Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold228
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: 4123243
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
File 24 of 27
Found at i:3686198 original size:3 final size:3
Alignment explanation
Indices: 3686192--3686221 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3686182 AATAATAGAA
3686192 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3686222 TGGTATAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:3686691 original size:3 final size:3
Alignment explanation
Indices: 3686685--3686722 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
3686675 ATTATCATCT
*
3686685 TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3686723 TAGTTGTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3687047 original size:20 final size:20
Alignment explanation
Indices: 3687010--3687047 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3687000 TTAGTTATTT
*
3687010 TACTATTAATTACTTTTTGA
1 TACTATTAATTACATTTTGA
3687030 TACT-TTAATTATCATTTT
1 TACTATTAATTA-CATTTT
3687048 CAAGTATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.29, C:0.11, G:0.03, T:0.58
Consensus pattern (20 bp):
TACTATTAATTACATTTTGA
Found at i:3688027 original size:31 final size:32
Alignment explanation
Indices: 3687971--3688032 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
3687961 TTATATTTGG
*
3687971 TAAAGTGAAAAAAAAAATTAGAAAGATGAAAAA
1 TAAAGTGAAAAAAAAAATGAGAAAGAT-AAAAA
*
3688004 TAAAG-GAAAAAAAAAGTGA-AAAGATAAAA
1 TAAAGTGAAAAAAAAAATGAGAAAGATAAAA
3688033 GACATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 4 0.15
31 6 0.22
32 12 0.44
33 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (32 bp):
TAAAGTGAAAAAAAAAATGAGAAAGATAAAAA
Found at i:3689015 original size:16 final size:16
Alignment explanation
Indices: 3688981--3689045 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 16
3688971 AACATGAATC
*
3688981 AATTTAAA-ATAAAAT
1 AATTTAAATTTAAAAT
*
3688996 AATTTAAATTTAATAT
1 AATTTAAATTTAAAAT
*
3689012 AATTAAAATTTAAAAT
1 AATTTAAATTTAAAAT
* *
3689028 ATTTTAAATTCAAAAT
1 AATTTAAATTTAAAAT
3689044 AA
1 AA
3689046 ATCAATTTAA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
15 8 0.20
16 33 0.80
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATTTAAATTTAAAAT
Found at i:3689083 original size:14 final size:14
Alignment explanation
Indices: 3689064--3689122 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
3689054 AAATTGATTC
*
3689064 AAATAATGAATTTA
1 AAATAATAAATTTA
*
3689078 AAATAATTTATATTTA
1 AAATAA--TAAATTTA
3689094 AAATTAATAAATTT-
1 AAA-TAATAAATTTA
*
3689108 AAATATTAAATTTA
1 AAATAATAAATTTA
3689122 A
1 A
3689123 TTGATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 9 0.24
14 10 0.27
15 6 0.16
16 9 0.24
17 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (14 bp):
AAATAATAAATTTA
Found at i:3689107 original size:21 final size:22
Alignment explanation
Indices: 3689082--3689123 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3689072 AATTTAAAAT
*
3689082 AATTTATAT-TTAAAATTAATA
1 AATTTAAATATTAAAATTAATA
*
3689103 AATTTAAATATTAAATTTAAT
1 AATTTAAATATTAAAATTAAT
3689124 TGATAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATTTAAATATTAAAATTAATA
Found at i:3689712 original size:3 final size:3
Alignment explanation
Indices: 3689704--3689743 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
3689694 CCTTTCCAGG
3689704 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
3689744 TCAAGGTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:3690431 original size:17 final size:17
Alignment explanation
Indices: 3690409--3690444 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
3690399 TTGTTTTAAT
3690409 ATTTTATAA-AATAAATA
1 ATTTTA-AATAATAAATA
3690426 ATTTTAAATAATAAATA
1 ATTTTAAATAATAAATA
3690443 AT
1 AT
3690445 AGTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 2 0.11
17 16 0.89
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTTAAATAATAAATA
Found at i:3691505 original size:13 final size:13
Alignment explanation
Indices: 3691487--3691511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3691477 TTCAACGATT
3691487 TGTATCGATACAA
1 TGTATCGATACAA
3691500 TGTATCGATACA
1 TGTATCGATACA
3691512 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3691524 original size:19 final size:19
Alignment explanation
Indices: 3691500--3691544 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
3691490 ATCGATACAA
3691500 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
3691519 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
3691538 TGTATCG
1 TGTATCG
3691545 CTACGAAGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:3691607 original size:13 final size:13
Alignment explanation
Indices: 3691589--3691613 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3691579 ATTACTCAAA
3691589 TGTATCGATACAT
1 TGTATCGATACAT
3691602 TGTATCGATACA
1 TGTATCGATACA
3691614 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3694741 original size:2 final size:2
Alignment explanation
Indices: 3694728--3694772 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
3694718 TATGAACATA
* *
3694728 AT AT AA AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3694769 AT AT
1 AT AT
3694773 TCACAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3694990 original size:22 final size:23
Alignment explanation
Indices: 3694943--3694993 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
3694933 CAAAATATTC
*
3694943 ATTTTTTTTATTGTTTTAAGTCA
1 ATTTTTTTTATTATTTTAAGTCA
*
3694966 ATTTTTTATTA-TATTTTAA-TTA
1 ATTTTTT-TTATTATTTTAAGTCA
3694988 ATTTTT
1 ATTTTT
3694994 ATATCATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 8 0.32
23 14 0.56
24 3 0.12
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (23 bp):
ATTTTTTTTATTATTTTAAGTCA
Found at i:3695947 original size:2 final size:2
Alignment explanation
Indices: 3695942--3695966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3695932 TTTGTTGAGT
3695942 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 T
3695967 TGTTTAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3698975 original size:2 final size:2
Alignment explanation
Indices: 3698970--3699008 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
3698960 TTTATTTTAA
3698970 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
3699009 ATGGTCAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3704924 original size:16 final size:16
Alignment explanation
Indices: 3704900--3704962 Score: 65
Period size: 16 Copynumber: 3.8 Consensus size: 16
3704890 TATATATGAT
*
3704900 TATATTAATAAATATA
1 TATAATAATAAATATA
3704916 TATAATAATTAAAATATAA
1 TATAATAA-T-AAATAT-A
3704935 TATAAT-ATAAATATA
1 TATAATAATAAATATA
**
3704950 TATTTTAATAAAT
1 TATAATAATAAAT
3704963 TAATTTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
15 5 0.12
16 19 0.47
17 2 0.05
18 7 0.17
19 7 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATAATAATAAATATA
Found at i:3704944 original size:21 final size:21
Alignment explanation
Indices: 3704906--3705062 Score: 60
Period size: 22 Copynumber: 7.3 Consensus size: 21
3704896 TGATTATATT
3704906 AATA-AATATATATAATAATTAA
1 AATATAATATA-AT-ATAATTAA
*
3704928 AATATAATATAATATAAATATAT
1 AATATAATATAATAT-AAT-TAA
* * *
3704951 ATTTTAATA-AAT-TAATT-T
1 AATATAATATAATATAATTAA
*
3704969 AATATAAATTATTAAT-TTATTAA
1 AATAT-AA-TA-TAATATAATTAA
* * *
3704992 AATTTATATATAAAATATTTAA
1 AATATA-ATATAATATAATTAA
* *
3705014 AATATAATTATTATATGA-TAA
1 AATATAA-TATAATATAATTAA
*
3705035 AATAT-AT-TGATATAATATAA
1 AATATAATATAATATAAT-TAA
3705055 ATATATAA
1 A-ATATAA
3705063 ATTATTAAAT
Statistics
Matches: 102, Mismatches: 18, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
18 10 0.10
19 4 0.04
20 10 0.10
21 19 0.19
22 39 0.38
23 20 0.20
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (21 bp):
AATATAATATAATATAATTAA
Found at i:3704945 original size:34 final size:33
Alignment explanation
Indices: 3704907--3705009 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 33
3704897 GATTATATTA
3704907 ATAAATATATATAATAATTAAAATATAATATAAT
1 ATAAATATATATAATAATTAAAAT-TAATATAAT
** *
3704941 ATAAATATATATTTTAA-T-AAATTAATTTAAT
1 ATAAATATATATAATAATTAAAATTAATATAAT
* *
3704972 ATAAAT-TAT-TAATTTATTAAAATTTATAT-AT
1 ATAAATATATATAA-TAATTAAAATTAATATAAT
3705003 A-AAATAT
1 ATAAATAT
3705010 TTAAAATATA
Statistics
Matches: 57, Mismatches: 8, Indels: 11
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.02
30 9 0.16
31 19 0.33
32 12 0.21
33 1 0.02
34 15 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAAATATATATAATAATTAAAATTAATATAAT
Found at i:3705052 original size:23 final size:21
Alignment explanation
Indices: 3705011--3705069 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
3705001 ATAAAATATT
3705011 TAAAATATAATTATTATATGA
1 TAAAATATAATTATTATATGA
3705032 TAAAATAT-ATTGA-TATAAT-A
1 TAAAATATAATT-ATTAT-ATGA
3705052 TAAATATATAAATTATTA
1 TAAA-ATAT-AATTATTA
3705070 AATATTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
20 11 0.34
21 15 0.47
22 1 0.03
23 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TAAAATATAATTATTATATGA
Found at i:3705351 original size:21 final size:19
Alignment explanation
Indices: 3705306--3705352 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
3705296 ATAAAATTTA
*
3705306 AAATTT-TATTTTTATATT
1 AAATTTATATTTTTATACT
3705324 AATATTTATATATTTTATAACT
1 AA-ATTTATAT-TTTTAT-ACT
3705346 AAATTTA
1 AAATTTA
3705353 AATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 2 0.08
19 4 0.17
20 3 0.12
21 11 0.46
22 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
AAATTTATATTTTTATACT
Found at i:3706505 original size:21 final size:20
Alignment explanation
Indices: 3706458--3706496 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3706448 TTGTCTAATA
3706458 TTATTTTTTAATTTATTTTTT
1 TTATTTTTTAA-TTATTTTTT
*
3706479 TAATTTTTTAA-TATTTTT
1 TTATTTTTTAATTATTTTT
3706497 AGTTTATTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTATTTTTTAATTATTTTTT
Found at i:3706644 original size:16 final size:16
Alignment explanation
Indices: 3706623--3706674 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
3706613 ATTAAAATAT
3706623 TATAAATTTTTATTTA
1 TATAAATTTTTATTTA
3706639 TATAAATTTTATATATTA
1 TATAAATTTT-TAT-TTA
3706657 -AT-AATTTTT-TTATA
1 TATAAATTTTTATT-TA
3706671 TATA
1 TATA
3706675 TTTAGATATG
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 3 0.10
15 3 0.10
16 16 0.52
17 5 0.16
18 3 0.10
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TATAAATTTTTATTTA
Found at i:3706665 original size:17 final size:16
Alignment explanation
Indices: 3706619--3706671 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
3706609 ATGTATTAAA
3706619 ATATT-ATAAATTTTT
1 ATATTAATAAATTTTT
3706634 AT-TTATATAAATTTTAT
1 ATATTA-ATAAATTTT-T
*
3706651 ATATTAATAATTTTTTT
1 ATATTAATAA-ATTTTT
3706668 ATAT
1 ATAT
3706672 ATATTTAGAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 9 0.28
17 12 0.38
18 7 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTAATAAATTTTT
Found at i:3708688 original size:13 final size:13
Alignment explanation
Indices: 3708670--3708695 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3708660 CACGAACAAT
3708670 CCAATTGGACCCC
1 CCAATTGGACCCC
3708683 CCAATTGGACCCC
1 CCAATTGGACCCC
3708696 TTTTGTGTTG
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:0.23, C:0.46, G:0.15, T:0.15
Consensus pattern (13 bp):
CCAATTGGACCCC
Found at i:3710122 original size:140 final size:142
Alignment explanation
Indices: 3709887--3710163 Score: 326
Period size: 140 Copynumber: 2.0 Consensus size: 142
3709877 GCTATAATTA
* * * *
3709887 AACCAATTAGAGTTTGAACTGGAAAGCTACATTCTTAACTTATGAAAAAGCTTAATAGTTGCAGC
1 AACCAATTAGAGTTTGAACTGAAAAGCCACATTCTTAACATATCAAAAAGCTTAATAGTTGCAGC
* ** * * * * * * *
3709952 TATAATCGAGTCAGTTCGAGTTTCACTGGAAAACTACTTTCTAATATATACAAACGCTTAATAGT
66 CATAATCGAACCAGTTAGAGTTTCAATGGAAAACTACATTCTAACACATACAAAAGATTAATAGT
3710017 TACAGCTATTCG
131 TACAGCTATTCG
* * * *
3710029 AACCGATTAGAGTTT-CACTGAAAAGCCACATTC-TAACATA-CATAAATGCTTGATAGTTGCAG
1 AACCAATTAGAGTTTGAACTGAAAAGCCACATTCTTAACATATCA-AAAAGCTTAATAGTTGCAG
* * *
3710091 CCATAATTGAACCAGTTAGAGTTTCAATGGAAAGCTACATTGTAACACATACAAAAGATTAATAG
65 CCATAATCGAACCAGTTAGAGTTTCAATGGAAAACTACATTCTAACACATACAAAAGATTAATAG
*
3710156 TTGCAGCT
130 TTACAGCT
3710164 TATATTTAAA
Statistics
Matches: 112, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
139 1 0.01
140 82 0.73
141 15 0.13
142 14 0.12
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (142 bp):
AACCAATTAGAGTTTGAACTGAAAAGCCACATTCTTAACATATCAAAAAGCTTAATAGTTGCAGC
CATAATCGAACCAGTTAGAGTTTCAATGGAAAACTACATTCTAACACATACAAAAGATTAATAGT
TACAGCTATTCG
Found at i:3710125 original size:71 final size:69
Alignment explanation
Indices: 3709866--3710203 Score: 306
Period size: 71 Copynumber: 4.8 Consensus size: 69
3709856 AAATGCTTAA
* * *
3709866 TAATAGTTGCAGCTATAATTAAACCAATTAGAGTTTGAACTGGAAAGCTACATTCTTAACTTATG
1 TAATAGTTGCAGCTATAATTGAACCAGTTAGAGTTT-CACTGGAAAGCTACATTC-TAAC--AT-
3709931 A-AAAAGCT
61 ACAAAAGCT
* ** * * * *
3709939 TAATAGTTGCAGCTATAATCGAGTCAGTTCGAGTTTCACTGGAAAACTACTTTCTAATATATACA
1 TAATAGTTGCAGCTATAATTGAACCAGTTAGAGTTTCACTGGAAAGCTACATTCT-A-ACATACA
*
3710004 AACGCT
64 AAAGCT
* * * *
3710010 TAATAGTTACAGCTAT--TCGAACC-GATTAGAGTTTCACTGAAAAGCCACATTCTAACATACAT
1 TAATAGTTGCAGCTATAATTGAACCAG-TTAGAGTTTCACTGGAAAGCTACATTCTAACATACA-
3710072 AAATGCT
64 AAA-GCT
* * * *
3710079 TGATAGTTGCAGCCATAATTGAACCAGTTAGAGTTTCAATGGAAAGCTACATTGTAACACATACA
1 TAATAGTTGCAGCTATAATTGAACCAGTTAGAGTTTCACTGGAAAGCTACATTCT-A-ACATACA
*
3710144 AAAGAT
64 AAAGCT
* * ** *
3710150 TAATAGTTGCAGCTTATATTTAAAATAGTTAGAGTTTCACTAGAAAGCTACATT
1 TAATAGTTGCAGC-TATAATTGAACCAGTTAGAGTTTCACTGGAAAGCTACATT
3710204 AGTATTAACA
Statistics
Matches: 215, Mismatches: 38, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
67 6 0.03
68 4 0.02
69 44 0.20
70 1 0.00
71 68 0.32
72 54 0.25
73 38 0.18
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (69 bp):
TAATAGTTGCAGCTATAATTGAACCAGTTAGAGTTTCACTGGAAAGCTACATTCTAACATACAAA
AGCT
Found at i:3710725 original size:22 final size:22
Alignment explanation
Indices: 3710700--3710764 Score: 103
Period size: 22 Copynumber: 3.0 Consensus size: 22
3710690 GTTAGATAAA
*
3710700 CATATTAGGTGTGTTGGGTGAG
1 CATATTAGGTGTGTTAGGTGAG
*
3710722 CATATTAAGTGTGTTAGGTGAG
1 CATATTAGGTGTGTTAGGTGAG
*
3710744 CATATTAGGTATGTTAGGTGA
1 CATATTAGGTGTGTTAGGTGA
3710765 TGTGTTAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 39 1.00
ACGTcount: A:0.25, C:0.05, G:0.34, T:0.37
Consensus pattern (22 bp):
CATATTAGGTGTGTTAGGTGAG
Found at i:3713437 original size:26 final size:25
Alignment explanation
Indices: 3713404--3713452 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
3713394 TTTAAAATAT
*
3713404 AATAATAAGTAAA-AATAAAAAAACA
1 AATAATAA-AAAATAATAAAAAAACA
3713429 AATATATAAAAAATAATAAAAAAA
1 AATA-ATAAAAAATAATAAAAAAA
3713453 ATCAAATTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (25 bp):
AATAATAAAAAATAATAAAAAAACA
Found at i:3713451 original size:12 final size:12
Alignment explanation
Indices: 3713404--3713454 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
3713394 TTTAAAATAT
*
3713404 AATAATAAGTAAA
1 AATAATAA-AAAA
3713417 AATAA-AAAAACA
1 AATAATAAAAA-A
*
3713429 AAT-ATATAAAA
1 AATAATAAAAAA
3713440 AATAATAAAAAA
1 AATAATAAAAAA
3713452 AAT
1 AAT
3713455 CAAATTAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 7 0.22
12 20 0.62
13 5 0.16
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (12 bp):
AATAATAAAAAA
Found at i:3713571 original size:19 final size:18
Alignment explanation
Indices: 3713546--3713589 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
3713536 AGAGAATCTG
3713546 ATGCATTGCACTCATTTC
1 ATGCATTGCACTCATTTC
**
3713564 ATTGCATTGCTTTCATTTC
1 A-TGCATTGCACTCATTTC
3713583 ATGCATT
1 ATGCATT
3713590 CATTCATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.45
Consensus pattern (18 bp):
ATGCATTGCACTCATTTC
Found at i:3714557 original size:22 final size:22
Alignment explanation
Indices: 3714517--3714558 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
3714507 ACAGTTCGGT
*
3714517 AACTTCCAGTAGCTTCCACAAC
1 AACTTCCAGTAGCTCCCACAAC
* *
3714539 AACTTCTAGTTGCTCCCACA
1 AACTTCCAGTAGCTCCCACA
3714559 GCAGCCAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.26
Consensus pattern (22 bp):
AACTTCCAGTAGCTCCCACAAC
Found at i:3715724 original size:23 final size:24
Alignment explanation
Indices: 3715688--3715732 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
3715678 ATGGCCATTT
*
3715688 TATTTTTATCATTCACT-TGGATCA
1 TATTTTAATCATTC-CTATGGATCA
3715712 TATTTTAAT-ATTCCTATGGAT
1 TATTTTAATCATTCCTATGGAT
3715733 TTCCATAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 2 0.11
23 9 0.47
24 8 0.42
ACGTcount: A:0.27, C:0.13, G:0.09, T:0.51
Consensus pattern (24 bp):
TATTTTAATCATTCCTATGGATCA
Found at i:3725436 original size:32 final size:32
Alignment explanation
Indices: 3725400--3725467 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
3725390 TTCAACGATT
*
3725400 TGTATCGATATAAAAGTGTTGCATCGATACAA
1 TGTATCGATACAAAAGTGTTGCATCGATACAA
* * *
3725432 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACAAAAGTGTTGCATCGATACAA
3725464 TGTA
1 TGTA
3725468 CAGTTACGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAAGTGTTGCATCGATACAA
Found at i:3725533 original size:13 final size:13
Alignment explanation
Indices: 3725515--3725539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3725505 ATTACTCAAA
3725515 TGTATCGATACAT
1 TGTATCGATACAT
3725528 TGTATCGATACA
1 TGTATCGATACA
3725540 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3732571 original size:13 final size:13
Alignment explanation
Indices: 3732553--3732585 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3732543 GTTCCCTTTT
*
3732553 TGAAAAAAAATGA
1 TGAAAAAAAAAGA
3732566 TGAAAAAAAAAGA
1 TGAAAAAAAAAGA
3732579 -GAAAAAA
1 TGAAAAAA
3732586 CAAACAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
TGAAAAAAAAAGA
Found at i:3732596 original size:13 final size:13
Alignment explanation
Indices: 3732580--3732609 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3732570 AAAAAAAGAG
3732580 AAAAAACAAACAA
1 AAAAAACAAACAA
*
3732593 AAAAAACACACAA
1 AAAAAACAAACAA
3732606 AAAA
1 AAAA
3732610 GTGCAAAGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.83, C:0.17, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACAAACAA
Found at i:3733974 original size:60 final size:60
Alignment explanation
Indices: 3733897--3734063 Score: 176
Period size: 61 Copynumber: 2.7 Consensus size: 60
3733887 CTTTTTTTTT
* * * * *
3733897 AAGTCCACGACTTAGTGGCATCTTGTCTTAAAGTCCACAATTCTGTAGCATCTTTTTC-CA
1 AAGTCCACAACTCAGTGGCATCTT-TCTTAAAGCCCACAACTCTGTAGCACCTTTTTCTCA
** *
3733957 AAGTCCACAACTCAGTGGCATCTTTTCTTCAAAGCCCATGACTCTGTGGCACCTTTTTCTTTTCA
1 AAGTCCACAACTCAGTGGCATC-TTTCTT-AAAGCCCACAACTCTGTAGCACCTTTTTC---TCA
*
3734022 AAGTCCACAACTCCGTGGCACTCTTT-TTAAAGCCCACAACTC
1 AAGTCCACAACTCAGTGGCA-TCTTTCTTAAAGCCCACAACTC
3734064 CATGGCACCC
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
60 24 0.27
61 25 0.28
63 12 0.13
64 2 0.02
65 24 0.27
66 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (60 bp):
AAGTCCACAACTCAGTGGCATCTTTCTTAAAGCCCACAACTCTGTAGCACCTTTTTCTCA
Found at i:3734006 original size:31 final size:31
Alignment explanation
Indices: 3733897--3734309 Score: 148
Period size: 34 Copynumber: 12.8 Consensus size: 31
3733887 CTTTTTTTTT
* *
3733897 AAGTCCACGACT-TAGTGGCATCTTGTCTT-A
1 AAGTCCACAACTCT-GTGGCATCTTTTCTTCA
* * *
3733927 AAGTCCACAATTCTGTAGCATCTTTT-TCCA
1 AAGTCCACAACTCTGTGGCATCTTTTCTTCA
*
3733957 AAGTCCACAACTCAGTGGCATCTTTTCTTCA
1 AAGTCCACAACTCTGTGGCATCTTTTCTTCA
* ** *
3733988 AAGCCCATGACTCTGTGGCACCTTTTTCTTTTCA
1 AAGTCCACAACTCTGTGGCATC-TTTTC--TTCA
*
3734022 AAGTCCACAACTCCGTGGCA-CTCTTT-TT-A
1 AAGTCCACAACTCTGTGGCATCT-TTTCTTCA
* ** **
3734051 AAGCCCACAACTCCATGGCA-CCCTT-TT--
1 AAGTCCACAACTCTGTGGCATCTTTTCTTCA
* * * **
3734078 AAGTCCACAACTCCGTGGCACCCTTTCACCCTTTT
1 AAGTCCACAACTCTGTGGCA-TCTTT---TCTTCA
* * * **
3734113 AAGTCCACGATTCTGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCTGTGGCA-TC-TTTT--CTTCA
* * **
3734148 AAGCCCACAACTCCGTGGCATCTTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCATC-TT-TT-CTTCA
* **
3734182 AAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTT
1 AAGTCCACAACTCTGTGGCAT-CTT-TT-C-TTCA
* **
3734217 AAGTCCACAACTCCGTGGCATCCTTGTTCCTTTT
1 AAGTCCACAACTCTGTGGCAT-CTT-TT-CTTCA
**
3734251 AAGTCCACAACT-TCGTGGCATCCTTGTTCCTTTT
1 AAGTCCACAACTCT-GTGGCAT-CTT-TT-CTTCA
3734285 AAGTCCACAACT-TCGTGGCATCTTT
1 AAGTCCACAACTCT-GTGGCATCTTT
3734310 CTCCTGTTAA
Statistics
Matches: 323, Mismatches: 38, Indels: 42
0.80 0.09 0.10
Matches are distributed among these distances:
27 18 0.06
28 4 0.01
29 23 0.07
30 46 0.14
31 21 0.07
32 7 0.02
33 9 0.03
34 114 0.35
35 78 0.24
36 3 0.01
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (31 bp):
AAGTCCACAACTCTGTGGCATCTTTTCTTCA
Found at i:3734040 original size:34 final size:32
Alignment explanation
Indices: 3733957--3734345 Score: 265
Period size: 34 Copynumber: 11.9 Consensus size: 32
3733947 TCTTTTTCCA
* * **
3733957 AAGTCCACAACTCAGTGGCATC-TTTTCTTCA
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* ** *
3733988 AAGCCCATGACTCTGTGGCACCTTTTTCTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
3734020 CAAAGTCCACAACTCCGTGGCA-C-TCTT-TTTA
1 --AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
* *
3734051 AAGCCCACAACTCCATGGCACC-----CTTTT
1 AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
**
3734078 AAGTCCACAACTCCGTGGCACCCTTTCACCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTT--TTCTTTT
* * *
3734113 AAGTCCACGATTCTGTGGCACCCTTTTTCCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTTTTT--CTTTT
* *
3734148 AAGCCCACAACTCCGTGGCATCTTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCACCTTT-TT-CTTTT
*
3734182 AAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTTC-TTTT
*
3734217 AAGTCCACAACTCCGTGGCATCCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTTCTTTT
* *
3734251 AAGTCCACAACTTCGTGGCATCCTTGTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-CCTT-TTTCTTTT
* * * *
3734285 AAGTCCACAACTTCGTGGCATCTTTCTCCTGTT
1 AAGTCCACAACTCCGTGGCACCTTT-TTCTTTT
* * ** *
3734318 AAGCCCACAAGTTAGTGGCACCCTTTTC
1 AAGTCCACAACTCCGTGGCACCTTTTTC
3734346 AAAAACCCAC
Statistics
Matches: 298, Mismatches: 40, Indels: 39
0.79 0.11 0.10
Matches are distributed among these distances:
27 21 0.07
28 2 0.01
29 18 0.06
30 1 0.00
31 20 0.07
32 13 0.04
33 30 0.10
34 103 0.35
35 89 0.30
36 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.34
Consensus pattern (32 bp):
AAGTCCACAACTCCGTGGCACCTTTTTCTTTT
Found at i:3734058 original size:29 final size:29
Alignment explanation
Indices: 3733891--3734103 Score: 130
Period size: 30 Copynumber: 7.1 Consensus size: 29
3733881 TCAAATCTTT
* * **
3733891 TTTTTTAAGTCCACGACTTAGTGGCA-TC
1 TTTTTAAAGTCCACAACTCCGTGGCACTC
* * *
3733919 TTGTCTTAAAGTCCACAATTCTGTAGCA-TC
1 TT-T-TTAAAGTCCACAACTCCGTGGCACTC
*
3733949 TTTTTCCAAAGTCCACAACTCAGTGGCA-TC
1 TTTTT--AAAGTCCACAACTCCGTGGCACTC
* ** *
3733979 TTTTCTTCAAAGCCCATGACTCTGTGGCACCTTTTTC
1 -TTT-TT-AAAGTCCACAACTCCGTGGCA-C----TC
*
3734016 TTTTCAAAGTCCACAACTCCGTGGCACTC
1 TTTTTAAAGTCCACAACTCCGTGGCACTC
* *
3734045 TTTTTAAAGCCCACAACTCCATGGCAC-C
1 TTTTTAAAGTCCACAACTCCGTGGCACTC
* *
3734073 CTTTT-AAGTCCACAACTCCGTGGCACCC
1 TTTTTAAAGTCCACAACTCCGTGGCACTC
3734101 TTT
1 TTT
3734104 CACCCTTTTA
Statistics
Matches: 147, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
27 19 0.13
28 12 0.08
29 28 0.19
30 41 0.28
31 21 0.14
32 2 0.01
33 1 0.01
34 17 0.12
35 1 0.01
36 3 0.02
37 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.33
Consensus pattern (29 bp):
TTTTTAAAGTCCACAACTCCGTGGCACTC
Found at i:3734096 original size:27 final size:28
Alignment explanation
Indices: 3734015--3734103 Score: 126
Period size: 27 Copynumber: 3.1 Consensus size: 28
3734005 GCACCTTTTT
3734015 CTTTTCAAAGTCCACAACTCCGTGGCACTC
1 CTTTT-AAAGTCCACAACTCCGTGGCAC-C
* * *
3734045 TTTTTAAAGCCCACAACTCCATGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
3734073 CTTTT-AAGTCCACAACTCCGTGGCACC
1 CTTTTAAAGTCCACAACTCCGTGGCACC
3734100 CTTT
1 CTTT
3734104 CACCCTTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 24 0.45
28 5 0.09
29 20 0.38
30 4 0.08
ACGTcount: A:0.24, C:0.36, G:0.12, T:0.28
Consensus pattern (28 bp):
CTTTTAAAGTCCACAACTCCGTGGCACC
Found at i:3734218 original size:69 final size:68
Alignment explanation
Indices: 3734072--3734327 Score: 334
Period size: 69 Copynumber: 3.7 Consensus size: 68
3734062 TCCATGGCAC
* *** * * * *
3734072 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTCACCCTTTTAAGTCCACGATTCTGTGGCACCCT
1 CCTTTTAAGTCCACAACTCCGTGGCA-TCTTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCT
*
3734137 TTTT
65 TGTT
*
3734141 CCCTTTTAAGCCCACAACTCCGTGGCATCTTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCT
1 -CCTTTTAAGTCCACAACTCCGTGGCATCTTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCT
3734206 TGTT
65 TGTT
* *
3734210 CCTTTTTAAGTCCACAACTCCGTGGCATCCTTGTTCCTTTTAAGTCCACAACTTCGTGGCATCCT
1 CC-TTTTAAGTCCACAACTCCGTGGCATCTTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCT
3734275 TGTT
65 TGTT
* * * *
3734279 CCTTTTAAGTCCACAACTTCGTGGCATCTTT-CTCCTGTTAAGCCCACAA
1 CCTTTTAAGTCCACAACTCCGTGGCATCTTTGTTCCTTTTAAGTCCACAA
3734328 GTTAGTGGCA
Statistics
Matches: 167, Mismatches: 18, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
67 15 0.09
68 29 0.17
69 98 0.59
70 25 0.15
ACGTcount: A:0.18, C:0.33, G:0.14, T:0.35
Consensus pattern (68 bp):
CCTTTTAAGTCCACAACTCCGTGGCATCTTTGTTCCTTTTAAGTCCACAACTCCGTGGCATCCTT
GTT
Found at i:3734395 original size:27 final size:30
Alignment explanation
Indices: 3734337--3734421 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 30
3734327 AGTTAGTGGC
* ** *
3734337 ACCCTTTTCAAAAACC-CACAAGTCAGTGCA
1 ACCC-TTTCAAAAGCCACACAAGTTGGTACA
3734367 A-CCTTT-AAAAG-CACACAAGTTGGTACA
1 ACCCTTTCAAAAGCCACACAAGTTGGTACA
3734394 ACCCTTTCAAAAGCCCACACAAGTTGGT
1 ACCCTTTCAAAAG-CCACACAAGTTGGT
3734422 GGCGTCTTCT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
26 1 0.02
27 16 0.35
28 8 0.17
29 7 0.15
30 1 0.02
31 13 0.28
ACGTcount: A:0.36, C:0.29, G:0.13, T:0.21
Consensus pattern (30 bp):
ACCCTTTCAAAAGCCACACAAGTTGGTACA
Found at i:3734603 original size:49 final size:49
Alignment explanation
Indices: 3734432--3734957 Score: 663
Period size: 49 Copynumber: 10.8 Consensus size: 49
3734422 GGCGTCTTCT
* * * * * **
3734432 TTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGACGCCTTTGTCATA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCACC
* * ** *
3734484 TTTAAGACCAATGTCCCTGGCCTTGAATCAGCACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* *
3734532 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* * *
3734581 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* *
3734629 TTTAAGTCCAATATAGCTCGCCTTGAATCAGCATATTGGCACCTTTACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
3734678 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
*
3734727 TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* * *
3734776 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* *
3734825 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* * *
3734868 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTCATCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGC-ACCT--TCACC
* * *
3734920 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
3734958 ACATCTTTTT
Statistics
Matches: 419, Mismatches: 44, Indels: 22
0.86 0.09 0.05
Matches are distributed among these distances:
43 38 0.09
48 83 0.20
49 223 0.53
52 75 0.18
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
Found at i:3734740 original size:27 final size:27
Alignment explanation
Indices: 3734710--3734789 Score: 64
Period size: 27 Copynumber: 3.1 Consensus size: 27
3734700 TTGAATCAGC
3734710 ATATTGGCACCTTCACCTTTAAGTCCA
1 ATATTGGCACCTTCACCTTTAAGTCCA
* ** * *
3734737 ATA-T---AGC-TGGCCTTGAA-TCAA
1 ATATTGGCACCTTCACCTTTAAGTCCA
3734758 CATATTGGCACCTTCACCTTTAAGTCCA
1 -ATATTGGCACCTTCACCTTTAAGTCCA
3734786 ATAT
1 ATAT
3734790 AGCTAGCCTT
Statistics
Matches: 36, Mismatches: 10, Indels: 14
0.60 0.17 0.23
Matches are distributed among these distances:
21 3 0.08
22 10 0.28
23 3 0.08
26 3 0.08
27 14 0.39
28 3 0.08
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (27 bp):
ATATTGGCACCTTCACCTTTAAGTCCA
Found at i:3734777 original size:98 final size:98
Alignment explanation
Indices: 3734432--3734957 Score: 663
Period size: 97 Copynumber: 5.4 Consensus size: 98
3734422 GGCGTCTTCT
* * * * * ** * *
3734432 TTTAAGCCCAATATCGCTGGCCTTGAATTAGCATATTGACGCCTTTGTCATATTTAAGACCAATG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--T-TCACCTTTAAGTCCAATA
** *
3734497 TCCCTGGCCTTGAATCAGCACATTGGCACC-TCACC
63 TAGCTGGCCTTGAATCAGCATATTGGCACCTTCACC
* * *
3734532 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
* *
3734597 CTGGCCTTGAATCAGTACATTGGCACC-TCACC
66 CTGGCCTTGAATCAGCATATTGGCACCTTCACC
* *
3734629 TTTAAGTCCAATATAGCTCGCCTTGAATCAGCATATTGGCACCTTTACCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
3734694 CTGGCCTTGAATCAGCATATTGGCACCTTCACC
66 CTGGCCTTGAATCAGCATATTGGCACCTTCACC
*
3734727 TTTAAGTCCAATATAGCTGGCCTTGAATCAACATATTGGCACCTTCACCTTTAAGTCCAATATAG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
* * *
3734792 CTAGCCTTGAATCAGCATATTGGCACCTTTATC
66 CTGGCCTTGAATCAGCATATTGGCACCTTCACC
* * *
3734825 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------CACCTTTAAGTCCAATATCG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
* *
3734884 CTGGCCTTGAATCAGCATATTGGCGCCCTCATCATC
66 CTGGCCTTGAATCAGCATATTGGC-ACCT--TCACC
* * *
3734920 TTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTG
3734958 ACATCTTTTT
Statistics
Matches: 392, Mismatches: 30, Indels: 13
0.90 0.07 0.03
Matches are distributed among these distances:
92 42 0.11
93 3 0.01
95 41 0.10
97 134 0.34
98 134 0.34
100 38 0.10
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (98 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATAG
CTGGCCTTGAATCAGCATATTGGCACCTTCACC
Found at i:3734895 original size:92 final size:94
Alignment explanation
Indices: 3734772--3734957 Score: 304
Period size: 92 Copynumber: 2.0 Consensus size: 94
3734762 TTGGCACCTT
*
3734772 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGC-ACCT-TTATCTTTAAGTCCA
1 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCGACCTATCATCTTTAAGTCCA
3734835 ATGTAGCTGGCCTTGAATCAGCACATTGG
66 ATGTAGCTGGCCTTGAATCAGCACATTGG
* * *
3734864 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCCTCATCATCTTTAAGTCC
1 CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCGACCT-ATCATCTTTAAGTCC
*
3734929 AATGTCGCTGGCCTTGAATCAGCACATTG
65 AATGTAGCTGGCCTTGAATCAGCACATTG
3734958 ACATCTTTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
92 42 0.49
93 3 0.03
95 41 0.48
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (94 bp):
CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCGACCTATCATCTTTAAGTCCA
ATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:3734996 original size:55 final size:55
Alignment explanation
Indices: 3734915--3735020 Score: 149
Period size: 55 Copynumber: 1.9 Consensus size: 55
3734905 GGCGCCCTCA
* * * *
3734915 TCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGACATCTTTTTTC
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGACATCTTTTTTC
* * *
3734970 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGACATCTTT
3735021 ATCACTTTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.37
Consensus pattern (55 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGACATCTTTTTTC
Found at i:3736101 original size:13 final size:13
Alignment explanation
Indices: 3736083--3736107 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3736073 ATTACTCAAA
3736083 TGTATCGATACAT
1 TGTATCGATACAT
3736096 TGTATCGATACA
1 TGTATCGATACA
3736108 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3741932 original size:42 final size:41
Alignment explanation
Indices: 3741882--3741992 Score: 152
Period size: 42 Copynumber: 2.7 Consensus size: 41
3741872 TTTTTGTTTT
* ** *
3741882 CCTCAGTCTGCTTGTCAGATTTGACTTTGGAGACTTTTCTAC
1 CCTCAGTCTGCCTGTCAGATTTGACCCTGAAGACTTTTC-AC
*
3741924 CCTCAGTCTGCCTGTCAGCTTTGACCCTGAAGACTTTTCAC
1 CCTCAGTCTGCCTGTCAGATTTGACCCTGAAGACTTTTCAC
3741965 CCTCAGTCTGCCTGTC-GACTTTGACCCT
1 CCTCAGTCTGCCTGTCAGA-TTTGACCCT
3741993 AGAGATTGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
40 1 0.02
41 27 0.44
42 34 0.55
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (41 bp):
CCTCAGTCTGCCTGTCAGATTTGACCCTGAAGACTTTTCAC
Found at i:3742071 original size:84 final size:84
Alignment explanation
Indices: 3741928--3742168 Score: 306
Period size: 84 Copynumber: 2.9 Consensus size: 84
3741918 TTCTACCCTC
* * * *
3741928 AGTCTGCCTGTCAGCTTTGACCCTGAAGACTTTTC-ACCCTCAGTCTGCCTGTCGACTTTGACCC
1 AGTCTGCCTGTCAGCTTTGATCTTGGAGACTTTTCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
*
3741992 TAGAGATTGCCTCATTTTA
66 TAGAGACTGCCTCATTTTA
* *
3742011 AGTTTGCCTGTCAGCTTTGATCTTGGAGA-TTTTCTTACCCTCAGTTTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCAGCTTTGATCTTGGAGACTTTTC-TACCCTCAGTCTGCCTGTCGGCTTTGACC
* *
3742075 CTAGAGGCTGTCTCATTTTA
65 CTAGAGACTGCCTCATTTTA
* * * * *
3742095 AGTCTACCTATCGGCTTTGATCTTAGAGACTTTTCTCACCCTCAATCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCAGCTTTGATCTTGGAGACTTTTCT-ACCCTCAGTCTGCCTGTCGGCTTTGACC
* *
3742160 TTTGAGACT
65 CTAGAGACT
3742169 TTTTTACCCT
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
82 5 0.04
83 25 0.19
84 68 0.50
85 37 0.27
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (84 bp):
AGTCTGCCTGTCAGCTTTGATCTTGGAGACTTTTCTACCCTCAGTCTGCCTGTCGGCTTTGACCC
TAGAGACTGCCTCATTTTA
Found at i:3742256 original size:42 final size:42
Alignment explanation
Indices: 3741928--3742253 Score: 203
Period size: 42 Copynumber: 7.8 Consensus size: 42
3741918 TTCTACCCTC
* * *
3741928 AGTCTGCCTGTCAGCTTTGACCCT-GAAGACT-TTTCACCCTC
1 AGTCTGCCTGTCAGCTTTGACCCTAG-AGACTGTCTCACCTTA
* * **
3741969 AGTCTGCCTGTC-GACTTTGACCCTAGAGATTGCCTCATTTTA
1 AGTCTGCCTGTCAG-CTTTGACCCTAGAGACTGTCTCACCTTA
* * * * * * * * *
3742011 AGTTTGCCTGTCAGCTTTGATCTTGGAGATTTTCTTACCCTC
1 AGTCTGCCTGTCAGCTTTGACCCTAGAGACTGTCTCACCTTA
* * * **
3742053 AGTTTGCCTGTCGGCTTTGACCCTAGAGGCTGTCTCATTTTA
1 AGTCTGCCTGTCAGCTTTGACCCTAGAGACTGTCTCACCTTA
* * * * * * *
3742095 AGTCTACCTATCGGCTTTGATCTTAGAGACTTTTCTCACCCTCA
1 AGTCTGCCTGTCAGCTTTGACCCTAGAGAC-TGTCTCA-CCTTA
* * * * * * * *
3742139 A-TCTGCCTGTCGGCTTTGACCTTTGAGACTTTTTTACCCTC
1 AGTCTGCCTGTCAGCTTTGACCCTAGAGACTGTCTCACCTTA
* * **
3742180 AGTCTGCCTGT-TGACTTTGACCCTAGAGACTGCCTCATTTTA
1 AGTCTGCCTGTCAG-CTTTGACCCTAGAGACTGTCTCACCTTA
*
3742222 AGTCTGCCTGTCAGCTTTGACCCTGGAGACTG
1 AGTCTGCCTGTCAGCTTTGACCCTAGAGACTG
3742254 CCTGTCAACT
Statistics
Matches: 214, Mismatches: 62, Indels: 17
0.73 0.21 0.06
Matches are distributed among these distances:
40 1 0.00
41 30 0.14
42 148 0.69
43 32 0.15
44 3 0.01
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.37
Consensus pattern (42 bp):
AGTCTGCCTGTCAGCTTTGACCCTAGAGACTGTCTCACCTTA
Found at i:3742265 original size:26 final size:26
Alignment explanation
Indices: 3742225--3742278 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
3742215 CATTTTAAGT
*
3742225 CTGCCTGTCAGCTTTGACCCTGGAGA
1 CTGCCTGTCAACTTTGACCCTGGAGA
*
3742251 CTGCCTGTCAACTTTGACCTTGGAGA
1 CTGCCTGTCAACTTTGACCCTGGAGA
3742277 CT
1 CT
3742279 TTTCACCCTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.30, G:0.24, T:0.30
Consensus pattern (26 bp):
CTGCCTGTCAACTTTGACCCTGGAGA
Found at i:3742323 original size:109 final size:110
Alignment explanation
Indices: 3742141--3742365 Score: 335
Period size: 109 Copynumber: 2.1 Consensus size: 110
3742131 CACCCTCAAT
** * * * * *
3742141 CTGCCTGTCGGCTTTGACCTTTGAGACTTTTTTACCCTCAGTCTGCCTGTTGACTTTGACCCTAG
1 CTGCCTGTCAACTTTGACCTTGGAGACTTTTTCACCCTCAGTCTGCCTATCGACTTTGACCCTAA
*
3742206 AGACTGCCTCATTTTAAGTCTGCCTGTCAGCTTTGACCCTGGAGA
66 AGAATGCCTCATTTTAAGTCTGCCTGTCAGCTTTGACCCTGGAGA
** *
3742251 CTGCCTGTCAACTTTGACCTTGGAGAC-TTTTCACCCTCAGTCTGCCTATCGGTTTTGACGCTAA
1 CTGCCTGTCAACTTTGACCTTGGAGACTTTTTCACCCTCAGTCTGCCTATCGACTTTGACCCTAA
*
3742315 AGAATGCCTTATTTTAAGTCTGCCTGTCAGCTTTGACCCTGGAGA
66 AGAATGCCTCATTTTAAGTCTGCCTGTCAGCTTTGACCCTGGAGA
3742360 CTGCCT
1 CTGCCT
3742366 CATTTTAAGT
Statistics
Matches: 103, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 79 0.77
110 24 0.23
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.35
Consensus pattern (110 bp):
CTGCCTGTCAACTTTGACCTTGGAGACTTTTTCACCCTCAGTCTGCCTATCGACTTTGACCCTAA
AGAATGCCTCATTTTAAGTCTGCCTGTCAGCTTTGACCCTGGAGA
Found at i:3742418 original size:83 final size:81
Alignment explanation
Indices: 3742331--3743125 Score: 459
Period size: 83 Copynumber: 9.4 Consensus size: 81
3742321 CCTTATTTTA
* *
3742331 AGTCTGCCTGTCAGCTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCCTGTTGGCTTTGACTC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CCTCATTTTAAGTCTGCCTGTCGGCTTTGAC-C
*
3742396 TAGAGACTTTTCACTCTC
64 TGGAGACTTTTCACTCTC
* * ** * *
3742414 AGTCTGTCTGTCGACTTTGACCCTAAAGACTACCTCATTTTAAGTCTGCCGGTCAGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CCTCATTTTAAGTCTGCCTGTCGGCTTTGACC-
3742479 TGGAGACTTTTCAACCTCATC
64 TGGAGACTTTTC-A-CTC-TC
* ** * *
3742500 TAAAGTCTACCTGTCGGCTTTGACCCTGGAGACTTTCCTC-CCTT-AGTCTGCCTATTGGC-TTG
1 ---AGTCTGCCTGTCGGCTTTGACCCTGGAGAC--TCCTCATTTTAAGTCTGCCTGTCGGCTTTG
* * * *
3742562 ACCCTGGAGA-TTGCCTCATTTTA
61 A-CCTGGAGACTT--TTCACTCTC
* * ** *** *
3742585 AGTCTGCCTGTCGGCTTTGAACCTTGAGACTTTTCTACCCTCAGTCTGCCTGTCGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTCCTC-ATTTTAAGTCTGCCTGTCGGCTTTGACC-
* *
3742650 TGGAGACTTTTTTTACCCTC
64 TGGAGAC--TTTTCACTCTC
* * * * ** *** * *
3742670 AATCTGCTTGTTGGCTTTGACCTTGGAGACTTTTCTACCCTCAGTCTGTCTGTCGGCTTTGACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACTCCTC-ATTTTAAGTCTGCCTGTCGGCTTTGA-CC
** * * *
3742735 TGGAGACTGCCTCATTTTA
64 TGGAGACT-TTTCACTCTC
* * * *
3742754 AGTCTGCATGTCGGCTTTGACCCTGAAGACTGCCTCATTTTAAGTCTGCCTATTGGCTTTGACCT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CCTCATTTTAAGTCTGCCTGTCGGCTTTGACC-
*
3742819 TGGAGACTTTTCACCCTC
64 TGGAGACTTTTCACTCTC
** ** * *
3742837 AGTCTGCCTGTCAACTTTGACCCTGGAGACTGTTTCATTTTAAGTCTGCCTGTCGACTTTAACCC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT-CCTCATTTTAAGTCTGCCTGTCGGCTTTGA-CC
* * * *
3742902 TAGAGACTTTCCTACCCTA
64 TGGAGACTTTTC-ACTCTC
* * * * * * * * * * *
3742921 AGTCTGCATGTTGGCTTTGACCTTAGAGACTTTTCTCACTCTCAGTCTGCTTATCGACTTTGACC
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGAC--TCCTCATTTTAAGTCTGCCTGTCGGCTTTGACC
3742986 TTGGAGACTTTTCAGCCTCATC
64 -TGGAGACTTTTCA--CTC-TC
** * * *
3743008 TAAAGTCTGCCCATCGGCTTTGACCCTGGAGACT-TTC-TTCCCTCAGTCTGCCTGTCGGCTTTG
1 ---AGTCTGCCTGTCGGCTTTGACCCTGGAGACTCCTCATT--TTAAGTCTGCCTGTCGGCTTTG
* *
3743071 ACCCTAGAGACTTTTCCTACCCTC
61 A-CCTGGAGACTTTT-C-ACTCTC
* * *
3743095 AGCCTACCTGTCGACTTTGACCCTGGAGACT
1 AGTCTGCCTGTCGGCTTTGACCCTGGAGACT
3743126 TTTCCACTTT
Statistics
Matches: 551, Mismatches: 121, Indels: 79
0.73 0.16 0.11
Matches are distributed among these distances:
80 3 0.01
82 31 0.06
83 149 0.27
84 127 0.23
85 104 0.19
86 11 0.02
87 18 0.03
88 48 0.09
89 30 0.05
90 29 0.05
91 1 0.00
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (81 bp):
AGTCTGCCTGTCGGCTTTGACCCTGGAGACTCCTCATTTTAAGTCTGCCTGTCGGCTTTGACCTG
GAGACTTTTCACTCTC
Found at i:3742668 original size:43 final size:42
Alignment explanation
Indices: 3742251--3743127 Score: 540
Period size: 42 Copynumber: 20.7 Consensus size: 42
3742241 ACCCTGGAGA
** *
3742251 CTGCCTGTCAACTTTGACCTTGGAGACTTT-TCACCCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * * ** * ** * *** *
3742292 CTGCCTATCGGTTTTGACGCTAAAGAATGCCTTATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* ** *** *
3742334 CTGCCTGTCAGCTTTGACCCTGGAGACTGCCTCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * * *
3742376 CTGCCTGTTGGCTTTGACTCTAGAGACTTT-TCACTCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * ** ** *** *
3742417 CTGTCTGTCGACTTTGACCCTAAAGACTACCTCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * *
3742459 CTGCCGGTCAGCTTTGACCTTGGAGACTTT-TCAACCTCATCTAAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTC-ACC-C-TC---AGT
* * *
3742506 CTACCTGTCGGCTTTGACCCTGGAGACTTTC-CTCCCTTAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * * *** *
3742547 CTGCCTATTGGC-TTGACCCTGGAGA-TTGCCTCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTT-TCTCACCCTCAGT
* *
3742588 CTGCCTGTCGGCTTTGAACCTTGAGACTTT-TCTACCCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTC-ACCCTCAGT
* * * *
3742630 CTGCCTGTCGGCTTTGACCTTGGAGACTTTTTTTACCCTCAAT
1 CTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCTCACCCTCAGT
* * *
3742673 CTGCTTGTTGGCTTTGACCTTGGAGACTTT-TCTACCCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTC-ACCCTCAGT
* ** *** *
3742715 CTGTCTGTCGGCTTTGACCCTGGAGACTGCCTCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * ** *** *
3742757 CTGCATGTCGGCTTTGACCCTGAAGACTGCCTCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* * *
3742799 CTGCCTATTGGCTTTGACCTTGGAGACTTT-TCACCCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
** *** *
3742840 CTGCCTGTCAACTTTGACCCTGGAGACTGTT-TCATTTTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACT-TTCTCACCCTCAGT
* * * *
3742882 CTGCCTGTCGACTTTAACCCTAGAGACTTTC-CTACCCTAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTC-ACCCTCAGT
* * * * *
3742924 CTGCATGTTGGCTTTGACCTTAGAGACTTTTCTCACTCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGAC-TTTCTCACCCTCAGT
* * * *
3742967 CTGCTTATCGACTTTGACCTTGGAGACTTT-TCAGCCTCATCTAAAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCA-CC-C-TC---AGT
** *
3743014 CTGCCCATCGGCTTTGACCCTGGAGACTTTCT-TCCCTCAGT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
* *
3743055 CTGCCTGTCGGCTTTGACCCTAGAGACTTT-TCCTACCCTCAGC
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTTCT-C-ACCCTCAGT
* *
3743098 CTACCTGTCGACTTTGACCCTGGAGACTTT
1 CTGCCTGTCGGCTTTGACCCTGGAGACTTT
3743128 TCCACTTTTT
Statistics
Matches: 649, Mismatches: 154, Indels: 64
0.75 0.18 0.07
Matches are distributed among these distances:
39 2 0.00
40 15 0.02
41 148 0.23
42 302 0.47
43 108 0.17
44 8 0.01
45 2 0.00
46 4 0.01
47 59 0.09
48 1 0.00
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.35
Consensus pattern (42 bp):
CTGCCTGTCGGCTTTGACCCTGGAGACTTTCTCACCCTCAGT
Found at i:3742863 original size:125 final size:125
Alignment explanation
Indices: 3742331--3743125 Score: 488
Period size: 125 Copynumber: 6.2 Consensus size: 125
3742321 CCTTATTTTA
* *
3742331 AGTCTGCCTGTC-AGCTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCCTGTTGGCTTTGACT
1 AGTCTGCCTGTCGA-CTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCCTGTCGGCTTTGACC
** * * * * * * * ** *** *
3742395 CT-AGAGACTTTTCACTCTCAGTCTGTCTGTCGACTTTGACCCTAAAGAC-TACCTCATTTTA
65 CTGA-AGACTCCTCATTCTAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTTCT-ACCCTC
* * * * * *
3742456 AGTCTGCCGGTC-AGCTTTGACCTTGGAGACTTTTCAACCTCATCTAAAGTCTACCTGTCGGCTT
1 AGTCTGCCTGTCGA-CTTTGACCCTGGAGAC---T--GCCTCATTTTAAGTCTGCCTGTCGGCTT
* * * * * * ** *
3742520 TGACCCTGGAGACTTTCCTC--CCTTAGTCTGCCTATTGGC-TTGACCCTGGAGA-TTGCCTCAT
60 TGACCCTGAAGAC--TCCTCATTCTAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTTCT-AC
** *
3742581 TTTA
122 CCTC
* * * ** *** *
3742585 AGTCTGCCTGTCGGCTTTGAACCTTGAGACT-TTTCTACCCTCAGTCTGCCTGTCGGCTTTGACC
1 AGTCTGCCTGTCGACTTTGACCCTGGAGACTGCCTC-ATTTTAAGTCTGCCTGTCGGCTTTGACC
* * * ** * *
3742649 TTGGAGACT-TTTTTTACCCTCAA-TCTGCTTGTTGGCTTTGACCTTGGAGACTTTTCTACCCTC
65 CTGAAGACTCCTCATT---CT-AAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTTCTACCCTC
* * *
3742712 AGTCTGTCTGTCGGCTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCATGTCGGCTTTGACCC
1 AGTCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCCTGTCGGCTTTGACCC
* * *
3742777 TGAAGACTGCCTCATTTTAAGTCTGCCTATTGGCTTTGACCTTGGAGACTTTTC-ACCCTC
66 TGAAGACT-CCTCATTCTAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTTCTACCCTC
* ** * *
3742837 AGTCTGCCTGTCAACTTTGACCCTGGAGACTGTTTCATTTTAAGTCTGCCTGTCGACTTTAACCC
1 AGTCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCCTGTCGGCTTTGACCC
** * *
3742902 T-AGAGACTTTCCT-ACCCTAAGTCTGCATGTTGGCTTTGACCTTAGAGACTTTTCTCACTCTC
66 TGA-AGAC--TCCTCATTCTAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTTCT-ACCCTC
* * * * * **
3742964 AGTCTGCTTATCGACTTTGACCTTGGAGACTTTTCAGCCTCATCTAAAGTCTGCCCATCGGCTTT
1 AGTCTGCCTGTCGACTTTGACCCTGGAGAC---T--GCCTCATTTTAAGTCTGCCTGTCGGCTTT
* * * * *
3743029 GACCCTGGAGACT-TTC-TTCCCTCAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTTTCCTACC
61 GACCCTGAAGACTCCTCATT--CTAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTT-CTACC
3743092 CTC
123 CTC
* *
3743095 AGCCTACCTGTCGACTTTGACCCTGGAGACT
1 AGTCTGCCTGTCGACTTTGACCCTGGAGACT
3743126 TTTCCACTTT
Statistics
Matches: 527, Mismatches: 105, Indels: 73
0.75 0.15 0.10
Matches are distributed among these distances:
121 1 0.00
122 1 0.00
123 2 0.00
124 31 0.06
125 133 0.25
126 49 0.09
127 105 0.20
128 8 0.02
129 50 0.09
130 48 0.09
131 63 0.12
132 36 0.07
ACGTcount: A:0.17, C:0.29, G:0.19, T:0.35
Consensus pattern (125 bp):
AGTCTGCCTGTCGACTTTGACCCTGGAGACTGCCTCATTTTAAGTCTGCCTGTCGGCTTTGACCC
TGAAGACTCCTCATTCTAAGTCTGCCTGTTGGCTTTGACCTTAGAGACTTTTCTACCCTC
Found at i:3742919 original size:294 final size:294
Alignment explanation
Indices: 3742375--3743041 Score: 777
Period size: 294 Copynumber: 2.2 Consensus size: 294
3742365 TCATTTTAAG
* * * * *
3742375 TCTGCCTGTTGGCTTTGA-CTCTAGAGACTTTTCACTCTCAGTCTGTCTGTCGACTTTGACCCTA
1 TCTGCTTGTTGGCTTTGACCT-TGGAGACTTTTCACCCTCAGTCTGTCTGTCGGCTTTGACCCTG
* * * *
3742439 AAGACTACCTCATTTTAAGTCTGCCGGTCAGCTTTGACCTTGGAGACTTTTCAACCTCATCTAAA
65 GAGACTACCTCATTTTAAGTCTGCAGGTCAGCTTTGACCCTGAAGAC--TT-AACCTCATCTAAA
* * * ***
3742504 GTCTACCTGTCGGCTTTGACCCTGGAGACTTTCCTCCCTTAGTCTGCCTATTGGCTTGACCCTGG
127 GTCTACCTATCGGCTTTGACCCTGGAGACTTTCCACCCTCAGTCTGCCTATCAACTTGACCCTGG
* * * * *
3742569 AGATTGCCTCATTTTAAGTCTGCCTGTCGGCTTTGAACCTTGAGACTTTTCTACCCTCAGTCTGC
192 AGACTGCCTCATTTTAAGTCTGCCTGTCGACTTTGAACCTAGAGACTTTCCTACCCTAAGTCTGC
* * * *
3742634 CTGTCGGCTTTGACCTTGGAGACTTTTTTTACCCTCAA
257 ATGTCGGCTTTGACCTTAGAGACTTTTCTCACCCTCAA
3742672 TCTGCTTGTTGGCTTTGACCTTGGAGACTTTTCTACCCTCAGTCTGTCTGTCGGCTTTGACCCTG
1 TCTGCTTGTTGGCTTTGACCTTGGAGACTTTTC-ACCCTCAGTCTGTCTGTCGGCTTTGACCCTG
* * * * * *
3742737 GAGACTGCCTCATTTTAAGTCTGCATGTCGGCTTTGACCCTGAAGAC-T-GCCTCATTTTAAGTC
65 GAGACTACCTCATTTTAAGTCTGCAGGTCAGCTTTGACCCTGAAGACTTAACCTCATCTAAAGTC
* * * * *
3742800 TGCCTATTGGCTTTGACCTTGGAGACTTTTCACCCTCAGTCTGCCTGTCAACTTTGACCCTGGAG
130 TACCTATCGGCTTTGACCCTGGAGACTTTCCACCCTCAGTCTGCCTATCAAC-TTGACCCTGGAG
**
3742865 ACTGTTTCATTTTAAGTCTGCCTGTCGACTTT-AACCCTAGAGACTTTCCTACCCTAAGTCTGCA
194 ACTGCCTCATTTTAAGTCTGCCTGTCGACTTTGAA-CCTAGAGACTTTCCTACCCTAAGTCTGCA
* * *
3742929 TGTTGGCTTTGACCTTAGAGACTTTTCTCACTCTCAG
258 TGTCGGCTTTGACCTTAGAGACTTTTCTCACCCTCAA
* * * *
3742966 TCTGCTTATCGACTTTGACCTTGGAGACTTTTCAGCCTCA-TCTAAAGTCTGCCCATCGGCTTTG
1 TCTGCTTGTTGGCTTTGACCTTGGAGACTTTTCACCCTCAGTCT---GTCTG----TCGGCTTTG
3743030 ACCCTGGAGACT
59 ACCCTGGAGACT
3743042 TTCTTCCCTC
Statistics
Matches: 315, Mismatches: 44, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
292 3 0.01
293 61 0.19
294 126 0.40
295 6 0.02
297 28 0.09
298 70 0.22
299 21 0.07
ACGTcount: A:0.17, C:0.28, G:0.19, T:0.36
Consensus pattern (294 bp):
TCTGCTTGTTGGCTTTGACCTTGGAGACTTTTCACCCTCAGTCTGTCTGTCGGCTTTGACCCTGG
AGACTACCTCATTTTAAGTCTGCAGGTCAGCTTTGACCCTGAAGACTTAACCTCATCTAAAGTCT
ACCTATCGGCTTTGACCCTGGAGACTTTCCACCCTCAGTCTGCCTATCAACTTGACCCTGGAGAC
TGCCTCATTTTAAGTCTGCCTGTCGACTTTGAACCTAGAGACTTTCCTACCCTAAGTCTGCATGT
CGGCTTTGACCTTAGAGACTTTTCTCACCCTCAA
Found at i:3743764 original size:43 final size:41
Alignment explanation
Indices: 3743716--3743798 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 41
3743706 AGGATTTATA
* *
3743716 GCCACCT-AATTAACTTAGGTGGCATTGCATTGCATTGCATGCT
1 GCCACCTAAATCAA-TTAGGTGGCAATGCA-TGCATT-CATGCT
3743759 GCCACCTAAATCAATTAGGTGGCAATGCATGCATTCATGC
1 GCCACCTAAATCAATTAGGTGGCAATGCATGCATTCATGC
3743799 ATGAAATCGG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 5 0.14
42 6 0.16
43 21 0.57
44 5 0.14
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (41 bp):
GCCACCTAAATCAATTAGGTGGCAATGCATGCATTCATGCT
Found at i:3743919 original size:19 final size:19
Alignment explanation
Indices: 3743895--3743932 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
3743885 AAACATTTGA
3743895 TGCATTGCATTCATTTCAT
1 TGCATTGCATTCATTTCAT
*
3743914 TGCATTGCTTTCATTTCAT
1 TGCATTGCATTCATTTCAT
3743933 GAATTCATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.11, T:0.50
Consensus pattern (19 bp):
TGCATTGCATTCATTTCAT
Found at i:3753175 original size:27 final size:27
Alignment explanation
Indices: 3753119--3753190 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
3753109 ATTAAATTAA
* *
3753119 AAATTAAATAGTTAAAATTTTATATAATT
1 AAATTAATTAATT-AAA-TTTATATAATT
*
3753148 AATTTAATTAATTAAATTTAT-TAGATT
1 AAATTAATTAATTAAATTTATATA-ATT
*
3753175 AAATTATTTAATTAAA
1 AAATTAATTAATTAAA
3753191 AATATTTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.05
27 22 0.59
28 3 0.08
29 10 0.27
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (27 bp):
AAATTAATTAATTAAATTTATATAATT
Found at i:3753190 original size:13 final size:13
Alignment explanation
Indices: 3753138--3753190 Score: 54
Period size: 13 Copynumber: 4.0 Consensus size: 13
3753128 AGTTAAAATT
* *
3753138 TTATATAATTAAT
1 TTATTTAATTAAA
*
3753151 TTAATTAATTAAA
1 TTATTTAATTAAA
3753164 TT-TATTAGATTAAA
1 TTAT-TTA-ATTAAA
3753178 TTATTTAATTAAA
1 TTATTTAATTAAA
3753191 AATATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
13 21 0.64
14 11 0.33
15 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TTATTTAATTAAA
Found at i:3753196 original size:27 final size:27
Alignment explanation
Indices: 3753145--3753196 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
3753135 ATTTTATATA
* **
3753145 ATTAATTTAATTAATTAAATTTATTAG
1 ATTAAATTAATTAATTAAAAATATTAG
*
3753172 ATTAAATTATTTAATTAAAAATATT
1 ATTAAATTAATTAATTAAAAATATT
3753197 TTAATATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTAAATTAATTAATTAAAAATATTAG
Found at i:3753204 original size:22 final size:21
Alignment explanation
Indices: 3753179--3753231 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
3753169 TAGATTAAAT
*
3753179 TATTTAATTAAAAATATTTTAA
1 TATTTAAATAAAAA-ATTTTAA
*
3753201 TA-TTAAATAAATAATTTTAA
1 TATTTAAATAAAAAATTTTAA
3753221 TA-TTAAATAAA
1 TATTTAAATAAA
3753232 TTTCATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 18 0.62
21 9 0.31
22 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TATTTAAATAAAAAATTTTAA
Found at i:3753219 original size:20 final size:19
Alignment explanation
Indices: 3753190--3753232 Score: 77
Period size: 20 Copynumber: 2.2 Consensus size: 19
3753180 ATTTAATTAA
3753190 AAATATTTTAATATTAAAT
1 AAATATTTTAATATTAAAT
3753209 AAATAATTTTAATATTAAAT
1 AAAT-ATTTTAATATTAAAT
3753229 AAAT
1 AAAT
3753233 TTCATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATTTTAATATTAAAT
Found at i:3753239 original size:16 final size:15
Alignment explanation
Indices: 3753203--3753281 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 15
3753193 TATTTTAATA
*
3753203 TTAA-ATAAATAATT
1 TTAATATAAATAAAT
3753217 TTAATATTAAATAAAT
1 TTAATA-TAAATAAAT
*
3753233 TTCATATATAATAAATAT
1 TTAATATA-AAT-AA-AT
*
3753251 TTAATTAAAAATATATAT
1 TTAA-TATAAATA-A-AT
3753269 TTAAT-TAAATAAA
1 TTAATATAAATAAA
3753282 ATAATTTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
14 5 0.09
15 4 0.08
16 21 0.40
17 4 0.08
18 16 0.30
19 3 0.06
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (15 bp):
TTAATATAAATAAAT
Found at i:3753263 original size:18 final size:18
Alignment explanation
Indices: 3753242--3753277 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
3753232 TTTCATATAT
3753242 AATAAATATTTAATTAAA
1 AATAAATATTTAATTAAA
*
3753260 AATATATATTTAATTAAA
1 AATAAATATTTAATTAAA
3753278 TAAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AATAAATATTTAATTAAA
Found at i:3753288 original size:18 final size:17
Alignment explanation
Indices: 3753245--3753288 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
3753235 CATATATAAT
3753245 AAAT-ATTTAATTAAAA
1 AAATAATTTAATTAAAA
*
3753261 ATATATATTTAATTAAATA
1 AAATA-ATTTAATTAAA-A
3753280 AAATAATTT
1 AAATAATTT
3753289 TTAACATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 3 0.13
18 15 0.65
19 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAATTTAATTAAAA
Found at i:3753342 original size:16 final size:16
Alignment explanation
Indices: 3753319--3753356 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
3753309 TAATGATTTA
*
3753319 ATATTATTATATAAAAT
1 ATATTATT-TAAAAAAT
3753336 A-ATTATTTAAAAAAT
1 ATATTATTTAAAAAAT
3753351 ATATTA
1 ATATTA
3753357 AAATAAGCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTATTTAAAAAAT
Found at i:3755696 original size:14 final size:14
Alignment explanation
Indices: 3755679--3755709 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
3755669 TTTTTATAAT
3755679 AAAATAAATAATTA
1 AAAATAAATAATTA
*
3755693 AAAATAAATGATTA
1 AAAATAAATAATTA
3755707 AAA
1 AAA
3755710 TGATTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (14 bp):
AAAATAAATAATTA
Found at i:3756059 original size:21 final size:21
Alignment explanation
Indices: 3756035--3756100 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 21
3756025 ATAATTATGG
*
3756035 TAATAAAATTAATTATTATAA
1 TAATAAAATTAAATATTATAA
* * *
3756056 TAATGATATTAAATATTATAG
1 TAATAAAATTAAATATTATAA
* *
3756077 TGATATAATTAAA-ATTAATAA
1 TAATAAAATTAAATATT-ATAA
3756098 TAA
1 TAA
3756101 GATATATATT
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (21 bp):
TAATAAAATTAAATATTATAA
Found at i:3756257 original size:35 final size:35
Alignment explanation
Indices: 3756218--3756316 Score: 104
Period size: 29 Copynumber: 3.0 Consensus size: 35
3756208 TTAGATTAGA
*
3756218 AATAAAATATAAATAAAATTATATTTATATTGAAT
1 AATAAAATATAAATAAAATTATATTTATATTAAAT
3756253 AAT--AAT-T--A-AAAATTATATTTATATTAAAT
1 AATAAAATATAAATAAAATTATATTTATATTAAAT
* * *
3756282 AATAAAATATATATTAAAA-TATATTTGTTTTAAAT
1 AATAAAATATA-AATAAAATTATATTTATATTAAAT
3756317 TTAAATATTT
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
29 23 0.43
30 1 0.02
31 3 0.06
32 2 0.04
33 3 0.06
35 17 0.32
36 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (35 bp):
AATAAAATATAAATAAAATTATATTTATATTAAAT
Found at i:3757285 original size:18 final size:19
Alignment explanation
Indices: 3757262--3757300 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
3757252 TTTTTTTTCC
3757262 AAAGCAACCCTA-AACAAA
1 AAAGCAACCCTACAACAAA
**
3757280 AAAGCATTCCTACAACAAA
1 AAAGCAACCCTACAACAAA
3757299 AA
1 AA
3757301 TCAACATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.59, C:0.26, G:0.05, T:0.10
Consensus pattern (19 bp):
AAAGCAACCCTACAACAAA
Found at i:3757801 original size:34 final size:32
Alignment explanation
Indices: 3757759--3757830 Score: 94
Period size: 34 Copynumber: 2.2 Consensus size: 32
3757749 ATTTTATAAA
3757759 TTAT-TTTTATATATAAAATATTATTTTAATATT
1 TTATATTTTATATATAAAATA-T-TTTTAATATT
* *
3757792 TTATATTTTATATGTAAAATATTTTTATTATT
1 TTATATTTTATATATAAAATATTTTTAATATT
3757824 TTA-ATTT
1 TTATATTT
3757831 ATTACTAAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
31 4 0.11
32 12 0.33
33 5 0.14
34 15 0.42
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (32 bp):
TTATATTTTATATATAAAATATTTTTAATATT
Found at i:3757804 original size:32 final size:32
Alignment explanation
Indices: 3757759--3757832 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
3757749 ATTTTATAAA
*
3757759 TTATTTTTATATA-TAAAATATTATTTTAATATT
1 TTATATTTATATAGTAAAATA-T-TTTTAATATT
*
3757792 TTATATTT-TATATGTAAAATATTTTTATTATT
1 TTATATTTATATA-GTAAAATATTTTTAATATT
3757824 TTA-ATTTAT
1 TTATATTTAT
3757833 TACTAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
31 4 0.11
32 17 0.47
33 8 0.22
34 7 0.19
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (32 bp):
TTATATTTATATAGTAAAATATTTTTAATATT
Found at i:3759470 original size:2 final size:2
Alignment explanation
Indices: 3759463--3759487 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3759453 TGAAAGCAAC
3759463 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 T
3759488 CACATTTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3760591 original size:2 final size:2
Alignment explanation
Indices: 3760584--3760623 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
3760574 CTCTTGACTT
3760584 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
3760624 AATTATCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3761588 original size:3 final size:3
Alignment explanation
Indices: 3761580--3761614 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
3761570 AAAATGACTT
*
3761580 TTA TTA TTA TTA TTA -TA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3761615 CTTCTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:3761845 original size:23 final size:24
Alignment explanation
Indices: 3761819--3761866 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
3761809 ATTTATCAAG
**
3761819 TACTATATTTAATATA-ATATTAT
1 TACTATAAATAATATAGATATTAT
3761842 TACTATAAATAATATAGATATTAT
1 TACTATAAATAATATAGATATTAT
3761866 T
1 T
3761867 TAAAAAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (24 bp):
TACTATAAATAATATAGATATTAT
Found at i:3762055 original size:2 final size:2
Alignment explanation
Indices: 3762050--3762083 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3762040 ACCATTTTCA
3762050 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
3762084 TCTAGCATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3763612 original size:17 final size:17
Alignment explanation
Indices: 3763590--3763623 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3763580 TTCAATTACA
*
3763590 TAAATTTAATTTAAAAT
1 TAAATTAAATTTAAAAT
3763607 TAAATTAAATTTAAAAT
1 TAAATTAAATTTAAAAT
3763624 CTATTTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAATTAAATTTAAAAT
Found at i:3763696 original size:23 final size:25
Alignment explanation
Indices: 3763670--3763723 Score: 85
Period size: 23 Copynumber: 2.2 Consensus size: 25
3763660 AATTCGATTC
3763670 ATATTTTTATTTAAA-TAATAAA-A
1 ATATTTTTATTTAAATTAATAAATA
*
3763693 ATATTTTTATTTAAATTATTAAATA
1 ATATTTTTATTTAAATTAATAAATA
3763718 ATATTT
1 ATATTT
3763724 AAAAATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
23 15 0.54
24 6 0.21
25 7 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATTTTTATTTAAATTAATAAATA
Found at i:3764277 original size:12 final size:12
Alignment explanation
Indices: 3764248--3764280 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
3764238 TTGAGCTAAG
*
3764248 ATTTAAAATTTT
1 ATTTAAATTTTT
3764260 -TTTAAATTTTT
1 ATTTAAATTTTT
3764271 ATTTAAATTT
1 ATTTAAATTT
3764281 AAATTTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTTAAATTTTT
Found at i:3764357 original size:22 final size:22
Alignment explanation
Indices: 3764330--3764372 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3764320 TATTAAATAA
3764330 ATATTTTTA-AATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
3764352 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
3764373 AATAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:3764924 original size:21 final size:21
Alignment explanation
Indices: 3764900--3764946 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
3764890 AAATTATCTA
3764900 AAAATTAAATTAATTT-AATTT
1 AAAATTAAA-TAATTTAAATTT
*
3764921 AAAATTTAATAATTTAAATTT
1 AAAATTAAATAATTTAAATTT
3764942 AAAAT
1 AAAAT
3764947 AATCTAAACG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATTAAATAATTTAAATTT
Found at i:3764941 original size:14 final size:15
Alignment explanation
Indices: 3764915--3764943 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
3764905 TAAATTAATT
3764915 TAATTTAAAATTTAA
1 TAATTTAAAATTTAA
3764930 TAATTT-AAATTTAA
1 TAATTTAAAATTTAA
3764944 AATAATCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAATTTAAAATTTAA
Found at i:3766383 original size:18 final size:16
Alignment explanation
Indices: 3766360--3766396 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
3766350 TAATTACTTT
3766360 TTTAATTTACATATTAAA
1 TTTAATTTA-A-ATTAAA
3766378 TTTAATTTAAATTAAA
1 TTTAATTTAAATTAAA
3766394 TTT
1 TTT
3766397 TTACTTTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 1 0.05
18 9 0.47
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTTAATTTAAATTAAA
Found at i:3766399 original size:18 final size:20
Alignment explanation
Indices: 3766358--3766399 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
3766348 TTTAATTACT
3766358 TTTTTAATTTACATATTAAA
1 TTTTTAATTTACATATTAAA
3766378 --TTTAATTTA-A-ATTAAA
1 TTTTTAATTTACATATTAAA
3766394 TTTTTA
1 TTTTTA
3766400 CTTTTACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
16 6 0.30
17 1 0.05
18 13 0.65
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAATTTACATATTAAA
Found at i:3767099 original size:14 final size:14
Alignment explanation
Indices: 3767075--3767114 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
3767065 ACTCACTTAA
*
3767075 AAATAAAAAAAATC
1 AAATAATAAAAATC
*
3767089 AAATTAT-AAAATC
1 AAATAATAAAAATC
3767102 AAATAATAAAAAT
1 AAATAATAAAAAT
3767115 ATTTATGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAATAAAAATC
Found at i:3767143 original size:28 final size:28
Alignment explanation
Indices: 3767112--3767175 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
3767102 AAATAATAAA
*
3767112 AATATTTATGTGT-TTCAAAAATATT-ATT
1 AATATTTAT-T-TATTCAAAAAAATTAATT
3767140 AATATTATATTTATTCAAAAAAATTAATT
1 AATATT-TATTTATTCAAAAAAATTAATT
3767169 AA-ATTTA
1 AATATTTA
3767176 ATCATTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
27 3 0.09
28 21 0.66
29 8 0.25
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (28 bp):
AATATTTATTTATTCAAAAAAATTAATT
Found at i:3767537 original size:3 final size:3
Alignment explanation
Indices: 3767529--3767570 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
3767519 GTACTAAGTT
3767529 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
3767571 CTACTATGCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3768234 original size:23 final size:22
Alignment explanation
Indices: 3768185--3768234 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
3768175 AATTATATTT
*
3768185 TATATATAATATATTATTTACA
1 TATACATAATATATTATTTACA
3768207 T-TACATAATATATAATATTTA-A
1 TATACATAATATAT--TATTTACA
3768229 TATACA
1 TATACA
3768235 GCTATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 11 0.46
22 3 0.12
23 10 0.42
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (22 bp):
TATACATAATATATTATTTACA
Found at i:3768696 original size:3 final size:3
Alignment explanation
Indices: 3768688--3768720 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
3768678 CTTTCCATAT
3768688 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG
3768721 TGTATGTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.67, T:0.33
Consensus pattern (3 bp):
GTG
Found at i:3770222 original size:9 final size:9
Alignment explanation
Indices: 3770203--3770280 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
3770193 GTTGTTTATA
3770203 TTATTTATTT
1 TTATTT-TTT
3770213 TTATTTTTT
1 TTATTTTTT
*
3770222 TTAATTTTTA
1 TT-ATTTTTT
**
3770232 AAATTTTTT
1 TTATTTTTT
3770241 TTA--TTTT
1 TTATTTTTT
3770248 TTAGTTTTTT
1 TTA-TTTTTT
**
3770258 TTAAATTTT
1 TTATTTTTT
* *
3770267 TAATTATTT
1 TTATTTTTT
3770276 TTATT
1 TTATT
3770281 AAATATCAAA
Statistics
Matches: 51, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
7 7 0.14
9 25 0.49
10 19 0.37
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (9 bp):
TTATTTTTT
Found at i:3770257 original size:28 final size:27
Alignment explanation
Indices: 3770205--3770277 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 27
3770195 TGTTTATATT
3770205 ATTTATTTTTATTTTTTTTAATTTTTAAA
1 ATTT-TTTTTATTTTTTTT-ATTTTTAAA
*
3770234 ATTTTTTTTATTTTTTAGTT-TTTTTTAA
1 ATTTTTTTTATTTTTT--TTATTTTTAAA
*
3770262 ATTTTTAATTATTTTT
1 ATTTTT-TTTATTTTT
3770278 ATTAAATATC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 25 0.64
29 12 0.31
30 2 0.05
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.75
Consensus pattern (27 bp):
ATTTTTTTTATTTTTTTTATTTTTAAA
Found at i:3770276 original size:18 final size:17
Alignment explanation
Indices: 3770209--3770278 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 17
3770199 TATATTATTT
*
3770209 ATTTTT-ATTTTTTTTA
1 ATTTTTAATTTTTTTAA
*
3770225 ATTTTTAAAATTTTTTTTA
1 ATTTTT--AATTTTTTTAA
* *
3770244 TTTTTTAGTTTTTTTTAA
1 ATTTTTA-ATTTTTTTAA
3770262 ATTTTTAATTATTTTTA
1 ATTTTTAATT-TTTTTA
3770279 TTAAATATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 6 0.14
17 3 0.07
18 20 0.45
19 15 0.34
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTTTTTAA
Found at i:3770276 original size:19 final size:17
Alignment explanation
Indices: 3770209--3770278 Score: 79
Period size: 19 Copynumber: 4.0 Consensus size: 17
3770199 TATATTATTT
3770209 ATTTTT-ATTTTTTTTA
1 ATTTTTAATTTTTTTTA
3770225 ATTTTTAAAATTTTTTTTA
1 ATTTTT--AATTTTTTTTA
* *
3770244 TTTTTTAGTTTTTTTTAA
1 ATTTTTAATTTTTTTT-A
*
3770262 ATTTTTAATTATTTTTA
1 ATTTTTAATTTTTTTTA
3770279 TTAAATATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
16 6 0.13
17 10 0.22
18 14 0.31
19 15 0.33
ACGTcount: A:0.24, C:0.00, G:0.01, T:0.74
Consensus pattern (17 bp):
ATTTTTAATTTTTTTTA
Found at i:3770773 original size:17 final size:18
Alignment explanation
Indices: 3770736--3770788 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
3770726 TTTTAATTTT
3770736 AAAATAATTATTTATTAA
1 AAAATAATTATTTATTAA
3770754 AAAATAATTATTCT-TTAA
1 AAAATAATTATT-TATTAA
* *
3770772 AAATATATTTTTTTATT
1 AAA-ATAATTATTTATT
3770789 TTTAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAAATAATTATTTATTAA
Found at i:3772776 original size:2 final size:2
Alignment explanation
Indices: 3772771--3772813 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
3772761 AAAAAATAAC
3772771 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
3772813 A
1 A
3772814 CCAACAACCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3773393 original size:133 final size:133
Alignment explanation
Indices: 3773127--3773386 Score: 457
Period size: 133 Copynumber: 2.0 Consensus size: 133
3773117 ATACACTTCA
* *
3773127 AATAATATCTTAAAAGAGTTTTCTACAATGTGTAATGTTTTGGCGATTCCACCATGTACGAATGG
1 AATAATATCTTAAAAGAGTTTTCTACAATGTGTAATGTTTTGGCGATTCCACCAGGTACAAATGG
*
3773192 CTTTATAAGATCATGCAATAGCTAACAGTGCAAATATCAAGTTAAGTATTGAAAGAATCCATGAC
66 CTTTATAAGATCATGCAATAGCTAACAGTGCAAATATCAAGTTAAGTACTGAAAGAATCCATGAC
3773257 ATC
131 ATC
* * *
3773260 AATAATATCTTAAAAGAGTTTTCTACAATTTGTAATGTTTTGGTGGTTCCACCAGGTACAAATGG
1 AATAATATCTTAAAAGAGTTTTCTACAATGTGTAATGTTTTGGCGATTCCACCAGGTACAAATGG
*
3773325 CTTTATAAGATCATGCAATAGCTAACAGTGCATATATCAAGTTAAGTACTGAAAGAATCCAT
66 CTTTATAAGATCATGCAATAGCTAACAGTGCAAATATCAAGTTAAGTACTGAAAGAATCCAT
3773387 AGCATCAGCC
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 120 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (133 bp):
AATAATATCTTAAAAGAGTTTTCTACAATGTGTAATGTTTTGGCGATTCCACCAGGTACAAATGG
CTTTATAAGATCATGCAATAGCTAACAGTGCAAATATCAAGTTAAGTACTGAAAGAATCCATGAC
ATC
Found at i:3777570 original size:16 final size:16
Alignment explanation
Indices: 3777549--3777580 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
3777539 CGCTTGGTCC
3777549 GCAGCAAACATGCTGG
1 GCAGCAAACATGCTGG
3777565 GCAGCAAACATGCTGG
1 GCAGCAAACATGCTGG
3777581 ATTAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.25, G:0.31, T:0.12
Consensus pattern (16 bp):
GCAGCAAACATGCTGG
Found at i:3780901 original size:59 final size:59
Alignment explanation
Indices: 3780796--3781034 Score: 293
Period size: 59 Copynumber: 4.0 Consensus size: 59
3780786 TGCCATGATT
* * *
3780796 GCCATCGAGGCGACCTAAATTCAAACATCAAGTGATGCCACA-TCACTCAAATTCAGATC
1 GCCACCGAAGCGACCTAAATTCAAACATCAAGTGATGCCA-AGTCACTCAAACTCAGATC
* * *
3780855 GCCACCGAAGCGACCTAAATTCAAACATCAAGTGATGCCAAGTCACTTAAATTCAGATT
1 GCCACCGAAGCGACCTAAATTCAAACATCAAGTGATGCCAAGTCACTCAAACTCAGATC
* * * * *
3780914 GCCACCGAGGTGACCTAAATTCAAACATTAAGTGATGCCAAGTCGCTCAAACACAGATC
1 GCCACCGAAGCGACCTAAATTCAAACATCAAGTGATGCCAAGTCACTCAAACTCAGATC
* * * * *
3780973 GCCTCC-AAGGCGACCCAAATTCAAACATTAAAGTGACGCCAAGTCACTCAAACTCAAATC
1 GCCACCGAA-GCGACCTAAATTCAAACA-TCAAGTGATGCCAAGTCACTCAAACTCAGATC
3781033 GC
1 GC
3781035 TATGAGGTGA
Statistics
Matches: 156, Mismatches: 21, Indels: 5
0.86 0.12 0.03
Matches are distributed among these distances:
58 2 0.01
59 125 0.80
60 29 0.19
ACGTcount: A:0.36, C:0.28, G:0.16, T:0.19
Consensus pattern (59 bp):
GCCACCGAAGCGACCTAAATTCAAACATCAAGTGATGCCAAGTCACTCAAACTCAGATC
Found at i:3781000 original size:118 final size:119
Alignment explanation
Indices: 3780792--3781020 Score: 329
Period size: 118 Copynumber: 1.9 Consensus size: 119
3780782 TATATGCCAT
* **
3780792 GATTGCCATCGAGGCGACCTAAATTCAAACATCAAGTGATGCCACATCACTCAAATTCAGATCGC
1 GATTGCCACCGAGGCGACCTAAATTCAAACATCAAGTGATGCCACATCACTCAAACACAGATCGC
* * *
3780857 CACCGAAGCGACCTAAATTCAAACA-TCAAGTGATGCCAAGTCACTTAAATTCA
66 CACCGAAGCGACCCAAATTCAAACATTAAAGTGACGCCAAGTCACTTAAATTCA
* * *
3780910 GATTGCCACCGAGGTGACCTAAATTCAAACATTAAGTGATGCCA-AGTCGCTCAAACACAGATCG
1 GATTGCCACCGAGGCGACCTAAATTCAAACATCAAGTGATGCCACA-TCACTCAAACACAGATCG
*
3780974 CCTCC-AAGGCGACCCAAATTCAAACATTAAAGTGACGCCAAGTCACT
65 CCACCGAA-GCGACCCAAATTCAAACATTAAAGTGACGCCAAGTCACT
3781021 CAAACTCAAA
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
117 3 0.03
118 77 0.79
119 18 0.18
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.20
Consensus pattern (119 bp):
GATTGCCACCGAGGCGACCTAAATTCAAACATCAAGTGATGCCACATCACTCAAACACAGATCGC
CACCGAAGCGACCCAAATTCAAACATTAAAGTGACGCCAAGTCACTTAAATTCA
Found at i:3786809 original size:52 final size:52
Alignment explanation
Indices: 3786661--3786789 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
3786651 CGAAATATGA
*
3786661 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
3786713 AAATTTGCCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
3786765 AAATTTACCTGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
3786790 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:3786816 original size:13 final size:13
Alignment explanation
Indices: 3786798--3786822 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3786788 CAAAGATCAG
3786798 TGTATCGATACAA
1 TGTATCGATACAA
3786811 TGTATCGATACA
1 TGTATCGATACA
3786823 TTTAAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3786885 original size:13 final size:13
Alignment explanation
Indices: 3786867--3786918 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
3786857 AGCTTCGTAG
3786867 CGATACATTGTAT
1 CGATACATTGTAT
3786880 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
3786899 CGATACATTGTAT
1 CGATACATTGTAT
3786912 CGATACA
1 CGATACA
3786919 AATCGTTGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:3787795 original size:52 final size:51
Alignment explanation
Indices: 3787712--3788269 Score: 403
Period size: 49 Copynumber: 11.5 Consensus size: 51
3787702 TGAGAAAAAG
* * ** ** *
3787712 GATGTCAATGTGCTGATTCACGGTTAGCAACATTAAACTTGAAGATGAGAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* ** *
3787763 GAATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAAATGACGAA
1 G-ATGCCAATGTGCTGATTCAAGGCCAGCAACATT-GGACTTAAAGATGA-GAA
* * * *
3787817 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * *
3787866 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATG-AGAA
** * * *
3787918 GGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AG--
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * *
3787962 G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GACAA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * * * * *
3788009 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGA-CA-AA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * * *
3788058 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-A--AG--
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * *
3788102 G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CA-AA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * * * *
3788150 GGTGCTAATATGCTGATTCAAGGCCATCGACATTGGACTT--A-A--AG--
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
*
3788194 G-TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-A-AA
1 GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
* * *
3788242 GGTGCCAATATGCTAATTCAAGGCCAGC
1 GATGCCAATGTGCTGATTCAAGGCCAGC
3788270 GATATTGGGC
Statistics
Matches: 431, Mismatches: 47, Indels: 60
0.80 0.09 0.11
Matches are distributed among these distances:
43 104 0.24
44 5 0.01
45 5 0.01
46 5 0.01
47 5 0.01
48 38 0.09
49 149 0.35
50 3 0.01
51 1 0.00
52 76 0.18
53 36 0.08
54 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (51 bp):
GATGCCAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGAGAA
Found at i:3787884 original size:49 final size:47
Alignment explanation
Indices: 3787815--3788282 Score: 573
Period size: 49 Copynumber: 9.9 Consensus size: 47
3787805 AAAAATGACG
*
3787815 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
*
3787862 TGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAA
1 --AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-G--A
* *
3787916 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* *
3787959 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* *
3788006 CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGACA
1 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG--A
*
3788056 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
* *
3788099 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG--A
* *
3788148 AAGGTGCTAATATGCTGATTCAAGGCCATCGACATTGGACTT----A
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
*
3788191 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG--A
* * *
3788240 AAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTTA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA
3788283 GAAGGGTTAC
Statistics
Matches: 369, Mismatches: 26, Indels: 48
0.83 0.06 0.11
Matches are distributed among these distances:
43 119 0.32
47 1 0.00
48 44 0.12
49 160 0.43
50 3 0.01
51 1 0.00
52 40 0.11
54 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (47 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA
Found at i:3787976 original size:43 final size:43
Alignment explanation
Indices: 3787915--3788287 Score: 395
Period size: 43 Copynumber: 8.1 Consensus size: 43
3787905 TAAAGATGAA
* *
3787915 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
3787958 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
3788001 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
1 ----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
*
3788049 AAAGACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ------AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
3788098 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
3788141 AAAGACAAAGGTGCTAATATGCTGATTCAAGGCCATCGACATTGGACTT
1 ------AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
*
3788190 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----T
* * *
3788239 AAAGGTGCCAATATGCTAATTCAAGGCCAGCGATATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
3788282 AGAAGG
1 A-AAGG
3788288 GTTACCACCG
Statistics
Matches: 287, Mismatches: 23, Indels: 39
0.82 0.07 0.11
Matches are distributed among these distances:
43 119 0.41
44 5 0.02
47 1 0.00
48 41 0.14
49 118 0.41
50 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:3788144 original size:92 final size:92
Alignment explanation
Indices: 3787915--3788287 Score: 506
Period size: 92 Copynumber: 4.1 Consensus size: 92
3787905 TAAAGATGAA
* * *
3787915 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT------AAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGC
*
3787974 TGATTCAAGGCCAGCGACATTGGTCTT
66 TGATTCAAGGCCAGCGACATTGGACTT
* *
3788001 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTTAAAGACAAAGGTGCCAA
1 ----A-AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAA
*
3788066 TATGCTGATTCAAGGCCAGCGATATTGGACTT
61 TATGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
3788098 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGTGCTAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGC
*
3788163 TGATTCAAGGCCATCGACATTGGACTT
66 TGATTCAAGGCCAGCGACATTGGACTT
* *
3788190 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGTGCCAATATGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGC
* * *
3788255 TAATTCAAGGCCAGCGATATTGGGCTT
66 TGATTCAAGGCCAGCGACATTGGACTT
3788282 AGAAGG
1 A-AAGG
3788288 GTTACCACCG
Statistics
Matches: 258, Mismatches: 17, Indels: 13
0.90 0.06 0.05
Matches are distributed among these distances:
90 1 0.00
91 40 0.16
92 172 0.67
93 5 0.02
97 40 0.16
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (92 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGACATTGGACTT
Found at i:3788326 original size:33 final size:33
Alignment explanation
Indices: 3788282--3788348 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
3788272 TATTGGGCTT
3788282 AGAAGGGTTACCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTACCACCGACTTGTGTGGGCTTTAG
*
3788315 AGAATGGTTACCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTACCACCGACTTGTGTGGGCTTTAG
3788348 A
1 A
3788349 AGGGGGTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTACCACCGACTTGTGTGGGCTTTAG
Found at i:3788426 original size:34 final size:35
Alignment explanation
Indices: 3788354--3788913 Score: 494
Period size: 34 Copynumber: 16.7 Consensus size: 35
3788344 TTAGAAGGGG
* *
3788354 GTGCCACGGGGTTGTGGAC-TT-AAAAGGAAAAG-
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* *
3788386 GATGCCACAGAGTTGTGGACTTTGAAAAGAAAAA-T
1 G-TGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* * *
3788421 GTGCCATGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
*
3788455 GTGCCACGGAGTTGT-GAGCTTTAAAAAGAAAAAG-
1 GTGCCACGGAGTTGTGGA-CTTTGAAAAGAAAAAGA
* * *
3788489 GTGTCACGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* * * *
3788523 GTGTCACAGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* *
3788557 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAG-AAAAAGA
* *
3788593 GTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* * *
3788627 GTGCCGCAGAGTTGTGGGC-TT-AAAAG-----G-
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* * *
3788654 GTGCCATGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* *
3788688 GTGTCACGGAGTTGT-GAGCTTTAAAAAGAAAAAG-
1 GTGCCACGGAGTTGTGGA-CTTTGAAAAGAAAAAGA
* * * *
3788722 GTGCCACGAAGTTATGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* * *
3788756 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-T
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* *
3788790 GTGCCACGGAGTTGTGGACTTAG-AAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* * *
3788824 GTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
* *
3788858 GTGCCACGGAGTTGTGGAC-TT-AGAAGAAAAGGA
1 GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
*
3788891 -TGCCACTGAGTCT-TGGACTTTGA
1 GTGCCACGGAGT-TGTGGACTTTGA
3788914 GACAAAATGC
Statistics
Matches: 426, Mismatches: 71, Indels: 60
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.04
28 5 0.01
32 25 0.06
33 64 0.15
34 235 0.55
35 55 0.13
36 27 0.06
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (35 bp):
GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGA
Found at i:3788501 original size:102 final size:101
Alignment explanation
Indices: 3788354--3788874 Score: 595
Period size: 102 Copynumber: 5.2 Consensus size: 101
3788344 TTAGAAGGGG
* * * * *
3788354 GTGCCACGGGGTTGTGGAC-TT-AAAAGGAAAAGGATGCCACAGAGTTGTGGACTTTGAAAAGAA
1 GTGCCACGGAGTTGTGG-CTTTAAAAAGAAAAAGG-TGCCACGGAGTTGTGGACTTAG-AAGGAA
* **
3788417 AAA-TGTGCCATGGAGTTGTGGACTTAGAAGGAAAAAGA
63 AAAGAGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
*
3788455 GTGCCACGGAGTTGTGAGCTTTAAAAAGAAAAAGGTGTCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGTG-GCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
*
3788520 AGAGTGTCACAGAGTTGTGGACTTAGAAGGAAAAAGA
65 AGAGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
3788557 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 GTGCCACGGAGTTGT-GGCTTTAAAAAG-AAAAAG-GTGCCACGGAGTTGTGGACTTAGAAGGAA
* * *
3788622 AAAGAGTGCCGCAGAGTTGTGGGCTT-------AAAAGG
63 AAAGAGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
* * * * * *
3788654 GTGCCATGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGTCACGGAGTTGT-GAGCTTTAAAAAGA
1 GTGCCACGGAGTTGTGG-CTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGA-C-TTAGAAGGA
*
3788717 AAAAG-GTGCCAC-GAAGTTATGGACTTAGAAGGAAAAAGA
62 AAAAGAGTGCCACAG-AGTTGTGGACTTAGAAGGAAAAAGA
*
3788756 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAATGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
1 GTGCCACGGAGTTGT-GGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAA
* * *
3788821 AGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAG-
65 AGAGTGCCACAGAGTTGTGGAC-TTAGAAGGAAAAAGA
3788858 GTGCCACGGAGTTGTGG
1 GTGCCACGGAGTTGTGG
3788875 ACTTAGAAGA
Statistics
Matches: 360, Mismatches: 36, Indels: 48
0.81 0.08 0.11
Matches are distributed among these distances:
94 3 0.01
95 38 0.11
96 20 0.06
97 20 0.06
101 38 0.11
102 144 0.40
103 46 0.13
104 51 0.14
ACGTcount: A:0.35, C:0.11, G:0.33, T:0.21
Consensus pattern (101 bp):
GTGCCACGGAGTTGTGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAGAAGGAAAAA
GAGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGA
Found at i:3788926 original size:30 final size:31
Alignment explanation
Indices: 3788859--3788978 Score: 118
Period size: 31 Copynumber: 3.9 Consensus size: 31
3788849 AAGAAAAAGG
* * * * *
3788859 TGCCACGGAGTTGTGGACTTAGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAA
*
3788891 TGCCACTGAGTCTTGGACTTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAA
* *
3788921 TGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
* *
3788952 TGCCACTGAGTCGTGAACTTTAAGAAG
1 TGCCACTGAGTCGTGGACTTTGAGAAG
3788979 GTATTTGAAG
Statistics
Matches: 74, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
29 1 0.01
30 25 0.34
31 29 0.39
32 19 0.26
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAA
Found at i:3788959 original size:31 final size:30
Alignment explanation
Indices: 3788859--3788972 Score: 106
Period size: 30 Copynumber: 3.7 Consensus size: 30
3788849 AAGAAAAAGG
* * *
3788859 TGCCACGGAGTTGTGGACTTAGAAGA-AAAGGA
1 TGCCACTGAGTCGTGGACTTTG-AGACAAA--A
*
3788891 TGCCACTGAGTCTTGGACTTTGAGACAAAA
1 TGCCACTGAGTCGTGGACTTTGAGACAAAA
* *
3788921 TGCCACTGAGTCGTGGGCTTTGAGA-AGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGACA-A-AA
*
3788952 TGCCACTGAGTCGTGAACTTT
1 TGCCACTGAGTCGTGGACTTT
3788973 AAGAAGGTAT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
29 1 0.01
30 25 0.36
31 23 0.33
32 21 0.30
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.25
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTGAGACAAAA
Found at i:3790293 original size:15 final size:15
Alignment explanation
Indices: 3790252--3790293 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
3790242 GCCTTTGCAC
*
3790252 TTTTTTTGTG-TGTG
1 TTTTTTTGTGTTTTG
*
3790266 TTTTTTTTTGTTTTG
1 TTTTTTTGTGTTTTG
3790281 TTTTTTTGTGTTT
1 TTTTTTTGTGTTT
3790294 ACTTTTGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
14 9 0.38
15 15 0.62
ACGTcount: A:0.00, C:0.00, G:0.19, T:0.81
Consensus pattern (15 bp):
TTTTTTTGTGTTTTG
Found at i:3797348 original size:52 final size:52
Alignment explanation
Indices: 3797244--3797357 Score: 176
Period size: 52 Copynumber: 2.2 Consensus size: 52
3797234 TGCCTGCATA
* **
3797244 TATCGATACATCTGGGCAAATTTGCCTGTATGTATCGATACATTTCATAGTG
1 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAACATAGTG
*
3797296 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACA-AAGATCAGTG
1 TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAACAT-AGTG
3797348 TATCGATACA
1 TATCGATACA
3797358 ATGTATCGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 2 0.04
52 55 0.96
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.32
Consensus pattern (52 bp):
TATCGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATAACATAGTG
Found at i:3797364 original size:13 final size:13
Alignment explanation
Indices: 3797346--3797370 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3797336 CAAAGATCAG
3797346 TGTATCGATACAA
1 TGTATCGATACAA
3797359 TGTATCGATACA
1 TGTATCGATACA
3797371 TTTAAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3797383 original size:21 final size:21
Alignment explanation
Indices: 3797357--3797415 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
3797347 GTATCGATAC
3797357 AATGTATCGATACATTTAAGT
1 AATGTATCGATACATTTAAGT
*
3797378 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTAAGT
3797399 AATGTATCGATACATTT
1 AATGTATCGATACATTT
3797416 TCTTAGCAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (21 bp):
AATGTATCGATACATTTAAGT
Done.