Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 105 of 325
Found at i:33683742 original size:27 final size:27
Alignment explanation
Indices: 33683712--33683888 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
33683702 ATATTGAGCC
* * *
33683712 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
33683739 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * *
33683766 CGCACACTTAGTGCTACATAGT-AGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
33683793 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
33683820 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
33683847 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
33683874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33683889 GTACAATTTA
Statistics
Matches: 123, Mismatches: 23, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
26 1 0.01
27 120 0.98
28 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:33683794 original size:54 final size:55
Alignment explanation
Indices: 33683712--33683888 Score: 202
Period size: 54 Copynumber: 3.3 Consensus size: 55
33683702 ATATTGAGCC
* * *
33683712 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
33683766 CGCACACTTAGTGCTA-CATAGT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATAGTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
* ** * *
33683820 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
33683874 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
33683889 GTACAATTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 3 0.03
54 97 0.94
55 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATAGTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:33683850 original size:81 final size:81
Alignment explanation
Indices: 33683733--33683887 Score: 222
Period size: 81 Copynumber: 1.9 Consensus size: 81
33683723 TGCTATACAA
* * *
33683733 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTAGACTCGCAC
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
33683798 ACTTAGTGCCGCATGG
66 ACTTAGTGCCGCATGG
* * ** *
33683814 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
33683878 CACTTAGTGC
65 CACTTAGTGC
33683888 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
80 2 0.03
81 63 0.97
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:33687696 original size:42 final size:42
Alignment explanation
Indices: 33687531--33687747 Score: 170
Period size: 42 Copynumber: 5.1 Consensus size: 42
33687521 AAATAACAAA
* ** *
33687531 GCCATGTCCCCGACATGGTCTTACATG-GGTCTACATACCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCT-CATATCGAT
* * * *
33687573 GCCATATCCCAAATATGGTCTTAC--GAAGTCTCATGTTGATGCTGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCA---T-AT-C-GAT
* * * *
33687619 GCCATGTCCCAGACATGGTCTTATACGAGACCTCATATCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
* *
33687661 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCAAC
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
* * * * * *
33687703 GCCATATCCCATATATGGTTTTACATGAAATCACATACCGAT
1 GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
33687745 GCC
1 GCC
33687748 GATGCCATAT
Statistics
Matches: 139, Mismatches: 27, Indels: 18
0.76 0.15 0.10
Matches are distributed among these distances:
40 3 0.02
41 4 0.03
42 96 0.69
43 2 0.01
44 3 0.02
45 2 0.01
46 23 0.17
48 6 0.04
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (42 bp):
GCCATGTCCCAGACATGGTCTTACATGAAATCTCATATCGAT
Found at i:33687927 original size:48 final size:48
Alignment explanation
Indices: 33687657--33687927 Score: 252
Period size: 48 Copynumber: 5.8 Consensus size: 48
33687647 GACCTCATAT
**
33687657 CGATGCCATGTCCCAGACATGGTCTTACA-TGAAATCTCATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTCATATCAACGC
* * * ** * * * *
33687705 C-AT---A--TCCCATATATGGTTTTACA-TGAAATCACATACCGATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTG-GCTCTCATATCAACGC
* * * * * *
33687747 CGATGCCATATCCCAGATATGGTCTTACACTGGCACACTTATCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACGC
* *
33687795 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATATCAACGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACGC
* * * *
33687843 CGATGCCATGTCCTAGTCATGGTCTTACACTAGCTCTCATATCAACAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACGC
*
33687891 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT
33687928 TATAAATCAT
Statistics
Matches: 183, Mismatches: 33, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
42 32 0.17
43 2 0.01
44 1 0.01
46 1 0.01
47 2 0.01
48 143 0.78
49 2 0.01
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAACGC
Found at i:33694311 original size:47 final size:47
Alignment explanation
Indices: 33694259--33694617 Score: 529
Period size: 47 Copynumber: 7.6 Consensus size: 47
33694249 GATAATTGTG
* *
33694259 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33694306 ATGTGAAAGTGTACATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33694353 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
33694400 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
33694449 ATGTGAAAGTTTATATATATGTGATAAGGCCTAATAGCCGATGTGATGA
1 ATGTGAAAG--TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33694498 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * *
33694545 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
33694592 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
33694618 TCCCGAAGGG
Statistics
Matches: 282, Mismatches: 26, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
47 194 0.69
49 87 0.31
51 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:33694550 original size:192 final size:190
Alignment explanation
Indices: 33694268--33694617 Score: 601
Period size: 192 Copynumber: 1.8 Consensus size: 190
33694258 GATGTGAATG
*
33694268 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGG
1 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGG
* *
33694333 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
33694398 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTT
131 GAATGTGAAAGTGTATA-A-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTT
* *
33694460 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATGAGG
1 TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGG
* * *
33694525 CCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGAT
66 CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
*
33694590 GGATGTGAAAGTGTATAAATGTGATAAG
131 GAATGTGAAAGTGTATAAATGTGATAAG
33694618 TCCCGAAGGG
Statistics
Matches: 149, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
190 10 0.07
191 1 0.01
192 138 0.93
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (190 bp):
TATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTACATATGTGATAAGG
CCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAACGTGAT
GAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTT
Found at i:33700246 original size:39 final size:39
Alignment explanation
Indices: 33700199--33700281 Score: 141
Period size: 39 Copynumber: 2.2 Consensus size: 39
33700189 CCTTAATTCC
33700199 TCGA-GCCTTGAACGGATTTAGACATCGAACCATTGATA
1 TCGAGGCCTTGAACGGATTTAGACATCGAACCATTGATA
*
33700237 TCGAGGCCTTGAATGGATTTAGACATCGAACCATTGATA
1 TCGAGGCCTTGAACGGATTTAGACATCGAACCATTGATA
*
33700276 TTGAGG
1 TCGAGG
33700282 GATTAGGTAG
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
38 4 0.10
39 38 0.90
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (39 bp):
TCGAGGCCTTGAACGGATTTAGACATCGAACCATTGATA
Found at i:33700479 original size:6 final size:6
Alignment explanation
Indices: 33700468--33700516 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
33700458 CATTTTTTTG
33700468 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
33700516 A
1 A
33700517 TATGAGCTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:33708230 original size:17 final size:17
Alignment explanation
Indices: 33708204--33708239 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
33708194 TTTAGACCAA
*
33708204 AATCATATATACAATTC
1 AATCAAATATACAATTC
*
33708221 AATCAAATATACACTTC
1 AATCAAATATACAATTC
33708238 AA
1 AA
33708240 AATATGCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.19, G:0.00, T:0.31
Consensus pattern (17 bp):
AATCAAATATACAATTC
Found at i:33725429 original size:40 final size:40
Alignment explanation
Indices: 33725374--33725630 Score: 342
Period size: 40 Copynumber: 6.5 Consensus size: 40
33725364 CGGATGATAA
* * *
33725374 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
33725414 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
33725454 CCGGGCTAAGTCCCGAAGGAATTTGTGCCAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33725494 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
33725534 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
33725574 CCGGGCTATGTCCCGAAGGCA-TTGAACGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
33725613 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33725631 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 164 0.85
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:33729751 original size:15 final size:15
Alignment explanation
Indices: 33729731--33729760 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33729721 CAAGTTGTCA
33729731 AGTATCCAAATCTAT
1 AGTATCCAAATCTAT
33729746 AGTATCCAAATCTAT
1 AGTATCCAAATCTAT
33729761 TCTAAGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (15 bp):
AGTATCCAAATCTAT
Found at i:33730314 original size:21 final size:20
Alignment explanation
Indices: 33730286--33730324 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
33730276 CAAAACTTGT
33730286 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
33730306 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
33730325 CAAAACACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:33732641 original size:16 final size:16
Alignment explanation
Indices: 33732620--33732657 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
33732610 TTCTTTGTTG
33732620 TTTTTATATATCCATT
1 TTTTTATATATCCATT
33732636 TTTTTATATATCCATT
1 TTTTTATATATCCATT
33732652 TTTTTA
1 TTTTTA
33732658 AAAAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTATATATCCATT
Found at i:33744123 original size:21 final size:20
Alignment explanation
Indices: 33744086--33744127 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
33744076 TGTTCAAGGA
*
33744086 AAGCCGATTGATCCATCTAAG
1 AAGCCGATTCATCCATC-AAG
33744107 AAGCCAGATTCAT-CATCAAG
1 AAGCC-GATTCATCCATCAAG
33744127 A
1 A
33744128 CTGAAGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (20 bp):
AAGCCGATTCATCCATCAAG
Found at i:33751444 original size:131 final size:130
Alignment explanation
Indices: 33751306--33751630 Score: 329
Period size: 131 Copynumber: 2.5 Consensus size: 130
33751296 TGTTTGATCG
** *
33751306 TTTTGAGCAAACGAGAAATCAAAACCCAGTACGATAGGGCATGATTCTC-GAATTG-TCAAACAC
1 TTTTGAGCAAACGAGAAATCAAAACCCAACACGATAGGGCACGATTC-CGGAATTGCT-AAACAC
* * *
33751369 CGAATATTGCCTTTGTTTTAAATAATTTTTAGAAGATATGAATGAAATTTTGAAG-GGATACTT-
64 CGAATATTGCCTCTGTTTTAAA-AATTTTTAAAAGACATGAATGAAATTTTGAAGTGG-TA-TTC
33751432 GATTA
126 GATTA
* *** * * *
33751437 TTTTGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATTCCGTGAATTGCTAAATATC
1 TTTTGAGCAAACGAGAAATCAAAACCCAACACGATAGGGCACGATTCCG-GAATTGCTAAACACC
* * * *
33751502 GAATCTTGTCTCTGTTTTGAAAATTTTTAAAAGACATGAGTGAAATTTTGAAGTGGTATTCGATT
65 GAATATTGCCTCTGTTTTAAAAATTTTTAAAAGACATGAATGAAATTTTGAAGTGGTATTCGATT
33751567 A
130 A
* *** *
33751568 TTTTGAGCAAATGCA-AAATTGCAACCCAACAC-ATTAGGGCACGATTCCGCGAATTGCCAAACA
1 TTTTGAGCAAACG-AGAAATCAAAACCCAACACGA-TAGGGCACGATTCCG-GAATTGCTAAACA
33751631 TCAAATCTCG
Statistics
Matches: 164, Mismatches: 23, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
130 3 0.02
131 130 0.79
132 30 0.18
133 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (130 bp):
TTTTGAGCAAACGAGAAATCAAAACCCAACACGATAGGGCACGATTCCGGAATTGCTAAACACCG
AATATTGCCTCTGTTTTAAAAATTTTTAAAAGACATGAATGAAATTTTGAAGTGGTATTCGATTA
Found at i:33751638 original size:131 final size:131
Alignment explanation
Indices: 33751340--33751652 Score: 391
Period size: 131 Copynumber: 2.4 Consensus size: 131
33751330 CCCAGTACGA
* * * * * * * *
33751340 TAGGGCATGATT-CTCGAATTGTCAAACACCGAATATTGCCTTTGTTTTAAATAATTTTTAGAAG
1 TAGGGCACGATTCCGCGAATTGCCAAACATCGAATCTTGTC-TTGTTTTGAATAATTTTTAAAAG
* *
33751404 ATATGAATGAAATTTTGAAGGGATACTTGATTATTTTGAGCAAACGCGAAATTGCAACCCAACAC
65 ACATGAATGAAATTTTGAAGGGATACTTGATTATTTTGAGCAAACGCAAAATTGCAACCCAACAC
*
33751469 GT
130 AT
* * *
33751471 TAGGGCACGATTCCGTGAATTGCTAAATATCGAATCTTGTCTCTGTTTTGAA-AATTTTTAAAAG
1 TAGGGCACGATTCCGCGAATTGCCAAACATCGAATCTTGTCT-TGTTTTGAATAATTTTTAAAAG
* *
33751535 ACATGAGTGAAATTTTGAAGTGG-TA-TTCGATTATTTTGAGCAAATGCAAAATTGCAACCCAAC
65 ACATGAATGAAATTTTGAAG-GGATACTT-GATTATTTTGAGCAAACGCAAAATTGCAACCCAAC
33751598 ACAT
128 ACAT
* *
33751602 TAGGGCACGATTCCGCGAATTGCCAAACATCAAATCTCGTCTTCGTTTTGA
1 TAGGGCACGATTCCGCGAATTGCCAAACATCGAATCTTGTCTT-GTTTTGA
33751653 GGGATTTTTG
Statistics
Matches: 156, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
130 3 0.02
131 123 0.79
132 30 0.19
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (131 bp):
TAGGGCACGATTCCGCGAATTGCCAAACATCGAATCTTGTCTTGTTTTGAATAATTTTTAAAAGA
CATGAATGAAATTTTGAAGGGATACTTGATTATTTTGAGCAAACGCAAAATTGCAACCCAACACA
T
Found at i:33754089 original size:18 final size:17
Alignment explanation
Indices: 33754036--33754090 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
33754026 ATTTGTTGGT
33754036 TTTTATTATATTTATT-TA
1 TTTTATT-T-TTTATTATA
* *
33754054 -TTCATTTTTTATTTTA
1 TTTTATTTTTTATTATA
33754070 TTTTATTTTTTATATATA
1 TTTTATTTTTTAT-TATA
33754088 TTT
1 TTT
33754091 GGGTTTTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 6 0.19
16 3 0.10
17 16 0.52
18 6 0.19
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTATTTTTTATTATA
Found at i:33754460 original size:44 final size:44
Alignment explanation
Indices: 33754354--33755202 Score: 940
Period size: 44 Copynumber: 19.3 Consensus size: 44
33754344 ACTTCAGGAA
* *
33754354 GCCAAGATCTG-TCATCTTCGATTTGCTCTCTGTCAATCACAGAGAC
1 GCCAA-ATCTGCT-ATCTTCGATCTGCTCTCTGACAAT-ACAGAGAC
* *
33754400 GCCAAATCTG-TGATCTTCGATCTGCCCTCTGACAATACAGAGAT
1 GCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
33754444 GCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
33754488 GCCAAATCTGCTATCTTTGATCTACCCTCTGACAAT-CAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
33754531 GCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
33754575 GCCAAATCTACTATATTCGATCTGCTCTC-CACCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAGAC
* * * * * *
33754619 ACCAAATCTTCTATCTTCGATCTACTCTCTGTCAACACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* **
33754663 GCCAAATCTGCTATTTTCGATCTGCTCTCTTCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * * *
33754707 GTCAAATCTACTAGCTTCGATTTGCACTCT-ATCAATCACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAAT-ACAGAGAC
* *
33754752 GTCAAATCTG-TGATCTTCGATCTGCCCTCTGACAATACAGAGAC
1 GCCAAATCTGCT-ATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
33754796 GCCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
33754840 GCCAAATCTGCTATCTTCGATCTACCCTCTGACAAT-CAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * *
33754883 GCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
33754927 GCCAAATCTACTATATTTGATCTGCTCTC-CACCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGA-CAATACAGAGAC
* * * * * *
33754971 GCCAAATCTTCTATCTTCGATCTACTCTCAGTCAACACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
33755015 GCCAAATCTGCTATTTTCGATATACTCTCTGCCAATACAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
** * * * * *
33755059 TTCGAATCTGCTAGCTTCGATCTGCTCTCCGCCAATATAGAGAC
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* *
33755103 GCCAAATCTGCTATCTTCGATCTGCCCTCTGACAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
* * * *
33755147 TCCAAATCTGCTATCTTCGATCTACTCTCTGCCAATACAGAGAT
1 GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
33755191 GCCAAATCTGCT
1 GCCAAATCTGCT
33755203 GGATTGGCTA
Statistics
Matches: 680, Mismatches: 111, Indels: 26
0.83 0.14 0.03
Matches are distributed among these distances:
43 77 0.11
44 532 0.78
45 65 0.10
46 6 0.01
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (44 bp):
GCCAAATCTGCTATCTTCGATCTGCTCTCTGACAATACAGAGAC
Found at i:33755013 original size:352 final size:352
Alignment explanation
Indices: 33754369--33755202 Score: 1438
Period size: 352 Copynumber: 2.4 Consensus size: 352
33754359 GATCTGTCAT
33754369 CTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTGTGATCTTCGATCTGCCCTCTGACA
1 CTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTGTGATCTTCGATCTGCCCTCTGACA
*
33754434 ATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCTGC
66 ATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCTGC
*
33754499 TATCTTTGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCC
131 TATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCC
33754564 AATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACACCAAATCTT
196 AATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACACCAAATCTT
* * * *
33754629 CTATCTTCGATCTACTCTCTGTCAACACAGAGATGCCAAATCTGCTATTTTCGATCTGCTCTCTT
261 CTATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATTTTCGATATACTCTCTG
33754694 CCAATACAGAGACGTCAAATCTACTAG
326 CCAATACAGAGACGTCAAATCTACTAG
* * *
33754721 CTTCGATTTGCACTCTATCAATCACAGAGACGTCAAATCTGTGATCTTCGATCTGCCCTCTGACA
1 CTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTGTGATCTTCGATCTGCCCTCTGACA
* *
33754786 ATACAGAGACGCCAAATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAGACGCCAAATCTGC
66 ATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCTGC
33754851 TATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCC
131 TATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCC
* *
33754916 AATACAGAGACGCCAAATCTACTATATTTGATCTGCTCTCCACCAATACAGAGACGCCAAATCTT
196 AATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACACCAAATCTT
33754981 CTATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATTTTCGATATACTCTCTG
261 CTATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATTTTCGATATACTCTCTG
* * *
33755046 CCAATACAGAGACTTCGAATCTGCTAG
326 CCAATACAGAGACGTCAAATCTACTAG
* * * *
33755073 CTTCGATCTGCTCTCCGCCAAT-ATAGAGACGCCAAATCTGCT-ATCTTCGATCTGCCCTCTGAC
1 CTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTG-TGATCTTCGATCTGCCCTCTGAC
* * *
33755136 AATACAGAGATTCCAAATCTGCTATCTTCGATCTACTCTCTGCCAATACAGAGATGCCAAATCTG
65 AATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCTG
33755201 CT
130 CT
33755203 GGATTGGCTA
Statistics
Matches: 453, Mismatches: 28, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
351 99 0.22
352 354 0.78
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (352 bp):
CTTCGATTTGCTCTCTGTCAATCACAGAGACGCCAAATCTGTGATCTTCGATCTGCCCTCTGACA
ATACAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCCAATACAGAGACGCCAAATCTGC
TATCTTCGATCTACCCTCTGACAATCAGAGATGCCAAATCTGCTATCTTCGATCTACTCTCCGCC
AATACAGAGACGCCAAATCTACTATATTCGATCTGCTCTCCACCAATACAGAGACACCAAATCTT
CTATCTTCGATCTACTCTCAGTCAACACAGAGATGCCAAATCTGCTATTTTCGATATACTCTCTG
CCAATACAGAGACGTCAAATCTACTAG
Found at i:33765112 original size:40 final size:40
Alignment explanation
Indices: 33764960--33765105 Score: 156
Period size: 40 Copynumber: 3.6 Consensus size: 40
33764950 TTGAATGATG
* * * *
33764960 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
33765000 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
33765040 TCCGGGTTAAGTCCCGAATGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
33765081 -CCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGGGCTA-AGTCCCGAAGGCATTTG
33765106 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
39 1 0.01
40 77 0.87
41 11 0.12
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:33765112 original size:80 final size:80
Alignment explanation
Indices: 33764960--33765138 Score: 177
Period size: 80 Copynumber: 2.2 Consensus size: 80
33764950 TTGAATGATG
* * *
33764960 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
**
33765025 GTGCGAGTTA-CTAAA
66 GAACGAG-TAGCTAAA
* * * * * *
33765040 TCCGGGTTAAGTCCCGAATGCATTTGTGC-GAGTTACTATAACCGGGCT-ATATCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAACCGGACTAAGAT-CCGAAGGCAT
*
33765103 TTGAACGAGTAGCTATA
64 TTGAACGAGTAGCTAAA
* *
33765120 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
33765139 TACGTGATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
79 18 0.22
80 56 0.69
81 7 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATAACCGGACTAAGATCCGAAGGCATTT
GAACGAGTAGCTAAA
Found at i:33768295 original size:40 final size:39
Alignment explanation
Indices: 33768201--33768325 Score: 146
Period size: 40 Copynumber: 3.2 Consensus size: 39
33768191 GTTTGACCAT
*
33768201 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTACTAA
*
33768240 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTA-A
* ** *
33768281 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTAA
33768320 ATCCGG
1 ATCCGG
33768326 TTAAATTCTG
Statistics
Matches: 74, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
38 1 0.01
39 32 0.43
40 39 0.53
41 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAA
Found at i:33773139 original size:40 final size:39
Alignment explanation
Indices: 33773079--33773336 Score: 277
Period size: 40 Copynumber: 6.5 Consensus size: 39
33773069 CGGATGATAA
* * * *
33773079 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
33773119 CCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
* * *
33773159 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TT
*
33773199 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
*
33773239 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-T
* * * *
33773279 CCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTAT-T
* *
33773319 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33773337 TACTTGGCTT
Statistics
Matches: 193, Mismatches: 23, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
39 15 0.08
40 178 0.92
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATT
Found at i:33773292 original size:120 final size:120
Alignment explanation
Indices: 33773079--33773297 Score: 334
Period size: 120 Copynumber: 1.8 Consensus size: 120
33773069 CGGATGATAA
* * *
33773079 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGA
*
33773144 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
*
33773199 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* * *
33773262 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGG
64 GATGCGAGTTACTACATCCGGGCTAAGTCCCGAAGG
33773298 TATTCGAGCG
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
119 1 0.01
120 87 0.98
121 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGA
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
Found at i:33773321 original size:120 final size:120
Alignment explanation
Indices: 33773079--33773336 Score: 317
Period size: 120 Copynumber: 2.2 Consensus size: 120
33773069 CGGATGATAA
* * *
33773079 CCGGGCTAAGTCCCGGAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGA
* * * * *
33773144 TGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTACAT
*
33773199 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTA-TATCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
* * * * *
33773262 GGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGTATTCGAGCGAG-TAGCTATAT
64 GATGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTA-CTACAT
* *
33773319 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
33773337 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
119 17 0.14
120 101 0.85
121 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGA
TGCGAGTTACTACATCCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTTACTACAT
Found at i:33778522 original size:131 final size:131
Alignment explanation
Indices: 33778353--33778686 Score: 340
Period size: 131 Copynumber: 2.5 Consensus size: 131
33778343 TGTTTGATCG
** ** * *
33778353 TTTTGAGCAAACGAGAAATCACAACCCAGTACGA-TAGGGCATGATT-CTCGAATTG-TCAAACA
1 TTTTGAGCAAACGAGAAATTGCAACCCAACAC-ATTAGGGCACGATTCCGCGAATTGCT-AAACA
* * * *
33778415 CCAAATATTACCT-TC-GTTTTAAATAATTTTTAGAAGATATGAATGAAATTTTGAAG-GGATAC
64 CCAAAT-CT-CCTCTCTGTTTTAAAGAA-TTTTAAAAGACATGAATGAAATTTTGAAGTGG-TAC
33778477 TCGATTA
125 TCGATTA
* * *
33778484 TTTTGAGCAAACGTGAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCTAAATATC
1 TTTTGAGCAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCTAAACACC
* * * * *
33778549 GAATCTCGTCTCTGTTTTGAAGAATTTTAAAAGACATGAGTGAAATTTTGAAGTGGTATTCGATT
66 AAATCTCCTCTCTGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTTGAAGTGGTACTCGATT
33778614 A
131 A
* * * * *
33778615 TTTTGAACAAACGCA-AAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAACAT
1 TTTTGAGCAAACG-AGAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCTAAACAC
*
33778679 CGAATCTC
65 CAAATCTC
33778687 GTCTTCGTTT
Statistics
Matches: 172, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
130 3 0.02
131 141 0.82
132 27 0.16
133 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (131 bp):
TTTTGAGCAAACGAGAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCTAAACACC
AAATCTCCTCTCTGTTTTAAAGAATTTTAAAAGACATGAATGAAATTTTGAAGTGGTACTCGATT
A
Found at i:33778687 original size:131 final size:131
Alignment explanation
Indices: 33778426--33778707 Score: 397
Period size: 131 Copynumber: 2.1 Consensus size: 131
33778416 CAAATATTAC
* * * * *
33778426 CTTCGTTTTAAATAATTTTTAGAAGATATGAATGAAATTTTGAAGGGATACTCGATTATTTTGAG
1 CTTCGTTTTGAAGAA-TTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGATTATTTTGAA
** * * *
33778491 CAAACGTGAAATTGCAACCCAACACATTAGGGCACGATTCCGCGAATTGCTAAATATCGAATCTC
65 CAAACGCAAAATTGCAACCCAACACATTAGGGCACAATTCCGCGAATTGCCAAACATCGAATCTC
33778556 GT
130 GT
* *
33778558 C-TCTGTTTTGAAGAATTTTAAAAGACATGAGTGAAATTTTGAAGTGG-TATTCGATTATTTTGA
1 CTTC-GTTTTGAAGAATTTTAAAAGACATGAATGAAATTTTGAAG-GGATACTCGATTATTTTGA
*
33778621 ACAAACGCAAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGAATTGCCAAACATCGAATCT
64 ACAAACGCAAAATTGCAACCCAACACATTAGGGCACAATTCCGCGAATTGCCAAACATCGAATCT
33778686 CGT
129 CGT
*
33778689 CTTCGTTTTGAGGAATTTT
1 CTTCGTTTTGAAGAATTTT
33778708 TGAATGAATG
Statistics
Matches: 133, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
131 119 0.89
132 14 0.11
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (131 bp):
CTTCGTTTTGAAGAATTTTAAAAGACATGAATGAAATTTTGAAGGGATACTCGATTATTTTGAAC
AAACGCAAAATTGCAACCCAACACATTAGGGCACAATTCCGCGAATTGCCAAACATCGAATCTCG
T
Found at i:33791573 original size:28 final size:28
Alignment explanation
Indices: 33791542--33791598 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
33791532 TGTTGCTATT
33791542 TATTTGCATGTGAACTTACTAAGCTTTA
1 TATTTGCATGTGAACTTACTAAGCTTTA
*
33791570 TATTTTCATGTGAACTTACTAAGCTTTA
1 TATTTGCATGTGAACTTACTAAGCTTTA
33791598 T
1 T
33791599 GCTTACTCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.28, C:0.14, G:0.12, T:0.46
Consensus pattern (28 bp):
TATTTGCATGTGAACTTACTAAGCTTTA
Found at i:33795203 original size:43 final size:43
Alignment explanation
Indices: 33795139--33795468 Score: 459
Period size: 43 Copynumber: 7.7 Consensus size: 43
33795129 TTTGAATTCA
* * *
33795139 TTCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCAGATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTAT
* * *
33795181 TTCACCGGTATTATAGCCTGCTAGGCTCGAGGCCTGATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTAT
* * **
33795224 TTCATCGGCATTATAGCCTGCTAGGCTCGATTCCCA-ATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGA-GGCCAGATATTAT
* * *
33795267 TTCACCAGTATTATAGCCTGCTAGGCTCGAGGTCTGATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTAT
*
33795310 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTAT
33795353 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCTC-GATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGC-CAGATATTAT
*
33795396 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTAT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTAT
* * *
33795439 TTCATCGGTATTATAGCCTGCTAGGCTCGA
1 TTCACCAGCATTATAGCCTGCTAGGCTCGA
33795469 AGCCTGAATT
Statistics
Matches: 261, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
42 13 0.05
43 245 0.94
44 3 0.01
ACGTcount: A:0.22, C:0.25, G:0.21, T:0.31
Consensus pattern (43 bp):
TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTAT
Found at i:33795287 original size:129 final size:129
Alignment explanation
Indices: 33795139--33795475 Score: 505
Period size: 129 Copynumber: 2.6 Consensus size: 129
33795129 TTTGAATTCA
* * *
33795139 TTCACCGGCATT-TCGCCTGCTAGGCTCGAAGCCAGATATTATTTCACCGGTATTATAGCCTGCT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTATTTCACCGGTATTATAGCCTGCT
* * **
33795203 AGGCTCGAGGCCTGATATTATTTCATCGGCATTATAGCCTGCTAGGCTCGATTCCCAATATTAT
66 AGGCTCGAGGCCTGATATTATTTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCCAATATTAT
* * * * *
33795267 TTCACCAGTATTATAGCCTGCTAGGCTCGAGGTCTGATATTATTTCACCAGCATTATAGCCTGCT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTATTTCACCGGTATTATAGCCTGCT
* * *
33795332 AGGCTCGAGGCCCGATATTATTTCACCAGCATTATAGCCTGCTAGGCTCGAGGCTCGATATTAT
66 AGGCTCGAGGCCTGATATTATTTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCCAATATTAT
* *
33795396 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCCGATATTATTTCATCGGTATTATAGCCTGCT
1 TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTATTTCACCGGTATTATAGCCTGCT
*
33795461 AGGCTCGAAGCCTGA
66 AGGCTCGAGGCCTGA
33795476 ATTCATCATA
Statistics
Matches: 185, Mismatches: 23, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
128 10 0.05
129 175 0.95
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.31
Consensus pattern (129 bp):
TTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCAGATATTATTTCACCGGTATTATAGCCTGCT
AGGCTCGAGGCCTGATATTATTTCACCAGCATTATAGCCTGCTAGGCTCGAGGCCCAATATTAT
Found at i:33800635 original size:43 final size:42
Alignment explanation
Indices: 33800559--33800678 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
33800549 TCATACCAAT
* * * ** *
33800559 GCCATATCCAAGATATGGTCTTACATGGGATCTCATATTGAC
1 GCCATAGCCCAGATATGGTCTTACACGAAATCTCATATCGAC
* * * * *
33800601 GCCAATAGGCCAGCTGTGGTCTTTCACGAAATCTCATATCGAT
1 GCC-ATAGCCCAGATATGGTCTTACACGAAATCTCATATCGAC
*
33800644 GCCATATCCCAGATATGGTCTTACACGAAATCTCA
1 GCCATAGCCCAGATATGGTCTTACACGAAATCTCA
33800679 ACTAACCCTA
Statistics
Matches: 61, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
42 30 0.49
43 31 0.51
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
GCCATAGCCCAGATATGGTCTTACACGAAATCTCATATCGAC
Found at i:33800671 original size:42 final size:42
Alignment explanation
Indices: 33800557--33800678 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
33800547 AATCATACCA
* * ** *
33800557 ATGCCATATCCAAGATATGGTCTTACATGGGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* ** * * *
33800599 ACGCCAATAGGCCAGCTGTGGTCTTTCACGAAATCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCG
33800642 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCA
33800679 ACTAACCCTA
Statistics
Matches: 62, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
42 31 0.50
43 31 0.50
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:33810977 original size:42 final size:42
Alignment explanation
Indices: 33810870--33810991 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 42
33810860 AATCATACCA
* *
33810870 ATGCCATATCCCAGATATGGTCTTACGTAG-GATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTAC-AAGAAATCTCATATCG
*
33810912 ATGCCAATATCCCA-ACTGTGGTCTTACAAGAAATCTCATATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTACAAGAAATCTCATATCG
33810955 ATGCCATATCCCAGATATGGTCTTACACA-AAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACA-AGAAATCTCA
33810992 ACTAACCCTA
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 35 0.49
43 36 0.51
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACAAGAAATCTCATATCG
Found at i:33814917 original size:46 final size:45
Alignment explanation
Indices: 33814850--33815024 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 45
33814840 TGTAACCCGC
* *
33814850 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
* * * *
33814896 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--GCTTCGCAT
* * * * *
33814942 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGC-TTCGCAT
33814989 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
33815025 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
45 3 0.03
46 65 0.63
47 32 0.31
48 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCTTCGCAT
Found at i:33815016 original size:93 final size:93
Alignment explanation
Indices: 33814857--33815029 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
33814847 CGCCCATAAG
* * * *
33814857 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33814922 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
33814950 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
33815015 ACGAGTTCGGATGCC
66 ACGAGTTCGGATGCC
33815030 CAAATATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:33815044 original size:46 final size:46
Alignment explanation
Indices: 33814902--33815044 Score: 111
Period size: 46 Copynumber: 3.1 Consensus size: 46
33814892 GCATCCATAG
* *
33814902 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-TTC-A
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATATCCTA
* * * *
33814950 -CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGC----ATCCATAA
1 GTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCCCAAATATCC-T-A
33814995 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTA
1 GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTA
33815041 GTGA
1 GTGA
33815045 CATGCCAATT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
42 2 0.03
44 4 0.05
45 2 0.03
46 31 0.42
47 27 0.36
48 5 0.07
49 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
GTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCTA
Found at i:33819762 original size:294 final size:291
Alignment explanation
Indices: 33819230--33819794 Score: 855
Period size: 294 Copynumber: 1.9 Consensus size: 291
33819220 ATTAGTTCCA
*
33819230 CTAAAATAATCACACACAAAGTAGAAAAATTACCCCAAAAAATGTATTTCAAATGAGAAAGTACC
1 CTAAAATAATCACACACAAAGTAGAAAAATCACCCCAAAAAATGTATTTCAAATGAGAAAGTACC
* * **
33819295 TTAACTTCAAGATTGGGTGGTTCTTCGATTAACAACTTGGGTTGTGTGTATTCTTGAGCTTCCAA
66 TTAACTTCAAGATTGGGCGGTTCCTCGATTAACAACTTGGGTTGTGTGTATTCCCGAGCTTCCAA
* * * * *
33819360 CTCTAATAGTTCAAATCGTGCTAGTTGAACATAGTCCCTCATATTGTCTTTCACCAAAGCCATAT
131 CTCAAATAGTTCAAATCGTGCTAGTTGAACATAATCCATCAAATTGGCTTTCACCAAAGCCATAT
* *
33819425 TTTCCTTACCTTGTTCATCTTCTAATGGCTCAGACCTTAAGGTGTTTTCCAATGGGTCGTCTACA
196 TTTCCTTACCTTGTTCATATTCTAATGGCTCAGACCATAAGGTGTTTTCCAATGGGTCGTCTACA
33819490 GAATTACACTCTTGGCATTCTGTTAGTTTTT
261 GAATTACACTCTTGGCATTCTGTTAGTTTTT
* *
33819521 CTAAAATAATCACA-AGCAAAGTAGAACAATCA-CCTAAATAAATGTATTTCAAATGAGAGGGAA
1 CTAAAATAATCACACA-CAAAGTAGAAAAATCACCCCAAA-AAATGTATTTCAAATGAGA---AA
* * *
33819584 GTACCTTAAGTTCAAGATTGGGCGGTTCCTCGATTGATAACTTGGGTTGTGTGTATTCCCGAGCT
61 GTACCTTAACTTCAAGATTGGGCGGTTCCTCGATTAACAACTTGGGTTGTGTGTATTCCCGAGCT
* * ** *
33819649 TCCAACTCAAATGGTTCAAATCGTGCTGGTTGAACATAATCCATCAAATTGGCTTTCGTCAAAGT
126 TCCAACTCAAATAGTTCAAATCGTGCTAGTTGAACATAATCCATCAAATTGGCTTTCACCAAAGC
* *
33819714 CATATTTTCCTTACCTTGTTCATATTCTAATTGCTCAGACCATAAGGTGTTTTCCAATGGGTCTT
191 CATATTTTCCTTACCTTGTTCATATTCTAATGGCTCAGACCATAAGGTGTTTTCCAATGGGTCGT
33819779 CTACAGAATTACACTC
256 CTACAGAATTACACTC
33819795 ACATTTCATA
Statistics
Matches: 245, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
290 6 0.02
291 47 0.19
294 192 0.78
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.34
Consensus pattern (291 bp):
CTAAAATAATCACACACAAAGTAGAAAAATCACCCCAAAAAATGTATTTCAAATGAGAAAGTACC
TTAACTTCAAGATTGGGCGGTTCCTCGATTAACAACTTGGGTTGTGTGTATTCCCGAGCTTCCAA
CTCAAATAGTTCAAATCGTGCTAGTTGAACATAATCCATCAAATTGGCTTTCACCAAAGCCATAT
TTTCCTTACCTTGTTCATATTCTAATGGCTCAGACCATAAGGTGTTTTCCAATGGGTCGTCTACA
GAATTACACTCTTGGCATTCTGTTAGTTTTT
Found at i:33822115 original size:29 final size:31
Alignment explanation
Indices: 33822066--33822124 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
33822056 AATGTGTATC
* *
33822066 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
33822095 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
33822125 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:33829515 original size:31 final size:31
Alignment explanation
Indices: 33829479--33829621 Score: 144
Period size: 31 Copynumber: 4.6 Consensus size: 31
33829469 TATCAAAACT
* * *
33829479 AGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
* *
33829510 AGAATCAGAATC-GTAATCTGTATTAGGTAAC
1 AGAATCAAAATCAG-AATCAGTATTAGGTAAC
* * *
33829541 AGAATTAAAATTAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
* * * *
33829572 AGAATCAAAATCAGAACCAGTATCAAGCAAC
1 AGAATCAAAATCAGAATCAGTATTAGGTAAC
*
33829603 AGAATCAAAAATCAAAATC
1 AGAATC-AAAATCAGAATC
33829622 TGAAAGCAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
30 1 0.01
31 82 0.87
32 11 0.12
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.21
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGTATTAGGTAAC
Found at i:33830040 original size:27 final size:27
Alignment explanation
Indices: 33829991--33830062 Score: 117
Period size: 27 Copynumber: 2.6 Consensus size: 27
33829981 CTTGCCCACA
* *
33829991 AGGGAAAAATAGTCAATTTTGTAAATCG
1 AGGGTAAAATGGT-AATTTTGTAAATCG
33830019 AGGGTAAAATGGTAATTTTGTAAATCG
1 AGGGTAAAATGGTAATTTTGTAAATCG
33830046 AGGGTAAAATGGTAATT
1 AGGGTAAAATGGTAATT
33830063 CTATCTTACA
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
27 31 0.74
28 11 0.26
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (27 bp):
AGGGTAAAATGGTAATTTTGTAAATCG
Found at i:33830106 original size:27 final size:27
Alignment explanation
Indices: 33830076--33830225 Score: 171
Period size: 27 Copynumber: 5.6 Consensus size: 27
33830066 TCTTACAGAA
33830076 GTATTTCAGTAATTTTACAAATCGAGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* *
33830103 GTATTTTAGTAATTTTGCAAA-CTGAGG
1 GTATTTCAGTAATTTTACAAATC-GAGG
*
33830130 GTATTTC-GATAATTTTACAAATCAAGG
1 GTATTTCAG-TAATTTTACAAATCGAGG
* * *
33830157 ATATTTCAGTAATTTTATAAATCGGGG
1 GTATTTCAGTAATTTTACAAATCGAGG
* **
33830184 GTACTTT-GGTAATTTTACAAGCCGAGG
1 GTA-TTTCAGTAATTTTACAAATCGAGG
33830211 GTATTTCAGTAATTT
1 GTATTTCAGTAATTT
33830226 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
26 5 0.05
27 91 0.90
28 5 0.05
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
GTATTTCAGTAATTTTACAAATCGAGG
Found at i:33830224 original size:81 final size:81
Alignment explanation
Indices: 33830077--33830225 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
33830067 CTTACAGAAG
* * *
33830077 TATTTCAGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTGCAAACTGAGGGTATTTCGATAA
1 TATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACCGAGGGTATTTCGATAA
33830142 TTTTACAAATCAAGGA
66 TTTTACAAATCAAGGA
* * * *
33830158 TATTTCAGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGCCGAGGGTATTTC-AGTA
1 TATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACCGAGGGTATTTCGA-TA
33830222 ATTT
65 ATTT
33830226 GGTAAACTAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
80 1 0.02
81 59 0.98
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.40
Consensus pattern (81 bp):
TATTTCAGTAATTTTACAAATCGAGGGTACTTTAGTAATTTTACAAACCGAGGGTATTTCGATAA
TTTTACAAATCAAGGA
Found at i:33832209 original size:6 final size:6
Alignment explanation
Indices: 33832190--33832246 Score: 60
Period size: 6 Copynumber: 9.3 Consensus size: 6
33832180 TGTCAGAACT
* * * * *
33832190 AGAATC AAAATC AGAATC AGTATC AGATAAC AGAATC AGAATT AGAATT
1 AGAATC AGAATC AGAATC AGAATC AGA-ATC AGAATC AGAATC AGAATC
33832239 AGAATC AG
1 AGAATC AG
33832247 GTAACAGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
6 37 0.88
7 5 0.12
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:33832225 original size:31 final size:31
Alignment explanation
Indices: 33832190--33832269 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
33832180 TGTCAGAACT
*
33832190 AGAATCAAAATCAGAATCAGTATCAGATAAC
1 AGAATCAAAATCAGAATCAGAATCAGATAAC
* * * *
33832221 AGAATCAGAATTAGAATTAGAATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGATAAC
*
33832252 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
33832270 GTGAATGCAA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 31 0.77
32 9 0.22
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGATAAC
Found at i:33832724 original size:27 final size:27
Alignment explanation
Indices: 33832676--33833060 Score: 439
Period size: 27 Copynumber: 14.3 Consensus size: 27
33832666 GGGGAAAAAT
* ** * *
33832676 GGTAATTTTACCCCCCAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33832703 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
** * *
33832730 AATAATTCTACCCTTCAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33832757 GATAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33832784 AGTAATTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33832811 GGTAATTCTACCTTATAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
33832838 AGTAATTGTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33832865 GATAATTCTACCTTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33832892 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33832919 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
33832946 GGTAATTCTACCCTACATGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
33832972 TGGTATTTCTACCCTACAAGTGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
* *
33833000 AGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
33833027 GGTAATTCTATCCTATAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
33833054 GGTAATT
1 GGTAATT
33833061 TCACAAATCA
Statistics
Matches: 308, Mismatches: 48, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
26 3 0.01
27 302 0.98
28 3 0.01
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:33833075 original size:27 final size:27
Alignment explanation
Indices: 33833045--33833177 Score: 124
Period size: 27 Copynumber: 4.9 Consensus size: 27
33833035 TATCCTATAA
* *
33833045 GGGTATTTTGGTAATTTCACAAATCAG
1 GGGTATTTTGGTAATTTTATAAATCAG
**
33833072 GGGTATTTTGGTAATTTTATTGATC-G
1 GGGTATTTTGGTAATTTTATAAATCAG
* * *
33833098 AGGGTATTTTGGTAATTTTGTAAACCAA
1 -GGGTATTTTGGTAATTTTATAAATCAG
* * *
33833126 GGGTATTTTAGTAATTTTGTAAATCAA
1 GGGTATTTTGGTAATTTTATAAATCAG
*** *
33833153 GGGTAAAATGGTAATTCTATAAATC
1 GGGTATTTTGGTAATTTTATAAATC
33833178 GAGAGTAAAA
Statistics
Matches: 87, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 86 0.99
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAATCAG
Found at i:33833156 original size:54 final size:54
Alignment explanation
Indices: 33833043--33833157 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
33833033 TCTATCCTAT
* * * **
33833043 AAGGGTATTTTGGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTATTGATC
1 AAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAATC
* *** *
33833097 GAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATC
1 AAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAATC
33833151 AAGGGTA
1 AAGGGTA
33833158 AAATGGTAAT
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (54 bp):
AAGGGTATTTTGGTAATTTCACAAACCAAGGGTATTTTAGTAATTTTATAAATC
Found at i:33833185 original size:27 final size:27
Alignment explanation
Indices: 33833136--33833199 Score: 92
Period size: 27 Copynumber: 2.4 Consensus size: 27
33833126 GGGTATTTTA
* * *
33833136 GTAATTTTGTAAATCAAGGGTAAAATG
1 GTAATTCTATAAATCAAGAGTAAAATG
*
33833163 GTAATTCTATAAATCGAGAGTAAAATG
1 GTAATTCTATAAATCAAGAGTAAAATG
33833190 GTAATTCTAT
1 GTAATTCTAT
33833200 CTTACAGAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTATAAATCAAGAGTAAAATG
Found at i:33833240 original size:27 final size:27
Alignment explanation
Indices: 33833210--33833331 Score: 147
Period size: 27 Copynumber: 4.5 Consensus size: 27
33833200 CTTACAGAAA
* *
33833210 TATTTCAGTAATTTTGCAAATTGAGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* * *
33833237 TATTTCGGTAATTTTACAAATTGAGGA
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
33833264 TATTTCAGTAATTTTATAAATCGGGGG
1 TATTTCAGTAATTTTACAAATCGAGGG
* *
33833291 TACTTT-GGTAATTTTACAAGTCGAGGG
1 TA-TTTCAGTAATTTTACAAATCGAGGG
33833318 TATTTCAGTAATTT
1 TATTTCAGTAATTT
33833332 GGTAAACTAA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 3 0.04
27 74 0.93
28 3 0.04
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (27 bp):
TATTTCAGTAATTTTACAAATCGAGGG
Found at i:33833267 original size:54 final size:54
Alignment explanation
Indices: 33833209--33833331 Score: 167
Period size: 54 Copynumber: 2.3 Consensus size: 54
33833199 TCTTACAGAA
* * *
33833209 ATATTTCAGTAATTTTGCAAATTGAGGGTA-TTTCGGTAATTTTACAAATTGAGG
1 ATATTTCAGTAATTTTACAAATCGAGGGTACTTT-GGTAATTTTACAAATCGAGG
* * *
33833263 ATATTTCAGTAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAAGTCGAGG
1 ATATTTCAGTAATTTTACAAATCGAGGGTACTTTGGTAATTTTACAAATCGAGG
*
33833317 GTATTTCAGTAATTT
1 ATATTTCAGTAATTT
33833332 GGTAAACTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 58 0.95
55 3 0.05
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
ATATTTCAGTAATTTTACAAATCGAGGGTACTTTGGTAATTTTACAAATCGAGG
Found at i:33838504 original size:11 final size:11
Alignment explanation
Indices: 33838490--33838515 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
33838480 CCATCAAGCA
33838490 TAACATAAGTG
1 TAACATAAGTG
33838501 TAACATAAGTG
1 TAACATAAGTG
33838512 TAAC
1 TAAC
33838516 TCAATTCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (11 bp):
TAACATAAGTG
Found at i:33854883 original size:39 final size:39
Alignment explanation
Indices: 33854840--33854987 Score: 158
Period size: 39 Copynumber: 3.8 Consensus size: 39
33854830 ACCAGCTCGA
* * *
33854840 AGCCTGCGAGACTTTAGCCCGGACGTAATTCCAGCATAT
1 AGCCTGCGAGACTTAAGTCCGGACATAATTCCAGCATAT
* * * *
33854879 AGCCTAC-AGGCCTTAAGTCCGAACATAATTCCAACATAT
1 AGCCTGCGA-GACTTAAGTCCGGACATAATTCCAGCATAT
*
33854918 AGCCTGCG-GACCTTAAGTCCGGACATAATCCCAGCATAT
1 AGCCTGCGAGA-CTTAAGTCCGGACATAATTCCAGCATAT
* *
33854957 AGCCTGCG-GACCTTAAGTCTGGATATAATTC
1 AGCCTGCGAGA-CTTAAGTCCGGACATAATTC
33854988 ATCACTGAGT
Statistics
Matches: 91, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
38 2 0.02
39 89 0.98
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
AGCCTGCGAGACTTAAGTCCGGACATAATTCCAGCATAT
Found at i:33856876 original size:29 final size:27
Alignment explanation
Indices: 33856858--33856927 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
33856848 ATATTAAGTC
33856858 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
33856885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
33856913 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
33856928 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:33856921 original size:28 final size:28
Alignment explanation
Indices: 33856858--33856955 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
33856848 ATATTAAGTC
*
33856858 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
33856885 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
33856913 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
33856942 CGCACACTTAGTGC
1 CGCACACTTAGTGC
33856956 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:33893458 original size:40 final size:40
Alignment explanation
Indices: 33893403--33893544 Score: 241
Period size: 40 Copynumber: 3.6 Consensus size: 40
33893393 GATGATAACC
33893403 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
*
33893443 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACGATTTCCG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
* **
33893483 GGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-TAACG
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
33893522 GGCTAAGTCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGT
33893545 ACACCCCGAA
Statistics
Matches: 96, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 25 0.26
40 71 0.74
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCCG
Found at i:33894958 original size:40 final size:40
Alignment explanation
Indices: 33894911--33895257 Score: 547
Period size: 40 Copynumber: 8.7 Consensus size: 40
33894901 GCAAACACCT
* * *
33894911 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33894951 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
33894991 TTG-CTTCGGGTCAT-GCCCGGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCC-GGATATATCAACTCGCATAA
*
33895030 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
33895070 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33895110 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33895150 TTGCCTTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCC-TTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33895191 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33895231 TTGCCTTC-GGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
33895258 TCCAATGCTC
Statistics
Matches: 282, Mismatches: 21, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
38 4 0.01
39 49 0.17
40 186 0.66
41 43 0.15
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:33895209 original size:81 final size:80
Alignment explanation
Indices: 33894911--33895258 Score: 558
Period size: 79 Copynumber: 4.4 Consensus size: 80
33894901 GCAAACACCT
* * *
33894911 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
*
33894976 TATCATCTCGCATAA
66 TATCAACTCGCATAA
* * *
33894991 TTG-CTTCGGGTCAT-GCCCGGGACATATCAACTTGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 TTGCCTTCGGGTCTTAGCCC-GGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
*
33895054 ATATCATCTCGCATAA
65 ATATCAACTCGCATAA
*
33895070 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
1 TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
33895135 TATCAACTCGCATAA
66 TATCAACTCGCATAA
*
33895150 TTGCCTTTCGGGTCTTAGCCCGGATATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
1 TTGCC-TTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGAT
33895215 ATATCAACTCGCATAA
65 ATATCAACTCGCATAA
*
33895231 TTGCCTTC-GGTCTTAGCCCGGATATATT
1 TTGCCTTCGGGTCTTAGCCCGGACATATT
33895259 CCAATGCTCA
Statistics
Matches: 257, Mismatches: 7, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
78 3 0.01
79 93 0.36
80 79 0.31
81 82 0.32
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (80 bp):
TTGCCTTCGGGTCTTAGCCCGGACATATTAACTCGCATAATTGCCTTCGGGTCTTAGCCCGGATA
TATCAACTCGCATAA
Found at i:33903859 original size:40 final size:40
Alignment explanation
Indices: 33903811--33904158 Score: 588
Period size: 40 Copynumber: 8.7 Consensus size: 40
33903801 GCAAACACCT
* * *
33903811 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33903851 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
33903891 TTGCCTTCGGGTCATAGCCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33903931 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
33903971 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33904011 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
33904051 TTGCCTTCGGGTCTTAGCCCGGATATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33904091 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
33904131 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
33904159 TCCAATGCTC
Statistics
Matches: 287, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 287 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:33911912 original size:44 final size:42
Alignment explanation
Indices: 33911833--33912002 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 42
33911823 ATGTGATATG
** * * * * *
33911833 TGATTTCGTGTAAGACCACCTCTAGGACGTTGGCATTGATTTT
1 TGATTTCGTGTAAGACCATGTCTGGGACATCGGCATCG-TATT
* *
33911876 TGTTTTATGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 TGATTT-CGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
* *
33911919 TGATTTCGTGTAAGACCCTGTCTGGGACAGT-GGCATCGATGTT
1 TGATTTCGTGTAAGACCATGTCTGGGACA-TCGGCATCG-TATT
* * * *
33911962 TGATTACATGTAAGAACGCA--TCTGGGACATTGGCATTGTAT
1 TGATTTCGTGTAAG-AC-CATGTCTGGGACATCGGCATCGTAT
33912003 ATGTTCTCTG
Statistics
Matches: 103, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
42 31 0.30
43 44 0.43
44 27 0.26
45 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
Found at i:33918033 original size:40 final size:39
Alignment explanation
Indices: 33917961--33918043 Score: 94
Period size: 40 Copynumber: 2.1 Consensus size: 39
33917951 TTAATATATA
**
33917961 TAGCCGAAGCTATCTCAAATTGCACACCAAGTGCCACTTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-TTT
* * * * *
33918001 TAGCCGAAGCTATTTCGAACCGCATACTAAGTGTCATTT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
33918040 TAGC
1 TAGC
33918044 TGATAAGTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 7 0.19
40 29 0.81
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCATTT
Found at i:33927995 original size:19 final size:19
Alignment explanation
Indices: 33927968--33928060 Score: 68
Period size: 19 Copynumber: 5.1 Consensus size: 19
33927958 TTATTCTAGC
*
33927968 AACTAAATTAACTAAGATG
1 AACTTAATTAACTAAGATG
*
33927987 AACTTAATTAACGAAGATG
1 AACTTAATTAACTAAGATG
* * * *
33928006 -A-TTAATTTATTCCAG--C
1 AACTTAATTAACT-AAGATG
*
33928022 AACTTAATTAACTAAGATA
1 AACTTAATTAACTAAGATG
* *
33928041 AACTCAAATAACTAAGATG
1 AACTTAATTAACTAAGATG
33928060 A
1 A
33928061 GTAATTTATT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
17 10 0.18
18 11 0.20
19 34 0.62
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (19 bp):
AACTTAATTAACTAAGATG
Found at i:33928023 original size:54 final size:54
Alignment explanation
Indices: 33927958--33928086 Score: 195
Period size: 54 Copynumber: 2.4 Consensus size: 54
33927948 CAACAATAAA
* * * * * *
33927958 TTATTCTAGCAACTAAATTAACTAAGATGAACTTAATTAACGAAGATGATTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
*
33928012 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACTAAGATGAGTAAT
1 TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
33928066 TTATTCCAGCAACTTAATTAA
1 TTATTCCAGCAACTTAATTAA
33928087 TTAAACTAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (54 bp):
TTATTCCAGCAACTTAATTAACTAAGATAAACTCAAATAACGAAGATGAGTAAT
Found at i:33930313 original size:18 final size:18
Alignment explanation
Indices: 33930290--33930327 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
33930280 TGGCCCTTTG
33930290 CAATAACAGTAAACAATA
1 CAATAACAGTAAACAATA
*
33930308 CAATAACAGTAAACAGTA
1 CAATAACAGTAAACAATA
33930326 CA
1 CA
33930328 GAAACTATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.16
Consensus pattern (18 bp):
CAATAACAGTAAACAATA
Found at i:33930842 original size:37 final size:37
Alignment explanation
Indices: 33930781--33930859 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
33930771 TTATTACGAA
* * *
33930781 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
33930818 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
33930855 GTCTT
1 GTCTT
33930860 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:33931137 original size:47 final size:47
Alignment explanation
Indices: 33930977--33931436 Score: 821
Period size: 47 Copynumber: 9.7 Consensus size: 47
33930967 GCCCTTCGGG
*
33930977 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
33931027 ACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
33931076 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
33931123 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
33931170 ACTTTCACATTCATCACATAGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
* *
33931217 ACTTTCACATTCATCACATCAGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
33931264 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
33931311 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
33931358 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
33931405 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
33931437 ATACTATCAT
Statistics
Matches: 401, Mismatches: 9, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
47 314 0.78
49 83 0.21
50 4 0.01
ACGTcount: A:0.31, C:0.30, G:0.08, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:33931376 original size:25 final size:25
Alignment explanation
Indices: 33931204--33931282 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
33931194 ATTAGGCCTT
33931204 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
* ** ***
33931229 ATCACAT-CAGCCA-TTAGGCATT-
1 ATCACATATATACACTTTCACATTC
33931251 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
33931276 ATCACAT
1 ATCACAT
33931283 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 9 0.23
25 14 0.36
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:33935078 original size:39 final size:39
Alignment explanation
Indices: 33934968--33935198 Score: 205
Period size: 40 Copynumber: 5.8 Consensus size: 39
33934958 GTACTACCGG
* ** *
33934968 CACGAAGCCTGCTAGGTGCTAAGCCTAAATAACACGCCA
1 CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* * * *
33935007 GCACAAAGCCTGCTAGGCACTAAGTCTGAATAACACACCA
1 -CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* *
33935047 CCACGAAGTCC-AC-AGGCACTAAGCCCAAATAACACATCGA
1 -CACGAAG-CCTACTAGGCACTAAGCCTAAATAACACA-CCA
* * * *
33935087 CATGAAGCCTACTTGGCACTAAGCCGAAATAACACACTA
1 CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* * * *
33935126 GTACGAAGCCTGCTAGGCACTATGCCTGAATAACACACCA
1 -CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
* * *
33935166 GCATGAAGCCTATTAGGCACTAAGCCTGAATAA
1 -CACGAAGCCTACTAGGCACTAAGCCTAAATAA
33935199 TTATAAGGTA
Statistics
Matches: 156, Mismatches: 30, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 122 0.78
41 2 0.01
ACGTcount: A:0.36, C:0.29, G:0.18, T:0.16
Consensus pattern (39 bp):
CACGAAGCCTACTAGGCACTAAGCCTAAATAACACACCA
Found at i:33937202 original size:46 final size:45
Alignment explanation
Indices: 33937065--33937231 Score: 133
Period size: 46 Copynumber: 3.6 Consensus size: 45
33937055 AAGCTAACGC
* * * * *
33937065 CATGTCCCAGAC-TGGTCTTACACTAGCTTGTATATCGCAAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGC-TCT-CATC-TAATGCTGATG
*
33937113 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGCTGATG
* * *
33937159 CATGTCCC-GAACATGTCTTACATTGGCTCTCATACT-GTGGCTGATG
1 CATGTCCCAG-ACATGTCTTACACTAGCTCTCAT-CTAAT-GCTGATG
* * *
33937205 CATGCCCCAGACATGTCTAATACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
33937232 ACACATATCA
Statistics
Matches: 98, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 2 0.02
46 65 0.66
47 5 0.05
48 25 0.26
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGCTGATG
Found at i:33950743 original size:53 final size:53
Alignment explanation
Indices: 33950663--33950766 Score: 181
Period size: 53 Copynumber: 2.0 Consensus size: 53
33950653 TTCCACTCTT
* *
33950663 ATTTTTACAAACTCCATTGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
*
33950716 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTTAATACATTTGG
1 ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGG
33950767 ACAGACATCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (53 bp):
ATTTTTACAAAATCCATCGTGATGTATCTGCTTAACCCTCAATACATTTGGGC
Found at i:33952296 original size:31 final size:31
Alignment explanation
Indices: 33952255--33952333 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
33952245 TTTAACGGTT
*
33952255 ACTGTGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
33952286 ACTGGGCCGAAGCCTTTTCATAAATCATGTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
33952317 ATTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
33952334 ACTGTAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:33952408 original size:42 final size:42
Alignment explanation
Indices: 33952361--33952448 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 42
33952351 CCTTAGGCCT
* ** * *
33952361 ATTTCAATATCACATGTAATGTCAATGGATGTATGTAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
33952403 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
1 ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
33952445 ATTT
1 ATTT
33952449 GGGGAGACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (42 bp):
ATTTCAATATCACATGAAATACCAATGAATGTATGCAAGCCC
Found at i:33952621 original size:25 final size:25
Alignment explanation
Indices: 33952593--33952688 Score: 133
Period size: 25 Copynumber: 3.8 Consensus size: 25
33952583 CCTCTTTAAT
33952593 AACTGGGGCA-AAGCCCTTCTCGGTA
1 AACTGGGGCATAAGCCCTT-TCGGTA
**
33952618 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCC-TTTCGGTA
33952643 AACTGGGGCATAAGCCCCTTTCGGTA
1 AACTGGGGCATAAG-CCCTTTCGGTA
33952669 AACTGGGGCATAAGCCCTTT
1 AACTGGGGCATAAGCCCTTT
33952689 TGCACTTCCT
Statistics
Matches: 64, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
25 36 0.56
26 25 0.39
27 3 0.05
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (25 bp):
AACTGGGGCATAAGCCCTTTCGGTA
Found at i:33952664 original size:26 final size:25
Alignment explanation
Indices: 33952581--33952685 Score: 108
Period size: 26 Copynumber: 4.2 Consensus size: 25
33952571 CTGGAGGCCT
*
33952581 AGCCTCTTT-AAT-AACTGGGGCAA
1 AGCCCCTTTCAATAAACTGGGGCAA
**
33952604 AG-CCCTTCTCGGTAAACTGGGGCAA
1 AGCCCCTT-TCAATAAACTGGGGCAA
*
33952629 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCCTTTCAATAAACTGGGGCA-A
**
33952655 AGCCCCTTTCGGTAAACTGGGGCATA
1 AGCCCCTTTCAATAAACTGGGGCA-A
33952681 AGCCC
1 AGCCC
33952686 TTTTGCACTT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
22 4 0.06
23 3 0.04
24 1 0.01
25 27 0.40
26 33 0.49
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (25 bp):
AGCCCCTTTCAATAAACTGGGGCAA
Found at i:33952667 original size:51 final size:51
Alignment explanation
Indices: 33952593--33952689 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
33952583 CCTCTTTAAT
33952593 AACTGGGGCAAAGCCCTTCTCGGTAAACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCAAAGCCCTTCTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
33952643 AACTGGGGCATAAGCCCCTT-TCGGTAAACTGGGGCATAAGCCCTTTT
1 AACTGGGGCA-AAG-CCCTTCTCGGTAAACTGGGGCATAAGCCCTTTT
33952690 GCACTTCCTC
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
50 10 0.23
51 19 0.43
52 15 0.34
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.24
Consensus pattern (51 bp):
AACTGGGGCAAAGCCCTTCTCGGTAAACTGGGGCATAAGCCCTTTTCAATA
Found at i:33953583 original size:27 final size:27
Alignment explanation
Indices: 33953492--33953575 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
33953482 GGGCATATTC
* * *
33953492 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCACTTTACCCTACAAGGGCT-TTACG
*
33953519 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
33953546 GTCACTTTACCCTACAAGGGCTTTACG
1 GTCACTTTACCCTACAAGGGCTTTACG
33953573 GTC
1 GTC
33953576 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 47 0.92
28 4 0.08
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAAGGGCTTTACG
Found at i:33953667 original size:27 final size:27
Alignment explanation
Indices: 33953614--33953919 Score: 195
Period size: 27 Copynumber: 11.3 Consensus size: 27
33953604 TTTCATCCTA
* * * *
33953614 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
33953641 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
33953668 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* * * *
33953697 CAAGGGTATTTTTGTAACTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
33953724 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * * *
33953751 TGAGGGTATTTCGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
33953778 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
33953805 C-AGTGGTATTTTAGCAATTTTACAGA-
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* ** *
33953831 CTAGGGTATTTTGGTAATTTTATTGAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *
33953858 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
33953885 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
33953912 CAAGGGTA
1 CAAGGGTA
33953920 AAATAGTAAT
Statistics
Matches: 225, Mismatches: 49, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
26 21 0.09
27 178 0.79
28 13 0.06
29 13 0.06
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:33953926 original size:27 final size:27
Alignment explanation
Indices: 33953871--33954026 Score: 170
Period size: 27 Copynumber: 5.8 Consensus size: 27
33953861 GGGTATTTTG
* * ***
33953871 GTAATTTTGTAAACCAAGGGTATTTTA
1 GTAATTCTGTAAATCAAGGGTAAAATA
*
33953898 GTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
33953925 GTAATTCTGTAAAT-AAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATA
* * **
33953951 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATA
* **
33953978 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATA
* *
33954005 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTA
33954027 CTTTGGTAAT
Statistics
Matches: 117, Mismatches: 11, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 25 0.21
27 92 0.79
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAATTCTGTAAATCAAGGGTAAAATA
Found at i:33953944 original size:107 final size:106
Alignment explanation
Indices: 33953615--33953999 Score: 278
Period size: 107 Copynumber: 3.6 Consensus size: 106
33953605 TTCATCCTAC
* * * * * * *
33953615 AAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATTTC
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTT-
* * *
33953680 CA-TAATTTTTAGAAAGTCAAGGGTATTTTTGTAACTTTGTAAATT
65 TAGTAATTTTT--AAA-TCAAGGGTATTTTAGTAA-TTTGTAAACT
* * ***
33953725 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACC-AGTGGTATTT
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAG-GGTATTT
* * * *
33953789 TGGTAA-TTTTACAAACCAGTGGTATTTTAGCAATTT-TACAGACT
65 TAGTAATTTTTA-AATCAAG-GGTATTTTAGTAATTTGTA-A-ACT
*** *
33953833 -AGGGTATTTTGGTAATTTTATTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTT
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTT
***
33953897 AGTAATTTTGTAAATCAAGGGTAAAATAGTAATTCTGTAAA-T
66 AGTAATTTT-TAAATCAAGGGTATTTTAGTAATT-TGTAAACT
*** * * * *** * * *
33953939 AAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
1 AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTA
33954000 AAACGGTAAT
Statistics
Matches: 214, Mismatches: 49, Indels: 27
0.74 0.17 0.09
Matches are distributed among these distances:
106 3 0.01
107 122 0.57
108 27 0.13
109 9 0.04
110 53 0.25
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.38
Consensus pattern (106 bp):
AAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTGTAAACCAAGGGTATTTT
AGTAATTTTTAAATCAAGGGTATTTTAGTAATTTGTAAACT
Found at i:33953964 original size:53 final size:54
Alignment explanation
Indices: 33953871--33954026 Score: 188
Period size: 53 Copynumber: 2.9 Consensus size: 54
33953861 GGGTATTTTG
* * *** * * * *
33953871 GTAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCAAGGGTAAAATA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
*
33953925 GTAATTCTGTAAAT-AAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
* **
33953978 GTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTA
33954027 CTTTGGTAAT
Statistics
Matches: 88, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 45 0.51
54 43 0.49
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (54 bp):
GTAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACA
Found at i:33956180 original size:44 final size:43
Alignment explanation
Indices: 33956036--33956224 Score: 122
Period size: 44 Copynumber: 4.3 Consensus size: 43
33956026 TCGAATTTGA
* * *
33956036 GGCACTAAGTGTGCGA-AA-AATGAAGTAGCTACGGCTATTAAAAAT
1 GGCACTAAGTGTGCGATAATAAT--A-TAGCTTCGGCTAAT-GAAAT
* * *
33956081 GGCACTGAGTGTGCGAGAAT-ATAATAG-TGATC-GCGGAAT-AAAT
1 GGCACTAAGTGTGCGATAATAAT-ATAGCT--TCGGC-TAATGAAAT
* * * *
33956124 AGCACTATGTGTGCGATACTAATATAAG-TTCGGTTTAATGAAAT
1 GGCACTAAGTGTGCGATAATAATAT-AGCTTCGG-CTAATGAAAT
* *
33956168 GGCACTAAGTGTGCGATAATATTATAGCTTCGGCTAATTAAATT
1 GGCACTAAGTGTGCGATAATAATATAGCTTCGGCTAATGAAA-T
33956212 GGCACTAAGTGTG
1 GGCACTAAGTGTG
33956225 TGAGTTCATT
Statistics
Matches: 115, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
42 2 0.02
43 35 0.30
44 54 0.47
45 20 0.17
46 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (43 bp):
GGCACTAAGTGTGCGATAATAATATAGCTTCGGCTAATGAAAT
Found at i:33968421 original size:20 final size:20
Alignment explanation
Indices: 33968385--33968422 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
33968375 TTTCATTTCA
*
33968385 TTTATTTATTTGTTTATTCT
1 TTTATTTATTTGATTATTCT
33968405 TTTATTTACTTT-ATTATT
1 TTTATTTA-TTTGATTATT
33968423 ATAAATTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.18, C:0.05, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTATTTATTTGATTATTCT
Found at i:33977833 original size:16 final size:16
Alignment explanation
Indices: 33977812--33977876 Score: 52
Period size: 16 Copynumber: 4.4 Consensus size: 16
33977802 ATATCATAAT
33977812 CATTTCTCATATTTTC
1 CATTTCTCATATTTTC
*
33977828 CATTTC-AATATTTTC
1 CATTTCTCATATTTTC
33977843 TCA--TCTCATA--TT-
1 -CATTTCTCATATTTTC
* *
33977855 CATTTATCATATTTGC
1 CATTTCTCATATTTTC
33977871 CATTTC
1 CATTTC
33977877 AATATTAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 14
0.66 0.09 0.25
Matches are distributed among these distances:
11 2 0.05
13 8 0.22
14 2 0.05
15 12 0.32
16 13 0.35
ACGTcount: A:0.23, C:0.23, G:0.02, T:0.52
Consensus pattern (16 bp):
CATTTCTCATATTTTC
Found at i:33977853 original size:15 final size:14
Alignment explanation
Indices: 33977816--33977854 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
33977806 CATAATCATT
33977816 TCTCATATTTTCCA
1 TCTCATATTTTCCA
*
33977830 TTTCAATATTTTCTCA
1 TCTC-ATATTTTC-CA
33977846 TCTCATATT
1 TCTCATATT
33977855 CATTTATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 3 0.14
15 13 0.62
16 5 0.24
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (14 bp):
TCTCATATTTTCCA
Found at i:33977858 original size:43 final size:43
Alignment explanation
Indices: 33977800--33977882 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
33977790 ATCTCATTTA
* *
33977800 TCATATCATAATCATTTCTCATATTTTCCATTTCAATATTTTC
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
* *
33977843 TCATCTCATATTCATTTATCATATTTGCCATTTCAATATT
1 TCATATCATAATCATTTATCATATTTGCCATTTCAATATT
33977883 AATCACATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.01, T:0.51
Consensus pattern (43 bp):
TCATATCATAATCATTTATCATATTTGCCATTTCAATATTTTC
Found at i:33979110 original size:15 final size:15
Alignment explanation
Indices: 33979086--33979121 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
33979076 TTATGTTTTC
*
33979086 ATTA-TATTATCTTT
1 ATTATTATTATCATT
33979100 ATTATTATTATCATT
1 ATTATTATTATCATT
33979115 ATTATTA
1 ATTATTA
33979122 AAGTTACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTATTATTATCATT
Found at i:33982727 original size:39 final size:38
Alignment explanation
Indices: 33982673--33982902 Score: 336
Period size: 39 Copynumber: 5.9 Consensus size: 38
33982663 AACCCAAGTA
* *
33982673 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-ACTAGCAC-AATG
33982712 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAATG
*
33982751 CCTTCGGGACTTAGCCCGGATATATTCACTAGCACAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCACAATG
33982790 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCACAATG
*
33982829 CCTTCGGGACTTAGCCCGGATATATTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATA-GCACTAGCAC-AATG
*
33982869 CCTTCGGGACTTAGCCCGGATATAGTCACAAGCA
1 CCTTCGGGACTTAGCCCGGATATAG-CACTAGCA
33982903 GTTTTGGGTA
Statistics
Matches: 177, Mismatches: 7, Indels: 13
0.90 0.04 0.07
Matches are distributed among these distances:
39 124 0.70
40 52 0.29
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (38 bp):
CCTTCGGGACTTAGCCCGGATATAGCACTAGCACAATG
Found at i:33982802 original size:78 final size:79
Alignment explanation
Indices: 33982673--33982902 Score: 394
Period size: 78 Copynumber: 2.9 Consensus size: 79
33982663 AACCCAAGTA
* * *
33982673 CCTTCGGGATTTAG-CCGGATATA-GCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATATTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
33982736 GTCACTAGCACAATG
65 GTCACTAGCACAATG
33982751 CCTTCGGGACTTAGCCCGGATATATTCACTAGCAC-AATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATATTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
33982815 TCACTAGCACAATG
66 TCACTAGCACAATG
33982829 CCTTCGGGACTTAGCCCGGATATATTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATATTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
33982894 TCACAAGCA
66 TCACTAGCA
33982903 GTTTTGGGTA
Statistics
Matches: 145, Mismatches: 4, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
78 91 0.63
79 53 0.37
80 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATATTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCACTAGCACAATG
Found at i:33986699 original size:40 final size:40
Alignment explanation
Indices: 33986625--33986841 Score: 354
Period size: 40 Copynumber: 5.5 Consensus size: 40
33986615 AACCCAAGTA
* *
33986625 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
33986664 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
33986704 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
33986743 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-AATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
33986782 -CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
33986821 CCTTCGGGACTTAGCCTGGAT
1 CCTTCGGGACTTAGCCCGGAT
33986842 GTCATCCGAA
Statistics
Matches: 169, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
38 34 0.20
39 60 0.36
40 74 0.44
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:33986832 original size:117 final size:118
Alignment explanation
Indices: 33986625--33986841 Score: 359
Period size: 117 Copynumber: 1.8 Consensus size: 118
33986615 AACCCAAGTA
* *
33986625 CCTTCGGGATTTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
33986690 CAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
66 CAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
33986743 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-AATG-CTTCGGGACTTAGCCCGGATATA
1 CCTTCGGGACTTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
* *
33986805 GTCACTAGCACAAATGCCTTCGGGACTTAGCCTGGAT
64 GTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGAT
33986842 GTCATCCGAA
Statistics
Matches: 93, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
117 58 0.62
118 17 0.18
119 17 0.18
120 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.24, T:0.24
Consensus pattern (118 bp):
CCTTCGGGACTTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CAATAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAATG
Found at i:33989029 original size:44 final size:42
Alignment explanation
Indices: 33988962--33989055 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 42
33988952 AGACAGAGTT
33988962 TTACACGAAATCAAATACGATGCCAACGTCCCAGACGTGGTC
1 TTACACGAAATCAAATACGATGCCAACGTCCCAGACGTGGTC
*
33989004 TTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGATGTGGTC
1 TTACACG-AAATCA-AA-TACGATGCCAACGTCCCAGACGTGGTC
33989048 TTACACGA
1 TTACACGA
33989056 TAACACATAT
Statistics
Matches: 48, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
42 7 0.15
43 7 0.15
44 33 0.69
45 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
TTACACGAAATCAAATACGATGCCAACGTCCCAGACGTGGTC
Found at i:33996816 original size:23 final size:24
Alignment explanation
Indices: 33996790--33996834 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
33996780 CTAATTAGGC
33996790 TTACTTCGGATTTGAAT-TTTTGT
1 TTACTTCGGATTTGAATATTTTGT
33996813 TTACTTCGGATTTGAATATTTT
1 TTACTTCGGATTTGAATATTTT
33996835 CAAAGGTCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.20, C:0.09, G:0.16, T:0.56
Consensus pattern (24 bp):
TTACTTCGGATTTGAATATTTTGT
Found at i:33996937 original size:22 final size:22
Alignment explanation
Indices: 33996896--33996944 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
33996886 GACCTTTTGG
* *
33996896 ATTCAGATTATTTCAAGCTCGA
1 ATTCAGATCATTTCAAGCTCAA
**
33996918 ATTCAGATCATTTCGGGCTCAA
1 ATTCAGATCATTTCAAGCTCAA
33996940 ATTCA
1 ATTCA
33996945 TTTAGACGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTCAGATCATTTCAAGCTCAA
Found at i:33997618 original size:17 final size:17
Alignment explanation
Indices: 33997577--33997618 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
33997567 TATTATAATC
*
33997577 TATAATATAATAATATT
1 TATAATATATTAATATT
33997594 TAT--TATATTAATATT
1 TATAATATATTAATATT
*
33997609 TATAAAATAT
1 TATAATATAT
33997619 ATTACTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
15 14 0.67
17 7 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATATATTAATATT
Found at i:34000264 original size:28 final size:28
Alignment explanation
Indices: 34000224--34000280 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
34000214 TGGTGTTTTG
34000224 ATCAGGTAAGCCCATATGATATTTATTT
1 ATCAGGTAAGCCCATATGATATTTATTT
*
34000252 ATCAGGTAAGCCCATATGGTATTTATTT
1 ATCAGGTAAGCCCATATGATATTTATTT
34000280 A
1 A
34000281 CTTAGGTTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (28 bp):
ATCAGGTAAGCCCATATGATATTTATTT
Found at i:34016999 original size:71 final size:71
Alignment explanation
Indices: 34016784--34016999 Score: 182
Period size: 71 Copynumber: 3.1 Consensus size: 71
34016774 TTAATATATG
*
34016784 AATTTGATTCAAACTAAATATTAGTTGTAGATATTTTATCGAAATTGTTGATATAAACAATTATA
1 AATTTGATTCAAACTAAATATTAGTTGTAGATATTTTATCGAAATTGTTAATATAAACAATTATA
34016849 TTAATT
66 TTAATT
* * * * * * * *
34016855 AATTTCAATTTTGAAA-TAAAAGAAATAGAAAT-TA-ATATTGTTTTGGAAA----TAATATAAT
1 AATTT-GA--TTCAAACT-AAA-TATTAG--TTGTAGATATT-TTATCGAAATTGTTAATATAAA
* *
34016913 TAA-TATA-T-ATG
58 CAATTATATTAATT
*
34016924 AATTTGATTCAAACTAAATATTAGTTGTAGATATTTTACCGAAATTGTTAATATAAACAATTATA
1 AATTTGATTCAAACTAAATATTAGTTGTAGATATTTTATCGAAATTGTTAATATAAACAATTATA
34016989 TTAATT
66 TTAATT
34016995 AATTT
1 AATTT
34017000 CAGTTTTGAC
Statistics
Matches: 105, Mismatches: 22, Indels: 36
0.64 0.13 0.22
Matches are distributed among these distances:
63 1 0.01
64 8 0.08
65 9 0.09
66 8 0.08
67 1 0.01
68 11 0.10
69 11 0.10
70 2 0.02
71 16 0.15
72 10 0.10
73 1 0.01
74 8 0.08
75 9 0.09
76 9 0.09
77 1 0.01
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.42
Consensus pattern (71 bp):
AATTTGATTCAAACTAAATATTAGTTGTAGATATTTTATCGAAATTGTTAATATAAACAATTATA
TTAATT
Found at i:34017154 original size:140 final size:141
Alignment explanation
Indices: 34016495--34017191 Score: 736
Period size: 140 Copynumber: 5.1 Consensus size: 141
34016485 GAGAACATAG
* * * * *
34016495 ATATAATT-A-ATATATGATTTTGTTTCATACAATATATTAATTGTCTATATTTTATCA-ATTTT
1 ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAGAATTT
* * *
34016557 ATTAATATAAGA-AATTATATTAATTAATTCTGGTCAAGATATAAAA-AACATGGAAATTAATAT
66 ATTAATATAA-ACAATTATATTAATTAATTCCGGTCAAAATATAAAAGAA-ATAGAAATTAATAT
*
34016620 TCTTTTGGACAA-A
129 TGTTTTGGA-AATA
* * *
34016633 ATATGATTAATATATA--AATTTGATTAATACAAAATATTAATTGTATATATTTTACCA-AATTT
1 ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAGAATTT
* * * *
34016695 ATTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACAT-GAAA--ATTATTA
66 ATTAATATAAACAATTATATTAATTAATTCCGGTCAAAATATAAAAGAAATAGAAATTAATATTG
*
34016757 TTTTGGAAAGA
131 TTTTGGAAATA
* * * * *
34016768 ATATAATT-A-ATATATGAATTTGATTCAAACTAAATATTAGTTGTAGATATTTTATC-GAAATT
1 ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAGAATTT
* * *** ***
34016830 GTTGATATAAACAATTATATTAATTAATTTCAATTTTGAA-ATAAAAGAAATAGAAATTAATATT
66 ATTAATATAAACAATTATATTAATTAA-TTCCGGTCAAAATATAAAAGAAATAGAAATTAATATT
34016894 GTTTTGGAAATA
130 GTTTTGGAAATA
* * * * * *
34016906 ATATAATTAATATATATGAATTTGATTCAAACTAAATATTAGTTGTAGATATTTTA-CCGAAATT
1 ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAGAATTT
* * * **** *
34016970 GTTAATATAAACAATTATATTAATTAATTTCAGTTTTGACATAAAAGAAATAGAAATTAATATTG
66 ATTAATATAAACAATTATATTAATTAATTCCGGTCAAAATATAAAAGAAATAGAAATTAATATTG
*
34017035 GTTTGGAAATA
131 TTTTGGAAATA
34017046 ATATAATTAATATATATGAATTTGAATT-ATACAAAATATTAATTGTATATATTTTA-CAGAATT
1 ATATAATTAATATATATGAATTTG-ATTCATACAAAATATTAATTGTATATATTTTATCAGAATT
* *
34017109 TATTAATATAAA-AAGTTATATTAATTAATTCCGGTCAAAATATAAAAGACATTGAAATT-A-AT
65 TATTAATATAAACAA-TTATATTAATTAATTCCGGTCAAAATATAAAAGAAATAGAAATTAATAT
* * *
34017171 TCTTCTGGAAAGA
129 TGTTTTGGAAATA
34017184 ATATAATT
1 ATATAATT
34017192 CTTCTTTTTC
Statistics
Matches: 479, Mismatches: 62, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
133 5 0.01
134 3 0.01
135 93 0.19
136 9 0.02
137 5 0.01
138 131 0.27
139 14 0.03
140 216 0.45
141 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (141 bp):
ATATAATTAATATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTATCAGAATTT
ATTAATATAAACAATTATATTAATTAATTCCGGTCAAAATATAAAAGAAATAGAAATTAATATTG
TTTTGGAAATA
Found at i:34024686 original size:40 final size:40
Alignment explanation
Indices: 34024631--34025058 Score: 739
Period size: 40 Copynumber: 10.7 Consensus size: 40
34024621 GAGCATTGGA
34024631 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34024671 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34024711 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34024751 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34024791 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34024831 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34024871 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34024911 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34024951 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34024991 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
34025031 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34025059 AGGTGTTTGC
Statistics
Matches: 365, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 365 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:34033779 original size:40 final size:40
Alignment explanation
Indices: 34033684--34033973 Score: 465
Period size: 40 Copynumber: 7.3 Consensus size: 40
34033674 TAAGAAGCTG
*
34033684 CCCGAAGGCAATTATGCGAGTTAATATATCCGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
34033724 -CCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
* * *
34033763 CCCGAAGGCAATTATGCGAGTTAATATGTCCGGGCTATGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
*
34033803 CCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
* * *
34033843 CCCGAAGGCAATTATGCAAGTTGATATGTCCGGGCTATGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
*
34033883 CCCGAAGGCAATTATGCGAGATGATATATCCGGGCTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
* * *
34033923 CCCGAAGGCAATTATGCAAGTTGATATGTCCGGGTTAAGA
1 CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
34033963 CCCGAAGGCAA
1 CCCGAAGGCAA
34033974 AGGGTTTGCG
Statistics
Matches: 229, Mismatches: 20, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
39 38 0.17
40 191 0.83
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
CCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTAAGA
Found at i:34041211 original size:40 final size:40
Alignment explanation
Indices: 34041156--34041583 Score: 739
Period size: 40 Copynumber: 10.7 Consensus size: 40
34041146 GAGCATTGGA
34041156 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34041196 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34041236 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34041276 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34041316 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34041356 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34041396 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34041436 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34041476 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34041516 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
34041556 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34041584 AGGTGTTTGC
Statistics
Matches: 365, Mismatches: 23, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 365 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:34055585 original size:124 final size:125
Alignment explanation
Indices: 34055444--34055694 Score: 362
Period size: 125 Copynumber: 2.0 Consensus size: 125
34055434 CATGAAAATT
* * *
34055444 AATATTCTTTTAGAAAAAAATATAATTAATAGATGAA-TTTGATTAATAAAAAATATTAATTGTA
1 AATATTCTTTTAG-AAAAAATATAACTAATAGAGGAATTTTGATTAATAAAAAATACTAATTGTA
*
34055508 TA-TATTTTACCGAATTTATTAATATAAATAGTTATATTAATCAATTTTGGTCAAAATATA
65 TATTATTTTACCAAATTTATTAATATAAATAGTTATATTAATCAATTTTGGTCAAAATATA
* * * *
34055568 AATATTCTTTTGGAAAAAATATAACTAATATAGGAATTTTGATTCATACAAAATACTAATTGTAT
1 AATATTCTTTTAGAAAAAATATAACTAATAGAGGAATTTTGATTAATAAAAAATACTAATTGTAT
* * * * *
34055633 ATTTTTTTACTAAATTTATTCATATAAATAGTTATATTAATTAATTTTGGTTAAAATATA
66 ATTATTTTACCAAATTTATTAATATAAATAGTTATATTAATCAATTTTGGTCAAAATATA
34055693 AA
1 AA
34055695 AGACATGAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
123 20 0.18
124 38 0.34
125 54 0.48
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (125 bp):
AATATTCTTTTAGAAAAAATATAACTAATAGAGGAATTTTGATTAATAAAAAATACTAATTGTAT
ATTATTTTACCAAATTTATTAATATAAATAGTTATATTAATCAATTTTGGTCAAAATATA
Found at i:34055828 original size:263 final size:264
Alignment explanation
Indices: 34055325--34056011 Score: 871
Period size: 263 Copynumber: 2.5 Consensus size: 264
34055315 GAGAACATAG
*
34055325 ATATAATTAATATATGAATTTGACTCATAAAAATATTAATTGTATATATTTTA-TCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATAAAAATATTAATTGTATATATTTTACT-GAATTTATT
* * *
34055389 AATATAAACAACTATATTAATTAATTTCGGTCAAAATATAAATGGCATGAAAATTAATATTCTTT
65 AATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTT
*
34055454 TAGAAAAAAATATAATTAATAGATGAATTTGATTAATAAAAAATATTAATTGTATATATTTTACC
130 T-GAAAAGAATATAATTAATAGATGAATTTGATTAATAAAAAATATTAATTGTATATATTTTACC
* * *
34055519 GAATTTATTAATATAAATAGTTATATTAATCAATTTTGGTC-AAA-ATAT-A-AATATTCTTTTG
194 GAACTTATTAATATAAACAGTTATATTAATCAATTTTGATCAAAATATATAATAATATTCTTTTG
34055580 GAAAAA
259 GAAAAA
* * * * *
34055586 ATATAACTAATATAGGAATTTTGATTCATACAAAATACTAATTGTATATTTTTTTACTAAATTTA
1 ATATAATTAATATATGAA-TTTGATTCATA-AAAATATTAATTGTATA-TATTTTACTGAATTTA
* * * * * *
34055651 TTCATATAAATAGTTATATTAATTAATTTTGGTTAAAATATAAAAGACATGAAAAATAATATTCT
63 TTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
* * * * *
34055716 TTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATATATTTTAC
128 TTTGAAAAGAATATAATTAATAGATGAATTTGATTAATAAAAAATATTAATTGTATATATTTTAC
* *
34055781 TGAACTTATTAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAATATATGGAAATT
193 CGAACTTATTAATATAAACAGTTATATTAATCAATTTTGATC-------AAAATATAT---AA-T
*
34055846 AATATTCTTTTGGAAATA
247 AATATTCTTTTGGAAAAA
*
34055864 ATATAATTAATATATATGAATTTGATTCATAAAAAATATTAATTGTATATATTTTACCGAATTTA
1 ATATAATT-A-ATATATGAATTTGATTCAT-AAAAATATTAATTGTATATATTTTACTGAATTTA
** * * *
34055929 TTAATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGATATGGAAATTAATATTTT
63 TTAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCT
34055994 TTTGAAAAGAATATAATT
128 TTTGAAAAGAATATAATT
34056012 CATTTTTCTA
Statistics
Matches: 359, Mismatches: 45, Indels: 27
0.83 0.10 0.06
Matches are distributed among these distances:
261 16 0.04
262 10 0.03
263 109 0.30
264 71 0.20
265 1 0.00
271 3 0.01
272 4 0.01
276 1 0.00
278 108 0.30
279 27 0.08
280 9 0.03
ACGTcount: A:0.46, C:0.05, G:0.08, T:0.42
Consensus pattern (264 bp):
ATATAATTAATATATGAATTTGATTCATAAAAATATTAATTGTATATATTTTACTGAATTTATTA
ATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTT
GAAAAGAATATAATTAATAGATGAATTTGATTAATAAAAAATATTAATTGTATATATTTTACCGA
ACTTATTAATATAAACAGTTATATTAATCAATTTTGATCAAAATATATAATAATATTCTTTTGGA
AAAA
Found at i:34055951 original size:140 final size:138
Alignment explanation
Indices: 34055568--34056011 Score: 636
Period size: 140 Copynumber: 3.2 Consensus size: 138
34055558 TCAAAATATA
* * * *
34055568 AATATTCTTTTGGAAAAAATATAACTAATATAGGAATTTTGATTCATACAAAATACTAATTGTAT
1 AATATTCTTTTGGAAAGAATATAATTAATATATGAA-TTTGATTCATACAAAATATTAATTGTAT
* * * * * *
34055633 ATTTTTTTACTAAATTTATTCATATAAATAGTTATATTAATTAATTTTGGTTAAAATATAAAAGA
65 A-TATTTTACTGAATTTATTAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGA
* * *
34055698 CATGAAAAAT
129 TATGGAAATT
*
34055708 AATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAGTTGTATA
1 AATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATA
* *
34055773 TATTTTACTGAACTTATTAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAATATA
66 TATTTTACTGAATTTATTAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGATA
34055838 TGGAAATT
131 TGGAAATT
* *
34055846 AATATTCTTTTGGAAATAATATAATTAATATATATGAATTTGATTCATAAAAAATATTAATTGTA
1 AATATTCTTTTGGAAAGAATATAATT-A-ATATATGAATTTGATTCATACAAAATATTAATTGTA
* * **
34055911 TATATTTTACCGAATTTATTAATATAAACAATTATATTAATTAATTTCAATCAAAATATAAAAGA
64 TATATTTTACTGAATTTATTAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGA
34055976 TATGGAAATT
129 TATGGAAATT
* *
34055986 AATATTTTTTTGAAAAGAATATAATT
1 AATATTCTTTTGGAAAGAATATAATT
34056012 CATTTTTCTA
Statistics
Matches: 274, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
138 87 0.32
139 28 0.10
140 159 0.58
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (138 bp):
AATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATA
TATTTTACTGAATTTATTAATATAAACAGTTATATTAATTAATTTTGATCAAAATATAAAAGATA
TGGAAATT
Found at i:34058089 original size:49 final size:49
Alignment explanation
Indices: 34057868--34058617 Score: 1222
Period size: 49 Copynumber: 15.6 Consensus size: 49
34057858 CCCTTCGGGA
* * * *
34057868 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * *
34057915 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
34057962 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058009 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* *
34058056 CTTATCAGATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058105 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058154 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058201 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058250 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058299 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058346 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058395 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
34058442 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
34058491 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
34058540 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
34058589 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
34058618 TATTCAAATA
Statistics
Matches: 665, Mismatches: 28, Indels: 18
0.94 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 269 0.40
49 395 0.59
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:34058106 original size:96 final size:97
Alignment explanation
Indices: 34057868--34058617 Score: 1223
Period size: 96 Copynumber: 7.8 Consensus size: 97
34057858 CCCTTCGGGA
* * * * * *
34057868 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATA
34057930 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
34057962 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATA
34058024 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
* *
34058056 CTTATCAGATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATAT
* *
34058121 ACACTTTCACATTCATCACATTGGCCATTCGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
34058154 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATAT
* *
34058217 ACACTTTCACATTCATCACATTGGCCATTCGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
*
34058250 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATA
34058314 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
*
34058346 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC-ATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATA
34058410 CACTTTCACATTCATCACATCGGCCATTAGGC
66 CACTTTCACATTCATCACATCGGCCATTAGGC
34058442 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATAT
* *
34058507 ACACTTTCACATTCATCACATTGGCCATTCGGC
65 ACACTTTCACATTCATCACATCGGCCATTAGGC
34058540 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACA-ATATAT
34058605 ACACTTTCACATT
65 ACACTTTCACATT
34058618 TATTCAAATA
Statistics
Matches: 622, Mismatches: 24, Indels: 16
0.94 0.04 0.02
Matches are distributed among these distances:
93 1 0.00
94 90 0.14
96 327 0.53
98 204 0.33
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (97 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACAATATATA
CACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34058175 original size:145 final size:145
Alignment explanation
Indices: 34057868--34058617 Score: 1269
Period size: 145 Copynumber: 5.2 Consensus size: 145
34057858 CCCTTCGGGA
* * * * * * * *
34057868 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
34057931 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
* *
34057994 CATCGGCTATTAGGC
131 CATTGGCCATTAGGC
*
34058009 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAGATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
34058074 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
*
34058139 CATTGGCCATTCGGC
131 CATTGGCCATTAGGC
34058154 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
34058219 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
*
34058284 CATTGGCCATTCGGC
131 CATTGGCCATTAGGC
34058299 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
34058364 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATACACTTTCACATTCATCA
66 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
*
34058427 CATCGGCCATTAGGC
131 CATTGGCCATTAGGC
*
34058442 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
34058507 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
64 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCAT
34058572 CACATTGGCCATTAGGC
129 CACATTGGCCATTAGGC
34058589 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
34058618 TATTCAAATA
Statistics
Matches: 582, Mismatches: 19, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
141 46 0.08
143 90 0.15
145 379 0.65
147 67 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
CATTGGCCATTAGGC
Found at i:34065157 original size:46 final size:46
Alignment explanation
Indices: 34065090--34065211 Score: 190
Period size: 46 Copynumber: 2.7 Consensus size: 46
34065080 CACCCCTAAG
* * *
34065090 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
**
34065136 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
*
34065182 TGAATTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
34065212 TGCTCAACCA
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:34065668 original size:30 final size:30
Alignment explanation
Indices: 34065634--34065693 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
34065624 ATTTAATATG
34065634 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
34065664 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
34065694 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:34066078 original size:33 final size:33
Alignment explanation
Indices: 34066041--34066114 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
34066031 GAATCACTTA
34066041 CTATGGAGCTTGGAAGCTTGAAACAAACCCTAG
1 CTATGGAGCTTGGAAGCTTGAAACAAACCCTAG
34066074 CTATGGAGCTTGGAAGCTTGAAACAAACCCTAG
1 CTATGGAGCTTGGAAGCTTGAAACAAACCCTAG
34066107 CTATGGAG
1 CTATGGAG
34066115 AACCCTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (33 bp):
CTATGGAGCTTGGAAGCTTGAAACAAACCCTAG
Found at i:34073249 original size:5 final size:6
Alignment explanation
Indices: 34073236--34073294 Score: 100
Period size: 6 Copynumber: 9.5 Consensus size: 6
34073226 ATAATTTAAT
34073236 AAATAA AAATAA AAATCTAA AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAATAA AAATAA
34073286 AAATAA AAA
1 AAATAA AAA
34073295 ACATATAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
6 45 0.88
8 6 0.12
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:34073328 original size:9 final size:9
Alignment explanation
Indices: 34073314--34073372 Score: 91
Period size: 9 Copynumber: 6.6 Consensus size: 9
34073304 TTTATACAAA
*
34073314 TAATTCAGT
1 TAATTCGGT
34073323 TAATTCGGT
1 TAATTCGGT
*
34073332 TAATTCGAT
1 TAATTCGGT
*
34073341 TAATTTGGT
1 TAATTCGGT
34073350 TAATTCGGT
1 TAATTCGGT
34073359 TAATTCGGT
1 TAATTCGGT
34073368 TAATT
1 TAATT
34073373 TTATACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.47
Consensus pattern (9 bp):
TAATTCGGT
Found at i:34106527 original size:50 final size:50
Alignment explanation
Indices: 34106461--34106564 Score: 183
Period size: 50 Copynumber: 2.1 Consensus size: 50
34106451 ATCACCTAGG
*
34106461 AAAA-GATATTTCACACATATCCAACTTTCATATTCCTCCATAATCCATC
1 AAAATGATATTTCACACATATCCAACTTTCATATTCCTCAATAATCCATC
*
34106510 AAAATGATGTTTCACACATATCCAACTTTCATATTCCTCAATAATCCATC
1 AAAATGATATTTCACACATATCCAACTTTCATATTCCTCAATAATCCATC
34106560 AAAAT
1 AAAAT
34106565 ACAAGTAACT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 4 0.08
50 48 0.92
ACGTcount: A:0.38, C:0.26, G:0.03, T:0.33
Consensus pattern (50 bp):
AAAATGATATTTCACACATATCCAACTTTCATATTCCTCAATAATCCATC
Found at i:34112621 original size:28 final size:29
Alignment explanation
Indices: 34112589--34112703 Score: 144
Period size: 29 Copynumber: 4.0 Consensus size: 29
34112579 TACCTATATC
* *
34112589 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* **
34112617 TGGCCCATTAGGCCCAAATCACCTGAATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
34112646 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
34112675 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
34112703 T
1 T
34112704 TCATGCTCAC
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
28 26 0.35
29 49 0.65
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:34117140 original size:28 final size:29
Alignment explanation
Indices: 34117108--34117222 Score: 135
Period size: 29 Copynumber: 4.0 Consensus size: 29
34117098 TACCTGTATC
* *
34117108 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* **
34117136 TGGCCCATTAGGCCCAAATCACCTGAATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
34117165 TGGCCTATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
34117194 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
34117222 T
1 T
34117223 TCATGCTCAC
Statistics
Matches: 73, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 26 0.36
29 47 0.64
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:34117205 original size:58 final size:57
Alignment explanation
Indices: 34117099--34117209 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
34117089 AAATTCACAT
* * *
34117099 ACCTGTATCTGGCCCATTAAGCCCAATCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGAATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * * *
34117156 ACCTGAATATGGCCTATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGAATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
34117210 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 20 0.43
58 26 0.57
ACGTcount: A:0.28, C:0.30, G:0.16, T:0.26
Consensus pattern (57 bp):
ACCTGAATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:34119864 original size:93 final size:94
Alignment explanation
Indices: 34119703--34119875 Score: 242
Period size: 93 Copynumber: 1.9 Consensus size: 94
34119693 TATCTCATGT
* *
34119703 TGATGCCATGTCTTAGACATGGTCTGACACTAACTATCATATCGTAGCCGATGCATGTCCCAAAC
1 TGATGCCATGTCCTAGACATGGTCTGACACTAACTATCATATCGTAGCCAATGCATGTCCCAAAC
34119768 ATGTCTGACACTAGCACTCGTCTTGATAC
66 ATGTCTGACACTAGCACTCGTCTTGATAC
* * * * * *
34119797 TGATGCCATGTCCTAGACATGGTCTTACACT-AGTCTCATAAT-GTGGTCAATGCATGTCCCAGA
1 TGATGCCATGTCCTAGACATGGTCTGACACTAACTATCAT-ATCGTAGCCAATGCATGTCCCAAA
*
34119860 CATGTCTTACACTAGC
65 CATGTCTGACACTAGC
34119876 TCAAAATAAC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
93 38 0.55
94 31 0.45
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (94 bp):
TGATGCCATGTCCTAGACATGGTCTGACACTAACTATCATATCGTAGCCAATGCATGTCCCAAAC
ATGTCTGACACTAGCACTCGTCTTGATAC
Found at i:34140600 original size:14 final size:14
Alignment explanation
Indices: 34140581--34140608 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34140571 CTAGGCTCGA
34140581 AAAATGAAATTCTT
1 AAAATGAAATTCTT
34140595 AAAATGAAATTCTT
1 AAAATGAAATTCTT
34140609 GAAGTTTACT
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:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (14 bp):
AAAATGAAATTCTT
Found at i:34143201 original size:4 final size:4
Alignment explanation
Indices: 34143194--34143221 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
34143184 TACATAACAC
34143194 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT
34143222 GGTAATAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:34144363 original size:22 final size:21
Alignment explanation
Indices: 34144337--34144382 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
34144327 CTTCCTTTAT
* *
34144337 AATTATCATATATATTAATTAA
1 AATTATAAAATATATTAA-TAA
*
34144359 AATTATAAAATATCTTAATAA
1 AATTATAAAATATATTAATAA
34144380 AAT
1 AAT
34144383 ATTAATTACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
AATTATAAAATATATTAATAA
Found at i:34146762 original size:25 final size:25
Alignment explanation
Indices: 34146721--34146782 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
34146711 CAGGCCCATT
* *
34146721 TTCACAGCTTGTGTGAGCATTCTGA
1 TTCACAGCTCGTATGAGCATTCTGA
* *
34146746 TTCGCAGCTCGTATGAGCATTTTGA
1 TTCACAGCTCGTATGAGCATTCTGA
34146771 TTCACAGCTCGT
1 TTCACAGCTCGT
34146783 GTGAACATAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (25 bp):
TTCACAGCTCGTATGAGCATTCTGA
Done.