Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 132 of 226
Found at i:41025677 original size:114 final size:113
Alignment explanation
Indices: 41025300--41025799 Score: 329
Period size: 114 Copynumber: 4.4 Consensus size: 113
41025290 ATGCATGGTT
* * * *
41025300 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTTCGGCGCTT-CTCAAAAAGCGCCGTTAATA
1 AAGA-CAAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTAC-CCAAAAGCGCCGCTAATA
* * * ** * * * *
41025364 CTATG-CTTTAGAGGCGAT-TTCTCGTGGACGCCAGTAATTCCACTATACATC
64 CTAGGAC-TTAGCGGCG-TGTTCGC-TATACGCCACTAATTCTAGTATACCTC
* * ** * * * *
41025415 AAGACCTAAACGCTGTGTTTTGGTTAATATATTTTGCGGTGCTT--CTAAGAACGCGCCGTTAAT
1 AAGA-CAAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTACCCAA-AA-GCGCCGCTAAT
* ** * * * * **
41025478 AGTA-TTCTTTAGCGGCATGCTC-CCATAAGCGCCACTAATACTAACATACCTC
63 ACTAGGAC-TTAGCGGCGTGTTCGCTAT-A-CGCCACTAATTCTAGTATACCTC
* ** **
41025530 AAGACAAAACTCTGCATTTTGG-TGAGTATATTTTGCGGCATTTTA-TTAAAAGCGCCGCTAATA
1 AAGACAAAACTCTGCATTTTGGTTAAG-ATATTTTGCGGC-GCTTACCCAAAAGCGCCGCTAATA
* * * * *
41025593 CT-GGAGTTAGCGGTGTTTTC-CAGTATACGCCACTAATTGTAGTATACATC
64 CTAGGACTTAGCGGCGTGTTCGC--TATACGCCACTAATTCTAGTATACCTC
* * * * *
41025643 AAGACAGAAACGCTGCATTTTGGTTAAGAAATTTTGCGACGCTTACCCCAAAGCGCCGCTAATAG
1 AAGACA-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTACCCAAAAGCGCCGCTAATAC
* * * *
41025708 TATGCCTTAGCGGCGTGTTCGCTTTGCGCCACTAATTCTAGTATACCTC
65 TAGGACTTAGCGGCGTGTTCGCTATACGCCACTAATTCTAGTATACCTC
*
41025757 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTT
1 AAGACAAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTT
41025800 CTCAAAAAAC
Statistics
Matches: 299, Mismatches: 69, Indels: 36
0.74 0.17 0.09
Matches are distributed among these distances:
113 77 0.26
114 112 0.37
115 106 0.35
116 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (113 bp):
AAGACAAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTACCCAAAAGCGCCGCTAATACT
AGGACTTAGCGGCGTGTTCGCTATACGCCACTAATTCTAGTATACCTC
Found at i:41025831 original size:113 final size:113
Alignment explanation
Indices: 41025300--41025911 Score: 409
Period size: 115 Copynumber: 5.4 Consensus size: 113
41025290 ATGCATGGTT
* * *
41025300 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTTCGGCGCTTCTCAAAAAGCGCCGTTAATAC
1 AAGACC-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * * * * * *
41025365 TATGCTTTAGAGGCGAT-TTCTCGT-GGACGCCAGTAATTCCACTATACATC
65 TATCCTTTAGCGGCG-TGTTC-CATATG-CGCCACTAATTCTAGTATACATC
* ** * * * *
41025415 AAGACCTAAACGCTGTGTTTTGGTTAATATATTTTGCGGTGCTTCT-AAGAACGCGCCGTTAATA
1 AAGACC-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAA-AAAGCGCCGCTAATA
* * * * * * ** *
41025479 GTATTCTTTAGCGGCATGCTCCCATAAGCGCCACTAATACTAACATACCTC
64 CTATCCTTTAGCGGCGTG-TTCCATATGCGCCACTAATTCTAGTATACATC
* * * *
41025530 AAGACAAAACTCTGCATTTTGG-TGAGTATATTTTGCGGC-ATT-TTATTAAAAGCGCCGCTAAT
1 AAGACCAAACTCTGCATTTTGGTTAAG-ATATTTTGCGGCGCTTCTCA--AAAAGCGCCGCTAAT
**** * * * *
41025592 ACT-GGAGTTAGCGGTGTTTTCCAGTATACGCCACTAATTGTAGTATACATC
63 ACTATCCTTTAGCGGCGTGTTCCA-TATGCGCCACTAATTCTAGTATACATC
* * * * **
41025643 AAGACAGAAACGCTGCATTTTGGTTAAGAAATTTTGCGACGCTTAC-CCCAAAGCGCCGCTAATA
1 AAGAC-CAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTT-CTCAAAAAGCGCCGCTAATA
* * *
41025707 GTATGCC-TTAGCGGCGTGTTCGC-TTTGCGCCACTAATTCTAGTATACCTC
64 CTAT-CCTTTAGCGGCGTGTTC-CATATGCGCCACTAATTCTAGTATACATC
* * *
41025757 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAACACCGCTAATATT
1 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
** * * * * * * *
41025822 ATCCTTTAGCAACGTTTTTCCTTAAGCGCCACTAACTATAACT-TACACC
66 ATCCTTTAGCGGCG-TGTTCCATATGCGCCACTAATTCT-AGTATACATC
** ** *
41025871 AAGACCAAAACGGTGCGCTTTGGTTAGGATATTTTGCGGCG
1 AAGACC-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCG
41025912 TTTTCTTATA
Statistics
Matches: 385, Mismatches: 89, Indels: 46
0.74 0.17 0.09
Matches are distributed among these distances:
112 8 0.02
113 97 0.25
114 137 0.36
115 139 0.36
116 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (113 bp):
AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
ATCCTTTAGCGGCGTGTTCCATATGCGCCACTAATTCTAGTATACATC
Found at i:41025854 original size:228 final size:227
Alignment explanation
Indices: 41025300--41025856 Score: 520
Period size: 228 Copynumber: 2.4 Consensus size: 227
41025290 ATGCATGGTT
* * *
41025300 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTTCGGCGCTTCTCAAAAAGCGCCGTTAATAC
1 AAGACC-AAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * ** * **
41025365 TATGCTTTAG-AGGCGATTTCTCGTGGACGCCAGTAATTCCACTATACATCAAGACCTAAACGCT
65 TATGCTTTAGCA--CG-TTTTTCCTTAACGCCACTAATTCCACTATACATCAAGACAGAAACGCT
** * * ** * * * *
41025429 GTGTTTTGGTTAATATATTTTGCGGTGCTTCTAAGAACGCGCCGTTAATAGTATTCTTTAGCGGC
127 GCATTTTGGTTAAGAAATTTTGCGACGCTTCCAAGAACGCGCCGCTAATAGTATGCCTTAGCGGC
41025494 ATGCTCCCATAAGCGCCACTAATACTAACATACCTC
192 ATGCTCCCATAAGCGCCACTAATACTAACATACCTC
* * * *
41025530 AAGACAAAACTCTGCATTTTGG-TGAGTATATTTTGCGGC-ATT-TTATTAAAAGCGCCGCTAAT
1 AAGACCAAACTCTGCATTTTGGTTAAG-ATATTTTGCGGCGCTTCTCA--AAAAGCGCCGCTAAT
* ** * * ** *
41025592 ACT-GGAGTTAGC-GGTGTTTTCCAGTATACGCCACTAATTGTAGTATACATCAAGACAGAAACG
63 ACTATGCTTTAGCACGT-TTTTCC-TTA-ACGCCACTAATTCCACTATACATCAAGACAGAAACG
*
41025655 CTGCATTTTGGTTAAGAAATTTTGCGACGCTTACCCCA-AA-GCGCCGCTAATAGTATGCCTTAG
125 CTGCATTTTGGTTAAGAAATTTTGCGACGCTT--CCAAGAACGCGCCGCTAATAGTATGCCTTAG
* * * ** * **
41025718 CGGCGTGTTCGC-TTTGCGCCACTAATTCTAGTATACCTC
188 CGGCATGCTCCCATAAGCGCCACTAATACTAACATACCTC
* * *
41025757 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAACACCGCTAATATT
1 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
*
41025822 ATCCTTTAGCAACGTTTTTCCTTAAGCGCCACTAA
66 ATGCTTTAGC-ACGTTTTTCCTTAA-CGCCACTAA
41025857 CTATAACTTA
Statistics
Matches: 257, Mismatches: 54, Indels: 34
0.74 0.16 0.10
Matches are distributed among these distances:
225 1 0.00
226 5 0.02
227 73 0.28
228 116 0.45
229 53 0.21
230 9 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (227 bp):
AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
ATGCTTTAGCACGTTTTTCCTTAACGCCACTAATTCCACTATACATCAAGACAGAAACGCTGCAT
TTTGGTTAAGAAATTTTGCGACGCTTCCAAGAACGCGCCGCTAATAGTATGCCTTAGCGGCATGC
TCCCATAAGCGCCACTAATACTAACATACCTC
Found at i:41029220 original size:21 final size:20
Alignment explanation
Indices: 41029196--41029238 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
41029186 TAATTTTCGT
*
41029196 TATTTTTTATTAAGTTAAAAA
1 TATTTTTT-TTAAATTAAAAA
*
41029217 TATTTTTTTTAAATTTAAAA
1 TATTTTTTTTAAATTAAAAA
41029237 TA
1 TA
41029239 AATTTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTTTTTTAAATTAAAAA
Found at i:41040536 original size:26 final size:26
Alignment explanation
Indices: 41040507--41040560 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
41040497 TATTCCAAAG
*
41040507 TTTGTTGACTTCTCGAGTCAAAATTT
1 TTTGTTGACTTCTCGAGCCAAAATTT
41040533 TTTGTTGACTTCTCGAGCCAAAATTT
1 TTTGTTGACTTCTCGAGCCAAAATTT
41040559 TT
1 TT
41040561 ACTAGTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (26 bp):
TTTGTTGACTTCTCGAGCCAAAATTT
Found at i:41051418 original size:16 final size:17
Alignment explanation
Indices: 41051388--41051428 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
41051378 ATTATTTTCT
41051388 CAAAAT-TTAATTAATA
1 CAAAATATTAATTAATA
*
41051404 CAAAATATTAA-TAATT
1 CAAAATATTAATTAATA
*
41051420 CAATATATT
1 CAAAATATT
41051429 GAAAAGTTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (17 bp):
CAAAATATTAATTAATA
Found at i:41059191 original size:24 final size:23
Alignment explanation
Indices: 41059164--41059212 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
41059154 TTAAAACTAC
41059164 TTCTAA-AGAAAACTCAAAAGAGAA
1 TTCTAAGAG-AAACTC-AAAGAGAA
**
41059188 TTCTTGGAGAAACTCAAAGAGAA
1 TTCTAAGAGAAACTCAAAGAGAA
41059211 TT
1 TT
41059213 TTCACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 10 0.45
24 10 0.45
25 2 0.09
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (23 bp):
TTCTAAGAGAAACTCAAAGAGAA
Found at i:41060313 original size:31 final size:30
Alignment explanation
Indices: 41060236--41060328 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
41060226 GCTTTTTAAA
41060236 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCATCTAATTTTT
41060266 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCATCTAATTTTT
* * *
41060296 AATATTTACAAAAAAGAGGAACCAAATTTTT
1 AATATTTAC-AAAAAGAGGCATCTAATTTTT
41060327 AA
1 AA
41060329 AAATAATTCA
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
30 39 0.66
31 20 0.34
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCATCTAATTTTT
Found at i:41062765 original size:15 final size:15
Alignment explanation
Indices: 41062745--41062774 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
41062735 TGTTTATGAG
41062745 TATTGATCAAATTAT
1 TATTGATCAAATTAT
*
41062760 TATTGATCGAATTAT
1 TATTGATCAAATTAT
41062775 CAACTTACTC
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:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
TATTGATCAAATTAT
Found at i:41065053 original size:13 final size:13
Alignment explanation
Indices: 41065035--41065067 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
41065025 TTTTAAATCT
41065035 ATGCAATCTCCTA
1 ATGCAATCTCCTA
41065048 ATGCAATCTCCTA
1 ATGCAATCTCCTA
41065061 ATGCAAT
1 ATGCAAT
41065068 TGATGAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (13 bp):
ATGCAATCTCCTA
Found at i:41073229 original size:20 final size:20
Alignment explanation
Indices: 41073202--41073258 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
41073192 CAAACTAAAG
41073202 TAAGCTAAAAATGAGCTCAT
1 TAAGCTAAAAATGAGCTCAT
* * *
41073222 TGAGCTAAGAACGAGCTCAT
1 TAAGCTAAAAATGAGCTCAT
*
41073242 TAAGCTAAAATTGAGCT
1 TAAGCTAAAAATGAGCT
41073259 GAATTGAACT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (20 bp):
TAAGCTAAAAATGAGCTCAT
Found at i:41074761 original size:21 final size:21
Alignment explanation
Indices: 41074722--41074762 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
41074712 TGGAAACAGG
**
41074722 AATGATCTTAATGGTAATCCA
1 AATGATCTTAATGAAAATCCA
41074743 AATGATCTTAATGAAAATCC
1 AATGATCTTAATGAAAATCC
41074763 TCCCATTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (21 bp):
AATGATCTTAATGAAAATCCA
Found at i:41077338 original size:12 final size:12
Alignment explanation
Indices: 41077321--41077360 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
41077311 TCAATGAGTT
41077321 ACACGGGTTGAG
1 ACACGGGTTGAG
41077333 ACACGGGTTGAG
1 ACACGGGTTGAG
*
41077345 ACACGGGTTGGG
1 ACACGGGTTGAG
41077357 ACAC
1 ACAC
41077361 AGTCATATGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.25, C:0.20, G:0.40, T:0.15
Consensus pattern (12 bp):
ACACGGGTTGAG
Found at i:41081207 original size:30 final size:30
Alignment explanation
Indices: 41081173--41081229 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
41081163 TCGAGCTTGG
*
41081173 GGACAAAGA-TGTAATTATGTAAAAGTTTAA
1 GGACAAA-ATTGTAATTATATAAAAGTTTAA
*
41081203 GGACAAAATTGTAATTTTATAAAAGTT
1 GGACAAAATTGTAATTATATAAAAGTT
41081230 GAGTCGAAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.46, C:0.04, G:0.18, T:0.33
Consensus pattern (30 bp):
GGACAAAATTGTAATTATATAAAAGTTTAA
Found at i:41081595 original size:51 final size:50
Alignment explanation
Indices: 41081515--41081853 Score: 255
Period size: 51 Copynumber: 6.7 Consensus size: 50
41081505 TGTCGATGAA
* * * *
41081515 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAATATTGGT
* *
41081566 CA-GATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCG-AGAAGCT-TTGAG-
1 CACG-TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTA-AA--TATTG-GT
* * * * *
41081617 CATGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTA-CGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAA-TATTGGT
* * ** * * * * *
41081668 TACATGTGTAGTACTAAATGAAGGCTACAATGGGTACCG-AAATGCTTTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAT--ATTGGT
* * *
41081719 CACGTATGTGGTACTATGTGAAGGCTACTACGTG-AGCCGTAAA-ACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAATA-TTGGT
* * * *
41081769 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACTGTAAA-ACTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAATATTGGT
*
41081818 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
41081854 TCGAATGATA
Statistics
Matches: 227, Mismatches: 44, Indels: 36
0.74 0.14 0.12
Matches are distributed among these distances:
48 1 0.00
49 42 0.19
50 49 0.22
51 124 0.55
52 10 0.04
53 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAATATTGGT
Found at i:41081694 original size:102 final size:101
Alignment explanation
Indices: 41081515--41081856 Score: 363
Period size: 102 Copynumber: 3.4 Consensus size: 101
41081505 TGTCGATGAA
* * * *
41081515 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCAGATGTGTAGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTA
41081579 CTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG
65 CTAAGTGAAGGCTACTATGTGTACCGA-AAGCTTTGAG
* * * * *
41081617 CATGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
* * *
41081682 TAAATGAAGGCTACAATGGGTACCGAAATGCTTT-AG
66 TAAGTGAAGGCTACTATGTGTACCGAAA-GCTTTGAG
* * * * * *
41081718 TCACGTATGTGGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGT
1 -CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGT
* * * * * *
41081781 ACTATGTGAAGGCTACTACGTGAACTGTAAAAC--TGAT
64 ACTAAGTGAAGGCTACTATGTGTACCG-AAAGCTTTGAG
*
41081818 TACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
41081857 AATGATAAAA
Statistics
Matches: 198, Mismatches: 35, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
99 32 0.16
100 3 0.02
101 41 0.21
102 121 0.61
103 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAGCTTTGAG
Found at i:41084357 original size:10 final size:10
Alignment explanation
Indices: 41084342--41084366 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
41084332 AGACAACATC
41084342 CTGGTGAATG
1 CTGGTGAATG
41084352 CTGGTGAATG
1 CTGGTGAATG
41084362 CTGGT
1 CTGGT
41084367 TAATTAGCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.12, G:0.40, T:0.32
Consensus pattern (10 bp):
CTGGTGAATG
Found at i:41089358 original size:102 final size:102
Alignment explanation
Indices: 41089162--41089439 Score: 314
Period size: 102 Copynumber: 2.7 Consensus size: 102
41089152 GATGAACACG
* * *
41089162 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCAGATGTGTAGTACTAA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTACTAA
* * * *
41089226 GTGAAGGTTACTATGTGTACTGAGAAGCTTTGAG-CACA
65 GTGAAGGCTACAATGGGTACCGAGAAGCTTTG-GTCACA
* * *
41089264 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAG
*
41089329 TGAAGGCTACAATGGGTACCGA-AATGCTTTGGTCACG
66 TGAAGGCTACAATGGGTACCGAGAA-GCTTTGGTCACA
* * * * * * * *
41089366 TATGTGGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTACTAA
41089429 GTGAAGGCTAC
65 GTGAAGGCTAC
41089440 TACGTGAGCC
Statistics
Matches: 150, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
101 34 0.23
102 115 0.77
103 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGGGTACCGAGAAGCTTTGGTCACA
Found at i:41089428 original size:50 final size:50
Alignment explanation
Indices: 41089158--41089488 Score: 271
Period size: 51 Copynumber: 6.5 Consensus size: 50
41089148 TGTTGATGAA
* * * * *
41089158 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATA-ATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCG-TAAA-ACTTGAT
* * * * * *
41089209 CA-GATGTGTAGTACTAAGTGAAGGTTACTATGTGTACTG-AGAAGCTTTGAG
1 CACG-TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTA-AAAC-TTGAT
* * * * * *
41089260 CACATGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGT-AAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACT-TGAT
* * * * * * * *
41089311 TACATGTGTAGTACTAAGTGAAGGCTACAATGGGTACCG-AAATGCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAA-AC-TTGAT
* *
41089362 CACGTATGTGGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACTTGAT
41089412 CACGTGTGTAGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGTAAAACTTGAT
41089462 CACGTGTGTAGTACTATGTGAAGGCTA
1 CACGTGTGTAGTACTATGTGAAGGCTA
41089489 AATAATATAG
Statistics
Matches: 223, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
49 1 0.00
50 88 0.39
51 128 0.57
52 6 0.03
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGTAAAACTTGAT
Found at i:41093742 original size:25 final size:25
Alignment explanation
Indices: 41093701--41093761 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
41093691 TCTTGTACAT
* *
41093701 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACAAGCTATAAATCG
*
41093726 GTATGCTC-TCACAAGCTGTAAATCG
1 GTATGCTCAT-ACAAGCTATAAATCG
*
41093751 GTAAGCTCATA
1 GTATGCTCATA
41093762 TGTGCTAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACAAGCTATAAATCG
Found at i:41093784 original size:50 final size:49
Alignment explanation
Indices: 41093705--41093828 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
41093695 GTACATGTAT
* *
41093705 GCTCATACGAGCTATGAATCGGTATGCTCTCACAAGCTGTAAATCGGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTG-AAATCGGTAA
* * * * *
41093755 GCTCATATGTGCTAAGAATCGGTAAGCTCTCACGAGTTGCAATCGGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGAAATCGGTAA
*
41093804 GCTCCA-ACGAGCTGAGAATCGGTAA
1 GCT-CATACGAGCTAAGAATCGGTAA
41093829 CCCTAACGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 28 0.44
50 35 0.56
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (49 bp):
GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGAAATCGGTAA
Found at i:41093813 original size:24 final size:25
Alignment explanation
Indices: 41093721--41093828 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
41093711 ACGAGCTATG
* *
41093721 AATCGGTATGCTCTCACAAGCTGTA-
1 AATCGGTAAGCTCTCACGAGCTG-AC
* * * *
41093746 AATCGGTAAGCTCAT-ATGTGCTAAG
1 AATCGGTAAGCTC-TCACGAGCTGAC
*
41093771 AATCGGTAAGCTCTCACGAGTTG-C
1 AATCGGTAAGCTCTCACGAGCTGAC
*
41093795 AATCGGTAAGCTC-CAACGAGCTGAG
1 AATCGGTAAGCTCTC-ACGAGCTGAC
41093820 AATCGGTAA
1 AATCGGTAA
41093829 CCCTAACGAC
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 22 0.33
25 42 0.64
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGCTGAC
Found at i:41093836 original size:24 final size:25
Alignment explanation
Indices: 41093769--41093837 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
41093759 ATATGTGCTA
* * *
41093769 AGAATCGGTAAGCTCTCACGAGTTG
1 AGAATCGGTAAGCCCTAACGAGCTG
*
41093794 -CAATCGGTAAGCTCC-AACGAGCTG
1 AGAATCGGTAAGC-CCTAACGAGCTG
41093818 AGAATCGGTAA-CCCTAACGA
1 AGAATCGGTAAGCCCTAACGA
41093838 CATGTCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.06
24 24 0.67
25 10 0.28
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (25 bp):
AGAATCGGTAAGCCCTAACGAGCTG
Found at i:41099720 original size:23 final size:22
Alignment explanation
Indices: 41099688--41099732 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
41099678 CCCATTTTGA
41099688 TTGCAAACTAATGGCCAATACC
1 TTGCAAACTAATGGCCAATACC
*
41099710 TTGCACAACTAATGGCCATTACC
1 TTGCA-AACTAATGGCCAATACC
41099733 AATGATGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (22 bp):
TTGCAAACTAATGGCCAATACC
Found at i:41112967 original size:21 final size:21
Alignment explanation
Indices: 41112942--41112984 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
41112932 GGAAGAAATC
41112942 AAATTCTAAAATTATTCTCAA
1 AAATTCTAAAATTATTCTCAA
41112963 AAATTCTAAAATTATTCTCAA
1 AAATTCTAAAATTATTCTCAA
41112984 A
1 A
41112985 CTCTATGAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTCTAAAATTATTCTCAA
Found at i:41116266 original size:27 final size:27
Alignment explanation
Indices: 41116227--41116447 Score: 250
Period size: 27 Copynumber: 8.3 Consensus size: 27
41116217 AGAGGTCAAT
*
41116227 AAATGACCAAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGATA
*
41116254 AAATGACCGAAATA-CTCCATAGGAT-
1 AAATGACCGAAATACCCCCATAGGATA
** *
41116279 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
* *
41116306 AAATGATCGAAATACCCCCATAGGCTA
1 AAATGACCGAAATACCCCCATAGGATA
* * *
41116333 AAGTGACTGAAATACCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGATA
* *
41116360 AAATGACCAAAATACCCCCACATGG-TA
1 AAATGACCGAAATACCCCCATA-GGATA
*
41116387 AAATGACCGAAATACCCCCATAGAATA
1 AAATGACCGAAATACCCCCATAGGATA
* * * * *
41116414 AAATAACCAAAATAGCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
41116441 AAATGAC
1 AAATGAC
41116448 TGTTATACCC
Statistics
Matches: 162, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
25 12 0.07
26 20 0.12
27 128 0.79
28 2 0.01
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGATA
Found at i:41116390 original size:81 final size:81
Alignment explanation
Indices: 41116227--41116447 Score: 284
Period size: 81 Copynumber: 2.8 Consensus size: 81
41116217 AGAGGTCAAT
* * ***
41116227 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACTC-CATAGGAT-AAATGATTGAA
1 AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCAAA
*
41116290 ATACCCCCATAGGGTA
66 ATACCCCCACAGGGTA
* * * *
41116306 AAATGATCGAAATACCCCCATAGGCTAAAGTGACTGAAATACCCTCATAGGATAAAATGACCAAA
1 AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCAAA
*
41116371 ATACCCCCACATGGTA
66 ATACCCCCACAGGGTA
* * * * *
41116387 AAATGACCGAAATACCCCCATAGAATAAAATAACCAAAATAGCCTCATAGGGTAAAATGAC
1 AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGAC
41116448 TGTTATACCC
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
79 38 0.32
80 8 0.07
81 74 0.62
ACGTcount: A:0.45, C:0.23, G:0.14, T:0.18
Consensus pattern (81 bp):
AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCAAA
ATACCCCCACAGGGTA
Found at i:41116472 original size:81 final size:79
Alignment explanation
Indices: 41116227--41116473 Score: 241
Period size: 81 Copynumber: 3.1 Consensus size: 79
41116217 AGAGGTCAAT
* *
41116227 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CTCCATAGGAT-AAATGATTGAA
1 AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCT-CATAGGATAAAATGACTGAA
41116290 ATACCCCCATAGG-GTA
65 ATA-CCCC-TAGGAGTA
* * * * **
41116306 AAATGATCGAAATACCCCCATAGGCTAAAGTGACTGAAATACCCTCATAGGATAAAATGACCAAA
1 AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATA-CCTCATAGGATAAAATGACTGAA
* *
41116371 ATACCCCCA-CATGGTA
65 ATACCCCTAGGA--GTA
* * * * **
41116387 AAATGACCGAAATACCCCCATAGAATAAAATAACCAAAATAGCCTCATAGGGTAAAATGACTGTT
1 AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATA-CCTCATAGGATAAAATGACTGAA
*
41116452 ATACCCCTAGGAGATG
65 ATACCCCTAGGAG-TA
41116468 AAATGA
1 AAATGA
41116474 TTGTTCTGGC
Statistics
Matches: 134, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
79 37 0.28
80 13 0.10
81 83 0.62
82 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (79 bp):
AAATGACCGAAATACCCCCATAGGATAAAATGACCGAAATACCTCATAGGATAAAATGACTGAAA
TACCCCTAGGAGTA
Found at i:41116640 original size:26 final size:26
Alignment explanation
Indices: 41116611--41116717 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
41116601 TGGAGGAAGT
* * *
41116611 ATACTGTTACTAGTAGCTTTGTTGTG
1 ATACTGTTACTAGCAGCTTTGCTGCG
*
41116637 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
* * *
41116663 ATACTGTTATTGGCAGCTTTGCTACG
1 ATACTGTTACTAGCAGCTTTGCTGCG
* *
41116689 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
41116715 ATA
1 ATA
41116718 TTGGTGTGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTAGCAGCTTTGCTGCG
Found at i:41116681 original size:52 final size:52
Alignment explanation
Indices: 41116611--41116717 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 52
41116601 TGGAGGAAGT
* * ** *
41116611 ATACTGTTACTAGTAGCTTTGTTGTGATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
* *
41116663 ATACTGTTATTGGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
41116715 ATA
1 ATA
41116718 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (52 bp):
ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
Found at i:41121631 original size:43 final size:43
Alignment explanation
Indices: 41121558--41121688 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
41121548 ACACATATAT
* * * * * *
41121558 CATATACAATGTC-ATATCCCATATATGGTCTTACATGTTATCA
1 CATAT-CAATGCCAATATCCCAGACAGGGTCTTACACGTAATCA
* * * * **
41121601 CATATCGATGCCACTGTCCTAGACAGGGTCTTACACGTAATTT
1 CATATCAATGCCAATATCCCAGACAGGGTCTTACACGTAATCA
* *
41121644 CATATCAATGCCAATATCCCAGACATGGTCTTACACGAAATCA
1 CATATCAATGCCAATATCCCAGACAGGGTCTTACACGTAATCA
41121687 CA
1 CA
41121689 CTCGAGAGTC
Statistics
Matches: 67, Mismatches: 20, Indels: 2
0.75 0.22 0.02
Matches are distributed among these distances:
42 5 0.07
43 62 0.93
ACGTcount: A:0.32, C:0.25, G:0.13, T:0.30
Consensus pattern (43 bp):
CATATCAATGCCAATATCCCAGACAGGGTCTTACACGTAATCA
Found at i:41129398 original size:43 final size:43
Alignment explanation
Indices: 41129351--41129447 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
41129341 TCCCAAATAT
* * *
41129351 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
** *
41129394 GGTCTTACACGTAATCGTATATCGATGCCAATGTCCCAGACAT
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
41129437 GGTCTTACACG
1 GGTCTTACACG
41129448 AAAGCACACC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.28
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
Found at i:41131125 original size:40 final size:40
Alignment explanation
Indices: 41131088--41131312 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
41131078 GCTACTCGTT
* *
41131088 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41131128 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41131168 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
41131208 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
41131247 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41131288 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41131313 CATCATTCTA
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.19
40 118 0.72
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41131272 original size:119 final size:120
Alignment explanation
Indices: 41131090--41131312 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
41131080 TACTCGTTCA
*
41131090 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
41131155 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
41131210 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
41131272 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41131313 CATCATTCTA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41132507 original size:56 final size:56
Alignment explanation
Indices: 41132440--41132559 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
41132430 TATTAGTTTA
41132440 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
41132496 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41132552 TTGCCCAT
1 TTGCCCAT
41132560 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41139093 original size:40 final size:40
Alignment explanation
Indices: 41139056--41139280 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
41139046 GCTACTCGTT
* *
41139056 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
41139096 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
41139136 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
41139176 CCAATGCCTTCAGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
41139215 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
41139256 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
41139281 CATCATTCTA
Statistics
Matches: 164, Mismatches: 16, Indels: 10
0.86 0.08 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 117 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:41139240 original size:119 final size:120
Alignment explanation
Indices: 41139058--41139280 Score: 292
Period size: 119 Copynumber: 1.9 Consensus size: 120
41139048 TACTCGTTCA
* *
41139058 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
41139123 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
41139178 AATGCCTTCAGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCAGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
41139240 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41139281 CATCATTCTA
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.74
120 19 0.21
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCAGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41140476 original size:56 final size:56
Alignment explanation
Indices: 41140409--41140528 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
41140399 TATTAGTTTA
41140409 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
41140465 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
41140521 TTGCCCAT
1 TTGCCCAT
41140529 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:41145943 original size:39 final size:39
Alignment explanation
Indices: 41145895--41146023 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
41145885 ATTCACTTTT
* * * *
41145895 AAGCGTATATCACATTACACATATAATAACATAACATTT
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * * **
41145934 ACGCATATATAAAAATACTCATATAATCGCATAACATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * *
41145973 AAGCATATATCACAATACTCATATAATCACAGAATATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
*
41146012 AACCATATATCA
1 AAGCATATATCA
41146024 TAATCCACAC
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATAACATAACATTC
Found at i:41148043 original size:15 final size:14
Alignment explanation
Indices: 41148022--41148057 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
41148012 ATAATCATTA
*
41148022 ATAATTATCTTAAT
1 ATAATTATCCTAAT
41148036 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
41148051 ATAATTA
1 ATAATTA
41148058 AAATAGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:41151910 original size:39 final size:39
Alignment explanation
Indices: 41151827--41151965 Score: 138
Period size: 39 Copynumber: 3.6 Consensus size: 39
41151817 ATTCACTTTT
* * * *
41151827 AAGCTTATATCACATTACACATATAATCAC-ATACATTT
1 AAGCATATATCACAATACACATATAATCACAAAACATTA
* * * * *
41151865 ACGCATATACCACAATACTCATACAATCACAAAACATTC
1 AAGCATATATCACAATACACATATAATCACAAAACATTA
* * *
41151904 AAGCATATATCATAGTACTCATATAATCACATAAA-ATTA
1 AAGCATATATCACAATACACATATAATCACA-AAACATTA
*
41151943 AAGCATATATCATAATACACATA
1 AAGCATATATCACAATACACATA
41151966 ATCATATTTA
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
38 24 0.29
39 56 0.67
40 3 0.04
ACGTcount: A:0.47, C:0.22, G:0.04, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACAAAACATTA
Found at i:41158977 original size:20 final size:20
Alignment explanation
Indices: 41158949--41158998 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
41158939 AAGACTATGA
*
41158949 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
41158969 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
41158989 TCCATTCCAT
1 ACCATTCCAT
41158999 CTATTTAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:41159550 original size:26 final size:25
Alignment explanation
Indices: 41159501--41159550 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
41159491 GGAATGGTCA
**
41159501 ATGATTTGAGGATTGAATGGGATTG
1 ATGATTTGAGGATTGAAAAGGATTG
*
41159526 ATGATTTGAGTGATTGAAAATGATT
1 ATGATTTGAG-GATTGAAAAGGATT
41159551 TACAGAATGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.30, T:0.38
Consensus pattern (25 bp):
ATGATTTGAGGATTGAAAAGGATTG
Found at i:41174284 original size:16 final size:16
Alignment explanation
Indices: 41174263--41174306 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
41174253 TCTCCCATGG
41174263 TTTCACAATCTATAAT
1 TTTCACAATCTATAAT
*
41174279 TTTCACAGTTCTATAAT
1 TTTCACA-ATCTATAAT
41174296 TTTCAC-ATCTA
1 TTTCACAATCTA
41174307 AAGATCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 14 0.56
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTCACAATCTATAAT
Found at i:41177344 original size:20 final size:20
Alignment explanation
Indices: 41177297--41177347 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
41177287 CAAGCTACGA
*
41177297 CTCAACAAAGGCTGATATGG
1 CTCAACACAGGCTGATATGG
* *
41177317 CTCAACACAGGTTGCTATGG
1 CTCAACACAGGCTGATATGG
41177337 CTCAACACAGG
1 CTCAACACAGG
41177348 AGTCATGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (20 bp):
CTCAACACAGGCTGATATGG
Found at i:41178270 original size:27 final size:27
Alignment explanation
Indices: 41178210--41178527 Score: 282
Period size: 27 Copynumber: 11.9 Consensus size: 27
41178200 TTTAAGGATT
* * *
41178210 AGGGTAAAATAACCGAAATACTCTAGA
1 AGGGTAAAATTACCGAAATACCCTCGA
* * *
41178237 TGTGTAAAATTACCGAAATACCCTTGA
1 AGGGTAAAATTACCGAAATACCCTCGA
* * *
41178264 AGGGTAAAATTACCAAAATGCCCTTGA
1 AGGGTAAAATTACCGAAATACCCTCGA
* ** * *
41178291 TGGGTAAAATTATTGAAACACCCT-AA
1 AGGGTAAAATTACCGAAATACCCTCGA
* * *
41178317 AGGGTAAAATTATCGACATACCCTCAA
1 AGGGTAAAATTACCGAAATACCCTCGA
*
41178344 AGGGTAAAATTATCGAAATACCCTCGA
1 AGGGTAAAATTACCGAAATACCCTCGA
* *
41178371 TGGGTAAAATTACCGAAATACCTTCGA
1 AGGGTAAAATTACCGAAATACCCTCGA
* **
41178398 TGGGTAAAATTACTAAAATACCCTCG-
1 AGGGTAAAATTACCGAAATACCCTCGA
* * *
41178424 ATGGTAAAATTATCAAAATACCCTC-A
1 AGGGTAAAATTACCGAAATACCCTCGA
* * * *
41178450 ATAGGTAAAATTATCAAAATACCCCCGA
1 A-GGGTAAAATTACCGAAATACCCTCGA
* * *
41178478 ACGGTAAAATGACCGGAATACCCTCGA
1 AGGGTAAAATTACCGAAATACCCTCGA
* **
41178505 TGGGTAAAATTACTAAAATACCC
1 AGGGTAAAATTACCGAAATACCC
41178528 CTATAGGGCA
Statistics
Matches: 241, Mismatches: 46, Indels: 8
0.82 0.16 0.03
Matches are distributed among these distances:
26 43 0.18
27 196 0.81
28 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATTACCGAAATACCCTCGA
Found at i:41178299 original size:54 final size:54
Alignment explanation
Indices: 41178210--41178527 Score: 316
Period size: 54 Copynumber: 5.9 Consensus size: 54
41178200 TTTAAGGATT
* * * * * *
41178210 AGGGTAAAATAACCGAAATACTCTAGATGTGTAAAATTACCGAAATACCCTTGA
1 AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGA
* * * *** * *
41178264 AGGGTAAAATTACCAAAATGCCCTTGATGGGTAAAATTATTGAAACACCCT-AA
1 AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGA
* * * * * *
41178317 AGGGTAAAATTATCGACATACCCTCAAAGGGTAAAATTATCGAAATACCCTCGA
1 AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGA
* * *
41178371 TGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACTAAAATACCCTCG-
1 AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGA
* * * * * * *
41178424 ATGGTAAAATTATCAAAATACCCTCAATAGGTAAAATTATCAAAATACCCCCGA
1 AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGA
* * * *
41178478 ACGGTAAAATGACCGGAATACCCTCGATGGGTAAAATTACTAAAATACCC
1 AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCC
41178528 CTATAGGGCA
Statistics
Matches: 214, Mismatches: 48, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
53 86 0.40
54 128 0.60
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (54 bp):
AGGGTAAAATTACCGAAATACCCTCGATGGGTAAAATTACCAAAATACCCTCGA
Found at i:41178400 original size:107 final size:107
Alignment explanation
Indices: 41178240--41178541 Score: 365
Period size: 107 Copynumber: 2.8 Consensus size: 107
41178230 CTCTAGATGT
* * * * *
41178240 GTAAAATTACCGAAATACCCTTGAAGGGTAAAATTACCAAAATGCCCTT-GATGGGTAAAATTAT
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAAT-ACCTTCGATGGGTAAAATTAC
* * *
41178304 TGAAACACCCTAAAGGGTAAAATTATCGACATACCCTCAA-AGG
65 TAAAACACCCTAAAGGGTAAAATTATCAAAATACCCTCAATA-G
*
41178347 GTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACT
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACT
* ** *
41178412 AAAATACCCTCGATGGTAAAATTATCAAAATACCCTCAATAG
66 AAAACACCCTAAAGGGTAAAATTATCAAAATACCCTCAATAG
* * * * * *
41178454 GTAAAATTATCAAAATACCCCCGAACGGTAAAATGACCGGAATACCCTCGATGGGTAAAATTACT
1 GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACT
* * *
41178519 AAAATACCCCTATAGGGCAAAAT
66 AAAACA-CCCTAAAGGGTAAAAT
41178542 GACCGTTATA
Statistics
Matches: 168, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
106 4 0.02
107 151 0.90
108 13 0.08
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.24
Consensus pattern (107 bp):
GTAAAATTATCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACT
AAAACACCCTAAAGGGTAAAATTATCAAAATACCCTCAATAG
Found at i:41178430 original size:80 final size:80
Alignment explanation
Indices: 41178211--41178527 Score: 314
Period size: 80 Copynumber: 3.9 Consensus size: 80
41178201 TTAAGGATTA
* * * * * *
41178211 GGGTAAAATAACCGAAATACTCTAGATGTGTAAAATTACCGAAATACCCTTGAAGGGTAAAATTA
1 GGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCG-AGGGTAAAATTA
* * *
41178276 CCAAAATGCCCTTGAT
65 TCAAAATACCCTCGAT
** * * * * *
41178292 GGGTAAAATTATTGAAACACCCT-AAAGGGTAAAATTATCGACATACCCTCAAAGGGTAAAATTA
1 GGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTC-GAGGGTAAAATTA
*
41178356 TCGAAATACCCTCGAT
65 TCAAAATACCCTCGAT
* * ** *
41178372 GGGTAAAATTACCGAAATACCTTCGATGGGTAAAATTACTAAAATACCCTCGATGGTAAAATTAT
1 GGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAGGGTAAAATTAT
*
41178437 CAAAATACCCTCAAT
66 CAAAATACCCTCGAT
* * * * * * *
41178452 AGGTAAAATTATCAAAATACCCCCGAACGGTAAAATGACCGGAATACCCTCGATGGGTAAAATTA
1 GGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGA-GGGTAAAATTA
41178517 -CTAAAATACCC
65 TC-AAAATACCC
41178528 CTATAGGGCA
Statistics
Matches: 190, Mismatches: 42, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
80 132 0.69
81 58 0.31
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.24
Consensus pattern (80 bp):
GGGTAAAATTACCGAAATACCCTCGAAGGGTAAAATTACCGAAATACCCTCGAGGGTAAAATTAT
CAAAATACCCTCGAT
Found at i:41178457 original size:134 final size:133
Alignment explanation
Indices: 41178210--41178526 Score: 395
Period size: 134 Copynumber: 2.4 Consensus size: 133
41178200 TTTAAGGATT
* * *
41178210 AGGGTAAAATAACCGAAATACTCTAGATGTGTAAAATTACCGAAATACCCTTGAAGGGTAAAATT
1 AGGGTAAAATAACCGAAATACCCTCGATGGGTAAAATTACCGAAATA-CCTTGAAGGGTAAAATT
* * ** * *
41178275 ACCAAAATGCCCTTGATGGGTAAAATTATTGAAACACCCTAAAGGGTAAAATTATCGACATACCC
65 ACCAAAATACCCTCGATGGGTAAAATTATCAAAACACCCTAAAGGGTAAAATTATCAAAATACCC
*
41178340 TCAA
130 CCAA
* * *
41178344 AGGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTTCGATGGGTAAAATT
1 AGGGTAAAATAACCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTT-GAAGGGTAAAATT
* *
41178409 ACTAAAATACCCTCGAT-GGTAAAATTATCAAAATACCCTCAATA-GGTAAAATTATCAAAATAC
65 ACCAAAATACCCTCGATGGGTAAAATTATCAAAACACCCT-AA-AGGGTAAAATTATCAAAATAC
*
41178472 CCCCGA
128 CCCCAA
* * * **
41178478 ACGGTAAAATGACCGGAATACCCTCGATGGGTAAAATTACTAAAATACC
1 AGGGTAAAATAACCGAAATACCCTCGATGGGTAAAATTACCGAAATACC
41178527 CCTATAGGGC
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
133 23 0.15
134 134 0.85
135 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (133 bp):
AGGGTAAAATAACCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTTGAAGGGTAAAATTA
CCAAAATACCCTCGATGGGTAAAATTATCAAAACACCCTAAAGGGTAAAATTATCAAAATACCCC
CAA
Found at i:41178839 original size:26 final size:26
Alignment explanation
Indices: 41178740--41178831 Score: 112
Period size: 26 Copynumber: 3.5 Consensus size: 26
41178730 CCACAAATAT
* * *
41178740 TGTTACTGGCAGCTTTACTACGTTAT
1 TGTTACTGGCAGCTCTACTGCGTTAC
* ** *
41178766 TGATACTGGCAGCTCTGTTGTGTTAC
1 TGTTACTGGCAGCTCTACTGCGTTAC
*
41178792 TGTTACTAGCAGCTCTACTGCGTTAC
1 TGTTACTGGCAGCTCTACTGCGTTAC
41178818 TGTTACTGGCAGCT
1 TGTTACTGGCAGCT
41178832 TTCCTGCGAT
Statistics
Matches: 53, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.17, C:0.22, G:0.23, T:0.38
Consensus pattern (26 bp):
TGTTACTGGCAGCTCTACTGCGTTAC
Found at i:41179047 original size:30 final size:30
Alignment explanation
Indices: 41178959--41179061 Score: 120
Period size: 30 Copynumber: 3.5 Consensus size: 30
41178949 AAATACTATT
41178959 TTGGGCTAAGG-CC-CACACTGTTACTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* * *
41178987 TTTGGCTAAGGCCCACACTCTGTTATTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* **
41179017 TTGGGCTATGGCCCACACACTACTACTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* *
41179047 TAGGGCTCAGGCCCA
1 TTGGGCTAAGGCCCA
41179062 GACTAATTCT
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 10 0.16
29 2 0.03
30 49 0.80
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.28
Consensus pattern (30 bp):
TTGGGCTAAGGCCCACACACTGTTACTGTA
Found at i:41181067 original size:47 final size:47
Alignment explanation
Indices: 41180980--41181283 Score: 446
Period size: 47 Copynumber: 6.5 Consensus size: 47
41180970 CCCTTCGGGA
* * * * * * *
41180980 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
41181027 CCTGTCCCATGTATACACTTTCACGTTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41181074 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41181121 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41181168 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41181215 CTTATCATACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41181262 CTTATCACATATATACACTTTC
1 CTTATCACATATATACACTTTC
41181284 TTGGCTGAAT
Statistics
Matches: 233, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 233 1.00
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41186438 original size:37 final size:37
Alignment explanation
Indices: 41186388--41186466 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
41186378 TTATTACGAA
* * *
41186388 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
41186425 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
41186462 GTCTT
1 GTCTT
41186467 TAGAGCTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:41186701 original size:47 final size:47
Alignment explanation
Indices: 41186584--41187052 Score: 700
Period size: 46 Copynumber: 10.1 Consensus size: 47
41186574 GCCTTCGGGA
* * * * * * * *
41186584 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41186631 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41186677 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
41186724 CTTATCACATACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41186771 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
41186818 C-TATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41186864 C-TATCACACATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
41186909 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41186956 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41187001 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
41187049 CTTA
1 CTTA
41187053 CTATCATTTC
Statistics
Matches: 397, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
44 6 0.02
45 46 0.12
46 155 0.39
47 150 0.38
48 38 0.10
49 2 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:41186942 original size:23 final size:23
Alignment explanation
Indices: 41186916--41186988 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
41186906 GGCCTTATCA
41186916 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
*** * *
41186939 CACATCGGC-CATT-AGGCCTT-AT
1 CACATATACACTTTCA--CATTCAT
41186961 CACATATACACTTTCACATTCAT
1 CACATATACACTTTCACATTCAT
41186984 CACAT
1 CACAT
41186989 CGGCCATTAG
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
21 1 0.03
22 14 0.40
23 19 0.54
24 1 0.03
ACGTcount: A:0.32, C:0.32, G:0.05, T:0.32
Consensus pattern (23 bp):
CACATATACACTTTCACATTCAT
Found at i:41187039 original size:93 final size:91
Alignment explanation
Indices: 41186584--41187052 Score: 672
Period size: 93 Copynumber: 5.0 Consensus size: 91
41186574 GCCTTCGGGA
* * * * * * * *
41186584 CTTATCACATTTATGCACTTTCACATCCATTACGTTGGCCACTCGGCCTGTCACATATATACACT
1 CTTATCACA--TATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
41186649 TTCACATTCATCACATCGGCCATTAGGC
64 TTCACATTCATCACATCGGCCATTAGGC
* *
41186677 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATACATACAC
1 CTTATCAC--ATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
* *
41186742 TTTCACATTCATCACGTCGGCTATTAGGC
63 TTTCACATTCATCACATCGGCCATTAGGC
* *
41186771 CTTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTATCACACATATACACT
1 CTTAT--CACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACT
*
41186836 TTCACATTCATCACATCGGCTATTAGGC
64 TTCACATTCATCACATCGGCCATTAGGC
*
41186864 C-TATCACACATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACACATATACAC
1 CTTAT--CACATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCACATATATACAC
41186927 TTTCACATTCATCACATCGGCCATTAGGC
63 TTTCACATTCATCACATCGGCCATTAGGC
41186956 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATATACACT
1 CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCAC--ATATATACACT
41187021 TTCACATTCATCACATCGGCCATTAGGC
64 TTCACATTCATCACATCGGCCATTAGGC
41187049 CTTA
1 CTTA
41187053 CTATCATTTC
Statistics
Matches: 348, Mismatches: 18, Indels: 20
0.90 0.05 0.05
Matches are distributed among these distances:
91 45 0.13
92 90 0.26
93 125 0.36
94 84 0.24
95 1 0.00
96 3 0.01
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (91 bp):
CTTATCACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTATCACATATATACACTTT
CACATTCATCACATCGGCCATTAGGC
Found at i:41194006 original size:3 final size:3
Alignment explanation
Indices: 41193992--41194034 Score: 68
Period size: 3 Copynumber: 14.0 Consensus size: 3
41193982 CAAATAAAAC
*
41193992 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
41194035 CATTGATGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 34 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:41195598 original size:50 final size:49
Alignment explanation
Indices: 41195544--41196399 Score: 426
Period size: 50 Copynumber: 17.1 Consensus size: 49
41195534 TTGTACCTTC
* *
41195544 AATCTTTTTAACTGCGATGTCGGGGATGCAAGATTTACCATTGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
* ** *** * * **** * *
41195594 AATCTGTTCCACTGCACCACCTGGGAAGTAAGATTCGTTGTTGTAGCCTT
1 AATCTTTTTAACTGCA-TGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
*
41195644 AATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* * **** * * * * *
41195694 TATCTGTACCGCTGCATTGCCTGGGG-AGTAAGATTCACTATTATAGCTTT
1 AATCTTTTTAACTGCA-TGTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
*
41195744 AGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATT-TGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* *** * * *
41195794 AATCTATTCCGCTGCATCGCCTGGGG-AGTAAGATTC-CCTATTGTAGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACC-ATTGTGGCTTT
*
41195844 AATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* ** * * * * ** *
41195894 AATCTGTTCCACTGCATCGCCTAGGG-AGTAAGATTCGCTGTTGTAGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
*
41195944 AATCTTTTTAACTGGAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACT-GCATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* * * ** * **
41195994 AATCTGCTCT-GCTGCATCACCTGGGG-AGTAAGATTCACTGTTGTGGCTTT
1 AATCT-TTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
* * *
41196044 AATCTTTTTAACTACAATGT-GGGGAAAGCAAGATTCACCGTTATGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGG-AAGCAAGATTCACCATTGTGGCTTT
** ** * * * * ** * *
41196094 AATCTGCTCCACTGTACTGGCTGGGAGAGTAAGATTCGTCGTTGTGACTTT
1 AATCTTTTTAACTGCA-TGTCGGGGA-AGCAAGATTCACCATTGTGGCTTT
*
41196145 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTAGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
** * * * **** *
41196195 AAT-TTGTTCCACTGCATCGCCTGGGAAGTAAGATTCGTTGTTGTAGCTTT
1 AATCTT-TTTAACTGCAT-GTCGGGGAAGCAAGATTCACCATTGTGGCTTT
*
41196245 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCA-CCATTGTGGCTTT
* ** * * * ** * ** *
41196295 AATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCGCTGTTGTAGCTTT
1 AATCTTTTTAACTGCA-TGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
* * * **
41196345 AATCTTTTTAACTGTAATGTCGGGGAAGCATGATTCGCTGTTGTGGCTTT
1 AATCTTTTTAACTG-CATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
41196395 AATCT
1 AATCT
41196400 GTTCCACTGC
Statistics
Matches: 585, Mismatches: 178, Indels: 86
0.69 0.21 0.10
Matches are distributed among these distances:
48 4 0.01
49 35 0.06
50 469 0.80
51 76 0.13
52 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (49 bp):
AATCTTTTTAACTGCATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
Found at i:41195692 original size:100 final size:100
Alignment explanation
Indices: 41195519--41196429 Score: 1195
Period size: 100 Copynumber: 9.1 Consensus size: 100
41195509 AACTTTTGGA
* ** * * * * *
41195519 AAGTAAGATTTGCCATTGTACCTTCAATCTTTTTAACTGCGATGTCGGGGATGCAAGATTTACC-
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
41195583 ATTGTGGCTTTAATCTGTTCCACTGCACCACCTGGG
66 A-TGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * *
41195619 AAGTAAGATTCGTTGTTGTAGCCTTAATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * * *
41195684 ATGTGGCTTTTATCTGTACCGCTGCATTGCCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * *
41195719 GAGTAAGATTCACTATTATAGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
41195784 ATTTGGCTTTAATCTATTCCGCTGCATCGCCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * *
41195819 GAGTAAGATTCCCTATTGTAGCTTTAATCTTTTTAACTGCAATGTTGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
41195884 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCT-GGG
*
41195920 -AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGGAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* ** *
41195984 ATGTGGCTTTAATCTGCTCTGCTGCATCACCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * *
41196019 GAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTACAATGT-GGGGAAAGCAAGATTCACC
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG-AAGCAAGATTCACC
* * * * *
41196083 GTTATGGCTTTAATCTGCTCCACTGTA-CTGGCTGGG
65 GATGTGGCTTTAATCTGTTCCACTGCATC-GCCTGGG
41196119 AGAGTAAGATTCG-TCGTTGT-GACTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 A-AGTAAGATTCGCT-GTTGTAG-CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
41196182 CCGATGTAGCTTTAATTTGTTCCACTGCATCGCCTGGG
63 CCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* *
41196220 AAGTAAGATTCGTTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
41196285 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * *
41196320 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCGGGGAAGCATGATTCGCTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
41196385 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTAGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
41196420 AGAGTAAGAT
1 A-AGTAAGAT
41196430 ATGTAATTCT
Statistics
Matches: 716, Mismatches: 82, Indels: 25
0.87 0.10 0.03
Matches are distributed among these distances:
99 8 0.01
100 610 0.85
101 93 0.13
102 5 0.01
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
Found at i:41196630 original size:44 final size:44
Alignment explanation
Indices: 41196533--41196649 Score: 155
Period size: 44 Copynumber: 2.7 Consensus size: 44
41196523 TTTTAATCCG
* * *
41196533 CTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTCAATCTG
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTA
* * *
41196577 TTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATCTA
1 CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTA
*
41196621 CTCCACTGTAA-CATCAGAGAGATAAGATT
1 CTCCACTGTAATC-TCAGGGAGATAAGATT
41196650 CACCATTTCT
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 1 0.02
44 62 0.98
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTCAATCTA
Found at i:41196952 original size:129 final size:129
Alignment explanation
Indices: 41196722--41196975 Score: 436
Period size: 129 Copynumber: 2.0 Consensus size: 129
41196712 AATCTTCAAT
* *
41196722 CTATTCCACTGCTGACTAGGGATATCGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
1 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* * *
41196787 AAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTTAGGGAGACAAGATCTGTAATTTCCCAAC
66 AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAAC
*
41196851 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGAT
1 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* *
41196916 AAGATTTGTCGTATTTGATCTGCTTCACTACTGCTTAGGGAGACAAGATCTGTAATTTCC
66 AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCC
41196976 TAGATCTGTT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
129 117 1.00
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.35
Consensus pattern (129 bp):
CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATTTCCCAAC
Found at i:41199123 original size:14 final size:14
Alignment explanation
Indices: 41199104--41199142 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
41199094 CTTTTTGTCA
41199104 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
* *
41199118 TTTTTTATCTAGAT
1 TTTTTTATTTTGAT
41199132 TTTTTTATTTT
1 TTTTTTATTTT
41199143 TTCTTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTGAT
Found at i:41203432 original size:40 final size:42
Alignment explanation
Indices: 41203324--41203444 Score: 113
Period size: 46 Copynumber: 2.8 Consensus size: 42
41203314 ATAAATGAAG
* * * *
41203324 AAAATAAATAAAAGATATGTATATGGATTATAAAATACAAAAGC
1 AAAATATATAAAATATAAGTATATAGATTATAAAATAC-AAA-C
* * *
41203368 ATAAATATTTACATATATAGGTATATAGATTATAAAATAC-AA-
1 A-AAATATATA-AAATATAAGTATATAGATTATAAAATACAAAC
41203410 AAAATATATAAAATATAAGTATATACG-TTATAAAA
1 AAAATATATAAAATATAAGTATATA-GATTATAAAA
41203445 AAATGTGTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
40 21 0.32
41 9 0.14
42 1 0.02
44 3 0.05
45 7 0.11
46 24 0.37
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (42 bp):
AAAATATATAAAATATAAGTATATAGATTATAAAATACAAAC
Found at i:41203766 original size:3 final size:3
Alignment explanation
Indices: 41203752--41203785 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
41203742 CAAATAAAAC
*
41203752 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
41203786 CATTGATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:41203768 original size:16 final size:16
Alignment explanation
Indices: 41203744--41203782 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
41203734 TAAAAGGACA
41203744 AATAA-AACTAATAAT
1 AATAATAACTAATAAT
*
41203759 GATAATAACTAATAAT
1 AATAATAACTAATAAT
41203775 AATAATAA
1 AATAATAA
41203783 TAACATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (16 bp):
AATAATAACTAATAAT
Found at i:41218462 original size:22 final size:24
Alignment explanation
Indices: 41218437--41218491 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
41218427 ATAAGAAGAG
41218437 AAATATTTTAAAAATTACAA-AA-A
1 AAATATTTTAAAAATTA-AAGAATA
* * *
41218460 AATTCTTTTAAAATTTAAAGAATA
1 AAATATTTTAAAAATTAAAGAATA
41218484 AAATATTT
1 AAATATTT
41218492 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATTTTAAAAATTAAAGAATA
Found at i:41221482 original size:16 final size:16
Alignment explanation
Indices: 41221461--41221500 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
41221451 TTTGGTTCGC
41221461 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
41221477 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
*
41221493 CGTAATAG
1 TGTAATAG
41221501 GTAATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (16 bp):
TGTAATAGAATAGAGG
Found at i:41221831 original size:16 final size:16
Alignment explanation
Indices: 41221810--41221845 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
41221800 AAATGGGCCA
41221810 GGCCGGGTCGGGCTCG
1 GGCCGGGTCGGGCTCG
*
41221826 GGCCGGGTCGGGCTTG
1 GGCCGGGTCGGGCTCG
41221842 GGCC
1 GGCC
41221846 CAGTATGCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.00, C:0.31, G:0.56, T:0.14
Consensus pattern (16 bp):
GGCCGGGTCGGGCTCG
Found at i:41222874 original size:13 final size:13
Alignment explanation
Indices: 41222858--41222883 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41222848 ATGACTTTTA
41222858 AATGATAATAAGT
1 AATGATAATAAGT
41222871 AATGATAATAAGT
1 AATGATAATAAGT
41222884 TACGATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AATGATAATAAGT
Found at i:41229738 original size:40 final size:40
Alignment explanation
Indices: 41229547--41229731 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
41229537 TTGAATGATG
* * * *
41229547 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** * *
41229587 TCCGAACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41229627 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41229666 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41229707 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41229732 AACGAGTAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
39 34 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41229753 original size:79 final size:79
Alignment explanation
Indices: 41229600--41229754 Score: 199
Period size: 79 Copynumber: 2.0 Consensus size: 79
41229590 GAACTAAGAT
* * **
41229600 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
41229665 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
41229679 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
*
41229742 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
41229755 ATTTCGAAGG
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.59
80 25 0.38
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:41231962 original size:46 final size:46
Alignment explanation
Indices: 41231886--41231973 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
41231876 AAAAGTGTAG
* * *
41231886 TGTGGGCCTTAGCCTATTATAGTATCAGAATCAAAAATAGAATACA
1 TGTGGGCCTAAGCCCATTACAGTATCAGAATCAAAAATAGAATACA
* **
41231932 TGTGGGCCTAAGCCCATTACGGTGAT-AGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCATTACAGT-ATCAGAATCAAAAATAGAA
41231974 ATGCAACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
46 33 0.94
47 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCATTACAGTATCAGAATCAAAAATAGAATACA
Found at i:41232272 original size:32 final size:32
Alignment explanation
Indices: 41232189--41232361 Score: 190
Period size: 32 Copynumber: 5.4 Consensus size: 32
41232179 GAATGGCTAC
* * ** *
41232189 AAGCCATAAGT-ACAGTAATATGATTAGCATA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* * *
41232220 AAGCCATCAGCAGCAGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
* ** *
41232252 CAA-CCATTAGTAACAATAATATGA-CTGGTACA
1 -AAGCCATCAGTAACGGTAATATGATC-GGCACA
41232284 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
41232316 AAGCCATCAGTAACGGTAATATGATCGGCACA
1 AAGCCATCAGTAACGGTAATATGATCGGCACA
*
41232348 AAGCTATCAGTAAC
1 AAGCCATCAGTAAC
41232362 ATCATAGCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
31 12 0.10
32 106 0.88
33 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.21
Consensus pattern (32 bp):
AAGCCATCAGTAACGGTAATATGATCGGCACA
Found at i:41232360 original size:96 final size:95
Alignment explanation
Indices: 41232189--41232362 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 95
41232179 GAATGGCTAC
* * *
41232189 AAGCCATAAGTACAGTAATATGATTAGCATAAAGCCATCAGCAGCAGTAATATGATCGGCACACA
1 AAGCCATAAGTACAGTAATATGATCAGCACAAAGCCATCAGCAACAGTAATATGATCGGCACACA
*
41232254 ACCATTAGTAACAATAATATGACTGGTACA
66 ACCATCAGTAACAATAATATGACTGGTACA
* * * * *
41232284 AAGCCATCAGTAACGGTAATATGATCGGCACAAAGCCATCAGTAACGGTAATATGATCGGCACA-
1 AAGCCATAAGT-ACAGTAATATGATCAGCACAAAGCCATCAGCAACAGTAATATGATCGGCACAC
*
41232348 AAGCTATCAGTAACA
65 AA-CCATCAGTAACA
41232363 TCATAGCAAA
Statistics
Matches: 67, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
95 12 0.18
96 55 0.82
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (95 bp):
AAGCCATAAGTACAGTAATATGATCAGCACAAAGCCATCAGCAACAGTAATATGATCGGCACACA
ACCATCAGTAACAATAATATGACTGGTACA
Found at i:41232407 original size:27 final size:27
Alignment explanation
Indices: 41232377--41232440 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
41232367 AGCAAAGCTG
*
41232377 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
*
41232404 CCAGAAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
41232431 CCAGT-ACAGT
1 CCAGTAACAGT
41232441 ACTTCCCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.22
27 23 0.72
28 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:41232916 original size:27 final size:27
Alignment explanation
Indices: 41232588--41232903 Score: 327
Period size: 27 Copynumber: 11.7 Consensus size: 27
41232578 AAAATAGCCA
*
41232588 TTTACCCT-CTAGGGGCATTACGATCAT
1 TTTACCCTAC-AGGGGCATTACGGTCAT
41232615 TTTACCCTACAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* *
41232642 TTTACCCTACAGGGGCCTTACGGTCTT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * * *
41232669 TTTACCTTATAGGGGTATTACGATTAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* *
41232696 TTTACCCTA-TGAGGGTATTACGGTCAT
1 TTTACCCTACAG-GGGCATTACGGTCAT
*
41232723 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* *
41232750 TTTA-CCTATAAGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * * *
41232776 TTTATCCTAAAAGGGCATTACAGTCTT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * *
41232803 TTTACCCTACAGAGGCATTACAGTCTT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * *
41232830 TTTACCCAACAGGGGTATTACAGTAAT
1 TTTACCCTACAGGGGCATTACGGTCAT
*
41232857 TTTATCCCATA-A-GGGCATTACGATCAT
1 TTTA-CCC-TACAGGGGCATTACGGTCAT
41232884 TTTACCCTACAGGGGCATTA
1 TTTACCCTACAGGGGCATTA
41232904 TGGTTATTAT
Statistics
Matches: 244, Mismatches: 37, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
25 2 0.01
26 28 0.11
27 207 0.85
28 6 0.02
29 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATTACGGTCAT
Found at i:41237264 original size:43 final size:43
Alignment explanation
Indices: 41237216--41237303 Score: 167
Period size: 43 Copynumber: 2.0 Consensus size: 43
41237206 AAATAGTGAA
*
41237216 TTTTTGGTGAATGGATCAAATTGTAAAGAAAGCAAAACTTTCT
1 TTTTTGGTGAATGGACCAAATTGTAAAGAAAGCAAAACTTTCT
41237259 TTTTTGGTGAATGGACCAAATTGTAAAGAAAGCAAAACTTTCT
1 TTTTTGGTGAATGGACCAAATTGTAAAGAAAGCAAAACTTTCT
41237302 TT
1 TT
41237304 CTTCTCTTCT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (43 bp):
TTTTTGGTGAATGGACCAAATTGTAAAGAAAGCAAAACTTTCT
Found at i:41244000 original size:33 final size:34
Alignment explanation
Indices: 41243926--41243993 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
41243916 AAATTTAAAC
41243926 AAATTAATTACTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGTTGAACTA
41243960 AAATTAATT-CTAACACTTATTTAAGTTGAACTA
1 AAATTAATTACTAACACTTATTTAAGTTGAACTA
41243993 A
1 A
41243994 GTTTAATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (34 bp):
AAATTAATTACTAACACTTATTTAAGTTGAACTA
Found at i:41248322 original size:20 final size:20
Alignment explanation
Indices: 41248297--41248369 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
41248287 GAACCCTTCC
41248297 ATTTACTTACTTTCCATTAT
1 ATTTACTTACTTTCCATTAT
* *
41248317 ATTTACTTAATTTTCATTAT
1 ATTTACTTACTTTCCATTAT
**
41248337 ATTTACTTACTTTCCATTGC
1 ATTTACTTACTTTCCATTAT
41248357 ATTTACTTACTTT
1 ATTTACTTACTTT
41248370 AGCTCAAATA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.25, C:0.18, G:0.01, T:0.56
Consensus pattern (20 bp):
ATTTACTTACTTTCCATTAT
Found at i:41266105 original size:22 final size:22
Alignment explanation
Indices: 41266078--41266199 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
41266068 TTCCACATCC
41266078 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
41266100 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
41266124 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
41266147 ATCTCATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
41266171 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
41266194 ATCACA
1 ATCACA
41266200 CATACACATG
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 26 0.37
23 12 0.17
24 12 0.17
25 20 0.29
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:41266128 original size:47 final size:47
Alignment explanation
Indices: 41266050--41266648 Score: 855
Period size: 47 Copynumber: 12.6 Consensus size: 47
41266040 CCCTTCGTGA
* * * *
41266050 CTTAACACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41266097 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41266144 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41266191 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41266238 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41266285 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
41266332 CTTATCACATATATATAGACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41266383 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41266430 CTTATCACATATATATACACTTTCACATTCATCACATTGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
41266479 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
41266526 CTTACCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
41266573 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41266622 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41266649 ATTCAAATAT
Statistics
Matches: 521, Mismatches: 21, Indels: 20
0.93 0.04 0.04
Matches are distributed among these distances:
46 1 0.00
47 379 0.73
49 101 0.19
51 39 0.07
52 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:41266536 original size:143 final size:141
Alignment explanation
Indices: 41266050--41266648 Score: 855
Period size: 143 Copynumber: 4.2 Consensus size: 141
41266040 CCCTTCGTGA
* * * *
41266050 CTTAACACATTTATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* * * *
41266115 TTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCACATT
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATGTTCACATTCATCACATT
*
41266180 GGCCATTCGGC
131 GGCCATTAGGC
* * * *
41266191 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
* * * *
41266255 -TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATGTTCACATTCATCACA
65 CT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATGTTCACATTCATCACA
*
41266319 TTGGCCATTCGGC
129 TTGGCCATTAGGC
41266332 CTTATCACATATATATAGACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
1 CTTATCAC--ATATAT--ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAT
41266397 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCA
62 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA-TGTTCACATTCA
*
41266461 TCACATTGGCTATTAGGC
124 TCACATTGGCCATTAGGC
* * * *
41266479 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTACCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
41266544 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACT-TTCACATTCATCAC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACA-TGTTCACATTCATCAC
41266608 ATTGGCCATTAGGC
128 ATTGGCCATTAGGC
41266622 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41266649 ATTCAAATAT
Statistics
Matches: 420, Mismatches: 27, Indels: 20
0.90 0.06 0.04
Matches are distributed among these distances:
140 2 0.00
141 133 0.32
143 155 0.37
145 86 0.20
146 2 0.00
147 41 0.10
148 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACATGTTCACATTCATCACATT
GGCCATTAGGC
Found at i:41268038 original size:85 final size:85
Alignment explanation
Indices: 41267909--41268087 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
41267899 TATTTTATTG
*
41267909 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
41267974 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
41267994 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
41268059 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
41268079 CCCATGCTC
1 CCCATGCTC
41268088 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:41269387 original size:40 final size:40
Alignment explanation
Indices: 41269342--41269743 Score: 635
Period size: 40 Copynumber: 10.1 Consensus size: 40
41269332 CGAATACACG
* * * *
41269342 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * * ** * *
41269382 ACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATATA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
* * *
41269422 TCACTAGCACGAATGCTCTTCGGAACTTAGCTCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
41269462 TCACTAGCATGAATGCTCTTCGGGACTTAGCACGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
41269502 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
41269542 TCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
*
41269582 TCACTAGCAATGAATGCTCTTCGGAACTTAGCCCGGATACA
1 TCACTAGC-ATGAATGCTCTTCGGGACTTAGCCCGGATACA
41269623 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
41269663 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
41269703 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGAT-CA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
41269742 TC
1 TC
41269744 GTCGAGACCT
Statistics
Matches: 339, Mismatches: 22, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 4 0.01
40 297 0.88
41 38 0.11
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACA
Found at i:41269492 original size:23 final size:23
Alignment explanation
Indices: 41269466--41269532 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
41269456 GATACATCAC
41269466 TAGCATGAATGCTCTTCGGGACT
1 TAGCATGAATGCTCTTCGGGACT
* * * *
41269489 TAGCACGGAT--ACATC---AC-
1 TAGCATGAATGCTCTTCGGGACT
41269506 TAGCATGAATGCTCTTCGGGACT
1 TAGCATGAATGCTCTTCGGGACT
41269529 TAGC
1 TAGC
41269533 CCGGATACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 12 0.40
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (23 bp):
TAGCATGAATGCTCTTCGGGACT
Found at i:41269653 original size:161 final size:160
Alignment explanation
Indices: 41269342--41269743 Score: 662
Period size: 161 Copynumber: 2.5 Consensus size: 160
41269332 CGAATACACG
* * * * * * *
41269342 TCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCTTCGGGG
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
* * * *
41269407 TTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGAACTTAGCTCGGATACATCACTAGCAT
66 CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAT
41269472 GAATGCTCTTCGGGACTTAGCACGGATACA
131 GAATGCTCTTCGGGACTTAGCACGGATACA
41269502 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
*
41269567 CTTAGCCCGGATACATCACTAGCAATGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCA
66 CTTAGCCCGGATACATCACTAGC-ACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCA
*
41269632 TGAATGCTCTTCGGGACTTAGCCCGGATACA
130 TGAATGCTCTTCGGGACTTAGCACGGATACA
*
41269663 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAATGCTCTTCGGGA
1 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
41269728 CTTAGCCCGGAT-CATC
66 CTTAGCCCGGATACATC
41269744 GTCGAGACCT
Statistics
Matches: 227, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
160 82 0.36
161 145 0.64
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (160 bp):
TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGGA
CTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCCCGGATACATCACTAGCAT
GAATGCTCTTCGGGACTTAGCACGGATACA
Found at i:41269840 original size:39 final size:38
Alignment explanation
Indices: 41269797--41269872 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
41269787 GAATTTTAAT
* *
41269797 CCGGACATAATCTCTGTTACATAGCCATCGGGTCTTTAC
1 CCGGACATAATCTCT-TCACATAGCCAGCGGGTCTTTAC
* *
41269836 CCGGACATAATCTCTTCATATAGTCAGCGGGTCTTTA
1 CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTA
41269873 AACTCGGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
38 18 0.55
39 15 0.45
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CCGGACATAATCTCTTCACATAGCCAGCGGGTCTTTAC
Found at i:41272354 original size:47 final size:47
Alignment explanation
Indices: 41272290--41272838 Score: 804
Period size: 47 Copynumber: 11.6 Consensus size: 47
41272280 CCCTTCGGGA
* * * * *
41272290 CTTAACACATTTATACACTTCCACATCCATCACATTGGCCATTCGGA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41272337 CTTATCAC-TATATTACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41272384 CTTATCTC--ATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41272429 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
41272476 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
41272523 CTTATCACTATATATACACTGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC-ATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
41272572 CTTATCACATATATACACTTTCACATTCATCACATTCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATT-GGCCATTCGGC
*
41272620 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41272669 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
41272716 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
41272763 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
41272812 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
41272839 TATTCAAATA
Statistics
Matches: 476, Mismatches: 15, Indels: 22
0.93 0.03 0.04
Matches are distributed among these distances:
44 1 0.00
45 38 0.08
46 6 0.01
47 264 0.55
48 37 0.08
49 102 0.21
50 28 0.06
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:41272597 original size:96 final size:94
Alignment explanation
Indices: 41272290--41272838 Score: 804
Period size: 96 Copynumber: 5.8 Consensus size: 94
41272280 CCCTTCGGGA
* * * * *
41272290 CTTAACACATTTATACACTTCCACATCCATCACATTGGCCATTCGGACTTATCAC-TATATTACA
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA-TACA
41272354 CTTTCACATTCATCACATTGGCCATTCGGC
65 CTTTCACATTCATCACATTGGCCATTCGGC
* * * *
41272384 CTTATCTC--ATATGCA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACA
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACA
41272446 -TGTTCACATTCATCACATTGGCCATTCGGC
65 CT-TTCACATTCATCACATTGGCCATTCGGC
* *
41272476 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGCCTTATCACTATATATAC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATAC
41272540 ACTGTTCACATTCATCACATTGGCCATTCGGC
64 ACT-TTCACATTCATCACATTGGCCATTCGGC
41272572 CTTATCACATATATACACTTTCACATTCATCACATTCGGCCATTCGGCCTTATCACATATATATA
1 CTTATCACATATATACACTTTCACATTCATCACATT-GGCCATTCGGCCTTATCAC--ATATATA
*
41272637 CACTTTCACATTCATCACATTGGCCATTAGGC
63 CACTTTCACATTCATCACATTGGCCATTCGGC
* *
41272669 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
41272734 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATTGGCCATTCGGC
*
41272763 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
41272828 ACTTTCACATT
64 ACTTTCACATT
41272839 TATTCAAATA
Statistics
Matches: 422, Mismatches: 21, Indels: 22
0.91 0.05 0.05
Matches are distributed among these distances:
91 2 0.00
92 76 0.18
93 3 0.01
94 95 0.23
95 7 0.02
96 145 0.34
97 82 0.19
98 12 0.03
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATTGGCCATTCGGC
Found at i:41272741 original size:240 final size:235
Alignment explanation
Indices: 41272301--41272838 Score: 816
Period size: 240 Copynumber: 2.3 Consensus size: 235
41272291 TTAACACATT
* * *
41272301 TATACACTTCCACATCCATCACATTGGCCATTCGGACTTATCAC-TATATTACACTTTCACATTC
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATA-TACACTTTCACATTC
* *
41272365 ATCACATTGGCCATTCGGCCTTATCTCATATGCATGTTCACATTCATCACATTGGCCATTCGGCC
65 ATCACATTGGCCATTCGGCCTTATCTCATATACATGTTCACATTCATCACATTGGCCATTAGGCC
* *
41272430 TTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACACATG
130 TTATCACACATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACATG
* *
41272495 TTCACATTCATCACATTGGCCATTCGGCCTTATCAC-TATA
195 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
41272535 TATACACTGTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
1 TATACACT-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTC
*
41272600 ATCACATTCGGCCATTCGGCCTTATCACATATATATACACT-TTCACATTCATCACATTGGCCAT
65 ATCACATT-GGCCATTCGGCCTTAT--C-T-CATATACA-TGTTCACATTCATCACATTGGCCAT
* * *
41272664 TAGGCCTTATCACATATATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATAT
124 TAGGCCTTATCACACATACACA-TGTTCACATTCATCACATCGGCCATTAGGCCTTATCACACAT
*
41272728 ATACACT-TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
188 ACACA-TGTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
*
41272776 TATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATT
41272839 TATTCAAATA
Statistics
Matches: 278, Mismatches: 15, Indels: 16
0.90 0.05 0.05
Matches are distributed among these distances:
234 8 0.03
235 56 0.20
236 20 0.07
238 1 0.00
239 1 0.00
240 177 0.64
241 15 0.05
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (235 bp):
TATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCA
TCACATTGGCCATTCGGCCTTATCTCATATACATGTTCACATTCATCACATTGGCCATTAGGCCT
TATCACACATACACATGTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACATGT
TCACATTCATCACATCGGCCATTAGGCCTTATCACATATA
Found at i:41274239 original size:85 final size:85
Alignment explanation
Indices: 41274110--41274288 Score: 349
Period size: 85 Copynumber: 2.1 Consensus size: 85
41274100 TATTTTATTG
*
41274110 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
41274175 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
41274195 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
41274260 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
41274280 CCCATGCTC
1 CCCATGCTC
41274289 ATGGCCGGCC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.28, G:0.08, T:0.37
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:41285015 original size:79 final size:79
Alignment explanation
Indices: 41284884--41285042 Score: 282
Period size: 79 Copynumber: 2.0 Consensus size: 79
41284874 AAAATATGAT
*
41284884 TCTAAAAAATCCAATCATAAACTCATTTCAAAATTTGTTAAGGTGATATCCCATGGAATTTGATT
1 TCTAAAAAATCCAATCATAAACTCATTTCAAAATTTGTTAAGGTGATATCCCATGGAATTTAATT
41284949 TTCATGATCTGTTG
66 TTCATGATCTGTTG
* **
41284963 TCTAAAAAATCCAGTCATAAACTCATTTTGAAATTTGTTAAGGTGATATCCCATGGAATTTAATT
1 TCTAAAAAATCCAATCATAAACTCATTTCAAAATTTGTTAAGGTGATATCCCATGGAATTTAATT
41285028 TTCATGATCTGTTG
66 TTCATGATCTGTTG
41285042 T
1 T
41285043 GTGTGGATAG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 76 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (79 bp):
TCTAAAAAATCCAATCATAAACTCATTTCAAAATTTGTTAAGGTGATATCCCATGGAATTTAATT
TTCATGATCTGTTG
Found at i:41285213 original size:42 final size:42
Alignment explanation
Indices: 41285141--41285356 Score: 254
Period size: 42 Copynumber: 5.1 Consensus size: 42
41285131 GGAAAGCATT
* *
41285141 CATTACATTTAG-AGACCCAGGTGTGAAGGTCCATTTACTTTG
1 CATTGCATTTAGAAG-CCCAGGTGTGGAGGTCCATTTACTTTG
* * *
41285183 CATTGCATTTAGAATCCTAGGTATGGAGGTCCATTTACTTTG
1 CATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTTTG
* * * * *
41285225 CATTGCATTTGGAATCCCAAGTGTGGAGGTCGATTTACTTTT
1 CATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTTTG
* * * *
41285267 CATTGCATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTT
1 CATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTTTG
* * *
41285309 CATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTAATTTTG
1 CATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTT-ACTTTG
41285352 CATTG
1 CATTG
41285357 TATATGAAAG
Statistics
Matches: 152, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
42 142 0.93
43 10 0.07
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (42 bp):
CATTGCATTTAGAAGCCCAGGTGTGGAGGTCCATTTACTTTG
Found at i:41285380 original size:84 final size:85
Alignment explanation
Indices: 41285139--41285356 Score: 280
Period size: 84 Copynumber: 2.6 Consensus size: 85
41285129 AAGGAAAGCA
* * * *
41285139 TTCATTACATTTAGAGACCCAGGTGTGAAGGTCCATTT-ACTTTGCATTGCATTTAGAATCCTAG
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTAATTTTGCATTGCATTTAGAAGCCTAG
*
41285203 GTATGGAGGTCCATTTACTT
66 GTATGGAGGTCTATTTACTT
* * * * * *
41285223 TGCATTGCATTTGGA-ATCCCAAGTGTGGAGGTCGATTTACTTTT-CATTGCATTTAGAGGCCTA
1 TTCATTGCATTTAGAGA-CCCAGGTGTGGAGGTCCATTTAATTTTGCATTGCATTTAGAAGCCTA
*
41285286 GGTGTGGAGGTCTATTTACTT
65 GGTATGGAGGTCTATTTACTT
* *
41285307 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGTCTATTTAATTTTGCATTG
1 TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTAATTTTGCATTG
41285357 TATATGAAAG
Statistics
Matches: 112, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 103 0.92
85 8 0.07
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (85 bp):
TTCATTGCATTTAGAGACCCAGGTGTGGAGGTCCATTTAATTTTGCATTGCATTTAGAAGCCTAG
GTATGGAGGTCTATTTACTT
Found at i:41285380 original size:126 final size:126
Alignment explanation
Indices: 41285139--41285402 Score: 298
Period size: 126 Copynumber: 2.1 Consensus size: 126
41285129 AAGGAAAGCA
* * *
41285139 TTCATTACATTTAGAGACCCAGGTGTGAAGGTCCATTTACTTTGCATTGCATTTAGAATCCTAGG
1 TTCATTGCATTTAGAGACCCAGGTGTGAAGGTCCATTTACTTTGCATTGCATTTAGAAGCCCAGG
* * * * * *
41285204 TATGGAGGTCCATTTACTTTGCATTGCATTTGGAATCCCAAGTGTGGAGGTCG-ATTTACTT
66 TATGGAGGTCCATTTACTTTGCATTGCATATGAAAGCACAAGTGTGGAGGT-GTAATTACAT
* * * * * *
41285265 TTCATTGCATTTAGAGGCCTAGGTGTGGAGGTCTATTTACTTTTCATTGCATTTAGAGGCCCAGG
1 TTCATTGCATTTAGAGACCCAGGTGTGAAGGTCCATTTACTTTGCATTGCATTTAGAAGCCCAGG
* * * * * *
41285330 TGTGGAGGTCTATTTAATTTTGCATTGTATATGAAAGCACATGT-TTGAGGTGTAATTACAT
66 TATGGAGGTCCATTT-ACTTTGCATTGCATATGAAAGCACAAGTGTGGAGGTGTAATTACAT
41285391 TTCATCTGCATT
1 TTCAT-TGCATT
41285403 CTCATTTCAA
Statistics
Matches: 114, Mismatches: 21, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
125 1 0.01
126 86 0.75
127 27 0.24
ACGTcount: A:0.23, C:0.16, G:0.23, T:0.38
Consensus pattern (126 bp):
TTCATTGCATTTAGAGACCCAGGTGTGAAGGTCCATTTACTTTGCATTGCATTTAGAAGCCCAGG
TATGGAGGTCCATTTACTTTGCATTGCATATGAAAGCACAAGTGTGGAGGTGTAATTACAT
Found at i:41285810 original size:15 final size:15
Alignment explanation
Indices: 41285790--41285829 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
41285780 AAGGGCCCAA
*
41285790 ATCATTATTACTATT
1 ATCATTATTACTACT
*
41285805 ATCATTACTACTACT
1 ATCATTATTACTACT
*
41285820 ATTATTATTA
1 ATCATTATTA
41285830 ATAAATATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (15 bp):
ATCATTATTACTACT
Found at i:41286341 original size:19 final size:20
Alignment explanation
Indices: 41286300--41286341 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
41286290 AAAGCTTTGA
* * *
41286300 TTTTTAAGAAAAATAGTATT
1 TTTTTAAGAAAAAGAGAAAT
41286320 TTTTTAA-AAAAAGAGAAAT
1 TTTTTAAGAAAAAGAGAAAT
41286339 TTT
1 TTT
41286342 AGATTTTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (20 bp):
TTTTTAAGAAAAAGAGAAAT
Found at i:41287918 original size:13 final size:13
Alignment explanation
Indices: 41287902--41287927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41287892 TTTTACTAGA
41287902 ATTATTTAAGTAT
1 ATTATTTAAGTAT
41287915 ATTATTTAAGTAT
1 ATTATTTAAGTAT
41287928 CCTTTAGGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
ATTATTTAAGTAT
Found at i:41288997 original size:12 final size:12
Alignment explanation
Indices: 41288980--41289009 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
41288970 CCTCACATCC
41288980 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
41288992 CCGTGTGCTAGG
1 CCGTGTGCCAGG
41289004 CCGTGT
1 CCGTGT
41289010 TACTACCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:41289821 original size:40 final size:40
Alignment explanation
Indices: 41289774--41289854 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
41289764 GTTTTTATAA
41289774 AACCTTACTGACGACATTGCCTTTGAAAAATCTTTTTGTT
1 AACCTTACTGACGACATTGCCTTTGAAAAATCTTTTTGTT
41289814 AACCTTACTGACGACATTGCCTTTGAAAAATCTTTTTGTT
1 AACCTTACTGACGACATTGCCTTTGAAAAATCTTTTTGTT
41289854 A
1 A
41289855 TCTTCTTAGC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (40 bp):
AACCTTACTGACGACATTGCCTTTGAAAAATCTTTTTGTT
Found at i:41294618 original size:40 final size:40
Alignment explanation
Indices: 41294520--41294782 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
41294510 TCCTCGTTCA
* * * * *
41294520 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41294559 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
41294599 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41294639 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41294679 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41294719 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41294759 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41294783 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41302558 original size:40 final size:40
Alignment explanation
Indices: 41302460--41302722 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
41302450 TCCTCGTTCA
* * * * *
41302460 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
41302499 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
41302539 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
41302579 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
41302619 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
41302659 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
41302699 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
41302723 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:41312355 original size:23 final size:22
Alignment explanation
Indices: 41312323--41312365 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
41312313 TAATATCTCA
*
41312323 ACATTTCATACCATTCAATAAG
1 ACATTTCATACCATGCAATAAG
*
41312345 ACATTCTCATATCATGCAATA
1 ACATT-TCATACCATGCAATA
41312366 TAATTATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.33
Consensus pattern (22 bp):
ACATTTCATACCATGCAATAAG
Found at i:41318677 original size:27 final size:27
Alignment explanation
Indices: 41318599--41318973 Score: 330
Period size: 27 Copynumber: 14.0 Consensus size: 27
41318589 CATCGAGACC
41318599 CCGAAATACCC-CATAGGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
** *
41318625 AAGAAATA-CCT-GTAGGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
* *
41318650 CCGAAATATCCTCATAGGGTAAATTGA
1 CCGAAATACCCTCATAGGGTAAAATGA
** * *
41318677 CTAAAATACCCCCATAAGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
* * * *
41318704 CCAAAATACCCCCATATGGTAAAATAA
1 CCGAAATACCCTCATAGGGTAAAATGA
* * *
41318731 TCGAAATACCCCCATATGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
* * * *
41318758 CAGCAATACCCTTATAGTGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
* * * *
41318785 CCAAAATACCCCCATGGGGTAAAATAA
1 CCGAAATACCCTCATAGGGTAAAATGA
* *
41318812 TCGAAATACCCTCACAGGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
** * * *
41318839 TTGAAATACCCTTATAAGATAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
*
41318866 CCAAAATACCC-CATAGGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
* *
41318892 CCAAAATACCCTCGTAGGGTAAAATGA
1 CCGAAATACCCTCATAGGGTAAAATGA
* * *
41318919 CTGAAATA-CCTCTGTAGGGTAGAATGA
1 CCGAAATACCCTC-ATAGGGTAAAATGA
** *
41318946 CAAAAATACCC-CGATAGGGTCAAATGA
1 CCGAAATACCCTC-ATAGGGTAAAATGA
41318973 C
1 C
41318974 TGTTATACCC
Statistics
Matches: 282, Mismatches: 61, Indels: 11
0.80 0.17 0.03
Matches are distributed among these distances:
25 21 0.07
26 36 0.13
27 223 0.79
28 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
CCGAAATACCCTCATAGGGTAAAATGA
Found at i:41318766 original size:81 final size:81
Alignment explanation
Indices: 41318637--41318970 Score: 377
Period size: 81 Copynumber: 4.1 Consensus size: 81
41318627 GAAATACCTG
* * * *
41318637 TAGGGTAAAATGACCGAAATATCCTCATAGGGTAAATTGACTA-AAATACCCCCATAAGGTAAAA
1 TAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGAC-AGAAATACCCCTATAAGGTAAAA
41318701 TGACCAAAATACCCCCA
65 TGACCAAAATACCCCCA
* * * * * *
41318718 TATGGTAAAATAATCGAAATACCCCCATATGGTAAAATGACAGCAATACCCTTAT-AGTGTAAAA
1 TAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATAAG-GTAAAA
41318782 TGACCAAAATACCCCCA
65 TGACCAAAATACCCCCA
* * * ** * *
41318799 TGGGGTAAAATAATCGAAATACCCTCACAGGGTAAAATGATTGAAATACCCTTATAAGATAAAAT
1 TAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATAAGGTAAAAT
41318864 GACCAAAATA-CCCCA
66 GACCAAAATACCCCCA
* * * * * * * *
41318879 TAGGGTAAAATGACCAAAATACCCTCGTAGGGTAAAATGACTGAAATACCTCTGTAGGGTAGAAT
1 TAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATAAGGTAAAAT
* *
41318944 GACAAAAATACCCCGA
66 GACCAAAATACCCCCA
*
41318960 TAGGGTCAAAT
1 TAGGGTAAAAT
41318971 GACTGTTATA
Statistics
Matches: 214, Mismatches: 35, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
80 69 0.32
81 143 0.67
82 2 0.01
ACGTcount: A:0.43, C:0.20, G:0.16, T:0.21
Consensus pattern (81 bp):
TAGGGTAAAATAACCGAAATACCCTCATAGGGTAAAATGACAGAAATACCCCTATAAGGTAAAAT
GACCAAAATACCCCCA
Found at i:41319207 original size:26 final size:26
Alignment explanation
Indices: 41319169--41319219 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
41319159 CCACATATAT
*
41319169 TATTACTGGCAGCTTCGCTGCGATAC
1 TATTACTGACAGCTTCGCTGCGATAC
*
41319195 TATTACTGACAGCTTTGCTGCGATA
1 TATTACTGACAGCTTCGCTGCGATA
41319220 TTGGTGTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.33
Consensus pattern (26 bp):
TATTACTGACAGCTTCGCTGCGATAC
Found at i:41321283 original size:25 final size:25
Alignment explanation
Indices: 41321257--41321352 Score: 97
Period size: 25 Copynumber: 3.8 Consensus size: 25
41321247 TACTGATTTT
*
41321257 AGCTCGTATGAGCTTACCGTTACTT-
1 AGCTCGTAGGAGCTTACCGTTA-TTC
** * *
41321282 AGCTCACATGAGCTTACTGTTATTC
1 AGCTCGTAGGAGCTTACCGTTATTC
*
41321307 AGCTCGGT-GGAGCTTATCGTTATTC
1 AGCTC-GTAGGAGCTTACCGTTATTC
*
41321332 AGCTCGAAGGAGCTTACCGTT
1 AGCTCGTAGGAGCTTACCGTT
41321353 TACAACTCAT
Statistics
Matches: 58, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
24 3 0.05
25 55 0.95
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (25 bp):
AGCTCGTAGGAGCTTACCGTTATTC
Found at i:41326781 original size:20 final size:20
Alignment explanation
Indices: 41326741--41326781 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
41326731 GGTTGAGATC
41326741 GGTTTGCTGTAATTTGAAATT
1 GGTTTGCTGT-ATTTGAAATT
41326762 GGTTTGCTGT-TTTAGAAATT
1 GGTTTGCTGTATTT-GAAATT
41326782 TAATTCGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 6 0.32
21 10 0.53
ACGTcount: A:0.22, C:0.05, G:0.24, T:0.49
Consensus pattern (20 bp):
GGTTTGCTGTATTTGAAATT
Found at i:41333719 original size:15 final size:16
Alignment explanation
Indices: 41333691--41333723 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
41333681 TTTGGAAAGG
41333691 TTTTTGATATAGTGAT
1 TTTTTGATATAGTGAT
*
41333707 TTTTTTATA-AGTGAT
1 TTTTTGATATAGTGAT
41333722 TT
1 TT
41333724 ATTAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.61
Consensus pattern (16 bp):
TTTTTGATATAGTGAT
Found at i:41334973 original size:25 final size:25
Alignment explanation
Indices: 41334936--41335083 Score: 117
Period size: 25 Copynumber: 6.0 Consensus size: 25
41334926 GTCATTAGGG
*
41334936 TTACCGAT-TTTAGCTCGTATGAGC
1 TTACCGTTATTTAGCTCGTATGAGC
* * **
41334960 TTACTGTTAGTTAGCTCACATGAGC
1 TTACCGTTATTTAGCTCGTATGAGC
* * * *
41334985 TTACCATTATTTATCTTAG-AGGAGC
1 TTACCGTTATTTAGC-TCGTATGAGC
*
41335010 TTACCGTTATTTAGCTCGTAAGAGC
1 TTACCGTTATTTAGCTCGTATGAGC
* *
41335035 TTACCGTT-TATAGCTCGTAAGAGC
1 TTACCGTTATTTAGCTCGTATGAGC
*
41335059 ATACCG--ATTTAGAGCTCGTATGAGC
1 TTACCGTTATTT--AGCTCGTATGAGC
41335084 ATACATGTAT
Statistics
Matches: 98, Mismatches: 20, Indels: 11
0.76 0.16 0.09
Matches are distributed among these distances:
23 2 0.02
24 28 0.29
25 67 0.68
26 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (25 bp):
TTACCGTTATTTAGCTCGTATGAGC
Found at i:41339654 original size:39 final size:39
Alignment explanation
Indices: 41339596--41339673 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
41339586 TAGGTTTGCA
41339596 AAGTGTTTTGAGAATAGGATAGGTGATGGATCGGCTAAG
1 AAGTGTTTTGAGAATAGGATAGGTGATGGATCGGCTAAG
* *
41339635 AAGTGTTTTAGGGAA-AGGATAGGTGATGGCTCGGCTAAG
1 AAGTGTTTT-GAGAATAGGATAGGTGATGGATCGGCTAAG
41339674 GATAAAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 32 0.89
40 4 0.11
ACGTcount: A:0.29, C:0.06, G:0.37, T:0.27
Consensus pattern (39 bp):
AAGTGTTTTGAGAATAGGATAGGTGATGGATCGGCTAAG
Found at i:41341353 original size:13 final size:13
Alignment explanation
Indices: 41341335--41341360 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
41341325 TCCCAATGTA
41341335 GCTCATTACTTTC
1 GCTCATTACTTTC
41341348 GCTCATTACTTTC
1 GCTCATTACTTTC
41341361 CAGTTGATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.08, T:0.46
Consensus pattern (13 bp):
GCTCATTACTTTC
Found at i:41344043 original size:18 final size:18
Alignment explanation
Indices: 41344020--41344114 Score: 87
Period size: 18 Copynumber: 5.6 Consensus size: 18
41344010 TCTTCACACA
41344020 TTTCTTTTTCAAGCTCTC
1 TTTCTTTTTCAAGCTCTC
*
41344038 TCTCTTTTTC-A-CTCGT-
1 TTTCTTTTTCAAGCTC-TC
41344054 TTTC-TTTTCAAGCTCTC
1 TTTCTTTTTCAAGCTCTC
* *
41344071 TTTCCTTTTC-A-CTCGC
1 TTTCTTTTTCAAGCTCTC
41344087 TTTC-TTTTCAAAGCTCTC
1 TTTCTTTTTC-AAGCTCTC
*
41344105 TTTCCTTTTC
1 TTTCTTTTTC
41344115 TTGCTCACAC
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
15 10 0.16
16 16 0.25
17 11 0.17
18 22 0.34
19 5 0.08
ACGTcount: A:0.09, C:0.31, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTCTTTTTCAAGCTCTC
Found at i:41344061 original size:16 final size:16
Alignment explanation
Indices: 41344040--41344094 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
41344030 AAGCTCTCTC
41344040 TCTTTTTCACTCGTTT
1 TCTTTTTCACTCGTTT
41344056 TC-TTTTCAAGCTC-TCTT
1 TCTTTTTC-A-CTCGT-TT
* *
41344073 TCCTTTTCACTCGCTT
1 TCTTTTTCACTCGTTT
41344089 TCTTTT
1 TCTTTT
41344095 CAAAGCTCTC
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
15 5 0.16
16 14 0.44
17 8 0.25
18 5 0.16
ACGTcount: A:0.07, C:0.29, G:0.05, T:0.58
Consensus pattern (16 bp):
TCTTTTTCACTCGTTT
Found at i:41344062 original size:33 final size:33
Alignment explanation
Indices: 41344020--41344114 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
41344010 TCTTCACACA
* * *
41344020 TTTCTTTTTCAAGCTCTCTCTCTTTTTCACTCGT
1 TTTC-TTTTCAAGCTCTCTTTCCTTTTCACTCGC
41344054 TTTCTTTTCAAGCTCTCTTTCCTTTTCACTCGC
1 TTTCTTTTCAAGCTCTCTTTCCTTTTCACTCGC
41344087 TTTCTTTTCAAAGCTCTCTTTCCTTTTC
1 TTTCTTTTC-AAGCTCTCTTTCCTTTTC
41344115 TTGCTCACAC
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 35 0.61
34 22 0.39
ACGTcount: A:0.09, C:0.31, G:0.05, T:0.55
Consensus pattern (33 bp):
TTTCTTTTCAAGCTCTCTTTCCTTTTCACTCGC
Found at i:41344063 original size:15 final size:15
Alignment explanation
Indices: 41344043--41344096 Score: 56
Period size: 15 Copynumber: 3.4 Consensus size: 15
41344033 CTCTCTCTCT
41344043 TTTTCACTCGTTTTC
1 TTTTCACTCGTTTTC
41344058 TTTTCAAGCTC-TCTTTCC
1 TTTTC-A-CTCGT-TTT-C
*
41344076 TTTTCACTCGCTTTC
1 TTTTCACTCGTTTTC
41344091 TTTTCA
1 TTTTCA
41344097 AAGCTCTCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
15 12 0.36
16 8 0.24
17 7 0.21
18 6 0.18
ACGTcount: A:0.09, C:0.30, G:0.06, T:0.56
Consensus pattern (15 bp):
TTTTCACTCGTTTTC
Found at i:41344194 original size:18 final size:17
Alignment explanation
Indices: 41344162--41344198 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
41344152 TTTTCAATTC
41344162 TTTTCTTTCATTTCTTT
1 TTTTCTTTCATTTCTTT
*
41344179 TTTTCTTTTTATTTCTTT
1 TTTTC-TTTCATTTCTTT
41344197 TT
1 TT
41344199 GACTCATTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.05, C:0.14, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTCTTTCATTTCTTT
Found at i:41361109 original size:27 final size:27
Alignment explanation
Indices: 41361071--41361165 Score: 145
Period size: 27 Copynumber: 3.5 Consensus size: 27
41361061 CAAGTTTGGG
*
41361071 CATGCACTCCATGCATTCCATGCAAAA
1 CATGCATTCCATGCATTCCATGCAAAA
*
41361098 CATGCTTTCCATGCATTCCATGCAAAA
1 CATGCATTCCATGCATTCCATGCAAAA
**
41361125 CATGCATTCCATGCATTCCATGCAACC
1 CATGCATTCCATGCATTCCATGCAAAA
*
41361152 CATGCATTTCATGC
1 CATGCATTCCATGC
41361166 GAACCATGCA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.28, C:0.33, G:0.12, T:0.27
Consensus pattern (27 bp):
CATGCATTCCATGCATTCCATGCAAAA
Found at i:41361172 original size:18 final size:18
Alignment explanation
Indices: 41361079--41361182 Score: 84
Period size: 18 Copynumber: 5.8 Consensus size: 18
41361069 GGCATGCACT
*
41361079 CCATGCATTCCATGCAAA
1 CCATGCATTCCATGCAAC
* * **
41361097 ACATGCTTTCCATGCATT
1 CCATGCATTCCATGCAAC
*** **
41361115 CCATGCAAAACATGCATT
1 CCATGCATTCCATGCAAC
41361133 CCATGCATTCCATGCAAC
1 CCATGCATTCCATGCAAC
*
41361151 CCATGCATTTCATGCGAA-
1 CCATGCATTCCATGC-AAC
*
41361169 CCATGCATCCCATG
1 CCATGCATTCCATG
41361183 GAATTTGCTA
Statistics
Matches: 68, Mismatches: 17, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
18 66 0.97
19 2 0.03
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (18 bp):
CCATGCATTCCATGCAAC
Done.