Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 6 of 10
Found at i:793542 original size:16 final size:16
Alignment explanation
Indices: 793497--793563 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
793487 GTTCTTTAGG
*
793497 GTTCAAGTTC-TTTTAA
1 GTTCAAG-TCATTTCAA
*
793513 GTTCAGATTC-TTTCAA
1 GTTCA-AGTCATTTCAA
*
793529 GTTCAAG-CTATTTCGA
1 GTTCAAGTC-ATTTCAA
*
793545 GTTCGAGTCATTTCAA
1 GTTCAAGTCATTTCAA
793561 GTT
1 GTT
793564 TGGATTTTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 1 0.02
15 1 0.02
16 37 0.90
17 2 0.05
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.43
Consensus pattern (16 bp):
GTTCAAGTCATTTCAA
Found at i:794694 original size:50 final size:51
Alignment explanation
Indices: 794619--794755 Score: 197
Period size: 50 Copynumber: 2.7 Consensus size: 51
794609 TTTCACAATT
* * * *
794619 TGTATCAACACATCCTTCATTGTATCGATACATTTTGGGTTTT-ACCCAGA
1 TGTATCGATACATCTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGA
*
794669 TGTATCGATACATCTTTCATTGTATCAATACATTCTGGGTTTTAACCCAGA
1 TGTATCGATACATCTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGA
*
794720 TGTATCGATACAT-TTCTCAATGTATCGATACATTCT
1 TGTATCGATACATCTT-TCATTGTATCGATACATTCT
794756 AGCATTTTTG
Statistics
Matches: 78, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
50 40 0.51
51 38 0.49
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (51 bp):
TGTATCGATACATCTTTCATTGTATCGATACATTCTGGGTTTTAACCCAGA
Found at i:795696 original size:21 final size:21
Alignment explanation
Indices: 795672--795712 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
795662 TTGTTATTCC
795672 TTCCATATCCAAATATTCATT
1 TTCCATATCCAAATATTCATT
* *
795693 TTCCATATCCATATCTTCAT
1 TTCCATATCCAAATATTCAT
795713 CTCATATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (21 bp):
TTCCATATCCAAATATTCATT
Found at i:797396 original size:158 final size:158
Alignment explanation
Indices: 797107--797739 Score: 752
Period size: 158 Copynumber: 4.0 Consensus size: 158
797097 TCATTCATGT
* * *
797107 TTTTATTTCTAAAACA-CTGATTTTTTACAATCGGGGATACTCCAAACCCGTTATTTCCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGG
* * *
797171 ATACTCTAACCCTGATTTTATTTCTAAAA-ATACCTATTTTTCAAAATC-GGGATACTCCAACCC
65 ATACTCTAACCCTGATTTTATTTCCAAAACAT--CGATTTTTCACAATCGGGGATACTCCAACCC
* * *
797234 CGTTATTTCTAAG-GAGATACTCCAACCCTGG
128 CGTTATTTCTGAGAG-GATACTCCAACCCCGA
* * **
797265 TTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* * *
797330 TACTCTAACCCTGGTTTTATTTCCAAAACATCGATTTTTCACAATCGGCGATACTCCAACCTCGT
66 TACTCTAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGT
797395 TATTTCTGAG-GGAATACTCCAACCCCGA
131 TATTTCTGAGAGG-ATACTCCAACCCCGA
* * ** * * **
797423 TTTTATTTCTAAAATATCGATTTTTCACAATTGGGGATACTCCAGTCCTGTTGTTTTCGAAAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* * **
797488 TACTCCAAACCC-G-----GTTTCCAAAACATCGATTTTTCACAATCGGGGATACTTTAACCCCG
66 TACT-CTAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCG
*
797547 TTATTTCTGAGAGGATACTCCAACCTCGA
130 TTATTTCTGAGAGGATACTCCAACCCCGA
* * * *
797576 TTTTATTTCTAAAATATCGATTTTTCACAATTGGAGATACTCCAACGCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
* * * *
797641 TACTCTAACCCCGATTTTATTTCTAAAACA-CTGATTTTTCACAATCGGGGATACTCCGACCCCA
66 TACTCTAACCCTGATTTTATTTCCAAAACATC-GATTTTTCACAATCGGGGATACTCCAACCCCG
* *
797705 TTATTTTTGAGAGGATACTCC-ACCCCCA
130 TTATTTCTGAGAGGATACTCCAACCCCGA
797733 GTTTTAT
1 -TTTTAT
797740 CTCCAAAATA
Statistics
Matches: 408, Mismatches: 53, Indels: 28
0.83 0.11 0.06
Matches are distributed among these distances:
152 6 0.01
153 128 0.31
154 2 0.00
157 20 0.05
158 243 0.60
159 9 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (158 bp):
TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGA
TACTCTAACCCTGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGT
TATTTCTGAGAGGATACTCCAACCCCGA
Found at i:797722 original size:232 final size:232
Alignment explanation
Indices: 797107--797726 Score: 740
Period size: 232 Copynumber: 2.6 Consensus size: 232
797097 TCATTCATGT
* * *
797107 TTTTATTTCTAAAACA-CTGATTTTTTACAATCGGGGATACTCCAAACCCGTTATTTCCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACAATCGGAGATACTCC-AACCCGTTATTTTCGAGGGG
* *
797171 ATACTCTAACCCTGATTTTATTTCTAAAAATACCT-ATTTTTCAAAATC-GGGATACTCCAACCC
64 ATACTCTAACCCCGATTTTATTTCT-AAAATA-CTGATTTTTCACAATCGGGGATACTCC-ACCC
* *
797234 CGTTATTTCTAAG-GAGATACTCC-AACCCTGGTTTTATTTCCAAAACATCGATTTTCCACAATC
126 CGTTATTTTTGAGAG-GATACTCCAAACCCTGG---T-TTTCCAAAACATCGATTTTCCACAATC
* * *
797297 AAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCTAACCCTGG
186 AAGGATACTCCAACCCCGTTATTTTCGAGAGGATACTCCAACCCTGA
* * *
797344 TTTTATTTCCAAAACATCGATTTTTCACAATCGGCGATACTCCAACCTCGTTA-TTTCTGAGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGAGATACTCCAACC-CGTTATTTTC-GAGGGG
* * * *
797408 ATACTCCAACCCCGATTTTATTTCTAAAATA-TCGATTTTTCACAATTGGGGATACTCCAGTCCT
64 ATACTCTAACCCCGATTTTATTTCTAAAATACT-GATTTTTCACAATCGGGGATACTCCA-CCCC
* * * * **
797472 GTTGTTTTCGAAAGGATACTCCAAACCC-GG-TTTCCAAAACATCGATTTTTCACAATCGGGGAT
127 GTTATTTTTGAGAGGATACTCCAAACCCTGGTTTTCCAAAACATCGATTTTCCACAATCAAGGAT
**
797535 ACTTTAACCCCGTTA-TTTCTGAGAGGATACTCCAA-CCTCGA
192 ACTCCAACCCCGTTATTTTC-GAGAGGATACTCCAACCCT-GA
* *
797576 TTTTATTTCTAAAATATCGATTTTTCACAATTGGAGATACTCCAACGCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGAGATACTCCAAC-CCGTTATTTTCGAGGGGA
* *
797641 TACTCTAACCCCGATTTTATTTCTAAAACACTGATTTTTCACAATCGGGGATACTCCGACCCCAT
65 TACTCTAACCCCGATTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCC-ACCCCGT
797706 TATTTTTGAGAGGATACTCCA
129 TATTTTTGAGAGGATACTCCA
797727 CCCCCAGTTT
Statistics
Matches: 330, Mismatches: 38, Indels: 35
0.82 0.09 0.09
Matches are distributed among these distances:
231 7 0.02
232 183 0.55
233 7 0.02
234 1 0.00
236 25 0.08
237 100 0.30
238 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (232 bp):
TTTTATTTCTAAAACATCGATTTTTCACAATCGGAGATACTCCAACCCGTTATTTTCGAGGGGAT
ACTCTAACCCCGATTTTATTTCTAAAATACTGATTTTTCACAATCGGGGATACTCCACCCCGTTA
TTTTTGAGAGGATACTCCAAACCCTGGTTTTCCAAAACATCGATTTTCCACAATCAAGGATACTC
CAACCCCGTTATTTTCGAGAGGATACTCCAACCCTGA
Found at i:797738 original size:79 final size:79
Alignment explanation
Indices: 797107--797739 Score: 660
Period size: 79 Copynumber: 8.1 Consensus size: 79
797097 TCATTCATGT
* * *
797107 TTTTATTTCTAAAACA-CTGATTTTTTACAATCGGGGATACTCCAAACCCGTTATTTCCGAGGGG
1 TTTTATTTCTAAAACATC-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGG
* *
797171 ATACTCTAACCCTGA
65 ATACTCCAACCCCGA
* * **
797186 TTTTATTTCTAAAA-ATACCTATTTTTCAAAATC-GGGATACTCCAACCCCGTTATTTCTAAG-G
1 TTTTATTTCTAAAACAT--CGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAG
* *
797248 AGATACTCCAACCCTGG
64 -GATACTCCAACCCCGA
* * ** * *
797265 TTTTATTTCCAAAACATCGATTTTCCACAATCAAGGATACTCCAACCCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGA
* * *
797330 TACTCTAACCCTGG
66 TACTCCAACCCCGA
* * * *
797344 TTTTATTTCCAAAACATCGATTTTTCACAATCGGCGATACTCCAACCTCGTTATTTCTGAG-GGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGG-
797408 ATACTCCAACCCCGA
65 ATACTCCAACCCCGA
* * ** * * * *
797423 TTTTATTTCTAAAATATCGATTTTTCACAATTGGGGATACTCCAGTCCTGTTGTTTTCGAAAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGA
*
797488 TACTCCAAACCCG-
66 TACTCCAACCCCGA
* * ** *
797501 ----GTTTCCAAAACATCGATTTTTCACAATCGGGGATACTTTAACCCCGTTATTTCTGAGAGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGA
*
797562 TACTCCAACCTCGA
66 TACTCCAACCCCGA
* * * * * *
797576 TTTTATTTCTAAAATATCGATTTTTCACAATTGGAGATACTCCAACGCCGTTATTTTCGAGGGGA
1 TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGA
*
797641 TACTCTAACCCCGA
66 TACTCCAACCCCGA
* * **
797655 TTTTATTTCTAAAACA-CTGATTTTTCACAATCGGGGATACTCCGACCCCATTATTTTTGAGAGG
1 TTTTATTTCTAAAACATC-GATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGG
*
797719 ATACTCC-ACCCCCA
65 ATACTCCAACCCCGA
797733 GTTTTAT
1 -TTTTAT
797740 CTCCAAAATA
Statistics
Matches: 460, Mismatches: 78, Indels: 32
0.81 0.14 0.06
Matches are distributed among these distances:
74 59 0.13
78 23 0.05
79 361 0.78
80 16 0.03
81 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
TTTTATTTCTAAAACATCGATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCGAGAGGA
TACTCCAACCCCGA
Found at i:798234 original size:13 final size:13
Alignment explanation
Indices: 798216--798272 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
798206 CATAAAGTGT
798216 TGTATCGATACAA
1 TGTATCGATACAA
798229 TGTATCGATACATAA
1 TGTATCGATAC--AA
798244 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
798261 TGTATCGATACA
1 TGTATCGATACA
798273 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:798251 original size:32 final size:32
Alignment explanation
Indices: 798196--798293 Score: 178
Period size: 32 Copynumber: 3.0 Consensus size: 32
798186 TTCAACGATT
798196 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
798229 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
798261 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
798293 T
1 T
798294 TTAAGCTACT
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
32 51 0.80
33 13 0.20
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:798253 original size:19 final size:18
Alignment explanation
Indices: 798194--798291 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
798184 ATTTCAACGA
798194 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
798213 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
798229 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
798245 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
798261 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
798277 TTTTGTATCGATACA
1 -TTTGTATCGATACA
798292 ATTTAAGCTA
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
19 24 0.36
20 12 0.18
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:798352 original size:13 final size:13
Alignment explanation
Indices: 798334--798371 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
798324 ATTACTCAAA
798334 TGTATCGATACAT
1 TGTATCGATACAT
*
798347 TGTATCGATACGT
1 TGTATCGATACAT
798360 TGTATCGATACA
1 TGTATCGATACA
798372 CTGATCTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:798484 original size:51 final size:52
Alignment explanation
Indices: 798380--798507 Score: 213
Period size: 51 Copynumber: 2.5 Consensus size: 52
798370 CACTGATCTT
*
798380 TGTATCAATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* * *
798432 TGTATCGATACATGTAGGCAAATTTG-CCAGATGTATCGATGCACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
798483 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
798508 CATATTTCGG
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
51 47 0.66
52 24 0.34
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:800661 original size:24 final size:26
Alignment explanation
Indices: 800634--800687 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
800624 CAAAAAATTT
800634 ATTCAT-CG-GGGACACTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
* *
800658 ATTCTTCCGAAGGGACACTCTAACCCC
1 ATTCATCCG-AGGGACACTCCAACCCC
800685 ATT
1 ATT
800688 TTCAACCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.20
25 2 0.08
27 18 0.72
ACGTcount: A:0.26, C:0.37, G:0.15, T:0.22
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:806319 original size:10 final size:10
Alignment explanation
Indices: 806299--806357 Score: 50
Period size: 10 Copynumber: 5.7 Consensus size: 10
806289 AAACACAAGA
806299 GAAACAAAAAT
1 GAAA-AAAAAT
806310 GAAAAAAAAT
1 GAAAAAAAAT
806320 GAAAAAACAA-
1 GAAAAAA-AAT
806330 GAGAAAAAAA-
1 GA-AAAAAAAT
* *
806340 CAAAAAGAAT
1 GAAAAAAAAT
806350 GAATAAAA
1 GAA-AAAA
806358 TGGGAACGAC
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 6 0.15
10 20 0.50
11 14 0.35
ACGTcount: A:0.76, C:0.05, G:0.12, T:0.07
Consensus pattern (10 bp):
GAAAAAAAAT
Found at i:807735 original size:63 final size:63
Alignment explanation
Indices: 807632--808421 Score: 865
Period size: 63 Copynumber: 12.8 Consensus size: 63
807622 GCAGGACACC
* * *
807632 TTTC-AAGCCCACACGAGTCGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCTTTTTTCCT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* *
807694 TTTCAAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGTTTTTTTCCT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * * ** * *
807757 TTTCAAAGCCCACATGAGTTGGTGGCACCCTTTAGTCCTCAAAAAGTGGGATACCTTTTTCTT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * *
807820 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTTAAAGAGGAGGACG-TTTTTTTCT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * * * * *
807882 TTTCAAAGCCTACATGAGTTGGTGACACACTTTAGTCTTC-AA-AGT-------TTTTTTTCT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * * * *
807936 CTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGCCCTTAAAAAGTAGGATG-TCTTTTT-CT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCT-TTTTTCCT
* *
807998 TTTCAAAGCCCACACGAGCTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGA--C-----ACC-
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * * * * *
808053 TTTC-AAGCTCACATGAGTTGGTGGCACCCTCTAGTCCTCAAAGAGCAGGATGCCTTTTTCCT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * * * *
808115 TTTCAAAGCCCACACGAGTTAGTGGCACCCTTTAGTCCTTAAAGTGTATGACGCCTTTTTCCT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
808178 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTTAGTCCTCAAAGAGTAGGACGTCTTTTTT-CT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCC-TTTAGTCCTCAAAGAGTAGGACG-CTTTTTTCCT
* * * * *
808242 TTTCAAAGCCCACACAAGTTGGTGGCACCCTTTAGTCCTTAAAGAGCAAGACGCCTTTTT-CT
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
* * * *
808304 TTTCAAAACCCACACGAGTTGGTGGCACTCTTTAGTCCT-AAAGGAGCAGGACACTTCTTTTTCC
1 TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAA-GAGTAGGACGC-T-TTTTTCC
808368 T
63 T
* * * * *
808369 CTTTTAAAGCCCACACAAGTTGGTGTCACCTTTTAGTCCTCAAAGAGCAGGAC
1 -TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGAC
808422 ACACTTCATT
Statistics
Matches: 619, Mismatches: 80, Indels: 54
0.82 0.11 0.07
Matches are distributed among these distances:
54 82 0.13
55 6 0.01
56 5 0.01
60 2 0.00
61 7 0.01
62 150 0.24
63 258 0.42
64 56 0.09
65 8 0.01
66 42 0.07
67 3 0.00
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (63 bp):
TTTCAAAGCCCACACGAGTTGGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCTTTTTTCCT
Found at i:808496 original size:42 final size:42
Alignment explanation
Indices: 808404--808729 Score: 232
Period size: 42 Copynumber: 7.5 Consensus size: 42
808394 TCACCTTTTA
* *
808404 GTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCTT-TTTTC-C-TTT
* * * **
808449 TTCCTCAAAGAGTAGGACACTTTTTTTTTTCTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCTTTTTTCCTTT
* * *
808491 GTCCTCAAAGAGCAGGACGCACCTT-ATTTCCTTATTTTCCCTTT
1 GTCCTCAAAGAGCAGGACACA-TTTCATTTTCTT-TTTT-CCTTT
* **
808535 GTCCTCAAAGAGCATGACGTACTTTATTTC-TTTT-TTTTTCTTTTTT
1 GTCCTCAAAGAGCAGGAC--AC---ATTTCATTTTCTTTTT-TCCTTT
*
808581 GTCCTCAAAGAGCAGGACGCACTTTC-TTTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACA-TTTCATTTT-C-TTTTTTCCTTT
* * *
808625 GTCCTC-AAGCAGTAGGACACATTTCATTCTCCTTTTTCCTTT
1 GTCCTCAAAG-AGCAGGACACATTTCATTTTCTTTTTTCCTTT
* * * * *
808667 ATCCTCAAAAAACAGGACACATGTCATTTCCTTATTTTCCCTTT
1 GTCCTCAAAGAGCAGGACACATTTCATTTTCTT-TTTT-CCTTT
*
808711 GTTCC-CAAAGAGTAGGACA
1 G-TCCTCAAAGAGCAGGACA
808730 TTTCCCTTTC
Statistics
Matches: 221, Mismatches: 40, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
41 1 0.00
42 66 0.30
43 21 0.10
44 66 0.30
45 34 0.15
46 24 0.11
47 3 0.01
48 5 0.02
49 1 0.00
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACACATTTCATTTTCTTTTTTCCTTT
Found at i:808544 original size:44 final size:43
Alignment explanation
Indices: 808404--808729 Score: 261
Period size: 44 Copynumber: 7.4 Consensus size: 43
808394 TCACCTTTTA
* *
808404 GTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCTCTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCTT-TTTTC-CCTTT
* * ** * *
808449 TTCCTCAAAGAGTAGGACACTTTTTTTTTTCTTTTTT-CCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCTTTTTTCCCTTT
* *
808491 GTCCTCAAAGAGCAGGACGCACCTTATTTCCTTATTTTCCCTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTCCTT-TTTTCCCTTT
* ** * **
808535 GTCCTCAAAGAGCATGACGTACTTTATTTCTTTTTTTTTCTTTTTT
1 GTCCTCAAAGAGCAGGACACACTTTATTTC--CTTTTTTC-CCTTT
* * *
808581 GTCCTCAAAGAGCAGGACGCACTTTCTTTTCCTTTTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACACTTT-ATTTCCTTTTTTCCCTTT
*
808625 GTCCTC-AAGCAGTAGGACACA-TTTCATTCTCC-TTTTT-CCTTT
1 GTCCTCAAAG-AGCAGGACACACTTT-ATT-TCCTTTTTTCCCTTT
* * * *
808667 ATCCTCAAAAAACAGGACACA-TGTCATTTCCTTATTTTCCCTTT
1 GTCCTCAAAGAGCAGGACACACT-TTATTTCCTT-TTTTCCCTTT
*
808711 GTTCC-CAAAGAGTAGGACA
1 G-TCCTCAAAGAGCAGGACA
808730 TTTCCCTTTC
Statistics
Matches: 226, Mismatches: 41, Indels: 29
0.76 0.14 0.10
Matches are distributed among these distances:
41 3 0.01
42 53 0.23
43 25 0.11
44 73 0.32
45 40 0.18
46 28 0.12
47 4 0.02
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (43 bp):
GTCCTCAAAGAGCAGGACACACTTTATTTCCTTTTTTCCCTTT
Found at i:808597 original size:90 final size:86
Alignment explanation
Indices: 808399--808729 Score: 289
Period size: 86 Copynumber: 3.8 Consensus size: 86
808389 TGGTGTCACC
* * * * *
808399 TTTTAGTCCTCAAAGAGCAGGACACA-CTTCATTTCCTTCTTTTCTCTTTTTTCCTCAAAGAGTA
1 TTTTTGTCCTCAAAGAGCAGGACGCACCTTCATTTCCTT-TTTTC-CCTTTGTCCTCAAAGAGCA
808463 GGACACTTTTTTTTTTCTTTTTT
64 GGACACTTTTTTTTTTCTTTTTT
** *
808486 CCTTTGTCCTCAAAGAGCAGGACGCACCTT-ATTTCCTTATTTTCCCTTTGTCCTCAAAGAGCAT
1 TTTTTGTCCTCAAAGAGCAGGACGCACCTTCATTTCCTT-TTTTCCCTTTGTCCTCAAAGAGCAG
808550 GACGTACTTTATTTCTTTT-TTTTTCT
65 GAC--ACTTT-TTT-TTTTCTTTTT-T
* * * *
808576 TTTTTGTCCTCAAAGAGCAGGACGCACTTTCTTTTCCTTTTTTTCCTTTGTCCTC-AAGCAGTAG
1 TTTTTGTCCTCAAAGAGCAGGACGCACCTTCATTTCCTTTTTTCCCTTTGTCCTCAAAG-AGCAG
* ** * *
808640 GACACATTTCATTCTCCTTTTT
65 GACACTTTTTTTTTTCTTTTTT
** * * * * *
808662 CCTTTATCCTCAAAAAACAGGA--CACATGTCATTTCCTTATTTTCCCTTTGTTCC-CAAAGAGT
1 TTTTTGTCCTCAAAGAGCAGGACGCACCT-TCATTTCCTT-TTTTCCCTTTG-TCCTCAAAGAGC
808724 AGGACA
63 AGGACA
808730 TTTCCCTTTC
Statistics
Matches: 202, Mismatches: 29, Indels: 27
0.78 0.11 0.10
Matches are distributed among these distances:
84 4 0.02
85 9 0.04
86 60 0.30
87 46 0.23
88 12 0.06
89 11 0.05
90 53 0.26
91 7 0.03
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.43
Consensus pattern (86 bp):
TTTTTGTCCTCAAAGAGCAGGACGCACCTTCATTTCCTTTTTTCCCTTTGTCCTCAAAGAGCAGG
ACACTTTTTTTTTTCTTTTTT
Found at i:808699 original size:176 final size:177
Alignment explanation
Indices: 808399--808722 Score: 440
Period size: 176 Copynumber: 1.8 Consensus size: 177
808389 TGGTGTCACC
* *
808399 TTTTAGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCTCTTTTTTCCTCAAAGAGTAG
1 TTTTAGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCTCCTTTGTCCTCAAAGAGTAG
* ** * * * * * * *
808464 GACACTTTTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACGCACCTTATTTCCTTATTTT
66 GACACATTTCATTCTCCTTTTTCCTTTATCCTCAAAAAACAGGACACACCTCATTTCCTTATTTT
808529 CCCTTTG-TCCTCAAAGAGCATGACGTACTTTATTTCTTTTTTTTTCT
131 CCCTTTGTTCC-CAAAGAGCATGACGTACTTTATTTCTTTTTTTTTCT
* * *
808576 TTTTTGTCCTCAAAGAGCAGGACGCACTTTCTTTTCCTT-TTTT-TCCTTTGTCCTC-AAGCAGT
1 TTTTAGTCCTCAAAGAGCAGGACACAC-TTCATTTCCTTCTTTTCTCCTTTGTCCTCAAAG-AGT
**
808638 AGGACACATTTCATTCTCCTTTTTCCTTTATCCTCAAAAAACAGGACACATGTCATTTCCTTATT
64 AGGACACATTTCATTCTCCTTTTTCCTTTATCCTCAAAAAACAGGACACACCTCATTTCCTTATT
808703 TTCCCTTTGTTCCCAAAGAG
129 TTCCCTTTGTTCCCAAAGAG
808723 TAGGACATTT
Statistics
Matches: 127, Mismatches: 17, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
175 3 0.02
176 82 0.65
177 32 0.25
178 10 0.08
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.43
Consensus pattern (177 bp):
TTTTAGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCTCCTTTGTCCTCAAAGAGTAG
GACACATTTCATTCTCCTTTTTCCTTTATCCTCAAAAAACAGGACACACCTCATTTCCTTATTTT
CCCTTTGTTCCCAAAGAGCATGACGTACTTTATTTCTTTTTTTTTCT
Found at i:811948 original size:51 final size:51
Alignment explanation
Indices: 811872--811988 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
811862 TTATTTCTGA
* * * * * *
811872 GGGGATACTTCAAACCTGATTTTATTTTTAAAATATCAATTTTTTACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATC
* * ** *
811923 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACATCGATTTTTCGTAATT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATC
811974 GGGGATACTCCAACC
1 GGGGATACTCCAACC
811989 TTGTTATTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACATCAATTTTTCACAATC
Found at i:812009 original size:79 final size:78
Alignment explanation
Indices: 811926--812221 Score: 343
Period size: 79 Copynumber: 3.8 Consensus size: 78
811916 TACAATCGGG
* * * *
811926 GATACTCCAACCCCGGTTTTATTT-TCAAAACATCGATTTTTCGTAATTGGGGATACTCCAACCT
1 GATACTCCAACCCCAGTTTTATTTCT-AAAACATCGATTTTCCATAATTGGGGATACTCCAACCC
811990 TGTTATTTTCGAAAA
65 TGTTATTTTC-AAAA
* * *
812005 GATACTCTAACCTCAGTTTTATTTCTAAAACATCGATTTTCCATAATTGGGGATACTTCAACCCT
1 GATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTCCATAATTGGGGATACTCCAACCCT
* **
812070 ATTATTTCTCAGGA
66 GTTATTT-TCAAAA
* * * * *
812084 GATACTCCAACCCCAATTTTATTTCTAAAATATCGATTTTCCATAATCGAGGATACTCCAACCCC
1 GATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTCCATAATTGGGGATACTCCAACCCT
*
812149 GTTATTTTCAAAGG
66 GTTATTTTCAAA-A
* * *
812163 GATACTCCAACCCC-G----ATTTCTAAAACATTGATTTTCCACAATCGGGGATACTCCAACCC
1 GATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTCCATAATTGGGGATACTCCAACCC
812222 CGATTTTATT
Statistics
Matches: 187, Mismatches: 27, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
74 40 0.21
78 3 0.02
79 141 0.75
80 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCCCAGTTTTATTTCTAAAACATCGATTTTCCATAATTGGGGATACTCCAACCCT
GTTATTTTCAAAA
Found at i:812254 original size:51 final size:51
Alignment explanation
Indices: 812178--812274 Score: 158
Period size: 51 Copynumber: 1.9 Consensus size: 51
812168 TCCAACCCCG
*
812178 ATTTCTAAAACATTGATTTTCCACAATCGGGGATACTCCAACCCCGATTTT
1 ATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCGATTTT
* * *
812229 ATTTCTAAAATATTAATTTTTCACAATTGGGGATACTCCAACCCCG
1 ATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCG
812275 TTACTTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (51 bp):
ATTTCTAAAACATTAATTTTCCACAATCGGGGATACTCCAACCCCGATTTT
Found at i:812342 original size:79 final size:79
Alignment explanation
Indices: 812206--812394 Score: 206
Period size: 79 Copynumber: 2.4 Consensus size: 79
812196 TTCCACAATC
* * **
812206 GGGGATACTCCAACCCCGATTTTATTTCTAAAATATTAATTTTTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTCCACAATCAGGGATACTCCAAC
*
812271 CCCGTTACTTTT-GA
66 CCCATTA-TTTTCGA
** * **
812285 GGGGATACTTTAACCCC-AGTTTTACTTTC-AAAATACTAATTTTCCACAATCATGGATACTCTG
1 GGGGATACTCCAACCCCGA-TTTTA-TTTCTAAAATACTAATTTTCCACAATCAGGGATACTCCA
812348 ACCCCATTATTTTCGA
64 ACCCCATTATTTTCGA
*
812364 GGGGATACTCC-ACCTCTGATTTTATCTTCTA
1 GGGGATACTCCAACC-CCGATTTTAT-TTCTA
812395 TCGCAACGTA
Statistics
Matches: 90, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
78 9 0.10
79 75 0.83
80 6 0.07
ACGTcount: A:0.27, C:0.24, G:0.13, T:0.36
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACTAATTTTCCACAATCAGGGATACTCCAAC
CCCATTATTTTCGA
Found at i:816575 original size:13 final size:13
Alignment explanation
Indices: 816559--816621 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
816549 AATCCCCCTA
816559 TATCGATACAATG
1 TATCGATACAATG
* *
816572 TATCGATATAATA
1 TATCGATACAATG
* *
816585 TATCGATATAGTG
1 TATCGATACAATG
* *
816598 TATTGAAACAATG
1 TATCGATACAATG
816611 TATCGATACAA
1 TATCGATACAA
816622 AGAATGATGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:818804 original size:13 final size:13
Alignment explanation
Indices: 818786--818811 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
818776 CAATTTTTTG
818786 TGTATCGATACAT
1 TGTATCGATACAT
818799 TGTATCGATACAT
1 TGTATCGATACAT
818812 ACTTGGTGTA
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:818826 original size:32 final size:33
Alignment explanation
Indices: 818766--818830 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
818756 TACAAGCCAA
** *
818766 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
818799 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
818831 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:821392 original size:13 final size:13
Alignment explanation
Indices: 821374--821399 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
821364 ATAATCACCC
821374 TGTATCGATACAA
1 TGTATCGATACAA
821387 TGTATCGATACAA
1 TGTATCGATACAA
821400 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:826195 original size:52 final size:52
Alignment explanation
Indices: 826125--826245 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
826115 GAAAATTTAT
*
826125 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
826177 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
826229 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
826246 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:826258 original size:52 final size:52
Alignment explanation
Indices: 826125--826265 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
826115 GAAAATTTAT
*
826125 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
826177 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
826229 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
826266 ATGTATCAAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:826360 original size:13 final size:13
Alignment explanation
Indices: 826342--826366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
826332 CAAAAAAATA
826342 TGTATCGATACAT
1 TGTATCGATACAT
826355 TGTATCGATACA
1 TGTATCGATACA
826367 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:826362 original size:33 final size:33
Alignment explanation
Indices: 826320--826386 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
826310 AGTAGCTTAA
826320 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
826353 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
826386 A
1 A
826387 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:828442 original size:13 final size:13
Alignment explanation
Indices: 828424--828449 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
828414 CAATTTTTTG
828424 TGTATCGATACAT
1 TGTATCGATACAT
828437 TGTATCGATACAT
1 TGTATCGATACAT
828450 ACTTGGTGTA
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:828464 original size:32 final size:33
Alignment explanation
Indices: 828404--828468 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
828394 TACAAGCCAA
** *
828404 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
828437 TGTATCGATAC-ATACTTGGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
828469 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:836418 original size:20 final size:20
Alignment explanation
Indices: 836393--836464 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
836383 AAAAAGACAT
836393 AATGTATCGATAAATTGAAA
1 AATGTATCGATAAATTGAAA
* * * *
836413 AATGTATCCATACATTCATA
1 AATGTATCGATAAATTGAAA
* * *
836433 CATATATCGATATATTGAAA
1 AATGTATCGATAAATTGAAA
836453 AATGTATCGATA
1 AATGTATCGATA
836465 CATCTAGGTA
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATAAATTGAAA
Found at i:837222 original size:45 final size:45
Alignment explanation
Indices: 837100--837222 Score: 140
Period size: 48 Copynumber: 2.7 Consensus size: 45
837090 AGATAAGAGG
**
837100 AGTGCCAATGTGCCAATTCAAGGCCAGCGACATTGGGCTAAGGGAA
1 AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAA-GGAA
* *
837146 AGTGGACCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTAA-TAA
1 AGT-G-CCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGAA
* * *
837192 AGGTGCCAATATGCTGATTCAATGCTAGCGA
1 A-GTGCCAATGTGCTGATTCAAGGCCAGCGA
837223 TGTCAGATAG
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
45 22 0.33
46 7 0.11
47 3 0.05
48 34 0.52
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (45 bp):
AGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTAAGGAA
Found at i:837410 original size:28 final size:28
Alignment explanation
Indices: 837370--837872 Score: 810
Period size: 28 Copynumber: 17.9 Consensus size: 28
837360 CTTGAAAAAA
* *
837370 GTGCCACTAACTTGTGGGCTTTGAAATG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837398 GTGCCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837426 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837454 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837482 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837510 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837538 GTGCCACTGACTTGTGGGCTTTGAAAGAA
1 GTGCCACTGACTTGTGGGCTTTGAAAG-G
*
837567 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
837595 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837623 GTGCCACTGACTTGTGGGCTTTGAAAGT
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837651 GTGCCACTGACTTGTAGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
837679 GTGCCACTGACTTGTGGGCTTTGAAA-G
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
837706 ATGCCACTGACTTGTGGGTTTTGAAAAGA
1 GTGCCACTGACTTGTGGGCTTTG-AAAGG
837735 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
837763 GTGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
837791 GTGCCACTAACTTGTGGGCTTTAAAAAGA
1 GTGCCACTGACTTGTGGGCTTT-GAAAGG
837820 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
837848 GTGCCACTGACTTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
837873 GAGATGAACA
Statistics
Matches: 446, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.05
28 352 0.79
29 72 0.16
ACGTcount: A:0.21, C:0.18, G:0.32, T:0.29
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:837687 original size:197 final size:196
Alignment explanation
Indices: 837352--837872 Score: 859
Period size: 197 Copynumber: 2.6 Consensus size: 196
837342 TACTACTAGT
* *
837352 TTGTGGG-TCTTGAAAAAAGTGCCACTAACTTGTGGGCTTTGAAATGGTGCCACTGACTTGTGGG
1 TTGTGGGCT-TTGAAAGAAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGG
* *
837416 CTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
65 CTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTGACTTGTGGGCTTTGAAAG
*
837481 GATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCAC
129 GATGCCACTGACTTGTGGGCTTTGAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCAC
837545 TGAC
193 TGAC
837549 TTGTGGGCTTTGAAAGAAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
1 TTGTGGGCTTTGAAAGAAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
*
837614 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGTGTGCCACTGACTTGTAGGCTTTGAAAGG
66 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAG-GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
837679 GTGCCACTGACTTGTGGGCTTTGAAAGATGCCACTGACTTGTGGGTTTTGAAAAGAGTGCCACTG
130 ATGCCACTGACTTGTGGGCTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTG
837744 AC
195 AC
* *
837746 TTGTGGGCTTTGAAAG-GGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGC
1 TTGTGGGCTTTGAAAGAAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
* *
837810 TTTAAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAA
66 TTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGTGCCACTGACTTGTGGGCTTTGAA
837873 GAGATGAACA
Statistics
Matches: 306, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
196 72 0.24
197 231 0.75
198 3 0.01
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (196 bp):
TTGTGGGCTTTGAAAGAAGTGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGA
TGCCACTGACTTGTGGGCTTTGAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA
C
Found at i:839100 original size:8 final size:8
Alignment explanation
Indices: 839087--839170 Score: 66
Period size: 8 Copynumber: 10.5 Consensus size: 8
839077 TCTGGACCCC
839087 TTTTTGTT
1 TTTTTGTT
839095 TTTTTGTT
1 TTTTTGTT
*
839103 ATTTT-TT
1 TTTTTGTT
* *
839110 TCTTGGTT
1 TTTTTGTT
839118 TTTTTGTT
1 TTTTTGTT
*
839126 TTTTTATTT
1 TTTTT-GTT
839135 TTTTTGGTT
1 TTTTT-GTT
839144 TTTTT-TT
1 TTTTTGTT
*
839151 CTATTT-TT
1 -TTTTTGTT
*
839159 TGTTTGTT
1 TTTTTGTT
839167 TTTT
1 TTTT
839171 GGGTATGAAG
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
7 10 0.17
8 36 0.60
9 14 0.23
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.83
Consensus pattern (8 bp):
TTTTTGTT
Found at i:839109 original size:11 final size:10
Alignment explanation
Indices: 839087--839171 Score: 61
Period size: 10 Copynumber: 8.6 Consensus size: 10
839077 TCTGGACCCC
839087 TTTTTGTTTT
1 TTTTTGTTTT
*
839097 TTTGTTATTTT
1 TTT-TTGTTTT
*
839108 TTTCTTG-GTT
1 TTT-TTGTTTT
839118 TTTTTG--TT
1 TTTTTGTTTT
*
839126 TTTTTATTTT
1 TTTTTGTTTT
*
839136 TTTTGGTTTT
1 TTTTTGTTTT
* *
839146 TTTTT-CTAT
1 TTTTTGTTTT
839155 TTTTTGTTTGT
1 TTTTTGTTT-T
839166 TTTTTG
1 TTTTTG
839172 GGTATGAAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 9
0.73 0.15 0.11
Matches are distributed among these distances:
8 7 0.12
9 10 0.17
10 23 0.40
11 18 0.31
ACGTcount: A:0.04, C:0.02, G:0.12, T:0.82
Consensus pattern (10 bp):
TTTTTGTTTT
Found at i:839148 original size:40 final size:41
Alignment explanation
Indices: 839093--839170 Score: 108
Period size: 40 Copynumber: 1.9 Consensus size: 41
839083 CCCCTTTTTG
839093 TTTTTTTGTTATTTTTTTCT-TGGTTTT-TTTGTTTTTTTAT
1 TTTTTTTGTTATTTTTTTCTAT-GTTTTGTTTGTTTTTTTAT
*
839133 TTTTTTTGGTT-TTTTTTTCTATTTTTTGTTTGTTTTTT
1 TTTTTTT-GTTATTTTTTTCTATGTTTTGTTTGTTTTTT
839171 GGGTATGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
40 20 0.59
41 14 0.41
ACGTcount: A:0.04, C:0.03, G:0.10, T:0.83
Consensus pattern (41 bp):
TTTTTTTGTTATTTTTTTCTATGTTTTGTTTGTTTTTTTAT
Found at i:839149 original size:22 final size:23
Alignment explanation
Indices: 839124--839170 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
839114 GGTTTTTTTG
839124 TTTTTT-TATTTTTT-TTGGTTT
1 TTTTTTCTATTTTTTGTTGGTTT
*
839145 TTTTTTCTATTTTTTGTTTGTTT
1 TTTTTTCTATTTTTTGTTGGTTT
839168 TTT
1 TTT
839171 GGGTATGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.26
22 8 0.35
23 9 0.39
ACGTcount: A:0.04, C:0.02, G:0.09, T:0.85
Consensus pattern (23 bp):
TTTTTTCTATTTTTTGTTGGTTT
Found at i:854675 original size:27 final size:27
Alignment explanation
Indices: 854640--854704 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
854630 CTACTTGAAC
** *
854640 AATTTGAATTTTAAAATTGTTATC-CA
1 AATTTGAATTTTAAAATCATTATCTAA
854666 AATCTTGAA-TTTAAAATCATTATCTAA
1 AAT-TTGAATTTTAAAATCATTATCTAA
854693 AATTTGAATTTT
1 AATTTGAATTTT
854705 TTATCCAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
26 21 0.64
27 12 0.36
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (27 bp):
AATTTGAATTTTAAAATCATTATCTAA
Found at i:857677 original size:21 final size:21
Alignment explanation
Indices: 857636--857678 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
857626 TTTTTATACT
* *
857636 TTAAATAATATTTTTAAAATA
1 TTAAATAATATGTGTAAAATA
857657 TTAAA-AATATGTGTAATAATA
1 TTAAATAATATGTGTAA-AATA
857678 T
1 T
857679 ATACACATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (21 bp):
TTAAATAATATGTGTAAAATA
Found at i:857732 original size:85 final size:85
Alignment explanation
Indices: 857603--857774 Score: 283
Period size: 85 Copynumber: 2.0 Consensus size: 85
857593 TTCAAAAAGT
* *
857603 TTAAAATTGTTAATATTCAATTATTTTTATACTTTAAATAATATTTTTAAAATATTAAAAATATG
1 TTAAAATTATTAATATTCAATTAGTTTTATACTTTAAATAATATTTTTAAAATATTAAAAATATG
857668 TGTAATAAT-ATATACACATA
66 TGT-ATAATAATATACACATA
* *
857688 TTAAAATTATTAATATTCAATTAGTTTTATATTTTAAATAATATTTTTAAAATATTTAAAATATG
1 TTAAAATTATTAATATTCAATTAGTTTTATACTTTAAATAATATTTTTAAAATATTAAAAATATG
*
857753 TGTATATTAATATACACATA
66 TGTATAATAATATACACATA
857773 TT
1 TT
857775 TTTAATATTT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
84 4 0.05
85 77 0.95
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (85 bp):
TTAAAATTATTAATATTCAATTAGTTTTATACTTTAAATAATATTTTTAAAATATTAAAAATATG
TGTATAATAATATACACATA
Found at i:857815 original size:85 final size:83
Alignment explanation
Indices: 857640--857817 Score: 184
Period size: 85 Copynumber: 2.1 Consensus size: 83
857630 TATACTTTAA
*
857640 ATAATATTTTTAAAATATTAAAAATATGTGTAATAATATATACACATATTAAAATTATTAATATT
1 ATAATATTTTTAAAATATTAAAAATATGTGTAATAATATATACACATATTAAAATTATTAATATC
** *
857705 CAATTAGTTTTATATTTT
66 CAATTAGTTAAACATTTT
* * *
857723 AAATAATATTTTTAAAATATTTAAAATATGTGT-ATATTAATATACACATATTTTTAATATT-TT
1 --ATAATATTTTTAAAATATTAAAAATATGTGTAATAAT-ATATACACATA---TTAAAATTATT
*
857786 AAATAATCCTATTA-TTAAACATTTT
60 -AAT-ATCCAATTAGTTAAACATTTT
857811 -TAATATT
1 ATAATATT
857818 ATAATTGTAA
Statistics
Matches: 79, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
84 4 0.05
85 48 0.61
87 2 0.03
88 18 0.23
89 7 0.09
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (83 bp):
ATAATATTTTTAAAATATTAAAAATATGTGTAATAATATATACACATATTAAAATTATTAATATC
CAATTAGTTAAACATTTT
Found at i:858669 original size:21 final size:21
Alignment explanation
Indices: 858645--858757 Score: 135
Period size: 21 Copynumber: 5.6 Consensus size: 21
858635 TTTCATAATT
*
858645 TGTATCGATACAAACAATAAA
1 TGTATCGATACAAACAGTAAA
* **
858666 TGTATCGATACATA-AGT-GT
1 TGTATCGATACAAACAGTAAA
858685 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
* **
858706 TGTATCGATACATA-AGT-GT
1 TGTATCGATACAAACAGTAAA
858725 TGTATCGATACAAACAGTAAA
1 TGTATCGATACAAACAGTAAA
858746 TGTATCGATACA
1 TGTATCGATACA
858758 TAAGTGTTGT
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
19 26 0.35
20 11 0.15
21 38 0.51
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (21 bp):
TGTATCGATACAAACAGTAAA
Found at i:858690 original size:19 final size:19
Alignment explanation
Indices: 858666--858776 Score: 132
Period size: 19 Copynumber: 5.6 Consensus size: 19
858656 AAACAATAAA
858666 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
* **
858685 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATA-AGT-GT
858706 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
* **
858725 TGTATCGATACAAACAGTAAA
1 TGTATCGATACATA-AGT-GT
858746 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
858765 TGTATCGATACA
1 TGTATCGATACA
858777 ATATATCGAT
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
19 38 0.50
20 12 0.16
21 26 0.34
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:858691 original size:40 final size:40
Alignment explanation
Indices: 858644--858777 Score: 259
Period size: 40 Copynumber: 3.4 Consensus size: 40
858634 TTTTCATAAT
*
858644 TTGTATCGATACAAACAATAAATGTATCGATACATAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
858684 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
858724 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
1 TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
858764 TTGTATCGATACAA
1 TTGTATCGATACAA
858778 TATATCGATA
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 93 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.31
Consensus pattern (40 bp):
TTGTATCGATACAAACAGTAAATGTATCGATACATAAGTG
Found at i:863456 original size:20 final size:20
Alignment explanation
Indices: 863431--863482 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
863421 CTAAAGGACA
863431 TACATCAACATGAACATTCC
1 TACATCAACATGAACATTCC
*
863451 TACATCAACATGAACGTTCC
1 TACATCAACATGAACATTCC
* *
863471 CACATCGACATG
1 TACATCAACATG
863483 CACGTGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.37, C:0.31, G:0.10, T:0.23
Consensus pattern (20 bp):
TACATCAACATGAACATTCC
Found at i:870895 original size:153 final size:153
Alignment explanation
Indices: 870738--871334 Score: 529
Period size: 153 Copynumber: 3.9 Consensus size: 153
870728 CGAAGTTCTT
* *
870738 CTACTCCATAAA-TTTTTCAATAGGATTTTTCTAAGTTTATGATTTTTAAAATTCTTCAAATATT
1 CTACTCCATAAATTTTTTCAATAGGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATT
* * *
870802 ATTGCTTAATTCACATTAAAAT-AGTTTTGAAGAATTCAATTTATTTTATGAGTTTTAGAATTTT
66 ATTGCTTAATTCATATT-AAATCAGTTTTAAAAAATTCAATTTATTTTATGAGTTTTAGAA-TTT
870866 TTCTATTACAAAAATACAAAGTTTA
129 TTCTATTACAAAAATACAAAGTTTA
** *
870891 CTACTCTGTAAATTTTTTCGAT-GAGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATAT
1 CTACTCCATAAATTTTTTCAATAG-GATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATAT
* * * * *
870955 CATTG-TTTATTTATATTAAATCAGTTTTAAAAAATCCAATTCATTTTATGAGTTTTAGAATTTT
65 TATTGCTTAATTCATATTAAATCAGTTTTAAAAAATTCAATTTATTTTATGAGTTTTAGAATTTT
* * * *
871019 TCTGTTACTAAAATACGAAGTTTT
130 TCTATTACAAAAATACAAAGTTTA
* * ** * **
871043 TTACTCCGTAAATTTTTTTCAGA-AGGATTTTTCTAAACTTATAATTTACAAAATTCTTTGAATA
1 CTACTCCATAAA-TTTTTTCA-ATAGGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATA
* * * * * * *
871107 TTGTTGTTTAATTCATAGTAAATCAATTTTAAAAAATTTAATTTATTTTATGAG-TTTATAACTT
64 TTATTGCTTAATTCATATTAAATCAGTTTTAAAAAATTCAATTTATTTTATGAGTTTTAGAATTT
* * * *
871171 TTCAAGTTTTC-AAGATACAGAGTTTTA
129 TTCTA--TTACAAAAATACAAAG-TTTA
* ** * * * * *
871198 -TACTCTATAAA-TTTTTCTGTGGGATTTTTCCAAGTTTTTAATTTTTAAAGTTCATT-AAATAT
1 CTACTCCATAAATTTTTTCAATAGGATTTTTCTAAGTTTATAATTTTCAAAATTC-TTCAAATAT
* * * * * *
871260 T-TT-CATTAGATCCATATTAAATTTA-TTTTTAGAGATTCACTTTATTTTATGAGTTTT-GCAA
65 TATTGC-TTA-ATTCATATTAAA-TCAGTTTTAAAAAATTCAATTTATTTTATGAGTTTTAG-AA
*
871321 TTTTTCTATAACAA
126 TTTTTCTATTACAA
871335 TTTTTCTTGA
Statistics
Matches: 356, Mismatches: 70, Indels: 37
0.77 0.15 0.08
Matches are distributed among these distances:
151 7 0.02
152 109 0.31
153 125 0.35
154 109 0.31
155 6 0.02
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.48
Consensus pattern (153 bp):
CTACTCCATAAATTTTTTCAATAGGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAATATT
ATTGCTTAATTCATATTAAATCAGTTTTAAAAAATTCAATTTATTTTATGAGTTTTAGAATTTTT
CTATTACAAAAATACAAAGTTTA
Found at i:872594 original size:155 final size:158
Alignment explanation
Indices: 872340--872755 Score: 574
Period size: 155 Copynumber: 2.7 Consensus size: 158
872330 TTTTAAATAT
* *
872340 AAAAATTTTGTTCCAAAGCCAAAA-ATACTTAGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
1 AAAAATTTTGTTCCAAGGCCAAAAGATACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
* *
872404 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTA-AGGTAAGGACTAACTTGCA
66 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTATAGGCAAAGACTAACTTGCA
* **
872468 AAATTACAAAGTTCAG-GGGTTTTATTC
131 AAAATACAAAGTTCAGAGGGTTCAATTC
* * *
872495 GAAAATCTTGTTCTAAGGCCAAAAGA-ACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
1 AAAAATTTTGTTCCAAGGCCAAAAGATACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
* * *
872559 TGTATGCTGATTTTCATTTCTTGGATGTTTAATTTTGTGTTTTTATTAGGCAAAGATTAATTTGC
66 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTA-TAGGCAAAGACTAACTTGC
* *
872624 AAAAATAGAAAGTTTAGAGGGTTCAATTC
130 AAAAATACAAAGTTCAGAGGGTTCAATTC
* * *
872653 AAAAATTTTATTCCAAGGCC-AAAGATGA-TTGGCTGAATCTTCCTTGTAACTTTTGGTTGTGTT
1 AAAAATTTTGTTCCAAGGCCAAAAGAT-ACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTT
* * * *
872716 TTATATGATGATTTTGATTTCTTTGATGCTTAATTTTGTG
65 TTGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTG
872756 CTTTAATTAT
Statistics
Matches: 229, Mismatches: 26, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
155 101 0.44
156 1 0.00
157 33 0.14
158 93 0.41
159 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.19, T:0.44
Consensus pattern (158 bp):
AAAAATTTTGTTCCAAGGCCAAAAGATACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTATAGGCAAAGACTAACTTGCA
AAAATACAAAGTTCAGAGGGTTCAATTC
Found at i:872728 original size:158 final size:157
Alignment explanation
Indices: 872340--872764 Score: 563
Period size: 158 Copynumber: 2.7 Consensus size: 157
872330 TTTTAAATAT
* *
872340 AAAAATTTTGTTCCAAAGCCAAAAAT-ACTTAGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
1 AAAAATTTTGTTCCAAGGCC-AAAATGACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
* *
872404 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTA--AGGTAAGGACTAACTTGC
65 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTATTAGGCAAAGACTAACTTGC
* **
872467 AAAATTACAAAGTTCAGGGGTTTTATTC
130 AAAAATACAAAGTTCAGGGGTTCAATTC
* * *
872495 GAAAATCTTGTTCTAAGGCCAAAA-GAACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
1 AAAAATTTTGTTCCAAGGCCAAAATG-ACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
* * *
872559 TGTATGCTGATTTTCATTTCTTGGATGTTTAATTTTGTGTTTTTATTAGGCAAAGATTAATTTGC
65 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTATTAGGCAAAGACTAACTTGC
* *
872624 AAAAATAGAAAGTTTAGAGGGTTCAATTC
130 AAAAATACAAAGTTCAG-GGGTTCAATTC
* * *
872653 AAAAATTTTATTCCAAGGCCAAAGATGA-TTGGCTGAATCTTCCTTGTAACTTTTGGTTGTGTTT
1 AAAAATTTTGTTCCAAGGCCAAA-ATGACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTT
* * * * * *
872717 TATATGATGATTTTGATTTCTTTGATGCTTAATTTTGTGCTTTAATTA
65 TGTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTATTA
872765 TGTAAGGACC
Statistics
Matches: 235, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
154 4 0.02
155 97 0.41
157 28 0.12
158 103 0.44
159 2 0.01
160 1 0.00
ACGTcount: A:0.27, C:0.11, G:0.18, T:0.44
Consensus pattern (157 bp):
AAAAATTTTGTTCCAAGGCCAAAATGACTTGGTTGAATCTTCCTTGTAACTTTTGGATGTGTTTT
GTATGCTGATTTTGATTTCTTGGATGTTTAATTTTGTGTTTTTATTAGGCAAAGACTAACTTGCA
AAAATACAAAGTTCAGGGGTTCAATTC
Found at i:873862 original size:153 final size:153
Alignment explanation
Indices: 873511--873865 Score: 398
Period size: 153 Copynumber: 2.3 Consensus size: 153
873501 TCGTGTCTTT
* * * * *
873511 CGAGTACTTTCACATCGAAGGTATACCT-AAGGGCATTTTCGT-ATTTTCTTGGAATCGAGTCTT
1 CGAGTACTTTCACATCGAAGGTATACCTCAAGAGAATTTTCGTAATTTTCTTGAAATCAAGTCCT
* * * *
873574 AGGTTGTCACCAAGATGCTTTTATGCTGAAGGTGTGCATTTAGGATAGCTTTATCCTATTTATGA
66 AGGTTATCACCAAGATGC-TTTATGCTGAAGGTGTACATTTAGCATAGC-TTATCCCATTTATGA
* *
873639 TCATTTTAGTGTCCATTAAGGTTAC
129 TCATTTTAGTGTCAATTAAGGTTAA
** * * *
873664 CGAGTACTTTCATGTCAAAGGTATACCCCAA-AGGTATTTTCGTAATTTTCTTGAAATCAAGTCC
1 CGAGTACTTTCACATCGAAGGTATACCTCAAGA-GAATTTTCGTAATTTTCTTGAAATCAAGTCC
* * * *
873728 TAGGTTATTACCATGATG-TTTATGCTGAAGGTGTATATTTAGCATAAG-TTCTCCCATTTATGA
65 TAGGTTATCACCAAGATGCTTTATGCTGAAGGTGTACATTTAGCAT-AGCTTATCCCATTTATGA
*
873791 TCATTTTAGTGTCAATTAGGGTTATTA
129 TCATTTTAGTGTCAATTAAGGTTA--A
* * *
873818 GGA-TACTTTCACATCGAAGGTATACCTCAAGAGAAATTTAGTAATTTT
1 CGAGTACTTTCACATCGAAGGTATACCTCAAGAGAATTTTCGTAATTTT
873866 GCATTAGAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
152 35 0.21
153 84 0.50
154 16 0.10
155 32 0.19
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.38
Consensus pattern (153 bp):
CGAGTACTTTCACATCGAAGGTATACCTCAAGAGAATTTTCGTAATTTTCTTGAAATCAAGTCCT
AGGTTATCACCAAGATGCTTTATGCTGAAGGTGTACATTTAGCATAGCTTATCCCATTTATGATC
ATTTTAGTGTCAATTAAGGTTAA
Found at i:874011 original size:21 final size:21
Alignment explanation
Indices: 873972--874011 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
873962 AGGGTATTTT
* **
873972 ATTAATATTTTTATTAATAGA
1 ATTAAAATTTTTAGAAATAGA
873993 ATTAAAATTTTTAGAAATA
1 ATTAAAATTTTTAGAAATA
874012 TTAAGGTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (21 bp):
ATTAAAATTTTTAGAAATAGA
Found at i:876281 original size:33 final size:33
Alignment explanation
Indices: 876238--876304 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 33
876228 GCCAAGGAAA
876238 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
* **
876271 TGTATTGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
876304 T
1 T
876305 TGGGAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:890095 original size:4 final size:4
Alignment explanation
Indices: 890086--890135 Score: 52
Period size: 4 Copynumber: 12.8 Consensus size: 4
890076 CCGCAAATAA
*
890086 AAAC AAAC AAAC ACA- AAAC AAAAC AAAAC AAA- AAA- AAAC AAAC AAAC
1 AAAC AAAC AAAC AAAC AAAC -AAAC -AAAC AAAC AAAC AAAC AAAC AAAC
890133 AAA
1 AAA
890136 AAAAACAACA
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
3 8 0.20
4 24 0.59
5 9 0.22
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (4 bp):
AAAC
Found at i:890102 original size:20 final size:18
Alignment explanation
Indices: 890079--890140 Score: 76
Period size: 18 Copynumber: 3.5 Consensus size: 18
890069 GCGTCCTCCG
*
890079 CAAATAAAAACAAACAAA
1 CAAAAAAAAACAAACAAA
890097 CACAAAACAAAAC--A-AAA
1 CA-AAAA-AAAACAAACAAA
890114 CAAAAAAAAACAAACAAA
1 CAAAAAAAAACAAACAAA
890132 CAAAAAAAA
1 CAAAAAAAA
890141 CAACAAAAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
15 5 0.13
16 4 0.11
17 6 0.16
18 15 0.39
19 3 0.08
20 5 0.13
ACGTcount: A:0.81, C:0.18, G:0.00, T:0.02
Consensus pattern (18 bp):
CAAAAAAAAACAAACAAA
Found at i:890105 original size:15 final size:15
Alignment explanation
Indices: 890084--890143 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 15
890074 CTCCGCAAAT
890084 AAAAACAAACAAACAC
1 AAAAA-AAACAAACAC
890100 AAAACAAAACAAA-AC
1 AAAA-AAAACAAACAC
890115 AAAAAAAAACAAACAAAC
1 -AAAAAAAACAAAC--AC
890133 AAAAAAAACAA
1 AAAAAAAACAA
890144 CAAAAAGGGT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
15 10 0.26
16 15 0.38
17 12 0.31
18 2 0.05
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAACAAACAC
Found at i:890130 original size:35 final size:35
Alignment explanation
Indices: 890079--890148 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
890069 GCGTCCTCCG
* *
890079 CAAATAAAAACAAACAAACACAAAACAA-AACAAAA
1 CAAAAAAAAACAAACAAACA-AAAAAAACAACAAAA
890114 CAAAAAAAAACAAACAAACAAAAAAAACAACAAAA
1 CAAAAAAAAACAAACAAACAAAAAAAACAACAAAA
890149 AGGGTCTAGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
34 6 0.19
35 26 0.81
ACGTcount: A:0.80, C:0.19, G:0.00, T:0.01
Consensus pattern (35 bp):
CAAAAAAAAACAAACAAACAAAAAAAACAACAAAA
Found at i:890145 original size:20 final size:20
Alignment explanation
Indices: 890086--890147 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 20
890076 CCGCAAATAA
890086 AAACAAACAAACACAAAAC-A-
1 AAACAAACAAA-A-AAAACAAC
890106 AAACAAA-ACAAAAAAA-AAC
1 AAACAAACA-AAAAAAACAAC
890125 AAACAAACAAAAAAAACAAC
1 AAACAAACAAAAAAAACAAC
890145 AAA
1 AAA
890148 AAGGGTCTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
18 5 0.14
19 16 0.43
20 16 0.43
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (20 bp):
AAACAAACAAAAAAAACAAC
Found at i:891611 original size:29 final size:30
Alignment explanation
Indices: 891568--891657 Score: 123
Period size: 28 Copynumber: 3.1 Consensus size: 30
891558 TTCCTCACCC
*
891568 TTCAAAAGCCCACAAGTCAGTGGTATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
* *
891598 TTC-AAAGCCCACAAGTCAGTGGCAAC--C
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
*
891625 TTCAAAAGCCCACAAGTCCGTGGCATCTTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCTTT
891655 TTC
1 TTC
891658 CTTTTAAGCC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
27 3 0.06
28 21 0.41
29 21 0.41
30 6 0.12
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (30 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCTTT
Found at i:891716 original size:34 final size:34
Alignment explanation
Indices: 891630--891881 Score: 213
Period size: 34 Copynumber: 7.7 Consensus size: 34
891620 CAACCTTCAA
* * *
891630 AAGCCCACAAGTCCGTGGCA-TCTTTTTCCTTTT
1 AAGCCCACAACTCTGTGGCACCCTTTTTCCTTTT
** **
891663 AAGCCCACAACTCCATGGCACTATTTTTCCTTTT
1 AAGCCCACAACTCTGTGGCACCCTTTTTCCTTTT
*
891697 AAGTCCACAACTCTGTGGCA--C-----CCTTTT
1 AAGCCCACAACTCTGTGGCACCCTTTTTCCTTTT
* *
891724 AAGTCCACAACT-TCGTGGCA-CC-TTTTCTTTTT
1 AAGCCCACAACTCT-GTGGCACCCTTTTTCCTTTT
* ** *
891756 AAGTCCATGACTCTGTGGCACCCTTTTCCCTTTT
1 AAGCCCACAACTCTGTGGCACCCTTTTTCCTTTT
* *
891790 AAGCCCACACCTCTGTGGCATCCCTTTTCCCTTTT
1 AAGCCCACAACTCTGTGGCA-CCCTTTTTCCTTTT
* *
891825 AAGCCCACACCTCTGTGGCATCCCTTTTTCC-TGT
1 AAGCCCACAACTCTGTGGCA-CCCTTTTTCCTTTT
* *
891859 AAGCCCACAAGTCGGTGGCACCC
1 AAGCCCACAACTCTGTGGCACCC
891882 CTTTCAAAAG
Statistics
Matches: 187, Mismatches: 21, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
26 1 0.01
27 24 0.13
28 1 0.01
32 21 0.11
33 24 0.13
34 72 0.39
35 44 0.24
ACGTcount: A:0.19, C:0.34, G:0.14, T:0.33
Consensus pattern (34 bp):
AAGCCCACAACTCTGTGGCACCCTTTTTCCTTTT
Found at i:891721 original size:27 final size:27
Alignment explanation
Indices: 891691--891782 Score: 105
Period size: 27 Copynumber: 3.2 Consensus size: 27
891681 CACTATTTTT
891691 CCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGTCCACAACTCTGTGGCAC
891718 CCTTTTAAGTCCACAACT-TCGTGGCAC
1 CCTTTTAAGTCCACAACTCT-GTGGCAC
**
891745 CTTTTCTTTTTAAGTCCATGACTCTGTGGCAC
1 C----C-TTTTAAGTCCACAACTCTGTGGCAC
891777 CCTTTT
1 CCTTTT
891783 CCCTTTTAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
26 1 0.02
27 30 0.54
28 1 0.02
31 1 0.02
32 22 0.39
33 1 0.02
ACGTcount: A:0.18, C:0.30, G:0.14, T:0.37
Consensus pattern (27 bp):
CCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:891759 original size:59 final size:60
Alignment explanation
Indices: 891657--891782 Score: 173
Period size: 59 Copynumber: 2.1 Consensus size: 60
891647 GCATCTTTTT
*
891657 CCTTTTAAGCCCACAACTCCATGGCACTATTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCAC-ACTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
* * * * **
891718 CCTTTTAAGTCCACAACTTCGTGGCAC-CTTTTCTTTTTAAGTCCATGACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCATGGCACACTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
891777 CCTTTT
1 CCTTTT
891783 CCCTTTTAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
59 34 0.59
61 24 0.41
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.37
Consensus pattern (60 bp):
CCTTTTAAGCCCACAACTCCATGGCACACTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:891815 original size:35 final size:34
Alignment explanation
Indices: 891717--891886 Score: 177
Period size: 35 Copynumber: 5.0 Consensus size: 34
891707 CTCTGTGGCA
*
891717 CCCTTTTAAGTCCACAACT-TCGTGGCA-CCTTTT
1 CCCTTTTAAGCCCACAACTCT-GTGGCACCCTTTT
* * **
891750 -CTTTTTAAGTCCATGACTCTGTGGCACCCTTTT
1 CCCTTTTAAGCCCACAACTCTGTGGCACCCTTTT
*
891783 CCCTTTTAAGCCCACACCTCTGTGGCATCCCTTTT
1 CCCTTTTAAGCCCACAACTCTGTGGCA-CCCTTTT
*
891818 CCCTTTTAAGCCCACACCTCTGTGGCATCCCTTTT
1 CCCTTTTAAGCCCACAACTCTGTGGCA-CCCTTTT
* * * * *
891853 TCC-TGTAAGCCCACAAGTCGGTGGCACCCCTTT
1 CCCTTTTAAGCCCACAACTCTGTGGCACCCTTTT
891886 C
1 C
891887 AAAAGCCCAC
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
32 21 0.18
33 13 0.11
34 40 0.34
35 44 0.37
ACGTcount: A:0.16, C:0.36, G:0.14, T:0.34
Consensus pattern (34 bp):
CCCTTTTAAGCCCACAACTCTGTGGCACCCTTTT
Found at i:891895 original size:30 final size:29
Alignment explanation
Indices: 891859--891966 Score: 121
Period size: 28 Copynumber: 3.7 Consensus size: 29
891849 TTTTTCCTGT
*
891859 AAGCCCACAAGTCGGTGGCACCCCTTTCAA
1 AAGCCCACAAGTTGGTGGCA-CCCTTTCAA
* *
891889 AAGCCCACAAGTTAGTGGCAACC-TTCAA
1 AAGCCCACAAGTTGGTGGCACCCTTTCAA
* *
891917 AAGCACACAAGTTGAT-GCAACCCTTTCAA
1 AAGCCCACAAGTTGGTGGC-ACCCTTTCAA
891946 AAGCCCACACAAGTTGGTGGC
1 AAG-CC-CACAAGTTGGTGGC
891967 GTCTTCTTCT
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
27 2 0.03
28 21 0.33
29 10 0.16
30 19 0.30
31 10 0.16
32 2 0.03
ACGTcount: A:0.32, C:0.31, G:0.19, T:0.18
Consensus pattern (29 bp):
AAGCCCACAAGTTGGTGGCACCCTTTCAA
Found at i:892127 original size:87 final size:88
Alignment explanation
Indices: 891981--892336 Score: 365
Period size: 87 Copynumber: 4.0 Consensus size: 88
891971 TCTTCTAAGT
* * ** * *
891981 CCAATATCGTTGGCCTTGAATCAGCATATTAGCGTCTTTAAC-TTAAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCT
*
892045 TGAATCAGTACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* * *
892068 CCAATATCGCTGGCCGTGAATCAGCATATTGGCACCTT-GTCTTTGAGACCAATGTCACTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCT
**
892132 TGAATCAATACATTGGCACAAGC
66 TGAATCAGCACATTGGCACAAGC
* * * * * * ***
892155 CGAATACCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCGATATTGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCT
* *
892220 TGAATCAGCATATTGGCACCTTTATCTTTATGA
66 TGAATCAGCACATTGGCA-C---A-----A-GC
* * **
892253 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTCATCTTTAAGACCAATGTCGTTGGCCT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCT
892318 TGAATCAGCACATTGGCAC
66 TGAATCAGCACATTGGCAC
892337 CTTCATCTTT
Statistics
Matches: 222, Mismatches: 35, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
86 1 0.00
87 110 0.50
88 33 0.15
89 1 0.00
92 1 0.00
97 2 0.01
98 74 0.33
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (88 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACCAATGTCACTGGCCT
TGAATCAGCACATTGGCACAAGC
Found at i:892235 original size:49 final size:49
Alignment explanation
Indices: 892157--892384 Score: 339
Period size: 49 Copynumber: 4.7 Consensus size: 49
892147 GCACAAGCCG
* *
892157 AATACCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCC
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACC
* * * *
892206 GATATTGTTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTATGACC
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACC
* * *
892255 AATGTCGCTGGCCTTGAATCAGCATATTGGCGCCTTCATCTTTAAGACC
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACC
* * *
892304 AATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCC
1 AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACC
*
892353 AATATCATTGGCCTTGAATCAGCATATTGGCA
1 AATATCGTTGGCCTTGAATCAGCATATTGGCA
892385 TCTTTAACAT
Statistics
Matches: 159, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 159 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (49 bp):
AATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGACC
Found at i:893265 original size:19 final size:19
Alignment explanation
Indices: 893241--893303 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
893231 AAACAATAAA
893241 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
893260 TGTATCCATAC--AA----
1 TGTATCGATACATAAGTGT
*
893273 TGTATCAATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
893292 TGTATTGATACA
1 TGTATCGATACA
893304 ATGTATCGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 20 0.59
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:893278 original size:32 final size:32
Alignment explanation
Indices: 893239--893320 Score: 121
Period size: 32 Copynumber: 2.6 Consensus size: 32
893229 ACAAACAATA
893239 AATGTATCGATACATAAGTGTTGTATCCATAC
1 AATGTATCGATACATAAGTGTTGTATCCATAC
* **
893271 AATGTATCAATACATAAGTGTTGTATTGATAC
1 AATGTATCGATACATAAGTGTTGTATCCATAC
*
893303 AATGTATCGCTACA-AAGT
1 AATGTATCGATACATAAGT
893321 TACTGCCAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 4 0.09
32 41 0.91
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.34
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCCATAC
Found at i:893358 original size:20 final size:20
Alignment explanation
Indices: 893333--893370 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
893323 CTGCCAAGGA
*
893333 AATGTATCGATATATTATTC
1 AATGTATCGATACATTATTC
*
893353 AATGTATTGATACATTAT
1 AATGTATCGATACATTAT
893371 ATCGATACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.08, G:0.11, T:0.45
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:895623 original size:27 final size:27
Alignment explanation
Indices: 895593--895644 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
895583 TTCGGCGGGG
895593 ACACTCCAACCCCATTCCTCCGAGGGA
1 ACACTCCAACCCCATTCCTCCGAGGGA
895620 ACACTCCAACCCCATTCCTCCGAGG
1 ACACTCCAACCCCATTCCTCCGAGG
895645 CCCCATTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.46, G:0.13, T:0.15
Consensus pattern (27 bp):
ACACTCCAACCCCATTCCTCCGAGGGA
Found at i:895650 original size:16 final size:16
Alignment explanation
Indices: 895629--895660 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
895619 AACACTCCAA
895629 CCCCATTCCTCCGAGG
1 CCCCATTCCTCCGAGG
895645 CCCCATTCCTCCGAGG
1 CCCCATTCCTCCGAGG
895661 GGATACTCCA
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:0.12, C:0.50, G:0.19, T:0.19
Consensus pattern (16 bp):
CCCCATTCCTCCGAGG
Found at i:906428 original size:24 final size:23
Alignment explanation
Indices: 906385--906432 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
906375 TCAAGAAAAA
* **
906385 TAACGTACATACATGTAACACTAT
1 TAACATACATACATAAAACA-TAT
906409 TAACATACATACATAAAACATAT
1 TAACATACATACATAAAACATAT
906432 T
1 T
906433 GTAAAATGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.48, C:0.19, G:0.04, T:0.29
Consensus pattern (23 bp):
TAACATACATACATAAAACATAT
Found at i:906538 original size:14 final size:15
Alignment explanation
Indices: 906519--906550 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
906509 ATTTTCCTAG
906519 TTTTTTT-CTTT-TT
1 TTTTTTTCCTTTCTT
906532 TTTTTTTCCTTTCTT
1 TTTTTTTCCTTTCTT
906547 TTTT
1 TTTT
906551 CTCTCCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 4 0.24
15 6 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTTTTTCCTTTCTT
Found at i:907332 original size:166 final size:162
Alignment explanation
Indices: 906877--907342 Score: 483
Period size: 166 Copynumber: 2.8 Consensus size: 162
906867 CGAGGTATAC
* *
906877 AAAAAATTTAAAATTTATGAAATAAATTGAGATTTTTAAAAATGATTTAATAG-GAATTAAATAA
1 AAAAAA-TTAAAAATCATGAAATAAA-TGA-ATTTTTAAAAATGATTTAATAGTG-ATTAAATAA
* ** * * * **
906941 CAATATTAGATGAATTTTAAATATTT-TAAATTAAGAAAAATCTCTCTGAAAATATTTACAAAGT
62 -AATATTTGATGAATTTTAAA-ATTTATAAACCAAGAAAAATCCCCCCGAAAATATTTACGGAGT
* * * *
907005 AGAAAATTGGATTTTTCGAAAGCAATGGCATTTCAAGG
125 AGAAAATTCGATATTTCGAAAACAAGGGCATTTCAAGG
* * *
907043 AAAAAATTAAAAACTCATGAAAATAAATGAATTTTTGAAAAATAATTTAATA-TAAAATAAATAA
1 AAAAAATTAAAAA-TCATG-AAATAAATGAATTTTT-AAAAATGATTTAATAGT-GATTAAATAA
* * * ** * *
907107 ATATATTTTATGAATTTTAAAAATTAAAAACCTTGAAAAATTCTCCC-AACAATATTTACGGAGT
62 A-ATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCCCCCGAA-AATATTTACGGAGT
* * *
907171 AGAAAATTTCG-TATTTCGAAAATAGGGGTATTTCAAGG
125 AGAAAA-TTCGATATTTCGAAAACAAGGGCATTTCAAGG
907209 AAAAAATTCAAAAATCATGCAAATAAATGAATTTTTAAAAACTGATTTAATAGTGATTAAATAAT
1 AAAAAATT-AAAAATCATG-AAATAAATGAATTTTTAAAAA-TGATTTAATAGTGATTAAATAA-
* *
907274 AATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCCCCCGAAAAAATTTACGGAGAAG
62 AATATTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCCCCCGAAAATATTTACGGAGTAG
907339 AAAA
127 AAAA
907343 CCCTGTAAGT
Statistics
Matches: 246, Mismatches: 40, Indels: 28
0.78 0.13 0.09
Matches are distributed among these distances:
165 23 0.09
166 204 0.83
167 19 0.08
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.32
Consensus pattern (162 bp):
AAAAAATTAAAAATCATGAAATAAATGAATTTTTAAAAATGATTTAATAGTGATTAAATAAAATA
TTTGATGAATTTTAAAATTTATAAACCAAGAAAAATCCCCCCGAAAATATTTACGGAGTAGAAAA
TTCGATATTTCGAAAACAAGGGCATTTCAAGG
Found at i:908864 original size:77 final size:76
Alignment explanation
Indices: 908691--908943 Score: 212
Period size: 77 Copynumber: 3.3 Consensus size: 76
908681 GACATACATT
* * * *
908691 GACATGAACA-TTCCCACATGACCCT-AGACTCGATATTAATGCA-ATATTA-CTAAATAACCTT
1 GACATGAA-AGTTCCCACATGACCCTAAGACTCGATTTTAAAGTACA-ATTACCTAAATACCCTT
* * *
908752 AATGAATATGTTTC
64 -ATGGACATGTATC
* * *
908766 AACATGAAAGTTCCCATATGACCCTACAGACTCGGTTTTAAAGTACAATTACCTAAATGACCCTT
1 GACATGAAAGTTCCCACATGACCCTA-AGACTCGATTTTAAAGTACAATTACCTAAAT-ACCCTT
908831 ATGGACATGTATC
64 ATGGACATGTATC
* * * * * * * *
908844 GACATGAAA-TTCCTACATGACCCTAAAAGCTTGATTTTAAGGTGCCATTGCCTAAATTACCCTA
1 GACATGAAAGTTCCCACATGACCCTAAGA-CTCGATTTTAAAGTACAATTACCTAAA-TACCCTT
908908 ATGGACATGTATC
64 ATGGACATGTATC
* *
908921 GA-TTAGAAAGTTCCTACATGACC
1 GACAT-GAAAGTTCCCACATGACC
908944 TAGGGATTAG
Statistics
Matches: 146, Mismatches: 22, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
74 1 0.01
75 21 0.14
76 3 0.02
77 77 0.53
78 39 0.27
79 5 0.03
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (76 bp):
GACATGAAAGTTCCCACATGACCCTAAGACTCGATTTTAAAGTACAATTACCTAAATACCCTTAT
GGACATGTATC
Found at i:909099 original size:29 final size:29
Alignment explanation
Indices: 909056--909139 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 29
909046 TAGATTTTGT
*
909056 AAAATACTCTAAATGACCTTAAAATGTAGGA
1 AAAATACTC--AATGACCATAAAATGTAGGA
* *
909087 AAAATACTCAATGAACCCT-AAAT-TATGA
1 AAAATACTCAATG-ACCATAAAATGTAGGA
* *
909115 AAAATAACTTAATGACAATAAAATG
1 AAAAT-ACTCAATGACCATAAAATG
909140 CACAAAATTG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
28 12 0.27
29 19 0.43
30 4 0.09
31 9 0.20
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.25
Consensus pattern (29 bp):
AAAATACTCAATGACCATAAAATGTAGGA
Found at i:912993 original size:20 final size:19
Alignment explanation
Indices: 912952--912994 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
912942 CACTACATGA
*
912952 AAACTATCCTACCACAATC
1 AAACTATCCTACCACAACC
*
912971 AAACTAATCCTACCATAACC
1 AAACT-ATCCTACCACAACC
912991 AAAC
1 AAAC
912995 ATATAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.19
Consensus pattern (19 bp):
AAACTATCCTACCACAACC
Found at i:915330 original size:30 final size:30
Alignment explanation
Indices: 915296--915375 Score: 117
Period size: 30 Copynumber: 2.7 Consensus size: 30
915286 TGGAACTGAA
915296 TCTGGTTTCTGTTGTGGTGACAACCTT-GAG
1 TCTGGTTTCTGTTGTGGTGACAA-CTTAGAG
*
915326 TCTGGTTTTTGTTGTGGTGACAACTTAGAG
1 TCTGGTTTCTGTTGTGGTGACAACTTAGAG
* *
915356 TCCGGTTTCTGATGTGGTGA
1 TCTGGTTTCTGTTGTGGTGA
915376 TAATTCTTGC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
29 3 0.07
30 42 0.93
ACGTcount: A:0.14, C:0.14, G:0.31, T:0.41
Consensus pattern (30 bp):
TCTGGTTTCTGTTGTGGTGACAACTTAGAG
Found at i:920994 original size:6 final size:6
Alignment explanation
Indices: 920983--921016 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
920973 TGTTTTATTA
*
920983 TTTTAT TTTTAT TTTTAA TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
921017 TTCCCCTTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTAT
Found at i:921005 original size:18 final size:18
Alignment explanation
Indices: 920982--921016 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
920972 GTGTTTTATT
920982 ATTTTATTTTTATTTTTA
1 ATTTTATTTTTATTTTTA
921000 ATTTTATTTTTATTTTT
1 ATTTTATTTTTATTTTT
921017 TTCCCCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (18 bp):
ATTTTATTTTTATTTTTA
Found at i:925135 original size:15 final size:15
Alignment explanation
Indices: 925115--925144 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
925105 TAAAAATAAT
925115 TTTATCTCTAATTAA
1 TTTATCTCTAATTAA
925130 TTTATCTCTAATTAA
1 TTTATCTCTAATTAA
925145 ATTAAATTAA
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:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTATCTCTAATTAA
Found at i:927000 original size:19 final size:21
Alignment explanation
Indices: 926957--927008 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 21
926947 TTCAATCATT
* *
926957 TGTATTGATACATTCAGTAAA
1 TGTATCGATACATTAAGTAAA
926978 TGTATCGATACA-TAAGT-AA
1 TGTATCGATACATTAAGTAAA
926997 TGTATCGATACA
1 TGTATCGATACA
927009 GTGTATCGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.48
20 4 0.14
21 11 0.38
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTAAGTAAA
Found at i:927015 original size:13 final size:13
Alignment explanation
Indices: 926997--927021 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
926987 ACATAAGTAA
926997 TGTATCGATACAG
1 TGTATCGATACAG
927010 TGTATCGATACA
1 TGTATCGATACA
927022 AAGCTACTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:929571 original size:51 final size:51
Alignment explanation
Indices: 929442--929585 Score: 157
Period size: 51 Copynumber: 2.8 Consensus size: 51
929432 TCCCGGTTTC
* ** *
929442 ATTTCCAAAACA-TCAATCTTTCTCAATCGGGGGCATTCCAACTTCGATTTT
1 ATTTCCAAAACACTCAAT-TTTCACAATCGGGGATATTCCAACTCCGATTTT
* * *
929493 ATTTCTAAAACAC-CAATTCTCCGCAATCGGGGATATTCCAACTCCGATTTT
1 ATTTCCAAAACACTCAATT-TTCACAATCGGGGATATTCCAACTCCGATTTT
* * * *
929544 ATTTCCAAAACACTGACTTTTCACAATCAGGGATACTCCAAC
1 ATTTCCAAAACACTCAATTTTCACAATCGGGGATATTCCAAC
929586 CCCGTTATTT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
50 1 0.01
51 73 0.95
52 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
ATTTCCAAAACACTCAATTTTCACAATCGGGGATATTCCAACTCCGATTTT
Found at i:929681 original size:28 final size:28
Alignment explanation
Indices: 929649--929720 Score: 101
Period size: 28 Copynumber: 2.6 Consensus size: 28
929639 ATTTTTTATC
* *
929649 GGGGATACTCCAA-TCTCGTTATTTTCGA
1 GGGGATACTCCAACCCT-ATTATTTTCGA
929677 GGGGATACTCCAACCCTATTATTTTCGA
1 GGGGATACTCCAACCCTATTATTTTCGA
*
929705 GGGGATACCCCAACCC
1 GGGGATACTCCAACCC
929721 CGACTTTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 38 0.95
29 2 0.05
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCTATTATTTTCGA
Found at i:929767 original size:79 final size:79
Alignment explanation
Indices: 929677--929987 Score: 374
Period size: 79 Copynumber: 3.9 Consensus size: 79
929667 TTATTTTCGA
* * *
929677 GGGGATACTCCAACCCTATTATTTTCGAGGGGATACCCCAACCCCGACTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACACCAACCCCGATTTTATTTCTAAAATATT
929742 AATTTCTCATAATC
66 AATTTCTCATAATC
* * ** *
929756 GGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTTCAACCCCGGTTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACACCAACCCCGATTTTATTTCTAAAATATT
929821 AATTTCTCATAATC
66 AATTTCTCATAATC
* * * * *
929835 GGGGATACTCCAACTCCATTATTTTCGAGGGGATGCACCAATCCCGATTTTATTTC-CAAATCAC
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACACCAACCCCGATTTTATTTCTAAAAT-AT
** * *
929899 CGATTTTTCATAACC
65 TAATTTCTCATAATC
* * * * * *
929914 GGGGATACTCCAACCCCATTATTTTCAAGGAGATACGCCAACCCCG-TTATTATCTCCAAAACAT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACACCAACCCCGATT-TTATTTCTAAAATAT
929978 TAAATTTCTC
65 T-AATTTCTC
929988 GTCGGGAAAT
Statistics
Matches: 194, Mismatches: 34, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
78 6 0.03
79 179 0.92
80 9 0.05
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTATTTTCGAGGGGATACACCAACCCCGATTTTATTTCTAAAATATT
AATTTCTCATAATC
Found at i:929798 original size:107 final size:105
Alignment explanation
Indices: 929573--929800 Score: 296
Period size: 107 Copynumber: 2.2 Consensus size: 105
929563 TTCACAATCA
* * **
929573 GGGATACTCCAACCCCGTTATTTCCGAGGGGACACTCCAACCCCCGGTTTTATTTCTAAAACATC
1 GGGATACTCCAACCCCATTATTTCCGAGGGGACACCCCAACCCCCGACTTTATTTCTAAAACATC
* * * *
929638 AATTTTTTATCGGGGATACTCCAATCTCGTTATTTTCGAG
66 AATTTTTAATCGGGGATACTCCAACCCCGTTATTTCCGAG
* * * * *
929678 GGGATACTCCAACCCTATTATTTTCGAGGGGATACCCCAA-CCCCGACTTTATTTCTAAAATATT
1 GGGATACTCCAACCCCATTATTTCCGAGGGGACACCCCAACCCCCGACTTTATTTCTAAAACATC
929742 AATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAG
66 AATTT-T--TAATCGGGGATACTCCAACCCCGTTATTTCCGAG
*
929785 GGGATACTTCAACCCC
1 GGGATACTCCAACCCC
929801 GGTTTTATTT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
104 25 0.24
105 36 0.34
107 44 0.42
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (105 bp):
GGGATACTCCAACCCCATTATTTCCGAGGGGACACCCCAACCCCCGACTTTATTTCTAAAACATC
AATTTTTAATCGGGGATACTCCAACCCCGTTATTTCCGAG
Found at i:935551 original size:20 final size:20
Alignment explanation
Indices: 935528--935601 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
935518 ACAATTCAAA
935528 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
935548 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
935569 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
935589 GTATCGATACATG
1 GTATCGATACATG
935602 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:935572 original size:21 final size:21
Alignment explanation
Indices: 935546--935621 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
935536 ACATGTTGCA
935546 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
935567 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
935587 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
935608 ATGTATCGATACAT
1 ATGTATCGATACAT
935622 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:935579 original size:41 final size:41
Alignment explanation
Indices: 935528--935621 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
935518 ACAATTCAAA
935528 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
935569 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
935610 GTATCGATACAT
1 GTATCGATACAT
935622 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:935678 original size:13 final size:13
Alignment explanation
Indices: 935660--935685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
935650 TACAGCAAGT
935660 ATGTATCGATACA
1 ATGTATCGATACA
935673 ATGTATCGATACA
1 ATGTATCGATACA
935686 CAAAAAATTG
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):
ATGTATCGATACA
Found at i:936207 original size:34 final size:35
Alignment explanation
Indices: 936144--936210 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
936134 CTAAGTGATT
936144 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
936180 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
936211 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:937884 original size:84 final size:84
Alignment explanation
Indices: 937724--937884 Score: 186
Period size: 84 Copynumber: 1.9 Consensus size: 84
937714 ACTCAAAGAA
* * * *
937724 GAAAATAAATCAATAAGTGTAGAGAATCATATTCTTGAAAAGAAATTAAGTGAATTAGAGAAGAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
* *
937789 TATGAAAGAGTTACAAAAT
66 AAAGAAAGAGTTACAAAAT
* *
937808 GAAAATAAATCAATGAGTTTAGAAAAT-A-ATTCTTTTAAAAAGAAAATAAATGAATT--AGAAG
1 GAAAATAAATCAATAAGTGTAGAAAATCATATTC--TTAAAAAGAAAATAAATGAATTAGAGAAG
937869 AGAAAAGAAATGAGTT
64 AG-AAAGAAA-GAGTT
937885 GCAAGTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
82 11 0.17
83 6 0.09
84 48 0.74
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.25
Consensus pattern (84 bp):
GAAAATAAATCAATAAGTGTAGAAAATCATATTCTTAAAAAGAAAATAAATGAATTAGAGAAGAG
AAAGAAAGAGTTACAAAAT
Found at i:939355 original size:13 final size:13
Alignment explanation
Indices: 939337--939361 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
939327 TTTTCCAGAT
939337 TGTATCGATACAA
1 TGTATCGATACAA
939350 TGTATCGATACA
1 TGTATCGATACA
939362 TTGCTTCAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:941031 original size:20 final size:20
Alignment explanation
Indices: 941008--941081 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
940998 ACAATTCAAA
941008 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
941028 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
941049 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
941069 GTATCGATACATG
1 GTATCGATACATG
941082 AAAAAGATGT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:941052 original size:21 final size:21
Alignment explanation
Indices: 941026--941101 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
941016 ACATGTTGCA
941026 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
941047 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
941067 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
941088 ATGTATCGATACAT
1 ATGTATCGATACAT
941102 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:941059 original size:41 final size:41
Alignment explanation
Indices: 941008--941101 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
940998 ACAATTCAAA
941008 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
941049 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
941090 GTATCGATACAT
1 GTATCGATACAT
941102 TTCTTGGCAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
Found at i:941158 original size:13 final size:13
Alignment explanation
Indices: 941140--941165 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
941130 TACAGCAAGT
941140 ATGTATCGATACA
1 ATGTATCGATACA
941153 ATGTATCGATACA
1 ATGTATCGATACA
941166 CAAAAAATTG
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):
ATGTATCGATACA
Found at i:941687 original size:34 final size:35
Alignment explanation
Indices: 941624--941690 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
941614 CTAAGTGATT
941624 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
941660 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
941691 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:948827 original size:16 final size:16
Alignment explanation
Indices: 948806--948910 Score: 84
Period size: 16 Copynumber: 6.6 Consensus size: 16
948796 CAGGTTAATT
*
948806 GTTCGGGTTATTTCGG
1 GTTCGGGTCATTTCGG
* *
948822 GTTCGGATCATTTCGC
1 GTTCGGGTCATTTCGG
* *
948838 GTTCAGGTCATTTCGA
1 GTTCGGGTCATTTCGG
** *
948854 GTTCAAGTCATTTCGA
1 GTTCGGGTCATTTCGG
* *
948870 GTTCGAGTCATTTTGG
1 GTTCGGGTCATTTCGG
* * *
948886 GTTTGGGTTATTTTGG
1 GTTCGGGTCATTTCGG
*
948902 GTTTGGGTC
1 GTTCGGGTC
948911 GGTCGATTTC
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 75 1.00
ACGTcount: A:0.12, C:0.14, G:0.30, T:0.43
Consensus pattern (16 bp):
GTTCGGGTCATTTCGG
Found at i:949568 original size:20 final size:20
Alignment explanation
Indices: 949543--949650 Score: 99
Period size: 20 Copynumber: 4.8 Consensus size: 20
949533 TTTTACCCAG
949543 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
949563 ATGTATCGATACATTCTATCTTTTTACTCA
1 ATGTATCGATACA---T-TC----T--TCA
* *
949593 GATGTATCAATACATTTTTCA
1 -ATGTATCGATACATTCTTCA
949614 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
949634 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
949651 CTTTTTACCC
Statistics
Matches: 73, Mismatches: 4, Indels: 22
0.74 0.04 0.22
Matches are distributed among these distances:
20 48 0.66
21 3 0.04
23 2 0.03
24 2 0.03
27 1 0.01
28 2 0.03
30 3 0.04
31 12 0.16
ACGTcount: A:0.30, C:0.19, G:0.09, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:949608 original size:51 final size:51
Alignment explanation
Indices: 949532--949630 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
949522 AAACGTCACA
*
949532 TTTTTACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTATC
1 TTTTTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATTCTATC
* *
949583 TTTTTACTCAGATGTATCAATACATTTTTCAATGTATCGATACATTCT
1 TTTTTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATTCT
949631 TCAATGTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.43
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCAATACATTCTTCAATGTATCGATACATTCTATC
Found at i:949692 original size:69 final size:70
Alignment explanation
Indices: 949543--949696 Score: 240
Period size: 69 Copynumber: 2.2 Consensus size: 70
949533 TTTTACCCAG
*
949543 ATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACTCAGATGTATCAATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTC-ATCTTTTTACCCAGATGTATCAATACAT
**
949608 TTTTCA
65 TAATCA
*
949614 ATGTATCGATACATTCTTCAATGTATCGATACATTC-TCTTTTTACCCAGATGTATCGATACATT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCATCTTTTTACCCAGATGTATCAATACATT
949678 GAAT-A
66 -AATCA
949683 ATGTATCGATACAT
1 ATGTATCGATACAT
949697 CTAGTTAAAA
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
69 41 0.53
70 1 0.01
71 36 0.46
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (70 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCATCTTTTTACCCAGATGTATCAATACATT
AATCA
Found at i:952729 original size:20 final size:20
Alignment explanation
Indices: 952701--952739 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
952691 ATTGGTGACA
*
952701 ACTCCCAAATTTCGGTCACG
1 ACTCCCAAATTTCAGTCACG
*
952721 ACTCTCAAATTTCAGTCAC
1 ACTCCCAAATTTCAGTCAC
952740 TTCGTGGTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.33, G:0.10, T:0.28
Consensus pattern (20 bp):
ACTCCCAAATTTCAGTCACG
Found at i:953260 original size:21 final size:22
Alignment explanation
Indices: 953221--953264 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
953211 AATAAATTAG
*
953221 TAATATTTTGAATTATATTTTA
1 TAATATTTTGAAATATATTTTA
953243 TAATATTTT-AAATATATTTTA
1 TAATATTTTGAAATATATTTTA
953264 T
1 T
953265 TAGAGATTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TAATATTTTGAAATATATTTTA
Found at i:954822 original size:18 final size:19
Alignment explanation
Indices: 954792--954834 Score: 79
Period size: 18 Copynumber: 2.3 Consensus size: 19
954782 TCTTATTTAA
954792 AAATTTAAACAAACAAAAG
1 AAATTTAAACAAACAAAAG
954811 AAATTT-AACAAACAAAAG
1 AAATTTAAACAAACAAAAG
954829 AAATTT
1 AAATTT
954835 CCTTTCTTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.65, C:0.09, G:0.05, T:0.21
Consensus pattern (19 bp):
AAATTTAAACAAACAAAAG
Found at i:955353 original size:34 final size:34
Alignment explanation
Indices: 955308--955377 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
955298 TTCATGTATT
* * *
955308 AAAGAACTAAATGTTGAGATTTAGAAAATAAGTC
1 AAAGAAATAAATATGGAGATTTAGAAAATAAGTC
955342 AAAGAAATAAATATGGAGATTTAGAAAATAAGTC
1 AAAGAAATAAATATGGAGATTTAGAAAATAAGTC
955376 AA
1 AA
955378 GAATTGACTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.24
Consensus pattern (34 bp):
AAAGAAATAAATATGGAGATTTAGAAAATAAGTC
Found at i:958488 original size:34 final size:34
Alignment explanation
Indices: 958443--958509 Score: 116
Period size: 34 Copynumber: 2.0 Consensus size: 34
958433 TTCATGTATT
* *
958443 AAAGAACTAAATGTGGAGATTTAGAAAATAAGTC
1 AAAGAAATAAATGTGGAGAGTTAGAAAATAAGTC
958477 AAAGAAATAAATGTGGAGAGTTAGAAAATAAGT
1 AAAGAAATAAATGTGGAGAGTTAGAAAATAAGT
958510 TAGGAACTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.52, C:0.03, G:0.22, T:0.22
Consensus pattern (34 bp):
AAAGAAATAAATGTGGAGAGTTAGAAAATAAGTC
Found at i:962584 original size:13 final size:14
Alignment explanation
Indices: 962538--962597 Score: 61
Period size: 13 Copynumber: 4.3 Consensus size: 14
962528 AATATTTTTT
962538 TATTTTTAATAAATA
1 TATTTTT-ATAAATA
* *
962553 CTCTTTTCATAAATA
1 -TATTTTTATAAATA
962568 -ATTTTTA-AAATA
1 TATTTTTATAAATA
*
962580 TATTTTTATAATTA
1 TATTTTTATAAATA
962594 TATT
1 TATT
962598 AAGAAATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 5 0.14
13 12 0.32
14 8 0.22
15 7 0.19
16 5 0.14
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTTTTATAAATA
Found at i:976646 original size:12 final size:11
Alignment explanation
Indices: 976624--976699 Score: 52
Period size: 12 Copynumber: 6.9 Consensus size: 11
976614 AGAGAAAGAA
*
976624 GAGAGAGGAGG
1 GAGATAGGAGG
976635 GATGATAGGAGG
1 GA-GATAGGAGG
*
976647 AGAGACAGGA--
1 -GAGATAGGAGG
*
976657 GAGATAGTA--
1 GAGATAGGAGG
976666 GAGATAGGAGG
1 GAGATAGGAGG
976677 GATGATAGGAGG
1 GA-GATAGGAGG
*
976689 AGAGACAGGAG
1 -GAGATAGGAG
976700 AGATAATAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
9 15 0.28
11 4 0.08
12 30 0.57
13 4 0.08
ACGTcount: A:0.39, C:0.03, G:0.49, T:0.09
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:976651 original size:486 final size:486
Alignment explanation
Indices: 975740--976702 Score: 1890
Period size: 486 Copynumber: 2.0 Consensus size: 486
975730 TGTGGACTAG
* *
975740 AGGTTGACTTCCTTAAGAACTGTTGAGAACACTTGAGGGGAAAAAGGTAAGAGTGAAATCAATAC
1 AGGTTGACTTCCTTAAGAACTGTTGAGAACACTTGAGGGGAAAAAGGCAAGAGTAAAATCAATAC
975805 ACAAAAGCCAATTTTGAGTGAAACACGAGTGAACATCTATTGAGTGAAACACTTAGCGAGTGGAG
66 ACAAAAGCCAATTTTGAGTGAAACACGAGTGAACATCTATTGAGTGAAACACTTAGCGAGTGGAG
975870 AGGACATTTTATTGCATTAATCTTTATAATTCTGCAGCTATGTCTCATGAAGAAAGATCAAGTGG
131 AGGACATTTTATTGCATTAATCTTTATAATTCTGCAGCTATGTCTCATGAAGAAAGATCAAGTGG
*
975935 GGAGAGTACTCCTCCCTCACCTAAGTCCTTGGCTGTTAGAGTGCAAATTGAAAGACTTGCACAAA
196 GGAGAGTACTCATCCCTCACCTAAGTCCTTGGCTGTTAGAGTGCAAATTGAAAGACTTGCACAAA
976000 GATTTGAAAGAATGTTTGAAACGCAGAATGAAGCCATAAGGAATATTCAAGAGACAGTGGCAAAT
261 GATTTGAAAGAATGTTTGAAACGCAGAATGAAGCCATAAGGAATATTCAAGAGACAGTGGCAAAT
976065 AATGCAAGAAGGCAGCCACGTGACAATTCTCCACCTACCCATGGAGATTCTAGTAGCCCTCAAAG
326 AATGCAAGAAGGCAGCCACGTGACAATTCTCCACCTACCCATGGAGATTCTAGTAGCCCTCAAAG
976130 AGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAAAGATAGTAGAGATAGGAGGGATG
391 AGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAAAGATAGTAGAGATAGGAGGGATG
976195 ATAGGAGGAGAGACAGGAGAGACAGGATGAT
456 ATAGGAGGAGAGACAGGAGAGACAGGATGAT
976226 AGGTTGACTTCCTTAAGAACTGTTGAGAACACTTGAGGGGAAAAAGGCAAGAGTAAAATCAATAC
1 AGGTTGACTTCCTTAAGAACTGTTGAGAACACTTGAGGGGAAAAAGGCAAGAGTAAAATCAATAC
976291 ACAAAAGCCAATTTTGAGTGAAACACGAGTGAACATCTATTGAGTGAAACACTTAGCGAGTGGAG
66 ACAAAAGCCAATTTTGAGTGAAACACGAGTGAACATCTATTGAGTGAAACACTTAGCGAGTGGAG
976356 AGGACATTTTATTGCATTAATCTTTATAATTCTGCAGCTATGTCTCATGAAGAAAGATCAAGTGG
131 AGGACATTTTATTGCATTAATCTTTATAATTCTGCAGCTATGTCTCATGAAGAAAGATCAAGTGG
976421 GGAGAGTACTCATCCCTCACCTAAGTCCTTGGCTGTTAGAGTGCAAATTGAAAGACTTGCACAAA
196 GGAGAGTACTCATCCCTCACCTAAGTCCTTGGCTGTTAGAGTGCAAATTGAAAGACTTGCACAAA
976486 GATTTGAAAGAATGTTTGAAACGCAGAATGAAGCCATAAGGAATATTCAAGAGACAGTGGCAAAT
261 GATTTGAAAGAATGTTTGAAACGCAGAATGAAGCCATAAGGAATATTCAAGAGACAGTGGCAAAT
976551 AATGCAAGAAGGCAGCCACGTGACAATTCTCCACCTACCCATGGAGATTCTAGTAGCCCTCAAAG
326 AATGCAAGAAGGCAGCCACGTGACAATTCTCCACCTACCCATGGAGATTCTAGTAGCCCTCAAAG
*
976616 AGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAGAGATAGTAGAGATAGGAGGGATG
391 AGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAAAGATAGTAGAGATAGGAGGGATG
976681 ATAGGAGGAGAGACAGGAGAGA
456 ATAGGAGGAGAGACAGGAGAGA
976703 TAATAGAGAG
Statistics
Matches: 473, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
486 473 1.00
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (486 bp):
AGGTTGACTTCCTTAAGAACTGTTGAGAACACTTGAGGGGAAAAAGGCAAGAGTAAAATCAATAC
ACAAAAGCCAATTTTGAGTGAAACACGAGTGAACATCTATTGAGTGAAACACTTAGCGAGTGGAG
AGGACATTTTATTGCATTAATCTTTATAATTCTGCAGCTATGTCTCATGAAGAAAGATCAAGTGG
GGAGAGTACTCATCCCTCACCTAAGTCCTTGGCTGTTAGAGTGCAAATTGAAAGACTTGCACAAA
GATTTGAAAGAATGTTTGAAACGCAGAATGAAGCCATAAGGAATATTCAAGAGACAGTGGCAAAT
AATGCAAGAAGGCAGCCACGTGACAATTCTCCACCTACCCATGGAGATTCTAGTAGCCCTCAAAG
AGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGGAAAGATAGTAGAGATAGGAGGGATG
ATAGGAGGAGAGACAGGAGAGACAGGATGAT
Found at i:976656 original size:24 final size:24
Alignment explanation
Indices: 976623--976708 Score: 85
Period size: 24 Copynumber: 3.8 Consensus size: 24
976613 AAGAGAAAGA
*
976623 AGAGAGAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
*
976647 AGAGACAGGA--GA-GAT---AGT
1 AGAGACAGGAGGGATGATAGGAGG
*
976665 AGAGATAGGAGGGATGATAGGAGG
1 AGAGACAGGAGGGATGATAGGAGG
* *
976689 AGAGACAGGAGAGATAATAG
1 AGAGACAGGAGGGATGATAG
976709 AGAGAGGAGG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
18 11 0.22
20 2 0.04
21 6 0.12
22 2 0.04
24 28 0.57
ACGTcount: A:0.42, C:0.02, G:0.45, T:0.10
Consensus pattern (24 bp):
AGAGACAGGAGGGATGATAGGAGG
Found at i:976675 original size:42 final size:42
Alignment explanation
Indices: 976614--976732 Score: 193
Period size: 42 Copynumber: 2.8 Consensus size: 42
976604 TAGCCCTCAA
* *
976614 AGAGAAAGAAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
*
976656 AGAGATAGTAGAGATAGGAGGGATGATAGGAGGAGAGACAGG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
* *
976698 AGAGATAATAGAGAGAGGAGGGATGATAGAAGGAG
1 AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAG
976733 GAGAGAAGAA
Statistics
Matches: 71, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.44, C:0.02, G:0.45, T:0.09
Consensus pattern (42 bp):
AGAGATAGTAGAGAGAGGAGGGATGATAGGAGGAGAGACAGG
Found at i:976716 original size:18 final size:18
Alignment explanation
Indices: 976689--976738 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
976679 TGATAGGAGG
*
976689 AGAGACAGGAGAGATAAT
1 AGAGAGAGGAGAGATAAT
* *
976707 AGAGAGAGGAGGGATGAT
1 AGAGAGAGGAGAGATAAT
976725 AGA-AGGAGGAGAGA
1 AGAGA-GAGGAGAGA
976739 AGAAGATGGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.46, C:0.02, G:0.44, T:0.08
Consensus pattern (18 bp):
AGAGAGAGGAGAGATAAT
Found at i:982992 original size:20 final size:19
Alignment explanation
Indices: 982963--983037 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
982953 AAAAAGACAT
982963 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
982982 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
* *
983003 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
983023 AATGTATCGATACAT
1 AATGTATCGATACAT
983038 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:983020 original size:40 final size:39
Alignment explanation
Indices: 982960--983037 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
982950 GGTAAAAAGA
*
982960 CATAATGTATCGATACATTGAAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
982999 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
983038 CTGGGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:984055 original size:5 final size:6
Alignment explanation
Indices: 984030--984065 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
984020 TTTAGAAAAC
984030 AATAAA GAATAAA AATAAA AATAAA AATAAA AATAA
1 AATAAA -AATAAA AATAAA AATAAA AATAAA AATAA
984066 CAATGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:984526 original size:25 final size:25
Alignment explanation
Indices: 984498--984545 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
984488 ACTTAATCGT
984498 ATTTACTCCAAAGCAAAATCTATTA
1 ATTTACTCCAAAGCAAAATCTATTA
*
984523 ATTTATTCCAAAGCAAAATCTAT
1 ATTTACTCCAAAGCAAAATCTAT
984546 GCATACATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.04, T:0.33
Consensus pattern (25 bp):
ATTTACTCCAAAGCAAAATCTATTA
Found at i:984719 original size:39 final size:39
Alignment explanation
Indices: 984675--984753 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
984665 ATTTTAAAAC
* *
984675 AAAATTCACGTATTAATCACATTTTTCAAATTCTATTAA
1 AAAATTCACGTATTAATCACATATTTCAAATTCTAATAA
* * *
984714 AAAATTTATGTATTAATCACATATTTCAGATTCTAATAA
1 AAAATTCACGTATTAATCACATATTTCAAATTCTAATAA
984753 A
1 A
984754 TAATCTATAC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.43, C:0.13, G:0.04, T:0.41
Consensus pattern (39 bp):
AAAATTCACGTATTAATCACATATTTCAAATTCTAATAA
Done.