Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 179 of 222
Found at i:57231168 original size:15 final size:14
Alignment explanation
Indices: 57231137--57231167 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57231127 GGACTTAGAC
*
57231137 TTTGTTTTATTATT
1 TTTGGTTTATTATT
57231151 TTTGGTTTATTATT
1 TTTGGTTTATTATT
57231165 TTT
1 TTT
57231168 TTATGAGCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.00, G:0.10, T:0.77
Consensus pattern (14 bp):
TTTGGTTTATTATT
Found at i:57234114 original size:25 final size:25
Alignment explanation
Indices: 57234086--57234248 Score: 106
Period size: 24 Copynumber: 6.6 Consensus size: 25
57234076 ATCCGGGCAA
57234086 TATAACGGGAAGCTCACAAAGAGCC
1 TATAACGGGAAGCTCACAAAGAGCC
*
57234111 TATAACGGGTAGCTC-CAAAGAG-C
1 TATAACGGGAAGCTCACAAAGAGCC
* * ** *
57234134 AATTAACGGGAAGCAC-CGGATAGCC
1 TA-TAACGGGAAGCTCACAAAGAGCC
* * **
57234159 ATATAATGGGAAGTTCA-AGCGAG-C
1 -TATAACGGGAAGCTCACAAAGAGCC
*
57234183 -ACTAACAGGAAGCTCACAAAGAGCC
1 TA-TAACGGGAAGCTCACAAAGAGCC
* * *
57234208 TTTAATCGGAAAGCTCACAAAGAGTC
1 TATAA-CGGGAAGCTCACAAAGAGCC
*
57234234 -ATAACGGGATGCTCA
1 TATAACGGGAAGCTCA
57234249 TAAGAGCTGC
Statistics
Matches: 103, Mismatches: 26, Indels: 19
0.70 0.18 0.13
Matches are distributed among these distances:
22 1 0.01
23 13 0.13
24 36 0.35
25 35 0.34
26 18 0.17
ACGTcount: A:0.38, C:0.21, G:0.25, T:0.16
Consensus pattern (25 bp):
TATAACGGGAAGCTCACAAAGAGCC
Found at i:57241432 original size:19 final size:20
Alignment explanation
Indices: 57241395--57241433 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
57241385 GTAATTTTTG
* *
57241395 GAAAAATTAATTTTGATCAA
1 GAAAAATTAATATTAATCAA
57241415 GAAAAATTAA-ATTAATCAA
1 GAAAAATTAATATTAATCAA
57241434 ATCAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.05, G:0.08, T:0.31
Consensus pattern (20 bp):
GAAAAATTAATATTAATCAA
Found at i:57241935 original size:20 final size:20
Alignment explanation
Indices: 57241906--57241944 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57241896 ATAATATTTT
*
57241906 ATTATTTTAATACTAAATTG
1 ATTATATTAATACTAAATTG
*
57241926 ATTATATTAATATTAAATT
1 ATTATATTAATACTAAATT
57241945 AAATTTAATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.51
Consensus pattern (20 bp):
ATTATATTAATACTAAATTG
Found at i:57244955 original size:20 final size:20
Alignment explanation
Indices: 57244917--57244956 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
57244907 TCTTTCTTTC
*
57244917 TTCTTTTATTTACTTAATTA
1 TTCTTTTATTTACTAAATTA
*
57244937 TTCTTTTATTTGCTAAATTA
1 TTCTTTTATTTACTAAATTA
57244957 CTACTTTGGC
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:0.25, C:0.10, G:0.03, T:0.62
Consensus pattern (20 bp):
TTCTTTTATTTACTAAATTA
Found at i:57247255 original size:13 final size:12
Alignment explanation
Indices: 57247232--57247266 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
57247222 ATTATTTGTG
57247232 AAAATATAAAAAT
1 AAAA-ATAAAAAT
57247245 ATAAAATAAAAAT
1 A-AAAATAAAAAT
57247258 AAAAATAAA
1 AAAAATAAA
57247267 TTTAATATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 8 0.38
13 10 0.48
14 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:57247258 original size:6 final size:6
Alignment explanation
Indices: 57247232--57247266 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
57247222 ATTATTTGTG
57247232 AAAATAT AAAAAT ATAAAAT AAAAAT AAAAAT AAA
1 AAAA-AT AAAAAT A-AAAAT AAAAAT AAAAAT AAA
57247267 TTTAATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.63
7 10 0.37
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:57248599 original size:23 final size:23
Alignment explanation
Indices: 57248573--57248616 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57248563 TAAGCTCCAC
*
57248573 CGATTTCGATCGTCGGCGATCGG
1 CGATTGCGATCGTCGGCGATCGG
* *
57248596 CGATTGGGATCGTTGGCGATC
1 CGATTGCGATCGTCGGCGATC
57248617 AAGCGGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.14, C:0.23, G:0.36, T:0.27
Consensus pattern (23 bp):
CGATTGCGATCGTCGGCGATCGG
Found at i:57254520 original size:14 final size:14
Alignment explanation
Indices: 57254494--57254533 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
57254484 AGTTGTGCCG
57254494 TTTTTATTT-TTTA
1 TTTTTATTTATTTA
57254507 TTTTTATTTATTTA
1 TTTTTATTTATTTA
**
57254521 TTTACATTTATTT
1 TTTTTATTTATTT
57254534 TAAAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:57267745 original size:24 final size:24
Alignment explanation
Indices: 57267713--57267767 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
57267703 TCCCAAAATC
57267713 ACAGTGGATTGAACCTTGAAGATT
1 ACAGTGGATTGAACCTTGAAGATT
*
57267737 ACAGTGGATTGAGCCTTGAAGATT
1 ACAGTGGATTGAACCTTGAAGATT
57267761 ACAGTGG
1 ACAGTGG
57267768 GGGCAATCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (24 bp):
ACAGTGGATTGAACCTTGAAGATT
Found at i:57268188 original size:51 final size:50
Alignment explanation
Indices: 57268112--57268566 Score: 415
Period size: 51 Copynumber: 9.2 Consensus size: 50
57268102 GCATCACAGT
* * *
57268112 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAATGGAAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGG-AC
** * * **
57268163 AGATTAAAGCTGAAGGCAGAAAATCTTTTTTCCCTGGCGTTACAGT----
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
* * * *
57268209 ATATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCCTTAGCGTTGCAGTAGGAC
1 AGATTAAAGCTGAAGGCAGCGAATC--TTATTTCCCTAGCGTTGTAGT-GGAC
* *
57268262 AGATTAAAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGTAGT----
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
*
57268307 AGATTAAAGCTGAAGGCAGCGAATCTTACTTT-CCTAGCGTCGCT-GTGGAAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTA-TTTCCCTAGCGTTG-TAGTGG-AC
* *
57268358 AGATTAATGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGT-GGAC
* * *
57268409 AGATTAAAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGCAGT----
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
* * * * *
57268454 AGATTAAAGTTGAAGGCAGCGAATCTTACTGT-CTTAGCATCGCT-GTGGAAC
1 AGATTAAAGCTGAAGGCAGCGAATCTTA-TTTCCCTAGCGTTG-TAGTGG-AC
* * *
57268505 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTAGTGTTGTAGTGGAAT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGG-AC
57268556 AGATTAAAGCT
1 AGATTAAAGCT
57268567 ACAAGTTACG
Statistics
Matches: 335, Mismatches: 41, Indels: 56
0.78 0.09 0.13
Matches are distributed among these distances:
45 53 0.16
46 40 0.12
47 6 0.02
48 18 0.05
50 38 0.11
51 155 0.46
52 2 0.01
53 23 0.07
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGTAGTGGAC
Found at i:57268215 original size:97 final size:97
Alignment explanation
Indices: 57268058--57268566 Score: 475
Period size: 97 Copynumber: 5.2 Consensus size: 97
57268048 CTGGCGTGGC
* ** * *
57268058 AGTGGAACAGATTAAAGCTGAAGGTAGCGAATCTTATTTCATTGGCATCACAGTAGATTAAAGCT
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGCT
*
57268123 GAAGGCAGCGAATCTTATTTCCTTGGCGTTGT
66 GAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
* ** * *
57268155 AATGGAACAGATTAAAGCTGAAGGCAGAAAATCTTTTTTCCCTGGCGTTACAGTATATTAAAGCT
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGCT
* *
57268220 GAAGGCAGCGAATCTTTTTTTTCCTTAGCGTTGC
66 GAAGGCAGCGAATC--TTATTTCCTTAGCGTTGT
* **
57268254 AGTAGG-ACAGATTAAAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGTAGTAGATTAAAGC
1 AGT-GGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGC
*
57268317 TGAAGGCAGCGAATCTTACTTTCC-TAGCGTCGCT
65 TGAAGGCAGCGAATCTTA-TTTCCTTAGCGTTG-T
* * *
57268351 -GTGGAACAGATTAATGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTA
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGT-----AGATTA
* * * *
57268415 AAGTTGAAGGCAGCGAATCTT-TTTCCCTGGCGTTGC
61 AAGCTGAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
* * * * * *
57268451 AGT-----AGATTAAAGTTGAAGGCAGCGAATCTTACTGTCTTAGCATCGCTGTGGA-A-CAGAT
1 AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA---T-TT-CCCTGGC-GT-TACAGTAGAT
* * *
57268509 TAAAGCTGAAGGCAGCGAATCTAATTTCCCTAGTGTTGT
59 TAAAGCTGAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
*
57268548 AGTGGAATAGATTAAAGCT
1 AGTGGAACAGATTAAAGCT
57268567 ACAAGTTACG
Statistics
Matches: 340, Mismatches: 45, Indels: 49
0.78 0.10 0.11
Matches are distributed among these distances:
95 2 0.01
96 89 0.26
97 105 0.31
98 40 0.12
99 44 0.13
100 9 0.03
101 12 0.04
102 39 0.11
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (97 bp):
AGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTTACAGTAGATTAAAGCT
GAAGGCAGCGAATCTTATTTCCTTAGCGTTGT
Found at i:57268426 original size:147 final size:147
Alignment explanation
Indices: 57268211--57268564 Score: 564
Period size: 147 Copynumber: 2.4 Consensus size: 147
57268201 GTTACAGTAT
* * *
57268211 ATTAAAGCTGAAGGCAGCGAATCTTTTTTTTCCTTAGCGTTGCAGTAGGACAGATTAAAGTTGAA
1 ATTAAAGCTGAAGGCAGCGAATC--TTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAA
* *
57268276 GGCAGCGAATCTTTTTCCCTGGCGTTGTAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTTTCC
64 GGCAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTGTCC
*
57268341 TAGCGTCGCTGTGGAACAG
129 TAGCATCGCTGTGGAACAG
*
57268360 ATTAATGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAAGG
1 ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAAGG
* *
57268425 CAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGTTGAAGGCAGCGAATCTTACTGTCTTA
66 CAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTGTCCTA
57268490 GCATCGCTGTGGAACAG
131 GCATCGCTGTGGAACAG
* * * * *
57268507 ATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTAGTGTTGTAGTGGAATAGATTAAAG
1 ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAG
57268565 CTACAAGTTA
Statistics
Matches: 190, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
147 168 0.88
149 22 0.12
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (147 bp):
ATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGACAGATTAAAGTTGAAGG
CAGCGAATCTTTTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTACTGTCCTA
GCATCGCTGTGGAACAG
Found at i:57268507 original size:96 final size:97
Alignment explanation
Indices: 57268307--57268539 Score: 256
Period size: 96 Copynumber: 2.4 Consensus size: 97
57268297 GCGTTGTAGT
* * ** *
57268307 AGATTAAAGCTGAAGGCAGCGAATCTTACTTT-CCTAGCGTCGCTGTGGAACAGATTAATGCTGA
1 AGATTAAAGCTGAAGGCAGCGAATC-TAATTTCCCT-G-G-CG-T-TGCAGTAGATTAAAGCTGA
* * * *
57268371 AGGCAGCGAATCTTATTTCCCTAGCGTTGCAGTGGGAC
60 AGGCAGCGAATCTTATGTCCCTAGCATCGCAGTGGAAC
* * *
57268409 AGATTAAAGTTGAAGGCAGCGAATCT-TTTTCCCTGGCGTTGCAGTAGATTAAAGTTGAAGGCAG
1 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAG
* *
57268473 CGAATCTTACTGT-CTTAGCATCGCTGTGGAAC
66 CGAATCTTA-TGTCCCTAGCATCGCAGTGGAAC
57268505 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCT
1 AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCT
57268540 AGTGTTGTAG
Statistics
Matches: 113, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
96 68 0.60
97 10 0.09
98 2 0.02
99 1 0.01
100 4 0.04
101 4 0.04
102 24 0.21
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (97 bp):
AGATTAAAGCTGAAGGCAGCGAATCTAATTTCCCTGGCGTTGCAGTAGATTAAAGCTGAAGGCAG
CGAATCTTATGTCCCTAGCATCGCAGTGGAAC
Found at i:57273682 original size:47 final size:47
Alignment explanation
Indices: 57273622--57273713 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
57273612 CACAAAAGAC
*
57273622 AAAAAAAAGGAAGCAATGT-GAAAGCAACCACAACCAAGAAAAGATTA
1 AAAAAAAAGGAAGCAACGTAG-AAGCAACCACAACCAAGAAAAGATTA
* *
57273669 AAAAAAAAGGAAGCAACGTAGAAGCAACCACAATCAAGACAAGAT
1 AAAAAAAAGGAAGCAACGTAGAAGCAACCACAACCAAGAAAAGAT
57273714 GTCATCATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.59, C:0.16, G:0.17, T:0.08
Consensus pattern (47 bp):
AAAAAAAAGGAAGCAACGTAGAAGCAACCACAACCAAGAAAAGATTA
Found at i:57275129 original size:71 final size:71
Alignment explanation
Indices: 57275005--57275148 Score: 189
Period size: 71 Copynumber: 2.0 Consensus size: 71
57274995 AGTGAATGTT
** * *
57275005 TAACCATGGAGAATAGCATTTCTAAGTGGACTTTAACATCGAACGCATGCCTTCTTCCTTAACCT
1 TAACCATGGAGAATAGCATTTCTAAGCAGACTCTAACATCGAACGCATACCTTCTTCCTTAACCT
57275070 CGGGTG
66 CGGGTG
* * * * * *
57275076 TAACCATGGCGGATAGCATTTTTAGGCAGACTCTAACATCGGATGCATACCTTCTTCCTTAACCT
1 TAACCATGGAGAATAGCATTTCTAAGCAGACTCTAACATCGAACGCATACCTTCTTCCTTAACCT
*
57275141 TGGGTG
66 CGGGTG
57275147 TA
1 TA
57275149 TACTTCCATC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (71 bp):
TAACCATGGAGAATAGCATTTCTAAGCAGACTCTAACATCGAACGCATACCTTCTTCCTTAACCT
CGGGTG
Found at i:57275458 original size:48 final size:48
Alignment explanation
Indices: 57275384--57275522 Score: 217
Period size: 48 Copynumber: 2.9 Consensus size: 48
57275374 ATCAGCAATT
* *
57275384 ATACATAACATATAACACATATAGAGTTCTACTAACTTACTCTTTTTG
1 ATACATATCATATATCACATATAGAGTTCTACTAACTTACTCTTTTTG
* * *
57275432 ATACATATCATATATCACATACAGAGTCCTATTAACTTACTCTTTTTG
1 ATACATATCATATATCACATATAGAGTTCTACTAACTTACTCTTTTTG
57275480 ATACATATCATATATCACATATAGAG-TCATACTAACTTACTCT
1 ATACATATCATATATCACATATAGAGTTC-TACTAACTTACTCT
57275523 ATTCAAATTC
Statistics
Matches: 82, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 81 0.99
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (48 bp):
ATACATATCATATATCACATATAGAGTTCTACTAACTTACTCTTTTTG
Found at i:57275854 original size:49 final size:48
Alignment explanation
Indices: 57275774--57275897 Score: 126
Period size: 49 Copynumber: 2.5 Consensus size: 48
57275764 GGCTATCAAC
* * * * *
57275774 CTAGTTAACAACTAACATATCC-TACTAGTGGCCCAAT-AGACATGCCAAT
1 CTAGTTAGCAACTAACAT-GCCTTACCAGTGGCCC-ATCACAC-TACCAAT
* *
57275823 CTGGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACATCTACCATT
1 CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACA-CTACCAAT
*
57275872 CTAGTTTGCAACTAACATGCCTTACC
1 CTAGTTAGCAACTAACATGCCTTACC
57275898 GGTGACTCTT
Statistics
Matches: 63, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
48 4 0.06
49 58 0.92
50 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.13, T:0.27
Consensus pattern (48 bp):
CTAGTTAGCAACTAACATGCCTTACCAGTGGCCCATCACACTACCAAT
Found at i:57282790 original size:3 final size:3
Alignment explanation
Indices: 57282782--57282820 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
57282772 CTGTTGAACA
57282782 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57282821 CATTTATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57289617 original size:23 final size:23
Alignment explanation
Indices: 57289583--57289633 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
57289573 TATATATTTT
57289583 TTAT-ATTTTTATA-ATTTATAAA
1 TTATAATTTTTATATATTTA-AAA
57289605 TTATAATTTTTATATATTTAAAA
1 TTATAATTTTTATATATTTAAAA
*
57289628 TAATAA
1 TTATAA
57289634 CCTAAAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 4 0.15
23 17 0.65
24 5 0.19
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATAATTTTTATATATTTAAAA
Found at i:57293544 original size:22 final size:19
Alignment explanation
Indices: 57293504--57293544 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 19
57293494 TTAATTAAGA
57293504 AATTAATTAAATTTATTTT
1 AATTAATTAAATTTATTTT
57293523 AATTAATATATAATATTATTTT
1 AATTAAT-TA-AAT-TTATTTT
57293545 TGGGAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 2 0.11
21 3 0.16
22 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
AATTAATTAAATTTATTTT
Found at i:57300986 original size:49 final size:47
Alignment explanation
Indices: 57300926--57301427 Score: 788
Period size: 47 Copynumber: 10.6 Consensus size: 47
57300916 GATAATTGTG
* *
57300926 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57300973 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
57301020 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
57301067 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57301116 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
57301165 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
57301212 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57301261 ATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57301308 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
57301355 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57301402 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
57301428 TCCCGAAGGG
Statistics
Matches: 423, Mismatches: 28, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
47 285 0.67
49 138 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:57301033 original size:96 final size:96
Alignment explanation
Indices: 57300926--57301427 Score: 795
Period size: 96 Copynumber: 5.3 Consensus size: 96
57300916 GATAATTGTG
57300926 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
57300989 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
57301020 ATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
57301083 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57301116 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* *
57301181 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
57301212 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
*
57301277 ATGTGATAAGGCCTAATAGCCGATGTGATGA
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
57301308 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * * * * *
57301371 ATGTGACAGGGCCGAGTGGCCAACGTGATGG
66 ATGTGATAAGGCCTAATGGCCGATGTGATGA
57301402 ATGTGAAAGTGTATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
57301428 TCCCGAAGGG
Statistics
Matches: 378, Mismatches: 22, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
94 144 0.38
95 3 0.01
96 187 0.49
98 44 0.12
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:57310323 original size:28 final size:28
Alignment explanation
Indices: 57310260--57310330 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
57310250 ATCTTGTCCA
*
57310260 ATGGACTTA-CCCGAGTTTATTGTCCCG
1 ATGGACTTATCTCGAGTTTATTGTCCCG
* * * **
57310287 ACGGGCTTATCTCGTGTTTATTGTCTTG
1 ATGGACTTATCTCGAGTTTATTGTCCCG
57310315 ATGGACTTAATCTCGA
1 ATGGACTT-ATCTCGA
57310331 TTCCATGTTT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
27 7 0.21
28 20 0.61
29 6 0.18
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (28 bp):
ATGGACTTATCTCGAGTTTATTGTCCCG
Found at i:57314528 original size:38 final size:38
Alignment explanation
Indices: 57314486--57314560 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
57314476 GACATGGGAG
57314486 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
1 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
57314524 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCC
1 ACAATCTGATCTACATTATGGAACAAAATGGGTGGCC
57314561 TACACCAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (38 bp):
ACAATCTGATCTACATTATGGAACAAAATGGGTGGCCC
Found at i:57316593 original size:18 final size:18
Alignment explanation
Indices: 57316570--57316604 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57316560 TCAATTTTTA
57316570 AGTAAAGTATTATATTTG
1 AGTAAAGTATTATATTTG
* *
57316588 AGTAAATTATTCTATTT
1 AGTAAAGTATTATATTT
57316605 CTATTTACCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (18 bp):
AGTAAAGTATTATATTTG
Found at i:57330132 original size:25 final size:25
Alignment explanation
Indices: 57330092--57330142 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
57330082 GTTTTCGATT
*
57330092 TTGTATTTCATTTATTATTGGTGTA
1 TTGTATTTCATATATTATTGGTGTA
* *
57330117 TTGTATTTGATATATTTTTGGTGTA
1 TTGTATTTCATATATTATTGGTGTA
57330142 T
1 T
57330143 AAAGTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.20, C:0.02, G:0.18, T:0.61
Consensus pattern (25 bp):
TTGTATTTCATATATTATTGGTGTA
Found at i:57342966 original size:71 final size:72
Alignment explanation
Indices: 57342814--57343037 Score: 276
Period size: 72 Copynumber: 3.1 Consensus size: 72
57342804 AACTCTTCTC
* * * * *
57342814 CCAAAAATACTAAACTGTTTTATTCACACACAAAA-AATATTATAAAAATAAAAATGTTATTTTA
1 CCAAAAATACTAAATTGCTTTATTCACA-A-AAAATATTATTATAAAAATAAAATTATTATTTTA
57342878 TTATACATA
64 TTATACATA
*
57342887 CCAAAAATAAC-AAATTGCTTTATTCACAAAAAATATTATTATAAAAATAAAATTATT-TTTTGT
1 CCAAAAAT-ACTAAATTGCTTTATTCACAAAAAATATTATTATAAAAATAAAATTATTATTTTAT
57342950 TATACATA
65 TATACATA
* * *
57342958 CCACAAATACTAAATTGTTTTATT-AAAAAAACATTATTATTATAAAAATAAAATTATTATTTTA
1 CCAAAAATACTAAATTGCTTTATTCACAAAAA-A-TATTATTATAAAAATAAAATTATTATTTTA
*
57343022 CTATACATA
64 TTATACATA
*
57343031 CAAAAAA
1 CCAAAAA
57343038 ATCAACATAT
Statistics
Matches: 132, Mismatches: 13, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
70 8 0.06
71 37 0.28
72 45 0.34
73 40 0.30
74 2 0.02
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.36
Consensus pattern (72 bp):
CCAAAAATACTAAATTGCTTTATTCACAAAAAATATTATTATAAAAATAAAATTATTATTTTATT
ATACATA
Found at i:57343005 original size:20 final size:20
Alignment explanation
Indices: 57342981--57343018 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
57342971 ATTGTTTTAT
*
57342981 TAAAAA-AACATTATTATTA
1 TAAAAATAAAATTATTATTA
57343000 TAAAAATAAAATTATTATT
1 TAAAAATAAAATTATTATT
57343019 TTACTATACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (20 bp):
TAAAAATAAAATTATTATTA
Found at i:57343918 original size:21 final size:22
Alignment explanation
Indices: 57343874--57343932 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 22
57343864 TTTTATTTGA
*
57343874 AAATAA-AAAGTACATTTGAATT
1 AAATAATAAAGT-TATTTGAATT
57343896 AAATAATAAAGTTATTT-AATT
1 AAATAATAAAGTTATTTGAATT
*
57343917 AAA-AATTAAAGCTATT
1 AAATAA-TAAAGTTATT
57343933 CTGTATTTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
20 2 0.06
21 16 0.48
22 10 0.30
23 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.07, T:0.36
Consensus pattern (22 bp):
AAATAATAAAGTTATTTGAATT
Found at i:57346484 original size:18 final size:17
Alignment explanation
Indices: 57346463--57346515 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
57346453 TGAATCACTG
57346463 AATTTTTAAAATATATCA
1 AATTTTTAAAATATAT-A
*
57346481 AATTTTTGAAGAATACATA
1 AATTTTT-AA-AATATATA
* *
57346500 AATTTATAATATATAT
1 AATTTTTAAAATATAT
57346516 TTTTATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.17
18 9 0.31
19 9 0.31
20 6 0.21
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (17 bp):
AATTTTTAAAATATATA
Found at i:57346502 original size:19 final size:18
Alignment explanation
Indices: 57346463--57346504 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
57346453 TGAATCACTG
*
57346463 AATTTTTAAAATATATCA
1 AATTTTTAAAATACATCA
57346481 AATTTTTGAAGAATACAT-A
1 AATTTTT-AA-AATACATCA
57346500 AATTT
1 AATTT
57346505 ATAATATATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 8 0.38
20 6 0.29
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AATTTTTAAAATACATCA
Found at i:57350913 original size:21 final size:25
Alignment explanation
Indices: 57350889--57350943 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 25
57350879 AATATATATA
57350889 TAAAATAATACAT-TAT-G-AAA-T
1 TAAAATAATACATATATGGAAAACT
57350910 T-AAATAATA-ATATATGGAAAACT
1 TAAAATAATACATATATGGAAAACT
57350933 TAAAATAATAC
1 TAAAATAATAC
57350944 TACATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 2 0.07
20 11 0.39
21 2 0.07
22 3 0.11
23 2 0.07
24 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.31
Consensus pattern (25 bp):
TAAAATAATACATATATGGAAAACT
Found at i:57351007 original size:12 final size:12
Alignment explanation
Indices: 57350992--57351025 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
57350982 TTGATAAAAA
*
57350992 AATAATACTACT
1 AATAATAATACT
*
57351004 AATAATAATAGT
1 AATAATAATACT
57351016 AATAATAATA
1 AATAATAATA
57351026 ATATTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.59, C:0.06, G:0.03, T:0.32
Consensus pattern (12 bp):
AATAATAATACT
Found at i:57351012 original size:15 final size:15
Alignment explanation
Indices: 57350992--57351028 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
57350982 TTGATAAAAA
*
57350992 AATAATACTACTAAT
1 AATAATACTAATAAT
*
57351007 AATAATAGTAATAAT
1 AATAATACTAATAAT
57351022 AATAATA
1 AATAATA
57351029 TTAAACTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (15 bp):
AATAATACTAATAAT
Found at i:57356875 original size:30 final size:30
Alignment explanation
Indices: 57356839--57356900 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
57356829 AAAAAAAAAA
57356839 AGACAAAGCATTCAATTAAGAAATCTAACC
1 AGACAAAGCATTCAATTAAGAAATCTAACC
57356869 AGACAAAGCATTCAATTAAGAAATCTAACC
1 AGACAAAGCATTCAATTAAGAAATCTAACC
57356899 AG
1 AG
57356901 CAGTGAAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (30 bp):
AGACAAAGCATTCAATTAAGAAATCTAACC
Found at i:57373703 original size:21 final size:21
Alignment explanation
Indices: 57373679--57373718 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57373669 TATCGAATAA
*
57373679 CAGATCATACTTATCATATTT
1 CAGATCATACTGATCATATTT
57373700 CAGATCATACTGATCATAT
1 CAGATCATACTGATCATAT
57373719 AACATATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.07, T:0.38
Consensus pattern (21 bp):
CAGATCATACTGATCATATTT
Found at i:57374584 original size:20 final size:20
Alignment explanation
Indices: 57374548--57374585 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
57374538 GGAAAGGGGA
*
57374548 ATGAGGAGAACGTGAGATAC
1 ATGAGGAGAAAGTGAGATAC
57374568 ATGAGAGAGAAAG-GAGAT
1 ATGAG-GAGAAAGTGAGAT
57374586 TTTTGGGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.45, C:0.05, G:0.37, T:0.13
Consensus pattern (20 bp):
ATGAGGAGAAAGTGAGATAC
Found at i:57374636 original size:21 final size:22
Alignment explanation
Indices: 57374606--57374656 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
57374596 AATAAAATAA
*
57374606 AAATAAAAATAAA-AAATATTT
1 AAATATAAATAAACAAATATTT
*
57374627 AAATATAAATAAACACATATTT
1 AAATATAAATAAACAAATATTT
*
57374649 ATATATAA
1 AAATATAA
57374657 TGTAAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATATAAATAAACAAATATTT
Found at i:57375044 original size:70 final size:70
Alignment explanation
Indices: 57374931--57375071 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
57374921 CATCGGAACA
57374931 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
1 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
57374996 AAGAG
66 AAGAG
57375001 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
1 TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
57375066 AAGAG
66 AAGAG
57375071 T
1 T
57375072 GTATAAAATT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.45, C:0.06, G:0.27, T:0.22
Consensus pattern (70 bp):
TTTGAAAAATACGGAGAGGAAAAGAAGAGTTTTGAGAGCAACAGAAATTCAGTGTAAGAGATTAT
AAGAG
Found at i:57378706 original size:21 final size:21
Alignment explanation
Indices: 57378680--57378731 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
57378670 CTATCATCGG
57378680 AGGAGAAGAGTCGGCAAATTC
1 AGGAGAAGAGTCGGCAAATTC
57378701 AGGAGAAGAGTCGGCAAATTC
1 AGGAGAAGAGTCGGCAAATTC
* *
57378722 ATGTGAAGAG
1 AGGAGAAGAG
57378732 GTCACGTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.12, G:0.35, T:0.15
Consensus pattern (21 bp):
AGGAGAAGAGTCGGCAAATTC
Found at i:57382327 original size:64 final size:64
Alignment explanation
Indices: 57382248--57382376 Score: 249
Period size: 64 Copynumber: 2.0 Consensus size: 64
57382238 TTACAGGATG
*
57382248 CTACAGTTGTTGCCGGAGCAACTATAAATATTTAATAATCAATTTACACAATAATATATGCATT
1 CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
57382312 CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
1 CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
57382376 C
1 C
57382377 ATATTCAAAA
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (64 bp):
CTACAGTTGTTGCCGGAGCAACTATAAACATTTAATAATCAATTTACACAATAATATATGCATT
Found at i:57383653 original size:53 final size:53
Alignment explanation
Indices: 57383573--57383680 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
57383563 AAGGAGTGTC
57383573 CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
1 CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
*
57383626 CATTTCAATTATTCATACATATTTATTTTGGTTTCATATTTACAATTTGTTAA
1 CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
57383679 CA
1 CA
57383681 AGAGAATGCA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.51
Consensus pattern (53 bp):
CATTTCAATTATTCATACATATTTATTTAGGTTTCATATTTACAATTTGTTAA
Found at i:57385583 original size:49 final size:49
Alignment explanation
Indices: 57385494--57385590 Score: 131
Period size: 49 Copynumber: 2.0 Consensus size: 49
57385484 TGTGAATATT
* * *** *
57385494 GCGATACCATTGAAGGGTGGTCTCCGATCTTAGGTTTGTTGGAGGTATA
1 GCGATACCATTGAAGGGTGGTCTCCAATCTCAGAACTGTTGGACGTATA
*
57385543 GCGATACCATTGAAGGGTGGTCTTCAATCTCAGAACTGTTGGACGTAT
1 GCGATACCATTGAAGGGTGGTCTCCAATCTCAGAACTGTTGGACGTAT
57385591 TGTGATTTCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (49 bp):
GCGATACCATTGAAGGGTGGTCTCCAATCTCAGAACTGTTGGACGTATA
Found at i:57387278 original size:19 final size:18
Alignment explanation
Indices: 57387224--57387278 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
57387214 AAAAATTTGA
57387224 AAATAAACACATAAAAAT
1 AAATAAACACATAAAAAT
*
57387242 AACATGAAACA-AGAAAAAAT
1 AA-AT-AAACACA-TAAAAAT
57387262 AAATAAAACACATAAAA
1 AAAT-AAACACATAAAA
57387279 CTATGTGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 14 0.47
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (18 bp):
AAATAAACACATAAAAAT
Found at i:57387278 original size:20 final size:19
Alignment explanation
Indices: 57387224--57387278 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
57387214 AAAAATTTGA
57387224 AAATAAACACAT-AAAAAT
1 AAATAAACACATAAAAAAT
*
57387242 AACATGAAACA-AGAAAAAAT
1 AA-AT-AAACACATAAAAAAT
57387262 AAATAAAACACATAAAA
1 AAAT-AAACACATAAAA
57387279 CTATGTGCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 2 0.07
19 10 0.33
20 18 0.60
ACGTcount: A:0.73, C:0.11, G:0.04, T:0.13
Consensus pattern (19 bp):
AAATAAACACATAAAAAAT
Found at i:57410475 original size:39 final size:38
Alignment explanation
Indices: 57410406--57410610 Score: 223
Period size: 39 Copynumber: 5.3 Consensus size: 38
57410396 TAATGGTCAT
* * *
57410406 TTGAGCA-ACTCTCAGTAGAATCAGTGGGTATGGCTCGA
1 TTGAGCATACTTTTAGTAGAAT-AGTAGGTATGGCTCGA
*
57410444 TTGAGCATACTTTTAGTAGAACTAGTAGGTATGGATCGA
1 TTGAGCATACTTTTAGTAGAA-TAGTAGGTATGGCTCGA
* * * *
57410483 TTGAGTATACTTTTATTAGAACCAGTAGGTATGGCTCGT
1 TTGAGCATACTTTTAGTAGAA-TAGTAGGTATGGCTCGA
* *
57410522 TTGAGCATACTTTTAGTAGAATTAGTGGGTATGGCTTGA
1 TTGAGCATACTTTTAGTAGAA-TAGTAGGTATGGCTCGA
* * * *
57410561 TTGAGCATACTTTCAGTGGAATCAGTAGGTATAGCTTGA
1 TTGAGCATACTTTTAGTAGAAT-AGTAGGTATGGCTCGA
*
57410600 TTGCGCATACT
1 TTGAGCATACT
57410611 ATCATACATT
Statistics
Matches: 143, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
38 8 0.06
39 134 0.94
40 1 0.01
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (38 bp):
TTGAGCATACTTTTAGTAGAATAGTAGGTATGGCTCGA
Found at i:57410516 original size:78 final size:78
Alignment explanation
Indices: 57410406--57410610 Score: 268
Period size: 78 Copynumber: 2.6 Consensus size: 78
57410396 TAATGGTCAT
* *
57410406 TTGAGCA-ACTCTCAGTAGAATCAGTGGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
57410470 AGGTATGGATCGA
66 AGGTATGGATCGA
* * * * * *
57410483 TTGAGTATACTTTTATTAGAACCAGTAGGTATGGCTCGTTTGAGCATACTTTTAGTAGAATTAGT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
* * *
57410548 GGGTATGGCTTGA
66 AGGTATGGATCGA
* * * *
57410561 TTGAGCATACTTTCAGTGGAATCAGTAGGTATAGCTTGATTGCGCATACT
1 TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACT
57410611 ATCATACATT
Statistics
Matches: 107, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
77 6 0.06
78 101 0.94
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (78 bp):
TTGAGCATACTTTCAGTAGAATCAGTAGGTATGGCTCGATTGAGCATACTTTTAGTAGAACTAGT
AGGTATGGATCGA
Found at i:57419089 original size:184 final size:184
Alignment explanation
Indices: 57418780--57419145 Score: 572
Period size: 184 Copynumber: 2.0 Consensus size: 184
57418770 TGCGAAAATT
* * *
57418780 ATTGTGTATTTATGATTTGGTATATTTATATTAATCTGTAGCTAACATCGACCTGGATTCCTCCA
1 ATTGTGTATTTATGATTTGGTATATTTATATTAATCCGTAGCTAACATCGACATGGATTCCTCAA
* * * *
57418845 AATGGAAAGGAAAAGATATAGTCATCGACAAATAGCTCTGAGTTTATGGTTTTTATTTCTATAAC
66 AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
* *
57418910 CTGAACCTTTTAATTTGTTGCATTACGAAA-TGTGTTGCATGGTAATAACATATG
131 CTGAACCTTTTAATTTGCTGCATTAC-AAATTGCGTTGCATGGTAATAACATATG
* * * *
57418964 ATTGTGTTTTTATGATTTTGTATATTTATGTTAATCCGTAGCTAATATCGACATGGATTCCTCAA
1 ATTGTGTATTTATGATTTGGTATATTTATATTAATCCGTAGCTAACATCGACATGGATTCCTCAA
57419029 AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
66 AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
* * *
57419094 TTGAACCTTTTCATTTGCTGCATTACAAATTGCGTTTCATGGTAATAACATA
131 CTGAACCTTTTAATTTGCTGCATTACAAATTGCGTTGCATGGTAATAACATA
57419146 AGGTAAGCTG
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
183 3 0.02
184 162 0.98
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (184 bp):
ATTGTGTATTTATGATTTGGTATATTTATATTAATCCGTAGCTAACATCGACATGGATTCCTCAA
AATGGAAAGGAAAAGATAAAGTCATCGACAAATAGCTCGGAGTTTATGATTTGTATTTCTATAAC
CTGAACCTTTTAATTTGCTGCATTACAAATTGCGTTGCATGGTAATAACATATG
Found at i:57420075 original size:22 final size:25
Alignment explanation
Indices: 57420040--57420088 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 25
57420030 TAAGTGATAG
57420040 TGAATGTGATATTTA-ATGTT-TAA
1 TGAATGTGATATTTAGATGTTCTAA
*
57420063 TGAAT-TGGTATTTAGATGTTCTAA
1 TGAATGTGATATTTAGATGTTCTAA
57420087 TG
1 TG
57420089 GTTGTGCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 10 0.43
24 5 0.22
ACGTcount: A:0.31, C:0.02, G:0.20, T:0.47
Consensus pattern (25 bp):
TGAATGTGATATTTAGATGTTCTAA
Found at i:57432466 original size:20 final size:20
Alignment explanation
Indices: 57432441--57432481 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
57432431 GGCTTTTCTT
57432441 AAACATTATTCTCTTGATTC
1 AAACATTATTCTCTTGATTC
57432461 AAACATTATTCTCTTGATTC
1 AAACATTATTCTCTTGATTC
57432481 A
1 A
57432482 TTATTCATGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.44
Consensus pattern (20 bp):
AAACATTATTCTCTTGATTC
Found at i:57432485 original size:16 final size:17
Alignment explanation
Indices: 57432443--57432487 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
57432433 CTTTTCTTAA
57432443 ACATTATTCTCTTGATT
1 ACATTATTCTCTTGATT
57432460 CAAACATTATTCTCTTGATT
1 ---ACATTATTCTCTTGATT
57432480 -CATTATTC
1 ACATTATTC
57432488 ATGTCTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
20 17 0.68
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.49
Consensus pattern (17 bp):
ACATTATTCTCTTGATT
Found at i:57435097 original size:71 final size:71
Alignment explanation
Indices: 57435015--57435157 Score: 277
Period size: 71 Copynumber: 2.0 Consensus size: 71
57435005 GTATGAATAC
*
57435015 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTATACGGGCTAGGTTGTAATATAGTTT
1 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
57435080 TTACAA
66 TTACAA
57435086 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
1 TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
57435151 TTACAA
66 TTACAA
57435157 T
1 T
57435158 GAAGTAGGTA
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 71 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (71 bp):
TACAACAAAAGATAAAGAACTGAGGCGGTGTCCGCAAGTAAACGGGCTAGGTTGTAATATAGTTT
TTACAA
Found at i:57441261 original size:25 final size:25
Alignment explanation
Indices: 57441226--57441279 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
57441216 AAGTTAATGA
57441226 GTTACACGGCCTGACACACGGGCAT
1 GTTACACGGCCTGACACACGGGCAT
*
57441251 GTTACATGGCCTGACACACGGGCAT
1 GTTACACGGCCTGACACACGGGCAT
57441276 GTTA
1 GTTA
57441280 AGTGACCGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.24, C:0.28, G:0.28, T:0.20
Consensus pattern (25 bp):
GTTACACGGCCTGACACACGGGCAT
Found at i:57443001 original size:9 final size:9
Alignment explanation
Indices: 57442977--57443022 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
57442967 TGAGTTTTTG
*
57442977 AATTCAAAT
1 AATTCGAAT
*
57442986 AACTCGAAT
1 AATTCGAAT
57442995 AATTCGAAT
1 AATTCGAAT
57443004 AATTCGAAT
1 AATTCGAAT
57443013 AATTCGAAT
1 AATTCGAAT
57443022 A
1 A
57443023 TTAAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:57443290 original size:30 final size:31
Alignment explanation
Indices: 57443236--57443295 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
57443226 AAACCTTTTA
*
57443236 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
57443266 TTTTTCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
57443296 TCCCACCTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:57446611 original size:42 final size:40
Alignment explanation
Indices: 57446462--57446611 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 40
57446452 TTTAGGGCTA
* * *
57446462 TAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCGAACTTT
1 TAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCG-GCTTT
***
57446503 TAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAGGCTTT
1 TAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTC-GGCTTT
*
57446544 TAGCGGCATTTTTTCAAAAA-CGCCGCTAATGCTCGGTCTTT
1 TAGCGGC-GTTTTTCAAAAAGCGCCGCTAATGCTCGG-CTTT
57446585 TAGCGGCGTTTTTTCAAAAAGCGCCGC
1 TAGCGGCG-TTTTTCAAAAAGCGCCGC
57446612 AAAAACATTT
Statistics
Matches: 97, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
40 2 0.02
41 80 0.82
42 15 0.15
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (40 bp):
TAGCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCGGCTTT
Found at i:57447178 original size:82 final size:81
Alignment explanation
Indices: 57447033--57447188 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
57447023 CGATGTTAGA
* *
57447033 TTAGGGTTTAGGGTTTAGATTAATTAGTGAGTTTTAATGTTTATGAAATAAGGTTTAAAGGTTAG
1 TTAGGATTTAGGGTTTAGATTAATTAATGAGTTTTAATGTTTATGAAATAAGGTTTAAAGGTTAG
*
57447098 GGGTTAGGGATCCGGG
66 GAGTTAGGGATCCGGG
* * * **
57447114 TTAGGATTTAGGGGTTT-GATTAATTAAT-ATTTTTAATTTATATATTAAATAAGGTTTAGGGGT
1 TTAGGATTTA-GGGTTTAGATTAATTAATGAGTTTTAATGT-T-TATGAAATAAGGTTTAAAGGT
*
57447177 TAGTAGTTAGGG
63 TAGGAGTTAGGG
57447189 GTTAGTGGTT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
80 9 0.14
81 20 0.32
82 34 0.54
ACGTcount: A:0.29, C:0.01, G:0.28, T:0.42
Consensus pattern (81 bp):
TTAGGATTTAGGGTTTAGATTAATTAATGAGTTTTAATGTTTATGAAATAAGGTTTAAAGGTTAG
GAGTTAGGGATCCGGG
Found at i:57447188 original size:14 final size:14
Alignment explanation
Indices: 57447169--57447250 Score: 58
Period size: 14 Copynumber: 5.8 Consensus size: 14
57447159 TAAATAAGGT
57447169 TTAGGGGTTAGTAG
1 TTAGGGGTTAGTAG
*
57447183 TTAGGGGTTAGTGG
1 TTAGGGGTTAGTAG
* *
57447197 TTTGGGGTTTG-AGG
1 TTAGGGGTTAGTA-G
* *
57447211 TTAAGGGTTAGAAG
1 TTAGGGGTTAGTAG
* * *
57447225 TTAAGAGTTAGTGAT
1 TTAGGGGTTAGT-AG
*
57447240 TTAGGGTTTAG
1 TTAGGGGTTAG
57447251 GGTTTAGAGA
Statistics
Matches: 52, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
14 42 0.81
15 10 0.19
ACGTcount: A:0.22, C:0.00, G:0.40, T:0.38
Consensus pattern (14 bp):
TTAGGGGTTAGTAG
Found at i:57451141 original size:43 final size:43
Alignment explanation
Indices: 57451081--57451171 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
57451071 CTTTGAGTTC
* *
57451081 ATTA-CAAGATTTCCTTGATTAAGT-AAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAA-TAAAATGCATTATATCTTTT
* *
57451123 ATTACCAAGATTTACTTGATTAATAAAATGCATTCTATGTTTT
1 ATTACCAAGATTTACTTGATTAATAAAATGCATTATATCTTTT
57451166 ATTACC
1 ATTACC
57451172 TTACATATGT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 5 0.12
43 38 0.88
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAATAAAATGCATTATATCTTTT
Found at i:57451415 original size:16 final size:16
Alignment explanation
Indices: 57451391--57451422 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
57451381 ATTTATCATA
*
57451391 GAAATAAAAATTATTT
1 GAAAAAAAAATTATTT
57451407 GAAAAAAAAATTATTT
1 GAAAAAAAAATTATTT
57451423 TTTTGAAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
GAAAAAAAAATTATTT
Found at i:57451784 original size:43 final size:43
Alignment explanation
Indices: 57451438--57451793 Score: 401
Period size: 43 Copynumber: 8.3 Consensus size: 43
57451428 AAGATATGTT
* * * *
57451438 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
** * ** * *
57451480 AATAGCAGCGTTTGTACGAAAATGCGTCGCTAAAGATC-TGTTC
1 TTTAGCGGCGTTTGTGGGAAAA-GCGCCGCTAAAGATCATGGTC
* * * * *
57451523 TATAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTTATGGAC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* **
57451566 TTTAGCGGCGTTTGTGGGGAAAGCGCCTTTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* * * * *
57451609 TTTAGCGGCGTTTATGGAAAAAGCGACGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* *
57451652 TTTAGCGGCGTTTGTGGGAAAAGTGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
* * *
57451695 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
***
57451738 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATAACC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
57451781 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
57451794 ATTTCTGAAA
Statistics
Matches: 262, Mismatches: 49, Indels: 5
0.83 0.16 0.02
Matches are distributed among these distances:
42 29 0.11
43 233 0.89
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGATCATGGTC
Found at i:57451882 original size:21 final size:21
Alignment explanation
Indices: 57451857--57451897 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
57451847 CAGCGCTTTG
*
57451857 AAAAGCGCCGCTAAAGGCCTA
1 AAAAGCGCCGCTAAAAGCCTA
57451878 AAAAGCGCCGCTAAAAGCCT
1 AAAAGCGCCGCTAAAAGCCT
57451898 GTTTTGATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.39, C:0.29, G:0.22, T:0.10
Consensus pattern (21 bp):
AAAAGCGCCGCTAAAAGCCTA
Found at i:57465047 original size:13 final size:13
Alignment explanation
Indices: 57465029--57465053 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
57465019 TTTTTTCTAA
57465029 ATATTATCACTAT
1 ATATTATCACTAT
57465042 ATATTATCACTA
1 ATATTATCACTA
57465054 AATAATTCAA
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:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
ATATTATCACTAT
Found at i:57466914 original size:13 final size:13
Alignment explanation
Indices: 57466896--57466921 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57466886 AAGTTGGTTG
57466896 ATATTTAAATGTT
1 ATATTTAAATGTT
57466909 ATATTTAAATGTT
1 ATATTTAAATGTT
57466922 TTTGGTTTAG
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:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATATTTAAATGTT
Found at i:57468751 original size:23 final size:23
Alignment explanation
Indices: 57468725--57468876 Score: 133
Period size: 23 Copynumber: 6.6 Consensus size: 23
57468715 AGATAACATG
***
57468725 AAGCACTGAAGTGTTGTAACACA
1 AAGCACTGAAGTGCAATAACACA
** * **
57468748 AAGCACAAAAGTGCAATATCATG
1 AAGCACTGAAGTGCAATAACACA
**
57468771 AAGCACTGAAGTGTTATAACACA
1 AAGCACTGAAGTGCAATAACACA
* *
57468794 AAGCACCGAAGTGCAATAACACG
1 AAGCACTGAAGTGCAATAACACA
* ***
57468817 AAGCACCGAAGTGTTGTAACACA
1 AAGCACTGAAGTGCAATAACACA
** *
57468840 AAGCACAAAAGTGCAATAACACG
1 AAGCACTGAAGTGCAATAACACA
57468863 AAGCACTGAAGTGC
1 AAGCACTGAAGTGC
57468877 TAAATTCACG
Statistics
Matches: 98, Mismatches: 31, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 98 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.16
Consensus pattern (23 bp):
AAGCACTGAAGTGCAATAACACA
Found at i:57468791 original size:46 final size:46
Alignment explanation
Indices: 57468717--57468875 Score: 255
Period size: 46 Copynumber: 3.5 Consensus size: 46
57468707 AACATATCAG
*
57468717 ATAACATGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
* * * **
57468763 ATATCATGAAGCACTGAAGTGTTATAACACAAAGCACCGAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
*
57468809 ATAACACGAAGCACCGAAGTGTTGTAACACAAAGCACAAAAGTGCA
1 ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
57468855 ATAACACGAAGCACTGAAGTG
1 ATAACACGAAGCACTGAAGTG
57468876 CTAAATTCAC
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 102 1.00
ACGTcount: A:0.44, C:0.19, G:0.20, T:0.16
Consensus pattern (46 bp):
ATAACACGAAGCACTGAAGTGTTGTAACACAAAGCACAAAAGTGCA
Found at i:57470513 original size:50 final size:50
Alignment explanation
Indices: 57470396--57470886 Score: 612
Period size: 50 Copynumber: 9.8 Consensus size: 50
57470386 GAATATAACA
* * * ** * * *
57470396 TGCCAAAGCTATGTCCCAGACATAGTCTTACATGGGATGTTTCTTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * * * ** * *
57470445 TGCCAATGTCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
** *
57470495 TGCCAACGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
57470545 TGCCAACGCCATGCCCCAGACATGGTCTTACGTGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
57470595 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
57470645 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGAACCTCTCATCGCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
57470695 TGCCAACGTCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
57470745 TGCCAACGCCATGTCCCA-AGCATGATCTTATATGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGA-CATGGTCTTACATGGGACCTCTCATCTCGG
* *
57470795 TGGCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTC-CTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC-ATCTCGG
*
57470845 TTCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
57470887 TTACCCAAAT
Statistics
Matches: 386, Mismatches: 50, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
49 37 0.10
50 348 0.90
51 1 0.00
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:57474741 original size:25 final size:26
Alignment explanation
Indices: 57474693--57474742 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
57474683 CCTTCATAGA
57474693 AAGTCATTTACTATCAAACAAAAATC
1 AAGTCATTTACTATCAAACAAAAATC
* * *
57474719 AAGTCGTTTATTA-CAAAGAAAAAT
1 AAGTCATTTACTATCAAACAAAAAT
57474743 GACCTGTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.50, C:0.14, G:0.08, T:0.28
Consensus pattern (26 bp):
AAGTCATTTACTATCAAACAAAAATC
Found at i:57482397 original size:41 final size:41
Alignment explanation
Indices: 57482332--57482442 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
57482322 ACTAATTATA
* * *
57482332 CCCTGAATTGCACATACATCCCCCTTTTTGTACTTCGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
** *
57482373 CTTTGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
*
57482414 CCCTGAATAGCACATACGTGCCCCTGTTT
1 CCCTGAATTGCACATACGTGCCCCTGTTT
57482443 ACACTCCGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:57483961 original size:14 final size:13
Alignment explanation
Indices: 57483942--57483980 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
57483932 TAGTAATGTT
57483942 AAAGAAAGAAATAA
1 AAAGAAAGAAAT-A
57483956 AAAGAATA-AAATA
1 AAAGAA-AGAAATA
57483969 AAAGAAAGAAAT
1 AAAGAAAGAAAT
57483981 GCTCATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 11 0.48
14 10 0.43
15 1 0.04
ACGTcount: A:0.77, C:0.00, G:0.13, T:0.10
Consensus pattern (13 bp):
AAAGAAAGAAATA
Found at i:57492531 original size:3 final size:3
Alignment explanation
Indices: 57492523--57492552 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57492513 TTTAGAAAAG
57492523 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
57492553 TGACTGCCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:57495705 original size:30 final size:30
Alignment explanation
Indices: 57495669--57495736 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
57495659 AAAGAGACCT
*
57495669 AGACTGATAACACC-CAGTTGAAGAAGGTCCA
1 AGACTGATAACACCTAAG-TGAAGAAGGT-CA
57495700 A-ACTGATAACACCTAAGTGAAGAAGGTCA
1 AGACTGATAACACCTAAGTGAAGAAGGTCA
57495729 AGACTGAT
1 AGACTGAT
57495737 CAAACCCTTG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.09
30 28 0.82
31 3 0.09
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (30 bp):
AGACTGATAACACCTAAGTGAAGAAGGTCA
Found at i:57496578 original size:19 final size:19
Alignment explanation
Indices: 57496554--57496593 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
57496544 TGGCACAATA
57496554 ATCATCCTATCAATAAACG
1 ATCATCCTATCAATAAACG
57496573 ATCATCCTATCAATAAACG
1 ATCATCCTATCAATAAACG
57496592 AT
1 AT
57496594 TGAAGCCAAC
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:0.42, C:0.25, G:0.05, T:0.28
Consensus pattern (19 bp):
ATCATCCTATCAATAAACG
Found at i:57507005 original size:202 final size:201
Alignment explanation
Indices: 57506659--57507061 Score: 752
Period size: 202 Copynumber: 2.0 Consensus size: 201
57506649 CATATAACTT
57506659 CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
1 CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
*
57506724 ATTTACTATAATTTCACCTTAATATCACTTTGTAATCAATACATTACTTATCATAAATCTTAAAT
66 ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATACATTACTTATCATAAATCTTAAAT
* *
57506789 GTATATGTTTTTTTCATTGAAAAAATTTTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAG
131 GTATATGTTTTTTTCACTGAAAAAA-ATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAG
57506854 AAAATAC
195 AAAATAC
*
57506861 CTCTTGCTTCTATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
1 CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
*
57506926 ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATTCATTACTTATCATAAATCTTAAAT
66 ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATACATTACTTATCATAAATCTTAAAT
57506991 GTATATGTTTTTTTCACTGAAAAAAATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAGA
131 GTATATGTTTTTTTCACTGAAAAAAATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAGA
57507056 AAATAC
196 AAATAC
57507062 TTTACATAGA
Statistics
Matches: 196, Mismatches: 5, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
201 45 0.23
202 151 0.77
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (201 bp):
CTCTTGCTTCAATTATAAATTTTACAAAGTTTACAATTTAATCCTTAGCATCGTGAAAATTCATT
ATTTACTATAATTTCACCTTAATATCACTTTGTAATAAATACATTACTTATCATAAATCTTAAAT
GTATATGTTTTTTTCACTGAAAAAAATTTTATGAAATATTTTCAGGAAAATTGCCAAACAATAGA
AAATAC
Found at i:57510850 original size:423 final size:423
Alignment explanation
Indices: 57510001--57510846 Score: 1548
Period size: 423 Copynumber: 2.0 Consensus size: 423
57509991 GCATAACTTT
* * *
57510001 TGATTCTTAGCTTCGGATTAAAATTTGATTTCAAATACTCTCATTAGGGACCTTATACTTTCTAT
1 TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
*
57510066 TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTTGGTCCCTAATGTTACAAAACTAA
66 TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
*
57510131 CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATCTAAACTCAATATCTATCAATT
131 CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATATAAACTCAATATCTATCAATT
*
57510196 TCAAGATTAATTAATCAATTAATCAACATGGAAACTTGCTAAAATTTTAAAAATTGATCAAGGTA
196 TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAAAAATTGATCAAGGTA
57510261 CATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGTTTG
261 CATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGTTTG
*
57510326 TTTACCTTGAATTTTGCTTGTTGGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAACTA
326 TTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAACTA
57510391 TGGTGGATGGTTAAAAGATAGAGAAGAAGAAGA
391 TGGTGGATGGTTAAAAGATAGAGAAGAAGAAGA
57510424 TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
1 TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
* *
57510489 TTCTAGCATAATTTCATGACAAATTTTATATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
66 TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
*
57510554 CAAACAAGCTTAACTAACTTTACAATTTAGTTATTTTCACAATATAAACTCAATATCTATCAATT
131 CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATATAAACTCAATATCTATCAATT
*
57510619 TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAACAATTGATCAAATTG
196 TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAAAAATTGATC-AA--G
57510684 GTACATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGT
258 GTACATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGT
57510749 TTGTTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAA
323 TTGTTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAA
* *
57510814 CTATGGTGTATGGTTAAAAGATGGAGAAGAAGA
388 CTATGGTGGATGGTTAAAAGATAGAGAAGAAGA
57510847 TGATAAATTA
Statistics
Matches: 407, Mismatches: 13, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
423 244 0.60
424 2 0.00
426 161 0.40
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.36
Consensus pattern (423 bp):
TGATTCTTAGCTTCAGATTAAAAATTGATTTCAAATACTCTCATTAGGGACCTTATAATTTCTAT
TTCTAGCATAATTTCATGAAAAATTTTACATTTATTCAATTGGGTCCCTAATGTTACAAAACTAA
CAAACAAGCTTAACTAACTTTACAATTTAGTCATTTTCACAATATAAACTCAATATCTATCAATT
TCAAGATTAATTAATCAATTAATCAACATGAAAACTTGCTAAAATTTTAAAAATTGATCAAGGTA
CATGGGCTAGCTAAATCAAGCTCCCATAATCCAAAATCTATAAAAATTACATGAAAAAGGGTTTG
TTTACCTTGAATTTTGCTTGTTCGAATGTTATGAAAGCTTTGAAGTTTTCTTTGGTTTTCAACTA
TGGTGGATGGTTAAAAGATAGAGAAGAAGAAGA
Found at i:57521366 original size:28 final size:28
Alignment explanation
Indices: 57521177--57521358 Score: 303
Period size: 28 Copynumber: 6.5 Consensus size: 28
57521167 ATATTAAGTC
* *
57521177 CGCACACTCAGTGCTATATAATCAA-CT
1 CGCACACTTAGTGCTACATAATCAAGCT
* *
57521204 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
57521232 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
57521260 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAGCT
57521288 CGCACACTTAGTGCTACATAATCAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
*
57521316 CGCACACTTAGTGCTACATAATTAAGCT
1 CGCACACTTAGTGCTACATAATCAAGCT
57521344 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
57521359 GTAAAATTTA
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
27 24 0.16
28 124 0.84
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAGCT
Found at i:57521850 original size:14 final size:14
Alignment explanation
Indices: 57521831--57521860 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57521821 TGGGCATACT
*
57521831 TATGTATATGTATA
1 TATGTATATATATA
57521845 TATGTATATATATA
1 TATGTATATATATA
57521859 TA
1 TA
57521861 CTTCGGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:57523291 original size:22 final size:22
Alignment explanation
Indices: 57523231--57523291 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 22
57523221 GGGCTGTCAC
*
57523231 ATTTAGTATTATTAATCTTATGT
1 ATTTA-TATTATTAATTTTATGT
57523254 ATTTATATTATTAATTTTATGT
1 ATTTATATTATTAATTTTATGT
*
57523276 -GTTATTATTATTAATT
1 ATTTA-TATTATTAATT
57523292 AGTTTCAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 27 0.77
23 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.61
Consensus pattern (22 bp):
ATTTATATTATTAATTTTATGT
Found at i:57526513 original size:41 final size:41
Alignment explanation
Indices: 57526468--57526606 Score: 163
Period size: 41 Copynumber: 3.4 Consensus size: 41
57526458 GACCCAACAA
* ** * *
57526468 GCTTCGTGCCGGTGTATTGTGTCAAGCCTTGAGCCTAGCAG
1 GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
* *
57526509 GCTTCATGCCGGTGCATTGAATTAGGCCTTGAGCCTAGC-G
1 GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
* * **
57526549 AGCTTCGAGCCGGTGAATTGAATTAGGTCTTGAGCCTATAAG
1 -GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
57526591 GCTTCGTGCCGGTGAA
1 GCTTCGTGCCGGTGAA
57526607 CTATATTAGG
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 1 0.01
41 81 0.98
42 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.31, T:0.28
Consensus pattern (41 bp):
GCTTCGTGCCGGTGAATTGAATTAGGCCTTGAGCCTAGCAG
Found at i:57540409 original size:41 final size:41
Alignment explanation
Indices: 57540326--57540424 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 41
57540316 CTATCTGATT
* * *
57540326 AGCACTAAGTGTGCG-AACTAAATGATGAGGTTGAATATCG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
57540366 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAACG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
*
57540407 AGCACTAAGTGTGTGAAA
1 AGCACTAAGTGTGCGAAA
57540425 TTGAGATCAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 15 0.28
41 38 0.72
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAACG
Found at i:57548243 original size:40 final size:41
Alignment explanation
Indices: 57548195--57548290 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
57548185 CTATCTGATT
* *
57548195 AGCACTAAGTGTGCG-AACTAAATGATGAGGTTGAAT-ATCG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAAT-G
*
57548235 AGCACTAAGTGTGCGAAACTAAATAATGATGTTAAATAATG
1 AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATG
*
57548276 GGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
57548291 GAACCGAGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
40 15 0.30
41 33 0.66
42 2 0.04
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (41 bp):
AGCACTAAGTGTGCGAAACTAAATAATGAGGTTAAATAATG
Found at i:57558433 original size:34 final size:38
Alignment explanation
Indices: 57558371--57558440 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 38
57558361 TTAATTCTTT
57558371 TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTTTG
1 TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTTTG
*
57558409 TTCTTTTA-TTTC-TTT-AGTTT-CCTTTTCTTTTT
1 TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTT
57558441 GTTTTCTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 12 0.39
35 4 0.13
36 3 0.10
37 4 0.13
38 8 0.26
ACGTcount: A:0.07, C:0.17, G:0.03, T:0.73
Consensus pattern (38 bp):
TTCTTTTATTTTCTTTTAACTTTCCCTTTTCTTTTTTG
Found at i:57559109 original size:10 final size:9
Alignment explanation
Indices: 57559090--57559114 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57559080 CCAAAAGAAG
57559090 AAAAATAAA
1 AAAAATAAA
57559099 AAAAATAAA
1 AAAAATAAA
57559108 AAAAATA
1 AAAAATA
57559115 TGCTCTAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:57563290 original size:18 final size:19
Alignment explanation
Indices: 57563269--57563314 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
57563259 ATATAATTTT
*
57563269 AAAAATATAT-AATACATC
1 AAAAATATATAAAAACATC
57563287 AAAAATAT-TAAAAACATC
1 AAAAATATATAAAAACATC
*
57563305 AAAAAAATAT
1 AAAAATATAT
57563315 TTCCCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 1 0.04
18 22 0.92
19 1 0.04
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (19 bp):
AAAAATATATAAAAACATC
Found at i:57563433 original size:30 final size:30
Alignment explanation
Indices: 57563389--57563481 Score: 168
Period size: 30 Copynumber: 3.1 Consensus size: 30
57563379 ACTTAACAAG
* *
57563389 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
57563419 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
57563449 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTTTAAAATAATAACAAAATTAA
57563479 CAA
1 CAA
57563482 TAAAATAAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 61 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTTTAAAATAATAACAAAATTAA
Found at i:57566404 original size:42 final size:41
Alignment explanation
Indices: 57566250--57566405 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 41
57566240 TATGTTATCG
*
57566250 TGTAAGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
57566292 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
57566336 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
57566378 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
57566406 TGTACGATTT
Statistics
Matches: 94, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
41 3 0.03
42 53 0.56
43 8 0.09
44 28 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:57573715 original size:28 final size:28
Alignment explanation
Indices: 57573675--57573756 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
57573665 ACATGCCAAA
*
57573675 AAAAAGGAAGCCTCTATGGAAATCTAAG
1 AAAAAGGAAGCCTTTATGGAAATCTAAG
* **
57573703 AAAAAGGAAGCCTTTGTGGCGATCTAAG
1 AAAAAGGAAGCCTTTATGGAAATCTAAG
* *
57573731 AAAATGGAAACCTTTATGGCAAATCT
1 AAAAAGGAAGCCTTTATGG-AAATCT
57573757 GGTAAAGGAC
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 40 0.91
29 4 0.09
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (28 bp):
AAAAAGGAAGCCTTTATGGAAATCTAAG
Found at i:57577883 original size:41 final size:42
Alignment explanation
Indices: 57577797--57577876 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
57577787 GGCTTAGCGC
* * *
57577797 CTAGCAAGCTTATTGCCAGTGAAACAATATCAGACTTTACAT
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTATACAT
** *
57577839 CTAGCAGGCTTAATGCTGGTGAAAC-ATTTCAGACTATA
1 CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTATA
57577877 TGTCTAGTAG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
41 11 0.34
42 21 0.66
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (42 bp):
CTAGCAGGCTTAATGCCAGTGAAACAATATCAGACTATACAT
Found at i:57578161 original size:23 final size:23
Alignment explanation
Indices: 57578129--57578172 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
57578119 AATATTTGGT
* * *
57578129 ATATGTATTTGATAAGTATATAC
1 ATATGCATTTGAAAAGAATATAC
57578152 ATATGCATTTGAAAAGAATAT
1 ATATGCATTTGAAAAGAATAT
57578173 GCCTCTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.05, G:0.14, T:0.39
Consensus pattern (23 bp):
ATATGCATTTGAAAAGAATATAC
Found at i:57590022 original size:15 final size:14
Alignment explanation
Indices: 57589998--57590040 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
57589988 GATTTCTTAT
*
57589998 TTTTCATTTATTTAC
1 TTTTCTTTTATTT-C
57590013 TTTTCTTTTATTTC
1 TTTTCTTTTATTTC
*
57590027 CTTTCTTATTATTT
1 TTTTCTT-TTATTT
57590041 TTAGTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 7 0.28
15 18 0.72
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTATTTC
Found at i:57590025 original size:19 final size:19
Alignment explanation
Indices: 57589982--57590041 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
57589972 AAATATTTGA
57589982 TTATTTGATTTCTTATTTT
1 TTATTTGATTTCTTATTTT
*
57590001 TCATTT-ATTTACTT-TTCTT
1 TTATTTGATTT-CTTATT-TT
**
57590020 TTATTTCCTTTCTTATTATT
1 TTATTTGATTTCTTATT-TT
57590040 TT
1 TT
57590042 TAGTATATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
18 6 0.18
19 18 0.55
20 9 0.27
ACGTcount: A:0.15, C:0.12, G:0.02, T:0.72
Consensus pattern (19 bp):
TTATTTGATTTCTTATTTT
Found at i:57603017 original size:94 final size:94
Alignment explanation
Indices: 57602856--57603043 Score: 376
Period size: 94 Copynumber: 2.0 Consensus size: 94
57602846 ATATCTCACA
57602856 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
1 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
57602921 TTTACATGGTTTCTTTCATGTTATTTATT
66 TTTACATGGTTTCTTTCATGTTATTTATT
57602950 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
1 GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
57603015 TTTACATGGTTTCTTTCATGTTATTTATT
66 TTTACATGGTTTCTTTCATGTTATTTATT
57603044 TCTTTATATC
Statistics
Matches: 94, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.30, C:0.22, G:0.10, T:0.38
Consensus pattern (94 bp):
GTAAGCCTACCAAACTGAAAAGCAGTAACTCTTTTCATAATTTCCCATTCCTCTTCAAAAGCACA
TTTACATGGTTTCTTTCATGTTATTTATT
Found at i:57604284 original size:36 final size:35
Alignment explanation
Indices: 57604215--57604284 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
57604205 GGATTTTTAT
*
57604215 TTAATTTAATATTAATATAATTATATTTTTTATTA
1 TTAATTTAATATTAATATAATTATATTTATTATTA
57604250 TTAATGTTAATATTAATATAA--A-ATTTATTATTA
1 TTAAT-TTAATATTAATATAATTATATTTATTATTA
57604283 TT
1 TT
57604285 GAAAGTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
33 12 0.36
34 1 0.03
35 5 0.15
36 15 0.45
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (35 bp):
TTAATTTAATATTAATATAATTATATTTATTATTA
Found at i:57606687 original size:30 final size:29
Alignment explanation
Indices: 57606651--57606711 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 29
57606641 TAATCGACCC
*
57606651 AACCAATCTAATCTGGTTAATCGGTTAGTT
1 AACCAATCTAATCTGGTTAA-AGGTTAGTT
* * *
57606681 AACCAATTTAGTTTGGTTAAAGGTTAGTT
1 AACCAATCTAATCTGGTTAAAGGTTAGTT
57606710 AA
1 AA
57606712 AAGTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (29 bp):
AACCAATCTAATCTGGTTAAAGGTTAGTT
Found at i:57613292 original size:21 final size:22
Alignment explanation
Indices: 57613251--57613294 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
57613241 AATATTCGTT
*
57613251 AAAAAAGAATAAATATGTACATA
1 AAAAAACAATAAATA-GTACATA
57613274 AAAAAACAATAAATA-TACATA
1 AAAAAACAATAAATAGTACATA
57613295 TATATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.68, C:0.07, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAAACAATAAATAGTACATA
Found at i:57613315 original size:17 final size:16
Alignment explanation
Indices: 57613295--57613326 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
57613285 AATATACATA
57613295 TATATAAAATAATTACG
1 TATATAAAA-AATTACG
57613312 TATATAAAAAATTAC
1 TATATAAAAAATTAC
57613327 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (16 bp):
TATATAAAAAATTACG
Found at i:57615126 original size:45 final size:45
Alignment explanation
Indices: 57615031--57615324 Score: 191
Period size: 45 Copynumber: 6.7 Consensus size: 45
57615021 CTCTAATTCA
* * * * * * *
57615031 CTCCACTACAACTTTAGGGAGATAGGATTTG-TTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
* * ** *
57615075 CCCCACTACAGTTTCATGGG-GATAAGACTTGCTTTCTTGAGTCTG
1 CTCCACTGCAACTTCA-GGGAGATAAGACTCGCTTTCTTGAGTCTG
*
57615120 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
* * *
57615165 CTCCACTGCAACTTCAGGGAGATAAGACTAG-ATGC--GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
* * * *
57615206 CT-CTCTTCAACTTCAGAGAGATAAGA-TCTG-TGATT-TT-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTC-GCT--TTCTTGAGTCTG
* * ** * * *
57615249 CTCCTCTGCAACTTCAGGGAGAT-AGAAT-TATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTT-TCTTGAGTCTG
* *
57615293 CTCCACTGCAACTTTAGGGAGATAAGATTCGC
1 CTCCACTGCAACTTCAGGGAGATAAGACTCGC
57615325 CATTTTCAGT
Statistics
Matches: 200, Mismatches: 33, Indels: 32
0.75 0.12 0.12
Matches are distributed among these distances:
39 1 0.00
40 22 0.11
41 7 0.04
42 3 0.01
43 12 0.06
44 72 0.36
45 83 0.41
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGAGTCTG
Found at i:57615265 original size:44 final size:42
Alignment explanation
Indices: 57615116--57615320 Score: 173
Period size: 44 Copynumber: 4.8 Consensus size: 42
57615106 CTTTCTTGAG
** ***
57615116 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-T--CTTGATTTAA
* ***
57615161 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CTAGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTGATTTAA
* * *
57615202 TCTGCT-CTCTTCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATCT-TGA-TTTAA
* * *
57615245 TCTGCTCCTCTGCAACTTCAGGGAGAT-AGAATTATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAG-A-TCTT-GATTTAA
*
57615289 TCTGCTCCACTGCAACTTTAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAT
57615321 TCGCCATTTT
Statistics
Matches: 133, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
40 21 0.16
41 12 0.09
42 2 0.02
43 11 0.08
44 51 0.38
45 36 0.27
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATCTTGATTTAA
Found at i:57615717 original size:50 final size:49
Alignment explanation
Indices: 57615612--57615717 Score: 113
Period size: 50 Copynumber: 2.1 Consensus size: 49
57615602 CGCCAGGGAG
* * *
57615612 ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGA
1 ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTACAACGCAAGGCA
* ** * * *
57615661 AGTAAGATTTGCCGTCGTGGCTTCAATCTTTTCCATTGCAATGTCAAGGCA
1 A-TAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTACAACG-CAAGGCA
57615712 ATAAGA
1 ATAAGA
57615718 CTAATATCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
49 1 0.02
50 39 0.85
51 6 0.13
ACGTcount: A:0.25, C:0.25, G:0.23, T:0.27
Consensus pattern (49 bp):
ATAAGATTCGCCGTCGTGGCTTCAATCTGCTCCACTACAACGCAAGGCA
Found at i:57615787 original size:45 final size:45
Alignment explanation
Indices: 57615738--57615875 Score: 145
Period size: 45 Copynumber: 3.1 Consensus size: 45
57615728 CAATTTGCTT
* * *
57615738 CACTGCCAGCACAGGAAGGCGAGATCTGCTATCTTCAACCTACTC
1 CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
* * * * * * * *
57615783 CACTG-CTGTTCAGGGAGACAAG-GCTGATATCTTCGATCTACTT
1 CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
* *
57615826 CACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTC
1 CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
57615871 CACTG
1 CACTG
57615876 TTGCTCAGGG
Statistics
Matches: 70, Mismatches: 21, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
43 21 0.30
44 24 0.34
45 25 0.36
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (45 bp):
CACTGCCAGTACAGGAAGACAAGATCTGCTATCTTCAACCTACTC
Found at i:57615824 original size:43 final size:43
Alignment explanation
Indices: 57615767--57615897 Score: 127
Period size: 44 Copynumber: 3.0 Consensus size: 43
57615757 CGAGATCTGC
57615767 TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
1 TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
* * * ** * * * *
57615810 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCAACCTACTCCACTG-CTGTTCAGGGAGACAAG-GCTGA
* * * *
57615855 TATTTTCAACCTACTCCACTGTTGCTCAGGGAGATAAGGCTGA
1 TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
57615898 AGTTTCACCG
Statistics
Matches: 64, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
43 21 0.33
44 23 0.36
45 20 0.31
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
TATCTTCAACCTACTCCACTGCTGTTCAGGGAGACAAGGCTGA
Found at i:57615831 original size:88 final size:88
Alignment explanation
Indices: 57615721--57615897 Score: 255
Period size: 88 Copynumber: 2.0 Consensus size: 88
57615711 AATAAGACTA
* * * * *
57615721 ATATCTTCAATTTGCTTCACTGCCAGCACAGGAAGGCGAGATCTGCTATCTTCAACCTACTCCAC
1 ATATCTTCAATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
*
57615786 TGCTGTTCAGGGAGACAAGGCTG
66 TGCTGCTCAGGGAGACAAGGCTG
* * *
57615809 ATATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATTTTCAACCTACTCCAC
1 ATATCTTCAATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
* *
57615874 TGTTGCTCAGGGAGATAAGGCTG
66 TGCTGCTCAGGGAGACAAGGCTG
57615897 A
1 A
57615898 AGTTTCACCG
Statistics
Matches: 78, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
88 78 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (88 bp):
ATATCTTCAATCTACTTCACTGCCAACACAGGAAGACAAGATCTGCTATCTTCAACCTACTCCAC
TGCTGCTCAGGGAGACAAGGCTG
Found at i:57628038 original size:17 final size:16
Alignment explanation
Indices: 57628016--57628047 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
57628006 ACAATAAATA
57628016 TATATAAAATAATTACG
1 TATATAAAA-AATTACG
57628033 TATATAAAAAATTAC
1 TATATAAAAAATTAC
57628048 ATTATTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.56, C:0.06, G:0.03, T:0.34
Consensus pattern (16 bp):
TATATAAAAAATTACG
Found at i:57629421 original size:9 final size:10
Alignment explanation
Indices: 57629390--57629421 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
57629380 AGGTATTACA
57629390 AAAATCATAC
1 AAAATCATAC
57629400 AAAATCATA-
1 AAAATCATAC
57629409 AAAAT-ATAC
1 AAAATCATAC
57629418 AAAA
1 AAAA
57629422 ATATTTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 9 0.43
10 9 0.43
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATCATAC
Found at i:57629499 original size:28 final size:27
Alignment explanation
Indices: 57629445--57629534 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 27
57629435 TATTAATAAA
* * *
57629445 TATAAAAATATAGAAAAGTGCACAAATT
1 TATAAAAATATA-AAAATTACAAAAATT
*
57629473 TATAAAATTATTAAAAATTACAAAAATAT
1 TATAAAAATA-TAAAAATTACAAAAAT-T
* * *
57629502 TTTAAAAATATATAAATTACAAATATT
1 TATAAAAATATAAAAATTACAAAAATT
57629529 TATAAA
1 TATAAA
57629535 TTACAAAAGC
Statistics
Matches: 51, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
27 6 0.12
28 34 0.67
29 11 0.22
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.33
Consensus pattern (27 bp):
TATAAAAATATAAAAATTACAAAAATT
Found at i:57629518 original size:19 final size:20
Alignment explanation
Indices: 57629468--57629518 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
57629458 AAAAGTGCAC
*
57629468 AAATTTATAAA-ATTATTAA
1 AAATATATAAATATTATTAA
* *
57629487 AAATTACAAAAATATT-TTAA
1 AAA-TATATAAATATTATTAA
57629507 AAATATATAAAT
1 AAATATATAAAT
57629519 TACAAATATT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
19 10 0.40
20 12 0.48
21 3 0.12
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATAAATATTATTAA
Found at i:57629527 original size:15 final size:16
Alignment explanation
Indices: 57629507--57629541 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
57629497 AATATTTTAA
57629507 AAATA-TATAAATTAC
1 AAATATTATAAATTAC
57629522 AAATATTTATAAATTAC
1 AAATA-TTATAAATTAC
57629539 AAA
1 AAA
57629542 AGCTAAAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
17 13 0.72
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (16 bp):
AAATATTATAAATTAC
Found at i:57629708 original size:11 final size:11
Alignment explanation
Indices: 57629682--57629728 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
57629672 GGGGTTTAAT
*
57629682 AAAAATTATTT
1 AAAAATTATTA
57629693 AAAAATTATTA
1 AAAAATTATTA
*
57629704 AAAAAAT-TTA
1 AAAAATTATTA
57629714 CAAAATATTATTA
1 -AAAA-ATTATTA
57629727 AA
1 AA
57629729 TATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
10 3 0.10
11 20 0.67
12 4 0.13
13 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
AAAAATTATTA
Found at i:57629787 original size:23 final size:23
Alignment explanation
Indices: 57629682--57629787 Score: 60
Period size: 23 Copynumber: 4.6 Consensus size: 23
57629672 GGGGTTTAAT
*
57629682 AAAAATTATTTAAAAAT-TAT-TAA
1 AAAAATTA-TAAAAAATATATAT-A
* *
57629705 AAAAATT-TACAAAATAT-TATT
1 AAAAATTATAAAAAATATATATA
* *
57629726 AAATATTATAAAAACATA-AAATTA
1 AAAAATTATAAAAA-ATATATA-TA
* * *
57629750 CAAAATAGATTAAAAATATATATA
1 AAAAAT-TATAAAAAATATATATA
57629774 AAAAATTATAAAAA
1 AAAAATTATAAAAA
57629788 CCATTTTTTA
Statistics
Matches: 60, Mismatches: 15, Indels: 16
0.66 0.16 0.18
Matches are distributed among these distances:
21 13 0.22
22 7 0.12
23 17 0.28
24 15 0.25
25 8 0.13
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (23 bp):
AAAAATTATAAAAAATATATATA
Found at i:57631539 original size:20 final size:20
Alignment explanation
Indices: 57631502--57631542 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
57631492 GTTTCCATTG
* *
57631502 ATGTTAATTGAAGTTTTTGA
1 ATGTTAATGGAAGATTTTGA
*
57631522 ATGTTAATGGTAGATTTTGA
1 ATGTTAATGGAAGATTTTGA
57631542 A
1 A
57631543 GCTTAGAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (20 bp):
ATGTTAATGGAAGATTTTGA
Found at i:57638120 original size:35 final size:33
Alignment explanation
Indices: 57638069--57638182 Score: 102
Period size: 34 Copynumber: 3.3 Consensus size: 33
57638059 ATAGTGAGCT
* * *
57638069 CAGCTCTAGTTGGATAAACCAACGATATTTACGCC
1 CAGCACTAGTTCGATAAACCAACGATATGT--GCC
* **
57638104 CAGCACTAGTTCGATAAACCGACGAATATGTGTT
1 CAGCACTAGTTCGATAAACCAACG-ATATGTGCC
* * **
57638138 CAGCACTAGTTTGATAAACCCACGAATATGTGTT
1 CAGCACTAGTTCGATAAACCAACG-ATATGTGCC
57638172 CAGCACTAGTT
1 CAGCACTAGTT
57638183 AGAGAAACTG
Statistics
Matches: 70, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 44 0.63
35 21 0.30
36 5 0.07
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (33 bp):
CAGCACTAGTTCGATAAACCAACGATATGTGCC
Found at i:57638147 original size:34 final size:34
Alignment explanation
Indices: 57638104--57638197 Score: 143
Period size: 34 Copynumber: 2.8 Consensus size: 34
57638094 TATTTACGCC
*
57638104 CAGCACTAGTTCGATAAACCGACGAATATGTGTT
1 CAGCACTAGTTAGATAAACCGACGAATATGTGTT
* *
57638138 CAGCACTAGTTTGATAAACCCACGAATATGTGTT
1 CAGCACTAGTTAGATAAACCGACGAATATGTGTT
* *
57638172 CAGCACTAGTTAGAGAAACTGACGAA
1 CAGCACTAGTTAGATAAACCGACGAA
57638198 AGTTACGCTC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (34 bp):
CAGCACTAGTTAGATAAACCGACGAATATGTGTT
Found at i:57638660 original size:13 final size:13
Alignment explanation
Indices: 57638644--57638669 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
57638634 ACCTTATATC
57638644 ATAGTTTTATACA
1 ATAGTTTTATACA
57638657 ATAGTTTTATACA
1 ATAGTTTTATACA
57638670 TTCACTATCA
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATAGTTTTATACA
Found at i:57641052 original size:26 final size:26
Alignment explanation
Indices: 57641016--57641110 Score: 102
Period size: 26 Copynumber: 3.7 Consensus size: 26
57641006 AAAACATCAG
* *
57641016 AAAATTGAAGCCTTTGTGGCATATTT
1 AAAATGGAAGCCTTTGTGGCATATCT
*
57641042 AAAATGGAAG-CTTCTGTAGCATATCT
1 AAAATGGAAGCCTT-TGTGGCATATCT
* * * *
57641068 GAAATGGAAACCTTTATGGCGTATCT
1 AAAATGGAAGCCTTTGTGGCATATCT
*
57641094 GAAATGGAAGCCTTTGT
1 AAAATGGAAGCCTTTGT
57641111 AGTGTGTATG
Statistics
Matches: 57, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 3 0.05
26 51 0.89
27 3 0.05
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (26 bp):
AAAATGGAAGCCTTTGTGGCATATCT
Found at i:57644771 original size:7 final size:7
Alignment explanation
Indices: 57644761--57644798 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
57644751 TTAAAGGTTA
*
57644761 AAAGATG
1 AAAGAAG
57644768 AAAGAAG
1 AAAGAAG
57644775 AAAGAAG
1 AAAGAAG
57644782 AAAGAAG
1 AAAGAAG
57644789 AAAGAAG
1 AAAGAAG
57644796 AAA
1 AAA
57644799 AGATTTACCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (7 bp):
AAAGAAG
Found at i:57646558 original size:46 final size:43
Alignment explanation
Indices: 57646486--57646584 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
57646476 TACTATGTGA
*
57646486 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
* * *
57646529 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTTCTGAATCC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
57646575 ACCGTGTATC
1 ACCG-GTATC
57646585 TGTTTTTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:57653245 original size:21 final size:22
Alignment explanation
Indices: 57653219--57653275 Score: 82
Period size: 21 Copynumber: 2.7 Consensus size: 22
57653209 AACAATGGTG
*
57653219 GTGGTGAGATTAG-TTACTGTA
1 GTGGTGAGATTAGAATACTGTA
57653240 GTGGTGAGATT-GAATACTGTA
1 GTGGTGAGATTAGAATACTGTA
*
57653261 GCGGTGAGATTAGAA
1 GTGGTGAGATTAGAA
57653276 ATAGCGGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 1 0.03
21 28 0.88
22 3 0.09
ACGTcount: A:0.28, C:0.05, G:0.35, T:0.32
Consensus pattern (22 bp):
GTGGTGAGATTAGAATACTGTA
Found at i:57661941 original size:17 final size:18
Alignment explanation
Indices: 57661916--57661952 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
57661906 GTTTTATTGA
*
57661916 TTTCATTGTTTGTTTATT
1 TTTCATTGTTTATTTATT
57661934 TTTC-TTGTTTATTTATT
1 TTTCATTGTTTATTTATT
57661951 TT
1 TT
57661953 CGTTCTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.76
Consensus pattern (18 bp):
TTTCATTGTTTATTTATT
Found at i:57662380 original size:19 final size:18
Alignment explanation
Indices: 57662348--57662383 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
57662338 TTTATTTTTA
57662348 TTTTTATTTTTTAATTTC
1 TTTTTATTTTTTAATTTC
57662366 TTTTTAATTTTTTAATTT
1 TTTTT-ATTTTTTAATTT
57662384 GTTTATGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTTTAATTTC
Done.