Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 237 of 259
Found at i:74251477 original size:21 final size:21
Alignment explanation
Indices: 74251438--74251478 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
74251428 TGTAAATTGG
*
74251438 ATTAAATTGAGTATGAATTTC
1 ATTAAATTGAGTATAAATTTC
74251459 ATTAAATTGATGT-TAAATTT
1 ATTAAATTGA-GTATAAATTT
74251479 ACTCATATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.46
Consensus pattern (21 bp):
ATTAAATTGAGTATAAATTTC
Found at i:74251957 original size:33 final size:33
Alignment explanation
Indices: 74251915--74252002 Score: 167
Period size: 33 Copynumber: 2.7 Consensus size: 33
74251905 TTTCAATTAG
*
74251915 GATTTAGCCTGGACTGGTAATCCTAATTGACTA
1 GATTTAGCCTGGACTGGTAATCCCAATTGACTA
74251948 GATTTAGCCTGGACTGGTAATCCCAATTGACTA
1 GATTTAGCCTGGACTGGTAATCCCAATTGACTA
74251981 GATTTAGCCTGGACTGGTAATC
1 GATTTAGCCTGGACTGGTAATC
74252003 TGACAAAGCC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (33 bp):
GATTTAGCCTGGACTGGTAATCCCAATTGACTA
Found at i:74255929 original size:39 final size:39
Alignment explanation
Indices: 74255870--74256048 Score: 286
Period size: 39 Copynumber: 4.6 Consensus size: 39
74255860 GCTCTGATGA
74255870 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
74255909 GCTTTAGTTAGCCTTCGGGCTTCTGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* **
74255948 GCTTTAGTTAGCCTTCGGGCTTCCGTTTAATACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
*
74255987 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
74256026 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
74256049 AGATCACGAT
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 129 1.00
ACGTcount: A:0.12, C:0.24, G:0.25, T:0.40
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:74273551 original size:18 final size:18
Alignment explanation
Indices: 74273528--74273570 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
74273518 CGGAAGAAAC
*
74273528 ATAAAAAGTAATTTTGAA
1 ATAAAAAATAATTTTGAA
* *
74273546 ATAAAAAATACTTTTGAC
1 ATAAAAAATAATTTTGAA
74273564 ATAAAAA
1 ATAAAAA
74273571 TATTATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.58, C:0.05, G:0.07, T:0.30
Consensus pattern (18 bp):
ATAAAAAATAATTTTGAA
Found at i:74274680 original size:31 final size:31
Alignment explanation
Indices: 74274642--74274713 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
74274632 TATCAGAGTT
*
74274642 AAAATTTCATGA-ATATATTTAAATCATAATA
1 AAAATTTCATGACATATAATTAAATCA-AATA
* *
74274673 AAAATTTCA-CACATATAATTACATCAAATA
1 AAAATTTCATGACATATAATTAAATCAAATA
74274703 AAAATTT-ATGA
1 AAAATTTCATGA
74274714 GTCAAATTAC
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
29 1 0.03
30 13 0.37
31 21 0.60
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.35
Consensus pattern (31 bp):
AAAATTTCATGACATATAATTAAATCAAATA
Found at i:74275190 original size:16 final size:16
Alignment explanation
Indices: 74275169--74275215 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
74275159 TGTCATTGAT
74275169 AATTTTTTTACTTTAA
1 AATTTTTTTACTTTAA
* *
74275185 AA--TTTTAAATTTAA
1 AATTTTTTTACTTTAA
*
74275199 ACTTTTTTTACTTTAA
1 AATTTTTTTACTTTAA
74275215 A
1 A
74275216 TTTAAAACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 4
0.73 0.15 0.12
Matches are distributed among these distances:
14 11 0.46
16 13 0.54
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.57
Consensus pattern (16 bp):
AATTTTTTTACTTTAA
Found at i:74277451 original size:23 final size:23
Alignment explanation
Indices: 74277425--74277468 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
74277415 TGAAAGAGCC
74277425 TTTCACCTTCTAATTTATTAGAG
1 TTTCACCTTCTAATTTATTAGAG
**
74277448 TTTCGTCTTCTAATTTATTAG
1 TTTCACCTTCTAATTTATTAG
74277469 GGTTCCGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (23 bp):
TTTCACCTTCTAATTTATTAGAG
Found at i:74278783 original size:16 final size:16
Alignment explanation
Indices: 74278758--74278826 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
74278748 TTGGTTCGCT
*
74278758 GTAATAGAATAGAGGC
1 GTAATGGAATAGAGGC
*
74278774 ATAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
74278790 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
74278806 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
74278822 GTAAT
1 GTAAT
74278827 AGGTAATTCT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.41, C:0.06, G:0.32, T:0.22
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:74278895 original size:44 final size:46
Alignment explanation
Indices: 74278806--74278901 Score: 151
Period size: 44 Copynumber: 2.1 Consensus size: 46
74278796 GAATAGATGC
* *
74278806 GTAATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTGAAT
1 GTAATAGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
74278852 GTAATAGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAAT
1 GTAATAGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
*
74278896 GGAATA
1 GTAATA
74278902 CAGGTGTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 24 0.51
45 3 0.06
46 20 0.43
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (46 bp):
GTAATAGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTGAAT
Found at i:74278901 original size:39 final size:41
Alignment explanation
Indices: 74278808--74278912 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 41
74278798 ATAGATGCGT
*
74278808 AATGGAATAGAGGCGTAATAGGTAATTCTTTTGTTTGGTTG
1 AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
74278849 AATGTAATAGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTG
1 AATG-----GAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
* *
74278893 AATGGAATACAGGTGTAATA
1 AATGGAATAGAGGCGTAATA
74278913 ACATAAAGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 13
0.77 0.04 0.18
Matches are distributed among these distances:
39 13 0.24
41 4 0.07
44 20 0.36
45 3 0.05
46 15 0.27
ACGTcount: A:0.30, C:0.05, G:0.29, T:0.36
Consensus pattern (41 bp):
AATGGAATAGAGGCGTAATAGGTAATTCTTGTGTTTGGTTG
Found at i:74279183 original size:117 final size:117
Alignment explanation
Indices: 74279060--74279427 Score: 682
Period size: 117 Copynumber: 3.1 Consensus size: 117
74279050 TTGTTATAAA
*
74279060 ATATAATTTAATAAAATTTTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
1 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
*
74279125 GATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAT
66 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAT
74279177 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
1 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
* * *
74279242 AATACTAAAATATAATTTAACATAATTGTTATAAAATATAATTTAATAAAAT
66 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAT
74279294 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
1 ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
74279359 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAT
66 AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAT
*
74279411 ATATAATTTACTAAAAT
1 ATATAATTTAATAAAAT
74279428 CATAATATAT
Statistics
Matches: 242, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 242 1.00
ACGTcount: A:0.52, C:0.04, G:0.02, T:0.42
Consensus pattern (117 bp):
ATATAATTTAATAAAATTGTTAATAAATATTCTTATATGAATTTACTAATAAAATCATAATATAT
AATACTAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAT
Found at i:74279200 original size:17 final size:17
Alignment explanation
Indices: 74279160--74279193 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
74279150 TTATTATTAA
74279160 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74279177 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74279194 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74279292 original size:15 final size:15
Alignment explanation
Indices: 74279272--74279310 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
74279262 CATAATTGTT
74279272 ATAAAATATAATTTA
1 ATAAAATATAATTTA
74279287 ATAAAATATATAATTTA
1 AT-AAA-ATATAATTTA
74279304 ATAAAAT
1 ATAAAAT
74279311 TGTTAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.18
16 6 0.27
17 12 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:74279317 original size:17 final size:17
Alignment explanation
Indices: 74279277--74279310 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
74279267 TTGTTATAAA
74279277 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74279294 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
74279311 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74279382 original size:20 final size:21
Alignment explanation
Indices: 74279343--74279382 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
74279333 AATTTACTAA
*
74279343 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
74279364 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
74279383 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:74279416 original size:17 final size:17
Alignment explanation
Indices: 74279394--74279427 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
74279384 TTATTATTAA
74279394 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
*
74279411 ATATAATTTACTAAAAT
1 ATATAATTTAATAAAAT
74279428 CATAATATAT
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:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:74279448 original size:23 final size:22
Alignment explanation
Indices: 74279403--74279492 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 22
74279393 AATATAATTT
* *
74279403 AATAAAATATATAATTTACTAA
1 AATATAATATATAATCTACTAA
74279425 AATCATAATATATAATACTA-TAA
1 AAT-ATAATATATAAT-CTACTAA
* *
74279448 AATATAATTTAAATAAT-TATTATTA
1 AATATAA--TATATAATCTACTA--A
*
74279473 AATATAATTTATAATCTACT
1 AATATAATATATAATCTACT
74279493 TTATTATTAT
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
22 9 0.17
23 25 0.46
24 12 0.22
25 8 0.15
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (22 bp):
AATATAATATATAATCTACTAA
Found at i:74279479 original size:32 final size:32
Alignment explanation
Indices: 74279443--74279506 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 32
74279433 TATATAATAC
*
74279443 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
74279475 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
74279507 CTGCAATACA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:74281947 original size:29 final size:29
Alignment explanation
Indices: 74281926--74281984 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
74281916 CATTTTGATG
74281926 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
74281955 TATTTTGATGTATTTCAATCATTATCGAT
1 TATTTTGATGTATTTCAATCATTATCGAT
74281984 T
1 T
74281985 TATATAGTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (29 bp):
TATTTTGATGTATTTCAATCATTATCGAT
Found at i:74290001 original size:22 final size:22
Alignment explanation
Indices: 74289970--74290020 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
74289960 AAAAATATAT
* *
74289970 AATT-AATAGAATTGATTTTAA
1 AATTAAATAGAATTAATTTCAA
74289991 AATTAAATAGAATTAATTTCAA
1 AATTAAATAGAATTAATTTCAA
74290013 AATTAAAT
1 AATTAAAT
74290021 TATTTCCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.39
Consensus pattern (22 bp):
AATTAAATAGAATTAATTTCAA
Found at i:74290576 original size:13 final size:13
Alignment explanation
Indices: 74290558--74290599 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
74290548 CATTTAAAAA
*
74290558 TAAACTTTTTTTT
1 TAAACTTATTTTT
74290571 TAAACTTATTTTT
1 TAAACTTATTTTT
*
74290584 TAAATTTATATTTT
1 TAAACTTAT-TTTT
74290598 TA
1 TA
74290600 TCCAGATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (13 bp):
TAAACTTATTTTT
Found at i:74295781 original size:25 final size:26
Alignment explanation
Indices: 74295749--74295803 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
74295739 TTATTAAATT
*
74295749 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
74295774 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
74295799 A-ATAT
1 ATATAT
74295804 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:74295990 original size:44 final size:45
Alignment explanation
Indices: 74295941--74296035 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
74295931 TTACACCTCT
* *
74295941 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
74295985 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
74296030 ATTACA
1 ATTACA
74296036 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:74296035 original size:16 final size:16
Alignment explanation
Indices: 74296016--74296067 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
74296006 GATTTGCTAT
* *
74296016 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
74296032 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
74296048 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
74296064 TACA
1 TACA
74296068 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:74297041 original size:3 final size:3
Alignment explanation
Indices: 74297028--74297110 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
74297018 GAGGGCATAT
74297028 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
74297072 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
74297111 AAAAAATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:74297052 original size:12 final size:12
Alignment explanation
Indices: 74297028--74297111 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
74297018 GAGGGCATAT
74297028 ATAATAT-AATA
1 ATAATATAAATA
74297039 ATAATATAAATA
1 ATAATATAAATA
74297051 ATAATATATACATGA
1 ATAATATA-A-AT-A
74297066 GA-AATA-ATAATA
1 -ATAATATA-AATA
74297078 ATAATATAAATA
1 ATAATATAAATA
* *
74297090 ATAGTAAAAATA
1 ATAATATAAATA
*
74297102 ATAAAATAAA
1 ATAATATAAA
74297112 AAAAATAAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:74297072 original size:21 final size:18
Alignment explanation
Indices: 74297033--74297092 Score: 75
Period size: 18 Copynumber: 3.2 Consensus size: 18
74297023 CATATATAAT
*
74297033 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
74297051 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
74297072 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
74297090 ATA
1 ATA
74297093 GTAAAAATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
18 15 0.41
19 5 0.14
20 5 0.14
21 12 0.32
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:74297569 original size:22 final size:22
Alignment explanation
Indices: 74297503--74297571 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
74297493 TTTGTAGGCA
* * *
74297503 AGTGGAGTGGTTGGGGTGGTTT
1 AGTGGAGTGATTAGAGTGGTTT
*
74297525 AGTGGAGTGGTTTAGTATAGTGGTTT
1 AGTGGAGT-GATTAG---AGTGGTTT
74297551 AGTGGAGTGATTAGAGTGGTT
1 AGTGGAGTGATTAGAGTGGTT
74297572 GGAGTGGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 15 0.38
23 4 0.10
25 5 0.13
26 15 0.38
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (22 bp):
AGTGGAGTGATTAGAGTGGTTT
Found at i:74297576 original size:9 final size:9
Alignment explanation
Indices: 74297553--74297611 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
74297543 AGTGGTTTAG
*
74297553 TGGAGTGAT
1 TGGAGTGGT
*
74297562 TAGAGTGGT
1 TGGAGTGGT
74297571 TGGAGTGGTTT
1 TGGAGTGG--T
74297582 AGTGGAGTGGT
1 --TGGAGTGGT
*
74297593 TGGAGTGTT
1 TGGAGTGGT
74297602 TGGAGTGGT
1 TGGAGTGGT
74297611 T
1 T
74297612 TAGTGGAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 31 0.76
11 2 0.05
13 8 0.20
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.37
Consensus pattern (9 bp):
TGGAGTGGT
Found at i:74297576 original size:18 final size:18
Alignment explanation
Indices: 74297553--74297611 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
74297543 AGTGGTTTAG
*
74297553 TGGAGTGATTAGAGTGGT
1 TGGAGTGTTTAGAGTGGT
74297571 TGGAGTGGTTTAGTGGAGTGGT
1 TGGAGT-GTTTA---GAGTGGT
*
74297593 TGGAGTGTTTGGAGTGGT
1 TGGAGTGTTTAGAGTGGT
74297611 T
1 T
74297612 TAGTGGAGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
18 14 0.40
19 4 0.11
21 4 0.11
22 13 0.37
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.37
Consensus pattern (18 bp):
TGGAGTGTTTAGAGTGGT
Found at i:74297581 original size:31 final size:31
Alignment explanation
Indices: 74297543--74297620 Score: 129
Period size: 31 Copynumber: 2.5 Consensus size: 31
74297533 GGTTTAGTAT
74297543 AGTGGTTTAGTGGAGTGATTAGAGTGGTTGG
1 AGTGGTTTAGTGGAGTGATTAGAGTGGTTGG
* * *
74297574 AGTGGTTTAGTGGAGTGGTTGGAGTGTTTGG
1 AGTGGTTTAGTGGAGTGATTAGAGTGGTTGG
74297605 AGTGGTTTAGTGGAGT
1 AGTGGTTTAGTGGAGT
74297621 AAAGATATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (31 bp):
AGTGGTTTAGTGGAGTGATTAGAGTGGTTGG
Found at i:74297620 original size:13 final size:13
Alignment explanation
Indices: 74297503--74297593 Score: 73
Period size: 13 Copynumber: 6.9 Consensus size: 13
74297493 TTTGTAGGCA
74297503 AGTGGAGTGG-TT
1 AGTGGAGTGGTTT
74297515 -G-GG-GTGGTTT
1 AGTGGAGTGGTTT
74297525 AGTGGAGTGGTTT
1 AGTGGAGTGGTTT
**
74297538 AGTATAGTGGTTT
1 AGTGGAGTGGTTT
*
74297551 AGTGGAGTGATTAGAGT
1 AGTGGAGTGGTT----T
*
74297568 GGTTGGAGTGGTTT
1 AG-TGGAGTGGTTT
74297582 AGTGGAGTGGTT
1 AGTGGAGTGGTT
74297594 GGAGTGTTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
9 4 0.06
10 4 0.06
11 2 0.03
12 2 0.03
13 37 0.60
14 2 0.03
17 2 0.03
18 9 0.15
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.37
Consensus pattern (13 bp):
AGTGGAGTGGTTT
Found at i:74298141 original size:132 final size:132
Alignment explanation
Indices: 74297901--74299284 Score: 2340
Period size: 132 Copynumber: 10.5 Consensus size: 132
74297891 TCCCCATAAA
* * * * *
74297901 CACAGGGATGCCAAATCTGCTATCTTC-AACTTGTTCCCTATAAACACAGGGATGCCAAATCTGC
1 CACAGGAATGTCAGATCTGCTATCTTCGATC-TGTTCCCTATAAGCACAGGGATGCCAAATCTGC
* * * * * *
74297965 TATCTTCAACTTGTTCCCTATAAGTACAGGGATTCCATGTTGAAATCTTCGATCTACTTCACCGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGT
74298030 AAG
130 AAG
*
74298033 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCAC-GTGGATGCCAAATTTGC
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAG-GGATGCCAAATCTGC
* *
74298097 TATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGT
65 TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGT
74298162 AAG
130 AAG
74298165 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
* *
74298230 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATATACTTAACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74298295 AG
131 AG
*
74298297 CACAGTAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
* * * * * *
74298362 ATCTTCAACTTGTTCCCTTTAAGTACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACCGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74298427 AG
131 AG
74298429 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
74298494 GTTTTTAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74298559 AG
131 AG
* *
74298561 CATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAACACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
74298626 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTCGATCTACTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74298691 AG
131 AG
* *
74298693 CACAGGAATGTCAGATCTGCTATATTCGATCTGTTCCCTATAAGCACGGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
74298758 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTATA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74298823 AG
131 AG
* *
74298825 CATAGGAATGTCAGATCTGCTATCTTCGATCTATTCCCTATAAGCACAGGGATGCCAAATCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
* *
74298890 ATTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTCGATCTACTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74298955 AG
131 AG
* *
74298957 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACGGGGATGCCAAATCTACT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
74299022 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTACTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74299087 AG
131 AG
* *
74299089 CATAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAACCTGCT
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
*
74299154 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTA
66 GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
74299219 AG
131 AG
* * **
74299221 CACAGGAATGTCAGATCTACTATCTTCGATCTGTTCCCTATAAACACAGGGATATCAAATCTGC
1 CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGC
74299285 AATCTTTGAT
Statistics
Matches: 1179, Mismatches: 70, Indels: 6
0.94 0.06 0.00
Matches are distributed among these distances:
131 1 0.00
132 1175 1.00
133 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.31
Consensus pattern (132 bp):
CACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGCT
GTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTACTTCACTGTA
AG
Found at i:74299667 original size:205 final size:205
Alignment explanation
Indices: 74299309--74299797 Score: 780
Period size: 205 Copynumber: 2.4 Consensus size: 205
74299299 TCTCCACCGC
* * *
74299309 TACAGAGACGCCAAATTATCTTGGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
* *
74299374 TCTTCGATTTGCTCCTTGTAAGTACAAGGATGACAAACCATCTTGGATCTGCTTCAGTATAAACA
66 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGACAAACCATCTTGGATCTACTTCAGTATAAACA
* * * *
74299439 TTTGAAAGTTGGATCTGCTATGTGTCTACCCTCCATCGAAGTGGAGATGCCAGACTTCAATTTGT
131 TCTGAAAGTTGGATCTACTATGTGTCTACACTCCATCAAAGTGGAGATGCCAGACTTCAATTTGT
*
74299504 TCTCTGACAA
196 TCTCTAACAA
* * *
74299514 TACAGAGATGCCAAATCATCTTAGATTTGCTTTAATGTAAGCACGTGAAAGCCAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
*
74299579 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTTGGATCTACTTCAGTATAAACA
66 TCTTCGATTTGCTCCTTGTAAGCACAAGGATGACAAACCATCTTGGATCTACTTCAGTATAAACA
* * * * * *
74299644 TCTGAAGGTTGGATCTACTATGTGTCTGCATTCCGTCAAAGTGGAGATGCTAGACTTCGATTTGT
131 TCTGAAAGTTGGATCTACTATGTGTCTACACTCCATCAAAGTGGAGATGCCAGACTTCAATTTGT
74299709 TCTCTAACAA
196 TCTCTAACAA
*
74299719 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCTAAATCAGCTATG
1 TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
*
74299784 TCTTCGATCTGCTC
66 TCTTCGATTTGCTC
74299798 TCCGCCTGAT
Statistics
Matches: 259, Mismatches: 25, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
205 259 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (205 bp):
TACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAACACGTGAAAGCCAAATCAGCTATG
TCTTCGATTTGCTCCTTGTAAGCACAAGGATGACAAACCATCTTGGATCTACTTCAGTATAAACA
TCTGAAAGTTGGATCTACTATGTGTCTACACTCCATCAAAGTGGAGATGCCAGACTTCAATTTGT
TCTCTAACAA
Found at i:74300059 original size:61 final size:63
Alignment explanation
Indices: 74299942--74300066 Score: 175
Period size: 61 Copynumber: 2.0 Consensus size: 63
74299932 TCATGTATCC
*
74299942 ATGCTTATGCCAAATAATTAGGATGCTTTGATTGAAATGAATCAAATGCTCTTAACTAAATGTG
1 ATGCTTATGCCAAATAATTAGGATGC-TTGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
* * *
74300006 ATGCTTTATGTCAAATAATTAGGATG-TT-A-TGAAATGATTCAAATGCTCCTAACTAGATGTG
1 ATGC-TTATGCCAAATAATTAGGATGCTTGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
74300067 TTATTGTAGA
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
61 29 0.52
62 1 0.02
63 2 0.04
64 4 0.07
65 20 0.36
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (63 bp):
ATGCTTATGCCAAATAATTAGGATGCTTGATTGAAATGAATCAAATGCTCCTAACTAAATGTG
Found at i:74301209 original size:12 final size:11
Alignment explanation
Indices: 74301192--74301228 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
74301182 TTTTTTAGAA
74301192 TTTTTTGTTTT
1 TTTTTTGTTTT
74301203 TTGTTTTGTTTT
1 TT-TTTTGTTTT
*
74301215 TTTTGTGTTTT
1 TTTTTTGTTTT
74301226 TTT
1 TTT
74301229 ATGACTCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:74304485 original size:19 final size:20
Alignment explanation
Indices: 74304461--74304507 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
74304451 AGTGAAAGTT
74304461 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
74304480 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
74304500 -AATGCAAA
1 TAATGCAAA
74304508 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:74307351 original size:12 final size:12
Alignment explanation
Indices: 74307324--74307404 Score: 60
Period size: 12 Copynumber: 6.8 Consensus size: 12
74307314 GAGGGCATAT
74307324 ATAATAT-AATA
1 ATAATATAAATA
74307335 ATAATATAAATA
1 ATAATATAAATA
* *
74307347 CTAATATATACATG
1 ATAATATA-A-ATA
*
74307361 AGAA-AT-AATA
1 ATAATATAAATA
74307371 ATAATATAAATA
1 ATAATATAAATA
* * *
74307383 ACAGTAAAAATA
1 ATAATATAAATA
*
74307395 ATAAAATAAA
1 ATAATATAAA
74307405 AAAAATAAAA
Statistics
Matches: 52, Mismatches: 13, Indels: 9
0.70 0.18 0.12
Matches are distributed among these distances:
10 5 0.10
11 10 0.19
12 30 0.58
13 3 0.06
14 4 0.08
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:74307406 original size:14 final size:14
Alignment explanation
Indices: 74307363--74307414 Score: 50
Period size: 15 Copynumber: 3.6 Consensus size: 14
74307353 TATACATGAG
* *
74307363 AAATAATAATAATAT
1 AAATAA-AATAAAAA
*
74307378 AAATAACAGTAAAAA
1 AAATAA-AATAAAAA
*
74307393 TAATAAAATAAAAA
1 AAATAAAATAAAAA
74307407 AAATAAAA
1 AAATAAAA
74307415 CAAAGCTCTC
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 14 0.47
15 16 0.53
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AAATAAAATAAAAA
Found at i:74307872 original size:31 final size:31
Alignment explanation
Indices: 74307793--74307873 Score: 135
Period size: 31 Copynumber: 2.6 Consensus size: 31
74307783 TGTAGGCAAG
*
74307793 TGGAGTGGTTTAGTGGAATGGTTAGAGTGAT
1 TGGAGTGGTTTAGTGGAGTGGTTAGAGTGAT
* *
74307824 TGGAGTGGTTTAGTGGAGTGGTTGGAGTGTT
1 TGGAGTGGTTTAGTGGAGTGGTTAGAGTGAT
74307855 TGGAGTGGTTTAGTGGAGT
1 TGGAGTGGTTTAGTGGAGT
74307874 AAAGATATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.17, C:0.00, G:0.46, T:0.37
Consensus pattern (31 bp):
TGGAGTGGTTTAGTGGAGTGGTTAGAGTGAT
Found at i:74314602 original size:16 final size:15
Alignment explanation
Indices: 74314564--74314602 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
74314554 ATTTATCAAT
*
74314564 TAAATAATTATATTA
1 TAAATAATTATATAA
74314579 TAAGATAATTATATAA
1 TAA-ATAATTATATAA
74314595 GTAAATAA
1 -TAAATAA
74314603 ATTAATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 15 0.71
17 3 0.14
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
TAAATAATTATATAA
Found at i:74314817 original size:6 final size:6
Alignment explanation
Indices: 74314806--74314831 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
74314796 AGAAAGAAAG
74314806 AAAGAA AAAGAA AAAGAA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AA
74314832 TTTTGGGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAGAA
Found at i:74316063 original size:18 final size:18
Alignment explanation
Indices: 74316011--74316063 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
74316001 TGTTGCTATG
* *
74316011 GAATAATTGACTGTTACT
1 GAATAAATGACTGTTATT
74316029 GAATAAATGACTGTTATT
1 GAATAAATGACTGTTATT
* *
74316047 GTATAACTGACTGTTAT
1 GAATAAATGACTGTTAT
74316064 AGAGTAACTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (18 bp):
GAATAAATGACTGTTATT
Found at i:74316071 original size:18 final size:16
Alignment explanation
Indices: 74316013--74316074 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 16
74316003 TTGCTATGGA
*
74316013 ATAATTGACTGTTACTG
1 ATAACTGACTGTTA-TG
*
74316030 AATAAATGACTGTTATTG
1 -ATAACTGACTGTTA-TG
74316048 TATAACTGACTGTTATAG
1 -ATAACTGACTGTTAT-G
74316066 AGTAACTGA
1 A-TAACTGA
74316075 ATGCTACTGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
17 2 0.05
18 36 0.95
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (16 bp):
ATAACTGACTGTTATG
Found at i:74322969 original size:23 final size:21
Alignment explanation
Indices: 74322925--74322969 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 21
74322915 TACGCGTGTG
*
74322925 TTTTTATATATTATCTTCTAA
1 TTTTTATATATTATATTCTAA
*
74322946 TTTTTATATAATTTATATTTTAA
1 TTTTTATAT-A-TTATATTCTAA
74322969 T
1 T
74322970 GCCGATTGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 1 0.05
23 10 0.50
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTTATATATTATATTCTAA
Found at i:74323276 original size:19 final size:20
Alignment explanation
Indices: 74323252--74323294 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
74323242 TAAATTATGA
74323252 AATTTTT-ATAAA-TATTTTG
1 AATTTTTGA-AAATTATTTTG
74323271 AATTTTTGAAAATTATTTTG
1 AATTTTTGAAAATTATTTTG
74323291 AATT
1 AATT
74323295 ATTTTGTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (20 bp):
AATTTTTGAAAATTATTTTG
Found at i:74323277 original size:20 final size:20
Alignment explanation
Indices: 74323249--74323299 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
74323239 AAATAAATTA
*
74323249 TGAAATTTTTATAAA-TATTT
1 TGAATTTTTTA-AAATTATTT
*
74323269 TGAATTTTTGAAAATTATTT
1 TGAATTTTTTAAAATTATTT
74323289 TGAATTATTTT
1 TGAATT-TTTT
74323300 GTATTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (20 bp):
TGAATTTTTTAAAATTATTT
Found at i:74325233 original size:32 final size:31
Alignment explanation
Indices: 74325167--74325233 Score: 75
Period size: 32 Copynumber: 2.1 Consensus size: 31
74325157 TTTATTTTTT
* *
74325167 AATTTTATAATATTTTATATATAATACTTTA
1 AATTTTATAATATTTTATATATAATAATTAA
74325198 AATTTTATAAGATATTTT-TATATACA-AATTAA
1 AATTTTAT-A-ATATTTTATATATA-ATAATTAA
74325230 AATT
1 AATT
74325234 AATTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
31 8 0.26
32 15 0.48
33 8 0.26
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (31 bp):
AATTTTATAATATTTTATATATAATAATTAA
Found at i:74333314 original size:26 final size:26
Alignment explanation
Indices: 74333284--74333349 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 26
74333274 ATGAGTGAAT
74333284 TTAATTTTATCTTTTATTAAAAATAA
1 TTAATTTTATCTTTTATTAAAAATAA
* *
74333310 TTAATTTT-T-ATAT-TTAAAAATAA
1 TTAATTTTATCTTTTATTAAAAATAA
*
74333333 TATAAATTTATCTTTTA
1 T-TAATTTTATCTTTTA
74333350 ATTTTAGATC
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
23 11 0.35
24 8 0.26
25 2 0.06
26 10 0.32
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (26 bp):
TTAATTTTATCTTTTATTAAAAATAA
Found at i:74334758 original size:46 final size:44
Alignment explanation
Indices: 74334654--74334761 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
74334644 TGTCTTTGAC
** * * *
74334654 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
74334698 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
74334744 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
74334762 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:74337946 original size:2 final size:2
Alignment explanation
Indices: 74337939--74337970 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
74337929 CATATTGCAT
74337939 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
74337971 GTTCTATGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:74352936 original size:28 final size:28
Alignment explanation
Indices: 74352896--74353049 Score: 265
Period size: 28 Copynumber: 5.5 Consensus size: 28
74352886 TAAATTGTAC
74352896 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
74352924 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
74352952 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
74352980 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
* *
74353008 AGCACTAAGTGTGCGAG-TTGATTGTAT
1 AGCACTAAGTGTGCGAGTTTGATTATGT
*
74353035 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
74353050 GACTTAATAT
Statistics
Matches: 123, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
27 23 0.19
28 100 0.81
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATGT
Found at i:74352962 original size:56 final size:56
Alignment explanation
Indices: 74352871--74353049 Score: 270
Period size: 56 Copynumber: 3.2 Consensus size: 56
74352861 GAGATTGGCG
* * * *
74352871 CTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
74352928 CTAAGTGTGCGAGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
* *
74352984 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAG-TTGATTGTATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
*
74353039 CTGAGTGTGCG
1 CTAAGTGTGCG
74353050 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 22 0.19
56 76 0.67
57 15 0.13
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.34
Consensus pattern (56 bp):
CTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATGTAGCA
Found at i:74355856 original size:14 final size:14
Alignment explanation
Indices: 74355834--74355885 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
74355824 TTCAACAATT
*
74355834 AAATTTAAATTTTA
1 AAATATAAATTTTA
74355848 AAATATAAAATTTTA
1 AAATAT-AAATTTTA
* *
74355863 AAAAATAAGTTTATA
1 AAATATAAATTT-TA
74355878 AAA-ATAAA
1 AAATATAAA
74355886 AAATTAAATC
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
14 14 0.44
15 18 0.56
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATATAAATTTTA
Found at i:74355860 original size:15 final size:15
Alignment explanation
Indices: 74355840--74355870 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
74355830 AATTAAATTT
*
74355840 AAATTTTAAAATATA
1 AAATTTTAAAAAATA
74355855 AAATTTTAAAAAATA
1 AAATTTTAAAAAATA
74355870 A
1 A
74355871 GTTTATAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAATTTTAAAAAATA
Found at i:74361382 original size:14 final size:14
Alignment explanation
Indices: 74361357--74361394 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
74361347 TTGGTGAGAG
74361357 AAGAAAAA-AGAAA
1 AAGAAAAAGAGAAA
*
74361370 AAGAAAAAGAGAAG
1 AAGAAAAAGAGAAA
*
74361384 AAGAAGAAGAG
1 AAGAAAAAGAG
74361395 GGAGGGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAGAAA
Found at i:74362232 original size:153 final size:153
Alignment explanation
Indices: 74361957--74363207 Score: 2064
Period size: 153 Copynumber: 8.2 Consensus size: 153
74361947 AAAATAATAT
* * * *
74361957 AAAAATAAAATACGAAAAT--AA-AAA-AATAAAAACAAATGGCCAAAACCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
*
74362018 AATTAATATTAAAAAACACTAAAGTAATACATTTGAAACATTATGTACTAAAATAATATAAAAAT
66 AATTAATA-TAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAT
74362083 AAAATA-GCAAAATAGTATATTTTA
130 AAAATACG-AAAATAGTATATTTTA
74362107 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
74362172 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
66 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
74362237 AAATACGAAAATAGTATATTTTA
131 AAATACGAAAATAGTATATTTTA
74362260 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
74362325 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
66 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
74362390 AAATACGAAAATAGTATATTTT-
131 AAATACGAAAATAGTATATTTTA
*
74362412 AAAAATAAAATTCAAAAATAAAATAAATAAT-AAAATAAACGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
* * * *
74362476 AATTAATATAAAAAAACACTAATATAATACATTCGAACCATTATGTACTAAAATAATGTAAAAAA
66 AATTAATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAA--TATAAAA
74362541 ATAAAATACG-AAATAGTATATTTTA
128 ATAAAATACGAAAATAGTATATTTTA
*
74362566 AAAAATAAAATCCGAAAATAAAATAAATAAT-AAAATAAACGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
74362630 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
66 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
74362695 AAATACGAAAATAGTATATTTTA
131 AAATACGAAAATAGTATATTTTA
*
74362718 AAAAATAAAATTCAAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
* * * * *
74362783 AATTAATATAAAAAACACTAATATAATACATTCGAACCATTATGTATTAAAATAATGTAAAAAAA
66 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAA--TATAAAAA
74362848 TAAAATACGAAAATAGTATATTTTA
129 TAAAATACGAAAATAGTATATTTTA
74362873 AAAAATAAAA-TCTGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACT
1 AAAAATAAAATTC-GAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACT
*
74362937 AAATTAATATAAAAAAACACTAAAATAATATATTTGAAACATTATGTACTAAAATAATATAAAAA
65 AAATTAATAT-AAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAA
74363002 TAAAATACGAAAATAGTATATTTTAA
129 TAAAATACGAAAATAGTATATTTT-A
* *
74363028 AAAAATAAAATTCAAAAATAAAATAAATAAT-AAAA-AAATGGCCAAAATCAGAGTTTTTTACTA
1 AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
* * * *
74363091 AATTAATATAAAAAA-ACTAAATTAATGCATTCGAACCATTATGTACTAAAATAATATAAAAAAA
66 AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT--AAAAA
74363155 TAAAATACGAAAATAGTATA-TTTA
129 TAAAATACGAAAATAGTATATTTTA
74363179 AAAAATAAAA-TCTGAAAATAAAATAAATA
1 AAAAATAAAATTC-GAAAATAAAATAAATA
74363208 CCAAAATATA
Statistics
Matches: 1043, Mismatches: 38, Indels: 39
0.93 0.03 0.03
Matches are distributed among these distances:
150 20 0.02
151 121 0.12
152 128 0.12
153 434 0.42
154 167 0.16
155 130 0.12
156 43 0.04
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (153 bp):
AAAAATAAAATTCGAAAATAAAATAAATAATAAAAATAAACGGCCAAAATCAGAGTTTTTTACTA
AATTAATATAAAAAACACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAATA
AAATACGAAAATAGTATATTTTA
Found at i:74362443 original size:12 final size:11
Alignment explanation
Indices: 74362411--74362450 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
74362401 TAGTATATTT
74362411 TAAAAATAAAA
1 TAAAAATAAAA
74362422 TTCAAAAATAAAA
1 -T-AAAAATAAAA
74362435 TAAATAATAAAA
1 TAAA-AATAAAA
74362447 TAAA
1 TAAA
74362451 CGGCCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 3 0.12
12 13 0.50
13 10 0.38
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:74363063 original size:31 final size:31
Alignment explanation
Indices: 74362986--74363063 Score: 72
Period size: 31 Copynumber: 2.6 Consensus size: 31
74362976 CATTATGTAC
*
74362986 TAAAAT-AAT-ATAAAAATAAAATACGAAAA
1 TAAAATAAATAATAAAAATAAAATACAAAAA
** ** *
74363015 TAGTATATTTTAA-AAAAATAAAATTCAAAAA
1 TAAAATA-AATAATAAAAATAAAATACAAAAA
74363046 TAAAATAAATAATAAAAA
1 TAAAATAAATAATAAAAA
74363064 AATGGCCAAA
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
29 4 0.11
30 3 0.09
31 27 0.77
32 1 0.03
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.26
Consensus pattern (31 bp):
TAAAATAAATAATAAAAATAAAATACAAAAA
Found at i:74374044 original size:25 final size:25
Alignment explanation
Indices: 74374010--74374061 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
74374000 TATCAAACAC
74374010 TAAACATTGCCCCAAATGTTGATTA
1 TAAACATTGCCCCAAATGTTGATTA
74374035 TAAACATTGCCCCAAATGTTGATTA
1 TAAACATTGCCCCAAATGTTGATTA
74374060 TA
1 TA
74374062 TCCGAAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (25 bp):
TAAACATTGCCCCAAATGTTGATTA
Found at i:74383021 original size:28 final size:28
Alignment explanation
Indices: 74382969--74383022 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
74382959 ATTAAGATTC
* **
74382969 AATTGATGATACATATTTACGTTTAAAA
1 AATTAATGATACATATTTAAATTTAAAA
74382997 AATTAATGATACATATTTAAATTTAA
1 AATTAATGATACATATTTAAATTTAA
74383023 CTGAAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.46, C:0.06, G:0.07, T:0.41
Consensus pattern (28 bp):
AATTAATGATACATATTTAAATTTAAAA
Found at i:74389291 original size:21 final size:20
Alignment explanation
Indices: 74389261--74389312 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 20
74389251 AGCTTAAAGT
*
74389261 AAATAATAATAAAAAATCTA
1 AAATCATAATAAAAAATCTA
* *
74389281 AAATCATTAATAAAAAGTTTA
1 AAATCA-TAATAAAAAATCTA
74389302 AAATCATAATA
1 AAATCATAATA
74389313 TGTAAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 10 0.36
21 18 0.64
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (20 bp):
AAATCATAATAAAAAATCTA
Found at i:74392669 original size:13 final size:12
Alignment explanation
Indices: 74392637--74392665 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
74392627 GTATAAAAAT
74392637 AAAAATAATACA
1 AAAAATAATACA
74392649 AAAAATAATACA
1 AAAAATAATACA
74392661 AAAAA
1 AAAAA
74392666 ATAAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (12 bp):
AAAAATAATACA
Found at i:74393510 original size:44 final size:45
Alignment explanation
Indices: 74393409--74393514 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 45
74393399 TTGATTTGCT
* * * *
74393409 CCACTGCAATTTCAGGGAAACAAGATCTGCGATCTTCAGCCTACT
1 CCACTGCAACTTCAGGGAAACAAGATCTGCGAACTTCAACCTACC
* * *
74393454 CCACTACAACTTCAGGGAAATAAGA-CTG-GTAACTTCAACCTGCC
1 CCACTGCAACTTCAGGGAAACAAGATCTGCG-AACTTCAACCTACC
*
74393498 CCACTGCGACTTCAGGG
1 CCACTGCAACTTCAGGG
74393515 GGATAAGGCT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.02
44 28 0.55
45 22 0.43
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAAACAAGATCTGCGAACTTCAACCTACC
Found at i:74393790 original size:111 final size:111
Alignment explanation
Indices: 74393543--74394335 Score: 1268
Period size: 111 Copynumber: 7.1 Consensus size: 111
74393533 TGATTTATTC
* * ** * *
74393543 CACTGAAACTTCAGAGATTCAAGGAGAAGAGATTTGTAGCCTCGATCTTCTCTACTAAAACTTCG
1 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
* * *
74393608 AGGAAATAAGAATTCAAGTAGAAGAGATTTGTAGCCTCGACCT-CTTA
66 AGG-ATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTAC-TA
* * * * * *
74393655 CACTGGAACTTCAGTGATTTAGGGAGAAGAGATTTGTAGCTTCGATTTTCTCTACTGAAACTTCA
1 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
* *
74393720 AGGATTTAGAATTCAGGTAGAGGGGATTTGTAGCCTCGACCTACTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
*
74393766 CACTGAAACTTCGGAGACTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
1 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
*
74393831 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTATTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
* ** *
74393877 CACTGGAACTTC-GACGATTCAAAGAGAAGAGATTTGTAGCTTCGATCTTCTCTACTGAAACTTC
1 CACTGAAACTTCGGA-GATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTC
*
74393941 AAGGATTTAGAATTCAGGTAGAAGGGATTTGTAGCCTCGACCTACTA
65 AAGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
* *
74393988 CACTGAAACTTCAGAGATTCAGAGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
1 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
*
74394053 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCATCGACCTACTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
74394099 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
1 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
74394164 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
66 AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
* *
74394210 CACTGAAACTTCGGCGATTCAGGGAGAAGAAATTTGTAGTTTCGATCTTCAT-TACTGAAACTTC
1 CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTC-TCTACTGAAACTTC
74394274 AAGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
65 AAGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
74394321 CACTGAAACTTCGGA
1 CACTGAAACTTCGGA
74394336 AGTATAAATT
Statistics
Matches: 636, Mismatches: 41, Indels: 9
0.93 0.06 0.01
Matches are distributed among these distances:
110 2 0.00
111 570 0.90
112 64 0.10
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (111 bp):
CACTGAAACTTCGGAGATTCAGGGAGAAGAGATTTGTAGTTTCGATCTTCTCTACTGAAACTTCA
AGGATTTAGAATTCAAGTAGAAGGGATTTGTAGCCTCGACCTACTA
Found at i:74408907 original size:249 final size:250
Alignment explanation
Indices: 74408468--74408966 Score: 946
Period size: 249 Copynumber: 2.0 Consensus size: 250
74408458 GGAAGGATTA
*
74408468 GCACCCTCGTAACGCCCAAAATTTGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
1 GCACCCTCGTAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
74408533 AAAGATTTAAAACAAATTTGGAAATACAATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTAGA
66 AAAGATTTAAAACAAATTTGGAAATACAATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTAGA
*
74408598 TATTAAGATTCTCTTGTTTCGAATGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
74408663 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
74408718 GCACCCTCGTAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATC-AAAATTGA
1 GCACCCTCGTAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
* * *
74408782 ACAGATTTAAAACAAATTTGGAAATACGATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTGGA
66 AAAGATTTAAAACAAATTTGGAAATACAATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTAGA
74408847 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
131 TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
74408912 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
196 AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
74408967 TAAAAAGGAT
Statistics
Matches: 244, Mismatches: 5, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
249 189 0.77
250 55 0.23
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.32
Consensus pattern (250 bp):
GCACCCTCGTAACGCCCAAAATTGGTACCTAATTGATTAATTAATGTCTTAATATCGAAAATTGA
AAAGATTTAAAACAAATTTGGAAATACAATCCCTTTTTATGAATGTTTAGCTAACTTGAAGTAGA
TATTAAGATTCTCTTGTTTCGAAGGAGTAAAATATCACATCCAACACGTAGGACACGACATTTCC
AACCTTCGATGCCCAAAATCATCTCATGATTTCCAAAACTCATGCATTGAAATTT
Found at i:74411309 original size:52 final size:49
Alignment explanation
Indices: 74411224--74411590 Score: 431
Period size: 46 Copynumber: 7.6 Consensus size: 49
74411214 TTTGAGTACT
* **
74411224 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
74411270 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
74411322 TCTGATCAAGTG---ATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
74411368 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
74411414 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
74411466 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
74411518 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
74411564 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
74411591 GCTACACTTA
Statistics
Matches: 291, Mismatches: 16, Indels: 28
0.87 0.05 0.08
Matches are distributed among these distances:
46 154 0.53
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:74411572 original size:196 final size:196
Alignment explanation
Indices: 74411238--74411590 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
74411228 ATCAAGTGAT
* * *
74411238 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * * *
74411303 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTTATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
74411368 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
74411433 G
196 G
* *
74411434 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
74411499 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
74411564 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAGTGATAAGTG
74411591 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:74411598 original size:37 final size:37
Alignment explanation
Indices: 74411554--74411663 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
74411544 GATAGCTTTA
74411554 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
74411591 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
74411628 GCTACACTTATCTGATCAAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
74411664 ATCATACGTA
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 12 0.17
37 58 0.83
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:74411627 original size:150 final size:149
Alignment explanation
Indices: 74411224--74411579 Score: 458
Period size: 150 Copynumber: 2.4 Consensus size: 149
74411214 TTTGAGTACT
* * * * *
74411224 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * *
74411289 GAAAGTGATAAGTAATAGCTTC-G---GCTATACTTATC---TGATCAAGTGATAAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGCAAACTAAACTGATCAAGTGA-CAAGTGATAAAGTGATAAG
*
74411347 TTATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
* *
74411368 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
* * * * *
74411433 GAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA-AAAGTGATAAG
66 GAAAGTGATAACT-ATAGCTTCAGC-AAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAG
74411497 TGATAGCTTCGGCTATACTTA
129 TGATAGCTTCGGCTATACTTA
*
74411518 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAA
74411580 AGTGATAAGT
Statistics
Matches: 191, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
144 83 0.43
145 1 0.01
149 7 0.04
150 90 0.47
151 7 0.04
152 3 0.02
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.29
Consensus pattern (149 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGAGACAAGTG
GAAAGTGATAACTATAGCTTCAGCAAACTAAACTGATCAAGTGACAAGTGATAAAGTGATAAGTG
ATAGCTTCGGCTATACTTA
Found at i:74412597 original size:19 final size:18
Alignment explanation
Indices: 74412573--74412608 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
74412563 TAGAATAGCT
74412573 TAAAATAATAATTCAAAAA
1 TAAAATAA-AATTCAAAAA
*
74412592 TAAAATAAAATTTAAAA
1 TAAAATAAAATTCAAAA
74412609 CTGCATATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATAAAATTCAAAAA
Found at i:74413087 original size:3 final size:3
Alignment explanation
Indices: 74413081--74413114 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
74413071 TAAAGTAGAA
74413081 AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
74413115 GAAAATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:74413101 original size:16 final size:16
Alignment explanation
Indices: 74413080--74413113 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
74413070 ATAAAGTAGA
74413080 AAATAATAATAATAAT
1 AAATAATAATAATAAT
74413096 AAATAATAATAATAAT
1 AAATAATAATAATAAT
74413112 AA
1 AA
74413114 TGAAAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAATAATAATAAT
Found at i:74415247 original size:14 final size:13
Alignment explanation
Indices: 74415228--74415263 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 13
74415218 ACCTCTTTTT
74415228 CTTTTTTATTTTCC
1 CTTTTTT-TTTTCC
74415242 CTTTTTCTTTTTCC
1 CTTTTT-TTTTTCC
74415256 CTTTTTTT
1 CTTTTTTT
74415264 GGCCTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.10
14 18 0.86
15 1 0.05
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (13 bp):
CTTTTTTTTTTCC
Found at i:74415860 original size:16 final size:16
Alignment explanation
Indices: 74415839--74415870 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
74415829 CTTTCACTTT
74415839 ACACTAACTCCAAAGA
1 ACACTAACTCCAAAGA
74415855 ACACTAACTCCAAAGA
1 ACACTAACTCCAAAGA
74415871 GAATATCAAC
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:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
ACACTAACTCCAAAGA
Found at i:74416582 original size:21 final size:20
Alignment explanation
Indices: 74416558--74416601 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
74416548 AAAAATAATT
*
74416558 AAATAATTCATAAAGTTAAAA
1 AAATAACTC-TAAAGTTAAAA
* *
74416579 AAATAACTCTTAATTTAAAA
1 AAATAACTCTAAAGTTAAAA
74416599 AAA
1 AAA
74416602 ATAAACATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (20 bp):
AAATAACTCTAAAGTTAAAA
Found at i:74416612 original size:20 final size:21
Alignment explanation
Indices: 74416575--74416613 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
74416565 TCATAAAGTT
* *
74416575 AAAAAAATAACTCTTAATTTA
1 AAAAAAATAACACATAATTTA
74416596 AAAAAAATAA-ACATAATT
1 AAAAAAATAACACATAATT
74416614 ATCTAAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAATAACACATAATTTA
Found at i:74418766 original size:50 final size:50
Alignment explanation
Indices: 74418691--74418867 Score: 223
Period size: 50 Copynumber: 3.5 Consensus size: 50
74418681 CCATGGAAAC
*
74418691 AAGTGATAAGTGAA-AGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGT-AATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
* * *
74418741 AAGTGATAAGTAATAACTTCAGCTACACTTATCTGATTAAGGACAAGTGA
1 AAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
* *
74418791 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAA-GGACAAATGA
* * **
74418841 CAACTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTAATAGCTTCAGCTAC
74418868 CTGATCAGTG
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.02
50 85 0.77
51 24 0.22
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
Found at i:74419022 original size:31 final size:31
Alignment explanation
Indices: 74418845--74419015 Score: 243
Period size: 31 Copynumber: 5.5 Consensus size: 31
74418835 AAATGACAAC
74418845 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * *
74418876 TGAAAAGTGGTAGTTTCAGCTACCTGATAAA
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
74418907 TGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* *
74418938 TGAAAAGTGGTAGCTCCGGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
* * **
74418969 TAAAAAATGGTAGCACCAGCTACCTGATCAG
1 TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
*
74419000 TGAATAGTGGTAGCTT
1 TGAAAAGTGGTAGCTT
74419016 TGGCTACAAG
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 122 1.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (31 bp):
TGAAAAGTGGTAGCTTCAGCTACCTGATCAG
Found at i:74419033 original size:7 final size:7
Alignment explanation
Indices: 74419021--74419049 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
74419011 AGCTTTGGCT
74419021 ACAAGTG
1 ACAAGTG
74419028 ACAAGTG
1 ACAAGTG
74419035 ACAAGTG
1 ACAAGTG
74419042 ACAAGTG
1 ACAAGTG
74419049 A
1 A
74419050 TTTCTGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:74420496 original size:46 final size:44
Alignment explanation
Indices: 74420392--74420499 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
74420382 TGTCTTTGAC
** * * *
74420392 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
74420436 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
74420482 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
74420500 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:74427528 original size:46 final size:44
Alignment explanation
Indices: 74427424--74427531 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
74427414 TGTCTTTGAC
** * * *
74427424 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
74427468 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
74427514 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
74427532 TTTATGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:74431172 original size:12 final size:12
Alignment explanation
Indices: 74431155--74431187 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
74431145 CGGCCTGCCC
74431155 ATATTAATTTTT
1 ATATTAATTTTT
74431167 ATATT-ATTTTT
1 ATATTAATTTTT
74431178 ATA-TAATTTT
1 ATATTAATTTT
74431188 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:74431355 original size:30 final size:30
Alignment explanation
Indices: 74431312--74431369 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
74431302 TTTAACAAGT
*
74431312 AAATGCCTCTAAAATAATAATAAAATTAGC
1 AAATGCCTCTAAAATAATAAAAAAATTAGC
* *
74431342 AAATGTCTTTAAAATAATAAAAAAATTA
1 AAATGCCTCTAAAATAATAAAAAAATTA
74431370 ACAATAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.57, C:0.09, G:0.05, T:0.29
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAAAAAAATTAGC
Found at i:74432411 original size:4 final size:4
Alignment explanation
Indices: 74432402--74432428 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
74432392 TTTTTAAAAT
74432402 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
74432429 TCTTTCTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:74432574 original size:5 final size:6
Alignment explanation
Indices: 74432557--74432582 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
74432547 CATGGTTTCT
74432557 CTCCCC CTCCCC CTCCCC CTCCCC CT
1 CTCCCC CTCCCC CTCCCC CTCCCC CT
74432583 GTCTCTCTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.81, G:0.00, T:0.19
Consensus pattern (6 bp):
CTCCCC
Found at i:74440331 original size:11 final size:11
Alignment explanation
Indices: 74440317--74440341 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
74440307 AATAAAATAC
74440317 AAAAAAAAGAA
1 AAAAAAAAGAA
74440328 AAAAAAAAGAA
1 AAAAAAAAGAA
74440339 AAA
1 AAA
74440342 GAGAACCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:74446150 original size:8 final size:8
Alignment explanation
Indices: 74446137--74446163 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
74446127 TCATCCATTT
74446137 TTTTTTTA
1 TTTTTTTA
74446145 TTTTTTTA
1 TTTTTTTA
74446153 TTTTTTTA
1 TTTTTTTA
74446161 TTT
1 TTT
74446164 CTCTAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (8 bp):
TTTTTTTA
Found at i:74452399 original size:13 final size:13
Alignment explanation
Indices: 74452381--74452406 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
74452371 TGTAGCACCT
74452381 GCCCTTCTTGAAC
1 GCCCTTCTTGAAC
74452394 GCCCTTCTTGAAC
1 GCCCTTCTTGAAC
74452407 CTTTTTTTTT
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:0.15, C:0.38, G:0.15, T:0.31
Consensus pattern (13 bp):
GCCCTTCTTGAAC
Found at i:74465806 original size:10 final size:10
Alignment explanation
Indices: 74465793--74465827 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
74465783 TTAAAAAAAT
74465793 AAATATTTAA
1 AAATATTTAA
74465803 AAATATTTAA
1 AAATATTTAA
74465813 AAATA-TTAA
1 AAATATTTAA
74465822 AAATAT
1 AAATAT
74465828 ATATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AAATATTTAA
Found at i:74465821 original size:9 final size:9
Alignment explanation
Indices: 74465777--74465827 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
74465767 GGGGTATAGT
74465777 AAAATATTA
1 AAAATATTA
*
74465786 AAAA-AATA
1 AAAATATTA
*
74465794 AATAT-TTA
1 AAAATATTA
74465802 AAAATATTTA
1 AAAATA-TTA
74465812 AAAATATTA
1 AAAATATTA
74465821 AAAATAT
1 AAAATAT
74465828 ATATTTAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 12 0.34
9 14 0.40
10 9 0.26
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
AAAATATTA
Found at i:74476074 original size:27 final size:28
Alignment explanation
Indices: 74476044--74476098 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
74476034 CAAAAAAGTT
*
74476044 TTTTAAAAA-ATTAAAAA-ATTCATAAAA
1 TTTTAAAAAGATAAAAAATATTC-TAAAA
74476071 TTTTAAAAAGATAAAAAATATTCTAAAA
1 TTTTAAAAAGATAAAAAATATTCTAAAA
74476099 AATTAGACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 9 0.36
28 12 0.48
29 4 0.16
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (28 bp):
TTTTAAAAAGATAAAAAATATTCTAAAA
Found at i:74485511 original size:8 final size:8
Alignment explanation
Indices: 74485492--74485522 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
74485482 TCTCTGGAAA
74485492 TCTCTT-T
1 TCTCTTCT
74485499 TCTCTTCT
1 TCTCTTCT
74485507 TCTCTTCT
1 TCTCTTCT
74485515 TCTCTTCT
1 TCTCTTCT
74485523 CTGGTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.26
8 17 0.74
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
TCTCTTCT
Found at i:74489812 original size:85 final size:85
Alignment explanation
Indices: 74489713--74489882 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
74489703 GATTTTAGCA
* *
74489713 GAGCAAAAATATATACTAATAAACAACAAACTATTTACTTCTCTTTCTAATAAATATTCTAATGG
1 GAGCAAAAATATATACTAATAAACAACAAACTATTCACTTCTCTTTCTAATAAATATTCGAATGG
74489778 TTGACGGTAAACTGTAGTTC
66 TTGACGGTAAACTGTAGTTC
*
74489798 GAGCAAAAATATATACTAATAAACAACAAAGTATTCACTTCTCTTTCTAATAAATATTCGAATGG
1 GAGCAAAAATATATACTAATAAACAACAAACTATTCACTTCTCTTTCTAATAAATATTCGAATGG
74489863 TTGACGGTAAACTGTAGTTC
66 TTGACGGTAAACTGTAGTTC
74489883 ATAATATCTT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (85 bp):
GAGCAAAAATATATACTAATAAACAACAAACTATTCACTTCTCTTTCTAATAAATATTCGAATGG
TTGACGGTAAACTGTAGTTC
Found at i:74492600 original size:16 final size:16
Alignment explanation
Indices: 74492579--74492612 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
74492569 ATTAATCTTA
74492579 TATATTTTAATTAAAT
1 TATATTTTAATTAAAT
*
74492595 TATATTTTAATTGAAT
1 TATATTTTAATTAAAT
74492611 TA
1 TA
74492613 AAGAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TATATTTTAATTAAAT
Found at i:74493917 original size:27 final size:27
Alignment explanation
Indices: 74493887--74493938 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
74493877 TAAATTTGTT
74493887 TCACTTTATATCAAACAAAATCACATA
1 TCACTTTATATCAAACAAAATCACATA
74493914 TCACTTTATATCAAACAAAATCACA
1 TCACTTTATATCAAACAAAATCACA
74493939 AACTTTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (27 bp):
TCACTTTATATCAAACAAAATCACATA
Found at i:74500635 original size:32 final size:33
Alignment explanation
Indices: 74500569--74500635 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 33
74500559 AGGCAATACC
* *
74500569 TGTAAAAAATATACATTCAGTGAAACATGTTAA
1 TGTAAAAAATAGACATTCAATGAAACATGTTAA
* * *
74500602 TGTAAAAAGTAGACATTTAATGAAGCATG-TAA
1 TGTAAAAAATAGACATTCAATGAAACATGTTAA
74500634 TG
1 TG
74500636 AAGAACCTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (33 bp):
TGTAAAAAATAGACATTCAATGAAACATGTTAA
Found at i:74509245 original size:5 final size:5
Alignment explanation
Indices: 74509235--74509262 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
74509225 CAATTTGTGA
74509235 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
74509263 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:74511582 original size:19 final size:20
Alignment explanation
Indices: 74511526--74511603 Score: 59
Period size: 20 Copynumber: 4.0 Consensus size: 20
74511516 ATACATTTTG
* * **
74511526 AAAATTATTAAATTTCTTTC
1 AAAATTACTAAATATCTTAA
**
74511546 AAAATTACCGAATATCTTAA
1 AAAATTACTAAATATCTTAA
*
74511566 AAAATTACTAAAT-TCTTAT
1 AAAATTACTAAATATCTTAA
* * *
74511585 AATATTACTGAATCTCTTA
1 AAAATTACTAAATATCTTA
74511604 CCACACTGTA
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
19 16 0.35
20 30 0.65
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.41
Consensus pattern (20 bp):
AAAATTACTAAATATCTTAA
Found at i:74523072 original size:20 final size:21
Alignment explanation
Indices: 74523030--74523072 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
74523020 TTGAGGGTGG
**
74523030 ATATTTTTAATTTAATTTTAA
1 ATATTTTTAATTTAATTAAAA
74523051 ATATTTTT-ATTTAATTAAAA
1 ATATTTTTAATTTAATTAAAA
74523071 AT
1 AT
74523073 GTTACATGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATATTTTTAATTTAATTAAAA
Found at i:74524549 original size:58 final size:58
Alignment explanation
Indices: 74524480--74524627 Score: 257
Period size: 58 Copynumber: 2.6 Consensus size: 58
74524470 AAGCACCATT
**
74524480 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTTTAAGTAC
1 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
74524538 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
1 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
74524596 CAGCTGTTGT-G--TTGTTGACTGACTGCTTAACT
1 CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACT
74524628 CTGTTAAATT
Statistics
Matches: 88, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
55 21 0.24
57 1 0.01
58 66 0.75
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.41
Consensus pattern (58 bp):
CAGCTGTTGTAGTATTGTTGACTGACTGCTTAACTTATCCTCTTTAACTTCCAAGTAC
Found at i:74525015 original size:27 final size:28
Alignment explanation
Indices: 74524985--74525039 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
74524975 TAGCAACCAA
74524985 ACGAAG-TATTATTATTTTAGTTCTGGT
1 ACGAAGATATTATTATTTTAGTTCTGGT
*
74525012 ACGAAGTAATATTGTTATTTTAGTTCTG
1 ACGAAG--ATATTATTATTTTAGTTCTG
74525040 CTTTAAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 6 0.25
30 18 0.75
ACGTcount: A:0.27, C:0.07, G:0.18, T:0.47
Consensus pattern (28 bp):
ACGAAGATATTATTATTTTAGTTCTGGT
Found at i:74533014 original size:25 final size:28
Alignment explanation
Indices: 74532964--74533015 Score: 74
Period size: 25 Copynumber: 2.0 Consensus size: 28
74532954 CAATATTTTT
*
74532964 GCATGAAAATTGATATGATAGGAAAATC
1 GCATGAAAATTGATATGATAGAAAAATC
74532992 GCATGAAAA-T-AT-TGATAGAAAAAT
1 GCATGAAAATTGATATGATAGAAAAAT
74533016 TTTACCGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
27 1 0.04
28 9 0.39
ACGTcount: A:0.50, C:0.06, G:0.19, T:0.25
Consensus pattern (28 bp):
GCATGAAAATTGATATGATAGAAAAATC
Found at i:74539750 original size:48 final size:48
Alignment explanation
Indices: 74539673--74539911 Score: 293
Period size: 48 Copynumber: 5.0 Consensus size: 48
74539663 ACAGTGCTAA
* *
74539673 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATAGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* *
74539721 ATGTGCCTGTATAAGACCATGTTTGGGACATGGCATCGACGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * *
74539769 ATGTTCCTGTGTAAGACCATGTCCGGGACGT-GCATCGGCGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* ** *
74539816 TTGTG-CTAGTGTAAGACCATGTCTAAGACATGGCATCGGCGATGATAT
1 ATGTGCCT-GTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
* * * * **
74539864 GTGTACCAGTGTAAGACCATGTCTGGGACATGACATCGGTGATGATAT
1 ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
74539912 GTGGATTCAT
Statistics
Matches: 165, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
46 2 0.01
47 37 0.22
48 125 0.76
49 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (48 bp):
ATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGACGATGATAT
Found at i:74539846 original size:95 final size:96
Alignment explanation
Indices: 74539673--74539947 Score: 315
Period size: 95 Copynumber: 2.9 Consensus size: 96
74539663 ACAGTGCTAA
* * * * * *
74539673 ATGTGCCTGTGTAAGACCATGTCTAGGACATGGCATAGACGATGATATATGTGCCT-GTATAAGA
1 ATGTACCTGTGTAAGACCATGTCTGGGACAT-GCATCGGCGATGATATATGTGACTAGTGTAAGA
* **
74539737 CCATGTTTGGGACATGGCATCGACGATGATAT
65 CCATGTCTAAGACATGGCATCGACGATGATAT
* * * *
74539769 ATGTTCCTGTGTAAGACCATGTCCGGGACGTGCATCGGCGATGATATTTGTG-CTAGTGTAAGAC
1 ATGTACCTGTGTAAGACCATGTCTGGGACATGCATCGGCGATGATATATGTGACTAGTGTAAGAC
*
74539833 CATGTCTAAGACATGGCATCGGCGATGATAT
66 CATGTCTAAGACATGGCATCGACGATGATAT
* * * * *
74539864 GTGTACCAGTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATGTG-GATTCA-TGTAAG
1 ATGTACCTGTGTAAGACCATGTCTGGGACATG-CATCGGCGATGATATATGTGACT-AGTGTAAG
*
74539927 ACCATGTCGAAGACATGGCAT
64 ACCATGTCTAAGACATGGCAT
74539948 TAGTACTTTA
Statistics
Matches: 154, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
94 2 0.01
95 81 0.53
96 70 0.45
97 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (96 bp):
ATGTACCTGTGTAAGACCATGTCTGGGACATGCATCGGCGATGATATATGTGACTAGTGTAAGAC
CATGTCTAAGACATGGCATCGACGATGATAT
Found at i:74539912 original size:48 final size:48
Alignment explanation
Indices: 74539681--74539947 Score: 279
Period size: 48 Copynumber: 5.6 Consensus size: 48
74539671 AAATGTGCCT
* * * * *
74539681 GTGTAAGACCATGTCTAGGACATGGCATAGACGATGATATATGTGCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTACCA
* * * * *
74539729 GTATAAGACCATGTTTGGGACATGGCATCGACGATGATATATGTTCCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTACCA
* * * * *
74539777 GTGTAAGACCATGTCCGGGACGT-GCATCGGCGATGATATTTGTGCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTACCA
** *
74539824 GTGTAAGACCATGTCTAAGACATGGCATCGGCGATGATATGTGTACCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTACCA
* * * * *
74539872 GTGTAAGACCATGTCTGGGACATGACATCGGTGATGATATGTGGATTCA
1 GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTA-CCA
*
74539921 -TGTAAGACCATGTC-GAAGACATGGCAT
1 GTGTAAGACCATGTCTG-GGACATGGCAT
74539948 TAGTACTTTA
Statistics
Matches: 187, Mismatches: 29, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
47 39 0.21
48 146 0.78
49 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATATGTACCA
Found at i:74541606 original size:14 final size:14
Alignment explanation
Indices: 74541587--74541615 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
74541577 TGATGCAAAG
74541587 ATTCTTTTTGGTCT
1 ATTCTTTTTGGTCT
74541601 ATTCTTTTTGGTCT
1 ATTCTTTTTGGTCT
74541615 A
1 A
74541616 AACCATAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.10, C:0.14, G:0.14, T:0.62
Consensus pattern (14 bp):
ATTCTTTTTGGTCT
Found at i:74543432 original size:15 final size:15
Alignment explanation
Indices: 74543398--74543441 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
74543388 TACTTTTAAG
*
74543398 TTTTATTATATTTATA
1 TTTTATT-TTTTTATA
*
74543414 TTTTATTTTTTTATT
1 TTTTATTTTTTTATA
74543429 TTTTATTTTTTTA
1 TTTTATTTTTTTA
74543442 CCAACGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 19 0.73
16 7 0.27
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTATTTTTTTATA
Found at i:74548930 original size:27 final size:27
Alignment explanation
Indices: 74548898--74548951 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
74548888 CCTATGCTAC
* *
74548898 CTGTAAATCAGATCTCTTTCTTGCTTT
1 CTGTAAATCAGACCTCTTTCTTACTTT
74548925 CTGTAAATCAGACCTCTTTCTTACTTT
1 CTGTAAATCAGACCTCTTTCTTACTTT
74548952 GCTTTTCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.09, T:0.46
Consensus pattern (27 bp):
CTGTAAATCAGACCTCTTTCTTACTTT
Found at i:74555403 original size:107 final size:104
Alignment explanation
Indices: 74555271--74555472 Score: 298
Period size: 107 Copynumber: 1.9 Consensus size: 104
74555261 TGCCATTGTT
* * * *
74555271 GATTATGAAAAACTAGATTGTAAAGTTTAATTTTTAGTTTTTTACATAAGAACTAAAATGTATAA
1 GATTATGAAAAACTAGATTCTAAAGTTTAATTGTTAATTTTCTACATAAGAACTAAAATGTATAA
*
74555336 ATGATGAAACTT-CGGTGAAATTTTAGTAATCTAAGCTTA
66 ATGATGAAA-TTGAGGTGAAATTTTAGTAATCTAAGCTTA
*
74555375 GATTATGAAAAAGGACTAGATTCTAAAGTTTAATTGTTAATTTTCTACTTAAGAACTAAAATGTA
1 GATTATG-AAAA--ACTAGATTCTAAAGTTTAATTGTTAATTTTCTACATAAGAACTAAAATGTA
*
74555440 TAAATGGTGAAATTGAGGTGAAATTTTAGTAAT
63 TAAATGATGAAATTGAGGTGAAATTTTAGTAAT
74555473 AATAGATAGT
Statistics
Matches: 87, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
104 7 0.08
105 4 0.05
106 2 0.02
107 74 0.85
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (104 bp):
GATTATGAAAAACTAGATTCTAAAGTTTAATTGTTAATTTTCTACATAAGAACTAAAATGTATAA
ATGATGAAATTGAGGTGAAATTTTAGTAATCTAAGCTTA
Found at i:74561878 original size:32 final size:32
Alignment explanation
Indices: 74561842--74561902 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
74561832 CGCCGCATAC
74561842 CCCTCAGCCTTGGCCACCACGCCCCACGCATG
1 CCCTCAGCCTTGGCCACCACGCCCCACGCATG
* *
74561874 CCCTCAGCCTTGGTCACCACGCTCCACGC
1 CCCTCAGCCTTGGCCACCACGCCCCACGC
74561903 GTCTGACACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.15, C:0.52, G:0.18, T:0.15
Consensus pattern (32 bp):
CCCTCAGCCTTGGCCACCACGCCCCACGCATG
Found at i:74587188 original size:16 final size:17
Alignment explanation
Indices: 74587169--74587201 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
74587159 AATTTTATAT
74587169 TTTAAATA-TATTTTTG
1 TTTAAATATTATTTTTG
*
74587185 TTTATATATTATTTTTG
1 TTTAAATATTATTTTTG
74587202 AATATTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (17 bp):
TTTAAATATTATTTTTG
Found at i:74587215 original size:18 final size:18
Alignment explanation
Indices: 74587174--74587236 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
74587164 TATATTTTAA
** *
74587174 ATATATTTTTGTTTATAT
1 ATATATTTTTGAATATTT
74587192 AT-TATTTTTGAATATTT
1 ATATATTTTTGAATATTT
*
74587209 ATATATTTTT-AAAATTTT
1 ATATATTTTTGAATA-TTT
*
74587227 ATGTATTTTT
1 ATATATTTTT
74587237 TATTTTGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
17 17 0.45
18 21 0.55
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
ATATATTTTTGAATATTT
Found at i:74597749 original size:50 final size:50
Alignment explanation
Indices: 74597625--74597873 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
74597615 GATAATAACA
* * ** * *
74597625 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
74597676 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
74597726 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
74597776 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
74597831 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
74597874 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:74597803 original size:100 final size:104
Alignment explanation
Indices: 74597624--74597873 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
74597614 TGATAATAAC
**
74597624 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
74597689 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
74597726 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
74597789 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
74597831 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
74597874 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:74597989 original size:13 final size:13
Alignment explanation
Indices: 74597968--74597999 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
74597958 GCTTGGATCA
*
74597968 TCATCAAATAAAT
1 TCATAAAATAAAT
74597981 TCATAAAATAAAT
1 TCATAAAATAAAT
74597994 TCATAA
1 TCATAA
74598000 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:74598205 original size:4 final size:4
Alignment explanation
Indices: 74598196--74598223 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
74598186 CCTTTTTCTT
74598196 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC
74598224 CTTCCTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTC
Found at i:74598301 original size:15 final size:15
Alignment explanation
Indices: 74598273--74598312 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
74598263 GTTTCGTCTC
* *
74598273 TTCTATTCTGTTTCTT
1 TTCT-TTCTTTTTCTA
74598289 TTCTTTCTTTTTCTA
1 TTCTTTCTTTTTCTA
74598304 TTCTTTCTT
1 TTCTTTCTT
74598313 CTGTTTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.82
16 4 0.18
ACGTcount: A:0.05, C:0.20, G:0.03, T:0.72
Consensus pattern (15 bp):
TTCTTTCTTTTTCTA
Found at i:74598338 original size:5 final size:5
Alignment explanation
Indices: 74598323--74598394 Score: 62
Period size: 5 Copynumber: 14.4 Consensus size: 5
74598313 CTGTTTTATG
74598323 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
74598371 CATAA TCATTAC TATAA TATAA TA
1 TATAA T-A-TAA TATAA TATAA TA
74598395 ATATTTTTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 34 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:74598348 original size:19 final size:19
Alignment explanation
Indices: 74598324--74598366 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
74598314 TGTTTTATGT
74598324 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
74598343 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
74598362 ATATA
1 ATATA
74598367 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Done.