Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold7
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: 6555642
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 349864 characters in sequence are not A, C, G, or T
File 7 of 37
Found at i:1072444 original size:307 final size:307
Alignment explanation
Indices: 1071890--1072498 Score: 1209
Period size: 307 Copynumber: 2.0 Consensus size: 307
1071880 AAATATCAGC
1071890 AAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATGATCTCTAATAA
1 AAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATGATCTCTAATAA
1071955 AGTGATGTCTTATTTCTATGTGCTTAGTCCTAGAATGTTGTACCGAATTTTTGGTTAAACAAATT
66 AGTGATGTCTTATTTCTATGTGCTTAGTCCTAGAATGTTGTACCGAATTTTTGGTTAAACAAATT
1072020 GCACTAGCATTATCACATTTTATGGGAATATGATCCATGGTAATGCCAAAATCCTCTAATTGTTG
131 GCACTAGCATTATCACATTTTATGGGAATATGATCCATGGTAATGCCAAAATCCTCTAATTGTTG
1072085 TTTTATCTACAATATTTGTGCACAACAACTTCCTACGGATATATACTCCGCTTCGGTTGTGGATA
196 TTTTATCTACAATATTTGTGCACAACAACTTCCTACGGATATATACTCCGCTTCGGTTGTGGATA
1072150 GAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAACACT
261 GAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAACACT
1072197 AAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATGATCTCTAATAA
1 AAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATGATCTCTAATAA
*
1072262 AGTGATGTCTTATTTCTATGTGCTTAGTCCTAGAATGTTGTACCGGATTTTTGGTTAAACAAATT
66 AGTGATGTCTTATTTCTATGTGCTTAGTCCTAGAATGTTGTACCGAATTTTTGGTTAAACAAATT
1072327 GCACTAGCATTATCACATTTTATGGGAATATGATCCATGGTAATGCCAAAATCCTCTAATTGTTG
131 GCACTAGCATTATCACATTTTATGGGAATATGATCCATGGTAATGCCAAAATCCTCTAATTGTTG
1072392 TTTTATCTACAATATTTGTGCACAACAACTTCCTACGGATATATACTCCGCTTCGGTTGTGGATA
196 TTTTATCTACAATATTTGTGCACAACAACTTCCTACGGATATATACTCCGCTTCGGTTGTGGATA
1072457 GAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCA
261 GAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCA
1072499 TATTACCAAG
Statistics
Matches: 301, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
307 301 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (307 bp):
AAGTTGGTGCAAGGTATCTACAAATTCTATTACAACATCCCCTTTTTGCACATGATCTCTAATAA
AGTGATGTCTTATTTCTATGTGCTTAGTCCTAGAATGTTGTACCGAATTTTTGGTTAAACAAATT
GCACTAGCATTATCACATTTTATGGGAATATGATCCATGGTAATGCCAAAATCCTCTAATTGTTG
TTTTATCTACAATATTTGTGCACAACAACTTCCTACGGATATATACTCCGCTTCGGTTGTGGATA
GAGCAACACTATTTTGTTTCTTGGAAAACCATGATATGAGCAACACT
Found at i:1073827 original size:15 final size:15
Alignment explanation
Indices: 1073807--1073837 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1073797 ATTTCGTTTG
*
1073807 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1073822 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1073837 G
1 G
1073838 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1075669 original size:21 final size:21
Alignment explanation
Indices: 1075640--1075684 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1075630 AAGTTTTCAT
*
1075640 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1075660 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1075682 TTT
1 TTT
1075685 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1077917 original size:13 final size:13
Alignment explanation
Indices: 1077899--1077924 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1077889 CAATTTTTTG
1077899 TGTATCGATACAT
1 TGTATCGATACAT
1077912 TGTATCGATACAT
1 TGTATCGATACAT
1077925 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1084757 original size:41 final size:41
Alignment explanation
Indices: 1084700--1084804 Score: 156
Period size: 41 Copynumber: 2.6 Consensus size: 41
1084690 GAGTCACCAC
*
1084700 TGAGTTACGAAACTTGAAACATCGATCATGTGGTTATGTTT
1 TGAGTTACAAAACTTGAAACATCGATCATGTGGTTATGTTT
* * * *
1084741 TGAGTTGCAAAACTTGATACATTGATCTTGTGGTTATGTTT
1 TGAGTTACAAAACTTGAAACATCGATCATGTGGTTATGTTT
*
1084782 TGAATTACAAAACTTGAAACATC
1 TGAGTTACAAAACTTGAAACATC
1084805 AATCTTATAG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.37
Consensus pattern (41 bp):
TGAGTTACAAAACTTGAAACATCGATCATGTGGTTATGTTT
Found at i:1088476 original size:52 final size:52
Alignment explanation
Indices: 1088414--1089052 Score: 597
Period size: 52 Copynumber: 12.4 Consensus size: 52
1088404 GCAAATTCAT
* * * * **
1088414 GGCCAACGACACTGGTCTTAGAGATGACAAAGGTGCCAATGTATTGATCCAA
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
*
1088466 GGCCAGCGACATTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * * * * * *
1088518 GACTAGCGACATTGGACTTAAAGAAGATAAGGGTGCTAAGGTGTTGATCCAT
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * *
1088570 GGCCAGCGACACT-GATCTTAGAGATGA-CAAGGTGCCAACGTGCTAATCCAA
1 GGCCAGCGACACTGGA-CTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * *
1088621 GGCCAGCAACATTGGACTTAAAGATAATAAAGGTGCCAATG-GATAATCCAA
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* ** * * * *
1088672 GGCTAGTAACATTGGACTTAAAGATGATAAGGGTGCCAATGTGCTAATCCAT
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
** * * * * * *
1088724 GGGTAGCAACACTGGTCTTAAAGATGATAAGGGTGCCAATATGCTAATCCAT
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * *
1088776 GGCCAGCGACACTGGTCTTAAAGATGATAAGGGTGCTAATATGCTGATTCAA
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * *
1088828 GGCCAGCGACACTGGTCTTAAAGATGATAAGGGTGCCAATGTGCTAATTCAT
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * * *
1088880 GGCCAACGACACTGGTCTTAAAGATGATAAGGGTGCC-ATGCGCTGATTCAT
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * *
1088931 GACTAGCGACATTGGACTTAAAAATGATAAAGGTGCCAATGTGCTGATCTAA
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
* * * * *
1088983 GGCTAGCGACATTGGACTT-TAGATGAT-AAGGATACCAATGTACTGATCCAA
1 GGCCAGCGACACTGGACTTAAAGATGATAAAGG-TGCCAATGTGCTGATCCAA
** *
1089034 GGCCAATGACATTGGACTT
1 GGCCAGCGACACTGGACTT
1089053 TAGTGAAAAA
Statistics
Matches: 502, Mismatches: 79, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
50 4 0.01
51 165 0.33
52 333 0.66
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (52 bp):
GGCCAGCGACACTGGACTTAAAGATGATAAAGGTGCCAATGTGCTGATCCAA
Found at i:1088963 original size:310 final size:310
Alignment explanation
Indices: 1088422--1089032 Score: 758
Period size: 310 Copynumber: 2.0 Consensus size: 310
1088412 ATGGCCAACG
* * * * *
1088422 ACACTGGTCTTAGAGATGACAAAGGTGCCAATGTATTGATCCAAGGCCAGCGACATTGGACTTAA
1 ACACTGGTCTTAAAGATGACAAAGGTGCCAATATACTAATCCAAGGCCAGCGACACTGGACTTAA
* * *
1088487 AGATGATAAAGGTGCCAATGTGCTGATCCAAGACTAGCGACATTGGACTTAAAGAAGATAAGGGT
66 AGATGATAAAGGTGCCAATATGCTGATCCAAGACCAGCGACACTGGACTTAAAGAAGATAAGGGT
* * * * * *
1088552 GCTAAGGTGTTGATCCATGGCCAGCGACACTGATCTTAGAGATGACAAGGTGCCAACGTGCTAAT
131 GCCAAGGTGCTAATCCATGGCCAACGACACTGATCTTAAAGATGACAAGGTGCCAACGCGCTAAT
* * *
1088617 CCAAGGCCAGCAACATTGGACTTAAAGATAATAAAGGTGCCAATG-GATAATCCAAGGCTAGTAA
196 CCAAGACCAGCAACATTGGACTTAAAAATAATAAAGGTGCCAATGTGATAATCCAAGGCTAGCAA
* * *
1088681 CATTGGACTTAAAGATGATAAGGGTGCCAATGTGCTAATCCATGGGTAGCA
261 CATTGGACTT-AAGATGATAAGGATACCAATGTACTAATCCATGGGTAGCA
* * * * *
1088732 ACACTGGTCTTAAAGATGATAAGGGTGCCAATATGCTAATCCATGGCCAGCGACACTGGTCTTAA
1 ACACTGGTCTTAAAGATGACAAAGGTGCCAATATACTAATCCAAGGCCAGCGACACTGGACTTAA
* * * * * *
1088797 AGATGATAAGGGTGCTAATATGCTGATTCAAGGCCAGCGACACTGGTCTTAAAGATGATAAGGGT
66 AGATGATAAAGGTGCCAATATGCTGATCCAAGACCAGCGACACTGGACTTAAAGAAGATAAGGGT
* * * * * *
1088862 GCCAATGTGCTAATTCATGGCCAACGACACTGGTCTTAAAGATGATAAGGGTGCC-ATGCGCTGA
131 GCCAAGGTGCTAATCCATGGCCAACGACACTGATCTTAAAGATGACAA-GGTGCCAACGCGCTAA
* * * * * * * * *
1088926 TTCATGACTAGCGACATTGGACTTAAAAATGATAAAGGTGCCAATGTGCTGATCTAAGGCTAGCG
195 TCCAAGACCAGCAACATTGGACTTAAAAATAATAAAGGTGCCAATGTGATAATCCAAGGCTAGCA
* *
1088991 ACATTGGACTTTAGATGATAAGGATACCAATGTACTGATCCA
260 ACATTGGACTTAAGATGATAAGGATACCAATGTACTAATCCA
1089033 AGGCCAATGA
Statistics
Matches: 251, Mismatches: 48, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
310 221 0.88
311 30 0.12
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.24
Consensus pattern (310 bp):
ACACTGGTCTTAAAGATGACAAAGGTGCCAATATACTAATCCAAGGCCAGCGACACTGGACTTAA
AGATGATAAAGGTGCCAATATGCTGATCCAAGACCAGCGACACTGGACTTAAAGAAGATAAGGGT
GCCAAGGTGCTAATCCATGGCCAACGACACTGATCTTAAAGATGACAAGGTGCCAACGCGCTAAT
CCAAGACCAGCAACATTGGACTTAAAAATAATAAAGGTGCCAATGTGATAATCCAAGGCTAGCAA
CATTGGACTTAAGATGATAAGGATACCAATGTACTAATCCATGGGTAGCA
Found at i:1089169 original size:59 final size:58
Alignment explanation
Indices: 1089094--1089318 Score: 272
Period size: 59 Copynumber: 3.8 Consensus size: 58
1089084 CATAGGTAAG
* *
1089094 GTGCTAATGTGATGATTCAAGGCCAGTGACATTGGGCTAGAGAAAAGAAGATTTGACAA
1 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAGAG-AAAGAAGATTTGACAA
* * * * *
1089153 GTGCTAATGTGTTGATTCAAGGCCAGCGACATTAGGCTTGAGAAATAAGGTTTGACAA
1 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAGAGAAAGAAGATTTGACAA
* * * * *
1089211 GTGCTAATGTGCTAATTCAATGCCAACGATATTGGGCCTA-AGAAAGAAGATTTGATAAA
1 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGG-CTAGAGAAAGAAGATTTGA-CAA
* * * *
1089270 GTGCCAATGTACTGATTCAAGGCCAGCAACATTGGGCTTGAGAAAGAAG
1 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAGAGAAAGAAG
1089319 GTTTTGATAG
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
58 59 0.42
59 80 0.58
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.25
Consensus pattern (58 bp):
GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAGAGAAAGAAGATTTGACAA
Found at i:1089302 original size:117 final size:117
Alignment explanation
Indices: 1089094--1089322 Score: 309
Period size: 117 Copynumber: 2.0 Consensus size: 117
1089084 CATAGGTAAG
* ** * *
1089094 GTGCTAATGTGATGATTCAAGGCCAGTGACATTGGGCTAGAGAAAAGAAGATTTGACAAGTGCTA
1 GTGCTAATGTGATAATTCAAGGCCAACGACATTGGGCTAGAGAAAAGAAGATTTGAAAAGTGCCA
** * *
1089159 ATGTGTTGATTCAAGGCCAGCGACATTAGGCTTGAGAAATAAGGTTTGACAA
66 ATGTACTGATTCAAGGCCAGCAACATTAGGCTTGAGAAAGAAGGTTTGACAA
* * *
1089211 GTGCTAATGTGCTAATTCAATGCCAACGATATTGGGCCTA-AG-AAAGAAGATTTGATAAAGTGC
1 GTGCTAATGTGATAATTCAAGGCCAACGACATTGGG-CTAGAGAAAAGAAGATTTGA-AAAGTGC
*
1089274 CAATGTACTGATTCAAGGCCAGCAACATTGGGCTTGAGAAAGAAGGTTT
64 CAATGTACTGATTCAAGGCCAGCAACATTAGGCTTGAGAAAGAAGGTTT
1089323 TGATAGATAT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
116 13 0.13
117 81 0.84
118 3 0.03
ACGTcount: A:0.34, C:0.14, G:0.27, T:0.26
Consensus pattern (117 bp):
GTGCTAATGTGATAATTCAAGGCCAACGACATTGGGCTAGAGAAAAGAAGATTTGAAAAGTGCCA
ATGTACTGATTCAAGGCCAGCAACATTAGGCTTGAGAAAGAAGGTTTGACAA
Found at i:1089517 original size:58 final size:58
Alignment explanation
Indices: 1089363--1089519 Score: 197
Period size: 58 Copynumber: 2.7 Consensus size: 58
1089353 GCCGATGTGT
* * * * * *
1089363 TAATTCAAGGCTAGTGACATTGGGCTTAAAAAAGAAGATTTAACAAGTGCCAATGTGC
1 TAATTCAAGGCCAATGACATTGGGCTTAAGAAAGAAGGTTTAACAAATGCCAACGTGC
* * * * *
1089421 TGATTCAAGGCCAACGACATTGGGCTTAAGAAAAAAGGTTTGATAAATGCCAACGTGC
1 TAATTCAAGGCCAATGACATTGGGCTTAAGAAAGAAGGTTTAACAAATGCCAACGTGC
* *
1089479 TAATTCAAGGCCAATGACATTAGGCTTGAGAAAGAAGGTTT
1 TAATTCAAGGCCAATGACATTGGGCTTAAGAAAGAAGGTTT
1089520 TTACAGATGT
Statistics
Matches: 83, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.25
Consensus pattern (58 bp):
TAATTCAAGGCCAATGACATTGGGCTTAAGAAAGAAGGTTTAACAAATGCCAACGTGC
Found at i:1089589 original size:197 final size:198
Alignment explanation
Indices: 1089153--1089590 Score: 563
Period size: 197 Copynumber: 2.2 Consensus size: 198
1089143 GATTTGACAA
* * * * * * * *
1089153 GTGCTAATGTGTTGATTCAAGGCCAGCGACATTAGGCTTGAGAAATAAGGTTTGACAAGTGCTAA
1 GTGCCAATGTGTTAATTCAAGGCCAGCGACATTAGGCTTAAAAAAGAAGATTTAACAAGTGCCAA
* * * *
1089218 TGTGCTAATTCAATGCCAACGATATTGGGCCTAAGAAAGAAGATTTGATAAAGTGCCAATGTACT
66 TGTGCTAATTCAAGGCCAACGACATTGGGCCTAAGAAAAAAGATTTGATAAAGTGCCAACGTACT
* * * * *
1089283 GATTCAAGGCCAGCAACATTGGGCTTGAGAAAGAAGGTTTTGATAGATATCGCATGACTTAAGGC
131 AATTCAAGGCCAACAACATTAGGCTTGAGAAAGAAGGTTTTGACAGATATCGCATAACTTAAGGC
1089348 AAG
196 AAG
* * * * *
1089351 ATGCCGATGTGTTAATTCAAGGCTAGTGACATTGGGCTTAAAAAAGAAGATTTAACAAGTGCCAA
1 GTGCCAATGTGTTAATTCAAGGCCAGCGACATTAGGCTTAAAAAAGAAGATTTAACAAGTGCCAA
* * * *
1089416 TGTGCTGATTCAAGGCCAACGACATTGGGCTTAAGAAAAAAGGTTTGATAAA-TGCCAACGTGCT
66 TGTGCTAATTCAAGGCCAACGACATTGGGCCTAAGAAAAAAGATTTGATAAAGTGCCAACGTACT
** * * *
1089480 AATTCAAGGCCAATGACATTAGGCTTGAGAAAGAAGGTTTTTACAGATGTCGCATAACTTAGGGC
131 AATTCAAGGCCAACAACATTAGGCTTGAGAAAGAAGGTTTTGACAGATATCGCATAACTTAAGGC
1089545 AAG
196 AAG
* * *
1089548 GTGCCAATGTGCTAATTCAAAGCCAACGACATTAGGCTTAAAA
1 GTGCCAATGTGTTAATTCAAGGCCAGCGACATTAGGCTTAAAA
1089591 GAAGCTTGAG
Statistics
Matches: 201, Mismatches: 39, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
197 103 0.51
198 98 0.49
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (198 bp):
GTGCCAATGTGTTAATTCAAGGCCAGCGACATTAGGCTTAAAAAAGAAGATTTAACAAGTGCCAA
TGTGCTAATTCAAGGCCAACGACATTGGGCCTAAGAAAAAAGATTTGATAAAGTGCCAACGTACT
AATTCAAGGCCAACAACATTAGGCTTGAGAAAGAAGGTTTTGACAGATATCGCATAACTTAAGGC
AAG
Found at i:1089768 original size:29 final size:28
Alignment explanation
Indices: 1089696--1089768 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
1089686 CACCAATTTG
*
1089696 TATGGACTTTGCAAAGAGTGCCACTAACT
1 TATGGACTTTG-AAAGAATGCCACTAACT
* *
1089725 TATGGATCTTGGAAAGGAATGCCACTGACT
1 TATGGA-CTTTGAAA-GAATGCCACTAACT
*
1089755 TGTGGACTTTGAAA
1 TATGGACTTTGAAA
1089769 AAGATTGGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 16 0.43
30 21 0.57
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (28 bp):
TATGGACTTTGAAAGAATGCCACTAACT
Found at i:1091271 original size:40 final size:40
Alignment explanation
Indices: 1091216--1091292 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
1091206 ATAAAAGCAG
1091216 ACTCGGTGACAACCTAAGACTTAGTGCTAGAAAATTATGA
1 ACTCGGTGACAACCTAAGACTTAGTGCTAGAAAATTATGA
* * **
1091256 ACTCGGTGATAACCTAGGACTTAGTTTTAGAAAATTA
1 ACTCGGTGACAACCTAAGACTTAGTGCTAGAAAATTA
1091293 CGAAAATGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.29
Consensus pattern (40 bp):
ACTCGGTGACAACCTAAGACTTAGTGCTAGAAAATTATGA
Found at i:1091924 original size:12 final size:12
Alignment explanation
Indices: 1091889--1091927 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
1091879 ATAAAAAATA
1091889 TTTATTTATTAT
1 TTTATTTATTAT
1091901 TTGT-TTTATTAT
1 TT-TATTTATTAT
*
1091913 TTTATTTTTTAT
1 TTTATTTATTAT
1091925 TTT
1 TTT
1091928 TAGAATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
11 1 0.04
12 22 0.92
13 1 0.04
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:1092353 original size:93 final size:90
Alignment explanation
Indices: 1092248--1092442 Score: 225
Period size: 90 Copynumber: 2.1 Consensus size: 90
1092238 GTGGTGCACT
* * * *
1092248 AATATCATCTAGTGGTTGAAAAGATAAG-ATGTGATTAGGAATGTGG-GGGTTAGGATATCC-TT
1 AATATCATCTAGTGGCT-AAAAGAAAAGAATATGATTAGGAATG-GGTGGGTT--G-CA-CCTTT
*
1092310 GCCCTAAGGAAATTAGGCTTTGTGATGCATC
60 GCCCTAAGGAAATTAGGCTTTCTGATGCATC
* **
1092341 AATATCGTCTAGTGGCTAAGCGAAAAGAATATGATTAGGAATGGGTGGGTTGCACCTTTGCCCTA
1 AATATCATCTAGTGGCTAAAAGAAAAGAATATGATTAGGAATGGGTGGGTTGCACCTTTGCCCTA
*
1092406 AGGAAATTAGGTTTTCTGATGCATC
66 AGGAAATTAGGCTTTCTGATGCATC
*
1092431 AATACCATCTAG
1 AATATCATCTAG
1092443 GAATTAAGAA
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
89 2 0.02
90 42 0.48
91 1 0.01
92 9 0.10
93 34 0.39
ACGTcount: A:0.30, C:0.13, G:0.26, T:0.30
Consensus pattern (90 bp):
AATATCATCTAGTGGCTAAAAGAAAAGAATATGATTAGGAATGGGTGGGTTGCACCTTTGCCCTA
AGGAAATTAGGCTTTCTGATGCATC
Found at i:1092996 original size:79 final size:79
Alignment explanation
Indices: 1092851--1093002 Score: 187
Period size: 79 Copynumber: 1.9 Consensus size: 79
1092841 GACAAATGCG
* * ** *
1092851 TATGAGATTATGCAAATACCAATATCATATAAAGTGCAGATGTGTGTGAAATAATGCAAATGCAA
1 TATGAAATTATGCAAATACCAATATCATATAAAGTGCAAATGTGCATGAAATAATGCAAATACAA
1092916 GCATCAATTGCATA
66 GCATCAATTGCATA
* * * * * ***
1092930 TATGAAATTTTGCAAATACTAATGTCATCTAAAGTGCAAATGTGCATGAAATGATGCGTCTACAA
1 TATGAAATTATGCAAATACCAATATCATATAAAGTGCAAATGTGCATGAAATAATGCAAATACAA
1092995 GCATCAAT
66 GCATCAAT
1093003 GAAAAAGCTA
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (79 bp):
TATGAAATTATGCAAATACCAATATCATATAAAGTGCAAATGTGCATGAAATAATGCAAATACAA
GCATCAATTGCATA
Found at i:1093788 original size:112 final size:113
Alignment explanation
Indices: 1093646--1093854 Score: 282
Period size: 112 Copynumber: 1.9 Consensus size: 113
1093636 TGGTGGGCCT
* * * * *
1093646 AAAATATTTCAAAATTAATAGGTACATGCCCTATTTTCCTCGACACGAATGGGTCAG-ATCGTAT
1 AAAATATTTCAAAACTAATAGGTACATGCCCCATTTTCCTAGACACAAATGGATCAGAAT-GTAT
*
1093710 AGAA-CATGAATTTC-TCAAAAATTAGACAAATTCAATGTTGTTGGGCTC
65 A-AAGCATGAATTTCTTCAAAAATCAGACAAATTCAATGTTGTTGGGCTC
* *
1093758 AAAA-ATTTCAAAACTCATAGGATACATGCCCCATTTTCCTAGGCACAAATGGATCAGAATGTAT
1 AAAATATTTCAAAACTAATAGG-TACATGCCCCATTTTCCTAGACACAAATGGATCAGAATGTAT
*
1093822 AAAGTATGAATTTCTTCAAAAATCAGACAAATT
65 AAAGCATGAATTTCTTCAAAAATCAGACAAATT
1093855 TGATGTTCTT
Statistics
Matches: 84, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
111 17 0.20
112 48 0.57
113 19 0.23
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (113 bp):
AAAATATTTCAAAACTAATAGGTACATGCCCCATTTTCCTAGACACAAATGGATCAGAATGTATA
AAGCATGAATTTCTTCAAAAATCAGACAAATTCAATGTTGTTGGGCTC
Found at i:1094399 original size:19 final size:19
Alignment explanation
Indices: 1094377--1094419 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
1094367 GGATGTAATG
1094377 TTTTTTCATTTATTTATCT
1 TTTTTTCATTTATTTATCT
* *
1094396 TTTTTTCATTTTTTTCTCT
1 TTTTTTCATTTATTTATCT
1094415 TTTTT
1 TTTTT
1094420 CTTACTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTTTCATTTATTTATCT
Found at i:1094489 original size:21 final size:22
Alignment explanation
Indices: 1094455--1094495 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1094445 TTTCATGCTT
*
1094455 TTTTCTTTTCTTTTCTTTTTCA
1 TTTTCATTTCTTTTCTTTTTCA
1094477 TTTTCATTT-TTTTCTTTTT
1 TTTTCATTTCTTTTCTTTTT
1094496 GTTTCTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTCATTTCTTTTCTTTTTCA
Found at i:1094491 original size:31 final size:31
Alignment explanation
Indices: 1094434--1094502 Score: 97
Period size: 31 Copynumber: 2.2 Consensus size: 31
1094424 CTATTTGCAC
1094434 TTTCTTTTTCATTTCATGCTTTTTTCTTTTCT-
1 TTTCTTTTTCATTTCAT-CTTTTTTCTTTT-TG
1094466 TTTCTTTTTCATTTTCAT-TTTTTTCTTTTTG
1 TTTCTTTTTCA-TTTCATCTTTTTTCTTTTTG
1094497 TTTCTT
1 TTTCTT
1094503 ATTTAGAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 1 0.03
31 17 0.49
32 11 0.31
33 6 0.17
ACGTcount: A:0.06, C:0.16, G:0.03, T:0.75
Consensus pattern (31 bp):
TTTCTTTTTCATTTCATCTTTTTTCTTTTTG
Found at i:1095818 original size:12 final size:12
Alignment explanation
Indices: 1095777--1095818 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
1095767 CAAAAGGCGT
1095777 ATGTCATGAATGA
1 ATGT-ATGAATGA
*
1095790 ATGCATGAATGA
1 ATGTATGAATGA
1095802 ATGTATGAATGA
1 ATGTATGAATGA
*
1095814 GTGTA
1 ATGTA
1095819 AAATGAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 23 0.88
13 3 0.12
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (12 bp):
ATGTATGAATGA
Found at i:1098317 original size:13 final size:13
Alignment explanation
Indices: 1098299--1098324 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1098289 CAATTTTTTG
1098299 TGTATCGATACAT
1 TGTATCGATACAT
1098312 TGTATCGATACAT
1 TGTATCGATACAT
1098325 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1098408 original size:20 final size:20
Alignment explanation
Indices: 1098383--1098435 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1098373 ACATCTTTTT
1098383 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1098403 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
1098423 CATGTATCGATAC
1 CATGTATCGATAC
1098436 TTTGAATTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:1100896 original size:13 final size:13
Alignment explanation
Indices: 1100878--1100903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1100868 ATAATCACCC
1100878 TGTATCGATACAA
1 TGTATCGATACAA
1100891 TGTATCGATACAA
1 TGTATCGATACAA
1100904 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1102995 original size:15 final size:15
Alignment explanation
Indices: 1102975--1103005 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1102965 ATTTCGTTTG
*
1102975 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1102990 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1103005 G
1 G
1103006 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1104838 original size:21 final size:21
Alignment explanation
Indices: 1104809--1104853 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1104799 AAGTTTTCAT
*
1104809 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1104829 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1104851 TTT
1 TTT
1104854 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1107086 original size:13 final size:13
Alignment explanation
Indices: 1107068--1107093 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1107058 CAATTTTTTG
1107068 TGTATCGATACAT
1 TGTATCGATACAT
1107081 TGTATCGATACAT
1 TGTATCGATACAT
1107094 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1108262 original size:154 final size:154
Alignment explanation
Indices: 1108103--1108580 Score: 495
Period size: 153 Copynumber: 3.1 Consensus size: 154
1108093 GCTCGGTGAT
* * * * *
1108103 CCTAAAGGACTTAAAAAGGATTATAGATAGGATGAACCTATCCTAAATACCCACCATCGGTATAA
1 CCTAAAGGACTTAAAAAGG-TAAAAGATAGGATGAACTTATCCTAAATACCCACCTTCGGCATAA
* *
1108168 AAACAGACCCGATGATAACCTAAGACGCGATTCTAAAAAATTACGAAAATGCC-CAAAAGAATAC
65 AAACAGACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACGAAAATACCTCAAAAGAATAC
* *
1108232 TTTC-ATCATAAAAGTG-CTCGGCACC
130 ATTCAAT-ATAAAAGTGTCT-AGCACC
* * * * * *
1108257 TCTAAAAGACTTAAAAAGGTAAAAGATAGGATGAACTTATCCTAACTACCCATCTTCAGCATAGA
1 CCTAAAGGACTTAAAAAGGTAAAAGATAGGATGAACTTATCCTAAATACCCACCTTCGGCATAAA
* * * * * * *
1108322 AGCAAACCTGATGATAACTTAAGACTCGATTCT-AAAAATTAC-AAAACTACCTCTAAGGCATAC
66 AACAGACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACGAAAA-TACCTCAAAAGAATAC
*
1108385 ATTCAATGTAAAAGTGTCTAGCACC
130 ATTCAATATAAAAGTGTCTAGCACC
* *
1108410 CCTAAAGGACTTAAAAAGGTAAAAGGATGGGATGAACTTATCCTAAATACCCACTTTCGGCAT-A
1 CCTAAAGGACTTAAAAAGGTAAAA-GATAGGATGAACTTATCCTAAATACCCACCTTCGGCATAA
* ** * *
1108474 AAACAGACCCAATGACGACCTAAGACTC-AGTTCTAAAAAATTACGAAAATACTTC-TAAGAGAT
65 AAACAGACCCGATGATAACCTAAGACTCGA-TTCTAAAAAATTACGAAAATACCTCAAAAGA-AT
* ** * * * *
1108537 ACCTTCAACGTAAAAGTGCCTTGTACT
128 ACATTCAATATAAAAGTGTCTAGCACC
*
1108564 CCTAAAGGATTTAAAAA
1 CCTAAAGGACTTAAAAA
1108581 TGTGAAGGAA
Statistics
Matches: 266, Mismatches: 49, Indels: 18
0.80 0.15 0.05
Matches are distributed among these distances:
151 4 0.02
152 13 0.05
153 138 0.52
154 107 0.40
155 4 0.02
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (154 bp):
CCTAAAGGACTTAAAAAGGTAAAAGATAGGATGAACTTATCCTAAATACCCACCTTCGGCATAAA
AACAGACCCGATGATAACCTAAGACTCGATTCTAAAAAATTACGAAAATACCTCAAAAGAATACA
TTCAATATAAAAGTGTCTAGCACC
Found at i:1109131 original size:13 final size:13
Alignment explanation
Indices: 1109109--1109149 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
1109099 TAAAAATATA
1109109 TTTA-TTTATTAT
1 TTTATTTTATTAT
*
1109121 TTTGTTTTATTAT
1 TTTATTTTATTAT
*
1109134 TTTATTTTTTTAT
1 TTTATTTTATTAT
1109147 TTT
1 TTT
1109150 CAAAAATTCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 3 0.12
13 22 0.88
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.80
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:1110008 original size:13 final size:12
Alignment explanation
Indices: 1109987--1110031 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
1109977 CTTAACTATT
1109987 TTTCTTTTTTT-
1 TTTCTTTTTTTC
1109998 TTTCTTATTTTTC
1 TTTCTT-TTTTTC
1110011 TTTC-TTTTTTC
1 TTTCTTTTTTTC
*
1110022 TCTCTTTTTT
1 TTTCTTTTTT
1110032 GGCTGAGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 15 0.50
12 11 0.37
13 4 0.13
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:1110008 original size:20 final size:20
Alignment explanation
Indices: 1109983--1110022 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1109973 AAATCTTAAC
*
1109983 TATTTTTCTTTTTTTTTTCT
1 TATTTTTCTTTCTTTTTTCT
1110003 TATTTTTCTTTCTTTTTTCT
1 TATTTTTCTTTCTTTTTTCT
1110023 CTCTTTTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (20 bp):
TATTTTTCTTTCTTTTTTCT
Found at i:1110027 original size:24 final size:23
Alignment explanation
Indices: 1109985--1110031 Score: 64
Period size: 20 Copynumber: 2.2 Consensus size: 23
1109975 ATCTTAACTA
*
1109985 TTTTTCTTT-TTTTTT-TCT-TA
1 TTTTTCTTTCTTTTTTCTCTCTT
1110005 TTTTTCTTTCTTTTTTCTCTCTT
1 TTTTTCTTTCTTTTTTCTCTCTT
1110028 TTTT
1 TTTT
1110032 GGCTGAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.39
21 6 0.26
22 3 0.13
23 5 0.22
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (23 bp):
TTTTTCTTTCTTTTTTCTCTCTT
Found at i:1110306 original size:14 final size:14
Alignment explanation
Indices: 1110289--1110330 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1110279 AACTAAACTC
1110289 GAAAAATTATATAA
1 GAAAAATTATATAA
*
1110303 GAAAAATCTATGTAA
1 GAAAAAT-TATATAA
1110318 -AAAAATTAATATA
1 GAAAAATT-ATATA
1110331 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 1 0.04
14 17 0.71
15 6 0.25
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.29
Consensus pattern (14 bp):
GAAAAATTATATAA
Found at i:1111098 original size:331 final size:328
Alignment explanation
Indices: 1110393--1111209 Score: 956
Period size: 331 Copynumber: 2.5 Consensus size: 328
1110383 ATGAAGGTTT
* ** * * *
1110393 AATAACAAT-TTTAGATGAATTTT-AAAATTTTAAACCAAGAAAAATCTCTGAGAAAATATTTAT
1 AATAATAATATTTA-ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCT-CGAAAACA-TTAT
* * * * * *
1110456 GGAATAGAAAACTCGGT-TTTTCAAAAAACGGAAACATTTCAAAGAAAAATTCAAAACTCATGAA
63 AGAGTAGAAAACTCTGTATTTTGAAAATA--GAAAAATTTCAAAGAAAAATTCAAAACTCATGAA
* *
1110520 AATGAAA-GAATTTTTGAAAAATGATTTAATACAAATTAAATAATAATATCTAATGAATTTTAAA
126 AATAAAATGAATTTTTGAAAAATAATTTAATACAAATTAAATAATAATATCTAATGAATTTTAAA
* ** * * *
1110584 AATTAAAAATCAAGAAAAATCGTCGAAAACATTTATGTAGTAGAAAACTCTGTAATTCGAAAATA
191 AATTAAAAACCAAGAAAAATCCACGAAAACATTTAGGAAGTAGAAAACTCTGTAATTCAAAAATA
* *
1110649 GGAGAATTTTAAAGAAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTAAAAAATTATTTAAT
256 AGAGAATTTCAAAGAAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTAAAAAATTATTTAAT
1110714 ATGAAGTA
321 ATGAAGTA
* * *
1110722 AATAATAATATTTTATGAATTTTAAAAATTAAAAATCATGAAAAATTCCCTCGAAAACATTGATA
1 AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAA-TCCCTCGAAAACATT-ATA
*
1110787 GAGTAGAAAACTCTGTATTTTGGAAATAGAAAAATTTCAAAGAAAAATTCAAAACTCATGAAAAT
64 GAGTAGAAAACTCTGTATTTTGAAAATAGAAAAATTTCAAAGAAAAATTCAAAACTCATGAAAAT
* * * * * * *
1110852 -AAATGAATTTTTCAAAATTAATTTACTATAAATTAAATAATGATATTTTATGAATTTTAAAAAT
129 AAAATGAATTTTTGAAAAATAATTTAATACAAATTAAATAATAATATCTAATGAATTTTAAAAAT
* * * * *
1110916 TATAAACCAAGAAAAATCCCCACGAAAATATTTACGGAATTA-AAAACT-TCGTATTTTAAAAAT
194 TAAAAACCAAGAAAAAT--CCACGAAAACATTTA-GGAAGTAGAAAACTCT-GTAATTCAAAAAT
* * *
1110979 AAGAGAATTTCAAGGAAAAAATTCAAAACTCATGAAAATGAATGAATTTTT-GAAAATTGATTTA
255 AAGAGAATTTCAAAGAAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTAAAAAATT-ATTTA
* *
1111043 CTATGAATTA
319 ATATGAAGTA
1111053 AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTTCGAAAACATT-TAC
1 AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC-TCGAAAACATTATA-
* * *
1111117 GAAGTTGAAAACTCTGTATTTTGAAAATGAGAAGAATTTCAAAG-AAAA-TCAATAACTCGT-AA
64 G-AGTAGAAAACTCTGTATTTTGAAAAT-AGAAAAATTTCAAAGAAAAATTCAA-AACTCATGAA
* * *
1111179 AATAAAATGAAATTTTGAAAACTGATTTAAT
126 AATAAAATGAATTTTTGAAAAATAATTTAAT
1111210 GGTGATTAAA
Statistics
Matches: 417, Mismatches: 54, Indels: 32
0.83 0.11 0.06
Matches are distributed among these distances:
328 3 0.01
329 124 0.30
330 63 0.15
331 209 0.50
332 18 0.04
ACGTcount: A:0.50, C:0.09, G:0.10, T:0.31
Consensus pattern (328 bp):
AATAATAATATTTAATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCGAAAACATTATAGA
GTAGAAAACTCTGTATTTTGAAAATAGAAAAATTTCAAAGAAAAATTCAAAACTCATGAAAATAA
AATGAATTTTTGAAAAATAATTTAATACAAATTAAATAATAATATCTAATGAATTTTAAAAATTA
AAAACCAAGAAAAATCCACGAAAACATTTAGGAAGTAGAAAACTCTGTAATTCAAAAATAAGAGA
ATTTCAAAGAAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTAAAAAATTATTTAATATGAA
GTA
Found at i:1111261 original size:165 final size:164
Alignment explanation
Indices: 1110407--1111230 Score: 897
Period size: 165 Copynumber: 5.0 Consensus size: 164
1110397 ACAATTTTAG
** * * * *
1110407 ATGAATTTT-AAAATTTTAAACCAAGAAAAATCTCTGAGAAAATATTTATGGAA-TAGAAAACTC
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCT-CGAAAACATTTA-CGAAGTAGAAAACTC
* * *
1110470 GGT-TTTTCAAAAAACGGAA-ACATTTCAAAGAAAAATTCAAAACTCATGAAAATGAAA-GAATT
64 TGTATTTTGAAAATA--GAAGA-ATTTCAAAGAAAAATTCAAAACTCATGAAAAT-AAATGAATT
* ** * *
1110532 TTTGAAAAATGATTTAATACAAATTAAATAATAATATCTA
125 TTTGAAAATTGATTTAATATGAATTAAATAATAATATTTT
* * * *
1110572 ATGAATTTTAAAAATTAAAAATCAAGAAAAAT-CGTCGAAAACATTTATGTAGTAGAAAACTCTG
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCGAAAACATTTACGAAGTAGAAAACTCTG
* * * * * * *
1110636 TAATTCGAAAATAGGAGAATTTTAAAGAAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTAA
66 TATTTTGAAAATAGAAGAATTTCAAAG-AAAAATTCAAAACTCATGAAAATAAATGAATTTTT-G
*
1110701 AAAATT-ATTTAATATGAAGTAAATAATAATATTTT
129 AAAATTGATTTAATATGAATTAAATAATAATATTTT
* *
1110736 ATGAATTTTAAAAATTAAAAATCATGAAAAATTCCCTCGAAAACATTGATA-G-AGTAGAAAACT
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAA-TCCCTCGAAAACATT--TACGAAGTAGAAAACT
* *
1110799 CTGTATTTTGGAAATAGAAAAATTTCAAAGAAAAATTCAAAACTCATGAAAATAAATGAATTTTT
63 CTGTATTTTGAAAATAGAAGAATTTCAAAGAAAAATTCAAAACTCATGAAAATAAATGAATTTTT
* * * * *
1110864 CAAAATTAATTTACTATAAATTAAATAATGATATTTT
128 GAAAATTGATTTAATATGAATTAAATAATAATATTTT
* * * *
1110901 ATGAATTTTAAAAATTATAAACCAAGAAAAATCCCCACGAAAATATTTACGGAATTA-AAAACT-
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAAT-CCCTCGAAAACATTTAC-GAAGTAGAAAACTC
* * *
1110964 TCGTATTTTAAAAATA-AGAGAATTTCAAGGAAAAAATTCAAAACTCATGAAAATGAATGAATTT
64 T-GTATTTTGAAAATAGA-AGAATTTCAAAG-AAAAATTCAAAACTCATGAAAATAAATGAATTT
* *
1111028 TTGAAAATTGATTTACTATGAATTAAATAATAATATTTA
126 TTGAAAATTGATTTAATATGAATTAAATAATAATATTTT
*
1111067 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTTCGAAAACATTTACGAAGTTGAAAACTCT
1 ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCC-TCGAAAACATTTACGAAGTAGAAAACTCT
* *
1111132 GTATTTTGAAAATGAGAAGAATTTCAAAG-AAAA-TCAATAACTCGT-AAAATAAAATGAAATTT
65 GTATTTTGAAAAT-AGAAGAATTTCAAAGAAAAATTCAA-AACTCATGAAAAT-AAATGAATTTT
* * *
1111194 TGAAAACTGATTTAATGGTG-ATTAAATGATAATATTT
127 TGAAAATTGATTTAAT-ATGAATTAAATAATAATATTT
1111231 CGAGAATTTT
Statistics
Matches: 562, Mismatches: 70, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
163 16 0.03
164 125 0.22
165 206 0.37
166 198 0.35
167 14 0.02
168 3 0.01
ACGTcount: A:0.50, C:0.08, G:0.10, T:0.31
Consensus pattern (164 bp):
ATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCTCGAAAACATTTACGAAGTAGAAAACTCTG
TATTTTGAAAATAGAAGAATTTCAAAGAAAAATTCAAAACTCATGAAAATAAATGAATTTTTGAA
AATTGATTTAATATGAATTAAATAATAATATTTT
Found at i:1112691 original size:32 final size:32
Alignment explanation
Indices: 1112629--1112691 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
1112619 GACCTACTTG
* *
1112629 ACAAGAAATGTGATACAGTTTGATTTATTTTT
1 ACAAGAAAGGTGATACAGTTTGATTCATTTTT
*
1112661 ACAAGAAAGGTGATAC-GATTTGGTTCATTTT
1 ACAAGAAAGGTGATACAG-TTTGATTCATTTT
1112692 CAACAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 1 0.04
32 26 0.96
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (32 bp):
ACAAGAAAGGTGATACAGTTTGATTCATTTTT
Found at i:1117452 original size:16 final size:16
Alignment explanation
Indices: 1117431--1117462 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
1117421 TAAATCGCCA
1117431 AAGCATAAACATCTTG
1 AAGCATAAACATCTTG
1117447 AAGCATAAACATCTTG
1 AAGCATAAACATCTTG
1117463 TACTTTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.25
Consensus pattern (16 bp):
AAGCATAAACATCTTG
Found at i:1124832 original size:28 final size:28
Alignment explanation
Indices: 1124794--1124901 Score: 134
Period size: 28 Copynumber: 3.9 Consensus size: 28
1124784 TATTTTGAAA
*
1124794 ATGAAAT--CGAGGTTGGAGTATCCTC-
1 ATGAAATAACGAGGTTGGAGTATCCCCG
*
1124819 ATGAAAATAACGAGATTGGAGTATCCCCG
1 ATG-AAATAACGAGGTTGGAGTATCCCCG
1124848 ATGAAATAACG-GGATTGGAGTATCCCCG
1 ATGAAATAACGAGG-TTGGAGTATCCCCG
* *
1124876 ATGAAATAACGGGGTTGGAGCATCCC
1 ATGAAATAACGAGGTTGGAGTATCCC
1124902 TAATTGTGAA
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
25 3 0.04
26 4 0.05
27 1 0.01
28 60 0.82
29 5 0.07
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (28 bp):
ATGAAATAACGAGGTTGGAGTATCCCCG
Found at i:1124952 original size:51 final size:49
Alignment explanation
Indices: 1124889--1125032 Score: 144
Period size: 51 Copynumber: 2.8 Consensus size: 49
1124879 AAATAACGGG
* * * *
1124889 GTTGGAGCATCCCTAATTGTGAAAAATTGGTGTTTCGGAAATAAAATCGGA
1 GTTGGAGTATCCC-GATTGAGAAAAATTGATGTTT-GGAAATAAAATCGGA
* ** * *
1124940 GTTGGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCGGA
1 GTTGGAGTAT-CCCGATTGAGAAAAATTGATG-TTTGGAAATAAAATCGGA
*
1124991 GTTGGAGTATTCCCGATTAAGAAAAATTGATGTTTTGGAAAT
1 GTTGGAGTA-TCCCGATTGAGAAAAATTGATG-TTTGGAAAT
1125033 GGAACCGGGA
Statistics
Matches: 75, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
51 68 0.91
52 7 0.09
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.31
Consensus pattern (49 bp):
GTTGGAGTATCCCGATTGAGAAAAATTGATGTTTGGAAATAAAATCGGA
Found at i:1127403 original size:20 final size:20
Alignment explanation
Indices: 1127378--1127465 Score: 109
Period size: 20 Copynumber: 4.8 Consensus size: 20
1127368 TACATTGTAA
1127378 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
1127398 ACTGTATCG-----AT-A-C
1 AATGTATCGATACAATGAGC
1127411 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGAGC
*
1127431 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATGAGC
1127451 AATGTATCGATACAA
1 AATGTATCGATACAA
1127466 ATTGTGAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
13 9 0.16
14 1 0.02
15 2 0.03
18 2 0.03
19 1 0.02
20 43 0.74
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGAGC
Found at i:1127420 original size:33 final size:33
Alignment explanation
Indices: 1127378--1127447 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
1127368 TACATTGTAA
*
1127378 AATGTATCGATACAATGAGCACTGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1127411 AATGTATCGATACAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGCAATGTATCGATAC
1127444 AATG
1 AATG
1127448 AACAATGTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAATGAGCAATGTATCGATAC
Found at i:1127424 original size:53 final size:53
Alignment explanation
Indices: 1127358--1127465 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
1127348 AAAATGCCTG
* * *
1127358 AATGTATCCATACATTGTA-AAATGTATCGATACAATGAGCACTGTATCGATAC
1 AATGTATCCATACAATG-AGAAATGTATCGATACAATGAACAATGTATCGATAC
* *
1127411 AATGTATCGATACAATGAGCAATGTATCGATACAATGAACAATGTATCGATAC
1 AATGTATCCATACAATGAGAAATGTATCGATACAATGAACAATGTATCGATAC
1127464 AA
1 AA
1127466 ATTGTGAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 1 0.02
53 48 0.98
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.28
Consensus pattern (53 bp):
AATGTATCCATACAATGAGAAATGTATCGATACAATGAACAATGTATCGATAC
Found at i:1127446 original size:13 final size:13
Alignment explanation
Indices: 1127400--1127427 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1127390 CAATGAGCAC
1127400 TGTATCGATACAA
1 TGTATCGATACAA
1127413 TGTATCGATACAA
1 TGTATCGATACAA
1127426 TG
1 TG
1127428 AGCAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1131488 original size:20 final size:20
Alignment explanation
Indices: 1131463--1131514 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
1131453 TACAAGCCAA
**
1131463 TGTATCGATACAATTTTTTG
1 TGTATCGATACAATACTTTG
1131483 TGTATCGATAC-ATACTTTG
1 TGTATCGATACAATACTTTG
*
1131502 TGTATTGATACAA
1 TGTATCGATACAA
1131515 GTTTGGCTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 16 0.57
20 12 0.43
ACGTcount: A:0.29, C:0.12, G:0.15, T:0.44
Consensus pattern (20 bp):
TGTATCGATACAATACTTTG
Found at i:1133606 original size:21 final size:20
Alignment explanation
Indices: 1133577--1133619 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1133567 GACTAGTGTG
* *
1133577 GGGACTGCCCGGTTGTGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1133598 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1133618 GG
1 GG
1133620 TGGTGCTGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.09, C:0.28, G:0.44, T:0.19
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1134069 original size:13 final size:13
Alignment explanation
Indices: 1134051--1134088 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
1134041 ATAATCCCCC
1134051 TGTATCGATACAG
1 TGTATCGATACAG
* *
1134064 TGTATCAATACAT
1 TGTATCGATACAG
1134077 TGTATCGATACA
1 TGTATCGATACA
1134089 AAGAAAAATG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1140747 original size:21 final size:20
Alignment explanation
Indices: 1140723--1140761 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
1140713 TAATTCTAAT
1140723 TCAAATATAATCAAAATAAAA
1 TCAAATATAAT-AAAATAAAA
* *
1140744 TCAACTATAGTAAAATAA
1 TCAAATATAATAAAATAA
1140762 TTATTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.62, C:0.10, G:0.03, T:0.26
Consensus pattern (20 bp):
TCAAATATAATAAAATAAAA
Found at i:1145789 original size:24 final size:24
Alignment explanation
Indices: 1145757--1145844 Score: 92
Period size: 24 Copynumber: 3.7 Consensus size: 24
1145747 ATTACTGTTA
1145757 ATCACTGTTCATGTATCACTATTC
1 ATCACTGTTCATGTATCACTATTC
* *
1145781 ATCACTGTTCGTGTATCACTATTGG
1 ATCACTGTTCATGTATCACTATT-C
* * *
1145806 AGCA-TG--AATAGTATCATTATTC
1 ATCACTGTTCAT-GTATCACTATTC
1145828 ATCACTGTTCATGTATC
1 ATCACTGTTCATGTATC
1145845 GATACAGTGT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
22 4 0.08
23 12 0.24
24 29 0.58
25 5 0.10
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (24 bp):
ATCACTGTTCATGTATCACTATTC
Found at i:1148465 original size:11 final size:11
Alignment explanation
Indices: 1148435--1148490 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
1148425 TTAGCAAGTG
1148435 GAAAG-AAAAA
1 GAAAGAAAAAA
1148445 GAAAGAAAAAAA
1 GAAAG-AAAAAA
1148457 GAAAGAAAAAA
1 GAAAGAAAAAA
* *
1148468 GTAAGAAAATAG
1 GAAAGAAAA-AA
1148480 GAAAGAGAAAA
1 GAAAGA-AAAA
1148491 TAGGTAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
10 5 0.13
11 14 0.36
12 17 0.44
13 3 0.08
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (11 bp):
GAAAGAAAAAA
Found at i:1148473 original size:23 final size:23
Alignment explanation
Indices: 1148435--1148505 Score: 74
Period size: 23 Copynumber: 3.0 Consensus size: 23
1148425 TTAGCAAGTG
*
1148435 GAAAG-AAAAAGAAAGAAAAAAA
1 GAAAGAAAAAAGTAAGAAAAAAA
* *
1148457 GAAAGAAAAAAGTAAGAAAATAG
1 GAAAGAAAAAAGTAAGAAAAAAA
1148480 GAAAGAGAAAATAGGTAA-AAAAAAA
1 GAAAGA-AAAA-A-GTAAGAAAAAAA
1148505 G
1 G
1148506 CTAAACCTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 5 0.12
23 20 0.50
24 4 0.10
25 7 0.17
26 4 0.10
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (23 bp):
GAAAGAAAAAAGTAAGAAAAAAA
Found at i:1149248 original size:19 final size:19
Alignment explanation
Indices: 1149224--1149260 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1149214 AAAATATCTT
*
1149224 CATTTTAATTATTTTTATA
1 CATTTTAATTATTCTTATA
*
1149243 CATTTTTATTATTCTTAT
1 CATTTTAATTATTCTTAT
1149261 GGTTGTCCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.00, T:0.65
Consensus pattern (19 bp):
CATTTTAATTATTCTTATA
Found at i:1152214 original size:2 final size:2
Alignment explanation
Indices: 1152202--1152231 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1152192 GACTCGAAAT
*
1152202 GA GA GA AA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1152232 AAAAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1158059 original size:27 final size:27
Alignment explanation
Indices: 1158009--1158060 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
1157999 TTTAAAAACG
** *
1158009 GGGTTGGAGTATCCTCTTAGAGGAATA
1 GGGTTGGAGTATCCTAATAAAGGAATA
1158036 GGGTTGGAGTATCCTAATAAAGGAA
1 GGGTTGGAGTATCCTAATAAAGGAA
1158061 ATTTTGACAT
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:0.31, C:0.10, G:0.33, T:0.27
Consensus pattern (27 bp):
GGGTTGGAGTATCCTAATAAAGGAATA
Found at i:1160125 original size:20 final size:20
Alignment explanation
Indices: 1160096--1160169 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
1160086 AATTTACCTG
*
1160096 AATGTTTCGATACAATTATA
1 AATGTATCGATACAATTATA
1160116 AATGTATCGATACAATT-TGA
1 AATGTATCGATACAATTAT-A
* * *
1160136 AGCATGTATTGATACATTTATT
1 A--ATGTATCGATACAATTATA
1160158 AATGTATCGATA
1 AATGTATCGATA
1160170 ATTTCCTTGG
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
19 1 0.02
20 28 0.62
22 15 0.33
23 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACAATTATA
Found at i:1161057 original size:104 final size:104
Alignment explanation
Indices: 1160881--1161625 Score: 515
Period size: 104 Copynumber: 7.3 Consensus size: 104
1160871 TGATAGAGGT
** * ** *
1160881 GCCAATATGCTGATTCAAGG-CACGCGACGTTGGGTTTAA-AAATGACAAAGGTGCCAATGTGCT
1 GCCAATATGCTGATTCAAGGCCA-GCGATATTAGACTTAAGAAA-GAAAAAGGTGCCAATGTGCT
* *
1160944 GATTCAAGGCCAATGACATTAGACTCATAA-ATAAGAAAGGT
64 GATTCAAGGCCAACGACATTAGACTCA-AAGATAAGAAAGGC
* * * * *
1160985 GCCAATATGTTGATTCAAGGCCAGCGATATTAGACTTAAGAGAGAAAAATGTGCTAATGTGCTAA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
* * *
1161050 TTCAAGGCCAACGACATTGGACTTAAAGATGAGAAAGGC
66 TTCAAGGCCAACGACATTAGACTCAAAGATAAGAAAGGC
* * * * * *
1161089 GCTAATATGCTGATTCAGGGCTAGTGATATTGGACTTAAGAAAGAAGAAGGTGCCAATGTGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
* ** * * *** *
1161154 TTCAAGGCCAGCGACATCGGACTTAAAGATGACCTAGAC
66 TTCAAGGCCAACGACATTAGACTCAAAGATAAGAAAGGC
* * * * * * * *
1161193 GCCAATATGCTGATTCAA-ACCAACAATATTGGACTTGAGAAAGAAAAAGATGCCAATGTACTAA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
* * * * * * * *
1161257 TTCAGGGCCAGCGACATTGGACTTAAAAATGAGAATGGA
66 TTCAAGGCCAACGACATTAGACTCAAAGATAAGAAAGGC
* * * * * * *
1161296 ACCAATATACTAATTCAAAGCTAGCGATATTGGGCTT-------------GTGCCAATGTGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
* * * * *
1161348 TTTAAGGCCAATGACATTGGTCTTAAA-A-AAGAAAAAGGC
66 TTCAAGGCCAACGACATTAGACTCAAAGATAAG--AAAGGC
* * * * *
1161387 ACCAATATGTTGATTCAAGGCCAACGATATTAGACTTAAGAAAGCAAAAGTTGCCAATGTGCTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
* * * * * *
1161452 TTCAAGGCCAACAACCTTGGACTTAAAGAT-GGACAAGAC
66 TTCAAGGCCAACGACATTAGACTCAAAGATAAGA-AAGGC
* * * * * *
1161491 GCCAATATGCTGATTCAAGGCCAGCGATATTGGCCTTGAGAAAGAAAAAGGTGCTAATATGTTGA
1 GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
* * * * * *
1161556 TTCAAGGCCAACGATATTGGACTTAATGATGCA-AAAGAC
66 TTCAAGGCCAACGACATTAGACTCAAAGAT-AAGAAAGGC
* * *
1161595 ACCAATATGCTGATTCAAGGCTAGCCATATT
1 GCCAATATGCTGATTCAAGGCCAGCGATATT
1161626 GGGCTTGTAC
Statistics
Matches: 509, Mismatches: 108, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
89 2 0.00
90 1 0.00
91 67 0.13
103 84 0.17
104 348 0.68
105 7 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (104 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAGAAAGAAAAAGGTGCCAATGTGCTGA
TTCAAGGCCAACGACATTAGACTCAAAGATAAGAAAGGC
Found at i:1161176 original size:52 final size:51
Alignment explanation
Indices: 1160877--1161919 Score: 461
Period size: 52 Copynumber: 20.7 Consensus size: 51
1160867 AAAATGATAG
* **
1160877 AGGTGCCAATATGCTGATTCAAGG-CACGCGACGTTGGGTTTAAAAATGACA-A
1 AGGTGCCAATATGCTGATTCAAGGCCA-GCGACATTGGACTTAAAAA-GA-AGA
* ** * * * *
1160929 AGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTCATAAATAAGAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAGAAG-A
* * * * *
1160981 AGGTGCCAATATGTTGATTCAAGGCCAGCGATATTAGACTTAAGAGAGAAAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAGAAGA
* * * * * *
1161033 ATGTGCTAATGTGCTAATTCAAGGCCAACGACATTGGACTTAAAGATG-AGAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-AAGAAG-A
* * * * * *
1161085 AGGCGCTAATATGCTGATTCAGGGCTAGTGATATTGGACTTAAGAAAGAAGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAGAAGA
* * * ***
1161137 AGGTGCCAATGTGCTGATTCAAGGCCAGCGACATCGGACTTAAAGATGACCT
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-AAGAAGA
** * * * * * *
1161189 AGACGCCAATATGCTGATTCAA-ACCAACAATATTGGACTTGAGAAAGAAAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAAAGAAGA
* * * * *
1161240 AGATGCCAATGTACTAATTCAGGGCCAGCGACATTGGACTTAAAAATG-AGA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAA-GAAGA
** * * * * * *
1161291 ATGGAACCAATATACTAATTCAAAGCTAGCGATATTGGGCTT----------
1 A-GGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAGAAGA
* * ** * *
1161333 --GTGCCAATGTGCTGATTTAAGGCCAATGACATTGGTCTTAAAAAAGAAAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAAAGAAGA
** * * * *
1161383 AGGCACCAATATGTTGATTCAAGGCCAACGATATTAGACTTAAGAAAGCAA-A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAG-AAGA
* * * * * * * *
1161435 AGTTGCCAATGTGCTGATTCAAGGCCAACAACCTTGGACTTAAAGATGGACA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-AAGAAGA
** * * * *
1161487 AGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGCCTTGAGAAAGAAAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT-AAAAAGAAGA
* * * * * *
1161539 AGGTGCTAATATGTTGATTCAAGGCCAACGATATTGGACTTAATGATGCAA-A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAG-AAGA
*** * * * *
1161591 AGACACCAATATGCTGATTCAAGGCTAGCCATATTGGGCTT----------
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAGAAGA
* ** * * *
1161632 --GTACCAATGCGCTGATTCAAGGCCAACGACATTGGTCTTAAGAAAGAAAA
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAGAAGA
** * * * * * *
1161682 ATATGCCAATATGCTAATTTAAGGCCAGTGACATTAGACGTAAAGATGACA-A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-AAGA-AGA
* * *
1161734 AAGTGCCAATATACTGATTCAAGGCCAGCGATATTGGACTT--AAAGATA-A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAGA-AGA
* * * * * * *
1161783 TGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGGCTTAAAGATGGTA-A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAA-A-AGAAGA
** * *
1161835 AGGTGCCAATATATTGATTCAAGGCCAGCAATATTGGACTTAAGAAA-AA-A
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAGAAGA
* * * *
1161885 AGGTGCCAATGTGCTAATTGAAGGCCAGTGACATT
1 AGGTGCCAATATGCTGATTCAAGGCCAGCGACATT
1161920 TGGCTTAGAA
Statistics
Matches: 733, Mismatches: 205, Indels: 108
0.70 0.20 0.10
Matches are distributed among these distances:
39 57 0.08
49 40 0.05
50 31 0.04
51 51 0.07
52 536 0.73
53 18 0.02
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (51 bp):
AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAGAAGA
Found at i:1161666 original size:299 final size:297
Alignment explanation
Indices: 1161040--1161877 Score: 929
Period size: 299 Copynumber: 2.8 Consensus size: 297
1161030 AAAATGTGCT
* * * * * *
1161040 AATGTGCTAATTCAAGGCCAACGACATTGGACTTAAAGATGAGAAAGGCGCTAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAAAAGAAAAAGGCGCCAATATGCTGATTC
* * *
1161105 AGGGCTAGTGATATTGGACTTAAGAAAG-AAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
66 AAGGCCAGTGATATTAGACTTAAGAAAGCAA-AA-GTGCCAATGTGCTGATTCAAGGCCAGCGAC
* * * * *
1161169 ATCGGACTTAAAGATGACCTAGACGCCAATATGCTGATTCAA-ACCAACAATATTGGACTTGAGA
129 ATTGGACTTAAAGATGA-CAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGA
* * * * * * *
1161233 AAGAAAAAGATGCCAATGTACTAATTCAGGGCCAGCGACATTGGACTTAAAAATGAGAATGGAAC
193 AAGAAAAAGGTGCCAATATATTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAGAATAGAAC
* *
1161298 CAATATACTAATTCAAAGCTAGCGATATTGGGCTTGTGCC
258 CAATATACTAATTCAAAGCTAGCCATATTGGGCTTGTACC
* * * *
1161338 AATGTGCTGATTTAAGGCCAATGACATTGGTCTTAAAAAAGAAAAAGGCACCAATATGTTGATTC
1 AATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAAAAGAAAAAGGCGCCAATATGCTGATTC
** * * *
1161403 AAGGCCAACGATATTAGACTTAAGAAAGCAAAAGTTGCCAATGTGCTGATTCAAGGCCAACAACC
66 AAGGCCAGTGATATTAGACTTAAGAAAGCAAAAG-TGCCAATGTGCTGATTCAAGGCCAGCGACA
*
1161468 TTGGACTTAAAGATGGACAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGCCTTGAGAA
130 TTGGACTTAAAGAT-GACAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAA
* * * **
1161533 AGAAAAAGGTGCTAATATGTTGATTCAAGGCCAACGATATTGGACTTAATGATGCA-AA-AGACA
194 AGAAAAAGGTGCCAATATATTGATTCAAGGCCAGCGATATTGGACTTAAAAATG-AGAATAGA-A
* * *
1161596 CCAATATGCTGATTCAAGGCTAGCCATATTGGGCTTGTACC
257 CCAATATACTAATTCAAAGCTAGCCATATTGGGCTTGTACC
* * *** * *
1161637 AATGCGCTGATTCAAGGCCAACGACATTGGTCTTAAGAAAGAAAAATATGCCAATATGCTAATTT
1 AATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAAAAGAAAAAGGCGCCAATATGCTGATTC
* * * * * *
1161702 AAGGCCAGTGACATTAGACGTAA-AGATGACAAAAGTGCCAATATACTGATTCAAGGCCAGCGAT
66 AAGGCCAGTGATATTAGACTTAAGA-AAG-CAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGAC
* ** * * * * *
1161766 ATTGGACTTAAAGAT-A-ATGGTGCCAATGTACTAATTCAAGGCCAGCGACATTGGGCTT-A-AA
129 ATTGGACTTAAAGATGACAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAA
** *
1161827 GATGGTAAAGGTGCCAATATATTGATTCAAGGCCAGCAATATTGGACTTAA
194 -A-GAAAAAGGTGCCAATATATTGATTCAAGGCCAGCGATATTGGACTTAA
1161878 GAAAAAAAGG
Statistics
Matches: 453, Mismatches: 77, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
294 2 0.00
295 2 0.00
296 76 0.17
297 2 0.00
298 146 0.32
299 218 0.48
300 7 0.02
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (297 bp):
AATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAAAAGAAAAAGGCGCCAATATGCTGATTC
AAGGCCAGTGATATTAGACTTAAGAAAGCAAAAGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
TGGACTTAAAGATGACAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGAGAAAG
AAAAAGGTGCCAATATATTGATTCAAGGCCAGCGATATTGGACTTAAAAATGAGAATAGAACCAA
TATACTAATTCAAAGCTAGCCATATTGGGCTTGTACC
Found at i:1161751 original size:143 final size:143
Alignment explanation
Indices: 1161499--1161770 Score: 339
Period size: 143 Copynumber: 1.9 Consensus size: 143
1161489 ACGCCAATAT
* * * * * * *
1161499 GCTGATTCAAGGCCAGCGATATTGGCCTTGAGAAAGAAAAAGGTGCTAATATGTTGATTCAAGGC
1 GCTGATTCAAGGCCAACGACATTGGCCTTAAGAAAGAAAAAGATGCCAATATGCTAATTCAAGGC
* * * * * *
1161564 CAACGATATTGGACTTAATGATGCAAAAGACACCAATATGCTGATTCAAGGCTAGCCATATTGGG
66 CAACGACATTAGACGTAAAGATGCAAAAGACACCAATATACTGATTCAAGGCCAGCCATATTGGG
1161629 CTTGTACCAATGC
131 CTTGTACCAATGC
* * *
1161642 GCTGATTCAAGGCCAACGACATTGGTCTTAAGAAAGAAAAATATGCCAATATGCTAATTTAAGGC
1 GCTGATTCAAGGCCAACGACATTGGCCTTAAGAAAGAAAAAGATGCCAATATGCTAATTCAAGGC
** ** *
1161707 CAGTGACATTAGACGTAAAGATGACAAAAG-TGCCAATATACTGATTCAAGGCCAGCGATATTGG
66 CAACGACATTAGACGTAAAGATG-CAAAAGACACCAATATACTGATTCAAGGCCAGCCATATTGG
1161771 ACTTAAAGAT
Statistics
Matches: 107, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
143 101 0.94
144 6 0.06
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (143 bp):
GCTGATTCAAGGCCAACGACATTGGCCTTAAGAAAGAAAAAGATGCCAATATGCTAATTCAAGGC
CAACGACATTAGACGTAAAGATGCAAAAGACACCAATATACTGATTCAAGGCCAGCCATATTGGG
CTTGTACCAATGC
Found at i:1161816 original size:101 final size:102
Alignment explanation
Indices: 1161643--1161919 Score: 331
Period size: 101 Copynumber: 2.7 Consensus size: 102
1161633 TACCAATGCG
* * * * ** * *
1161643 CTGATTCAAGGCCAACGACATTGGTCTTAAGAAAGAAAAATATGCCAATATGCTAATTTAAGGCC
1 CTGATTCAAGGCCAGCAATATTGGACTTAAG-AA-AAAAAGGTGCCAATGTGCTAATTCAAGGCC
1161708 AGTGACATTAGACGTAAAGATGACAAAAGTGCCAATATA
64 AGTGACATTAGACGTAAAGATGACAAAAGTGCCAATATA
* * * * *
1161747 CTGATTCAAGGCCAGCGATATTGGACTTAA-AGATAATGGTGCCAATGTACTAATTCAAGGCCAG
1 CTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAGGTGCCAATGTGCTAATTCAAGGCCAG
* * * * ** *
1161811 CGACATTGGGCTTAAAGATGGTAAAGGTGCCAATATA
66 TGACATTAGACGTAAAGATGACAAAAGTGCCAATATA
* *
1161848 TTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAGGTGCCAATGTGCTAATTGAAGGCCAG
1 CTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAGGTGCCAATGTGCTAATTCAAGGCCAG
1161913 TGACATT
66 TGACATT
1161920 TGGCTTAGAA
Statistics
Matches: 146, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
101 83 0.57
102 36 0.25
104 27 0.18
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.24
Consensus pattern (102 bp):
CTGATTCAAGGCCAGCAATATTGGACTTAAGAAAAAAAGGTGCCAATGTGCTAATTCAAGGCCAG
TGACATTAGACGTAAAGATGACAAAAGTGCCAATATA
Found at i:1161963 original size:33 final size:33
Alignment explanation
Indices: 1161926--1161992 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1161916 CATTTGGCTT
*
1161926 AGAAGAGTTACCACCAACTTATGTGGGCTTTAG
1 AGAAGAGTCACCACCAACTTATGTGGGCTTTAG
* * * *
1161959 AGAAGGGTCGCTACCAACTTGTGTGGGCTTTAG
1 AGAAGAGTCACCACCAACTTATGTGGGCTTTAG
1161992 A
1 A
1161993 AGGAAAAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (33 bp):
AGAAGAGTCACCACCAACTTATGTGGGCTTTAG
Found at i:1162038 original size:27 final size:27
Alignment explanation
Indices: 1161996--1162112 Score: 121
Period size: 27 Copynumber: 4.2 Consensus size: 27
1161986 CTTTAGAAGG
*
1161996 AAAA-GGTGCCACGGAGTTGTGGATTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
1162022 AAAAGGGTGTCATGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
1162049 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1162076 AAAAGGAAAAGGTGCCACAGG-GTTGTGGACTT
1 AAAA-G----GGTGCCAC-GGAGTTGTGGACTT
1162108 AAAAG
1 AAAAG
1162113 ACTTAAAAGG
Statistics
Matches: 75, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.05
27 45 0.60
28 1 0.01
31 1 0.01
32 23 0.31
33 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.33, T:0.23
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1162116 original size:41 final size:41
Alignment explanation
Indices: 1162071--1162153 Score: 114
Period size: 41 Copynumber: 2.0 Consensus size: 41
1162061 CAGAGTTGTG
1162071 GACTTAAAAGGAAAAGGTGCCACAGGG-TTGTGGACTTAAAA
1 GACTTAAAAGGAAAAGGTGCCA-AGGGTTTGTGGACTTAAAA
* * * *
1162112 GACTTAAAAGGAGAAGGTTCTATGGGTTTGTGGACTTAAAA
1 GACTTAAAAGGAAAAGGTGCCAAGGGTTTGTGGACTTAAAA
1162153 G
1 G
1162154 GGAAAAGGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 3 0.08
41 34 0.92
ACGTcount: A:0.36, C:0.10, G:0.30, T:0.24
Consensus pattern (41 bp):
GACTTAAAAGGAAAAGGTGCCAAGGGTTTGTGGACTTAAAA
Found at i:1162241 original size:34 final size:34
Alignment explanation
Indices: 1162139--1162509 Score: 311
Period size: 34 Copynumber: 11.1 Consensus size: 34
1162129 TTCTATGGGT
*
1162139 TTGTGGACTTAAAAGGGAAAAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
* *
1162173 TTGTGGGCTTTGAAAA---AAAAAAGTGCCACAGAG
1 TTGTGGAC-TT-AAAAGGGAAAAGAGTGCCACAGAG
* *
1162206 TTGTAGACTTAAAAGGGAAAAGAGTGCCACGGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
* * * *
1162240 TTATGGGCTTTGAAAA--GAAAAAAGTGCCATAGAG
1 TTGTGGAC-TT-AAAAGGGAAAAGAGTGCCACAGAG
1162274 TTGTGGACTTAAAAGGG-AAAG-GTGCCACAGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
* *
1162306 TTGTGGACTTAAAAGGAAAAAAAGTGCCACAGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
** *
1162340 TTGTGGACTTAAAAGAAAAAAG-GTGCCACAAAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
** * *
1162373 TTGTGGGTTTTGAAAA--CAAAA-ATGTGCCACGGAG
1 TTGT-GGACTT-AAAAGGGAAAAGA-GTGCCACAGAG
*
1162407 TTATGGACTTAAAA-GGAAAAG-GTGCCACAGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
** * * * **
1162439 TTGTTAACTTAAAAAGGAAAAGGGTGCTATGGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
** * *
1162473 TTGTGGACTT-AAAGATAATAGGGTGCCACAGAG
1 TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
1162506 TTGT
1 TTGT
1162510 AGGCTTTGAA
Statistics
Matches: 271, Mismatches: 47, Indels: 39
0.76 0.13 0.11
Matches are distributed among these distances:
31 4 0.01
32 57 0.21
33 82 0.30
34 112 0.41
35 8 0.03
36 8 0.03
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (34 bp):
TTGTGGACTTAAAAGGGAAAAGAGTGCCACAGAG
Found at i:1162252 original size:67 final size:67
Alignment explanation
Indices: 1162139--1162550 Score: 417
Period size: 67 Copynumber: 6.1 Consensus size: 67
1162129 TTCTATGGGT
1162139 TTGTGGACTTAAAAGGGAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAA-AAAAAAGTGCCACA
1 TTGTGGACTTAAAAGGGAAAA-GGTGCCACAGAGTTGTGGGCTTTGAAAACAAAAAAGTGCCACA
1162203 GAG
65 GAG
* * * * *
1162206 TTGTAGACTTAAAAGGGAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAAGTGCCATA
1 TTGTGGACTTAAAAGGGAAAAG-GTGCCACAGAGTTGTGGGCTTTGAAAACAAAAAAGTGCCACA
1162271 GAG
65 GAG
* *
1162274 TTGTGGACTTAAAAGGG-AAAGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAAAAAAAGTGCCAC
1 TTGTGGACTTAAAAGGGAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAA--CAAAAAAGTGCCAC
1162336 AGAG
64 AGAG
** * * * *
1162340 TTGTGGACTTAAAAGAAAAAAGGTGCCACAAAGTTGTGGGTTTTGAAAACAAAAATGTGCCACGG
1 TTGTGGACTTAAAAGGGAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAACAAAAAAGTGCCACAG
1162405 AG
66 AG
* *** * * ** * **
1162407 TTATGGACTTAAAA-GGAAAAGGTGCCACAGAGTTGTTAAC-TTAAAAAGGAAAAGGGTGCTATG
1 TTGTGGACTTAAAAGGGAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAA-CAAAAAAGTGCCACA
1162470 GAG
65 GAG
** * * * *
1162473 TTGTGGACTT-AAAGATAATAGGGTGCCACAGAGTTGTAGGCTTTGAAAAGAAAAAGGATGCCAC
1 TTGTGGACTTAAAAGGGAA-AAGGTGCCACAGAGTTGTGGGCTTTGAAAACAAAAAAG-TGCCAC
1162537 TA-AG
64 -AGAG
*
1162541 TCGTGGACTT
1 TTGTGGACTT
1162551 GAAGAAGAGA
Statistics
Matches: 287, Mismatches: 45, Indels: 25
0.80 0.13 0.07
Matches are distributed among these distances:
64 4 0.01
65 11 0.04
66 91 0.32
67 122 0.43
68 55 0.19
69 4 0.01
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (67 bp):
TTGTGGACTTAAAAGGGAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAACAAAAAAGTGCCACAG
AG
Found at i:1162285 original size:167 final size:164
Alignment explanation
Indices: 1162112--1162553 Score: 452
Period size: 167 Copynumber: 2.7 Consensus size: 164
1162102 GGACTTAAAA
* *
1162112 GACTTAAAAGGAGAAGGTTCTATGGGTTTGTGGACTTAAAAGGGAAAAGGGTGCCACAGAGTTGT
1 GACTTAAAAGGAGAAGGTGCTATGGG-TTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTTGT
* *
1162177 GGGCTTTGAAAAAAAAAAGTGCCACAGAGTTGT-AGACTT-AAAAGGGAAAAGA-GTGCCACGGA
65 GGGCTTTGAAAAAAAAAAGTGCCACAAAGTTGTGAGACTTGAAAA--CAAAA-ATGTGCCACGGA
* *
1162239 GTTATGGGCTTTGAAAAGAAAAAAGTGCCATAGAGTTGTG
127 GTTATGGAC-TT-AAAAGAAAAAAGTGCCACAGAGTTGTG
* * * **
1162279 GACTTAAAAGG-GAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGAGTTG
1 GACTTAAAAGGAG-AAGGTGCTA-TGGGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTTG
* * **
1162343 TGGAC-TT-AAAAGAAAAAAGGTGCCACAAAGTTGTGGGTTTTGAAAACAAAAATGTGCCACGGA
64 TGGGCTTTGAAAA-AAAAAA-GTGCCACAAAGTTGTGAGACTTGAAAACAAAAATGTGCCACGGA
* * *
1162406 GTTATGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTT
127 GTTATGGACTTAAAAGAAAAAAGTGCCACAGAGTTGTG
* * *
1162444 AACTTAAAAAGGAAAAGGGTGCTATGGAGTTGTGGACTT-AAA-GATAATAGGGTGCCACAGAGT
1 GACTT-AAAAGGAGAA-GGTGCTATGG-GTTGTGGACTTAAAAGGA-AAAAGGGTGCCACAGAGT
* * * *
1162507 TGTAGGCTTTGAAAAGAAAAAGGATGCCACTAAGTCGTG-GACTTGAA
62 TGTGGGCTTTGAAAA-AAAAAAG-TGCCACAAAGTTGTGAGACTTGAA
1162554 GAAGAGATGC
Statistics
Matches: 227, Mismatches: 33, Indels: 30
0.78 0.11 0.10
Matches are distributed among these distances:
165 33 0.15
166 44 0.19
167 118 0.52
168 28 0.12
169 4 0.02
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (164 bp):
GACTTAAAAGGAGAAGGTGCTATGGGTTGTGGACTTAAAAGGAAAAAGGGTGCCACAGAGTTGTG
GGCTTTGAAAAAAAAAAGTGCCACAAAGTTGTGAGACTTGAAAACAAAAATGTGCCACGGAGTTA
TGGACTTAAAAGAAAAAAGTGCCACAGAGTTGTG
Found at i:1162394 original size:133 final size:133
Alignment explanation
Indices: 1162139--1162550 Score: 474
Period size: 133 Copynumber: 3.1 Consensus size: 133
1162129 TTCTATGGGT
* *
1162139 TTGTGGACTTAAAAGGGAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAA--AAAAAAAGTGCCAC
1 TTGTGGACTTAAAAGGG-AAA-GGTGCCACAGAGTTGTGGAC-TTAAAAGGAAAAAAAGTGCCAC
* ** * *
1162202 AGAGTTGTAGACTTAAAAGGGAAAAGAGTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAAGTGC
63 AGAGTTGTGGACTTAAAAGAAAAAAG-GTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGC
1162267 CATAGAG
127 CATAGAG
1162274 TTGTGGACTTAAAAGGGAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGA
1 TTGTGGACTTAAAAGGGAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGA
* * * * **
1162339 GTTGTGGACTTAAAAGAAAAAAGGTGCCACAAAGTTGTGGGTTTTGAAAACAAAAATGTGCCACG
66 GTTGTGGACTTAAAAGAAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCATA
1162404 GAG
131 GAG
* * ** ** * **
1162407 TTATGGACTTAAAAGGAAAAGGTGCCACAGAGTTGTTAACTTAAAAAGG-AAAAGGGTGCTATGG
1 TTGTGGACTTAAAAGGGAAAGGTGCCACAGAGTTGTGGACTT-AAAAGGAAAAAAAGTGCCACAG
* * * *
1162471 AGTTGTGGACTT-AAAGATAATAGGGTGCCACAGAGTTGTAGGCTTTGAAAAGAAAAAGGATGCC
65 AGTTGTGGACTTAAAAGA-AAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAG-TGCC
1162535 ACTA-AG
128 A-TAGAG
*
1162541 TCGTGGACTT
1 TTGTGGACTT
1162551 GAAGAAGAGA
Statistics
Matches: 238, Mismatches: 33, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
132 10 0.04
133 150 0.63
134 61 0.26
135 17 0.07
ACGTcount: A:0.38, C:0.11, G:0.29, T:0.22
Consensus pattern (133 bp):
TTGTGGACTTAAAAGGGAAAGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAAAGTGCCACAGA
GTTGTGGACTTAAAAGAAAAAAGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAAGTGCCATA
GAG
Found at i:1169132 original size:20 final size:19
Alignment explanation
Indices: 1169102--1169176 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
1169092 AAAAAGAAAT
*
1169102 AATGCATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
1169121 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
1169142 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
1169162 AATGTATCGATACAT
1 AATGTATCGATACAT
1169177 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
20 42 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.32
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:1170123 original size:29 final size:29
Alignment explanation
Indices: 1169736--1170541 Score: 1068
Period size: 28 Copynumber: 27.9 Consensus size: 29
1169726 AAAAAAAAAT
*
1169736 GTGCCACTAACTTGTGTAGGCTTTGAAAA-A
1 GTGCCACTGACTTGTG--GGCTTTGAAAAGA
* *
1169766 CGTTGCTACTGACACGTGTGGGCTTTGAAAAGA
1 -G-TGCCACTG--ACTTGTGGGCTTTGAAAAGA
** *
1169799 GTGTTACTGACTTGCGTGGGCTTT-AAAAGG
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGA
*
1169829 GTACCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1169857 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1169885 GTGCCACTGACTCGTGGGCTTTGAAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1169913 GTGCCACTGACTTGTGTGGGCTTTAAAAAGA
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
*
1169944 GTGCCACTGACTTGTGTGGGCTTTG-AAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGA
1169974 GTGCCACTGACTTGTGGGCTTTG-AAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1170002 GTGCCACTGAATTGTGGGCTTCGCAAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1170030 GTGCCACTGAATTGTGGGCTTCG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1170058 GTGCCACTAACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1170086 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1170115 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1170144 GCGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1170173 GTGCCACTGACTTGTGGCCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1170201 GTGCGACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1170230 GTACCACTGACTTGTGGGCTTTGAAAGGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1170259 GTGCCACTGACTTGTGGGCTTTG-AAAG-
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1170286 GTTGCCACTGACTTGTGGGCTTTGAAAAG-
1 G-TGCCACTGACTTGTGGGCTTTGAAAAGA
*
1170315 GTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1170344 GTGCCACTGACTTGTGGGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1170372 GTGCCACTAACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* * *
1170401 GTGCCACTGATTTGTGAGCTTTG-AAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1170429 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
* *
1170458 GTGCCACTGATTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1170487 GTGCCACTGACTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGA
*
1170516 GTGCCACTGATTTGTGGGCTTTGAAA
1 GTGCCACTGACTTGTGGGCTTTGAAA
1170542 GGGATGAACA
Statistics
Matches: 700, Mismatches: 55, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
27 5 0.01
28 306 0.44
29 279 0.40
30 44 0.06
31 41 0.06
32 18 0.03
33 1 0.00
34 6 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGA
Found at i:1170138 original size:57 final size:57
Alignment explanation
Indices: 1169736--1170544 Score: 1112
Period size: 57 Copynumber: 14.0 Consensus size: 57
1169726 AAAAAAAAAT
* * * *
1169736 GTGCCACTAACTTGTGTAGGCTTTGAAAA-ACGTTGCTACTGACACGTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTG--GGCTTTGAAAAGA-G-TGCCACTG--ACTTGTGGGCTTTG-AAAGG
** * * *
1169799 GTGTTACTGACTTGCGTGGGCTTT-AAAAGGGTACCACTGACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1169857 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGACTCGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
1169913 GTGCCACTGACTTGTGTGGGCTTTAAAAAGAGTGCCACTGACTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGAC-T-TGTGGGCTTTGAAAGG
* *
1169974 GTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTGAATTGTGGGCTTCGCAAA-G
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
* * * *
1170030 GTGCCACTGAATTGTGGGCTTCG-AAAGGGTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1170086 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
* * *
1170144 GCGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGCCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* *
1170201 GTGCGACTGACTTGTGGGCTTTGAAAAGAGTACCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
1170258 AGTGCCACTGACTTGTGGGCTTTG-AAAG-GTTGCCACTGACTTGTGGGCTTTGAAAAG
1 -GTGCCACTGACTTGTGGGCTTTGAAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGG
*
1170315 GTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
1170372 GTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
*
1170429 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGG
*
1170487 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
1170544 G
1 G
1170545 ATGAACATTC
Statistics
Matches: 675, Mismatches: 53, Indels: 42
0.88 0.07 0.05
Matches are distributed among these distances:
55 3 0.00
56 149 0.22
57 254 0.38
58 173 0.26
59 39 0.06
60 2 0.00
61 31 0.05
62 5 0.01
63 16 0.02
65 3 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (57 bp):
GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:1171767 original size:1 final size:1
Alignment explanation
Indices: 1171763--1171817 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
1171753 TTTTTTGCTA
* * * * **
1171763 TTTTTTCTTTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTTGGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1171818 GTGTAAAGGA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.02, G:0.09, T:0.89
Consensus pattern (1 bp):
T
Found at i:1171786 original size:13 final size:13
Alignment explanation
Indices: 1171770--1171817 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
1171760 CTATTTTTTC
1171770 TTTTTTTTTTTGT
1 TTTTTTTTTTTGT
*
1171783 TTTTTTGTTTTG-
1 TTTTTTTTTTTGT
*
1171795 TTTTTTTTTTGGT
1 TTTTTTTTTTTGT
1171808 TTTTTTTTTT
1 TTTTTTTTTT
1171818 GTGTAAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
12 10 0.32
13 21 0.68
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (13 bp):
TTTTTTTTTTTGT
Found at i:1171798 original size:24 final size:24
Alignment explanation
Indices: 1171763--1171819 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 24
1171753 TTTTTTGCTA
* *
1171763 TTTTTTCTTTTTTTTTTTGTTTTT
1 TTTTTTGTTTTTTTTTTGGTTTTT
1171787 TTGTTTTGTTTTTTTTTTGGTTTTT
1 TT-TTTTGTTTTTTTTTTGGTTTTT
1171812 TTTTTTGT
1 TTTTTTGT
1171820 GTAAAGGACG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 8 0.27
25 22 0.73
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (24 bp):
TTTTTTGTTTTTTTTTTGGTTTTT
Found at i:1171818 original size:13 final size:12
Alignment explanation
Indices: 1171763--1171819 Score: 87
Period size: 12 Copynumber: 4.7 Consensus size: 12
1171753 TTTTTTGCTA
*
1171763 TTTTTTCTTTTT
1 TTTTTTGTTTTT
1171775 TTTTTTGTTTTT
1 TTTTTTGTTTTT
1171787 TTGTTTTGTTTTT
1 TT-TTTTGTTTTT
*
1171800 TTTTTGGTTTTT
1 TTTTTTGTTTTT
1171812 TTTTTTGT
1 TTTTTTGT
1171820 GTAAAGGACG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
12 29 0.71
13 12 0.29
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:1176923 original size:52 final size:52
Alignment explanation
Indices: 1176845--1176957 Score: 181
Period size: 52 Copynumber: 2.2 Consensus size: 52
1176835 CGAAATATGA
* *
1176845 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGAATAATGTATCGATACATCTGGGC
**
1176897 AAATTTGCCTACATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCGATACATTGAATAATGTATCGATACATCTGGGC
*
1176949 AGATTTGCC
1 AAATTTGCC
1176958 AGCATTTTAT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 56 1.00
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCGATACATTGAATAATGTATCGATACATCTGGGC
Found at i:1177669 original size:55 final size:52
Alignment explanation
Indices: 1177576--1177909 Score: 294
Period size: 48 Copynumber: 6.8 Consensus size: 52
1177566 GATAAAGATG
* * * * *
1177576 CCAATATGTTGATTCAAGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-G-AAAAGG-TA
* * * *
1177631 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTA
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTA
* *
1177683 CCAATATGCTGATTCAAAGCCAGCTATATTGGAC-T-----T---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTA
* * * *
1177726 CCAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGAT-G--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTA
* * * *
1177775 CTAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGT-G---AGGTA
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTA
* * *
1177823 CCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A--GACAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTA
*
1177871 CCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1177910 AGGAGACGCC
Statistics
Matches: 233, Mismatches: 35, Indels: 28
0.79 0.12 0.09
Matches are distributed among these distances:
43 36 0.15
44 1 0.00
45 1 0.00
46 1 0.00
47 2 0.01
48 74 0.32
49 45 0.19
51 1 0.00
52 30 0.13
53 6 0.03
54 1 0.00
55 35 0.15
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.26
Consensus pattern (52 bp):
CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTA
Found at i:1177842 original size:48 final size:48
Alignment explanation
Indices: 1177632--1177909 Score: 314
Period size: 48 Copynumber: 5.8 Consensus size: 48
1177622 AAAAGGATGT
* * *
1177632 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTAC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G---AGGTAC
* *
1177684 CAATATGCTGATTCAAAGCCAGCTATATTGGACTT--A-A--AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGGTAC
* * * *
1177727 CAATGTGCTGATTCAAGGTCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-AGGTAC
* * * *
1177776 TAATATGCTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGAGGTAC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGGTAC
* ** *
1177824 CAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGACAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGGTAC
*
1177872 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA
1177910 AGGAGACGCC
Statistics
Matches: 193, Mismatches: 27, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
43 36 0.19
45 1 0.01
46 1 0.01
48 81 0.42
49 42 0.22
50 1 0.01
52 31 0.16
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (48 bp):
CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAGGTAC
Found at i:1177963 original size:28 final size:28
Alignment explanation
Indices: 1177929--1177998 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
1177919 CACCAACTTG
*
1177929 TGTGGGCTTTTGAAGATTGCTACTGACT
1 TGTGGGCTTTTGAAGATTGCCACTGACT
* *
1177957 TGTGGGCTTTTAAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAGATTGCCACTGACT
1177985 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
1177999 AAGGGTGCCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.17, C:0.14, G:0.30, T:0.39
Consensus pattern (28 bp):
TGTGGGCTTTTGAAGATTGCCACTGACT
Found at i:1178008 original size:30 final size:30
Alignment explanation
Indices: 1177929--1178243 Score: 173
Period size: 30 Copynumber: 10.5 Consensus size: 30
1177919 CACCAACTTG
** *
1177929 TGTGGGCTTTTG--AAGATTGCTACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
*
1177957 TGTGGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* *
1177985 TGTGGGCTTTTGAAAAGGGTGCCATTAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* ** * * * *
1178015 TATGGGCTTAAAAGGAAAAAGAGTGCTACAGAGT
1 TGTGGGCTT---TTG-AAAAGGGTGCCACTGACT
* ** * * *
1178049 TGTGAGCTTACAAAAGAAAAAGAGTGCCACAGAGT
1 TGTGGGCTT----TTG-AAAAGGGTGCCACTGACT
* * * **
1178084 TGTGGACTTTGGAAAA-GATGCCACCAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* *
1178113 TGTGGGC-TTCGAAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTG-AAAAGGGTGCCACTGACT
* *
1178143 TGTGGGC-TTTG--AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
* *
1178170 TGTGGGCTTTTGAAAAAAGATGCCACTGACT
1 TGTGGGCTTTTG-AAAAGGGTGCCACTGACT
* *
1178201 TGTGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGGTGCCACTGACT
1178230 TGTGGGCTTTTGAA
1 TGTGGGCTTTTGAA
1178244 GGGTGAGGAA
Statistics
Matches: 231, Mismatches: 41, Indels: 28
0.77 0.14 0.09
Matches are distributed among these distances:
27 20 0.09
28 43 0.19
29 43 0.19
30 55 0.24
31 21 0.09
33 1 0.00
34 19 0.08
35 29 0.13
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGGTGCCACTGACT
Found at i:1178058 original size:34 final size:35
Alignment explanation
Indices: 1178020--1178087 Score: 111
Period size: 35 Copynumber: 2.0 Consensus size: 35
1178010 TAACTTATGG
* *
1178020 GCTTA-AAAGGAAAAAGAGTGCTACAGAGTTGTGA
1 GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTGA
1178054 GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTG
1 GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTG
1178088 GACTTTGGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 5 0.16
35 26 0.84
ACGTcount: A:0.41, C:0.12, G:0.28, T:0.19
Consensus pattern (35 bp):
GCTTACAAAAGAAAAAGAGTGCCACAGAGTTGTGA
Found at i:1178115 original size:29 final size:29
Alignment explanation
Indices: 1178064--1178239 Score: 178
Period size: 29 Copynumber: 6.0 Consensus size: 29
1178054 GCTTACAAAA
* *
1178064 GAAAAAGAGTGCCAC-AGAGTTGTGGACTTT
1 GAAAAAGA-TGCCACTA-ACTTGTGGGCTTT
* * *
1178094 GGAAAAGATGCCACCAACTTGTGGGCTTC
1 GAAAAAGATGCCACTAACTTGTGGGCTTT
* * *
1178123 GAAAAAGGGTGCCACTGATTTGTGGGCTTT
1 GAAAAA-GATGCCACTAACTTGTGGGCTTT
* *
1178153 G--AAGGTTGCCACTAACTTGTGGGCTTTT
1 GAAAAAGATGCCACTAACTTGTGGGC-TTT
*
1178181 GAAAAAAGATGCCACTGACTTGTGGGCTTT
1 G-AAAAAGATGCCACTAACTTGTGGGCTTT
*
1178211 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCACTAACTTGTGGGCTTT
1178240 TGAAGGGTGA
Statistics
Matches: 123, Mismatches: 17, Indels: 13
0.80 0.11 0.08
Matches are distributed among these distances:
27 17 0.14
28 6 0.05
29 49 0.40
30 31 0.25
31 20 0.16
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.27
Consensus pattern (29 bp):
GAAAAAGATGCCACTAACTTGTGGGCTTT
Found at i:1193608 original size:52 final size:52
Alignment explanation
Indices: 1193530--1193641 Score: 170
Period size: 52 Copynumber: 2.2 Consensus size: 52
1193520 CGAAATATGA
* *
1193530 AAATTTGCCTACATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCAATACATTGAATAATGTATCGATACATCTGGGC
* **
1193582 AAATTTGCCTGCATGTATCAATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTACATGTATCAATACATTGAATAATGTATCGATACATCTGGGC
*
1193634 AGATTTGC
1 AAATTTGC
1193642 TAGCATTTTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 54 1.00
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTACATGTATCAATACATTGAATAATGTATCGATACATCTGGGC
Found at i:1194353 original size:55 final size:52
Alignment explanation
Indices: 1194293--1194585 Score: 151
Period size: 48 Copynumber: 6.0 Consensus size: 52
1194283 CGATATTGGG
* * *
1194293 CTTAAAGATGAGAAAAAGGATGTCAATGTACTGATTCAAGGCCAGCTACT-TTGAA
1 CTTAAAGAT--GAAAAAGG-TGCCAATATACTGATTCAAAGCCAGCTA-TATTGAA
* *
1194348 CTTAAAGATGAAAAAGGTGCCAATATGCTGATTCAAAGCCAGCTATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATACTGATTCAAAGCCAGCTATATTGAA
* * * * * *
1194400 C-T-----T---AAAGGTGCCAATGTGCTGATTCAAGGTCAGCTACATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATACTGATTCAAAGCCAGCTATATTGAA
* * * * * * *
1194443 TTTAAAGAT---TAAGGTGCCAATATGCTGATTTAAGGCCAGCGATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATACTGATTCAAAGCCAGCTATATTGAA
* ** * * * *
1194492 CTTAAAGGTG----AGGTATCAATGTGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGAAAAAGGTGCCAATATACTGATTCAAAGCCAGCTATATTGAA
* * *
1194540 CTT-AA-A-G-ACAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 CTTAAAGATGAAAAAGGTGCCAATATACTGATTCAAAGCCAGCTATATTG
1194586 GGCTTAAAAG
Statistics
Matches: 200, Mismatches: 27, Indels: 29
0.78 0.11 0.11
Matches are distributed among these distances:
43 36 0.18
44 1 0.00
45 1 0.00
46 1 0.00
47 2 0.01
48 69 0.34
49 42 0.21
51 2 0.01
52 29 0.14
53 8 0.04
55 9 0.05
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (52 bp):
CTTAAAGATGAAAAAGGTGCCAATATACTGATTCAAAGCCAGCTATATTGAA
Found at i:1194526 original size:48 final size:48
Alignment explanation
Indices: 1194323--1194593 Score: 311
Period size: 48 Copynumber: 5.6 Consensus size: 48
1194313 TGTCAATGTA
*
1194323 CTGATTCAAGGCCAGCTACT-TTGAACTTAAAGATGAAAAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTA-TATTGGACTTAAAGAT----AAGGTGCCAATATG
* *
1194375 CTGATTCAAAGCCAGCTATATTGGACTT----A-AAGGTGCCAATGTG
1 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAGGTGCCAATATG
* * *
1194418 CTGATTCAAGGTCAGCTACATTGGATTTAAAGATTAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTATATTGGACTTAAAGA-TAAGGTGCCAATATG
* * * * ** *
1194467 CTGATTTAAGGCCAGCGATATTGGACTTAAAGGTGAGGTATCAATGTG
1 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAGGTGCCAATATG
*
1194515 CTGATTCAAGGCCAGCTATATTGGACTTAAAGACAAGGTGCCAATATG
1 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAGGTGCCAATATG
*
1194563 CTGATTCAAGGCCAGCTATATTGGGCTTAAA
1 CTGATTCAAGGCCAGCTATATTGGACTTAAA
1194594 AGGAGACGCC
Statistics
Matches: 185, Mismatches: 27, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
43 37 0.20
47 1 0.01
48 82 0.44
49 40 0.22
51 1 0.01
52 24 0.13
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (48 bp):
CTGATTCAAGGCCAGCTATATTGGACTTAAAGATAAGGTGCCAATATG
Found at i:1194651 original size:28 final size:28
Alignment explanation
Indices: 1194617--1194682 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
1194607 AACTTGTGTG
* *
1194617 GGCTTTTGAAGATTGCTATTGACTTGTA
1 GGCTTTTGAAGATTGCCACTGACTTGTA
* * *
1194645 GGCTTTTAAAGGTTGCCACTGACTTGTG
1 GGCTTTTGAAGATTGCCACTGACTTGTA
1194673 GGCTTTTGAA
1 GGCTTTTGAA
1194683 AAGGTTGCCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (28 bp):
GGCTTTTGAAGATTGCCACTGACTTGTA
Found at i:1194688 original size:30 final size:30
Alignment explanation
Indices: 1194613--1194958 Score: 185
Period size: 30 Copynumber: 11.5 Consensus size: 30
1194603 CACCAACTTG
* * *
1194613 TGTGGGCTTTTG--AAGATTGCTATTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
*
1194641 TGTAGGCTTTT--AAAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* *
1194669 TGTGGGCTTTTGAAAAGGTTGCCATTAACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* ** * *
1194699 TGTGGGATTAAAAGGAAAAAGAG-TGCTA-TAGAGT
1 TGTGGGCTT---TTG-AAAAG-GTTGCCACT-GACT
* ** * *
1194733 TGTGAGCTTACAAAAGAAAAAGAG-TGCCACGGAGT
1 TGTGGGCTT----TTG-AAAAG-GTTGCCACTGACT
* * * *
1194768 TGTGGACTTTGGAAAA-GATGCCACCGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
** * *
1194797 TGTGGGCTTCAGAAAAGGGTGCCACTGATT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* *
1194827 TGTGGGC-TTTG--AAGGTTGTCACTAACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* *
1194854 TGTGGGCTTTTGAAAAGGGTGCCACTAACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
* * *
1194884 TGTGGGCTTTTGAAAAAAGATGCCACTGATT
1 TGTGGGCTTTTG-AAAAGGTTGCCACTGACT
* *
1194915 TGTGGGC-TTTGAAAAAGATGCCACTGACT
1 TGTGGGCTTTTGAAAAGGTTGCCACTGACT
*
1194944 TATGGGCTTTTGAAA
1 TGTGGGCTTTTGAAA
1194959 GGTGAGGAAT
Statistics
Matches: 255, Mismatches: 45, Indels: 34
0.76 0.13 0.10
Matches are distributed among these distances:
27 19 0.07
28 38 0.15
29 47 0.18
30 81 0.32
31 22 0.09
33 2 0.01
34 18 0.07
35 28 0.11
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.30
Consensus pattern (30 bp):
TGTGGGCTTTTGAAAAGGTTGCCACTGACT
Found at i:1194799 original size:29 final size:29
Alignment explanation
Indices: 1194750--1194958 Score: 179
Period size: 29 Copynumber: 7.1 Consensus size: 29
1194740 TTACAAAAGA
* * *
1194750 AAAAGAGTGCCACGGAGTTGTGGACTTTGG
1 AAAAGA-TGCCACTGACTTGTGGGCTTTGG
* **
1194780 AAAAGATGCCACCGACTTGTGGGCTTCAG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1194809 AAAAGGGTGCCACTGATTTGTGGGCTTT-G
1 AAAA-GATGCCACTGACTTGTGGGCTTTGG
* * * * *
1194838 -AAGGTTGTCACTAACTTGTGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* * *
1194866 AAAAGGGTGCCACTAACTTGTGGGCTTTTGAA
1 AAAA-GATGCCACTGACTTGTGGGC-TTTG-G
* *
1194898 AAAAGATGCCACTGATTTGTGGGCTTTGA
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
* *
1194927 AAAAGATGCCACTGACTTATGGGCTTTTG
1 AAAAGATGCCACTGACTTGTGGGCTTTGG
1194956 AAA
1 AAA
1194959 GGTGAGGAAT
Statistics
Matches: 147, Mismatches: 26, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
27 19 0.13
28 3 0.02
29 54 0.37
30 47 0.32
31 20 0.14
32 4 0.03
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTGTGGGCTTTGG
Found at i:1194926 original size:88 final size:86
Alignment explanation
Indices: 1194767--1194927 Score: 223
Period size: 88 Copynumber: 1.8 Consensus size: 86
1194757 TGCCACGGAG
* * *
1194767 TTGTGGACTTTGGAAAAGATGCCACCGACTTGTGGGCTTCAGAAAAGGGTGCCACTGATTTGTGG
1 TTGTGGACTTTGGAAAAGATGCCACCAACTTGTGGGCTTCAGAAAAAGATGCCACTGATTTGTGG
1194832 GCTTTGAAGGTTGTCACTAAC
66 GCTTTGAAGGTTGTCACTAAC
* * * * **
1194853 TTGTGGGCTTTTGAAAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAAAGATGCCACTGATTTGT
1 TTGTGGACTTTGGAAAA-GATGCCACCAACTTGTGGGCTTCAG-AAAAAGATGCCACTGATTTGT
1194918 GGGCTTTGAA
64 GGGCTTTGAA
1194928 AAAGATGCCA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
86 15 0.23
87 20 0.31
88 29 0.45
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.31
Consensus pattern (86 bp):
TTGTGGACTTTGGAAAAGATGCCACCAACTTGTGGGCTTCAGAAAAAGATGCCACTGATTTGTGG
GCTTTGAAGGTTGTCACTAAC
Found at i:1210354 original size:52 final size:52
Alignment explanation
Indices: 1210257--1210384 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 52
1210247 CGAAATATGA
* * *
1210257 AAATTTGCCTGTATGTATCG-TACATTGAATAGTGTATGGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGC
**
1210308 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGC
* * *
1210360 AGATTTGCCAGCATGTATCAATACA
1 AAATTTGCCTGCATGTATCGATACA
1210385 AAGATCAGTG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
51 19 0.28
52 49 0.72
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTGAATAATGTATCGATACATCTGGGC
Found at i:1210397 original size:52 final size:52
Alignment explanation
Indices: 1210285--1210404 Score: 143
Period size: 52 Copynumber: 2.3 Consensus size: 52
1210275 CGTACATTGA
* * * ***
1210285 ATAGTGTATGGATACATCTGGGCAAATTTGCCTGCATGTATCGATACATTTT
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCAGCATGTATCAATACATAAG
* *
1210337 ATAATGTATCGATACATCTGGGCAGATTTGCCAGCATGTATCAATACA-AAG
1 ATAGTGTATCGATACATCTGGGCAAATTTGCCAGCATGTATCAATACATAAG
*
1210388 ATCAGTGTATTGATACA
1 AT-AGTGTATCGATACA
1210405 ATGTATCGAT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 2 0.04
52 55 0.96
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.33
Consensus pattern (52 bp):
ATAGTGTATCGATACATCTGGGCAAATTTGCCAGCATGTATCAATACATAAG
Found at i:1210485 original size:20 final size:19
Alignment explanation
Indices: 1210456--1210524 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
1210446 GCAGTAGCTT
1210456 AAATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
1210475 AAATATGTATCGATAC----
1 AAAT-TGTATCGATACAAAA
1210491 --ATTGTATCGATACAAAA
1 AAATTGTATCGATACAAAA
1210508 AAATATGTATCGATACA
1 AAAT-TGTATCGATACA
1210525 TTGTATCGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.26
14 2 0.05
19 6 0.14
20 23 0.55
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (19 bp):
AAATTGTATCGATACAAAA
Found at i:1210495 original size:33 final size:33
Alignment explanation
Indices: 1210458--1210557 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
1210448 AGTAGCTTAA
1210458 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1210491 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1210524 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1210557 A
1 A
1210558 AATCGTTGAA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.32
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1210498 original size:13 final size:13
Alignment explanation
Indices: 1210480--1210537 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
1210470 CAAAAAAATA
1210480 TGTATCGATACAT
1 TGTATCGATACAT
1210493 TGTATCGATACAAAAAAAT
1 TGTATCGATAC------AT
1210512 ATGTATCGATACAT
1 -TGTATCGATACAT
1210526 TGTATCGATACA
1 TGTATCGATACA
1210538 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 23 0.61
14 2 0.05
19 2 0.05
20 11 0.29
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1228115 original size:22 final size:21
Alignment explanation
Indices: 1228067--1228131 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 21
1228057 AAAAACCCAG
*
1228067 ATGTATCGATACAA-TGATAA
1 ATGTATCGATACAATTTATAA
1228087 ATGTATCGATACAATTTA-AA
1 ATGTATCGATACAATTTATAA
*
1228107 GTATGTATCGATAC-ATTTATTA
1 --ATGTATCGATACAATTTATAA
1228129 ATG
1 ATG
1228132 CATCAATATA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 19 0.49
21 7 0.18
22 13 0.33
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (21 bp):
ATGTATCGATACAATTTATAA
Found at i:1234857 original size:18 final size:16
Alignment explanation
Indices: 1234811--1234857 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
1234801 TTTAATTAAT
* *
1234811 ATTAAGTTAAATTTTA
1 ATTAAGTTATATTCTA
1234827 ATTAAGTTATATTCTA
1 ATTAAGTTATATTCTA
1234843 ATTCAAGTGTATATT
1 ATT-AAGT-TATATT
1234858 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 4 0.15
18 6 0.22
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (16 bp):
ATTAAGTTATATTCTA
Found at i:1235286 original size:24 final size:25
Alignment explanation
Indices: 1235259--1235311 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
1235249 CATATAAAAA
*
1235259 TAATATA-ATTATTAATATTAAAG-T
1 TAATATATATAATTAA-ATTAAAGAT
*
1235283 TAATATATATAATTGAATTAAAGAT
1 TAATATATATAATTAAATTAAAGAT
1235308 TAAT
1 TAAT
1235312 TAAAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (25 bp):
TAATATATATAATTAAATTAAAGAT
Found at i:1235330 original size:13 final size:14
Alignment explanation
Indices: 1235307--1235385 Score: 63
Period size: 16 Copynumber: 5.3 Consensus size: 14
1235297 GAATTAAAGA
1235307 TTAATTAAAAATAT
1 TTAATTAAAAATAT
1235321 TTAA-TAAAAATAT
1 TTAATTAAAAATAT
*
1235334 TTAAATTAGAATATAAT
1 TT-AATTA-AAAAT-AT
*
1235351 TTAATTTAATAATAAT
1 TTAA-TTAAAAAT-AT
1235367 TTAAAATTAAAAA-AT
1 TT--AATTAAAAATAT
1235382 TTAA
1 TTAA
1235386 AATAAAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 15
0.74 0.05 0.21
Matches are distributed among these distances:
13 13 0.24
14 6 0.11
15 6 0.11
16 14 0.26
17 13 0.24
18 2 0.04
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (14 bp):
TTAATTAAAAATAT
Found at i:1235347 original size:14 final size:13
Alignment explanation
Indices: 1235307--1235337 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
1235297 GAATTAAAGA
1235307 TTAATTAAAAATAT
1 TTAA-TAAAAATAT
1235321 TTAATAAAAATAT
1 TTAATAAAAATAT
1235334 TTAA
1 TTAA
1235338 ATTAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
TTAATAAAAATAT
Found at i:1235384 original size:15 final size:14
Alignment explanation
Indices: 1235309--1235404 Score: 70
Period size: 14 Copynumber: 6.4 Consensus size: 14
1235299 ATTAAAGATT
1235309 AATTAAAAATATTT-
1 AATTAAAAA-ATTTA
1235323 AA-TAAAAATATTTA
1 AATTAAAAA-ATTTA
1235337 AATTAGAATATAATTTA
1 AATTA-AA-A-AATTTA
*
1235354 ATTTAATAATAATTTAA
1 AATTAA-AA-AATTT-A
1235371 AATTAAAAAATTTA
1 AATTAAAAAATTTA
* *
1235385 AAATAAAAAAATTA
1 AATTAAAAAATTTA
*
1235399 ATTTAA
1 AATTAA
1235405 TTTATATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
13 11 0.16
14 21 0.30
15 7 0.10
16 12 0.17
17 17 0.25
18 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (14 bp):
AATTAAAAAATTTA
Found at i:1235647 original size:16 final size:13
Alignment explanation
Indices: 1235613--1235638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1235603 AGAAAGGAAA
1235613 GAAAAAGAAAAGG
1 GAAAAAGAAAAGG
1235626 GAAAAAGAAAAGG
1 GAAAAAGAAAAGG
1235639 TGGGAAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
GAAAAAGAAAAGG
Found at i:1235758 original size:11 final size:11
Alignment explanation
Indices: 1235742--1235809 Score: 55
Period size: 11 Copynumber: 6.0 Consensus size: 11
1235732 TATGTATAAG
*
1235742 TTTTATGTTTA
1 TTTTATTTTTA
1235753 TTTTATTTTTTA
1 TTTTA-TTTTTA
*
1235765 TATTATTTTTA
1 TTTTATTTTTA
* *
1235776 ATTAATTTTTTA
1 TTTTA-TTTTTA
*
1235788 TTTTATATTTA
1 TTTTATTTTTA
* *
1235799 TATTATGTTTA
1 TTTTATTTTTA
1235810 AATTTATGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
11 27 0.60
12 18 0.40
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:1235775 original size:23 final size:23
Alignment explanation
Indices: 1235744--1235804 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
1235734 TGTATAAGTT
*
1235744 TTATGTTTATTTTATTTTTTATA
1 TTATATTTATTTTATTTTTTATA
* * * *
1235767 TTATTTTTAATTAATTTTTTATT
1 TTATATTTATTTTATTTTTTATA
*
1235790 TTATATTTATATTAT
1 TTATATTTATTTTAT
1235805 GTTTAAATTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (23 bp):
TTATATTTATTTTATTTTTTATA
Found at i:1236070 original size:23 final size:23
Alignment explanation
Indices: 1236040--1236086 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1236030 TTATCATAAT
* *
1236040 TAATTATTTTAATTT-TTTAAAA
1 TAATTATTTAAATTTATTGAAAA
1236062 TAATATATTTAAATTTATTGAAAA
1 TAAT-TATTTAAATTTATTGAAAA
1236086 T
1 T
1236087 CATGTTAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 10 0.48
24 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
TAATTATTTAAATTTATTGAAAA
Found at i:1239275 original size:26 final size:26
Alignment explanation
Indices: 1239246--1239303 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
1239236 ACAAAATATG
*
1239246 AAATAAAAGTATTATGTAAATTATAA
1 AAATAAAAGTATCATGTAAATTATAA
1239272 AAATAAAAGTATCATGTAAATTATAA
1 AAATAAAAGTATCATGTAAATTATAA
1239298 AAATAA
1 AAATAA
1239304 GGATGCTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (26 bp):
AAATAAAAGTATCATGTAAATTATAA
Found at i:1240080 original size:70 final size:69
Alignment explanation
Indices: 1239967--1240109 Score: 241
Period size: 70 Copynumber: 2.1 Consensus size: 69
1239957 TTTTTAAGTA
* *
1239967 ATGTGATACCTTTATCTCAATGAAAAGGATTACATGGACAGTGCTACTTTTGTTGTTCTCGTAAA
1 ATGTGATACCTTTACCTCAATGAAAAGCATTACATGGACAGTGCTAC-TTTGTTGTTCTCGTAAA
1240032 AGGAC
65 AGGAC
* *
1240037 ATGTGATACCTTTACCTTAATGAAAAGCATTACATGGACAGTGCTACTTTGTTGTTCTTGTAAAA
1 ATGTGATACCTTTACCTCAATGAAAAGCATTACATGGACAGTGCTACTTTGTTGTTCTCGTAAAA
1240102 GGAC
66 GGAC
1240106 ATGT
1 ATGT
1240110 CATGTGTTCC
Statistics
Matches: 69, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
69 25 0.36
70 44 0.64
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.35
Consensus pattern (69 bp):
ATGTGATACCTTTACCTCAATGAAAAGCATTACATGGACAGTGCTACTTTGTTGTTCTCGTAAAA
GGAC
Found at i:1241755 original size:41 final size:40
Alignment explanation
Indices: 1241691--1241769 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 40
1241681 CCTACTAATG
* * **
1241691 CATATCTTAAAAGCATTGTAATTATTGTAAAGTGATAATTA
1 CATATCTTAAAAGAATAGTAATTATCCT-AAGTGATAATTA
1241732 CATATCTTAAAAGAATAAG-AATTATCCTAAGTGATAAT
1 CATATCTTAAAAGAAT-AGTAATTATCCTAAGTGATAAT
1241770 AGAATTCTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 10 0.30
41 22 0.67
42 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (40 bp):
CATATCTTAAAAGAATAGTAATTATCCTAAGTGATAATTA
Found at i:1242156 original size:21 final size:21
Alignment explanation
Indices: 1242130--1242171 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1242120 AACGTCCACT
1242130 TATGATAAGTACCCTTAGGAA
1 TATGATAAGTACCCTTAGGAA
1242151 TATGATAAGTACCCTTAGGAA
1 TATGATAAGTACCCTTAGGAA
1242172 ACCTTTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (21 bp):
TATGATAAGTACCCTTAGGAA
Found at i:1242231 original size:33 final size:33
Alignment explanation
Indices: 1242183--1242250 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 33
1242173 CCTTTCTTTC
1242183 CTTCAAATTTCTTGAGATGCCTATGTTGATTAG
1 CTTCAAATTTCTTGAGATGCCTATGTTGATTAG
1242216 CTTCAAA-TTCTTTGAGATGCCTATGTTGATTAG
1 CTTCAAATTTC-TTGAGATGCCTATGTTGATTAG
1242249 CT
1 CT
1242251 GCATTTGCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 3 0.09
33 31 0.91
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.43
Consensus pattern (33 bp):
CTTCAAATTTCTTGAGATGCCTATGTTGATTAG
Found at i:1248372 original size:12 final size:12
Alignment explanation
Indices: 1248357--1248410 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
1248347 ATAGGTTCAA
1248357 ACACAGGTTTAG
1 ACACAGGTTTAG
* *
1248369 ACACGGGTGTAG
1 ACACAGGTTTAG
** *
1248381 ACATGGGTTCAG
1 ACACAGGTTTAG
*
1248393 ACACAAGTTTAG
1 ACACAGGTTTAG
1248405 ACACAG
1 ACACAG
1248411 AAACGAGTTC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.28, T:0.20
Consensus pattern (12 bp):
ACACAGGTTTAG
Found at i:1248419 original size:18 final size:18
Alignment explanation
Indices: 1248398--1248446 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
1248388 TTCAGACACA
*
1248398 AGTTTAGACACAGAAACG
1 AGTTCAGACACAGAAACG
1248416 AGTTCAGACACAGAAACG
1 AGTTCAGACACAGAAACG
1248434 AGTTCAGACACAG
1 AGTTCAGACACAG
1248447 GCTTAGACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.14
Consensus pattern (18 bp):
AGTTCAGACACAGAAACG
Found at i:1258879 original size:21 final size:21
Alignment explanation
Indices: 1258852--1258907 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
1258842 AAGCACCATT
1258852 AAATTGATGACATGGATTGTA
1 AAATTGATGACATGGATTGTA
* *
1258873 GAATTGATGACATGAATTGTA
1 AAATTGATGACATGGATTGTA
*
1258894 AAATTAATGA-ATGG
1 AAATTGATGACATGG
1258908 CTACCTTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.41, C:0.04, G:0.23, T:0.32
Consensus pattern (21 bp):
AAATTGATGACATGGATTGTA
Found at i:1266754 original size:15 final size:15
Alignment explanation
Indices: 1266734--1266763 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1266724 GATTTAGGGG
1266734 ATTTCAAATAATAAT
1 ATTTCAAATAATAAT
1266749 ATTTCAAATAATAAT
1 ATTTCAAATAATAAT
1266764 CTACAGATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (15 bp):
ATTTCAAATAATAAT
Found at i:1267079 original size:41 final size:41
Alignment explanation
Indices: 1267034--1267114 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
1267024 TCTCATACTA
* * *
1267034 GTTACTTATCTTAAAAGCGTAAGACTTATCCTCAAGTGATG
1 GTTACTTATCTGAAAAGCATAAGACTTATCCTAAAGTGATG
*
1267075 GTTACTTATCTGAAAAGCATAAGACTTGTCCTAAAGTGAT
1 GTTACTTATCTGAAAAGCATAAGACTTATCCTAAAGTGAT
1267115 AATTTACATA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (41 bp):
GTTACTTATCTGAAAAGCATAAGACTTATCCTAAAGTGATG
Found at i:1268934 original size:44 final size:43
Alignment explanation
Indices: 1268848--1268934 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 43
1268838 TACATAGCAT
*
1268848 AAACTTTACCCTAAAGAGTAATTTAAAAGAAATAGAACTCTTA
1 AAACTTTACCCTAAAGAGTAATCTAAAAGAAATAGAACTCTTA
* * *
1268891 AAACTTTATCCTAAAGCAGTAATCTGAAAGAGAA-AGAATTCTTA
1 AAACTTTACCCTAAAG-AGTAATCTAAAAGA-AATAGAACTCTTA
1268935 TCTTGATGCT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
43 15 0.39
44 21 0.55
45 2 0.05
ACGTcount: A:0.47, C:0.14, G:0.11, T:0.28
Consensus pattern (43 bp):
AAACTTTACCCTAAAGAGTAATCTAAAAGAAATAGAACTCTTA
Found at i:1276640 original size:2 final size:2
Alignment explanation
Indices: 1276633--1276664 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1276623 TTAATTTTAG
1276633 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1276665 ATGTTATAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1276695 original size:32 final size:32
Alignment explanation
Indices: 1276659--1276723 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
1276649 TATATATATA
1276659 TATATAATGTTATAGAAACATGAAAACATGAC
1 TATATAATGTTATAGAAACATGAAAACATGAC
*
1276691 TATATAATGTTATAGAAACGTGAAAACATGAC
1 TATATAATGTTATAGAAACATGAAAACATGAC
1276723 T
1 T
1276724 TTAATGCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (32 bp):
TATATAATGTTATAGAAACATGAAAACATGAC
Found at i:1281228 original size:52 final size:50
Alignment explanation
Indices: 1281165--1281417 Score: 193
Period size: 52 Copynumber: 4.9 Consensus size: 50
1281155 AAGAAGGTTT
* * *
1281165 TGACAA-GTGCCAATATGCTTATTCAAGGTTAGCAACATTAGACTTAAAGA
1 TGACAAGGTGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTT-AAGA
* * *
1281215 TGACAAGGATGCCAATTTGCTGATTCAAGGTTAGCGATATCGGACTTGAAGA
1 TGACAAGG-TGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTT-AAGA
* * * * *
1281267 TAATAAAGGTACCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAGA
1 TGA-CAAGGTGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTTAAGA
* ** ** * * *
1281318 TGACAAAGATGCTGATATGCTGATTCAAGGCCAGTGATATTGGACTTAAAA
1 TGAC-AAGGTGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTTAAGA
* * * * * * * *
1281369 GTGATAAGAGTGCTAATGTACTGATTCAATGCTAGCAACATTGGGCTTA
1 -TGACAAG-GTGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTTA
1281418 GAAGGAAATG
Statistics
Matches: 161, Mismatches: 36, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
50 6 0.04
51 47 0.29
52 104 0.65
53 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (50 bp):
TGACAAGGTGCCAATATGCTGATTCAAGGTTAGCGACATTGGACTTAAGA
Found at i:1281357 original size:103 final size:103
Alignment explanation
Indices: 1281174--1281417 Score: 267
Period size: 103 Copynumber: 2.4 Consensus size: 103
1281164 TTGACAAGTG
* * * * * *
1281174 CCAATATGCTTATTCAAGGTTAGCAACATTAGACTTAAAGATGACAAGGATGCCAATTTGCTGAT
1 CCAATGTGCTGATTCAAGGCTAGCAACATTGGACTT-AAGATGACAAAGATGCCAATATGCTGAT
** *
1281239 TCAAGGTTAGCGATATCGGACTT-GAAGATAATAA-AGGTA
65 TCAAGGCCAGCGATATCGGACTTAAAAG-TAATAAGA-GTA
* **
1281278 CCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAGATGACAAAGATGCTGATATGCTGATT
1 CCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAGATGACAAAGATGCCAATATGCTGATT
* * * *
1281343 CAAGGCCAGTGATATTGGACTTAAAAGTGATAAGAGTG
66 CAAGGCCAGCGATATCGGACTTAAAAGTAATAAGAGTA
* * * *
1281381 CTAATGTACTGATTCAATGCTAGCAACATTGGGCTTA
1 CCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTA
1281418 GAAGGAAATG
Statistics
Matches: 117, Mismatches: 21, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
103 82 0.70
104 35 0.30
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (103 bp):
CCAATGTGCTGATTCAAGGCTAGCAACATTGGACTTAAGATGACAAAGATGCCAATATGCTGATT
CAAGGCCAGCGATATCGGACTTAAAAGTAATAAGAGTA
Found at i:1281578 original size:66 final size:67
Alignment explanation
Indices: 1281501--1281627 Score: 195
Period size: 66 Copynumber: 1.9 Consensus size: 67
1281491 AACCAATTTA
*
1281501 TGTGGGCTTTTTGGGTATCGCCAACTGGTGA-GGGCTTTTGGAAAGGTTGCCACCAA-TTCTAAC
1 TGTGGGCTTTTTGGGTATCACCAACTGGT-ACGGGCTTTTGGAAAGGTTGCCACCAACTTCTAAC
1281564 TTG
65 TTG
* * *
1281567 TGTGGGCTTTTTGGGTGTCACCAACTTGTACGGGCTTTTGGAAAGGTTGCTACCAACTTCT
1 TGTGGGCTTTTTGGGTATCACCAACTGGTACGGGCTTTTGGAAAGGTTGCCACCAACTTCT
1281628 GTGGGCTTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
65 1 0.02
66 50 0.91
67 4 0.07
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (67 bp):
TGTGGGCTTTTTGGGTATCACCAACTGGTACGGGCTTTTGGAAAGGTTGCCACCAACTTCTAACT
TG
Found at i:1281686 original size:30 final size:30
Alignment explanation
Indices: 1281635--1281821 Score: 162
Period size: 30 Copynumber: 6.3 Consensus size: 30
1281625 TCTGTGGGCT
* **
1281635 TTTGAAAA-GGATGCCACGGAGTTATGGAC
1 TTTGAAAAGGGGTGCCACGGAGTCGTGGAC
* * *
1281664 TTTGAAAAGGGGTGCTACGGAGTTGTAGAC
1 TTTGAAAAGGGGTGCCACGGAGTCGTGGAC
* ** *
1281694 TTTGAAAAGGTGTGCCATAGAGTCATGGAC
1 TTTGAAAAGGGGTGCCACGGAGTCGTGGAC
** * * *
1281724 TTT-AAGAAATGGTGTCATGGAGTTGTGGAC
1 TTTGAA-AAGGGGTGCCACGGAGTCGTGGAC
** *
1281754 TTTGGGAAGGGGTGCCATGGAGTCGTGGAC
1 TTTGAAAAGGGGTGCCACGGAGTCGTGGAC
* * *
1281784 TTTGAAAAGAGGTACCACAGAGTCGTGGAC
1 TTTGAAAAGGGGTGCCACGGAGTCGTGGAC
1281814 TTTGAAAA
1 TTTGAAAA
1281822 AGTACTCTAC
Statistics
Matches: 125, Mismatches: 30, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
29 10 0.08
30 115 0.92
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (30 bp):
TTTGAAAAGGGGTGCCACGGAGTCGTGGAC
Found at i:1281722 original size:60 final size:59
Alignment explanation
Indices: 1281635--1281821 Score: 182
Period size: 60 Copynumber: 3.1 Consensus size: 59
1281625 TCTGTGGGCT
* * * * *
1281635 TTTGAAAAGGATGCCACGGAGTTATGGACTTTGAAAAGGGGTGCTACGGAGTTGTAGAC
1 TTTGAAAAGGGTGCCATGGAGTCATGGACTTTGAAAAGAGGTGCTACGGAGTTGTGGAC
* *
1281694 TTTGAAAAGGTGTGCCATAGAGTCATGGACTTT-AAGAA-ATGGTG-TCATGGAGTTGTGGAC
1 TTTGAAAAGG-GTGCCATGGAGTCATGGACTTTGAA-AAGA-GGTGCT-ACGGAGTTGTGGAC
* * * * * * *
1281754 TTTGGGAAGGGGTGCCATGGAGTCGTGGACTTTGAAAAGAGGTACCACAGAGTCGTGGAC
1 TTT-GAAAAGGGTGCCATGGAGTCATGGACTTTGAAAAGAGGTGCTACGGAGTTGTGGAC
1281814 TTTGAAAA
1 TTTGAAAA
1281822 AGTACTCTAC
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
59 16 0.16
60 78 0.76
61 8 0.08
ACGTcount: A:0.28, C:0.12, G:0.34, T:0.26
Consensus pattern (59 bp):
TTTGAAAAGGGTGCCATGGAGTCATGGACTTTGAAAAGAGGTGCTACGGAGTTGTGGAC
Done.