Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 295 of 297
Found at i:100274998 original size:180 final size:180
Alignment explanation
Indices: 100274741--100275069 Score: 559
Period size: 180 Copynumber: 1.8 Consensus size: 180
100274731 ATCCGAGATC
* * *
100274741 TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTGGAACTATCAGACAGTGAAATAGGGGT
1 TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTAGAACTATCAGACAATGAAATAGGGGC
* *
100274806 ATATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTTTGAAAATTTTATGGTAAGAAT
66 AAATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAT
100274871 ACACGTGAGTCTAGTTTTTATAAAAGTTAGCAGTTCTTAATTTGGAGTCT
131 ACACGTGAGTCTAGTTTTTATAAAAGTTAGCAGTTCTTAATTTGGAGTCT
* * **
100274921 TGTACCATGAGATAAATATTTTTTAGTGAAGAGAGTTTAGAACTATTGGACAATGAAATAGGGGC
1 TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTAGAACTATCAGACAATGAAATAGGGGC
100274986 AAATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAT
66 AAATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAT
* *
100275051 ATATGTGAGTCTAGTTTTT
131 ACACGTGAGTCTAGTTTTT
100275070 TGGAAAATTA
Statistics
Matches: 138, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 138 1.00
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.34
Consensus pattern (180 bp):
TGTACCATGAGATAAATATTTTTTAGTGAAGAAAGATTAGAACTATCAGACAATGAAATAGGGGC
AAATTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTGAAAATTTTATGGTAAGAAT
ACACGTGAGTCTAGTTTTTATAAAAGTTAGCAGTTCTTAATTTGGAGTCT
Found at i:100276677 original size:46 final size:46
Alignment explanation
Indices: 100276610--100276784 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
100276600 TGTAACCCGC
* * *
100276610 CCATAAGTGAACTCGAACTCAACTCAATGAGCTCGGGCGCTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGCTTACAT
*
100276656 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATGC-CTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-G-GGCGC---TTACAT
* * * * *
100276706 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACG-TTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGCTT-ACAT
*
100276749 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
100276785 ATCCCTAGTT
Statistics
Matches: 104, Mismatches: 15, Indels: 20
0.75 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 3 0.03
46 57 0.55
47 27 0.26
48 4 0.04
49 1 0.01
50 5 0.05
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGCTTACAT
Found at i:100276725 original size:93 final size:93
Alignment explanation
Indices: 100276618--100276832 Score: 306
Period size: 93 Copynumber: 2.3 Consensus size: 93
100276608 GCCCATAAGT
* * * * *
100276618 GAACTCGAACTCAACTCAATGAGCTCGGGCGCTT-GCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAATGAGTTCGGACG-TTCACATCCATAAGTGAACTCAGACTCAACTCA
*
100276682 ACGAGCTCAGATGCCTAGTTACATCTCAC
65 ACGAGCTCAGATCCCTAGTTACATCTCAC
* *
100276711 GAACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAATGAGTTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
* *
100276776 CGAGCTCGGATCCCTAGTTACGTCTCAC
66 CGAGCTCAGATCCCTAGTTACATCTCAC
* *
100276804 GAACTCAGAATCAACTCAATGAGTTCGGA
1 GAACTCGGACTCAACTCAATGAGTTCGGA
100276833 TACCCAAATA
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 2 0.02
93 105 0.98
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAATGAGTTCGGACGTTCACATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCAGATCCCTAGTTACATCTCAC
Found at i:100276727 original size:47 final size:46
Alignment explanation
Indices: 100276664--100276822 Score: 164
Period size: 47 Copynumber: 3.4 Consensus size: 46
100276654 ATCCATAAGT
*
100276664 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCAGAT-CCTAGTTACATCTCAC
* * * *
100276711 GAACTCGGACTCAACTCAACGAGTTCAGA--C--GTTCACATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCAGATCCTAGTT-ACAT-C-TCA-C
* *
100276757 GAACTCAGACTCAACTCAACGAGCTCGGATCCCTAGTTACGTCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCAGAT-CCTAGTTACATCTCAC
*
100276804 GAACTCAGAATCAACTCAA
1 GAACTCAGACTCAACTCAA
100276823 TGAGTTCGGA
Statistics
Matches: 93, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 2 0.02
45 2 0.02
46 26 0.28
47 46 0.49
48 2 0.02
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (46 bp):
GAACTCAGACTCAACTCAACGAGCTCAGATCCTAGTTACATCTCAC
Found at i:100279254 original size:30 final size:30
Alignment explanation
Indices: 100279210--100279278 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
100279200 TAAAGATAAC
* *
100279210 AAGAAAACC-GAATAAAGAAAT-TCAAGATA
1 AAGAAACCCAGAATAAAGAAATCT-AAAATA
*
100279239 GAGAAACCCAGAATAAAGAAATCTAAAATA
1 AAGAAACCCAGAATAAAGAAATCTAAAATA
100279269 AAGAAACCCA
1 AAGAAACCCA
100279279 AGATACGATA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 7 0.21
30 26 0.76
31 1 0.03
ACGTcount: A:0.61, C:0.14, G:0.13, T:0.12
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCTAAAATA
Found at i:100279258 original size:15 final size:15
Alignment explanation
Indices: 100279210--100279278 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
100279200 TAAAGATAAC
*
100279210 AAGAAAACC-GAATA
1 AAGAAACCCAGAATA
**
100279224 AAGAAATTCA-AGATA
1 AAGAAACCCAGA-ATA
*
100279239 GAGAAACCCAGAATA
1 AAGAAACCCAGAATA
* * *
100279254 AAGAAATCTAAAATA
1 AAGAAACCCAGAATA
100279269 AAGAAACCCA
1 AAGAAACCCA
100279279 AGATACGATA
Statistics
Matches: 41, Mismatches: 11, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
14 8 0.20
15 32 0.78
16 1 0.02
ACGTcount: A:0.61, C:0.14, G:0.13, T:0.12
Consensus pattern (15 bp):
AAGAAACCCAGAATA
Found at i:100282241 original size:46 final size:46
Alignment explanation
Indices: 100282163--100282431 Score: 201
Period size: 46 Copynumber: 5.8 Consensus size: 46
100282153 TGTAACCCGC
* ** *
100282163 CCATAAGCGAACTCGGACTCAAGTCAGTGAGCTCGGGCACTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
* * * *
100282209 CCATAAGTGAACACGGACTCAACTCAACGAGCTCAGATGC-CTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA--CACTCG---CAT
* * ** *
100282259 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
* * * * *
100282302 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCAGATCCCTAG-TT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-CACTCGCAT
* * *
100282348 ACGTC-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 -C--CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
* *
100282395 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
100282432 TGCCCAAATA
Statistics
Matches: 173, Mismatches: 34, Indels: 32
0.72 0.14 0.13
Matches are distributed among these distances:
43 2 0.01
44 2 0.01
45 5 0.03
46 93 0.54
47 61 0.35
48 5 0.03
49 2 0.01
50 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGACACTCGCAT
Found at i:100282276 original size:47 final size:47
Alignment explanation
Indices: 100282217--100282379 Score: 188
Period size: 47 Copynumber: 3.5 Consensus size: 47
100282207 ATCCATAAGT
*
100282217 GAACACGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
* * * * * * * *
100282264 GAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTATCCA--TAAGT
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGT-TACATCTCA-C
* *
100282310 GAACTCGGACTCAACTCAACGAGCTCAGATCCCTAGTTACGTCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
100282357 GAACTCGGACTCAACTCAACGAG
1 GAACTCGGACTCAACTCAACGAG
100282380 TTCGGACATT
Statistics
Matches: 92, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
45 2 0.02
46 32 0.35
47 56 0.61
48 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCAGATGCCTAGTTACATCTCAC
Found at i:100282329 original size:93 final size:93
Alignment explanation
Indices: 100282170--100282435 Score: 415
Period size: 93 Copynumber: 2.9 Consensus size: 93
100282160 CGCCCATAAG
* ** * * * *
100282170 CGAACTCGGACTCAAGTCAGTGAGCTCGGGCACTCGCATCCATAAGTGAACACGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
100282235 ACGAGCTCAGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
* *
100282263 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
100282328 ACGAGCTCAGATCCCTAGTTACGTCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
100282356 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
100282421 ACGAGTTCGGATGCC
66 ACGAGCTCAGATGCC
100282436 CAAATATCTG
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:100284337 original size:49 final size:47
Alignment explanation
Indices: 100284219--100284399 Score: 172
Period size: 47 Copynumber: 3.7 Consensus size: 47
100284209 AGGGTATGAT
* ** *
100284219 GTCGATCCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAATCATGTATCAA
*
100284266 GTCGATGCCATGTCCCAAACATGGTCTTACACTGAAT-ATTGTTATCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGAATCA-TG-TATCAA
* * *
100284314 GGTTGATGCCATGTCCCAGACATGGTCTTACACT-AGCTC-TCGCATAT-TA
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGA-ATCAT-G--TATCAA
*
100284363 GTGCCGATGCCATGTCTCAGACATGGTCTTACACTGA
1 GT--CGATGCCATGTCCCAGACATGGTCTTACACTGA
100284400 CACATCTCAT
Statistics
Matches: 112, Mismatches: 12, Indels: 16
0.80 0.09 0.11
Matches are distributed among these distances:
46 1 0.01
47 35 0.31
48 9 0.08
49 34 0.30
50 32 0.29
51 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGAATCATGTATCAA
Found at i:100284417 original size:96 final size:95
Alignment explanation
Indices: 100284226--100284445 Score: 231
Period size: 96 Copynumber: 2.3 Consensus size: 95
100284216 GATGTCGATC
*
100284226 CCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCAAGTCGATGCCATGTCCCAAACATGGT
1 CCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGTCGATGCCATGTCCCAAACATGGT
* * * *
100284291 CTTACACTGAATATTGTTATCAAGGTTGATG
66 CTTACACTGAACATTCTCAT-AAGGCTGATG
* *
100284322 CCATGTCCCAGACATGGTCTTACACTAGCTC-TCG-CAT-ATTAGTGCCGATGCCATGTCTCAGA
1 CCATGTCCCAGACATGGTCTTACACTAGCTCAT-GTC-TCA--AGT--CGATGCCATGTCCCAAA
100284384 CATGGTCTTACACTGACACA-TCTCAT-A-GCTGATG
60 CATGGTCTTACACTGA-ACATTCTCATAAGGCTGATG
* *
100284418 -CATGTCCCTGACAT-GTCTTATACTAGCT
1 CCATGTCCCAGACATGGTCTTACACTAGCT
100284446 TACCTTACGA
Statistics
Matches: 108, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
94 13 0.12
95 16 0.15
96 38 0.35
97 4 0.04
99 35 0.32
100 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (95 bp):
CCATGTCCCAGACATGGTCTTACACTAGCTCATGTCTCAAGTCGATGCCATGTCCCAAACATGGT
CTTACACTGAACATTCTCATAAGGCTGATG
Found at i:100284565 original size:140 final size:141
Alignment explanation
Indices: 100284221--100284585 Score: 348
Period size: 140 Copynumber: 2.6 Consensus size: 141
100284211 GGTATGATGT
* * * * **
100284221 CGATCCCATGTCCCAGACATGGTCTTACACTGGCTCATGTCTCA-AG-TCGATGCCATGTCCCAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACA--TCTAATAGCT-GATG-CATGTCCCGG
** ** * * **
100284284 ACATGGTCTTACACT-GAATATTGTTATCAAGGTTGATGCCATGTCCCAGACATGGTCTTACACT
62 ACAT-GTCTTACACTAGCTTA-CCTTA-CGAGGTCGATGCCATGTCCCAGACATCATCTTACACT
* *
100284348 AGCTCTCGCATATTAGTGC
124 AGCTCTCG-ATATCAATGC
* * *
100284367 CGATGCCATGTCTCAGACATGGTCTTACACTGACACATCTCATAGCTGATGCATGTCCCTGACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAATAGCTGATGCATGTCCCGGACAT
*
100284432 GTCTTATACTAGCTTACCTTACGAGGTCGATG-CATGTCCCAGACA-CATCTTACACTAGCTCTC
66 GTCTTACACTAGCTTACCTTACGAGGTCGATGCCATGTCCCAGACATCATCTTACACTAGCTCTC
*
100284495 G-TCTCAATGC
131 GATATCAATGC
** * * *
100284505 CGATTTCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGCTGATGCATGTCCCGGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-TAA--TAGCTGATGCATGTCCCGGA
100284569 CATGTCTTACACTAGCT
63 CATGTCTTACACTAGCT
100284586 CACAATAGCC
Statistics
Matches: 186, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
137 2 0.01
138 39 0.21
140 51 0.27
141 13 0.07
142 9 0.05
143 12 0.06
144 20 0.11
145 6 0.03
146 34 0.18
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTAATAGCTGATGCATGTCCCGGACAT
GTCTTACACTAGCTTACCTTACGAGGTCGATGCCATGTCCCAGACATCATCTTACACTAGCTCTC
GATATCAATGC
Found at i:100293482 original size:101 final size:99
Alignment explanation
Indices: 100293294--100293535 Score: 270
Period size: 101 Copynumber: 2.4 Consensus size: 99
100293284 TATTGTGAGG
* * * *** * ** * *
100293294 TCACATATGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATT-GGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATGGTTAGGTCACGTGTGTAGTAC
*
100293358 TAAGTGCAGGCTACTATGCGTACCCGAAAACTTCGA
66 TAAGTGCAGGCTACTACGCGTACCCGAAAA-TT-GA
* * *
100293394 TCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATGGTTAGGTCACGTGTGTAGTAC
* * * *
100293459 TAAGTGCAGGCTACTACGTGTACCGGATAATTGG
66 TAAGTGCAGGCTACTACGCGTACCCGAAAATTGA
* *
100293493 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGAT
1 TCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGAT
100293536 AGCCTTGTCT
Statistics
Matches: 119, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
99 39 0.33
100 39 0.33
101 41 0.34
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAATGCAGGCTACTATGCGTACCAGATGGTTAGGTCACGTGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCCGAAAATTGA
Found at i:100293531 original size:49 final size:50
Alignment explanation
Indices: 100293291--100293536 Score: 280
Period size: 49 Copynumber: 4.9 Consensus size: 50
100293281 ATCTATTGTG
* * ** *
100293291 AGGTCACATATGTAGTACTAAGTGCAAGCTACTACATGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * * *
100293341 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-TT
* * * * * **
100293391 CGATCACGTGTGTAGTACTAAATGCAGGCTACTATGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* * *
100293441 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
* *
100293491 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
100293537 GCCTTGTCTA
Statistics
Matches: 163, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 37 0.23
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
Found at i:100310509 original size:96 final size:96
Alignment explanation
Indices: 100310312--100310680 Score: 533
Period size: 96 Copynumber: 3.8 Consensus size: 96
100310302 GTAAGATGCT
* *
100310312 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGATGCCGATGCCATGTTCCAA
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTC--ATATCAATGCCGATGCCATGTTCCAA
* * *
100310377 ACATGGTCTTACACTAGC-CTACATGTCGAGGTC
64 ACATGGTCTTACACTGGCTC-ACATATCGAGGCC
* *
100310410 GATGCCTTGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCTGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
*
100310475 ATGGTCTTACACTGGCTCACATATCAAGGCC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * *
100310506 GATGCCATATCCCAGACATGGTCTTATACTAGCTCTCATATCAATGCCGATGTCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
* * *
100310571 ATCGTCTTACTCTGGCTCACATATCGAGACC
66 ATGGTCTTACACTGGCTCACATATCGAGGCC
* * **
100310602 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAATGCTGATGTAATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
*
100310667 ATGGTCTCACACTG
66 ATGGTCTTACACTG
100310681 TGTAACACCC
Statistics
Matches: 245, Mismatches: 25, Indels: 4
0.89 0.09 0.01
Matches are distributed among these distances:
96 209 0.85
97 1 0.00
98 35 0.14
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATCAATGCCGATGCCATGTTCCAAAC
ATGGTCTTACACTGGCTCACATATCGAGGCC
Found at i:100310680 original size:48 final size:48
Alignment explanation
Indices: 100310307--100310679 Score: 417
Period size: 48 Copynumber: 7.7 Consensus size: 48
100310297 AAAGGGTAAG
* *
100310307 ATGCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTC--ATATCA
* * *
100310357 ATGCCGATGCCATGTTCCAAACATGGTCTTACACTAGC-CTACATGTCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCT-CATATCA
* * * *
100310405 AGGTCGATGCCTTGTCCCAGACATGGTCTTACACTAGCTCTCATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * *
100310453 ATGCTGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * *
100310501 AGGCCGATGCCATATCCCAGACATGGTCTTATACTAGCTCTCATATCA
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* * * * * * *
100310549 ATGCCGATGTCATGTTCCAAACATCGTCTTACTCTGGCTCACATATCG
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* *
100310597 A-GACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCA
1 ATG-CCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
* ** * *
100310645 ATGCTGATGTAATGTTCCAAACATGGTCTCACACT
1 ATGCCGATGCCATGTCCCAAACATGGTCTTACACT
100310680 GTGTAACACC
Statistics
Matches: 269, Mismatches: 50, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.00
48 226 0.84
49 5 0.02
50 37 0.14
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.29
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCA
Found at i:100312096 original size:40 final size:40
Alignment explanation
Indices: 100312059--100312283 Score: 289
Period size: 40 Copynumber: 5.7 Consensus size: 40
100312049 GCTACTCGTT
*
100312059 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
100312099 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
100312139 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
100312178 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
100312218 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
100312259 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
100312284 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:100312170 original size:79 final size:79
Alignment explanation
Indices: 100312059--100312283 Score: 294
Period size: 79 Copynumber: 2.8 Consensus size: 79
100312049 GCTACTCGTT
* * *
100312059 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
100312124 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
100312139 CAAATGCCTTCGGGCTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGCCCG
100312202 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* * * * *
100312218 CAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
100312282 GA
64 GA
100312284 CATCATTCAA
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
78 4 0.03
79 67 0.53
80 44 0.35
81 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:100312243 original size:119 final size:120
Alignment explanation
Indices: 100312059--100312283 Score: 307
Period size: 119 Copynumber: 1.9 Consensus size: 120
100312049 GCTACTCGTT
100312059 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
100312124 ATTTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * **
100312178 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACC
* *
100312240 CGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
100312284 CATCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
118 6 0.06
119 66 0.71
120 21 0.23
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:100312419 original size:107 final size:107
Alignment explanation
Indices: 100312233--100312445 Score: 408
Period size: 107 Copynumber: 2.0 Consensus size: 107
100312223 GCCTTCGGAT
*
100312233 CTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGACATCATTCAAATAA
1 CTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCAGACATCATTCAAATAA
*
100312298 CCATGCACATTTAACCATAAATCATGGCACATTCGTATTTCA
66 CCATGCACATTTAACAATAAATCATGGCACATTCGTATTTCA
100312340 CTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCAGACATCATTCAAATAA
1 CTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCAGACATCATTCAAATAA
100312405 CCATGCACATTTAACAATAAATCATGGCACATTCGTATTTC
66 CCATGCACATTTAACAATAAATCATGGCACATTCGTATTTC
100312446 GTTTTCGTTA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
107 104 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.27
Consensus pattern (107 bp):
CTTAGTCCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCAGACATCATTCAAATAA
CCATGCACATTTAACAATAAATCATGGCACATTCGTATTTCA
Found at i:100317129 original size:18 final size:19
Alignment explanation
Indices: 100317097--100317133 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
100317087 TGGTCTCGAT
100317097 TTTTCTAAAGGTATCAATA
1 TTTTCTAAAGGTATCAATA
*
100317116 TTTTC-AAAGTTATCAATA
1 TTTTCTAAAGGTATCAATA
100317134 CTTGTCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTTCTAAAGGTATCAATA
Found at i:100317226 original size:20 final size:20
Alignment explanation
Indices: 100317195--100317246 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
100317185 TAAAAAAAAT
*
100317195 TTAAAATGATTTTAACATGA
1 TTAAAATCATTTTAACATGA
* * * *
100317215 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACATGA
100317235 TTAAAATCATTT
1 TTAAAATCATTT
100317247 GCACTTGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (20 bp):
TTAAAATCATTTTAACATGA
Found at i:100318895 original size:33 final size:33
Alignment explanation
Indices: 100318849--100318919 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
100318839 AAATTCATAT
* *
100318849 ATCATGTATATCATTTGTAACATTTCACTCTCA
1 ATCATGTACATCATTTGAAACATTTCACTCTCA
100318882 ATCATGTACATCATTTGAAACATTTCACTCTCA
1 ATCATGTACATCATTTGAAACATTTCACTCTCA
100318915 ATCAT
1 ATCAT
100318920 ATAAACAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (33 bp):
ATCATGTACATCATTTGAAACATTTCACTCTCA
Found at i:100323165 original size:143 final size:143
Alignment explanation
Indices: 100322971--100323388 Score: 538
Period size: 143 Copynumber: 2.9 Consensus size: 143
100322961 TATCCATAAC
* * * *
100322971 TTGTAGCTTTAATCTACTCCGCTGCAATTTCAGGGAAATAAGATTAGCTATCTTCAATCTGCTCC
1 TTGTAGCTTTAATCTATTCCACTGCAATATCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCC
* * *
100323036 GCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACTGCAACTTCAGGAAGATAA
66 GCTGCAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAA
*
100323101 GATTTGTCA-CAAT
131 GATTTGCCATC-AT
* * * * * *
100323114 TTGTAGCTTTAATTTGTTCCACTGCAACATCAGGGAAATAAGATTCGCTATCTCCAGTCTACTCC
1 TTGTAGCTTTAATCTATTCCACTGCAATATCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCC
* * * *
100323179 GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTCCACAGTAACTTTAGGAAGATAA
66 GCTGCAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAA
100323244 GATTTGCCATCAT
131 GATTTGCCATCAT
* * * * *
100323257 TTATAGCTTTAATCTATTCCACTTCAATGTCAGGGAAATAAGATTTGCTGTC-TCTAGTCTGCT-
1 TTGTAGCTTTAATCTATTCCACTGCAATATCAGGGAAATAAGATTAGCTATCTTC-AGTCTGCTC
* * * *
100323320 CGCTGCAACTTCAAGGAGATAAGGCT-AGTGGTTTCAATTTGCTCCACTATAACTTCTGGAAGAT
65 CGCTGCAACTTCAAGGAGATAAGGCTGA-TGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGAT
100323384 AAGAT
129 AAGAT
100323389 CTGTTATCTT
Statistics
Matches: 236, Mismatches: 36, Indels: 7
0.85 0.13 0.03
Matches are distributed among these distances:
142 61 0.26
143 174 0.74
144 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (143 bp):
TTGTAGCTTTAATCTATTCCACTGCAATATCAGGGAAATAAGATTAGCTATCTTCAGTCTGCTCC
GCTGCAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAA
GATTTGCCATCAT
Found at i:100323432 original size:89 final size:88
Alignment explanation
Indices: 100323312--100323573 Score: 321
Period size: 89 Copynumber: 3.0 Consensus size: 88
100323302 TGCTGTCTCT
* * * * * * *
100323312 AGTCTGCTCGCTGCAACTTCAAGGAGATAAGGCTAGTGGTTTCAATTTGCTCCACTATAACTTCT
1 AGTCTGCTCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTCA
** **
100323377 GGAAGATAAGA-TCTGTTATCTTC
66 AAAAGATAAGATTC-GCCATCTTC
*
100323400 AGTCTGCTCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACAACTTC
1 AGTCTGCTC-GCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTC
*
100323465 AAAAATATAAGATTCGCCATCTTC
65 AAAAAGATAAGATTCGCCATCTTC
* * *
100323489 AGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTTCACTACAACTTC
1 AGTCTGCT-CGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTC
*
100323554 AAGAAA-ATAAGATTTGCCAT
65 AA-AAAGATAAGATTCGCCAT
100323574 AATTTGTAGC
Statistics
Matches: 152, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
88 9 0.06
89 137 0.90
90 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (88 bp):
AGTCTGCTCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTACAACTTCA
AAAAGATAAGATTCGCCATCTTC
Found at i:100323462 original size:44 final size:44
Alignment explanation
Indices: 100323325--100323554 Score: 147
Period size: 44 Copynumber: 5.2 Consensus size: 44
100323315 CTGCTCGCTG
* * * * *
100323325 CAACTTCAAGGAGATAAGGCTAGTGGTTTCAATTTGCTCCACTA
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTA
* * * * * ** * * *
100323369 TAACTTCTGGAAGATAAGATCTGTTATCTTCAGTCTGC-TCTGCTG
1 CAACTTCAGGGAGATAAG-GCTGGTGGCTTCAATCTGCTTC-ACTA
*
100323414 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTA
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTA
*** * ** **** * * *
100323458 CAACTTCAAAAATATAAGATTCGCCATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGGCT-GGTGGCTTCAATCTGCTTCACTA
* *
100323503 CAACTTTAGGGAGATAAGGCTGGTGGCTTCAATCTACTTCACTA
1 CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTA
100323547 CAACTTCA
1 CAACTTCA
100323555 AGAAAATAAG
Statistics
Matches: 126, Mismatches: 56, Indels: 8
0.66 0.29 0.04
Matches are distributed among these distances:
44 67 0.53
45 59 0.47
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTA
Found at i:100323586 original size:320 final size:320
Alignment explanation
Indices: 100323149--100323804 Score: 872
Period size: 320 Copynumber: 2.0 Consensus size: 320
100323139 AACATCAGGG
* *
100323149 AAATAAGATTCGCTATCTCCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCA
1 AAATAAGATTCGCCATCTCCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCA
* * * * * * *
100323214 ATCTGCTCCACAGTAACTTTAGGAAGATAAGATTTGCCATCATTTATAGCTTTAATCTATTCCAC
66 ATCTACTCCACAGCAACTTCAAGAAAATAAGATTTGCCATAATTTATAGCTTTAATATATTCCAC
* ** * ** *
100323279 TTCAATGTCAGGGAAATAAGATTTGCTGTC-TCTAGTCTGCT-CGCTGCAACTTCA-AGGAGATA
131 TGCAACATCAAGGAAATAAGATTCACTGTCTTC-AGTCTACTCCGCTGCAACTTCAGA-GAGATA
* * * * * **
100323341 AGGCTAGTGGTTTCAATTTGCTCCACTATAACTTCTGGAAGATAAGATCTGTTATCTTCAGTCTG
194 AGGCCAGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATCTGCCATCTTCAGTCTG
* * * *
100323406 CTCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACAACTTCA-AA
259 CTCCGCT-CAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTACAACTTCAGAA
* * *
100323468 AATATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTC
1 AA-ATAAGATTCGCCATCTCCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTC
* * *
100323533 AATCTACTTCACTA-CAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATATGTTCC
65 AATCTACTCCAC-AGCAACTTCAAGAAAATAAGATTTGCCATAATTTATAGCTTTAATATATTCC
100323597 ACTGCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATA
129 ACTGCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATA
* * * *
100323662 AGGCCGGTGGCTTCAATCTGCTCCATTACAACTTCAGGAATATAAGATTTGCCATCTTCAGTCTG
194 AGGCCAGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATCTGCCATCTTCAGTCTG
* *
100323727 CTCCGCTCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTGCAACTTCAGGA
259 CTCCGCTCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTACAACTTCAGAA
*
100323789 AAATGAGATTCGCCAT
1 AAATAAGATTCGCCAT
100323805 AATTTGTAGC
Statistics
Matches: 291, Mismatches: 40, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
319 2 0.01
320 203 0.70
321 85 0.29
322 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (320 bp):
AAATAAGATTCGCCATCTCCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCA
ATCTACTCCACAGCAACTTCAAGAAAATAAGATTTGCCATAATTTATAGCTTTAATATATTCCAC
TGCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATAAG
GCCAGTGGCTTCAATCTGCTCCACTACAACTTCAGGAAGATAAGATCTGCCATCTTCAGTCTGCT
CCGCTCAACTTCAGGGAGATAAGGCTAGTGGCTTCAATCTACTTCACTACAACTTCAGAA
Found at i:100323760 original size:88 final size:89
Alignment explanation
Indices: 100323594--100323804 Score: 255
Period size: 88 Copynumber: 2.4 Consensus size: 89
100323584 TTTAATATGT
* * * **
100323594 TCCACTGCAACATCAAGG-AAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGA
1 TCCACTACAACTTC-AGGAAAATAAGATTCGCCATCTTCAGTCTACTCCGCTGCAACTTCAGAGA
* *
100323658 GATAAGGCCGGTGGCTTCAATCTGC
65 GATAAGGCCAGTGGCTTCAATCTAC
* * * * *
100323683 TCCATTACAACTTCAGGAATATAAGATTTGCCATCTTCAGTCTGCTCCGCT-CAACTTCAGGGAG
1 TCCACTACAACTTCAGGAAAATAAGATTCGCCATCTTCAGTCTACTCCGCTGCAACTTCAGAGAG
*
100323747 ATAAGGCTAGTGGCTTCAATCTAC
66 ATAAGGCCAGTGGCTTCAATCTAC
* * *
100323771 TTCACTGCAACTTCAGGAAAATGAGATTCGCCAT
1 TCCACTACAACTTCAGGAAAATAAGATTCGCCAT
100323805 AATTTGTAGC
Statistics
Matches: 102, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
88 64 0.63
89 38 0.37
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (89 bp):
TCCACTACAACTTCAGGAAAATAAGATTCGCCATCTTCAGTCTACTCCGCTGCAACTTCAGAGAG
ATAAGGCCAGTGGCTTCAATCTAC
Found at i:100323852 original size:231 final size:231
Alignment explanation
Indices: 100323008--100324171 Score: 1117
Period size: 231 Copynumber: 5.0 Consensus size: 231
100322998 TTTCAGGGAA
* * * * * *
100323008 ATAAGATTAGCTATCTTCAATCTGCTCCGCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAAT
1 ATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* * * * * * *
100323073 CTACTCCACTGCAACTTCAGGAAGATAAGATTTGTCACAATTTGTAGCTTTAATTTGTTCCACTG
66 CTACTTCACTACAACTTCA-GAAAATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
* * * * * *
100323138 CAACATCAGGGAAATAAGATTCGCTATCTCCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGC
130 CAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGC
* * *
100323203 TGGTGGCTTCAATCTGCTCCAC-AGTAACTTTAGGAAG
195 TGGTGGCTTCAATCTGCTCCACTA-CAACTTCAAGAAG
* ** * * * **
100323240 ATAAGATTTGCCATCATTTATAGCTTTAATCTATTCCACTTCAA-TGTCAGGGAAATAAGATTTG
1 ATAAGATTTGCCATC---T-T--C---AGTCTGCTCCGCTGCAACT-TCAGGGAGATAAG-GCTG
* * * * * * * * *
100323304 CTGTC-TCTAGTCTGC-TCGCTGCAACTTCAAGGAGATAAG----G-C-T-A---GT-GGTTTCA
55 GTGGCTTC-AATCTACTTCACTACAACTTC-AGAAAATAAGATTCGCCATAATTTGTAGCTTT-A
* * ** * * ** * *
100323356 ATTTGCTCCACTATAACTTC-TGGAAGATAAGA-TCTGTTATCTTCAGTCTGCTCTGCTGCAACT
117 ATCTGTTCCACTGCAACATCAAGGAA-ATAAGATTC-ACTGTCTTCAGTCTGCTCCGCTGCAACT
* * * * *
100323419 TCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACAACTTCAAAAAT
180 TCAGAGAGATAAGGCTGGTGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
* * *
100323471 ATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* *
100323536 CTACTTCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATATGTTCCACTG
66 CTACTTCACTACAACTTC-AGAAAATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
*
100323601 CAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATAAGGC
130 CAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGC
* * * *
100323666 CGGTGGCTTCAATCTGCTCCATTACAACTTCAGGAAT
195 TGGTGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
*
100323703 ATAAGATTTGCCATCTTCAGTCTGCTCCGCT-CAACTTCAGGGAGATAAGGCTAGTGGCTTCAAT
1 ATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
* *
100323767 CTACTTCACTGCAACTTCAGGAAAATGAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
66 CTACTTCACTACAACTTCA-GAAAATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTG
* * ** * *
100323832 CAACGTCAAGGAAATAAGATTCACTGTCTTTAGTCTGCTCCGCTATAACTTTAGAGGGATAAGGC
130 CAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGC
* *
100323897 TGGTGGCTTCAATCTACTCCACTGCAACTTCAAGAAG
195 TGGTGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
* * * * *
100323934 ATAAGATCTT-CTATCTTCAGTCTACTCAGCTGCAACTTCAAGGAGTTAA-GCTGGTGGCTTCAA
1 ATAAGAT-TTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAA
* * * * *
100323997 TCTGCTCCACTACAACTCCAGAAAGATAAGATTCTCCATAATTTGTAGCTTTAATCTATTCCACT
65 TCTACTTCACTACAACTTCAGAAA-ATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACT
* * ** * * * *
100324062 GTAACATCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTTCACTGTAACTTCAGGGAGATAAGG
129 GCAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGG
* * * *
100324127 CTGGTGGCTTCAATCTGCTTCACTGCGACTTCAGGAAG
194 CTGGTGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
100324165 ATAAGAT
1 ATAAGAT
100324172 CTACCATATT
Statistics
Matches: 776, Mismatches: 119, Indels: 75
0.80 0.12 0.08
Matches are distributed among these distances:
221 10 0.01
222 46 0.06
223 1 0.00
225 1 0.00
226 1 0.00
227 2 0.00
228 2 0.00
229 1 0.00
230 15 0.02
231 470 0.61
232 154 0.20
233 10 0.01
234 1 0.00
235 1 0.00
236 2 0.00
237 1 0.00
238 1 0.00
240 1 0.00
241 45 0.06
242 11 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (231 bp):
ATAAGATTTGCCATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
CTACTTCACTACAACTTCAGAAAATAAGATTCGCCATAATTTGTAGCTTTAATCTGTTCCACTGC
AACATCAAGGAAATAAGATTCACTGTCTTCAGTCTGCTCCGCTGCAACTTCAGAGAGATAAGGCT
GGTGGCTTCAATCTGCTCCACTACAACTTCAAGAAG
Found at i:100323895 original size:463 final size:457
Alignment explanation
Indices: 100323008--100324171 Score: 1248
Period size: 463 Copynumber: 2.5 Consensus size: 457
100322998 TTTCAGGGAA
* * * * *
100323008 ATAAGATTAGCTATCTTCAATCTGCTCCGCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAAT
1 ATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAAT
* * * * * *
100323073 CTACTCCACTGCAACTTCAGGAAGATAAGATTTGTCACAATTTGTAGCTTTAATTTGTTCCACTG
66 CTACTCCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATATGTTCCACTG
* *
100323138 CAACATCAGGGAAATAAGATTCGCTATCTCCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGC
131 CAACATCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGC
* * *
100323203 TGGTGGCTTCAATCTGCTCCACAGTAACTTTAGGAAGATAAGATTTGCCATCATTTATAGCTTTA
196 TGGTGGCTTCAATCTGCTCCATA-CAACTTCAGGAAGATAAGATTTGCCATC--TTATA-C--TA
* * * * * * *
100323268 ATCTATTCCACTTCAATGTCAGGGAAATAAGATTTGCTGTCTCTAGTCTGCTCGCTGCAACTTCA
255 ATCTACTCCACTTCAATGTCAGGGAAATAAGACTAGCTGGCTCTAATCTACTCACTGCAACTTCA
* * * * * * * **
100323333 AGGAGATAAGGCTAGTGGTTTCAATTTGCTCCACTATAACTTCTGGAAGATAAGATCTGTTATCT
320 AGGAAATAAGCCTAGTGCTTTCAATCTGCTCCACTACAACGTCAGGAAGATAAGATCTACTATCT
* * * * *
100323398 TCAGTCTGCTCTGCTGCAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCATTACAACT
385 TCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACT
*
100323463 TCAAAAAT
450 TCAAAAAG
* * *
100323471 ATAAGATTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGGCTGGTGGCTTCAAT
1 ATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAAT
*
100323536 CTACTTCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATATGTTCCACTG
66 CTACTCCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATATGTTCCACTG
* * *
100323601 CAACATCAAGGAAATAAGATTCACTGTCTTCAGTCTACTCCGCTGCAACTTCAGAGAGATAAGGC
131 CAACATCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGC
* * * *
100323666 CGGTGGCTTCAATCTGCTCCATTACAACTTCAGGAATATAAGATTTGCCATC-T-T-C-AGTCTG
196 TGGTGGCTTCAATCTGCTCCA-TACAACTTCAGGAAGATAAGATTTGCCATCTTATACTAATCTA
* * *
100323727 CTCCGC-TCAACT-TCAGGGAGATAAGGCTAG-TGGCT-TCAATCTACTTCACTGCAACTTC-AG
260 CTCCACTTCAA-TGTCAGGGAAATAAGACTAGCTGGCTCT-AATCTAC-TCACTGCAACTTCAAG
* *
100323787 GAAAATGAGATTCGCCATAATTTGTAGCTTT-AATCTGTTCCACTGCAACGTCAAGGAA-ATAAG
322 G-AAAT-A-A---GCC-T-A---GT-GCTTTCAATCTGCTCCACTACAACGTC-AGGAAGATAAG
* * * *
100323850 AT-TCACTGTCTTTAGTCTGCTCCGCTATAACTTTAGAGG-GATAAGGCTGGTGGCTTCAATCTA
374 ATCT-ACTATCTTCAGTCTGCTCCGCTACAACTTCAG-GGAGATAAGGCTGGTGGCTTCAATCTA
* *
100323913 CTCCACTGCAACTTCAAGAAG
437 CTCCACTACAACTTCAAAAAG
* * *
100323934 ATAAGA-TCTTCTATCTTCAGTCTACT-CAGCTGCAACTTCAAGGAGTTAA-GCTGGTGGCTTCA
1 ATAAGATTC-GCTATCTTCAGTCTGCTCCA-CTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCA
* * * *
100323996 ATCTGCTCCACTACAAC-TCCAGAAAGATAAGATTCT-CCATAATTTGTAGCTTTAATCTATTCC
64 ATCTACTCCACTACAACTTCAAGAAA-ATAAGATT-TGCCATAATTTGTAGCTTTAATATGTTCC
* * * * * *
100324059 ACTGTAACATCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTTCACTGTAACTTCAGGGAGATA
127 ACTGCAACATCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATA
* * *
100324124 AGGCTGGTGGCTTCAATCTGCTTCACTGCGACTTCAGGAAGATAAGAT
192 AGGCTGGTGGCTTCAATCTGCTCCA-TACAACTTCAGGAAGATAAGAT
100324172 CTACCATATT
Statistics
Matches: 592, Mismatches: 86, Indels: 47
0.82 0.12 0.06
Matches are distributed among these distances:
451 1 0.00
452 12 0.02
453 33 0.06
454 10 0.02
455 1 0.00
457 1 0.00
458 2 0.00
459 2 0.00
460 2 0.00
461 7 0.01
462 164 0.28
463 346 0.58
464 11 0.02
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (457 bp):
ATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAAGGAGATAAGGCTGGTGGCTTCAAT
CTACTCCACTACAACTTCAAGAAAATAAGATTTGCCATAATTTGTAGCTTTAATATGTTCCACTG
CAACATCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTCAGGGAGATAAGGC
TGGTGGCTTCAATCTGCTCCATACAACTTCAGGAAGATAAGATTTGCCATCTTATACTAATCTAC
TCCACTTCAATGTCAGGGAAATAAGACTAGCTGGCTCTAATCTACTCACTGCAACTTCAAGGAAA
TAAGCCTAGTGCTTTCAATCTGCTCCACTACAACGTCAGGAAGATAAGATCTACTATCTTCAGTC
TGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTACTCCACTACAACTTCAAAA
AG
Found at i:100323971 original size:89 final size:87
Alignment explanation
Indices: 100323825--100324030 Score: 220
Period size: 89 Copynumber: 2.3 Consensus size: 87
100323815 TTTAATCTGT
* * * * * *
100323825 TCCACTGCAACGTCAAGGAA-ATAAGATTCACTGTCTTTAGTCTGCTCCGCTATAACTTTAGAGG
1 TCCACTGCAAC-TCAA-GAAGATAAGATTCACTATCTTCAGTCTACTCAGCTACAACTTCA-AGG
100323889 -GATAAGGCTGGTGGCTTCAATCTAC
63 AGATAA-GCTGGTGGCTTCAATCTAC
* *
100323914 TCCACTGCAACTTCAAGAAGATAAGA-TCTTCTATCTTCAGTCTACTCAGCTGCAACTTCAAGGA
1 TCCACTGCAAC-TCAAGAAGATAAGATTC-ACTATCTTCAGTCTACTCAGCTACAACTTCAAGGA
* *
100323978 GTTAAGCTGGTGGCTTCAATCTGC
64 GATAAGCTGGTGGCTTCAATCTAC
* *
100324002 TCCACTACAACTCCAGAAAGATAAGATTC
1 TCCACTGCAACTCAAG-AAGATAAGATTC
100324031 TCCATAATTT
Statistics
Matches: 99, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
87 4 0.04
88 45 0.45
89 50 0.51
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.28
Consensus pattern (87 bp):
TCCACTGCAACTCAAGAAGATAAGATTCACTATCTTCAGTCTACTCAGCTACAACTTCAAGGAGA
TAAGCTGGTGGCTTCAATCTAC
Found at i:100324109 original size:45 final size:44
Alignment explanation
Indices: 100324058--100324151 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
100324048 TAATCTATTC
** * *
100324058 CACTGTAACATCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTT
1 CACTGTAACATCAGGGAAATAAG-GCTGCTGGCTTCAATCTGCTT
* * *
100324103 CACTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTT
1 CACTGTAACATCAGGGAAATAAGGCTGCTGGCTTCAATCTGCTT
100324147 CACTG
1 CACTG
100324152 CGACTTCAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 21 0.50
45 21 0.50
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (44 bp):
CACTGTAACATCAGGGAAATAAGGCTGCTGGCTTCAATCTGCTT
Found at i:100324183 original size:142 final size:142
Alignment explanation
Indices: 100323902--100324183 Score: 349
Period size: 142 Copynumber: 2.0 Consensus size: 142
100323892 AAGGCTGGTG
*
100323902 GCTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATCTTCTATCTTCAGTCTACTCAGCTGC
1 GCTTCAATCTACTCCACTGCAACATCAAGAAGATAAGATCTTCTATCTTCAGTCTACTCAGCTGC
*
100323967 AACTTCAAGGAGTTAAGCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGATTCT
66 AACTTCAAGGAGATAAGCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGATTCT
100324032 CCATAATTTGTA
131 CCATAATTTGTA
* * * * * *
100324044 GCTTTAATCTATTCCACTGTAACATCAGGGAA-ATAAGAT-TTGCTGTCTTCAGTCTGCTTCA-C
1 GCTTCAATCTACTCCACTGCAACATCA-AGAAGATAAGATCTT-CTATCTTCAGTCTAC-TCAGC
* * * * * * *
100324106 TGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCGACTTCAGGAAGATAAGA
63 TGCAACTTCAAGGAGATAA-GCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGA
100324171 -TCTACCAT-ATTTG
127 TTCT-CCATAATTTG
100324184 ATCTACTCCA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
141 2 0.02
142 68 0.57
143 50 0.42
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (142 bp):
GCTTCAATCTACTCCACTGCAACATCAAGAAGATAAGATCTTCTATCTTCAGTCTACTCAGCTGC
AACTTCAAGGAGATAAGCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGATTCT
CCATAATTTGTA
Found at i:100330355 original size:18 final size:19
Alignment explanation
Indices: 100330323--100330359 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
100330313 TGGTCTCGAT
100330323 TTTTCTAAAGGTATCAATA
1 TTTTCTAAAGGTATCAATA
*
100330342 TTTTC-AAAGTTATCAATA
1 TTTTCTAAAGGTATCAATA
100330360 CTTGTCCATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTTCTAAAGGTATCAATA
Found at i:100330452 original size:20 final size:20
Alignment explanation
Indices: 100330421--100330472 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
100330411 TAAAAAAAAT
*
100330421 TTAAAATGATTTTAACATGA
1 TTAAAATCATTTTAACATGA
* * * *
100330441 TTGAAATCATTTTGACTTGG
1 TTAAAATCATTTTAACATGA
100330461 TTAAAATCATTT
1 TTAAAATCATTT
100330473 GCACTTGATT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.44
Consensus pattern (20 bp):
TTAAAATCATTTTAACATGA
Found at i:100332121 original size:33 final size:33
Alignment explanation
Indices: 100332075--100332145 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
100332065 AAATTCATAT
* *
100332075 ATCATGTATATCATTTGTAACATTTCACTCTCA
1 ATCATGTACATCATTTGAAACATTTCACTCTCA
100332108 ATCATGTACATCATTTGAAACATTTCACTCTCA
1 ATCATGTACATCATTTGAAACATTTCACTCTCA
100332141 ATCAT
1 ATCAT
100332146 ATAAACAGTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.39
Consensus pattern (33 bp):
ATCATGTACATCATTTGAAACATTTCACTCTCA
Found at i:100336314 original size:44 final size:44
Alignment explanation
Indices: 100336248--100336402 Score: 152
Period size: 44 Copynumber: 3.5 Consensus size: 44
100336238 GATTAGCTAT
* *
100336248 CTTCAATCTGCTCCGCTACAACTTCAAGGAGATAAGGCTGATGG
1 CTTCAATCTACTCCACTACAACTTCAAGGAGATAAGGCTGATGG
* * * ** **
100336292 CTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATCTTCTAT
1 CTTCAATCTACTCCACTACAACTTCAAGGAGATAAG-GCTGATGG
* * * *
100336337 CTTCAGTCTACT-CAGCTGCAACTTCAAGGAGTTAA-GCTGGTGG
1 CTTCAATCTACTCCA-CTACAACTTCAAGGAGATAAGGCTGATGG
*
100336380 CTTCAATCTGCTCCACTACAACT
1 CTTCAATCTACTCCACTACAACT
100336403 CCAGAAAGAT
Statistics
Matches: 88, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
43 20 0.23
44 36 0.41
45 32 0.36
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (44 bp):
CTTCAATCTACTCCACTACAACTTCAAGGAGATAAGGCTGATGG
Found at i:100336356 original size:45 final size:45
Alignment explanation
Indices: 100336207--100336364 Score: 144
Period size: 45 Copynumber: 3.5 Consensus size: 45
100336197 TTGTAGCTTT
* * *
100336207 AATCTACTCCGCTGCAATTTCAGGGAA-ATAAGAT-TAGCTATCTTC
1 AATCTACTCAGCTGCAACTTCA-AGAAGATAAGATCT-GCTATCTTC
* * * * * * **
100336252 AATCTGCTCCGCTACAACTTCAAGGAGATAAG-GCTGATGGCTTC
1 AATCTACTCAGCTGCAACTTCAAGAAGATAAGATCTGCTATCTTC
*
100336296 AATCTACTCCA-CTGCAACTTCAAGAAGATAAGATCTTCTATCTTC
1 AATCTACT-CAGCTGCAACTTCAAGAAGATAAGATCTGCTATCTTC
*
100336341 AGTCTACTCAGCTGCAACTTCAAG
1 AATCTACTCAGCTGCAACTTCAAG
100336365 GAGTTAAGCT
Statistics
Matches: 89, Mismatches: 19, Indels: 10
0.75 0.16 0.08
Matches are distributed among these distances:
44 36 0.40
45 53 0.60
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.28
Consensus pattern (45 bp):
AATCTACTCAGCTGCAACTTCAAGAAGATAAGATCTGCTATCTTC
Found at i:100336359 original size:89 final size:88
Alignment explanation
Indices: 100336202--100336418 Score: 251
Period size: 89 Copynumber: 2.5 Consensus size: 88
100336192 ATAACTTGTA
* * * * * *
100336202 GCTTTAATCTACTCCGCTGCAATTTCAGGGAA-ATAAGATTAGCTATCTTCAATCTGCTCCGCTA
1 GCTTCAATCTACTCCACTGCAACTTCA-AGAAGATAAGATTAGCTATCTTCAATCTACTCAGCTA
100336266 CAACTTCAAGGAGATAAGGCTGATG
65 CAACTTCAAGGAGATAA-GCTGATG
* * *
100336291 GCTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATCT-TCTATCTTCAGTCTACTCAGCTG
1 GCTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGAT-TAGCTATCTTCAATCTACTCAGCTA
* *
100336355 CAACTTCAAGGAGTTAAGCTGGTG
65 CAACTTCAAGGAGATAAGCTGATG
* * *
100336379 GCTTCAATCTGCTCCACTACAAC-TCCAGAAAGATAAGATT
1 GCTTCAATCTACTCCACTGCAACTTCAAG-AAGATAAGATT
100336419 CTCCATAATT
Statistics
Matches: 111, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
87 5 0.05
88 40 0.36
89 65 0.59
90 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (88 bp):
GCTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATTAGCTATCTTCAATCTACTCAGCTAC
AACTTCAAGGAGATAAGCTGATG
Found at i:100336412 original size:88 final size:89
Alignment explanation
Indices: 100336244--100336417 Score: 244
Period size: 88 Copynumber: 2.0 Consensus size: 89
100336234 ATAAGATTAG
* *
100336244 CTATCTTCAATCTGCTCCGCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACT
1 CTATCTTCAATCTACTCAGCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACT
* *
100336309 GCAACTTCAAGAAGATAAGATCTT
66 ACAACTCCAAGAAGATAAGATCTT
* * * * *
100336333 CTATCTTCAGTCTACTCAGCTGCAACTTCAAGGAGTTAA-GCTGGTGGCTTCAATCTGCTCCACT
1 CTATCTTCAATCTACTCAGCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACT
100336397 ACAACTCC-AGAAAGATAAGAT
66 ACAACTCCAAG-AAGATAAGAT
100336418 TCTCCATAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
87 2 0.03
88 39 0.52
89 34 0.45
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (89 bp):
CTATCTTCAATCTACTCAGCTACAACTTCAAGGAGATAAGGCTGATGGCTTCAATCTACTCCACT
ACAACTCCAAGAAGATAAGATCTT
Found at i:100336498 original size:45 final size:44
Alignment explanation
Indices: 100336447--100336540 Score: 116
Period size: 44 Copynumber: 2.1 Consensus size: 44
100336437 TAATCTATTC
** * *
100336447 CACTGTAACATCAGGGAAATAAGATTTGCTGTCTTCAGTCTGCTT
1 CACTGTAACATCAGGGAAATAAG-GCTGCTGGCTTCAATCTGCTT
* * *
100336492 CACTGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTT
1 CACTGTAACATCAGGGAAATAAGGCTGCTGGCTTCAATCTGCTT
100336536 CACTG
1 CACTG
100336541 CGACTTCAGG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
44 21 0.50
45 21 0.50
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (44 bp):
CACTGTAACATCAGGGAAATAAGGCTGCTGGCTTCAATCTGCTT
Found at i:100336572 original size:142 final size:142
Alignment explanation
Indices: 100336291--100336572 Score: 349
Period size: 142 Copynumber: 2.0 Consensus size: 142
100336281 AAGGCTGATG
*
100336291 GCTTCAATCTACTCCACTGCAACTTCAAGAAGATAAGATCTTCTATCTTCAGTCTACTCAGCTGC
1 GCTTCAATCTACTCCACTGCAACATCAAGAAGATAAGATCTTCTATCTTCAGTCTACTCAGCTGC
*
100336356 AACTTCAAGGAGTTAAGCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGATTCT
66 AACTTCAAGGAGATAAGCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGATTCT
100336421 CCATAATTTGTA
131 CCATAATTTGTA
* * * * * *
100336433 GCTTTAATCTATTCCACTGTAACATCAGGGAA-ATAAGAT-TTGCTGTCTTCAGTCTGCTTCA-C
1 GCTTCAATCTACTCCACTGCAACATCA-AGAAGATAAGATCTT-CTATCTTCAGTCTAC-TCAGC
* * * * * * *
100336495 TGTAACTTCAGGGAGATAAGGCTGGTGGCTTCAATCTGCTTCACTGCGACTTCAGGAAGATAAGA
63 TGCAACTTCAAGGAGATAA-GCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGA
100336560 -TCTACCAT-ATTTG
127 TTCT-CCATAATTTG
100336573 ATCTACTCCA
Statistics
Matches: 120, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
141 2 0.02
142 68 0.57
143 50 0.42
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (142 bp):
GCTTCAATCTACTCCACTGCAACATCAAGAAGATAAGATCTTCTATCTTCAGTCTACTCAGCTGC
AACTTCAAGGAGATAAGCTGGTGGCTTCAATCTGCTCCACTACAACTCCAGAAAGATAAGATTCT
CCATAATTTGTA
Found at i:100338201 original size:22 final size:22
Alignment explanation
Indices: 100338176--100338236 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
100338166 ATACGATTGC
*
100338176 CACACAGCCATAATCAGGTTGG
1 CACAAAGCCATAATCAGGTTGG
* *
100338198 CACAGAGCCAT-ATGTAGGTTGG
1 CACAAAGCCATAAT-CAGGTTGG
**
100338220 TGCAAAGCCATAATCAG
1 CACAAAGCCATAATCAG
100338237 AATAATTGGC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
CACAAAGCCATAATCAGGTTGG
Found at i:100338440 original size:41 final size:41
Alignment explanation
Indices: 100338378--100338496 Score: 195
Period size: 41 Copynumber: 2.9 Consensus size: 41
100338368 TAAAAGCGAC
* *
100338378 CGGTGGATCCACGATCCTCAAGCAACCATGTGATCCTTAAT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
*
100338419 CGGTGGATCCA-TAGTCGTCAAGCAACCATGCGATCCTTAAT
1 CGGTGGATCCACGA-TCGTCAAGCAACCATGCGATCCTTAAT
100338460 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCT
1 CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCT
100338497 CAATTTCTTC
Statistics
Matches: 72, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.01
41 70 0.97
42 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (41 bp):
CGGTGGATCCACGATCGTCAAGCAACCATGCGATCCTTAAT
Found at i:100338780 original size:27 final size:27
Alignment explanation
Indices: 100338750--100338808 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
100338740 AGGGTGTTTT
100338750 GGTAAATCTACAAACCAA-GGTTATTTC
1 GGTAAATCTACAAACCAATGG-TATTTC
* * *
100338777 GGTAATTTTGCAAACCAATGGTATTTC
1 GGTAAATCTACAAACCAATGGTATTTC
*
100338804 TGTAA
1 GGTAA
100338809 TTTTTTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 25 0.93
28 2 0.07
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (27 bp):
GGTAAATCTACAAACCAATGGTATTTC
Found at i:100338910 original size:27 final size:26
Alignment explanation
Indices: 100338758--100339074 Score: 192
Period size: 27 Copynumber: 11.7 Consensus size: 26
100338748 TTGGTAAATC
* * *
100338758 TACAAACCAAGGTTATTTCGGTAATTT
1 TACAAATCAAGGGTA-TTCTGTAATTT
* * *
100338785 TGCAAACCAATGGTATTTCTGTAATTTT
1 TACAAATCAAGGGTA-TTCTGTAA-TTT
**
100338813 TTGAAAGTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTA-TTCTGTAATTT
** * *
100338841 TGTAAAT-TAGGGATACTCTTGTAATTT
1 TACAAATCAAGGG-TATTC-TGTAATTT
** *
100338868 TGTAAATTAAGGGTATTCCTGTAATTT
1 TACAAATCAAGGGTATT-CTGTAATTT
* *
100338895 TATAAATCAAGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTCTG-TAATTT
**
100338922 TACAAATTGAGGGTATT-TCGATAATTT
1 TACAAATCAAGGGTATTCT-G-TAATTT
*
100338949 TACAAATCGAGGGTATT-TCGATAATTT
1 TACAAATCAAGGGTATTCT-G-TAATTT
* * *
100338976 CACAAATAAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTCT-GTAATTT
* *
100339003 TACAAA-CCAGGGATATTTTGGTAATTT
1 TACAAATCAAGGG-TATTCT-GTAATTT
* *
100339030 TACAAATTAAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTCT-GTAATTT
* *
100339057 TACAAATCGAGGGCATTC
1 TACAAATCAAGGGTATTC
100339075 AATAATTCTA
Statistics
Matches: 245, Mismatches: 34, Indels: 22
0.81 0.11 0.07
Matches are distributed among these distances:
26 13 0.05
27 191 0.78
28 25 0.10
29 16 0.07
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.40
Consensus pattern (26 bp):
TACAAATCAAGGGTATTCTGTAATTT
Found at i:100338920 original size:54 final size:52
Alignment explanation
Indices: 100338778--100339069 Score: 230
Period size: 54 Copynumber: 5.4 Consensus size: 52
100338768 GGTTATTTCG
* * * ** *
100338778 GTAATTTTGCAAACCAATGGTATTTCTGTAATTTTTTGAAAGTCAAGGGTATTTCT
1 GTAATTTTACAAATCAAGGGTATTT-TGTAA-TTTTACAAA-TTAAGGGTA-TTCT
** * * **
100338834 GTAATTTTGTAAAT-TAGGGATACTCTTGTAATTTTGTAAATTAAGGGTATTCCT
1 GTAATTTTACAAATCAAGGG-TA-TTTTGTAATTTTACAAATTAAGGGTATT-CT
* *
100338888 GTAATTTTATAAATCAAGGGTATTTTGATAATTTTACAAATTGAGGGTATT-T
1 GTAATTTTACAAATCAAGGGTATTTTG-TAATTTTACAAATTAAGGGTATTCT
* * * * *
100338940 CGATAATTTTACAAATCGAGGGTATTTCGATAATTTCACAAATAAAGGGTATTTT
1 -G-TAATTTTACAAATCAAGGGTATTTTG-TAATTTTACAAATTAAGGGTATTCT
* *
100338995 GGTAATTTTACAAA-CCAGGGATATTTTGGTAATTTTACAAATTAAGGGTATTTT
1 -GTAATTTTACAAATCAAGGG-TATTTT-GTAATTTTACAAATTAAGGGTATTCT
*
100339049 GGTAATTTTACAAATCGAGGG
1 -GTAATTTTACAAATCAAGGG
100339070 CATTCAATAA
Statistics
Matches: 199, Mismatches: 26, Indels: 23
0.80 0.10 0.09
Matches are distributed among these distances:
52 1 0.01
53 12 0.06
54 143 0.72
55 22 0.11
56 19 0.10
57 2 0.01
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (52 bp):
GTAATTTTACAAATCAAGGGTATTTTGTAATTTTACAAATTAAGGGTATTCT
Found at i:100338947 original size:81 final size:80
Alignment explanation
Indices: 100338771--100339069 Score: 284
Period size: 81 Copynumber: 3.7 Consensus size: 80
100338761 AAACCAAGGT
* * * **
100338771 TATTTCGGTAATTTTGCAAACCAATGGTATTTCTGTAATTTTTTGAAAGTCAAGGGTATTTCTGT
1 TATTTCGGTAATTTTACAAATCAAGGGTATTTCTGTAA-TTTTACAAA-TCAAGGGTATTT-TGT
**
100338836 AATTTTGTAAATTAGGGA
63 AATTTTACAAATTAGGGA
** * * *
100338854 TACTCTT--GTAATTTTGTAAATTAAGGGTATTCCTGTAATTTTATAAATCAAGGGTATTTTGAT
1 TA-T-TTCGGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTTG-T
100338917 AATTTTACAAATTGAGGG-
63 AATTTTACAAATT-AGGGA
* * * *
100338935 TATTTCGATAATTTTACAAATCGAGGGTATTTC-GATAATTTCACAAATAAAGGGTATTTTGGTA
1 TATTTCGGTAATTTTACAAATCAAGGGTATTTCTG-TAATTTTACAAATCAAGGGTATTTT-GTA
**
100338999 ATTTTACAAACCAGGGA
64 ATTTTACAAATTAGGGA
* * *
100339016 TATTTTGGTAATTTTACAAATTAAGGGTATTT-TGGTAATTTTACAAATCGAGGG
1 TATTTCGGTAATTTTACAAATCAAGGGTATTTCT-GTAATTTTACAAATCAAGGG
100339070 CATTCAATAA
Statistics
Matches: 178, Mismatches: 27, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
79 2 0.01
80 8 0.04
81 124 0.70
82 13 0.07
83 28 0.16
84 1 0.01
85 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.41
Consensus pattern (80 bp):
TATTTCGGTAATTTTACAAATCAAGGGTATTTCTGTAATTTTACAAATCAAGGGTATTTTGTAAT
TTTACAAATTAGGGA
Found at i:100339107 original size:27 final size:27
Alignment explanation
Indices: 100339066--100339143 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
100339056 TTACAAATCG
*
100339066 AGGGCA-TTCAATAATTCTACCCTACA
1 AGGGCATTTCAGTAATTCTACCCTACA
*
100339092 AGGGTATTTCAGTAATTCTACCCTACA
1 AGGGCATTTCAGTAATTCTACCCTACA
*
100339119 GGGGCATTTCAGTAATTCTACCCTA
1 AGGGCATTTCAGTAATTCTACCCTA
100339144 TAGATATGAG
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 5 0.11
27 42 0.89
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.31
Consensus pattern (27 bp):
AGGGCATTTCAGTAATTCTACCCTACA
Found at i:100342145 original size:22 final size:22
Alignment explanation
Indices: 100342109--100342173 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
100342099 GTAAATACGT
* *
100342109 TTGGCACACATCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
100342131 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
100342153 TTAGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
100342174 AATAATTGGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 2 0.06
22 30 0.88
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:100342252 original size:32 final size:33
Alignment explanation
Indices: 100342209--100342275 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 33
100342199 ACTGTGTCAT
*
100342209 GTTAGGCACATAGCCACCAGTGACAGTAATATA
1 GTTAGGCACATAGCCACCAGCGACAGTAATATA
**
100342242 GTTAGG-ACATAGCCACCAGCGATGGTAATATA
1 GTTAGGCACATAGCCACCAGCGACAGTAATATA
100342274 GT
1 GT
100342276 CGGCACACAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
32 25 0.81
33 6 0.19
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.22
Consensus pattern (33 bp):
GTTAGGCACATAGCCACCAGCGACAGTAATATA
Found at i:100342409 original size:41 final size:40
Alignment explanation
Indices: 100342345--100342469 Score: 187
Period size: 41 Copynumber: 3.0 Consensus size: 40
100342335 CTTAAAAGCC
* * *
100342345 ATCGGTGGATCCACGATCGTCAAGCAACCATGTGATCCTTA
1 ATCGGTGGATCCACG-TCATCAAGCAACCATGCGATCCTCA
100342386 ATCGGTGGATCCACAGTCATCAAGCAACCATGCGATCCTCA
1 ATCGGTGGATCCAC-GTCATCAAGCAACCATGCGATCCTCA
*
100342427 ATCGGTGGATCCAGGGTCATCAAGCAACCATGCGATCCTCA
1 ATCGGTGGATCCA-CGTCATCAAGCAACCATGCGATCCTCA
100342468 AT
1 AT
100342470 TTCTTCCTCC
Statistics
Matches: 78, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
41 77 0.99
42 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (40 bp):
ATCGGTGGATCCACGTCATCAAGCAACCATGCGATCCTCA
Found at i:100342889 original size:27 final size:27
Alignment explanation
Indices: 100342762--100342943 Score: 168
Period size: 27 Copynumber: 6.7 Consensus size: 27
100342752 TTTGAAAGTC
* **
100342762 AAGGGTATTTCTGTAATTTTGTAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
* * * *
100342789 AGGGGTATTCCTGTAATTTTTCAAATT
1 AAGGGTATTTCGGTAATTTTACAAATT
*
100342816 AAGGGTATTTCGGTAATTTTCCAAA-T
1 AAGGGTATTTCGGTAATTTTACAAATT
* *
100342842 CAGGGATATTTTGGTAATTTTACAAATT
1 AAGGG-TATTTCGGTAATTTTACAAATT
* * * ** *
100342870 AAGGGTTTTTCGATAGTTTTACAGGTC
1 AAGGGTATTTCGGTAATTTTACAAATT
*
100342897 AAGGGTATTTCGGTAATTTTACAAATC
1 AAGGGTATTTCGGTAATTTTACAAATT
* * *
100342924 AGGGGTATTTTGATAATTTT
1 AAGGGTATTTCGGTAATTTT
100342944 GCTAATCAAA
Statistics
Matches: 126, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
26 5 0.04
27 116 0.92
28 5 0.04
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAATT
Found at i:100342950 original size:27 final size:27
Alignment explanation
Indices: 100342713--100342959 Score: 162
Period size: 27 Copynumber: 9.1 Consensus size: 27
100342703 TACAATGGTG
* * * *
100342713 TTTTGGTAAATCTACAAACCAAAGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
**
100342740 TTTCT-GTAATTTTTTGAAAGTCAAGGGTA
1 TTT-TGGTAA-TTTTACAAA-TCAAGGGTA
** * *
100342769 TTTCT-GTAATTTTGTAAATTAGGGGTA
1 TTT-TGGTAATTTTACAAATCAAGGGTA
* * *
100342796 TTCCT-GTAATTTTTCAAATTAAGGGTA
1 TT-TTGGTAATTTTACAAATCAAGGGTA
* *
100342823 TTTCGGTAATTTTCCAAATC-AGGGATA
1 TTTTGGTAATTTTACAAATCAAGGG-TA
*
100342850 TTTTGGTAATTTTACAAATTAAGGGT-
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * **
100342876 TTTTCGATAGTTTTACAGGTCAAGGGTA
1 TTTT-GGTAATTTTACAAATCAAGGGTA
* *
100342904 TTTCGGTAATTTTACAAATCAGGGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
* * * *
100342931 TTTTGATAATTTTGCTAATCAAAGGTA
1 TTTTGGTAATTTTACAAATCAAGGGTA
100342958 TT
1 TT
100342960 CAGTAATTCT
Statistics
Matches: 173, Mismatches: 38, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
26 8 0.05
27 129 0.75
28 20 0.12
29 16 0.09
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (27 bp):
TTTTGGTAATTTTACAAATCAAGGGTA
Found at i:100343032 original size:27 final size:27
Alignment explanation
Indices: 100342954--100343032 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 27
100342944 GCTAATCAAA
*
100342954 GGTA-TTCAGTAATTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAGG
* * *
100342980 GGCATTACAGTAATTCTACCCAACAGG
1 GGTATTTCAGTAATTCTACCCTACAGG
* *
100343007 GGTATTTCAGTAATACTAGCCTACAG
1 GGTATTTCAGTAATTCTACCCTACAG
100343033 ATATGAGATT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAGG
Found at i:100343269 original size:43 final size:43
Alignment explanation
Indices: 100343208--100343294 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
100343198 CATGCTCGTG
** * *
100343208 TGGCTGCCATTGCTGTGTGACCGACATTTCAGCATTTCGGCAT
1 TGGCTGCCATCACCGTGTGACCGACATTTCAGCATTCCGGCAT
* **
100343251 TGGCTGCCATCACCGTGTGACCGGCATTTTGGCATTCCGGCAT
1 TGGCTGCCATCACCGTGTGACCGACATTTCAGCATTCCGGCAT
100343294 T
1 T
100343295 TGCCATTCTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.31
Consensus pattern (43 bp):
TGGCTGCCATCACCGTGTGACCGACATTTCAGCATTCCGGCAT
Found at i:100352542 original size:12 final size:12
Alignment explanation
Indices: 100352525--100352556 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
100352515 TACTTTACCC
100352525 AATTTCTTCAAT
1 AATTTCTTCAAT
100352537 AATTTCTTCAAT
1 AATTTCTTCAAT
100352549 AATTTCTT
1 AATTTCTT
100352557 TTTCTAACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTTCTTCAAT
Found at i:100354815 original size:19 final size:19
Alignment explanation
Indices: 100354773--100354828 Score: 82
Period size: 19 Copynumber: 3.1 Consensus size: 19
100354763 TTCTTCATAA
100354773 GTATATATCAATCATTTCA-
1 GTATATATCAAT-ATTTCAT
100354792 -T-TATATCAATATTTCAT
1 GTATATATCAATATTTCAT
100354809 GTATATATCAATATTTCAT
1 GTATATATCAATATTTCAT
100354828 G
1 G
100354829 CTCCATCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 6 0.18
17 9 0.26
18 2 0.06
19 17 0.50
ACGTcount: A:0.36, C:0.12, G:0.05, T:0.46
Consensus pattern (19 bp):
GTATATATCAATATTTCAT
Found at i:100355173 original size:46 final size:46
Alignment explanation
Indices: 100355123--100355431 Score: 381
Period size: 46 Copynumber: 6.7 Consensus size: 46
100355113 TGCCATACTG
* * *
100355123 TCTTTCAACTATGGTCTTACTCATATTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCAT-TTCATATCACGTTGCCATGGTA
* * * *
100355169 TCTTTCAACCATGGTCTTATTCATTTTATGTCACGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
* *** *
100355215 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
* * *
100355261 TCTTTCAACCATGGTCTTATTCGTTTCATATCACATTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
* * *
100355307 TCTTTCAACGATGGTCTTA-TACATTTCATATTAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACT-CATTTCATATCACGTTGCCATGGTA
* *
100355353 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
*
100355399 TCTTTCAACCATGGTCTTACAT-ATTTCGTATCA
1 TCTTTCAACCATGGTCTTAC-TCATTTCATATCA
100355432 GAGAGCACAC
Statistics
Matches: 233, Mismatches: 26, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
45 3 0.01
46 230 0.99
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATATCACGTTGCCATGGTA
Found at i:100355270 original size:92 final size:92
Alignment explanation
Indices: 100355123--100355417 Score: 421
Period size: 92 Copynumber: 3.2 Consensus size: 92
100355113 TGCCATACTG
* *
100355123 TCTTTCAACTATGGTCTTACTCATATT-CTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
1 TCTTTCAACCATGGTCTTATTCAT-TTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTT
* * *
100355187 ATTCATTTTATGTCACGCTGCCATGGTA
65 ATTCATTTCATATCACGTTGCCATGGTA
*
100355215 TCTTTCAACCATGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
* *
100355280 TTCGTTTCATATCACATTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
* * * * * *
100355307 TCTTTCAACGATGGTCTTATACATTTCATATTAGGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
** *
100355372 CACATTTCATATCAGGTTGCCATGGTA
66 TTCATTTCATATCACGTTGCCATGGTA
100355399 TCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTA
100355418 CATATTTCGT
Statistics
Matches: 181, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
91 2 0.01
92 179 0.99
ACGTcount: A:0.21, C:0.23, G:0.15, T:0.41
Consensus pattern (92 bp):
TCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
TTCATTTCATATCACGTTGCCATGGTA
Found at i:100357195 original size:14 final size:13
Alignment explanation
Indices: 100357170--100357203 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
100357160 CCTTTTATAC
100357170 TAAATAAATAATAA
1 TAAAT-AATAATAA
100357184 TATAATAATAATAA
1 TA-AATAATAATAA
100357198 TAAATA
1 TAAATA
100357204 TCTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 12 0.63
15 3 0.16
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAATAATAATAA
Found at i:100359688 original size:19 final size:20
Alignment explanation
Indices: 100359657--100359708 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
100359647 ATTAATTTCG
* *
100359657 TGAAATTCAATGCATATG-A
1 TGAAATGCAATGCAGATGCA
*
100359676 TGACATGCAATGCAGATGCA
1 TGAAATGCAATGCAGATGCA
100359696 TGAAATG-AATGCA
1 TGAAATGCAATGCA
100359709 AAAAGAGGCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.40, C:0.13, G:0.21, T:0.25
Consensus pattern (20 bp):
TGAAATGCAATGCAGATGCA
Found at i:100361226 original size:15 final size:15
Alignment explanation
Indices: 100361206--100361235 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
100361196 GGTTTCACTC
*
100361206 CCCAAAAACCTAAAA
1 CCCAAAAACCCAAAA
100361221 CCCAAAAACCCAAAA
1 CCCAAAAACCCAAAA
100361236 ACATAAAGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.37, G:0.00, T:0.03
Consensus pattern (15 bp):
CCCAAAAACCCAAAA
Found at i:100370781 original size:23 final size:23
Alignment explanation
Indices: 100370754--100370800 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
100370744 CAAACATTTC
* *
100370754 AACTACTCAATTCTATAT-TCAAA
1 AACTAC-CAAATCAATATGTCAAA
100370777 AACTACCAAATCAATATGTCAAA
1 AACTACCAAATCAATATGTCAAA
100370800 A
1 A
100370801 TCATCAAGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (23 bp):
AACTACCAAATCAATATGTCAAA
Found at i:100371620 original size:43 final size:43
Alignment explanation
Indices: 100371572--100371673 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
100371562 TCCAAGATAT
* * * *
100371572 GGTCTTACATGTTATCACA-TATCGACGCCATTGTCCCAGGCAG
1 GGTCTTACACGTAATCA-ATTAACGACGCCAATGTCCCAGGCAG
* * *
100371615 GGTCTTACACGTAATCAATTAACGATGTCAATGTCCCAGGCAT
1 GGTCTTACACGTAATCAATTAACGACGCCAATGTCCCAGGCAG
100371658 GGTCTTACACGTAATC
1 GGTCTTACACGTAATC
100371674 TCATCTTGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 50 0.98
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCAATTAACGACGCCAATGTCCCAGGCAG
Found at i:100375251 original size:19 final size:19
Alignment explanation
Indices: 100375208--100375257 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
100375198 TATTGTACAC
100375208 TATA-AAAATTTT-AAAAT
1 TATATAAAATTTTAAAAAT
* *
100375225 TGTGTAAAATTTTAAAAAT
1 TATATAAAATTTTAAAAAT
*
100375244 TATATAAAAATTTA
1 TATATAAAATTTTA
100375258 TTATAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 2 0.08
18 8 0.31
19 16 0.62
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (19 bp):
TATATAAAATTTTAAAAAT
Found at i:100376377 original size:21 final size:22
Alignment explanation
Indices: 100376344--100376387 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
100376334 ATAATAAAAA
100376344 TAATGTTAATAAAAT-ATTTTT
1 TAATGTTAATAAAATGATTTTT
*
100376365 TAAT-TTAATTAAATTGATTTTT
1 TAATGTTAA-TAAAATGATTTTT
100376387 T
1 T
100376388 GTTTATACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 9 0.45
22 7 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TAATGTTAATAAAATGATTTTT
Found at i:100391248 original size:30 final size:32
Alignment explanation
Indices: 100391208--100391273 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 32
100391198 AATAATTTAT
*
100391208 TTTTCTATAATTTTTAAAA-AATTAAATTA-AA
1 TTTTCTATAA-TTTTAAAAGAATTAAAATATAA
*
100391239 TTTT-TATAATTTTAAAAGGATTAAAATATAA
1 TTTTCTATAATTTTAAAAGAATTAAAATATAA
100391270 TTTT
1 TTTT
100391274 ATCTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 8 0.26
30 13 0.42
31 10 0.32
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTTCTATAATTTTAAAAGAATTAAAATATAA
Found at i:100393204 original size:24 final size:24
Alignment explanation
Indices: 100393175--100393222 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
100393165 TGATTTAAAT
100393175 GATAAAATTGAAAGTTTAAACATA
1 GATAAAATTGAAAGTTTAAACATA
100393199 GATAAAATTGAAAGTTTAAACATA
1 GATAAAATTGAAAGTTTAAACATA
100393223 ATGGTTCAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.12, T:0.29
Consensus pattern (24 bp):
GATAAAATTGAAAGTTTAAACATA
Found at i:100398303 original size:29 final size:29
Alignment explanation
Indices: 100398264--100398342 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
100398254 CTTAAAAATC
*
100398264 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
100398294 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
100398323 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
100398343 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:100401293 original size:30 final size:30
Alignment explanation
Indices: 100401259--100401315 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
100401249 TTTACGAGCC
* *
100401259 TAGGGGCAAAAGTATAATTTTGACAAAGTT
1 TAGGGACAAAAATATAATTTTGACAAAGTT
*
100401289 TAGGGACAAAAATATAATTTTGCCAAA
1 TAGGGACAAAAATATAATTTTGACAAA
100401316 ATATGATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (30 bp):
TAGGGACAAAAATATAATTTTGACAAAGTT
Found at i:100406123 original size:28 final size:29
Alignment explanation
Indices: 100406068--100406124 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
100406058 TACAGGGGTT
*
100406068 TTCACACGGCCAAGCACACGCTCATGTCC
1 TTCACACGGCCAAGCACACGCCCATGTCC
* *
100406097 TTCACACGGCCTAG-ACACGCCCGTGTCC
1 TTCACACGGCCAAGCACACGCCCATGTCC
100406125 AAAAACTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 12 0.48
29 13 0.52
ACGTcount: A:0.21, C:0.42, G:0.19, T:0.18
Consensus pattern (29 bp):
TTCACACGGCCAAGCACACGCCCATGTCC
Found at i:100423184 original size:45 final size:44
Alignment explanation
Indices: 100423083--100423303 Score: 284
Period size: 45 Copynumber: 5.0 Consensus size: 44
100423073 CCGAATTCAT
* * * * * *
100423083 TCACTGGCATT-TTGCCTGTTAGGCTCGAAGCCCG-ATATTATT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
* * *
100423125 TCACTGGCATTATAGCCCGCTAGGCTCGAAAGCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGCCCGAATAGTATC
100423170 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTATC
* *
100423215 TCACTGGCATTATAGCCTGCTAGGCTCAATGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAA-AGCCCGAATAGTATC
*
100423260 TCACCGGCATTATAGCCTGCTAAGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAA-GCCCGAATAGTAT
100423304 TGTGCGATAT
Statistics
Matches: 158, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
42 11 0.07
43 12 0.08
44 9 0.06
45 126 0.80
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (44 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGCCCGAATAGTATC
Found at i:100423226 original size:90 final size:90
Alignment explanation
Indices: 100423083--100423303 Score: 315
Period size: 90 Copynumber: 2.5 Consensus size: 90
100423073 CCGAATTCAT
* * * * * *
100423083 TCACTGGCATT-TTGCCTGTTAGGCTCGAA-GCCCG-ATATTATTTCACTGGCATTATAGCCCGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCCGC
100423145 TAGGCTCGAA-AGCCCAAATAGTATC
66 TAGGCTC-AATAGCCCAAATAGTATC
*
100423170 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCTGC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCCGC
* *
100423235 TAGGCTCAATGGCCCGAATAGTATC
66 TAGGCTCAATAGCCCAAATAGTATC
*
100423260 TCACCGGCATTATAGCCTGCTAAGCTCAAAGGCCCGAATAGTAT
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTAT
100423304 TGTGCGATAT
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
87 10 0.08
88 15 0.12
89 7 0.06
90 88 0.73
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (90 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCACTGGCATTATAGCCCGC
TAGGCTCAATAGCCCAAATAGTATC
Found at i:100424138 original size:47 final size:47
Alignment explanation
Indices: 100424082--100424223 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
100424072 AAAATTTTCT
* *
100424082 TTAACTAAGTAACTTATCCGGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
100424129 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
*
100424176 TTAACTAAGTAACTTATCCAGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
100424222 TT
1 TT
100424224 TAAATTCAAC
Statistics
Matches: 92, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 14 0.15
47 78 0.85
ACGTcount: A:0.44, C:0.15, G:0.13, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
Found at i:100430964 original size:40 final size:40
Alignment explanation
Indices: 100430909--100431126 Score: 314
Period size: 40 Copynumber: 5.5 Consensus size: 40
100430899 TGGATGATAA
*
100430909 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
100430949 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
100430989 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
100431029 CCGAGCTAAGTCCCGAAGGCATCTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* ** * *
100431069 CCAGGCTAAGTCCCGAAGGCAGGTGAGCGAG-TAGCCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
100431109 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
100431127 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 17 0.10
40 146 0.90
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:100438859 original size:40 final size:39
Alignment explanation
Indices: 100438792--100438886 Score: 120
Period size: 40 Copynumber: 2.4 Consensus size: 39
100438782 NNNNNNNNNN
* *
100438792 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCA
1 GGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT-CA
* *
100438832 GGTTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATATCT
1 GGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATATCA
*
100438871 GGCTAAATCCCGAAGG
1 GGCTAAGTCCCGAAGG
100438887 TAATTGGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
39 17 0.35
40 31 0.65
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (39 bp):
GGCTAAGTCCCGAAGGCAGTTGAGCGAGTAGCTATATCA
Found at i:100441768 original size:45 final size:45
Alignment explanation
Indices: 100441642--100442845 Score: 2067
Period size: 45 Copynumber: 26.8 Consensus size: 45
100441632 TTTCACCAGT
* * ** *
100441642 ATTATAGCATGCTAGGCTCGAAA-GCCCGAATAGTATCTCACCGGT
1 ATTATAGCTTGCTAGGCTC-AAAGGCTCGAATAGTATCTCACATGC
* * ** *
100441687 ATT-TTGCCTGCTAGGCTTGAA-GCCCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100441730 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100441775 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100441820 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100441865 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100441910 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100441955 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442000 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442045 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442090 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442135 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442180 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442225 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442270 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442315 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442360 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442405 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442450 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442495 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
100442540 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
* * **
100442585 ATTATAGCTTGCTAGGCTCAAAGGCACGAACAGTATCTCACCGGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
* *
100442630 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC-TGGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACAT-GC
* * * **
100442675 ATTATAGCCTGCTAGGCTCAATGGCCCGAATAGTATCTCACCGGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
* *
100442720 ATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC-TGGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACAT-GC
* * * **
100442765 ATTATAGCCTGCTAGGCTCAATGGCCCGAATAGTATCTCACCGGC
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
* * *
100442810 ATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTAT
1 ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTAT
100442846 TGTACGATAT
Statistics
Matches: 1125, Mismatches: 28, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
43 24 0.02
44 26 0.02
45 1075 0.96
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (45 bp):
ATTATAGCTTGCTAGGCTCAAAGGCTCGAATAGTATCTCACATGC
Found at i:100443704 original size:47 final size:47
Alignment explanation
Indices: 100443648--100443789 Score: 250
Period size: 47 Copynumber: 3.0 Consensus size: 47
100443638 AAAATTTTGT
* *
100443648 TTAACTAAGTAACTTATCCAGAAATAATAAGGGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
*
100443695 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
100443742 TTAACTAAGTAACTTATCCAGAAATATTAAGAGC-AATTTAACAAGC
1 TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
100443788 TT
1 TT
100443790 TAAATTTAAC
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 14 0.15
47 77 0.85
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCAGAAATATTAAGAGCAAATTTAACAAGC
Found at i:100445251 original size:26 final size:26
Alignment explanation
Indices: 100445222--100445274 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
100445212 TCAAACATGC
*
100445222 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGAT-AATTTATCTCCTAGGGGT
* *
100445248 ATTTCGATACTTTATCTCCTAGGGGT
1 ATTTAGATAATTTATCTCCTAGGGGT
100445274 A
1 A
100445275 AAACTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 5 0.22
26 18 0.78
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (26 bp):
ATTTAGATAATTTATCTCCTAGGGGT
Found at i:100446561 original size:24 final size:24
Alignment explanation
Indices: 100446522--100446627 Score: 142
Period size: 24 Copynumber: 4.4 Consensus size: 24
100446512 GCCGGCCAAC
*
100446522 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
100446547 TCTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
100446571 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
100446595 TCCTCT-CTCTTATTAGCTCCTAAA
1 TCCTCTCCT-TTATCAGCTCCTAAA
*
100446619 TCTTCTCCT
1 TCCTCTCCT
100446628 GACAGTCTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 1 0.01
24 66 0.92
25 5 0.07
ACGTcount: A:0.19, C:0.37, G:0.06, T:0.39
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:100454537 original size:12 final size:12
Alignment explanation
Indices: 100454520--100454614 Score: 50
Period size: 12 Copynumber: 7.9 Consensus size: 12
100454510 GCCAACTCCT
*
100454520 GCTCCTTGATCA
1 GCTCCTTAATCA
* *
100454532 GCTCCTAAATCT
1 GCTCCTTAATCA
* *
100454544 TCTCCTTTATCA
1 GCTCCTTAATCA
* *
100454556 GCTCCTAAATCC
1 GCTCCTTAATCA
*
100454568 TCTCCCTT-ATCA
1 GCT-CCTTAATCA
* *
100454580 GCTCCTAAATCC
1 GCTCCTTAATCA
*
100454592 TCTCTCTT-ATCA
1 GCTC-CTTAATCA
*
100454604 GCTCCTAAATC
1 GCTCCTTAATC
100454615 TTCTCTTGAC
Statistics
Matches: 57, Mismatches: 22, Indels: 8
0.66 0.25 0.09
Matches are distributed among these distances:
11 5 0.09
12 47 0.82
13 5 0.09
ACGTcount: A:0.21, C:0.37, G:0.06, T:0.36
Consensus pattern (12 bp):
GCTCCTTAATCA
Found at i:100454555 original size:24 final size:24
Alignment explanation
Indices: 100454516--100454619 Score: 147
Period size: 24 Copynumber: 4.3 Consensus size: 24
100454506 GCCGGCCAAC
*
100454516 TCCTGCTCCTTGATCAGCTCCTAAA
1 TCCT-CTCCTTTATCAGCTCCTAAA
*
100454541 TCTTCTCCTTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
*
100454565 TCCTCTCCCTTATCAGCTCCTAAA
1 TCCTCTCCTTTATCAGCTCCTAAA
100454589 TCCTCT-CTCTTATCAGCTCCTAAA
1 TCCTCTCCT-TTATCAGCTCCTAAA
*
100454613 TCTTCTC
1 TCCTCTC
100454620 TTGACAGCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
23 1 0.01
24 67 0.94
25 3 0.04
ACGTcount: A:0.19, C:0.38, G:0.06, T:0.38
Consensus pattern (24 bp):
TCCTCTCCTTTATCAGCTCCTAAA
Found at i:100459155 original size:29 final size:28
Alignment explanation
Indices: 100459115--100459182 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
100459105 TACAAAATTA
* *
100459115 CTAATTAAATTAATTAACAT-AAATTAAT
1 CTAATGAAATTAATTAACATGAAA-TAAC
*
100459143 CTAATGGAAATTAATTAACCTGAAATAAC
1 CTAAT-GAAATTAATTAACATGAAATAAC
100459172 CTAATGAAATT
1 CTAATGAAATT
100459183 TCTTATTCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.31
29 21 0.60
30 3 0.09
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.34
Consensus pattern (28 bp):
CTAATGAAATTAATTAACATGAAATAAC
Found at i:100466596 original size:25 final size:25
Alignment explanation
Indices: 100466527--100466584 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
100466517 AGCTGTAAAC
* *
100466527 GGTAAGCTCATACGAGCTGAATATT
1 GGTAAGCTTATGCGAGCTGAATATT
*
100466552 GGTAAGCTTATGTGAGCTGAATATT
1 GGTAAGCTTATGCGAGCTGAATATT
100466577 GGTAAGCT
1 GGTAAGCT
100466585 CTCTCGAGCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.29, C:0.12, G:0.28, T:0.31
Consensus pattern (25 bp):
GGTAAGCTTATGCGAGCTGAATATT
Found at i:100476117 original size:30 final size:29
Alignment explanation
Indices: 100476075--100476132 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
100476065 TGTGTAATAT
* *
100476075 TATATATAAATTTTGATTTTATACAATTG
1 TATATATAAATTTTAATTTGATACAATTG
*
100476104 TATATATTAAATTTTAATTTGATTCAATT
1 TATATA-TAAATTTTAATTTGATACAATT
100476133 TTCAAAAATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (29 bp):
TATATATAAATTTTAATTTGATACAATTG
Found at i:100476335 original size:27 final size:29
Alignment explanation
Indices: 100476266--100476335 Score: 74
Period size: 31 Copynumber: 2.4 Consensus size: 29
100476256 ATTTAAATTA
*
100476266 AAATCAAAGTTTCATGTATACATATGAACC
1 AAATCAAAGTTTCAAG-ATACATATGAACC
*
100476296 ACAATTC-AAGTTTCAAG-TACATA-GCACC
1 A-AA-TCAAAGTTTCAAGATACATATGAACC
100476324 AAATCAAAGTTT
1 AAATCAAAGTTT
100476336 ATGTATCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
26 2 0.06
27 8 0.23
28 5 0.14
29 6 0.17
30 1 0.03
31 11 0.31
32 2 0.06
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (29 bp):
AAATCAAAGTTTCAAGATACATATGAACC
Found at i:100479335 original size:19 final size:22
Alignment explanation
Indices: 100479313--100479354 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 22
100479303 ATATTTTGGA
100479313 ATCCATTA-AAA-ATTT-TATT
1 ATCCATTAGAAATATTTCTATT
*
100479332 ATCCGTTAGAAATATTTCTATT
1 ATCCATTAGAAATATTTCTATT
100479354 A
1 A
100479355 CGATATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
21 4 0.21
22 5 0.26
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (22 bp):
ATCCATTAGAAATATTTCTATT
Found at i:100479921 original size:5 final size:5
Alignment explanation
Indices: 100479907--100479939 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
100479897 TTCTATGAAA
100479907 AAAAT AAAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
100479940 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:100484372 original size:5 final size:5
Alignment explanation
Indices: 100484358--100484390 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
100484348 ATTTGTGAAA
100484358 AAAAT AAAAAT AAAAT AAAAT -AAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
100484391 GAACACACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:100485095 original size:13 final size:13
Alignment explanation
Indices: 100485079--100485134 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
100485069 ATTTTTAAAT
100485079 TATTTAGTGATAA
1 TATTTAGTGATAA
100485092 TATTTAGTGGA-AA
1 TATTTAGT-GATAA
100485105 TATTTAG-GAT--
1 TATTTAGTGATAA
* *
100485115 TATTTTGAGATAA
1 TATTTAGTGATAA
100485128 TATTTAG
1 TATTTAG
100485135 GAAAAACCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
10 6 0.17
11 5 0.14
13 23 0.64
14 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:100495674 original size:16 final size:15
Alignment explanation
Indices: 100495633--100495666 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
100495623 CTAAGTTTGA
* *
100495633 AAAAAATAAAAAAAT
1 AAAAAATATATAAAT
100495648 AAAAAATATATAAAT
1 AAAAAATATATAAAT
100495663 AAAA
1 AAAA
100495667 GTATATATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (15 bp):
AAAAAATATATAAAT
Found at i:100496251 original size:13 final size:13
Alignment explanation
Indices: 100496235--100496266 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
100496225 ATTTTTAAGT
100496235 TATTTAGTGATAA
1 TATTTAGTGATAA
100496248 TATTTAGTGATAA
1 TATTTAGTGATAA
100496261 TATTTA
1 TATTTA
100496267 AGAAAAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:100497147 original size:19 final size:19
Alignment explanation
Indices: 100497123--100497171 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
100497113 TTTATTTACC
100497123 AATTTATTTTATT-TTCTTA
1 AATTTATTTT-TTCTTCTTA
*
100497142 AATTTATTTTTTCTTTTTA
1 AATTTATTTTTTCTTCTTA
*
100497161 AATCTATTTTT
1 AATTTATTTTT
100497172 CTTTTCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 2 0.07
19 25 0.93
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.69
Consensus pattern (19 bp):
AATTTATTTTTTCTTCTTA
Found at i:100497172 original size:18 final size:19
Alignment explanation
Indices: 100497139--100497176 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
100497129 TTTTATTTTC
*
100497139 TTAAATTTATTTTTTCTTT
1 TTAAATCTATTTTTTCTTT
100497158 TTAAATCTA-TTTTTCTTT
1 TTAAATCTATTTTTTCTTT
100497176 T
1 T
100497177 CTTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.21, C:0.08, G:0.00, T:0.71
Consensus pattern (19 bp):
TTAAATCTATTTTTTCTTT
Found at i:100497597 original size:22 final size:22
Alignment explanation
Indices: 100497569--100497646 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
100497559 TAATTAGTTT
100497569 AGTACAAGTGGTTCAATCCTAA
1 AGTACAAGTGGTTCAATCCTAA
100497591 AGTACAAGTGGTTCAATCCTAA
1 AGTACAAGTGGTTCAATCCTAA
* ** *
100497613 AGTACAAGTGGCTCGTTCGTAA
1 AGTACAAGTGGTTCAATCCTAA
100497635 AGT-CAAGTGGTT
1 AGTACAAGTGGTT
100497647 TTGGAAAATG
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 8 0.16
22 43 0.84
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.28
Consensus pattern (22 bp):
AGTACAAGTGGTTCAATCCTAA
Found at i:100499488 original size:46 final size:46
Alignment explanation
Indices: 100499433--100499584 Score: 143
Period size: 46 Copynumber: 3.3 Consensus size: 46
100499423 ACTCATTAAT
*
100499433 TTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAACTCGTTGAG
1 TTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAGCTCGTTGAG
*
100499479 TTGAGTCCGAGTT--C--GTGAGATG-TAACTAGGCATCCGAGCTCGTTGAG
1 TTGAGTCCGAGTTCACTTGTG-GATGCGAA-T--G--TCCGAGCTCGTTGAG
* * * *
100499526 TTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGTTTGTTGAG
1 TTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAGCTCGTTGAG
* *
100499572 TTGCGTCTGAGTT
1 TTGAGTCCGAGTT
100499585 TGCTTATGGG
Statistics
Matches: 86, Mismatches: 9, Indels: 22
0.74 0.08 0.19
Matches are distributed among these distances:
42 5 0.06
43 5 0.06
44 1 0.01
45 1 0.01
46 36 0.42
47 27 0.31
48 1 0.01
49 1 0.01
50 5 0.06
51 4 0.05
ACGTcount: A:0.19, C:0.18, G:0.31, T:0.32
Consensus pattern (46 bp):
TTGAGTCCGAGTTCACTTGTGGATGCGAATGTCCGAGCTCGTTGAG
Found at i:100501755 original size:46 final size:46
Alignment explanation
Indices: 100501613--100501781 Score: 155
Period size: 46 Copynumber: 3.7 Consensus size: 46
100501603 CCATGTTTCG
* * * *
100501613 AGCTCCTGCATATGTTGTGGAATCGAGGATACATGAATAGG-TTTA
1 AGCTCCTACATATGTTGCGGAATCGAGAATACAAGAATAGGTTTTA
* * * ** * *
100501658 GAGCTCCTACACATGTTGCGGATTCAAGAATACAAGAATAAATTCTG
1 -AGCTCCTACATATGTTGCGGAATCGAGAATACAAGAATAGGTTTTA
**
100501705 AGCTCCTACATATGTTGCGGACA-CGAGAATACAAGTTTAGGTTTTA
1 AGCTCCTACATATGTTGCGGA-ATCGAGAATACAAGAATAGGTTTTA
* *
100501751 AGCTCTTGA-ATATGTTGTGGAATCGAGAATA
1 AGCTCCT-ACATATGTTGCGGAATCGAGAATA
100501782 TGTGAATATT
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 93 0.96
47 3 0.03
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (46 bp):
AGCTCCTACATATGTTGCGGAATCGAGAATACAAGAATAGGTTTTA
Found at i:100504380 original size:24 final size:26
Alignment explanation
Indices: 100504330--100504384 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
100504320 CAATGCGTAT
*
100504330 AATTCATGATAGCAATTAAGCATTTA
1 AATTCATGATAACAATTAAGCATTTA
*
100504356 AATTCAT-ATAAC-ATTAAAGCATTAA
1 AATTCATGATAACAATT-AAGCATTTA
100504381 AATT
1 AATT
100504385 TGTAACACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 3 0.12
25 16 0.62
26 7 0.27
ACGTcount: A:0.47, C:0.11, G:0.07, T:0.35
Consensus pattern (26 bp):
AATTCATGATAACAATTAAGCATTTA
Found at i:100520170 original size:40 final size:41
Alignment explanation
Indices: 100520100--100520311 Score: 226
Period size: 40 Copynumber: 5.3 Consensus size: 41
100520090 AAATCACGTA
* * **
100520100 CCTTCGGAATTTAA-CCGGA-TATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATTATAG-TAACTCGCACAAATG
* *
100520139 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATG
*
100520179 CCTTCGGGAGTTAACCCGGATTA-AGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATG
100520219 CCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATG
** * * *
100520259 CCTTC-GGATCTTAGTCCGGA-TATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATTATAGTAAC-TCGCACAAATG
100520299 CCTTCGGGACTTA
1 CCTTCGGGACTTA
100520312 GCCCAGACAT
Statistics
Matches: 149, Mismatches: 15, Indels: 17
0.82 0.08 0.09
Matches are distributed among these distances:
39 15 0.10
40 120 0.81
41 14 0.09
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (41 bp):
CCTTCGGGACTTAACCCGGATTATAGTAACTCGCACAAATG
Found at i:100526098 original size:46 final size:46
Alignment explanation
Indices: 100526048--100526173 Score: 207
Period size: 46 Copynumber: 2.7 Consensus size: 46
100526038 TGGTTGAGCA
*
100526048 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
100526094 TCCGAACTGGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
100526140 CCCGAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
100526174 GGGGCGGGTT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:100528006 original size:50 final size:50
Alignment explanation
Indices: 100527929--100528070 Score: 202
Period size: 47 Copynumber: 2.9 Consensus size: 50
100527919 AGGGTAAGAT
* *
100527929 GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCTCATATATCG-G
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG
* * *
100527978 TGTCGATGCCATGTCCCAAACATGGTCTTACACTAGC-C-CACAT-TCGAG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG
100528026 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATA
100528071 AATGTCGTGT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
47 37 0.46
48 6 0.08
49 5 0.06
50 32 0.40
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATCGAG
Found at i:100530484 original size:6 final size:6
Alignment explanation
Indices: 100530473--100530638 Score: 117
Period size: 6 Copynumber: 26.8 Consensus size: 6
100530463 TATCATAACT
* * *
100530473 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AAAATC AGAACC AGAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* *
100530522 AGAATT AGGTAA-C AGAATC AGAATC AGTATC AGGTAA-C AGAATC AGAATC
1 AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * * *
100530572 AGAACC AAAATC AGAATT AGGTAAT- AGAATC AGAATT AGTATC AGGTAA-C
1 AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC A-G-AATC
100530622 AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
100530639 GTGAATGCAA
Statistics
Matches: 126, Mismatches: 19, Indels: 30
0.72 0.11 0.17
Matches are distributed among these distances:
5 10 0.08
6 95 0.75
7 13 0.10
8 8 0.06
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:100530502 original size:19 final size:19
Alignment explanation
Indices: 100530478--100530635 Score: 108
Period size: 19 Copynumber: 7.8 Consensus size: 19
100530468 TAACTAGAAT
*
100530478 CAGAATCAGAATCAGGTGA
1 CAGAATCAGAATCAGGTAA
*
100530497 CAGAATCAAAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
*
100530514 CCAGAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
100530534 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
100530559 CAGAATCAGAATCA-G-AA
1 CAGAATCAGAATCAGGTAA
* *
100530576 CCAAAATCAGAATTAGGTAA
1 -CAGAATCAGAATCAGGTAA
*
100530596 TAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAG----A--ATCAGGTAA
100530621 CAGAATCAGAATCAG
1 CAGAATCAGAATCAG
100530636 AATGTGAATG
Statistics
Matches: 110, Mismatches: 11, Indels: 36
0.70 0.07 0.23
Matches are distributed among these distances:
17 3 0.03
18 26 0.24
19 40 0.36
20 4 0.04
21 2 0.02
23 2 0.02
25 33 0.30
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.18
Consensus pattern (19 bp):
CAGAATCAGAATCAGGTAA
Found at i:100530520 original size:37 final size:37
Alignment explanation
Indices: 100530473--100530587 Score: 119
Period size: 37 Copynumber: 3.1 Consensus size: 37
100530463 TATCATAACT
* *
100530473 AGAATCAGAATCAGAATCAGGTGACAGAATCAAAATC
1 AGAACCAGAATCAGAATCAGGTAACAGAATCAAAATC
* *
100530510 AGAACCAGAATCAGAATTAGGTAACAGAATCAGAATC
1 AGAACCAGAATCAGAATCAGGTAACAGAATCAAAATC
* * *
100530547 AGTATCAGGTAA-CAGAATCA-G-AATCAGAACCAAAATC
1 AGAACCA-G-AATCAGAATCAGGTAA-CAGAATCAAAATC
100530584 AGAA
1 AGAA
100530588 TTAGGTAATA
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
36 2 0.03
37 53 0.82
38 8 0.12
39 2 0.03
ACGTcount: A:0.50, C:0.17, G:0.18, T:0.16
Consensus pattern (37 bp):
AGAACCAGAATCAGAATCAGGTAACAGAATCAAAATC
Found at i:100530537 original size:25 final size:25
Alignment explanation
Indices: 100530509--100530575 Score: 107
Period size: 25 Copynumber: 2.7 Consensus size: 25
100530499 GAATCAAAAT
* *
100530509 CAGAACCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
100530534 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
100530559 CAGAATCAGAATCAGAA
1 CAGAATCAGAATCAGAA
100530576 CCAAAATCAG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:100530543 original size:62 final size:62
Alignment explanation
Indices: 100530468--100530637 Score: 277
Period size: 62 Copynumber: 2.7 Consensus size: 62
100530458 AACATTATCA
* * * *
100530468 TAACTAGAATCAGAATCAGAATCAGGTGACAGAATCAAAATCAGAACCAGAATCAGAATTAGG
1 TAAC-AGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGG
100530531 TAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGG
1 TAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGG
* *
100530593 TAATAGAATCAGAATTAGTATCAGGTAACAGAATCAGAATCAGAA
1 TAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAA
100530638 TGTGAATGCA
Statistics
Matches: 101, Mismatches: 6, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
62 97 0.96
63 4 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (62 bp):
TAACAGAATCAGAATCAGTATCAGGTAACAGAATCAGAATCAGAACCAAAATCAGAATTAGG
Found at i:100530594 original size:37 final size:37
Alignment explanation
Indices: 100530534--100530607 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
100530524 AATTAGGTAA
* * *
100530534 CAGAATCAGAATCAGTATCAGGTAACAGAATCAGAAT
1 CAGAACCAAAATCAGAATCAGGTAACAGAATCAGAAT
* *
100530571 CAGAACCAAAATCAGAATTAGGTAATAGAATCAGAAT
1 CAGAACCAAAATCAGAATCAGGTAACAGAATCAGAAT
100530608 TAGTATCAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.15, G:0.18, T:0.19
Consensus pattern (37 bp):
CAGAACCAAAATCAGAATCAGGTAACAGAATCAGAAT
Found at i:100530849 original size:67 final size:67
Alignment explanation
Indices: 100530741--100531028 Score: 558
Period size: 67 Copynumber: 4.3 Consensus size: 67
100530731 CACCACAGAA
* *
100530741 ATTGCAGCGAGGCTGCCAGATATTTTGACAAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
100530806 AG
66 AG
100530808 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
100530873 AG
66 AG
100530875 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
100530940 AG
66 AG
100530942 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
1 ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
100531007 AG
66 AG
100531009 ATTGCAGCGAGGCTGCCAGA
1 ATTGCAGCGAGGCTGCCAGA
100531029 ACGCTTCCTC
Statistics
Matches: 219, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 219 1.00
ACGTcount: A:0.31, C:0.23, G:0.28, T:0.18
Consensus pattern (67 bp):
ATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAAGCCACC
AG
Found at i:100530866 original size:27 final size:26
Alignment explanation
Indices: 100530824--100530875 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
100530814 GCGAGGCTGC
*
100530824 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
100530850 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
100530876 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:100530933 original size:27 final size:26
Alignment explanation
Indices: 100530891--100530942 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
100530881 GCGAGGCTGC
*
100530891 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
100530917 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
100530943 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:100531000 original size:27 final size:26
Alignment explanation
Indices: 100530958--100531009 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
100530948 GCGAGGCTGC
*
100530958 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
100530984 CAGATATATGTGGCGAAGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
100531010 TTGCAGCGAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:100531311 original size:27 final size:27
Alignment explanation
Indices: 100531255--100531528 Score: 243
Period size: 27 Copynumber: 10.2 Consensus size: 27
100531245 GGGCAAAATG
* * * * *
100531255 GTAATTTTACCCCACA-AGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
100531281 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
100531308 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
100531335 GTAATTCTACCCTATAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
100531361 GATAATTCTACCCTATAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
100531389 GTAATTCTACCCTACAGAGGTA-TTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
100531415 GTAATTCTACCTTACTA-GGGTATTTTA
1 GTAATTCTACCCTAC-AGGGGTATTTCA
* * *
100531442 GTAATTCTACCTTACAAGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** * **
100531469 GTAATTTTA-CAAACTAGGGGTGTTTTG
1 GTAATTCTACCCTAC-AGGGGTATTTCA
*
100531496 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
100531523 GTAATT
1 GTAATT
100531529 TCACAATCGA
Statistics
Matches: 208, Mismatches: 32, Indels: 15
0.82 0.13 0.06
Matches are distributed among these distances:
26 40 0.19
27 165 0.79
28 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:100531347 original size:54 final size:55
Alignment explanation
Indices: 100531272--100531528 Score: 292
Period size: 54 Copynumber: 4.8 Consensus size: 55
100531262 TACCCCACAA
* * *
100531272 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTA-TAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGG
* *
100531326 GGTATTTCGGTAATTCTACCCTATAGGGGTATTGC-GATAATTCTACCCTA-TAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAG-TAATTCTACCCTACTAGG
* * *
100531380 GGTATTTCGGTAATTCTACCCTACAGAGGTA-TTCGGTAATTCTACCTTACTA-G
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGG
** * * * * **
100531433 GGTATTTTAGTAATTCTACCTTACAAGGGTATTTTAGTAATTTTA-CAAACTAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGG
* * *
100531487 GGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCAGTAATT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATT
100531529 TCACAATCGA
Statistics
Matches: 173, Mismatches: 25, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
53 47 0.27
54 126 0.73
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (55 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACTAGG
Found at i:100531473 original size:80 final size:80
Alignment explanation
Indices: 100531281--100531528 Score: 268
Period size: 81 Copynumber: 3.1 Consensus size: 80
100531271 AGGTATCTCG
* * *
100531281 GTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTACC
*
100531346 CTATAGGGGTATTGC
66 CTATAGGGGTATTGA
* **
100531361 GATAATTCTACCCTATAGGGGTATTTCGGTAATTCTACCCTACAGAGGTA-TTCGGTAATTCTAC
1 G-TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTAC
* *
100531425 CTTACTA-GGGTATTTTA
65 CCTA-TAGGGGTA-TTGA
* * * ** * * *
100531442 GTAATTCTACCTTACAAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTGTTTTGGTAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTAC-AGAGGTATTTCGGTAATTCTAC
*
100531506 CCTATAGGGGTATTTCA
65 CCTATAGGGGTA-TTGA
100531523 GTAATT
1 GTAATT
100531529 TCACAATCGA
Statistics
Matches: 140, Mismatches: 22, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.02
80 59 0.42
81 78 0.56
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (80 bp):
GTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGAGGTATTTCGGTAATTCTACC
CTATAGGGGTATTGA
Found at i:100531487 original size:134 final size:134
Alignment explanation
Indices: 100531254--100531528 Score: 349
Period size: 134 Copynumber: 2.1 Consensus size: 134
100531244 GGGGCAAAAT
*
100531254 GGTAATTTTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
1 GGTAATTCTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
* * * **
100531319 CTATAGGGGTATTTCGGTAATTCTACCCTATAGGGGTATTGCGATAATTCTACCCTATAGGGGTA
66 CTACAAGGGTATTTCAGTAATTCTACCAAATAGGGGTATTGCGATAATTCTACCCTATAGGGGTA
100531384 TTTC
131 TTTC
* * *
100531388 GGTAATTCTACCCTACAGAGGTAT-TCGGTAATTCTACCTTACTA-GGGTATTTTAGTAATTCTA
1 GGTAATTCTACCCCACA-AGGTATCTCGGTAATTCCACCCTAC-AGGGGTATTTTAGTAATTCTA
* * * * ** *
100531451 CCTTACAAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGG
64 CCCTACAAGGGTATTTCAGTAATTCTACCAAA-TAGGGGTATTGCGATAATTCTACCCTATAGGG
100531515 GTATTTC
128 GTATTTC
*
100531522 AGTAATT
1 GGTAATT
100531529 TCACAATCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
133 2 0.02
134 112 0.93
135 7 0.06
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (134 bp):
GGTAATTCTACCCCACAAGGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTACC
CTACAAGGGTATTTCAGTAATTCTACCAAATAGGGGTATTGCGATAATTCTACCCTATAGGGGTA
TTTC
Found at i:100531563 original size:27 final size:27
Alignment explanation
Indices: 100531533--100531950 Score: 338
Period size: 27 Copynumber: 15.4 Consensus size: 27
100531523 GTAATTTCAC
**
100531533 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * * *
100531560 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * *
100531587 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*** *
100531614 AATCGAGGGTACTTTGGTAATTTT-TA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* ** **
100531640 CCAGTCGAGGGT-ATTTAAGTAATTTTACA
1 --AATCGAGGGTAAAAT-AGTAATTTTGTA
* *** **
100531669 AATCAGGGGGTATTTTAGTAATTTTACA
1 AATC-GAGGGTAAAATAGTAATTTTGTA
* *** *
100531697 AA-CCAGGGGTATTTTAGTAATTTTCTA
1 AATCGA-GGGTAAAATAGTAATTTTGTA
* * * *
100531724 AATCAAGGGTAAAATGGTAATTCTCTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * *
100531751 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* ** *
100531778 AATCGAGGGTAGAACGGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
100531805 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* * * * *
100531832 ATTCAAGGGTAAAACAGTAACTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
100531859 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
* *
100531886 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
*
100531913 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTA
100531940 AATCGAGGGTA
1 AATCGAGGGTA
100531951 CTTTGATAAT
Statistics
Matches: 331, Mismatches: 52, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
26 2 0.01
27 287 0.87
28 38 0.11
29 4 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTGTA
Found at i:100531762 original size:191 final size:189
Alignment explanation
Indices: 100531458--100531815 Score: 488
Period size: 191 Copynumber: 1.9 Consensus size: 189
100531448 CTACCTTACA
* * * ** *
100531458 AGGGTATTTTAGTAATTTTACAAACTAGGGGTGTTTTGGTAATTCTACCCTATAGGGGTATTTCA
1 AGGGTATTTAAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACCAAACAGGGGTATTTCA
* * *
100531523 GTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAATCAAGGGTAAAACAGTAATTCTATAA
66 GTAATTTCACAATCAAGGGTAAAACGGTAATTCTCTAAATCAAGGGTAAAACAGTAATTCTATAA
100531588 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCG
131 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCG
*
100531647 AGGGTATTTAAGTAATTTTACAAA-TCAGGGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATT
1 AGGGTATTTAAGTAATTTTACAAACT-A-GGGGTATTTTAGTAATTCTACCAAA-CAGGGGTATT
* * * **
100531710 TTAGTAATTTTCTA-AATCAAGGGTAAAATGGTAATTCTCTAAATCGAGGGTAAAATGGTAATTC
63 TCAGTAA-TTTC-ACAATCAAGGGTAAAACGGTAATTCTCTAAATCAAGGGTAAAACAGTAATTC
* * *
100531774 TATAAATCGAGGGTAGAACGGTAATTCTGTAAATCGAGGGTA
126 TATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
100531816 AAATAGTAAT
Statistics
Matches: 146, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
188 1 0.01
189 26 0.18
190 32 0.22
191 86 0.59
192 1 0.01
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (189 bp):
AGGGTATTTAAGTAATTTTACAAACTAGGGGTATTTTAGTAATTCTACCAAACAGGGGTATTTCA
GTAATTTCACAATCAAGGGTAAAACGGTAATTCTCTAAATCAAGGGTAAAACAGTAATTCTATAA
ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTGGTAATTTTTACCAGTCG
Found at i:100531960 original size:27 final size:26
Alignment explanation
Indices: 100531876--100532071 Score: 108
Period size: 27 Copynumber: 7.3 Consensus size: 26
100531866 GGTAAAATAG
****
100531876 TAATTTTGTAAATCGAGGGTAAAACA
1 TAATTTTGTAAATCGAGGGTATTTGA
* ** *
100531902 GTAATTCTGTAAATCGAGGGTAAAATGG
1 -TAATTTTGTAAATCGAGGGT-ATTTGA
100531930 TAATTTTGTAAATCGAGGGTACTTTGA
1 TAATTTTGTAAATCGAGGGTA-TTTGA
** ** *
100531957 TAATTTTACATGTCGAGGGTATTTCAA
1 TAATTTTGTAAATCGAGGGTATTT-GA
*
100531984 TAATTTTGCAAAGT-GAGGGTATTTTGA
1 TAATTTTGTAAA-TCGAGGGTA-TTTGA
** * *
100532011 TAATTTTACAAATCGAGGATATTTGGG
1 TAATTTTGTAAATCGAGGGTATTT-GA
* * *
100532038 TAATTTTATAAACCGGGGGTACTTT-A
1 TAATTTTGTAAATCGAGGGTA-TTTGA
100532064 GTAATTTT
1 -TAATTTT
100532072 ACAACTTAGG
Statistics
Matches: 135, Mismatches: 25, Indels: 18
0.76 0.14 0.10
Matches are distributed among these distances:
26 8 0.06
27 117 0.87
28 10 0.07
ACGTcount: A:0.33, C:0.08, G:0.22, T:0.38
Consensus pattern (26 bp):
TAATTTTGTAAATCGAGGGTATTTGA
Found at i:100531973 original size:54 final size:54
Alignment explanation
Indices: 100531513--100532075 Score: 223
Period size: 54 Copynumber: 10.4 Consensus size: 54
100531503 TACCCTATAG
* * * * *
100531513 GGGTA-TTTCAGTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTACTTTGAGTAATTTTACAATCGAGGGTAAATCAGTAATTTTGTAAATCGA
**** * * *
100531566 GGGTA-AAACAGTAATTCTATA-AATCGAGGGTAAAACAGTAATTCTATAAATCGA
1 GGGTACTTTGAGTAATT-T-TACAATCGAGGGTAAATCAGTAATTTTGTAAATCGA
* ** * ** *
100531620 GGGTACTTTG-GTAATTTTTACCAGTCGAGGGTATTTAAGTAATTTTACAAATCAGG
1 GGGTACTTTGAGTAA-TTTTA-CAATCGAGGGTAAATCAGTAATTTTGTAAATC-GA
* * * ** * * *
100531676 GGGTA-TTTTAGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTCTAAATCAA
1 GGGTACTTTGAGTAATTTTACAATCGA-GGGTAAATCAGTAATTTTGTAAATCGA
*** * * *
100531730 GGGTAAAATG-GTAATTCTCTA-AATCGAGGGTAAAAT-GGTAATTCTATAAATCGA
1 GGGTACTTTGAGTAATT-T-TACAATCGAGGGT-AAATCAGTAATTTTGTAAATCGA
**** * *
100531784 GGGTAGAACG-GTAATTCTGTA-AATCGAGGGTAAAAT-AGTAATTTTGTAATTCAA
1 GGGTACTTTGAGTAATT-T-TACAATCGAGGGT-AAATCAGTAATTTTGTAAATCGA
**** *
100531838 GGGTA-AAACAGTAACTCTGTA-AATCGAGGGTAAAAT-AGTAATTTTGTAAATCGA
1 GGGTACTTTGAGTAA-T-TTTACAATCGAGGGT-AAATCAGTAATTTTGTAAATCGA
**** *
100531892 GGGTA-AAACAGTAATTCTGTA-AATCGAGGGTAAAAT-GGTAATTTTGTAAATCGA
1 GGGTACTTTGAGTAATT-T-TACAATCGAGGGT-AAATCAGTAATTTTGTAAATCGA
* ** * *
100531946 GGGTACTTTGA-TAATTTTACATGTCGAGGGTATTTCAATAATTTTGCAAAGT-GA
1 GGGTACTTTGAGTAATTTTACA-ATCGAGGGTAAATCAGTAATTTTGTAAA-TCGA
* * ** ** * * *
100532000 GGGTATTTTGA-TAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAACCGG
1 GGGTACTTTGAGTAATTTTAC-AATCGAGGGTAAATCAGTAATTTTGTAAATCGA
100532054 GGGTACTTT-AGTAATTTTACAA
1 GGGTACTTTGAGTAATTTTACAA
100532076 CTTAGGATAT
Statistics
Matches: 408, Mismatches: 76, Indels: 52
0.76 0.14 0.10
Matches are distributed among these distances:
52 3 0.01
53 25 0.06
54 298 0.73
55 69 0.17
56 13 0.03
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (54 bp):
GGGTACTTTGAGTAATTTTACAATCGAGGGTAAATCAGTAATTTTGTAAATCGA
Done.