0.56
47 23 0.23
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.21
Consensus pattern (45 bp):
CCTAAGTGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
Found at i:45006839 original size:9 final size:9
Alignment explanation
Indices: 45006825--45006853 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
45006815 CAAGTTGCAA
45006825 TGTGCAAGT
1 TGTGCAAGT
45006834 TGTGCAAGT
1 TGTGCAAGT
45006843 TGTGCAAGT
1 TGTGCAAGT
45006852 TG
1 TG
45006854 CAATGAAGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.34, T:0.34
Consensus pattern (9 bp):
TGTGCAAGT
Found at i:45023217 original size:19 final size:19
Alignment explanation
Indices: 45023175--45023214 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
45023165 ATATTAAACT
*
45023175 TTAATTAATTATAATTGAC
1 TTAATTAATTATAATTAAC
45023194 TTAATTAATTAATAATTAAC
1 TTAATTAATT-ATAATTAAC
45023214 T
1 T
45023215 AATGTTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
TTAATTAATTATAATTAAC
Found at i:45024131 original size:49 final size:49
Alignment explanation
Indices: 45024037--45024156 Score: 132
Period size: 49 Copynumber: 2.4 Consensus size: 49
45024027 CGATATAATG
* * *
45024037 ATTCAAAGCCATCATTGTTAGGCCACTCAAGATGATAAAATATGCAAAT
1 ATTCAAAGCCATCATTGTTGGGCCACTCAAGATGATAAAACATGCAAAC
*** * *
45024086 ATTCAAAGCCATCATTGTTGGGCCACTTGGGATGGTAGAACATGCAAAC
1 ATTCAAAGCCATCATTGTTGGGCCACTCAAGATGATAAAACATGCAAAC
* * * *
45024135 AGTAAAAGTCATCATTTTTGGG
1 ATTCAAAGCCATCATTGTTGGG
45024157 TCATCCGAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 59 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (49 bp):
ATTCAAAGCCATCATTGTTGGGCCACTCAAGATGATAAAACATGCAAAC
Found at i:45030493 original size:4 final size:4
Alignment explanation
Indices: 45030484--45030514 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
45030474 ATTTCATTTA
45030484 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
45030515 ATTTGATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:45032819 original size:41 final size:41
Alignment explanation
Indices: 45032774--45032857 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
45032764 GGACAATATG
*
45032774 GATTCTAGCACGCTGATGGTAATTGCTTCTACATCTCTTAA
1 GATTCTAGCACGCTGATGGTAACTGCTTCTACATCTCTTAA
45032815 GATTCTAGCACGCTGATGGTAACTGCTTCTACATCTCTTAA
1 GATTCTAGCACGCTGATGGTAACTGCTTCTACATCTCTTAA
45032856 GA
1 GA
45032858 CGCTAATCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (41 bp):
GATTCTAGCACGCTGATGGTAACTGCTTCTACATCTCTTAA
Found at i:45035712 original size:35 final size:36
Alignment explanation
Indices: 45035652--45035813 Score: 188
Period size: 35 Copynumber: 4.6 Consensus size: 36
45035642 TCCTTATTGA
* * * *
45035652 AATACCACACCTGCATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
** **
45035687 AATGTCATACCTACGTTTCTTAACTCAGTAT-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
*
45035722 AATACCATACCTACGTTTCACAACTCAGTAT-GGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
* *
45035757 AATACCATACCTATGTTTCACAAATCAGTAT-GGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAT
*
45035792 GATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
45035814 GCTTTTCTAT
Statistics
Matches: 108, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
34 3 0.03
35 105 0.97
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (36 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAT
Found at i:45035766 original size:70 final size:70
Alignment explanation
Indices: 45035652--45035813 Score: 207
Period size: 70 Copynumber: 2.3 Consensus size: 70
45035642 TCCTTATTGA
* * * * ** ** *
45035652 AATACCACACCTGCATTTCACAACTCGGTATGGGAAATGTCATACCTACGTTTCTTAACTCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAAATCAGTA
45035717 TGGAT
66 TGGAT
** *
45035722 AATACCATACCTACGTTTCACAACTCAGTATGGTTAATACCATACCTATGTTTCACAAATCAGTA
1 AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAAATCAGTA
45035787 TGGAT
66 TGGAT
*
45035792 GATACCATACCTACGTTTCACA
1 AATACCATACCTACGTTTCACA
45035814 GCTTTTCTAT
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
70 79 1.00
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (70 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGGAAATACCATACCTACGTTTCACAAATCAGTA
TGGAT
Found at i:45037599 original size:30 final size:30
Alignment explanation
Indices: 45037545--45037602 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
45037535 CATAGCTATG
* *
45037545 ACACACGGGCGTGTGGTCTTCCCGTGTGTC
1 ACACACAGGCGTGTGGTCTACCCGTGTGTC
45037575 ACACACAGGCGTGTGGATC-ACCCGTGTG
1 ACACACAGGCGTGTGG-TCTACCCGTGTG
45037603 GAAGTTTCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.16, C:0.29, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACAGGCGTGTGGTCTACCCGTGTGTC
Found at i:45046653 original size:12 final size:12
Alignment explanation
Indices: 45046636--45046667 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
45046626 GCTATGCCAT
45046636 AAATATTTCTAA
1 AAATATTTCTAA
*
45046648 AAATATTTTTAA
1 AAATATTTCTAA
45046660 AAATATTT
1 AAATATTT
45046668 ATGGTTCGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (12 bp):
AAATATTTCTAA
Found at i:45052967 original size:35 final size:35
Alignment explanation
Indices: 45052887--45053085 Score: 265
Period size: 35 Copynumber: 5.7 Consensus size: 35
45052877 CCTCATTGAC
* *
45052887 ATACCATACCTACATTTCACAACTCGGTATGGGA-A
1 ATACCATACCTACGTTTCACAACTCAGTAT-GGATA
* ** **
45052922 ATGCGGTACCTACGTTTCTTAACTCAGTATGGATA
1 ATACCATACCTACGTTTCACAACTCAGTATGGATA
* *
45052957 ATACCATACCTACGTTCCACAACTCAGTATGGTTA
1 ATACCATACCTACGTTTCACAACTCAGTATGGATA
* *
45052992 ATACCATACCTACGTTTCACAACTCAGCATGGTTA
1 ATACCATACCTACGTTTCACAACTCAGTATGGATA
*
45053027 ATACCATACCTACGTTTCACAACTCAGTATGGATG
1 ATACCATACCTACGTTTCACAACTCAGTATGGATA
*
45053062 ATACCATACCTAAGTTTCACAACT
1 ATACCATACCTACGTTTCACAACT
45053086 TTTCCATGGA
Statistics
Matches: 143, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
34 3 0.02
35 140 0.98
ACGTcount: A:0.32, C:0.26, G:0.13, T:0.29
Consensus pattern (35 bp):
ATACCATACCTACGTTTCACAACTCAGTATGGATA
Found at i:45058040 original size:30 final size:30
Alignment explanation
Indices: 45057983--45058040 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
45057973 CACGACCATG
* *
45057983 ACACATGGGCGTGTGGTCTACCAGTGTGTC
1 ACACACGGGCGTGTGATCTACCAGTGTGTC
*
45058013 ACACACGGGCGTGTAGATC-ACCCGTGTG
1 ACACACGGGCGTGT-GATCTACCAGTGTG
45058041 GAAGTACCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.88
31 3 0.12
ACGTcount: A:0.19, C:0.26, G:0.33, T:0.22
Consensus pattern (30 bp):
ACACACGGGCGTGTGATCTACCAGTGTGTC
Found at i:45058513 original size:18 final size:16
Alignment explanation
Indices: 45058472--45058514 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
45058462 TTTCCCCTTT
45058472 CTTTCC-CTTTCTCCC
1 CTTTCCTCTTTCTCCC
*
45058487 CTCTCCTCTTTCTCCC
1 CTTTCCTCTTTCTCCC
45058503 CATTTTCCTCTT
1 C--TTTCCTCTT
45058515 ACCCGCACGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 10 0.43
18 8 0.35
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (16 bp):
CTTTCCTCTTTCTCCC
Found at i:45060376 original size:6 final size:6
Alignment explanation
Indices: 45060361--45060471 Score: 98
Period size: 6 Copynumber: 18.3 Consensus size: 6
45060351 ATTGAGTACA
* * ** * *
45060361 TTTATC TTTATG TTTATT TTTATT TTTAGG TTTATT TTTATT TTTCTC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* ** * *
45060409 TTTATG TTTATT TTTAGG TTTATT TTTATT TTTCTT TTTATG TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
45060457 TTGT-TT TTATATT TT
1 TT-TATT TT-TATT TT
45060472 GAACTTTATT
Statistics
Matches: 83, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
6 78 0.94
7 5 0.06
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:45060388 original size:18 final size:18
Alignment explanation
Indices: 45060361--45060458 Score: 115
Period size: 18 Copynumber: 5.4 Consensus size: 18
45060351 ATTGAGTACA
*
45060361 TTTATCTTTATGTTTATT
1 TTTATTTTTATGTTTATT
*
45060379 TTTATTTTTAGGTTTATT
1 TTTATTTTTATGTTTATT
* * *
45060397 TTTATTTTTCTCTTTATG
1 TTTATTTTTATGTTTATT
*
45060415 TTTATTTTTAGGTTTATT
1 TTTATTTTTATGTTTATT
* * *
45060433 TTTATTTTTCTTTTTATG
1 TTTATTTTTATGTTTATT
45060451 TTTATTTT
1 TTTATTTT
45060459 GTTTTTATAT
Statistics
Matches: 66, Mismatches: 14, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.14, C:0.04, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTATTTTTATGTTTATT
Found at i:45060413 original size:36 final size:36
Alignment explanation
Indices: 45060373--45060458 Score: 154
Period size: 36 Copynumber: 2.4 Consensus size: 36
45060363 TATCTTTATG
*
45060373 TTTATTTTTATTTTTAGGTTTATTTTTATTTTTCTC
1 TTTATGTTTATTTTTAGGTTTATTTTTATTTTTCTC
*
45060409 TTTATGTTTATTTTTAGGTTTATTTTTATTTTTCTT
1 TTTATGTTTATTTTTAGGTTTATTTTTATTTTTCTC
45060445 TTTATGTTTATTTT
1 TTTATGTTTATTTT
45060459 GTTTTTATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 48 1.00
ACGTcount: A:0.14, C:0.03, G:0.07, T:0.76
Consensus pattern (36 bp):
TTTATGTTTATTTTTAGGTTTATTTTTATTTTTCTC
Found at i:45060791 original size:59 final size:59
Alignment explanation
Indices: 45060720--45060843 Score: 230
Period size: 59 Copynumber: 2.1 Consensus size: 59
45060710 AATGTACATC
*
45060720 TTAAATGTGGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGT
1 TTAAGTGTGGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGT
*
45060779 TTAAGTGTGGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTGTGT
1 TTAAGTGTGGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGT
45060838 TTAAGT
1 TTAAGT
45060844 AATTTGCTCA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.43
Consensus pattern (59 bp):
TTAAGTGTGGGGAGGTTATTTATATGATTATTTGAAAATCCCTGACTTATGCCTTATGT
Found at i:45076928 original size:23 final size:22
Alignment explanation
Indices: 45076902--45076952 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
45076892 TTACTGGATT
45076902 CATCTATTTATTCTTACTCAAAC
1 CATCTATTT-TTCTTACTCAAAC
* *
45076925 CATC-AATTTTCTTACTCAGAC
1 CATCTATTTTTCTTACTCAAAC
*
45076946 CTTCTAT
1 CATCTAT
45076953 CTAACTTGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 15 0.65
22 4 0.17
23 4 0.17
ACGTcount: A:0.27, C:0.27, G:0.02, T:0.43
Consensus pattern (22 bp):
CATCTATTTTTCTTACTCAAAC
Found at i:45078042 original size:4 final size:4
Alignment explanation
Indices: 45078033--45078074 Score: 50
Period size: 4 Copynumber: 10.2 Consensus size: 4
45078023 AGATTAAACT
*
45078033 TTAA TTAA TTATA TTAA GTTAA TTAA TTAA -TAA TTAA CTAA T
1 TTAA TTAA TTA-A TTAA -TTAA TTAA TTAA TTAA TTAA TTAA T
45078075 GTTAACCTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 3 0.09
4 22 0.67
5 8 0.24
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (4 bp):
TTAA
Found at i:45078078 original size:25 final size:27
Alignment explanation
Indices: 45078033--45078088 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 27
45078023 AGATTAAACT
*
45078033 TTAATTAATTATATTAAGTTAA-TTAA
1 TTAATTAATTATACTAAGTTAACTTAA
45078059 TTAA-TAATTA-ACTAATGTTAACCTTAA
1 TTAATTAATTATACTAA-GTTAA-CTTAA
45078086 TTA
1 TTA
45078089 GCCTATTAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 4 0.15
25 11 0.42
26 4 0.15
27 7 0.27
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (27 bp):
TTAATTAATTATACTAAGTTAACTTAA
Found at i:45086075 original size:56 final size:56
Alignment explanation
Indices: 45086008--45086121 Score: 210
Period size: 56 Copynumber: 2.0 Consensus size: 56
45085998 CTCATGACAG
*
45086008 TAGCCATGATAGATAAAAGCTTTGTTATAGACTGGAACAAAGGCTTAGACAATTTC
1 TAGCCATGATAGATAAAAGCTTTGTTATAGACTGGAACAAAGGCTTAGACAATGTC
*
45086064 TAGCCATGATAGATAAAAGCTTTGTTATGGACTGGAACAAAGGCTTAGACAATGTC
1 TAGCCATGATAGATAAAAGCTTTGTTATAGACTGGAACAAAGGCTTAGACAATGTC
45086120 TA
1 TA
45086122 TACTGTTTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (56 bp):
TAGCCATGATAGATAAAAGCTTTGTTATAGACTGGAACAAAGGCTTAGACAATGTC
Found at i:45093949 original size:19 final size:18
Alignment explanation
Indices: 45093914--45093949 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45093904 GAAGCAAGCA
*
45093914 ATGATTGAAGAAATCAGG
1 ATGATTGAAAAAATCAGG
45093932 ATGATTGAAAAGAATCAG
1 ATGATTGAAAA-AATCAG
45093950 ACCTGGAGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.25, T:0.22
Consensus pattern (18 bp):
ATGATTGAAAAAATCAGG
Found at i:45098060 original size:5 final size:5
Alignment explanation
Indices: 45098050--45098077 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
45098040 GAAACTATGA
45098050 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
45098078 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:45102509 original size:5 final size:5
Alignment explanation
Indices: 45102499--45102530 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
45102489 CAATTTGTGA
45102499 AAAAT AAAAT AAAAT -AAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
45102531 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:45102519 original size:14 final size:14
Alignment explanation
Indices: 45102500--45102530 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
45102490 AATTTGTGAA
45102500 AAATAAAATAAAAT
1 AAATAAAATAAAAT
45102514 AAATAAAATAAAAT
1 AAATAAAATAAAAT
45102528 AAA
1 AAA
45102531 GAACACACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:45102964 original size:35 final size:35
Alignment explanation
Indices: 45102920--45103084 Score: 215
Period size: 35 Copynumber: 4.7 Consensus size: 35
45102910 TCCTCGTTGA
* *
45102920 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACGTTTCACAACTCAGTAT-GGAT
** **
45102955 AATTTCATACCTACGTTTCTTAACTCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
45102990 AATACCATACCTATGTTTCACAACTCAGTATGGTT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
*
45103025 AATACCATACCTACGTTTCACAAATCAGTATGGAT
1 AATACCATACCTACGTTTCACAACTCAGTATGGAT
* *
45103060 GATACCATACCTACATTTCACAACT
1 AATACCATACCTACGTTTCACAACT
45103085 TTTCTATGGA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
34 3 0.03
35 108 0.97
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACGTTTCACAACTCAGTATGGAT
Found at i:45105432 original size:19 final size:20
Alignment explanation
Indices: 45105408--45105447 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
45105398 AGATTAAACT
45105408 TTAATTAATT-ATAATTAAC
1 TTAATTAATTAATAATTAAC
*
45105427 TTAATTAATTAATATTTAAC
1 TTAATTAATTAATAATTAAC
45105447 T
1 T
45105448 AATGTTAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAATTAATTAATAATTAAC
Found at i:45106325 original size:49 final size:49
Alignment explanation
Indices: 45106264--45106360 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
45106254 TGATATAATG
*
45106264 ATTCAAAACCATCATTGTTAGGCCGCTCAAGATGATAGAACATGCAAAT
1 ATTCAAAACCATCATTGTTAGGCCACTCAAGATGATAGAACATGCAAAT
* * ** * *
45106313 ATTCAAAGCCATCATTGTTGGGCCACTCGGGATGGTAGAATATGCAAA
1 ATTCAAAACCATCATTGTTAGGCCACTCAAGATGATAGAACATGCAAA
45106361 CAGTAAAATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (49 bp):
ATTCAAAACCATCATTGTTAGGCCACTCAAGATGATAGAACATGCAAAT
Found at i:45107443 original size:40 final size:40
Alignment explanation
Indices: 45107388--45107466 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
45107378 GAAAGTAAAA
45107388 TACAAAAACCCAAGGTTAACTTTGTTTCATTACTATCTAG
1 TACAAAAACCCAAGGTTAACTTTGTTTCATTACTATCTAG
45107428 TACAAAAACCCAAGGTTAACTTTGTTTCATTACTATCTA
1 TACAAAAACCCAAGGTTAACTTTGTTTCATTACTATCTA
45107467 ATTACTGTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (40 bp):
TACAAAAACCCAAGGTTAACTTTGTTTCATTACTATCTAG
Found at i:45107614 original size:4 final size:4
Alignment explanation
Indices: 45107592--45107626 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
45107582 ATTTCATTTA
* *
45107592 TATG CATG TATG CATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
45107627 ATTTGATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (4 bp):
TATG
Found at i:45112847 original size:14 final size:14
Alignment explanation
Indices: 45112826--45112866 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45112816 CTAACCTAAT
45112826 TGTGCAAGTTGTGA
1 TGTGCAAGTTGTGA
* **
45112840 TTTGCAAGTTGCAA
1 TGTGCAAGTTGTGA
45112854 TGTGCAAGTTGTG
1 TGTGCAAGTTGTG
45112867 CAAGTTGCAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.32, T:0.37
Consensus pattern (14 bp):
TGTGCAAGTTGTGA
Found at i:45114875 original size:40 final size:40
Alignment explanation
Indices: 45114838--45115022 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
45114828 GCTACTCGTT
*
45114838 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
45114878 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
45114918 CCAATACCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
45114957 CAAATGCTTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
45114998 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
45115023 CATCATTCGA
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 76 0.63
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:45114982 original size:79 final size:81
Alignment explanation
Indices: 45114838--45115022 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 81
45114828 GCTACTCGTT
* *
45114838 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAA-GCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
45114902 GATTTAGTAAC-TCGCA
65 GATATAGTAACTTAGCA
* * **
45114918 CCAATA-CCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCTTTC-GGATCTTAGTC
1 -CAA-AGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
45114979 CGGATATGGTCACTTAGCA
63 CGGATATAGTAACTTAGCA
45114998 CAAAGCCTTCGGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
45115023 CATCATTCGA
Statistics
Matches: 88, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
78 4 0.05
79 56 0.64
80 24 0.27
81 3 0.03
82 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAAGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCA
Done.