Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 99 of 136
Found at i:33162023 original size:45 final size:43
Alignment explanation
Indices: 33161969--33162109 Score: 152
Period size: 44 Copynumber: 3.3 Consensus size: 43
33161959 CTTCCTTCCC
33161969 TCTTC-TTCTTTTTTTTACTCTTCTCCTTTCCTTTCCTTTTCTT
1 TCTTCTTTCTTTTTTTT-CTCTTCTCCTTTCCTTTCCTTTTCTT
*
33162012 TCCTTCTTTCTTTCTTTTT-TCTTCTCCTTTCCTTT--TCTTC-T
1 T-CTTCTTTCTTT-TTTTTCTCTTCTCCTTTCCTTTCCTTTTCTT
*
33162053 TCTGTCATTC-TTTTTTTCTCTTCTCCTTTCCTTTTCCTTCCTTCTT
1 TCT-TCTTTCTTTTTTTTCTCTTCTCCTTTCC-TTTCCTT--TTCTT
33162099 T-TTCTTTCTTT
1 TCTTCTTTCTTT
33162110 CCTCTCCTTC
Statistics
Matches: 82, Mismatches: 4, Indels: 22
0.76 0.04 0.20
Matches are distributed among these distances:
39 5 0.06
40 17 0.21
41 10 0.12
42 4 0.05
43 2 0.02
44 25 0.30
45 12 0.15
46 7 0.09
ACGTcount: A:0.01, C:0.30, G:0.01, T:0.67
Consensus pattern (43 bp):
TCTTCTTTCTTTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCTT
Found at i:33162036 original size:44 final size:42
Alignment explanation
Indices: 33161970--33162144 Score: 133
Period size: 40 Copynumber: 4.3 Consensus size: 42
33161960 TTCCTTCCCT
33161970 CTTC-TTCTTT-TTTTTACTCTTCTCCTTTCCTTTCCTTTTCTTTC
1 CTTCTTTCTTTCTTTTT--TCTTCT-C-TTCCTTTCCTTTTCTTTC
33162014 CTTCTTTCTTTCTTTTTTC-T-TC-TCCTTTCCTTTTC-TT-
1 CTTCTTTCTTTCTTTTTTCTTCTCTTCCTTTCCTTTTCTTTC
* * *
33162051 CTTCTGTCATTC-TTTTT-TTCTCTTCTCCTTTCCTTTTCCTTC
1 CTTCTTTCTTTCTTTTTTCTTCTC-T-TCCTTTCCTTTTCTTTC
* *
33162093 CTTC-TT-TTTCTTTCTTTCCTCTCCTTCCTGT-C-TTTCTTTC
1 CTTCTTTCTTTCTTT-TTTCTTCT-CTTCCTTTCCTTTTCTTTC
*
33162133 TTTCTTTCTTTC
1 CTTCTTTCTTTC
33162145 CCTCTCCTTC
Statistics
Matches: 108, Mismatches: 8, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
36 6 0.06
37 12 0.11
38 2 0.02
39 13 0.12
40 26 0.24
41 9 0.08
42 17 0.16
43 5 0.05
44 7 0.06
45 6 0.06
46 5 0.05
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.66
Consensus pattern (42 bp):
CTTCTTTCTTTCTTTTTTCTTCTCTTCCTTTCCTTTTCTTTC
Found at i:33162043 original size:84 final size:83
Alignment explanation
Indices: 33161946--33162110 Score: 204
Period size: 84 Copynumber: 2.0 Consensus size: 83
33161936 TACCTTTTTT
*
33161946 TTTC-TTTTT-TTTCC-TTCC-TTCCCTCTTCT-TC-TT-TTTTTTACTCTTCTCCTTTCC-TTT
1 TTTCTTTTTTCTTTCCTTTCCTTTTCCTCTTCTGTCATTCTTTTTTACTCTTCTCCTTTCCTTTT
33162003 CCTT-TTCTTTCCTTCTTTC
66 CCTTCTTCTTT--TTCTTTC
* *
33162022 TTTCTTTTTTCTTCTCCTTTCCTTTTCTTCTTCTGTCATTCTTTTTTTCTCTTCTCCTTTCCTTT
1 TTTCTTTTTTCTT-TCCTTTCCTTTTCCTCTTCTGTCATTCTTTTTTACTCTTCTCCTTTCCTTT
33162087 TCCTTCCTTCTTTTTCTTTC
65 TCCTT-CTTCTTTTTCTTTC
33162107 TTTC
1 TTTC
33162111 CTCTCCTTCC
Statistics
Matches: 75, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
76 4 0.05
77 5 0.07
78 2 0.03
79 3 0.04
80 4 0.05
81 9 0.12
82 2 0.03
83 2 0.03
84 20 0.27
85 18 0.24
87 6 0.08
ACGTcount: A:0.01, C:0.32, G:0.01, T:0.67
Consensus pattern (83 bp):
TTTCTTTTTTCTTTCCTTTCCTTTTCCTCTTCTGTCATTCTTTTTTACTCTTCTCCTTTCCTTTT
CCTTCTTCTTTTTCTTTC
Found at i:33162155 original size:26 final size:26
Alignment explanation
Indices: 33162100--33162155 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
33162090 TTCCTTCTTT
* *
33162100 TTCTTTCTTTCCTCTCCTTCCTGTCT
1 TTCTTTCTTTCCTCTCCTTCCTCTCC
* *
33162126 TTCTTTCTTT-CTTTCTTTCCCTCTCC
1 TTCTTTCTTTCCTCTCCTT-CCTCTCC
33162152 TTCT
1 TTCT
33162156 GCCCCCCACC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.00, C:0.38, G:0.02, T:0.61
Consensus pattern (26 bp):
TTCTTTCTTTCCTCTCCTTCCTCTCC
Found at i:33162222 original size:27 final size:27
Alignment explanation
Indices: 33162184--33162235 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
33162174 CCCTATTATA
*
33162184 CATTGGTGCCGCCAATGGCATTGGCAC
1 CATTGGTGCCGCCAATGCCATTGGCAC
33162211 CATTGGTGCCGCCAATGCCATTGGC
1 CATTGGTGCCGCCAATGCCATTGGC
33162236 GTGACCAGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.17, C:0.31, G:0.29, T:0.23
Consensus pattern (27 bp):
CATTGGTGCCGCCAATGCCATTGGCAC
Found at i:33162318 original size:25 final size:25
Alignment explanation
Indices: 33162284--33162332 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
33162274 GGTTTTTTTT
33162284 TATATATTTTGGTAAATAAAAAAAA
1 TATATATTTTGGTAAATAAAAAAAA
*
33162309 TATATTTTTTGGTAAATAAAAAAA
1 TATATATTTTGGTAAATAAAAAAA
33162333 GTTATAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (25 bp):
TATATATTTTGGTAAATAAAAAAAA
Found at i:33172958 original size:24 final size:24
Alignment explanation
Indices: 33172910--33172956 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33172900 ACTGGTCATA
*
33172910 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
33172934 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
33172957 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:33173984 original size:27 final size:27
Alignment explanation
Indices: 33173943--33174108 Score: 199
Period size: 27 Copynumber: 6.2 Consensus size: 27
33173933 AGGTCGATAT
33173943 ATGACCGAAATACCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
33173970 ATAACCGAAATA-CCCCATAGAGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
33173996 ATGACCGAAGTATCCCAATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* ** * * *
33174023 ATAACCGAAATAATCTCACAGGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
33174050 ATGACCGAAATACCCCCATATGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
33174077 ATGATCGAAATACCCTCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
33174104 ATGAC
1 ATGAC
33174109 TGTTATACCC
Statistics
Matches: 113, Mismatches: 25, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 23 0.20
27 90 0.80
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:33174116 original size:27 final size:26
Alignment explanation
Indices: 33173956--33174142 Score: 83
Period size: 27 Copynumber: 7.0 Consensus size: 26
33173946 ACCGAAATAC
* * **
33173956 CCCCATAGGGTAAAATAACCGAAATA
1 CCCCATAGGGTAAAATGACTGTTATA
* * *
33173982 CCCCATAGAGTAAAATGACCG-AAGTA
1 CCCCATAGGGTAAAATGACTGTTA-TA
* * * **
33174008 TCCCAATAGGGTAAAATAACCGAAATAA
1 -CCCCATAGGGTAAAATGACTGTTAT-A
* * * * * **
33174036 TCTCACAGGATAAAATGACCGAAATA
1 CCCCATAGGGTAAAATGACTGTTATA
* **
33174062 CCCCCATATGGTAAAATGA-TCGAAATA
1 -CCCCATAGGGTAAAATGACT-GTTATA
33174089 CCCTCATAGGGTAAAATGACTGTTATA
1 CCC-CATAGGGTAAAATGACTGTTATA
33174116 CCCC-TAGGAGATAAAATGACTGTTATA
1 CCCCATAGG-G-TAAAATGACTGTTATA
33174143 GCCTTGTCTT
Statistics
Matches: 131, Mismatches: 20, Indels: 19
0.77 0.12 0.11
Matches are distributed among these distances:
25 6 0.05
26 27 0.21
27 94 0.72
28 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.21
Consensus pattern (26 bp):
CCCCATAGGGTAAAATGACTGTTATA
Found at i:33174396 original size:26 final size:26
Alignment explanation
Indices: 33174342--33174396 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
33174332 TTTGCAACAT
* *
33174342 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTATTACTGGCAGCTTTGCTACG
*
33174368 ATACTATTACTGGCAGCTTTGCTATG
1 ATACTATTACTGGCAGCTTTGCTACG
33174394 ATA
1 ATA
33174397 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTACG
Found at i:33174547 original size:28 final size:28
Alignment explanation
Indices: 33174507--33174608 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
33174497 GCATTGTTAC
* *
33174507 TGTATTGGGCTAAGGCCTACACTGATTA
1 TGTATTAGGCTAAGGCCCACACTGATTA
*
33174535 TGTATTAGGCTAAGGCCCACACTGATTC
1 TGTATTAGGCTAAGGCCCACACTGATTA
* * * *
33174563 TATATTGGGATAAGACCCACACT-ATTA
1 TGTATTAGGCTAAGGCCCACACTGATTA
33174590 CTGTATTAGGCTAAGGCCC
1 -TGTATTAGGCTAAGGCCC
33174609 TATAATGGCC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
27 3 0.05
28 58 0.95
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (28 bp):
TGTATTAGGCTAAGGCCCACACTGATTA
Found at i:33175487 original size:19 final size:19
Alignment explanation
Indices: 33175463--33175502 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
33175453 AATTGTGAAA
33175463 AGGTTTGGAATTAAAGTCT
1 AGGTTTGGAATTAAAGTCT
33175482 AGGTTTGGAATTAAAGTCT
1 AGGTTTGGAATTAAAGTCT
33175501 AG
1 AG
33175503 TGATAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.35
Consensus pattern (19 bp):
AGGTTTGGAATTAAAGTCT
Found at i:33180139 original size:78 final size:78
Alignment explanation
Indices: 33180050--33180207 Score: 264
Period size: 78 Copynumber: 2.0 Consensus size: 78
33180040 ATTCATGGCT
* *
33180050 AATCACATCTTTATAAGAGTGAATTATTGTAATTTAGGCA-AATGATTACAACTCTCAATAGAAT
1 AATCACATCTTTATAAGAGTGAATCATTGTAATTTAGG-AGAATGATTACAACTCTCAATAGAAG
33180114 GAGCTAATCAAAGG
65 GAGCTAATCAAAGG
* *
33180128 AATCACATCTTTATAAGTGTGAATCATTGTAGTTTAGGAGAATGATTACAACTCTCAATAGAAGG
1 AATCACATCTTTATAAGAGTGAATCATTGTAATTTAGGAGAATGATTACAACTCTCAATAGAAGG
33180193 AGCTAATCAAAGG
66 AGCTAATCAAAGG
33180206 AA
1 AA
33180208 AGGATTCATA
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
77 1 0.01
78 74 0.99
ACGTcount: A:0.41, C:0.13, G:0.17, T:0.30
Consensus pattern (78 bp):
AATCACATCTTTATAAGAGTGAATCATTGTAATTTAGGAGAATGATTACAACTCTCAATAGAAGG
AGCTAATCAAAGG
Found at i:33182414 original size:2 final size:2
Alignment explanation
Indices: 33182407--33182434 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33182397 CTGTGCCCTC
33182407 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
33182435 TAAAATTACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33182689 original size:2 final size:2
Alignment explanation
Indices: 33182682--33182707 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
33182672 CTGTGCCCTC
33182682 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
33182708 TAAAATTCCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33184788 original size:3 final size:3
Alignment explanation
Indices: 33184780--33184812 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
33184770 NNNNNNNNNN
33184780 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33184813 TCATTATTCA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33190921 original size:3 final size:3
Alignment explanation
Indices: 33190913--33190948 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
33190903 AAATAGGCAT
*
33190913 TGA TGA TGA TGA TGA TGG TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
33190949 AGGAGAGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.36, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:33197914 original size:1 final size:1
Alignment explanation
Indices: 33197908--33197935 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
33197898 GTCATGACAC
33197908 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
33197936 CACCAAGACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:33207255 original size:31 final size:31
Alignment explanation
Indices: 33207220--33207278 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
33207210 ATTTTTAAGG
*
33207220 ATAAA-TATCAAAATTATACATTAACTTTGAT
1 ATAAATTA-CAAAATTATACATCAACTTTGAT
**
33207251 ATAAATTACAATGTTATACATCAACTTT
1 ATAAATTACAAAATTATACATCAACTTT
33207279 AGTTTGGTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 22 0.92
32 2 0.08
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.39
Consensus pattern (31 bp):
ATAAATTACAAAATTATACATCAACTTTGAT
Found at i:33218579 original size:37 final size:37
Alignment explanation
Indices: 33218538--33218611 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
33218528 ATCTATCAAT
* * *
33218538 CGATCTCACTTAAATAGTGAATTATCAAAAATAAATC
1 CGATCTCACTCAAATACTGAATTATCAAAAAAAAATC
*
33218575 CGATCTCACTCAATTACTGAATTATCAAAAAAAAATC
1 CGATCTCACTCAAATACTGAATTATCAAAAAAAAATC
33218612 ATTTTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.46, C:0.19, G:0.07, T:0.28
Consensus pattern (37 bp):
CGATCTCACTCAAATACTGAATTATCAAAAAAAAATC
Found at i:33218946 original size:16 final size:16
Alignment explanation
Indices: 33218921--33218951 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33218911 TTCCAAATTA
*
33218921 TATATTTTATTTTTAT
1 TATATGTTATTTTTAT
33218937 TATATGTTATTTTTA
1 TATATGTTATTTTTA
33218952 AATACACATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
TATATGTTATTTTTAT
Found at i:33220189 original size:18 final size:18
Alignment explanation
Indices: 33220166--33220202 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
33220156 ATTAAGTTAA
33220166 ACCAATCCTGATTTAATT
1 ACCAATCCTGATTTAATT
33220184 ACCAATCCTGATTTAATT
1 ACCAATCCTGATTTAATT
33220202 A
1 A
33220203 AGTAAGTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (18 bp):
ACCAATCCTGATTTAATT
Found at i:33227913 original size:68 final size:69
Alignment explanation
Indices: 33227834--33227971 Score: 233
Period size: 69 Copynumber: 2.0 Consensus size: 69
33227824 ACATATTATG
* * *
33227834 AAATTGGAAACGCTTTCTCCCTCATG-AATCTGAGCACAGCTTTCAAGGTTAGAACATTCATTCC
1 AAATTGGAAACGCTTTCTACCTCATGCAACCTGAGCACAGCTTTCAAGGGTAGAACATTCATTCC
33227898 TAAA
66 TAAA
*
33227902 AAATTGGAAACGCTTTCTACCTCATGCAACCTGAGCACAGCTTTCAGGGGTAGAACATTCATTCC
1 AAATTGGAAACGCTTTCTACCTCATGCAACCTGAGCACAGCTTTCAAGGGTAGAACATTCATTCC
33227967 TAAA
66 TAAA
33227971 A
1 A
33227972 TGATAAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
68 25 0.38
69 40 0.62
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (69 bp):
AAATTGGAAACGCTTTCTACCTCATGCAACCTGAGCACAGCTTTCAAGGGTAGAACATTCATTCC
TAAA
Found at i:33231368 original size:24 final size:24
Alignment explanation
Indices: 33231340--33231388 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
33231330 AAACAAGAAG
33231340 ATACAGGGAAGAAAATGGTGTCAA
1 ATACAGGGAAGAAAATGGTGTCAA
33231364 ATACAGGGAAGAAAATGGTGTCAA
1 ATACAGGGAAGAAAATGGTGTCAA
33231388 A
1 A
33231389 GGAGTAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.29, T:0.16
Consensus pattern (24 bp):
ATACAGGGAAGAAAATGGTGTCAA
Found at i:33232596 original size:3 final size:3
Alignment explanation
Indices: 33232588--33232617 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
33232578 AGATTTTACT
33232588 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33232618 AACATATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:33238026 original size:130 final size:130
Alignment explanation
Indices: 33237793--33238052 Score: 495
Period size: 130 Copynumber: 2.0 Consensus size: 130
33237783 CTGCCAAATA
33237793 AAATTAATAGAAATTAGGGTTTTTTCTTTCTAAATATCACCCTTTAGTAAATGTTTCGGGAAATG
1 AAATTAATAGAAATTAGGGTTTTTTCTTTCTAAATATCACCCTTTAGTAAATGTTTCGGGAAATG
33237858 GAAAAATAGCACTATGAAGCATGCTATATTAAAAAAAAGGTTATTTTTTTAAATTTTAGTTGGCT
66 GAAAAATAGCACTATGAAGCATGCTATATTAAAAAAAAGGTTATTTTTTTAAATTTTAGTTGGCT
*
33237923 AAATTACTAGAAATTAGGGTTTTTTCTTTCTAAATATCACCCTTTAGTAAATGTTTCGGGAAATG
1 AAATTAATAGAAATTAGGGTTTTTTCTTTCTAAATATCACCCTTTAGTAAATGTTTCGGGAAATG
33237988 GAAAAAATAGCACTAT-AAGCATGCTATATTAAAAAAAAGGTTATTTTTTTAAATTTTAGTTGGC
66 G-AAAAATAGCACTATGAAGCATGCTATATTAAAAAAAAGGTTATTTTTTTAAATTTTAGTTGGC
33238052 T
130 T
33238053 TTTTCAATAA
Statistics
Matches: 128, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
130 114 0.89
131 14 0.11
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (130 bp):
AAATTAATAGAAATTAGGGTTTTTTCTTTCTAAATATCACCCTTTAGTAAATGTTTCGGGAAATG
GAAAAATAGCACTATGAAGCATGCTATATTAAAAAAAAGGTTATTTTTTTAAATTTTAGTTGGCT
Found at i:33239292 original size:16 final size:16
Alignment explanation
Indices: 33239271--33239303 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
33239261 TTCGCTGTAT
33239271 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
33239287 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCGTAA
33239303 T
1 T
33239304 AGCAATTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.36, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCGTAA
Found at i:33240651 original size:13 final size:13
Alignment explanation
Indices: 33240633--33240657 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33240623 GCCTTAACAA
33240633 GAGCAGCACTCAT
1 GAGCAGCACTCAT
33240646 GAGCAGCACTCA
1 GAGCAGCACTCA
33240658 AAATAGATTT
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:0.32, G:0.24, T:0.12
Consensus pattern (13 bp):
GAGCAGCACTCAT
Found at i:33252533 original size:21 final size:21
Alignment explanation
Indices: 33252507--33252546 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33252497 TGCTTCTTTG
*
33252507 AATCGATTCTTTGTTGTTTTA
1 AATCGATTCTTTATTGTTTTA
*
33252528 AATCGATTGTTTATTGTTT
1 AATCGATTCTTTATTGTTT
33252547 GAATAAATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.07, G:0.15, T:0.57
Consensus pattern (21 bp):
AATCGATTCTTTATTGTTTTA
Found at i:33254275 original size:105 final size:106
Alignment explanation
Indices: 33254092--33254302 Score: 406
Period size: 105 Copynumber: 2.0 Consensus size: 106
33254082 TACAACAAGA
33254092 GAAATAGAGAGAAAAACAGTTTCTCTCATTAAGAGGGAAATTCTGGCCAAATTACCAAAAAAGTC
1 GAAATAGAGAGAAAAACAGTTTCTCTCATTAAGAGGGAAATTCTGGCCAAATTACCAAAAAAGTC
33254157 CCTTTATTTTAAAAATTACGGAAATGGGCCGGTTTTTTAAT
66 CCTTTATTTTAAAAATTACGGAAATGGGCCGGTTTTTTAAT
33254198 GAAATAGAGA-AAAAACAGTTTCTCTCATTAAGAGGGAAATTCTGGCCAAATTACCAAAAAAGTC
1 GAAATAGAGAGAAAAACAGTTTCTCTCATTAAGAGGGAAATTCTGGCCAAATTACCAAAAAAGTC
*
33254262 CCTTTATTTTAAAAATTACGGAAATGGGGCGGTTTTTTAAT
66 CCTTTATTTTAAAAATTACGGAAATGGGCCGGTTTTTTAAT
33254303 TATTTACCGG
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
105 94 0.90
106 10 0.10
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (106 bp):
GAAATAGAGAGAAAAACAGTTTCTCTCATTAAGAGGGAAATTCTGGCCAAATTACCAAAAAAGTC
CCTTTATTTTAAAAATTACGGAAATGGGCCGGTTTTTTAAT
Found at i:33263596 original size:386 final size:386
Alignment explanation
Indices: 33262883--33263655 Score: 1546
Period size: 386 Copynumber: 2.0 Consensus size: 386
33262873 CAATTTACAA
33262883 TCAATATGGAAACCAACACATTTTCACATTCAAACGTATTTAAATCATGCCTAAAACATTTATTT
1 TCAATATGGAAACCAACACATTTTCACATTCAAACGTATTTAAATCATGCCTAAAACATTTATTT
33262948 ATCAAATTGATCAGCAACATTCATAATACTATATAAAAGCTAACTAAAAAACTTCGTTCATTTCA
66 ATCAAATTGATCAGCAACATTCATAATACTATATAAAAGCTAACTAAAAAACTTCGTTCATTTCA
33263013 TTTCAATTTTAGTACCAAACTATCTCAAAAGTATATCAAGATGATACTAGCCTATACATGCCATA
131 TTTCAATTTTAGTACCAAACTATCTCAAAAGTATATCAAGATGATACTAGCCTATACATGCCATA
33263078 TACCATATATATACAATTCAAAAGTACCAACTTAGATGTCCGATAGCGTGATGATGTTCCCGGCG
196 TACCATATATATACAATTCAAAAGTACCAACTTAGATGTCCGATAGCGTGATGATGTTCCCGGCG
33263143 ACTTCTGGATCCGAGCTAGCCTTGATTCTCTATAGAACATAAGAAAATAATACGAAGTAAGCTTC
261 ACTTCTGGATCCGAGCTAGCCTTGATTCTCTATAGAACATAAGAAAATAATACGAAGTAAGCTTC
33263208 ATAGCTTAGTAAGCTCGTAAGTGAATAATTTAATACATTAAATAAATACAATTCAACTAAT
326 ATAGCTTAGTAAGCTCGTAAGTGAATAATTTAATACATTAAATAAATACAATTCAACTAAT
33263269 TCAATATGGAAACCAACACATTTTCACATTCAAACGTATTTAAATCATGCCTAAAACATTTATTT
1 TCAATATGGAAACCAACACATTTTCACATTCAAACGTATTTAAATCATGCCTAAAACATTTATTT
33263334 ATCAAATTGATCAGCAACATTCATAATACTATATAAAAGCTAACTAAAAAACTTCGTTCATTTCA
66 ATCAAATTGATCAGCAACATTCATAATACTATATAAAAGCTAACTAAAAAACTTCGTTCATTTCA
33263399 TTTCAATTTTAGTACCAAACTATCTCAAAAGTATATCAAGATGATACTAGCCTATACATGCCATA
131 TTTCAATTTTAGTACCAAACTATCTCAAAAGTATATCAAGATGATACTAGCCTATACATGCCATA
33263464 TACCATATATATACAATTCAAAAGTACCAACTTAGATGTCCGATAGCGTGATGATGTTCCCGGCG
196 TACCATATATATACAATTCAAAAGTACCAACTTAGATGTCCGATAGCGTGATGATGTTCCCGGCG
33263529 ACTTCTGGATCCGAGCTAGCCTTGATTCTCTATAGAACATAAGAAAATAATACGAAGTAAGCTTC
261 ACTTCTGGATCCGAGCTAGCCTTGATTCTCTATAGAACATAAGAAAATAATACGAAGTAAGCTTC
33263594 ATAGCTTAGTAAGCTCGTAAGTGAATAATTTAATACATTAAATAAATACAATTCAACTAAT
326 ATAGCTTAGTAAGCTCGTAAGTGAATAATTTAATACATTAAATAAATACAATTCAACTAAT
33263655 T
1 T
33263656 GTACATAACA
Statistics
Matches: 387, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
386 387 1.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (386 bp):
TCAATATGGAAACCAACACATTTTCACATTCAAACGTATTTAAATCATGCCTAAAACATTTATTT
ATCAAATTGATCAGCAACATTCATAATACTATATAAAAGCTAACTAAAAAACTTCGTTCATTTCA
TTTCAATTTTAGTACCAAACTATCTCAAAAGTATATCAAGATGATACTAGCCTATACATGCCATA
TACCATATATATACAATTCAAAAGTACCAACTTAGATGTCCGATAGCGTGATGATGTTCCCGGCG
ACTTCTGGATCCGAGCTAGCCTTGATTCTCTATAGAACATAAGAAAATAATACGAAGTAAGCTTC
ATAGCTTAGTAAGCTCGTAAGTGAATAATTTAATACATTAAATAAATACAATTCAACTAAT
Found at i:33270422 original size:29 final size:31
Alignment explanation
Indices: 33270390--33270450 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 31
33270380 ATTTTCAAAA
*
33270390 TATTTTTAAAAT-ACTTTTTT-TATTTTTTT
1 TATTTTTAAAATAAATTTTTTGTATTTTTTT
33270419 TATTTTTAAAATAAATTTTTTGGTATTTTTTT
1 TATTTTTAAAATAAATTTTTT-GTATTTTTTT
33270451 AAAAAATGGG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.43
30 7 0.25
32 9 0.32
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (31 bp):
TATTTTTAAAATAAATTTTTTGTATTTTTTT
Found at i:33270448 original size:30 final size:29
Alignment explanation
Indices: 33270390--33270449 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 29
33270380 ATTTTCAAAA
* * *
33270390 TATTTTTAAAATACTTTTTTTATTTTTTT
1 TATTTTTAAAATAATTTTTTGATATTTTT
*
33270419 TATTTTTAAAATAAATTTTTTGGTATTTTT
1 TATTTTTAAAAT-AATTTTTTGATATTTTT
33270449 T
1 T
33270450 TAAAAAATGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (29 bp):
TATTTTTAAAATAATTTTTTGATATTTTT
Found at i:33273148 original size:17 final size:17
Alignment explanation
Indices: 33273090--33273170 Score: 60
Period size: 17 Copynumber: 4.6 Consensus size: 17
33273080 TTATATCTAC
33273090 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
33273107 TAAATTTAACATT-TTATAT
1 T--ATTT-ATATTATTAAAT
33273126 TATTTATATTATTAAAT
1 TATTTATATTATTAAAT
* *
33273143 TGTTTAGTCA-TATTGAA-
1 TATTTA-T-ATTATTAAAT
33273160 TATTTATATTA
1 TATTTATATTA
33273171 AAATTGAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.14
17 20 0.40
18 7 0.14
19 11 0.22
20 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (17 bp):
TATTTATATTATTAAAT
Found at i:33273872 original size:26 final size:26
Alignment explanation
Indices: 33273812--33273874 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 26
33273802 TTTACTCTAG
* * *
33273812 TAAAATTATGACGATTTTACCCCTAA
1 TAAAATTTTGATGATTTTACCCCCAA
33273838 TAAAATTTTGATGATTTTACCCCCAA
1 TAAAATTTTGATGATTTTACCCCCAA
*
33273864 TAAAGTTTTGA
1 TAAAATTTTGA
33273875 GAAAATTCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (26 bp):
TAAAATTTTGATGATTTTACCCCCAA
Found at i:33275034 original size:47 final size:47
Alignment explanation
Indices: 33274980--33275074 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
33274970 TGATAGCGTC
33274980 AACTGTCGGTTCGGTCAAGGTTACGCAAAATGTATCCCAATGGTTAG
1 AACTGTCGGTTCGGTCAAGGTTACGCAAAATGTATCCCAATGGTTAG
*
33275027 AACTGTCGGTTCGGTCAAGGTTGCGCAAAATGTATCCCAATGGTTAG
1 AACTGTCGGTTCGGTCAAGGTTACGCAAAATGTATCCCAATGGTTAG
33275074 A
1 A
33275075 TCGGACTAGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (47 bp):
AACTGTCGGTTCGGTCAAGGTTACGCAAAATGTATCCCAATGGTTAG
Found at i:33287104 original size:13 final size:13
Alignment explanation
Indices: 33287086--33287115 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33287076 ATTTTTTTAA
*
33287086 TATAAAATATTTC
1 TATAAAATATTAC
33287099 TATAAAATATTAC
1 TATAAAATATTAC
33287112 TATA
1 TATA
33287116 GTGGAATTTG
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAAAATATTAC
Found at i:33291102 original size:15 final size:16
Alignment explanation
Indices: 33291076--33291109 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
33291066 TGAAAGGTAT
33291076 TAATTAGATTAATTAG
1 TAATTAGATTAATTAG
*
33291092 TAATT-GATTAATTGG
1 TAATTAGATTAATTAG
33291107 TAA
1 TAA
33291110 AATCTCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
TAATTAGATTAATTAG
Found at i:33291617 original size:87 final size:87
Alignment explanation
Indices: 33291471--33291726 Score: 399
Period size: 87 Copynumber: 2.9 Consensus size: 87
33291461 CGAGGCATGG
* * *
33291471 TCAAGTTGTTGGCATCGTTGCCAAGGAGGTTTAGGTGCTAATTTGATTTAGTAGTAAATTGTGTA
1 TCAAGTTGTTGGCGTCGTTGCTAGGGAGGTTTAGGTGCTAATTTGATTTAGTAGTAAATTGTGTA
*
33291536 GGATAGTTAAGATAAGTCACGA
66 GGCTAGTTAAGATAAGTCACGA
*
33291558 TCAAGTTGTTGGCGTCGTTGCTAGGGTGGTTTAGGTGCTAATTTGATTTAGTAGTAAATTGTGTA
1 TCAAGTTGTTGGCGTCGTTGCTAGGGAGGTTTAGGTGCTAATTTGATTTAGTAGTAAATTGTGTA
*
33291623 GGCTAGTTAAGATAAGTCACGG
66 GGCTAGTTAAGATAAGTCACGA
* *
33291645 TCAAGTTGTTGGCGTCGTTG-TCAGGGAGGTTTATGTGCTAATTTGATTTAATAGTAAATTGTGC
1 TCAAGTTGTTGGCGTCGTTGCT-AGGGAGGTTTAGGTGCTAATTTGATTTAGTAGTAAATTGTG-
*
33291709 T-GGCTAGTTAGGATAAGT
64 TAGGCTAGTTAAGATAAGT
33291727 AGTGAATTCG
Statistics
Matches: 157, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
86 1 0.01
87 155 0.99
88 1 0.01
ACGTcount: A:0.25, C:0.09, G:0.29, T:0.37
Consensus pattern (87 bp):
TCAAGTTGTTGGCGTCGTTGCTAGGGAGGTTTAGGTGCTAATTTGATTTAGTAGTAAATTGTGTA
GGCTAGTTAAGATAAGTCACGA
Found at i:33291767 original size:4 final size:4
Alignment explanation
Indices: 33291758--33291782 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
33291748 TACGTCACTT
33291758 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
33291783 AGTTTGATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:33294144 original size:3 final size:3
Alignment explanation
Indices: 33294136--33294160 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
33294126 AGTTAGATTC
33294136 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
33294161 TGATAGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33300165 original size:24 final size:24
Alignment explanation
Indices: 33300105--33300165 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
33300095 GTACATGTAT
*
33300105 GCTCATACGAGCGATAAACGGTAA
1 GCTCATACGAGCTATAAACGGTAA
* *
33300129 GCTC-TGCCAAGCTA-AAATCGGTAA
1 GCTCAT-ACGAGCTATAAA-CGGTAA
33300153 GCTCATACGAGCT
1 GCTCATACGAGCT
33300166 GTGGTGTGTC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
23 4 0.14
24 24 0.83
25 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.20
Consensus pattern (24 bp):
GCTCATACGAGCTATAAACGGTAA
Found at i:33301063 original size:19 final size:18
Alignment explanation
Indices: 33301012--33301064 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
33301002 TCAGATCGAT
*
33301012 AATTCATCAAACATTTAAC
1 AATT-ATCAATCATTTAAC
* *
33301031 AAATATCATTTCATTTCAAC
1 AATTATCA-ATCATTT-AAC
33301051 AATTATCAATCATT
1 AATTATCAATCATT
33301065 CATAAGCAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
18 4 0.15
19 13 0.48
20 10 0.37
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTATCAATCATTTAAC
Found at i:33304078 original size:36 final size:37
Alignment explanation
Indices: 33304026--33304095 Score: 133
Period size: 36 Copynumber: 1.9 Consensus size: 37
33304016 ACTATCATAT
33304026 TATCATGCTGTAGATATTAAAATAATATTAAAATTAG
1 TATCATGCTGTAGATATTAAAATAATATTAAAATTAG
33304063 TATCATGC-GTAGATATTAAAATAATATTAAAAT
1 TATCATGCTGTAGATATTAAAATAATATTAAAAT
33304096 AAATTTTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 25 0.76
37 8 0.24
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.37
Consensus pattern (37 bp):
TATCATGCTGTAGATATTAAAATAATATTAAAATTAG
Found at i:33305314 original size:13 final size:13
Alignment explanation
Indices: 33305296--33305325 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
33305286 AGCCCAAACT
*
33305296 CAATTACTCAACC
1 CAATTACCCAACC
33305309 CAATTACCCAACC
1 CAATTACCCAACC
33305322 CAAT
1 CAAT
33305326 AAAACTAAAA
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:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (13 bp):
CAATTACCCAACC
Found at i:33315617 original size:9 final size:8
Alignment explanation
Indices: 33315598--33315652 Score: 65
Period size: 9 Copynumber: 6.2 Consensus size: 8
33315588 NAGGGTATTT
33315598 TTCGGTAA
1 TTCGGTAA
33315606 TTCGGTTAA
1 TTCGG-TAA
33315615 TTCGGTTAA
1 TTCGG-TAA
33315624 TTCAGGTAA
1 TTC-GGTAA
33315633 TTCAGGTAA
1 TTC-GGTAA
33315642 TTCGGGTAA
1 TTC-GGTAA
33315651 TT
1 TT
33315653 TTTAACCAAA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
8 5 0.11
9 37 0.84
10 2 0.05
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.40
Consensus pattern (8 bp):
TTCGGTAA
Found at i:33315642 original size:27 final size:27
Alignment explanation
Indices: 33315601--33315652 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
33315591 GGTATTTTTC
*
33315601 GGTAATTCGGTTAATTCGGTTAATTCA
1 GGTAATTCGGTTAATTCGGGTAATTCA
33315628 GGTAATTCAGG-TAATTCGGGTAATT
1 GGTAATTC-GGTTAATTCGGGTAATT
33315653 TTTAACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.27, C:0.10, G:0.25, T:0.38
Consensus pattern (27 bp):
GGTAATTCGGTTAATTCGGGTAATTCA
Found at i:33317777 original size:12 final size:11
Alignment explanation
Indices: 33317750--33317775 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33317740 ATTTTTTTAA
33317750 TTTTAAAATAT
1 TTTTAAAATAT
33317761 TTTTAAAATAT
1 TTTTAAAATAT
33317772 TTTT
1 TTTT
33317776 TATTTTTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:33324374 original size:18 final size:19
Alignment explanation
Indices: 33324339--33324377 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
33324329 ATATGTATGA
33324339 TTAAATCAAAATTAAAAAT
1 TTAAATCAAAATTAAAAAT
*
33324358 TTAAATCATAA-TAAAAAT
1 TTAAATCAAAATTAAAAAT
33324376 TT
1 TT
33324378 CATGTATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (19 bp):
TTAAATCAAAATTAAAAAT
Found at i:33331556 original size:28 final size:29
Alignment explanation
Indices: 33331515--33331577 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
33331505 ATTTGATAAA
* *
33331515 AAAAATATCTACTT-CCTCCTAAAGTTTG
1 AAAAATACCCACTTACCTCCTAAAGTTTG
*
33331543 AAAAATACCCACTTATCTCCTAAAGTTTG
1 AAAAATACCCACTTACCTCCTAAAGTTTG
33331572 ATAAAA
1 A-AAAA
33331578 ATACATTTAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 12 0.40
29 14 0.47
30 4 0.13
ACGTcount: A:0.41, C:0.21, G:0.06, T:0.32
Consensus pattern (29 bp):
AAAAATACCCACTTACCTCCTAAAGTTTG
Found at i:33332669 original size:154 final size:155
Alignment explanation
Indices: 33332478--33332786 Score: 611
Period size: 154 Copynumber: 2.0 Consensus size: 155
33332468 TTTAAATTGC
33332478 AGTCAAATATAATTTTTAAAATAAAAGTTAAATATATTTAATATTATAATACTTCAATATGTAAT
1 AGTCAAATATAATTTTTAAAATAAAAGTTAAATATATTTAATATTATAATACTTCAATATGTAAT
33332543 TAAATTTTATTTATTTTTTATTTTTTATACAATCAATTTATGCCTACTTCTACCATAACCTTTCT
66 TAAATTTTATTTATTTTTTATTTTTTATACAATCAATTTATGCCTACTTCTACCATAACCTTTCT
33332608 AAACATTTAATTGAACCCGTGTACT
131 AAACATTTAATTGAACCCGTGTACT
33332633 AGTCAAATAT-ATTTTTAAAATAAAAGTTAAATATATTTAATATTATAATACTTCAATATGTAAT
1 AGTCAAATATAATTTTTAAAATAAAAGTTAAATATATTTAATATTATAATACTTCAATATGTAAT
33332697 TAAATTTTATTTATTTTTTATTTTTTATACAATCAATTTATGCCTACTTCTACCATAACCTTTCT
66 TAAATTTTATTTATTTTTTATTTTTTATACAATCAATTTATGCCTACTTCTACCATAACCTTTCT
33332762 AAACATTTAATTGAACCCGTGTACT
131 AAACATTTAATTGAACCCGTGTACT
33332787 CTTGATTAAC
Statistics
Matches: 154, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
154 144 0.94
155 10 0.06
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (155 bp):
AGTCAAATATAATTTTTAAAATAAAAGTTAAATATATTTAATATTATAATACTTCAATATGTAAT
TAAATTTTATTTATTTTTTATTTTTTATACAATCAATTTATGCCTACTTCTACCATAACCTTTCT
AAACATTTAATTGAACCCGTGTACT
Found at i:33334775 original size:16 final size:16
Alignment explanation
Indices: 33334742--33334773 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
33334732 CCGCCGCTAC
33334742 AAACATTTATAATTTT
1 AAACATTTATAATTTT
33334758 AAACACTTTATAATTT
1 AAACA-TTTATAATTT
33334774 AACATTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (16 bp):
AAACATTTATAATTTT
Found at i:33335548 original size:21 final size:21
Alignment explanation
Indices: 33335524--33335565 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33335514 TTAATATATG
*
33335524 TAAAAATATATATATAAAATA
1 TAAAAATATAGATATAAAATA
**
33335545 TAAATTTATAGATATAAAATA
1 TAAAAATATAGATATAAAATA
33335566 AACTCAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
TAAAAATATAGATATAAAATA
Found at i:33335739 original size:14 final size:14
Alignment explanation
Indices: 33335713--33335752 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
33335703 AAAATATTAA
33335713 ATTTTCA-AAAATT
1 ATTTTCAGAAAATT
33335726 ATTTTCAGAAAATT
1 ATTTTCAGAAAATT
33335740 ATTTTCAGTAAAA
1 ATTTTCAG-AAAA
33335753 CAAGCATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 7 0.28
14 14 0.56
15 4 0.16
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.42
Consensus pattern (14 bp):
ATTTTCAGAAAATT
Found at i:33336841 original size:13 final size:13
Alignment explanation
Indices: 33336823--33336848 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33336813 TTTATACATT
33336823 AAAATTTTAATTC
1 AAAATTTTAATTC
33336836 AAAATTTTAATTC
1 AAAATTTTAATTC
33336849 GACTCTACAG
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTTAATTC
Found at i:33338181 original size:19 final size:21
Alignment explanation
Indices: 33338159--33338206 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
33338149 TAATATATAA
*
33338159 AAATAATTTTA-ATT-ATATT
1 AAATAATTTAATATTAATATT
33338178 AAATAATTTAATATTAATATT
1 AAATAATTTAATATTAATATT
*
33338199 ATATAATT
1 AAATAATT
33338207 ATCATAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
20 3 0.12
21 12 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATTTAATATTAATATT
Found at i:33341697 original size:11 final size:11
Alignment explanation
Indices: 33341663--33341697 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
33341653 TCACAATATT
33341663 ATAAAAGAAAAA
1 ATAAAA-AAAAA
*
33341675 ATAATAAAAAA
1 ATAAAAAAAAA
33341686 ATAAAAAAAAA
1 ATAAAAAAAAA
33341697 A
1 A
33341698 AGGAGGAAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 16 0.76
12 5 0.24
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (11 bp):
ATAAAAAAAAA
Found at i:33352526 original size:12 final size:13
Alignment explanation
Indices: 33352511--33352572 Score: 60
Period size: 12 Copynumber: 5.1 Consensus size: 13
33352501 TACAATATTA
33352511 ATTAAATT-TAAT
1 ATTAAATTCTAAT
*
33352523 ATTAACTTCT-A-
1 ATTAAATTCTAAT
* *
33352534 ATTAATTTCTATT
1 ATTAAATTCTAAT
33352547 ATTAAATT-TAAT
1 ATTAAATTCTAAT
*
33352559 ATTAACTTCTAAT
1 ATTAAATTCTAAT
33352572 A
1 A
33352573 AACTTTTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
11 9 0.22
12 18 0.45
13 13 0.32
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAAATTCTAAT
Found at i:33352554 original size:36 final size:36
Alignment explanation
Indices: 33352506--33352588 Score: 123
Period size: 36 Copynumber: 2.3 Consensus size: 36
33352496 TAAATTACAA
*
33352506 TATTAATTAAATTTAATATTAACTTCTAATTAA-TTT
1 TATT-ATTAAATTTAATATTAACTTCTAATAAACTTT
33352542 CTATTATTAAATTTAATATTAACTTCTAATAAACTTT
1 -TATTATTAAATTTAATATTAACTTCTAATAAACTTT
*
33352579 TATAATTAAA
1 TATTATTAAA
33352589 CCATTTGGGG
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
36 36 0.84
37 7 0.16
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.49
Consensus pattern (36 bp):
TATTATTAAATTTAATATTAACTTCTAATAAACTTT
Found at i:33352558 original size:23 final size:22
Alignment explanation
Indices: 33352499--33352558 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 22
33352489 TACTGTATAA
33352499 ATTACAATATTAATTAAATTTAAT
1 ATTA-AAT-TTAATTAAATTTAAT
* * *
33352523 ATTAACTTCTAATTAATTTCTATT
1 ATTAAATT-TAATTAAATT-TAAT
33352547 ATTAAATTTAAT
1 ATTAAATTTAAT
33352559 ATTAACTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 1 0.03
23 15 0.50
24 14 0.47
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTAAATTTAATTAAATTTAAT
Found at i:33356043 original size:16 final size:16
Alignment explanation
Indices: 33356022--33356053 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
33356012 AGTCGGTTAC
33356022 GCACGAGGAAGGATTA
1 GCACGAGGAAGGATTA
33356038 GCACGAGGAAGGATTA
1 GCACGAGGAAGGATTA
33356054 CGGTCACATG
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:0.38, C:0.12, G:0.38, T:0.12
Consensus pattern (16 bp):
GCACGAGGAAGGATTA
Found at i:33356851 original size:24 final size:24
Alignment explanation
Indices: 33356816--33356879 Score: 60
Period size: 24 Copynumber: 2.7 Consensus size: 24
33356806 AGCGAATTAG
*
33356816 ATTA-AAATATATGTATATATATAA
1 ATTATAAA-ATATGTATACATATAA
* * **
33356840 ATTATAAAATATATGTACATATGT
1 ATTATAAAATATGTATACATATAA
33356864 ATTATAAAA-ATGTATA
1 ATTATAAAATATGTATA
33356880 GATGTATGCG
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
23 5 0.16
24 24 0.75
25 3 0.09
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.41
Consensus pattern (24 bp):
ATTATAAAATATGTATACATATAA
Found at i:33358163 original size:17 final size:17
Alignment explanation
Indices: 33358141--33358180 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
33358131 ACAAATTATT
33358141 TTTGGGCTT-GTTGGGTA
1 TTTGGGCTTGGTT-GGTA
33358158 TTTGGGCTTGGTTGGTA
1 TTTGGGCTTGGTTGGTA
33358175 TTTGGG
1 TTTGGG
33358181 TTAGGCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.05, C:0.05, G:0.42, T:0.47
Consensus pattern (17 bp):
TTTGGGCTTGGTTGGTA
Found at i:33360305 original size:20 final size:20
Alignment explanation
Indices: 33360280--33360331 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
33360270 TATGGATCAC
*
33360280 TCCATTTACTTTCTTACCAT
1 TCCATTTACTTACTTACCAT
*
33360300 TCCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTACCAT
*
33360320 TTCATTTACTTA
1 TCCATTTACTTA
33360332 GCATAAACTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.21, C:0.27, G:0.00, T:0.52
Consensus pattern (20 bp):
TCCATTTACTTACTTACCAT
Found at i:33361159 original size:36 final size:36
Alignment explanation
Indices: 33361078--33361169 Score: 116
Period size: 36 Copynumber: 2.6 Consensus size: 36
33361068 ATCAGTCCAA
* * *
33361078 CCAAAACACACCAGATGCTCACATGAGCCAATGCCT
1 CCAAAACACACCAGATGCTCACACGAACCAATCCCT
* *
33361114 -TAAAGACACACTAGATGCTCACACGAACCAATCCCT
1 CCAAA-ACACACCAGATGCTCACACGAACCAATCCCT
33361150 CCAAAACACACCA-ATGCTCA
1 CCAAAACACACCAGATGCTCA
33361170 TAAGAGCTAG
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 10 0.21
36 34 0.72
37 3 0.06
ACGTcount: A:0.39, C:0.36, G:0.11, T:0.14
Consensus pattern (36 bp):
CCAAAACACACCAGATGCTCACACGAACCAATCCCT
Found at i:33361233 original size:35 final size:35
Alignment explanation
Indices: 33361145--33361233 Score: 108
Period size: 35 Copynumber: 2.5 Consensus size: 35
33361135 CACGAACCAA
*
33361145 TCCCTCCAAAACACACCAATGCTCATAAGAGCTAG
1 TCCCTCCGAAACACACCAATGCTCATAAGAGCTAG
** *
33361180 TCCAACTGAAACACACCAATGCTCCA-AAGAGCTAG
1 TCCCTCCGAAACACACCAATGCT-CATAAGAGCTAG
* *
33361215 TCCCTCCGAGACATACCAA
1 TCCCTCCGAAACACACCAA
33361234 ACAGAGAGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
35 42 0.95
36 2 0.05
ACGTcount: A:0.37, C:0.35, G:0.12, T:0.16
Consensus pattern (35 bp):
TCCCTCCGAAACACACCAATGCTCATAAGAGCTAG
Found at i:33370972 original size:29 final size:29
Alignment explanation
Indices: 33370930--33370986 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
33370920 TTATGGAAGA
* * *
33370930 GGTGGAGAACTTGTTCGTTGAGAGTTCGC
1 GGTGAAGAACTTGTTCATTGAGAATTCGC
33370959 GGTGAAGAACTTGTTCATTGAGAATTCG
1 GGTGAAGAACTTGTTCATTGAGAATTCG
33370987 TGTCAAGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.23, C:0.12, G:0.33, T:0.32
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCATTGAGAATTCGC
Found at i:33372693 original size:31 final size:31
Alignment explanation
Indices: 33372658--33372717 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
33372648 AGCCACTAAA
* *
33372658 GTTTTAAATAATTTTTATTTTGGTCACTCAT
1 GTTTTAAATAATTTCTATTTTAGTCACTCAT
* *
33372689 GTTTTATATCATTTCTATTTTAGTCACTC
1 GTTTTAAATAATTTCTATTTTAGTCACTC
33372718 TCTATTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.13, G:0.08, T:0.55
Consensus pattern (31 bp):
GTTTTAAATAATTTCTATTTTAGTCACTCAT
Found at i:33373829 original size:31 final size:31
Alignment explanation
Indices: 33373793--33373851 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
33373783 ACTTAATAGA
* *
33373793 GAGTGACCAAAATAGAAACGATCTAAAACGT
1 GAGTGACAAAAATAAAAACGATCTAAAACGT
**
33373824 GAGTGACAAAAATAAAAATTATCTAAAA
1 GAGTGACAAAAATAAAAACGATCTAAAA
33373852 TGTTAGTAGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.54, C:0.12, G:0.15, T:0.19
Consensus pattern (31 bp):
GAGTGACAAAAATAAAAACGATCTAAAACGT
Found at i:33375123 original size:17 final size:17
Alignment explanation
Indices: 33375101--33375137 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
33375091 CAGAAAAATG
*
33375101 GGCTCACATGCCCATGT
1 GGCTCACACGCCCATGT
33375118 GGCTCACACGCCCATGT
1 GGCTCACACGCCCATGT
33375135 GGC
1 GGC
33375138 CCACTCGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.16, C:0.38, G:0.27, T:0.19
Consensus pattern (17 bp):
GGCTCACACGCCCATGT
Found at i:33391854 original size:22 final size:21
Alignment explanation
Indices: 33391819--33391859 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
33391809 TCTCATCATT
*
33391819 TTTACCCATGATAACTTTGGC
1 TTTACCCATAATAACTTTGGC
*
33391840 TTTACCCCATAATAATTTTG
1 TTTA-CCCATAATAACTTTG
33391860 TCTTGTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.41
Consensus pattern (21 bp):
TTTACCCATAATAACTTTGGC
Found at i:33393362 original size:11 final size:11
Alignment explanation
Indices: 33393316--33393379 Score: 71
Period size: 11 Copynumber: 5.9 Consensus size: 11
33393306 GGCCCATTTT
33393316 TATTTT-AAAA
1 TATTTTAAAAA
33393326 -ATTTTAAAAA
1 TATTTTAAAAA
**
33393336 -ATTAAAAAAA
1 TATTTTAAAAA
33393346 CGTATTTTAAAAA
1 --TATTTTAAAAA
33393359 TATTTTAAAAA
1 TATTTTAAAAA
33393370 TATTTTAAAA
1 TATTTTAAAA
33393380 TTAAAAAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
9 5 0.11
10 12 0.26
11 21 0.46
13 8 0.17
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:33393388 original size:53 final size:54
Alignment explanation
Indices: 33393316--33393421 Score: 169
Period size: 53 Copynumber: 2.0 Consensus size: 54
33393306 GGCCCATTTT
** *
33393316 TATTTTAAAAATTTTAAAAAATTAAAAAAACGTATTTTAAAAATATTTTAAAAA
1 TATTTTAAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAAA
*
33393370 TATTTT-AAAATTAAAAAAAATTAAAAAAAAGTATTTTTAAAATATTTTAAAA
1 TATTTTAAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAA
33393422 TTAAAAAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
53 42 0.88
54 6 0.12
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (54 bp):
TATTTTAAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAAA
Found at i:33393405 original size:42 final size:40
Alignment explanation
Indices: 33393354--33393439 Score: 145
Period size: 42 Copynumber: 2.1 Consensus size: 40
33393344 AACGTATTTT
33393354 AAAAATATTTTAAAAATATTTTAAAATTAAAAAAAATTAAA
1 AAAAATATTTTAAAAATATTTTAAAATT-AAAAAAATTAAA
*
33393395 AAAAAGTATTTTTAAAATATTTTAAAATTAAAAAAATTAAA
1 AAAAA-TATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
33393436 AAAA
1 AAAA
33393440 CTGCAACACC
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
41 21 0.49
42 22 0.51
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (40 bp):
AAAAATATTTTAAAAATATTTTAAAATTAAAAAAATTAAA
Found at i:33393439 original size:53 final size:53
Alignment explanation
Indices: 33393322--33393439 Score: 159
Period size: 53 Copynumber: 2.3 Consensus size: 53
33393312 TTTTTATTTT
** * **
33393322 AAAAATTTTAAAAAATTAAAAAAACGTATTTTAAAAATATTTTAAAAATATTT
1 AAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAAATATAA
* *
33393375 TAAAATTAAAAAAAATTAAAAAAAAGTATTTTTAAAATATTTT-AAAAT-TAA
1 AAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAAATATAA
33393426 AAAAATTAAAAAAA
1 AAAAATTAAAAAAA
33393440 CTGCAACACC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 14 0.25
52 5 0.09
53 38 0.67
ACGTcount: A:0.64, C:0.01, G:0.02, T:0.34
Consensus pattern (53 bp):
AAAAATTAAAAAAAATTAAAAAAAAGTATTTTAAAAATATTTTAAAAATATAA
Found at i:33394274 original size:29 final size:29
Alignment explanation
Indices: 33394189--33394276 Score: 86
Period size: 31 Copynumber: 2.9 Consensus size: 29
33394179 GATTAAATCA
* *
33394189 AAATTAAAGTTTCAAATATACATTTAAACC
1 AAATTAAAGTTT-AAATATACAATTACACC
* * * *
33394219 ACAATTAGAGTTTTACATGTATAATTACACC
1 A-AATTAAAG-TTTAAATATACAATTACACC
*
33394250 AAATTAAAGTTTATATATACAATTACA
1 AAATTAAAGTTTAAATATACAATTACA
33394277 TATTAAATCA
Statistics
Matches: 46, Mismatches: 10, Indels: 5
0.75 0.16 0.08
Matches are distributed among these distances:
29 15 0.33
30 8 0.17
31 20 0.43
32 3 0.07
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (29 bp):
AAATTAAAGTTTAAATATACAATTACACC
Found at i:33400987 original size:17 final size:17
Alignment explanation
Indices: 33400965--33401000 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33400955 TAGATGTGAT
33400965 AAAAACATTCTTGAAAA
1 AAAAACATTCTTGAAAA
* *
33400982 AAAAACATTTTTTAAAA
1 AAAAACATTCTTGAAAA
33400999 AA
1 AA
33401001 CGCTTTCTAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.28
Consensus pattern (17 bp):
AAAAACATTCTTGAAAA
Found at i:33401109 original size:22 final size:22
Alignment explanation
Indices: 33401058--33401150 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 22
33401048 CATTTGTTTA
* * *
33401058 TTATTATTATTTAAT-ATTGTT
1 TTATTTTTAATTAATAATTATT
* * *
33401079 TTAAGTTTTAATTAATAAATATG
1 TT-ATTTTTAATTAATAATTATT
* *
33401102 TTATTTTTAAGTT-AT-TTTGTT
1 TTATTTTTAA-TTAATAATTATT
33401123 TTATTTTTAATTAATAATTATT
1 TTATTTTTAATTAATAATTATT
33401145 TTATTT
1 TTATTT
33401151 ATATAAATAA
Statistics
Matches: 54, Mismatches: 13, Indels: 9
0.71 0.17 0.12
Matches are distributed among these distances:
20 2 0.04
21 16 0.30
22 29 0.54
23 7 0.13
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.63
Consensus pattern (22 bp):
TTATTTTTAATTAATAATTATT
Found at i:33409391 original size:43 final size:43
Alignment explanation
Indices: 33409341--33409460 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 43
33409331 GGTCATGTTC
*
33409341 TTTAGCGGCGCTTTTTCCAAAAATGCCG-TAATAGATT-CTGACT
1 TTTAGCGGCGCTTTTTCCAAAAACGCCGCTAAT-GATTGC-GACT
* * *
33409384 TTTAGCGGCGC-TTTTCTCACAAACGCCGCTAGTGTTTGGCGACT
1 TTTAGCGGCGCTTTTTC-CAAAAACGCCGCTAATGATT-GCGACT
* *
33409428 TTTAGCGGCGCTTTTTCGAAAAACGCCACTAAT
1 TTTAGCGGCGCTTTTTCCAAAAACGCCGCTAAT
33409461 TTTAGAATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
42 5 0.08
43 23 0.36
44 30 0.47
45 6 0.09
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTTCCAAAAACGCCGCTAATGATTGCGACT
Found at i:33421537 original size:21 final size:21
Alignment explanation
Indices: 33421513--33421643 Score: 122
Period size: 21 Copynumber: 6.3 Consensus size: 21
33421503 GTGTTTTACT
* *
33421513 TTCTGTTTAGCTCTTTTGAGC
1 TTCTGTTCAGCTCTTATGAGC
* *
33421534 TTCTGTTCAGTTCTTATAAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
33421555 TTCTGTTCAACTTTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* *
33421576 TTATGTTCAGCTCTTATGAGT
1 TTCTGTTCAGCTCTTATGAGC
* *
33421597 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTCAGCTCTTATGAGC
* * *
33421618 TTCTATTAAGCT-TT-CGAGC
1 TTCTGTTCAGCTCTTATGAGC
33421637 TTCTGTT
1 TTCTGTT
33421644 GGCGTATCTG
Statistics
Matches: 89, Mismatches: 21, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
19 10 0.11
20 1 0.01
21 78 0.88
ACGTcount: A:0.16, C:0.18, G:0.17, T:0.49
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTATGAGC
Found at i:33421890 original size:10 final size:8
Alignment explanation
Indices: 33421875--33421901 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
33421865 TGATGGCATA
33421875 TGATATAT
1 TGATATAT
33421883 TGATATAT
1 TGATATAT
33421891 TGATATAT
1 TGATATAT
33421899 TGA
1 TGA
33421902 AATGGATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (8 bp):
TGATATAT
Found at i:33423610 original size:10 final size:10
Alignment explanation
Indices: 33423595--33423682 Score: 60
Period size: 10 Copynumber: 8.9 Consensus size: 10
33423585 AATTTATGAA
33423595 TTTAATAATT
1 TTTAATAATT
* *
33423605 TTTAATTACT
1 TTTAATAATT
*
33423615 TTTAA-GA-T
1 TTTAATAATT
33423623 TTT-ATATATT
1 TTTAATA-ATT
33423633 TTT-ATAAATT
1 TTTAAT-AATT
33423643 TTTAATAATT
1 TTTAATAATT
*
33423653 TTTACA-ACTT
1 TTTA-ATAATT
*
33423663 TTTAAAAATT
1 TTTAATAATT
33423673 TTATAATAAT
1 TT-TAATAAT
33423683 ATAAGAACTT
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
7 1 0.02
8 4 0.06
9 3 0.05
10 45 0.71
11 10 0.16
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (10 bp):
TTTAATAATT
Found at i:33431540 original size:13 final size:12
Alignment explanation
Indices: 33431491--33431541 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 12
33431481 TTGCTATTGT
*
33431491 AATTTTTTAATAA
1 AATTTTTTTAT-A
33431504 AATTTAATTTTA-A
1 AATTT--TTTTATA
33431517 AATTTTTTTATA
1 AATTTTTTTATA
33431529 AATTTTGTTTATA
1 AATTTT-TTTATA
33431542 GTTTTTATGT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
11 5 0.15
12 7 0.21
13 17 0.52
15 4 0.12
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
AATTTTTTTATA
Found at i:33436392 original size:138 final size:136
Alignment explanation
Indices: 33436008--33436393 Score: 442
Period size: 141 Copynumber: 2.8 Consensus size: 136
33435998 GATAAAATCG
* * * *
33436008 CAATTATTTAACCATCTAACTAAAGGAGCTAATATATT-AAAAAT-ATT---AATTAAAAA-TTT
1 CAATTATCTAACCATCTAACCAAA-GAACTAATATATTAAAAAATAATTAAAAATTAAAAAGCTT
* * * *
33436067 GAAGCAACATGAAATAAAAAATATACAAATGGGAGTAGTAGAAGAATCGAACTCGAAACTCAAGG
65 GAAGCAACATGAAAT-AAAAA-ATACAAATGTGAGTAGAAGAGGAATCAAACTCGAAACTCAAGG
33436132 ATGTAATTA
128 ATGTAATTA
* * * * *
33436141 CAATTATCTAACCATCTAACGAAAAAACTATAAATACTAAAAAATATTAATTAAAATTTTAAAAA
1 CAATTATCTAACCATCTAACCAAAGAACTA-ATATA-TTAAAAA-A-TAATTAAAA-ATTAAAAA
* * *
33436206 GCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAAAAGAGGAATCAAACTCGAGACTCAA
61 GCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAGAAGAGGAATCAAACTCGAAACTCAA
*
33436271 GGATGTGATTA
126 GGATGTAATTA
*
33436282 CAATTATCTAACCATCTAACCAAAGAACTAATATGTTAAAACAATAATTAAAAACTTAAAAAGCT
1 CAATTATCTAACCATCTAACCAAAGAACTAATATATTAAAA-AATAATTAAAAA-TTAAAAAGCT
* * * *
33436347 TAAAGCAACATGAAATTAAAAATACAAATGTGAGTAGGAGGGGAATC
64 TGAAGCAACATGAAATAAAAAATACAAATGTGAGTAGAAGAGGAATC
33436394 GAACCCAAGA
Statistics
Matches: 212, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
132 4 0.02
133 26 0.12
134 1 0.00
135 4 0.02
136 1 0.00
137 1 0.00
138 63 0.30
139 6 0.03
140 4 0.02
141 73 0.34
142 12 0.06
143 17 0.08
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (136 bp):
CAATTATCTAACCATCTAACCAAAGAACTAATATATTAAAAAATAATTAAAAATTAAAAAGCTTG
AAGCAACATGAAATAAAAAATACAAATGTGAGTAGAAGAGGAATCAAACTCGAAACTCAAGGATG
TAATTA
Found at i:33436411 original size:138 final size:136
Alignment explanation
Indices: 33436008--33436412 Score: 430
Period size: 138 Copynumber: 2.9 Consensus size: 136
33435998 GATAAAATCG
* * * *
33436008 CAATTATTTAACCATCTAACTAAAGGAGCTAATATATT-AAAAAT-ATT---AATTAAAAA-TTT
1 CAATTATCTAACCATCTAACCAAA-GAACTAATATATTAAAAAATAATTAAAAATTAAAAAGCTT
* * * *
33436067 GAAGCAACATGAAATAAAAAATATACAAATGGGAGTAGTAGAAGAATCGAACTCGAA-ACTCAAG
65 GAAGCAACATGAAAT-AAAAA-ATACAAATGTGAGTAGAAGAGGAATCGAAC-CCAAGACTCAAG
33436131 GATGTAATTA
127 GATGTAATTA
* * * * *
33436141 CAATTATCTAACCATCTAACGAAAAAACTATAAATACTAAAAAATATTAATTAAAATTTTAAAAA
1 CAATTATCTAACCATCTAACCAAAGAACTA-ATATA-TTAAAAA-A-TAATTAAAA-ATTAAAAA
* * * * *
33436206 GCTTGAAGCAACATGAAATAAAAAATACAAATATGAGTAAAAGAGGAATCAAACTCGAGACTCAA
61 GCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAGAAGAGGAATCGAACCCAAGACTCAA
*
33436271 GGATGTGATTA
126 GGATGTAATTA
*
33436282 CAATTATCTAACCATCTAACCAAAGAACTAATATGTTAAAACAATAATTAAAAACTTAAAAAGCT
1 CAATTATCTAACCATCTAACCAAAGAACTAATATATTAAAA-AATAATTAAAAA-TTAAAAAGCT
* * * *
33436347 TAAAGCAACATGAAATTAAAAATACAAATGTGAGTAGGAGGGGAATCGAACCCAAGACAT-AAGG
64 TGAAGCAACATGAAATAAAAAATACAAATGTGAGTAGAAGAGGAATCGAACCCAAGAC-TCAAGG
33436411 AT
128 AT
33436413 AAAATACTAA
Statistics
Matches: 224, Mismatches: 33, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
132 4 0.02
133 26 0.12
134 1 0.00
135 4 0.02
136 1 0.00
137 1 0.00
138 77 0.34
139 7 0.03
140 5 0.02
141 69 0.31
142 12 0.05
143 17 0.08
ACGTcount: A:0.51, C:0.12, G:0.13, T:0.24
Consensus pattern (136 bp):
CAATTATCTAACCATCTAACCAAAGAACTAATATATTAAAAAATAATTAAAAATTAAAAAGCTTG
AAGCAACATGAAATAAAAAATACAAATGTGAGTAGAAGAGGAATCGAACCCAAGACTCAAGGATG
TAATTA
Found at i:33437015 original size:31 final size:31
Alignment explanation
Indices: 33436975--33437043 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
33436965 TTTGGGTTAG
*
33436975 GACTGAAATTTCA-AAATTCAAAAAGTACAAA
1 GACT-AAAATTCACAAATTCAAAAAGTACAAA
* * *
33437006 GACTAAAATTGACTAGTTCAAAAAGTACAAA
1 GACTAAAATTCACAAATTCAAAAAGTACAAA
33437037 GACTAAA
1 GACTAAA
33437044 TTTGTTCAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 6 0.18
31 27 0.82
ACGTcount: A:0.54, C:0.13, G:0.12, T:0.22
Consensus pattern (31 bp):
GACTAAAATTCACAAATTCAAAAAGTACAAA
Found at i:33452430 original size:3 final size:3
Alignment explanation
Indices: 33452392--33452417 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
33452382 TTCATAACAA
33452392 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
33452418 ACAACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:33457359 original size:22 final size:22
Alignment explanation
Indices: 33457331--33457373 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
33457321 ATTTCGCCTT
* *
33457331 CAATTTGGTACTTAAGGTTTTC
1 CAATTTGATACTCAAGGTTTTC
33457353 CAATTTGATACTCAAGGTTTT
1 CAATTTGATACTCAAGGTTTT
33457374 TTCCTAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (22 bp):
CAATTTGATACTCAAGGTTTTC
Found at i:33459647 original size:27 final size:26
Alignment explanation
Indices: 33459617--33459681 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 26
33459607 GCTTCATTTG
* *
33459617 TTTTTCAAAAATATTTTTTATTTTTTA
1 TTTTT-AAAAATATTTTTCATTTTCTA
33459644 TTTTTATAAAATATTTTTCATTTTCTA
1 TTTTTA-AAAATATTTTTCATTTTCTA
33459671 TTTTTAAAAAT
1 TTTTTAAAAAT
33459682 TTTAAAAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 6 0.17
27 29 0.83
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (26 bp):
TTTTTAAAAATATTTTTCATTTTCTA
Found at i:33460791 original size:21 final size:21
Alignment explanation
Indices: 33460765--33460809 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
33460755 ACAAGGAAAC
33460765 CATCATCCATCTGAAATGATG
1 CATCATCCATCTGAAATGATG
33460786 CATCATCCATCTGAAATGATG
1 CATCATCCATCTGAAATGATG
33460807 CAT
1 CAT
33460810 AGTGAGCAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.29
Consensus pattern (21 bp):
CATCATCCATCTGAAATGATG
Found at i:33483991 original size:169 final size:171
Alignment explanation
Indices: 33483709--33484034 Score: 487
Period size: 169 Copynumber: 1.9 Consensus size: 171
33483699 GGGGGAGGGC
* *
33483709 TCTCGTCATGGTATACCCTTTGAGGGTGTCAAGTTGACAATATTTCTTCATCATTTAAGTTAGTG
1 TCTCGTCATGGTATACCCCTTAAGGGTGTCAAGTTGACAATATTTCTT-ATCATTTAAGTTAGTG
* * *
33483774 ATGTGACTTGATGTGATGGAAATACGAGGCATGTGAGTATTGGATATCAGTTGTCTTACT-AGAT
65 ATGTGACTTGATGTGATGGAAATACGAGGCATATGAGTATTGGATATCAATTATCTTACTAAG-T
**
33483838 GATAATTGCAAGTTGACAAATTAGTTTAAGGGAGGAGGAGGAT
129 GATAATTGCAACCTGACAAATTAGTTTAAGGGAGGAGGAGGAT
* *
33483881 TCTCGTCATGGTATACCCCTTAAGGGTGTTAGGTTGACAATATTTC-T-TCATTTAAGTTAGTGA
1 TCTCGTCATGGTATACCCCTTAAGGGTGTCAAGTTGACAATATTTCTTATCATTTAAGTTAGTGA
** * *
33483944 TGTGACTTGATGTGATGGAGGTACGGGGCATATGAGTGTTGGATATCAATTATCTTACTAAGTGA
66 TGTGACTTGATGTGATGGAAATACGAGGCATATGAGTATTGGATATCAATTATCTTACTAAGTGA
*
33484009 TAATTGCAACCTGATAAATTAGTTTA
131 TAATTGCAACCTGACAAATTAGTTTA
33484035 GTTTGACATA
Statistics
Matches: 139, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
169 94 0.68
170 2 0.01
171 1 0.01
172 42 0.30
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.36
Consensus pattern (171 bp):
TCTCGTCATGGTATACCCCTTAAGGGTGTCAAGTTGACAATATTTCTTATCATTTAAGTTAGTGA
TGTGACTTGATGTGATGGAAATACGAGGCATATGAGTATTGGATATCAATTATCTTACTAAGTGA
TAATTGCAACCTGACAAATTAGTTTAAGGGAGGAGGAGGAT
Found at i:33486100 original size:101 final size:101
Alignment explanation
Indices: 33485925--33486115 Score: 364
Period size: 101 Copynumber: 1.9 Consensus size: 101
33485915 GGTGGTAGCT
33485925 TTGTTTTCTTTTCAATCTCTTCATGCACCTTGTTTGAGTTTTGAGAATGTAACCTGTAAAATTGT
1 TTGTTTTCTTTTCAATCTCTTCATGCACCTTGTTTGAGTTTTGAGAATGTAACCTGTAAAATTGT
33485990 TATGTCCTCATTGTTAGTAAATTGAAGAATGTAACC
66 TATGTCCTCATTGTTAGTAAATTGAAGAATGTAACC
* *
33486026 TTGTTTTCTTTTCAATCTCTTTATGCACCTTGTTTGGGTTTTGAGAATGTAACCTGTAAAATTGT
1 TTGTTTTCTTTTCAATCTCTTCATGCACCTTGTTTGAGTTTTGAGAATGTAACCTGTAAAATTGT
33486091 TATGTCCTCATTGTTAGTAAATTGA
66 TATGTCCTCATTGTTAGTAAATTGA
33486116 TTAATGCCTG
Statistics
Matches: 88, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 88 1.00
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (101 bp):
TTGTTTTCTTTTCAATCTCTTCATGCACCTTGTTTGAGTTTTGAGAATGTAACCTGTAAAATTGT
TATGTCCTCATTGTTAGTAAATTGAAGAATGTAACC
Found at i:33491179 original size:33 final size:33
Alignment explanation
Indices: 33491138--33491278 Score: 80
Period size: 33 Copynumber: 4.3 Consensus size: 33
33491128 AATAATATAT
33491138 TAAT-ATAAAAGAGAAGATTACTTTAAAAATTA
1 TAATGATAAAAGAGAAGATTACTTTAAAAATTA
* *
33491170 TAATGATAAACA-AGAAAGCATT-CTTCAAGAA-TA
1 TAATGATAAA-AGAG-AAG-ATTACTTTAAAAATTA
* *** * * ** *
33491203 TTATG--AATTTATAATATTAAAATTAATAATATA
1 TAATGATAAAAGAGAAGATT-ACTTTAAAAAT-TA
33491236 TTAAT-ATAAAAGAGAAGATTACTTTAAAAATTA
1 -TAATGATAAAAGAGAAGATTACTTTAAAAATTA
33491269 TAATGATAAA
1 TAATGATAAA
33491279 CAAGAAAGCA
Statistics
Matches: 76, Mismatches: 20, Indels: 25
0.63 0.17 0.21
Matches are distributed among these distances:
29 3 0.04
30 2 0.03
31 8 0.11
32 8 0.11
33 22 0.29
34 22 0.29
35 11 0.14
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (33 bp):
TAATGATAAAAGAGAAGATTACTTTAAAAATTA
Found at i:33491230 original size:99 final size:100
Alignment explanation
Indices: 33491109--33491318 Score: 404
Period size: 99 Copynumber: 2.1 Consensus size: 100
33491099 CTTTATTTAT
33491109 ATTTATAATATTTAAAATTAATAATATATTAATATAAAAGAGAAGATTACTTTAAAAATTATAAT
1 ATTTATAATATTTAAAATTAATAATATATTAATATAAAAGAGAAGATTACTTTAAAAATTATAAT
33491174 GATAAACAAGAAAGCATTCTTCAAGAATATTATGA
66 GATAAACAAGAAAGCATTCTTCAAGAATATTATGA
33491209 ATTTATAATA-TTAAAATTAATAATATATTAATATAAAAGAGAAGATTACTTTAAAAATTATAAT
1 ATTTATAATATTTAAAATTAATAATATATTAATATAAAAGAGAAGATTACTTTAAAAATTATAAT
33491273 GATAAACAAGAAAGCATTCTTCAAGAATATTATGA
66 GATAAACAAGAAAGCATTCTTCAAGAATATTATGA
33491308 ATTTATTAATA
1 ATTTA-TAATA
33491319 CGCATAAAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
99 94 0.86
100 15 0.14
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.36
Consensus pattern (100 bp):
ATTTATAATATTTAAAATTAATAATATATTAATATAAAAGAGAAGATTACTTTAAAAATTATAAT
GATAAACAAGAAAGCATTCTTCAAGAATATTATGA
Found at i:33492244 original size:21 final size:23
Alignment explanation
Indices: 33492202--33492244 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
33492192 TAATTAATCA
*
33492202 TAAATAGAAGCAAATCTCTTTTC
1 TAAATAGAAGCAAATATCTTTTC
*
33492225 TAAA-AGAAG-AAATATGTTTT
1 TAAATAGAAGCAAATATCTTTT
33492245 AAAAAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (23 bp):
TAAATAGAAGCAAATATCTTTTC
Found at i:33492318 original size:22 final size:20
Alignment explanation
Indices: 33492281--33492320 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
33492271 AAGAGCAGTA
*
33492281 CAAAAAAGGATAAATCAAAT
1 CAAAAAAGAATAAATCAAAT
33492301 CAAAAAAGAAATAGAATCAA
1 CAAAAAAG-AATA-AATCAA
33492321 CAATTTGTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 3 0.18
22 6 0.35
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (20 bp):
CAAAAAAGAATAAATCAAAT
Found at i:33495450 original size:18 final size:19
Alignment explanation
Indices: 33495412--33495452 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
33495402 ATCAAAACTC
33495412 GTTTCTCCAAAGTTTTAAA
1 GTTTCTCCAAAGTTTTAAA
*
33495431 GTTTCTCCAAA-TTTTCAA
1 GTTTCTCCAAAGTTTTAAA
33495449 GTTT
1 GTTT
33495453 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.27, C:0.17, G:0.10, T:0.46
Consensus pattern (19 bp):
GTTTCTCCAAAGTTTTAAA
Found at i:33497648 original size:45 final size:45
Alignment explanation
Indices: 33497579--33497681 Score: 161
Period size: 45 Copynumber: 2.3 Consensus size: 45
33497569 TAGTACCTAA
* *
33497579 GTACTCTATTCAAAGTTTACCAATGTAAACTACTTGGATTACTTGT
1 GTAC-CTATTCAAAGCTTACCAATGTAAACTACTTAGATTACTTGT
* *
33497625 GTACCTATTCAAAGCTTGCCAATGTAAATTACTTAGATTACTTGT
1 GTACCTATTCAAAGCTTACCAATGTAAACTACTTAGATTACTTGT
33497670 GTACCTATTCAA
1 GTACCTATTCAA
33497682 TGTCCCAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 49 0.92
46 4 0.08
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (45 bp):
GTACCTATTCAAAGCTTACCAATGTAAACTACTTAGATTACTTGT
Found at i:33499036 original size:57 final size:57
Alignment explanation
Indices: 33498946--33499122 Score: 223
Period size: 57 Copynumber: 3.1 Consensus size: 57
33498936 GAATTAGTGA
*
33498946 AAAATGGAGAAATGGGAAATCATTTGGAAATGATTAT-GTCTTTCTCCAAAATGAAAATG
1 AAAATGGAGAAAT-GGAAA-CATTTGAAAATGATTATGGT-TTTCTCCAAAATGAAAATG
* *
33499005 AAAATGGAGAAATAGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATA
1 AAAATGGAGAAATGGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATG
* ** * **
33499062 AAAATAGAGAAATGGAATTATTT-AGAAATGAATATGGTTTTCTATAAAATGAAAATG
1 AAAATGGAGAAATGGAAACATTTGA-AAATGATTATGGTTTTCTCCAAAATGAAAATG
33499119 AAAA
1 AAAA
33499123 ATAAATTTAT
Statistics
Matches: 105, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
56 1 0.01
57 85 0.81
58 6 0.06
59 13 0.12
ACGTcount: A:0.48, C:0.06, G:0.18, T:0.29
Consensus pattern (57 bp):
AAAATGGAGAAATGGAAACATTTGAAAATGATTATGGTTTTCTCCAAAATGAAAATG
Found at i:33500979 original size:17 final size:17
Alignment explanation
Indices: 33500957--33500997 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
33500947 GAAATAAAAC
33500957 AAAATATATTTTCATCA
1 AAAATATATTTTCATCA
33500974 AAAATATATTTTCATCA
1 AAAATATATTTTCATCA
33500991 AAAATAT
1 AAAATAT
33500998 CAAATTTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATATATTTTCATCA
Found at i:33504026 original size:43 final size:43
Alignment explanation
Indices: 33503965--33504047 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
33503955 AGTTGGAAGA
33503965 CAACTCCTTTAGTGTTCCACTTTCATGTGTTGTAGTAGCCTTC
1 CAACTCCTTTAGTGTTCCACTTTCATGTGTTGTAGTAGCCTTC
33504008 CAACTCCTTTAGTGTTCCACTTTCATGTGTTGTAGTAGCC
1 CAACTCCTTTAGTGTTCCACTTTCATGTGTTGTAGTAGCC
33504048 ATCATGAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (43 bp):
CAACTCCTTTAGTGTTCCACTTTCATGTGTTGTAGTAGCCTTC
Found at i:33520407 original size:40 final size:39
Alignment explanation
Indices: 33520349--33520432 Score: 141
Period size: 40 Copynumber: 2.1 Consensus size: 39
33520339 AATTTATTTT
*
33520349 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
*
33520388 AAAAATAATAAAAAAGTATTTTAAAATTATTTTAAAATTA
1 AAAAATAA-AAAAAAGTATTTTAAAAATATTTTAAAATTA
33520428 AAAAA
1 AAAAA
33520433 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
39 7 0.17
40 35 0.83
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAAATAAAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:33520442 original size:40 final size:39
Alignment explanation
Indices: 33520349--33520443 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 39
33520339 AATTTATTTT
*
33520349 AAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATTA
1 AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
* *
33520388 AAAAATAATAAAAAAGTATTTTAAAATTATTTTAAAATTAA
1 AAAAAT-TTAAAAAAGTATTTTAAAAATATTTTAAAATT-A
33520429 AAAAATTTTAAAAAA
1 AAAAA-TTTAAAAAA
33520444 TAAATATATT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
39 6 0.12
40 29 0.59
41 13 0.27
42 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (39 bp):
AAAAATTTAAAAAAGTATTTTAAAAATATTTTAAAATTA
Found at i:33520966 original size:19 final size:19
Alignment explanation
Indices: 33520923--33520967 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
33520913 TAATTTTTTT
33520923 AAAAAATTATTAAAAATGC
1 AAAAAATTATTAAAAATGC
* *
33520942 ACAAAATT-TTATAAAATGG
1 AAAAAATTATTA-AAAATGC
33520961 AAAAAAT
1 AAAAAAT
33520968 CCAATTTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.62, C:0.04, G:0.07, T:0.27
Consensus pattern (19 bp):
AAAAAATTATTAAAAATGC
Found at i:33521090 original size:15 final size:15
Alignment explanation
Indices: 33521053--33521092 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
33521043 CCCTTTTCCC
33521053 TTTTCTTT-TTTTTA
1 TTTTCTTTCTTTTTA
33521067 TTTAT-TTTCTTTTTA
1 TTT-TCTTTCTTTTTA
33521082 TTTTCTTTCTT
1 TTTTCTTTCTT
33521093 CACATTTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.07, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTCTTTTTA
Found at i:33521151 original size:27 final size:26
Alignment explanation
Indices: 33521121--33521173 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
33521111 TCTAGTTATA
*
33521121 CTTT-TTTCCATTTTCATTTTCATTTTC
1 CTTTCTTTCC-TTTT-ATTTTAATTTTC
33521148 CTTTCGTTTCCTTTTATTTTAATTTT
1 CTTTC-TTTCCTTTTATTTTAATTTT
33521174 TTTCCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
27 14 0.61
28 4 0.17
29 5 0.22
ACGTcount: A:0.11, C:0.19, G:0.02, T:0.68
Consensus pattern (26 bp):
CTTTCTTTCCTTTTATTTTAATTTTC
Found at i:33524059 original size:21 final size:22
Alignment explanation
Indices: 33524035--33524076 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
33524025 TTTAAAATTT
33524035 TAATTAAT-ATTTTTTTAAAAA
1 TAATTAATAATTTTTTTAAAAA
*
33524056 TAATTATTCAATTTTTTTAAA
1 TAATTAAT-AATTTTTTTAAA
33524077 GGTTGATGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 7 0.39
23 11 0.61
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATTAATAATTTTTTTAAAAA
Found at i:33524121 original size:6 final size:7
Alignment explanation
Indices: 33524094--33524120 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33524084 GGATTTATCT
33524094 TAAAAAA
1 TAAAAAA
33524101 TAAAAAA
1 TAAAAAA
33524108 TAAAAAA
1 TAAAAAA
33524115 TAAAAA
1 TAAAAA
33524121 TGACCAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:33524344 original size:6 final size:7
Alignment explanation
Indices: 33524317--33524343 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33524307 GGATTTATCT
33524317 TAAAAAA
1 TAAAAAA
33524324 TAAAAAA
1 TAAAAAA
33524331 TAAAAAA
1 TAAAAAA
33524338 TAAAAA
1 TAAAAA
33524344 TGACCAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:33524433 original size:223 final size:224
Alignment explanation
Indices: 33524036--33524484 Score: 891
Period size: 223 Copynumber: 2.0 Consensus size: 224
33524026 TTAAAATTTT
33524036 AATTAATATTTTTTTAAAAATAATTATTCAATTTTTTTAAAGGTTGATGGATTTATCTTAAAAAA
1 AATTAATATTTTTTTAAAAATAATTATTCAATTTTTTTAAAGGTTGATGGATTTATCTTAAAAAA
33524101 TAAAAAATAAAAAATAAAAATGACCAAAGAGTCAAATTTGTGATTATGCGTTTATGAATCATGAT
66 TAAAAAATAAAAAATAAAAATGACCAAAGAGTCAAATTTGTGATTATGCGTTTATGAATCATGAT
33524166 TGGATTTGTTTTGTTTCATCTGTAGCACCAGCTTTCCAATCGCGAAACCTAGGTTTTGTGAGATA
131 TGGATTTGTTTTGTTTCATCTGTAGCACCAGCTTTCCAATCGCGAAACCTAGGTTTTGTGAGATA
33524231 CTAAAGGAAAACAAAAGAATGGCGTGGAG
196 CTAAAGGAAAACAAAAGAATGGCGTGGAG
33524260 AATTAATA-TTTTTTAAAAATAATTATTCAATTTTTTTAAAGGTTGATGGATTTATCTTAAAAAA
1 AATTAATATTTTTTTAAAAATAATTATTCAATTTTTTTAAAGGTTGATGGATTTATCTTAAAAAA
33524324 TAAAAAATAAAAAATAAAAATGACCAAAGAGTCAAATTTGTGATTATGCGTTTATGAATCATGAT
66 TAAAAAATAAAAAATAAAAATGACCAAAGAGTCAAATTTGTGATTATGCGTTTATGAATCATGAT
33524389 TGGATTTGTTTTGTTTCATCTGTAGCACCAGCTTTCCAATCGCGAAACCTAGGTTTTGTGAGATA
131 TGGATTTGTTTTGTTTCATCTGTAGCACCAGCTTTCCAATCGCGAAACCTAGGTTTTGTGAGATA
33524454 CTAAAGGAAAACAAAAGAATGGCGTGGAG
196 CTAAAGGAAAACAAAAGAATGGCGTGGAG
33524483 AA
1 AA
33524485 GCCAATTATC
Statistics
Matches: 225, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
223 217 0.96
224 8 0.04
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (224 bp):
AATTAATATTTTTTTAAAAATAATTATTCAATTTTTTTAAAGGTTGATGGATTTATCTTAAAAAA
TAAAAAATAAAAAATAAAAATGACCAAAGAGTCAAATTTGTGATTATGCGTTTATGAATCATGAT
TGGATTTGTTTTGTTTCATCTGTAGCACCAGCTTTCCAATCGCGAAACCTAGGTTTTGTGAGATA
CTAAAGGAAAACAAAAGAATGGCGTGGAG
Found at i:33532630 original size:62 final size:62
Alignment explanation
Indices: 33532548--33532671 Score: 185
Period size: 62 Copynumber: 2.0 Consensus size: 62
33532538 GCATGGTATT
* * * * * **
33532548 ACTTGATCTCATTTATAATCTTTCTTGATGTAGCGCTTTCGTTTTATGAATTTGTGCTTCAA
1 ACTTGATCTCACTTACAATCTTTCTTGATGAAGCGCTCTCGCTTTATGAATTTAAGCTTCAA
33532610 ACTTGATCTCACTTACAATCTTTCTTGATGAAGCGCTCTCGCTTTATGAATTTAAGCTTCAA
1 ACTTGATCTCACTTACAATCTTTCTTGATGAAGCGCTCTCGCTTTATGAATTTAAGCTTCAA
33532672 GAGGCCTCTT
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (62 bp):
ACTTGATCTCACTTACAATCTTTCTTGATGAAGCGCTCTCGCTTTATGAATTTAAGCTTCAA
Found at i:33533563 original size:16 final size:15
Alignment explanation
Indices: 33533527--33533562 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
33533517 CAAAATCAAG
33533527 ATTTTTACAACATCC
1 ATTTTTACAACATCC
* *
33533542 ATTTTTACAATATTC
1 ATTTTTACAACATCC
33533557 ATTTTT
1 ATTTTT
33533563 TTCTTTATGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTACAACATCC
Found at i:33533851 original size:18 final size:18
Alignment explanation
Indices: 33533828--33533863 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33533818 TGATAAATAA
* *
33533828 ATAATTATAATTCATTTT
1 ATAATTAAAATTAATTTT
33533846 ATAATTAAAATTAATTTT
1 ATAATTAAAATTAATTTT
33533864 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAATTAAAATTAATTTT
Found at i:33534278 original size:20 final size:20
Alignment explanation
Indices: 33534253--33534292 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
33534243 CGTAAAATGA
*
33534253 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
33534273 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
33534293 GGAAAGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:33535046 original size:15 final size:16
Alignment explanation
Indices: 33535026--33535058 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
33535016 AGTACCACTT
33535026 AAAATGAAAGCA-TGA
1 AAAATGAAAGCATTGA
33535041 AAAATGAAAGCATTGA
1 AAAATGAAAGCATTGA
33535057 AA
1 AA
33535059 GTACCACTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.18, T:0.15
Consensus pattern (16 bp):
AAAATGAAAGCATTGA
Found at i:33537565 original size:25 final size:27
Alignment explanation
Indices: 33537510--33537577 Score: 97
Period size: 25 Copynumber: 2.6 Consensus size: 27
33537500 AAGCTTTGAG
33537510 GAATGGAAAATGTCTGCTGCTTAGAAGA
1 GAATGGAAAATGTCT-CTGCTTAGAAGA
33537538 GAATGGAAAATGT-T-TGCTTAG-AGAA
1 GAATGGAAAATGTCTCTGCTTAGAAG-A
33537563 GAATGGAAAATGTCT
1 GAATGGAAAATGTCT
33537578 TATCAATTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
24 2 0.05
25 21 0.55
26 1 0.03
27 1 0.03
28 13 0.34
ACGTcount: A:0.38, C:0.07, G:0.28, T:0.26
Consensus pattern (27 bp):
GAATGGAAAATGTCTCTGCTTAGAAGA
Found at i:33537860 original size:52 final size:52
Alignment explanation
Indices: 33537798--33537901 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
33537788 AAATTTTGTG
* * *
33537798 TTTCTAAAAAATAAGTAATTTAGTATTTATCAATTTGGAGGGTGAGTATATA
1 TTTCTAAAAAATAAGCAATTTAGCATTTATCAATTTCGAGGGTGAGTATATA
33537850 TTTCTAAAAAATAAGCAATTTAGCATTTATCAATTTCGAGGGTGAGTATATA
1 TTTCTAAAAAATAAGCAATTTAGCATTTATCAATTTCGAGGGTGAGTATATA
33537902 AAGGCAATTA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.16, T:0.38
Consensus pattern (52 bp):
TTTCTAAAAAATAAGCAATTTAGCATTTATCAATTTCGAGGGTGAGTATATA
Found at i:33541736 original size:21 final size:21
Alignment explanation
Indices: 33541712--33541754 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
33541702 AAAGTAATTT
33541712 AGTACAATACATTTCTCATCA
1 AGTACAATACATTTCTCATCA
*
33541733 AGTACAATACCTTTCTCATCA
1 AGTACAATACATTTCTCATCA
33541754 A
1 A
33541755 CAACCAACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (21 bp):
AGTACAATACATTTCTCATCA
Found at i:33548668 original size:42 final size:38
Alignment explanation
Indices: 33548570--33548657 Score: 176
Period size: 38 Copynumber: 2.3 Consensus size: 38
33548560 CTAGTCTACA
33548570 TATGTGGTGTGTAGGGATGGATGGGTCTTTCAAGGTCC
1 TATGTGGTGTGTAGGGATGGATGGGTCTTTCAAGGTCC
33548608 TATGTGGTGTGTAGGGATGGATGGGTCTTTCAAGGTCC
1 TATGTGGTGTGTAGGGATGGATGGGTCTTTCAAGGTCC
33548646 TATGTGGTGTGT
1 TATGTGGTGTGT
33548658 TTGGTTGGAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.15, C:0.09, G:0.40, T:0.36
Consensus pattern (38 bp):
TATGTGGTGTGTAGGGATGGATGGGTCTTTCAAGGTCC
Found at i:33553223 original size:25 final size:25
Alignment explanation
Indices: 33553174--33553224 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
33553164 AGAAATATAG
* *
33553174 TTTTCTCTTCCATTTTCATCCCTTA
1 TTTTCTCCTCCATTTTCATACCTTA
* *
33553199 TTTTCTCCTCCTTTTTCATAGCTTA
1 TTTTCTCCTCCATTTTCATACCTTA
33553224 T
1 T
33553225 AACTATAGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.29, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTCTCCTCCATTTTCATACCTTA
Done.