Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 162 of 255
Found at i:53114531 original size:43 final size:42
Alignment explanation
Indices: 53114470--53114579 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
53114460 CAAAGCTGAC
* * *
53114470 GTCCCAGACGTAGTCTTACATGTAACCAAATATCGATGCTACT
1 GTCCCAGACGTGGTCTTACATGTAACCAAATA-CGATGCCAAT
* *
53114513 GTCCCAGACAG-GGTCTTACATGAAATCAAATACGATGCCAAT
1 GTCCCAGAC-GTGGTCTTACATGTAACCAAATACGATGCCAAT
*
53114555 GTCCCAGACGTGGTCTTACACGTAA
1 GTCCCAGACGTGGTCTTACATGTAA
53114580 ATCATAAGTC
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.02
42 29 0.50
43 27 0.47
44 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
GTCCCAGACGTGGTCTTACATGTAACCAAATACGATGCCAAT
Found at i:53114562 original size:42 final size:43
Alignment explanation
Indices: 53114470--53114618 Score: 151
Period size: 43 Copynumber: 3.5 Consensus size: 43
53114460 CAAAGCTGAC
* * * * *
53114470 GTCCCAGACGTAGTCTTACATGTAACCAAATATCGATGCTACT
1 GTCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCAAT
53114513 GTCCCAGACAG-GGTCTTACATGAAATCAAATA-CGATGCCAAT
1 GTCCCAGAC-GTGGTCTTACATGAAATCAAATATCGATGCCAAT
* * * *
53114555 GTCCCAGACGTGGTCTTACACGTAAATCATAA-GTCTATGCCAAC
1 GTCCCAGACGTGGTCTTACATG-AAATCA-AATATCGATGCCAAT
* *
53114599 ATCCCAAACGTGGTCTTACA
1 GTCCCAGACGTGGTCTTACA
53114619 CGATTAAACA
Statistics
Matches: 90, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.30
43 33 0.37
44 29 0.32
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACATGAAATCAAATATCGATGCCAAT
Found at i:53116269 original size:39 final size:39
Alignment explanation
Indices: 53116152--53116413 Score: 320
Period size: 39 Copynumber: 6.6 Consensus size: 39
53116142 GCTCCTCGTT
* *
53116152 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
53116192 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
53116232 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
53116271 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
53116310 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
* * * *
53116349 CAAATGCCTTTGGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-ATC-TCGCA
53116390 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
53116414 CATCATTCAA
Statistics
Matches: 202, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
39 130 0.64
40 61 0.30
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
Found at i:53117509 original size:14 final size:14
Alignment explanation
Indices: 53117490--53117516 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53117480 AGGATGAGCA
53117490 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
53117504 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
53117517 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:53119177 original size:21 final size:19
Alignment explanation
Indices: 53119151--53119204 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
53119141 TCTCATTTTG
*
53119151 AACAACTTTTTCTTCTTCCAC
1 AACAACTTCTTCTTCTT-C-C
*
53119172 AACAACTTCTGCTT-TTCC
1 AACAACTTCTTCTTCTTCC
53119190 AACAACTTCTTCTTC
1 AACAACTTCTTCTTC
53119205 GGCAGCATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.48
19 1 0.03
20 2 0.07
21 12 0.41
ACGTcount: A:0.24, C:0.33, G:0.02, T:0.41
Consensus pattern (19 bp):
AACAACTTCTTCTTCTTCC
Found at i:53121766 original size:27 final size:27
Alignment explanation
Indices: 53121736--53121913 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53121726 ATATTGAGTC
* * * *
53121736 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53121763 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53121790 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53121818 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53121845 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53121872 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53121899 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53121914 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53121875 original size:82 final size:81
Alignment explanation
Indices: 53121757--53121912 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53121747 TGCTATATAA
* *
53121757 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53121822 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53121839 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53121903 CACTTAGTGC
65 CACTTAGTGC
53121913 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53129244 original size:27 final size:27
Alignment explanation
Indices: 53129214--53129391 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
53129204 ATATTGAGTC
* * * *
53129214 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
53129241 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53129268 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
53129296 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
53129323 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
53129350 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
53129377 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
53129392 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:53129353 original size:82 final size:81
Alignment explanation
Indices: 53129235--53129390 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
53129225 TGCTATATAA
* *
53129235 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
53129300 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
53129317 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
53129381 CACTTAGTGC
65 CACTTAGTGC
53129391 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:53142953 original size:28 final size:28
Alignment explanation
Indices: 53142887--53143014 Score: 159
Period size: 28 Copynumber: 4.5 Consensus size: 28
53142877 CATGAGATTG
* **
53142887 GCACTAAGTGTGCG-GTTTCAAATTGCATA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
*
53142916 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53142944 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
53142973 GCACTAAGTGGGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53143001 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
53143015 GACTTACTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
28 44 0.51
29 39 0.45
30 4 0.05
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53144333 original size:32 final size:32
Alignment explanation
Indices: 53144292--53144353 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
53144282 AGACAAACGA
53144292 CATAAGTATTGAAGCTCTGTAAAGGGAGATGG
1 CATAAGTATTGAAGCTCTGTAAAGGGAGATGG
53144324 CATAAGTATTGAAGCTCTGTAAAGGGAGAT
1 CATAAGTATTGAAGCTCTGTAAAGGGAGAT
53144354 ATCTAAGTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.29, T:0.26
Consensus pattern (32 bp):
CATAAGTATTGAAGCTCTGTAAAGGGAGATGG
Found at i:53151050 original size:28 final size:28
Alignment explanation
Indices: 53150984--53151111 Score: 168
Period size: 28 Copynumber: 4.5 Consensus size: 28
53150974 CATGAGATTG
* **
53150984 GCACTAAGTGTGCG-GTTTTAAATTGCATA
1 GCACTAAGTGTGCGAG-TTT-GATTATATA
*
53151013 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53151041 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
53151070 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
53151098 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
53151112 GACTTACTAT
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
28 45 0.51
29 43 0.48
30 1 0.01
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:53152428 original size:32 final size:32
Alignment explanation
Indices: 53152387--53152450 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
53152377 AGAGACAAAC
53152387 GGCATAAGTATTGAAGCTCTGTAAAGGGAGAT
1 GGCATAAGTATTGAAGCTCTGTAAAGGGAGAT
53152419 GGCATAAGTATTGAAGCTCTGTAAAGGGAGAT
1 GGCATAAGTATTGAAGCTCTGTAAAGGGAGAT
53152451 ATCTAAGTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.25
Consensus pattern (32 bp):
GGCATAAGTATTGAAGCTCTGTAAAGGGAGAT
Found at i:53157450 original size:42 final size:42
Alignment explanation
Indices: 53157391--53157473 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
53157381 TGGGAAAGTA
*
53157391 GTTCCCTTATTCTAATAAACTACTTAAACATAAAAGAAAATT
1 GTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAAATT
* * *
53157433 GTTCCCTTATTCTAATAAACTAGTAAAAGATAAAATAAAAT
1 GTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAAAT
53157474 ATTCCTAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.14, G:0.06, T:0.33
Consensus pattern (42 bp):
GTTCCCTTATTCTAATAAACTACTAAAACATAAAAGAAAATT
Found at i:53157518 original size:19 final size:18
Alignment explanation
Indices: 53157496--53157535 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
53157486 TGAATAAAAC
53157496 TTATCTACCTAAATAAGAT
1 TTATCTACCTAAATAA-AT
53157515 TTATCTACCTAAATAAAT
1 TTATCTACCTAAATAAAT
53157533 TTA
1 TTA
53157536 AAATATATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.24
19 16 0.76
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.40
Consensus pattern (18 bp):
TTATCTACCTAAATAAAT
Found at i:53162575 original size:27 final size:27
Alignment explanation
Indices: 53162544--53162600 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
53162534 ATCAAGGCAT
53162544 TACTCATAAGTTTAGTGTACATACTTG
1 TACTCATAAGTTTAGTGTACATACTTG
53162571 TACTCATAAGTTTAGTGTACATACTTG
1 TACTCATAAGTTTAGTGTACATACTTG
53162598 TAC
1 TAC
53162601 AATTTGTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (27 bp):
TACTCATAAGTTTAGTGTACATACTTG
Found at i:53170587 original size:17 final size:17
Alignment explanation
Indices: 53170565--53170617 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
53170555 TGCACATACT
53170565 AACATCTATCATGCATA
1 AACATCTATCATGCATA
*
53170582 AACATC-A-CATAC-T-
1 AACATCTATCATGCATA
53170595 AACATCTATCATGCATA
1 AACATCTATCATGCATA
53170612 AACATC
1 AACATC
53170618 ACATACTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
13 6 0.20
14 2 0.07
15 8 0.27
16 2 0.07
17 12 0.40
ACGTcount: A:0.43, C:0.26, G:0.04, T:0.26
Consensus pattern (17 bp):
AACATCTATCATGCATA
Found at i:53170591 original size:30 final size:30
Alignment explanation
Indices: 53170557--53170624 Score: 136
Period size: 30 Copynumber: 2.3 Consensus size: 30
53170547 ACATCATTTG
53170557 CACATACTAACATCTATCATGCATAAACAT
1 CACATACTAACATCTATCATGCATAAACAT
53170587 CACATACTAACATCTATCATGCATAAACAT
1 CACATACTAACATCTATCATGCATAAACAT
53170617 CACATACT
1 CACATACT
53170625 TTCTTTTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.43, C:0.28, G:0.03, T:0.26
Consensus pattern (30 bp):
CACATACTAACATCTATCATGCATAAACAT
Found at i:53188824 original size:48 final size:48
Alignment explanation
Indices: 53188756--53188973 Score: 193
Period size: 48 Copynumber: 4.6 Consensus size: 48
53188746 GTTTCGATAT
*
53188756 CATGTCC-AAACATGGTCTTACACTGGCACATCTAT-TC-ATGCCGATG
1 CATGTCCTAGACATGGTCTTACACTGGCACATC-ATCTCAATGCCGATG
* * ** * *
53188802 CCATGTCCTAGAGATGGTCTTACACTAGCTTA-CATCTCGAGGCCGATG
1 -CATGTCCTAGACATGGTCTTACACTGGCACATCATCTCAATGCCGATG
* *
53188850 CATGTCCTAGACGT-GTCTTACACTGGCTC-TCATCTCAATGCCGATG
1 CATGTCCTAGACATGGTCTTACACTGGCACATCATCTCAATGCCGATG
* * * * * **
53188896 CCAAGTCCCAGACATGGTCTTATACTGGCTC-TCATAATGTA-GCCGATG
1 -CATGTCCTAGACATGGTCTTACACTGGCACATCAT-CTCAATGCCGATG
53188944 CATGTCCTAGACAT-GTCTTACACTGGCACA
1 CATGTCCTAGACATGGTCTTACACTGGCACA
53188974 CAAATAACCC
Statistics
Matches: 140, Mismatches: 23, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
46 42 0.30
47 45 0.32
48 51 0.36
49 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CATGTCCTAGACATGGTCTTACACTGGCACATCATCTCAATGCCGATG
Found at i:53188884 original size:46 final size:48
Alignment explanation
Indices: 53188605--53188970 Score: 238
Period size: 47 Copynumber: 7.7 Consensus size: 48
53188595 GTATAATGAA
* *
53188605 GATGCCATGTCCTAGACATGGTCTTACACTGG--CTCATCCATC-AAGTC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-C-TCGATGCC
* * ** * * ** *
53188652 GATGCCATGTCCCAGACATGGTATTACACTAACTATTGAAATCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCT-CTCATCTCGATGCC
** * * * * * **
53188701 GACACCATGTCCCAGACATAGTCTTACACTAGCTCTCACATATTTG-TTTC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCT--CAT-CTCGATGCC
** * *
53188751 GATATCATGTCC-AAACATGGTCTTACACTGGCACATCTAT-TC-ATGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTC-TC-ATCTCGATGCC
* * *
53188798 GATGCCATGTCCTAGAGATGGTCTTACACTAGCT-TACATCTCGAGGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCT-CATCTCGATGCC
* *
53188846 GATG-CATGTCCTAGACGT-GTCTTACACTGGCTCTCATCTCAATGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTCGATGCC
* * * *
53188892 GATGCCAAGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-G-TAGCC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCAT-CTCGAT-GCC
53188940 GATG-CATGTCCTAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCTAGACATGGTCTTACACTGGC
53188971 ACACAAATAA
Statistics
Matches: 247, Mismatches: 53, Indels: 39
0.73 0.16 0.12
Matches are distributed among these distances:
46 42 0.17
47 81 0.33
48 54 0.22
49 53 0.21
50 15 0.06
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATCTCGATGCC
Found at i:53188893 original size:94 final size:94
Alignment explanation
Indices: 53188709--53188973 Score: 265
Period size: 94 Copynumber: 2.8 Consensus size: 94
53188699 CCGACACCAT
* * ** * *
53188709 GTCCCAGACATAGTCTTACACTAGCTCTCACATATTTGT-TTCGATATCATGTCC-AAACATGGT
1 GTCCCAGACATGGTCTTACACTAGCTCT--CATA-ATGTAGCCGAT-GCATGTCCTAGACAT-GT
*
53188772 CTTACACTGGCACATCTATTCATGCCGATGCCAT
61 CTTACACTGGCACATCTATTCATGCCGATGCCAA
* * * *
53188806 GTCCTAGAGATGGTCTTACACTAGCT-TACAT-CTCG-AGGCCGATGCATGTCCTAGACGTGTCT
1 GTCCCAGACATGGTCTTACACTAGCTCT-CATAAT-GTA-GCCGATGCATGTCCTAGACATGTCT
*
53188868 TACACTGGCTC-TC-ATCTCAATGCCGATGCCAA
63 TACACTGGCACATCTAT-TC-ATGCCGATGCCAA
* *
53188900 GTCCCAGACATGGTCTTATACTGGCTCTCATAATGTAGCCGATGCATGTCCTAGACATGTCTTAC
1 GTCCCAGACATGGTCTTACACTAGCTCTCATAATGTAGCCGATGCATGTCCTAGACATGTCTTAC
53188965 ACTGGCACA
66 ACTGGCACA
53188974 CAAATAACCC
Statistics
Matches: 140, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
92 2 0.01
93 5 0.04
94 94 0.67
95 15 0.11
96 1 0.01
97 23 0.16
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (94 bp):
GTCCCAGACATGGTCTTACACTAGCTCTCATAATGTAGCCGATGCATGTCCTAGACATGTCTTAC
ACTGGCACATCTATTCATGCCGATGCCAA
Found at i:53192347 original size:24 final size:23
Alignment explanation
Indices: 53192314--53192371 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
53192304 AGTTGAAAAG
53192314 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
53192338 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
53192360 TATATATAATAA
1 TATA-ATAATAA
53192372 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:53192721 original size:49 final size:48
Alignment explanation
Indices: 53192641--53192798 Score: 255
Period size: 49 Copynumber: 3.2 Consensus size: 48
53192631 CTTACTTTGA
*
53192641 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
* *
53192688 GAATATGAAAGTGTATATATATGTGATAGGGCCTAATGACCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53192737 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53192786 GAATGTGATAAGT
1 GAATGTGA-AAGT
53192799 CCCGAAGGGC
Statistics
Matches: 102, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
47 12 0.12
49 86 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:53192972 original size:37 final size:37
Alignment explanation
Indices: 53192916--53192994 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53192906 CCGAGCTCTA
* * *
53192916 AAGACCCAATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
* *
53192953 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
53192990 AAGAC
1 AAGAC
53192995 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCAATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53194908 original size:43 final size:43
Alignment explanation
Indices: 53194860--53194962 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
53194850 TTGGTTTTCA
53194860 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53194903 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53194946 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
53194963 TTGAAATGCA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53194979 original size:29 final size:29
Alignment explanation
Indices: 53194944--53195016 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
53194934 GTTGTGAGAT
* *
53194944 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53194973 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
53195002 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
53195017 ATGGTTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53195684 original size:40 final size:40
Alignment explanation
Indices: 53195330--53195670 Score: 384
Period size: 40 Copynumber: 8.5 Consensus size: 40
53195320 TCAAACGATG
* **
53195330 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * * * **
53195370 TCCGGACTAAGAT-CCGAAG-GCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* *
53195410 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
53195450 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
53195490 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
53195530 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
53195570 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
53195610 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
53195650 TCCGAGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
53195671 TAATCATGCT
Statistics
Matches: 265, Mismatches: 32, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.00
40 248 0.94
41 16 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:53198862 original size:24 final size:23
Alignment explanation
Indices: 53198829--53198886 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
53198819 AGTTGAAAAG
53198829 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
53198853 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
53198875 TATATATAATAA
1 TATA-ATAATAA
53198887 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:53199239 original size:49 final size:48
Alignment explanation
Indices: 53199157--53199314 Score: 264
Period size: 49 Copynumber: 3.2 Consensus size: 48
53199147 CTTACTTTGA
*
53199157 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
*
53199204 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGACCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53199253 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53199302 GAATGTGATAAGT
1 GAATGTGA-AAGT
53199315 CCCGAAGGGC
Statistics
Matches: 104, Mismatches: 4, Indels: 3
0.94 0.04 0.03
Matches are distributed among these distances:
47 13 0.12
49 87 0.84
50 4 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:53199488 original size:37 final size:37
Alignment explanation
Indices: 53199432--53199510 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53199422 CCGAGCTCTA
* * *
53199432 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
53199469 AAGACCCGGTAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53199506 AAGAC
1 AAGAC
53199511 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53202272 original size:40 final size:39
Alignment explanation
Indices: 53202228--53202449 Score: 313
Period size: 39 Copynumber: 5.6 Consensus size: 39
53202218 GCTACTAGCT
* *
53202228 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTCACTCGCA
* *
53202268 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTCACTCGCA
* *
53202308 CAAATACCTTCGGGCTTAGCCCAGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
*
53202347 CAAATGCCTTCGGGCTTAGCCTGGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
*
53202386 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
53202425 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG
53202450 GTATCAATCC
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 106 0.63
40 63 0.37
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
Found at i:53207069 original size:21 final size:21
Alignment explanation
Indices: 53207013--53207063 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
53207003 CCCCTATCCG
53207013 TCAACTCTTGCAACTGAGCTT
1 TCAACTCTTGCAACTGAGCTT
53207034 TCAACTCTTGCAACTGAGCTT
1 TCAACTCTTGCAACTGAGCTT
53207055 TCAACTCTT
1 TCAACTCTT
53207064 TTAACTCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (21 bp):
TCAACTCTTGCAACTGAGCTT
Found at i:53208119 original size:39 final size:39
Alignment explanation
Indices: 53208076--53208153 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
53208066 TTAAACGTTG
*
53208076 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
*
53208115 AGGTTAGCATTTGGGTTGTTCAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
53208154 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:53209819 original size:47 final size:47
Alignment explanation
Indices: 53209765--53210354 Score: 843
Period size: 47 Copynumber: 12.6 Consensus size: 47
53209755 TTAAACCCAT
* *
53209765 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53209812 ATGTGAAAGTGTATATATGTGATAA-G-CTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53209857 ATGTGAAA-TGTATATATGTGA-ATAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATA-AGGCCTAATGGCCGATGTGATGA
* *
53209903 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53209950 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53209999 ATGTGAAAGTGTATATGTGTGAT-AGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53210045 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53210092 ATGTGAAACTGTATATATATGTGATAAGGCTTAATGG-CGATGTGATGA
1 ATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53210140 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53210187 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
53210236 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG-CGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
53210282 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53210329 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
53210355 TCCCGAAGGG
Statistics
Matches: 491, Mismatches: 38, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
43 1 0.00
44 14 0.03
45 27 0.05
46 134 0.27
47 184 0.37
48 20 0.04
49 111 0.23
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53210054 original size:142 final size:139
Alignment explanation
Indices: 53209765--53210354 Score: 898
Period size: 142 Copynumber: 4.2 Consensus size: 139
53209755 TTAAACCCAT
53209765 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
53209830 GTGATAA-GC-TAATGGCCGATGTGATGAATGTGAAA-TGTATATATGTGAATAGGCTTAATGGC
66 GTGATAAGGCTTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTG-ATAGGCCTAATGGC
53209892 CGATGTGATGA
129 CGATGTGATGA
53209903 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATAT
*
53209968 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAGGCCTAATGG
64 ATGTGATAAGGCTTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGG
53210033 CCGATGTGATGA
128 CCGATGTGATGA
*
53210045 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--GTGTATAT
* *
53210110 ATGTGATAAGGCTTAATGGCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAG
64 ATGTGATAAGGCTTAATGGCGATGTGATGAATGTGAAAGTGTATATATGTGAT-AGGCCTAATGG
53210175 CCGATGTGATGA
128 CCGATGTGATGA
* * *
53210187 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
** * * *
53210252 GCGTGATAAGGCTTAATGGCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGG
64 ATGTGATAAGGCTTAATGGCGATGTGATGAATGTGAAAGTGTATATATGTGATA-GGCCTAATGG
* *
53210317 CCAATGTGATGG
128 CCGATGTGATGA
* **
53210329 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATGTGTGATAAG
53210355 TCCCGAAGGG
Statistics
Matches: 422, Mismatches: 19, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
138 58 0.14
140 27 0.06
141 37 0.09
142 246 0.58
143 11 0.03
144 43 0.10
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (139 bp):
ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCTTAATGGCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGCCTAATGGCCG
ATGTGATGA
Found at i:53210177 original size:237 final size:237
Alignment explanation
Indices: 53209765--53210354 Score: 973
Period size: 237 Copynumber: 2.5 Consensus size: 237
53209755 TTAAACCCAT
*
53209765 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
53209830 GTGATAA-G-CTAATGGCCGATGTGATGAATGTGAAATG-TATATATGTGA-ATAGGCTTAATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATGATATATATGTGATA-AGGCTTAATGG
53209891 CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
130 CCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGA
53209956 AAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
195 AAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
53209999 ATGTGAAAGTGTATATGTGTGAT-AGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
*
53210063 GTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATATATGTGATAAGGCTTAATG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TG-ATATATATGTGATAAGGCTTAATG
53210128 G-CGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
129 GCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTG
53210192 AAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
194 AAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* *
53210236 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG-CGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
53210300 GTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAG
66 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA-TG-ATATATATGTGATAAG
53210355 TCCCGAAGGG
Statistics
Matches: 334, Mismatches: 15, Indels: 13
0.92 0.04 0.04
Matches are distributed among these distances:
233 46 0.14
234 24 0.07
235 36 0.11
236 3 0.01
237 192 0.57
238 32 0.10
239 1 0.00
ACGTcount: A:0.32, C:0.07, G:0.30, T:0.31
Consensus pattern (237 bp):
ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAATGATATATATGTGATAAGGCTTAATGGC
CGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
AGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:53210528 original size:36 final size:37
Alignment explanation
Indices: 53210475--53210549 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 37
53210465 GAGTTCTAAG
* *
53210475 GACCCGATGACTACGTGTGG-GATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
53210511 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
53210548 GA
1 GA
53210550 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
36 18 0.51
37 17 0.49
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:53224201 original size:43 final size:43
Alignment explanation
Indices: 53224148--53224249 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
53224138 TTGGTTTTCA
53224148 GCACT-AGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53224190 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
53224233 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
53224250 TTGAAATGCA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 5 0.08
43 54 0.92
ACGTcount: A:0.22, C:0.16, G:0.36, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:53224266 original size:29 final size:29
Alignment explanation
Indices: 53224231--53224301 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 29
53224221 GTTGTGAGAT
* *
53224231 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
53224260 TGGCACTAAGGTGTGCGAGTTTAAAGTACA
1 TGGCACTAA-GTGTGCGAGTTGAAAGTACA
53224290 TGGCA-TAAGTGT
1 TGGCACTAAGTGT
53224302 CATGGTTGAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 4 0.11
29 17 0.46
30 16 0.43
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:53224963 original size:40 final size:40
Alignment explanation
Indices: 53224611--53224949 Score: 375
Period size: 40 Copynumber: 8.5 Consensus size: 40
53224601 TCAAACGATG
**
53224611 TCCGGGCTAAGTCCCGAAG-GC-TT-GTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* * * * * **
53224650 TCCGGACTAAGAT-CCGAAG-GCATTGGTACGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TGTA
* *
53224690 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
53224730 TCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
53224769 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
53224809 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
53224849 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* ** * * * *
53224889 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
53224929 TCCGAGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
53224950 TAATCATGCT
Statistics
Matches: 264, Mismatches: 30, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
39 57 0.22
40 194 0.73
41 13 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:53228138 original size:24 final size:23
Alignment explanation
Indices: 53228105--53228162 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
53228095 AGTTGAAAAG
53228105 TATAA-AATAAAATAAATAATGATA
1 TATAATAATAAAAT-AAT-ATGATA
*
53228129 -ATAATAATAAAATGATATGATA
1 TATAATAATAAAATAATATGATA
53228151 TATATATAATAA
1 TATA-ATAATAA
53228163 TGTTTGATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 6 0.20
23 9 0.30
24 15 0.50
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
TATAATAATAAAATAATATGATA
Found at i:53228537 original size:48 final size:48
Alignment explanation
Indices: 53228432--53228588 Score: 264
Period size: 48 Copynumber: 3.2 Consensus size: 48
53228422 CTTACTTTGA
*
53228432 GAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
53228479 GAATGTGAAAGTGTATATATATGTGATAGGGCCTAAT-GCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53228527 GAATGTGAAAGTGTGTATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 GAATGTGAAAGTGT-TATATATGTGATAGGGCCTAATGGCCGATGTGAT
53228576 GAATGTGATAAGT
1 GAATGTGA-AAGT
53228589 CCCGAAGGGC
Statistics
Matches: 104, Mismatches: 2, Indels: 5
0.94 0.02 0.05
Matches are distributed among these distances:
47 13 0.12
48 47 0.45
49 40 0.38
50 4 0.04
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (48 bp):
GAATGTGAAAGTGTTATATATGTGATAGGGCCTAATGGCCGATGTGAT
Found at i:53228762 original size:37 final size:37
Alignment explanation
Indices: 53228706--53228784 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
53228696 CCGAGCTCTA
* * *
53228706 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
53228743 AAGACCCGGTAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
53228780 AAGAC
1 AAGAC
53228785 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:53231540 original size:40 final size:39
Alignment explanation
Indices: 53231496--53231717 Score: 313
Period size: 39 Copynumber: 5.6 Consensus size: 39
53231486 GCTACTAGCT
* *
53231496 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTCACTCGCA
* *
53231536 CAAATGCCTTCGGGACTTAGCCCGG-ATATAGTAACTCACA
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTCACTCGCA
* *
53231576 CAAATACCTTCGGGCTTAGCCCAGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
*
53231615 CAAATGCCTTCGGGCTTAGCCTGGAATTAGTCACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
*
53231654 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTAGCA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
53231693 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG
53231718 GTATCAATCC
Statistics
Matches: 169, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 106 0.63
40 63 0.37
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTCACTCGCA
Found at i:53236334 original size:21 final size:21
Alignment explanation
Indices: 53236278--53236328 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
53236268 CCCCTATCCG
53236278 TCAACTCTTGCAACTGAGCTT
1 TCAACTCTTGCAACTGAGCTT
53236299 TCAACTCTTGCAACTGAGCTT
1 TCAACTCTTGCAACTGAGCTT
53236320 TCAACTCTT
1 TCAACTCTT
53236329 TTAACTCAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (21 bp):
TCAACTCTTGCAACTGAGCTT
Found at i:53237385 original size:39 final size:39
Alignment explanation
Indices: 53237342--53237419 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
53237332 TTAAACGTTG
*
53237342 AGGTTAGCATTTGGGTTGTTGAATATGCCGAACTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
*
53237381 AGGTTAGCATTTGGGTTGTTCAATATGCCGAATTTGGAT
1 AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
53237420 TTAGGGAGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.37
Consensus pattern (39 bp):
AGGTTAGCATTTGGGTTGTTCAATATGCCGAACTTGGAT
Found at i:53239089 original size:47 final size:47
Alignment explanation
Indices: 53239035--53239633 Score: 883
Period size: 47 Copynumber: 12.6 Consensus size: 47
53239025 TTAAACCCAT
* *
53239035 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
53239082 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53239131 ATGTGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTG-ATAAGGCCTAATGGCCGATGTGATGA
* *
53239179 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53239226 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53239275 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53239322 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53239369 ATGTGAAACTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAA--GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53239418 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53239465 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
** *
53239514 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * *
53239561 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
53239608 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
53239634 TCCCGAAGGG
Statistics
Matches: 503, Mismatches: 40, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
47 283 0.56
48 44 0.09
49 176 0.35
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53239299 original size:96 final size:94
Alignment explanation
Indices: 53239035--53239633 Score: 892
Period size: 96 Copynumber: 6.3 Consensus size: 94
53239025 TTAAACCCAT
53239035 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATAT
53239100 ATGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * *
53239131 ATGTGAAAGTGTATATATGTGAATAGGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 ATGTGAAAGTGTATATGTGTG-ATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
*
53239196 TGTGATAAGGCCTAATAGCCGATGTGATGA
65 TGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
53239226 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTG--TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
53239291 GTGTGATAAGGCCTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
*
53239322 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAA--GTGTATAT
*
53239387 ATGTGATAAGGCTTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
53239418 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATAT
*
53239483 ATGTGATAAGGCTTAATGGCCGATGTGATGA
64 ATGTGATAAGGCCTAATGGCCGATGTGATGA
* * *
53239514 ATGTGAAAGTGTATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
53239579 GTGACAGGGCCGAGTGGCCAATGTGATGG
66 GTGATAAGGCCTAATGGCCGATGTGATGA
* **
53239608 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATGTGTGATAAG
53239634 TCCCGAAGGG
Statistics
Matches: 467, Mismatches: 29, Indels: 16
0.91 0.06 0.03
Matches are distributed among these distances:
94 94 0.20
95 45 0.10
96 284 0.61
97 44 0.09
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:53239399 original size:143 final size:143
Alignment explanation
Indices: 53239035--53239633 Score: 968
Period size: 143 Copynumber: 4.2 Consensus size: 143
53239025 TTAAACCCAT
53239035 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
53239100 ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCTTAAT
66 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAAT
53239165 GGCCGATGTGATGA
130 GGCCGATGTGATGA
53239179 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
*
53239244 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATG
66 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
53239309 GCCGATGTGATGA
131 GCCGATGTGATGA
*
53239322 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAACTGTATATAT
1 ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
* *
53239387 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATA
66 ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
53239452 GCCGATGTGATGA
131 GCCGATGTGATGA
* * *
53239465 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
1 ATGTGAAAGTG--TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
** * * * *
53239528 ATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAG
64 ATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAA
* *
53239593 TGGCCAATGTGATGG
129 TGGCCGATGTGATGA
* **
53239608 ATGTGAAAGTGCATAAATGTGATAAG
1 ATGTGAAAGTGTATATGTGTGATAAG
53239634 TCCCGAAGGG
Statistics
Matches: 431, Mismatches: 22, Indels: 7
0.94 0.05 0.02
Matches are distributed among these distances:
141 13 0.03
143 260 0.60
144 115 0.27
145 43 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATGA
Found at i:53239808 original size:37 final size:37
Alignment explanation
Indices: 53239754--53239829 Score: 116
Period size: 37 Copynumber: 2.1 Consensus size: 37
53239744 GAGTTCTAAG
* * *
53239754 GACCCGATGACTACGTGTGGGGATTTTGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
*
53239791 GACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAA
1 GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
53239828 GA
1 GA
53239830 TTTCGTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.26
Consensus pattern (37 bp):
GACCCGATAACTACGTGTGGAGATTATGTCCGGGTAA
Found at i:53244604 original size:39 final size:39
Alignment explanation
Indices: 53244550--53244724 Score: 280
Period size: 39 Copynumber: 4.5 Consensus size: 39
53244540 AAACCAAGTA
* * * *
53244550 CCTTCGGACTTAGCCCGG-TTATAGTAACTCGGACAAATG
1 CCTTCGGGCTTAGCCCGGAAT-TAGTCACTCGCACAAATG
53244589 CCTTCGGGCTTAGCCCGGAATTAGTCACTCGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTCACTCGCACAAATG
53244628 CCTTCGGGCTTAGCCCGGAATTAGTCACTCGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTCACTCGCACAAATG
*
53244667 CCTTCGGGCTTAGCCCGGAATTAGTCACTAGCACAAATG
1 CCTTCGGGCTTAGCCCGGAATTAGTCACTCGCACAAATG
53244706 CCTTCGGGACTTAGCCCGG
1 CCTTCGGG-CTTAGCCCGG
53244725 GTATCAATCC
Statistics
Matches: 129, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 118 0.91
40 11 0.09
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGAATTAGTCACTCGCACAAATG
Found at i:53252234 original size:18 final size:17
Alignment explanation
Indices: 53252206--53252239 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
53252196 TCATTTTCTG
53252206 TATTTTATTTGTTATAA
1 TATTTTATTTGTTATAA
53252223 TATTTATATTTGTTATA
1 TATTT-TATTTGTTATA
53252240 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (17 bp):
TATTTTATTTGTTATAA
Found at i:53252329 original size:36 final size:35
Alignment explanation
Indices: 53252250--53252335 Score: 102
Period size: 36 Copynumber: 2.4 Consensus size: 35
53252240 TTAAATGTAT
*
53252250 TTATTATATGTCTTTTAAATATTATGTTATATATA
1 TTATTATATGTATTTTAAATATTATGTTATATATA
* * *
53252285 -TATATATATGTATTTTCAATATTGTTGTTATATTTA
1 TTAT-TATATGTATTTTAAATATT-ATGTTATATATA
*
53252321 TTATTATATATATTT
1 TTATTATATGTATTT
53252336 GTTCTAGTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
34 3 0.07
35 17 0.40
36 20 0.47
37 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.06, T:0.59
Consensus pattern (35 bp):
TTATTATATGTATTTTAAATATTATGTTATATATA
Found at i:53252799 original size:27 final size:27
Alignment explanation
Indices: 53252761--53252812 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
53252751 CTATGCATAC
* * *
53252761 ATACTTTTAACATTATATTTTATATGT
1 ATACTCTTAACATCATATTATATATGT
53252788 ATACTCTTAACATCATATTATATAT
1 ATACTCTTAACATCATATTATATAT
53252813 ATATCTTGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.12, G:0.02, T:0.50
Consensus pattern (27 bp):
ATACTCTTAACATCATATTATATATGT
Found at i:53264321 original size:39 final size:39
Alignment explanation
Indices: 53264277--53264391 Score: 115
Period size: 43 Copynumber: 2.9 Consensus size: 39
53264267 ATTATGCTTG
* *
53264277 AAAAAAGAA-ATCAAGATGAAAACCCGAAAGGGCATCTT
1 AAAAAAAAAGATCAAGATGAAAACCCGAAAAGGCATCTT
* * *
53264315 AAAAAAAAAGATCAAGGTGAAAATCCGAAAAGGCGTCTT
1 AAAAAAAAAGATCAAGATGAAAACCCGAAAAGGCATCTT
* * *
53264354 GATTAACACAAAAGATTAGGATGAAAACCCGAAAAGGC
1 -A--AA-AAAAAAGATCAAGATGAAAACCCGAAAAGGC
53264392 GTCCTAATGA
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
38 8 0.13
39 25 0.40
40 1 0.02
42 2 0.03
43 26 0.42
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.14
Consensus pattern (39 bp):
AAAAAAAAAGATCAAGATGAAAACCCGAAAAGGCATCTT
Found at i:53264321 original size:40 final size:39
Alignment explanation
Indices: 53264277--53264391 Score: 104
Period size: 39 Copynumber: 2.8 Consensus size: 39
53264267 ATTATGCTTG
* *
53264277 AAAAAAGAAATCAAGATGAAAACCCGAAAGGGCATCTTA
1 AAAAAAAAAATCAAGATGAAAACCCGAAAAGGCATCTTA
* * * *
53264316 AAAAAAAAGATCAAGGTGAAAATCCGAAAAGGCGTCTTGA
1 AAAAAAAAAATCAAGATGAAAACCCGAAAAGGCATCTT-A
* * * *
53264356 TTAACACAAAAGATTAGGATGAAAACCCGAAAAGGC
1 --AA-AAAAAAAATCAAGATGAAAACCCGAAAAGGC
53264392 GTCCTAATGA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
39 32 0.52
40 1 0.02
42 2 0.03
43 26 0.43
ACGTcount: A:0.51, C:0.15, G:0.20, T:0.14
Consensus pattern (39 bp):
AAAAAAAAAATCAAGATGAAAACCCGAAAAGGCATCTTA
Found at i:53276367 original size:11 final size:11
Alignment explanation
Indices: 53276347--53276385 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
53276337 ACAAGAGTCT
*
53276347 TCTCATAATTC
1 TCTCAAAATTC
53276358 TCTCAAAATTC
1 TCTCAAAATTC
53276369 TCTCAAAATT-
1 TCTCAAAATTC
53276379 TCTCAAA
1 TCTCAAA
53276386 GCTCTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 7 0.26
11 20 0.74
ACGTcount: A:0.36, C:0.26, G:0.00, T:0.38
Consensus pattern (11 bp):
TCTCAAAATTC
Found at i:53276391 original size:21 final size:22
Alignment explanation
Indices: 53276347--53276392 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
53276337 ACAAGAGTCT
* *
53276347 TCTCATAATTCTCTCAAAATTC
1 TCTCAAAATTCTCTCAAAACTC
*
53276369 TCTCAAAATT-TCTCAAAGCTC
1 TCTCAAAATTCTCTCAAAACTC
53276390 TCT
1 TCT
53276393 TTAATTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.30, C:0.28, G:0.02, T:0.39
Consensus pattern (22 bp):
TCTCAAAATTCTCTCAAAACTC
Found at i:53278090 original size:30 final size:30
Alignment explanation
Indices: 53278054--53278121 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
53278044 GATAACGATG
*
53278054 TGGGCCCATCAACAGCGCCCACACAATCAC
1 TGGGCCCATCAACAGCACCCACACAATCAC
*
53278084 TGGGCCCATCAACAGCACCCACACAATTAC
1 TGGGCCCATCAACAGCACCCACACAATCAC
*
53278114 CGGGCCCA
1 TGGGCCCA
53278122 ACACTTCAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.29, C:0.43, G:0.18, T:0.10
Consensus pattern (30 bp):
TGGGCCCATCAACAGCACCCACACAATCAC
Found at i:53278198 original size:18 final size:18
Alignment explanation
Indices: 53278175--53278217 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
53278165 TGCCAGGTGC
*
53278175 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
53278193 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
53278211 GTTTCCT
1 GTATCCT
53278218 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:53278484 original size:21 final size:21
Alignment explanation
Indices: 53278460--53278499 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
53278450 CAACACCCAC
53278460 AACCA-AATCCCCTACCGGAGG
1 AACCATAAT-CCCTACCGGAGG
53278481 AACCATAATCCCTACCGGA
1 AACCATAATCCCTACCGGA
53278500 ACAACCGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.35, C:0.38, G:0.15, T:0.12
Consensus pattern (21 bp):
AACCATAATCCCTACCGGAGG
Found at i:53278505 original size:21 final size:21
Alignment explanation
Indices: 53278458--53278505 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
53278448 CCCAACACCC
53278458 ACAACCAAATCCCCTACCGGA
1 ACAACCAAATCCCCTACCGGA
**
53278479 GGAACCATAAT-CCCTACCGGA
1 ACAACCA-AATCCCCTACCGGA
53278500 ACAACC
1 ACAACC
53278506 GCAACCCCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.38, C:0.40, G:0.12, T:0.10
Consensus pattern (21 bp):
ACAACCAAATCCCCTACCGGA
Found at i:53278753 original size:14 final size:14
Alignment explanation
Indices: 53278736--53278762 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53278726 ACAATATTTT
53278736 TAATAAAATATAAA
1 TAATAAAATATAAA
53278750 TAATAAAATATAA
1 TAATAAAATATAA
53278763 TTTTATTACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATAAAATATAAA
Found at i:53282002 original size:126 final size:125
Alignment explanation
Indices: 53281777--53282042 Score: 361
Period size: 126 Copynumber: 2.1 Consensus size: 125
53281767 CTAAATAGGA
* * * * *
53281777 ACTACTGCAGAAAAGGAGCGTCCACATGGAAGCTTTTTTCAGTAATTTTGCTGACAATGTATCCT
1 ACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTTTTTCAGCAATTTTGCTGACAATGTATCAT
* *
53281842 GCTTGAAGCGTTTTGGACACTATTTGTTCAGAAACGTCCTCACAAAATTATTTTTTCAGAT
66 GCTTAAAGCGTTTTGGACACTATTTGTTCAGAAACATCCTCAC-AAATTATTTTTTCAGAT
* * * *
53281903 ACTACTGTAGAAAAATAGCATCCACGTGGGAGCTTTTTTCAGCAATTTTGCTGACAGTGTATCAT
1 ACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTTTTTCAGCAATTTTGCTGACAATGTATCAT
* * ** * *
53281968 GTTTAAAGCGTTTTGGACACTATTTGTTTAGAAACATTTTCTCAAATTTTTTTTTCAGAT
66 GCTTAAAGCGTTTTGGACACTATTTGTTCAGAAACATCCTCACAAATTATTTTTTCAGAT
*
53282028 ACTACTATAGAAAAA
1 ACTACTGTAGAAAAA
53282043 AAACAAAAAG
Statistics
Matches: 122, Mismatches: 18, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
125 30 0.25
126 92 0.75
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.36
Consensus pattern (125 bp):
ACTACTGTAGAAAAAGAGCATCCACATGGAAGCTTTTTTCAGCAATTTTGCTGACAATGTATCAT
GCTTAAAGCGTTTTGGACACTATTTGTTCAGAAACATCCTCACAAATTATTTTTTCAGAT
Found at i:53282270 original size:16 final size:15
Alignment explanation
Indices: 53282238--53282301 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
53282228 TTTTCTTAAA
**
53282238 AAACCCTAAAATTAT
1 AAACCCTAAAACCAT
53282253 AAACCCTTAAAACCAT
1 AAACCC-TAAAACCAT
*
53282269 AAATCCT-AAACC-T
1 AAACCCTAAAACCAT
*
53282282 TAACCCTAAAATCC-T
1 AAACCCTAAAA-CCAT
53282297 AAACC
1 AAACC
53282302 AAGGAAAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
13 6 0.15
14 8 0.20
15 14 0.35
16 12 0.30
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACCCTAAAACCAT
Found at i:53286806 original size:625 final size:625
Alignment explanation
Indices: 53285617--53287451 Score: 3456
Period size: 625 Copynumber: 2.9 Consensus size: 625
53285607 TTATTCAAGG
* * *
53285617 GTACCCATTAGGGAACTTAACCAAGAAACACTCTTTTAAGCCACATATTTTATAATAGGATTACC
1 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
*
53285682 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAAAGGAGCTCGATTAGGATTACTAGTCCAGG
66 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
53285747 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGACTAAATC
131 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGACTAAATC
53285812 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTTTGCAACAAATGCAGGA
196 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTTTGCAACAAATGCAGGA
53285877 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCGGGACTTAACCCT
261 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCGGGACTTAACCCT
53285942 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
326 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
* *
53286007 AATCACATTCCAAACAACACAATATTCAATTAAAAATATTTACATGTTGGATTAAGTTACACGAA
391 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACAAGAA
53286072 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
456 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
53286137 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
521 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
53286202 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
586 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
53286242 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
1 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
53286307 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
66 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
*
53286372 TTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGACTAAATC
131 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGACTAAATC
53286437 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTTTGCAACAAATGCAGGA
196 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTTTGCAACAAATGCAGGA
53286502 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCGGGACTTAACCCT
261 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCGGGACTTAACCCT
53286567 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
326 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
53286632 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACAAGAA
391 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACAAGAA
53286697 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
456 CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
53286762 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
521 CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
53286827 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
586 TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
53286867 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
1 GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
*
53286932 AGTCCAAGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
66 AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
* * * * *
53286997 CTAAACCCTAATCATAATGTATACTCAAAAGATATTATATCAGCGTTACCTGTCTGGGCTAAATC
131 CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGACTAAATC
*
53287062 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTCTGCAACAAATGCAGGA
196 CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTTTGCAACAAATGCAGGA
**
53287127 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATTAGGACTTAACCCT
261 CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCGGGACTTAACCCT
* *
53287192 TTATCACCATTTCAAGCATGTATTAAGTTTCTTATTATAACATTTAAGTAATATACATAAATGTA
326 TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
*
53287257 AATCACATTCCATACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACACA-A
391 AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACA-AGA
* * *
53287321 ACTTACCTCGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAATATTTTTTTTGCTCGATCTAA
455 ACTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAA
53287386 CCTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATAT
520 CCTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATAT
53287451 T
585 T
53287452 ACCATTTTGT
Statistics
Matches: 1186, Mismatches: 23, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
625 1185 1.00
626 1 0.00
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (625 bp):
GTACCCATTAGGGAACTTAACCAAGAAACACTCTCTTGAGCCACATATTTTATAACAGGATTACC
AGTCCAGGCTAAATCCTTTTTATAACGTATGCTCAGAGGAGCTCGATTAGGATTACTAGTCCAGG
CTAAACCCTAATCATAACGTATAATCAAAAGATATTATATCAGCATTACCTGCCTGGACTAAATC
CTTTCTATAACAAGATCATTGGGATTACTCGTTCGAGCTAAATCCCGTTTGCAACAAATGCAGGA
CCTTAATTGTTCCGAGAAAGCGTATACAATCATCGAAATTCAACATTCAATCGGGACTTAACCCT
TTATCACCAATTCAAGCATGTATTAAGTTTCTCATTATAACATTTAAGTAATATACATAAATGTA
AATCACATTCCAAACAACACAATATTCAATTAAACATATTTACATGTTGGATTAAGTTACAAGAA
CTTACCTTGACACTTGTTCGCGTAAAAGTCTACTAATCTGAAACATTTTTTTTCCTCGATCTAAC
CTCGAATTAGTGTTGTCCGGATCTATATAAATGAATTTAACAATCAATTTCATACATTTCATATT
TAAATGGACTTATTTACGTCCTAGGAAAAATTACCATTTT
Found at i:53289627 original size:14 final size:13
Alignment explanation
Indices: 53289607--53289638 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
53289597 AATATTTAAC
53289607 TTGTTCTTAATTA
1 TTGTTCTTAATTA
53289620 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
53289634 TTGTT
1 TTGTT
53289639 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:53303148 original size:40 final size:40
Alignment explanation
Indices: 53303100--53303179 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
53303090 GTGTGTCACA
*
53303100 CACGTCTAGACACATGCTCGTGTGGACAAAATGAAGCCAT
1 CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
*
53303140 CACGTCTAGACACATTCCCGTGTGGACAAAATGAAGCCAT
1 CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
53303180 TTCTAACTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (40 bp):
CACGTCTAGACACATGCCCGTGTGGACAAAATGAAGCCAT
Found at i:53306600 original size:39 final size:39
Alignment explanation
Indices: 53306551--53306708 Score: 271
Period size: 39 Copynumber: 4.1 Consensus size: 39
53306541 TTATATTACT
* *
53306551 AGCACAAAGCCTGTGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
* * *
53306590 TGCACGAAGCCTACGGGACTTTAGCCCGAATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
53306629 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
53306668 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
1 AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
53306707 AG
1 AG
53306709 TATCTTGCAT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 111 1.00
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (39 bp):
AGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTCC
Found at i:53314475 original size:45 final size:45
Alignment explanation
Indices: 53314404--53314514 Score: 143
Period size: 45 Copynumber: 2.5 Consensus size: 45
53314394 GAAGGAAATG
* *
53314404 AATAAGACCATAGTTGAAAGACACTATGACATTATACT-GAAACTA
1 AATAAGACCATAGTTGAAAGAAACTATGACATCATACTGGAAAC-A
* * *
53314449 AATAAGACCATAGTTGGAAGAAACTATGGCATCATACTGGAAACG
1 AATAAGACCATAGTTGAAAGAAACTATGACATCATACTGGAAACA
* *
53314494 AGTAAGACCATAGCTGAAAGA
1 AATAAGACCATAGTTGAAAGA
53314515 TGTTATGGCA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 52 0.91
46 5 0.09
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (45 bp):
AATAAGACCATAGTTGAAAGAAACTATGACATCATACTGGAAACA
Found at i:53314522 original size:45 final size:44
Alignment explanation
Indices: 53314398--53314593 Score: 131
Period size: 45 Copynumber: 4.4 Consensus size: 44
53314388 TGGCTTGAAG
* * * * *
53314398 GAAATGAATAAGACCATAGTTGAAAGACACTATGACATTATACT
1 GAAACGAATAAGACCATAGCTGAAAGATACTATGGCATCATACT
* * * *
53314442 GAAACTAAATAAGACCATAGTTGGAAGAAACTATGGCATCATACT
1 GAAAC-GAATAAGACCATAGCTGAAAGATACTATGGCATCATACT
* ** * *
53314487 GGAAACGAGTAAGACCATAGCTGAAAGATGTTATGGCACCACAACT
1 -GAAACGAATAAGACCATAGCTGAAAGATACTATGGCATCA-TACT
** * * * * ** * *
53314533 CTAATGAGTAAGACCATAACTAAAAGATGTTATGGCATTATGAAT
1 GAAACGAATAAGACCATAGCTGAAAGATACTATGGCATCAT-ACT
*
53314578 CAAACGAATAAGACCA
1 GAAACGAATAAGACCA
53314594 CGGTTGAAAG
Statistics
Matches: 121, Mismatches: 27, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
44 4 0.03
45 109 0.90
46 8 0.07
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (44 bp):
GAAACGAATAAGACCATAGCTGAAAGATACTATGGCATCATACT
Found at i:53316484 original size:136 final size:137
Alignment explanation
Indices: 53316313--53316598 Score: 511
Period size: 136 Copynumber: 2.1 Consensus size: 137
53316303 CATTGGGCCT
** * *
53316313 AAGCCCATTCAGGTAACAGTGGTATTGGGCCAGAGCCCTTTTCAGATTACAATAAAATGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATAGGCCTT
*
53316378 AGCCCCTTATTCAGATAA-AGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGCAAA
53316442 CATATGC
131 CATATGC
*
53316449 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTAGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATAGGCCTT
53316514 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGCAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGCAAA
53316579 CATATGC
131 CATATGC
53316586 AAGCCCATTTGGG
1 AAGCCCATTTGGG
53316599 GAGATTACTC
Statistics
Matches: 143, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
136 78 0.55
137 65 0.45
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.24
Consensus pattern (137 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAAATAGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAGCAAA
CATATGC
Found at i:53318422 original size:26 final size:26
Alignment explanation
Indices: 53318384--53318441 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
53318374 CATGAAATTC
53318384 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
53318410 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
53318436 TTATCA
1 TTATCA
53318442 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:53324042 original size:26 final size:26
Alignment explanation
Indices: 53324011--53324118 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
53324001 TAAAATTTCC
53324011 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
53324037 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
53324063 ATCATGAAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53324089 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
53324115 ATCA
1 ATCA
53324119 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:53325800 original size:57 final size:57
Alignment explanation
Indices: 53325680--53325801 Score: 163
Period size: 57 Copynumber: 2.1 Consensus size: 57
53325670 CATTTTGACG
* * * * **
53325680 ACATAAATATGCGCATTATGAGACATTATGACAGCAACTATAAATTACATTTGGACA
1 ACATAAATACGCACATTAAGAGACATTATGACAACAACTATAAATTACATTAAGACA
** *
53325737 GTATAAATACGCACATTAAGAGACATTTTGACAACAACTATAAATTACATTAAGACA
1 ACATAAATACGCACATTAAGAGACATTATGACAACAACTATAAATTACATTAAGACA
53325794 ACATAAAT
1 ACATAAAT
53325802 GTAGAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (57 bp):
ACATAAATACGCACATTAAGAGACATTATGACAACAACTATAAATTACATTAAGACA
Found at i:53330186 original size:11 final size:11
Alignment explanation
Indices: 53330170--53330196 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
53330160 TTTTGTCAAT
53330170 GATGCAATTGA
1 GATGCAATTGA
53330181 GATGCAATTGA
1 GATGCAATTGA
53330192 GATGC
1 GATGC
53330197 TATGAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.30, T:0.26
Consensus pattern (11 bp):
GATGCAATTGA
Found at i:53331867 original size:19 final size:19
Alignment explanation
Indices: 53331827--53331868 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
53331817 TTAACAATGA
*
53331827 TTTTATCTCAAGAAGTGTT
1 TTTTATCTCAAGAAGTGCT
*
53331846 TTTTATCTCAA-AAGTGCC
1 TTTTATCTCAAGAAGTGCT
53331864 TTTTA
1 TTTTA
53331869 CCCGAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (19 bp):
TTTTATCTCAAGAAGTGCT
Found at i:53345982 original size:58 final size:58
Alignment explanation
Indices: 53345828--53345982 Score: 163
Period size: 57 Copynumber: 2.7 Consensus size: 58
53345818 CCACATATCA
* * * * *
53345828 TATATCAGGATTACCAGTGCAGGCTAAATCCTTTCTGTAACATGTGCTAAGAAGAGCT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTATCTATAACATATGCTAAGAAGAGAT
* * * * *
53345886 CA-ATTAGGATTACCAGTCCAAGCTAAATCCTAAT-TATAACATATGCT-CGAGAGGGAT
1 TATATCAGGATTACCAGTCCAGGCTAAATCCT-ATCTATAACATATGCTAAGA-AGAGAT
* *
53345943 TATATCAGGATTACCTGTCCGGGCTAAATCCTATCTATAA
1 TATATCAGGATTACCAGTCCAGGCTAAATCCTATCTATAA
53345983 TGAGGTTAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
56 2 0.03
57 44 0.56
58 32 0.41
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (58 bp):
TATATCAGGATTACCAGTCCAGGCTAAATCCTATCTATAACATATGCTAAGAAGAGAT
Found at i:53349563 original size:47 final size:47
Alignment explanation
Indices: 53349465--53349592 Score: 152
Period size: 47 Copynumber: 2.7 Consensus size: 47
53349455 AATCGATAAG
* * *
53349465 TACCTATGCCATGGCCCGTAGCCAAATCAATGTAACTTACCTCGAAG
1 TACCTATGCCATGGCCTGTAGCCAAATCAAGGTAACTTACCTCGAAA
* *
53349512 TACCTATGCCATAGCCTGTAGCCAAATCAAGGTAAC-T-CCTTTCTAAA
1 TACCTATGCCATGGCCTGTAGCCAAATCAAGGTAACTTACC--TCGAAA
* * *
53349559 TACCTATACCATGGCCTATTGCCAAATCAAGGTA
1 TACCTATGCCATGGCCTGTAGCCAAATCAAGGTA
53349593 TTATTCACAC
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 2 0.03
46 1 0.01
47 67 0.96
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (47 bp):
TACCTATGCCATGGCCTGTAGCCAAATCAAGGTAACTTACCTCGAAA
Found at i:53356931 original size:47 final size:46
Alignment explanation
Indices: 53356798--53356934 Score: 166
Period size: 47 Copynumber: 2.9 Consensus size: 46
53356788 CCAAATCAAG
* * * **
53356798 ATCTCGAAGTACCTATTCCATGGTCCGTAGCCAAATCAACGTAACTT
1 ATCTCGAA-TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACCC
* *
53356845 ATCTCGGAGTACCTATACCATGGCTCGTAGCCAAATCAAGGTAACCC
1 ATCTC-GAATACCTATACCATGGCCCGTAGCCAAATCAAGGTAACCC
* *
53356892 CTCTCTGAATACCTATACCATGGCCCATAGCCAAATCAAGGTA
1 ATCTC-GAATACCTATACCATGGCCCGTAGCCAAATCAAGGTA
53356935 TTATTCACAC
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 75 0.97
48 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (46 bp):
ATCTCGAATACCTATACCATGGCCCGTAGCCAAATCAAGGTAACCC
Found at i:53364765 original size:11 final size:11
Alignment explanation
Indices: 53364749--53364773 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53364739 CATACATCAA
53364749 TTACATCTCAT
1 TTACATCTCAT
53364760 TTACATCTCAT
1 TTACATCTCAT
53364771 TTA
1 TTA
53364774 TAATCTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.24, G:0.00, T:0.48
Consensus pattern (11 bp):
TTACATCTCAT
Found at i:53365229 original size:37 final size:37
Alignment explanation
Indices: 53365188--53365259 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
53365178 CAATTTCCTT
*
53365188 AAATTTTTCCATTTTATTCAATTTAGTCCCTAAAACC
1 AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAACC
**
53365225 AAATTTTTTTAGTTTATTCAATTTAGTCCCTAAAA
1 AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAA
53365260 TCGAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (37 bp):
AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAACC
Found at i:53380937 original size:22 final size:23
Alignment explanation
Indices: 53380897--53380939 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
53380887 AAAATGTATG
53380897 TACATAACATATATGAAAATATA
1 TACATAACATATATGAAAATATA
* *
53380920 TACATAATA-ATATTAAAATA
1 TACATAACATATATGAAAATA
53380940 AAATAATAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAACATATATGAAAATATA
Found at i:53381267 original size:9 final size:9
Alignment explanation
Indices: 53381239--53381268 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53381229 AAATACATAC
53381239 ATAATATAT
1 ATAATATAT
*
53381248 AAAATATAT
1 ATAATATAT
53381257 ATAATATAT
1 ATAATATAT
53381266 ATA
1 ATA
53381269 TTAGAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATATAT
Found at i:53381276 original size:24 final size:22
Alignment explanation
Indices: 53381242--53381288 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 22
53381232 TACATACATA
53381242 ATATATAAAAT-ATATATAATAT
1 ATATATAAAATGATA-ATAATAT
53381264 ATATATTAGAAATGATAATAATAT
1 ATATA-TA-AAATGATAATAATAT
53381288 A
1 A
53381289 AAAAACTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 2 0.09
24 12 0.55
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATATATAAAATGATAATAATAT
Found at i:53381362 original size:19 final size:19
Alignment explanation
Indices: 53381338--53381376 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
53381328 TATAAATAAT
*
53381338 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
53381357 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
53381376 A
1 A
53381377 TAAAATAGTA
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:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:53381423 original size:24 final size:22
Alignment explanation
Indices: 53381370--53381430 Score: 52
Period size: 24 Copynumber: 2.6 Consensus size: 22
53381360 GATATTAGAA
*
53381370 ATATACATAA-AATAGTATAAAAG
1 ATATATATAATAAT-GT-TAAAAG
* *
53381393 ATGTATAACTAATAATGTTAAAAT
1 ATATAT-A-TAATAATGTTAAAAG
53381417 ATATATATAATAAT
1 ATATATATAATAAT
53381431 ATATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
22 7 0.23
23 5 0.16
24 11 0.35
25 5 0.16
26 3 0.10
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATATATAATAATGTTAAAAG
Found at i:53381484 original size:59 final size:56
Alignment explanation
Indices: 53381421--53381529 Score: 148
Period size: 59 Copynumber: 1.9 Consensus size: 56
53381411 TAAAATATAT
53381421 ATATAATA-ATATATATAAAATACAATATTGAAAACATATATACATAATATATACGAAAA
1 ATAT-ATAGATATATATAAAATACAATATT--AAA-ATATATACATAATATATACGAAAA
* * *
53381480 ATATATAGATATATATATAATATAATATTAAAATATTTACATAATATATA
1 ATATATAGATATATATAAAATACAATATTAAAATATATACATAATATATA
53381530 AATATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 17 0.37
57 3 0.07
58 3 0.07
59 23 0.50
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.36
Consensus pattern (56 bp):
ATATATAGATATATATAAAATACAATATTAAAATATATACATAATATATACGAAAA
Found at i:53381618 original size:19 final size:19
Alignment explanation
Indices: 53381582--53381620 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53381572 ATATACATAA
*
53381582 ATATATTAAAAACATATAC
1 ATATATTAAAAAAATATAC
53381601 ATATA-TAAAAAAATTATAC
1 ATATATTAAAAAAA-TATAC
53381620 A
1 A
53381621 CTAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATATTAAAAAAATATAC
Found at i:53381767 original size:3 final size:3
Alignment explanation
Indices: 53381761--53381906 Score: 70
Period size: 3 Copynumber: 49.0 Consensus size: 3
53381751 ACATTATTAC
*
53381761 ATA ATA ATA ATA ATA ATA AT- ATA TTA ATAA ATA A-A A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA
* * * * * * * * *
53381805 A-A AGGA ATA AAA ACA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
53381850 ATA ATA ACA ATA AT- CTAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
53381895 ATA ATA ATA ATA
1 ATA ATA ATA ATA
53381907 TTTAATAAAG
Statistics
Matches: 106, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
2 10 0.09
3 88 0.83
4 8 0.08
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:53381918 original size:27 final size:29
Alignment explanation
Indices: 53381866--53381928 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
53381856 ACAATAATCT
* *
53381866 AAATAATAATATTAATAATATTAGAAATGA
1 AAATAATAATATT-ATAATATAAGAAACGA
*
53381896 TAATAATAATATT-TAATA-AAGAAACGA
1 AAATAATAATATTATAATATAAGAAACGA
53381923 AAATAA
1 AAATAA
53381929 AAAAAGGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.41
28 5 0.17
30 12 0.41
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATAATAATATTATAATATAAGAAACGA
Found at i:53383038 original size:25 final size:25
Alignment explanation
Indices: 53383007--53383054 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53382997 TCTTTACTCA
*
53383007 TTGTCGTATAACGATAACAGAGTTG
1 TTGTCGTATAACGAGAACAGAGTTG
* *
53383032 TTGTCGTGTAACGAGAATAGAGT
1 TTGTCGTATAACGAGAACAGAGT
53383055 AAAGACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (25 bp):
TTGTCGTATAACGAGAACAGAGTTG
Found at i:53383708 original size:72 final size:72
Alignment explanation
Indices: 53383621--53383755 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 72
53383611 ACCTCGCCAT
* *
53383621 GTGACCCGAGGCTCAACACACCTCTTACAATATGAGTT-A-ATTTTATGAAACATAAATTGAAAA
1 GTGACCCGACGCTCAACACACCTCTCACAATATGAGTTGATATTTTA--AAACATAAATTGAAAA
53383684 CACCTCAAC
64 CACCTCAAC
* * * * *
53383693 GTGACCTGACGCTCAACTCATCTCTCGCAATATGAGTTGATATTTTAAAACATGAATTGAAAA
1 GTGACCCGACGCTCAACACACCTCTCACAATATGAGTTGATATTTTAAAACATAAATTGAAAA
53383756 GCAGAAATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 47 0.87
73 1 0.02
74 6 0.11
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (72 bp):
GTGACCCGACGCTCAACACACCTCTCACAATATGAGTTGATATTTTAAAACATAAATTGAAAACA
CCTCAAC
Found at i:53384002 original size:161 final size:159
Alignment explanation
Indices: 53383541--53384005 Score: 633
Period size: 161 Copynumber: 2.9 Consensus size: 159
53383531 ACGTAAGCCA
* * * * * * **
53383541 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTGAAACTTAATTTGAAAGGCAGATTTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
* * * * *
53383606 AAAATACCTCGCCATGTGACCCGAGGCTCAACACACCTCTTACAATATGAGTTAATTTTATGAAA
66 AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT-TGAAA
53383671 CATAAATTGAAAACACCTCAACGTGACCTG
130 CATAAATTGAAAACACCTCAACGTGACCTG
* * *
53383701 ACGCTCAACTCATCTCTCGCAATATGAGTTGATATTTTAAAACATGAATTGAAAAGCAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
* * *
53383766 AAAATACCTTGGCATGTGAACCAAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTTTGAA
66 AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTGAA
* *
53383831 ACATAAATTGAAAACACTTCAGCGTGACCTG
129 ACATAAATTGAAAACACCTCAACGTGACCTG
* * *
53383862 AGGCTCAACTCACCTCTCGCAATAGGAGTCGATATTTTAAAACATAAATTGAAAAGCGGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
* * * *
53383927 AAAATACCTTGGCATGTGGCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAA
66 AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAC
53383992 ATTGAAATTGAAAA
131 A-T-AAATTGAAAA
53384006 AAAAAACAAA
Statistics
Matches: 267, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
159 10 0.04
160 102 0.38
161 151 0.57
162 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (159 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAC
ATAAATTGAAAACACCTCAACGTGACCTG
Found at i:53384150 original size:73 final size:73
Alignment explanation
Indices: 53384009--53384229 Score: 306
Period size: 73 Copynumber: 3.0 Consensus size: 73
53383999 TTGAAAAAAA
* *
53384009 AAACAAAAATTGAAAATACCTCAGCGTGT-CTTAAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTG
53384073 ATTTTTGAC
65 ATTTTTGAC
*
53384082 AAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAAGCCCAACTCA-CTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
53384145 AATTTTTGA-
65 -ATTTTTGAC
* ** * *
53384154 AAAGCAGAAATTGAAAATACCTTAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
53384219 ATTTTTGAC
65 ATTTTTGAC
53384228 AA
1 AA
53384230 CAAAATAAAA
Statistics
Matches: 132, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
72 25 0.19
73 80 0.61
74 27 0.20
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:53385118 original size:43 final size:44
Alignment explanation
Indices: 53385016--53385133 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 44
53385006 TCATTAGAAT
* * * *
53385016 GCCC-TTTCGGGTTTTCATCCTAATCCTTTGTGTTAATCAAGAC
1 GCCCTTTTCGGGTTTTCATCTTGATCCTTTTTATTAATCAAGAC
* * *
53385059 ACTCTTTTTGGGTTTTCATCTTGATCCTTTTTATT-ATCAAGAC
1 GCCCTTTTCGGGTTTTCATCTTGATCCTTTTTATTAATCAAGAC
* * *
53385102 GCCCTTTTCGGATTTTCACCTTGATTCTTTTT
1 GCCCTTTTCGGGTTTTCATCTTGATCCTTTTT
53385134 TTTTAGGCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 36 0.59
44 25 0.41
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (44 bp):
GCCCTTTTCGGGTTTTCATCTTGATCCTTTTTATTAATCAAGAC
Found at i:53391884 original size:125 final size:126
Alignment explanation
Indices: 53391664--53391915 Score: 465
Period size: 125 Copynumber: 2.0 Consensus size: 126
53391654 ATCGCTATAT
53391664 TTTTTTCTCGTGCTAAGATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGAA
1 TTTTTTCTCGTGCTAAGATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGAA
53391729 TTTCAGCTTCTTCGATAGTTGTACCACGTGCAT-GCTACCCCACGAATTTCA-TTATCAAA
66 TTTCAGCTTCTTCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
53391788 TTTTTTCTCGTGCTAAGAATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATG-GA
1 TTTTTTCTCGTGCTAAG-ATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGA
53391852 ATTTCAGCTTCTTCCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
65 ATTTCAGCTTCTT-CGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
53391915 T
1 T
53391916 AGCTAAGTTG
Statistics
Matches: 124, Mismatches: 0, Indels: 5
0.96 0.00 0.04
Matches are distributed among these distances:
124 32 0.26
125 65 0.52
126 18 0.15
127 9 0.07
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (126 bp):
TTTTTTCTCGTGCTAAGATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGAA
TTTCAGCTTCTTCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
Found at i:53404576 original size:387 final size:385
Alignment explanation
Indices: 53403812--53404584 Score: 1359
Period size: 387 Copynumber: 2.0 Consensus size: 385
53403802 CACATGCCCG
*
53403812 TGTCTCTGCCCGTATGGACAAAAATAGATCATTTCAAGCCACATTCTCACTCAATTTGGTACCAA
1 TGTCTCTGCCCGTATGGACAAAAATAGATCATTTCAAGCCAAATTCTCACTCAATTTGGTACCAA
53403877 CCTAAACACAACAATTTGCATATCAACAAGTCATAACAAGGCATTCAAATCAAGTTAAAATCAAG
66 CCTAAACACAACAATTTGCATATCAACAAGTCATAACAAGGCATTCAAATCAAGTTAAAATCAAG
*
53403942 TCTTAAACATGTATTATCACAACATACAACTAATATGATCGATTGAGTTGTGTCACGACCAGTCA
131 TCTTAAACATGTATTATCACAACATACAACCAATATGATCGATTGAGTTGTGTCACGACCAGTCA
* * * *
53404007 ATCGAGCATCAACTCAATTAGGAAAATTATGATAATATCATTCTATAATTAAAATAAGTTATATT
196 ACCGAGCACCAACTCAATTAGAAAAATTATGAAAATATCATTCTATAATTAAAATAAGTTATATT
*
53404072 ATTTGAGGGTATTTTAGTCTCTTTATTTTTTTAAAAAACCAATAAAAATATATATATAACGAGAT
261 ATTTGAGCGTATTTTAGTCTCTTTATTTTTTTAAAAAACCAATAAAAATATATATATAACGAGAT
*
53404137 TTAAACTCATAGTGGTTGAATTAGTAAAATCTTGAGTTTACCACTCAACCAAAACTTTAT
326 TTAAACTCATAGCGGTTGAATTAGTAAAATCTTGAGTTTACCACTCAACCAAAACTTTAT
* *
53404197 TGTCTCTGCCCGTATGGACAAAAATAGATCATTTTCAAGCCAAATTTTCCATTCAATTTGGTACC
1 TGTCTCTGCCCGTATGGACAAAAATAGATCA-TTTCAAGCCAAATTCT-CACTCAATTTGGTACC
* * *
53404262 AACTTAAACACAATAATTTGTATATCAACAAGTCATAACAAGGCATTCAAATCAAGTTAAAATCA
64 AACCTAAACACAACAATTTGCATATCAACAAGTCATAACAAGGCATTCAAATCAAGTTAAAATCA
* *
53404327 AGTTTTAAACATGTATTATCACAACATACAACCAATATGATCGATTGAGTTGTGTCACGACGAGT
129 AGTCTTAAACATGTATTATCACAACATACAACCAATATGATCGATTGAGTTGTGTCACGACCAGT
53404392 CAACCGAGCACCAACTCAATTAGAAAAATTATGAAAATATCATTCTATAATTAAAATAAGTTATA
194 CAACCGAGCACCAACTCAATTAGAAAAATTATGAAAATATCATTCTATAATTAAAATAAGTTATA
*
53404457 TTATTTGAGCGTATTTTAGTCTCTTTATTTTTTTTAAAAAACCAAT-AAAATATGTATATAACGA
259 TTATTTGAGCGTATTTTAGTCTCTTTA-TTTTTTTAAAAAACCAATAAAAATATATATATAACGA
*
53404521 GATTTAAACTTATAGCGGTTGAATTAGTAAAATCTTGAGTTTACCACTCAACCAAAACTTTAT
323 GATTTAAACTCATAGCGGTTGAATTAGTAAAATCTTGAGTTTACCACTCAACCAAAACTTTAT
53404584 T
1 T
53404585 TTATTTATTT
Statistics
Matches: 368, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
385 31 0.08
386 14 0.04
387 305 0.83
388 18 0.05
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (385 bp):
TGTCTCTGCCCGTATGGACAAAAATAGATCATTTCAAGCCAAATTCTCACTCAATTTGGTACCAA
CCTAAACACAACAATTTGCATATCAACAAGTCATAACAAGGCATTCAAATCAAGTTAAAATCAAG
TCTTAAACATGTATTATCACAACATACAACCAATATGATCGATTGAGTTGTGTCACGACCAGTCA
ACCGAGCACCAACTCAATTAGAAAAATTATGAAAATATCATTCTATAATTAAAATAAGTTATATT
ATTTGAGCGTATTTTAGTCTCTTTATTTTTTTAAAAAACCAATAAAAATATATATATAACGAGAT
TTAAACTCATAGCGGTTGAATTAGTAAAATCTTGAGTTTACCACTCAACCAAAACTTTAT
Found at i:53405683 original size:12 final size:13
Alignment explanation
Indices: 53405637--53405682 Score: 58
Period size: 13 Copynumber: 3.6 Consensus size: 13
53405627 TTTGACAATA
**
53405637 TTTTGAAAAGTAT
1 TTTTGAAAAGTGC
53405650 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
53405663 -TGTGAAAAGTGC
1 TTTTGAAAAGTGC
53405675 TTTTGAAA
1 TTTTGAAA
53405683 GGTTTGGTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.35, C:0.04, G:0.22, T:0.39
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:53406633 original size:13 final size:12
Alignment explanation
Indices: 53406580--53406655 Score: 59
Period size: 13 Copynumber: 6.3 Consensus size: 12
53406570 AAAAAAAGTG
53406580 AAAAAA-AAAA-
1 AAAAAATAAAAT
**
53406590 AAAAAATATTA-
1 AAAAAATAAAAT
53406601 AAAAAATAAAAT
1 AAAAAATAAAAT
*
53406613 CAAGAAATAAAAAT
1 -AAAAAAT-AAAAT
* *
53406627 AAAAAATCAAAG
1 AAAAAATAAAAT
53406639 AAAAAATTAAAAT
1 AAAAAA-TAAAAT
53406652 AAAA
1 AAAA
53406656 TTACTTGCCA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
10 6 0.12
11 11 0.22
12 9 0.18
13 20 0.39
14 5 0.10
ACGTcount: A:0.80, C:0.03, G:0.03, T:0.14
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:53411129 original size:17 final size:17
Alignment explanation
Indices: 53411103--53411135 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
53411093 CAAAATAAAT
*
53411103 ATTAATTAATTAATTTA
1 ATTAACTAATTAATTTA
53411120 ATTAACTAATTAATTT
1 ATTAACTAATTAATTT
53411136 CAATAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTAACTAATTAATTTA
Found at i:53411146 original size:17 final size:17
Alignment explanation
Indices: 53411103--53411147 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
53411093 CAAAATAAAT
*
53411103 ATTAATTAATTAATTTA
1 ATTAAATAATTAATTTA
*
53411120 ATTAACTAATTAATTTCA
1 ATTAAATAATTAATTT-A
53411138 A-TAAATAATT
1 ATTAAATAATT
53411148 TTCTATCTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 23 0.92
18 2 0.08
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTAAATAATTAATTTA
Found at i:53411930 original size:17 final size:17
Alignment explanation
Indices: 53411908--53411942 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
53411898 ACATGACATG
*
53411908 AATCAACTCAAACTTTC
1 AATCAACTCAAACGTTC
53411925 AATCAACTCAAACGTTC
1 AATCAACTCAAACGTTC
53411942 A
1 A
53411943 TTTCTATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.29, G:0.03, T:0.26
Consensus pattern (17 bp):
AATCAACTCAAACGTTC
Found at i:53413417 original size:37 final size:37
Alignment explanation
Indices: 53413376--53413447 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
53413366 CAATTTCCTT
*
53413376 AAATTTTTCCATTTTATTCAATTTAGTCCCTAAAACC
1 AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAACC
**
53413413 AAATTTTTTTAGTTTATTCAATTTAGTCCCTAAAA
1 AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAA
53413448 TCGAAGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.04, T:0.46
Consensus pattern (37 bp):
AAATTTTTCCAGTTTATTCAATTTAGTCCCTAAAACC
Found at i:53429445 original size:9 final size:9
Alignment explanation
Indices: 53429417--53429446 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
53429407 AAATACATAC
53429417 ATAATATAT
1 ATAATATAT
*
53429426 AAAATATAT
1 ATAATATAT
53429435 ATAATATAT
1 ATAATATAT
53429444 ATA
1 ATA
53429447 TTAGAAATGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
ATAATATAT
Found at i:53429454 original size:24 final size:22
Alignment explanation
Indices: 53429420--53429466 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 22
53429410 TACATACATA
53429420 ATATATAAAAT-ATATATAATAT
1 ATATATAAAATGATA-ATAATAT
53429442 ATATATTAGAAATGATAATAATAT
1 ATATA-TA-AAATGATAATAATAT
53429466 A
1 A
53429467 AAAAACTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.23
23 2 0.09
24 12 0.55
25 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (22 bp):
ATATATAAAATGATAATAATAT
Found at i:53429540 original size:19 final size:19
Alignment explanation
Indices: 53429516--53429554 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
53429506 TATAAATAAT
*
53429516 AATGATGTTAGAAATATAC
1 AATGATATTAGAAATATAC
53429535 AATGATATTAGAAATATAC
1 AATGATATTAGAAATATAC
53429554 A
1 A
53429555 TAAAATAGTA
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:0.51, C:0.05, G:0.13, T:0.31
Consensus pattern (19 bp):
AATGATATTAGAAATATAC
Found at i:53429601 original size:24 final size:22
Alignment explanation
Indices: 53429548--53429608 Score: 52
Period size: 24 Copynumber: 2.6 Consensus size: 22
53429538 GATATTAGAA
*
53429548 ATATACATAA-AATAGTATAAAAG
1 ATATATATAATAAT-GT-TAAAAG
* *
53429571 ATGTATAACTAATAATGTTAAAAT
1 ATATAT-A-TAATAATGTTAAAAG
53429595 ATATATATAATAAT
1 ATATATATAATAAT
53429609 ATATATAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
22 7 0.23
23 5 0.16
24 11 0.35
25 5 0.16
26 3 0.10
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (22 bp):
ATATATATAATAATGTTAAAAG
Found at i:53429662 original size:59 final size:56
Alignment explanation
Indices: 53429599--53429707 Score: 148
Period size: 59 Copynumber: 1.9 Consensus size: 56
53429589 TAAAATATAT
53429599 ATATAATA-ATATATATAAAATACAATATTGAAAACATATATACATAATATATACGAAAA
1 ATAT-ATAGATATATATAAAATACAATATT--AAA-ATATATACATAATATATACGAAAA
* * *
53429658 ATATATAGATATATATATAATATAATATTAAAATATTTACATAATATATA
1 ATATATAGATATATATAAAATACAATATTAAAATATATACATAATATATA
53429708 AATATTAGGA
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 17 0.37
57 3 0.07
58 3 0.07
59 23 0.50
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.36
Consensus pattern (56 bp):
ATATATAGATATATATAAAATACAATATTAAAATATATACATAATATATACGAAAA
Found at i:53429796 original size:19 final size:19
Alignment explanation
Indices: 53429760--53429798 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
53429750 ATATACATAA
*
53429760 ATATATTAAAAACATATAC
1 ATATATTAAAAAAATATAC
53429779 ATATA-TAAAAAAATTATAC
1 ATATATTAAAAAAA-TATAC
53429798 A
1 A
53429799 CTAATATATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
ATATATTAAAAAAATATAC
Found at i:53429945 original size:3 final size:3
Alignment explanation
Indices: 53429939--53430084 Score: 70
Period size: 3 Copynumber: 49.0 Consensus size: 3
53429929 ACATTATTAC
*
53429939 ATA ATA ATA ATA ATA ATA AT- ATA TTA ATAA ATA A-A A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA A-TA ATA
* * * * * * * * *
53429983 A-A AGGA ATA AAA ACA ATG TTA ATA ACA AGA ATA TTA ATA ATA GTA
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
53430028 ATA ATA ACA ATA AT- CTAA ATA ATA ATA TTA ATA ATA TTA GA-A ATG
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA ATA
53430073 ATA ATA ATA ATA
1 ATA ATA ATA ATA
53430085 TTTAATAAAG
Statistics
Matches: 106, Mismatches: 27, Indels: 20
0.69 0.18 0.13
Matches are distributed among these distances:
2 10 0.09
3 88 0.83
4 8 0.08
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:53430096 original size:27 final size:29
Alignment explanation
Indices: 53430044--53430106 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
53430034 ACAATAATCT
* *
53430044 AAATAATAATATTAATAATATTAGAAATGA
1 AAATAATAATATT-ATAATATAAGAAACGA
*
53430074 TAATAATAATATT-TAATA-AAGAAACGA
1 AAATAATAATATTATAATATAAGAAACGA
53430101 AAATAA
1 AAATAA
53430107 AAAAAGGACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 12 0.41
28 5 0.17
30 12 0.41
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (29 bp):
AAATAATAATATTATAATATAAGAAACGA
Found at i:53431219 original size:25 final size:25
Alignment explanation
Indices: 53431188--53431235 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
53431178 TCTTTACTCA
*
53431188 TTGTCGTATAACGATAACAGAGTTG
1 TTGTCGTATAACGAGAACAGAGTTG
* *
53431213 TTGTCGTGTAACGAGAATAGAGT
1 TTGTCGTATAACGAGAACAGAGT
53431236 AAAGACTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.31
Consensus pattern (25 bp):
TTGTCGTATAACGAGAACAGAGTTG
Found at i:53431889 original size:72 final size:72
Alignment explanation
Indices: 53431802--53431936 Score: 175
Period size: 72 Copynumber: 1.9 Consensus size: 72
53431792 ACCTCGCCAT
* *
53431802 GTGACCCGAGGCTCAACACACCTCTTACAATATGAGTT-A-ATTTTATGAAACATAAATTGAAAA
1 GTGACCCGACGCTCAACACACCTCTCACAATATGAGTTGATATTTTA--AAACATAAATTGAAAA
53431865 CACCTCAAC
64 CACCTCAAC
* * * * *
53431874 GTGACCTGACGCTCAACTCATCTCTCGCAATATGAGTTGATATTTTAAAACATGAATTGAAAA
1 GTGACCCGACGCTCAACACACCTCTCACAATATGAGTTGATATTTTAAAACATAAATTGAAAA
53431937 GCAGAAATTG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 47 0.87
73 1 0.02
74 6 0.11
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (72 bp):
GTGACCCGACGCTCAACACACCTCTCACAATATGAGTTGATATTTTAAAACATAAATTGAAAACA
CCTCAAC
Found at i:53432183 original size:161 final size:159
Alignment explanation
Indices: 53431722--53432186 Score: 633
Period size: 161 Copynumber: 2.9 Consensus size: 159
53431712 ACGTAAGCCA
* * * * * * **
53431722 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTTGAAACTTAATTTGAAAGGCAGATTTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
* * * * *
53431787 AAAATACCTCGCCATGTGACCCGAGGCTCAACACACCTCTTACAATATGAGTTAATTTTATGAAA
66 AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTT-TGAAA
53431852 CATAAATTGAAAACACCTCAACGTGACCTG
130 CATAAATTGAAAACACCTCAACGTGACCTG
* * *
53431882 ACGCTCAACTCATCTCTCGCAATATGAGTTGATATTTTAAAACATGAATTGAAAAGCAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
* * *
53431947 AAAATACCTTGGCATGTGAACCAAGGCTCAACTCACCTCTTGTAATATGAGTTGATTTTTTTGAA
66 AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTGAA
* *
53432012 ACATAAATTGAAAACACTTCAGCGTGACCTG
129 ACATAAATTGAAAACACCTCAACGTGACCTG
* * *
53432043 AGGCTCAACTCACCTCTCGCAATAGGAGTCGATATTTTAAAACATAAATTGAAAAGCGGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
* * * *
53432108 AAAATACCTTGGCATGTGGCCCGAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAA
66 AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAC
53432173 ATTGAAATTGAAAA
131 A-T-AAATTGAAAA
53432187 AAAAAACAAA
Statistics
Matches: 267, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
159 10 0.04
160 102 0.38
161 151 0.57
162 4 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.29
Consensus pattern (159 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATATTTTAAAACATAAATTGAAAAGCAGAAATTG
AAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAC
ATAAATTGAAAACACCTCAACGTGACCTG
Found at i:53432309 original size:73 final size:73
Alignment explanation
Indices: 53432190--53432411 Score: 315
Period size: 74 Copynumber: 3.0 Consensus size: 73
53432180 TTGAAAAAAA
* *
53432190 AAACAAAAATTGAAAATACCTCAGCGTGT-CTTAAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTG
53432254 ATTTTTGAC
65 ATTTTTGAC
*
53432263 AAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAAGCCCAACTCACCTCTCGCAATATGAGTTG
1 AAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
53432327 AATTTTTGA-
65 -ATTTTTGAC
* ** * *
53432336 AAAGCAGAAATTGAAAATACCTTAGCGTACCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTG
53432401 ATTTTTGAC
65 ATTTTTGAC
53432410 AA
1 AA
53432412 CAAAAATAAA
Statistics
Matches: 134, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
72 4 0.03
73 62 0.46
74 64 0.48
75 4 0.03
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (73 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAC
Found at i:53433303 original size:43 final size:44
Alignment explanation
Indices: 53433201--53433318 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 44
53433191 TCATTAGAAT
* * * *
53433201 GCCC-TTTCGGGTTTTCATCCTAATCCTTTGTGTTAATCAAGAC
1 GCCCTTTTCGGGTTTTCATCTTGATCCTTTTTATTAATCAAGAC
* * *
53433244 ACTCTTTTTGGGTTTTCATCTTGATCCTTTTTATT-ATCAAGAC
1 GCCCTTTTCGGGTTTTCATCTTGATCCTTTTTATTAATCAAGAC
* * *
53433287 GCCCTTTTCGGATTTTCACCTTGATTCTTTTT
1 GCCCTTTTCGGGTTTTCATCTTGATCCTTTTT
53433319 TTTTAGGCAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
43 36 0.59
44 25 0.41
ACGTcount: A:0.16, C:0.23, G:0.14, T:0.47
Consensus pattern (44 bp):
GCCCTTTTCGGGTTTTCATCTTGATCCTTTTTATTAATCAAGAC
Found at i:53440105 original size:128 final size:128
Alignment explanation
Indices: 53439877--53440133 Score: 514
Period size: 128 Copynumber: 2.0 Consensus size: 128
53439867 TCGCTATATT
53439877 TTTTTTCTCGTGCTAAGAATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGA
1 TTTTTTCTCGTGCTAAGAATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGA
53439942 ATTTCAGCTTCTTCCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
66 ATTTCAGCTTCTTCCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
53440005 TTTTTTCTCGTGCTAAGAATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGA
1 TTTTTTCTCGTGCTAAGAATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGA
53440070 ATTTCAGCTTCTTCCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
66 ATTTCAGCTTCTTCCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
53440133 T
1 T
53440134 AGCTAAGTTG
Statistics
Matches: 129, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 129 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (128 bp):
TTTTTTCTCGTGCTAAGAATTCTGATATGTTTGATCTTCGACTTGGAGGGAATTGACATATGAGA
ATTTCAGCTTCTTCCGATAGTTGTACCACGTGCATGGCTACCCCACGAATTTCATTTATCAAA
Found at i:53443783 original size:22 final size:21
Alignment explanation
Indices: 53443716--53443784 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 21
53443706 ATAATATTAA
*
53443716 AATAAA-ATAATAAGTGATAAT
1 AATAAATATAATATGT-ATAAT
*
53443737 AGTGAAA-ATAATATGTATAAT
1 AAT-AAATATAATATGTATAAT
53443758 AATAAATATAATGATGTATGAA-
1 AATAAATATAAT-ATGTAT-AAT
53443780 AATAA
1 AATAA
53443785 TACTATATAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
20 3 0.07
21 14 0.34
22 22 0.54
23 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATAAATATAATATGTATAAT
Found at i:53444054 original size:11 final size:9
Alignment explanation
Indices: 53444024--53444053 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
53444014 AAATACATAC
53444024 ATAATATAT
1 ATAATATAT
53444033 ATAATATAT
1 ATAATATAT
53444042 ATAATATAT
1 ATAATATAT
53444051 ATA
1 ATA
53444054 TTAGAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATAATATAT
Done.