Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 49 of 218
Found at i:14994240 original size:33 final size:33
Alignment explanation
Indices: 14994169--14994240 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
14994159 CATTTGAGGT
* * *
14994169 CAATTTGACTAAGTATCAAATGGAACTACAGGC
1 CAATTTGACTAAGTATCAAACGGAACTACAAGA
* *
14994202 CAATTTGACTAAGTTTCGAACGGAACTACAAGA
1 CAATTTGACTAAGTATCAAACGGAACTACAAGA
*
14994235 GAATTT
1 CAATTT
14994241 TAATCAGCTT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (33 bp):
CAATTTGACTAAGTATCAAACGGAACTACAAGA
Found at i:15001168 original size:26 final size:27
Alignment explanation
Indices: 15001130--15001184 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 27
15001120 AGTTAATAAA
* *
15001130 TTCTCTTTGAGTTT-TTTTTGCAAGAAT
1 TTCTCTTTAAGTTTCTTTTAG-AAGAAT
15001157 TTCT-TTTAAGTTTCTTTTAGAAGAAT
1 TTCTCTTTAAGTTTCTTTTAGAAGAAT
15001183 TT
1 TT
15001185 TAACAATCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.56
Consensus pattern (27 bp):
TTCTCTTTAAGTTTCTTTTAGAAGAAT
Found at i:15003216 original size:23 final size:26
Alignment explanation
Indices: 15003168--15003218 Score: 72
Period size: 23 Copynumber: 2.1 Consensus size: 26
15003158 ATTAATTAGA
15003168 TAAGTATTATTTAATTAATATTTTAT
1 TAAGTATTATTTAATTAATATTTTAT
*
15003194 TAAG-ATT-TTTAA-TATTATTTTAT
1 TAAGTATTATTTAATTAATATTTTAT
15003217 TA
1 TA
15003219 GTAAATGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 12 0.50
24 5 0.21
25 3 0.12
26 4 0.17
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (26 bp):
TAAGTATTATTTAATTAATATTTTAT
Found at i:15005904 original size:50 final size:50
Alignment explanation
Indices: 15005846--15006089 Score: 219
Period size: 50 Copynumber: 4.9 Consensus size: 50
15005836 TATTGAAATT
* * *
15005846 ATGAGAGGTCCCATGTAAGACCATGTCTGGGATATGGCGTTGGCACCTAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
*** *
15005896 ATGAGAGGTCCCATGTAAGACCATGT-TCGGGACATGATGTTGTCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCT-GGGACATGGCATTGGCACCGAG
* * * *
15005946 ATGAGAGGT-CCACCGTAAGACCATGTCTGGGACATGGAATGGGCACCGAT
1 ATGAGAGGTCCCA-TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
* ** * * * *
15005996 ATAAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTAGCA--GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AG
* * **
15006045 AGGAAACATCCCATGTAAGACCATGTCTGGGACATGG-ATTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCA-TTGGCA
15006090 TGTTATTATT
Statistics
Matches: 158, Mismatches: 30, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
48 2 0.01
49 40 0.25
50 112 0.71
51 4 0.03
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (50 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAG
Found at i:15011129 original size:16 final size:16
Alignment explanation
Indices: 15011099--15011128 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
15011089 TCTTTTCCGT
15011099 TTTCAATTTCTTTTTC
1 TTTCAATTTCTTTTTC
15011115 TTTC-ATTTCTTTTT
1 TTTCAATTTCTTTTT
15011129 TTCGTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCAATTTCTTTTTC
Found at i:15015420 original size:30 final size:30
Alignment explanation
Indices: 15015379--15015444 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
15015369 GTTGTCCCAA
*
15015379 CCCTTTTCATAGCTCAATAGTCGAAGCTAT
1 CCCTTTGCATAGCTCAATAGTCGAAGCTAT
*
15015409 CCCTTTGCATAGCTCAATAGTTGAAGCTAT
1 CCCTTTGCATAGCTCAATAGTCGAAGCTAT
15015439 CCCTTT
1 CCCTTT
15015445 TCATTATTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (30 bp):
CCCTTTGCATAGCTCAATAGTCGAAGCTAT
Found at i:15015471 original size:30 final size:30
Alignment explanation
Indices: 15015437--15015626 Score: 163
Period size: 30 Copynumber: 6.4 Consensus size: 30
15015427 AGTTGAAGCT
15015437 ATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
15015467 ATCCCTTTTCATTA-TTGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* ** * * *
15015496 ATCCCTTTTCATAATTTGATAATTG-AAGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * ** * *
15015526 ATCCCTTTTCATAATTCGATAATCG-AAGCT
1 ATCCCTTTTCATTATTTGATGGTCGTCA-CC
* * *
15015556 ATCCTTTTTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
* * * *
15015586 ATCTCTTTGCATT-GTAGATGGTCGTCACC
1 ATCCCTTTTCATTATTTGATGGTCGTCACC
15015615 ATCCCTTTTCAT
1 ATCCCTTTTCAT
15015627 AATTCGATTC
Statistics
Matches: 135, Mismatches: 22, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
29 53 0.39
30 81 0.60
31 1 0.01
ACGTcount: A:0.21, C:0.25, G:0.13, T:0.42
Consensus pattern (30 bp):
ATCCCTTTTCATTATTTGATGGTCGTCACC
Found at i:15015500 original size:89 final size:90
Alignment explanation
Indices: 15015407--15015597 Score: 224
Period size: 89 Copynumber: 2.1 Consensus size: 90
15015397 AGTCGAAGCT
* * * * ** *
15015407 ATCCCTTTGCATAGCTCAATAGTTGAAGCTATCCCTTTTCATTATTTGATGGTCGTCA-CCATCC
1 ATCCCTTTGCATAACTCAATAATTGAAGCTATCCCTTTTCATAATTCGATAATCG-AAGCCATCC
15015471 CTTTTCATTATT-GATGGTCGTCACC
65 CTTTTCATTATTCGATGGTCGTCACC
* * ** * *
15015496 ATCCCTTTTCATAATTTGATAATTGAAGCTATCCCTTTTCATAATTCGATAATCGAAGCTATCCT
1 ATCCCTTTGCATAACTCAATAATTGAAGCTATCCCTTTTCATAATTCGATAATCGAAGCCATCCC
*
15015561 TTTTCATTGTTCGATGGTCGTCACC
66 TTTTCATTATTCGATGGTCGTCACC
*
15015586 ATCTCTTTGCAT
1 ATCCCTTTGCAT
15015598 TGTAGATGGT
Statistics
Matches: 84, Mismatches: 16, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
88 1 0.01
89 60 0.71
90 23 0.27
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (90 bp):
ATCCCTTTGCATAACTCAATAATTGAAGCTATCCCTTTTCATAATTCGATAATCGAAGCCATCCC
TTTTCATTATTCGATGGTCGTCACC
Found at i:15015606 original size:119 final size:119
Alignment explanation
Indices: 15015365--15015656 Score: 361
Period size: 119 Copynumber: 2.5 Consensus size: 119
15015355 GTAAAATCAC
* * ** * * * * * *
15015365 GATGGTTGTC-CCAACCCTTTTCATAGCTCAATAGTCGAAGCTATCCCTTTGCATAGCTCAATAG
1 GATGGTCGTCACCATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCATAACTCAATAA
* * * *
15015429 TTGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATTATT
66 TCGAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTGCATTATA
* * *
15015483 GATGGTCGTCACCATCCCTTTTCATAATTTGATAATTGAAGCTATCCCTTTTCATAATTCGATAA
1 GATGGTCGTCACCATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCATAACTCAATAA
* * * *
15015548 TCGAAGCTATCCTTTTTCATTGTTCGATGGTCGTCACCATCTCTTTGCATTGTA
66 TCGAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTGCATTATA
** *
15015602 GATGGTCGTCACCATCCCTTTTCATAATTCGATTCTTGAGGCTATCCCTTTTCAT
1 GATGGTCGTCACCATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCAT
15015657 TATTTTGAGG
Statistics
Matches: 148, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
118 9 0.06
119 139 0.94
ACGTcount: A:0.22, C:0.25, G:0.14, T:0.39
Consensus pattern (119 bp):
GATGGTCGTCACCATCCCTTTTCATAATTCGATAATTGAAGCTATCCCTTTTCATAACTCAATAA
TCGAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTGCATTATA
Found at i:15017268 original size:42 final size:42
Alignment explanation
Indices: 15017171--15017399 Score: 262
Period size: 42 Copynumber: 5.4 Consensus size: 42
15017161 TTACAAACAA
* * **
15017171 AAACGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTTTTTTTCT
1 AAACGCCGCTAAAGAACATGATCTTTAGC-G-GCATTTTTTTCT
*
15017215 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
* *
15017257 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
* * * *
15017299 AAGCACCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
* * * * * * *
15017341 AAGCACCGGTAAAGATCATGTTCTTTAACGGCATTTTTCTCT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
15017383 AAGA-GCCGCTAAAGAAC
1 AA-ACGCCGCTAAAGAAC
15017400 GCCACTAAAG
Statistics
Matches: 161, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
42 134 0.83
43 1 0.01
44 26 0.16
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCT
Found at i:15017322 original size:84 final size:84
Alignment explanation
Indices: 15017171--15017399 Score: 307
Period size: 84 Copynumber: 2.7 Consensus size: 84
15017161 TTACAAACAA
* *
15017171 AAACGCCGCTAAAGATCATGTTCTTTAGCAGCGTTTTTTTTTCTAAGCGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCG--TTTTTTTCTAAGCACCGCTAAAGAACATGA
*
15017236 TCTTTAGCGGCATTTTTTTCT
64 TCTTTAGCGGCATTTTTTCCT
* * *
15017257 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGATC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGATC
*
15017322 TTTAGCGGCGTTTTTTCCT
66 TTTAGCGGCATTTTTTCCT
* * * * * *
15017341 AAGCACCGGTAAAGATCATGTTCTTTAACGGCATTTTTCTCTAAG-AGCCGCTAAAGAAC
1 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTAAGCA-CCGCTAAAGAAC
15017400 GCCACTAAAG
Statistics
Matches: 126, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
83 1 0.01
84 96 0.76
86 29 0.23
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (84 bp):
AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTCTAAGCACCGCTAAAGAACATGATC
TTTAGCGGCATTTTTTCCT
Found at i:15017979 original size:21 final size:21
Alignment explanation
Indices: 15017955--15018005 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
15017945 TTCTTTTGAA
15017955 CCTCTGCTT-CTCTCGCTACAG
1 CCTCTGCTTCCT-TCGCTACAG
* * *
15017976 CCTCCGCTTCCTTCGCTGCCG
1 CCTCTGCTTCCTTCGCTACAG
15017997 CCTCTGCTT
1 CCTCTGCTT
15018006 TAAGTTGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.04, C:0.47, G:0.16, T:0.33
Consensus pattern (21 bp):
CCTCTGCTTCCTTCGCTACAG
Found at i:15023514 original size:9 final size:9
Alignment explanation
Indices: 15023500--15023637 Score: 125
Period size: 9 Copynumber: 16.2 Consensus size: 9
15023490 CTTTTATGTA
15023500 TTATGTAAG
1 TTATGTAAG
15023509 TTATGTAAG
1 TTATGTAAG
15023518 TTATGT-A-
1 TTATGTAAG
15023525 TTATGTAAG
1 TTATGTAAG
15023534 -TACTGTAAG
1 TTA-TGTAAG
*
15023543 TAATGTAAG
1 TTATGTAAG
15023552 TTATGTAAG
1 TTATGTAAG
*
15023561 TAATGT-A-
1 TTATGTAAG
15023568 TTATGTAAG
1 TTATGTAAG
*
15023577 TTGTGT-A-
1 TTATGTAAG
* *
15023584 TAAAGTAAG
1 TTATGTAAG
*
15023593 TTAAG-AAGG
1 TTATGTAA-G
15023602 TTATGT-A-
1 TTATGTAAG
*
15023609 TAATGTAAG
1 TTATGTAAG
15023618 TTATGTAAG
1 TTATGTAAG
15023627 TTATGTAAG
1 TTATGTAAG
15023636 TT
1 TT
15023638 GTCTTGGCTT
Statistics
Matches: 105, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
7 19 0.18
8 11 0.10
9 74 0.70
10 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.22, T:0.42
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15023514 original size:16 final size:17
Alignment explanation
Indices: 15023493--15023634 Score: 102
Period size: 16 Copynumber: 8.5 Consensus size: 17
15023483 TGATATACTT
15023493 TTATGT-ATTATGTAAG
1 TTATGTAATTATGTAAG
15023509 TTATGTAAGTTATGT-A-
1 TTATGTAA-TTATGTAAG
*
15023525 TTATGTAAGTACTGTAAG
1 TTATGTAATTA-TGTAAG
*
15023543 TAATGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
*
15023561 TAATGT-ATTATGTAAG
1 TTATGTAATTATGTAAG
* * *
15023577 TTGTGT-ATAAAGTAAG
1 TTATGTAATTATGTAAG
*
15023593 TTAAG-AAGGTTATGT-A-
1 TTATGTAA--TTATGTAAG
*
15023609 TAATGTAAGTTATGTAAG
1 TTATGTAA-TTATGTAAG
15023627 TTATGTAA
1 TTATGTAA
15023635 GTTGTCTTGG
Statistics
Matches: 100, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
15 2 0.02
16 52 0.52
17 8 0.08
18 36 0.36
19 2 0.02
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (17 bp):
TTATGTAATTATGTAAG
Found at i:15023527 original size:25 final size:25
Alignment explanation
Indices: 15023493--15023574 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
15023483 TGATATACTT
15023493 TTATGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
15023518 TTATGTATTATGTAAG-TACTGTAAG
1 TTATGTATTATGTAAGTTA-TGTAAG
* *
15023543 TAATGTAAGTTATGTAAGTAATGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
15023568 TTATGTA
1 TTATGTA
15023575 AGTTGTGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
24 3 0.06
25 32 0.64
26 2 0.04
27 12 0.24
28 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.20, T:0.45
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:15023610 original size:25 final size:25
Alignment explanation
Indices: 15023538--15023633 Score: 83
Period size: 25 Copynumber: 3.8 Consensus size: 25
15023528 TGTAAGTACT
*
15023538 GTAAG-TAATGTAAGTTATGTAAGTAAT
1 GTAAGTTAA-GTAAGTTATGT-A-TAAA
* *
15023565 GT-A-TTATGTAAGTTGTGTATAAA
1 GTAAGTTAAGTAAGTTATGTATAAA
*
15023588 GTAAGTTAAG-AAGGTTATGTATAAT
1 GTAAGTTAAGTAA-GTTATGTATAAA
*
15023613 GTAAGTTATGTAAGTTATGTA
1 GTAAGTTAAGTAAGTTATGTA
15023634 AGTTGTCTTG
Statistics
Matches: 57, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
23 5 0.09
24 4 0.07
25 41 0.72
26 5 0.09
27 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.23, T:0.40
Consensus pattern (25 bp):
GTAAGTTAAGTAAGTTATGTATAAA
Found at i:15024051 original size:25 final size:25
Alignment explanation
Indices: 15024023--15024081 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
15024013 AGTGTTGTAT
*
15024023 TATGTAAGTTGTGTATTATGTAAGA
1 TATGTAAGTTGTATATTATGTAAGA
* *
15024048 TATGTAAGTTGTATTTTATGTAAGT
1 TATGTAAGTTGTATATTATGTAAGA
15024073 TATGTAAGT
1 TATGTAAGT
15024082 AACGAGTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (25 bp):
TATGTAAGTTGTATATTATGTAAGA
Found at i:15024053 original size:16 final size:16
Alignment explanation
Indices: 15024018--15024053 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15024008 CTTTAAGTGT
* *
15024018 TGTATTATGTAAGTTG
1 TGTATTATGTAAGATA
15024034 TGTATTATGTAAGATA
1 TGTATTATGTAAGATA
15024050 TGTA
1 TGTA
15024054 AGTTGTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (16 bp):
TGTATTATGTAAGATA
Found at i:15024075 original size:9 final size:9
Alignment explanation
Indices: 15024022--15024081 Score: 56
Period size: 9 Copynumber: 7.1 Consensus size: 9
15024012 AAGTGTTGTA
15024022 TTATGTAAG
1 TTATGTAAG
*
15024031 TTGTGT-A-
1 TTATGTAAG
15024038 TTATGTAAG
1 TTATGTAAG
*
15024047 ATATGTAAG
1 TTATGTAAG
**
15024056 -T-TGTATT
1 TTATGTAAG
15024063 TTATGTAAG
1 TTATGTAAG
15024072 TTATGTAAG
1 TTATGTAAG
15024081 T
1 T
15024082 AACGAGTTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
7 9 0.22
8 4 0.10
9 27 0.68
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:15024153 original size:22 final size:22
Alignment explanation
Indices: 15024128--15024199 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
15024118 ATAATATAAG
15024128 TTATGTATTAAGTTATTATG-TA
1 TTATGTA-TAAGTTATTATGTTA
*
15024150 TTATG--TAATTTATTATGTTA
1 TTATGTATAAGTTATTATGTTA
* * *
15024170 TTATATATAAGTTATGGAAGTTA
1 TTATGTATAAGTTAT-TATGTTA
15024193 TTATGTA
1 TTATGTA
15024200 AGTTATGCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
22 12 0.30
23 11 0.28
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (22 bp):
TTATGTATAAGTTATTATGTTA
Found at i:15024184 original size:19 final size:18
Alignment explanation
Indices: 15024115--15024281 Score: 55
Period size: 19 Copynumber: 8.9 Consensus size: 18
15024105 GTTATGCAAG
15024115 ATTATAATATAAGTTATGT
1 ATTAT-ATATAAGTTATGT
15024134 ATTA-AGT-T-A-TTATGT
1 ATTATA-TATAAGTTATGT
* *
15024149 ATTATGTAATTTA-TTATGTT
1 ATTATAT-A-TAAGTTATG-T
*
15024169 ATTATATATAAGTTATGGA
1 ATTATATATAAGTTAT-GT
* *
15024188 AGTTATTATGTAAGTTATGCAAG
1 A-TTA-TATATAAGTTATG---T
*
15024211 ATTATAAAATAAGTTATGT
1 ATTAT-ATATAAGTTATGT
*
15024230 ATTATGT-T-A-TTATGT
1 ATTATATATAAGTTATGT
* *
15024245 ATTATGTAATTTA-TTATGTT
1 ATTATAT-A-TAAGTTATG-T
15024265 ATTATATATAAGTTATG
1 ATTATATATAAGTTATG
15024282 GAAGTTATTA
Statistics
Matches: 114, Mismatches: 13, Indels: 42
0.67 0.08 0.25
Matches are distributed among these distances:
15 24 0.21
16 2 0.02
17 3 0.03
18 7 0.06
19 33 0.29
20 19 0.17
21 12 0.11
22 13 0.11
23 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.50
Consensus pattern (18 bp):
ATTATATATAAGTTATGT
Found at i:15024194 original size:31 final size:32
Alignment explanation
Indices: 15024149--15024294 Score: 104
Period size: 31 Copynumber: 4.6 Consensus size: 32
15024139 GTTATTATGT
* *
15024149 ATTATGTAATTTATTATGTTATTATATATAAG
1 ATTATGGAAGTTATTATGTTATTATATATAAG
* * **
15024181 -TTATGGAAGTTATTATGTAAGT-TATGCAAG
1 ATTATGGAAGTTATTATGTTATTATATATAAG
* * * * *
15024211 ATTAT-AAAATAAGTTATG-TATTATGTTATTATG
1 ATTATGGAAGTTA-TTATGTTATTAT-ATA-TAAG
* *
15024244 TATTATGTAATTTATTATGTTATTATATATAAG
1 -ATTATGGAAGTTATTATGTTATTATATATAAG
15024277 -TTATGGAAGTTATTATGT
1 ATTATGGAAGTTATTATGT
15024295 AAGTTATGCA
Statistics
Matches: 84, Mismatches: 22, Indels: 17
0.68 0.18 0.14
Matches are distributed among these distances:
30 12 0.14
31 44 0.52
32 1 0.01
33 5 0.06
34 12 0.14
35 10 0.12
ACGTcount: A:0.36, C:0.01, G:0.14, T:0.49
Consensus pattern (32 bp):
ATTATGGAAGTTATTATGTTATTATATATAAG
Found at i:15024201 original size:96 final size:96
Alignment explanation
Indices: 15024101--15024348 Score: 428
Period size: 96 Copynumber: 2.6 Consensus size: 96
15024091 TGTAAACTAG
*
15024101 GTAAGTTATGCAAGATTATAATATAAGTTATGTATTAAGTTATTATGTATTATGTAATTTATTAT
1 GTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTAT
15024166 GTTATTATATATAAGTTATGGAAGTTATTAT
66 GTTATTATATATAAGTTATGGAAGTTATTAT
*
15024197 GTAAGTTATGCAAGATTATAAAATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTAT
1 GTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTAT
15024262 GTTATTATATATAAGTTATGGAAGTTATTAT
66 GTTATTATATATAAGTTATGGAAGTTATTAT
* * *
15024293 GTAAGTTATGCAAGCTTAT-ATACCAA-TTATGTATTATGTTATTATGTATTAAGTAA
1 GTAAGTTATGCAAGATTATAATA-TAAGTTATGTATTATGTTATTATGTATTATGTAA
15024349 GCAAATGATT
Statistics
Matches: 145, Mismatches: 6, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
95 31 0.21
96 114 0.79
ACGTcount: A:0.36, C:0.02, G:0.15, T:0.47
Consensus pattern (96 bp):
GTAAGTTATGCAAGATTATAATATAAGTTATGTATTATGTTATTATGTATTATGTAATTTATTAT
GTTATTATATATAAGTTATGGAAGTTATTAT
Found at i:15024223 original size:22 final size:21
Alignment explanation
Indices: 15024176--15024228 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 21
15024166 GTTATTATAT
* * *
15024176 ATAAGTTATGGAAGTTATTAT
1 ATAAGTTATGCAAGTTATAAA
*
15024197 GTAAGTTATGCAAGATTATAAA
1 ATAAGTTATGCAAG-TTATAAA
15024219 ATAAGTTATG
1 ATAAGTTATG
15024229 TATTATGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.38
Consensus pattern (21 bp):
ATAAGTTATGCAAGTTATAAA
Found at i:15024242 original size:8 final size:7
Alignment explanation
Indices: 15024224--15024269 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
15024214 ATAAAATAAG
15024224 TTATGTA
1 TTATGTA
15024231 TTATGTTA
1 TTATG-TA
15024239 TTATGTA
1 TTATGTA
15024246 TTATGTA
1 TTATGTA
*
15024253 --ATTTA
1 TTATGTA
15024258 TTATGTTA
1 TTATG-TA
15024266 TTAT
1 TTAT
15024270 ATATAAGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
5 4 0.12
7 16 0.48
8 13 0.39
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (7 bp):
TTATGTA
Found at i:15024244 original size:15 final size:15
Alignment explanation
Indices: 15024224--15024269 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
15024214 ATAAAATAAG
15024224 TTATGTATTATGTTA
1 TTATGTATTATGTTA
15024239 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
15024253 --ATTTATTATGTTA
1 TTATGTATTATGTTA
15024266 TTAT
1 TTAT
15024270 ATATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:15024517 original size:61 final size:61
Alignment explanation
Indices: 15024428--15024571 Score: 175
Period size: 61 Copynumber: 2.4 Consensus size: 61
15024418 AAAAATATAA
* * * * * * *
15024428 TTATTTATAAAACTTTTAAAATTGATACTTATAAA-TTTTATTAATAATAAATCTAGAACACT
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTTA-TAACAATAAATCTAGAA-AAT
* *
15024490 TT-TTTAGAAAACTTATAAATTTAATACTAATAAATTTTTATACCAATAAATTTAGAAAAT
1 TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTTATAACAATAAATCTAGAAAAT
15024550 TTATTTAGAAAACTTATAAATT
1 TTATTTAGAAAACTTATAAATT
15024572 CAGAAAAGTT
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
60 4 0.06
61 60 0.85
62 7 0.10
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (61 bp):
TTATTTAGAAAACTTATAAATTTAATACTAATAAATTTTTATAACAATAAATCTAGAAAAT
Found at i:15024537 original size:16 final size:16
Alignment explanation
Indices: 15024504--15024542 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
15024494 TAGAAAACTT
*
15024504 ATAAA-TTTAATACTA
1 ATAAATTTTAATACCA
*
15024519 ATAAATTTTTATACCA
1 ATAAATTTTAATACCA
15024535 ATAAATTT
1 ATAAATTT
15024543 AGAAAATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAATTTTAATACCA
Found at i:15024571 original size:30 final size:30
Alignment explanation
Indices: 15024535--15024591 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
15024525 TTTTATACCA
* * *
15024535 ATAAATTTAGAAAATTTATTTAGAAAACTT
1 ATAAATTCAGAAAAGTTATATAGAAAACTT
15024565 ATAAATTCAGAAAAGTTATATAGAAAA
1 ATAAATTCAGAAAAGTTATATAGAAAA
15024592 TAAAACAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (30 bp):
ATAAATTCAGAAAAGTTATATAGAAAACTT
Found at i:15026470 original size:15 final size:16
Alignment explanation
Indices: 15026450--15026484 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
15026440 TTCAAATTTA
*
15026450 TAAATACTCTCAAT-T
1 TAAATACTATCAATAT
15026465 TAAATACTATCAATAT
1 TAAATACTATCAATAT
15026481 TAAA
1 TAAA
15026485 ATTGATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAATACTATCAATAT
Found at i:15028071 original size:115 final size:112
Alignment explanation
Indices: 15027867--15028472 Score: 542
Period size: 115 Copynumber: 5.3 Consensus size: 112
15027857 GTTAAGACAA
** *
15027867 AAACTCTGCACTTTGGTTAAGATATTTTGCGGCACTTCTCAAAAAGCGCCGCTAATACTATGCTT
1 AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTC-AAAAGCGCCGCTAATACTATGCTT
* * * *
15027932 TAGCGGCGATTTCTCGT-GGACGCCACTAATTCTAGTATACATCAAGACTT
65 TAGCGGC-ATTTCCCATAAG-CGCCACTAATTCTAGTATACATCAAGAC-C
* * * *
15027982 AAA-TGCTGCATTTTGGTTAATATATTTTGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATGCT
1 AAACT-CTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAA-AGCGCCGCTAATACTATGCT
* * *
15028046 TTAGCGGCATGTTCCCATAAGCGCCACTAATTCTAATACACCTCAAGACC
64 TTAGCGGCAT-TTCCCATAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * * *
15028096 AAACTCTGCGTTTTGG-TGAGCATATTCTGCGGCGCTTTTTGC-AAAGCGCCACTAATACTATGA
1 AAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCGC-TTCT-CAAAAGCGCCGCTAATACTATGC
* * * *
15028159 TTTAGCGGCATTTTCCAGTATA-CGCCACTAATTATAGTATACATAAAGACAA
63 TTTAGCGGCATTTCCCA-TA-AGCGCCACTAATTCTAGTATACATCAAGAC-C
* * * * * * *
15028211 AAACGCTACGTTTTGGTTAAGAAATTTTGCGGCGCTTCTCCAAACGCGCCGTTAATAGTATGCCT
1 AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCT-CAAAAGCGCCGCTAATACTATGCTT
* ** *
15028276 T-GACGGCGTGTTCCC-TTTGCGCCACTAATTCTAGTATACCTCAAGACC
65 TAG-CGGCAT-TTCCCATAAGCGCCACTAATTCTAGTATACATCAAGACC
* * * *
15028324 AAACTCTACGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATAATATGATT
1 AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCA-AAAGCGCCGCTAATACTATGCTT
* * * * * **
15028389 TAGCGGCGTTTTCCCGTAAGCGCCATTAACTGTAACATACATCAAGACC
65 TAGCGGC-ATTTCCCATAAGCGCCACTAATTCTAGTATACATCAAGACC
** * * *
15028438 AAAACGGTGCGCTTTGGTTAGGATATTTTACGGCG
1 -AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCG
15028473 TTTTCCCATA
Statistics
Matches: 398, Mismatches: 72, Indels: 42
0.78 0.14 0.08
Matches are distributed among these distances:
112 2 0.01
113 71 0.18
114 141 0.35
115 175 0.44
116 9 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (112 bp):
AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAGCGCCGCTAATACTATGCTTT
AGCGGCATTTCCCATAAGCGCCACTAATTCTAGTATACATCAAGACC
Found at i:15028269 original size:229 final size:227
Alignment explanation
Indices: 15027878--15028402 Score: 671
Period size: 229 Copynumber: 2.3 Consensus size: 227
15027868 AACTCTGCAC
* * * *
15027878 TTTGGTTAAGATATTTTGCGGCACTTCTCAAAAAGCGCCGCTAATACTATGCTTTAGCGGCGA-T
1 TTTGGTTAAGATATTCTGCGGCGCTTCTCACAAAGCGCCGCTAATACTATGATTTAGCGGC-ATT
* * * ** * * * *
15027942 TTCTCGTGGACGCCACTAATTCTAGTATACATCAAGACTTAAATGCTGCATTTTGGTTAATATAT
65 TTC-CGTAGACGCCACTAATTATAGTATACATAAAGACAAAAACGCTACATTTTGGTTAAGAAAT
*
15028007 TTTGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATG-CTTTAGCGGCATGTTCCCATAAGCGCC
129 TTTGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATGCCTTGA-CGGCATGTTCCC-TAAGCGCC
*
15028071 ACTAATTCTAATACACCTCAAGACCAAACTCTGCGT
192 ACTAATTCTAATACACCTCAAGACCAAACTCTACGT
* * ** *
15028107 TTTGG-TGAGCATATTCTGCGGCGCTTTTTGCAAAGCGCCACTAATACTATGATTTAGCGGCATT
1 TTTGGTTAAG-ATATTCTGCGGCGCTTCTCACAAAGCGCCGCTAATACTATGATTTAGCGGCATT
* *
15028171 TTCCAGTATACGCCACTAATTATAGTATACATAAAGACAAAAACGCTACGTTTTGGTTAAGAAAT
65 TTCC-GTAGACGCCACTAATTATAGTATACATAAAGACAAAAACGCTACATTTTGGTTAAGAAAT
* * **
15028236 TTTGCGGCGCTTCTCCAAA-CGCGCCGTTAATAGTATGCCTTGACGGCGTGTTCCCTTTGCGCCA
129 TTTGCGGCGCTTCT-CAAAGCGCGCCGCTAATAGTATGCCTTGACGGCATGTTCCCTAAGCGCCA
* *
15028300 CTAATTCTAGTATACCTCAAGACCAAACTCTACGT
193 CTAATTCTAATACACCTCAAGACCAAACTCTACGT
* * * *
15028335 TTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATAATATGATTTAGCGGCGTTT
1 TTTGGTTAAGATATTCTGCGGCGCTTCTCACAAAGCGCCGCTAATACTATGATTTAGCGGCATTT
15028400 TCC
66 TCC
15028403 CGTAAGCGCC
Statistics
Matches: 253, Mismatches: 37, Indels: 13
0.83 0.12 0.04
Matches are distributed among these distances:
228 99 0.39
229 146 0.58
230 8 0.03
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (227 bp):
TTTGGTTAAGATATTCTGCGGCGCTTCTCACAAAGCGCCGCTAATACTATGATTTAGCGGCATTT
TCCGTAGACGCCACTAATTATAGTATACATAAAGACAAAAACGCTACATTTTGGTTAAGAAATTT
TGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATGCCTTGACGGCATGTTCCCTAAGCGCCACTA
ATTCTAATACACCTCAAGACCAAACTCTACGT
Found at i:15028456 original size:228 final size:229
Alignment explanation
Indices: 15027878--15028472 Score: 709
Period size: 228 Copynumber: 2.6 Consensus size: 229
15027868 AACTCTGCAC
* * *
15027878 TTTGGTTAAGATATTTTGCGGCACTTCTCA-AAAAGCGCCGCTAATACTATGCTTTAGCGGCGAT
1 TTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAA-CGCCGCTAATACTATGATTTAGCGGCGTT
* * * ** * * *
15027942 TTCTCGT-GGACGCCACTAATTCTAGTATACATCAAGACTTAAATGCTGCATTTTGGTTAATATA
65 TTCCCGTAAG-CGCCACTAATTATAGTATACATCAAGACAAAAACGCTGCGTTTTGGTTAAGATA
*
15028006 TTTTGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATGCTTTAGCGGCATGTTCCCATAAGCGCC
129 TTTTGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATGCTTGAGCGGCATGTTCCCATAAGCGCC
*
15028071 ACTAATTCTAATACACCTCAAGACCAAACTCTGCGT
194 ACTAATTCTAATACACCTCAAGACCAAACTCTACGT
* * * ** * * *
15028107 TTTGG-TGAGCATATTCTGCGGCGCTTTTTGCAAAGCGCCACTAATACTATGATTTAGCGGCATT
1 TTTGGTTAAG-ATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACTATGATTTAGCGGCGTT
* * * *
15028171 TTCCAGTATA-CGCCACTAATTATAGTATACATAAAGACAAAAACGCTACGTTTTGGTTAAGAAA
65 TTCCCGTA-AGCGCCACTAATTATAGTATACATCAAGACAAAAACGCTGCGTTTTGGTTAAGATA
* * **
15028235 TTTTGCGGCGCTTCTCCAAA-CGCGCCGTTAATAGTATGCCTTGA-CGGCGTGTTCCC-TTTGCG
129 TTTTGCGGCGCTTCT-CAAAGCGCGCCGCTAATAGTATG-CTTGAGCGGCATGTTCCCATAAGCG
* *
15028297 CCACTAATTCTAGTATACCTCAAGACCAAACTCTACGT
192 CCACTAATTCTAATACACCTCAAGACCAAACTCTACGT
*
15028335 TTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATAATATGATTTAGCGGCGTTT
1 TTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACTATGATTTAGCGGCGTTT
* * * ** * * * *
15028400 TCCCGTAAGCGCCATTAACTGTAACATACATCAAGACCAAAACGGTGCGCTTTGGTTAGGATATT
66 TCCCGTAAGCGCCACTAATTATAGTATACATCAAGACAAAAACGCTGCGTTTTGGTTAAGATATT
*
15028465 TTACGGCG
131 TTGCGGCG
15028473 TTTTCCCATA
Statistics
Matches: 304, Mismatches: 54, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
227 1 0.00
228 151 0.50
229 141 0.46
230 11 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (229 bp):
TTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAACGCCGCTAATACTATGATTTAGCGGCGTTT
TCCCGTAAGCGCCACTAATTATAGTATACATCAAGACAAAAACGCTGCGTTTTGGTTAAGATATT
TTGCGGCGCTTCTCAAAGCGCGCCGCTAATAGTATGCTTGAGCGGCATGTTCCCATAAGCGCCAC
TAATTCTAATACACCTCAAGACCAAACTCTACGT
Found at i:15028679 original size:112 final size:112
Alignment explanation
Indices: 15028479--15028752 Score: 322
Period size: 112 Copynumber: 2.4 Consensus size: 112
15028469 GGCGTTTTCC
* * * * ** *
15028479 CATAAGCGCCACAAATTCTAATATACCTCTAGACCAAACTCTGCATTTTGGTTAACATATCTTGC
1 CATAAGCGCCACTAATTCTAATATACATCAAGACAAAACGATGCATTTTCGTTAACATATCTTGC
* *
15028544 GGCGCTTTTCATAAGCGCGGCTAATACTTGCTTTAGCGGCAGGTTT-T
66 GGCGCTTTTCATAAGCGCCGCTAATACTTGCTTCAGCGGCA-GTTTAT
* * *
15028591 CGTAAGCGCCACTAATTCTAATATACAGT-AAGACAAAACGATGCATTTTCGTTAAGAT-TTTTG
1 CATAAGCGCCACTAATTCTAATATACA-TCAAGACAAAACGATGCATTTTCGTTAACATATCTTG
* *
15028654 CGGCGC-TTTCGATAATGTGCCGCTAATACTTGCTTCAGCGGCATTTTAT
65 CGGCGCTTTTC-ATAA-GCGCCGCTAATACTTGCTTCAGCGGCAGTTTAT
* * *
15028703 CATAATCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTT
1 CATAAGCGCCACTAATTCTAATATACATCAAGA-CAAAACGATGCATTTT
15028753 GGTCTTGAGA
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
110 4 0.03
111 18 0.13
112 100 0.72
113 16 0.12
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (112 bp):
CATAAGCGCCACTAATTCTAATATACATCAAGACAAAACGATGCATTTTCGTTAACATATCTTGC
GGCGCTTTTCATAAGCGCCGCTAATACTTGCTTCAGCGGCAGTTTAT
Found at i:15031342 original size:19 final size:20
Alignment explanation
Indices: 15031307--15031352 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
15031297 TTCATTGATG
**
15031307 AGTTTG-TGATATTTTTA-A
1 AGTTTGATGATAGATTTATA
15031325 AGTTTGATGATAGATTTATA
1 AGTTTGATGATAGATTTATA
*
15031345 AGCTTGAT
1 AGTTTGAT
15031353 AATTAAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 8 0.35
ACGTcount: A:0.30, C:0.02, G:0.20, T:0.48
Consensus pattern (20 bp):
AGTTTGATGATAGATTTATA
Found at i:15031546 original size:13 final size:13
Alignment explanation
Indices: 15031528--15031552 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15031518 CTGTGGAAGA
15031528 TTTGGCTAGCATT
1 TTTGGCTAGCATT
15031541 TTTGGCTAGCAT
1 TTTGGCTAGCAT
15031553 AAATAGTAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.44
Consensus pattern (13 bp):
TTTGGCTAGCATT
Found at i:15036757 original size:24 final size:24
Alignment explanation
Indices: 15036700--15036757 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
15036690 ATGCTCATGC
*
15036700 GAGCATATAACGAGTAGCTCCGAA
1 GAGCATTTAACGAGTAGCTCCGAA
* * * *
15036724 AAGCACTTAACGGGTAGCTCCGAG
1 GAGCATTTAACGAGTAGCTCCGAA
15036748 GAGCATTTAA
1 GAGCATTTAA
15036758 TCAGGAAACA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
GAGCATTTAACGAGTAGCTCCGAA
Found at i:15048089 original size:95 final size:95
Alignment explanation
Indices: 15047941--15048226 Score: 479
Period size: 95 Copynumber: 3.0 Consensus size: 95
15047931 AAAAGCAAAC
* **
15047941 CAAACGCTAGAAGAATCGAGAAAAAA-CC-CAGTCTCTTTGTGCTAAAAATCACAACACTAAAGT
1 CAAACGCTAGAAGAATCAAGAAAAAACCCACAGTCTCTCCGTGCTAAAAATCACAACACTAAAGT
*
15048004 TAGAAAAATCTCCTAATTTGGATTATATGA
66 TAGGAAAATCTCCTAATTTGGATTATATGA
* *
15048034 CCAACGCTA-AATGAATCAAGAAAAAACCCACAGTCTCTCCGTGCTAAAAATCACAACACCAAAG
1 CAAACGCTAGAA-GAATCAAGAAAAAACCCACAGTCTCTCCGTGCTAAAAATCACAACACTAAAG
15048098 TTAGGAAAATCTCCTAATTTGGATTATATGA
65 TTAGGAAAATCTCCTAATTTGGATTATATGA
15048129 CAAACGCTAGAAGAATCAAGAAAAAACCCACAGTCTCTCCGTGCTAAAAATCACAACACTAAAGT
1 CAAACGCTAGAAGAATCAAGAAAAAACCCACAGTCTCTCCGTGCTAAAAATCACAACACTAAAGT
*
15048194 TAGGAAAATATCCTAATTTGGATTATATGA
66 TAGGAAAATCTCCTAATTTGGATTATATGA
15048224 CAA
1 CAA
15048227 TGAGTGAACA
Statistics
Matches: 180, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
92 2 0.01
93 21 0.12
94 2 0.01
95 153 0.85
96 2 0.01
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.23
Consensus pattern (95 bp):
CAAACGCTAGAAGAATCAAGAAAAAACCCACAGTCTCTCCGTGCTAAAAATCACAACACTAAAGT
TAGGAAAATCTCCTAATTTGGATTATATGA
Found at i:15050782 original size:25 final size:25
Alignment explanation
Indices: 15050754--15050812 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
15050744 CGAACATGTA
*
15050754 AACGGGAAGCTC-TTTCGAGCCATAT
1 AACGGGAAGCTCATGT-GAGCCATAT
*
15050779 AACGGGAAGCTCATGTGAGCTATAT
1 AACGGGAAGCTCATGTGAGCCATAT
15050804 AACGGGAAG
1 AACGGGAAG
15050813 TTCAATCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCCATAT
Found at i:15054033 original size:25 final size:25
Alignment explanation
Indices: 15054005--15054063 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
15053995 CGAACATGTA
*
15054005 AACGGGAAGCTC-TTTCGAGCCATAT
1 AACGGGAAGCTCATGT-GAGCCATAT
*
15054030 AACGGGAAGCTCATGTGAGCTATAT
1 AACGGGAAGCTCATGTGAGCCATAT
15054055 AACGGGAAG
1 AACGGGAAG
15054064 TTCAATCAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 29 0.94
26 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.20
Consensus pattern (25 bp):
AACGGGAAGCTCATGTGAGCCATAT
Found at i:15056322 original size:16 final size:16
Alignment explanation
Indices: 15056298--15056331 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15056288 GGTAGGAAAC
15056298 TATGGTATAAAATTTA
1 TATGGTATAAAATTTA
*
15056314 TATGTTATAAAATTTA
1 TATGGTATAAAATTTA
15056330 TA
1 TA
15056332 ATTTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (16 bp):
TATGGTATAAAATTTA
Found at i:15056334 original size:7 final size:7
Alignment explanation
Indices: 15056324--15056368 Score: 63
Period size: 7 Copynumber: 6.3 Consensus size: 7
15056314 TATGTTATAA
15056324 AATTTAT
1 AATTTAT
15056331 AATTTAAT
1 AATTT-AT
*
15056339 TATTTAT
1 AATTTAT
*
15056346 AATGTAT
1 AATTTAT
15056353 AATTTAT
1 AATTTAT
15056360 AATTTAT
1 AATTTAT
15056367 AA
1 AA
15056369 ATGAAAACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (7 bp):
AATTTAT
Found at i:15058120 original size:15 final size:16
Alignment explanation
Indices: 15058094--15058126 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
15058084 CACAAAGGAA
*
15058094 TTGGCATATTAACATG
1 TTGGCATATTAAAATG
15058110 TTGGC-TATTAAAATG
1 TTGGCATATTAAAATG
15058125 TT
1 TT
15058127 TTGTTTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (16 bp):
TTGGCATATTAAAATG
Found at i:15064818 original size:24 final size:25
Alignment explanation
Indices: 15064773--15064820 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
15064763 GTACAACATT
15064773 ATCTTTTATAAAAGAAACTTTAAAA
1 ATCTTTTATAAAAGAAACTTTAAAA
15064798 ATCTTTTA-AAAAGAGAA-TTTAAA
1 ATCTTTTATAAAAGA-AACTTTAAA
15064821 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 12 0.55
25 10 0.45
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (25 bp):
ATCTTTTATAAAAGAAACTTTAAAA
Found at i:15079033 original size:38 final size:41
Alignment explanation
Indices: 15078976--15079051 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 41
15078966 GTCCCACAAT
*
15078976 TATTATTTTAGAATATTTTTAAAA-TTTTA-AATTTTTATA
1 TATTATTTTAGAATATTTTTAAAAGTTTGAGAATTTTTATA
*
15079015 TATT-TTTTAGAATTTTTTTAAAAGTTTGAGAATTTTT
1 TATTATTTTAGAATATTTTTAAAAGTTTGAGAATTTTT
15079052 TAAAAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 18 0.55
39 8 0.24
40 7 0.21
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (41 bp):
TATTATTTTAGAATATTTTTAAAAGTTTGAGAATTTTTATA
Found at i:15079072 original size:24 final size:21
Alignment explanation
Indices: 15079044--15079109 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 21
15079034 AAAAGTTTGA
15079044 GAATTTTTTAAAAATATAAATTTT
1 GAATTTTTTAAAAAT-T--ATTTT
*
15079068 GAA-TTTTTGAAAATTATTTT
1 GAATTTTTTAAAAATTATTTT
* *
15079088 AAATTTTTTTAAAAATTTTTTT
1 GAA-TTTTTTAAAAATTATTTT
15079110 TTGTGAGAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 7 0.19
22 16 0.44
23 10 0.28
24 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
GAATTTTTTAAAAATTATTTT
Found at i:15079107 original size:20 final size:20
Alignment explanation
Indices: 15078981--15079107 Score: 82
Period size: 20 Copynumber: 6.2 Consensus size: 20
15078971 ACAATTATTA
*
15078981 TTTTAGAATATTTTTAAAA-
1 TTTTAGAATTTTTTTAAAAT
* * *
15079000 TTTTA-AATTTTTATATATT
1 TTTTAGAATTTTTTTAAAAT
*
15079019 TTTTAGAATTTTTTTAAAAG
1 TTTTAGAATTTTTTTAAAAT
* *
15079039 TTTGAGAATTTTTTAAAAAT
1 TTTTAGAATTTTTTTAAAAT
* *
15079059 ATAAATTTTGAA-TTTTTGAAAATT
1 -T---TTTAGAATTTTTTTAAAA-T
15079083 ATTTTA-AATTTTTTTAAAAAT
1 -TTTTAGAATTTTTTT-AAAAT
15079104 TTTT
1 TTTT
15079108 TTTTGTGAGA
Statistics
Matches: 83, Mismatches: 16, Indels: 17
0.72 0.14 0.15
Matches are distributed among these distances:
18 9 0.11
19 10 0.12
20 33 0.40
21 10 0.12
22 4 0.05
23 9 0.11
24 8 0.10
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.57
Consensus pattern (20 bp):
TTTTAGAATTTTTTTAAAAT
Found at i:15091571 original size:15 final size:15
Alignment explanation
Indices: 15091534--15091575 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
15091524 TGAATATGGA
*
15091534 GATAATAATAGTAAT
1 GATAATAATAATAAT
*
15091549 GATGATAATATATAAT
1 GATAATAATA-ATAAT
15091565 -ATAATAATAAT
1 GATAATAATAAT
15091576 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 2 0.09
15 17 0.74
16 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (15 bp):
GATAATAATAATAAT
Found at i:15097250 original size:19 final size:20
Alignment explanation
Indices: 15097211--15097250 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
15097201 TTTACAAAAT
*
15097211 TTCATATTATCCATAATGTA
1 TTCACATTATCCATAATGTA
*
15097231 TTCACATTAT-CATTATGTA
1 TTCACATTATCCATAATGTA
15097250 T
1 T
15097251 GTATGTATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCACATTATCCATAATGTA
Found at i:15098610 original size:20 final size:22
Alignment explanation
Indices: 15098559--15098616 Score: 75
Period size: 20 Copynumber: 2.7 Consensus size: 22
15098549 TTATTATTAG
*
15098559 ATATATTTTAATAACAATAAAA
1 ATATAATTTAATAACAATAAAA
* *
15098581 ATAAAATTTAATAA-AAT-AAT
1 ATATAATTTAATAACAATAAAA
15098601 ATATAATTTAATAACA
1 ATATAATTTAATAACA
15098617 TTCTTAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 15 0.48
21 4 0.13
22 12 0.39
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.36
Consensus pattern (22 bp):
ATATAATTTAATAACAATAAAA
Found at i:15098672 original size:23 final size:21
Alignment explanation
Indices: 15098646--15098688 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
15098636 TAAAATATGA
15098646 ATTAAAAAATCATAATATATAAT
1 ATTAAAAAA--ATAATATATAAT
*
15098669 ATTATAAAAATAATATATAA
1 ATTAAAAAAATAATATATAA
15098689 CCTACGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
23 8 0.42
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
ATTAAAAAAATAATATATAAT
Found at i:15101815 original size:16 final size:16
Alignment explanation
Indices: 15101791--15101828 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
15101781 TAATAAAATT
*
15101791 AAAACTAATTGTTATC
1 AAAATTAATTGTTATC
*
15101807 AAAATTAATTGTTATT
1 AAAATTAATTGTTATC
15101823 AAAATT
1 AAAATT
15101829 GTATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.42
Consensus pattern (16 bp):
AAAATTAATTGTTATC
Found at i:15102067 original size:52 final size:52
Alignment explanation
Indices: 15101989--15102092 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
15101979 ATTGCATGTT
* *
15101989 CACCATCCTGTTCACTGGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
1 CACCATCCTATTCACTAGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
*
15102041 CACCATCCTATTCACTAGACATTGAATCATTTGGGTCTCTTTCTATTAAACA
1 CACCATCCTATTCACTAGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
15102093 ATTAAAAGGA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.27, C:0.26, G:0.12, T:0.36
Consensus pattern (52 bp):
CACCATCCTATTCACTAGACATTGAATCACTTGGGTCTCTTTCTATTAAACA
Found at i:15102292 original size:15 final size:15
Alignment explanation
Indices: 15102272--15102302 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15102262 TTTATAGCAA
15102272 TAAACATACTTAATT
1 TAAACATACTTAATT
15102287 TAAACATACTTAATT
1 TAAACATACTTAATT
15102302 T
1 T
15102303 TATCCTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAACATACTTAATT
Found at i:15104810 original size:45 final size:45
Alignment explanation
Indices: 15104746--15104841 Score: 158
Period size: 45 Copynumber: 2.1 Consensus size: 45
15104736 AGCAAGGCAA
15104746 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
1 TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
* *
15104791 TAATGTGAAATTT-TGAGCTAATTTTCCATTATATAAACAATCGGC
1 TAATGTGAAATTTCT-AGCTAATGTTCCATTATATAAACAATAGGC
15104836 TAATGT
1 TAATGT
15104842 TCCATTTATA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 1 0.02
45 47 0.98
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (45 bp):
TAATGTGAAATTTCTAGCTAATGTTCCATTATATAAACAATAGGC
Found at i:15106300 original size:10 final size:10
Alignment explanation
Indices: 15106285--15106316 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
15106275 GCCTAAAATT
15106285 ATATATAATG
1 ATATATAATG
*
15106295 ATATATAATA
1 ATATATAATG
15106305 ATATATAATG
1 ATATATAATG
15106315 AT
1 AT
15106317 GGGGATGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (10 bp):
ATATATAATG
Found at i:15107901 original size:43 final size:43
Alignment explanation
Indices: 15107840--15107927 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
15107830 TTTTATCTTG
15107840 TATATTTAGAGATGCCATGTTATACACCAGATGCTTATGTCCA
1 TATATTTAGAGATGCCATGTTATACACCAGATGCTTATGTCCA
15107883 TATATTTAGAGATGCCATGTTATACACCAGATGCTTATGTCCA
1 TATATTTAGAGATGCCATGTTATACACCAGATGCTTATGTCCA
15107926 TA
1 TA
15107928 CTTTACTTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (43 bp):
TATATTTAGAGATGCCATGTTATACACCAGATGCTTATGTCCA
Found at i:15109549 original size:2 final size:2
Alignment explanation
Indices: 15109542--15109567 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
15109532 AACCATAAAT
15109542 AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC
15109568 TACTTAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:15127367 original size:19 final size:19
Alignment explanation
Indices: 15127343--15127380 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
15127333 TTGCGGATTT
15127343 TTTAAAGAAA-ATTATTTTA
1 TTTAAA-AAATATTATTTTA
15127362 TTTAAAAAATATTATTTTA
1 TTTAAAAAATATTATTTTA
15127381 ATGAATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (19 bp):
TTTAAAAAATATTATTTTA
Found at i:15128336 original size:2 final size:2
Alignment explanation
Indices: 15128331--15128360 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
15128321 TCTGTACCTT
15128331 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
15128361 GATTATAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:15128350 original size:15 final size:15
Alignment explanation
Indices: 15128330--15128360 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
15128320 TTCTGTACCT
15128330 TTATATATATATATA
1 TTATATATATATATA
15128345 TTATATATATATATA
1 TTATATATATATATA
15128360 T
1 T
15128361 GATTATAGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATATATATATA
Found at i:15128351 original size:13 final size:13
Alignment explanation
Indices: 15128333--15128358 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15128323 TGTACCTTTA
15128333 TATATATATATAT
1 TATATATATATAT
15128346 TATATATATATAT
1 TATATATATATAT
15128359 ATGATTATAG
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATATAT
Found at i:15128469 original size:18 final size:17
Alignment explanation
Indices: 15128441--15128479 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
15128431 TAATGCATGA
15128441 TATTTAAAG-TTATTAAT
1 TATTTAAAGTTTATT-AT
15128458 TATTTAAAAGTTTATTAT
1 TATTT-AAAGTTTATTAT
15128476 TATT
1 TATT
15128480 AGTATTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TATTTAAAGTTTATTAT
Found at i:15128842 original size:32 final size:31
Alignment explanation
Indices: 15128800--15128881 Score: 78
Period size: 32 Copynumber: 2.6 Consensus size: 31
15128790 AATACATCTA
*
15128800 AAAAATATATAAAAATAAAAAAAATAATTGTTG
1 AAAAA-ATATAAAAATAAAAAAAAT-ATTGTTC
* *
15128833 AAAAAATATATAACAAT-ACAAAAATATTTTTC
1 AAAAAATATA-AA-AATAAAAAAAATATTGTTC
*
15128865 AAAAAAT-TAATAATAAA
1 AAAAAATATAAAAATAAA
15128882 TTTAAATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
29 3 0.07
30 2 0.05
31 2 0.05
32 17 0.41
33 14 0.34
34 3 0.07
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (31 bp):
AAAAAATATAAAAATAAAAAAAATATTGTTC
Found at i:15129036 original size:23 final size:23
Alignment explanation
Indices: 15128992--15129036 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15128982 GCTTCAGCAG
* *
15128992 CAGAACTCCAAACACGACTACTC
1 CAGAACTCCAAACACAAATACTC
15129015 CAGAA-TCCAAACGACAAATACT
1 CAGAACTCCAAAC-ACAAATACT
15129037 TTAACCCTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.44, C:0.33, G:0.09, T:0.13
Consensus pattern (23 bp):
CAGAACTCCAAACACAAATACTC
Found at i:15129838 original size:3 final size:3
Alignment explanation
Indices: 15129830--15129859 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
15129820 TAGTTTACTT
15129830 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15129860 ACGTCAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15132600 original size:21 final size:21
Alignment explanation
Indices: 15132576--15132620 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
15132566 TCCTTCCAAC
15132576 ACCCACAACC-GAGCAACCACA
1 ACCC-CAACCTGAGCAACCACA
*
15132597 ACCCCTACCTGAGCAACCACA
1 ACCCCAACCTGAGCAACCACA
15132618 ACC
1 ACC
15132621 TCCGCTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.38, C:0.49, G:0.09, T:0.04
Consensus pattern (21 bp):
ACCCCAACCTGAGCAACCACA
Found at i:15133827 original size:125 final size:126
Alignment explanation
Indices: 15133473--15133988 Score: 728
Period size: 124 Copynumber: 4.1 Consensus size: 126
15133463 GGCCAAACAT
*
15133473 GAACTACTGTAGAAAAAGAGCGTCCA--TGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCGTC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* * *
15133536 CCGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAATGTCTTCTCAAAATTATTTTTTCAA
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * *
15133597 GAACTACTGTAGAAAAAAAGCGTCCACGTGGGAGCTTTTTTTCA-TCAATTTTGCTAATAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGT-AATTTTGCTGACAGTGCA
* *
15133661 TCTTGCTTGAAGCGTTTTTGACACTA-TTGTTCAGAAACGTCTTCTCAAATTTATTTTTT-AG
64 TCCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * *
15133722 GAACTATTGTAGAAAAAGAGCATCCACGTGGGAGCTTTTTTCA-TCAATTTAGCTGACAGTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCAT
* *
15133786 CCTGCTTGAAGCGTTTTTGACACTATTTGTTTAGAACCGTCTTCTC-AAATTATTTTTTCAG
65 CCTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
* * * * *
15133847 AAATTACTATAG-AAAAGAGCGTCCACGTGAGAGCTTTTTT-AGTAGTTTTGCTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
* *
15133910 TTGCTTGAAGCATTTTTGACACTATTTGTTCAG-AACTGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAAC-GTCTTCTCAAAATTATTTTTTCAG
15133971 GAACTACTGTAGAGAAAA
1 GAACTACTGTAGA-AAAA
15133989 ACCAATATCC
Statistics
Matches: 347, Mismatches: 34, Indels: 20
0.87 0.08 0.05
Matches are distributed among these distances:
122 2 0.01
123 57 0.16
124 137 0.39
125 61 0.18
126 43 0.12
127 47 0.14
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACTATTTGTTCAGAAACGTCTTCTCAAAATTATTTTTTCAG
Found at i:15134252 original size:15 final size:15
Alignment explanation
Indices: 15134229--15134267 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
15134219 TTATTTTAAC
* *
15134229 AAAAA-CCTAACCCT
1 AAAAACCCTAAACCA
15134243 AAAAACCCTAAACCA
1 AAAAACCCTAAACCA
15134258 AAAAACCCTA
1 AAAAACCCTA
15134268 GGGACTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAACCCTAAACCA
Found at i:15134734 original size:16 final size:16
Alignment explanation
Indices: 15134694--15134751 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
15134684 GGTTGGGGTG
* *
15134694 AATAGAATAGGGTTAT
1 AATAGAATAAGATTAT
*
15134710 AAT-GAAATAGAGA-TGT
1 AATAG-AATA-AGATTAT
15134726 AATAGAATAAGATTAT
1 AATAGAATAAGATTAT
15134742 AATAGAATAA
1 AATAGAATAA
15134752 AACTATAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 4 0.12
16 28 0.82
17 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (16 bp):
AATAGAATAAGATTAT
Found at i:15134758 original size:16 final size:16
Alignment explanation
Indices: 15134725--15134760 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
15134715 AATAGAGATG
* *
15134725 TAATAGAATAAGATTA
1 TAATAGAATAAAACTA
15134741 TAATAGAATAAAACTA
1 TAATAGAATAAAACTA
15134757 TAAT
1 TAAT
15134761 CAGTAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.31
Consensus pattern (16 bp):
TAATAGAATAAAACTA
Found at i:15134937 original size:25 final size:26
Alignment explanation
Indices: 15134921--15135056 Score: 80
Period size: 26 Copynumber: 5.0 Consensus size: 26
15134911 TTATTTTTAT
15134921 TAAATTTTAATAAGATTATTATTAAA
1 TAAATTTTAATAAGATTATTATTAAA
* * * ** *
15134947 TATATTTTAATAATA-AACAATTTAA
1 TAAATTTTAATAAGATTATTATTAAA
*
15134972 TCATATTTTAATATA-ATTATTATTAAA
1 T-AAATTTTAATA-AGATTATTATTAAA
* * *
15134999 TAAAATTTAATAAAATAATATATAATTTAA
1 TAAATTTTAATAAGAT--TAT-T-ATTAAA
15135029 TAACATTCTTAATATA-ATTATTATTAAA
1 TAA-ATT-TTAATA-AGATTATTATTAAA
15135057 ATATGAATTA
Statistics
Matches: 84, Mismatches: 15, Indels: 20
0.71 0.13 0.17
Matches are distributed among these distances:
25 8 0.10
26 36 0.43
27 8 0.10
28 8 0.10
29 2 0.02
30 11 0.13
31 2 0.02
32 8 0.10
33 1 0.01
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.46
Consensus pattern (26 bp):
TAAATTTTAATAAGATTATTATTAAA
Found at i:15134959 original size:26 final size:25
Alignment explanation
Indices: 15134924--15135012 Score: 81
Period size: 26 Copynumber: 3.4 Consensus size: 25
15134914 TTTTTATTAA
15134924 ATTTTAATAAGATTATTATTAAATAT
1 ATTTTAATAA-ATTATTATTAAATAT
* ** *
15134950 ATTTTAAT-AATAAACAATTTAATCAT
1 ATTTTAATAAAT-TATTATTAAAT-AT
*
15134976 ATTTTAATATAATTATTATTAAATAA
1 ATTTTAATA-AATTATTATTAAATAT
*
15135002 AATTTAATAAA
1 ATTTTAATAAA
15135013 ATAATATATA
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
24 2 0.04
25 10 0.20
26 27 0.55
27 7 0.14
28 3 0.06
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (25 bp):
ATTTTAATAAATTATTATTAAATAT
Found at i:15134991 original size:52 final size:54
Alignment explanation
Indices: 15134916--15135060 Score: 156
Period size: 52 Copynumber: 2.7 Consensus size: 54
15134906 GATGATTATT
*
15134916 TTTATTAA-ATTTTAATA-AGATTATTATTAAATATATTT-T-AATAATAAACAA
1 TTTAATAACATTTTAATATA-ATTATTATTAAATATATTTATAAATAATAAACAA
* * * * *
15134967 TTTAATCATATTTTAATATAATTATTATTAAATAAAATTTAATAAAATAATATATAA
1 TTTAATAACATTTTAATATAATTATTATTAAAT-ATATTT-AT-AAATAATAAACAA
15135024 TTTAATAACATTCTTAATATAATTATTATTAAA-ATAT
1 TTTAATAACATT-TTAATATAATTATTATTAAATATAT
15135061 GAATTAATAA
Statistics
Matches: 78, Mismatches: 8, Indels: 11
0.80 0.08 0.11
Matches are distributed among these distances:
51 6 0.08
52 22 0.28
53 6 0.08
55 1 0.01
56 3 0.04
57 20 0.26
58 20 0.26
ACGTcount: A:0.50, C:0.03, G:0.01, T:0.47
Consensus pattern (54 bp):
TTTAATAACATTTTAATATAATTATTATTAAATATATTTATAAATAATAAACAA
Found at i:15137685 original size:192 final size:192
Alignment explanation
Indices: 15137446--15137828 Score: 739
Period size: 192 Copynumber: 2.0 Consensus size: 192
15137436 CTCGGGTTAG
15137446 GTTACTATACTTAAATCTAAATGAACTAAATTATGTATGAGCTATATATGGAACTCACTCCAATA
1 GTTACTATACTTAAATCTAAATGAACTAAATTATGTATGAGCTATATATGGAACTCACTCCAATA
* *
15137511 CCTTGATTAATTTCCACCTTTGATTTGTAGAATTAGCTGTAATTGACTTTGCATTTTTAAATAGT
66 CCTTGATTAATTTCCACATTTGATTTGTAGAATTAGCTCTAATTGACTTTGCATTTTTAAATAGT
15137576 ACATCTTGTAAGCGTATGATAACATTTAAAACATTATGAGATAATCTGCTAACAGTTTCCCT
131 ACATCTTGTAAGCGTATGATAACATTTAAAACATTATGAGATAATCTGCTAACAGTTTCCCT
15137638 GTTACTATACTTAAATCTAAATGAACTAAATTATGTATGAGCTATATATGGAACTCACTCCAATA
1 GTTACTATACTTAAATCTAAATGAACTAAATTATGTATGAGCTATATATGGAACTCACTCCAATA
*
15137703 CCTTGATTAATTTCCAGATTTGATTTGTAGAATTAGCTCTAATTGACTTTGCATTTTTAAATAGT
66 CCTTGATTAATTTCCACATTTGATTTGTAGAATTAGCTCTAATTGACTTTGCATTTTTAAATAGT
15137768 ACATCTTGTAAGCGTATGATAACATTTAAAACATTATGAGATAATCTGCTAACAGTTTCCC
131 ACATCTTGTAAGCGTATGATAACATTTAAAACATTATGAGATAATCTGCTAACAGTTTCCC
15137829 CGGACCTATT
Statistics
Matches: 188, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
192 188 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (192 bp):
GTTACTATACTTAAATCTAAATGAACTAAATTATGTATGAGCTATATATGGAACTCACTCCAATA
CCTTGATTAATTTCCACATTTGATTTGTAGAATTAGCTCTAATTGACTTTGCATTTTTAAATAGT
ACATCTTGTAAGCGTATGATAACATTTAAAACATTATGAGATAATCTGCTAACAGTTTCCCT
Found at i:15140043 original size:19 final size:19
Alignment explanation
Indices: 15140019--15140112 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
15140009 AATTTTTGAG
*
15140019 GATATGCAATTTTAGATAT
1 GATATGCAATCTTAGATAT
*
15140038 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
15140057 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
15140076 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
15140097 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
15140113 ATATATGATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:15140094 original size:40 final size:38
Alignment explanation
Indices: 15140019--15140119 Score: 152
Period size: 40 Copynumber: 2.7 Consensus size: 38
15140009 AATTTTTGAG
*
15140019 GATATGCAATTTTAGATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
15140057 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
15140097 GATATGCAATCTTAGA-AT-ATATG
1 GATATGCAATCTTAGATATGATATG
15140120 ATTTTGTAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
36 5 0.08
38 19 0.32
39 2 0.03
40 33 0.56
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:15140855 original size:13 final size:14
Alignment explanation
Indices: 15140832--15140878 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
15140822 TTATTTTATT
15140832 TTATTTATTTATAA
1 TTATTTATTTATAA
15140846 TTATTT-TTTATAA
1 TTATTTATTTATAA
* *
15140859 TCTATATATGTTATAT
1 T-TATTTAT-TTATAA
15140875 TTAT
1 TTAT
15140879 CTTTGTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 8 0.29
14 10 0.36
15 4 0.14
16 6 0.21
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (14 bp):
TTATTTATTTATAA
Found at i:15141314 original size:19 final size:20
Alignment explanation
Indices: 15141287--15141327 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
15141277 TTCTAGGCCT
* *
15141287 TTGTAATATTTATTATTGCA
1 TTGTAATATTTAATATAGCA
15141307 TTGT-ATATTTAATATAGCA
1 TTGTAATATTTAATATAGCA
15141326 TT
1 TT
15141328 ACATCATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.54
Consensus pattern (20 bp):
TTGTAATATTTAATATAGCA
Found at i:15141701 original size:98 final size:98
Alignment explanation
Indices: 15141568--15141762 Score: 336
Period size: 98 Copynumber: 2.0 Consensus size: 98
15141558 CTAAAAACAA
* * * *
15141568 TAAAAGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTG
1 TAAAAGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGGGTGATTTC
15141633 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
15141666 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGGGTGATTTC
1 TAAAAGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGGGTGATTTC
15141731 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
15141763 ATTTTATTGT
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 91 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.36
Consensus pattern (98 bp):
TAAAAGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGGGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:15150516 original size:14 final size:14
Alignment explanation
Indices: 15150494--15150581 Score: 68
Period size: 14 Copynumber: 6.3 Consensus size: 14
15150484 GGGATAATCA
* *
15150494 GCATGTATGAATTT
1 GCATCTATGAATTC
15150508 GCATCTATGAATTC
1 GCATCTATGAATTC
* *
15150522 GTATCTATGAATCC
1 GCATCTATGAATTC
* ** *
15150536 ACAGATATGAATAC
1 GCATCTATGAATTC
* *
15150550 GAATGTATGAATTC
1 GCATCTATGAATTC
* *
15150564 GCATTTATGAATCC
1 GCATCTATGAATTC
15150578 GCAT
1 GCAT
15150582 AAGTTTATTT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
14 57 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (14 bp):
GCATCTATGAATTC
Found at i:15150572 original size:28 final size:28
Alignment explanation
Indices: 15150496--15150575 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 28
15150486 GATAATCAGC
* * * *
15150496 ATGTATGAATTTGCATCTATGAATTCGT
1 ATGTATGAATTCGCATATATGAATACGA
* * * *
15150524 ATCTATGAATCCACAGATATGAATACGA
1 ATGTATGAATTCGCATATATGAATACGA
*
15150552 ATGTATGAATTCGCATTTATGAAT
1 ATGTATGAATTCGCATATATGAAT
15150576 CCGCATAAGT
Statistics
Matches: 39, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (28 bp):
ATGTATGAATTCGCATATATGAATACGA
Found at i:15156816 original size:85 final size:86
Alignment explanation
Indices: 15156702--15156870 Score: 250
Period size: 85 Copynumber: 2.0 Consensus size: 86
15156692 CAAAAAAGTG
* * *
15156702 GTGGATCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGTAAATATGTTGTGCACTCACAACA
1 GTGGATCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
*
15156767 AGTGGCAGTAACTGCAAATAT
66 AGTGACAGTAACTGCAAATAT
* * * *
15156788 GTGGCTCGTCCAC-AAACCCAGTGGCAATTTGTTTAATTTGCAACCATGTTATGCACTCACAACA
1 GTGGATCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
*
15156852 AGTGATAGTAACTGCAAAT
66 AGTGACAGTAACTGCAAAT
15156871 TTTTTTATCT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
85 62 0.84
86 12 0.16
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (86 bp):
GTGGATCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
AGTGACAGTAACTGCAAATAT
Found at i:15159826 original size:16 final size:17
Alignment explanation
Indices: 15159795--15159829 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
15159785 AAGACACGTT
15159795 ATTAAAATACATTTAAAA
1 ATTAAAATA-ATTTAAAA
15159813 ATTAAAAT-ATTTAAAA
1 ATTAAAATAATTTAAAA
15159829 A
1 A
15159830 CAAATCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
18 8 0.47
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (17 bp):
ATTAAAATAATTTAAAA
Found at i:15160346 original size:26 final size:27
Alignment explanation
Indices: 15160317--15160368 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15160307 GTAATAGGTT
15160317 TTTAAAC-CAATAAAAAT-ACTTTAAAA
1 TTTAAACACAATAAAAATCA-TTTAAAA
*
15160343 TTTAAACATAATAAAAATCATTTAAA
1 TTTAAACACAATAAAAATCATTTAAA
15160369 TAATGAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 7 0.30
27 15 0.65
28 1 0.04
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.33
Consensus pattern (27 bp):
TTTAAACACAATAAAAATCATTTAAAA
Found at i:15171000 original size:23 final size:26
Alignment explanation
Indices: 15170969--15171037 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 26
15170959 AGCTAAAGAA
15170969 CGGTAAGCTCTATCGAGCTGA-A-AT
1 CGGTAAGCTCTATCGAGCTGATATAT
*
15170993 -GGTAAGCTC-ATAAGAGCTGATATAT
1 CGGTAAGCTCTAT-CGAGCTGATATAT
15171018 CGGTAAGCTCGTA-CGAGCTG
1 CGGTAAGCTC-TATCGAGCTG
15171038 TGGTGAGTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.05
23 16 0.43
24 1 0.03
25 2 0.05
26 15 0.41
28 1 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (26 bp):
CGGTAAGCTCTATCGAGCTGATATAT
Found at i:15171025 original size:26 final size:23
Alignment explanation
Indices: 15170969--15171037 Score: 77
Period size: 26 Copynumber: 2.8 Consensus size: 23
15170959 AGCTAAAGAA
15170969 CGGTAAGCTCTATCGAGCTGAAAT
1 CGGTAAGCTCTA-CGAGCTGAAAT
*
15170993 -GGTAAGCTCATAAGAGCTGATATAT
1 CGGTAAGCTC-TACGAGCTGA-A-AT
15171018 CGGTAAGCTCGTACGAGCTG
1 CGGTAAGCTC-TACGAGCTG
15171038 TGGTGAGTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
23 16 0.42
24 3 0.08
25 2 0.05
26 17 0.45
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.25
Consensus pattern (23 bp):
CGGTAAGCTCTACGAGCTGAAAT
Found at i:15174005 original size:18 final size:18
Alignment explanation
Indices: 15173982--15174024 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
15173972 ACAGTTTGGA
*
15173982 AAATTAATACAGTTCACC
1 AAATTAATACAGATCACC
*
15174000 ATATTAATACAGATCACC
1 AAATTAATACAGATCACC
15174018 AAATTAA
1 AAATTAA
15174025 CACACTTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.05, T:0.28
Consensus pattern (18 bp):
AAATTAATACAGATCACC
Found at i:15174261 original size:15 final size:16
Alignment explanation
Indices: 15174229--15174261 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
15174219 CATTATCAAT
15174229 AAAATTCATATGTTATA
1 AAAATTCATA-GTTATA
15174246 AAAATTCATA-TTATA
1 AAAATTCATAGTTATA
15174261 A
1 A
15174262 TATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTCATAGTTATA
Found at i:15175831 original size:32 final size:31
Alignment explanation
Indices: 15175766--15175832 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
15175756 ACCTAAAATT
* * *
15175766 ATTAATTCTAATTATTATAATATTTTATTTA
1 ATTAATTCTAATTATTATAATATATAATCTA
15175797 ATTAATTCCTAATTATT-TAATTATATAATCTA
1 ATTAATT-CTAATTATTATAA-TATATAATCTA
15175829 ATTA
1 ATTA
15175833 CAGTTTTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTAATTCTAATTATTATAATATATAATCTA
Found at i:15176093 original size:31 final size:31
Alignment explanation
Indices: 15176058--15176119 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
15176048 TTCAAAATGT
15176058 TCACTAAACTATTCAAAAGTTTACATTTAAA
1 TCACTAAACTATTCAAAAGTTTACATTTAAA
* * * **
15176089 TCACTGAGCTATTCGAAAGTTTTTATTTAAA
1 TCACTAAACTATTCAAAAGTTTACATTTAAA
15176120 CATTGGGTTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.15, G:0.08, T:0.39
Consensus pattern (31 bp):
TCACTAAACTATTCAAAAGTTTACATTTAAA
Found at i:15191530 original size:24 final size:23
Alignment explanation
Indices: 15191492--15191536 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15191482 TAAAAAGTAA
*
15191492 AATAAAAAATAAAAATAATTTTT
1 AATAAAAAATAAAAAAAATTTTT
*
15191515 AATAAAAAATCTAAAAAAATTT
1 AATAAAAAAT-AAAAAAAATTT
15191537 AAAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAAAATAAAAAAAATTTTT
Found at i:15191549 original size:14 final size:15
Alignment explanation
Indices: 15191530--15191562 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
15191520 AAAATCTAAA
*
15191530 AAAATTTAAAAA-AT
1 AAAATTCAAAAATAT
15191544 AAAATTCAAAAATAT
1 AAAATTCAAAAATAT
15191559 AAAA
1 AAAA
15191563 AATAAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATTCAAAAATAT
Found at i:15194758 original size:5 final size:5
Alignment explanation
Indices: 15194748--15194772 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15194738 TCTAACTTTT
15194748 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
15194773 CTATTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:15204514 original size:19 final size:20
Alignment explanation
Indices: 15204484--15204522 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
15204474 CGTCCTTACC
*
15204484 ATATTAATTTTTTATATATT
1 ATATTAATTTTTTACATATT
15204504 ATATT-ATTTTTTACATATT
1 ATATTAATTTTTTACATATT
15204523 TTTTAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATTAATTTTTTACATATT
Found at i:15206539 original size:21 final size:19
Alignment explanation
Indices: 15206490--15206538 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
15206480 TTATATTTTG
15206490 TATTTATTTTAATATTATA
1 TATTTATTTTAATATTATA
* *
15206509 AATGTATTTTAATTTATTATA
1 TATTTATTTTAA--TATTATA
15206530 TATTT-TTTT
1 TATTTATTTT
15206539 TGCAAAATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 10 0.42
20 4 0.17
21 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TATTTATTTTAATATTATA
Found at i:15214716 original size:14 final size:14
Alignment explanation
Indices: 15214697--15214724 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
15214687 GCACACATTT
15214697 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
15214711 GTTCTTCTCTGCTG
1 GTTCTTCTCTGCTG
15214725 CTGCTGGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.00, C:0.29, G:0.21, T:0.50
Consensus pattern (14 bp):
GTTCTTCTCTGCTG
Found at i:15214801 original size:11 final size:11
Alignment explanation
Indices: 15214767--15214801 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
15214757 TCTAAATTTT
*
15214767 GTTCTCTGCTA
1 GTTCTCTGCTG
*
15214778 GTTCTCTGTTG
1 GTTCTCTGCTG
15214789 GTTCTCTGCTG
1 GTTCTCTGCTG
15214800 GT
1 GT
15214802 GTTGGTGTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.03, C:0.23, G:0.26, T:0.49
Consensus pattern (11 bp):
GTTCTCTGCTG
Found at i:15217120 original size:18 final size:18
Alignment explanation
Indices: 15217097--15217144 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
15217087 AAAATATGAG
*
15217097 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTC
15217115 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
15217133 AAATGATGTTCA
1 AAATGATGTTCA
15217145 AATTGATGGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.40
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:15217667 original size:72 final size:72
Alignment explanation
Indices: 15217568--15217738 Score: 258
Period size: 72 Copynumber: 2.4 Consensus size: 72
15217558 CTGGCAATGC
* * *
15217568 TAAA-CTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 TAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
*
15217632 TTTATGT
66 TTTATAT
*
15217639 GT-AATCTAGTTTTATTAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
1 -TAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTT
*
15217703 ATTTTTAT
65 ATTTATAT
15217711 TAAAT-TAGTTTTATCAATAGTTGTTTAT
1 TAAATCTAGTTTTATCAATAGTTGTTTAT
15217739 ATATGATTTT
Statistics
Matches: 90, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
71 25 0.28
72 65 0.72
ACGTcount: A:0.26, C:0.05, G:0.13, T:0.56
Consensus pattern (72 bp):
TAAATCTAGTTTTATCAATAGTTGTTTATGTTTGGTCTTTAGATATTGAATTTATGTTCTACTTA
TTTATAT
Found at i:15220779 original size:3 final size:3
Alignment explanation
Indices: 15220773--15220805 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15220763 TCTTCTTTTT
15220773 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15220806 TCATGTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:15221254 original size:11 final size:11
Alignment explanation
Indices: 15221238--15221262 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
15221228 AATAATTATT
15221238 TTAATATTTTA
1 TTAATATTTTA
15221249 TTAATATTTTA
1 TTAATATTTTA
15221260 TTA
1 TTA
15221263 TATCACCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAATATTTTA
Found at i:15230136 original size:17 final size:17
Alignment explanation
Indices: 15230107--15230160 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
15230097 ACCGTGAACA
*
15230107 CAAGCCTGCGAGCTCAC
1 CAAGACTGCGAGCTCAC
*
15230124 CAAGACTGTGAGCTCAC
1 CAAGACTGCGAGCTCAC
* *
15230141 CAATAGTGCGAGCTCAC
1 CAAGACTGCGAGCTCAC
15230158 CAA
1 CAA
15230161 ACTTGTGATG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.30, C:0.33, G:0.22, T:0.15
Consensus pattern (17 bp):
CAAGACTGCGAGCTCAC
Found at i:15231975 original size:38 final size:38
Alignment explanation
Indices: 15231932--15232008 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
15231922 AGTAGCATAT
15231932 ACCAACTCACTAGATGAAACCAAGTTATGGCATAGAAG
1 ACCAACTCACTAGATGAAACCAAGTTATGGCATAGAAG
15231970 ACCAACTCACTAGATGAAACCAAGTTATGGCATAGAAG
1 ACCAACTCACTAGATGAAACCAAGTTATGGCATAGAAG
15232008 A
1 A
15232009 ATGGGACATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.43, C:0.21, G:0.18, T:0.18
Consensus pattern (38 bp):
ACCAACTCACTAGATGAAACCAAGTTATGGCATAGAAG
Found at i:15235974 original size:23 final size:23
Alignment explanation
Indices: 15235929--15235984 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
15235919 GGTAAAGGCA
15235929 GTAAATGAGGAGGAAAAAAAAGGG
1 GTAAATGAGGA-GAAAAAAAAGGG
15235953 GTAAATGAGGA-AAAAAAGAAGGG
1 GTAAATGAGGAGAAAAAA-AAGGG
15235976 G-AATATGAG
1 GTAA-ATGAG
15235985 TGTCTACGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
22 8 0.27
23 11 0.37
24 11 0.37
ACGTcount: A:0.54, C:0.00, G:0.36, T:0.11
Consensus pattern (23 bp):
GTAAATGAGGAGAAAAAAAAGGG
Found at i:15236585 original size:24 final size:24
Alignment explanation
Indices: 15236558--15236609 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15236548 TTTCTAGAAG
15236558 ATTTAGTATCTATTAATATAATAT
1 ATTTAGTATCTATTAATATAATAT
* * * *
15236582 ATTTTGTATTTATTAGTATAATTT
1 ATTTAGTATCTATTAATATAATAT
15236606 ATTT
1 ATTT
15236610 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATTTAGTATCTATTAATATAATAT
Found at i:15236595 original size:269 final size:268
Alignment explanation
Indices: 15236093--15236634 Score: 820
Period size: 269 Copynumber: 2.0 Consensus size: 268
15236083 AGTATAATAA
** * *
15236093 AAATATGTTTGACTCATTATAATAAGAATATATATAATATTTGTCTAGTTAATGTATTTATTAGA
1 AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCTAGTTAATGTACTTATTAGA
15236158 TTAAAAATATTTTTTAAAAAATTAATTTTAATGATAAATTAATAAACATATGTGTGACCCAAATT
66 TTAAAAATATTTTTTAAAAAATTAATTTTAATGATAAATTAATAAACATATGTGTGACCCAAATT
* ** * *
15236223 CTTGTCAAATAAAATAAGACATTGTTTGCAATTCAAGTTAAACATAATATATTTTCTTTCTAGAA
131 CTTATCAAATAAAATAAGACATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCTAGAA
* * * *
15236288 GATTTAGTATTTATTAGTATAATTTATTTTACATTTATTAGCATAATTTATTTGACCTATGAATT
196 GATTTAGTATCTATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACGAATT
15236353 TAATCTAT
261 TAATCTAT
15236361 AAATATGTGAGACCCATTATAATAAGAATATATATATGTAATATTTGTCTAGTTAATGTACTTAT
1 AAATATGTGAGACCCATTATAATAAG-A-ATATATA--TAATATTTGTCTAGTTAATGTACTTAT
** * *
15236426 TAGATTAAAAATATTTTTT-TTAAATTAATTTTAATTATAAATTAAT-AA-ATATGTGTTACCCA
62 TAGATTAAAAATATTTTTTAAAAAATTAATTTTAATGATAAATTAATAAACATATGTGTGACCCA
* *
15236488 AATTCTTATTAAATAAAATAAGAGATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCT
127 AATTCTTATCAAATAAAATAAGACATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCT
** *
15236553 AGAAGATTTAGTATCTATTAATATAATATATTTTGTATTTATTAGTATAATTTATTTGACCTACG
192 AGAAGATTTAGTATCTATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACG
*
15236618 AATTTAGTCTAT
257 AATTTAATCTAT
15236630 AAATA
1 AAATA
15236635 GACACTTTTA
Statistics
Matches: 247, Mismatches: 23, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
268 23 0.09
269 146 0.59
270 9 0.04
271 24 0.10
272 45 0.18
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (268 bp):
AAATATGTGAGACCCATTATAATAAGAATATATATAATATTTGTCTAGTTAATGTACTTATTAGA
TTAAAAATATTTTTTAAAAAATTAATTTTAATGATAAATTAATAAACATATGTGTGACCCAAATT
CTTATCAAATAAAATAAGACATTACTTGCAAGTCAAGTTAAACAAAATATATTTTCTTTCTAGAA
GATTTAGTATCTATTAATATAATATATTTTACATTTATTAGCATAATTTATTTGACCTACGAATT
TAATCTAT
Found at i:15243511 original size:2 final size:2
Alignment explanation
Indices: 15243504--15243530 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15243494 GCAAGAAGAA
15243504 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
15243531 ACCTAGGATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:15252795 original size:24 final size:24
Alignment explanation
Indices: 15252780--15252831 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
15252770 AATCAAAGTC
15252780 AAATATATTATGCTAATAAATGCT
1 AAATATATTATGCTAATAAATGCT
* * *
15252804 AAATATATTATACTCATAAATACT
1 AAATATATTATGCTAATAAATGCT
15252828 AAAT
1 AAAT
15252832 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATGCTAATAAATGCT
Found at i:15257988 original size:21 final size:22
Alignment explanation
Indices: 15257944--15257986 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
15257934 GTCCTAGGTA
*
15257944 TATATTATATTTTTTGAAAAAAT
1 TATATTATATTTTAT-AAAAAAT
15257967 TATATTATATTTTATAAAAA
1 TATATTATATTTTATAAAAA
15257987 TTTCGGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TATATTATATTTTATAAAAAAT
Found at i:15258586 original size:31 final size:30
Alignment explanation
Indices: 15258550--15258621 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
15258540 GATTAAATCA
*
15258550 AAATTAAAGTTTAAAGTATACATTTGAACC
1 AAATTAAAGTTTAAAGTATACAATTGAACC
* * * * *
15258580 ACAATTAGAGTTTCAGGTATATAATTGCACC
1 A-AATTAAAGTTTAAAGTATACAATTGAACC
15258611 AAATTAAAGTT
1 AAATTAAAGTT
15258622 CATTTATACA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
30 10 0.29
31 24 0.71
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTAAAGTATACAATTGAACC
Found at i:15258750 original size:21 final size:21
Alignment explanation
Indices: 15258720--15258774 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
15258710 TATTTTTCTA
15258720 AAAT-AAAATATTTTAATTAAT
1 AAATAAAAATATTTTAA-TAAT
*
15258741 -AATAAAAATAAATTTAATAAT
1 AAATAAAAAT-ATTTTAATAAT
15258762 AAATAAATAATAT
1 AAATAAA-AATAT
15258775 AATAAATTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 3 0.11
21 9 0.32
22 13 0.46
23 3 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATAAAAATATTTTAATAAT
Found at i:15258766 original size:22 final size:23
Alignment explanation
Indices: 15258731--15258773 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
15258721 AATAAAATAT
15258731 TTTAATTAATAATAAA-AATAAA
1 TTTAATTAATAATAAATAATAAA
15258753 TTTAA-TAATAAATAAATAATA
1 TTTAATTAAT-AATAAATAATA
15258774 TAATAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 11 0.58
23 4 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
TTTAATTAATAATAAATAATAAA
Found at i:15258767 original size:16 final size:16
Alignment explanation
Indices: 15258740--15258785 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 16
15258730 TTTTAATTAA
15258740 TAATAA-AAATAAATT
1 TAATAATAAATAAATT
15258755 TAATAATAAATAAA--
1 TAATAATAAATAAATT
15258769 TAAT-AT-AATAAATT
1 TAATAATAAATAAATT
15258783 TAA
1 TAA
15258786 ATATGTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 7 0.25
15 6 0.21
16 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAATAATAAATAAATT
Found at i:15262398 original size:18 final size:18
Alignment explanation
Indices: 15262377--15262437 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
15262367 ATTCATATGT
*
15262377 ATTTTATAGTATATATAC
1 ATTTTATAATATATATAC
* * *
15262395 ATTTCATAATATTTATAG
1 ATTTTATAATATATATAC
*
15262413 ATTTTCTATAATATACATAC
1 A-TTT-TATAATATATATAC
15262433 ATTTT
1 ATTTT
15262438 TATATCTTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 16 0.48
19 6 0.18
20 11 0.33
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTTTATAATATATATAC
Found at i:15262407 original size:28 final size:27
Alignment explanation
Indices: 15262358--15262412 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
15262348 CGTATACATT
* *
15262358 TATATATATATTCATATGTATTTTATAG
1 TATATATACATTCATATATA-TTTATAG
15262386 TATATATACATTTCATA-ATATTTATAG
1 TATATATACA-TTCATATATATTTATAG
15262413 ATTTTCTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.29
28 11 0.46
29 6 0.25
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.51
Consensus pattern (27 bp):
TATATATACATTCATATATATTTATAG
Found at i:15262417 original size:36 final size:38
Alignment explanation
Indices: 15262350--15262430 Score: 91
Period size: 40 Copynumber: 2.2 Consensus size: 38
15262340 AATGTATGCG
15262350 TATACATTTATATATATATTCATATGTATTTTATAGTATA
1 TATACATTTATATATATATTCATATGTATTTTATA-TA-A
*
15262390 TATACATTTCATA-ATAT-TT-ATA-G-ATTTTCTATAA
1 TATACATTT-ATATATATATTCATATGTATTTTATATAA
15262424 TATACAT
1 TATACAT
15262431 ACATTTTTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
34 8 0.21
35 2 0.05
36 7 0.18
37 1 0.03
38 3 0.08
39 2 0.05
40 13 0.33
41 3 0.08
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (38 bp):
TATACATTTATATATATATTCATATGTATTTTATATAA
Found at i:15262436 original size:20 final size:20
Alignment explanation
Indices: 15262381--15262441 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
15262371 ATATGTATTT
*
15262381 TATAGTATATATACA-TTTC
1 TATAATATATATACATTTTC
* *
15262400 -ATAATATTTATAGATTTTC
1 TATAATATATATACATTTTC
*
15262419 TATAATATACATACATTTT-
1 TATAATATATATACATTTTC
15262438 TATA
1 TATA
15262442 TCTTTTAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 11 0.32
19 8 0.24
20 15 0.44
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAATATATATACATTTTC
Found at i:15263449 original size:91 final size:89
Alignment explanation
Indices: 15263197--15264504 Score: 1120
Period size: 91 Copynumber: 14.5 Consensus size: 89
15263187 TTCAAAGTCA
* * * * * *
15263197 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-AAAGAAAGCAGATCTTGCCTTCATGT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCATGT
15263261 A-TCGGCGTGAAGTAGATCAAAG-T
66 ACT-GGCGTGAAGTAGATCAAAGAT
* * * * *
15263284 CAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-AAAGAAAGCAGATCTTGTCTTCAT
1 --ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCAT
* *
15263348 GTACTAGCGTGAAGTAGATCAAATAT
64 GTACTGGCGTGAAGTAGATCAAAGAT
* *
15263374 ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCAT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA--AAAAAGCAGATCTTGTCTTCAT
15263439 GTACTGGCGTGAAGTAGATCAAAGAT
64 GTACTGGCGTGAAGTAGATCAAAGAT
* * * * * **
15263465 ACAGATCTCGCCTTCCTATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTCCCC
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA--AAAAAGCAGATCTTGTCTTCAT
* * * * * *
15263530 ATACTGGTGGCGAAGCAGATCGAAGGAAAA
64 GTACTGG-CGTGAAGTAGATC-AA--AGAT
* *** * * * * * * * ***
15263560 AGTAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATC-AAAGATA-CAGATCTCGCCTTCCCA
1 A-CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCATG
* * * * *
15263622 TACTGGTGGCGAAGCAGATCGAAGGAAAA
65 TACTGG-CGTGAAGTAGATC-AA--AGAT
*** * ** * * * * * ***
15263651 AGCAGATCTTGTCTTCATGTACTGG-CGTAAAGTAGATC-AAAGATA-CAGATCTCGCCTTCCCA
1 A-CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCATG
* * * * *
15263713 TACTGGTGGCGAAGCAGATCGAAGGAAAAA
65 TACTGG-CGTGAAGTAGATC--A--AAGAT
*
15263743 ACAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCAT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA--AAAAAGCAGATCTTGTCTTCAT
15263808 GTACTGGCGTGAAGTAGATCAAAGAT
64 GTACTGGCGTGAAGTAGATCAAAGAT
* * *
15263834 ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCAT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA--AAAAAGCAGATCTTGTCTTCAT
15263899 GTACTGGCGTGAAGTAGATCAAAGAT
64 GTACTGGCGTGAAGTAGATCAAAGAT
* *
15263925 ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCAT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA--AAAAAGCAGATCTTGTCTTCAT
*
15263990 GTACTGGCGTGAAGTAGATCAAATAT
64 GTACTGGCGTGAAGTAGATCAAAGAT
* *
15264016 ACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGAAAGAAAAAGCAGATCTTGTCTTCAT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCG-AA-AAAAAGCAGATCTTGTCTTCAT
*
15264081 GTACTGGTGTGAAGTAGATCAAAGAT
64 GTACTGGCGTGAAGTAGATCAAAGAT
* * * * * *
15264107 AACAGATCTCGCCTTCCCATATTGGTGGCGAAGCAGATCGAAAGAAAGTAGATATTGTCTTCATG
1 -ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCATG
*
15264172 TA-TCAGCGTGAAGTAGATCAAAG-T
65 TACT-GGCGTGAAGTAGATCAAAGAT
* * * * * * * *
15264196 CAACAGATCTTATCTCCCCATACTGGTGGTGGAGTAGATC-AAAGAAAGTAGATCTTGCCTTCAT
1 --ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCAT
*
15264260 GTA-TCAGCGTGAAGTAGATCAAAG-T
64 GTACT-GGCGTGAAGTAGATCAAAGAT
* * * * * *
15264285 CAACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-AAAGAAAGCAAATCTTGTCTTCAT
1 --ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCAT
* *
15264349 GTATTGGCGTGAAGTAGATCAAAGAA
64 GTACTGGCGTGAAGTAGATCAAAGAT
* * * * * * *
15264375 ACAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGGTCGAAGAAAA-CAGATCGTGTCTTCATGT
1 ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCATGT
15264439 ACTGGCGTGAAGTAGATCAAAGAT
66 ACTGGCGTGAAGTAGATCAAAGAT
* * * * * * **
15264463 AGTAGGTCCTGTCTTCCTATATTGGTAGCGAAGTGGATCGAA
1 A-CAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAA
15264505 TATACATCTT
Statistics
Matches: 1085, Mismatches: 108, Indels: 52
0.87 0.09 0.04
Matches are distributed among these distances:
88 108 0.10
89 247 0.23
90 73 0.07
91 519 0.48
92 68 0.06
93 5 0.00
94 3 0.00
95 26 0.02
96 36 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.25
Consensus pattern (89 bp):
ACAGATCTTGTCTTCCCATACTGGTGGCGAAGCAGATCGAAAAAAAGCAGATCTTGTCTTCATGT
ACTGGCGTGAAGTAGATCAAAGAT
Found at i:15263596 original size:230 final size:230
Alignment explanation
Indices: 15263287--15263985 Score: 1269
Period size: 230 Copynumber: 3.1 Consensus size: 230
15263277 TCAAAGTCAA
* * * *
15263287 CAGATCTTGTCTCCCCATACTGGTGGTGGAGTAGATC-AA--AGAAAGCAGATCTTGTCTTCATG
1 CAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATG
* *
15263349 TACTAGCGTGAAGTAGATCAAATATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
66 TACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
15263414 AGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTT
131 AGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTT
*
15263479 CCTATACTGGTGGCGAAGCAGATCGAAGGAAAAAG
196 CCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAG
* *
15263514 TAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGTAGATCTTGTCTTCATG
1 CAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATG
15263579 TACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
66 TACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
*
15263644 AGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTAAAGTAGATCAAAGATACAGATCTCGCCTT
131 AGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTT
*
15263709 CCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAA
196 CCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAG
15263744 CAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATG
1 CAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATG
15263809 TACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
66 TACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
*
15263874 AGGAAAAAGTAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTT
131 AGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTT
15263939 CCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAG
196 CCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAG
15263974 CAGATCTTGTCT
1 CAGATCTTGTCT
15263986 TCATGTACTG
Statistics
Matches: 453, Mismatches: 16, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
227 33 0.07
228 2 0.00
230 418 0.92
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.24
Consensus pattern (230 bp):
CAGATCTTGTCTCCCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAGCAGATCTTGTCTTCATG
TACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTTCCCATACTGGTGGCGAAGCAGATCGA
AGGAAAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATACAGATCTCGCCTT
CCCATACTGGTGGCGAAGCAGATCGAAGGAAAAAG
Done.