Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 163 of 349
Found at i:52693624 original size:42 final size:41
Alignment explanation
Indices: 52693516--52693635 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
52693506 GTCTGAGACG
* *
52693516 TCGTGTAAGACCGTGTCTGGGACACAGGTCTCGATTGGGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGTATCGATT-GGATT
* *
52693558 TACGTATAAGACCATGTCTAGGACATC-GGTATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGTATCG-AT-TGGATT
* * *
52693601 TCGTGTAAGACCCTGTCTGGGACAAAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGTATCGAT
52693636 ATTGTACTAC
Statistics
Matches: 64, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
41 2 0.03
42 27 0.42
43 31 0.48
44 3 0.05
45 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGTATCGATTGGATT
Found at i:52702631 original size:14 final size:14
Alignment explanation
Indices: 52702612--52702641 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
52702602 GTTGTGTTCG
52702612 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
52702626 TAGTTAAATTAGAT
1 TAGTTAAATTAGAT
52702640 TA
1 TA
52702642 AAAACAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (14 bp):
TAGTTAAATTAGAT
Found at i:52705635 original size:49 final size:49
Alignment explanation
Indices: 52705534--52705658 Score: 160
Period size: 49 Copynumber: 2.5 Consensus size: 49
52705524 AGATGCCGAC
* * ** *
52705534 GCCATGTCCCAGACATGGTTTTACACTGGCTTTCATATAGTGAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATACCGAGGCCAAT
* * * *
52705584 GCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTACCGATGTCAAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATACCGAGGCCAAT
52705633 GCCATGTCCCAGACAGGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
52705659 AGCTTATCAA
Statistics
Matches: 65, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 51 0.78
50 14 0.22
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATACCGAGGCCAAT
Found at i:52705702 original size:97 final size:99
Alignment explanation
Indices: 52705534--52705711 Score: 238
Period size: 97 Copynumber: 1.8 Consensus size: 99
52705524 AGATGCCGAC
* * * *
52705534 GCCATGTCCCAGACATGGTTTTACACTGGCTTTCATATAGTGAGGCCGATGCCATGTCCTAGACA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGTGAGGCCGATGACATGTCCCAGACA
*
52705599 GGTCTTACACTGGCTCTCATCTACCGATGTCAAT
66 GGTCTTACACTAGCTCTCATCTACCGATGTCAAT
* *
52705633 GCCATGTCCCAGACA-GGTCTTACACTAGCTTATCA-AT-GTCGAGGTCGAT-ATATGTCCCAGA
1 GCCATGTCCCAGACATGGTCTTACACTAGCTT-TCATATAGT-GAGGCCGATGACATGTCCCAGA
*
52705694 CATGTCTTACACTAGCTC
64 CAGGTCTTACACTAGCTC
52705712 GCGTCTCAAC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
97 27 0.39
98 24 0.35
99 18 0.26
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (99 bp):
GCCATGTCCCAGACATGGTCTTACACTAGCTTTCATATAGTGAGGCCGATGACATGTCCCAGACA
GGTCTTACACTAGCTCTCATCTACCGATGTCAAT
Found at i:52705776 original size:143 final size:140
Alignment explanation
Indices: 52705580--52705848 Score: 294
Period size: 143 Copynumber: 1.9 Consensus size: 140
52705570 ATAGTGAGGC
* * * * * *
52705580 CGATGCCATGTCCTAGACAGGTCTTACACTGGCTCTCATCTACCGATGTCAATGCCATGTCCCAG
1 CGATGCCATGTCCTAGACAGATCTTACACTGGCTCTAATATACCGAGGCCAATG--ATGTACCAG
* * *
52705645 ACAGGTCTTACACTAGCTTATCA-ATGTCGAGGTCGATATATGTCCCAGACATGTCTTACACTAG
64 ACAGATCTTACACTAGC-TATCATAT-T-GAGGCCGATACATGTCCCAGACATGTCTTACACTAG
52705709 CTCGCGTCTCAACGT
126 CTCGCGTCTCAACGT
* *
52705724 CGATG-CATGTCCTAGACATATCTTACACTGGCT-TAA-ATATCTCGAGGCCAATGTTGTACCAG
1 CGATGCCATGTCCTAGACAGATCTTACACTGGCTCTAATATA-C-CGAGGCCAATGATGTACCAG
* * * * * *
52705786 ACATATCTTATACTGGCTCTCATATTGTGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
64 ACAGATCTTACACTAGCTATCATATTGAGGCCGATACATGTCCCAGACATGTCTTACACTAGC
52705849 ACACACATCT
Statistics
Matches: 105, Mismatches: 17, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
139 33 0.31
140 5 0.05
141 24 0.23
142 3 0.03
143 35 0.33
144 5 0.05
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (140 bp):
CGATGCCATGTCCTAGACAGATCTTACACTGGCTCTAATATACCGAGGCCAATGATGTACCAGAC
AGATCTTACACTAGCTATCATATTGAGGCCGATACATGTCCCAGACATGTCTTACACTAGCTCGC
GTCTCAACGT
Found at i:52709105 original size:79 final size:79
Alignment explanation
Indices: 52708994--52709216 Score: 260
Period size: 79 Copynumber: 2.8 Consensus size: 79
52708984 GCTCCTCGTT
* * * *
52708994 CAAATGCCTTCGGGACATCGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCG
*
52709058 GATTTAGTAACTCGCA
64 GAATTAGTAACTCGCA
52709074 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
52709137 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * *
52709152 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCC
52709214 GGA
63 GGA
52709217 CATCATTCAA
Statistics
Matches: 126, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
78 46 0.37
79 56 0.44
80 23 0.18
81 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:52709111 original size:39 final size:40
Alignment explanation
Indices: 52708994--52709216 Score: 257
Period size: 39 Copynumber: 5.7 Consensus size: 40
52708984 GCTCCTCGTT
* * *
52708994 CAAATGCCTTCGGGACATCGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
52709034 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52709074 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
52709113 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
52709152 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
52709193 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
52709217 CATCATTCAA
Statistics
Matches: 165, Mismatches: 10, Indels: 17
0.86 0.05 0.09
Matches are distributed among these distances:
38 2 0.01
39 89 0.54
40 63 0.38
41 11 0.07
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:52715400 original size:28 final size:28
Alignment explanation
Indices: 52715360--52715429 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
52715350 CTTGGCCTGA
*
52715360 CACACGCCCGTGTCCCCCACACAGCCAT
1 CACATGCCCGTGTCCCCCACACAGCCAT
*
52715388 CACATGCCCGTGTCCCTCACACAGCCAT
1 CACATGCCCGTGTCCCCCACACAGCCAT
*
52715416 TACATGCCCGTGTC
1 CACATGCCCGTGTC
52715430 TAAAAACCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.20, C:0.47, G:0.16, T:0.17
Consensus pattern (28 bp):
CACATGCCCGTGTCCCCCACACAGCCAT
Found at i:52716497 original size:49 final size:49
Alignment explanation
Indices: 52716394--52716518 Score: 135
Period size: 49 Copynumber: 2.5 Consensus size: 49
52716384 AGATGCCGAC
* * * *
52716394 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCCGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTCTCATATAGTCAGGCCAAA
* * * *
52716444 GCCATGTCCAAGACAGGTTTTACACTGGCTCTCATCTA-TCAGTGTCAAA
1 GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTCAG-GCCAAA
* *
52716493 GCCATATCCCAGACATGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
52716519 AGCTTTTTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
48 3 0.05
49 45 0.73
50 14 0.23
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTCTCATATAGTCAGGCCAAA
Found at i:52716543 original size:98 final size:98
Alignment explanation
Indices: 52716394--52716573 Score: 229
Period size: 97 Copynumber: 1.8 Consensus size: 98
52716384 AGATGCCGAC
* * *
52716394 GCCATGTCCCAGACATGGTCTTACACTGGCTTTCATATAGTGAGGCCGATGCCATGTCCAAGACA
1 GCCATATCCCAGACATGGTCTTACACTAGCTTTCATATACTGAGGCCGATG-CATGTCCAAGACA
* *
52716459 GGTTTTACACTGGCTCTCATCTATCAGTGTCAAA
65 GGTCTTACACTAGCTCTCATCTATCAGTGTCAAA
** ** *
52716493 GCCATATCCCAGACAT-GTCTTACACTAGCTTTTTTAT-CTCGAGGTTGATGCATGTCCCAGACA
1 GCCATATCCCAGACATGGTCTTACACTAGCTTTCATATACT-GAGGCCGATGCATGTCCAAGACA
*
52716556 TGTCTTACACTAGCTCTC
65 GGTCTTACACTAGCTCTC
52716574 GTCTCAACGC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
97 28 0.41
98 26 0.38
99 15 0.22
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (98 bp):
GCCATATCCCAGACATGGTCTTACACTAGCTTTCATATACTGAGGCCGATGCATGTCCAAGACAG
GTCTTACACTAGCTCTCATCTATCAGTGTCAAA
Found at i:52721485 original size:42 final size:42
Alignment explanation
Indices: 52721416--52721549 Score: 146
Period size: 42 Copynumber: 3.1 Consensus size: 42
52721406 TCTTACATGT
*
52721416 AATCAAATATCGATGCCACTGTCCCAGACAGGGTCTTACACAA
1 AATCAAA-ATCGATGCCAATGTCCCAGACAGGGTCTTACACAA
* *
52721459 AATCAAACAT-GATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAA-ATCGATGCCAATGTCCCAGACAGGGTCTTACAC-AA
* * * *
52721502 AATCTCAAATCGATGCCAACGTCCCAGA-TGTGGTCTTACACGA
1 AATC-AAAATCGATGCCAATGTCCCAGACAG-GGTCTTACACAA
52721545 AATCA
1 AATCA
52721550 CATATCGGAA
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
42 28 0.36
43 21 0.27
44 28 0.36
ACGTcount: A:0.34, C:0.27, G:0.16, T:0.22
Consensus pattern (42 bp):
AATCAAAATCGATGCCAATGTCCCAGACAGGGTCTTACACAA
Found at i:52721529 original size:86 final size:85
Alignment explanation
Indices: 52721385--52721549 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
52721375 AGCTCGTACA
* * * *
52721385 ATGCCAACGTCCTAGGCGTGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG-GG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGA-AGTGG
52721449 TCTTACACAAAATCAAACATG
65 TCTTACACAAAATCAAACATG
* * *
52721470 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCAAC-GTCCCAGATGT
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATC-AAATATCGATGCC-ACTGTCCCAGAAGT
*
52721533 GGTCTTACACGAAATCA
63 GGTCTTACACAAAATCA
52721550 CATATCGGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 27 0.40
86 37 0.54
87 4 0.06
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (85 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTGTCCCAGAAGTGGT
CTTACACAAAATCAAACATG
Found at i:52721931 original size:8 final size:8
Alignment explanation
Indices: 52721918--52721949 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
52721908 ATTAGCCCTC
*
52721918 ACATTTTT
1 ACATTTTA
52721926 ACATTTTA
1 ACATTTTA
52721934 ACATTTTA
1 ACATTTTA
52721942 ACATTTTA
1 ACATTTTA
52721950 GTCCCTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.34, C:0.12, G:0.00, T:0.53
Consensus pattern (8 bp):
ACATTTTA
Found at i:52731318 original size:81 final size:81
Alignment explanation
Indices: 52731194--52731809 Score: 629
Period size: 81 Copynumber: 7.6 Consensus size: 81
52731184 TTGCCCTATA
* * * * *
52731194 GGGGTATTTCGATAATTTTATAAA-TCGAGGATATTTCAATAATTTTACAAATTAAGGGTATTTC
1 GGGGTATTTCGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTC
*
52731258 AGTAATTTTACAAATTG
65 AGTAATTTTACAAACTG
* * * ** *
52731275 GGGGTATTTCAGTAATTTTACAAACTAAGGGTACTTCAGTAATTTTACAAATCAAGGGTGTTTCA
1 GGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCA
*
52731340 GTAATTTTATAAACTG
66 GTAATTTTACAAACTG
* * * * * * * * *
52731356 GGGTTATTTCAGCAATTTTACAAA-TCGGGGGTATTTTAGTAATGTTACAAATCGGGGGTCTTTC
1 GGGGTATTTCGGTAATTTTACAAACT-GAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTC
* * *
52731420 GGTAATTTTATAAA-TC
65 AGTAATTTTACAAACTG
*
52731436 GGGGTATTTCGGTAATTTTACAAATCGGA-GGTATTTC-GATAATTTTACAAATT-AGGGGTATT
1 GGGGTATTTCGGTAATTTTACAAA-CTGAGGGTATTTCAG-TAATTTTACAAATTGA-GGGTATT
*
52731498 TCAATAATTTTACAAA-TCG
63 TCAGTAATTTTACAAACT-G
* * * * * * * **
52731517 GGGGTATTTTGATAATTTTACAAACCGAGTGTATTTCAATTATTTTAAAAATTGAGGGTATTTTG
1 GGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCA
52731582 GTAATTTTACAAACTG
66 GTAATTTTACAAACTG
* * * * * * *
52731598 GGGGTATTTTGGTAATTTGACAAACCGAAGGTATTTTAATAATTTTACAAACTGAGGGTATTTC-
1 GGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCA
*
52731662 GATAATTTTACAAACTA
66 G-TAATTTTACAAACTG
* * *
52731679 GGGGTATTTCGATAATTTTACAAACTGAGGGTATTTC-GATAATTTTACAAACTGGGGGTATTTC
1 GGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCAG-TAATTTTACAAATTGAGGGTATTTC
* *
52731743 GGTAATTTTACAAACCG
65 AGTAATTTTACAAACTG
* * *
52731760 AGGGTATTTCGGTAATTTTACAAACTGGGGGTATTTCGGTAATTTTACAA
1 GGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAA
52731810 TCCGGGGTCT
Statistics
Matches: 450, Mismatches: 70, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
79 1 0.00
80 66 0.15
81 378 0.84
82 5 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (81 bp):
GGGGTATTTCGGTAATTTTACAAACTGAGGGTATTTCAGTAATTTTACAAATTGAGGGTATTTCA
GTAATTTTACAAACTG
Found at i:52731816 original size:27 final size:27
Alignment explanation
Indices: 52731194--52731809 Score: 553
Period size: 27 Copynumber: 22.9 Consensus size: 27
52731184 TTGCCCTATA
* *
52731194 GGGGTATTTCGATAATTTTATAAA-TCG
1 GGGGTATTTCGGTAATTTTACAAACT-G
* * ** * *
52731221 AGGATATTTCAATAATTTTACAAATTA
1 GGGGTATTTCGGTAATTTTACAAACTG
* * *
52731248 AGGGTATTTCAGTAATTTTACAAATTG
1 GGGGTATTTCGGTAATTTTACAAACTG
* *
52731275 GGGGTATTTCAGTAATTTTACAAACTA
1 GGGGTATTTCGGTAATTTTACAAACTG
* * * *
52731302 AGGGTACTTCAGTAATTTTACAAA-TCA
1 GGGGTATTTCGGTAATTTTACAAACT-G
* * * *
52731329 AGGGTGTTTCAGTAATTTTATAAACTG
1 GGGGTATTTCGGTAATTTTACAAACTG
* * *
52731356 GGGTTATTTCAGCAATTTTACAAA-TCG
1 GGGGTATTTCGGTAATTTTACAAACT-G
** *
52731383 GGGGTATTTTAGTAATGTTACAAA-TCG
1 GGGGTATTTCGGTAATTTTACAAACT-G
* * *
52731410 GGGGTCTTTCGGTAATTTTATAAA-TC
1 GGGGTATTTCGGTAATTTTACAAACTG
52731436 GGGGTATTTCGGTAATTTTACAAA-TCG
1 GGGGTATTTCGGTAATTTTACAAACT-G
* * * *
52731463 GAGGTATTTCGATAATTTTACAAATTA
1 GGGGTATTTCGGTAATTTTACAAACTG
**
52731490 GGGGTATTTCAATAATTTTACAAA-TCG
1 GGGGTATTTCGGTAATTTTACAAACT-G
* * *
52731517 GGGGTATTTTGATAATTTTACAAACCG
1 GGGGTATTTCGGTAATTTTACAAACTG
* * ** * * *
52731544 AGTGTATTTCAATTATTTTAAAAATTG
1 GGGGTATTTCGGTAATTTTACAAACTG
* *
52731571 AGGGTATTTTGGTAATTTTACAAACTG
1 GGGGTATTTCGGTAATTTTACAAACTG
* * *
52731598 GGGGTATTTTGGTAATTTGACAAACCG
1 GGGGTATTTCGGTAATTTTACAAACTG
** ***
52731625 AAGGTATTTTAATAATTTTACAAACTG
1 GGGGTATTTCGGTAATTTTACAAACTG
* * *
52731652 AGGGTATTTCGATAATTTTACAAACTA
1 GGGGTATTTCGGTAATTTTACAAACTG
*
52731679 GGGGTATTTCGATAATTTTACAAACTG
1 GGGGTATTTCGGTAATTTTACAAACTG
* *
52731706 AGGGTATTTCGATAATTTTACAAACTG
1 GGGGTATTTCGGTAATTTTACAAACTG
*
52731733 GGGGTATTTCGGTAATTTTACAAACCG
1 GGGGTATTTCGGTAATTTTACAAACTG
*
52731760 AGGGTATTTCGGTAATTTTACAAACTG
1 GGGGTATTTCGGTAATTTTACAAACTG
52731787 GGGGTATTTCGGTAATTTTACAA
1 GGGGTATTTCGGTAATTTTACAA
52731810 TCCGGGGTCT
Statistics
Matches: 500, Mismatches: 81, Indels: 16
0.84 0.14 0.03
Matches are distributed among these distances:
26 26 0.05
27 471 0.94
28 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
GGGGTATTTCGGTAATTTTACAAACTG
Found at i:52732355 original size:22 final size:22
Alignment explanation
Indices: 52732330--52732371 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
52732320 CATAGCATAC
52732330 GTCACACACCTGATCACGTACG
1 GTCACACACCTGATCACGTACG
52732352 GTCACACACCTGATCACGTA
1 GTCACACACCTGATCACGTA
52732372 GACTACTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.19
Consensus pattern (22 bp):
GTCACACACCTGATCACGTACG
Found at i:52745564 original size:8 final size:8
Alignment explanation
Indices: 52745541--52745593 Score: 70
Period size: 8 Copynumber: 6.6 Consensus size: 8
52745531 ATGTATCGGC
*
52745541 AAAAGCTG
1 AAAAGCCG
*
52745549 AAATGCCG
1 AAAAGCCG
52745557 AAAAGCCG
1 AAAAGCCG
52745565 AAAAGCCG
1 AAAAGCCG
*
52745573 AAAAGTCG
1 AAAAGCCG
*
52745581 AAATGCCG
1 AAAAGCCG
52745589 AAAAG
1 AAAAG
52745594 TAGAAAGTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 38 1.00
ACGTcount: A:0.49, C:0.19, G:0.25, T:0.08
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52745594 original size:16 final size:16
Alignment explanation
Indices: 52745548--52745599 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
52745538 GGCAAAAGCT
*
52745548 GAAATGCCGAAAAGCC
1 GAAATGCCGAAAAGTC
*
52745564 GAAAAGCCGAAAAGTC
1 GAAATGCCGAAAAGTC
*
52745580 GAAATGCCGAAAAGTA
1 GAAATGCCGAAAAGTC
52745596 GAAA
1 GAAA
52745600 GTTTGGCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.50, C:0.17, G:0.25, T:0.08
Consensus pattern (16 bp):
GAAATGCCGAAAAGTC
Found at i:52745858 original size:27 final size:29
Alignment explanation
Indices: 52745823--52745897 Score: 100
Period size: 29 Copynumber: 2.7 Consensus size: 29
52745813 TGAACGTGAC
* * *
52745823 TGGGCCTAACGGGCCATA-A-ATGTGATT
1 TGGGACTAATGGGCCATATACAGGTGATT
*
52745850 TGGGTCTAATGGGCCATATACAGGTGATT
1 TGGGACTAATGGGCCATATACAGGTGATT
52745879 TGGGACTAATGGGCCATAT
1 TGGGACTAATGGGCCATAT
52745898 GAATATGATA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
27 16 0.38
28 1 0.02
29 25 0.60
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGGACTAATGGGCCATATACAGGTGATT
Found at i:52745906 original size:29 final size:28
Alignment explanation
Indices: 52745823--52745906 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 28
52745813 TGAACGTGAC
* *
52745823 TGGGCCTAACGGGCCATA-AATGTGATT
1 TGGGACTAATGGGCCATATAATGTGATT
* *
52745850 TGGGTCTAATGGGCCATATACAGGTGATT
1 TGGGACTAATGGGCCATATA-ATGTGATT
*
52745879 TGGGACTAATGGGCCATATGAATATGAT
1 TGGGACTAATGGGCCATAT-AATGTGAT
52745907 AGGGCTTAGT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.33
28 1 0.02
29 30 0.62
30 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (28 bp):
TGGGACTAATGGGCCATATAATGTGATT
Found at i:52752060 original size:8 final size:8
Alignment explanation
Indices: 52752046--52752079 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
52752036 TAACACCCTA
52752046 AAAATCCC
1 AAAATCCC
* *
52752054 GAAATCCA
1 AAAATCCC
52752062 AAAATCCC
1 AAAATCCC
52752070 AAAATCCC
1 AAAATCCC
52752078 AA
1 AA
52752080 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.32, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAATCCC
Found at i:52753396 original size:29 final size:28
Alignment explanation
Indices: 52753340--52753438 Score: 92
Period size: 29 Copynumber: 3.5 Consensus size: 28
52753330 ATGAGCATGA
* * *
52753340 ATATGAATGTGA-CTGGGACTAACGGGCC
1 ATATAAATGTGATTTGGGACTAA-TGGCC
*
52753368 ATATAAATGTGATTTGGGCCTAATAGGCC
1 ATATAAATGTGATTTGGGACTAAT-GGCC
* *
52753397 ATATACAGGTGATTTGGGACTAATGAGCC
1 ATATAAATGTGATTTGGGACTAATG-GCC
* *
52753426 ATATGAATATGAT
1 ATATAAATGTGAT
52753439 AGGGCTTAGT
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
28 12 0.21
29 45 0.79
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (28 bp):
ATATAAATGTGATTTGGGACTAATGGCC
Found at i:52757310 original size:19 final size:19
Alignment explanation
Indices: 52757286--52757327 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
52757276 GCAAAAACCA
52757286 CATCCATGAAAGGCATCAT
1 CATCCATGAAAGGCATCAT
52757305 CATCCATGAAAGGCATCAT
1 CATCCATGAAAGGCATCAT
52757324 CATC
1 CATC
52757328 ATGCCAATAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.29, G:0.14, T:0.21
Consensus pattern (19 bp):
CATCCATGAAAGGCATCAT
Found at i:52759852 original size:15 final size:15
Alignment explanation
Indices: 52759832--52759869 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
52759822 CCTTTAGAAA
*
52759832 TTAAATTAAACTAAG
1 TTAAATAAAACTAAG
52759847 TTAAATAAAACTAA-
1 TTAAATAAAACTAAG
52759861 TATAAATAA
1 T-TAAATAA
52759870 GTAAAATAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 1 0.05
15 20 0.95
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.32
Consensus pattern (15 bp):
TTAAATAAAACTAAG
Found at i:52761119 original size:25 final size:25
Alignment explanation
Indices: 52761091--52761160 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
52761081 CTCTTTTAAT
*
52761091 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
52761116 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
52761141 AACTGGGGCATAA-CCCTTTT
1 AACTGGGGCA-AAGCCCTTTT
52761161 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
25 40 0.95
26 2 0.05
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:52761524 original size:27 final size:27
Alignment explanation
Indices: 52761392--52761527 Score: 200
Period size: 27 Copynumber: 5.0 Consensus size: 27
52761382 GTATCTCAAA
* *
52761392 AATTCTACCTTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
52761419 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAGGGGTATTTCGAT
* * *
52761446 AATTCTACCCTATAAGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
52761473 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCGAT
*
52761500 AACTCTACCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAGGGGTATTTCGAT
52761527 A
1 A
52761528 TTTTACAAAT
Statistics
Matches: 100, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 100 1.00
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCGAT
Found at i:52761581 original size:27 final size:27
Alignment explanation
Indices: 52761512--52761638 Score: 134
Period size: 27 Copynumber: 4.8 Consensus size: 27
52761502 CTCTACCCTA
* *
52761512 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
* * * *
52761538 C-GAGTTATTTTGATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*
52761564 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAT
**
52761591 CAGGGGTATTTTGGTAATTTTACTGAT
1 CAGGGGTATTTTGGTAATTTTACAAAT
*
52761618 C-GAGGGCATTTTGGTAATTTT
1 CAG-GGGTATTTTGGTAATTTT
52761639 GAAAACCAAG
Statistics
Matches: 85, Mismatches: 13, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
25 10 0.12
26 13 0.15
27 62 0.73
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAT
Found at i:52761609 original size:54 final size:54
Alignment explanation
Indices: 52761512--52761664 Score: 134
Period size: 54 Copynumber: 2.9 Consensus size: 54
52761502 CTCTACCCTA
* * * * * *
52761512 CAGGGGTATTTCGAT-ATTTTACAAATC-GAGTTATTTTGATAATTTCACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTCACAAAT
* * **
52761564 CAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGAT
1 CAGGGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTCACAAAT
* * **
52761618 C-GAGGGCATTTTGGTAATTTTGA-AAACCAAGGATATTTCAGTAATTT
1 CAG-GGGTATTTTGGTAATTTT-ACAAACCAGGGATATTTTGGTAATTT
52761665 TGTAAATCGA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
52 13 0.16
53 12 0.14
54 57 0.69
55 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.39
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTACAAACCAGGGATATTTTGGTAATTTCACAAAT
Found at i:52761655 original size:27 final size:27
Alignment explanation
Indices: 52761543--52761665 Score: 113
Period size: 27 Copynumber: 4.6 Consensus size: 27
52761533 CAAATCGAGT
* * * *
52761543 TATTTTGATAATTTCACAAATCAGGGG
1 TATTTTGGTAATTTTACAAACCAAGGG
*
52761570 TATTTTGGTAATTTTACAAACCAGGGG
1 TATTTTGGTAATTTTACAAACCAAGGG
** * *
52761597 TATTTTGGTAATTTTACTGATCGAGGG
1 TATTTTGGTAATTTTACAAACCAAGGG
* *
52761624 CATTTTGGTAATTTTGA-AAACCAAGGA
1 TATTTTGGTAATTTT-ACAAACCAAGGG
**
52761651 TATTTCAGTAATTTT
1 TATTTTGGTAATTTT
52761666 GTAAATCGAG
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
27 77 0.99
28 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.41
Consensus pattern (27 bp):
TATTTTGGTAATTTTACAAACCAAGGG
Found at i:52766361 original size:24 final size:24
Alignment explanation
Indices: 52766324--52766392 Score: 70
Period size: 23 Copynumber: 2.9 Consensus size: 24
52766314 TACTAATATA
*
52766324 TCAGCTCGTAAGAGCTTATTGTTT
1 TCAGCTCGAAAGAGCTTATTGTTT
** **
52766348 TCAGCTCGCCAGAGCTTACCG-TT
1 TCAGCTCGAAAGAGCTTATTGTTT
52766371 TCAGCTC-AATAGAGCTTATTGT
1 TCAGCTCGAA-AGAGCTTATTGT
52766393 CCATCAGCTC
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
23 18 0.51
24 17 0.49
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (24 bp):
TCAGCTCGAAAGAGCTTATTGTTT
Found at i:52766590 original size:19 final size:19
Alignment explanation
Indices: 52766568--52766644 Score: 57
Period size: 19 Copynumber: 4.0 Consensus size: 19
52766558 TGTTACACGG
52766568 ATAAATTACTGTTATATGA
1 ATAAATTACTGTTATATGA
* * * *
52766587 ATAAAGTACTATTTATAAGG
1 ATAAATTACT-GTTATATGA
* * *
52766607 ATGAGTTACTGTTAT-CGA
1 ATAAATTACTGTTATATGA
*
52766625 ATGAATTACTGTTTATATGA
1 ATAAATTACTG-TTATATGA
52766645 TTGAGAGTGA
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
18 11 0.26
19 17 0.40
20 15 0.35
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (19 bp):
ATAAATTACTGTTATATGA
Found at i:52770184 original size:14 final size:14
Alignment explanation
Indices: 52770165--52770198 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
52770155 AGGTATGGGC
52770165 ATTATGAATTTCTT
1 ATTATGAATTTCTT
*
52770179 ATTATGGATTTCTT
1 ATTATGAATTTCTT
*
52770193 GTTATG
1 ATTATG
52770199 CTTTCCAGAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.56
Consensus pattern (14 bp):
ATTATGAATTTCTT
Found at i:52772443 original size:14 final size:14
Alignment explanation
Indices: 52772424--52772454 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52772414 TTTTCTTAAC
*
52772424 CGGTTCGGTTCACT
1 CGGTTCGGTTCAAT
52772438 CGGTTCGGTTCAAT
1 CGGTTCGGTTCAAT
52772452 CGG
1 CGG
52772455 ACCATTTTTC
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:0.10, C:0.26, G:0.32, T:0.32
Consensus pattern (14 bp):
CGGTTCGGTTCAAT
Found at i:52790490 original size:80 final size:78
Alignment explanation
Indices: 52790288--52790509 Score: 284
Period size: 80 Copynumber: 2.8 Consensus size: 78
52790278 TATTCGGATG
* * *
52790288 ATAACCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGCCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTG-CTATA-T-CGGGCTAAGTCCCGAAGGC
52790352 ATTTGTGCGAGTTACT
63 ATTTGTGCGAGTTACT
* *
52790368 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTATATC-GGGCTAAGTCCCGAAGGCA
52790433 TTTGTGCGAGTTACT
64 TTTGTGCGAGTTACT
** * * * *
52790448 ATAACCGGGCTAAGTCCCGAAGGCATTTGAACGAATCGCTATATCCGGCTAAATCTCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTATATCGGGCTAAGTCCCGAAGG
52790510 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.13
80 107 0.86
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (78 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTATATCGGGCTAAGTCCCGAAGGCATT
TGTGCGAGTTACT
Found at i:52790509 original size:39 final size:40
Alignment explanation
Indices: 52790292--52790476 Score: 300
Period size: 40 Copynumber: 4.6 Consensus size: 40
52790282 CGGATGATAA
* * *
52790292 CCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
52790332 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52790372 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
52790412 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
52790452 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
52790477 AACGAATCGC
Statistics
Matches: 136, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
40 135 0.99
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:52793387 original size:31 final size:31
Alignment explanation
Indices: 52793328--52793387 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
52793318 ACCAAATGTT
* *
52793328 TAAAATATAAATTATATATTTAAAAATAACA
1 TAAAATATAAATTATAAAATTAAAAATAACA
*
52793359 TAAAATATATAATT-TAAAATTAATAATAA
1 TAAAATATA-AATTATAAAATTAAAAATAA
52793388 TAACACATGA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (31 bp):
TAAAATATAAATTATAAAATTAAAAATAACA
Found at i:52793426 original size:36 final size:33
Alignment explanation
Indices: 52793328--52793427 Score: 82
Period size: 38 Copynumber: 2.9 Consensus size: 33
52793318 ACCAAATGTT
* *
52793328 TAAAATATA-AA-TTATATATTTAAAAAT-AACA
1 TAAAATATATAATTTA-AAATTAAAAAATAAACA
52793359 TAAAATATATAATTTAAAATTAATAATAATAACACA
1 TAAAATATATAATTTAAAATTAA-AA-AATAA-ACA
*
52793395 TGAAATATATATGATATTAAAA-TAAAAAATAAA
1 T-AAA-ATATATAAT-TTAAAATTAAAAAATAAA
52793428 TTAAATTATA
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
31 9 0.16
32 7 0.12
33 5 0.09
34 3 0.05
35 2 0.04
36 9 0.16
37 5 0.09
38 11 0.19
39 6 0.11
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (33 bp):
TAAAATATATAATTTAAAATTAAAAAATAAACA
Found at i:52796212 original size:19 final size:19
Alignment explanation
Indices: 52796184--52796232 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
52796174 TCCTTTTTCT
* * *
52796184 TTTCTGGGTTCATTAAATA
1 TTTCTAGGTTCATCAAACA
*
52796203 TTTCTAGGTTCATCCAACA
1 TTTCTAGGTTCATCAAACA
52796222 TTTCTAGGTTC
1 TTTCTAGGTTC
52796233 CTTTGAAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.45
Consensus pattern (19 bp):
TTTCTAGGTTCATCAAACA
Found at i:52796997 original size:19 final size:19
Alignment explanation
Indices: 52796973--52797021 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
52796963 GAGAATTAAA
52796973 AGAAAAGAAAAAAGAAAAG
1 AGAAAAGAAAAAAGAAAAG
** *
52796992 AGAAAAGAAAATGGAAACG
1 AGAAAAGAAAAAAGAAAAG
52797011 AGAAAGAGAAA
1 AGAAA-AGAAA
52797022 GAGAAAGGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 21 0.81
20 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.24, T:0.02
Consensus pattern (19 bp):
AGAAAAGAAAAAAGAAAAG
Found at i:52796998 original size:7 final size:7
Alignment explanation
Indices: 52796973--52797027 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 7
52796963 GAGAATTAAA
52796973 AGAAAAG
1 AGAAAAG
52796980 A-AAAA-
1 AGAAAAG
52796985 AGAAAAG
1 AGAAAAG
52796992 AGAAAAG
1 AGAAAAG
*
52796999 A-AAATG
1 AGAAAAG
*
52797005 -GAAACG
1 AGAAAAG
52797011 AG-AAAG
1 AGAAAAG
52797017 AG-AAAG
1 AGAAAAG
52797023 AGAAA
1 AGAAA
52797028 GGGAAAGGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
5 1 0.03
6 27 0.68
7 12 0.30
ACGTcount: A:0.71, C:0.02, G:0.25, T:0.02
Consensus pattern (7 bp):
AGAAAAG
Found at i:52797008 original size:12 final size:12
Alignment explanation
Indices: 52796970--52797027 Score: 64
Period size: 12 Copynumber: 4.7 Consensus size: 12
52796960 GAGGAGAATT
*
52796970 AAAAGAAAAGAA
1 AAAAGAAAAGAG
52796982 AAAAGAAAAGAG
1 AAAAGAAAAGAG
52796994 AAAAGAAAATG-G
1 AAAAGAAAA-GAG
*
52797006 AAACGAGAAAGAG
1 AAAAGA-AAAGAG
52797019 AAAGAGAAA
1 AAA-AGAAA
52797028 GGGAAAGGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
12 27 0.69
13 10 0.26
14 2 0.05
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAGAG
Found at i:52797021 original size:6 final size:6
Alignment explanation
Indices: 52796983--52797051 Score: 54
Period size: 6 Copynumber: 11.5 Consensus size: 6
52796973 AGAAAAGAAA
*
52796983 AAAGA- AAAGAG AAA-AG AAA-ATGG AAACGAG AAAGAG AAAGAG AAAGGG
1 AAAGAG AAAGAG AAAGAG AAAGA--G AAA-GAG AAAGAG AAAGAG AAAGAG
* * *
52797031 AAAGGG AAAGGG AAAGTG AAA
1 AAAGAG AAAGAG AAAGAG AAA
52797052 AATGAAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
5 11 0.19
6 37 0.65
7 8 0.14
9 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.33, T:0.03
Consensus pattern (6 bp):
AAAGAG
Found at i:52799262 original size:60 final size:60
Alignment explanation
Indices: 52799197--52799322 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
52799187 TTTTTTTTTA
* * *
52799197 TTTTTTAGTCACTCAACTATAAAAAAGTTACAAAATGGTCACCAAACTATTAGTAA-TTT-TC
1 TTTTTTAATCACCCAACTAT-AAAAAGATACAAAATGGTCACCAAACTATT--TAATTTTGTC
* * *
52799258 TTTTTTAATCACCCAACTATGAAAAGATACAAAATGGTTACCTAACTATTTAATTTTGTC
1 TTTTTTAATCACCCAACTATAAAAAGATACAAAATGGTCACCAAACTATTTAATTTTGTC
52799318 TTTTT
1 TTTTT
52799323 ATGGTCATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
58 3 0.05
59 3 0.05
60 33 0.58
61 18 0.32
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.40
Consensus pattern (60 bp):
TTTTTTAATCACCCAACTATAAAAAGATACAAAATGGTCACCAAACTATTTAATTTTGTC
Found at i:52801885 original size:40 final size:40
Alignment explanation
Indices: 52801803--52802023 Score: 182
Period size: 40 Copynumber: 5.5 Consensus size: 40
52801793 CTCAAGAAAT
* *
52801803 CTTCGGGAT-TTAG-CCGGATATAA-CTACTTGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* ** *
52801841 CTTCGGGTCTTAGCCCGGATGTGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* *
52801881 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
* * ** *
52801921 GTTCGGGTCTTAGCCCGGATAT-AGCAACTCTCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCACAAATGC
* * * * * *
52801961 CTTCAGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAATCA-CTAGCACAAATGC
* *
52802002 CTTCGGGACTTAGCTCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
52802024 CATTCGAATA
Statistics
Matches: 140, Mismatches: 36, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
37 1 0.01
38 11 0.08
39 15 0.11
40 87 0.62
41 26 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAATCACTAGCACAAATGC
Found at i:52804350 original size:40 final size:40
Alignment explanation
Indices: 52804288--52804364 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
52804278 ACGGTACCAT
*
52804288 TTGGTGTGTAGGGTTGGATGGGTTGATTATATCCCCATAC
1 TTGGTGTGTAGGGCTGGATGGGTTGATTATATCCCCATAC
* *
52804328 TTGGTGTGTAGGGCTGGGTGGGTTGATTCTATCCCCA
1 TTGGTGTGTAGGGCTGGATGGGTTGATTATATCCCCA
52804365 CATGGTATGT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.14, C:0.14, G:0.35, T:0.36
Consensus pattern (40 bp):
TTGGTGTGTAGGGCTGGATGGGTTGATTATATCCCCATAC
Found at i:52804668 original size:18 final size:18
Alignment explanation
Indices: 52804645--52804698 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
52804635 CCACCACCAA
52804645 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
52804663 CTCCACCA-CCA-A----
1 CTCCACTAGCCACACTTG
52804675 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
52804693 CTCCAC
1 CTCCAC
52804699 CACCTACTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 7 0.25
13 3 0.11
14 1 0.04
16 1 0.04
17 3 0.11
18 13 0.46
ACGTcount: A:0.24, C:0.50, G:0.07, T:0.19
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:52804671 original size:30 final size:30
Alignment explanation
Indices: 52804635--52804731 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
52804625 CTAGCCTTTC
52804635 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
52804665 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* **
52804695 CCACCACCTACTGTACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
52804725 CCACCAC
1 CCACCAC
52804732 TACTTGTACC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.26, C:0.49, G:0.07, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:52804910 original size:16 final size:16
Alignment explanation
Indices: 52804891--52804926 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
52804881 CAAGGAGAAG
*
52804891 AGTTATTGTAAAGGCT
1 AGTTATTGGAAAGGCT
*
52804907 AGTTTTTGGAAAGGCT
1 AGTTATTGGAAAGGCT
52804923 AGTT
1 AGTT
52804927 TTTTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.28, T:0.39
Consensus pattern (16 bp):
AGTTATTGGAAAGGCT
Found at i:52805251 original size:23 final size:23
Alignment explanation
Indices: 52805214--52805343 Score: 86
Period size: 25 Copynumber: 5.5 Consensus size: 23
52805204 TTTTTTTTGT
*
52805214 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATACTA
* *
52805237 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATACTA
** * *
52805259 TATTAGGTATATTCTAAATTCTA
1 TATTATATATATTCTTAATACTA
*
52805282 TATTACGTATATATATGTT-ATACTA
1 TATTA--TATATAT-TCTTAATACTA
* *
52805307 TTTTATGTATATATCTTTAATACTA
1 TATTATATATAT-TC-TTAATACTA
*
52805332 TATTATTTATAT
1 TATTATATATAT
52805344 ATATATATAT
Statistics
Matches: 82, Mismatches: 18, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
22 17 0.21
23 27 0.33
24 6 0.07
25 30 0.37
26 2 0.02
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (23 bp):
TATTATATATATTCTTAATACTA
Found at i:52805523 original size:25 final size:24
Alignment explanation
Indices: 52805495--52805550 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
52805485 GTTATATTTT
*
52805495 CACTATTTTAT-GTATATACTTCAAA
1 CACTATTATATAGTATAT--TTCAAA
*
52805520 CACTA-TATATAGTATATTTCTAA
1 CACTATTATATAGTATATTTCAAA
52805543 CACTATTA
1 CACTATTA
52805551 CTATTTATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 10 0.37
24 6 0.22
25 11 0.41
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (24 bp):
CACTATTATATAGTATATTTCAAA
Found at i:52807306 original size:125 final size:125
Alignment explanation
Indices: 52807059--52807299 Score: 351
Period size: 125 Copynumber: 1.9 Consensus size: 125
52807049 TTAAGAAAGA
* *
52807059 TTTCAAAATTTTAAAAATAAATTTACTTGTTTGGGTAAAAATATTGAAAAATTTTAGAACTTGTG
1 TTTCAAAATTCTAAAAATAAATTTACTTGTTTGGGTAAAAATATTGAAAAATTTCAGAACTTGTG
* * * *
52807124 AGTAATTTTAAAAGGGGATTTCAACAGCTCAATTTTCTTTTCCAAATTCTAACTAAAGGT
66 AGTAATTTCAAAAGGAGATTTCAAAAGATCAATTTTCTTTTCCAAATTCTAACTAAAGGT
* * *
52807184 TTTCAAAAATTCTAAAAATGAAATTT-CTTTTTTGGGTAAATATATTGGAAAATTTCA-AACTTG
1 TTTC-AAAATTCTAAAAAT-AAATTTACTTGTTTGGGTAAAAATATTGAAAAATTTCAGAACTTG
* *
52807247 TGAGTAATTTCAAAAGGAGATTTCAAAAGATGAATTTTCTTTTTCAAATTCTA
64 TGAGTAATTTCAAAAGGAGATTTCAAAAGATCAATTTTCTTTTCCAAATTCTA
52807300 CTTAAAGAGG
Statistics
Matches: 103, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
125 57 0.55
126 40 0.39
127 6 0.06
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.40
Consensus pattern (125 bp):
TTTCAAAATTCTAAAAATAAATTTACTTGTTTGGGTAAAAATATTGAAAAATTTCAGAACTTGTG
AGTAATTTCAAAAGGAGATTTCAAAAGATCAATTTTCTTTTCCAAATTCTAACTAAAGGT
Found at i:52807388 original size:13 final size:13
Alignment explanation
Indices: 52807370--52807395 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52807360 CAAAGTGAAC
52807370 CAAAAAAAAAATT
1 CAAAAAAAAAATT
52807383 CAAAAAAAAAATT
1 CAAAAAAAAAATT
52807396 ATTTAATTAT
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
CAAAAAAAAAATT
Found at i:52816544 original size:34 final size:34
Alignment explanation
Indices: 52816501--52816568 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
52816491 GAGTCCTAGT
52816501 TGAGACTAGTTTCGACTTGCCCTTTCCCATAATA
1 TGAGACTAGTTTCGACTTGCCCTTTCCCATAATA
52816535 TGAGACTAGTTTCGACTTGCCCTTTCCCATAATA
1 TGAGACTAGTTTCGACTTGCCCTTTCCCATAATA
52816569 ATAATTTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (34 bp):
TGAGACTAGTTTCGACTTGCCCTTTCCCATAATA
Found at i:52821851 original size:50 final size:49
Alignment explanation
Indices: 52821733--52821963 Score: 284
Period size: 50 Copynumber: 4.7 Consensus size: 49
52821723 CTAGTATGCA
* * *
52821733 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
** *
52821782 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCTGGTACACG
* * * ** *
52821832 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCTGGTACACG
* * *
52821883 TAGTAG-CTTCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
*
52821931 TAGTAGCCTGCACTTAGTACTACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
52821964 TCACAATAGA
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
48 16 0.11
49 56 0.37
50 64 0.43
51 14 0.09
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGGTACACG
Found at i:52821923 original size:99 final size:99
Alignment explanation
Indices: 52821733--52821963 Score: 304
Period size: 99 Copynumber: 2.3 Consensus size: 99
52821723 CTAGTATGCA
*** *
52821733 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
*
52821798 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACGCGACCTAACCATCTGATACACG
* * ** *
52821832 TAGTAGCCTGCACTTAGTACTACACACATGATCGAAGTTATCGGGTATGCATAGTAG-CTTCACT
1 TAGTAGCCTGCACTTAGTACTACACACATGA-CCAA-TTATCCGGTACACATAGTAGCCTGCACT
* ** *
52821896 TAGTACTACACATGCGACC-AATTATCTGGTACACG
64 TAGTACTACACACGCGACCTAACCATCTGATACACG
52821931 TAGTAGCCTGCACTTAGTACTACACACATGACC
1 TAGTAGCCTGCACTTAGTACTACACACATGACC
52821964 TCACAATAGA
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
98 1 0.01
99 72 0.63
100 26 0.23
101 16 0.14
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACATAGTAGCCTGCACTTA
GTACTACACACGCGACCTAACCATCTGATACACG
Found at i:52822240 original size:27 final size:27
Alignment explanation
Indices: 52822210--52822263 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52822200 TCATACAACC
* *
52822210 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
52822237 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
52822264 TCACAAGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:52826725 original size:47 final size:48
Alignment explanation
Indices: 52826656--52826917 Score: 176
Period size: 47 Copynumber: 5.5 Consensus size: 48
52826646 TTTGTGTGCT
* *
52826656 AGTGTAAGA-CATATCTGGGACAT-ACATCGGCCACATTATGAGAGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGGC
* * *
52826702 AGTGTAAGACCATGTCTGGGACATGGCATTGG---CATTAAGACAAGAGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGA-GAG-GC
* ** * * *
52826749 TAGTGTAAGA-CATGTCTGGGATAT-ATATCGGCCTCGA-GATGTA-AGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTATG-AGAGGC
* * * *
52826796 AGTGTAAGACCATGTATGGGACATGGCATCGGCCTCGATT-TCGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCAC-ATTAT-GAGAGGC
*
52826845 AGTGTAAGACCATGTATGGGACATGGCATC-G--AC-TTGATG-GATGGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATT-ATGAGA--GGC
52826891 TAGTGTAAGACCATGTCTGGGACATGG
1 -AGTGTAAGACCATGTCTGGGACATGG
52826918 AATCAGTATT
Statistics
Matches: 174, Mismatches: 22, Indels: 39
0.74 0.09 0.17
Matches are distributed among these distances:
44 3 0.02
45 8 0.05
46 28 0.16
47 66 0.38
48 30 0.17
49 37 0.21
50 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGGC
Found at i:52826816 original size:94 final size:94
Alignment explanation
Indices: 52826653--52826824 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 94
52826643 TCATTTGTGT
* * *
52826653 GCTAGTGTAAGACATATCTGGGACATACATCGGCCACATTATGAGAGGCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATATCTGGGACATACATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTA
52826718 TGGGACATGGCATTGGCATTAAGACAAGA
66 TGGGACATGGCATTGGCATTAAGACAAGA
* * * *
52826747 GCTAGTGTAAGACATGTCTGGGATATATATCGGCCTCGA-GATGTA-AGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATATCTGGGACATACATCGGCCAC-ATGATG-AGAGCCAGTGTAAGACCATG
52826810 TATGGGACATGGCAT
64 TATGGGACATGGCAT
52826825 CGGCCTCGAT
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
94 67 0.97
95 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.24
Consensus pattern (94 bp):
GCTAGTGTAAGACATATCTGGGACATACATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTA
TGGGACATGGCATTGGCATTAAGACAAGA
Found at i:52826854 original size:49 final size:46
Alignment explanation
Indices: 52826795--52826917 Score: 156
Period size: 49 Copynumber: 2.6 Consensus size: 46
52826785 AGATGTAAGC
* *
52826795 CAGTGTAAGACCATGTATGGGACATGGCATCGGCCTCGATTTCGATAGT
1 CAGTGTAAGACCATGTATGGGACATGGCATC-GACTCGA--TCGATAGG
* * *
52826844 CAGTGTAAGACCATGTATGGGACATGGCATCGACTTGATGGATGGG
1 CAGTGTAAGACCATGTATGGGACATGGCATCGACTCGATCGATAGG
*
52826890 CTAGTGTAAGACCATGTCTGGGACATGG
1 C-AGTGTAAGACCATGTATGGGACATGG
52826918 AATCAGTATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 6 0.09
47 25 0.37
48 5 0.07
49 31 0.46
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (46 bp):
CAGTGTAAGACCATGTATGGGACATGGCATCGACTCGATCGATAGG
Found at i:52828009 original size:40 final size:40
Alignment explanation
Indices: 52827944--52828037 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
52827934 CCAACTCCGT
* * *
52827944 CCAACCCAACACACC--ATGTGGGGATAAAATCGACCCAC
1 CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
* * * *
52827982 CCATCCCTACACACCAAATATGGGGATAATATCAACCTAT
1 CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
52828022 CCAACCCTACACACCA
1 CCAACCCTACACACCA
52828038 TAAGGTACCG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 13 0.28
40 33 0.72
ACGTcount: A:0.37, C:0.37, G:0.11, T:0.15
Consensus pattern (40 bp):
CCAACCCTACACACCAAATATGGGGATAAAATCAACCCAC
Found at i:52831146 original size:33 final size:33
Alignment explanation
Indices: 52831109--52831173 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
52831099 AATTGTAGGC
52831109 TAATAATAAAGGGTGTGTAAAAAAATTCTAAAT
1 TAATAATAAAGGGTGTGTAAAAAAATTCTAAAT
52831142 TAATAATAAAGGGTGTGTAAAAAAATTCTAAA
1 TAATAATAAAGGGTGTGTAAAAAAATTCTAAA
52831174 CCGAAAAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.29
Consensus pattern (33 bp):
TAATAATAAAGGGTGTGTAAAAAAATTCTAAAT
Found at i:52831749 original size:71 final size:70
Alignment explanation
Indices: 52831623--52831766 Score: 236
Period size: 71 Copynumber: 2.0 Consensus size: 70
52831613 AAATTTTTTG
*
52831623 ATTTTTAATATTAATATTTTTTATAATAAATTTGAAATAAATTAAAATTAAAAGTAATACAATAT
1 ATTTTTAATATTAATATTTTTTATAATAAATTTGAAATAAATTAAAATTAAAAGTAATAAAATAT
52831688 ACTAA
66 ACTAA
* *
52831693 ATTTTTAATTTTTAAT-TTTTTTATAATGAATTTGAAATAAAATTAAAATTAAAAGTAATAAAAT
1 ATTTTTAA-TATTAATATTTTTTATAATAAATTTGAAAT-AAATTAAAATTAAAAGTAATAAAAT
52831757 ATACTAA
64 ATACTAA
52831764 ATT
1 ATT
52831767 GAAGAAAGAA
Statistics
Matches: 69, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
70 29 0.42
71 40 0.58
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.44
Consensus pattern (70 bp):
ATTTTTAATATTAATATTTTTTATAATAAATTTGAAATAAATTAAAATTAAAAGTAATAAAATAT
ACTAA
Found at i:52841592 original size:13 final size:13
Alignment explanation
Indices: 52841574--52841599 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52841564 CCTAAAATCC
52841574 ACATGCTCGTGTG
1 ACATGCTCGTGTG
52841587 ACATGCTCGTGTG
1 ACATGCTCGTGTG
52841600 GGCCCACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
ACATGCTCGTGTG
Found at i:52842280 original size:13 final size:13
Alignment explanation
Indices: 52842250--52842274 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52842240 TGTAAAAAGA
52842250 AATAAAAGAAAAT
1 AATAAAAGAAAAT
52842263 AATAAAAGAAAA
1 AATAAAAGAAAA
52842275 ATATAATCTA
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:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (13 bp):
AATAAAAGAAAAT
Found at i:52848978 original size:6 final size:6
Alignment explanation
Indices: 52848967--52849009 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
52848957 AAAGGTCAGA
*
52848967 TTTTAT TTTTATTT GTTTTAT TTTTAT TTTTCT TTTTAT TTTT
1 TTTTAT TTTTA--T -TTTTAT TTTTAT TTTTAT TTTTAT TTTT
52849010 GTGATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 25 0.78
7 1 0.03
8 1 0.03
9 5 0.16
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:52848985 original size:15 final size:15
Alignment explanation
Indices: 52848967--52848995 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52848957 AAAGGTCAGA
52848967 TTTTATTTTTATTTG
1 TTTTATTTTTATTTG
52848982 TTTTATTTTTATTT
1 TTTTATTTTTATTT
52848996 TTCTTTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTATTTTTATTTG
Found at i:52853445 original size:55 final size:55
Alignment explanation
Indices: 52853361--52853470 Score: 202
Period size: 55 Copynumber: 2.0 Consensus size: 55
52853351 TAATAACTCA
*
52853361 TTTGTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCTGAAATTCGGT
1 TTTGTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGT
*
52853416 TTTGTAAAATTGTTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGT
1 TTTGTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGT
52853471 CTAAACTCTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (55 bp):
TTTGTAAAATTATTTCAGATCACTTCGGTGATCAATGTGACCTCCGAAATTCGGT
Found at i:52854903 original size:19 final size:19
Alignment explanation
Indices: 52854879--52854917 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
52854869 TGACTCTTGA
52854879 TTTAATTTTAACCAATTAT
1 TTTAATTTTAACCAATTAT
*
52854898 TTTAATTTTAATCAATTAT
1 TTTAATTTTAACCAATTAT
52854917 T
1 T
52854918 AAAAGTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTAATTTTAACCAATTAT
Found at i:52858100 original size:26 final size:26
Alignment explanation
Indices: 52858071--52858151 Score: 153
Period size: 26 Copynumber: 3.1 Consensus size: 26
52858061 ATAAAAAATT
*
52858071 ATAATGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
52858097 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
52858123 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
52858149 ATA
1 ATA
52858152 GGCATTTCAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:52859779 original size:27 final size:26
Alignment explanation
Indices: 52859739--52859877 Score: 151
Period size: 27 Copynumber: 5.2 Consensus size: 26
52859729 AGGAAGTGTC
* *
52859739 CTGGAGGCTATGCCACAATTATCTAAT
1 CTGGTGGCTCTGCCACAATTATCT-AT
*
52859766 CTGGTGGCTCTGCCAC-ATATATCTGT
1 CTGGTGGCTCTGCCACAAT-TATCTAT
*
52859792 CCTGGTGGCTATG-CACAATTATCTAT
1 -CTGGTGGCTCTGCCACAATTATCTAT
52859818 CTGGTGGCTCTGCCAC-ATATATCTATT
1 CTGGTGGCTCTGCCACAAT-TATCTA-T
52859845 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATC--TAT
52859872 CTGGTG
1 CTGGTG
52859878 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 18
0.80 0.05 0.15
Matches are distributed among these distances:
25 13 0.13
26 25 0.26
27 56 0.58
28 3 0.03
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACAATTATCTAT
Found at i:52859831 original size:52 final size:53
Alignment explanation
Indices: 52859735--52859877 Score: 209
Period size: 52 Copynumber: 2.7 Consensus size: 53
52859725 ATGGAGGAAG
*
52859735 TGTCCTGGAGGCTATGCCACAATTATCTAATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCT-ATCTGGTGGCTCTGCCACATATATC
52859789 TGTCCTGGTGGCTATG-CACAATTATCTATCTGGTGGCTCTGCCACATATATC
1 TGTCCTGGTGGCTATGCCACAATTATCTATCTGGTGGCTCTGCCACATATATC
* * *
52859841 TATTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 TGTCCTGGTGGCTATGCCACAATTATC--TATCTGGTG
52859878 ACTTCGTCAC
Statistics
Matches: 82, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
52 42 0.51
53 16 0.20
54 24 0.29
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (53 bp):
TGTCCTGGTGGCTATGCCACAATTATCTATCTGGTGGCTCTGCCACATATATC
Found at i:52866082 original size:26 final size:26
Alignment explanation
Indices: 52866053--52866132 Score: 151
Period size: 26 Copynumber: 3.1 Consensus size: 26
52866043 ATAAAAAATT
*
52866053 ATAATGGGTTAGGTAAATATTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
52866079 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
52866105 ATAATGGGTTAGGTAAATGTTCCATG
1 ATAATGGGTTAGGTAAATGTTCCATG
52866131 AT
1 AT
52866133 GGGCATTTCA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.33, C:0.07, G:0.25, T:0.35
Consensus pattern (26 bp):
ATAATGGGTTAGGTAAATGTTCCATG
Found at i:52867766 original size:27 final size:27
Alignment explanation
Indices: 52867726--52867812 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
52867716 AGGAAGCGTC
*
52867726 CTGGTGGCTATGCCACAATTATTTGAT
1 CTGGTGGCTCTGCCACAATTATTTGAT
* *
52867753 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATTTGAT
52867780 CTGGTGGCTCTGCCACAA-TATTTGTAT
1 CTGGTGGCTCTGCCACAATTATTTG-AT
52867807 CTGGTG
1 CTGGTG
52867813 ACTTCGTCAC
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
26 7 0.13
27 44 0.85
28 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATTTGAT
Found at i:52872519 original size:27 final size:27
Alignment explanation
Indices: 52872488--52872665 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
52872478 TAAATTGTAC
52872488 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
52872515 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52872541 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
52872569 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
52872597 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
52872624 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
52872651 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
52872666 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:52872602 original size:82 final size:81
Alignment explanation
Indices: 52872489--52872644 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
52872479 AAATTGTACA
* *
52872489 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
52872553 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
52872570 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
52872635 TGCGAGTTGA
65 TGCGAATTGA
52872645 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:52872656 original size:82 final size:81
Alignment explanation
Indices: 52872485--52872665 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
52872475 GATTAAATTG
* *
52872485 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
52872550 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
52872566 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
52872630 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
52872648 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
52872666 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:52881920 original size:21 final size:21
Alignment explanation
Indices: 52881878--52881921 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
52881868 CACAGTGTAG
*
52881878 CAAAGGTAGCCAAAAAGAAAAA
1 CAAAGGTA-CCAAAAAAAAAAA
*
52881900 CAAAGGTACAAAAAAATAAAAA
1 CAAAGGTACCAAAAAA-AAAAA
52881922 TAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.68, C:0.11, G:0.14, T:0.07
Consensus pattern (21 bp):
CAAAGGTACCAAAAAAAAAAA
Found at i:52881922 original size:6 final size:6
Alignment explanation
Indices: 52881911--52881939 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
52881901 AAAGGTACAA
52881911 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
52881940 GAGAAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:52882551 original size:19 final size:19
Alignment explanation
Indices: 52882515--52882550 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
52882505 TTGAAACCTT
52882515 AAAAAATAAAAAGAAAAAG
1 AAAAAATAAAAAGAAAAAG
*
52882534 AAAAAAT-CAAAGAAAAA
1 AAAAAATAAAAAGAAAAA
52882551 ATAAAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.06
Consensus pattern (19 bp):
AAAAAATAAAAAGAAAAAG
Found at i:52882556 original size:19 final size:19
Alignment explanation
Indices: 52882514--52882558 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52882504 CTTGAAACCT
52882514 TAAAAAATAAAAAGAAAAA
1 TAAAAAATAAAAAGAAAAA
* *
52882533 GAAAAAAT-CAAAGAAAAAA
1 TAAAAAATAAAAAG-AAAAA
52882552 TAAAAAA
1 TAAAAAA
52882559 ATTTATTCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.82, C:0.02, G:0.07, T:0.09
Consensus pattern (19 bp):
TAAAAAATAAAAAGAAAAA
Found at i:52884167 original size:178 final size:178
Alignment explanation
Indices: 52883852--52884790 Score: 1088
Period size: 178 Copynumber: 5.3 Consensus size: 178
52883842 AGACGGCAAA
* ** *
52883852 TCTTATCTTCCC-GAGGTAGCAAGGGAGCAGGCCAAAGATTGTAGTCTTATCTTCTTGAAGTAGC
1 TCTTATC-TCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * *
52883916 AAGGAAGCAAACTAAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACG
** * *
52883981 GTGAATCTTATCTT-CTCGAGGTAGCAGGGGAGTAGATTTTAGCCACTAG
130 ACGAATCTTATCTTCCT-GAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* * * *
52884030 TCTTATCTCCCTAAGGTAGCACGAGG-GCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGA
1 TCTTATCTCCCTAAGGTAGCAAG-GGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * *
52884094 AAGGAAGTAGACTGAAGATTGTAGATCTTATCTCCATGAGGCAACAATGGAGCAGATCGAAGACG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACG
* **
52884159 ACGAATCTTATCTTTCTGATATAGCAGGGGAGCAGATTTTAGCCACCAG
130 ACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* *
52884208 CCTTATCTCCCTGAA-GTAGCAAGGGAGCAGGC-CAGAGATTGTAGTCTTATCTTCTTGAGGTAG
1 TCTTATCTCCCT-AAGGTAGCAAGGGAGCAGGCTGA-AGATTGTAGTCTTATCTTCTTGAGGTAG
* * *
52884271 CAAGGAAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGAC
64 CAAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGAC
* *
52884336 AACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAG
129 GACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* * * * *
52884386 CCTTATCTCCCTAAGGAAGCACGAGG-GCAGGCTTAAGATTGTAGTCTTATCTTCCTGAGGTAGC
1 TCTTATCTCCCTAAGGTAGCAAG-GGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * * *
52884450 AAGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTGAGATAGCAGTGGAGCAAATCGAATATG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACG
*
52884515 GCGAATCTTATCTTCCTGAGGTAGCA-GGGAGCAAGATTTTAGCCACCA-
130 ACGAATCTTATCTTCCTGAGGTAGCAGGGGAGC-AGATTTTAGCCACCAG
* **
52884563 TCCTTATCTCACTAAGGTAGCAAGGGAGCAGATTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
1 T-CTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * * * *
52884628 AAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC-TCGAGATAGCAGTGGGGCATATC-AAAAG
65 AAGGAAGCAGACTGAAGATTGTAGATCTTATCTCCAT-GAGGTAGCAATGGAGCAGATCGAAGA-
* * * * * * * *
52884691 CGGCAAATTTTATCTTCCTGAGGTAGTAGGTGAGCAGATTTAAGTCACTAG
128 CGACGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
* * * * * *
52884742 TCTTATATTCCTAAAGTAGCAAGGAAGTAGGTTGAAGATTGTAGATCTT
1 TCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAG-TCTT
52884791 GTCTCTTTAA
Statistics
Matches: 657, Mismatches: 87, Indels: 33
0.85 0.11 0.04
Matches are distributed among these distances:
177 21 0.03
178 617 0.94
179 19 0.03
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (178 bp):
TCTTATCTCCCTAAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCTTGAGGTAGCA
AGGAAGCAGACTGAAGATTGTAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGACGA
CGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACCAG
Found at i:52884316 original size:45 final size:43
Alignment explanation
Indices: 52883850--52884673 Score: 334
Period size: 44 Copynumber: 18.5 Consensus size: 43
52883840 GAAGACGGCA
* ****
52883850 AATCTTATCTTCCCGAGGTAGCAAGGGAGCAGGCCAAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * * * * *
52883894 AGTCTTATCTTCTTGAAGTAGCAAGGAAGCAAACTAAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * *
52883938 AAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATGGT
1 -AATCTTATCTCC-TGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * ** ****
52883983 GAATCTTATCTTCTCGAGGTAGCAGGGGAGTAGATTTTAGCCACT
1 -AATCTTATCTCCT-GAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * **
52884028 AGTCTTATCTCCCTAAGGTAGCACGAGG-GCAGGCTGAAGATTGT
1 AATCTTATCT-CCTGAGGTAGCAAG-GGAGCAGATTGAAGATTGT
* * * * * *
52884072 AGTCTTATCTTCCTGAGATAGAAAGGAAGTAGACTGAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * * * *
52884116 AGATCTTATCTCCATGAGGCAACAATGGAGCAGATCGAAGA-CGACG
1 A-ATCTTATCTCC-TGAGGTAGCAAGGGAGCAGATTGAAGATTG--T
* ** * ** *****
52884162 AATCTTATCTTTCTGATATAGCAGGGGAGCAGATTTTAGCCACC
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
** * ***
52884206 AGCCTTATCTCCCTGAAGTAGCAAGGGAGCAG-GCCAGAGATTGT
1 AATCTTATCT-CCTGAGGTAGCAAGGGAGCAGATTGA-AGATTGT
* * *
52884250 AGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGATTGAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * **
52884294 AAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACAACG-
1 -AATCTTATCTCC-TGAGGTAGCAAGGGAGCAGATTGAAG--ATTGT
* ** ****
52884340 AATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
** * * * *
52884384 AGCCTTATCTCCCTAAGGAAGCACGAGG-GCAGGCTT-AAGATTGT
1 AATCTTATCT-CCTGAGGTAGCAAG-GGAGCA-GATTGAAGATTGT
* * * *
52884428 AGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * * * *
52884472 AGATCTTATCTCCCTGAGATAGC-AGTGGAGCAAATCGAATATGGCG
1 A-ATCTTATCT-CCTGAGGTAGCAAG-GGAGCAGATTGAAGATTG-T
** ****
52884518 AATCTTATCTTCCTGAGGTAGC-AGGGAGCAAGATTTTAG-CCAC
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGC-AGATTGAAGATTGT
* *
52884561 CATCCTTATCTCACTAAGGTAGCAAGGGAGCAGATTGAAGATTGT
1 AAT-CTTATCTC-CTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* * * *
52884606 AGTCTTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGATTGT
1 AATCTTATC-TCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
* *
52884650 AGATCTTGTCTCCTCGAGATAGCA
1 A-ATCTTATCTCCT-GAGGTAGCA
52884674 GTGGGGCATA
Statistics
Matches: 568, Mismatches: 170, Indels: 83
0.69 0.21 0.10
Matches are distributed among these distances:
43 10 0.02
44 285 0.50
45 263 0.46
46 8 0.01
47 2 0.00
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCTGAGGTAGCAAGGGAGCAGATTGAAGATTGT
Found at i:52884522 original size:356 final size:356
Alignment explanation
Indices: 52883853--52884747 Score: 1219
Period size: 356 Copynumber: 2.5 Consensus size: 356
52883843 GACGGCAAAT
* * *
52883853 CTTATCTTCCC-GAGGTAGCAAGGGAGCAGGCCAAAGATTGTAGTCTTATCTTCTTGAAGTAGCA
1 CTTATC-TCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCA
* * * *
52883917 AGGAAGCAAACTAAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATTGAACATGG
65 AGGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACGG
* *
52883982 TGAATCTTATCTT-CTCGAGGTAGCAGGGGAGTAGATTTTAGCCACTAGTCTTATCTCCCTAAGG
130 CGAATCTTATCTTCCT-GAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGG
* *
52884046 TAGCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGTAGACTGAAG
194 AAGCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAAG
* * * *
52884111 ATTGTAGATCTTATCTCCATGAGGCAACAATGGAGCAGATCGAAGACGACGAATCTTATCTTTCT
259 ATTGAAGATCTTATCTCCATGAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCT
*
52884176 GATATAGCAGGGGAGC-AGATTTTAGCCACCAGC
324 GAGATAGCA-GGGAGCAAGATTTTAGCCACCAGC
52884209 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
1 CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
* * **
52884274 GGAAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACAAC
66 GGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACGGC
*
52884339 GAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAA
131 GAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGGAA
* * *
52884404 GCACGAGGGCAGGCTTAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGAT
196 GCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAAGAT
* * * * * * *
52884469 TGAAGATCTTATCTCCCTGAGATAGCAGTGGAGCAAATCGAATATGGCGAATCTTATCTTCCTGA
261 TGAAGATCTTATCTCCATGAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTGA
* *
52884534 GGTAGCAGGGAGCAAGATTTTAGCCACCATC
326 GATAGCAGGGAGCAAGATTTTAGCCACCAGC
* ***
52884565 CTTATCTCACT-AAGGTAGCAAGGGAGCA-GATTGAAGATTGTAGTCTTATCTTCTTGAGGTAGC
1 CTTATCTCCCTGAA-GTAGCAAGGGAGCAGGCCAG-AGATTGTAGTCTTATCTTCTTGAGGTAGC
* * * * * * * *
52884628 AAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC-TCGAGATAGCAGTGGGGCATATCAAAAG-
64 AAGGAAGCAAACTGAAGATTGTAAATCTTATCTCCAT-GAGGTAGCAATGGAGCAGAT-AGAAGA
* * * * * *
52884691 CGGCAAATTTTATCTTCCTGAGGTAGTAGGTGAGCAGATTTAAGTCACTAGTCTTAT
127 CGGCGAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTAT
52884748 ATTCCTAAAG
Statistics
Matches: 476, Mismatches: 56, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
355 15 0.03
356 455 0.96
357 6 0.01
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (356 bp):
CTTATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAA
GGAAGCAAACTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGATAGAAGACGGC
GAATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGTCTTATCTCCCTAAGGAA
GCACGAGGGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGATAGAAAGGAAGCAGACTGAAGAT
TGAAGATCTTATCTCCATGAGACAACAATGGAGCAAATCGAAGACGACGAATCTTATCTTCCTGA
GATAGCAGGGAGCAAGATTTTAGCCACCAGC
Found at i:52884861 original size:534 final size:534
Alignment explanation
Indices: 52883886--52884883 Score: 1201
Period size: 534 Copynumber: 1.9 Consensus size: 534
52883876 GAGCAGGCCA
*
52883886 AAGATTGTAGTCTTATCTTCTTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAATCTTATCTCC
1 AAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAATCTTATCTCC
* * * * *
52883951 ATGAGGTAGCAATGGAGCAGATTGAACATGGTGAATCTTATCTTCTCGAGGTAGCAGGGGAGTAG
66 ATGAGATAGCAATGGAGCAAATCGAACATGGCGAATCTTATCTTCTCGAGGTAGCAGGGGAGAAG
* * * *
52884016 ATTTTAGCCACTAGTCTTATCTCCCTAAGGTAGCACGAGGGCAGGCTGAAGATTGTAGTCTTATC
131 ATTTTAGCCACCAGTCTTATCTCACTAAGGTAGCAAGAGGGCAGACTGAAGATTGTAGTCTTATC
* * *
52884081 TTCCTGAGATAGAAAGGAAGTAGACTGAAGATTGTAGATCTTATCTCCATGAGGCAACAATGGAG
196 TTCCTGAGATAGAAAGGAAGCAAACTGAAGATTGTAGATCTTATCTCCATGAGACAACAATGGAG
* * * * *
52884146 CAGATCGAAGACGACGAATCTTATCTTTCTGATATAGCAGGGGAGCAGATTTTAGCCACCAGCCT
261 CAGATCAAAGACGACAAATCTTATCTTCCTGAGATAGCAGGGGAGCAGATTTAAGCCACCAGCCT
* * * * *
52884211 TATCTCCCTGAAGTAGCAAGGGAGCAGGCCAGAGATTGTAGTCTTATCTTCTTGAGGTAGCAAGG
326 TATATCCCTAAAGTAGCAAGGAAGCAGGCCAGAGATTGTAGTCTTATCTTCTTAAAGTAGCAAGG
** *
52884276 AAGCAGATTGAAGATTGTAAATCTTATCTCCATGAGGTAGCAATGGAGCAGA-TAGAAGACAACG
391 AAGCAGATTGAAGATTACAAATCTTATCTCCATGAAGTAGCAATGGAGCAGACTA-AAGACAACG
52884340 AATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAAG
455 AATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAAG
52884405 CACGAGGGCAGGCTT
520 CACGAGGGCAGGCTT
* * *
52884420 AAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG-AAGATCTTATCTC
1 AAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAA-ATCTTATCTC
* * *
52884484 CCTGAGATAGCAGTGGAGCAAATCGAATATGGCGAATCTTATCTTC-CTGAGGTAGCA-GGGAGC
65 CATGAGATAGCAATGGAGCAAATCGAACATGGCGAATCTTATCTTCTC-GAGGTAGCAGGGGAG-
*
52884547 AAGATTTTAGCCACCA-TCCTTATCTCACTAAGGTAGCAAG-GGAGCAGATTGAAGATTGTAGTC
128 AAGATTTTAGCCACCAGT-CTTATCTCACTAAGGTAGCAAGAGG-GCAGACTGAAGATTGTAGTC
* * * * * * *
52884610 TTATCTTCTTGAGGTAGCAAGGGAGCAAACTGAAGATTGTAGATCTTGTCTCC-TCGAGATAGCA
191 TTATCTTCCTGAGATAGAAAGGAAGCAAACTGAAGATTGTAGATCTTATCTCCAT-GAGACAACA
* * * * * * * * *
52884674 GTGGGGCATATCAAA-AGCGGCAAATTTTATCTTCCTGAGGTAGTAGGTGAGCAGATTTAAGTCA
255 ATGGAGCAGATCAAAGA-CGACAAATCTTATCTTCCTGAGATAGCAGGGGAGCAGATTTAAGCCA
* * * * ** *
52884738 CTAGTCTTATATTCCTAAAGTAGCAAGGAAGTAGG-TTGAAGATTGTAGATCTTGTC-TCTTTAA
319 CCAGCCTTATATCCCTAAAGTAGCAAGGAAGCAGGCCAG-AGATTGTAG-TCTTATCTTC-TTAA
* * * * * * * * *
52884801 AGTTGTAATGGAA-TAGGTTGAAG-TTACAAGTCTTATCTCCCTGAAGTGGTAGTGGAGCAGACT
381 AGTAGCAA-GGAAGCAGATTGAAGATTACAAATCTTATCTCCATGAAGTAGCAATGGAGCAGACT
* *
52884864 AAAGATAGCGAATCTTATCT
445 AAAGACAACGAATCTTATCT
52884884 CTAAAGTTGC
Statistics
Matches: 385, Mismatches: 67, Indels: 24
0.81 0.14 0.05
Matches are distributed among these distances:
533 14 0.04
534 343 0.89
535 24 0.06
536 4 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (534 bp):
AAGATTGTAGTCTTATCTTCCTGAAGTAGCAAGGAAGCAAACTAAAGATTGTAAATCTTATCTCC
ATGAGATAGCAATGGAGCAAATCGAACATGGCGAATCTTATCTTCTCGAGGTAGCAGGGGAGAAG
ATTTTAGCCACCAGTCTTATCTCACTAAGGTAGCAAGAGGGCAGACTGAAGATTGTAGTCTTATC
TTCCTGAGATAGAAAGGAAGCAAACTGAAGATTGTAGATCTTATCTCCATGAGACAACAATGGAG
CAGATCAAAGACGACAAATCTTATCTTCCTGAGATAGCAGGGGAGCAGATTTAAGCCACCAGCCT
TATATCCCTAAAGTAGCAAGGAAGCAGGCCAGAGATTGTAGTCTTATCTTCTTAAAGTAGCAAGG
AAGCAGATTGAAGATTACAAATCTTATCTCCATGAAGTAGCAATGGAGCAGACTAAAGACAACGA
ATCTTATCTTCCTGAGGTAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGAAGC
ACGAGGGCAGGCTT
Found at i:52890293 original size:19 final size:19
Alignment explanation
Indices: 52890269--52890314 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
52890259 AATCTAACAA
52890269 AAAAGCTTAGAAATCTTGG
1 AAAAGCTTAGAAATCTTGG
*
52890288 AAAAGCTTAGAAATCTTTG
1 AAAAGCTTAGAAATCTTGG
52890307 AAAAGCTT
1 AAAAGCTT
52890315 CAAGAAAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.28
Consensus pattern (19 bp):
AAAAGCTTAGAAATCTTGG
Found at i:52892726 original size:15 final size:17
Alignment explanation
Indices: 52892701--52892736 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
52892691 ATGTGAAGAA
52892701 TATTGTTTAAAA-TTAT
1 TATTGTTTAAAATTTAT
52892717 TATT-TTTAAAATTTAT
1 TATTGTTTAAAATTTAT
52892733 TATT
1 TATT
52892737 AAAATAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TATTGTTTAAAATTTAT
Found at i:52892732 original size:13 final size:14
Alignment explanation
Indices: 52892701--52892742 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
52892691 ATGTGAAGAA
52892701 TATTGTTTAAAATTAT
1 TATT-TTTAAAA-TAT
52892717 TATTTTTAAAAT-T
1 TATTTTTAAAATAT
*
52892730 TATTATTAAAATA
1 TATTTTTAAAATA
52892743 AAATTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
15 7 0.29
16 4 0.17
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TATTTTTAAAATAT
Found at i:52892827 original size:38 final size:38
Alignment explanation
Indices: 52892751--52892828 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 38
52892741 TAAAATTGAA
*
52892751 ATATTAAATAATTTATTAAGATAATAAATTATATTAATT
1 ATATTAAATAATTTATTAAGAT-ATAAATTATAATAATT
52892790 ATATT-AATAATTTATTATATGAT-TAAA-TATAAATAATT
1 ATATTAAATAATTTATTA-A-GATATAAATTAT-AATAATT
52892828 A
1 A
52892829 AATATGTATG
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
37 3 0.09
38 23 0.66
39 6 0.17
40 3 0.09
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (38 bp):
ATATTAAATAATTTATTAAGATATAAATTATAATAATT
Found at i:52893449 original size:15 final size:14
Alignment explanation
Indices: 52893413--52893452 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
52893403 TAAAAGTTAA
* *
52893413 AAAAATAAGTGTTG
1 AAAATTAAGTATTG
52893427 AAAATTAAGTATTG
1 AAAATTAAGTATTG
52893441 AAAATTTAAGTA
1 AAAA-TTAAGTA
52893453 CTAAATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (14 bp):
AAAATTAAGTATTG
Found at i:52900784 original size:38 final size:38
Alignment explanation
Indices: 52900741--52900816 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52900731 TTCATCCTTT
52900741 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52900779 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52900817 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:52902097 original size:40 final size:40
Alignment explanation
Indices: 52902003--52902147 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
52901993 TACTCGAATG
*
52902003 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
52902044 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
52902084 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
52902124 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52902148 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:52908842 original size:38 final size:38
Alignment explanation
Indices: 52908799--52908874 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
52908789 TTCATCCTTT
52908799 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52908837 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
52908875 GGAGTTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:52910690 original size:40 final size:40
Alignment explanation
Indices: 52910645--52911028 Score: 619
Period size: 40 Copynumber: 9.6 Consensus size: 40
52910635 CAAGCTCAAT
* * * * *
52910645 TGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
52910685 TGCCTTCGGGTCTTAGCCCGGATATATCAACTT-GCAC-AA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAA-TTCGCACAAA
52910724 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* * *
52910764 CGCCGTCGGGTCTTAGCCCGGATATATCAGTTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
52910804 TGCCTTCGGGTCTTATCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
52910844 TGCCTTCGGGTCTTATCCCGGATATATCAAATCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
*
52910884 TGCCTTCGGGTCTTCGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
* *
52910924 TGCCTTCAGGTCTTAGCCCAGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
52910964 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
1 TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
52911004 TGCCTTCGGGTCTTAGCCCGGATAT
1 TGCCTTCGGGTCTTAGCCCGGATAT
52911029 CATTCAAATG
Statistics
Matches: 321, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
38 2 0.01
39 36 0.11
40 282 0.88
41 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATATATCAATTCGCACAAA
Found at i:52914190 original size:40 final size:40
Alignment explanation
Indices: 52914097--52914239 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
52914087 TACTCGAATG
*
52914097 ATAT-CGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
52914137 ACATCCGGACTAAGGT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAA-GTCCCGAAGGCATTTGTGCTAGCGACT
* * *
52914177 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
52914217 ATATCC-GGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
52914240 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
39 17 0.19
40 48 0.53
41 23 0.26
42 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:52916398 original size:26 final size:26
Alignment explanation
Indices: 52916361--52916444 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
52916351 TGATACAAAT
*
52916361 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
52916387 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52916413 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
52916439 TGATAA
1 TGATAA
52916445 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:52917957 original size:26 final size:26
Alignment explanation
Indices: 52917928--52917980 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
52917918 TTTACAGTTT
52917928 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
52917954 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
52917980 T
1 T
52917981 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:52920106 original size:47 final size:47
Alignment explanation
Indices: 52919997--52920107 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
52919987 CCGGGATAAG
* *
52919997 CACATAGTGCTTCATCGGAACAAATCTGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
52920044 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
52920091 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
52920108 ACTCAATGTC
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 1 0.02
47 52 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:52926242 original size:4 final size:4
Alignment explanation
Indices: 52926229--52926267 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
52926219 TCAAATTTCC
52926229 CTTT -TTT CTTT CTTT CTTT CTTT CTTT C-TT CTTT CTTT C
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT C
52926268 ACGTTTGCTC
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 6 0.18
4 27 0.82
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:52927237 original size:43 final size:42
Alignment explanation
Indices: 52927159--52927264 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
52927149 TATGATTTAT
* * *
52927159 GTGTAAGACCATGTCTGGGACATCGGCATCGTATTTGATTTC
1 GTGTAAGACCATGTCTGGGATATCGACATCGTATTTGATTAC
*
52927201 GTGTAAGACCCTGTCTGGGATAGT-GACATCGATATTTGATTAC
1 GTGTAAGACCATGTCTGGGATA-TCGACATCG-TATTTGATTAC
* *
52927244 ATGTAAGACCAAGTCTGGGAT
1 GTGTAAGACCATGTCTGGGAT
52927265 GTTGGCATTG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 26 0.47
43 29 0.53
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGATATCGACATCGTATTTGATTAC
Found at i:52944867 original size:46 final size:45
Alignment explanation
Indices: 52944800--52944974 Score: 181
Period size: 46 Copynumber: 3.8 Consensus size: 45
52944790 TGTAACCCGC
*
52944800 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTGGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
* *
52944846 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTAGCAT
* *** * * * **
52944892 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAGACATTCTCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTAGCAT
*
52944939 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
52944975 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 19, Indels: 10
0.78 0.14 0.07
Matches are distributed among these distances:
45 1 0.01
46 69 0.66
47 33 0.31
48 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTAGCAT
Found at i:52944920 original size:93 final size:93
Alignment explanation
Indices: 52944808--52944978 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
52944798 GCCCATAAGT
* * * *
52944808 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTGGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
52944873 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
52944901 GAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
52944966 CGAGTTCGGATGC
66 CGAGCTCGGATGC
52944979 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:52944994 original size:46 final size:46
Alignment explanation
Indices: 52944805--52944994 Score: 137
Period size: 46 Copynumber: 4.1 Consensus size: 46
52944795 CCCGCCCATA
***
52944805 AGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGT-TGGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-TCAACCATCC-T
52944850 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTC-A---ACCATC-CT
* * * * * *
52944900 --CGAACTCGGACTCAACTCAACGAGTTCAGACATTCTCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTC-G-GATGCTCAACCATCCT
*
52944944 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
52944990 AGTGA
1 AGTGA
52944995 CATGTCACTT
Statistics
Matches: 115, Mismatches: 13, Indels: 32
0.72 0.08 0.20
Matches are distributed among these distances:
44 10 0.09
45 1 0.01
46 62 0.54
47 28 0.24
48 3 0.03
49 4 0.03
50 6 0.05
51 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCTCAACCATCCT
Found at i:52948170 original size:27 final size:27
Alignment explanation
Indices: 52948130--52948313 Score: 203
Period size: 27 Copynumber: 6.8 Consensus size: 27
52948120 AGAAAGTTAA
** *
52948130 GGGTATTTCT-GTAATTTTGTAAATTAG
1 GGGTATTT-TGGTAATTTTACAAACTAG
*
52948157 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* * *
52948183 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTTACAAACTAG
*
52948211 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
52948238 GGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
* **
52948265 GGGTATTTTGGTAATTCTATCTTA-TAG
1 GGGTATTTTGGTAATTTTA-CAAACTAG
* *
52948292 GGGTATTTTAGTAATTTCACAA
1 GGGTATTTTGGTAATTTTACAA
52948314 TCGAGGGTAA
Statistics
Matches: 133, Mismatches: 20, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.03
27 126 0.95
28 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:52948346 original size:27 final size:27
Alignment explanation
Indices: 52948312--52948403 Score: 132
Period size: 27 Copynumber: 3.4 Consensus size: 27
52948302 GTAATTTCAC
52948312 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
52948339 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * *
52948366 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
52948393 AATCGAGGGTA
1 AATCGAGGGTA
52948404 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
26 1 0.02
27 56 0.97
28 1 0.02
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:52948426 original size:54 final size:53
Alignment explanation
Indices: 52948292--52948428 Score: 143
Period size: 54 Copynumber: 2.5 Consensus size: 53
52948282 TATCTTATAG
* * * * * *
52948292 GGGTATTTTAGTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAACTGA
1 GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGA
**
52948345 GGGTAAAATGGTAATTTTGTA-AATCGAGGGTAAAACGATAATTCTATAAA-TCGA
1 GGGTAATTTGGTAA-TTT-TACAATCGAGGGTAAAACGATAATTCTATAAACT-GA
*
52948399 GGGTACTTTGGTAATTTTACAAGTCGAGGG
1 GGGTAATTTGGTAATTTTACAA-TCGAGGG
52948429 CATTTCAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 9
0.77 0.12 0.10
Matches are distributed among these distances:
52 2 0.03
53 16 0.24
54 49 0.72
55 1 0.01
ACGTcount: A:0.34, C:0.09, G:0.25, T:0.32
Consensus pattern (53 bp):
GGGTAATTTGGTAATTTTACAATCGAGGGTAAAACGATAATTCTATAAACTGA
Found at i:52954303 original size:40 final size:40
Alignment explanation
Indices: 52954250--52954565 Score: 528
Period size: 40 Copynumber: 7.9 Consensus size: 40
52954240 TTGAGAGTTA
52954250 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52954290 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* *
52954330 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
52954370 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
52954410 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTACTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
52954450 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
* * *
52954490 TATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTGA
1 TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
*
52954530 TATATCCGGGCTAA-ACCTCGAAG-GCATTCGTGCTGG
1 TATATCCGGGCTAAGTCC-CGAAGAGCATTCGTGCTGG
52954566 AATTATAAGG
Statistics
Matches: 263, Mismatches: 12, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
39 14 0.05
40 249 0.95
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGTGT
Found at i:52954628 original size:29 final size:29
Alignment explanation
Indices: 52954573--52954646 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52954563 TGGAATTATA
* *
52954573 AGGCACTATGTGTGCCAGATTGGTAATTG
1 AGGCACTATGTGTGCGAGATTGGTAATCG
**
52954602 AGGCACTATGTGTGCGAG-TTCTTTAATCG
1 AGGCACTATGTGTGCGAGATT-GGTAATCG
52954631 A-GCACTATGTGTGCGA
1 AGGCACTATGTGTGCGA
52954647 AATCAGTCAG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 17 0.43
29 23 0.57
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (29 bp):
AGGCACTATGTGTGCGAGATTGGTAATCG
Found at i:52960159 original size:30 final size:31
Alignment explanation
Indices: 52960083--52960165 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
52960073 TCAGTCTCGA
52960083 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52960113 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
52960144 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
52960166 ACTGTAAGCG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 18 0.35
31 34 0.65
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:52960437 original size:25 final size:26
Alignment explanation
Indices: 52960386--52960454 Score: 90
Period size: 25 Copynumber: 2.8 Consensus size: 26
52960376 CTCTTTTAAT
52960386 AACTGGGGCAAAGCCC-TTTCTGATA
1 AACTGGGGCAAAGCCCTTTTCTGATA
*
52960411 AACTGGGGCAAAGCCCTTTTC-GGTA
1 AACTGGGGCAAAGCCCTTTTCTGATA
* *
52960436 AAGT-GGGCAGAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
52960455 AGCATTTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
24 14 0.35
25 22 0.55
26 4 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTCTGATA
Found at i:52961293 original size:27 final size:27
Alignment explanation
Indices: 52961263--52961327 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
52961253 GGGCATATTT
52961263 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
52961290 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
* *
52961317 ATCTTTTTACC
1 GTCATTTTACC
52961328 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:52961411 original size:27 final size:27
Alignment explanation
Indices: 52961381--52961488 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
52961371 GCAAATCTAC
52961381 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
52961408 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
** *
52961434 AAAAAGTTAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * **
52961464 AAATCAGGGGTATTTTGGTAATTTT
1 AAACCAAGGGTATTTCAGTAATTTT
52961489 ACAAATTGAA
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.02
27 40 0.61
28 7 0.11
29 17 0.26
30 1 0.02
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:52961608 original size:54 final size:54
Alignment explanation
Indices: 52961444--52961623 Score: 159
Period size: 54 Copynumber: 3.3 Consensus size: 54
52961434 AAAAAGTTAA
* *** * * * *
52961444 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTCGGTAATTTCACAAATAAGTGGTATTTTGGTAATTCTACAAACTAG
* * * *
52961497 AAGGTATTACGGTAATTTCACAAATCAGTGGTATTTTGGTAATTTTACAAACTAG
1 -GGGTATTTCGGTAATTTCACAAATAAGTGGTATTTTGGTAATTCTACAAACTAG
* * **
52961552 GGGTATTTTGGTAATTTTACAAACTAAG-GGTATTTTGGTAATTCTATCCTAC-AG
1 GGGTATTTCGGTAATTTCACAAA-TAAGTGGTATTTTGGTAATTCTA-CAAACTAG
*
52961606 GGGTATTTCAGTAATTTC
1 GGGTATTTCGGTAATTTC
52961624 GCAATCGATG
Statistics
Matches: 104, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
54 96 0.92
55 8 0.08
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (54 bp):
GGGTATTTCGGTAATTTCACAAATAAGTGGTATTTTGGTAATTCTACAAACTAG
Found at i:52961613 original size:27 final size:27
Alignment explanation
Indices: 52961444--52961594 Score: 157
Period size: 27 Copynumber: 5.6 Consensus size: 27
52961434 AAAAAGTTAA
**
52961444 GGGTATTTCT-GTAATTTTGTAAA-TCAG
1 GGGTATTT-TGGTAATTTTACAAACT-AG
*
52961471 GGGTATTTTGGTAATTTTACAAA-TTG
1 GGGTATTTTGGTAATTTTACAAACTAG
* ** *
52961497 AAGGTATTACGGTAATTTCACAAA-TCAG
1 -GGGTATTTTGGTAATTTTACAAACT-AG
*
52961525 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACTAG
*
52961552 GGGTATTTTGGTAATTTTACAAACTAA
1 GGGTATTTTGGTAATTTTACAAACTAG
52961579 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
52961595 CTATCCTACA
Statistics
Matches: 106, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
26 2 0.02
27 102 0.96
28 2 0.02
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACTAG
Found at i:52961613 original size:81 final size:80
Alignment explanation
Indices: 52961444--52961594 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
52961434 AAAAAGTTAA
** *
52961444 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTACGG
1 GGGTATTT-TGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGG
52961509 TAATTTCACAAATCAG
65 TAATTTCACAAATCAG
* **
52961525 TGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTT
1 GGGTATTTT-GTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTGAA-GGTATTAC
52961588 GGTAATT
63 GGTAATT
52961595 CTATCCTACA
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
80 4 0.07
81 57 0.93
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (80 bp):
GGGTATTTTGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGGT
AATTTCACAAATCAG
Found at i:52961620 original size:81 final size:81
Alignment explanation
Indices: 52961444--52961622 Score: 195
Period size: 81 Copynumber: 2.2 Consensus size: 81
52961434 AAAAAGTTAA
* ** *
52961444 GGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAAATTGAAGGTATTACGG
1 GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGG
52961509 TAATTTCACAAATCAG
66 TAATTTCACAAATCAG
* ** **
52961525 TGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAACT-AAGGGTATTTT
1 GGGTATTTCAGTAATTTTACAAATC-AGGGGTATTTTGGTAATTTTACAAACTGAA-GGTATTAC
**
52961588 GGTAA-TTCTATCCTA-CAG
64 GGTAATTTC-A-CAAATCAG
52961606 GGGTATTTCAGTAATTT
1 GGGTATTTCAGTAATTT
52961623 CGCAATCGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
80 6 0.07
81 73 0.90
82 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTCAGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACTGAAGGTATTACGG
TAATTTCACAAATCAG
Found at i:52961688 original size:27 final size:27
Alignment explanation
Indices: 52961626--52961717 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
52961616 GTAATTTCGC
* *
52961626 AATCGATGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
52961653 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * *
52961680 AATCAAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
52961707 AATCGAGGGTA
1 AATCGAGGGTA
52961718 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:52963348 original size:56 final size:56
Alignment explanation
Indices: 52963251--52963376 Score: 182
Period size: 55 Copynumber: 2.2 Consensus size: 56
52963241 CATGAGATTG
* * *
52963251 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATA
* *
52963308 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
*
52963363 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52963377 GACTTAATAT
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 18 0.29
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
Found at i:52963363 original size:27 final size:28
Alignment explanation
Indices: 52963251--52963376 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
52963241 CATGAGATTG
* * * *
52963251 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
52963280 GCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52963308 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
52963336 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
52963363 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52963377 GACTTAATAT
Statistics
Matches: 90, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.27
28 48 0.53
29 18 0.20
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:52963387 original size:27 final size:27
Alignment explanation
Indices: 52963279--52963389 Score: 116
Period size: 28 Copynumber: 4.0 Consensus size: 27
52963269 TAAATTGTAC
* * *
52963279 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52963307 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
52963335 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
52963362 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
52963389 A
1 A
52963390 CTTTTGAATC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
27 30 0.39
28 47 0.61
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:52970925 original size:56 final size:57
Alignment explanation
Indices: 52970829--52970954 Score: 177
Period size: 55 Copynumber: 2.2 Consensus size: 57
52970819 CATGAGATTG
* *
52970829 GCACTAAGTGTGC-AGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGGTTTAAATTATACAGCACTAAGTGTGCGAG-TTGATTATATA
* *
52970886 GCACTAAGTGTGCGA-GTTT-GATTATATAGCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
*
52970941 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
52970955 GACTTAATAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
55 23 0.37
56 22 0.35
57 17 0.27
58 1 0.02
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGGTTTAAATTATACAGCACTAAGTGTGCGAGTTGATTATATA
Done.